diff --git a/probes/mapping/blast/1_primers.fasta b/probes/mapping/blast/1_primers.fasta
deleted file mode 100644
index cf92a71823f4873ae96e8fd294283fc4348b8eaf..0000000000000000000000000000000000000000
--- a/probes/mapping/blast/1_primers.fasta
+++ /dev/null
@@ -1,13 +0,0 @@
->JBPP0904F_primer
-ACGCTCGCCTTCTTCATTACC
->JBPP0904R_primer
-GTGTCCCGAAGGCTAAGCAC
->JBPPH036P06F_primer
-CCCTTGTTAGTGGGTATGTTGGC
->JBPPH036P06R_primer
-AGTGGCTTGTTGGGTGGTTAG
->JBSC0201F_primer
-CCCTTGTTAGTGGGTATGTTGGC
->JBSC0201R_primer
-AGTGGCTTGTTGGGTGGTTAG
-
diff --git a/probes/mapping/blast/2_sequences.fasta b/probes/mapping/blast/2_sequences.fasta
deleted file mode 100644
index e50f0e88a8d8ae97e13300f94da473854e3a3a25..0000000000000000000000000000000000000000
--- a/probes/mapping/blast/2_sequences.fasta
+++ /dev/null
@@ -1,100 +0,0 @@
->JBPP0904F
-AGCACTTTTCTACACAATTGTGGTTTCATGCGCCCCGAATACTTTAACAGCGATAAAAAAGTGCATTGTTGATGCNCGCT
-GATTTNTGTAAATTTGAAAACTATAGAAAGAACTGAGTTACCTGAATGAAATCTAGACGATTTGATGTACTGTCCATCTC
-CGTGTCCAACTCACTTAAGATCTTCTCCTGCAAGAACATATATTGATTTTAACTACATTTTGCTTCGGAGGAGTTTAAGC
-AGAGCTGCAATTTGTTCAGTGACAAATTCAAGGAACTGGTTAAGCAGGTGGTCGCACTCACGTGTGCAAGAAGTTCATCG
-TGTATGGTGAGCCCAACATCTCCAATTCTGACTACGCTGGCACTAAGCTCGTCTAGTTCTTCATCCTGTTGCCTGCACAG
-ACGATCAAGAAAATACGCTTTCTGAAAGTTATACTTAAAAGCTATAAAAATGACATAGTACCATATCAAATAGATTCAAG
-ATTATGCTACATCCTCTAAATTCTACGTTAATTGAAGTCTTCTCGACATAATTTAAGTGCTGGCAAAACTATACTGCTAA
-TACCTTTAATAACAGGTACTAAAGGGTATTCAATACAGCATACTATTCCATGATAAATGAAGTTAAGTAGACAAACTCAG
-AAAGCTAAAAAGACATGGCAGAATGGTTATGACTATGACATAAAGATCTTAGAGAGGCTGATGATACATATTATCCTCCC
-CTTATAAATAAAATCAAAGGCTAGGATTCCATAGTAAAGATTGAGAAAACATTAAGATGCCTCAGAAAGATAAATGGATA
-GGTGCATGCAAGATTTACAGTGAGATCGGAATAAAAATCAATTGGTAATAAAAATGACAAACAAGGATAGATGCAAAGAA
-ATGGAGGGNAATATTACCCTCATAAGAAGTAATNGTCTATCTGNATNCTGATGATATGAAGTCANCATTNATCNCGGGCA
-TNGTATGCATTGGGATCNCNCCTTNCCNGTNCANAANCNTGGGCAATCTCAACAGGNNCTCGCCGGNATCCCACNNCAGA
-ATTANANGGTACNTGGNCCCCNTTGGACTGGTNNNCCNCC
-
->JBPP0904R
-CANTATGNATTAAAGTTTTGTGAATCATGCTTTCTTNCCATACGAATTCTGTACAAATGATTTGAATTTCTAAAAAAGCN
-ATAAACTAATGTTGAGTTGAATGCATCAAGGAGCTCATTAGATTGCCGATTTGGCTATATAAATGCCCAAATATATACTG
-CACATCGGCCTTTTAATGGATATCAGCACAGGTTTGTGGTCTATTTCAAGCTACTCTCACCCTGGTCTATTCCCATGAAA
-TCATGTGCCATGTTCCTCACTGTCATTCACATTTTTTTTCTTGTTTCGTGAAATGAAAGACACAAACCTATGTCTTTCCA
-TTTATCAAAAGAGGATCAGTTTAGTTTGAATTTTGTGAGTTCAATTGGATTGGGATGGAATTTATCTACGAAAAGCTTAC
-TTTCCAAAATTTTGACAAATCTCATTTTGTATGGGGATTTCCACAGGACCCTTTTCCTTTGTTAAGAGTTATATTTTGTT
-CTCATCTCATGGATAAATGTTTCTTATCTAAAAAGAGAACTTTGAGTTCTTTGCTTTACCTGAAAAACCAACAATTCATA
-TTCGAAAGGTTTAGAATGGCAATCTGGAACTCTTGTAGCAATAACAACTACCATTACAAACCTGAAGGGTAACATGGACT
-TGTTAAGGTTTGATTCAGTTGGGTTTCTTTGCGTTTTTTCTCATTTCTCAGACGAGTTAGTTGTAGAAGACAGGTTGTTC
-ACCTTATTTACTATAGGACTGTTAGCATTTGCACTTCTCCATTAGCTTTTAAGTATTTTAGGTTCAGCCCAGACCAAAAG
-TGTTCACTTTGAACAAACATAAAGGCACATTTATGCTTAGCGTTATATATCAACAAGCAAAATACTCCTAACTCTTTTCT
-GACGGGAGTCCGGGGACAATTTTGGAGTTTTNGCACTNGATATTNGTAATGCCTTCCTACTGGAGATAATATCATTGGGN
-CATGTATAGGAGTATNATNNNNCTGGGAATCACCCTTCNGGGTAATNNNCATATTNNCTCGGNAAAANCCCCTTNTNGGC
-TAAAGN
-
->JBPPH036P06F
-CAACCTATCCTTTCTGGCTTGGTGCTTTCTCCTGCCCCCAGTCTATTGTGTGCTTTTATTGCAGTTGCAAGATATGCANC
-CTGCCACTCCNATGCCACCATCCATACTCAGCCGTGGCGTAGGTTGGCAGGTAAACAGATGCTGCCCCCCTGTAAACTCC
-CCTCCCTAGCCCAACTTTCTAATACAATGACTTGAAAGGGAAAACGCAAACTTANNCGTTATGTTATGGAATTCGAACGC
-AGAATCAAATACATAGGGTGGTTTGAAAGGNTTATATGGAGAGTCATGACATTGTTNNCAGTCTGCCCAGATNAGCCTTT
-GCCANCAGAAGATTCCTNCAGCTCATACCCCAAAAGTTCTTCAGCTAGTACCCCAAGTCGGGCACATACATGGCNCTGGA
-AATATTNANTTAGGGGACGTGGNNGGNGGTGGANGANAAGGGCNCGTNNACCNGGNCGANGANCNGAAGAANANCAACAA
-AGNNCAANTAACTCANGACCAGACCGCCTCTTCAAAAATGAAAATGTCGGACNGGTATCAAGCTGNNGNAAAATANTGCT
-ANACCCACCNNCCATGTGGGTGAACAGGNCCGCAACNAGCAAGCACNGTGNGGCANTGGAAATACNGCGGNCGGATAAGC
-CCANCANCANGNAAGAACCTACTGTATCTGGGTAACGGAAGCTATAAANCTNGCCAACNGAAAAAGATGGTAAGCCNCCA
-GCCCCNNAAANNACAAAGANACCCTCTACCACACAAAANNCCCGCGNTAACAGTGNANNCCCCNTTTAGGCGANNAANNA
-ACGTTNNNCGGNGGNNCCTNCCCAGNGNNTTTANGAANCNNCACCCAGGGNTAAAACGAAANAANNCNCCCCAAAANANG
-NGGGGGCANNNCCACNNGGGTCCCAGGGNAATCNGNGGNTCNAANANACNNGGCCCCCCATNGNNNCCCCCCCGGNANAA
-AGAAAAACNAANCCCCCCNNCCCNNANANNNCCCCNCAANTATGGCAANGCNNAANGGCAACCCCNGAGNGGGNGGNNAA
-TNAAANGNTTNNNCCNCGGNNNAAAGANAAAAAAAANAACNGGNNGGGCNNGCCCATNCNGGGCACNTNCCGNNNNGCGC
-CAACGNGACACCANATTTTNGCCAAAGGNGCACCTCNCCNCNAAANNGCGGNCCTNAATNACAACCCGCGCGCGNNNNGG
-GGNTCAGCGGCACAACAANAAAAANATTNTCNNNCNNGGGGGGGACAAACNCCCCCGTTGGTGTGTTATAAA
-
->JBPPH036P06R
-NANTGACGACTAGGAACNCCAAAGGTTGCTATATTGCCCCTCAAATCTTTATATCCATGAATTTACAACAGAAAAATAAN
-CCACTAAGTANTCTTCAAAATGGTCAGACTAGTTATACTTTCCTTTCTTTTGCATACATATAAAAGAAAATATGTGTAGC
-AGAAGTGAGGCCCCAATGAAGAATTCATTGACAAGGGGTTTTATCGTGTATGAACCGTTTTGTTTTGTTCCTCAATATGA
-TCTCATACTGACGGGAAATACTTGTTGAGATTGAACGGAAGAGAGTAGAATTCCTCACTTCTTGTGTCACTCTTGAAGGA
-CCGGAACTTGTTCCACCACGGCTTGCCTCTGTCTTTCTTTGTCGAACTCTCCTTTTTGTGCATTGTATTGTCCAGGAAAT
-AAGCCAATATGCCAGCAACAAAAGCTTCTGATGAGAAGGGCACGTTCACCATGTCGTTGAACTGAAGAATAACAACAAAG
-CACAAGTAACTCTTTTCAGCCACCTCTCAAAAATGAAAATGTTAGACATGTATTAAGCTAGTGTTAATTATTGCTATACC
-CATCGTCCATGTGTGTGAACAGGTCCGTAACCAGCAATCACAGTGTATTCATTGAAGTACTGCGGTACTGATAAACCCAA
-AAAGATTGAAAAACCTAATATAAACTTGTTACGGAAACTATTAAGATTGCAGAACTGAAGAAAGCTTAAGCCTCCAACCC
-CTACAAACAAAGAGAACAAGTAATCACTAACTCCTCATAACGTGANCCACATATTGGTAATGATCATCACACAGGGGNTN
-CCCCTNGGNNTATTTACGTACCCNACATAAGCNAAGAATAGGCNATAGAGAGCGNCCTACNAANGGGGNGCTGGGAANTC
-NAAGCCAAAGANGGCNCCCAAANTTTTNCCTGGAAAAANAAAANAAAAGNNGCCTNCNAGNANAAANTAACCNTGCCNAN
-AAAAANGGAGCCTGGGGGGGGGGGNCGANAANTNTNCNGCCGAAAAAACCCAANAAAAAANNGTGNCCCCCCCCAAAATA
-ANCTTGGGNCNGGNNNAAAATTNCCCCCNGNANNNGGNNNNNGNAAAANNCCTNNNCCCCCCCNCCGGGNTTTTNTGGNA
-NCAAAACNCNNTNCNNGNCNGGGCCAANNCCCNNGGGTTNNNGGGGNNAAAAAAAAACCNNN
-
->JBSC0201F
-NCAACTAANCTTCTGGCTTGGTGCTTCTCCTGCCCCAGTCTATTNGTTGCTTTTATTGCAGTTGCAAGATATGCAACGTG
-CCACTCCNATGCCACCATCCATACTCAGCCGTGGCGTAGGTTGGCAGGTAAACAGATGCTGCCCCCCTGTAAACTCCCCT
-CCCTAGCCCAACTTTCTAATACAATGACTTGAAAGGGAAAACGCAAACTTTTTTGTTATTTTATTGAATTTGAACGCAGA
-ATCAAATACATAGGGTGGTTTGAAAGGTTTATATGGAGAGTCATGACATTGTTTTCAGTCTTCCCAGATTAGCCTTTTCC
-ACCAGAAGATTTCTTCAGCTCATACCCCAAAAGTTCTTCAGCTAGTACCCCAAGTCTGTCACATACATGCCTCTGTTTTT
-ATTTATTTAGGGGAGGTGGGTGGGGGTGGGGTGTATATGGGCATATATGGAAAGANAANNAATNNGGAATNCTCAGNNNG
-ATNCANNAGAAGAATGATNGTNCTNGCACNNCCTCATNCCGGNCTGNNACCAANATGNTCCANNATNATNATCATATGAN
-GAANCNNNNNGNTGNATNNANNNNCCAAANNNNNGNNATGTNANGGAANNGGNATNNNANNGNNNNGNNNGNNCGGNNNN
-GNGAANGGATNNNNNGNNTNNGNGNNNNNNNNNGNNANANNNNNNNNNNNNNNNNANGANGGNNNANANNNNNNNNNNNN
-NANANNNNNNNNNNNNNNNNNNNNNGNNNNNNNNNNGNNNGNNNNNNNNNNNNNNNNANNNNNNGNNNNNNGNNNANNNN
-NNNNNANNNNNNNNNNNGNNNNNANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGNNNNNNNNNNNNN
-NNNNNNNNNNGNNNNNNNNNNNNNNANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
-NNNNNNNNNNNNNNNNANNNNNNNNNNGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
-NNNNNNNNNNNNNNNNNNNNNGGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
-
->JBSC0201R
-ANTGACGACTAGGAANCCAAAGTTGCTATATTGCCCCTCAAATCTTCATATCCATGAATTTACAACAGAAAAATAATCTA
-CTAAGTANCTTCAAAATGGTCAGACTAGTTATACTTTCCTTTCTTTTGCATACATATAAAAGAAAATATGTGTAGCAGAA
-GTGAGGCCCCAATGAAGAATTCATTGACAAGGGGTTTTATCGTGTATGAACCGTTTTGTTTTGTTCCTCAATATGATCTC
-ATACTGACGGGAAATACTTGTTGAGATTGAACGGAAGAGAGTAGAATTCCTCACTTCTTGTGTCACTCTTGAAGGACCGG
-AACTTGTTCCACCACGGCTTGCCTCTGTCTTTCTTTGTCGAACTCTCCTTTTTGTGCATTGTATTGTCCAGGAAATAAGC
-CAATATGCCAGCAACAAAAGCTTCTGATGAGAAGGGCACGTTCACCATGTCGTTGAACTGAAGAATAACAACAAAGCACA
-AGTAACTCTTTTCAGCCACCTCTCAAAAATGAAAATGTTAGACATGTATTAAGCTAGTGTTAATTATTGCTATACCCATC
-GTCCATGTGTGTGAACAGGTCCGTAACCAGCAATCACAGTGTATTCATTGAAGTACTGCGGTACTGATAAACCCAAAAAG
-ATTGAAAAACCTAATATAAACTTGTTACGGAAACTATTAAGATTGCAGAACTGAAGAAAGCTTAAGCCTCCAACCCCTAC
-AAACAAAGAGAACAAGTAANCACTAACTCCTCATAACGTGAACCACATATNGGNAATGATCATCACNCAGGGGCTNCCCC
-TNGTNTATNNACGTNCCCTACCNTANNCNANNGAATAGGCNANNNNAGAGGCGCCCTACCNNNGGGGTGGNNGGGNNTCN
-NANNNNNANNACGGGNNCCCNANNNNNNCCTGGNAANANNAANNAAANGGGCNNTNNNNNATNANNNAACCNNGNCNNNN
-NNANNNNNNNNGGGGNGNGGGGGGNNANNNNNNNNNNNNGNNNNNNNNNNNNAAANNNNNGNNNCNNNCNNNNNNNNNNN
-NNNGNNNCNGGGGGNNNNNNCCCCNNNGGNNNNNGGNNNNNNNNNNNNNCNNNNNNCCCCNNNGCNNGGNNNNNNNNGNN
-NNCNNNNNNNCNNNNNNNNNNNGNNCNNNNNNNNNNNGNNN
-
diff --git a/probes/mapping/blast/JBPP0904_Product.fasta b/probes/mapping/blast/JBPP0904_Product.fasta
deleted file mode 100644
index e776c0645602c0bd141e2bd77a9ad743feae65ec..0000000000000000000000000000000000000000
--- a/probes/mapping/blast/JBPP0904_Product.fasta
+++ /dev/null
@@ -1,61 +0,0 @@
->S_lycopersicum_chromosomes.fa_SL2.40ch12_62702453_62706035_JBPP0904_Product
-ACGCTCGCCTTCTTCATTACCATGCCAATCTTTTTCTACAACAAATTGTGGTTTCCATGC
-GATAAGAATACAATAACAGCGATAAAAAAGTGCATTGTTGATGCGGCTGATTTAGTAAAT
-TTGAAAACTATAGAAAGAACTGAGTTACCTGAATGAAATCTAGACGATTTGATGTACTGT
-CCATCTCCGTGTCCAACTCACTTAAGATCTTCTCCTGCAAGAACATATATTGATTTTAAC
-TACATTTTGCTTCGGAGGAGTTTAAGCAGAGCTGCAATTTGTTCAGTGACAAATTCAAGG
-AACTGGTTAAGCAGGTGGTCGCACTCACGTGTGCAAGAAGTTCATCGTGTATGGTGAGCC
-CAACATCTCCAATTCTGACTACGCTGGCACTAAGCTCGTCTAGTTCTTCATCCTGTTGCC
-TGCACAGACGATCAAGAAAATACGCTTTCTGAAAGTTATACTTAAAAGCTATAAAAATGA
-CATAGTACCATATCAAATAGATTCAAGATTATGCTACATCCTCTAAATTCTACGTTAATT
-GAAGTCTTCTCGACATAATTTAAGTGCTGGCAAAACTATACTGCTAATACCTTTAATAAC
-AGGTACTAAAGGGTATTCAATACAGCATACTATTCCATGATAAATGAAGTTAAGTAGACA
-AACTCAGAAAGCTAAAAAGACATGGCAGAATGGTTATGACTATGACATAAAGATCTTAGA
-GAGGCTGATGATACATATTATCCTCCCCTTATAAATAAAATCAAAGGCTAGGATTCCATA
-GTAAAGATTGAGAAAACATTAAGATGCCTCAGAAAGATAAATGGATAGGTGCATGCAAGA
-TTTACAGTGAGATCGGAATAAAAATCAATTGGTAATAAAAATGACAAACAAGGATAGATG
-CAAAGAAATGGAGGGAATATTACCTCATAAGAAGTAATTGTCTATCTGATTCTGATGATA
-TGAAGTCATCATTATCTCGGGCATTGTATGCATTGGATCTCTCTTTCTGTTCAGAATCTG
-GCAATCTCAACAGTTCTCGCCGCATCCCACTCAGATTAGATGTACTTGTCCCATTTGACT
-GTTTTCCAGCTACTACAGCTTTCTTCATGCTTCCCACCTGGTTAAAGGCAATTTGAAATC
-GTTTATTTATTTTCAGGAACCAAGAAACAAAAGAATAGATATTTGGCATCAACAGAATCA
-GTTATACTTGAGCACGGGCATTGCTGGTCCATCTTCTTCTCTTATCAAGCTCAATATCAT
-TAATACCATACCAAGAAGGATCTCTTGCTGCAACATCAATTGTTTTGTCCAATTCATCCA
-CCTTCTCATCAAGAAAACAGGAATTCAGCATTGATAAGGATATGAAGCAAGTCATAGCAG
-CAGTAGATCAATATCAAATCACACTGACAGAAGAACAACTCTGGTTATGTTGCTATTGTT
-CACTGAAAGAAGAACATCTTTCCCTAAGTACTAAAGTCGACAGATTGGACAGCACAAATT
-CATAGACTGAACTTAAGACAGGTGCAACACATCAAACATGCAATTGTCTCTGGCTATTCA
-AAATTGTCGTAATTCATTCACGTAAAGTACAGGCAATCAGGAAGAAATATAATGAGAATT
-TAACAGACCAAACAGTGATAAGTATCAATTAACCAAGTTTCAAGGAGCTACGTTTCCGCA
-CATACCTGCCACTCAATGCTCTCAGATGAAGCAAGAAGTTCTTTGGTAAGATGTACTTGC
-TCACTACTTCCGGCAGAAGTTTGCTCCCATTGATGAAACGTGGACAAGAGCTTGTCAATC
-TAACCAAGCAGGAATTTCAAGAGTTAGATTAAGTAGTCAACAAACTTGATCACATATGAG
-ATCCAACAGATTCTACCAGCAAGGAGAGTCTTAGCTTATTTTTTCTTAATAGTAAAAGAG
-ATGAAATTTCTTAGTTTGTTCAGCTTGTTTTTTTATTTTTTCTATGAAAATAGACAATAG
-CCACAAGAAAATCATAGCTTTCTTACCTGTTAGCTGTTACTGGAGTACTTGATTTTTAAA
-CCTTAGTCTCGAAGAATTATACTTTATCTCATAGAAACATTACTCACCCCCTTCCCAGAA
-TGTCGAGAGAGATGGAGATAGATACATGACAGGAAACACCACCAACCCTTCATGAATCTA
-TCTCCCATGCAAGAATAAGAACAACACACTAATAAAAAAAAACAAATCTCAGACGAATAA
-GATTTACTTCACTTCAAGATTATTAGAACATAACTAGATCGAAGTAGATGAACTTACAGA
-TTCTTGAATTTCCTCCTTGACAATATAGAAAGGATCTTGAGCTGAAGACATCTTCAACAC
-CAACTGTAGAACATTTAAGTGGACACATCAGATAATTAAATAACATATATAATACATATA
-AAAAGCATCAGGAGAAAGATGATCGAGAACTATATCTTATACCCAGACATTGCAAAGTAG
-TACATCTCAAAATGCCTTTTCCGTAAAGTGTATTATGACAGAGAGATACAGTGGCACTTT
-AGCAAGAAGGGCTTTTCCGAGAAAATATGAAAATTACCAGAAGGATGAATTCCAAGAAAA
-ATAATACTCCTATACATGACCAAATGATAATTATCTCCAGTAGGAAGGCATTACAAATAT
-CAAGTGCAAAAACTCAAAATTGTCCCCGGACTCCCGTCAGAAAAGAGTTAGGAGTATTTT
-GCTTGTTGATATATAACGCTAAGCATAAATGTGCCTTTATGTTTGTTCAAAGTGAACACT
-TTTGGTCTGGGCTGAACCTAAAATACTTAAAAGCTAATGGAGAAGTGCAAATGCTAACAG
-TCCTATAGTAAATAAGGTGAACAACCTGTCTTCTACAACTAACTCGTCTGAGAAATGAGA
-AAAAACGCAAAGAAACCCAACTGAATCAAACCTTAACAAGTCCATGTTACCCTTCAGGTT
-TGTAATGGTAGTTGTTATTGCTACAAGAGTTCCAGATTGCCATTCTAAACCTTTCGAATA
-TGAATTGTTGGTTTTTCAGGTAAAGCAAAGAACTCAAAGTTCTCTTTTTAGATAAGAAAC
-ATTTATCCATGAGATGAGAACAAAATATAACTCTTAACAAAGGAAAAGGGTCCTGTGGAA
-ATCCCCATACAAAATGAGATTTGTCAAAATTTTGGAAAGTAAGCTTTTCGTAGATAAATT
-CCATCCCAATCCAATTGAACTCACAAAATTCAAACTAAACTGATCCTCTTTTGATAAATG
-GAAAGACATAGGTTTGTGTCTTTCATTTCACGAAACAAGAAAAAAAATGTGAATGACAGT
-GAGGAACATGGCACATGATTTCATGGGAATAGACCAGGGTGAGAGTAGCTTGAAATAGAC
-CACAAACCTGTGCTGATATCCATTAAAAGGCCGATGTGCAGTATATATTTGGGCATTTAT
-ATAGCCAAATCGGCAATCTAATGAGCTCCTTGATGCATTCAACTCAACATTAGTTTATTG
-CTTTTTTAGAAATTCAAATCATTTGTACATGGTTCGTATCCAAGAAAGCATGATTCACAA
-AACTTTTAATTGACATTACTGAAGTGCTTAGCCTTCGGGACAC
diff --git a/probes/mapping/blast/JBSC0201_Product.fasta b/probes/mapping/blast/JBSC0201_Product.fasta
deleted file mode 100644
index 61b15f1744468ef391ec99918be091b4ade1d5de..0000000000000000000000000000000000000000
--- a/probes/mapping/blast/JBSC0201_Product.fasta
+++ /dev/null
@@ -1,33 +0,0 @@
->S_lycopersicum_chromosomes.fa_SL2.40ch12_16714760_16716664_JBSC0201_Product
-CCCTTGTTAGTGGGTATGTTGGCCAAATCTAATCTCTTTCTTGCTTGTGCTTTCTCCTGT
-TTCAGTCTACTGGTGCTTTTATTGCAGTTGCAAGATATGCAAGTGCCACTCCCATGCCAC
-CATCCATACTCAGCCGTGGCGTAGGTTGGCAGGTAAACAGATGCTGCCCCCCTGTAAACT
-CCCCTCCCTAGCCCAACTTTCTAATACAATGACTTGAAAGGGAAAACGCAAACTTTTTTG
-TTATTTTATTGAATTTGAACGCAGAATCAAATACATAGGGTGGTTTGAAAGGTTTATATG
-GAGAGTCATGACATTGTTTTCAGTCTTCCCAGATTAGCCTTTTCCACCAGAAGATTTCTT
-CAGCTCATACCCCAAAAGTTCTTCAGCTAGTACCCCAAGTCTGTCACATACATGCCTCTG
-TTTTTATTTATTTAGGGGAGGTGGGTGGGGGTGGGGTGTATATGGGCATATATGGAAAGA
-CAATTAATTTGGAATTCTCAGTTTGATTCACGAGAAGAATGATTGTTCTTGCACTTCCTC
-ATTCCGGTCTGTTACCAACATGCTCCATTATTATCATCATATGACGAACCTTTTTGCTGT
-ATTTACTTTCCAAATTCTTGTTATGTCAGGGAATTGGCATTTTACTGTCGGGTTTGTTCG
-GCACCGGGAATGGATCTTCTGTATCTGTGTAAGTACAGGCGAAATCTTCTTCAGCACAAT
-AGGATGGTAGAAATTAGTTATCTAAGACGAATTAACTCTCTTCATACACATGCAGTGAAA
-ATGCTGGTCTTTTAGCACTAACACGTGTTGGCAGCCGAAGAGTTGTTCAGATATCAGCAG
-GGTTTATGATTTTCTTTTCAATTCTTGGTAATTTTCCTGTCCAAGTATTTTGTTGAGTAA
-ATTTTCTTGATTTTCGCTGATATTTTATCCCTCCCCAGCTCCTCTTTTGCATGTTATTTA
-TCTAAATGCACTTTGTTTCTTTTCAGGAAAATTTGGTGCCGTCTTTGCTTCGATTCCAGC
-ACCCATTGTAGGCGCTCTCTATTGCCTATTCTTTGCTTATGTAGGTACGTAAATATACAA
-GGGAAGCCCTGTGTGATGATCATTACCAATATGTGGTTCACGTTATGAGGAGTTAGTGAT
-TACTTGTTCTCTTTGTTTGTAGGGGTTGGAGGCTTAAGCTTTCTTCAGTTCTGCAATCTT
-AATAGTTTCCGTAACAAGTTTATATTAGGTTTTTCAATCTTTTTGGGTTTATCAGTACCG
-CAGTACTTCAATGAATACACTGTGATTGCTGGTTACGGACCTGTTCACACACATGGACGA
-TGGGTATAGCAATAATTAACACTAGCTTAATACATGTCTAACATTTTCATTTTTGAGAGG
-TGGCTGAAAAGAGTTACTTGTGCTTTGTTGTTATTCTTCAGTTCAACGACATGGTGAACG
-TGCCCTTCTCATCAGAAGCTTTTGTTGCTGGCATATTGGCTTATTTCCTGGACAATACAA
-TGCACAAAAAGGAGAGTTCGACAAAGAAAGACAGAGGCAAGCCGTGGTGGAACAAGTTCC
-GGTCCTTCAAGAGTGACACAAGAAGTGAGGAATTCTACTCTCTTCCGTTCAATCTCAACA
-AGTATTTCCCGTCAGTATGAGATCATATTGAGGAACAAAACAAAACGGTTCATACACGAT
-AAAACCCCTTGTCAATGAATTCTTCATTGGGGCCTCACTTCTGCTACACATATTTTCTTT
-TATATGTATGCAAAAGAAAGGAAAGTATAACTAGTCTGACCATTTTGAAGTTACTTAGTA
-AATTATTTTTCTGTTGTAAATTCATGGATATGTGGATTTGAGTAGCAATATAGCAACTTT
-GGTGTTTCCTAGTCGTTGCAAAATCTAACCACCCAACAAGCCACT
diff --git a/probes/mapping/blast/blast2align.pl b/probes/mapping/blast/blast2align.pl
deleted file mode 100755
index 2b740789bd852783a44fbb9c293fe418f439fc83..0000000000000000000000000000000000000000
--- a/probes/mapping/blast/blast2align.pl
+++ /dev/null
@@ -1,236 +0,0 @@
-#!/usr/bin/perl -w
-use strict;
-
-
-my $inFile = $ARGV[0];
-die if ! defined $inFile;
-die if ! -f      $inFile;
-
-my %res;
-
-&readFile($inFile);
-&printRes();
-
-sub printRes() {
-    my $matrix = &getSubMatrix();
-    #$res{$lastQuery}{seq  } = \@seq;
-    open COV, ">$inFile.cov" or die;
-    my $totalScore = 0;
-
-    foreach my $qry ( sort keys %res ) {
-        my $data   = $res{$qry};
-        my $start  = $data->{start};
-        my $end    = $data->{end  };
-        my $len    = $end - $start + 1;
-        my $seq    = $data->{seq  };
-        my $seqLen = scalar @$seq;
-
-        print "query $qry\n";
-        print "  START $start END $end LEN $len SEQLEN $seqLen\n";
-        my $title = "$qry $start ";
-        my $ref;
-        my $cov;
-
-        for ( my $p = 0 ; $p < $seqLen; $p++ ) {
-            my $nuc = $seq->[$p];
-            #print "NUC $nuc\n";
-
-            if ( ! defined $nuc ) {
-                $ref .= "-";
-                $cov .= "0";
-                print COV ($p+1), "\t0\n";
-            } else {
-                my $refNuc  = uc(substr($nuc, 0, 1));
-                my $covNum  = length($nuc ) -1;
-                my $covLen  = length($nuc );
-                   $ref    .= $refNuc;
-                my $score   = 0;
-                my $lMatrix = $matrix->{$refNuc};
-
-                for ( my $n = 1 ; $n < $covLen ; $n++ ) {
-                    my $lNuc   = uc(substr($nuc, $n, 1));
-                    my $lScore = $lMatrix->{$lNuc};
-                    $score += $lScore;
-                    #print "  FROM $nuc COMPARING $refNuc WITH $lNuc SCORE $lScore ( $score - $n - $covNum )\n";
-                    #if ( $nuc eq $refNuc ) {
-                    #    $score += 1;
-                    #}
-                    #elsif ( $nuc eq "-" ) {
-                    #    $score += 0;
-                    #}
-                    #else {
-                    #    $score += -0.5;
-                    #}
-                }
-
-                $cov        .= $score . ",";
-                $totalScore += $score;
-                print COV ($p+1),"\t",$score,"\n";
-            }
-        }
-
-        print "$title TOTAL SCORE $totalScore\n";
-        if ( 0 ) {
-            my @ref = split(//, $ref);
-            my @cov = split(/,/, $cov);
-            #my $ref   = $title;
-            #my $cov   = " "x(length($title));
-
-            for ( my $q = 0; $q < @ref; $q+=30 ) {
-                my $r = $q + 30;
-                if ( $r > @ref ) {
-                    $r = @ref - 1;
-                }
-                my $rf = "";
-                my $co = "";
-                for ( my $s = $q; $s < $r; $s++ ) {
-                    $rf .= sprintf("%4s ", $ref[$s] );
-                    $co .= sprintf("%4s ", $cov[$s] );
-                }
-                print "$rf\n$co\n";
-            }
-        }
-    }
-    close COV;
-}
-
-
-#sub getSubMatrix {
-#    #http://guinevere.otago.ac.nz/aef/MLRGD/usersguide/node18.html
-#    # T C A G
-#    my @matrix = 
-#    (
-#    ( -1, .6, .2, .2 ),
-#    ( .6, -1, .2, .2 ),
-#    ( .2, .2, -1, .6 ),
-#    ( .2, .2, .6, -1 )
-#    );
-#    #          extend open
-#    my @gap = ( -1,   -3);
-#}
-sub getSubMatrix {
-    #http://guinevere.otago.ac.nz/aef/MLRGD/usersguide/node18.html
-    # T C A G
-    my %matrix = 
-    ( A   => { A =>  1.0, C => -1.0, G =>  0.5, T=> -1.0, '-' => -2.0 },
-      C   => { A => -1.0, C =>  1.0, G => -1.0, T=>  0.5, '-' => -2.0 },
-      G   => { A =>  0.5, C => -1.0, G =>  1.0, T=> -1.0, '-' => -2.0 },
-      T   => { A => -1.0, C =>  0.5, G => -1.0, T=>  1.0, '-' => -2.0 },
-      '-' => { A => -2.0, C => -2.0, G => -2.0, T=> -2.0, '-' =>  1.0 },
-    );
-    return \%matrix;
-}
-
-sub readFile {
-    #Query= S_lycopersicum_chromosomes.fa_SL2.40ch12_62702453_62706035_JBPP
-    #0904_Product
-    #         (3583 letters)
-
-    #Database: tomato
-    #           13 sequences; 781,666,411 total letters
-
-    #Searching..................................................done
-
-
-
-    #                                                                 Score    E
-    #Sequences producing significant alignments:                      (bits) Value
-
-    #SL2.40ch12                                                           6747   0.0
-
-    #1_0 1        acgctcgccttcttcattaccatgccaatctttttctacaacaaattgtggtttccatgc 60
-    #12  62702453 acgctcgccttcttcattaccatgccaatctttttctacaacaaattgtggtttccatgc 62702512
-
-    #1_0 61       gataagaatacaataacagcgataaaaaagtgcattgttgatgcggctgatttagtaaat 120
-    #12  62702513 gataagaatacaataacagcgataaaaaagtgcattgttgatgcggctgatttagtaaat 62702572
-
-
-    my $infile = shift;
-
-    open IN, "<$infile" or die;
-
-    my $lastQuery = "";
-
-    while (my $l = <IN>) {
-        chomp $l;
-        #print "L $l\n";
-
-        if ( $l =~ /^Query= (.+)/ ) {
-            $lastQuery = $1;
-            print "QUERY $lastQuery\n";
-
-            while ( my $m = <IN> ) {
-                chomp $m;
-                #print "M: $m\n";
-                if ( $m =~ /\((\d+) letters\)/ ) {
-                    print "SIZE $1\n";
-                    $res{$lastQuery}{size} = $1;
-                    last;
-                } 
-                elsif ($m =~ /Length\=(\d+)$/ ) {
-                    #Length=1089
-                    print "SIZE $1\n";
-                    $res{$lastQuery}{size} = $1;
-                    last;
-                }
-                $lastQuery .= $m;
-            }
-            #print "end query\n";
-
-            my $hspLen = 0;
-            while ( my $n = <IN> ) {
-                chomp $n;
-                #print "N: $n\n";
-
-                if ( $n =~ /^((?:\d+|Query)_\d+)\s+(\d+)(\s+)([acgt\-\s]+)\s(\d+)/i ) {
-                    #printf "NAME      %4s START %010d END %010d SEQ '%s'\n", $1, $2, $5, $4;
-                    my $hspName    = $1;
-                    my $hspStart   = $2;
-                    my $hspSpacing = $3;
-                    my $hspSeq     = $4;
-                    my $hspEnd     = $5;
-                    my $hspTab     = length($hspStart) + length($hspSpacing);
-
-                       $res{$lastQuery}{start} = $hspStart if ! exists $res{$lastQuery}{start} || $hspStart < $res{$lastQuery}{start};
-                       $res{$lastQuery}{end  } = $hspEnd   if ! exists $res{$lastQuery}{end  } || $hspEnd   > $res{$lastQuery}{end  }  ;
-                    my @seq  = split(//, $hspSeq);
-                    $hspLen += scalar @seq;
-
-                    while ( my $o = <IN> ) {
-                        chomp $o;
-                        if ( $o =~ /^(\d+)\s+(\d+)(\s+)([acgt\-\s]+)\s(\d+)/i ) {
-                            #printf "  HIT CHR %4s START %010d END %010d SEQ '%s'\n", $1, $2, $5, $4;
-
-                            my $hitName    = $1;
-                            my $hitStart   = $2;
-                            my $hitSpacing = $3;
-                            my $hitSeq     = $4;
-                            my $hitEnd     = $5;
-                            my $hitLen     = $hitEnd - $hitStart;
-
-                            my $hitTab     = length($hitStart) + length($hitSpacing);
-                            my $hitTabDiff = "."x($hitTab - $hspTab);
-                               $hitSeq     = $hitTabDiff . $hitSeq;
-
-                            #print  "    HSP SPACING '$hspSpacing' HSP TAB LEN $hspTab HIT SPACING '$hitSpacing' HIT TAB LEN $hitTab HIT TAB DIFF '$hitTabDiff'\n";
-
-                            my @hitSeq     = split(//, $hitSeq);
-                            for ( my $i = 0; $i < @hitSeq; $i++ ) {
-                                my $hitChar = $hitSeq[$i];
-                                if ( $hitChar =~ /[acgt-]/i ) {
-                                    $seq[$i] .= $hitChar;
-                                }
-                            }
-                        } else {
-                            last;
-                        } # if $hit
-                    } # while my $o
-                    #print "  PUSHING ", scalar @seq, " ($hspLen)\n";
-                    @{$res{$lastQuery}{seq  }}[$hspStart-1..$hspEnd-1] = @seq;
-                } # if 1_0 (reference)
-                last if $n =~ /Posted date\:/;
-            } # while my $n
-        } # if qry
-    } # while my $l (qry)
-    close IN;
-}
diff --git a/probes/mapping/blast/ch12-sc02-1_Product.fasta b/probes/mapping/blast/ch12-sc02-1_Product.fasta
deleted file mode 100644
index aa3f2355f9f801f6c6dfe7f3b9d9d2f8621deab0..0000000000000000000000000000000000000000
--- a/probes/mapping/blast/ch12-sc02-1_Product.fasta
+++ /dev/null
@@ -1,33 +0,0 @@
->S_lycopersicum_scaffolds.fa_SL2.40sc04878_622710_624594_ch12-sc02-1_Product
-TCCCTTGTTAGTGGGTATGTTGGCCAAATCTAATCTCTTTCTTGCTTGTGCTTTCTCCTG
-TTTCAGTCTACTGGTGCTTTTATTGCAGTTGCAAGATATGCAAGTGCCACTCCCATGCCA
-CCATCCATACTCAGCCGTGGCGTAGGTTGGCAGGTAAACAGATGCTGCCCCCCTGTAAAC
-TCCCCTCCCTAGCCCAACTTTCTAATACAATGACTTGAAAGGGAAAACGCAAACTTTTTT
-GTTATTTTATTGAATTTGAACGCAGAATCAAATACATAGGGTGGTTTGAAAGGTTTATAT
-GGAGAGTCATGACATTGTTTTCAGTCTTCCCAGATTAGCCTTTTCCACCAGAAGATTTCT
-TCAGCTCATACCCCAAAAGTTCTTCAGCTAGTACCCCAAGTCTGTCACATACATGCCTCT
-GTTTTTATTTATTTAGGGGAGGTGGGTGGGGGTGGGGTGTATATGGGCATATATGGAAAG
-ACAATTAATTTGGAATTCTCAGTTTGATTCACGAGAAGAATGATTGTTCTTGCACTTCCT
-CATTCCGGTCTGTTACCAACATGCTCCATTATTATCATCATATGACGAACCTTTTTGCTG
-TATTTACTTTCCAAATTCTTGTTATGTCAGGGAATTGGCATTTTACTGTCGGGTTTGTTC
-GGCACCGGGAATGGATCTTCTGTATCTGTGTAAGTACAGGCGAAATCTTCTTCAGCACAA
-TAGGATGGTAGAAATTAGTTATCTAAGACGAATTAACTCTCTTCATACACATGCAGTGAA
-AATGCTGGTCTTTTAGCACTAACACGTGTTGGCAGCCGAAGAGTTGTTCAGATATCAGCA
-GGGTTTATGATTTTCTTTTCAATTCTTGGTAATTTTCCTGTCCAAGTATTTTGTTGAGTA
-AATTTTCTTGATTTTCGCTGATATTTTATCCCTCCCCAGCTCCTCTTTTGCATGTTATTT
-ATCTAAATGCACTTTGTTTCTTTTCAGGAAAATTTGGTGCCGTCTTTGCTTCGATTCCAG
-CACCCATTGTAGGCGCTCTCTATTGCCTATTCTTTGCTTATGTAGGTACGTAAATATACA
-AGGGAAGCCCTGTGTGATGATCATTACCAATATGTGGTTCACGTTATGAGGAGTTAGTGA
-TTACTTGTTCTCTTTGTTTGTAGGGGTTGGAGGCTTAAGCTTTCTTCAGTTCTGCAATCT
-TAATAGTTTCCGTAACAAGTTTATATTAGGTTTTTCAATCTTTTTGGGTTTATCAGTACC
-GCAGTACTTCAATGAATACACTGTGATTGCTGGTTACGGACCTGTTCACACACATGGACG
-ATGGGTATAGCAATAATTAACACTAGCTTAATACATGTCTAACATTTTCATTTTTGAGAG
-GTGGCTGAAAAGAGTTACTTGTGCTTTGTTGTTATTCTTCAGTTCAACGACATGGTGAAC
-GTGCCCTTCTCATCAGAAGCTTTTGTTGCTGGCATATTGGCTTATTTCCTGGACAATACA
-ATGCACAAAAAGGAGAGTTCGACAAAGAAAGACAGAGGCAAGCCGTGGTGGAACAAGTTC
-CGGTCCTTCAAGAGTGACACAAGAAGTGAGGAATTCTACTCTCTTCCGTTCAATCTCAAC
-AAGTATTTCCCGTCAGTATGAGATCATATTGAGGAACAAAACAAAACGGTTCATACACGA
-TAAAACCCCTTGTCAATGAATTCTTCATTGGGGCCTCACTTCTGCTACACATATTTTCTT
-TTATATGTATGCAAAAGAAAGGAAAGTATAACTAGTCTGACCATTTTGAAGTTACTTAGT
-AAATTATTTTTCTGTTGTAAATTCATGGATATGTGGATTTGAGTAGCAATATAGCAACTT
-TGGTGTTTCCTAGTCGTTGCAAAAT
diff --git a/probes/mapping/blast/ch12-sc02-2_Product.fasta b/probes/mapping/blast/ch12-sc02-2_Product.fasta
deleted file mode 100644
index ef6fbd0db552c7c5c373e6ec869d6615ecf68420..0000000000000000000000000000000000000000
--- a/probes/mapping/blast/ch12-sc02-2_Product.fasta
+++ /dev/null
@@ -1,32 +0,0 @@
->S_lycopersicum_scaffolds.fa_SL2.40sc04878_3080728_3082538_ch12-sc02-2_Product
-AAGAACTCTCTTCGGGTGGAGTAATTATACTACCATATGAAACAACAATTGAACTCTTTG
-ATGGAATGGTTAAGACCAACAAGCAGATAGGAAAATATCAAAAACTTGATACATAACTGA
-CTCAGCTGGATATTTTGGCCAAGAAAGTCAATAAATTGAAGGCAATGTACAAAAAGAACA
-ACAAATACGTTTCCCCTCACAAGCATAGAATTTCCAATGAAATATGAGGGTAGACAGGAT
-GATCAGAACATCTTACTTATTTATCCCAATGTCATGGAACACGAAAGAGTGTTAAAAAAG
-ATAAAGAGAGAATTTCTTGATGATGAATTAGATGACAACCTCTTATTCCATGTTCACTGA
-TCTTGTAGAGTCCCAAATGGACAAGGTGTTGTCTAGTCTCTATCCAAAGCATAGAAAAGG
-GTTTACTAATGAGAATGTGGAAAACCCCAATAATGAAATCTAAGTGGAGACTTGCACCAT
-GCAACAATGTTAACTAAGGAGAATAATGGGAGGCAAACAAAGTTTTATAGATTTATTTTA
-TAGAAAAATCGTGTGATAATTTTGTATGTTAAACTGTAGAATTTGTTAAAAGGTACAGGT
-TGGCGACCCAAATTTCTACTTGGCGACTCACCAAAGAGGTCGGTGATCCCAACTTGGACC
-GTTGTTGCACTCAAGAAATTCTAAAGCTGGAGTCTATAAAACTTCGTATGCCCATGAGCA
-AATCAGCGTGTTGTCAAGCAGGTCGTCAACCATTAATTTGACCGCCGTTTGGGCCCTTAC
-TAACTGAAGGTCATGTAGCACTCGACGAGGTAATGTCTCACTTGGTGTGTCGCCGAATGG
-GGGGATGAGAAAAATTAATGCCGCCGTCGCCGAACGGGCGAGAACTATATGGTTTTAAGG
-TCCAAAAGTTTAAAAGTCAAAAACCATTCAGATTCCCTTACTTTTGGATTTCCCAAACTT
-GCACCCATACTATATTTTCTATATTTTTGTGTTTCTACCACTCATTAGTAATCCATTGTG
-TATTTGTAATTTGATACCATTGTGGCCTAGCATTTCAACTCATTTATTTTGCTTCTAAGG
-TTGGTTTTCGAAGCCTTGAACTCATATCTAGAGATTTTATTCATTTAGATTTGTGTTGAT
-ATTTGTGAAGTGTGCTAGGCCTCTCTGGCTTAATTGTTTCTATTATTGTATGCTTATTTC
-AATAACTTAATTTGGTGATCTCGCCTAAAATTATTTAATGTTGATTTATGGAAATTCTCA
-TGCTTATGTTTGATCAACATTATTTGGTTATGATATTTTCTTGTTGGGTCAAGTCAGGTG
-ATGTCTAAGAATCCAACATTTGTGTAAATGATGCACTTAGAGAAATGATGGAGCGATTAA
-CGTGATTCCTAAAGGCCAAAGTCATTAAATTGATAGATTTTGTTAAACTTGTAGAAGTCT
-AAGTATCCTAGGATCATGTGTAGCGTTGCTCTAAGTCTAATTGAATGAGTTCATTGTTTT
-ATTTGGTTTTTTGGGGCTGCAGGGTTGTATTTCTGAAGTTAGGGTTGAGATTAGGTATGT
-TAGGTCATTTGAAGAGCTGAGCCGAGCTCGCCGAACCACTTAGTGGTTTGCCAAATCCCC
-CCTAATCGTCTTTCACATCAAGCAAAGTTTGAATTTTTGTGTTATAACATTCGGCGAGAA
-GCCCGAGTTCACAAATTGCACTCAGATGCTCGCCAATTGTCATTTTTATCTCCCTTTTTT
-CCCCCAACCCTTAAAAATGCATTGTATATTTTGGCGGGCTTGTCTTGCTCACCGAATGTT
-TTCGGCAATTT
diff --git a/probes/mapping/blast/ch12-sc02-3_Product.fasta b/probes/mapping/blast/ch12-sc02-3_Product.fasta
deleted file mode 100644
index 1e8f845b14a25d128174dca09362f2af3f98b0c9..0000000000000000000000000000000000000000
--- a/probes/mapping/blast/ch12-sc02-3_Product.fasta
+++ /dev/null
@@ -1,20 +0,0 @@
->S_lycopersicum_scaffolds.fa_SL2.40sc04878_4093931_4095019_ch12-sc02-3_Product
-AACCCTCAATACAAACATGAAAGTCACTTATTTCTACCATATTCATAGGATATCCCCCTA
-TGCTATCCTCAACATTTAAAATAGAATTGAAGTCCTCCATTATTATCCATGGAAGCATGT
-TACCTGCGTTCATATCATCTAAATATTTTCACAACTCTTTCCTTTCCTCTCGTGTGTTGA
-AAGCATATACGACAGTTACAATATACTCCAAATTGAGGCTTTGATTTTGTATTTTACAGG
-TTATCGCCTAGGCGCAACTTGCAACCATTAGCACTTGAAAGTAATCTGGCCTCCATGTTA
-TCAATACCCCACTGTTATAATTGTCGACAAGATTAGTAACATAGTCCAATCCTCCAAACG
-AGCTTCTATCCACCCTGTCAATATTACTCATTTTGATCTTAGTCTCTATCAAATCCACAA
-ATCCAGTACTTTCTTTACTACAAAGGAGTTTTATCTCCTTTTGTTTGTTAAGAGTGGTTA
-AACCCCTATAGTTCCATCACATCATGCTATCCATTCATGCTGGGAGTCGCTGTCCCTCCC
-CCATTTATAGTTGTGGCCGTTGAAGGTTGTTCTTTCACTTCTTCTGTATGTAGAACCTGA
-AACGTGTTCTTACGATCCACCTCTCCCTGATGAACATGCTTCTTCTGCCTATTTGGACTT
-AATGACTTAGTCATTGGAGTGATCCACCCTGCTGTCCTTCCTCCTTGTACAGTTGTATCT
-GTTCCAGTTTTTTCGGCTCCATCAATGACCCTATGGTTTATCATTTCAGTTTGTCTTCCT
-CTGTATTGATTGTATGTCCCTCTTTATTTTTGCTTCCCTTTGTCTTTCACTATGTTTGGT
-TGTTACTCTTCTCCTTTCCTTTGATCCGGAGGTGGGTTTTTCTTCGTGCAAATCCCTTCA
-TCATGTCCATACTTTTTTCAAAAATTACACAGTATGGGCTTCCAATCGTACTGCACTTTT
-TGTTCAATCAGCTCTCCTCTCTTATTTTTGAAGAAAACTTTATCCGGTAGTTCTGCTTTT
-ATTCCACTTCTATCAGTAGCCTGACAAAACTGTGTCCTAATTTCTTTTCTGTGTTTTGGT
-CCACCATTA
diff --git a/probes/mapping/blast/ch12-sc03-1_Product.fasta b/probes/mapping/blast/ch12-sc03-1_Product.fasta
deleted file mode 100644
index af7c750e203631463cd2209d979932be145162c3..0000000000000000000000000000000000000000
--- a/probes/mapping/blast/ch12-sc03-1_Product.fasta
+++ /dev/null
@@ -1,43 +0,0 @@
->S_lycopersicum_scaffolds.fa_SL2.40sc04057_3198454_3200936_ch12-sc03-1_Product
-TAGGAAGCAAAGGTAGTTTGGGATGAGTAGGAAGTACAACTAAGGATAATACACAATGAT
-TGGGAAGTTTTCAAATGGATAGCCAGACATCCAAGAGTTTAGGAAATTAATACCAAAACA
-ATGGGGTTTGAAAGGGGAAGTAAATATTGGGTTATTAAGTAGCAAATATGTATTGATAAG
-GGTCTCACTACCAGAAGATTATGTGAACTTATTATCAAAAACTCAATTTTATATCGGTTG
-TAACAATTCGTCGTACTCAATGAGAACCATGAAATAGGACCTTTGTTTGATGAAAAGGAG
-GAAATGACTACAACGATAGTTTGGATCTCTTTTCCATCACTGCCACCAAACCTTTTTGGT
-AAGGAGACAATCTTCTAATAGTTGCAACAATATCAAGACTATTACAGGCATACATGGAAA
-CTCAAAACAAAACAATACCAAGTTTTTCAAGGGTAAAGATAGAGGTGAATCTTTTAGGGG
-AATGACCCAAAAGAAACAATATTAACATGAGGAAAAAGAACACTGAAGTTATGAAAAAAT
-GGGTGACCATTCAATATAATTATATTCCAAAGTATTGTATAACTTGCAAGCTTCATGGGC
-GTAATGAGAAGGAGTGCTATCTTATATATTATGAACTTTTCACACAAATGGAACAGACGG
-AGGAGGGAGAAAAGGTGCAAGTTAATAAGGAAGACAAGGGCGTTAAAGTAAATCAACAAG
-CAAAGAAAGGGACGAAGTGAAAAAACCAAGATCATTTTTATAAAGGTAAAGAGGAAAATA
-AAAAGATAGCTAAAGAAAATGTTTTTACTGAGTAGGGAAGAAGGAATGGGTACAGAAGGT
-GGTATAATTATGAAAAAATATAACCAGAACAAGTCTGGAATAAAAGAGTACAAGAAGCGA
-AAAAAGCAGAAGTGAATACAGTGAACAAATTTGAGGATTTAGAAGATACATTACCTGGAC
-AAGAGGATAACAATGAGGTAGAAAGAATGGAAAATAAGGATACAGACATTTAGAAGAGGT
-TTGAAGACAAGGTACAAGGGAAAGAATGAGATACTGTTAACTTCAGTTGCCATAGGGAGA
-ACAAAAAAAAGTTCTGACCGAAGTATAATATTTTATAGCCCGGAAACCTCTATTGTGAAA
-GATACAAGTATCATTTCTAGTGTGGAAGTAACACAATAGGAGAATGAGAGAAACAATGGA
-GGGTAATGGAGAAAACACTAACAAAGGAACAACAAGTTGTGTTAAATTTGAAACAAGCAA
-AAAATTGTCGTAATTAAAAGATAGACAAGCATAGCCCAGGAGAGTTACATGATAAACATG
-ATACAGAGGAGGAAGAGATCCTAGAATCTCACATACAGGAGACATGAAGAGAAGGAGACT
-TATTCCCTCAACAAATAAAAAAATTGAATGGAAAATATTGGGAAAGAAGGAACAACATTC
-GAGATATGACTTATGTAACCACAAAACCCAAAATGATCAGCCCCTCCATATTCATGTATG
-ATTAGTAAAGTGCTATTTTGGACCATTAGGTTGGTAAAATCTCAAAATTCTTTTGAAAGG
-CTACTAGACCTAAATAGGAAAATCATTAGGCATACATTGCTCTTTTCCATCCTTCTAAAG
-TCCATCGACTAGAAAAGCAACAATCCAAAGTTAATTTGTCTTTCAAATTTTGGTTGTTTT
-GGGATGAGAAGTGGGAAGGGAAAGTTGTTTTGACACACTGCATGAAATTACAATCACTCT
-AAAGCATGGAGACAACAATGGTGTTGTCAAAATTACAACAATTATGCTAGATGTAGTGCC
-TTGGAGATATTTAAATTGTGTAAAGACCTTGTGGTGGTTTTTAACAATACACATTTTACA
-TGGATGGGAAGGGGAGATTTCAATACCATAATAGATGAGTCAGAAAAGATGGGAGGTCTG
-CCAGTCTCGCAACTTGAAGTTGAAGATTTTGTTCAATGTATAAGTTCTTGGATATTGAAT
-GTAATAAAATTCTCAAGAAACAAGTATACCTTATGGAATGGCATAACAGAGGCTGGCTAT
-ATTTTTGAATGGTTGGATAGAGTCTTTGGGAGCAATGACCTCACGAAGGAGTTCTAAAAC
-ACTGAAGTGAAACATTTGATTGGGGAGGGCTTAGACCATGACCCATTGCATAATACTTGA
-AATGCATCACAAAAGCAGATTTACAAGCCTTTTTGGCTTAACTTCTAGGAAAAACAACAC
-AACTTTCAACGTACAGCGGAAGATATTTGGAATATGGAGGAAATATGCTCCCCTTTTACA
-GTAGTTTAAACAAAATTGGAAAGGGTGAAATCAGCTTTGGTCCAATGGAGCAAAAATACT
-TTTGGACATATTTTTCAATAGGTGGAAAAAATAGAAGATGTACCATTTGTGATGAAAACT
-TAATTTACATGGTTTAAATTGTATTTTATCCCCCATTTGAGTTTGAAATAGAGTAATTTG
-AAGTCCTACGTGTTAGGAATTAT
diff --git a/probes/mapping/blast/ch12-sc03-2_Product.fasta b/probes/mapping/blast/ch12-sc03-2_Product.fasta
deleted file mode 100644
index 56ba122432225e2222bfe6ba65b9eaac1c66bc59..0000000000000000000000000000000000000000
--- a/probes/mapping/blast/ch12-sc03-2_Product.fasta
+++ /dev/null
@@ -1,45 +0,0 @@
->S_lycopersicum_scaffolds.fa_SL2.40sc04057_7835794_7838398_ch12-sc03-2_Product
-GACCTGTCCCTTCCATACCTAAGTCATAAATTACCAAATGTACCAGTGGAAGTTGCAAAT
-AAGGAAATTGGGTCCTAGAACTCAAAACGACCTACTGGGCCGTCACATATCATTGCCTTG
-TAAAAAATTGAAAATGATCACTTCATGGTAGAACTTCGATCCGAGTTCCTCAAATTGTTC
-TTTCACACTGACATTTTTATTTTCCTGGATAACTGTCACGAGGTTGGAGGTTTTTGTTCC
-TTTTTCAATTTCTATGCATCCAATATTAACCTCCTATTTTTACAGGCTGAACATCCCACT
-TTGTCAAATATTAATTTGGATATACCAGTTGGTGAGCTAGTTGCTATTGTGGGTGGGACT
-GGAGAAGGAAAGACATCTCTGATTTCAGCAATTCTTGGGGAGTTTCCTCCTTTAGGCAAT
-GCAAGTGTCACTATCAGAGGTTCCATTGCATATGTTCCTCAAGTTTCCTGGATCTTCAAT
-GCCACTGTGAGCTTCAATTTATCCCTATTCCTTGTTATGCCTGTAGCACAAGTATGTTTA
-CATGAGCATACTATTTCGGGGAGTCATTACAATATGTTGTAGATATTCTTAAAATGTGAT
-AAATTATCTCTGGGTATTTATATGAAACAATGCAATTACCTTTACCTTACTGTTTTTAGG
-TACGTGAAAATATATTATTTGGTTCCAACTTTGAACCAACAAGATATTGGAAGGCAATAA
-ACGTCACTGCATTGGACCATGATCTTGAGTTACTTCCAGTTAAGTACATTTGATGGTAGT
-GTATTTGTGTCAATATATCTTTATGATGTATGGAATTTTCTATTTACTAGTTAGTCTAAA
-TGAAACTGCTATGTTCACACATATAAAATATTCAGGGTGGGGACCTTACAGAAATCGGCG
-AAAGAGGAGTGAATATTAGCGGAGGACAAAGGCAAAGAGTGTCGATGGCTAGAGCTGTCT
-ACAAAAATTCCGATATCTATATATTTGATGATCCCTTAAGTGCTCTTGATGCACATGTTT
-CCCATCAGGTAATTATCTTGTATGAATGCCTGGACAACACCATTTCAGTAAGGGAATGGG
-ATATCAACATTACCTGAGAAGACCTTCCTTCTATATCCAATCTTCATATCCACCACCTGT
-AGATTTTTCCAAATTGACTAACCTCTTTCGTGTATATGTACAAGACTAATTTGCAGTAAT
-TGGTCATAATTCACTGATTGCAATTGTTCCATCGTTCTTGTTGCAGTTTTTAAGCATATG
-CTAAATTCAATTTGGATCTAACTTGCAGTGCAATGGGATTTTTCAGGTTTTTAAAAACTG
-TATAAAGGAAGAATTGCAAGGAAAGACTAGGGTGCTTGTGACAAATCAGCTGCATTTTCT
-ACCTCAGGTGGATCGGATCATTTTGGTTTCTGAAGGAATGGTGAAAGAGGATGGGACCTT
-CGAGAAGCTTTTGGAACATGGCACACTTTTTCCAAAGCTAATGGAAAATGCTGGGAAAAT
-GGAAAGTTATGGTGTTGAAACTGAATATGACCCAAACTTTGACAGTGAGAGTTCACAGTC
-TTCAAGCACAAGGCAAGAGCACCAACAAGATGTAACCTCTGTAACCAAAAGGAAGGCTGG
-TAAATCTGTTCTTATCAGGCAGGAAGAGCGGGAAACTGGTATTATCAACTGGAGTGTTTT
-GATGAGGTAACAAGTTAATGTATATGCTTTGAGACATTTATCCTTGGAAATTTTAATCAA
-GTCACTCAGACATGAATATCCTGGTAATTCAACAATTTTAGAATCCTAATTTCTTTTTCA
-GAATTTTTAAAAAGACGAGACTTACAACATTTATTAAGAGAAAAATTCATGGCACAAACT
-TTTCTCAAATATTTCCATTCTCTTGCTTCTCCCATTGCATCTAGACACTGGTGGAATTAA
-AAAATGTTATTGTCTGTAGTGCATAGTTTCTAGCATGGGCCTTGGAATATTCCATTTATT
-TCTAGTGGTTTGTGTACCCCCTTTAGGAACACAACATCATCGTTGAGGTTTTCCTAATCT
-CCATACTAGGGGATGTGTCGGCTCCAATACCACCTGTAATAGCTAGGCCCCAACTGCCAA
-GGTATTCCCTAACGCAACCTTTTAGTCCTTGCGGTTTTCTCCCCTTGTTACCCAAAGGCA
-TCCCAGAATTGAATTCCTGACCTCGCTCTGTATAACCCCTAACTTTTTCCTCCAGTTCTG
-ATGTGCTATTTATCTAAGGTAAGTGATAACAACAAGGTCAGGGAGATCGCAATTTTAGAG
-TTTTGAGTACTGGACGTGCGGAAGAAAAATATGAATGAATCTGGAATATGAGAATAAAGA
-TATTGGAATTCGACGGAACAGTCCACAAATTTCCATGAATGTGATGTTTTAAAGCTTTGA
-CAAGGTCAAGAGTAACAAAATATTGATTATGAGAAGAAATATAACACCTTTGCTTGAGAA
-AATGAATCAAAACGATAGATTTGGATCTTGTCCACTTCATGATAACTTAAACAACAATTA
-GTATGGAAAAACTATTCGCCTTTTAAAGAATATCAAAAAGGAATCACTGATATCACAAGA
-AGAAACTACCTTTACATCAAGACTT
diff --git a/probes/mapping/blast/ch12-sc03-3_Product.fasta b/probes/mapping/blast/ch12-sc03-3_Product.fasta
deleted file mode 100644
index db906257043031d5a2dce36ce28c89afa605f1b1..0000000000000000000000000000000000000000
--- a/probes/mapping/blast/ch12-sc03-3_Product.fasta
+++ /dev/null
@@ -1,46 +0,0 @@
->S_lycopersicum_scaffolds.fa_SL2.40sc04057_13401063_13403730_ch12-sc03-3_Product
-AGCTCCCATGATTGTAGAGCATCCACATGTTTCTCCAGTCAAGAACTGCAAAACAACTCT
-TTGCTAAGGCTGCTTGTACTACTAAAAATCTAGAATATTTTGGGTCAAGAGTGATATGCA
-GGTGGTTGTGCCAAGTTGGAAGTGAGATCTGAGTGTTTGTATAATTGTGCTTGCAGGGGT
-GGTTTACATGATGTTGGATTCCATTTCTGTGATTCTTGGGTTTCCAAGGGAATTGCCTGT
-CTTGTTTCTGTTTTGGTACTGATACTTCCCTTTCTTTTTTGAGGGAAGGTTGAGAGGGGG
-GTGAGTGGGTGTAGAATCCTTTTTTTCATAATAAATTAAGGGTTGAAGAAATCACATCAA
-TATTTACATTCACATATAGATATCCTCTTTCTAAACAAGAATGGATAATTTAGTAGTCAA
-GTCAACTGTCGAACTGAATTGGCAGTGCACAATATCCTCGTTATGTTTACCAATTGATTT
-TCAAGAATTCATTGTATTGGTAAGGCAAATGAAGCAGTTGAAGAAATGGTCACACTAAAA
-TCCTAAATGGTCCAGGAGATCCGAAGGCAATTCCATGGACTCTCCTCACACCTTTCAAGG
-CGGCTGCTGATGGGTGGTGCCATATGGATATCAAAAATGGCGATGTTGTTGCTTGGCCCA
-CTAATCTTGGGTGGATGATGGGACCTTGGCTCGTTTATGCTGCATTGTTGAATGGGGCAT
-CCATTGCCTTGTATAATGGATCTCCCCTTGGTTCTGGCTTTGCTAAGTTTGTACAGGTTA
-ATTTCTTTCATTGTTATTCTTCCTTGGTCTCCTTTTTCGTGTTGAATGACTTGGTAAAAT
-CACTCTGTATTACAATTATATACATTTGAGATAATTGTGTCAGCTAATATCTTGTTGCTT
-TGTCATCTTCTAATCTGGTGTATTTTCTTGTTGTAAGCTAGGGAAGGTATCTATTTATTT
-TAGTCTTTTGAACTTAACTTTTATCTCTTCCTACTTGCATTAGCCTTGCAATTATACTTT
-GGGTGGACTATCAGAAAACTAAACAGGCTAAGTTTCTTAATTCCAAAATTTTATTGAAAA
-GGAAAAAAATGATGGATGGAAAGAGAACACTCTATTGTATGTACAGTTTTACAATTTTAC
-AATTTTATTGCTAAGCCTGTGGTGCTCACCGACCCAACAGAAGTGAACTATTCGAGGCAT
-CACAATCTCTGATAGATATGGTATTTTAGAATCTTTTATTCATCGCAAACCTACATTGTT
-TAAATGTTGAATACCTTTAGTTATTTATGCTCATGAAAAATCTCCCCTTTGCAAATTAAC
-CAGGATGCTAAAGTAACTATGCTTGGGGTGATTCCAAGTATCGTGAGGACTTGGAAAGCA
-AAAAATTCTCCTGATGGCTATGATTGGTCAACCATCCGGTAGTTTCTAAGCAACTCTCTC
-ATTATGTTTTTATTTCACGAAGAGCTCTATTGGTATCTTCGTTCTTGTTTTACTTATATT
-TCTTTATCTCCTTGCCTGTTATTTCCTTCCAAATTGACTGAAATTGCGTGGCAAGCTTGC
-ACATGTTTGATTCATGAATTTATATTTCAAATACTGATATTATATGAAAACAATATTTTT
-CCTACATATATGCACATCAAAATGAATTCTGCTCAAGACTATTTTTCCTTTCCCTTTCTT
-GGGCTTAATGTAGTTCATACATGATCCTAGTTGCTTTGGCTCCACTGGTGAGGCATCTAG
-CGTGGATGAATATCTTTGGCTAATGGGAAGAGCTGAATATAAACCGATAATGGAGTATTG
-CGGTGGTACAGAGATTGGTGGCTCCTTTGTCTCTGGGTCAATGTTGCAGCCCCAGTCTTT
-AGCCGCTTTCAGCACAGCAGTCATGGGATGTAGTCTTCATATTCTTGGCGATGATGGGTT
-TCCTATAGTAAGCACGATACAACCTTATATTTGGAACATCAATAGTATTTGCTAGAGCAA
-ACTGCATTTAATATCATGTCACACATTTTATGCTTGCCTATTAAGTTCTTCTTAAGCTAG
-TGAGAGTTGAGTGTTTACCAAATGTGATCAGGTCTGAGCATTTGATGTAATCGACAATAA
-CAAGAAATTTAGAGGATAGAAATTGAATTTAGGCAAAGGAAATTCAACCAAGTAGACAAT
-AACTAGATTGAAAGGCCACAAAATCGACCTGCTACACTAAATCCTAGCACCTAAGCTAAG
-AACCCATCAAGAAGATAATAGCCAAATCTCTTTGCTTCCTCGCAAAGTTGGAACTGATCC
-AATAGATACGCTGACTCCCCTACCAAGTTCATACATCAATATAATCTAACTCTACTAAAT
-TGAGAATGTAGGGTATTAATACTACGGCTCAATAGAAGCTAATGAAGTCTAAAATATCTA
-CAACTAGTGATTAGAAATACTATGAGACTGAAAAAGGGAAGTTGGAAACATTGAGGTTAT
-TCTCGCGATTGCATCTGTCGGGGTGCAATCATGGTCCAGTCTTGGGTCAACTTCCTCTCG
-ATAGTGGACTCTAAGGCGCAATTGCGGACCTTGTCAAAGTCAGCACCTTCAGCTTAAGCA
-GACATCTTGTCACAATCTCAGATTTCTGTTAGGACTGGTTTATCCACAATAGGGGAACAA
-TATCTGCAGACAAGTCATGATCCAAATA
diff --git a/probes/mapping/blast/ch12-sc03-4_Product.fasta b/probes/mapping/blast/ch12-sc03-4_Product.fasta
deleted file mode 100644
index 6c18e9338104f33e28f37045232fe05757dea763..0000000000000000000000000000000000000000
--- a/probes/mapping/blast/ch12-sc03-4_Product.fasta
+++ /dev/null
@@ -1,74 +0,0 @@
->S_lycopersicum_scaffolds.fa_SL2.40sc04057_22823181_22827553_ch12-sc03-4_Product
-GTGGCTAACCCAATCGGAAACCGACGCCGCCGATCCCGCCGGCGAGACCAACCCCCCAAC
-CATAGACGTATTTGAACTATTTGGTTATTAATGAAGAAACCAAAAATTTCAACGAAGCCA
-CATTTACTATGTCACGTAACATACAGTTGTGGCAACCAAAGCTGTTGGGTCGCCATAAAT
-TGACATTTCTTGTTTTTTCTTTATAAAGAAATACTCCTCACCTAATAGTATGAGCACATT
-GAAAATTTTCAACTACTTTCTCAGTTCTAAGGCCACACCTCTGCACTCTTTATATATTCA
-GTATCATTTTTCGTGTCAAAGATATCATAGCTTTATCTCCTCGCAACTTCGCCTCTTATC
-CTCCGGTAAGTTGAGGAATTTCGATTATCTCGATATAAGTTATTGTAAATTGGTATGTGT
-TCATCCAATATAGAAATGGGGTTCACTTGATTTTGAGATTTGGGGTGGTGTTTGTTTGGG
-AAAATGTTAAAGAAATGGAAGCGTATCAATTGTTTGAAGAAATGTTTGTTTGAGTCAGCT
-TCACTCGATTATGGATTTTTGACAGCTAGTGCTCGATGAATTAGAAATATGAGAAGATAA
-AATGATCTTAAAATTTGAAAAAGGGGCAATTTTGATCTTTGGGGATTTCCGACTTTGTTT
-TCCTTGATCATATTAGGTTTAGGATCAGTAGAAATAAATTATAAGTCTTATGAATTTCAT
-TGGCTATTTTCAGCTACAAGTAGTATAAGCTATATGGAGCTGGTCAAGGAAGTTGCCAGC
-AAGGGACCTGAATCGCAGAAGAATATTGCGATAAGAGCTGATGAAAAGAGCTACAGTTAC
-CTGCAGTTGATTTCATCTGCAAGGAGAATTTCAAGTTTGTTAAGCAAGCTAGATCTTAAA
-ACCGTGAGTTGGAAATGACGAATTATCTATGAATAACTAAAGCTGCATGAATTTGTGTTT
-CTATTGAATAGTGTAAATTAAATGAAAGTTTTCTTTTCCCAGTTGTAATGTTTAGTCGAC
-AATTATATTGTTTACGAAATTCATTCAATGTGAGTCCTTCACCCCACATTATCTTTTTCA
-TCTGGATATATTGCTCTTCCAATTCCAAGGTCAGTCTACAGAATTTACTTCCGTTATTGC
-TTTCTGCTCAGTTGCTTCTACTTTTTCAGGACAAAGGCATCAAAGAAAATGAACATCACA
-AAGGAGCAAGAGTAGGGATTGTGTCCAAACCTTCTGCTGAGTTCGTTGCTGGAATACTAG
-GAACCTGGCTTAGTGGAGGTTGTGCAGTTCCTCTTGCTCTGAGCTATCCTGAGAGTGAAC
-TGCTACATGTGATGAATGACTCGGTCTGTCTCTGAATCTTTGTTCTTCTCCCTCACTGTT
-TCATGTCAGTAAAGTGTTTTATTGATAGATAATGAAGACACAAAAAAATGAATGTCTTTT
-GCCTTTTGAAATGCTCAATATTAATGACATAGATTGCATTATTTGTCATGCCTTGCTATC
-TGTCTGTAGATGATTAGCTCATGTTCAATTAGGCTGAATATTACCTGTCTGCATGATGTA
-GAAACACTGCAATGTCCTCTTCACTGTTTTTTTCCTCTTTTATGCTTATTTAATTCATTG
-TGAAACATTGATTTCTAGGACATCTCCATAATTTTGAGTACTGAAGACCACCAAGAACTT
-ATGAATGCAATTGCAGCAAAAACTGGTGCTCAGTTGTCTCTCATTCCTTCAATTCCTGAT
-GTGCATTCATCAACAAAACATGACCAATCAAAAGACATGGTTTCTGACGGTCAACAAGAT
-CTGCTAGAGATCAATTCTTATGGTGAGATAATGGGTAATTTGTCTGTTTCTCTATATGGT
-TATATATTTTCCCATTTGAGATGTTTGGAGCTCATCAATAGCATTTTCCTTTGTTCTGTA
-CATGTTATCTTTAAGGCGAGAACCCTGCTTTTATCTTGTACACCAGCGGCACAACAGGGA
-AACCAAAAGGAGTTGTGCACACACACAATGGAGTCTTAGCACAGGTTGATGTCTGTTCTA
-GACTTGATATCAGCATTCCCCTGCTTTGTTGGATCTTGATATGATTGATTCTTAGCCTTT
-ATGTCTTCTTTTCAAATTCATTGATTTACTAGAAACATTCCACTTCTACTTCGTGATGTT
-ACACTATAAATTAAGGCTCAGAAGATATCATTCATATCACAGACCTTGGTGTGTCCAATT
-GAGCAAGTTTGCTTCCCCTTTTTTCTTCCTCAATTAGGCTGTGAATGCATATGTATTCCA
-TAATTCTGAAGGTAGGATAACATGCGATAGTATTTGTATTGCTGAGAGATGATAAGTAAC
-CCAAGTCAGCACCTTGGACTAACTTCTGTTGTAATGAAGAAGAGTCGATATCATTTACTA
-AAGTGACCTTGCTTAGATCTTGTTTCAGTTGTCAGTAATATTGAGAGGGGTGAGGATTGT
-CTTTATTGAAGTTTCGATATGAAATACTCTTTTCAGTTTACTGGAAGTTTTGTTGATGTC
-TGTGCTAACCCTCCTTCCATGTTTGCTGTTTCAGGTCCAAATGTTAGCTAATGCATGGGA
-ATACACGCCCAAGGATCAATTTCTGCATTGTCTACCACTCCATCATATCCACATTCCTTT
-ATTTTTGTTCCCAATCATGTTGTTTACATAATTCCTGCTTTTGCAATGTGTTTTTGTGTG
-GGATAAACAATCTCATTTGGACTACAAAACTGGCTGATCCTTAACCTGTACTGTACATGT
-GCATGGACTTTTCAATGCTTTGCTTGCCCCTCTTTATGCAGGTTCCACGGTATAATTTCA
-CATCGTCAAACTTTTTTCACTACAGCATACATGCTGTCGGATTGGAAATTCATGTTACTA
-TATCCGCTTTTCTCTTTTTGAAGGTCGACTTCGTGCCAAAATTCAGTGTGAGGGGAATTT
-GGCAGAGATGGCGTGAATCATATCCTACAGATGGGACTATAACAGATAATGCCATTACGG
-TGTTTACTGGAGTAAGTCAGTTTTAAATAGATTAGTGAAACATTTTTGCAATGGTATGTG
-ATGTTAGTTGATCTGTGAATTTATTATGTTGAGCTTTGCATTCTTAAACTTACCATGGAA
-AAATGATTTCTCGCTTCAGTTACATAATATGTGCATGAAGCTTTGAGTAAGAATACATGT
-TTCGTGTTTCTGCATCCCTGAAATGGACTCACAGTGGAAGCCTCTAATAATGTCATCACT
-TTCTTAATTTATCATGAAACTCCATTGCATCCTGTTTGCATCAAAGCTAAGAATAAGAAT
-ACATGGTTTCTCGATTCTTTTGCATAATGCTTTCTTTATGGCTGAGACTAATAATACCAT
-GTCATGATCTGTGATTTCTGTATCCTTGGATAGGAGATACTTACAGCAGAAGCTTCTACT
-TAATGTCAGATATCTAAGATGTCACTACTCTGATTGTATTTGGGGTATCGATACGGATAA
-CTTTAGCTATTGTGTGTACCTAGCTTGGATTTTCCAACGCTATGTGTCAACTAATAAGTT
-TGGTAGCGGATCCACCGACTCCTACCCTCCACTCTTTTCTGATTGATTTTTTTTCTAATC
-CAATAGGTTCCAACTATGTATGCACGATTGATACAAGGTTATGAAGCAATGGATCCAGAA
-CTAAAAACAGCTTCTGCTTCAGCAGCAAGGCACTTGCGCCTTATGGTAATAGACTTGGTT
-TCTATTTTGCTGGTGTTTTTGATAAACAACATAAAACATAGTTAGGATCTTAACTGTACA
-GAGCCTGCTTCCTCATTTTGTTTTGTTTTGATTGAGTATAGAGTGTACTGTTGTCAAAAC
-CTAATGTGTTTTTTAATCATCCCAAATGAGAAAAAACAATGATTTCTGCTTCCAGATGAG
-TGGCTCCTCTGCACTTCCTCTGCCCGTCATGCAGCAGTGGGAAACCATTACTGGACACCG
-GTTATTGGAACGTTATGGCATGACTGAGGTAAATGTGCTCATAGCCACTTTTAGTATGTA
-GGATTTTGACTGTTCATTTAATATCTATACTTATGTAAATGGTTAATTTCGTCTAGTTTG
-TGATGGCAATCTCTAATCCCATAAACGGCAAGCGCAAAGGAGGTACTGTTGGCAAGCCAT
-TTCCAGGTGTGCAGGTTAGTGAGTTCCTTATGTTATGTTCTCAACATCTAATATGCTGCT
-GCAACAAAGTCCATAAATGCAGCCCAAAATTTTTGTTAGATATATCCCGTATTTATGATA
-AGGTCTATCTATTTTTCCTGAATAGTCTATCACTTCTTTATTTTGTTTCTGATAGGCCAA
-GATTCTTTTGGACGATGCGAGTAGCAATGACCAAACTGGAGTTGGGGAGCTCT
diff --git a/probes/mapping/blast/ch12-sc03-5_Product.fasta b/probes/mapping/blast/ch12-sc03-5_Product.fasta
deleted file mode 100644
index ba22bcb6c0b00f579f1720ed2d683bcdc4be0470..0000000000000000000000000000000000000000
--- a/probes/mapping/blast/ch12-sc03-5_Product.fasta
+++ /dev/null
@@ -1,71 +0,0 @@
->S_lycopersicum_scaffolds.fa_SL2.40sc04057_23797776_23801944_ch12-sc03-5_Product
-AGAGTCCGACAAGCCCTGAATGAAAGCAAGAAAAAAAACTATAAAGAGCTTGGAGTAATG
-TCGAAATACCTCCACAGAAAGATGTTAATATCAACTGGTGCAAATGACAGAAATGACTAC
-CTGTAGAGACATAACCCTTTGGGATCGAAACTAGGAGAAAAGAGGCGGTGAATAAAGTGA
-TGTTTTGAAGTGCTTCGGTTCTCAAAACTAACCACTCCAGAGCACCATTTGAGCAAAGAA
-AGACTTTTGCATCTGCATCGACAAGTTTTAGGTAATTTTGAAAGAATCTGTCTACTGCTC
-CAAATGACCTTATTGTGGCAACTCCAAGTGATGTCTCAGTTACATAATTCATAACAGGAG
-CCTTTGTTGTCCCATTGATTCTCATCAGCTCCTGGGCAGAGGGTTGATAATGTCCCTTCA
-GATACAGAAAAAAAATATTAGTACAAACTAACAAATTATATTAGCTTTACGATCAAAAGT
-ATTTAGCGGAAATGAAACTTTACCTGGACATATTTTGAGCCCACTGTAGCGATGATGCCC
-ACAAGGAGAACCTGCCATGTCACTGAGGCCATAATGCCAATTGTTACAAGCAACTCCATT
-CCAGCAGCCATCACAAATGCATAGGAGAATGGGATGTCGTAATCTAATACACTCAAATCT
-GATGAAGCCTGATGATCCAGATTAGTAGGCAACAATCAGTGAAACTTGTTCATGTCACAG
-TGTTTTCCGTAGTCATAGGTGCAAAAGAAAAAAATGTTACCCGGGTTAATATCCGTCCAA
-CTGGGGTAGAGTCGAAGAACAACATAGGAGCATTGAAAATTGAATTTGTGAAACCAGAAA
-AGAAGGCTTTAGATGCTTTTAATCCCAGGAGAGCTGCAAAAAGAGATCTGAGGTACACGA
-AAAATGCACTAACTAATGACACTGAACTATAGACACCAATAACCATGATATGACTAATTT
-TAGGACTTTGAATTGCAACTGCTAGCCAGTAACTTGCAGCAGCCTGAAGACCAACAAATC
-CCGCCTGAGTAAGTATGTTGGAACAAAGGAAGAGCGTTCCTTTAGAGATTACGACATAGT
-CTAGGAAGATCTTCCATATTGCACTTTCACTTTCTTTTTCTTCCTCATGTGTCAATTGTA
-TTCCGGGCTTTAATGTAACTTCTTTTTGGCTGTTTTCTTTTATAATATCAGTCTCTTCTA
-GCTCATGCGATTCATCTTTATAGGTACGAGGATCAAGTCCAGCTACAGCATCTCTGTGAG
-CATTCACAAGCTGTTCAAAGGCCATCCCAGACATCAATAGCTCATTATAACTTCCTGATT
-GAGTAATTTGTCCACCTTCCATTACCTGGTAAAACAATTAGCAGATAGCTATAAATAATT
-GACGTGCGCTAAATGAATACAAGCTGGAAAAAGATTCTAACTAGTCCACATTAGTTACCA
-GAATTTGGTCAACCTCGGAGAGGAACTCCACTTGATGAGTAACAAGAATAACTGTTTTAT
-TCTTTAGAGCAGTCATAACACAATCCTGCAATTATGTGGAAACAACAAAATGTTGTTGTT
-TCTTTGGTCAGTAAATGTTATCATGCATGATAGCAAGTTTTTCACAGTTAACCTCACATT
-AAAAAGAGTTGCTGCTGTGTGTGCATCTACGGCGCTAAAAGGATCATCAAGAACATAGAT
-ATCAGCATCACTATATACAGCTCGAGCAAGTTGAATCCTCTGCTTCTGTCCTCCACTCAT
-ATTAAGACCTCGCTGACCTATCTCCGTGAGGTCACCATAGTCAAAATTATCAATATCTTT
-GTCTAGAGCAGATACCTTTACCGCTTCATGATATTTGTTTTCATCCATTGACTTCCCAAA
-CAGTATGTTATCACGGACTGTTCCACTCTGGATCCAAGCGGTCTGAGAGACATAAGCGAT
-GGATCCATATACATGTACCTAGAAACAATTGCAAGGAGAGTTGAAATCAATTATAGGAGA
-TACTTAAGAAGTTCATGATATGAGGATCGCGTTACGACTCACTGTTCCTGCAGTTTTTGG
-TATTTCTCCAAGTATGGCATATAGAAAGGATGATTTCCCAGCACCAACTGGTCCACAAAC
-TGCAATCTTCTGTCCTCTTCTTGCTTGAAAATTTAAATTTTTAAGCAATGCATCAGGTGA
-CTGTGGATCCCAGGTGAAATGACCACCTACTATACAAACACTATGATCTGAATCCTCTCG
-AGGAGATGTCACTGCATCCTCCGGTTTGATTTCATCTTCAAGTAGGAAACTATTTATCCG
-ATCGAAAGAAACTTTGACTTGAATCACAGCTGACAGCGCTTCTGGTAGATATCTAACAGG
-TTCCGACATGGTCCTTAAAGCTGCCAACACAGTGAAAATTGTAGCAGCATTAAACGGCGC
-ACTCCTGAAAAACACAAGTCCTAAGAAGATGACACATGAGACTATTGTTGGGGACATCCA
-ATACAGCAAAGTGCTATAAGCTTTCATAATCTGAGTTTCAGCCAACCATTTGAATTCATC
-CTCCCTATGTGAGTCAATTGAGTTCTTGAAGTGTTCTTCCCATGACTGTAACTTGATTAT
-CTTCATACTATTGAGAATCTCAGACATGAACCTGAGACGTTTATCTTGGGCAATCATAAA
-TTCAGTCTGACATTTCTGAAGTATCTTGGCAAATGGAACATTCAGCAACCCACAGATAAT
-GAGGGGTACTAAACCTGGAATTGCCCCGAGTCCTACAACTCCGAAAAGTACACCAACGGC
-TAAAAATATTTGTAGGCCAGAGCTCCATCCTGTGTGAAACCACATCAGAGCTTCTCCCAT
-CCGGTAAGCATCCACAGAAATGTAGTTCACTATCTCTCCAGTTGAGTGCCTACACCTGCC
-TAAACTCGAGAGCTTGAGTTGTTTCTGATAAACTGCCACCATTAGAGCCGATCTTATTCT
-CATACCAACCCTTCTCGAGTAGAAAAAGAAATGTCGAGAAGAAAGAGAATCAACAAGCTT
-GTCAACAACCAAGCACCCCAATAAGAGAACACCTTCAACAAAGGTTCTTGTCTCGCTACT
-TGAATAAGCCACGAATGCATATAGCATTAAAGGAGAAACTACAACAGCAATAATCCTGAG
-AAATACTAATGCTCCTGCAAGAACCATTTCTTTCCAGTAAACTCTTGCTATGGCCTTAAT
-GAGAAAGTCCTCTGAATTGTCCTCTCCTTGGAGAGATTTCCATTCACGAGACAATTGCTC
-GTAAGCTAAGATGGCTTCATCTTCATATCCTAGACAAGGAATATCTTCAAGAGCTAAAGT
-TTTTGAGTTTCCTAGACCAAGCAAACCATTAACCCAAGAAAATGACAATTTGCCAAAAAG
-ACTAGTATTTCCTATACTAATTAGTTTGTCATCAGGTCGATCAACGAGTAGAGGTTCCAA
-CAAACTCTGCTTTGATGAAGATTGAGAAATGATTTGATGAAAGGTAAGTAAGGCATAAAA
-GAAAATCAAGAAAGTGACTAGCCATGTCACCAGGTCTAGTATTGGGACGCTGCGAGTTTT
-CATGGATACTTCAATAGTAAGAGTGGAACTCAACAGAAAGAAAATCACCCACCAAGAAGA
-TATCAGTATTTGAATCCATTTAGATCCTTGAACAAGCAACGATACAGTTAAACTGATCCA
-AATCATTCCGCAAACAAAGCAATGTAACCAACTAAGATGACTAACACCACCATCTTTACT
-ACTAATAAATTTCCATAAACCAAGACCAAAATACACAATGCTTACAAGAGCACAACAAAC
-AGAAACTCCTATAGCCATCCAGTTCCTCCTGCAACCACCACTAGTAAGTCTGAATTTTCT
-CACAAGACCGACAACAAGGAAAAGAAAAACTAACAAGAGATTCAAGGCATCTACTATTCC
-TCTATGGATGCATAGTGAACTCCAACTGAATTCTCCTCCACATATCCACAAGAACTTTCC
-TGCAGTATTCAAATATATCATGAATCTCAGACTCAAAATTAGTCAAGAAAATATAAAGAA
-TGTATTGATACAAAAAGGAACTTGATCGAAAACATTTAATTTGAAATCATTGAACTTTTG
-AATAAATCAAATATACTTAGTCCATTCAAATGAAAAGCTAAGAAGTGTATACCAAGTTGA
-GGAGCCTGTGCAGAAGCCATTGTTAGATA
diff --git a/probes/mapping/blast/ch12-sc09-1_Product.fasta b/probes/mapping/blast/ch12-sc09-1_Product.fasta
deleted file mode 100644
index 3f02ff2767ad4c3c91b03dd45c21eb1852856303..0000000000000000000000000000000000000000
--- a/probes/mapping/blast/ch12-sc09-1_Product.fasta
+++ /dev/null
@@ -1,32 +0,0 @@
->S_lycopersicum_scaffolds.fa_SL2.40sc05611_353222_355021_ch12-sc09-1_Product
-GAGTTGGACAGTGATTGGTGGGCAACGGGTTGTTTTTTGTTTATGCTTGTTCTCGTCACA
-CATTACCCGTAGACTGACTTCATAGTTAAGGTTAAAGTCTAATGCTTCTGGCCAAGTGAG
-AATCTTTCTGCTTCATGGACTTTCTTTAGCTGGTTTTCAGGATAGTGTTCCTGGCTTCAT
-AAACTGATTCGTTTTCTCATAGTGAATGCTTATACCAGCTTTAAGAGGAGAGGCTTAACC
-TAATACATGTTTTGAATCTTTTTTATCATACCTTTTTGTAGTGCAGCATTGATCTTATGT
-CATCCGTCTAGGGTAACTTGTTCTTGTTCTACTTTTATCATGAAGTTATTGATTCTGTTA
-GAATATTAATAATGAATGCGAATGTGGAAACTGATATATTAAAATGTTGCTTTCTCTGTG
-AAAGCTTCCTTTCAGTTTAGTCTAAAGGAGTACATATAGAATATCCCCGTCTCTTATCCT
-ATGGACTTAATTTTTTATGGACAGGATTATAGGCAAACACATCCACATGTCGCGGTCCTT
-GATCCTCCAGATGCCATACAGCAGGTATATAATCGTCAATACATGCTTGAAGAGGTTGCA
-GACTTGAACTTGTCAGATAGCTATGGTAATTTTTCCACTTCTGTTTAATGATCAACAAGA
-CTTTCGTCATGAACTTATGATTATCTATATACAATTGCTGTTATCCTGAAAATAGGGAGT
-CTGTTTATTAGTTGTATGCACCAAGATTGTCAATTTACAGTTCCTGGAAGGCTTTTGATA
-AAACTGTTATGCTTAAGTGATGAGTAACTTGCTTTTGACAGGCAAAGTAGGTGTTCCCAG
-GCAATTGGTTATAGAGAAAGATCCTTCGTCTATCTCAGATGCAGTGGATAAAGCTGGTCT
-TTCACTACCTCTTGGTAAGTATATCTATATTTTGTTGTTGCTTATTTGGGATTAATCAAC
-TGATCGGTAACCATTTTTTGAACTTCCACAACTCGATAAAAGGTAGGGGCTAGCTATCAG
-ATCTTTACTTGCCATGGATGCAAGTCTGAATGAACTGGTAGGGCAATAGAGGGATAGACA
-TTGTTTTTTGCGGCTGTTCTTTTTTCTGAATGGAGTTGTTTTTGTGTTCTCAGTGGCAAA
-GCCTTTGGTTGCAAAGTCACATGAGTTGTCTTTGGCCTACGATATGGTCTCTCTTCAGAA
-GCTTGAACCACCGCTTGTTCTGCAGGAGTTTATCAATCATGGTATGTATTTCATTTAAAG
-GTTGAATTTGTGTATTTCATGTGCAGTTTTGCTTGAATTAGTGAGGTGGTGATACTTTGT
-CATTTTTGTGGTTGTAGGAGGTGTACTTTTTAAGGTTTTTATTGTTGGGGAAGCCGTTAA
-GGTTGTCAGGCGTTTCAGCTTACCAGATGTTAGCAAACTCGAGCTGTCCAACAATGCTGG
-GGTTTTCCATTTCCCTAGGGTTTCGTGTGTTGCAGCATCTGCAGAAGAAGCTGATTTAGA
-TCCTAGTGTTGGTGGTAAGCCATCTTTTTCTATATGAATTTGGTTACATTGTTGTACATA
-CCAGAATGTATCTAGCGCACTTTAATATGTAGACACCTATAGATATGGCTTTACACTTTG
-TTGGATAAATCATACAAGTTTCTTAAACACTTGATTCCTTATTTTCAAACAAGTGGGAAG
-ACTTCAAAGATTCTTGTCCATTTGATAAAATTATCATTTCATTTTTCCGGCTATAGATCG
-CCAAGACTAGGCAAGGATGTGATTGATTAAGGGTATCGATACTGTTCATAAAGTCCATAG
-
diff --git a/probes/mapping/blast/ch12-sc09-2_Product.fasta b/probes/mapping/blast/ch12-sc09-2_Product.fasta
deleted file mode 100644
index ba28b5ccbf280f3b798b000018ffa419115b16b7..0000000000000000000000000000000000000000
--- a/probes/mapping/blast/ch12-sc09-2_Product.fasta
+++ /dev/null
@@ -1,35 +0,0 @@
->S_lycopersicum_scaffolds.fa_SL2.40sc05611_528593_530597_ch12-sc09-2_Product
-TTTGCTGAGCTGGACAACAGAGCTACTATGCTTTGAACTAACCGCGAATTAATCTTACAT
-GAGTTACATAATAAGCGGAAAAGGAATCCATCCTTGTTATAGAAAATATTAAATGTTATT
-CTGTTTGCTTATGAAATATGAGAACCTTCATTTTCTAAGTGATTCTTGGATGATTACTCC
-AGCTTCCTGTGTTTTACATATGTTTCTTTATAAATGATAGTACAGCCCACAAAGATTTGA
-AAACAATGTTATGTTTTAAGTGTTCATAGACAATTGCAACATCATTTTTTTTGCATTTAT
-TGTTCTGTCTGATAGAGAAAGTGCAGGGAGAATTGTGATTACAAATGAGTAAGAAGGTTG
-TCGATATTTTGGCGTGGCCTACATTTTGCTAGCAATGGTATTGCCTTGGGCATAGTGAGT
-CCAGGTCCTCCAGTCATGTCAACCAGCTCTTCACTTACTCTCTCCCATTCAAAGCACTGA
-ATAAGTGATCCTAAAGCCAAACCAGCCACATGCATTGCCATATTCTCACCTGGACATCCT
-CTCCTGCCATATCCAAATGGCATTAGCCTGAACCCATCTCGTTGACCTTTGAAATCGATA
-AACCTTTCAGGCATGAACTCATTTGGCCTGTCCCACAACTTAACATCATTTTGTATTGCC
-CACAAATTCACTAGCAACATTGTCCCTCGGGGTACACGAAAACCTCCAACAACACACTCA
-TCTGAGGACTCGTGCGGCACAAGTAATGGAGCAGCTGGGCACAATCGGAGAGTTTCGTTT
-ATGATTCCATGGAGATAAGGGAGTTGAGCAAGGTCTGACTCATCAAGTAACCTTGATGAC
-TCTCCAAGGTGAGTGTCTATTTCGTTTTGAGCTTTCTTTAGTGCCTCAGGATTGTTCAGA
-AGAAGTGATAATGCCCATTCCATTGTGCTAGCTGTAGTATCAGTCCCTGCTGTTAACATG
-ACTATTCCCATGCCCTTTACCACTTCATCTGTGTAATAATCAGGCTCTGAATCTTGGAGG
-GATAACAGAACATCAATCATGGTATTGTTCTTTTGCTCCAAATAAGATCCCTTTCGTCGG
-TTCTTGTGCTCTTCAATCAATTCTTGCATGAATTTATCCCTCTTCTCCTGCAGTAACTTC
-ACCTTATCCTCAAGTTTGTTAACTCCTATCCATTTAAGAAGTGGCACAAAATCTCCTATA
-TTTGTTGCACCACTCACTTGGAAAGATTCGATAACAATCTCTTTAAACCTCCTAGATTCC
-TCCAATTTCCCAGCAGAATCACCATAGTATCTTTTCCCAGCGATCATCATCATCATGATA
-TTCAGTGTCATCTCAAAGAAAACCGCTTTCATATCCACCACGTTTGTGTTAGTATCTCCA
-CCACTAGTTTTCCCCCTTAGAAGTCGTTGCAGCAGAGCCCGAACCTCATCTCTATGGATA
-TCAGCGAACATTTGAACTCTCTGAGTAGACAAAACTTCATGAGTAGCAATCCTTCTTAGG
-TTGCGCCAATGTTGGCCATAGGATGCCCAAACAAGGGTGGTGTAGTTGTAACCAATATGT
-TTTCCAGCAAGCAGATTCACACGATTGGCAAAAACAACGTCGTTTTTGGTGAAACATTCC
-TCTGCAAGAGAAGGGGAGGAGACAACCAGGACAGGACGCGATCCAAATCGAAGGTATAGC
-AAAGGACCATGTTTTTCTGTTATGTTGGCTAATGTTTTATGAAGTGGTTTTTTGTTGAGT
-AGATATAGATGGCCTATAATGGGCAAAGAGATAAAGGGACTTGGTGGGAGATTTTGGAAT
-TTTCTAAGGAAATGGTTCTTTAGAATGTAAATGAAAGTGAAGATGAGTGTGTAATATGAA
-ATTTCCATGGTTGATGCAAATACAAGCAAACAAGACTTTTTGATAACTTTGCTCACTTGA
-TGATCATTATTTATACTAAAATGTTGTAATAAGGTATCTTTTGTGGATGGCAAAGTGCCA
-AGCATGCTTGTATTGTCAAACTAGG
diff --git a/probes/mapping/blast/ch12-sc09-4_Product.fasta b/probes/mapping/blast/ch12-sc09-4_Product.fasta
deleted file mode 100644
index 63aa3208b115437f09941e068685dd868b0c67aa..0000000000000000000000000000000000000000
--- a/probes/mapping/blast/ch12-sc09-4_Product.fasta
+++ /dev/null
@@ -1,61 +0,0 @@
->S_lycopersicum_scaffolds.fa_SL2.40sc05611_967164_970727_ch12-sc09-4_Product
-GACGCTCGCCTTCTTCATTACCATGCCAATCTTTTTCTACAACAAATTGTGGTTTCCATG
-CGATAAGAATACAATAACAGCGATAAAAAAGTGCATTGTTGATGCGGCTGATTTAGTAAA
-TTTGAAAACTATAGAAAGAACTGAGTTACCTGAATGAAATCTAGACGATTTGATGTACTG
-TCCATCTCCGTGTCCAACTCACTTAAGATCTTCTCCTGCAAGAACATATATTGATTTTAA
-CTACATTTTGCTTCGGAGGAGTTTAAGCAGAGCTGCAATTTGTTCAGTGACAAATTCAAG
-GAACTGGTTAAGCAGGTGGTCGCACTCACGTGTGCAAGAAGTTCATCGTGTATGGTGAGC
-CCAACATCTCCAATTCTGACTACGCTGGCACTAAGCTCGTCTAGTTCTTCATCCTGTTGC
-CTGCACAGACGATCAAGAAAATACGCTTTCTGAAAGTTATACTTAAAAGCTATAAAAATG
-ACATAGTACCATATCAAATAGATTCAAGATTATGCTACATCCTCTAAATTCTACGTTAAT
-TGAAGTCTTCTCGACATAATTTAAGTGCTGGCAAAACTATACTGCTAATACCTTTAATAA
-CAGGTACTAAAGGGTATTCAATACAGCATACTATTCCATGATAAATGAAGTTAAGTAGAC
-AAACTCAGAAAGCTAAAAAGACATGGCAGAATGGTTATGACTATGACATAAAGATCTTAG
-AGAGGCTGATGATACATATTATCCTCCCCTTATAAATAAAATCAAAGGCTAGGATTCCAT
-AGTAAAGATTGAGAAAACATTAAGATGCCTCAGAAAGATAAATGGATAGGTGCATGCAAG
-ATTTACAGTGAGATCGGAATAAAAATCAATTGGTAATAAAAATGACAAACAAGGATAGAT
-GCAAAGAAATGGAGGGAATATTACCTCATAAGAAGTAATTGTCTATCTGATTCTGATGAT
-ATGAAGTCATCATTATCTCGGGCATTGTATGCATTGGATCTCTCTTTCTGTTCAGAATCT
-GGCAATCTCAACAGTTCTCGCCGCATCCCACTCAGATTAGATGTACTTGTCCCATTTGAC
-TGTTTTCCAGCTACTACAGCTTTCTTCATGCTTCCCACCTGGTTAAAGGCAATTTGAAAT
-CGTTTATTTATTTTCAGGAACCAAGAAACAAAAGAATAGATATTTGGCATCAACAGAATC
-AGTTATACTTGAGCACGGGCATTGCTGGTCCATCTTCTTCTCTTATCAAGCTCAATATCA
-TTAATACCATACCAAGAAGGATCTCTTGCTGCAACATCAATTGTTTTGTCCAATTCATCC
-ACCTTCTCATCAAGAAAACAGGAATTCAGCATTGATAAGGATATGAAGCAAGTCATAGCA
-GCAGTAGATCAATATCAAATCACACTGACAGAAGAACAACTCTGGTTATGTTGCTATTGT
-TCACTGAAAGAAGAACATCTTTCCCTAAGTACTAAAGTCGACAGATTGGACAGCACAAAT
-TCATAGACTGAACTTAAGACAGGTGCAACACATCAAACATGCAATTGTCTCTGGCTATTC
-AAAATTGTCGTAATTCATTCACGTAAAGTACAGGCAATCAGGAAGAAATATAATGAGAAT
-TTAACAGACCAAACAGTGATAAGTATCAATTAACCAAGTTTCAAGGAGCTACGTTTCCGC
-ACATACCTGCCACTCAATGCTCTCAGATGAAGCAAGAAGTTCTTTGGTAAGATGTACTTG
-CTCACTACTTCCGGCAGAAGTTTGCTCCCATTGATGAAACGTGGACAAGAGCTTGTCAAT
-CTAACCAAGCAGGAATTTCAAGAGTTAGATTAAGTAGTCAACAAACTTGATCACATATGA
-GATCCAACAGATTCTACCAGCAAGGAGAGTCTTAGCTTATTTTTTCTTAATAGTAAAAGA
-GATGAAATTTCTTAGTTTGTTCAGCTTGTTTTTTTATTTTTTCTATGAAAATAGACAATA
-GCCACAAGAAAATCATAGCTTTCTTACCTGTTAGCTGTTACTGGAGTACTTGATTTTTAA
-ACCTTAGTCTCGAAGAATTATACTTTATCTCATAGAAACATTACTCACCCCCTTCCCAGA
-ATGTCGAGAGAGATGGAGATAGATACATGACAGGAAACACCACCAACCCTTCATGAATCT
-ATCTCCCATGCAAGAATAAGAACAACACACTAATAAAAAAAAACAAATCTCAGACGAATA
-AGATTTACTTCACTTCAAGATTATTAGAACATAACTAGATCGAAGTAGATGAACTTACAG
-ATTCTTGAATTTCCTCCTTGACAATATAGAAAGGATCTTGAGCTGAAGACATCTTCAACA
-CCAACTGTAGAACATTTAAGTGGACACATCAGATAATTAAATAACATATATAATACATAT
-AAAAAGCATCAGGAGAAAGATGATCGAGAACTATATCTTATACCCAGACATTGCAAAGTA
-GTACATCTCAAAATGCCTTTTCCGTAAAGTGTATTATGACAGAGAGATACAGTGGCACTT
-TAGCAAGAAGGGCTTTTCCGAGAAAATATGAAAATTACCAGAAGGATGAATTCCAAGAAA
-AATAATACTCCTATACATGACCAAATGATAATTATCTCCAGTAGGAAGGCATTACAAATA
-TCAAGTGCAAAAACTCAAAATTGTCCCCGGACTCCCGTCAGAAAAGAGTTAGGAGTATTT
-TGCTTGTTGATATATAACGCTAAGCATAAATGTGCCTTTATGTTTGTTCAAAGTGAACAC
-TTTTGGTCTGGGCTGAACCTAAAATACTTAAAAGCTAATGGAGAAGTGCAAATGCTAACA
-GTCCTATAGTAAATAAGGTGAACAACCTGTCTTCTACAACTAACTCGTCTGAGAAATGAG
-AAAAAACGCAAAGAAACCCAACTGAATCAAACCTTAACAAGTCCATGTTACCCTTCAGGT
-TTGTAATGGTAGTTGTTATTGCTACAAGAGTTCCAGATTGCCATTCTAAACCTTTCGAAT
-ATGAATTGTTGGTTTTTCAGGTAAAGCAAAGAACTCAAAGTTCTCTTTTTAGATAAGAAA
-CATTTATCCATGAGATGAGAACAAAATATAACTCTTAACAAAGGAAAAGGGTCCTGTGGA
-AATCCCCATACAAAATGAGATTTGTCAAAATTTTGGAAAGTAAGCTTTTCGTAGATAAAT
-TCCATCCCAATCCAATTGAACTCACAAAATTCAAACTAAACTGATCCTCTTTTGATAAAT
-GGAAAGACATAGGTTTGTGTCTTTCATTTCACGAAACAAGAAAAAAAATGTGAATGACAG
-TGAGGAACATGGCACATGATTTCATGGGAATAGACCAGGGTGAGAGTAGCTTGAAATAGA
-CCACAAACCTGTGCTGATATCCATTAAAAGGCCGATGTGCAGTATATATTTGGGCATTTA
-TATAGCCAAATCGGCAATCTAATGAGCTCCTTGATGCATTCAACTCAACATTAGTTTATT
-GCTTTTTTAGAAATTCAAATCATTTGTACATGGTTCGTATCCAAGAAAGCATGATTCACA
-AAACTTTTAATTGACATTACTGAA
diff --git a/probes/mapping/blast/ch12-sc10-1_Product.fasta b/probes/mapping/blast/ch12-sc10-1_Product.fasta
deleted file mode 100644
index c789afad706b863997fd1c5873c687c3a4215e18..0000000000000000000000000000000000000000
--- a/probes/mapping/blast/ch12-sc10-1_Product.fasta
+++ /dev/null
@@ -1,53 +0,0 @@
->S_lycopersicum_scaffolds.fa_SL2.40sc05380_1864775_1867879_ch12-sc10-1_Product
-AACCACCTCCGGTCTACCATCTCTAGACTACACTCATGGGATTGCTATGTTGTATATTCC
-TCGTCCATTGTTGAGGTTCGTTTATCAACAACATACGTGGATCATCTTCTCCCTACCTCG
-GATTGTAGAGAGGTTGTTTCTAAGGTCTGAAGGAAAGACAGTTCAAAGTAGTGCAGCAAA
-AGAAGTGACAGAAGTACAAAGATATAACAACGAAGAATGATCATAGAATGGAACTTCATG
-GACATGTAGTAGTTTTCATATTCATAAGAGGAAAAAAGTATCAAAATACAAAAATAATAT
-ATGAACCAAGTTTGCTGCCCTCAACGACTGAAGTGACAAAATTTGCAGCATCCTCATCCT
-GCAAAGCAAGCTTTGGTTTTACTGACATGGATCTTATTGAGAAGAAAAACTTGGATTCTA
-TAACAATACCAATACACCATGTAATCATCATCAGTGTAAACTAAACATGTAAATGCTTAA
-CGCCTCAACTTAGATTTGAAGAGGGAAATTTACAGCATATCTATCTAGTAAAAGAGGAAA
-TTACTAACCATCTACATCGAAGTGGCTCATGCAGAACTCATTATTCCTCCCTCTGAGGAT
-TGAAATTATGAGAGGAGAAGACGTAAAGACAATAACAACAACAGAGAAGTATATTGAACG
-ATAACTTGTTCAGTACACAACAAATTAAAGATGTTTTTTTTCTCCCTGAATTGAATAAAA
-CAAAAACAAAACCGAGTGTTGTGATTCTGCAATAAGAAAAATATGCAGCAGGGGTAAATG
-CAAGAAGACAGACAGTCTGTTATTGATCTAATATGAAATGCGAGCTCTATTTGCAAGCAT
-TTTGTTTCACATATAAAGACATTCTACTATCAAAACAGAGTCAATGGCATCTTATCTGCA
-AAACTGATGAGTTCTTATCCAAATGACCAAAAACGAAGATACAGGTGTAATATGAATCTT
-TCTGAAGCAAAATCAGCAGGAAATAAAGTTTCAGTTGAAATCCCGCAATCTCTTCTTCAA
-GATATCCATTGATTTTTTACGAGCACTCTGCTTTGTGTTTCTGCTCGAAAGACTTCCAAA
-GAGTCCATCCGCCGAATCTTTATACTTGTCACAGATAGTAGAAACTTTTTTATGATCTAG
-AGCATTATAGTTCTTCTCCCTTATGACAGGATTCATGAAGTTCTCTGGTTGACTGCTTAG
-GAGGAGGTTTATTAATTGTCTAACTTCTACCAAGCAACTTCGAAAGCTATCGTCCTTGTA
-AACCTCACTCAGCCCAGTACTATCAAACCTCTCATCAGCAAAAGACTCCAACGCTTTCAA
-ATCGTGGTTGATGCTCATTACTGCATTAACATTGAATCTCTTTATTGAGTCACTCAGAAA
-AGTTGACACAATTGAATTGGAGATATGCTCCAGAGCTCCAATCCCAACTTTATACAAAGC
-ATCCAGAGGTAAAATTTGTTGAGCAGTAGACAAGAGGGTGTCGAGATATATAACCACCTC
-GTTCATGCATTCGTTCCCTTGCTGTGGGGCATCCTCTGCTGTCCAATGGACATTTTCTGT
-GAGTGACATGAACTCATCCAGTTTTGCATTAACTAAGCTTAGTAATGCAATATAAGCAGC
-ATCTCTTGAAGTCTTGAGGACAATCTTGGCGGTTAAACTGCCTTGAGGCCTTTCAACTAA
-ACGGACAGGAATGCCACATTGTTGGGCTGCATGTTGAAGAAAGAAATCACAAGCCCTTTC
-AAAAACAGCTATATTTGCAGCAATTTGCATTGCCTGAGACACACCAGTTGTACCACTGTA
-GATAGTCTCAAGTAGGACTTCATTCAGTACATCAATCAAGAGCTTATCCAAATACTTCTT
-GACAAAATCAAAAAAATTCATTTGGCTCCCATAGGATAAGTAATTGACAGAATCTTTGAT
-GAATGACTTAACGATGCGACAGCATTCCGGAACCATGGAAGAGAATGGAGAAATAAAAGG
-GAAAGCTGGCATTATATCAGAGGTTTGTAGATGGAACAATAAAACATTTGCCTGATAATC
-TGACTCCCTCTTCATAACCATCTGCTCAAATGTATCATTGGTGACTATAGCAGTTATTTG
-TTGCCTACACTCTGCCAAAAGAAGTTCATGGTATTTTTCTCGACTACTATTTAGAGTCCC
-AAGAATCGCGCTCACTTCATAGCCATATTGTCTGAGGGTTGACCCAAGAAGAGTCACATA
-ATCCTTGACCATGAGAAGATGACTGGCACTATCCATGTGGGAGAACTGTTCTTCCAAGAG
-GGCAGTCACTTTACCTACAGCTGTTTCCCACATTGTCTCAACCTGATTAGGCAAGAGCAG
-ACCACCAGCAGTCCTTAATACTCGATCCTCAACAATAAAATAACCTGCAATCTGTGCCAA
-GAAGATTTGATGGGATTCTATGAATGGTTGTGACAATGAAATCTGCAAATCTGAACTCAG
-CTGCAATAAGCGATTCTTATAGTAATATTCACGAAACTGCTCTTGGATCCCCATACAACC
-ATGAATGTGACATGCTCGATAAAGAGGCGTCAGGTCAAACTTTAAGACAGATTCTTCATT
-AATCTCCTCAACATCTAGGGTATAAGTGAAGTCTCCTAACCCCAAACAACTTTGTTCCTC
-GGCTTTTCTTTGACGGGCTAGCATATCCTCATCCCTTTGACGAGCAGATGCAGCATATCC
-TATTGCAGTTTGCCCAATATCCTTTGCTGTACTCCTTATGTGAACTAGCCATTCATTAAT
-TTCACTGGTTACTCTCTTCTCAATATGCAATTTAATCAGTGGTATTCTCTTCTCTATCAT
-AGTCCTGAGTGGCTTGACGGGAATGTTCTGCAAATAACTTTTTTCAATCAGATCAATAGC
-CTTGATAGCAGGGTAAAACCGACCTTCAGAAACGTGGTTGTTACACTTTGCACAAAGTTC
-TAAAACTTGGACACAGTTGCCTGACATCTTAATTGCTTCTGTAACATTTTTCTTAATTGA
-AAAAGTTTCAAGAAGTTCTTCAAGTTTTAAGAGAAGGACACTCCCGACATCTTGCAGCTT
-CAGATTATCAGTTTGCAACTCAGCCTTTAACTCTTCTGCATCAAC
diff --git a/probes/mapping/blast/ch12-sc10-2_Product.fasta b/probes/mapping/blast/ch12-sc10-2_Product.fasta
deleted file mode 100644
index 3ff4a93afc4b65100ab52109dfefb98fc04580eb..0000000000000000000000000000000000000000
--- a/probes/mapping/blast/ch12-sc10-2_Product.fasta
+++ /dev/null
@@ -1,61 +0,0 @@
->S_lycopersicum_scaffolds.fa_SL2.40sc05380_1423814_1427393_ch12-sc10-2_Product
-ATTTTGAGATGGGCTGCTCCGATCTGACTTTAATATAGCTTTTCTCGTGGGTAATTTCTA
-TAATCAAGGGCTGAATGATCCTACTGCAGGCCACTACACTACATTTTAAGCAACATTTTA
-GTCAGTGTTGTCGAACATTCATTTAAGGTCCACGCCCTGAAGCTCAGAAAATCTCAGGCA
-GGCGCTTCACCTCGCTGAAGTTGCGCTGTGAAGGCAAGAAAATGAGGCTTGCACACCACT
-GCCATGAATTCTAGCTTGAATGGAGCTGTATTAAACAACAAATTTAATCGGCATATAAGT
-GTATTACATAGTTGTCAAGGAAAAGATTATGAATGAAGTTTGTTACCTTTTACTTGAATT
-ACATATTTATGTATAAATATGTTTTTCCCCTCCCATTGCACCTTATTTTTACCAAGCCCA
-CACTTCAATTTCACATTGCACTTAAAGATGCAATAGAACTAACACGCTTTTTAGAGCCTT
-TTACCTTTGGTGCAAGTTTCAACTACATATTTAATCACACAGCGAAATCAGTTGATGTTG
-CTTGAGAACACATTTTGTAGCACATTTTTCTTTTATACTAGTTTGAATAATACTAGCTTT
-CAGCAGTCATAAAAAGTAATACTTAGGTGAGATGCGAGGAGAAGTTATCATTGCGTAGAC
-CATTTTCTATGTCAATTGAAGAGCCTCTAATATCAGAAAATGTAAAGGTAACTAGTATGC
-TTTCCTCTTGGTTTGAGTTCAGCCGAATATGCAACATATGATTGTTGTATAAAGCTTTTC
-GTGGAACGGATTTCAATTAAGATCAATTGGATCTCATCAATACTTAACTTATTTGTAAAT
-TGTGATCACATGCACATTATCCTTTATATAGGGTGAACATTAGCAGGACTTTTTTTCCCT
-TATGCCTATTATTTGGAGAAAGAATATGCCTATCATTATGCCTTGATTAGCAACAGAAAC
-AATATGTGATACTTGTTGGTTAATTAATGAGTATCCGGTTGGAGTATTAGCTCATTTATA
-GCATGTGTTCCATTATAGTACTAGCTAGTTATTGGCGTGTATACTTGTACACCACTGTCT
-CTAAACAACAATCATTATTAAATTCCTGTACATTCTTTCGTCAGGATCAGGACACATCTC
-CTAAAAAATCTATACACAACCAATACATTTACTCACAAGATACTTATACAGTTATACCTA
-TTTCATATGAGTCACACCAAAAAGATGAATGAAACAAGATATGCATCACGAACTTTGTAG
-TTTGTATCGGCATTACATATAGGGCTTTAGCCTTCTATTGAGTAAGTGCCTGAGTTGGAG
-ATAATAAGACTTGAACAGTTGATGTTTTCCATGGTTGCAAGAAAAGAATATCTCGTTCTA
-TGCTCTGGTGATTGGTGATCTCTAGCTTGCCAGACACGCGAACTCCAGTCATTCTCCAAA
-TCATATTCCATGATTCCAAAGAAGCCTATTCATCTATGTTATAAAAGAAGAAGTCTATCC
-ATCTATTAGCTTCTCTCGTAGATCCACTGCGGTAAAAAAACCACATGCATTTTCATTGAT
-CAATCAAGATAGTTGCCACTACTCCTGAAGGCTAATTCTTGGATCATACAATTCTTGTTT
-TTTGTTTCATGCTTTATGCCTTCTCTTTTTTCATAATGGTAGATAAATTGCTAATCATCA
-TGAGTTGGATGATAGCCATTACCTAGTTCTCCTTTAATGGTCAAAACCTTTTTGGCTCTG
-TTGTCCTCCTTGTTGTCCTATCAATGTTGTTAATCTGCAATTGTGTTGCCTGAATTCTGA
-ATATAGAATCTTTTCCTTTTATTAGTTTTGCTGTAATTTTTCTTTCATCTCATAATTCTT
-TATCTTGTATCATTTGCAGCTAGAAGAGTTCCGCAAAAAGAAAGCAGAGAAGGCAAAAAA
-GTCAACTTCCAATAATCAACCTCATGGTTCGGGTGGAGGCTTTGATAACCAACCTTCAGA
-CAGTGAACACACAAGAATCACTGACTCTCGTGGAGCTGGTACATCTGATGCCCTTGATGG
-AGCTGTTTCAGAGTTATCTCGAGTAGACGTTACACATGATTTCAAGAATCCTGATCTTGC
-ACAGAAGAGTGGTTTCGCTTCTTCCTATGAAGCTAATGCTAGTCCTACTCATAGTTTACA
-CAACAATGATAATGATGCTAGCGCTACTTCTACTATTAGTGGAAACAATCATGGTTTTAC
-TTCTTCCATCTCCACGCCATCTCATTTTAGAGATAAAGTGCTTAAGGGTGATGAGAAACC
-TAAATCATCTGAACAATTCAGTGATAGTTATAATCCCCCTGAGAAGACGGAGAATGATGG
-AGCCTTGGGAAGTATTGGATTTGGATTTAATACTAGTCATTCTACACCTAATTTTCTGTC
-ATCATTCCCCAGTTACAGTAAATTTTCCGGTTTGTTTAGTCATGATGGTGTAGCTAAAAG
-TGAAATAGAGGGAAAAAAAACAAAAGATCTTTCTGTAATGAACTCTAGTACTTCTCATGC
-TTTTCCTGCTAATGTTTCACCTGAAAACTCCCGTGGTCCTCATCTGCAAGAAAAACCAGG
-TTTTATGGATCGTTGGGCTAGTGGGTTTACCTCCTCATCATATGAAGGTAACTTTATGGT
-AATTTGGAGTTCCGTTTTTTCTTTTTTTAATCCTTTATTGTGCTTCCTTTTTACCTTAGA
-GAGCCTCATTGCGTACCTGCGATTCATCTATCCAGTTAATTAATTGGGGTTGCATAATCT
-GACATCTATTTCCCTTTTTTTTTTGATAGATCATATGCGCCCCACAACCAGCAGTACAAA
-GTTTTCTTTGGAAGATGGGCAAAGAGATGGTACTGTTGAAGCTAATAGTTCTATAATTTC
-TGATATTGGGTATGGCCAGTTCAACAACTCTGGTTTTTACATGAATAATAATTCGTCTTC
-TTGGGCATCTGATTCTAAACATGAGGACATCAGTTCTGAAGCAAGAAGTTCTTCTAGTAA
-TTCAAAATTGTCTACAGCCACTGTTGGGAGGAAATCTCGTCCGTCTTTCCTTGATTCCAT
-CAACATTTCAAAAGTTCCTGTGGTATCCCCTTCTCCAACTGAATCAGTTTCTGCAGACAG
-ATTTGATCCAAAGGGTCATCCCACGGACACTTTGGAATCGTCCAACTCCAGGAACATGAT
-GACTTCTTCAACCTTTTCTGCAAGTGGGTCTGATCAGTTGAATCATCATGCTGAGAAAGA
-CACGGGGAACATGGACAACCGTTATCAGTCTTTTGCACAAAAACAGAATGAAGATTTTGC
-TGCTTTAGAACAGGTTTCTCCACATTTACTTCCCTTGCTTTAGAAAGTGATAAGTTTAGG
-TCAGGATGTCTTCAAAGTCAAAATTTAGTTTGAAAGTACTGCTAATTGATGGTTAATATA
-TGAAAAGCACTCTGCTGCTTCAGGATAGAAATCAGTCTTTATTAGAATGGAAAACCTTTT
-CGTCTTGTTTGGCTTAGTCATTTTAAATTGTCTCGATCAATTGTCCCTTTATGAAGCAAG
-TTTTTCTCTGTTCGACTAGGATGTTATGAATCCTTCTTTA
diff --git a/probes/mapping/blast/ch12-sc10-3_Product.fasta b/probes/mapping/blast/ch12-sc10-3_Product.fasta
deleted file mode 100644
index 698ce8eec9be14fc44c3c3d341a3ac6a0dbd82cf..0000000000000000000000000000000000000000
--- a/probes/mapping/blast/ch12-sc10-3_Product.fasta
+++ /dev/null
@@ -1,54 +0,0 @@
->S_lycopersicum_scaffolds.fa_SL2.40sc05380_927120_930266_ch12-sc10-3_Product
-GGTGGGTCTGCACGCTATACTCATTGAAATGCTTTACAGCATGAAGTGAGAACAGTAATG
-GAATCTTAGCATCTTATTAATGGCTATCTTCTTGCAGTGTTTATGTAGTATCTCTGATGC
-TTAAACTCAGTGAAAATTTATAACCTTTTATTTCAGAAGCAGTATTGGCATTGGCATGTA
-AATCTTAACAAATTTCTAACTCACATAATGTGCAGGTTCCATATAATGCTCGACATTCGC
-CACGTGGCATATTTTGCAGCCGCACATTAAATCTACGATCAATCAGTGCAATTGGATATG
-ATATGGACTATACACTGATGCACTATAACGTGATGGTACTTTTTAGTTCTTGTTTCATGT
-GATGTAAGCTATTAGCTCATGTTTTCTTTGTTACAAATTGAGGCTAATGTTCATTGGTTA
-CACATTTATTTCTTTCATTTGCCACCACATCTATTGTTTGCTTGATTGTTGAATTGCATA
-TGACAATGTTGTGCTATAGGGGAACTAATCCTATAAGGCAGCGTAGGCAGTTTTTATCCA
-TACATATGTTTTCTTTGTTACTAATCCTTTTATTTTGGTGCCTGATGAAGCTCTTATTTC
-ATTTGTATTAAGAGATTAAATTCTGATGATAAGAAAAAGTGCTTTATATGCGTTATCAAA
-AAAGAGAAAGTACTCTATTTGCCTTAAATTCGTTTATCTTTTTTTTTGAGTTGAAATATG
-ATTTTCCATTTTTATTCTCTTAGATTTTTGTTGGAAGTGCCATGACAGACTATCATTTAG
-ACTGTTTAAATTTAAAATACATTGCTGTCTTGTATATTCTTTTTGTCGTCCCTTGAGGAG
-CTTTAAATTGTTTTTGTCTTTGGCATATGTTACTGGTGTAGTATGATTTAAGTCCATAAT
-TTACAGGCCTGGGAAGGAAGGGCTTATGATTACTGCATGGAGAATCTGAGAAATGTGGGT
-TTCCCTGTGGATGGGCTTGCATTTGACCCTGATCTGGTATAGTCTGACCATGTGAGCATG
-CTAATGGTTTATTTAATACACATTTGAGGACATTTCATTATAAAACAGGTGATAAGAGGC
-CTTGTAATAGACAAAGAGAAAGGTAACCTAGTTAAAGCAGACAGATTTGGATATATCAAG
-AGGGCAATGCATGGAACAAGAATGCTTTCAACTCGAGAAGTGAGGTATGGCTTGGGCTTT
-TGTGTCTACTTGTCAGCTCAAATATAGATCCATATAACCGTAACTTCTAGCAAAGATTGT
-CCACAAAATGTTGCTTTGCAAATTGGGAAATAGAAGCTCACTACACAGCCAAAAGTTTTA
-TTTGCTCCATGAAAATTTGAATGAATGTTCTACATTTTGATTTGGAAAATTGGGTAATGT
-TTTGGTTAGTGTCTCATATTTTCTATGTTTGGAAGTGAGATCTACGGGAGAGAACTGGTT
-GACCTGCGTAAGGAGAGTAAATGGGAGTTCCTGAATACACTATTCTCAGTTTCAGAAGCA
-GTGGCTTATATGCAGGTAGATCACTTGGCCTCCCTCAGTATACATGCCATGACTCAATAC
-TAAAAGACATTATCTCTTCATGTTTGTCATATACATTTGTTAGTTTTTTTTTCTTGTGAA
-GGGATTTGTATTACTTCTATCTCTTCTTGATGCAGTTCCTTTCCTTGTTAAAATAAAATG
-TACTGATTTAGTAGGTCGTGACTTGTGGGTTTTCATTATTATTGTTATGTTTCTTTCTTT
-AGGTTGAGACATTTTGGTTATCTATTTTATATTCGTTTTAGGTTTTCTCTTGATCATAAG
-AAGCACATGCTTTATTACTGAAGTGGTTCTTGTTAACCAAATTTATAGATAGTTGTCTAC
-TCCTTTCTGTAGAGGCTGATATTTTGCTTAATTTATTTGGACAGAACGGTTCATCCAGTT
-GCCTGTTTCTGATTAATATTGATATTTGAATTGCATAAATTTATTGAACACCTGAGGTTT
-CAACTAAAAAGAATGTAATATTGCTTCTTCTGCACTTGCCCTAAATCCTAGACATGTCTC
-TTTTGCAGTTGGTAGATAGGCTGGATAAAGGAGTTATAGGACCAGATCTCTGTCCAAATG
-AGTATAAAGGACTTTACAAGGTATGGTTGGATGCTGTGTGTGAATGGATTGTGATGTGAA
-CATTGAGTTTGCCAACCTTTTTGTATTCTATTTAGGCTGTTGGTAAGGCACTCTTCAGGG
-CACATGTAGAAGGCCAGCTGAAGGTATGTGTTTCATTGATCCATTGCTTCACATGCCGGG
-AGCTGCAAATATCACTCTAAGCTATTTCACCCATGCAGAGTGAGATAATGTCCAAGCCTG
-AATTATTTGTGGAACCTGATCCTGAGCTACCTTTGGCATTATTGGATCAAAAGGAGGTAT
-TTCTAACTCTATCCATTTGATTGAATATCAGTCTATTTAGAGCCTTGCATAAGTAATCTT
-AATTAATTTAGCATAGCAAGTGTAGAAGTCCAATAGGACATCAATTGGGAGAATAAGTTG
-TCCAATTTCTTGTTAAGATTTATGAAGCCCCTATCAAAAAATGATGGCTGATTCAGCATC
-TAACATTTCATGTTTTATCAGGCTGGGAAGAGACTTTTACTGATTACAAATTCAGATTAT
-CATTACACAGACAAAATGATGCAGCATTCGTTCAATCGGTACCTTCCCAATGATATGAAC
-TGGCGAGATCTATTTGAGATGGTGAGTAAGCAGAACAGGATTTTGATAATAGCTAATCAT
-TGAAGTCTTTATCTCATAGTGTAATGCTTTTGAACAGAAGTTTATAGAAAAGATAATTTT
-GTCAACGCCAAATGTCACTGTTAGAATTTGATGGCTAACTATTTTGACTCCTTTATTGCT
-TTCTACAAATTTAAATTTCTCAGTGAAGTGTTAATTTTATCGAAGTGTTGATTGTTAAAT
-GACTCCAACCAAATGTATTTTCCTTCTTTACCCAATACAGGTTATAGTCTCAGCTAGGAA
-GCCAGAATTCTTCCAAATGGCCCACCCAATGTATGAAGTGGTGACTGGTGAAGGTCTGAT
-GCGTCCTTGTTTTAAAGCTCGCCCAGGTGATTAAACTTCTAAACTGATGATAGGAAAGTC
-ATCTCTATTTTGGATAAGTAAATGAAA
diff --git a/probes/mapping/blast/ch12-sc10-4_Product.fasta b/probes/mapping/blast/ch12-sc10-4_Product.fasta
deleted file mode 100644
index 0367714fd4c6d05f0e4635da39666c3844176ef4..0000000000000000000000000000000000000000
--- a/probes/mapping/blast/ch12-sc10-4_Product.fasta
+++ /dev/null
@@ -1,45 +0,0 @@
->S_lycopersicum_scaffolds.fa_SL2.40sc05380_369372_371958_ch12-sc10-4_Product
-CAAGTACATGGTGTGTAACATCCTCTATTATTCAGATTAATTTTTGTTTAGATGTAAAAA
-GAGTGAGGGTTATTTGTTGCTGAATGAGTGAAGTTCTTTTTGCCATGTCTAATACCACTT
-CTACTCAGCATTGTACTTCATTTTCAAGTTTTTATGCTTGAGCATGCATCTTTTTTTTTG
-GTTTTTGCATCTCATTGTGGATTCTTAAAGTGTAGTTTAGTGTCTAATACAGAGAGTTGC
-TGACTTTTACTTTCATATTAATGTTTGTCAGACCCTATATATTCTGGAGAACCTGTTCCA
-GATCTTACACCAGATTTCACTAAAGTCGACAAGCGATCCAATTCATGCATAGTAAGTGGA
-TCTTGTGCAACTTGATCTTAGTGATTTGGTAAACTTTGATTTCATAGTTCTCAACCATGA
-ACTTACTGCATTATATACAGGAGTGCTTGATTTGTGTCAAGTTGATAATTAATTGAATTT
-AGACTAGGAATTTTATGTATATCGTTTACTCTTGTGACAACAGTTGCTGATATACTTCAG
-TCAACTGATCTTTTAAATGAATAATGTGAAGGAAGTACCAATCATAGAACTGTGGTATAG
-CAACACTACACAAAAGAATCATGTAGGGCTATTAATTTGAACTTCTCTTTTGTTTAGATA
-TTTTGCATTGGACCATGGATATACCTTTTTTAAAAAAGAATCATCCACCGTGGAGGAAAA
-CTTGTTTTAGCGAGACCTTACCTATCTCGAGGTTTTAAATATCTTTACATTTTTCTACTG
-GCTCAAATGTGAATGGGTTGAGATAAAATTGTGCTTTATTTAGTGCCTCCTGCCCTACCA
-TATCTAGATCTTACAATCAAGGTTAAAGCACTTAAGTCAATCTGTTGAATTACCTACTCT
-GCTTTTACATTGGTCCAATAGGGGTATGGATCCATTTCCAAGATAAACTCTCATGGCTCT
-GATTTGGATGGTGCAAACTTAAAAAAGTCAAACAAGTCTTCTCATCCTGAATATTACATC
-AACCAAAAGCCTGATCGGAATTCCTCTATGCACAATGGTGATCGGTACTATCTTGGGCGG
-AACTCGTCGATAGAGATGCGCAAAGATTCTGGAAGAGAAGTGGCAGTTGATGGCAGATGC
-AACTATAAGCTTATGGCTAAACATGATGGTGCAGCCAATCCTGGCTCTAGTGGTGGTTTT
-CAAAGTTCCTACATTGGAAAAGTCAACAGGGAGCAGGTGACTGCTAGGTTCACTAGCCGT
-GATGGCTTGAGCCTTGACATTGCGGAGGAGGAAGATCTTCAATGCAAGCCTTCAAATTTT
-GTCCATAAGGGAAGTAAGCAACATTATTGTCCAGAGAGAGAGCTCTCCAGTACAGTTGAA
-AAGGTATAATGCCATTCTTGTGCTGTGCTTCTTTGTTATCCAGCTATATCTAGATAATTT
-TACCTTGATTGTGATATATAGGATTACATCCATGTGGACCGACCAACCGTTGATGAAGAT
-TATAATGAAGATCATGTGAAGATACAGTGGGAGAAGGAAATGAGGGTAAGCTTTTCAGCT
-CATGTTAGTATGTTACTATTTGTAATTCCTTTAGATAAAGATATGGTCATTTGAACTCTT
-TGAATACGAAATATTTTGAAGGTTGCCAAAAGAGCAACGGATGAGGAAGCTCCTAACCAT
-CAAGAGTATGTGAGGAAAGCATCAGTGACTAGAATGCCATCCCAGACAAATCATCAGATA
-AGGTTTGGCCATGTTTAAGACCTTGGTTTCTAATCTAATGTGCATCTATATTTGAACGTA
-TATGGCTCTATCTTGAGATGTTTGACTGAGATATCAAGGTTTTGGAGAATCATATTTAGT
-TCAATGGCTTTTGCTGAAACAATTTTAAAGATAGATTTGTGATGTAAAGTACAGAAGAAT
-GCATGGTAGAAAGTTCTGCCTCTCATAAGTGATTTATGTCTCCTGTCTCCAACTCCATTA
-CCTTGTCTTGTGCATTCATAGTAGGTTTACTTATGACACTTCTGAACAACGTACGGTCCT
-CTGTACATTGTGCATAGCATAGTGTTCAAACACAAACATTTGTAGCCATTACTGAGTGTG
-TCAAGTTCTGCTGTCTTGTATTTGTCGGTGTGATAGTAAAGATGTGAAGAATGTCTTTTA
-CCTTCTATATATGACAAAAGTGAAACTAGTAACCTGAAATGACTGGTTCCGATAATGTGA
-ATTATTTGCAATGCTGATGTATATAAGTTAAATGTTTTTAACAATTGTCTTCATTGTTAT
-GCTAACAATGATACTCTCTGTGTTCGTTCTAGTTTTGCTGCAGAGATGTCATCTAGCTTT
-AGTGAAGATGACAAAACAGAAGAAACCAGTTCTTTTGAGGATTGAGAGATTTACAGTTTC
-CAGAGAAAAGTTAAAAAGTGCAGAAGCTGTAGTGATTCTTGAATTCCTATTTGTTGATAG
-CTTAAGTTACTTTGGATTTGTACAGTTCAAAACAACTTATAATGCTCTCATCAGTACACC
-AGCATGTGAAATTGAACAACTTTGGTCTCTGTACAGTAAAAGTAGTAGTACTTTTTTTTA
-AAATGTA
diff --git a/probes/mapping/blast/pos b/probes/mapping/blast/pos
deleted file mode 100644
index aed1425186831c6e0fcfec3f77dad1c4bdb9a009..0000000000000000000000000000000000000000
--- a/probes/mapping/blast/pos
+++ /dev/null
@@ -1,43 +0,0 @@
-function cutFasta {
-    NAME=$1
-    SCAF=$2
-    START=$3
-    END=$4
-    fastaCut.pl ../../data/S_lycopersicum_scaffolds.fa $SCAF $START $END ${NAME}_Product > ${NAME}_Product.fasta
-}
-
-cutFasta ch12-sc02-1 SL2.40sc04878   622710   624594        
-#LENGTH=1884
-
-cutFasta ch12-sc02-2 SL2.40sc04878  3080728  3082538
-#LENGTH      1810
-cutFasta ch12-sc02-3 SL2.40sc04878  4093931  4095019
-#LENGTH      1088
-
-cutFasta ch12-sc03-1 SL2.40sc04057  3198454  3200936
-#LENGTH      2482
-cutFasta ch12-sc03-2 SL2.40sc04057  7835794  7838398
-#LENGTH      2604
-cutFasta ch12-sc03-3 SL2.40sc04057 13401063 13403730
-#LENGTH      2667
-cutFasta ch12-sc03-4 SL2.40sc04057 22823181 22827553
-#LENGTH      4372
-cutFasta ch12-sc03-5 SL2.40sc04057 23797776 23801944
-#LENGTH      4168
-
-cutFasta ch12-sc09-1 SL2.40sc05611   353222   355021
-#LENGTH      1799
-cutFasta ch12-sc09-2 SL2.40sc05611   528593   530597
-#LENGTH      2004
-cutFasta ch12-sc09-4 SL2.40sc05611   967164   970727
-#LENGTH      3563
-
-cutFasta ch12-sc10-1 SL2.40sc05380  1864775  1867879
-#LENGTH      3104
-cutFasta ch12-sc10-2 SL2.40sc05380  1423814  1427393
-#LENGTH      3579
-cutFasta ch12-sc10-3 SL2.40sc05380   927120   930266
-#LENGTH      3146
-cutFasta ch12-sc10-4 SL2.40sc05380   369372   371958
-#LENGTH      2586
-
diff --git a/probes/mapping/blast/res b/probes/mapping/blast/res
deleted file mode 100644
index 4ac938f4bc70b352aa35bc61353e9c379f846dc5..0000000000000000000000000000000000000000
--- a/probes/mapping/blast/res
+++ /dev/null
@@ -1,30 +0,0 @@
-------------------------------------------------------------------------------------------------------
-SEQUENCE     LENGTH QRY  IDENTITIES GAPS   STRAND        START QRY  END QRY  START HIT  END HIT   CHR
-------------------------------------------------------------------------------------------------------
-JBPP0904F    1080        916/929    6/929  Plus / Plus    45        973      62702526   62703448  12
-JBPP0904R    1046        943/965    3/965  Plus / Minus   12        975      62705998   62705036  12
-JBPPH036P06F 1272        321/343    1/343  Plus / Plus    50        392      16714832   16715173  12
-                         78 / 88    1/ 88  Plus / Minus   50        137      40283057   40282971  06
-JBPPH036P06R 1182        824/850    7/850  Plus / Minus    6        854      16716635   16715792  12
-                         192/223           Plus / Plus   253        475      58123364   58123586  03
-                         138/162           Plus / Plus   551        712      58123686   58123847  03
-                         151/175    1/175  Plus / Plus   542        716      40281038   40281211  06
-                         178/214           Plus / Plus   253        466      40280757   40280970  06
-JBSC0201F    1120        360/362    1/362  Plus / Plus    48        409      16714833   16715193  12
-                         79 / 87    1/ 87  Plus / Minus   48        134      40283056   40282971  06
-JBSC0201R    1161        766/776           Plus / Minus   17        792      16716621   16715846  12
-                         192/223           Plus / Plus   249        471      58123364   58123586  03
-                         138/162           Plus / Plus   547        708      58123686   58123847  03
-                         151/175    1/175  Plus / Plus   538        712      40281038   40281157  06
-                         178/214           Plus / Plus   249        462      40280757   40280970  06
-------------------------------------------------------------------------------------------------------
-
-
-------------------------------------------------------------------------------------------------------
-SEQUENCE     START FWD  END FWD   START REV  END REV   DISTANCE (START REV - START FWD)
-------------------------------------------------------------------------------------------------------
-JBPP0904     62702526   62703448  62705998   62705036  3472
-JBPPH036P06  16714832   16715173  16716635   16715792  1803
-JBSC0201     16714833   16715193  16716621   16715846  1788
-------------------------------------------------------------------------------------------------------
-
diff --git a/probes/mapping/blast/run b/probes/mapping/blast/run
deleted file mode 100644
index 0a49a403415f3b46d4d8ed843593c638798a53da..0000000000000000000000000000000000000000
--- a/probes/mapping/blast/run
+++ /dev/null
@@ -1,86 +0,0 @@
-DBFASTA=../../data/S_lycopersicum_chromosomes.fa
-DBNAME=tomato
-
-if [[ ! -f "db/tomato.nsq" ]]; then
-   echo MAKING DATABASE
-   formatdb -t $DBNAME -n db/$DBNAME -V -p F -i $DBFASTA
-fi
-
-
-
-function runBlast {
-    INFASTA=$1
-    PAR=$@
-
-    if [[ ! -f "$INFASTA.blast" ]]; then
-        echo "RUNNING $INFASTA"
-        CMD="blastn -outfmt 2 -evalue 1e-1 -db db/$DBNAME -out $INFASTA.blast -query ${PAR}"
-        echo "  CMD $CMD"
-        eval $CMD
-    else
-        echo "SKUPPING $INFASTA. EXISTS"
-    fi
-}
-
-
-OPTS='-gapopen 2 -gapextend 1 -num_threads 40 -word_size 6'
-
-runBlast 1_primers.fasta
-runBlast 2_sequences.fasta  
-runBlast JBPP0904_Product.fasta    $OPTS
-runBlast JBSC0201_Product.fasta    $OPTS
-runBlast ch12-sc02-1_Product.fasta $OPTS
-runBlast ch12-sc02-2_Product.fasta $OPTS
-runBlast ch12-sc02-3_Product.fasta $OPTS
-runBlast ch12-sc03-1_Product.fasta $OPTS
-runBlast ch12-sc03-2_Product.fasta $OPTS
-runBlast ch12-sc03-3_Product.fasta $OPTS
-runBlast ch12-sc03-4_Product.fasta $OPTS
-runBlast ch12-sc03-5_Product.fasta $OPTS
-runBlast ch12-sc09-1_Product.fasta $OPTS
-runBlast ch12-sc09-2_Product.fasta $OPTS
-runBlast ch12-sc09-4_Product.fasta $OPTS
-runBlast ch12-sc10-1_Product.fasta $OPTS
-runBlast ch12-sc10-2_Product.fasta $OPTS
-runBlast ch12-sc10-3_Product.fasta $OPTS
-runBlast ch12-sc10-4_Product.fasta $OPTS
-
-
-
-./blast2align.pl JBPP0904_Product.fasta.blast
-./blast2align.pl JBSC0201_Product.fasta.blast
-./blast2align.pl ch12-sc02-1_Product.fasta.blast
-./blast2align.pl ch12-sc02-2_Product.fasta.blast
-./blast2align.pl ch12-sc02-3_Product.fasta.blast
-./blast2align.pl ch12-sc03-1_Product.fasta.blast
-./blast2align.pl ch12-sc03-2_Product.fasta.blast
-./blast2align.pl ch12-sc03-3_Product.fasta.blast
-./blast2align.pl ch12-sc03-4_Product.fasta.blast
-./blast2align.pl ch12-sc03-5_Product.fasta.blast
-./blast2align.pl ch12-sc09-1_Product.fasta.blast
-./blast2align.pl ch12-sc09-2_Product.fasta.blast
-./blast2align.pl ch12-sc09-4_Product.fasta.blast
-./blast2align.pl ch12-sc10-1_Product.fasta.blast
-./blast2align.pl ch12-sc10-2_Product.fasta.blast
-./blast2align.pl ch12-sc10-3_Product.fasta.blast
-./blast2align.pl ch12-sc10-4_Product.fasta.blast
-
-
-
-#G5  OPEN
-#E2  EXTEND
-#W11 WORDSIZE
-
-#HTML -T
-#-m  alignment view options:
-#0 = pairwise,
-#1 = query-anchored showing identities,
-#2 = query-anchored no identities,
-#3 = flat query-anchored, show identities,
-#4 = flat query-anchored, no identities,
-#5 = query-anchored no identities and blunt ends,
-#6 = flat query-anchored, no identities and blunt ends,
-#7 = XML Blast output,
-#8 = tabular,
-#9 tabular with comment lines
-
diff --git a/probes/mapping/bwa.sh b/probes/mapping/bwa.sh
deleted file mode 100755
index 4e9be554767c5774a3a22f4de27f6e22b4b051ad..0000000000000000000000000000000000000000
--- a/probes/mapping/bwa.sh
+++ /dev/null
@@ -1,367 +0,0 @@
-#!/bin/bash
-
-export BWAFOLDER=bwa
-export RAWINFOLDER=raw
-export OUTFOLDER=out
-export RAWOUTFOLDER=bwa
-export MAPEXTENSION=sam
-export INFOLDER=../data
-export INFASTA=S_lycopersicum_chromosomes.fa
-export DBFASTAFILE=S_lycopersicum_chromosomes.fa
-export DBNAME=S_lycopersicum_chromosomes
-export CORES=40
-
-export INFASTQFOLDER=/mnt/nexenta/aflit001/nobackup/Data/Heinz/Heinz_Illumina/
-export INFASTQFOLDER2=/home/aflit001/temptive/probes/mapping/data2/
-
-export BWATHREADS=80
-export BWAALN_MAXEDIT=0.04  #-n
-export BWAALN_MAXGAPOPEN=1  #-o
-export BWAALN_MAXGAPEXT=-1  #-e
-export BWAALN_MAXEDITSEED=2 #-k
-export BWAEXP_MAX=3         #-n
-
-mkdir $BWAFOLDER   &>/dev/null
-mkdir $RAWINFOLDER &>/dev/null
-mkdir $OUTFOLDER   &>/dev/null
-
-set -o pipefail
-set -e
-
-LC_ALL=C
-SCRIPT_NAME=`basename ${BASH_SOURCE}`
-
-function echoMsg () {
-    SEC=$1
-    NAM=$2
-    PIP=$3
-    LNO=$4
-    DSC=$5
-    shift; shift; shift; shift; shift
-    MSG=$@
-    printf "[%-20b :: pid %05d :: ln %04d (%06ds)%b] %s\n" "$NAM" "$PIP" "$LNO" "$SEC" "$DSC" "$MSG" | tee -a err.log
-    #echo "[$SEC :: $NAM :: $LNO$DSC] $MSG" | tee -a err.log
-}
-
-
-export DSC=" :: FASTQ"
-
-echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "CHECKING INPUT FASTQ FOLDER '$INFASTQFOLDER'"
-if [[ ! -d "$INFASTQFOLDER" ]]; then
-    echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "NO INPUT FASTQ FOLDER FOUND '$INFASTQFOLDER'"
-    exit 1
-fi
-
-
-echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "GETTING INPUT FASTQ FILES"
-export INFASTQ=`find $INFASTQFOLDER -type f -name '*.fastq' -printf "%p "`
-echo "$INFASTQ"
-if [[ -z "$INFASTQ" ]]; then
-    echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "NO FASTQ FOUND '$INFASTQ'"
-    exit 1
-fi
-echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "FASTQ FOUND: $INFASTQ"
-
-
-
-echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "GETTING INPUT FASTQ2 FILES"
-export INFASTQ2=`find $INFASTQFOLDER2 -type f -name '*n.fastq' -printf "%p " | grep -P '[1|2|n].fastq'`
-echo "$INFASTQ2"
-if [[ -z "$INFASTQ2" ]]; then
-    echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "NO FASTQ FOUND '$INFASTQ2'"
-    exit 1
-fi
-echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "FASTQ FOUND: $INFASTQ2"
-
-
-
-echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "GETTING INPUT FASTQ2 FILES"
-export INFASTQ3=`find $INFASTQFOLDER2 -type f -name '*[1|2].fastq' -printf "%p " | grep -P '[1|2|n].fastq'`
-echo "$INFASTQ3"
-if [[ -z "$INFASTQ3" ]]; then
-    echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "NO FASTQ FOUND '$INFASTQ3'"
-    exit 1
-fi
-echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "FASTQ FOUND: $INFASTQ3"
-
-BASENAME="$OUTFOLDER/${INFASTA}_$DBNAME"
-
-echo $INFASTQ
-echo $INFASTQ2
-echo $INFASTQ3
-echo $BASENAME
-
-export DSC=" :: BWA INDEX"
-OUT="$BWAFOLDER/$DBNAME.pac"
-export DB=$OUT
-export DBNAMEFULL=$BWAFOLDER/$DBNAME
-CMD="bwa index -p $DBNAMEFULL -a is $INFOLDER/$DBFASTAFILE"
-echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" " RUNNING BWA INDEX"
-echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" " DB NAME FULL $DBNAMEFULL"
-
-if [[ ! -s "$OUT" ]]; then
-    echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "  RUNNING '$CMD'"
-    eval time "$CMD"  2>&1 | tee -a err.log
-    wait ${!}
-    if [[ ! -s "$OUT" ]]; then
-        echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" " *** ERROR CREATING $OUT :: CMD $CMD ***"
-        rm $BWAFOLDER/${DBNAME}* &> /dev/null
-        exitAll "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC"
-    else
-        echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "    $OUT CREATED"
-    fi
-else
-    echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "  $OUT EXISTS. SKIPPING"
-fi
-
-
-
-
-
-
-
-
-export DSC=" :: BWA ALN"
-OUT="$BASENAME.sai"
-export BWASAI=$OUT
-CMD="bwa aln      $DBNAMEFULL -t $BWATHREADS  -n $BWAALN_MAXEDIT \
-    -o $BWAALN_MAXGAPOPEN -e $BWAALN_MAXGAPEXT -k $BWAALN_MAXEDITSEED $INFASTQ > $OUT"
-
-echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" " RUNNING BWA MAP"
-
-if [[ ! -s "$OUT" ]]; then
-    echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "  RUNNING '$CMD'"
-    #twit.py finished bowtie-build \| starting bowtie $OUT
-    eval $CMD | tee -a err.log
-    #  2>&1 | tee -a err.log
-    wait ${!}
-    if [[ ! -s "$OUT" ]]; then
-        echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" " *** ERROR CREATING $OUT :: CMD $CMD ***"
-        rm ${OUT} &> /dev/null
-        exitAll "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC"
-    else
-        echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "    $OUT CREATED"
-    fi
-    #twit.py finished bowtie \| starting filtering
-else
-    echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "  $OUT EXISTS. SKIPPING"
-fi
-
-
-export DSC=" :: BWA SAMSE"
-export BWAEXP_MAX=1000  #-n
-OUT="${BASENAME}.sam"
-export BWASAM=$OUT
-CMD="bwa samse   -n $BWAEXP_MAX $DBNAMEFULL $BWASAI $INFASTQ $INFASTQ2> $OUT"
-
-echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" " RUNNING BWA EXPORT SAM"
-
-if [[ ! -s "$OUT" ]]; then
-    echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "  RUNNING '$CMD'"
-    #twit.py finished bowtie-build \| starting bowtie $OUT
-    eval time $CMD  2>&1 | tee -a err.log
-    wait ${!}
-    if [[ ! -s "$OUT" ]]; then
-        echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" " *** ERROR CREATING $OUT :: CMD $CMD ***"
-        rm ${OUT} &> /dev/null
-        exitAll "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC"
-    else
-        echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "    $OUT CREATED"
-    fi
-    #twit.py finished bowtie \| starting filtering
-else
-    echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "  $OUT EXISTS. SKIPPING"
-fi
-
-
-
-
-export DSC=" :: BWA-SW"
-OUT="${BASENAME}_2.sam"
-export BWASW=$OUT
-CMD="bwa bwasw      $DBNAMEFULL -t $BWATHREADS  -n $BWAALN_MAXEDIT \
-    -o $BWAALN_MAXGAPOPEN -e $BWAALN_MAXGAPEXT -k $BWAALN_MAXEDITSEED $INFASTQ3 > $OUT"
-CMD="bwa bwasw      -t $BWATHREADS  $DBNAMEFULL $INFASTQ2 > $OUT"
-
-echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" " RUNNING BWA MAP :: $OUT"
-if [[ ! -s "$OUT" ]]; then
-    echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "  RUNNING '$CMD'"
-    #twit.py finished bowtie-build \| starting bowtie $OUT
-    eval $CMD | tee -a err.log
-    #  2>&1 | tee -a err.log
-    wait ${!}
-    if [[ ! -s "$OUT" ]]; then
-        echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" " *** ERROR CREATING $OUT :: CMD $CMD ***"
-        rm ${OUT} &> /dev/null
-        exitAll "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC"
-    else
-        echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "    $OUT CREATED"
-    fi
-    #twit.py finished bowtie \| starting filtering
-else
-    echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "  $OUT EXISTS. SKIPPING"
-fi
-
-
-
-
-
-export DSC=" :: CONV2POS"
-OUT="$BASENAME.pos"
-export MAPPINGOUT_POS=$OUT
-CMD="perl -nae 'chomp; next if (index(\"@\", \	$F[0]) == 0);               \
-    \$size = length(\$F[9]);                                                \
-    my \$mm = 1; if (\$F[1] & 16) { \$mm = -1; } else { \$mm = 1; }         \
-    \$begin = \$F[3]; \$end = (\$F[3] + ( \$size * \$mm ) - 1);             \
-    if ( \$begin > \$end ) { \$t = \$end; \$end = \$begin, \$begin = \$t }; \
-    print \"\$begin\t\$end\t\$F[2]\t\$F[1]\t\$size\t\",(\$mm == 1 ? 'fwd' : 'rev'),\"\n\" \
-    if (substr(\$F[0],0,1) ne \"\@\")'                                      \
-    $BWASAM $BWASW > $OUT"
-ERRMSG="ERROR CREATING $OUT :: CHR $CHROMNAME :: SCA $SCAF :: $CMD"
-
-echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "      GENERATING RANGES FOR CHROMOSSOME $CHROMNAME SCAFFOLD $SCAF"
-
-if [[ ! -s "$OUT" ]]; then
-    echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "        RUNNING '$CMD'"
-
-    eval time "$CMD"  2>&1 | tee -a err.log
-    RES=$?
-    wait ${!}
-    if [[ $RES -ne "0" ]]; then
-        echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" " *** $ERRMSG :: EXIT WITH ERROR: $RES ***"
-        rm ${OUT2} &> /dev/null
-        rm ${OUT}  &> /dev/null
-        exitAll "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC"
-    elif [[ ! -s "$OUT" ]]; then
-        echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" " *** $ERRMSG :: COULD NOT FIND OUTPUT FILE ***"
-        rm ${OUT2} &> /dev/null
-        rm ${OUT}  &> /dev/null
-        exitAll "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC"
-    else
-        DID=$((DID+1))
-        echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "          $OUT CREATED"
-    fi
-else
-    echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "        $OUT EXISTS. SKIPPING"
-fi
-
-
-
-
-
-export DSC=" :: MKLIST"
-OUT="$MAPPINGOUT_POS.list"
-export MAPPINGOUT_POS_LIST=$OUT
-CMD="gawk '{print \$3}' $MAPPINGOUT_POS | perl -ne 'BEGIN{ %n = (); } END{ print join(\"\n\", sort keys %n)} chomp; next if (\$_ eq \"*\"); \$n{\$_} = \"\"' > $OUT"
-
-echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "    GENERATING LIST FOR $MAPPINGOUT_POS TO $OUT"
-
-if [[ ! -s "$OUT" ]]; then
-    echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "      RUNNING '$CMD'"
-
-    eval time "$CMD" 2>&1 | tee -a err.log
-    wait ${!}
-    if [[ ! -s "$OUT" ]]; then
-        echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" " *** ERROR CREATING $OUT :: $MAPPINGOUT_POS :: CMD $CMD ***"
-        rm ${OUT} &> /dev/null
-        exitAll "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC"
-    else
-        DID=$((DID+1))
-        echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "        $OUT CREATED"
-    fi
-else
-    echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "      $OUT EXISTS. SKIPPING"
-fi
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-for chr in `cat $MAPPINGOUT_POS_LIST`; do
-    export DSC=" :: $chr :: FILTER POS THROUGH LIST"
-    OUT="$MAPPINGOUT_POS.$chr.pos"
-    export MAPPINGOUT_POS_CHR=$OUT
-
-    echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "    GENERATING LIST FOR $MAPPINGOUT_POS_CHR CHR $chr TO $OUT"
-
-    if [[ ! -s "$OUT" ]]; then
-        CMD="grep $chr $MAPPINGOUT_POS > $OUT"
-        echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "      RUNNING '$CMD'"
-
-        eval time "$CMD" 2>&1 | tee -a err.log
-        wait ${!}
-        if [[ ! -s "$OUT" ]]; then
-            echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" " *** ERROR CREATING $OUT :: $MAPPINGOUT_POS_LIST :: CMD $CMD ***"
-            rm ${OUT} &> /dev/null
-            exitAll "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC"
-        else
-            DID=$((DID+1))
-            echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "        $OUT CREATED"
-        fi
-    else
-        echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "        $OUT EXISTS. SKIPPING"
-    fi
-
-
-    export DSC=" :: $chr :: MAKE COVERAGE"
-    OUT="$MAPPINGOUT_POS_CHR.cov"
-    export MAPPINGOUT_POS_CHR_COV=$OUT
-    CMD="cat $MAPPINGOUT_POS_CHR | ../range > $OUT"
-    ERRMSG="ERROR CREATING $OUT :: CHR $chr :: $CMD"
-
-    echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "      GENERATING RANGES FOR CHROMOSSOME $chr to $MAPPINGOUT_POS_CHR_COV"
-
-    if [[ ! -s "$OUT" ]]; then
-        echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "        RUNNING '$CMD'"
-
-        eval time "$CMD"
-        RES=$?
-        wait ${!}
-        if [[ $RES -ne "0" ]]; then
-            echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" " *** $ERRMSG :: EXIT WITH ERROR: $RES ***"
-            rm ${OUT2} &> /dev/null
-            rm ${OUT}  &> /dev/null
-            exitAll "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC"
-        elif [[ ! -s "$OUT" ]]; then
-            echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" " *** $ERRMSG :: COULD NOT FIND OUTPUT FILE ***"
-            rm ${OUT2} &> /dev/null
-            rm ${OUT}  &> /dev/null
-            exitAll "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC"
-        else
-            DID=$((DID+1))
-            echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "          $OUT CREATED"
-        fi
-    else
-        echoMsg "$SECONDS" "$SCRIPT_NAME" "$$" "$LINENO" "$DSC" "        $OUT EXISTS. SKIPPING"
-    fi
-
-    export MAPPINGOUT_POS_CHR_COV_SMOOTH="$MAPPINGOUT_POS_CHR_COV.smooth.cov"
-    if [[ ! -s "$MAPPINGOUT_POS_CHR_COV_SMOOTH" ]]; then
-        cat "$MAPPINGOUT_POS_CHR_COV" | ../add_smooth_colums.pl > $MAPPINGOUT_POS_CHR_COV_SMOOTH
-    fi
-
-    export MAPPINGOUT_POS_CHR_COV_SMOOTH_IMG="$MAPPINGOUT_POS_CHR_COV_SMOOTH.png"
-    if [[ ! -s "$MAPPINGOUT_POS_CHR_COV_SMOOTH_IMG" ]]; then
-        ../mkplot.pl --input=$MAPPINGOUT_POS_CHR_COV_SMOOTH
-    fi
-
-
-
-    echo
-    echo
-    echo
-    echo
-done
-
-
-
-