Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01010340.1 Corchorus capsularis cultivar CVL-1 contig10361, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 133170
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:13793 original size:2 final size:2
Alignment explanation
Indices: 13786--13813 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13776 TTCTTTTAAT
13786 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13814 AATAGTGCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15050 original size:2 final size:2
Alignment explanation
Indices: 15043--15075 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
15033 AATTCTCAAC
15043 TA TA TA TA TA TA TA TA TA -A TA TA T- TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15076 GCTTTATCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15751 original size:4 final size:4
Alignment explanation
Indices: 15742--15780 Score: 69
Period size: 4 Copynumber: 9.8 Consensus size: 4
15732 ATTACTTCAT
*
15742 ATAC ATAC ATAC ATAC ATAC TTAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
15781 TATATATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.28
Consensus pattern (4 bp):
ATAC
Found at i:24308 original size:11 final size:11
Alignment explanation
Indices: 24292--24317 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
24282 AGCAAATTTA
24292 AAAAAAAAAAG
1 AAAAAAAAAAG
24303 AAAAAAAAAAG
1 AAAAAAAAAAG
24314 AAAA
1 AAAA
24318 CTATCACAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:30930 original size:26 final size:26
Alignment explanation
Indices: 30901--30953 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
30891 TTACTGCTCA
*
30901 ATGATTTGATTATGTATTAAGTTTTG
1 ATGATTTGATTATGCATTAAGTTTTG
30927 ATGATTTGATTATGCATTAAGTTTTG
1 ATGATTTGATTATGCATTAAGTTTTG
30953 A
1 A
30954 GGTGTTTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.02, G:0.19, T:0.51
Consensus pattern (26 bp):
ATGATTTGATTATGCATTAAGTTTTG
Found at i:50966 original size:12 final size:12
Alignment explanation
Indices: 50951--50975 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50941 ACCAACTTAC
50951 ACTAATTAACCA
1 ACTAATTAACCA
50963 ACTAATTAACCA
1 ACTAATTAACCA
50975 A
1 A
50976 TTATTGGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (12 bp):
ACTAATTAACCA
Found at i:57347 original size:56 final size:58
Alignment explanation
Indices: 57280--57400 Score: 192
Period size: 62 Copynumber: 2.1 Consensus size: 58
57270 GGGAAATCCA
57280 TTACCTTCTCCTTTATATGTTTGG-AT-AAATTTATTTGGATTATTATAATAAAGATT
1 TTACCTTCTCCTTTATATGTTTGGAATAAAATTTATTTGGATTATTATAATAAAGATT
57336 TTACCTTCTCCTTTATATGTTTGGACATATAGAAATTTATTTGGATTATTATAATAAAGATT
1 TTACCTTCTCCTTTATATGTTTGG--A-ATA-AAATTTATTTGGATTATTATAATAAAGATT
57398 TTA
1 TTA
57401 TTGTACTCAC
Statistics
Matches: 59, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
56 24 0.41
60 2 0.03
62 33 0.56
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.49
Consensus pattern (58 bp):
TTACCTTCTCCTTTATATGTTTGGAATAAAATTTATTTGGATTATTATAATAAAGATT
Found at i:67961 original size:3 final size:3
Alignment explanation
Indices: 67953--67987 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
67943 ATATTTCCTT
67953 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
67988 TGCTTTCCCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:76559 original size:60 final size:59
Alignment explanation
Indices: 76451--76563 Score: 151
Period size: 59 Copynumber: 1.9 Consensus size: 59
76441 ACGTCGGGCC
*
76451 CTTATTTGAGCATTTTAGATACGTTAGGCCCTTATTTAGCTAAATTAAAAGATCAGATT
1 CTTATTTGAGCATTTTAGATACGTTAGGCCCTTATTTAGCCAAATTAAAAGATCAGATT
*
76510 CTTATTTGAGCATTTTCA-ATAATGTTAGG-CC-TATATTAGGCCAAATTAAAAGAT
1 CTTATTTGAGCATTTT-AGAT-ACGTTAGGCCCTTAT-TTA-GCCAAATTAAAAGAT
76564 TAAGCATTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
58 3 0.06
59 23 0.48
60 22 0.46
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (59 bp):
CTTATTTGAGCATTTTAGATACGTTAGGCCCTTATTTAGCCAAATTAAAAGATCAGATT
Found at i:78948 original size:82 final size:82
Alignment explanation
Indices: 78793--78950 Score: 239
Period size: 82 Copynumber: 1.9 Consensus size: 82
78783 GTTTAATCTC
* *
78793 TTATATAGAGTCACAAGCATAAACAAAGTTATATATAGCACACAAAAAATCATAAAAGGATAACT
1 TTATATAAAGTCACAAGCATAAACAAAG-T-TATATAGCACACAAAAAATCATAAAAGGAGAACT
78858 AATTTGAATGTAAAATCCG
64 AATTTGAATGTAAAATCCG
78877 TTATATAAAAGTCACAAGCATAAACAAAG-T-TATAGCACACAAAAGAATCATAAAAGGAGAACT
1 TTATAT-AAAGTCACAAGCATAAACAAAGTTATATAGCACACAAAA-AATCATAAAAGGAGAACT
*
78940 ATTTTGAATGT
64 AATTTGAATGT
78951 GTAAATAAGG
Statistics
Matches: 69, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
81 14 0.20
82 28 0.41
84 6 0.09
85 21 0.30
ACGTcount: A:0.50, C:0.13, G:0.13, T:0.25
Consensus pattern (82 bp):
TTATATAAAGTCACAAGCATAAACAAAGTTATATAGCACACAAAAAATCATAAAAGGAGAACTAA
TTTGAATGTAAAATCCG
Found at i:80418 original size:2 final size:2
Alignment explanation
Indices: 80413--80440 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
80403 AGATGGAGGG
80413 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
80441 GAATACATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:91223 original size:115 final size:115
Alignment explanation
Indices: 91021--91234 Score: 419
Period size: 115 Copynumber: 1.9 Consensus size: 115
91011 ATGACGATTG
*
91021 CACATGAAGAATCATTTGGAAAGTAACATAAAGCTAATTGTGATTTTATGACACAGTTTTGTCAA
1 CACATGAAGAATCATTTGGAAAGTAACATAAAGCTAATTGTGATGTTATGACACAGTTTTGTCAA
91086 GTTCTTAATGACACAAATCTAAAGGTTGCTAGATTCATGTTGCTTAATGA
66 GTTCTTAATGACACAAATCTAAAGGTTGCTAGATTCATGTTGCTTAATGA
91136 CACATGAAGAATCATTTGGAAAGTAACATAAAGCTAATTGTGATGTTATGACACAGTTTTGTCAA
1 CACATGAAGAATCATTTGGAAAGTAACATAAAGCTAATTGTGATGTTATGACACAGTTTTGTCAA
91201 GTTCTTAATGACACAAATCTAAAGGTTGCTAGAT
66 GTTCTTAATGACACAAATCTAAAGGTTGCTAGAT
91235 ATATGTGGGA
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
115 98 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (115 bp):
CACATGAAGAATCATTTGGAAAGTAACATAAAGCTAATTGTGATGTTATGACACAGTTTTGTCAA
GTTCTTAATGACACAAATCTAAAGGTTGCTAGATTCATGTTGCTTAATGA
Found at i:130859 original size:328 final size:323
Alignment explanation
Indices: 130172--132946 Score: 1304
Period size: 323 Copynumber: 8.6 Consensus size: 323
130162 AGTTTTGCAA
* * * *
130172 GATTTTTGACGTAAAGACTCCTTGAAATATCTATAATCATCGAACCAAATCT-AGCCACATTCGA
1 GATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACATTGGA
* * * *
130236 TTTAAGGATTTGTTTTTA-AGAGTATCTGAATCTTATTTCGATTTAATTAGAAATTAATTC-GAA
66 TATAAGGATTTGTTTTTACA-AGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCAGAA
* *
130299 AAAAAT-GGAAAACCGATATTAGAAGCGTTAAAAACCCTTCAATCTTTTTGCCGTTGAATTA-TA
130 AAAAATGGGAAAA-CGATATTAGAAGCGTGAAAAA-CCTTCAAT-TTTTTGGCGTTGAATTATTA
* * * * * ** *
130362 TTCTTTTATGAGTAATGTGGCAAAAAATTGAGAAAAATTTTTTTGGTCAGTTTTTGCAAAATTTG
192 TT-TTTTCTAAGTAATGCGGCAAAAAATAGAGAAAAAATTTTCGGGTAAGTTTTTGCAAAATTTG
* * * * *
130427 AGTCGAAATCGCGTAACATCACGGTTTTTGGCTAAAACGCGTTCCAGAGCCCCGTCTCAACTTTA
256 AGTCGAAATCGCGCAACATCACGATTTTTAGATAAAACACGTTCCAGAGCCCCGTCTCAACTTTA
130492 CAT
321 CAT
* * *
130495 GATTTTTGGAGCAAAAACTCCTTAAAATATCTATATTCATCGAACCAAATCTCAGCCACATTGGA
1 GATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACATTGGA
*
130560 TATAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAATTATAAATAAATTCAGCTA
66 TATAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCAG--A
* *
130625 AAAAAATGGGAAAACGATATTA-ACAGCGTGAAGAACCTTTCAATTTTCTTGGCGTCGAATTATT
129 AAAAAATGGGAAAACGATATTAGA-AGCGTGAAAAACC-TTCAATTTT-TTGGCGTTGAATTA-T
* * *
130689 TATTTTTTCTAAGTATTGCGGGAAAAGATAGAGAAAAAAATTTTCGGGTAAGTTTTTGCAAAATT
190 TATTTTTTCTAAGTAATGCGGCAAAAAATAGAG-AAAAAATTTTCGGGTAAGTTTTTGCAAAATT
* * *
130754 TGAG-CTGAAATCGTGCAACATTACGATTTTTAGATAAAACACGTTCCAGAG-CCCGTCTCAATT
254 TGAGTC-GAAATCGCGCAACATCACGATTTTTAGATAAAACACGTTCCAGAGCCCCGTCTCAACT
130817 TTACAT
318 TTACAT
* * * *
130823 GGTTTTTGGCGCAAAGACACCTTGAAGTATCTATATTCATCGAAACAAATCTCAGCCACATTGGA
1 GATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACATTGGA
* * *
130888 TATAAGGATTTGTTTATACGAGCATCTGAATATTGTTTCGATTTAATTAGAAATTAAATT-AGAA
66 TATAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAATTAGAAA-TAAATTCAGAA
* * * *
130952 AAAATTGGAAAAACGATATTAGAAGCGTGAAAAATACGTCAATTTTTATGGCGTTGAATTATATA
130 AAAAATGGGAAAACGATATTAGAAGCGTGAAAAA-CCTTCAATTTTT-TGGCGTTGAATTAT-TA
* * * * * * *
131017 TTTTTTCTGAATGT--TGTGACAAAACATACAGAAAAAAAATTTCGGGTCAGATTTTAGCCGAAA
192 TTTTTTCT-AA-GTAATGCGGCAAAAAATAGAG-AAAAAATTTTCGGGTAAG-TTTTTG-C-AAA
* * ** * ** * * * * * *
131080 A--T-CGT-G---T-ACGTTACATCACGGTTTTGGGCCTAAAAACGCGGTT-CGGGGCTCCGGCT
251 ATTTGAGTCGAAATCGCGCAACATCACGATTTTTAG-AT-AAAACAC-GTTCCAGAGCCCCGTCT
** *
131136 CAGTTTTGCAT
313 CAACTTTACAT
* * * * * ** *
131147 G-TATTTCGGCAG-AAAGTCAT-ATTAAAATATCTATATTAATATAACCAAATCTCAGCCACACT
1 GAT-TTTTGGC-GCAAAGAC-TCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACATT
* * * * ** *
131209 GGATATAAGGATTTGTTTTTACGAGCATATGAATCTTATTTCGACTTAATTAGAAATTCATTCGG
63 GGATATAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCAG
* * * * *
131274 AAAAAAATGGAAAAACTATATTAGAAGCGTGAAAAACACATCTACA-TTTTTGGCATTAAATTA-
128 AAAAAAATGGGAAAACGATATTAGAAGCGTGAAAAAC-CTTC-A-ATTTTTTGGCGTTGAATTAT
* * * * * * * *
131337 TATATTTT-TGAGATCATTGTAGG-AAAAAATTCAAAAAAAAAAATTTCGGGTCAGTTTTTAGCC
190 TATTTTTTCTAAG-T-AATG-CGGCAAAAAA-T-AGAGAAAAAATTTTCGGGTAAGTTTTT-G-C
* * * * ** * * * * *
131400 GAAAA--T-CGT-G---T-AC-TAACCATCACGGTTTTGGGCTAAAAACGCGGTT-CGGGGCTCC
248 -AAAATTTGAGTCGAAATCGCGCAA-CATCACGATTTTTAGAT-AAAACAC-GTTCCAGAGCCCC
* ** *
131455 GACTCAGTTTTGCAT
309 GTCTCAACTTTACAT
* * * * * ** *
131470 GATTTTCGGCTG-AAAGCCTCATTCAAATATCTATATTAATATAACCAAATCTCAGCCACACTGG
1 GATTTTTGGC-GCAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACATTGG
* * * * *
131534 ATATAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGACTTAATTAGAAATTAATTC-GGA
65 ATATAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCAGAA
* * * * * *
131598 AAAAATGGAAAAACTATATTAAAATCGTGAAAAACATGTCAATTTTTTTGGCATTGAATTATATA
130 AAAAATGGGAAAACGATATTAGAAGCGTGAAAAACCT-TCAA-TTTTTTGGCGTTGAATTAT-TA
* * * * ** * * *
131663 TTTTTT-TAGAGCATTGTGGCACAAAATTCA-AAAAATAATTTCGGGTCAGATTTT-----A---
192 TTTTTTCTA-AGTAATGCGGCAAAAAATAGAGAAAAA-ATTTTCGGGTAAGTTTTTGCAAAATTT
* * * * * * * * *
131718 GA--CGAAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGGTT-CGGTGCTCCGACT
255 GAGTCG-AAATCGCG--C-AA-CATCACGATTTTTAGAT-AAAACAC-GTTCCAGAGCCCCGTCT
**
131780 CAGTTTTTA-ATT
313 CA-ACTTTACA-T
* * * * ** **
131792 GATTTTCGGCAG-AAAGCCTCATTGAAATATCTATATTAATATAACCAAATCTCAGCCACGCTGG
1 GATTTTTGGC-GCAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACATTGG
* * * * * * *
131856 ATATAAAGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAACTACAAATTAATTCGGAA
65 ATATAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCAGAA
* * *
131921 AAAAAT-GGAAAAAGTATATTCA-AAGCGTGAAAAACACATCAATTTTTTGGCATTGAATTATAT
130 AAAAATGGGAAAACG-ATATT-AGAAGCGTGAAAAAC-CTTCAATTTTTTGGCGTTGAATTAT-T
** * * * ** * *
131984 AAAATTTT-TAGAGCATTGTGGCAAAAAAT-GTTTTAAAAAA-ATT-GGGTCAGTTTTTAGCCGA
191 -ATTTTTTCTA-AGTAATGCGGCAAAAAATAG--AGAAAAAATTTTCGGGTAAGTTTTT-G-C-A
* * * * * * * * * ** *
132045 AAA--T-CGT-G---T-AC-TAACATCACGGTTTTTGGCTAAAA-ACGTGATTCGGGGATCCGGC
249 AAATTTGAGTCGAAATCGCGCAACATCACGATTTTTAGATAAAACACGT--TCCAGAGCCCCGTC
** *
132100 TCAGTTTTGCAT
312 TCAACTTTACAT
* * * * ** * * *
132112 GATTTTCGGCAG-AAAGTCTCATTGAAATATCTATATTAATATAACCAAATCTCATCCACACTAG
1 GATTTTTGGC-GCAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACATTGG
* * *
132176 ATATAAGGATTTGTTTTTACTAGCATCTGAATCTTATTTCGATTTAATTAGAAATTAATTCAGAA
65 ATATAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCAGAA
* * * * *
132241 AAAAATGGAAAAACTATATTAGAAGCATGAAAAACATGTCAATTTTTTTGGCATTGAATTATATA
130 AAAAATGGGAAAACGATATTAGAAGCGTGAAAAACCT-TCAA-TTTTTTGGCGTTGAATTAT-TA
* * * * * ** * * *
132306 TTTTTTTTAGAGCATTGTGGCACAAAATTCA-AAACAAAATTTCGGGTCAGATTTT-----A---
192 TTTTTTCTA-AGTAATGCGGCAAAAAATAGAGAAA-AAATTTTCGGGTAAGTTTTTGCAAAATTT
* * ** * * * * * *
132362 GA--CGAAAATCGTGTACTAACCATCACGGTTTTGGGCTAAAAACGCGGTT-CGGTGCTCCGACT
255 GAGTCG-AAATCGCG--C-AA-CATCACGATTTTTAGAT-AAAACAC-GTTCCAGAGCCCCGTCT
** *
132424 CAGTTTTGCAT
313 CAACTTTACAT
* * * * * ** *
132435 GATTTTCGGCTG-AAAGCCTCATTCAAATATCTATATTAATATAACCAAATCTCAGCCACACTGG
1 GATTTTTGGC-GCAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACATTGG
* * * **
132499 ATATAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATTAGAAATTAATTC-GGG
65 ATATAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCAGAA
* * * * *
132563 AAAAAT-GGAAAAAGTATATTAAAAGCGTGAAAAACACGTCAATTTTTTTGCATTGAATTATATA
130 AAAAATGGGAAAACG-ATATTAGAAGCGTGAAAAAC-CTTCAATTTTTTGGCGTTGAATTAT-TA
* * * * ** * * *
132627 TCTTTT-TAGAGCATTGTGGCAAAAAATTTTCAAAAAAAAATTTCGGGTCAGTTTTTAGCTGAAA
192 TTTTTTCTA-AGTAATGCGGCAAAAAA--TAGAGAAAAAATTTTCGGGTAAGTTTTT-GC--AAA
* * * * ** * * * * * *
132691 A--TCA-T-G---T-AC-TAAGCATCACGGTTTTGGGCTAAAAACGCGGTT-CGGGGCTCCGTAT
251 ATTTGAGTCGAAATCGCGCAA-CATCACGATTTTTAGAT-AAAACAC-GTTCCAGAGCCCCGTCT
** *
132746 CAGTTTTGCAT
313 CAACTTTACAT
* ** * * * ** *
132757 GATTTTCAGAAG-AAAGCCTCATTGAAATATCTATATTAATATAACCAAATCTCAGCCACACTGG
1 GATTTT-TGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACATTGG
* * * *
132821 ATATAAGGATTTGTTTTTACAAGCATCTGAATCTTATATCGATTTAATTAGAAATTAATTCGGAA
65 ATATAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCAGAA
* * * *
132886 AAAAAT-GTAAAAAGTATATTTA-AAGCGTGAAAAACACGTCAATTTTTTGGCATTGAATTAT
130 AAAAATGGGAAAACG-ATA-TTAGAAGCGTGAAAAAC-CTTCAATTTTTTGGCGTTGAATTAT
132947 ATATATATTT
Statistics
Matches: 2082, Mismatches: 238, Indels: 264
0.81 0.09 0.10
Matches are distributed among these distances:
312 1 0.00
313 2 0.00
314 1 0.00
316 1 0.00
317 1 0.00
318 2 0.00
319 6 0.00
320 192 0.09
321 188 0.09
322 462 0.22
323 507 0.24
324 297 0.14
325 21 0.01
326 100 0.05
327 55 0.03
328 158 0.08
329 83 0.04
330 2 0.00
331 3 0.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.34
Consensus pattern (323 bp):
GATTTTTGGCGCAAAGACTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACATTGGA
TATAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAATTAGAAATAAATTCAGAAA
AAAATGGGAAAACGATATTAGAAGCGTGAAAAACCTTCAATTTTTTGGCGTTGAATTATTATTTT
TTCTAAGTAATGCGGCAAAAAATAGAGAAAAAATTTTCGGGTAAGTTTTTGCAAAATTTGAGTCG
AAATCGCGCAACATCACGATTTTTAGATAAAACACGTTCCAGAGCCCCGTCTCAACTTTACAT
Found at i:131567 original size:323 final size:319
Alignment explanation
Indices: 130155--133164 Score: 3439
Period size: 322 Copynumber: 9.3 Consensus size: 319
130145 GTTTTTAGTC
* * * * * * * * **
130155 CCGATTCAGTTTTGCAAGATTTTTGAC-GTAAAGACTCCTTGAAATATCTATAATCATCGAACCA
1 CCGACTCAGTTTTGCATGATTTTCGGCAG-AAAGCCTCATTGAAATATCTATATTAATATAACCA
* * * * *
130219 AATCT-AGCCACATTCGATTTAAGGATTTGTTTTTAAGAGTATCTGAATCTTATTTCGATTTAAT
65 AATCTCAGCCACACTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAAT
* * * * *
130283 TAGAAATTAATTC-GAAAAAAATGGAAAACCGATATTAGAAGCGTTAAAAACCCTTCAATCTTTT
130 TAGAAATTAATTCGGAAAAAAATGGAAAAACTATATTAGAAGCGTGAAAAACACGTCAAT-TTTT
* * * * * * * ** **
130347 TGCCGTTGAATTATAT-TCTTTTATGAGTAATGTGGCAAAAAATTGAGAAAAATTTTTTTGGTCA
194 TGGCATTGAATTATATATTTTTTA-GAGCATTGTGGCAAAAAATTCAAAAAAAAATTTCGGGTCA
* * * *
130411 G-TTTTTG-C-AAAATTTGAGTCGAAATCGCGTAACATCACGGTTTTTGGCT-AAAACGC-GTTC
258 GATTTTAGCCGAAAA--T-CGT-G---T-AC-TAACATCACGGTTTTGGGCTAAAAACGCGGTT-
* * *
130471 CAGAGCC
313 CGGGGCT
* ** * * ** * * * **
130478 CCGTCTCAACTTTACATGATTTTTGG-AGCAAAAACTCCTTAAAATATCTATATTCATCGAACCA
1 CCGACTCAGTTTTGCATGATTTTCGGCAG-AAAGCCTCATTGAAATATCTATATTAATATAACCA
* * *
130542 AATCTCAGCCACATTGGATATAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTAAT
65 AATCTCAGCCACACTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAAT
* * * * * * *
130607 TATAAATAAATTCAGCTAAAAAAATGGGAAAACGATATTA-ACAGCGTGAAGAAC-CTTTCAATT
130 TAGAAATTAATTC-G-GAAAAAAATGGAAAAACTATATTAGA-AGCGTGAAAAACAC-GTCAATT
* * * * * * * ** *
130670 TTCTTGGCGTCGAATTATTTATTTTTTCTA-AGTATTGCGGGAAAAGATAGAGAAAAAAATTTTC
191 TT-TTGGCATTGAATTATATA-TTTTT-TAGAGCATTGTGGCAAAAAATTCA-AAAAAAAATTTC
* * * * * * ** * *
130734 GGGTAAG-TTTTTG-C-AAAATTTGAGCTGAAATCGTGCAACATTACGATTTTTAGAT-AAAACA
252 GGGTCAGATTTTAGCCGAAAA--T-CG-TG-TA-C-T--AACATCACGGTTTTGGGCTAAAAACG
* *
130795 C-GTTCCAGAGC-
308 CGGTT-CGGGGCT
* * * * * * * * * * ** *
130806 CCGTCTCAATTTTACATGGTTTTTGGC-GCAAAGACACCTTGAAGTATCTATATTCATCGAAACA
1 CCGACTCAGTTTTGCATGATTTTCGGCAG-AAAGCCTCATTGAAATATCTATATTAATATAACCA
* * * *
130870 AATCTCAGCCACATTGGATATAAGGATTTGTTTATACGAGCATCTGAATATTGTTTCGATTTAAT
65 AATCTCAGCCACACTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAAT
* * * *
130935 TAGAAATTAAATT-AGAAAAAATTGGAAAAACGATATTAGAAGCGTGAAAAATACGTCAATTTTT
130 TAGAAATT-AATTCGGAAAAAAATGGAAAAACTATATTAGAAGCGTGAAAAACACGTCAATTTTT
* * *** * * *
130999 ATGGCGTTGAATTATATATTTTTTCTGAATGTTGTGACAAAACATACAGAAAAAAAATTTCGGGT
194 -TGGCATTGAATTATATATTTTTT-AGAGCATTGTGGCAAAAAATTCA-AAAAAAAATTTCGGGT
*
131064 CAGATTTTAGCCGAAAATCGTGTACGTTACATCACGGTTTTGGGCCTAAAAACGCGGTTCGGGGC
256 CAGATTTTAGCCGAAAATCGTGTAC-TAACATCACGGTTTTGGG-CTAAAAACGCGGTTCGGGGC
131129 T
319 T
* * *
131130 CCGGCTCAGTTTTGCATG-TATTTCGGCAGAAAGTCAT-ATTAAAATATCTATATTAATATAACC
1 CCGACTCAGTTTTGCATGAT-TTTCGGCAGAAAG-CCTCATTGAAATATCTATATTAATATAACC
* *
131193 AAATCTCAGCCACACTGGATATAAGGATTTGTTTTTACGAGCATATGAATCTTATTTCGACTTAA
64 AAATCTCAGCCACACTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAA
* *
131258 TTAGAAATTCATTCGGAAAAAAATGGAAAAACTATATTAGAAGCGTGAAAAACACATCTACA-TT
129 TTAGAAATTAATTCGGAAAAAAATGGAAAAACTATATTAGAAGCGTGAAAAACACGTC-A-ATTT
* * *
131322 TTTGGCATTAAATTATATATTTTTGAGATCATTGTAGG-AAAAAATTCAAAAAAAAAAATTTCGG
192 TTTGGCATTGAATTATATATTTTTTAGAGCATTGT-GGCAAAAAATTC--AAAAAAAAATTTCGG
*
131386 GTCAGTTTTTAGCCGAAAATCGTGTACTAACCATCACGGTTTTGGGCTAAAAACGCGGTTCGGGG
254 GTCAGATTTTAGCCGAAAATCGTGTACTAA-CATCACGGTTTTGGGCTAAAAACGCGGTTCGGGG
131451 CT
318 CT
* *
131453 CCGACTCAGTTTTGCATGATTTTCGGCTGAAAGCCTCATTCAAATATCTATATTAATATAACCAA
1 CCGACTCAGTTTTGCATGATTTTCGGCAGAAAGCCTCATTGAAATATCTATATTAATATAACCAA
*
131518 ATCTCAGCCACACTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGACTTAATT
66 ATCTCAGCCACACTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATT
* * *
131583 AGAAATTAATTCGG-AAAAAATGGAAAAACTATATTAAAATCGTGAAAAACATGTCAATTTTTTT
131 AGAAATTAATTCGGAAAAAAATGGAAAAACTATATTAGAAGCGTGAAAAACACGTCAA-TTTTTT
* *
131647 GGCATTGAATTATATATTTTTTTAGAGCATTGTGGCACAAAATTCAAAAAATAATTTCGGGTCAG
195 GGCATTGAATTATATA-TTTTTTAGAGCATTGTGGCAAAAAATTCAAAAAAAAATTTCGGGTCAG
* * *
131712 ATTTTAGACGAAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGGTTCGGTGCT
259 ATTTTAGCCGAAAATCGTGTACTAA-CATCACGGTTTTGGGCTAAAAACGCGGTTCGGGGCT
**
131774 CCGACTCAGTTTTTAATTGATTTTCGGCAGAAAGCCTCATTGAAATATCTATATTAATATAACCA
1 CCGACTCAGTTTTGCA-TGATTTTCGGCAGAAAGCCTCATTGAAATATCTATATTAATATAACCA
* * *
131839 AATCTCAGCCACGCTGGATATAAAGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAAC
65 AATCTCAGCCACACTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAAT
* * *
131904 TACAAATTAATTCGGAAAAAAATGGAAAAAGTATATTCA-AAGCGTGAAAAACACATCAATTTTT
130 TAGAAATTAATTCGGAAAAAAATGGAAAAACTATATT-AGAAGCGTGAAAAACACGTCAATTTTT
* ***
131968 TGGCATTGAATTATATAAAATTTTTAGAGCATTGTGGCAAAAAATGTTTTAAAAAAA-TT-GGGT
194 TGGCATTGAATTATAT--ATTTTTTAGAGCATTGTGGCAAAAAAT-TCAAAAAAAAATTTCGGGT
* * * * *
132031 CAGTTTTTAGCCGAAAATCGTGTACTAACATCACGGTTTTTGGCTAAAAACGTGATTCGGGGAT
256 CAGATTTTAGCCGAAAATCGTGTACTAACATCACGGTTTTGGGCTAAAAACGCGGTTCGGGGCT
* *
132095 CCGGCTCAGTTTTGCATGATTTTCGGCAGAAAGTCTCATTGAAATATCTATATTAATATAACCAA
1 CCGACTCAGTTTTGCATGATTTTCGGCAGAAAGCCTCATTGAAATATCTATATTAATATAACCAA
* * *
132160 ATCTCATCCACACTAGATATAAGGATTTGTTTTTACTAGCATCTGAATCTTATTTCGATTTAATT
66 ATCTCAGCCACACTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATT
* * *
132225 AGAAATTAATTCAGAAAAAAATGGAAAAACTATATTAGAAGCATGAAAAACATGTCAATTTTTTT
131 AGAAATTAATTCGGAAAAAAATGGAAAAACTATATTAGAAGCGTGAAAAACACGTCAA-TTTTTT
* *
132290 GGCATTGAATTATATATTTTTTTTAGAGCATTGTGGCACAAAATTCAAAACAAAATTTCGGGTCA
195 GGCATTGAATTATATA--TTTTTTAGAGCATTGTGGCAAAAAATTCAAAAAAAAATTTCGGGTCA
* *
132355 GATTTTAGACGAAAATCGTGTACTAACCATCACGGTTTTGGGCTAAAAACGCGGTTCGGTGCT
258 GATTTTAGCCGAAAATCGTGTACTAA-CATCACGGTTTTGGGCTAAAAACGCGGTTCGGGGCT
* *
132418 CCGACTCAGTTTTGCATGATTTTCGGCTGAAAGCCTCATTCAAATATCTATATTAATATAACCAA
1 CCGACTCAGTTTTGCATGATTTTCGGCAGAAAGCCTCATTGAAATATCTATATTAATATAACCAA
132483 ATCTCAGCCACACTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATT
66 ATCTCAGCCACACTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATT
* * * *
132548 AGAAATTAATTCGG-GAAAAATGGAAAAAGTATATTAAAAGCGTGAAAAACACGTCAATTTTTTT
131 AGAAATTAATTCGGAAAAAAATGGAAAAACTATATTAGAAGCGTGAAAAACACGTCAATTTTTTG
132612 GCATTGAATTATATATCTTTTTAGAGCATTGTGGCAAAAAATTTTCAAAAAAAAATTTCGGGTCA
196 GCATTGAATTATATAT-TTTTTAGAGCATTGTGGCAAAAAA--TTCAAAAAAAAATTTCGGGTCA
* * *
132677 GTTTTTAGCTGAAAATCATGTACTAAGCATCACGGTTTTGGGCTAAAAACGCGGTTCGGGGCT
258 GATTTTAGCCGAAAATCGTGTACTAA-CATCACGGTTTTGGGCTAAAAACGCGGTTCGGGGCT
* *
132740 CCGTA-TCAGTTTTGCATGATTTTCAGAAGAAAGCCTCATTGAAATATCTATATTAATATAACCA
1 CCG-ACTCAGTTTTGCATGATTTTCGGCAGAAAGCCTCATTGAAATATCTATATTAATATAACCA
* *
132804 AATCTCAGCCACACTGGATATAAGGATTTGTTTTTACAAGCATCTGAATCTTATATCGATTTAAT
65 AATCTCAGCCACACTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAAT
* *
132869 TAGAAATTAATTCGGAAAAAAATGTAAAAAGTATATTTA-AAGCGTGAAAAACACGTCAATTTTT
130 TAGAAATTAATTCGGAAAAAAATGGAAAAACTATA-TTAGAAGCGTGAAAAACACGTCAATTTTT
** *
132933 TGGCATTGAATTATATATATATTTTTAGAATATTTTGG-AAAAAATT-AAAAAAAAA-TTCGGGT
194 TGGCATTGAA-T-TATATAT-TTTTTAGAGCATTGTGGCAAAAAATTCAAAAAAAAATTTCGGGT
* * *
132995 CAGATTTTAGCCGAAAATCGTGTACGTTACATCACGGTTTTGGGCCAAAAAACGCGGTTCGGGGA
256 CAGATTTTAGCCGAAAATCGTGTAC-TAACATCACGGTTTTGGG-CTAAAAACGCGGTTCGGGGC
133060 T
319 T
* *
133061 CCGGCTCAGTTTTTGCATGATTTTCGGCAGAAAGTCTCA-TGAAAATATCTATATTAATATAACC
1 CCGACTCAG-TTTTGCATGATTTTCGGCAGAAAGCCTCATTG-AAATATCTATATTAATATAACC
133125 AAATCTCAGCCACACTGGATATAAGGATTTG-TTTTACGAG
64 AAATCTCAGCCACACTGGATATAAGGATTTGTTTTTACGAG
133165 AATCCG
Statistics
Matches: 2370, Mismatches: 245, Indels: 146
0.86 0.09 0.05
Matches are distributed among these distances:
319 3 0.00
320 232 0.10
321 264 0.11
322 597 0.25
323 547 0.23
324 316 0.13
325 36 0.02
326 93 0.04
327 63 0.03
328 141 0.06
329 75 0.03
330 3 0.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (319 bp):
CCGACTCAGTTTTGCATGATTTTCGGCAGAAAGCCTCATTGAAATATCTATATTAATATAACCAA
ATCTCAGCCACACTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATT
AGAAATTAATTCGGAAAAAAATGGAAAAACTATATTAGAAGCGTGAAAAACACGTCAATTTTTTG
GCATTGAATTATATATTTTTTAGAGCATTGTGGCAAAAAATTCAAAAAAAAATTTCGGGTCAGAT
TTTAGCCGAAAATCGTGTACTAACATCACGGTTTTGGGCTAAAAACGCGGTTCGGGGCT
Found at i:132347 original size:965 final size:958
Alignment explanation
Indices: 130160--133164 Score: 3685
Period size: 965 Copynumber: 3.1 Consensus size: 958
130150 TAGTCCCGAT
* * * * * * * **
130160 TCAGTTTTGCAAGATTTTTGAC-GTAAAGACTCCTTGAAATATCTATAATCATCGAACCAAATCT
1 TCAGTTTTGCATGATTTTCGGCAG-AAAGTCTCATTGAAATATCTATATTAATATAACCAAATCT
* * * * *
130224 -AGCCACATTCGATTTAAGGATTTGTTTTTAAGAGTATCTGAATCTTATTTCGATTTAATTAGAA
65 CAGCCACACTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATTAGAA
* * * * * * *
130288 ATTAATTCGAAAAAAATGGAAAACCGATATTAGAAGCGTTAAAAACCCTTCAATCTTTTTGCCGT
130 ATTAATTCGAAAAAAATGGAAAAACTATATTAGAAGCGTGAAAAA-CATTCAATATTTTTGGCAT
* * * * ** **
130353 TGAA-T-TATATTCTTTTATGAGTAATGTGGCAAAAAATTGAGAAAAATTTTTTTGGTCAGTTTT
194 TGAATTATATATTTTTTTA-GAGCATTGTGGCAAAAAATTCA-AAAAAAATTTCGGGTCAGTTTT
* * * *
130416 T-GC-AAAATTTGAGTCGAAATCGCGTAA-CATCACGGTTTTTGGCT-AAAACGC-GTTCCAGAG
257 TAGCGAAAA--T-CGT-G---T-AC-TAACCATCACGGTTTTGGGCTAAAAACGCGGTT-CGGAG
* * ** * * * ** * * * **
130476 CCCCGTCTCAACTTTACATGATTTTTGG-AGCAAAAACTCCTTAAAATATCTATATTCATCGAAC
312 CTCCGACTCAGTTTTGCATGATTTTCGGCTG-AAAGCCTCATTCAAATATCTATATTAATATAAC
* * *
130540 CAAATCTCAGCCACATTGGATATAAGGATTTGTTTTTACAAGCATCTGAATCTTGTTTCGATTTA
376 CAAATCTCAGCCACACTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTA
* * * * * * * * *
130605 ATTATAAATAAATTCAGCTAAAAAAATGGGAAAACGATATTAACAGCGTGAAGAACCTTTCAATT
441 ATTAGAAATTAATTC-G--GAAAAAATGGAAAAACTATATTAAAAGCGTGAAAAACATGTCAATT
* * * * * * * **
130670 TTCTTGGCGTCGAATTATTTATTTTTTCTA-AGTATTGCGGGAAAAGATAGAGAAAAAAATTTTC
503 TTTTTGGCATTGAATTATATATTTTTT-TAGAGCATTGTGGCAAAA-ATTCA-AAAAAAA-TTTC
* * * * *
130734 GGGTAAGTTTTTGCAAAATTTGAGCTG-AAATCGTG--C-AACATTACGATTTTTAGAT-AAAAC
564 GGGTCAGTTTTT-----A---GA-CTGAAAATCGTGTACTAACATCACGGTTTTTGGCTAAAAAC
* * * * * * * * * *
130794 AC-GTTCCAGAGC-CCGTCTCA-ATTTTACATGGTTTTTGGC-GCAAAGACACCTTGAAGTATCT
620 GCGGTT-CGGAGCTCCGACTCAGTTTTTA-ATGATTTTCGGCAG-AAAGCCTCATTGAAATATCT
* ** * * * *
130855 ATATTCATCGAAACAAATCTCAGCCACATTGGATATAAGGATTTGTTTATACGAGCATCTGAATA
682 ATATTAATATAACCAAATCTCAGCCACACTGGATATAAGGATTTGTTTTTACGAGCATCTGAATC
* * *
130920 TTGTTTCGATTTAATTAGAAATTAAATT-AGAAAAAATTGGAAAAACG-ATATTAGAAGCGTGAA
747 TTATTTCGATTTAATTAGAAATT-AATTCGGAAAAAAATGGAAAAA-GTATATTA-AAGCGTGAA
* * * * * * * **
130983 AAATACGTCAATTTTTATGGCGTTGAATTATAT--ATTTTTTCTGAATGTTGTGACAAAACATAC
809 AAACACGTCAATTTTT-TGGCATTGAATTATATAAAATTTTT-AGAATATTGTGGCAAAAAATTT
131046 AGAAAAAAAATTTCGGGTCAGATTTTAGCCGAAAATCGTGTACGTTACATCACGGTTTTGGGCCT
872 A-AAAAAAAA-TTCGGGTCAGATTTTAGCCGAAAATCGTGTACGTTACATCACGGTTTTGGGCCT
*
131111 AAAAACGCGGTTCGGGGCTCCGGC
935 AAAAACGCGGTTCGGGGATCCGGC
*
131135 TCAGTTTTGCATG-TATTTCGGCAGAAAGTCAT-ATTAAAATATCTATATTAATATAACCAAATC
1 TCAGTTTTGCATGAT-TTTCGGCAGAAAGTC-TCATTGAAATATCTATATTAATATAACCAAATC
* *
131198 TCAGCCACACTGGATATAAGGATTTGTTTTTACGAGCATATGAATCTTATTTCGACTTAATTAGA
64 TCAGCCACACTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATTAGA
* * * *
131263 AATTCATTCGGAAAAAAATGGAAAAACTATATTAGAAGCGTGAAAAACACATCTACATTTTTGGC
129 AATTAATTC-GAAAAAAATGGAAAAACTATATTAGAAGCGTGAAAAACA-TTCAATATTTTTGGC
* * *
131328 ATTAAATTATATA-TTTTTGAGATCATTGTAGG-AAAAAATTCAAAAAAAAAAATTTCGGGTCAG
192 ATTGAATTATATATTTTTTTAGAGCATTGT-GGCAAAAAATTC---AAAAAAAATTTCGGGTCAG
*
131391 TTTTTAGCCGAAAATCGTGTACTAACCATCACGGTTTTGGGCTAAAAACGCGGTTCGGGGCTCCG
253 TTTTTAG-CGAAAATCGTGTACTAACCATCACGGTTTTGGGCTAAAAACGCGGTTCGGAGCTCCG
131456 ACTCAGTTTTGCATGATTTTCGGCTGAAAGCCTCATTCAAATATCTATATTAATATAACCAAATC
317 ACTCAGTTTTGCATGATTTTCGGCTGAAAGCCTCATTCAAATATCTATATTAATATAACCAAATC
*
131521 TCAGCCACACTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGACTTAATTAGA
382 TCAGCCACACTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATTAGA
*
131586 AATTAATTCGGAAAAAATGGAAAAACTATATTAAAATCGTGAAAAACATGTCAATTTTTTTGGCA
447 AATTAATTCGGAAAAAATGGAAAAACTATATTAAAAGCGTGAAAAACATGTCAATTTTTTTGGCA
*
131651 TTGAATTATATATTTTTTTAGAGCATTGTGGCACAAAATTCAAAAAATAATTTCGGGTCAGATTT
512 TTGAATTATATATTTTTTTAGAGCATTGTGGCA-AAAATTCAAAAAA-AATTTCGGGTCAGTTTT
*
131716 TAGAC-GAAAATCGTGTACTAACCATCACGGTTTTTGGCTAAAAACGCGGTTCGGTGCTCCGACT
575 TAGACTGAAAATCGTGTACTAA-CATCACGGTTTTTGGCTAAAAACGCGGTTCGGAGCTCCGACT
131780 CAGTTTTTAATTGATTTTCGGCAGAAAGCCTCATTGAAATATCTATATTAATATAACCAAATCTC
639 CAGTTTTTAA-TGATTTTCGGCAGAAAGCCTCATTGAAATATCTATATTAATATAACCAAATCTC
* * * *
131845 AGCCACGCTGGATATAAAGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAACTACAAA
703 AGCCACACTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATTAGAAA
*
131910 TTAATTCGGAAAAAAATGGAAAAAGTATATTCAAAGCGTGAAAAACACATCAATTTTTTGGCATT
768 TTAATTCGGAAAAAAATGGAAAAAGTATATT-AAAGCGTGAAAAACACGTCAATTTTTTGGCATT
** ** *
131975 GAATTATATAAAATTTTTAGAGCATTGTGGCAAAAAATGTTTTAAAAAAATT-GGGTCAGTTTTT
832 GAATTATATAAAATTTTTAGAATATTGTGGCAAAAAAT-TTAAAAAAAAATTCGGGTCAGATTTT
* * * *
132039 AGCCGAAAATCGTGTAC-TAACATCACGGTTTTTGG-CTAAAAACGTGATTCGGGGATCCGGC
896 AGCCGAAAATCGTGTACGTTACATCACGGTTTTGGGCCTAAAAACGCGGTTCGGGGATCCGGC
132100 TCAGTTTTGCATGATTTTCGGCAGAAAGTCTCATTGAAATATCTATATTAATATAACCAAATCTC
1 TCAGTTTTGCATGATTTTCGGCAGAAAGTCTCATTGAAATATCTATATTAATATAACCAAATCTC
* * *
132165 ATCCACACTAGATATAAGGATTTGTTTTTACTAGCATCTGAATCTTATTTCGATTTAATTAGAAA
66 AGCCACACTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATTAGAAA
* *
132230 TTAATTCAGAAAAAAATGGAAAAACTATATTAGAAGCATGAAAAACATGTCAATTTTTTTGGCAT
131 TTAATTC-GAAAAAAATGGAAAAACTATATTAGAAGCGTGAAAAACAT-TCAATATTTTTGGCAT
* *
132295 TGAATTATATATTTTTTTTAGAGCATTGTGGCACAAAATTCAAAACAAAATTTCGGGTCAGATTT
194 TGAATTATATA-TTTTTTTAGAGCATTGTGGCAAAAAATTCAAAA-AAAATTTCGGGTCAGTTTT
*
132360 TAGACGAAAATCGTGTACTAACCATCACGGTTTTGGGCTAAAAACGCGGTTCGGTGCTCCGACTC
257 TAG-CGAAAATCGTGTACTAACCATCACGGTTTTGGGCTAAAAACGCGGTTCGGAGCTCCGACTC
132425 AGTTTTGCATGATTTTCGGCTGAAAGCCTCATTCAAATATCTATATTAATATAACCAAATCTCAG
321 AGTTTTGCATGATTTTCGGCTGAAAGCCTCATTCAAATATCTATATTAATATAACCAAATCTCAG
132490 CCACACTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATTAGAAATT
386 CCACACTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATTAGAAATT
* * *
132555 AATTCGGGAAAAATGGAAAAAGTATATTAAAAGCGTGAAAAACACGTCAATTTTTTT-GCATTGA
451 AATTCGGAAAAAATGGAAAAACTATATTAAAAGCGTGAAAAACATGTCAATTTTTTTGGCATTGA
*
132619 ATTATATATCTTTTTAGAGCATTGTGGCAAAAAATTTTCAAAAAAAAATTTCGGGTCAGTTTTTA
516 ATTATATATTTTTTTAGAGCATTGTGGC-AAAAA--TTC-AAAAAAAATTTCGGGTCAGTTTTTA
* * *
132684 G-CTGAAAATCATGTACTAAGCATCACGGTTTTGGGCTAAAAACGCGGTTCGGGGCTCCGTA-TC
577 GACTGAAAATCGTGTACTAA-CATCACGGTTTTTGGCTAAAAACGCGGTTCGGAGCTCCG-ACTC
** * *
132747 AGTTTTGCATGATTTTCAGAAGAAAGCCTCATTGAAATATCTATATTAATATAACCAAATCTCAG
640 AGTTTTTAATGATTTTCGGCAGAAAGCCTCATTGAAATATCTATATTAATATAACCAAATCTCAG
* *
132812 CCACACTGGATATAAGGATTTGTTTTTACAAGCATCTGAATCTTATATCGATTTAATTAGAAATT
705 CCACACTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATTAGAAATT
*
132877 AATTCGGAAAAAAATGTAAAAAGTATATTTAAAGCGTGAAAAACACGTCAATTTTTTGGCATTGA
770 AATTCGGAAAAAAATGGAAAAAGTATA-TTAAAGCGTGAAAAACACGTCAATTTTTTGGCATTGA
* *
132942 ATTATATATATATTTTTAGAATATTTTGG-AAAAAA-TTAAAAAAAAATTCGGGTCAGATTTTAG
834 ATTATATA-AAATTTTTAGAATATTGTGGCAAAAAATTTAAAAAAAAATTCGGGTCAGATTTTAG
*
133005 CCGAAAATCGTGTACGTTACATCACGGTTTTGGGCCAAAAAACGCGGTTCGGGGATCCGGC
898 CCGAAAATCGTGTACGTTACATCACGGTTTTGGGCCTAAAAACGCGGTTCGGGGATCCGGC
133066 TCAGTTTTTGCATGATTTTCGGCAGAAAGTCTCA-TGAAAATATCTATATTAATATAACCAAATC
1 TCAG-TTTTGCATGATTTTCGGCAGAAAGTCTCATTG-AAATATCTATATTAATATAACCAAATC
133130 TCAGCCACACTGGATATAAGGATTTG-TTTTACGAG
64 TCAGCCACACTGGATATAAGGATTTGTTTTTACGAG
133165 AATCCG
Statistics
Matches: 1781, Mismatches: 190, Indels: 127
0.85 0.09 0.06
Matches are distributed among these distances:
961 1 0.00
962 9 0.01
963 13 0.01
964 72 0.04
965 680 0.38
966 171 0.10
967 147 0.08
968 33 0.02
969 170 0.10
970 8 0.00
971 21 0.01
972 75 0.04
973 6 0.00
974 19 0.01
975 181 0.10
976 71 0.04
977 62 0.03
978 9 0.01
979 25 0.01
980 3 0.00
981 1 0.00
982 4 0.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (958 bp):
TCAGTTTTGCATGATTTTCGGCAGAAAGTCTCATTGAAATATCTATATTAATATAACCAAATCTC
AGCCACACTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATTAGAAA
TTAATTCGAAAAAAATGGAAAAACTATATTAGAAGCGTGAAAAACATTCAATATTTTTGGCATTG
AATTATATATTTTTTTAGAGCATTGTGGCAAAAAATTCAAAAAAAATTTCGGGTCAGTTTTTAGC
GAAAATCGTGTACTAACCATCACGGTTTTGGGCTAAAAACGCGGTTCGGAGCTCCGACTCAGTTT
TGCATGATTTTCGGCTGAAAGCCTCATTCAAATATCTATATTAATATAACCAAATCTCAGCCACA
CTGGATATAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATTAGAAATTAATTC
GGAAAAAATGGAAAAACTATATTAAAAGCGTGAAAAACATGTCAATTTTTTTGGCATTGAATTAT
ATATTTTTTTAGAGCATTGTGGCAAAAATTCAAAAAAAATTTCGGGTCAGTTTTTAGACTGAAAA
TCGTGTACTAACATCACGGTTTTTGGCTAAAAACGCGGTTCGGAGCTCCGACTCAGTTTTTAATG
ATTTTCGGCAGAAAGCCTCATTGAAATATCTATATTAATATAACCAAATCTCAGCCACACTGGAT
ATAAGGATTTGTTTTTACGAGCATCTGAATCTTATTTCGATTTAATTAGAAATTAATTCGGAAAA
AAATGGAAAAAGTATATTAAAGCGTGAAAAACACGTCAATTTTTTGGCATTGAATTATATAAAAT
TTTTAGAATATTGTGGCAAAAAATTTAAAAAAAAATTCGGGTCAGATTTTAGCCGAAAATCGTGT
ACGTTACATCACGGTTTTGGGCCTAAAAACGCGGTTCGGGGATCCGGC
Done.