Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000389.1 Hibiscus syriacus cultivar Beakdansim tig00000715_pilon, 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: 2672246
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 15
Found at i:579125 original size:30 final size:30
Alignment explanation
Indices: 579091--579169 Score: 122
Period size: 30 Copynumber: 2.6 Consensus size: 30
579081 GTATCCTTTA
*
579091 TTCACGTAGAACACATTCATATAAAGCATT
1 TTCACATAGAACACATTCATATAAAGCATT
*
579121 TTCACATAGAACACATTCATGTAAAGCATT
1 TTCACATAGAACACATTCATATAAAGCATT
* *
579151 TTCACATGGAACACGTTCA
1 TTCACATAGAACACATTCA
579170 CATATTAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (30 bp):
TTCACATAGAACACATTCATATAAAGCATT
Found at i:581120 original size:24 final size:24
Alignment explanation
Indices: 581083--581139 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 24
581073 CCTACGGGAT
** *
581083 AATTCTACATGGTCATTTGAGACA
1 AATTCTACGCGGTCATTCGAGACA
* * *
581107 AATTTTACGCGGTCCTTCGGGACA
1 AATTCTACGCGGTCATTCGAGACA
581131 AATTCTACG
1 AATTCTACG
581140 TGGCACTTCA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (24 bp):
AATTCTACGCGGTCATTCGAGACA
Found at i:581148 original size:24 final size:24
Alignment explanation
Indices: 581039--581139 Score: 80
Period size: 23 Copynumber: 4.3 Consensus size: 24
581029 GAGTCGAGGG
* *
581039 TTCTACGCAGTCCTTCAGGACAAA
1 TTCTACGCGGTCCTTCGGGACAAA
* * * *
581063 -TCTATGTGGTCCTACGGGA-TAA
1 TTCTACGCGGTCCTTCGGGACAAA
** * * *
581085 TTCTACATGGTCATTTGAGACAAA
1 TTCTACGCGGTCCTTCGGGACAAA
*
581109 TTTTACGCGGTCCTTCGGGACAAA
1 TTCTACGCGGTCCTTCGGGACAAA
581133 TTCTACG
1 TTCTACG
581140 TGGCACTTCA
Statistics
Matches: 55, Mismatches: 20, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
22 2 0.04
23 27 0.49
24 26 0.47
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.31
Consensus pattern (24 bp):
TTCTACGCGGTCCTTCGGGACAAA
Found at i:582672 original size:14 final size:14
Alignment explanation
Indices: 582653--582685 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
582643 GAATAATTTT
582653 TTATATTCAAATAA
1 TTATATTCAAATAA
*
582667 TTATA-TCGAATAA
1 TTATATTCAAATAA
582680 TTATAT
1 TTATAT
582686 CGAATATACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (14 bp):
TTATATTCAAATAA
Found at i:582680 original size:13 final size:13
Alignment explanation
Indices: 582662--582691 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
582652 TTTATATTCA
582662 AATAATTATATCG
1 AATAATTATATCG
582675 AATAATTATATCG
1 AATAATTATATCG
582688 AATA
1 AATA
582692 TACTTAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.37
Consensus pattern (13 bp):
AATAATTATATCG
Found at i:585027 original size:21 final size:22
Alignment explanation
Indices: 585001--585059 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 22
584991 CAGACCCCGT
585001 GGGGGGTATCGATTCCC-TCAA
1 GGGGGGTATCGATTCCCTTCAA
* *
585022 GGGGGGAATC-AGTTCCCCTTTAA
1 GGGGGGTATCGA-TT-CCCTTCAA
585045 -GGGGGTATCGATTCC
1 GGGGGGTATCGATTCC
585060 TCCTGCACCA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
20 1 0.03
21 13 0.42
22 13 0.42
23 4 0.13
ACGTcount: A:0.19, C:0.22, G:0.34, T:0.25
Consensus pattern (22 bp):
GGGGGGTATCGATTCCCTTCAA
Found at i:585059 original size:22 final size:22
Alignment explanation
Indices: 585001--585059 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
584991 CAGACCCCGT
585001 GGGGGGTATCGATT-CCCTCAA
1 GGGGGGTATCGATTCCCCTCAA
* *
585022 GGGGGGAATC-AGTTCCCCTTTAA
1 GGGGGGTATCGA-TTCCCC-TCAA
585045 -GGGGGTATCGATTCC
1 GGGGGGTATCGATTCC
585060 TCCTGCACCA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 1 0.03
21 11 0.35
22 15 0.48
23 4 0.13
ACGTcount: A:0.19, C:0.22, G:0.34, T:0.25
Consensus pattern (22 bp):
GGGGGGTATCGATTCCCCTCAA
Found at i:591748 original size:3 final size:3
Alignment explanation
Indices: 591740--591806 Score: 73
Period size: 3 Copynumber: 22.0 Consensus size: 3
591730 CCATTCAGTT
* * * *
591740 TTA TTA TTA TCTT TTG TTA TTA TTA TCTT TTG TTA TTA TTA TTA TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
591787 -TA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
591807 AAAAAATAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.04
3 49 0.89
4 4 0.07
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:591759 original size:16 final size:16
Alignment explanation
Indices: 591740--591781 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
591730 CCATTCAGTT
591740 TTATTATTATCTTTTG
1 TTATTATTATCTTTTG
591756 TTATTATTATCTTTTG
1 TTATTATTATCTTTTG
591772 TTATTATTAT
1 TTATTATTAT
591782 TATTATATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (16 bp):
TTATTATTATCTTTTG
Found at i:591794 original size:17 final size:17
Alignment explanation
Indices: 591772--591804 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
591762 TTATCTTTTG
591772 TTATTATTATTATTATA
1 TTATTATTATTATTATA
591789 TTATTATTATTATTAT
1 TTATTATTATTATTAT
591805 TAAAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTATTATTATTATA
Found at i:594272 original size:23 final size:22
Alignment explanation
Indices: 594246--594407 Score: 100
Period size: 23 Copynumber: 7.1 Consensus size: 22
594236 GAAATGTGTT
594246 GAAAAAGAGAAGGGTTTATGGAA
1 GAAAAAGA-AAGGGTTTATGGAA
* *
594269 GAAAAAGAAGAAATAGG-TTATGAAA
1 G--AAA-AAGAAA-GGGTTTATGGAA
*
594294 GAAAAAGAAATGGATTTATGGAA
1 GAAAAAGAAA-GGGTTTATGGAA
*
594317 GAAAAA-AATTA-TGTTTATGGAA
1 GAAAAAGAA--AGGGTTTATGGAA
* *
594339 GAAGAAGAAAAGGGTTTATGGGA
1 GAAAAAG-AAAGGGTTTATGGAA
* * *
594362 GAAGAAGAAACGAGTTTAT-GTA
1 GAAAAAGAAA-GGGTTTATGGAA
* *
594384 TAAAAA-AATGGGTTTATGGAA
1 GAAAAAGAAAGGGTTTATGGAA
594405 GAA
1 GAA
594408 GAGGAAATGT
Statistics
Matches: 109, Mismatches: 18, Indels: 26
0.71 0.12 0.17
Matches are distributed among these distances:
20 7 0.06
21 6 0.06
22 34 0.31
23 40 0.37
24 3 0.03
25 13 0.12
26 6 0.06
ACGTcount: A:0.50, C:0.01, G:0.28, T:0.22
Consensus pattern (22 bp):
GAAAAAGAAAGGGTTTATGGAA
Found at i:594323 original size:25 final size:24
Alignment explanation
Indices: 594247--594364 Score: 86
Period size: 22 Copynumber: 5.0 Consensus size: 24
594237 AAATGTGTTG
*
594247 AAAAAGAGAAGGGTTTATGGAAGAA
1 AAAAAGA-AATGGTTTATGGAAGAA
*
594272 AAAGAAGAAATAGG-TTAT-GAA-AG
1 AAA-AAGAAAT-GGTTTATGGAAGAA
594295 AAAAAGAAATGGATTTATGGAAGAA
1 AAAAAGAAATGG-TTTATGGAAGAA
**
594320 AAAAA-TTAT-GTTTATGGAAGAA
1 AAAAAGAAATGGTTTATGGAAGAA
* * * *
594342 GAAGA-AAAGGGTTTATGGGAGAA
1 AAAAAGAAATGGTTTATGGAAGAA
594365 GAAGAAACGA
Statistics
Matches: 75, Mismatches: 11, Indels: 16
0.74 0.11 0.16
Matches are distributed among these distances:
21 2 0.03
22 23 0.31
23 21 0.28
24 8 0.11
25 15 0.20
26 6 0.08
ACGTcount: A:0.52, C:0.00, G:0.28, T:0.20
Consensus pattern (24 bp):
AAAAAGAAATGGTTTATGGAAGAA
Found at i:594357 original size:45 final size:48
Alignment explanation
Indices: 594246--594370 Score: 139
Period size: 45 Copynumber: 2.7 Consensus size: 48
594236 GAAATGTGTT
*
594246 GAAAAAGAGAAGGGTTTATGGAAGAAAAAGAAGAAATAGGTTATGAAA
1 GAAAAAGAAAAGGGTTTATGGAAGAAAAAGAAGAAATAGGTTATGAAA
* * ** * *
594294 GAAAAAGAAATGGATTTATGGAAGAAAAA-AA-TTAT-GTTTATGGAA
1 GAAAAAGAAAAGGGTTTATGGAAGAAAAAGAAGAAATAGGTTATGAAA
* * *
594339 GAAGAAGAAAAGGGTTTATGGGAGAAGAAGAA
1 GAAAAAGAAAAGGGTTTATGGAAGAAAAAGAA
594371 ACGAGTTTAT
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
45 32 0.50
46 4 0.06
47 2 0.03
48 26 0.41
ACGTcount: A:0.52, C:0.00, G:0.29, T:0.19
Consensus pattern (48 bp):
GAAAAAGAAAAGGGTTTATGGAAGAAAAAGAAGAAATAGGTTATGAAA
Found at i:595424 original size:23 final size:23
Alignment explanation
Indices: 595360--595425 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 23
595350 AGTTTTGGGA
595360 TTATTTTAAAA-TTTAT-ATGTT
1 TTATTTTAAAATTTTATAATGTT
*
595381 TTCATTTTAAAAATATATATAATGTT
1 TT-ATTTT-AAAAT-TTTATAATGTT
595407 ATT-TTTTAAAATTTTATAA
1 -TTATTTTAAAATTTTATAA
595426 AAAAGTTTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
21 2 0.05
22 5 0.14
23 10 0.27
24 5 0.14
25 8 0.22
26 5 0.14
27 2 0.05
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (23 bp):
TTATTTTAAAATTTTATAATGTT
Found at i:599011 original size:7 final size:7
Alignment explanation
Indices: 598999--599042 Score: 88
Period size: 7 Copynumber: 6.3 Consensus size: 7
598989 CTTTTTGAGT
598999 GAGAAGG
1 GAGAAGG
599006 GAGAAGG
1 GAGAAGG
599013 GAGAAGG
1 GAGAAGG
599020 GAGAAGG
1 GAGAAGG
599027 GAGAAGG
1 GAGAAGG
599034 GAGAAGG
1 GAGAAGG
599041 GA
1 GA
599043 AAAAAGTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (7 bp):
GAGAAGG
Found at i:601245 original size:15 final size:15
Alignment explanation
Indices: 601225--601254 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
601215 GTGAATGATA
*
601225 TGATAAGAAGCTATG
1 TGATAAGAAGATATG
601240 TGATAAGAAGATATG
1 TGATAAGAAGATATG
601255 GGTTTATGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.03, G:0.27, T:0.27
Consensus pattern (15 bp):
TGATAAGAAGATATG
Found at i:601503 original size:22 final size:22
Alignment explanation
Indices: 601475--601539 Score: 121
Period size: 22 Copynumber: 3.0 Consensus size: 22
601465 GTCGAAGGTT
601475 TCATAGGTCCTTCGGGACATAC
1 TCATAGGTCCTTCGGGACATAC
601497 TCATAGGTCCTTCGGGACATAC
1 TCATAGGTCCTTCGGGACATAC
*
601519 TCACAGGTCCTTCGGGACATA
1 TCATAGGTCCTTCGGGACATA
601540 TTTCACATGC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (22 bp):
TCATAGGTCCTTCGGGACATAC
Found at i:602806 original size:82 final size:81
Alignment explanation
Indices: 602668--603088 Score: 470
Period size: 82 Copynumber: 5.1 Consensus size: 81
602658 GTCAAATTAG
602668 TGCTTGTCATTGACATTTCACATCAACTCAGATAAACTGAAATATTTTAGAAAATCAGAGAATCT
1 TGCTTGTCATTGACATTTCACATCAACTCAGATAAACTGAAATATTTTAG-AAATCAGAGAATCT
*
602733 ACAGTATTCAAGTCATT
65 ACAGTATTCAAGTCCTT
* * * *
602750 TGCTTGTTATTGACATTTCACATCAACTTAGATAAACTGATATATTTTAGAGAATCAGGGAATCT
1 TGCTTGTCATTGACATTTCACATCAACTCAGATAAACTGAAATATTTTAGA-AATCAGAGAATCT
* * *
602815 ACAATATTCACGTCTTT
65 ACAGTATTCAAGTCCTT
** * *
602832 TATTTGTCATTGACATTTCACATCAACTCAGATAAATTGAAATAATTTCCATTGAAATCAGAGAA
1 TGCTTGTCATTGACATTTCACATCAACTCAGATAAACTGAAAT-ATTT---TAGAAATCAGAGAA
*
602897 TCTACATTATTCATA-TCCTT
62 TCTACAGTATTCA-AGTCCTT
* * *
602917 TGCTTGTCATTGACATTTCACATCAACTTAGATAAATTGAAATATTTTAGAGAATCAGGGAATCT
1 TGCTTGTCATTGACATTTCACATCAACTCAGATAAACTGAAATATTTTAGA-AATCAGAGAATCT
*
602982 A-TGCTATTCACA-TCCTT
65 ACAG-TATTCA-AGTCCTT
* * * * *
602999 TTCTTATCATTGATATTTCATATCAACTCAGATAAACTGAAATAATTTCCATTGAAATCAGAGAA
1 TGCTTGTCATTGACATTTCACATCAACTCAGATAAACTGAAAT-ATTT---TAGAAATCAGAGAA
* * *
603064 TTTACACTATTCACGTCCTT
62 TCTACAGTATTCAAGTCCTT
603084 TGCTT
1 TGCTT
603089 TTCAAAGTTA
Statistics
Matches: 286, Mismatches: 39, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
81 4 0.01
82 172 0.60
83 8 0.03
84 4 0.01
85 92 0.32
86 6 0.02
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (81 bp):
TGCTTGTCATTGACATTTCACATCAACTCAGATAAACTGAAATATTTTAGAAATCAGAGAATCTA
CAGTATTCAAGTCCTT
Found at i:602944 original size:167 final size:166
Alignment explanation
Indices: 602670--603088 Score: 596
Period size: 167 Copynumber: 2.5 Consensus size: 166
602660 CAAATTAGTG
*
602670 CTTGTCATTGACATTTCACATCAACTCAGATAAACTGAAAT-ATTT---TAGAAAATCAGAGAAT
1 CTTGTCATTGACATTTCACATCAACTCAGATAAACTGAAATAATTTCCATTG-AAATCAGAGAAT
* * * *
602731 CTACAGTATTCAAGTCATTTGCTTGTTATTGACATTTCACATCAACTTAGATAAACTGATATATT
65 CTACACTATTCAA-TCCTTTGCTTGTCATTGACATTTCACATCAACTTAGATAAACTGAAATATT
*
602796 TTAGAGAATCAGGGAATCTACAATATTCACGT-CTTTT
129 TTAGAGAATCAGGGAATCTACAATATTCACATCCTTTT
* *
602833 ATTTGTCATTGACATTTCACATCAACTCAGATAAATTGAAATAATTTCCATTGAAATCAGAGAAT
1 -CTTGTCATTGACATTTCACATCAACTCAGATAAACTGAAATAATTTCCATTGAAATCAGAGAAT
* *
602898 CTACATTATTCATATCCTTTGCTTGTCATTGACATTTCACATCAACTTAGATAAATTGAAATATT
65 CTACACTATTCA-ATCCTTTGCTTGTCATTGACATTTCACATCAACTTAGATAAACTGAAATATT
***
602963 TTAGAGAATCAGGGAATCTATGCTATTCACATCCTTTT
129 TTAGAGAATCAGGGAATCTACAATATTCACATCCTTTT
* * * *
603001 CTTATCATTGATATTTCATATCAACTCAGATAAACTGAAATAATTTCCATTGAAATCAGAGAATT
1 CTTGTCATTGACATTTCACATCAACTCAGATAAACTGAAATAATTTCCATTGAAATCAGAGAATC
*
603066 TACACTATTCACGTCCTTTGCTT
66 TACACTATTCA-ATCCTTTGCTT
603089 TTCAAAGTTA
Statistics
Matches: 228, Mismatches: 21, Indels: 9
0.88 0.08 0.03
Matches are distributed among these distances:
164 39 0.17
165 4 0.02
167 177 0.78
168 8 0.04
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (166 bp):
CTTGTCATTGACATTTCACATCAACTCAGATAAACTGAAATAATTTCCATTGAAATCAGAGAATC
TACACTATTCAATCCTTTGCTTGTCATTGACATTTCACATCAACTTAGATAAACTGAAATATTTT
AGAGAATCAGGGAATCTACAATATTCACATCCTTTT
Found at i:606981 original size:18 final size:18
Alignment explanation
Indices: 606958--606992 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
606948 ACTGAATATT
606958 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
606976 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
606993 GATAATCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.26, C:0.34, G:0.23, T:0.17
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:608133 original size:269 final size:269
Alignment explanation
Indices: 607654--608191 Score: 1040
Period size: 269 Copynumber: 2.0 Consensus size: 269
607644 GTATCAATGC
*
607654 ACTACCTGTGCATCGATGCATTCATTGCATTCGATGTTTATTTATTTGAGAGTGCATCGGTACAC
1 ACTACCTGTGCATCGATGCACTCATTGCATTCGATGTTTATTTATTTGAGAGTGCATCGGTACAC
*
607719 ATTGAAGATGTACCGATACACACAACCCTGAATTTTCACTTTGAGCACGAAAATCACTTCATTTT
66 ATTGAAGATGTACCGATACACACAACCCTGAATTTTCACTTTGAGCACAAAAATCACTTCATTTT
* *
607784 TAGCTCAACATTTCATATTTCACCTCCTTTTATATTCTTAACTTTTATACACCTACTTAAACTAA
131 CAGCTCAACACTTCATATTTCACCTCCTTTTATATTCTTAACTTTTATACACCTACTTAAACTAA
607849 TTAATACCCATTCAATACCTCTTAAACTTTAAAATCCAATCCTCCACATAGAATTCAAGAATCTC
196 TTAATACCCATTCAATACCTCTTAAACTTTAAAATCCAATCCTCCACATAGAATTCAAGAATCTC
607914 ACTCAAATT
261 ACTCAAATT
607923 ACTACCTGTGCATCGATGCACTCATTGCATTCGATGTTTATTTATTTGAGAGTGCATCGGTACAC
1 ACTACCTGTGCATCGATGCACTCATTGCATTCGATGTTTATTTATTTGAGAGTGCATCGGTACAC
607988 ATTGAAGATGTACCGATACACACAACCCTGAATTTTCACTTTGAGCACAAAAATCACTTCATTTT
66 ATTGAAGATGTACCGATACACACAACCCTGAATTTTCACTTTGAGCACAAAAATCACTTCATTTT
608053 CAGCTCAACACTTCATATTTCACCTCCTTTTATATTCTTAACTTTTATACACCTACTTAAACTAA
131 CAGCTCAACACTTCATATTTCACCTCCTTTTATATTCTTAACTTTTATACACCTACTTAAACTAA
608118 TTAATACCCATTCAATACCTCTTAAACTTTAAAATCCAATCCTCCACATAGAATTCAAGAATCTC
196 TTAATACCCATTCAATACCTCTTAAACTTTAAAATCCAATCCTCCACATAGAATTCAAGAATCTC
608183 ACTCAAATT
261 ACTCAAATT
608192 CCAACATGTT
Statistics
Matches: 265, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
269 265 1.00
ACGTcount: A:0.32, C:0.24, G:0.09, T:0.35
Consensus pattern (269 bp):
ACTACCTGTGCATCGATGCACTCATTGCATTCGATGTTTATTTATTTGAGAGTGCATCGGTACAC
ATTGAAGATGTACCGATACACACAACCCTGAATTTTCACTTTGAGCACAAAAATCACTTCATTTT
CAGCTCAACACTTCATATTTCACCTCCTTTTATATTCTTAACTTTTATACACCTACTTAAACTAA
TTAATACCCATTCAATACCTCTTAAACTTTAAAATCCAATCCTCCACATAGAATTCAAGAATCTC
ACTCAAATT
Found at i:610099 original size:2 final size:2
Alignment explanation
Indices: 610092--610127 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
610082 ATACAAAGTC
610092 AT AT AT AT 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 AT AT AT AT
610128 TATTAAGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:615717 original size:66 final size:66
Alignment explanation
Indices: 615639--615778 Score: 253
Period size: 66 Copynumber: 2.1 Consensus size: 66
615629 TTAAAAATAA
615639 TAAAATAATATATTTTCTATGAATTTGATATAAATATTTTTATTTGAATATTCATAATTCAACTA
1 TAAAA-AATATATTTTCTATGAATTTGATATAAATATTTTTATTTGAATATTCATAATTCAACTA
615704 AT
65 AT
* *
615706 TAAAAAATATATTTTGTATGAATTTTATATAAATATTTTTATTTGAATATTCATAATTCAACTAA
1 TAAAAAATATATTTTCTATGAATTTGATATAAATATTTTTATTTGAATATTCATAATTCAACTAA
615771 T
66 T
615772 TAAAAAA
1 TAAAAAA
615779 GAAATATATC
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
66 66 0.93
67 5 0.07
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.46
Consensus pattern (66 bp):
TAAAAAATATATTTTCTATGAATTTGATATAAATATTTTTATTTGAATATTCATAATTCAACTAA
T
Found at i:616698 original size:37 final size:37
Alignment explanation
Indices: 616636--616742 Score: 126
Period size: 37 Copynumber: 2.9 Consensus size: 37
616626 CACCTTTTCG
* * *
616636 TTCTATTAGAATTTAAACTCTTAAAAGTAGGATAAAA
1 TTCTACTAGGATTTAAACTCCTAAAAGTAGGATAAAA
* * * *
616673 TTTTACTAGGATTTAAACTCCTAAAAATAGGATAGAG
1 TTCTACTAGGATTTAAACTCCTAAAAGTAGGATAAAA
*
616710 TTCTACTATGATTTAAACTCCT-AAAGATAGGAT
1 TTCTACTAGGATTTAAACTCCTAAAAG-TAGGAT
616743 CCACAAGCAC
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
36 3 0.05
37 56 0.95
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (37 bp):
TTCTACTAGGATTTAAACTCCTAAAAGTAGGATAAAA
Found at i:617191 original size:10 final size:11
Alignment explanation
Indices: 617166--617192 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
617156 ATACGTACGT
617166 TTTTTAAATGA
1 TTTTTAAATGA
617177 TTTTTAAATGA
1 TTTTTAAATGA
617188 TTTTT
1 TTTTT
617193 TATACTATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (11 bp):
TTTTTAAATGA
Found at i:617219 original size:22 final size:23
Alignment explanation
Indices: 617193--617293 Score: 90
Period size: 22 Copynumber: 4.5 Consensus size: 23
617183 AATGATTTTT
617193 TATACTATATATTATTA-TTATA
1 TATACTATATATTATTATTTATA
*
617215 TATAC-ATATATTTATTTATTTATT
1 TATACTATATA-TTA-TTATTTATA
* *
617239 TATACTCATTTGGTTATT-TTT-TA
1 TATACT-ATAT-ATTATTATTTATA
617262 -ATACTATAT-TTATTATTTATA
1 TATACTATATATTATTATTTATA
617283 TATA-TATATAT
1 TATACTATATAT
617294 ATATATACTT
Statistics
Matches: 64, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
19 5 0.08
20 3 0.05
21 15 0.23
22 17 0.27
23 4 0.06
24 12 0.19
25 2 0.03
26 6 0.09
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (23 bp):
TATACTATATATTATTATTTATA
Found at i:617591 original size:2 final size:2
Alignment explanation
Indices: 617584--617609 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
617574 TATTTTACTC
617584 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
617610 TAATATTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:617671 original size:25 final size:25
Alignment explanation
Indices: 617615--617674 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
617605 TATATTAATA
* * *
617615 TTTCATTTCTTTATTTATTTTTCCT
1 TTTCATTTTTTTACTTATTTTTCAT
617640 TTT-ATTTTTTTACTTATTTTT-AT
1 TTTCATTTTTTTACTTATTTTTCAT
617663 TCTTCATTTTTT
1 T-TTCATTTTTT
617675 CATTTATTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 2 0.07
24 18 0.60
25 10 0.33
ACGTcount: A:0.13, C:0.12, G:0.00, T:0.75
Consensus pattern (25 bp):
TTTCATTTTTTTACTTATTTTTCAT
Found at i:620910 original size:16 final size:17
Alignment explanation
Indices: 620891--620931 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
620881 ATGCCTCGAA
620891 CATTTCATGCATTTTT-
1 CATTTCATGCATTTTTG
*
620907 CATTT-TTGCATTTTTG
1 CATTTCATGCATTTTTG
620923 CATCTTCAT
1 CAT-TTCAT
620932 CTACATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
15 9 0.45
16 8 0.40
17 2 0.10
18 1 0.05
ACGTcount: A:0.17, C:0.20, G:0.07, T:0.56
Consensus pattern (17 bp):
CATTTCATGCATTTTTG
Found at i:622138 original size:21 final size:20
Alignment explanation
Indices: 622077--622137 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 20
622067 AATCAAGAAC
622077 AAAAAAGAAAAGAAACAAAAG
1 AAAAAAG-AAAGAAACAAAAG
622098 AAGAAAA-AAGAGAAACAAAAGG
1 AA-AAAAGAA-AGAAACAAAA-G
622120 AAAAAAGAAAGAAA-AAAA
1 AAAAAAGAAAGAAACAAAA
622138 ATCAAAAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
20 6 0.17
21 21 0.58
22 9 0.25
ACGTcount: A:0.80, C:0.03, G:0.16, T:0.00
Consensus pattern (20 bp):
AAAAAAGAAAGAAACAAAAG
Found at i:622144 original size:21 final size:20
Alignment explanation
Indices: 622074--622145 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 20
622064 TCCAATCAAG
622074 AACAAAAAAGAAAAGAAACAA
1 AACAAAAAAG-AAAGAAACAA
*
622095 AAGAAGAAAA-AAGAGAAACAA
1 AACAA-AAAAGAA-AGAAACAA
* *
622116 AAGGAAAAAAGAAAGAAAAAA
1 AA-CAAAAAAGAAAGAAACAA
622137 AATCAAAAA
1 AA-CAAAAA
622146 TCAAAAGGGA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
20 2 0.05
21 32 0.74
22 9 0.21
ACGTcount: A:0.79, C:0.06, G:0.14, T:0.01
Consensus pattern (20 bp):
AACAAAAAAGAAAGAAACAA
Found at i:623850 original size:106 final size:106
Alignment explanation
Indices: 623720--624670 Score: 1308
Period size: 106 Copynumber: 9.0 Consensus size: 106
623710 ATATCGTGCC
* * * *
623720 ACTCGAGACAACACAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
623785 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
623826 ACTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGATCGTTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
623891 AATTTCAAAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
623932 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
623997 AATTTCAGAGCCAATTTTAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* **
624038 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
624103 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
624144 ACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGTTGATTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* *
624209 AATTTCAGAGCCAAATTCAACTTCACAGCGAATGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * * * *
624250 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCCGGTTGTCAA-CAACAATTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* * * * *
624314 AATTTCAGAGCCAGTTTCAACTTCGCAACAAAGGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
624355 ACTCCAGACAACGCAAGTTCAACTTCATGACGAAGGGACCACTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
624420 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
624461 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAATAAAAAACTTCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* * * *
624526 AATTTCAGAACCAATTTCAATTTCTCAGCGAAGGATCTTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* ** * * * * * *
624567 AC-CCAAGACAACACAAGCCCAACTTCACGATGAAGGGGCGGCTGATTGTCAA-CAA-AA-TT-T
1 ACTCC-AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCC
* * *
624627 C-A-TTCAGAGTCAATTTCAACTTCAC-GACGGAGGATATTGA
65 CAATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
624667 ACTC
1 ACTC
624671 GGAACAATGC
Statistics
Matches: 756, Mismatches: 85, Indels: 13
0.89 0.10 0.02
Matches are distributed among these distances:
99 1 0.00
100 31 0.04
101 2 0.00
103 2 0.00
104 2 0.00
105 93 0.12
106 625 0.83
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:624532 original size:423 final size:424
Alignment explanation
Indices: 623725--624622 Score: 1415
Period size: 423 Copynumber: 2.1 Consensus size: 424
623715 GTGCCACTCG
*
623725 AGACAACACAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCCAATTT
1 AGACAACACAAGTTCAACTTCACGACGAAGGGACGGCTGATTGTCAACAAACAACTTCCCAATTT
* * * *
623790 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTCACG
66 CAGAGCCAAATTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACA
** *
623855 ACGAAGGGATCGTTGGTTGTCAATAAACAATTTCCCAATTTCAAAGCCAATTTCAACTTCACAGC
131 ACGAAGGGATCGCCGGTTGTCAATAAACAATTTCCCAATTTCAAAGCCAATTTCAACTTCACAAC
* * *
623920 GAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAT
196 AAAGGATATTAGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAAT
* *
623985 AAATAATTTCCCAATTTCAGAGCCAATTTTAACTTCACAGCGAAGGATATTGGACTCCAGACAAC
261 AAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAAC
* * ** *
624050 GCAAGTTCAACTTCACAACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTTAATTTCAGAGCC
326 GCAAGTTCAACTTCACAACGAAGGGACCACTGGTTGTCAATAAAAAACTTCCAAATTTCAGAACC
624115 AATTTCAACTTCACAGCGAAGGATATTGGACTCC-
391 AATTTCAACTTCACAGCGAAGGATATTGGAC-CCA
** * * *
624149 AGACAATGCAAGTTCAACTTCACGACGAAGGGACCGTTGATTGTCAACAAACAACTTCTCAATTT
1 AGACAACACAAGTTCAACTTCACGACGAAGGGACGGCTGATTGTCAACAAACAACTTCCCAATTT
*
624214 CAGAGCCAAATTCAACTTCACAGCGAATGATATTGGACTCAAGACAACACAAGTTCAACTTCACA
66 CAGAGCCAAATTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACA
* * * * *
624279 ACGAAGGGA-CGGCCGGTTGTCAA-CAACAATTTCTCAATTTCAGAGCCAGTTTCAACTTCGCAA
131 ACGAAGGGATC-GCCGGTTGTCAATAAACAATTTCCCAATTTCAAAGCCAATTTCAACTTCACAA
*
624342 CAAAGGATATTAGACTCCAGACAACGCAAGTTCAACTTCATGACGAAGGGACCACTGGTTGTCAA
195 CAAAGGATATTAGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAA
624407 TAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAA
260 TAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAA
*
624472 CGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAATAAAAAACTTCCAAATTTCAGAAC
325 CGCAAGTTCAACTTCACAACGAAGGGACCACTGGTTGTCAATAAAAAACTTCCAAATTTCAGAAC
* * *
624537 CAATTTCAATTTCTCAGCGAAGGATCTTGGACCCA
390 CAATTTCAACTTCACAGCGAAGGATATTGGACCCA
** * *
624572 AGACAACACAAGCCCAACTTCACGATGAAGGGGCGGCTGATTGTCAACAAA
1 AGACAACACAAGTTCAACTTCACGACGAAGGGACGGCTGATTGTCAACAAA
624623 ATTTCATTCA
Statistics
Matches: 430, Mismatches: 42, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
422 2 0.00
423 290 0.67
424 138 0.32
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (424 bp):
AGACAACACAAGTTCAACTTCACGACGAAGGGACGGCTGATTGTCAACAAACAACTTCCCAATTT
CAGAGCCAAATTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAAGTTCAACTTCACA
ACGAAGGGATCGCCGGTTGTCAATAAACAATTTCCCAATTTCAAAGCCAATTTCAACTTCACAAC
AAAGGATATTAGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAAT
AAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAAC
GCAAGTTCAACTTCACAACGAAGGGACCACTGGTTGTCAATAAAAAACTTCCAAATTTCAGAACC
AATTTCAACTTCACAGCGAAGGATATTGGACCCA
Found at i:625436 original size:37 final size:37
Alignment explanation
Indices: 625378--625482 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
625368 CCTTTTCGTC
*
625378 CTACTAGAATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
625415 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
625452 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
625483 CCACAAGCAC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:626233 original size:29 final size:29
Alignment explanation
Indices: 626201--626270 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
626191 ATTACATGTA
626201 TATTTTTATATTTGGTTTATATATTTAT-T
1 TATTTTTATATTTGGTTT-TATATTTATAT
* *
626230 TATTTTTGGT-TTTGGTTTTTTATTTATAT
1 TATTTTT-ATATTTGGTTTTATATTTATAT
*
626259 TA-TATTATATTT
1 TATTTTTATATTT
626271 TCATATTACT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
27 1 0.03
28 14 0.41
29 18 0.53
30 1 0.03
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (29 bp):
TATTTTTATATTTGGTTTTATATTTATAT
Found at i:626359 original size:4 final size:4
Alignment explanation
Indices: 626346--626407 Score: 72
Period size: 4 Copynumber: 15.2 Consensus size: 4
626336 TATATATTAA
*
626346 TATT TCATT TATT TATT TATT TATT TATT TATT TATT T-TT TCTTT TATT
1 TATT T-ATT TATT TATT TATT TATT TATT TATT TATT TATT T-ATT TATT
* *
626395 TTTT TACT TATT T
1 TATT TATT TATT T
626408 TTATTCTTCA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
3 3 0.06
4 40 0.80
5 7 0.14
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:626408 original size:12 final size:12
Alignment explanation
Indices: 626352--626431 Score: 81
Period size: 12 Copynumber: 6.6 Consensus size: 12
626342 TTAATATTTC
*
626352 ATTTATTTATTT
1 ATTTATTTTTTT
*
626364 ATTTATTTATTT
1 ATTTATTTTTTT
626376 ATTTATTTTTTCT
1 ATTTATTTTTT-T
626389 -TTTATTTTTTT
1 ATTTATTTTTTT
*
626400 ACTTATTTTTATT
1 ATTTATTTTT-TT
* * *
626413 CTTCATTTTTTC
1 ATTTATTTTTTT
626425 ATTTATT
1 ATTTATT
626432 CATTTTTCCC
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
11 1 0.02
12 46 0.81
13 10 0.18
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (12 bp):
ATTTATTTTTTT
Found at i:628035 original size:25 final size:22
Alignment explanation
Indices: 628004--628050 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 22
627994 ATACATTGAC
628004 AAATTATATAAAATACAATAACATT
1 AAATTAT-TAAAA-ACAA-AACATT
*
628029 AAATTATTAGAAACAAAACATT
1 AAATTATTAAAAACAAAACATT
628051 CATTTAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 4 0.19
24 4 0.19
25 7 0.33
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.30
Consensus pattern (22 bp):
AAATTATTAAAAACAAAACATT
Found at i:630944 original size:8 final size:8
Alignment explanation
Indices: 630931--630971 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
630921 CTCATTTTTA
630931 GAGAATTT
1 GAGAATTT
630939 GAGAATTT
1 GAGAATTT
*
630947 -AGAGTTTT
1 GAGA-ATTT
630955 G-GAATTT
1 GAGAATTT
630962 GAGAATTT
1 GAGAATTT
630970 GA
1 GA
630972 AAGCTTGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
7 7 0.25
8 21 0.75
ACGTcount: A:0.34, C:0.00, G:0.27, T:0.39
Consensus pattern (8 bp):
GAGAATTT
Found at i:630970 original size:15 final size:16
Alignment explanation
Indices: 630931--630971 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
630921 CTCATTTTTA
630931 GAGAATTTGAGAATTT
1 GAGAATTTGAGAATTT
*
630947 -AGAGTTTTG-GAATTT
1 GAGA-ATTTGAGAATTT
630962 GAGAATTTGA
1 GAGAATTTGA
630972 AAGCTTGTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 6
0.71 0.07 0.21
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.34, C:0.00, G:0.27, T:0.39
Consensus pattern (16 bp):
GAGAATTTGAGAATTT
Found at i:631280 original size:128 final size:128
Alignment explanation
Indices: 631052--631521 Score: 904
Period size: 128 Copynumber: 3.7 Consensus size: 128
631042 ACTATTCACA
*
631052 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCTATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
631117 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
*
631180 TGAAGGCGCGTTCCCAGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
*
631245 TTATGTCACTCATGTCCCTCGGGGACATTATTCATATCAGTACCTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
631308 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
*
631373 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATAAGTACCTATTATTTCTCAGGGGACT
66 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
631436 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
631501 TTATGTCACTCATGTCCCTCG
66 TTATGTCACTCATGTCCCTCG
631522 TGAACTATAG
Statistics
Matches: 336, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 336 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (128 bp):
TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
Found at i:631966 original size:34 final size:33
Alignment explanation
Indices: 631927--632027 Score: 131
Period size: 34 Copynumber: 3.2 Consensus size: 33
631917 TAAGTTGAAA
*
631927 TTTAATGTTAAATTTCGAATACTATAATTTATAT
1 TTTAATTTTAAATTTCGAATA-TATAATTTATAT
631961 TTTAATTTTAAATTTCGAATA-AT-A-TTAT-T
1 TTTAATTTTAAATTTCGAATATATAATTTATAT
*
631990 TTT-ATTTTAAATTTCGAATAATATAATTTGTAT
1 TTTAATTTTAAATTTCGAAT-ATATAATTTATAT
632023 TTTAA
1 TTTAA
632028 AAACATTTAT
Statistics
Matches: 59, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
28 16 0.27
29 5 0.08
30 6 0.10
31 2 0.03
32 5 0.08
33 4 0.07
34 21 0.36
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (33 bp):
TTTAATTTTAAATTTCGAATATATAATTTATAT
Found at i:631989 original size:28 final size:27
Alignment explanation
Indices: 631958--632028 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 27
631948 CTATAATTTA
631958 TATTTTAATTTTAAATTTCGAATAATAT
1 TATTTT-ATTTTAAATTTCGAATAATAT
631986 TATTTTTATTTTAAATTTCGAATAATAT
1 TA-TTTTATTTTAAATTTCGAATAATAT
*
632014 AATTTGTATTTTAAA
1 TATTT-TATTTTAAA
632029 AACATTTATC
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
27 3 0.08
28 33 0.82
29 4 0.10
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.55
Consensus pattern (27 bp):
TATTTTATTTTAAATTTCGAATAATAT
Found at i:632610 original size:42 final size:42
Alignment explanation
Indices: 632547--632655 Score: 173
Period size: 42 Copynumber: 2.6 Consensus size: 42
632537 TATGGTATAA
* * *
632547 AACCCTGCGGGATAGGCATGTAACCTGGCGGGCTAAGAATGT
1 AACCCTGCGGGCTCGGAATGTAACCTGGCGGGCTAAGAATGT
*
632589 AACCCTGCGGGCTCGGAATGTAACCTGGCGGGCTAGGAATGT
1 AACCCTGCGGGCTCGGAATGTAACCTGGCGGGCTAAGAATGT
*
632631 AACCCCGCGGGCTCGGAATGTAACC
1 AACCCTGCGGGCTCGGAATGTAACC
632656 CTGCGGAGAT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.24, C:0.26, G:0.33, T:0.17
Consensus pattern (42 bp):
AACCCTGCGGGCTCGGAATGTAACCTGGCGGGCTAAGAATGT
Found at i:632656 original size:21 final size:21
Alignment explanation
Indices: 632547--632661 Score: 131
Period size: 21 Copynumber: 5.5 Consensus size: 21
632537 TATGGTATAA
* * *
632547 AACCCTGCGGGATAGGCATGT
1 AACCCGGCGGGCTAGGAATGT
* *
632568 AACCTGGCGGGCTAAGAATGT
1 AACCCGGCGGGCTAGGAATGT
* *
632589 AACCCTGCGGGCTCGGAATGT
1 AACCCGGCGGGCTAGGAATGT
*
632610 AACCTGGCGGGCTAGGAATGT
1 AACCCGGCGGGCTAGGAATGT
* *
632631 AACCCCGCGGGCTCGGAATGT
1 AACCCGGCGGGCTAGGAATGT
*
632652 AACCCTGCGG
1 AACCCGGCGG
632662 AGATGGCATA
Statistics
Matches: 78, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 78 1.00
ACGTcount: A:0.23, C:0.26, G:0.34, T:0.17
Consensus pattern (21 bp):
AACCCGGCGGGCTAGGAATGT
Found at i:632691 original size:21 final size:21
Alignment explanation
Indices: 632665--632712 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
632655 CCTGCGGAGA
*
632665 TGGCATATGAACTGGTGGGCT
1 TGGCATATGAACTGGAGGGCT
*
632686 TGGCATATGAAGTGGAGGGCT
1 TGGCATATGAACTGGAGGGCT
*
632707 AGGCAT
1 TGGCAT
632713 GTACCCCTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATGAACTGGAGGGCT
Found at i:634276 original size:17 final size:17
Alignment explanation
Indices: 634239--634292 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
634229 GCATTATAAA
* *
634239 AAATT-AAAATTAATAT
1 AAATTAAAAATAAATTT
* * *
634255 AAATTCATAATAACTTT
1 AAATTAAAAATAAATTT
634272 AAATTAAAAATAAATTT
1 AAATTAAAAATAAATTT
634289 AAAT
1 AAAT
634293 ATTATCAATA
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 5 0.17
17 25 0.83
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (17 bp):
AAATTAAAAATAAATTT
Found at i:634479 original size:35 final size:34
Alignment explanation
Indices: 634440--634525 Score: 95
Period size: 32 Copynumber: 2.6 Consensus size: 34
634430 AATTCTAAAT
*
634440 AAATAATAATTATATAAATATTATTTTAATAAAAA
1 AAATAATAATTATATAAA-ATTATATTAATAAAAA
* *
634475 AAATAAT-ATT-TATATAATTATATTAATATAAA
1 AAATAATAATTATATAAAATTATATTAATAAAAA
* * *
634507 ATATAATAACTATTTAAAA
1 AAATAATAATTATATAAAA
634526 AATACTAACA
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
32 20 0.48
33 7 0.17
34 8 0.19
35 7 0.17
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (34 bp):
AAATAATAATTATATAAAATTATATTAATAAAAA
Found at i:636447 original size:31 final size:31
Alignment explanation
Indices: 636411--636488 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
636401 TAAAGTCTTT
* * *
636411 TAAAATTCAATAATAAAATTGA-TACATATAG
1 TAAAATTTAATAATAAAATT-ATTACAGATAA
636442 TAAAATTTAATAATAAAATTATTACAGATAA
1 TAAAATTTAATAATAAAATTATTACAGATAA
636473 TAAAATTTAATAATAA
1 TAAAATTTAATAATAA
636489 TTTATATAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
30 1 0.02
31 42 0.98
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (31 bp):
TAAAATTTAATAATAAAATTATTACAGATAA
Found at i:636460 original size:13 final size:13
Alignment explanation
Indices: 636411--636488 Score: 57
Period size: 13 Copynumber: 5.2 Consensus size: 13
636401 TAAAGTCTTT
*
636411 TAAAATTCAATAA
1 TAAAATTTAATAA
636424 TAAAATTGATACATATA
1 TAAAATT--TA-ATA-A
636441 GTAAAATTTAATAA
1 -TAAAATTTAATAA
636455 TAAAATTATTACAGATAA
1 TAAAA-T-TT--A-ATAA
636473 TAAAATTTAATAA
1 TAAAATTTAATAA
636486 TAA
1 TAA
636489 TTTATATAAT
Statistics
Matches: 54, Mismatches: 1, Indels: 20
0.72 0.01 0.27
Matches are distributed among these distances:
13 19 0.35
14 3 0.06
15 6 0.11
16 7 0.13
17 3 0.06
18 16 0.30
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (13 bp):
TAAAATTTAATAA
Found at i:636518 original size:17 final size:16
Alignment explanation
Indices: 636491--636530 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
636481 AATAATAATT
636491 TATATAATTTATCTTAAA
1 TATA-AATTTAT-TTAAA
636509 TATAAATTTATTTAAA
1 TATAAATTTATTTAAA
*
636525 AATAAA
1 TATAAA
636531 ATAAACATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.48
17 7 0.33
18 4 0.19
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
TATAAATTTATTTAAA
Found at i:636532 original size:17 final size:17
Alignment explanation
Indices: 636496--636530 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
636486 TAATTTATAT
*
636496 AATTTATCTTAAATATA
1 AATTTATCTTAAAAATA
636513 AATTTAT-TTAAAAATA
1 AATTTATCTTAAAAATA
636529 AA
1 AA
636531 ATAAACATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (17 bp):
AATTTATCTTAAAAATA
Found at i:637301 original size:2 final size:2
Alignment explanation
Indices: 637294--637340 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
637284 AATATTTTAT
637294 TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA
637336 TA TA T
1 TA TA T
637341 TATTATTATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:638728 original size:20 final size:20
Alignment explanation
Indices: 638686--638729 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
638676 AAGGGTCTGG
* *
638686 CAAGCCCAAGGGGGCTCTAA
1 CAAGCCCAAGGGGGCACGAA
*
638706 CAAGCCCAAGGGGGCACGGA
1 CAAGCCCAAGGGGGCACGAA
638726 CAAG
1 CAAG
638730 GAGAACTCGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.30, G:0.34, T:0.05
Consensus pattern (20 bp):
CAAGCCCAAGGGGGCACGAA
Found at i:640088 original size:29 final size:29
Alignment explanation
Indices: 640067--640124 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
640057 AAACTTTGAA
640067 TAAATTCAATT-AAGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
640096 TAAATTCAATTCAAGTCCAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
640125 TGCCTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 11 0.41
30 14 0.52
31 2 0.07
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:640114 original size:30 final size:30
Alignment explanation
Indices: 640067--640126 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
640057 AAACTTTGAA
640067 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
640096 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
640127 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:643359 original size:34 final size:29
Alignment explanation
Indices: 643320--643391 Score: 144
Period size: 29 Copynumber: 2.5 Consensus size: 29
643310 CATATTATGA
643320 TACATGACATGAATTCATATTATATGTAT
1 TACATGACATGAATTCATATTATATGTAT
643349 TACATGACATGAATTCATATTATATGTAT
1 TACATGACATGAATTCATATTATATGTAT
643378 TACATGACATGAAT
1 TACATGACATGAAT
643392 ATGCAGAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATTATATGTAT
Found at i:643449 original size:30 final size:30
Alignment explanation
Indices: 643415--643471 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
643405 TATATGAGCC
* *
643415 ATGTGATAAAGGTATGTAAATGATATGCCT
1 ATGTGATAAAGGTATGGAAATAATATGCCT
643445 ATGTGATAAAGGTATGGAAATAATATG
1 ATGTGATAAAGGTATGGAAATAATATG
643472 TCTACGCGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.32
Consensus pattern (30 bp):
ATGTGATAAAGGTATGGAAATAATATGCCT
Found at i:643782 original size:24 final size:24
Alignment explanation
Indices: 643717--643784 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
643707 CAATATTATA
*
643717 TGGCACTACGGTGCAAAATTCTACG
1 TGGCACTTCGGTGC-AAATTCTACG
* *
643742 CGGTC-CTTTGG-GACAAATTCTACG
1 TGG-CACTTCGGTG-CAAATTCTACG
643766 TGGCACTTCGGTGCAAATT
1 TGGCACTTCGGTGCAAATT
643785 TATACGAGCT
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
23 1 0.03
24 24 0.71
25 8 0.24
26 1 0.03
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.28
Consensus pattern (24 bp):
TGGCACTTCGGTGCAAATTCTACG
Found at i:644338 original size:7 final size:7
Alignment explanation
Indices: 644322--644373 Score: 68
Period size: 7 Copynumber: 7.4 Consensus size: 7
644312 CCACTGTTCA
*
644322 TCACTGT
1 TCACTAT
644329 TCACTAT
1 TCACTAT
644336 TCACTAT
1 TCACTAT
* *
644343 TCATTGT
1 TCACTAT
644350 TCACTAT
1 TCACTAT
*
644357 TCACTGT
1 TCACTAT
644364 TCACTAT
1 TCACTAT
644371 TCA
1 TCA
644374 TACCATATTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.23, C:0.27, G:0.06, T:0.44
Consensus pattern (7 bp):
TCACTAT
Found at i:644345 original size:14 final size:14
Alignment explanation
Indices: 644322--644373 Score: 77
Period size: 14 Copynumber: 3.7 Consensus size: 14
644312 CCACTGTTCA
* *
644322 TCACTGTTCACTAT
1 TCACTATTCACTGT
*
644336 TCACTATTCATTGT
1 TCACTATTCACTGT
644350 TCACTATTCACTGT
1 TCACTATTCACTGT
644364 TCACTATTCA
1 TCACTATTCA
644374 TACCATATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.23, C:0.27, G:0.06, T:0.44
Consensus pattern (14 bp):
TCACTATTCACTGT
Found at i:644373 original size:21 final size:21
Alignment explanation
Indices: 644323--644373 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
644313 CACTGTTCAT
644323 CACTGTTCACTATTCACTATT
1 CACTGTTCACTATTCACTATT
* *
644344 CATTGTTCACTATTCACTGTT
1 CACTGTTCACTATTCACTATT
*
644365 CACTATTCA
1 CACTGTTCA
644374 TACCATATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.24, C:0.27, G:0.06, T:0.43
Consensus pattern (21 bp):
CACTGTTCACTATTCACTATT
Found at i:648296 original size:55 final size:55
Alignment explanation
Indices: 648229--648341 Score: 129
Period size: 55 Copynumber: 2.1 Consensus size: 55
648219 GCATTCAGAT
* * ** *
648229 GATTCATGAAGAAGAATATTTGACGAATGAATAAATTT-AAACCTGACTGAAGAAC
1 GATTCAGGAAGAAGAACATCCGACGAATGAAGAAATTTGAAA-CTGACTGAAGAAC
* * * *
648284 GATTCAGGAAGAAGGACATCCGATGAATGAAGAAATTTGAAACTGATTGAAGACC
1 GATTCAGGAAGAAGAACATCCGACGAATGAAGAAATTTGAAACTGACTGAAGAAC
648339 GAT
1 GAT
648342 CCACAAAGAA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
55 45 0.94
56 3 0.06
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.23
Consensus pattern (55 bp):
GATTCAGGAAGAAGAACATCCGACGAATGAAGAAATTTGAAACTGACTGAAGAAC
Found at i:648351 original size:55 final size:55
Alignment explanation
Indices: 648253--648359 Score: 135
Period size: 55 Copynumber: 1.9 Consensus size: 55
648243 AATATTTGAC
* * ** *
648253 GAATGAATAAATTTAAACCTGACTGAAGAACGATTCAGGAAGAAGGACATCCGAT
1 GAATGAAGAAATTTAAACCTGACTGAAGAACGATCCACAAAGAAAGACATCCGAT
* *
648308 GAATGAAGAAATTTGAAA-CTGATTGAAGACCGATCCACAAAGAAAGACATCC
1 GAATGAAGAAATTT-AAACCTGACTGAAGAACGATCCACAAAGAAAGACATCC
648360 TGAAGATGTT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
55 41 0.93
56 3 0.07
ACGTcount: A:0.45, C:0.16, G:0.21, T:0.19
Consensus pattern (55 bp):
GAATGAAGAAATTTAAACCTGACTGAAGAACGATCCACAAAGAAAGACATCCGAT
Found at i:649136 original size:72 final size:72
Alignment explanation
Indices: 649019--649169 Score: 266
Period size: 72 Copynumber: 2.1 Consensus size: 72
649009 CCCTATTACA
* *
649019 CAAGAAAATATGAAGACTTCGGGTGAGAATCTGAATGTTAGTGGTGCAACCAATGTGATGATAGC
1 CAAGAACAGATGAAGACTTCGGGTGAGAATCTGAATGTTAGTGGTGCAACCAATGTGATGATAGC
649084 AAATGAT
66 AAATGAT
*
649091 CAAGAACAGATGAAGACTTCGGGTGAGAATCTGAATGTTAGTGGTGCAGCCAATGTGATGATAGC
1 CAAGAACAGATGAAGACTTCGGGTGAGAATCTGAATGTTAGTGGTGCAACCAATGTGATGATAGC
*
649156 AACTGAT
66 AAATGAT
649163 CAAGAAC
1 CAAGAAC
649170 CTATTAGGGG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 75 1.00
ACGTcount: A:0.36, C:0.13, G:0.27, T:0.23
Consensus pattern (72 bp):
CAAGAACAGATGAAGACTTCGGGTGAGAATCTGAATGTTAGTGGTGCAACCAATGTGATGATAGC
AAATGAT
Found at i:653865 original size:37 final size:37
Alignment explanation
Indices: 653815--653928 Score: 135
Period size: 37 Copynumber: 3.1 Consensus size: 37
653805 AAAGCCATGT
* *
653815 CTTCACCAAAGAGTAGTGAAGCAAATCCATTTTTAGC
1 CTTCACTAAAGAGTAGTGAAGCAAATCCATTTTTAAC
* *
653852 CTTCACTAAAGAGTAGTGAAGCAAA-CCATCTTAAAC
1 CTTCACTAAAGAGTAGTGAAGCAAATCCATTTTTAAC
* *
653888 CTTCA-TCGAAGAGTAGTGAAGCATATCC-TTTTTAAAC
1 CTTCACT-AAAGAGTAGTGAAGCAAATCCATTTTT-AAC
653925 CTTC
1 CTTC
653929 TCGGAAGAGT
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
35 1 0.02
36 32 0.48
37 33 0.50
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (37 bp):
CTTCACTAAAGAGTAGTGAAGCAAATCCATTTTTAAC
Found at i:653900 original size:36 final size:37
Alignment explanation
Indices: 653823--653954 Score: 128
Period size: 37 Copynumber: 3.6 Consensus size: 37
653813 GTCTTCACCA
* * * **
653823 AAGAGTAGTGAAGCAAATCCATTTTTAGCCTTCA-CTA
1 AAGAGTAGTGAAGCAAA-CCATCTTAAACCTTCATCGG
653860 AAGAGTAGTGAAGCAAACCATCTTAAACCTTCATC-G
1 AAGAGTAGTGAAGCAAACCATCTTAAACCTTCATCGG
* * *
653896 AAGAGTAGTGAAGCATATCCTTTTTAAACCTTC-TCGG
1 AAGAGTAGTGAAGCA-AACCATCTTAAACCTTCATCGG
*
653933 AAGAGT-GTTGGAGCAAACCATC
1 AAGAGTAG-TGAAGCAAACCATC
653955 AGACTATCAG
Statistics
Matches: 80, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
36 35 0.44
37 45 0.56
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.27
Consensus pattern (37 bp):
AAGAGTAGTGAAGCAAACCATCTTAAACCTTCATCGG
Found at i:654377 original size:54 final size:54
Alignment explanation
Indices: 654315--654935 Score: 1017
Period size: 54 Copynumber: 11.5 Consensus size: 54
654305 GTAGTAAAGC
* *
654315 AGAAGAAGATGTCCGAGTTCCATACTCCCTAGATAAAGAGGGAGCGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
*
654369 AGAAGAAGATATTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* *
654423 AGAAGAAGATATTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCTGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* * *
654477 AGAAGAATATGTTTGAGTTCAATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
*
654531 AGAAGAAGATGCTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* *
654585 AGAAGAAGATATTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCTGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* *
654639 AGAAGAATATGTTCGAGTTTCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* * *
654693 AGAAGAAGATATTCGAGTTCCATACTCCCTAGAGAAAGAGAGAGCGAACCTGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* *
654747 AGAAGAATATGTTTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* * *
654801 AGAAGAAGATGCTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCAAATCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* *
654855 AGAAGAAGATGTTCGAGTTTCATACTCCCTAGATAAAGAGGGAGCGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* *
654909 AGAAGAAGATGTTTGAGTTCTATACTC
1 AGAAGAAGATGTTCGAGTTCCATACTC
654936 TCTGAAGGAA
Statistics
Matches: 524, Mismatches: 43, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 524 1.00
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.19
Consensus pattern (54 bp):
AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
Found at i:655101 original size:55 final size:55
Alignment explanation
Indices: 654913--655332 Score: 469
Period size: 55 Copynumber: 7.8 Consensus size: 55
654903 CCCGTAAGAA
* * * *
654913 GAAGA-TGTTTGAGTTCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTATT
1 GAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCAGACCCGTTTATT
* * * *
654967 GAAGA----TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACACGTTTATT
1 GAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCAGACCCGTTTATT
*
655018 GAAGA----TCGAG-TCTTATACTCTCTGAAGGAATAGAGAGCAGACCCGTTTGTT
1 GAAGATTGTTCGAGTTC-TATACTCTCTGAAGGAATAGAGAGCAGACCCGTTTATT
* *
655069 GAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAG-TGAACCCGTTTGTT
1 GAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCAG-ACCCGTTTATT
* *
655124 GAAGATTGTTCAAGTTCTATACTCTCTGAAGGAATAGAGAGC-GAACCTGTTTATT
1 GAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCAG-ACCCGTTTATT
* * *
655179 GAAGATTTTTTGAGTTCTATACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATT
1 GAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCAGACCCG-TTTATT
** * *
655235 GAAGATTGTTAAAG-TCTTATACTCTCTGAATGAATACG-GAGCAGACACGTTTA-T
1 GAAGATTGTTCGAGTTC-TATACTCTCTGAAGGAATA-GAGAGCAGACCCGTTTATT
655289 GAAGATTGTTCGAG-TCTTATACT-TCCTGAAGGAATAGAGAGCAG
1 GAAGATTGTTCGAGTTC-TATACTCT-CTGAAGGAATAGAGAGCAG
655333 GCTCGTCATT
Statistics
Matches: 328, Mismatches: 24, Indels: 28
0.86 0.06 0.07
Matches are distributed among these distances:
50 1 0.00
51 93 0.28
53 2 0.01
54 44 0.13
55 140 0.43
56 47 0.14
57 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (55 bp):
GAAGATTGTTCGAGTTCTATACTCTCTGAAGGAATAGAGAGCAGACCCGTTTATT
Found at i:659247 original size:20 final size:20
Alignment explanation
Indices: 659222--659289 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
659212 TTCGTACATG
659222 GATGCACAGCAGGATGCATC
1 GATGCACAGCAGGATGCATC
**
659242 GATGCACAGCCTTGATGCATC
1 GATGCACAG-CAGGATGCATC
* * *
659263 GATTCATAGAAGGATGCATC
1 GATGCACAGCAGGATGCATC
659283 GATGCAC
1 GATGCAC
659290 TAATTGCATT
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 22 0.58
21 16 0.42
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (20 bp):
GATGCACAGCAGGATGCATC
Found at i:659357 original size:22 final size:23
Alignment explanation
Indices: 659324--659366 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
659314 ATGGATGCAC
659324 TGCATGGTGCATCGATGCACTAG
1 TGCATGGTGCATCGATGCACTAG
*
659347 TGCA-GGTGCATGGATGCACT
1 TGCATGGTGCATCGATGCACT
659367 GCAGGGGTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.26
Consensus pattern (23 bp):
TGCATGGTGCATCGATGCACTAG
Found at i:659514 original size:30 final size:30
Alignment explanation
Indices: 659467--659526 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
659457 AAACTTTGAA
659467 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
*
659496 TAAATTTAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
659527 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 10 0.36
30 11 0.39
31 7 0.25
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.35
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:661265 original size:13 final size:13
Alignment explanation
Indices: 661234--661280 Score: 53
Period size: 14 Copynumber: 3.7 Consensus size: 13
661224 AAAAAGGAAA
661234 AAAGAGAAAAAAC
1 AAAGAGAAAAAAC
*
661247 -AA-AGAAAAAGC
1 AAAGAGAAAAAAC
*
661258 AAAGAGAAAATAAA
1 AAAGAGAAAA-AAC
661272 AAAGAGAAA
1 AAAGAGAAA
661281 TAAAAACAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
11 8 0.29
12 4 0.14
13 6 0.21
14 10 0.36
ACGTcount: A:0.77, C:0.04, G:0.17, T:0.02
Consensus pattern (13 bp):
AAAGAGAAAAAAC
Found at i:661277 original size:14 final size:13
Alignment explanation
Indices: 661231--661286 Score: 55
Period size: 13 Copynumber: 4.4 Consensus size: 13
661221 AACAAAAAGG
661231 AAAAAAGAGAAA-
1 AAAAAAGAGAAAT
661243 AAACAAAGA-AAA-
1 AAA-AAAGAGAAAT
**
661255 AGCAAAGAGAAAAT
1 AAAAAAGAG-AAAT
661269 AAAAAAGAGAAAT
1 AAAAAAGAGAAAT
661282 AAAAA
1 AAAAA
661287 CAAAGGAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
11 5 0.14
12 7 0.19
13 17 0.47
14 7 0.19
ACGTcount: A:0.79, C:0.04, G:0.14, T:0.04
Consensus pattern (13 bp):
AAAAAAGAGAAAT
Found at i:661291 original size:30 final size:31
Alignment explanation
Indices: 661241--661310 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
661231 AAAAAAGAGA
* *
661241 AAAAACAAAGAAAAAGCAAAGAGAAAAT-AA-
1 AAAAAGAAATAAAAAGCAAAG-GAAAATGAAG
661271 AAAAGAGAAATAAAAA-CAAAGGAAAATGAAG
1 AAAA-AGAAATAAAAAGCAAAGGAAAATGAAG
661302 AAAAAGAAA
1 AAAAAGAAA
661311 ACAAGACACA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 6 0.17
30 16 0.46
31 13 0.37
ACGTcount: A:0.76, C:0.04, G:0.16, T:0.04
Consensus pattern (31 bp):
AAAAAGAAATAAAAAGCAAAGGAAAATGAAG
Found at i:661310 original size:15 final size:14
Alignment explanation
Indices: 661231--661311 Score: 51
Period size: 13 Copynumber: 5.8 Consensus size: 14
661221 AACAAAAAGG
*
661231 AAAAAAGAGAA-AA
1 AAAAAAGAAAATAA
* *
661244 AACAAAGAAAA-AG
1 AAAAAAGAAAATAA
* *
661257 CAAAGAGAAAATAA
1 AAAAAAGAAAATAA
*
661271 AAAAGAG-AAATAA
1 AAAAAAGAAAATAA
661284 AAACAAAGGAAAATGAA
1 AAA-AAA-GAAAAT-AA
*
661301 GAAAAAGAAAA
1 AAAAAAGAAAA
661312 CAAGACACAT
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
13 27 0.51
14 9 0.17
15 6 0.11
16 7 0.13
17 4 0.08
ACGTcount: A:0.77, C:0.04, G:0.16, T:0.04
Consensus pattern (14 bp):
AAAAAAGAAAATAA
Found at i:663966 original size:26 final size:26
Alignment explanation
Indices: 663935--663987 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
663925 TGAAAAAACC
*
663935 TGAGTGCATCGATGCATCAAATACAT
1 TGAGTGCATCGATGCATAAAATACAT
*
663961 TGAGTGCATCGATGCATAAAATGCAT
1 TGAGTGCATCGATGCATAAAATACAT
663987 T
1 T
663988 CGATGTTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (26 bp):
TGAGTGCATCGATGCATAAAATACAT
Found at i:664013 original size:71 final size:71
Alignment explanation
Indices: 663891--664024 Score: 200
Period size: 71 Copynumber: 1.9 Consensus size: 71
663881 GGTGCACTAA
* *
663891 GAGTGCATTGATGCATAAAATGCATTCGATGTTTTGAAAAAACCTGAGTGCATCGATGCATCAAA
1 GAGTGCATCGATGCATAAAATGCATTCGATGTTTTGAAAAAAACTGAGTGCATCGATGCATCAAA
663956 TACATT
66 TACATT
* *
663962 GAGTGCATCGATGCATAAAATGCATTCGATG-TTTGAAAAATTAATTG-GTGCATCGGTGCATCA
1 GAGTGCATCGATGCATAAAATGCATTCGATGTTTTGAAAAA--AACTGAGTGCATCGATGCATCA
664025 CTTTGAAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
70 9 0.16
71 45 0.79
72 3 0.05
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.30
Consensus pattern (71 bp):
GAGTGCATCGATGCATAAAATGCATTCGATGTTTTGAAAAAAACTGAGTGCATCGATGCATCAAA
TACATT
Found at i:672350 original size:11 final size:11
Alignment explanation
Indices: 672328--672363 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
672318 GTTTGATGCT
672328 TTCTCT-TTGA
1 TTCTCTCTTGA
672338 TTCTCTCTTGA
1 TTCTCTCTTGA
672349 TTCTCTCTTGA
1 TTCTCTCTTGA
672360 TTCT
1 TTCT
672364 AGTTGCTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 6 0.24
11 19 0.76
ACGTcount: A:0.08, C:0.25, G:0.08, T:0.58
Consensus pattern (11 bp):
TTCTCTCTTGA
Found at i:672760 original size:20 final size:20
Alignment explanation
Indices: 672735--672792 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
672725 TGAAAAATTA
672735 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
672755 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
672775 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
672793 CACTTTGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.19, C:0.16, G:0.34, T:0.31
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:673081 original size:36 final size:36
Alignment explanation
Indices: 673040--673518 Score: 390
Period size: 36 Copynumber: 13.5 Consensus size: 36
673030 TGTTTTCAAC
* *
673040 ACAGTTTCTCTTGAAACAAATCTTATCTCTCTTGAG
1 ACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAG
*
673076 ACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAG
1 ACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAG
*
673112 ACAGTTTCCCTTGAAACAAA----G--TCT-TTGA-
1 ACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAG
* * *
673140 ATATGTTT-TACATT-AAATAAATTTTGTCTCCCTTGAG
1 ACA-GTTTCT-C-TTGAAACAAATTTTGTCTCTCTTGAG
* * * *
673177 ACAATTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAG
1 ACAGTTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAG
* * *
673214 ACAATTTCTCTTGAAATAAATTTTGTCTTTGTCTCTCTTAAG
1 ACAGTTTCTCTTGAAACAAA-----T-TTTGTCTCTCTTGAG
673256 ACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAG
1 ACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAG
* *
673292 ACAGTTTCCCTTGAAACAAA--TTGTCTCTTTTGAG
1 ACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAG
* * *
673326 ATAGTTTCCCTTGAAACAAA------ATCT-TTGA-
1 ACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAG
* * **
673354 ATATGTTT-TCTTTGAAATAAATTTCATCTCTCTTGAG
1 ACA-GTTTCTC-TTGAAACAAATTTTGTCTCTCTTGAG
* * *
673391 ACTGTTTCT-TTCGGAACTAAGTTTTGTCTCTCTTGAG
1 ACAGTTTCTCTT-GAAAC-AAATTTTGTCTCTCTTGAG
* *
673428 ACAATTTCTCTTGAAATAAATTTTGTCTCTCTTGAG
1 ACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAG
* *
673464 ACAGTTTCCCTTAAAACAAAGTTTTGTCTCTCTTGAG
1 ACAGTTTCTCTTGAAACAAA-TTTTGTCTCTCTTGAG
*
673501 ATAGTTTCTCTTGAAACA
1 ACAGTTTCTCTTGAAACA
673519 CAAAAAAAAC
Statistics
Matches: 360, Mismatches: 48, Indels: 69
0.75 0.10 0.14
Matches are distributed among these distances:
28 6 0.02
29 32 0.09
30 8 0.02
32 1 0.00
33 1 0.00
34 32 0.09
35 9 0.03
36 142 0.39
37 94 0.26
38 2 0.01
41 1 0.00
42 32 0.09
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (36 bp):
ACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAG
Found at i:673258 original size:42 final size:42
Alignment explanation
Indices: 673199--673283 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
673189 GGAACTAAGT
* *
673199 TTTGTCTCTCTTGAGACAATTTCTCTTGAAATAAATTTTGTC
1 TTTGTCTCTCTTAAGACAATTTCTCTTGAAACAAATTTTGTC
*
673241 TTTGTCTCTCTTAAGACAGTTTCTCTTGAAACAAATTTTGTC
1 TTTGTCTCTCTTAAGACAATTTCTCTTGAAACAAATTTTGTC
673283 T
1 T
673284 CTCTTGAGAC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.47
Consensus pattern (42 bp):
TTTGTCTCTCTTAAGACAATTTCTCTTGAAACAAATTTTGTC
Found at i:673411 original size:214 final size:209
Alignment explanation
Indices: 673040--673518 Score: 710
Period size: 214 Copynumber: 2.3 Consensus size: 209
673030 TGTTTTCAAC
* *
673040 ACAGTTTCTCTTGAAACAAATCTTATCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTC
1 ACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA-TTTGTCTC
* **
673105 TCTTGAGACAGTTTCCCTTGAAACAAAGTCTTTGAATATGTTTTACATTAAATAAATTTTGTCTC
65 TCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATATGTTTTACATTAAATAAATTTCATCTC
*
673170 CCTTGAGACAATTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAATTTCTCTTGAAATAAAT
130 CCTTGAGACAATTTCTTTCGGAACTAAGTTTTGTCTCTCTTGAGACAATTTCTCTTGAAATAAA-
673235 TTTGTCTTTGTCTCTCTTAAG
194 ----T-TTTGTCTCTCTTAAG
673256 ACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA-TTGTCTCT
1 ACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTGTCTCT
* * *
673320 TTTGAGATAGTTTCCCTTGAAACAAAATCTTTGAATATGTTTT-CTTTGAAATAAATTTCATCTC
66 CTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATATGTTTTACATT-AAATAAATTTCATCTC
* **
673384 TCTTGAGACTGTTTCTTTCGGAACTAAGTTTTGTCTCTCTTGAGACAATTTCTCTTGAAATAAAT
130 CCTTGAGACAATTTCTTTCGGAACTAAGTTTTGTCTCTCTTGAGACAATTTCTCTTGAAATAAAT
*
673449 TTTGTCTCTCTTGAG
195 TTTGTCTCTCTTAAG
* * * *
673464 ACAGTTTCCCTTAAAACAAAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAACA
1 ACAGTTTCTCTTGAAACAAA-TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
673519 CAAAAAAAAC
Statistics
Matches: 244, Mismatches: 17, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
208 32 0.13
209 33 0.14
213 3 0.01
214 122 0.50
216 54 0.22
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (209 bp):
ACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTGTCTCT
CTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATATGTTTTACATTAAATAAATTTCATCTCC
CTTGAGACAATTTCTTTCGGAACTAAGTTTTGTCTCTCTTGAGACAATTTCTCTTGAAATAAATT
TTGTCTCTCTTAAG
Found at i:673428 original size:37 final size:35
Alignment explanation
Indices: 673360--673515 Score: 150
Period size: 37 Copynumber: 4.3 Consensus size: 35
673350 TTGAATATGT
* * ** *
673360 TTTCTTTGAAATAAATTTCATCTCTCTTGAGACTG
1 TTTCTTTGAACTAAGTTTTGTCTCTCTTGAGACAG
*
673395 TTTCTTTCGGAACTAAGTTTTGTCTCTCTTGAGACAA
1 TTTCTTT--GAACTAAGTTTTGTCTCTCTTGAGACAG
* *
673432 TTTCTCTTGAAATAAATTTTGTCTCTCTTGAGACAG
1 TTTCT-TTGAACTAAGTTTTGTCTCTCTTGAGACAG
** * *
673468 TTTCCCTTAAAACAAAGTTTTGTCTCTCTTGAGATAG
1 TTT--CTTTGAACTAAGTTTTGTCTCTCTTGAGACAG
673505 TTTCTCTTGAA
1 TTTCT-TTGAA
673516 ACACAAAAAA
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
35 9 0.09
36 31 0.32
37 54 0.55
38 4 0.04
ACGTcount: A:0.24, C:0.18, G:0.13, T:0.44
Consensus pattern (35 bp):
TTTCTTTGAACTAAGTTTTGTCTCTCTTGAGACAG
Found at i:673486 original size:73 final size:73
Alignment explanation
Indices: 673360--673516 Score: 210
Period size: 73 Copynumber: 2.2 Consensus size: 73
673350 TTGAATATGT
* * ** *
673360 TTTCT-TTGAAATAAATTTCATCTCTCTTGAGACTGTTTCTTTCGGAACTAAGTTTTGTCTCTCT
1 TTTCTCTTGAAATAAATTTCATCTCTCTTGAGACAGTTTCCTTCAAAACAAAGTTTTGTCTCTCT
673424 TGAGACAA
66 TGAGACAA
**
673432 TTTCTCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTT-AAAACAAAGTTTTGTCTCTC
1 TTTCTCTTGAAATAAATTTCATCTCTCTTGAGACAGTTT-CCTTCAAAACAAAGTTTTGTCTCTC
* *
673496 TTGAGATAG
65 TTGAGACAA
673505 TTTCTCTTGAAA
1 TTTCTCTTGAAA
673517 CACAAAAAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
72 5 0.07
73 66 0.89
74 3 0.04
ACGTcount: A:0.25, C:0.18, G:0.13, T:0.44
Consensus pattern (73 bp):
TTTCTCTTGAAATAAATTTCATCTCTCTTGAGACAGTTTCCTTCAAAACAAAGTTTTGTCTCTCT
TGAGACAA
Found at i:673518 original size:37 final size:37
Alignment explanation
Indices: 673380--673518 Score: 183
Period size: 37 Copynumber: 3.8 Consensus size: 37
673370 ATAAATTTCA
* * *
673380 TCTCTCTTGAGACTGTTTCT-TTCGGAACTAAGTTTTG
1 TCTCTCTTGAGACAGTTTCTCTT-GAAACAAAGTTTTG
* *
673417 TCTCTCTTGAGACAATTTCTCTTGAAATAAA-TTTTG
1 TCTCTCTTGAGACAGTTTCTCTTGAAACAAAGTTTTG
* *
673453 TCTCTCTTGAGACAGTTTCCCTTAAAACAAAGTTTTG
1 TCTCTCTTGAGACAGTTTCTCTTGAAACAAAGTTTTG
*
673490 TCTCTCTTGAGATAGTTTCTCTTGAAACA
1 TCTCTCTTGAGACAGTTTCTCTTGAAACA
673519 CAAAAAAAAC
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
36 32 0.36
37 54 0.61
38 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.14, T:0.42
Consensus pattern (37 bp):
TCTCTCTTGAGACAGTTTCTCTTGAAACAAAGTTTTG
Found at i:673901 original size:3 final size:3
Alignment explanation
Indices: 673889--673959 Score: 74
Period size: 3 Copynumber: 22.7 Consensus size: 3
673879 CAAAAACATT
673889 TTA TTA -TA TTA TTTA TTTA TTTA TTTA TTTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA -TTA -TTA -TTA -TTA -TTA TTA TTA TTA TTA TTA
*
673935 TTA TTA TTT TTA TTA TT- TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
673960 TTTGTATGCC
Statistics
Matches: 63, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
2 4 0.06
3 40 0.63
4 19 0.30
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:673906 original size:4 final size:4
Alignment explanation
Indices: 673888--673921 Score: 52
Period size: 4 Copynumber: 8.5 Consensus size: 4
673878 ACAAAAACAT
673888 TTTA -TTA TATTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TT
673922 ATTATTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 3 0.11
4 21 0.75
5 4 0.14
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:674617 original size:13 final size:13
Alignment explanation
Indices: 674599--674628 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
674589 GATCGAATAC
674599 TTTTAAATTTTAA
1 TTTTAAATTTTAA
*
674612 TTTTAATTTTTAA
1 TTTTAAATTTTAA
674625 TTTT
1 TTTT
674629 CGCAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:677854 original size:27 final size:27
Alignment explanation
Indices: 677816--677870 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
677806 ATCAACGGCT
677816 CGTGATTCTTCAATTATTAGTGCATGG
1 CGTGATTCTTCAATTATTAGTGCATGG
*
677843 CGTGATTCTTCAATTATTGGTGCATGG
1 CGTGATTCTTCAATTATTAGTGCATGG
677870 C
1 C
677871 AGCCGACCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (27 bp):
CGTGATTCTTCAATTATTAGTGCATGG
Found at i:678294 original size:30 final size:30
Alignment explanation
Indices: 678225--678330 Score: 142
Period size: 30 Copynumber: 3.5 Consensus size: 30
678215 TTTAGTTAAT
* *
678225 TAGTTTTTTAGTAGTGAA-TTATAATTAAAAAA
1 TAGTTTATTAGT--TGAAGTTAT-ATTAAAGAA
* *
678257 TATTTTATTAGTTTAAGTTATATTAAAGAA
1 TAGTTTATTAGTTGAAGTTATATTAAAGAA
678287 TAGTTTATTAGTTGAAGTTATATTAAAGAA
1 TAGTTTATTAGTTGAAGTTATATTAAAGAA
678317 TAGTTTATTAGTTG
1 TAGTTTATTAGTTG
678331 TTTAAAGAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
30 53 0.79
31 4 0.06
32 10 0.15
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.47
Consensus pattern (30 bp):
TAGTTTATTAGTTGAAGTTATATTAAAGAA
Found at i:678325 original size:15 final size:16
Alignment explanation
Indices: 678272--678326 Score: 55
Period size: 15 Copynumber: 3.6 Consensus size: 16
678262 TATTAGTTTA
678272 AGTTATATTAAAGAAT
1 AGTTATATTAAAGAAT
**
678288 AGTT-TATTAGTTG-A-
1 AGTTATATTA-AAGAAT
678302 AGTTATATTAAAGAAT
1 AGTTATATTAAAGAAT
678318 AGTT-TATTA
1 AGTTATATTA
678327 GTTGTTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
14 5 0.16
15 17 0.55
16 9 0.29
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.44
Consensus pattern (16 bp):
AGTTATATTAAAGAAT
Found at i:678412 original size:15 final size:16
Alignment explanation
Indices: 678384--678417 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
678374 GTTTGTTACT
678384 TTATAAGTTTATTATA
1 TTATAAGTTTATTATA
678400 TTATAAG-TTATTATA
1 TTATAAGTTTATTATA
678415 TTA
1 TTA
678418 AATTTTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TTATAAGTTTATTATA
Found at i:680583 original size:25 final size:25
Alignment explanation
Indices: 680553--680601 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
680543 ATATTTATAA
680553 TAAATCATTACTATCAAATCATTAT
1 TAAATCATTACTATCAAATCATTAT
680578 TAAATCATTACTATCAAATCATTA
1 TAAATCATTACTATCAAATCATTA
680602 AAAATTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (25 bp):
TAAATCATTACTATCAAATCATTAT
Found at i:680584 original size:11 final size:14
Alignment explanation
Indices: 680554--680601 Score: 75
Period size: 14 Copynumber: 3.6 Consensus size: 14
680544 TATTTATAAT
680554 AAATCATTACTATC
1 AAATCATTACTATC
680568 AAATCATTA-T-T-
1 AAATCATTACTATC
680579 AAATCATTACTATC
1 AAATCATTACTATC
680593 AAATCATTA
1 AAATCATTA
680602 AAAATTAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
11 9 0.29
12 2 0.06
13 2 0.06
14 18 0.58
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.38
Consensus pattern (14 bp):
AAATCATTACTATC
Found at i:680633 original size:60 final size:60
Alignment explanation
Indices: 680569--680878 Score: 523
Period size: 60 Copynumber: 5.2 Consensus size: 60
680559 ATTACTATCA
* * *
680569 AATCATTATTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTAATTATTAAT
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
* *
680629 AATCATTACTATATCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACT
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
* *
680689 AATCATTACTAAATCATTACTATCAAATCATTAAATATTAATAACAATTTCATTATTACT
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
*
680749 AATCATTATTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
* *
680809 AATCATTACT-AATTATTACTATCAAATCATTAAAAATTAATAATAATTTCAGTATTACT
1 AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
680868 AATCATTACTA
1 AATCATTACTA
680879 TCAAATCATT
Statistics
Matches: 236, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
59 57 0.24
60 179 0.76
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.41
Consensus pattern (60 bp):
AATCATTACTAAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACT
Found at i:680660 original size:14 final size:12
Alignment explanation
Indices: 680627--680721 Score: 51
Period size: 11 Copynumber: 7.8 Consensus size: 12
680617 TTAATTATTA
680627 ATAATCATTACT
1 ATAATCATTACT
680639 AT-ATCATTACT
1 ATAATCATTACT
680650 ATCAAATCA-T--T
1 AT--AATCATTACT
*
680661 A-AAT-ATTAAT
1 ATAATCATTACT
*
680671 AATAATTTCATTATT
1 -ATAA--TCATTACT
680686 ACTAATCATTACT
1 A-TAATCATTACT
680699 A-AATCATTACT
1 ATAATCATTACT
680710 ATCAAATCATTA
1 AT--AATCATTA
680722 AATATTAATA
Statistics
Matches: 66, Mismatches: 2, Indels: 28
0.69 0.02 0.29
Matches are distributed among these distances:
7 1 0.02
8 4 0.06
10 1 0.02
11 25 0.38
12 4 0.06
13 9 0.14
14 14 0.21
15 8 0.12
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (12 bp):
ATAATCATTACT
Found at i:680728 original size:21 final size:20
Alignment explanation
Indices: 680553--680788 Score: 75
Period size: 21 Copynumber: 11.4 Consensus size: 20
680543 ATATTTATAA
680553 TAAATCATTACTATCAAATCATTAT
1 TAAAT-ATTACTATC-AATC---AT
680578 TAAATCATTACTATCAAATCAT
1 TAAAT-ATTACTATC-AATCAT
* *
680600 TAAAAATTA--AT-AATAATT
1 TAAATATTACTATCAATCA-T
*
680618 TAATTATTA--AT-AATCAT
1 TAAATATTACTATCAATCAT
680635 TACTATATCATTACTATCAAATCAT
1 TA--A-AT-ATTACTATC-AATCAT
*
680660 TAAATATTA--AT-AATAATT
1 TAAATATTACTATCAATCA-T
* * * *
680678 TCATTATTACTAATC-ATTAC
1 TAAATATTACT-ATCAATCAT
680698 TAAATCATTACTATCAAATCAT
1 TAAAT-ATTACTATC-AATCAT
* *
680720 TAAATATTAATAACAAT--T
1 TAAATATTACTATCAATCAT
* * *
680738 TCATTATTACTAATC-ATTAT
1 TAAATATTACT-ATCAATCAT
680758 TAAATCATTACTATCAAATCAT
1 TAAAT-ATTACTATC-AATCAT
*
680780 TAAAAATTA
1 TAAATATTA
680789 ATAATAATTT
Statistics
Matches: 163, Mismatches: 25, Indels: 50
0.68 0.11 0.21
Matches are distributed among these distances:
17 11 0.07
18 33 0.20
19 7 0.04
20 17 0.10
21 40 0.25
22 24 0.15
23 3 0.02
25 28 0.17
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAATATTACTATCAATCAT
Found at i:680817 original size:49 final size:49
Alignment explanation
Indices: 680751--680976 Score: 330
Period size: 49 Copynumber: 4.4 Consensus size: 49
680741 TTATTACTAA
680751 TCATTATTA--AATCATTACTATCAAATCATTAAAAATTAATAATAATT
1 TCATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATT
680798 TCATTATTACTAATCATTACTAATTATTACTATCAAATCATTAAAAATTAATAATAATT
1 TCATTATTACT-A--A-T-C-----ATTACTATCAAATCATTAAAAATTAATAATAATT
*
680857 TCAGTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATT
1 TCATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATT
*
680906 TCATTATTACTAATCATTACTATCAAATCATTAAAAAATAATAATAATT
1 TCATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATT
680955 TCATTATTACTAATCATTACTA
1 TCATTATTACTAATCATTACTA
680977 AATCATTAAT
Statistics
Matches: 164, Mismatches: 3, Indels: 22
0.87 0.02 0.12
Matches are distributed among these distances:
47 9 0.05
49 103 0.63
50 1 0.01
52 1 0.01
53 1 0.01
54 2 0.01
55 1 0.01
56 1 0.01
58 1 0.01
59 44 0.27
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.41
Consensus pattern (49 bp):
TCATTATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATT
Found at i:680990 original size:60 final size:60
Alignment explanation
Indices: 680911--681040 Score: 217
Period size: 60 Copynumber: 2.2 Consensus size: 60
680901 TAATTTCATT
* *
680911 ATTACT-AATCATTACTATCAAATCATTAAAAAATAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTAATATCAAATCATTAAAAAATAATAATAATTTCATCATTACTAATC
* *
680970 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATCATTACTAATC
1 ATTACTAAATCATTAATATCAAATCATTAAAAAATAATAATAATTTCATCATTACTAATC
681030 ATTACTAAATC
1 ATTACTAAATC
681041 TTATAAATAC
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
59 6 0.09
60 60 0.91
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (60 bp):
ATTACTAAATCATTAATATCAAATCATTAAAAAATAATAATAATTTCATCATTACTAATC
Found at i:683959 original size:26 final size:24
Alignment explanation
Indices: 683899--683959 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 24
683889 TACTAATATT
*
683899 ATTAATAATGATTTAATAATTATT
1 ATTAATAATGATTTAATAATTATG
* *
683923 ATTAATCTAATGATTTGATATTTAATG
1 ATTAA--TAATGATTTAATAATT-ATG
683950 ATTTAATAAT
1 A-TTAATAAT
683960 AATATGATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
24 5 0.17
26 18 0.60
27 3 0.10
28 4 0.13
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.49
Consensus pattern (24 bp):
ATTAATAATGATTTAATAATTATG
Found at i:684787 original size:21 final size:21
Alignment explanation
Indices: 684754--684802 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
684744 AATATAATAT
684754 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
684775 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
684796 ATTAACT
1 A-TAACT
684803 AGATTTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:685349 original size:29 final size:29
Alignment explanation
Indices: 685307--685441 Score: 168
Period size: 29 Copynumber: 4.6 Consensus size: 29
685297 TGATAATGCA
685307 GACCTACCATGTCGCCGGGACTCCATGGC
1 GACCTACCATGTCGCCGGGACTCCATGGC
* * *
685336 GACCTACCATGTCGCCGGTGTCGTCGGACTCGC
1 GACCTACCATGTCGCCGG-GAC-TC-CA-TGGC
*
685369 AACCTACCATGTCGCCGGGACTCCATGGC
1 GACCTACCATGTCGCCGGGACTCCATGGC
*
685398 GACCTACCATGT---CGGCACTCCATGGC
1 GACCTACCATGTCGCCGGGACTCCATGGC
685424 GACCTACCATGTCGCCGG
1 GACCTACCATGTCGCCGG
685442 CCATGGCAAC
Statistics
Matches: 90, Mismatches: 9, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
26 25 0.28
29 35 0.39
30 3 0.03
31 4 0.04
32 3 0.03
33 20 0.22
ACGTcount: A:0.17, C:0.38, G:0.27, T:0.19
Consensus pattern (29 bp):
GACCTACCATGTCGCCGGGACTCCATGGC
Found at i:685424 original size:26 final size:26
Alignment explanation
Indices: 685370--685437 Score: 100
Period size: 26 Copynumber: 2.5 Consensus size: 26
685360 CGGACTCGCA
*
685370 ACCTACCATGTCGCCGGGACTCCATGGCG
1 ACCTACCATGT---CGGCACTCCATGGCG
685399 ACCTACCATGTCGGCACTCCATGGCG
1 ACCTACCATGTCGGCACTCCATGGCG
685425 ACCTACCATGTCG
1 ACCTACCATGTCG
685438 CCGGCCATGG
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
26 27 0.71
29 11 0.29
ACGTcount: A:0.19, C:0.38, G:0.24, T:0.19
Consensus pattern (26 bp):
ACCTACCATGTCGGCACTCCATGGCG
Found at i:685433 original size:13 final size:13
Alignment explanation
Indices: 685391--685434 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
685381 CGCCGGGACT
685391 CCATGGCGACCTA
1 CCATGGCGACCTA
* *
685404 CCATGTCGGCACT-
1 CCATGGCGAC-CTA
685417 CCATGGCGACCTA
1 CCATGGCGACCTA
685430 CCATG
1 CCATG
685435 TCGCCGGCCA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 2 0.08
13 21 0.84
14 2 0.08
ACGTcount: A:0.20, C:0.39, G:0.23, T:0.18
Consensus pattern (13 bp):
CCATGGCGACCTA
Found at i:685787 original size:29 final size:29
Alignment explanation
Indices: 685674--685785 Score: 199
Period size: 29 Copynumber: 3.9 Consensus size: 29
685664 AAAGAATGAT
*
685674 GGACGTCGGGCGTGCATGGCGACCTTATA
1 GGACGCCGGGCGTGCATGGCGACCTTATA
685703 GGACGCCGGGCGTGCATGGCGACCTTATA
1 GGACGCCGGGCGTGCATGGCGACCTTATA
685732 GGACGCCGGGCGTGCATGGCGACC-TATAA
1 GGACGCCGGGCGTGCATGGCGACCTTAT-A
685761 GGACGCCGGGCGTGCATGGCGACCT
1 GGACGCCGGGCGTGCATGGCGACCT
685786 ATGCTGTCAC
Statistics
Matches: 80, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
28 3 0.04
29 77 0.96
ACGTcount: A:0.17, C:0.28, G:0.39, T:0.16
Consensus pattern (29 bp):
GGACGCCGGGCGTGCATGGCGACCTTATA
Found at i:687855 original size:37 final size:37
Alignment explanation
Indices: 687796--687915 Score: 176
Period size: 35 Copynumber: 3.3 Consensus size: 37
687786 ATCCCATTAT
* *
687796 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAAC
*
687832 TATTTTTCAAAGAAACATTTACCAAACTTT-AAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAAC
687868 CA-TTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAAC
687903 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
687916 TTGGTTACCA
Statistics
Matches: 76, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
35 34 0.45
36 14 0.18
37 28 0.37
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.32
Consensus pattern (37 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAAC
Found at i:692465 original size:37 final size:37
Alignment explanation
Indices: 692417--692525 Score: 161
Period size: 35 Copynumber: 3.0 Consensus size: 37
692407 ATTGTTCAAC
* * *
692417 AAACATCTACCAAGCTTTGAAAAACTATTTTTCAAAG
1 AAACATTTACCAAACTTTGAAAAACCATTTTTCAAAG
692454 AAACATTTACCAAACTTT-AAAAACCA-TTTTCAAAG
1 AAACATTTACCAAACTTTGAAAAACCATTTTTCAAAG
692489 AAACATTTACCAAACTTTG-AAAACCATTTTTTCAAAG
1 AAACATTTACCAAACTTTGAAAAACCA-TTTTTCAAAG
692526 TTAGTTACCA
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
35 34 0.52
36 7 0.11
37 25 0.38
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.30
Consensus pattern (37 bp):
AAACATTTACCAAACTTTGAAAAACCATTTTTCAAAG
Found at i:700844 original size:12 final size:12
Alignment explanation
Indices: 700829--700863 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
700819 TAAATAAACT
*
700829 CATATTTAAAAA
1 CATAGTTAAAAA
*
700841 CATAGTTGAAAA
1 CATAGTTAAAAA
700853 CATAGTTAAAA
1 CATAGTTAAAA
700864 GAGTATATGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.29
Consensus pattern (12 bp):
CATAGTTAAAAA
Found at i:701050 original size:14 final size:14
Alignment explanation
Indices: 701031--701064 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
701021 AAACACCGTG
*
701031 AAATATTTTTCAAA
1 AAATATTTTACAAA
701045 AAATATTTTACAAA
1 AAATATTTTACAAA
*
701059 AGATAT
1 AAATAT
701065 AACTCATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (14 bp):
AAATATTTTACAAA
Found at i:704783 original size:36 final size:36
Alignment explanation
Indices: 704639--704899 Score: 216
Period size: 36 Copynumber: 7.2 Consensus size: 36
704629 AATTTTCGGA
*
704639 AAAACGATTTTCGAAAATAAATATATATTATATAGTTTTT
1 AAAAC-ATTTT-GAAAAT--ATATATAATATATAGTTTTT
* * * * * *
704679 GAAAACGTTTTTAAAATCTATATAGTATATGGTTTTGA
1 -AAAACATTTTGAAAATATATATAATATATAGTTTT-T
* * *
704717 AAAATATTTTGAAAACATTTATATATTATATAGTTTTT
1 AAAACATTTTG-AAA-ATATATATAATATATAGTTTTT
*
704755 AAAACATTTTGAAAGTATATATAATATATAGTTTTT
1 AAAACATTTTGAAAATATATATAATATATAGTTTTT
*
704791 AAAACATTTT-AAAA-ACATAT-AT-TATA-----T
1 AAAACATTTTGAAAATATATATAATATATAGTTTTT
* *
704818 AAAACATTTTTGAAAACATTTATATATTATATAGTTTTT
1 AAAACA-TTTTG-AAA-ATATATATAATATATAGTTTTT
* *
704857 AAAACATTTTAAAAATATATATAATATATAGTTTTA
1 AAAACATTTTGAAAATATATATAATATATAGTTTTT
704893 AAAACAT
1 AAAACAT
704900 ATATTATATA
Statistics
Matches: 179, Mismatches: 26, Indels: 35
0.75 0.11 0.15
Matches are distributed among these distances:
27 7 0.04
28 4 0.02
30 3 0.02
31 1 0.01
32 8 0.04
33 3 0.02
34 9 0.05
35 3 0.02
36 55 0.31
37 30 0.17
38 17 0.09
39 30 0.17
40 4 0.02
41 5 0.03
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.43
Consensus pattern (36 bp):
AAAACATTTTGAAAATATATATAATATATAGTTTTT
Found at i:704810 original size:27 final size:28
Alignment explanation
Indices: 704790--704919 Score: 86
Period size: 28 Copynumber: 4.4 Consensus size: 28
704780 ATATAGTTTT
704790 TAAAACA-TTTTAAAAACATATATTATA
1 TAAAACATTTTTAAAAACATATATTATA
* *
704817 TAAAACATTTTTGAAAACATTTA-TATA
1 TAAAACATTTTTAAAAACATATATTATA
* * * *
704844 TTATATAGTTTTT-AAAACATTTTAAAAATATATA
1 TAAAACA-TTTTTAAAAACA---T--ATAT-TATA
* *
704878 TAATATATAGTTTTAAAAACATATATTATA
1 TAA-A-ACATTTTTAAAAACATATATTATA
704908 TAAAACATTTTT
1 TAAAACATTTTT
704920 TTGAAAACTT
Statistics
Matches: 78, Mismatches: 13, Indels: 23
0.68 0.11 0.20
Matches are distributed among these distances:
27 21 0.27
28 24 0.31
29 1 0.01
30 8 0.10
31 3 0.04
32 1 0.01
33 1 0.01
34 6 0.08
35 4 0.05
36 9 0.12
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.43
Consensus pattern (28 bp):
TAAAACATTTTTAAAAACATATATTATA
Found at i:704907 original size:23 final size:24
Alignment explanation
Indices: 704863--704909 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
704853 TTTTAAAACA
*
704863 TTTTAAAAATATATATAATATATAG
1 TTTTAAAAACATATAT-ATATATAG
704888 TTTTAAAAACATATAT-TATATA
1 TTTTAAAAACATATATATATATA
704910 AAACATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.29
25 15 0.71
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (24 bp):
TTTTAAAAACATATATATATATAG
Found at i:704909 original size:66 final size:66
Alignment explanation
Indices: 704772--704899 Score: 181
Period size: 66 Copynumber: 2.0 Consensus size: 66
704762 TTTGAAAGTA
* *
704772 TATATAATATATAGTTTTTAAAACATTTTAAAAACATATATTATATAAAACATTTTTGAAAACAT
1 TATATAATATATAGTTTTTAAAACATTTTAAAAACATATATTATATAAAACAGTTTTAAAAACAT
704837 T
66 T
* * * *
704838 TATATATTATATAGTTTTTAAAACATTTTAAAAATATATA-TA-AT-ATATAGTTTTAAAAACAT
1 TATATAATATATAGTTTTTAAAACATTTTAAAAACATATATTATATAAAACAGTTTTAAAAACAT
704900 ATATTATATA
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
63 14 0.25
64 2 0.04
65 2 0.04
66 38 0.68
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (66 bp):
TATATAATATATAGTTTTTAAAACATTTTAAAAACATATATTATATAAAACAGTTTTAAAAACAT
T
Found at i:704960 original size:161 final size:157
Alignment explanation
Indices: 704770--705060 Score: 367
Period size: 159 Copynumber: 1.8 Consensus size: 157
704760 ATTTTGAAAG
*
704770 TATATATAATATATAGTTTTTAAAACA-TTTTAAAAAC-ATAT-ATTATAT-AAAACATTTTTGA
1 TATATATAATATATAATTTTTAAAACATTTTTAAAAACTATATAATT-T-TGAAAACATTTTTGA
* * * *
704831 AAACATTTATATATTATATAGTTTTTAAAACATTTTAAAAATATATATAATATATAGTTTTA-AA
64 AAA-A-GTATATAATATATA-ATTTTAAAACATTTTAAAAAT-TATATAATATATAGGTTTAGAA
704895 AACATATATTATATAAAACATTTTTTTGAAAACT
125 AA-ATATATTATATAAAACATTTTTTTGAAAACT
* *
704929 TATATATAATATATAATTTTCTAAAAACATTTTTGAAAACTATATAATTTTGAAAACATTTTTTA
1 TATATATAATATATAATTTT-T-AAAACATTTTTAAAAACTATATAATTTTGAAAACATTTTTGA
* ** *
704994 AAAAGTATATAATATATAATTTTAAAATATTTTTGAAATTATATATTATATAGGTTTAGAAAAAT
64 AAAAGTATATAATATATAATTTTAAAACATTTTAAAAATTATATAATATATAGGTTTAGAAAAAT
705059 AT
129 AT
705061 TTTTTATATA
Statistics
Matches: 114, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
159 40 0.35
160 22 0.19
161 18 0.16
162 11 0.10
163 20 0.18
164 3 0.03
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.44
Consensus pattern (157 bp):
TATATATAATATATAATTTTTAAAACATTTTTAAAAACTATATAATTTTGAAAACATTTTTGAAA
AAGTATATAATATATAATTTTAAAACATTTTAAAAATTATATAATATATAGGTTTAGAAAAATAT
ATTATATAAAACATTTTTTTGAAAACT
Found at i:704976 original size:31 final size:31
Alignment explanation
Indices: 704938--705006 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
704928 TTATATATAA
*
704938 TATATAATTTTCTAAAAACA-TTTTTGAAAAC
1 TATATAATTTT-TAAAAACATTTTTTAAAAAC
* *
704969 TATATAA-TTTTGAAAACATTTTTTAAAAAG
1 TATATAATTTTTAAAAACATTTTTTAAAAAC
704999 TATATAAT
1 TATATAAT
705007 ATATAATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 7 0.21
30 19 0.58
31 7 0.21
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.43
Consensus pattern (31 bp):
TATATAATTTTTAAAAACATTTTTTAAAAAC
Found at i:706385 original size:13 final size:13
Alignment explanation
Indices: 706367--706427 Score: 63
Period size: 13 Copynumber: 4.6 Consensus size: 13
706357 TTTTATTCAT
706367 TTTATTTTCTTTA
1 TTTATTTTCTTTA
706380 TTTATTTTCTTGTA
1 TTTATTTTCTT-TA
*
706394 -TTATTTTTGTTTA
1 TTTA-TTTTCTTTA
*
706407 -TTATTATTATTTA
1 TTTATT-TTCTTTA
706420 TTTATTTT
1 TTTATTTT
706428 TACTAACCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
12 2 0.05
13 27 0.64
14 13 0.31
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.75
Consensus pattern (13 bp):
TTTATTTTCTTTA
Found at i:706420 original size:23 final size:22
Alignment explanation
Indices: 706346--706422 Score: 59
Period size: 23 Copynumber: 3.3 Consensus size: 22
706336 TAACTAAACC
706346 TTTACTTTTTGTTTTATTCATTTTA
1 TTTA-TTTTTG-TTTATT-ATTTTA
* * *
706371 TTT-TCTTTATTTATT-TTCTTG
1 TTTATTTTTGTTTATTATT-TTA
706392 TATTATTTTTGTTTATTATTATTA
1 T-TTATTTTTGTTTATTATT-TTA
706416 TTTATTT
1 TTTATTT
706423 ATTTTTACTA
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
20 2 0.05
21 3 0.07
22 8 0.20
23 20 0.49
24 5 0.12
25 3 0.07
ACGTcount: A:0.17, C:0.05, G:0.04, T:0.74
Consensus pattern (22 bp):
TTTATTTTTGTTTATTATTTTA
Found at i:707541 original size:17 final size:18
Alignment explanation
Indices: 707509--707542 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
707499 CTCACTAACC
*
707509 CTTTTATTTTTTTGTTCT
1 CTTTTATTTTTGTGTTCT
707527 CTTTTA-TTTTGTGTTC
1 CTTTTATTTTTGTGTTC
707543 ATCGTTTGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.06, C:0.12, G:0.09, T:0.74
Consensus pattern (18 bp):
CTTTTATTTTTGTGTTCT
Found at i:711863 original size:84 final size:82
Alignment explanation
Indices: 711594--712729 Score: 882
Period size: 84 Copynumber: 13.8 Consensus size: 82
711584 GCTCAAGGCC
* ** * * * *
711594 GAAGGGCTATCTCCCACAAAGACCTTTGAGTTCGATTACGCTCAGCTCCAAGGCATATCATTTGC
1 GAAGGGTTATCTGGCACAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGC
* *
711659 AGTATAACTTAAGTCGA
66 AGCATAACTTAAGTCTA
* ** * * * * *
711676 GAAGGGCTATCT-GC-CAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTA
1 GAAGGGTTATCTGGCACAAAGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTG
* * *
711739 CAACATAACTCAAGGCTA
65 CAGCATAACTTAAGTCTA
* *
711757 GAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCATATCATTTG
1 GAAGGGTTATCTGGCA-CAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTG
*
711822 CAGCACAACTTAAGTCTA
65 CAGCATAACTTAAGTCTA
* ** * * * *
711840 GAAGGGTTGTCTACCAACAAAAGACCTTTGAGTTTGACTACGCTCAGCT-CAACGACACATCATT
1 GAAGGGTTATCTGGC-AC-AAAGACCTTCGAGTTCGACTACACTCAGCTCCAA-GGCACATCATT
*
711904 TGCAGCAT-ACTTAAGTCGA
63 TGCAGCATAACTTAAGTCTA
* ** * * * * *
711923 GAAGGGCTATCT-GC-CAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTA
1 GAAGGGTTATCTGGCACAAAGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTG
* * *
711986 CAACATAACTCAAGACTA
65 CAGCATAACTTAAGTCTA
* * * *
712004 GAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCATCTCCAAGGCATATCATTTG
1 GAAGGGTTATCTGGCA-CAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTG
* *
712069 TAGCACAACTTAAGTCTA
65 CAGCATAACTTAAGTCTA
* * * * * *
712087 GAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCAACTACGCTCAGCT-AAACGGCACATCATT
1 GAAGGGTTATCTGGC-AC-AAAGACCTTCGAGTTCGACTACACTCAGCTCCAA-GGCACATCATT
*
712151 TGCAGCATAACTTAAGTCGA
63 TGCAGCATAACTTAAGTCTA
** * * * * *
712171 GAAGGGTTATCT-GC-CAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTA
1 GAAGGGTTATCTGGCACAAAGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTG
*
712234 CAGCATAACTCAAGGT-TA
65 CAGCATAACTTAA-GTCTA
* * * * * *
712252 GAAAGGTTATTTGTCACCAAATACCTTCGAGTTCGACTACAATCAGCTCCAAGGCATATCATTTG
1 GAAGGGTTATCTGGCA-CAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTG
*
712317 CAGCACAACTTAAGTCTA
65 CAGCATAACTTAAGTCTA
* * * *
712335 GAAGGGTTGTCTGCCAACAAAAGACC-TCTGAGTTCGACTACGCTCAGCT-CAACAGCACATCAT
1 GAAGGGTTATCTGGC-AC-AAAGACCTTC-GAGTTCGACTACACTCAGCTCCAA-GGCACATCAT
* *
712398 TTGCAGCATAGCTTAAGTCAA
62 TTGCAGCATAACTTAAGTCTA
* * ** ** * * * *
712419 TAAGGGCTATCT-GC-CAAAGACCCCCGAGTTTAATTACACTCAGCTTCGAGGGAACATCATTTG
1 GAAGGGTTATCTGGCACAAAGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTG
* * * * *
712482 CAACATAGCTCAAGGCAA
65 CAGCATAACTTAAGTCTA
* * * * *
712500 GAAGGGCTATTTGCCAACGAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
1 GAAGGGTTATCTGGC-AC-AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTT
* * *
712565 GCAGTATAGCTTAAGTCGA
64 GCAGCATAACTTAAGTCTA
* * ** * * * * *
712584 GAAGGGCTAGCT-GC-CAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGTACATCATTTA
1 GAAGGGTTATCTGGCACAAAGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTG
** * *
712647 CAATATAACTCAAGGCTA
65 CAGCATAACTTAAGTCTA
** * * * * *
712665 GAAGGGTTATCTATCTCCAAAGGACCTTCGAGTTCGACTACGCTTAGCTGCGAGGCACATCATTT
1 GAAGGGTTATCTGGC-ACAAA-GACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTT
712730 ACAACATAGC
Statistics
Matches: 834, Mismatches: 181, Indels: 76
0.76 0.17 0.07
Matches are distributed among these distances:
79 23 0.03
80 112 0.13
81 173 0.21
82 24 0.03
83 157 0.19
84 302 0.36
85 43 0.05
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (82 bp):
GAAGGGTTATCTGGCACAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGC
AGCATAACTTAAGTCTA
Done.