Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 45 of 185
Found at i:13399168 original size:20 final size:20
Alignment explanation
Indices: 13399123--13399168 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
13399113 ATCATGGTCT
13399123 TTGCTT-CTTCTTTACTTAC
1 TTGCTTACTTCTTTACTTAC
*
13399142 TCT-CTTACTTGTTTACTTAC
1 T-TGCTTACTTCTTTACTTAC
13399162 TTGCTTA
1 TTGCTTA
13399169 ATTAAATACC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.13, C:0.24, G:0.07, T:0.57
Consensus pattern (20 bp):
TTGCTTACTTCTTTACTTAC
Found at i:13402136 original size:25 final size:24
Alignment explanation
Indices: 13402098--13402204 Score: 108
Period size: 25 Copynumber: 4.3 Consensus size: 24
13402088 ATATACATGC
13402098 ATGCTCATACGAGCTATGAATCGGT
1 ATGCTC-TACGAGCTATGAATCGGT
** *
13402123 ATGCTCATTTGAGCTGAAG-ATCGGT
1 ATGCTC-TACGAGCT-ATGAATCGGT
*
13402148 ATGCTCTCACGAGCTATGAATCGTT
1 ATGCTCT-ACGAGCTATGAATCGGT
* *
13402173 ATGCTCTTACGAGCTATAAATCGAT
1 ATGCTC-TACGAGCTATGAATCGGT
13402198 ATGCTCT
1 ATGCTCT
13402205 CACACGAGCT
Statistics
Matches: 69, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
24 4 0.06
25 62 0.90
26 3 0.04
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (24 bp):
ATGCTCTACGAGCTATGAATCGGT
Found at i:13402187 original size:50 final size:50
Alignment explanation
Indices: 13402098--13402225 Score: 136
Period size: 50 Copynumber: 2.5 Consensus size: 50
13402088 ATATACATGC
* * *
13402098 ATGCTCAT-ACGAGCTATGAATCGGTATGCTCATTTGAGCTGA-AGATCGGT
1 ATGCTC-TCACGAGCTATGAATCGGTATGCTCATTCGAGCT-ATAAATCGAT
*
13402148 ATGCTCTCACGAGCTATGAATCGTTATGCTC-TTACGAGCTATAAATCGAT
1 ATGCTCTCACGAGCTATGAATCGGTATGCTCATT-CGAGCTATAAATCGAT
* *
13402198 ATGCTCTCACACGAGCTATAAATAGGTA
1 ATGCTCT--CACGAGCTATGAATCGGTA
13402226 ACCCTAATGA
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
49 4 0.06
50 46 0.70
52 16 0.24
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (50 bp):
ATGCTCTCACGAGCTATGAATCGGTATGCTCATTCGAGCTATAAATCGAT
Found at i:13402219 original size:27 final size:25
Alignment explanation
Indices: 13402142--13402220 Score: 104
Period size: 25 Copynumber: 3.1 Consensus size: 25
13402132 TGAGCTGAAG
* *
13402142 ATCGGTATGCTCTCACGAGCTATGA
1 ATCGATATGCTCTCACGAGCTATAA
* *
13402167 ATCGTTATGCTCTTACGAGCTATAA
1 ATCGATATGCTCTCACGAGCTATAA
13402192 ATCGATATGCTCTCACACGAGCTATAA
1 ATCGATATGCTCT--CACGAGCTATAA
13402219 AT
1 AT
13402221 AGGTAACCCT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 34 0.72
27 13 0.28
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (25 bp):
ATCGATATGCTCTCACGAGCTATAA
Found at i:13411838 original size:24 final size:24
Alignment explanation
Indices: 13411806--13411854 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
13411796 CGTCAATTCT
13411806 AATGGATACTTATTCTTGATTGTA
1 AATGGATACTTATTCTTGATTGTA
13411830 AATGGATACTTATTCTTGATTGTA
1 AATGGATACTTATTCTTGATTGTA
13411854 A
1 A
13411855 CATTATTAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (24 bp):
AATGGATACTTATTCTTGATTGTA
Found at i:13418973 original size:41 final size:41
Alignment explanation
Indices: 13418928--13419117 Score: 242
Period size: 41 Copynumber: 4.6 Consensus size: 41
13418918 ACCAGAGTGT
* *
13418928 AAACAGAGGCACATATGTGTAATTCAAGGGTA-CTGAAGTAC
1 AAACAGAGGCACATATGTGCAATTCAGGGGTATC-GAAGTAC
* *
13418969 AAACAG-GGACACATATGTGCAATTTAGGGGTGTCGAAGTAC
1 AAACAGAGG-CACATATGTGCAATTCAGGGGTATCGAAGTAC
* * *
13419010 AAAAAGGGGCACATATATGCAATTCAGGGGTATCGAAGTAC
1 AAACAGAGGCACATATGTGCAATTCAGGGGTATCGAAGTAC
*
13419051 AAACAGGGGCACATATGTGCAATTCAGGGGTATCGAAGTAC
1 AAACAGAGGCACATATGTGCAATTCAGGGGTATCGAAGTAC
* *
13419092 AAATA-AGGGCACGTATGTGCAATTCA
1 AAACAGA-GGCACATATGTGCAATTCA
13419118 TAGAATAATA
Statistics
Matches: 132, Mismatches: 13, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
40 2 0.02
41 127 0.96
42 3 0.02
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.21
Consensus pattern (41 bp):
AAACAGAGGCACATATGTGCAATTCAGGGGTATCGAAGTAC
Found at i:13419059 original size:20 final size:20
Alignment explanation
Indices: 13419034--13419094 Score: 54
Period size: 20 Copynumber: 3.0 Consensus size: 20
13419024 ATATGCAATT
13419034 CAGGGGTATCGAAGTACAAA
1 CAGGGGTATCGAAGTACAAA
* * *
13419054 CAGGGGCA-C-ATATGTGCAATT
1 CAGGGGTATCGA-A-GTACAA-A
13419075 CAGGGGTATCGAAGTACAAA
1 CAGGGGTATCGAAGTACAAA
13419095 TAAGGGCACG
Statistics
Matches: 30, Mismatches: 6, Indels: 10
0.65 0.13 0.22
Matches are distributed among these distances:
18 1 0.03
19 2 0.07
20 12 0.40
21 12 0.40
22 2 0.07
23 1 0.03
ACGTcount: A:0.36, C:0.16, G:0.30, T:0.18
Consensus pattern (20 bp):
CAGGGGTATCGAAGTACAAA
Found at i:13419072 original size:82 final size:82
Alignment explanation
Indices: 13418935--13419117 Score: 271
Period size: 82 Copynumber: 2.2 Consensus size: 82
13418925 TGTAAACAGA
* *
13418935 GGCACATATGTGTAATTCAAGGGTACTGAAGTACAAACAGGGACACATATGTGCAATTTAGGGGT
1 GGCACATATGTGCAATTCAAGGGTACTGAAGTACAAACAGGGACACATATGTGCAATTCAGGGGT
*
13419000 GTCGAAGTACAAA-AAGG
66 ATCGAAGTACAAATAA-G
* * *
13419017 GGCACATATATGCAATTCAGGGGTA-TCGAAGTACAAACAGGGGCACATATGTGCAATTCAGGGG
1 GGCACATATGTGCAATTCAAGGGTACT-GAAGTACAAACAGGGACACATATGTGCAATTCAGGGG
13419081 TATCGAAGTACAAATAAG
65 TATCGAAGTACAAATAAG
*
13419099 GGCACGTATGTGCAATTCA
1 GGCACATATGTGCAATTCA
13419118 TAGAATAATA
Statistics
Matches: 91, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
81 1 0.01
82 88 0.97
83 2 0.02
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.22
Consensus pattern (82 bp):
GGCACATATGTGCAATTCAAGGGTACTGAAGTACAAACAGGGACACATATGTGCAATTCAGGGGT
ATCGAAGTACAAATAAG
Found at i:13419080 original size:21 final size:21
Alignment explanation
Indices: 13419014--13419080 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
13419004 AAGTACAAAA
*
13419014 AGGGGCACATATATGCAATTC
1 AGGGGCACATATGTGCAATTC
* * *
13419035 AGGGGTATCGA-A-GTACAA-AC
1 AGGGGCA-C-ATATGTGCAATTC
13419055 AGGGGCACATATGTGCAATTC
1 AGGGGCACATATGTGCAATTC
13419076 AGGGG
1 AGGGG
13419081 TATCGAAGTA
Statistics
Matches: 34, Mismatches: 7, Indels: 10
0.67 0.14 0.20
Matches are distributed among these distances:
18 1 0.03
19 2 0.06
20 12 0.35
21 16 0.47
22 2 0.06
23 1 0.03
ACGTcount: A:0.33, C:0.16, G:0.31, T:0.19
Consensus pattern (21 bp):
AGGGGCACATATGTGCAATTC
Found at i:13435453 original size:20 final size:20
Alignment explanation
Indices: 13435425--13435462 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
13435415 TTATTTAGTA
13435425 TTAAGATTACTTGTTTAAAAT
1 TTAAGATTAC-TGTTTAAAAT
13435446 TTAA-ATTACTGTTTAAA
1 TTAAGATTACTGTTTAAA
13435463 TACAATTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.47
20 5 0.29
21 4 0.24
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.47
Consensus pattern (20 bp):
TTAAGATTACTGTTTAAAAT
Found at i:13452284 original size:60 final size:60
Alignment explanation
Indices: 13452191--13452405 Score: 430
Period size: 60 Copynumber: 3.6 Consensus size: 60
13452181 CTGGTAAAGA
13452191 AACCATTAAGGTAATCCCACTTGATGATTATGATTTTGTAGTTGGAAGATTGGATTAAGC
1 AACCATTAAGGTAATCCCACTTGATGATTATGATTTTGTAGTTGGAAGATTGGATTAAGC
13452251 AACCATTAAGGTAATCCCACTTGATGATTATGATTTTGTAGTTGGAAGATTGGATTAAGC
1 AACCATTAAGGTAATCCCACTTGATGATTATGATTTTGTAGTTGGAAGATTGGATTAAGC
13452311 AACCATTAAGGTAATCCCACTTGATGATTATGATTTTGTAGTTGGAAGATTGGATTAAGC
1 AACCATTAAGGTAATCCCACTTGATGATTATGATTTTGTAGTTGGAAGATTGGATTAAGC
13452371 AACCATTAAGGTAATCCCACTTGATGATTATGATT
1 AACCATTAAGGTAATCCCACTTGATGATTATGATT
13452406 ATGATTAAGG
Statistics
Matches: 155, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 155 1.00
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (60 bp):
AACCATTAAGGTAATCCCACTTGATGATTATGATTTTGTAGTTGGAAGATTGGATTAAGC
Found at i:13460094 original size:22 final size:22
Alignment explanation
Indices: 13460059--13460113 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 22
13460049 ACTTGTGAAT
13460059 ATTATGATTATTGATATG-ATGAG
1 ATTAT-ATT-TTGATATGTATGAG
*
13460082 ATTGATATTTTGATATGTATGTG
1 ATT-ATATTTTGATATGTATGAG
13460105 ATTATATTT
1 ATTATATTT
13460114 GTGTCGATCT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 14 0.48
23 13 0.45
24 2 0.07
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (22 bp):
ATTATATTTTGATATGTATGAG
Found at i:13461177 original size:24 final size:24
Alignment explanation
Indices: 13461150--13461195 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
13461140 TGATCATGTC
*
13461150 AATGCAGTGTTTGCAGAAAAAGGT
1 AATGCAATGTTTGCAGAAAAAGGT
* * *
13461174 AATGTAATGTTTTCAGATAAAG
1 AATGCAATGTTTGCAGAAAAAG
13461196 ATCCTACCTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.39, C:0.07, G:0.24, T:0.30
Consensus pattern (24 bp):
AATGCAATGTTTGCAGAAAAAGGT
Found at i:13467792 original size:14 final size:14
Alignment explanation
Indices: 13467759--13467785 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13467749 CTACTCATTT
13467759 AATTTTCTTTTTGA
1 AATTTTCTTTTTGA
13467773 AATTTTCTTTTTG
1 AATTTTCTTTTTG
13467786 CACTTTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.07, G:0.07, T:0.67
Consensus pattern (14 bp):
AATTTTCTTTTTGA
Found at i:13472222 original size:19 final size:19
Alignment explanation
Indices: 13472194--13472233 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
13472184 ATTAATTTTG
* *
13472194 ATCAAGTAAAATGAAATTA
1 ATCAAATAAAATAAAATTA
*
13472213 ATCAAATAAATTAAAATTA
1 ATCAAATAAAATAAAATTA
13472232 AT
1 AT
13472234 ATGATATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (19 bp):
ATCAAATAAAATAAAATTA
Found at i:13473044 original size:347 final size:347
Alignment explanation
Indices: 13472409--13473102 Score: 1388
Period size: 347 Copynumber: 2.0 Consensus size: 347
13472399 GACCCAGACC
13472409 GAATCAACTGGGGTGCCGTAAGGGTGTCGCACCTGCATCACTGAGCATGACAGTGTCGATGGCTA
1 GAATCAACTGGGGTGCCGTAAGGGTGTCGCACCTGCATCACTGAGCATGACAGTGTCGATGGCTA
13472474 CGACGGCGACATCTCATTGGCTGGCGGCAGTTGGTCGTCGGTGGTTGAGCAGTGGAAGAGTTGCA
66 CGACGGCGACATCTCATTGGCTGGCGGCAGTTGGTCGTCGGTGGTTGAGCAGTGGAAGAGTTGCA
13472539 CTCCCACTAAGACTCTACCAGATAATTTGATTTCAGATTAATTATTCGAAAAATATTATTATTTT
131 CTCCCACTAAGACTCTACCAGATAATTTGATTTCAGATTAATTATTCGAAAAATATTATTATTTT
13472604 AATAGTTTAATATACAATTTAATTCAATACTTATCTTAATAGTATTTTACTAATTTAATATTATA
196 AATAGTTTAATATACAATTTAATTCAATACTTATCTTAATAGTATTTTACTAATTTAATATTATA
13472669 GTGATTATCTTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAACATTGTATTATTTTAA
261 GTGATTATCTTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAACATTGTATTATTTTAA
13472734 TAAGATTTAACATTAAATTTAA
326 TAAGATTTAACATTAAATTTAA
13472756 GAATCAACTGGGGTGCCGTAAGGGTGTCGCACCTGCATCACTGAGCATGACAGTGTCGATGGCTA
1 GAATCAACTGGGGTGCCGTAAGGGTGTCGCACCTGCATCACTGAGCATGACAGTGTCGATGGCTA
13472821 CGACGGCGACATCTCATTGGCTGGCGGCAGTTGGTCGTCGGTGGTTGAGCAGTGGAAGAGTTGCA
66 CGACGGCGACATCTCATTGGCTGGCGGCAGTTGGTCGTCGGTGGTTGAGCAGTGGAAGAGTTGCA
13472886 CTCCCACTAAGACTCTACCAGATAATTTGATTTCAGATTAATTATTCGAAAAATATTATTATTTT
131 CTCCCACTAAGACTCTACCAGATAATTTGATTTCAGATTAATTATTCGAAAAATATTATTATTTT
13472951 AATAGTTTAATATACAATTTAATTCAATACTTATCTTAATAGTATTTTACTAATTTAATATTATA
196 AATAGTTTAATATACAATTTAATTCAATACTTATCTTAATAGTATTTTACTAATTTAATATTATA
13473016 GTGATTATCTTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAACATTGTATTATTTTAA
261 GTGATTATCTTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAACATTGTATTATTTTAA
13473081 TAAGATTTAACATTAAATTTAA
326 TAAGATTTAACATTAAATTTAA
13473103 CCTAATATTT
Statistics
Matches: 347, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
347 347 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.37
Consensus pattern (347 bp):
GAATCAACTGGGGTGCCGTAAGGGTGTCGCACCTGCATCACTGAGCATGACAGTGTCGATGGCTA
CGACGGCGACATCTCATTGGCTGGCGGCAGTTGGTCGTCGGTGGTTGAGCAGTGGAAGAGTTGCA
CTCCCACTAAGACTCTACCAGATAATTTGATTTCAGATTAATTATTCGAAAAATATTATTATTTT
AATAGTTTAATATACAATTTAATTCAATACTTATCTTAATAGTATTTTACTAATTTAATATTATA
GTGATTATCTTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAACATTGTATTATTTTAA
TAAGATTTAACATTAAATTTAA
Found at i:13476554 original size:14 final size:14
Alignment explanation
Indices: 13476535--13476573 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
13476525 AATTGCTTTC
13476535 GTAAAGAGTTTACA
1 GTAAAGAGTTTACA
* *
13476549 GTAAAGAGTATATA
1 GTAAAGAGTTTACA
13476563 GTAAAGAGTTT
1 GTAAAGAGTTT
13476574 TCAATCATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.44, C:0.03, G:0.23, T:0.31
Consensus pattern (14 bp):
GTAAAGAGTTTACA
Found at i:13478604 original size:27 final size:27
Alignment explanation
Indices: 13478566--13478620 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
13478556 TCTTCAAGCT
13478566 TAGTTAATTTTTTTTAAATTAGTGCAC
1 TAGTTAATTTTTTTTAAATTAGTGCAC
* *
13478593 TAGTTAATTTTTTTTGAATTGGTGCAC
1 TAGTTAATTTTTTTTAAATTAGTGCAC
13478620 T
1 T
13478621 CAGACTGCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.25, C:0.07, G:0.15, T:0.53
Consensus pattern (27 bp):
TAGTTAATTTTTTTTAAATTAGTGCAC
Found at i:13483612 original size:16 final size:16
Alignment explanation
Indices: 13483591--13483655 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
13483581 TTCACTGTAT
13483591 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
* *
13483607 TGGAATAAAGGTGTAA
1 TGGAATAGAGGCGTAA
13483623 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
*
13483639 TGGAATAGAGACGTAA
1 TGGAATAGAGGCGTAA
13483655 T
1 T
13483656 AACAATTCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 44 1.00
ACGTcount: A:0.40, C:0.05, G:0.34, T:0.22
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:13484023 original size:102 final size:100
Alignment explanation
Indices: 13483906--13484224 Score: 507
Period size: 102 Copynumber: 3.2 Consensus size: 100
13483896 TCATTAAAAT
* * *
13483906 ATATAATTTAATAAAATTCTGAATATTAAATATTTTTATATGAATTTACTAAAATCATAATATAC
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
13483971 AATACTATAAAATATAATTTAAAGTTATTATTATTAA
66 AATACTATAAAATATAATTTAAA--TATTATTATTAA
*
13484008 ATATAATTTACTAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
* *
13484073 AATAATTTAAAATATAATTTAAAATAATTATTATTAA
66 AATACTATAAAATATAATTT-AAAT-ATTATTATTAA
*
13484110 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTCTATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
*
13484175 AATACTACAAAATATAATTTAAA-ATTATTATTAA
66 AATACTATAAAATATAATTTAAATATTATTATTAA
13484209 ATATAA-TTAGATAAAA
1 ATATAATTTA-ATAAAA
13484225 ATATATAATT
Statistics
Matches: 203, Mismatches: 11, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
98 3 0.01
99 23 0.11
101 4 0.02
102 170 0.84
103 3 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (100 bp):
ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
AATACTATAAAATATAATTTAAATATTATTATTAA
Found at i:13484089 original size:22 final size:23
Alignment explanation
Indices: 13484057--13484101 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
13484047 ATGAATTTAC
*
13484057 TAAAATCATAATATATAATAATT
1 TAAAATCATAATATAAAATAATT
*
13484080 TAAAAT-ATAATTTAAAATAATT
1 TAAAATCATAATATAAAATAATT
13484102 ATTATTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
TAAAATCATAATATAAAATAATT
Found at i:13484091 original size:12 final size:12
Alignment explanation
Indices: 13484074--13484120 Score: 58
Period size: 12 Copynumber: 3.8 Consensus size: 12
13484064 ATAATATATA
13484074 ATAATTTAAAAT
1 ATAATTTAAAAT
13484086 ATAATTTAAAAT
1 ATAATTTAAAAT
* *
13484098 AATTATTATTAAAT
1 -ATAATT-TAAAAT
13484112 ATAATTTAA
1 ATAATTTAA
13484121 TAAAATTCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 14 0.48
13 10 0.34
14 5 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (12 bp):
ATAATTTAAAAT
Found at i:13484192 original size:117 final size:117
Alignment explanation
Indices: 13484110--13484415 Score: 603
Period size: 117 Copynumber: 2.6 Consensus size: 117
13484100 TTATTATTAA
*
13484110 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTCTATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
13484175 AATACTACAAAATATAATTTAAAATTATTATTAAATATAATTAGATAAAAAT
66 AATACTACAAAATATAATTTAAAATTATTATTAAATATAATTAGATAAAAAT
13484227 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
13484292 AATACTACAAAATATAATTTAAAATTATTATTAAATATAATTAGATAAAAAT
66 AATACTACAAAATATAATTTAAAATTATTATTAAATATAATTAGATAAAAAT
13484344 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
13484409 AATACTA
66 AATACTA
13484416 AAATCATAAT
Statistics
Matches: 188, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
117 188 1.00
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.42
Consensus pattern (117 bp):
ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
AATACTACAAAATATAATTTAAAATTATTATTAAATATAATTAGATAAAAAT
Found at i:13484234 original size:41 final size:40
Alignment explanation
Indices: 13484186--13484354 Score: 122
Period size: 41 Copynumber: 4.3 Consensus size: 40
13484176 ATACTACAAA
13484186 ATATAATTTAAAATTATTATTAAATATAATTAGATAAAAAT
1 ATATAATTTAAAA-TATTATTAAATATAATTAGATAAAAAT
* * * ****
13484227 ATATAATTTAATAAAATTCTT--A-AT-ATTAAATATTCTT
1 ATATAATTTAA-AATATTATTAAATATAATTAGATAAAAAT
* * *
13484264 ATATGAATTTACTAAA-ATCA-TAATATATAA-TA-CTACAAA-
1 ATAT-AATTTA--AAATATTATTAA-ATATAATTAGATAAAAAT
13484303 ATATAATTTAAAATTATTATTAAATATAATTAGATAAAAAT
1 ATATAATTTAAAA-TATTATTAAATATAATTAGATAAAAAT
13484344 ATATAATTTAA
1 ATATAATTTAA
13484355 TAAAATTCTT
Statistics
Matches: 96, Mismatches: 17, Indels: 30
0.67 0.12 0.21
Matches are distributed among these distances:
36 3 0.03
37 13 0.14
38 25 0.26
39 12 0.12
40 9 0.09
41 31 0.32
42 3 0.03
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (40 bp):
ATATAATTTAAAATATTATTAAATATAATTAGATAAAAAT
Found at i:13484294 original size:204 final size:201
Alignment explanation
Indices: 13483906--13484415 Score: 527
Period size: 204 Copynumber: 2.4 Consensus size: 201
13483896 TCATTAAAAT
*
13483906 ATATAATTTAATAAAATTCTGAATATTAAATATTTTTATATGAATTTACTAAAATCATAATATAC
1 ATATAATTTAATAAAATTCTGAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAC
* * * *
13483971 AATACTATAAAATATAATTTAAAGTTATTATTATTAAATATAATTTACTAAAATTCTTAATATTA
66 AATACTACAAAATATAATTTAAA--TATTATTATTAAATATAATTTAATAAAAATATTAATATTA
* * *
13484036 AATATTCTTATATGAATTTACTAAAATCATAATATATAATAATTTAAAATATAATTTAAAATAAT
129 AAAATTCTTATATAAATTTACT-AAATCATAATATATAATAATATAAAATATAATTTAAAATAAT
13484101 TATTATTAA
193 TATTATTAA
* * *
13484110 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTCTATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAATTCTGAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAC
13484175 AATACTACAAAATATAATTTAAA-ATTATTATTAAATATAATTAGATAAAAATATATAATTTAAT
66 AATACTACAAAATATAATTTAAATATTATTATTAAATATAATT---T----A-ATA-AA---AAT
* * * *
13484239 AAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTACAAAA
119 ---A---TTAATATTAAAAATTCTTATATAAATTTACT-AAATCATAATATATAATAATATAAAA
13484304 TATAATTTAAAATTATTATTAAATATAATTAGATAAAAA
177 TATAATTTAAAA-TA--ATT--AT-T-A-T---T---AA
*
13484343 TATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATA
1 -ATATAATTTAATAAAATTCTGAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATA
*
13484408 TAATACTA
65 CAATACTA
13484416 AAATCATAAT
Statistics
Matches: 261, Mismatches: 12, Indels: 36
0.84 0.04 0.12
Matches are distributed among these distances:
201 19 0.07
204 84 0.32
208 1 0.00
209 2 0.01
210 2 0.01
213 2 0.01
219 67 0.26
220 2 0.01
222 3 0.01
224 2 0.01
225 1 0.00
226 1 0.00
227 1 0.00
230 1 0.00
233 2 0.01
234 71 0.27
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.42
Consensus pattern (201 bp):
ATATAATTTAATAAAATTCTGAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAC
AATACTACAAAATATAATTTAAATATTATTATTAAATATAATTTAATAAAAATATTAATATTAAA
AATTCTTATATAAATTTACTAAATCATAATATATAATAATATAAAATATAATTTAAAATAATTAT
TATTAA
Found at i:13484416 original size:21 final size:21
Alignment explanation
Indices: 13484390--13484430 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
13484380 TATATGAATT
13484390 TACTAAAATCATAATATATAA
1 TACTAAAATCATAATATATAA
13484411 TACTAAAATCATAATATATA
1 TACTAAAATCATAATATATA
13484431 TTAAATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (21 bp):
TACTAAAATCATAATATATAA
Found at i:13488418 original size:35 final size:35
Alignment explanation
Indices: 13488372--13488441 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
13488362 ACCCTTTTAC
*
13488372 TCTCCCAATTCTCCCAATTGCTTTTGATCTACAAT
1 TCTCCCAATTCTCCCAATTACTTTTGATCTACAAT
*
13488407 TCTCCCAATTCTCCCAATTACTTTTGATCTGCAAT
1 TCTCCCAATTCTCCCAATTACTTTTGATCTACAAT
13488442 CCTATTACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.23, C:0.31, G:0.06, T:0.40
Consensus pattern (35 bp):
TCTCCCAATTCTCCCAATTACTTTTGATCTACAAT
Found at i:13491409 original size:287 final size:287
Alignment explanation
Indices: 13490891--13491463 Score: 952
Period size: 287 Copynumber: 2.0 Consensus size: 287
13490881 ATGCAAAATT
13490891 TGTTATTTATAGCATTAAGATGATCAAATAGTTTAATTATTAAATGAGGGAGGACCTATATGGTA
1 TGTTATTTATAGCATTAAGATGATCAAATAGTTTAATTATTAAATGAGGGAGGACCTATATGGTA
13490956 ATTAGACTATAGTAAAAGTAGATGGACGACTTTGGACGTTGAATTAATTAGTTAAATAAAACTTA
66 ATTAGACTATAGTAAAAGTAGATGGACGACTTTGGACGTTGAATTAATTAGTTAAATAAAACTTA
* *
13491021 AGTAAAAATAAAATAAAAATACTATCATCTTCCTAAAGGCAAGAGCTATCAAAAATTGAAGAGTA
131 AGTAAAAATAAAATAAAAATACTATCATCTTCCTAAAGGCAAGAACTACCAAAAATTGAAGAGTA
* * * * *
13491086 AAAACACCATTGATACAGATTAAGGTTCAACCATCAAGAGTTCTTGCATGTAA-TTTCGTTTTAA
196 AAAAAAACAGTGATAAAGATTAAGGTTCAACCATCAAGAGTTCTTGCATGTAAGTCT-GTTTTAA
13491150 ACTCGTTTCTTGTAATTTTTATGTTTTG
260 ACTCGTTTCTTGTAATTTTTATGTTTTG
13491178 TGTTATTTATAGCATTAAGATGATCAAATAGTTTAATTATTAAATGAGGGAGGACCTATATGGTA
1 TGTTATTTATAGCATTAAGATGATCAAATAGTTTAATTATTAAATGAGGGAGGACCTATATGGTA
13491243 ATTAGACTATAGTAAAAGTAGATGGACGACTTTGGACGTTGAATTAATTAGTTAAATAAAACTTA
66 ATTAGACTATAGTAAAAGTAGATGGACGACTTTGGACGTTGAATTAATTAGTTAAATAAAACTTA
* ** *
13491308 AGTAAAAATAAAATAAAAATACTATCATCTTCCTAAAGGCAAGAAAC-ACCGAATGTTGAATAGT
131 AGTAAAAATAAAATAAAAATACTATCATCTTCCTAAAGGCAAG-AACTACCAAAAATTGAAGAGT
* * ** * *
13491372 AAAAAAAACAGTGATAAAGTTTATGGTTCGGCCATCAAGAGTTCTTGCTTTTAAGTCTGTTTTAA
195 AAAAAAAACAGTGATAAAGATTAAGGTTCAACCATCAAGAGTTCTTGCATGTAAGTCTGTTTTAA
*
13491437 ACTCGTTTCTTTTAATTTTTATGTTTT
260 ACTCGTTTCTTGTAATTTTTATGTTTT
13491464 TGAGATCGTT
Statistics
Matches: 266, Mismatches: 18, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
287 262 0.98
288 4 0.02
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (287 bp):
TGTTATTTATAGCATTAAGATGATCAAATAGTTTAATTATTAAATGAGGGAGGACCTATATGGTA
ATTAGACTATAGTAAAAGTAGATGGACGACTTTGGACGTTGAATTAATTAGTTAAATAAAACTTA
AGTAAAAATAAAATAAAAATACTATCATCTTCCTAAAGGCAAGAACTACCAAAAATTGAAGAGTA
AAAAAAACAGTGATAAAGATTAAGGTTCAACCATCAAGAGTTCTTGCATGTAAGTCTGTTTTAAA
CTCGTTTCTTGTAATTTTTATGTTTTG
Found at i:13492124 original size:40 final size:40
Alignment explanation
Indices: 13492080--13492324 Score: 258
Period size: 40 Copynumber: 6.2 Consensus size: 40
13492070 TAATTATTGT
*
13492080 TTGAATGGACATACGTGCCCCTGTTTGTACTTCGGTACCC
1 TTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * *
13492120 TTGAATGCACATATGTGCTCCTGTTTTTACTTCGGTACCC
1 TTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * * * * * ***
13492160 CTAAATTCACATACATGCCCCTATTTGTACTTCAGTATTG
1 TTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * *
13492200 TTGAATGCACATACGTGCCTCTTTTTGTACTTTGGTACCC
1 TTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
** * *
13492240 CAGAATGCACATATGTGCCCCTGTTTGTACTTCAGTACCC
1 TTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * * *
13492280 -TAAATGCACATACGTGCCCCTATTTGTACTTTGGTAACC
1 TTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
*
13492319 GTGAAT
1 TTGAAT
13492325 CAAATAATAT
Statistics
Matches: 162, Mismatches: 42, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
39 32 0.20
40 130 0.80
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.36
Consensus pattern (40 bp):
TTGAATGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
Found at i:13492790 original size:16 final size:16
Alignment explanation
Indices: 13492769--13492835 Score: 82
Period size: 16 Copynumber: 4.2 Consensus size: 16
13492759 TTCGCTGTAT
13492769 TAGAATAGAGGCGTAA
1 TAGAATAGAGGCGTAA
13492785 TAGAATAGAGGCGTAA
1 TAGAATAGAGGCGTAA
*
13492801 T-GAAATAGAGGTGTAA
1 TAG-AATAGAGGCGTAA
* * *
13492817 TGGAATAAAGACGTAA
1 TAGAATAGAGGCGTAA
13492833 TAG
1 TAG
13492836 CAAATCAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
15 1 0.02
16 42 0.95
17 1 0.02
ACGTcount: A:0.45, C:0.04, G:0.30, T:0.21
Consensus pattern (16 bp):
TAGAATAGAGGCGTAA
Found at i:13493084 original size:16 final size:16
Alignment explanation
Indices: 13493047--13493088 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
13493037 TTAATCATAT
*
13493047 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
13493063 TT-AAATATATTATAA
1 TTAAAATATATTATAA
13493078 TTAAAATATAT
1 TTAAAATATAT
13493089 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:13493095 original size:14 final size:15
Alignment explanation
Indices: 13493056--13493097 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
13493046 TTTAAACATA
*
13493056 ATTATTATTAAATAT
1 ATTATAATTAAATAT
13493071 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
13493085 A-TATAATTTAATA
1 ATTATAATTAAATA
13493098 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:13493189 original size:120 final size:119
Alignment explanation
Indices: 13493045--13493341 Score: 513
Period size: 120 Copynumber: 2.5 Consensus size: 119
13493035 ATTTAATCAT
13493045 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
13493110 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
65 ATCAATATTCTTATATGAATTTACTCAAATCATAAT-TATGATACTATAAAATATA
13493166 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
* *
13493231 TCAATATTGTTATATGAATTTACTCAATTCATAATTATGATACTATAAAATATA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATTATGATACTATAAAATATA
* * * * *
13493285 ATTTAAGATAATTAATAATAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
13493342 TAAAATAATT
Statistics
Matches: 169, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
119 71 0.42
120 94 0.56
121 4 0.02
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.43
Consensus pattern (119 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TCAATATTCTTATATGAATTTACTCAAATCATAATTATGATACTATAAAATATA
Found at i:13493206 original size:16 final size:16
Alignment explanation
Indices: 13493162--13493208 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
13493152 TACTATAAAA
*
13493162 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
13493178 TATTATT-AAATATAT
1 TATAATTAAAATATAT
13493193 TATAATTAAAATATAT
1 TATAATTAAAATATAT
13493209 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:13493325 original size:16 final size:16
Alignment explanation
Indices: 13493300--13493340 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
13493290 AGATAATTAA
13493300 TAAT-AAATATAT-TT
1 TAATAAAATATATATT
13493314 TAATTAAAATATATGATT
1 TAA-TAAAATATAT-ATT
13493332 TAATAAAAT
1 TAATAAAAT
13493341 TTAAAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 3 0.13
15 1 0.04
16 8 0.35
17 6 0.26
18 5 0.22
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (16 bp):
TAATAAAATATATATT
Found at i:13496008 original size:33 final size:33
Alignment explanation
Indices: 13495961--13496028 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
13495951 GCGTGTGGAG
13495961 AACTATGAGAAACAGAGGGAGCAAATCGGCAGA
1 AACTATGAGAAACAGAGGGAGCAAATCGGCAGA
* *
13495994 AACTGTGAGAAACAGAGGGAGCAAATTGGCAGA
1 AACTATGAGAAACAGAGGGAGCAAATCGGCAGA
13496027 AA
1 AA
13496029 AAAAAAAGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.46, C:0.13, G:0.31, T:0.10
Consensus pattern (33 bp):
AACTATGAGAAACAGAGGGAGCAAATCGGCAGA
Found at i:13503087 original size:18 final size:18
Alignment explanation
Indices: 13503061--13503097 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
13503051 TCCTAGGATG
13503061 ATTGACACCTCGTTATCT
1 ATTGACACCTCGTTATCT
*
13503079 ATTGGCACCTCGTTATCT
1 ATTGACACCTCGTTATCT
13503097 A
1 A
13503098 CTTTAAAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.27, G:0.14, T:0.38
Consensus pattern (18 bp):
ATTGACACCTCGTTATCT
Found at i:13503696 original size:23 final size:23
Alignment explanation
Indices: 13503660--13503710 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
13503650 TAGTGGACCT
* * *
13503660 TGTAATATCTCGAAAATTATTAC
1 TGTAATACCCCGAAAATTACTAC
13503683 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
*
13503706 AGTAA
1 TGTAA
13503711 GAAAATAGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAC
Found at i:13509415 original size:29 final size:27
Alignment explanation
Indices: 13509377--13509431 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 27
13509367 GTGATTAAAT
13509377 AAAATCGACA-CAAGCAGAATTTAAAAGAA
1 AAAATCGACAGCAAG-A-AA-TTAAAAGAA
*
13509406 AAAATTGACAGCAAGAAATTAAAAGA
1 AAAATCGACAGCAAGAAATTAAAAGA
13509432 TAAGTCCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 8 0.33
28 2 0.08
29 10 0.42
30 4 0.17
ACGTcount: A:0.60, C:0.11, G:0.15, T:0.15
Consensus pattern (27 bp):
AAAATCGACAGCAAGAAATTAAAAGAA
Found at i:13517841 original size:120 final size:121
Alignment explanation
Indices: 13517682--13517927 Score: 354
Period size: 120 Copynumber: 2.0 Consensus size: 121
13517672 CAATTATTGT
* * *
13517682 TTGAATGCACATACGTGCCTCTATTTCTACTTCTGTACCCTTGAATACACATACGTGCCCCTATT
1 TTGAATGCACATACGTACCCCTATTTCTACTTCTGTACCCATGAATACACATACGTGCCCCTATT
* *
13517747 TGTACTTCGGTACCCCTGAATGCACATAAGTGCCCTTATTTTTACTTTGG-AACCA
66 TGTACTTCAGTACCCCTGAATGCACATAAGTGCCCTTATTTGTACTTTGGTAACCA
* * * * *
13517802 TTGAATGCACATACGTACCCCTATTTGTACTTC-GATACCCATGAATGCACATATGTTCCCTTAT
1 TTGAATGCACATACGTACCCCTATTTCTACTTCTG-TACCCATGAATACACATACGTGCCCCTAT
* *
13517866 TTGTACTTCAGTACCCCTGAATGCACATATGTGCCCTTGTTTGTACTTTGGTAACCA
65 TTGTACTTCAGTACCCCTGAATGCACATAAGTGCCCTTATTTGTACTTTGGTAACCA
13517923 -TGAAT
1 TTGAAT
13517928 CAAATAATAA
Statistics
Matches: 112, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
119 1 0.01
120 106 0.95
121 5 0.04
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (121 bp):
TTGAATGCACATACGTACCCCTATTTCTACTTCTGTACCCATGAATACACATACGTGCCCCTATT
TGTACTTCAGTACCCCTGAATGCACATAAGTGCCCTTATTTGTACTTTGGTAACCA
Found at i:13517927 original size:40 final size:40
Alignment explanation
Indices: 13517683--13517927 Score: 269
Period size: 40 Copynumber: 6.1 Consensus size: 40
13517673 AATTATTGTT
* * *
13517683 TGAATGCACATACGTG-CCTCTATTTCTACTTCTGTACCCT
1 TGAATGCACATACGTGCCCT-TATTTGTACTTCGGTACCCA
* * *
13517723 TGAATACACATACGTGCCCCTATTTGTACTTCGGTACCCC
1 TGAATGCACATACGTGCCCTTATTTGTACTTCGGTACCCA
* * * *
13517763 TGAATGCACATAAGTGCCCTTATTTTTACTTTGG-AACCA
1 TGAATGCACATACGTGCCCTTATTTGTACTTCGGTACCCA
* * *
13517802 TTGAATGCACATACGTACCCCTATTTGTACTTCGATACCCA
1 -TGAATGCACATACGTGCCCTTATTTGTACTTCGGTACCCA
* * * *
13517843 TGAATGCACATATGTTCCCTTATTTGTACTTCAGTACCCC
1 TGAATGCACATACGTGCCCTTATTTGTACTTCGGTACCCA
* * * *
13517883 TGAATGCACATATGTGCCCTTGTTTGTACTTTGGTAACCA
1 TGAATGCACATACGTGCCCTTATTTGTACTTCGGTACCCA
13517923 TGAAT
1 TGAAT
13517928 CAAATAATAA
Statistics
Matches: 171, Mismatches: 31, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
39 3 0.02
40 162 0.95
41 6 0.04
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCTTATTTGTACTTCGGTACCCA
Found at i:13527953 original size:33 final size:33
Alignment explanation
Indices: 13527916--13527993 Score: 104
Period size: 33 Copynumber: 2.4 Consensus size: 33
13527906 GCCAATCCAT
13527916 CCATCACACCAATGCTCATAAGAGCTAAACCAA
1 CCATCACACCAATGCTCATAAGAGCTAAACCAA
** * *
13527949 CCATCACAATAATGCTTATAAGAGCTAATCCAA
1 CCATCACACCAATGCTCATAAGAGCTAAACCAA
13527982 CCGA-CACACCAA
1 CC-ATCACACCAA
13527994 AAAGAGAGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
33 37 0.97
34 1 0.03
ACGTcount: A:0.42, C:0.32, G:0.09, T:0.17
Consensus pattern (33 bp):
CCATCACACCAATGCTCATAAGAGCTAAACCAA
Found at i:13535634 original size:190 final size:190
Alignment explanation
Indices: 13535392--13535769 Score: 531
Period size: 190 Copynumber: 2.0 Consensus size: 190
13535382 TTATGAACAA
* *
13535392 TAAGTTATGAATAAGAGGCCCTGCATGGGGGTCATTTGTATTTGAGATGTTAGCAATTTGTTTGT
1 TAAGTTATGAATAAGAGGCCCTGCATGGGGATCATCTGTATTTGAGATGTTAGCAATTTGTTTGT
* * * * * * * **
13535457 AAATGGGTTTTAATGATGGTTCCAAGTTTTTTCAGTAATTATTGCTGGTTCGAGATGAGTGTTTG
66 AAATAGGTCTTAATGATGGTTCCAAGTTCTTTAAGCAATTATTACTGGTTCGAGAAGAGTGTTCA
* * ** * * * *
13535522 AGTTTGGAGCTTCAAGATGTAGTATATGTGAGTATCAGGTGGGTCTCTATCTTGGCTCAG
131 AGTTTAGAGCTACAAGATACAATATAAGTGAGTATCAGGTGAGTCTCTAACTTGGCTCAG
*
13535582 TAAGTTCTGAATAAGAGGCCCTGCATGGGGATCATCTGTATTTGAGATGTTAGCAATTTGTTTGT
1 TAAGTTATGAATAAGAGGCCCTGCATGGGGATCATCTGTATTTGAGATGTTAGCAATTTGTTTGT
* * *
13535647 AAATAGGTCTTAATGATGGTTCCATGTTCTTTAAGCAGTTGTTACTGGTTCGAGAAGAGTGTTCA
66 AAATAGGTCTTAATGATGGTTCCAAGTTCTTTAAGCAATTATTACTGGTTCGAGAAGAGTGTTCA
* *
13535712 AGTTTAGAGCTACAAGCTACAATATAAGTGAGTATTAGGTGAGTCTCTAACTTGGCTC
131 AGTTTAGAGCTACAAGATACAATATAAGTGAGTATCAGGTGAGTCTCTAACTTGGCTC
13535770 CTGCATGTGA
Statistics
Matches: 163, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
190 163 1.00
ACGTcount: A:0.25, C:0.12, G:0.26, T:0.37
Consensus pattern (190 bp):
TAAGTTATGAATAAGAGGCCCTGCATGGGGATCATCTGTATTTGAGATGTTAGCAATTTGTTTGT
AAATAGGTCTTAATGATGGTTCCAAGTTCTTTAAGCAATTATTACTGGTTCGAGAAGAGTGTTCA
AGTTTAGAGCTACAAGATACAATATAAGTGAGTATCAGGTGAGTCTCTAACTTGGCTCAG
Found at i:13541331 original size:51 final size:50
Alignment explanation
Indices: 13541217--13541405 Score: 231
Period size: 51 Copynumber: 3.7 Consensus size: 50
13541207 AGGTGGAAGT
* * * * * *
13541217 AGTGGCAGTATATCTGCAAATTAGGGGTGGCTTGTCCACAAAA-T-TTATT
1 AGTGGTAGT-TATCTTCAAATCAGTGGTGGCTTGTCCATAAAAGTGTTATC
* *
13541266 AGTGGTAGTATATCTGT-ATATCAGTGGTGGGTTGTCCATAAAAGTGTTATC
1 AGTGGTAGT-TATCT-TCAAATCAGTGGTGGCTTGTCCATAAAAGTGTTATC
*
13541317 AGTGGTAGCTTATCTTCAAATCAGTGGTGGGTTGTCCATAAAAGTGTTATC
1 AGTGGTAG-TTATCTTCAAATCAGTGGTGGCTTGTCCATAAAAGTGTTATC
13541368 AGTGGTAGTTTATCTTCAAATCAGTGGTGGCTTGTCCA
1 AGTGGTAG-TTATCTTCAAATCAGTGGTGGCTTGTCCA
13541406 CAAATGGTGT
Statistics
Matches: 124, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
49 35 0.28
50 2 0.02
51 86 0.69
52 1 0.01
ACGTcount: A:0.25, C:0.13, G:0.26, T:0.35
Consensus pattern (50 bp):
AGTGGTAGTTATCTTCAAATCAGTGGTGGCTTGTCCATAAAAGTGTTATC
Found at i:13541769 original size:29 final size:27
Alignment explanation
Indices: 13541737--13541794 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 27
13541727 TTCATGATTC
13541737 TGGAC-TTATATTTTATTTTGGGTCTTTTA
1 TGGACTTTATA-TTTA-TTTGGG-CTTTTA
13541766 TGGACTTTATGATTTATTTGGGCTTTTA
1 TGGACTTTAT-ATTTATTTGGGCTTTTA
13541794 T
1 T
13541795 TTTTTAGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
28 7 0.26
29 11 0.41
30 8 0.30
31 1 0.04
ACGTcount: A:0.17, C:0.07, G:0.19, T:0.57
Consensus pattern (27 bp):
TGGACTTTATATTTATTTGGGCTTTTA
Found at i:13548496 original size:23 final size:22
Alignment explanation
Indices: 13548453--13548511 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 22
13548443 TTGTTTTGAT
13548453 ATTGTTCTTGATTTGTTCTGGAA
1 ATTGTTCTTGA-TTGTTCTGGAA
13548476 ATTGTT-TTGATTGTCTGCTGGAA
1 ATTGTTCTTGATTGT-T-CTGGAA
13548499 ATTGTTCTTGATT
1 ATTGTTCTTGATT
13548512 TGTTAGTCAG
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
21 4 0.12
22 5 0.15
23 18 0.55
24 6 0.18
ACGTcount: A:0.17, C:0.08, G:0.22, T:0.53
Consensus pattern (22 bp):
ATTGTTCTTGATTGTTCTGGAA
Found at i:13549359 original size:31 final size:31
Alignment explanation
Indices: 13549321--13549384 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
13549311 CCATCATTCT
* * *
13549321 TTATTAAACCAAATCGTCATTCTTTATTTTA
1 TTATTAAACCAAACCCTCATTATTTATTTTA
13549352 TTATTAAACCAAACCCTCATTATTTATTTTA
1 TTATTAAACCAAACCCTCATTATTTATTTTA
13549383 TT
1 TT
13549385 TATTTTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.33, C:0.17, G:0.02, T:0.48
Consensus pattern (31 bp):
TTATTAAACCAAACCCTCATTATTTATTTTA
Found at i:13549470 original size:37 final size:37
Alignment explanation
Indices: 13549427--13549515 Score: 169
Period size: 37 Copynumber: 2.4 Consensus size: 37
13549417 ATCATAAATA
13549427 AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
1 AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
*
13549464 ATTAAACTAATCAATGTTAAAACTTTGAACATGCTTT
1 AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
13549501 AATAAACTAATCAAT
1 AATAAACTAATCAAT
13549516 ATATTTATAC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.45, C:0.13, G:0.07, T:0.35
Consensus pattern (37 bp):
AATAAACTAATCAATGTTAAAACTTTGAACATGCTTT
Found at i:13549623 original size:33 final size:33
Alignment explanation
Indices: 13549585--13549648 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
13549575 TCATTATTAA
13549585 ACCAACAATTAATTTTAGGTCAATTATACATAT
1 ACCAACAATTAATTTTAGGTCAATTATACATAT
13549618 ACCAACAATTAATTTTAGGTCAATTATACAT
1 ACCAACAATTAATTTTAGGTCAATTATACAT
13549649 GCTTTATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.36
Consensus pattern (33 bp):
ACCAACAATTAATTTTAGGTCAATTATACATAT
Found at i:13551248 original size:11 final size:11
Alignment explanation
Indices: 13551232--13551258 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
13551222 TAGAAATTAG
13551232 TTTGTGAAACT
1 TTTGTGAAACT
13551243 TTTGTGAAACT
1 TTTGTGAAACT
13551254 TTTGT
1 TTTGT
13551259 ATTGATTTTT
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:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:13552958 original size:40 final size:40
Alignment explanation
Indices: 13552914--13553175 Score: 310
Period size: 39 Copynumber: 6.7 Consensus size: 40
13552904 GCTCCTCGTT
* *
13552914 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
13552954 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
13552994 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
13553033 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
13553072 CAAATGCCTTCGGG-CTTAGCCTGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
13553111 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
13553152 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
13553176 CATCATTCAA
Statistics
Matches: 199, Mismatches: 15, Indels: 17
0.86 0.06 0.07
Matches are distributed among these distances:
38 2 0.01
39 123 0.62
40 63 0.32
41 11 0.06
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:13560987 original size:40 final size:40
Alignment explanation
Indices: 13560943--13561206 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
13560933 GCTCCTCGTT
* *
13560943 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
13560983 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
13561023 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
13561063 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
13561103 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
13561142 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
13561183 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
13561207 CATCATTCAA
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 49 0.24
40 146 0.71
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:13565110 original size:114 final size:114
Alignment explanation
Indices: 13564945--13565165 Score: 361
Period size: 114 Copynumber: 1.9 Consensus size: 114
13564935 TACTACGACC
* * * *
13564945 AGCTGACTGCCATATACGCAAGAGATCGAGCTACTGGGAAAGCTGCTCAAACAGCTGCTGATGTT
1 AGCTGACTACCATATACGCAAGAGATCGAGCAACTGGGAAAGATGCTCAAACAGCTACTGATGTT
13565010 CTTCAAGAAATAAATGCTGAGGATATACCTACTACAGATATGAATGAAG
66 CTTCAAGAAATAAATGCTGAGGATATACCTACTACAGATATGAATGAAG
*
13565059 AGCTTACTACCATATACGCAAGAGATCGAGCAACTGGGAAAGATGCTCAAACAGCTACTGATGTT
1 AGCTGACTACCATATACGCAAGAGATCGAGCAACTGGGAAAGATGCTCAAACAGCTACTGATGTT
* * * *
13565124 CTTGAAGAAATAAATGCTGAGGGTGTACCTACTACAGGTATG
66 CTTCAAGAAATAAATGCTGAGGATATACCTACTACAGATATG
13565166 GATTAAGAAA
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 98 1.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (114 bp):
AGCTGACTACCATATACGCAAGAGATCGAGCAACTGGGAAAGATGCTCAAACAGCTACTGATGTT
CTTCAAGAAATAAATGCTGAGGATATACCTACTACAGATATGAATGAAG
Found at i:13565733 original size:16 final size:18
Alignment explanation
Indices: 13565700--13565750 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 18
13565690 TTAATTGTTT
13565700 TATTAAATTATATAAGAA
1 TATTAAATTATATAAGAA
13565718 TATT-AATTAT-TAAGAA
1 TATTAAATTATATAAGAA
13565734 TTTTATTAAATTATATA
1 ---TATTAAATTATATA
13565751 TTTTAATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
16 6 0.21
17 6 0.21
18 4 0.14
19 4 0.14
20 6 0.21
21 2 0.07
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (18 bp):
TATTAAATTATATAAGAA
Found at i:13565761 original size:18 final size:17
Alignment explanation
Indices: 13565733--13565767 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13565723 ATTATTAAGA
*
13565733 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
13565750 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
13565768 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:13565859 original size:61 final size:61
Alignment explanation
Indices: 13565793--13565979 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
13565783 TTAATTTATC
13565793 TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
1 TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
* * * * * * * * *
13565854 TTTTATTA-AATTATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-T
1 TTTTA-TAGTATCATATATTATGATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGA
13565912 A
61 A
*
13565913 TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAA
1 TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
13565974 TTTTAT
1 TTTTAT
13565980 TAAATTATAT
Statistics
Matches: 95, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
57 11 0.12
58 8 0.08
59 18 0.19
60 16 0.17
61 24 0.25
62 7 0.07
63 11 0.12
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
Found at i:13565892 original size:15 final size:15
Alignment explanation
Indices: 13565857--13565908 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
13565847 TTAAGAATTT
*
13565857 TATTAAATTAT-ATA
1 TATTTAATTATAATA
13565871 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
13565885 TATTTAATAATAAT-
1 TATTTAATTATAATA
13565899 TATGTTAATT
1 TAT-TTAATT
13565909 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:13566007 original size:16 final size:16
Alignment explanation
Indices: 13565986--13566027 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
13565976 TTATTAAATT
*
13565986 ATATATTTTAATTATA
1 ATATATTTTAATAATA
13566002 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
13566017 AT-TATGTTTAA
1 ATATAT-TTTAA
13566028 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:13566012 original size:15 final size:15
Alignment explanation
Indices: 13565977--13566018 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
13565967 TTAAGAATTT
*
13565977 TATTAAATTAT-ATA
1 TATTTAATTATAATA
13565991 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
13566005 TATTTAATAATAAT
1 TATTTAATTATAAT
13566019 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:13566021 original size:120 final size:120
Alignment explanation
Indices: 13565703--13566024 Score: 601
Period size: 120 Copynumber: 2.7 Consensus size: 120
13565693 ATTGTTTTAT
*
13565703 TAAATT-ATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATA
1 TAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
* *
13565767 TTTAATAATAATTACGTTAATTTATCTTTTATAGTATCATATATTATGATTTGAG
66 TTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAG
13565822 TAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
1 TAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
13565887 TTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAG
66 TTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAG
*
13565942 TAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
1 TAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
13566007 TTTAATAATAATTATGTT
66 TTTAATAATAATTATGTT
13566025 TAAATATGAT
Statistics
Matches: 198, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
119 6 0.03
120 192 0.97
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (120 bp):
TAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
TTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAG
Found at i:13566252 original size:16 final size:16
Alignment explanation
Indices: 13566227--13566264 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
13566217 TTGATTTGTT
13566227 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
13566243 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
13566259 AATACA
1 ATTACA
13566265 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.34, G:0.03, T:0.34
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:13566916 original size:13 final size:13
Alignment explanation
Indices: 13566900--13566939 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
13566890 TTTAAACAAA
13566900 ACTTTTCAAAAGT
1 ACTTTTCAAAAGT
13566913 ACTTTTCAAAAGT
1 ACTTTTCAAAAGT
13566926 ACTTTTCAAAAGT
1 ACTTTTCAAAAGT
13566939 A
1 A
13566940 ACGAAAAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.38
Consensus pattern (13 bp):
ACTTTTCAAAAGT
Found at i:13566918 original size:26 final size:26
Alignment explanation
Indices: 13566889--13566939 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
13566879 AACACTCAAA
13566889 TTTT-AAACAAAACTTTTCAAAAGTAC
1 TTTTCAAA-AAAACTTTTCAAAAGTAC
**
13566915 TTTTCAAAAGTACTTTTCAAAAGTA
1 TTTTCAAAAAAACTTTTCAAAAGTA
13566940 ACGAAAAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 19 0.86
27 3 0.14
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (26 bp):
TTTTCAAAAAAACTTTTCAAAAGTAC
Found at i:13570228 original size:18 final size:18
Alignment explanation
Indices: 13570202--13570249 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
13570192 AAAATATGAG
*
13570202 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
*
13570220 AAATTATGTTCACATTTC
1 AAATGATGTTCACATTTC
*
13570238 AAATGATATTCA
1 AAATGATGTTCA
13570250 AATTGATGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:13571394 original size:25 final size:25
Alignment explanation
Indices: 13571360--13571407 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
13571350 ATGCAATTCA
13571360 AGATCCAAAATACAAATTTCCGCGC
1 AGATCCAAAATACAAATTTCCGCGC
13571385 AGATCCAAAATACAAATTTCCGC
1 AGATCCAAAATACAAATTTCCGC
13571408 ACCCTCCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.42, C:0.27, G:0.10, T:0.21
Consensus pattern (25 bp):
AGATCCAAAATACAAATTTCCGCGC
Found at i:13576296 original size:43 final size:43
Alignment explanation
Indices: 13576248--13576431 Score: 212
Period size: 43 Copynumber: 4.3 Consensus size: 43
13576238 GTTTATTTAT
*
13576248 AAACGCCACTAAAGGTCATGTTCTTTAGCGGCGCTTTCCTCAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTCCTCAC
13576291 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTATTCC-CAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCT-TTCCTCAC
* * * **
13576334 AAACGCCGCTAAAGGTTATGTTCTGTCGCGGCGCTTTTTTCAC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTCCTCAC
** * * *
13576377 AAACGCCGCT-ATTGT-TTGGTGACATTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTAAAGGTCAT-GT-TC-TTTAGCGGCGCTTTCCTCAC
13576421 AAACGCCGCTA
1 AAACGCCGCTA
13576432 TTGTTTGGTG
Statistics
Matches: 122, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
41 1 0.01
42 7 0.06
43 83 0.68
44 31 0.25
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTCCTCAC
Found at i:13576421 original size:44 final size:44
Alignment explanation
Indices: 13576361--13576459 Score: 171
Period size: 44 Copynumber: 2.2 Consensus size: 44
13576351 ATGTTCTGTC
*
13576361 GCGGCGCTTTTTTCACAAACGCCGCTATTGTTTGGTGACATTTA
1 GCGGCGCTTTTCTCACAAACGCCGCTATTGTTTGGTGACATTTA
*
13576405 GCGGCGCTTTTCTCACAAACGCCGCTATTGTTTGGTGACCTTTA
1 GCGGCGCTTTTCTCACAAACGCCGCTATTGTTTGGTGACATTTA
*
13576449 GCGGCACTTTT
1 GCGGCGCTTTT
13576460 TCTAAAAACG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 52 1.00
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.35
Consensus pattern (44 bp):
GCGGCGCTTTTCTCACAAACGCCGCTATTGTTTGGTGACATTTA
Found at i:13576469 original size:44 final size:44
Alignment explanation
Indices: 13576369--13576471 Score: 156
Period size: 44 Copynumber: 2.4 Consensus size: 44
13576359 TCGCGGCGCT
*
13576369 TTTTTC-ACAAACGCCGCTATTGTTTGGTGACATTTAGCGGCGC
1 TTTTTCTACAAACGCCGCTATTGTTTGGTGACATTTAGCGGCAC
*
13576412 -TTTTCTCACAAACGCCGCTATTGTTTGGTGACCTTTAGCGGCAC
1 TTTTTCT-ACAAACGCCGCTATTGTTTGGTGACATTTAGCGGCAC
*
13576456 TTTTTCTAAAAACGCC
1 TTTTTCTACAAACGCC
13576472 AGTAGTTTTG
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
42 5 0.09
44 43 0.80
45 6 0.11
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.35
Consensus pattern (44 bp):
TTTTTCTACAAACGCCGCTATTGTTTGGTGACATTTAGCGGCAC
Found at i:13576804 original size:21 final size:21
Alignment explanation
Indices: 13576780--13576829 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
13576770 TTCTGCTCTG
13576780 CTCTGCTTCCCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCCGC
* *
13576801 CTCTGCTTCCCTTGCTGCCGT
1 CTCTGCTTCCCTCGCTGCCGC
13576822 CTCTGCTT
1 CTCTGCTT
13576830 TAATTAAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.00, C:0.46, G:0.18, T:0.36
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCCGC
Found at i:13577549 original size:14 final size:14
Alignment explanation
Indices: 13577530--13577556 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13577520 CAAGTAACAC
13577530 TACTGCTACCTTTG
1 TACTGCTACCTTTG
13577544 TACTGCTACCTTT
1 TACTGCTACCTTT
13577557 TTTCCATTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.30, G:0.11, T:0.44
Consensus pattern (14 bp):
TACTGCTACCTTTG
Found at i:13579453 original size:38 final size:38
Alignment explanation
Indices: 13579398--13579491 Score: 134
Period size: 38 Copynumber: 2.5 Consensus size: 38
13579388 CTTAAATCCC
* *
13579398 TAACCCCTAACCCCTAAATCCCATTAACCCTTAAAGCA
1 TAACCCCTAACCCCTAAATCCCACTAACCCTTAAAACA
* * * *
13579436 TAACTCTTAACCTCTAAATCCCCCTAACCCTTAAAACA
1 TAACCCCTAACCCCTAAATCCCACTAACCCTTAAAACA
13579474 TAACCCCTAACCCCTAAA
1 TAACCCCTAACCCCTAAA
13579492 CCTTAAATCC
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.37, C:0.39, G:0.01, T:0.22
Consensus pattern (38 bp):
TAACCCCTAACCCCTAAATCCCACTAACCCTTAAAACA
Found at i:13579636 original size:29 final size:28
Alignment explanation
Indices: 13579577--13579636 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 28
13579567 ATCATAAAAT
* *
13579577 ATAGTTAAAATTTATTAAACAATATTTA
1 ATAGTTAAAATTTATTAAACAATAATCA
*
13579605 ATAGTTAAAAATTTATTAAGCAATAATCA
1 ATAGTT-AAAATTTATTAAACAATAATCA
13579634 ATA
1 ATA
13579637 TTATCAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 6 0.21
29 22 0.79
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (28 bp):
ATAGTTAAAATTTATTAAACAATAATCA
Found at i:13580151 original size:4 final size:4
Alignment explanation
Indices: 13580142--13580171 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
13580132 TCTCACATAT
13580142 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
13580172 GTATCTTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:13580327 original size:17 final size:16
Alignment explanation
Indices: 13580286--13580334 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
13580276 AAACCCTAAG
13580286 CCTCTAACCCCTAAAA
1 CCTCTAACCCCTAAAA
* *
13580302 CCCCTTAACCCCTAAATT
1 CCTC-TAACCCCTAAA-A
*
13580320 CCTCTAACCTCTAAA
1 CCTCTAACCCCTAAA
13580335 GCATAGTCCC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 3 0.11
17 21 0.78
18 3 0.11
ACGTcount: A:0.33, C:0.43, G:0.00, T:0.24
Consensus pattern (16 bp):
CCTCTAACCCCTAAAA
Found at i:13580365 original size:38 final size:37
Alignment explanation
Indices: 13580300--13580395 Score: 113
Period size: 38 Copynumber: 2.5 Consensus size: 37
13580290 TAACCCCTAA
*
13580300 AACCCCTTAACCCCTAAATTCCTCTAA-CCTCTAAAGCAT
1 AACCCC-TAACCCCTAAA-TCCCCTAACCCT-TAAAGCAT
**
13580339 AGTCCCTAACCCCTAAATCGCCCTAACCCTTAAAGCAT
1 AACCCCTAACCCCTAAATC-CCCTAACCCTTAAAGCAT
*
13580377 AACCCCTAACCCTTAAATC
1 AACCCCTAACCCCTAAATC
13580396 TTAAATCCCA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
37 2 0.04
38 40 0.82
39 7 0.14
ACGTcount: A:0.33, C:0.40, G:0.04, T:0.23
Consensus pattern (37 bp):
AACCCCTAACCCCTAAATCCCCTAACCCTTAAAGCAT
Found at i:13580973 original size:41 final size:41
Alignment explanation
Indices: 13580916--13581018 Score: 147
Period size: 41 Copynumber: 2.5 Consensus size: 41
13580906 CGGTGCTTTC
* *
13580916 TCAAAAACG-TCGCTAAAAGCCCGAGCATTAGTGGCG-TTATT
1 TCAAAAACGCT-GCTAAAAGCCCGAGCATTAGCGGCGCTT-CT
*
13580957 TCAAAAACGCTGCTAAAGGCCCGAGCATTAGCGGCGCTTCT
1 TCAAAAACGCTGCTAAAAGCCCGAGCATTAGCGGCGCTTCT
13580998 TCAAAAACGCTGCTAAAAGCC
1 TCAAAAACGCTGCTAAAAGCC
13581019 TCAAAAACTC
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
41 53 0.95
42 3 0.05
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.20
Consensus pattern (41 bp):
TCAAAAACGCTGCTAAAAGCCCGAGCATTAGCGGCGCTTCT
Found at i:13581125 original size:39 final size:39
Alignment explanation
Indices: 13581067--13581188 Score: 122
Period size: 40 Copynumber: 3.1 Consensus size: 39
13581057 TTTGCGGTGC
* *
13581067 TTTTCAGAAAA-CGCTGCTAATGCTTATTTTTAGCGGCG
1 TTTTCAGAAAAGCGCCGCTAATGCTTATTTTTAGAGGCG
* * *
13581105 TTTTCCA-AAAAGCGCCGCTAATGCTCCATCTTTAGAGGCA
1 TTTT-CAGAAAAGCGCCGCTAATGCT-TATTTTTAGAGGCG
* * * *
13581145 TTTTTAGAAAAGTGCCGCTAATGCTTGATTTTTAGTGGAG
1 TTTTCAGAAAAGCGCCGCTAATGCTT-ATTTTTAGAGGCG
13581185 TTTT
1 TTTT
13581189 TTTATCCAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
38 8 0.12
39 15 0.22
40 44 0.66
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (39 bp):
TTTTCAGAAAAGCGCCGCTAATGCTTATTTTTAGAGGCG
Found at i:13582417 original size:22 final size:22
Alignment explanation
Indices: 13582392--13582437 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
13582382 ACACATGAAC
13582392 TTCAATATAATT-AAACATTCAT
1 TTCAATA-AATTAAAACATTCAT
*
13582414 TTCAATAGATTAAAACATTCAT
1 TTCAATAAATTAAAACATTCAT
13582436 TT
1 TT
13582438 TAACATATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.43, C:0.13, G:0.02, T:0.41
Consensus pattern (22 bp):
TTCAATAAATTAAAACATTCAT
Found at i:13590985 original size:14 final size:14
Alignment explanation
Indices: 13590968--13590994 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13590958 TGAAAATAGC
13590968 TTTTGAAAAATGAT
1 TTTTGAAAAATGAT
13590982 TTTTGAAAAATGA
1 TTTTGAAAAATGA
13590995 CTTACTTTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (14 bp):
TTTTGAAAAATGAT
Found at i:13591563 original size:16 final size:15
Alignment explanation
Indices: 13591511--13591562 Score: 52
Period size: 16 Copynumber: 3.4 Consensus size: 15
13591501 ATGTGAAGAA
13591511 TATTATTTAA-AATT
1 TATTATTTAATAATT
* *
13591525 TATTATTAAAATAATA
1 TATTATT-TAATAATT
*
13591541 AATTATATTAATAATT
1 TATTAT-TTAATAATT
13591557 TATTAT
1 TATTAT
13591563 AATAATTAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
14 7 0.24
15 2 0.07
16 19 0.66
17 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTATTTAATAATT
Found at i:13591568 original size:16 final size:16
Alignment explanation
Indices: 13591521--13591568 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
13591511 TATTATTTAA
13591521 AATTTATTATTAA-AAT
1 AATTTATTA-TAATAAT
** *
13591537 AATAAATTATATTAAT
1 AATTTATTATAATAAT
13591553 AATTTATTATAATAAT
1 AATTTATTATAATAAT
13591569 TAAATATGTA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
15 2 0.08
16 23 0.92
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTTATTATAATAAT
Found at i:13591617 original size:31 final size:32
Alignment explanation
Indices: 13591543--13591618 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 32
13591533 AAATAATAAA
*
13591543 TTATATTAATAATTTATTATAATAATTAAATAT
1 TTATATTAATAA-TTATTATAAAAATTAAATAT
*
13591576 GTATATTTAATAA-TATTA-AAAAA-TATAATATT
1 TTATA-TTAATAATTATTATAAAAATTA-AATA-T
13591608 TTATATTAATA
1 TTATATTAATA
13591619 TTTTAAATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
30 2 0.05
31 14 0.38
32 10 0.27
33 4 0.11
34 7 0.19
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (32 bp):
TTATATTAATAATTATTATAAAAATTAAATAT
Found at i:13591669 original size:21 final size:21
Alignment explanation
Indices: 13591645--13591686 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
13591635 AAATAAAAAT
13591645 AAATTTATTACCAATATAATA
1 AAATTTATTACCAATATAATA
*
13591666 AAATTTATTACCTATATAATA
1 AAATTTATTACCAATATAATA
13591687 CTTTAAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (21 bp):
AAATTTATTACCAATATAATA
Found at i:13596965 original size:31 final size:31
Alignment explanation
Indices: 13596927--13596990 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
13596917 ATGAACTCAA
13596927 ACTCATCACTTCAAACATCATATAAACTTTT
1 ACTCATCACTTCAAACATCATATAAACTTTT
13596958 ACTCATCACTTCAAACATCATATAAACTTTT
1 ACTCATCACTTCAAACATCATATAAACTTTT
13596989 AC
1 AC
13596991 ATTTGTATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.34
Consensus pattern (31 bp):
ACTCATCACTTCAAACATCATATAAACTTTT
Found at i:13597719 original size:23 final size:21
Alignment explanation
Indices: 13597693--13597735 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
13597683 TCATTCTTGT
13597693 TAAACATTTAGAACAAAAAAATC
1 TAAA-ATTTA-AACAAAAAAATC
* *
13597716 TAAAGTTTAAACATAAAAAT
1 TAAAATTTAAACAAAAAAAT
13597736 TTTCACGAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 10 0.56
22 4 0.22
23 4 0.22
ACGTcount: A:0.60, C:0.09, G:0.05, T:0.26
Consensus pattern (21 bp):
TAAAATTTAAACAAAAAAATC
Found at i:13601552 original size:42 final size:43
Alignment explanation
Indices: 13601480--13601565 Score: 140
Period size: 42 Copynumber: 2.0 Consensus size: 43
13601470 TGATGGAGGA
*
13601480 GACGTTTGAGGGAGAAGTTCAAAGAGTTTGGAGCATGACAAGT
1 GACGTTTGAGGGAGAAGTTCAAAGAATTTGGAGCATGACAAGT
13601523 GACGTTTGA-GGAGGAA-TTCAAAGAATTTGGAGCATGACAAGT
1 GACGTTTGAGGGA-GAAGTTCAAAGAATTTGGAGCATGACAAGT
13601565 G
1 G
13601566 GGGATTTATT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
42 29 0.71
43 12 0.29
ACGTcount: A:0.34, C:0.09, G:0.34, T:0.23
Consensus pattern (43 bp):
GACGTTTGAGGGAGAAGTTCAAAGAATTTGGAGCATGACAAGT
Found at i:13607877 original size:18 final size:18
Alignment explanation
Indices: 13607854--13607890 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
13607844 GATATTATAT
13607854 AATCACATAAATTAAGTG
1 AATCACATAAATTAAGTG
13607872 AATCACATAAATTAAGTG
1 AATCACATAAATTAAGTG
13607890 A
1 A
13607891 GGTGGTAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.27
Consensus pattern (18 bp):
AATCACATAAATTAAGTG
Found at i:13608155 original size:25 final size:25
Alignment explanation
Indices: 13608126--13608176 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
13608116 GAAGTATATG
13608126 AATTTTAGTGTAATAAAACCTATTT
1 AATTTTAGTGTAATAAAACCTATTT
*
13608151 AATTTTAGTGTAATAAAATCTATTT
1 AATTTTAGTGTAATAAAACCTATTT
13608176 A
1 A
13608177 TCCTCTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (25 bp):
AATTTTAGTGTAATAAAACCTATTT
Found at i:13608714 original size:23 final size:26
Alignment explanation
Indices: 13608658--13608719 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
13608648 GTACATACAT
*
13608658 AATTGAGAATTCGGTTCTATAAAAAC
1 AATTGAGAATTTGGTTCTATAAAAAC
*
13608684 AATTGAGATTTTGGTTCT-T-AAAA-
1 AATTGAGAATTTGGTTCTATAAAAAC
13608707 AATTGAGAATTTG
1 AATTGAGAATTTG
13608720 TAAACATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 12 0.36
24 4 0.12
25 1 0.03
26 16 0.48
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (26 bp):
AATTGAGAATTTGGTTCTATAAAAAC
Found at i:13609084 original size:18 final size:16
Alignment explanation
Indices: 13609046--13609076 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13609036 TAATCAATTG
*
13609046 TATTATATTTTTGTAT
1 TATTATATTTTTGAAT
13609062 TATTATATTTTTGAA
1 TATTATATTTTTGAA
13609077 AATTATTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (16 bp):
TATTATATTTTTGAAT
Found at i:13609380 original size:7 final size:7
Alignment explanation
Indices: 13609361--13609405 Score: 67
Period size: 7 Copynumber: 6.7 Consensus size: 7
13609351 AGTGTGCTTA
13609361 ATAAAAT
1 ATAAAAT
13609368 -TAAAAT
1 ATAAAAT
13609374 ATAAAAT
1 ATAAAAT
*
13609381 ATAAAAC
1 ATAAAAT
13609388 ATAAAAT
1 ATAAAAT
13609395 ATAAAA-
1 ATAAAAT
13609401 ATAAA
1 ATAAA
13609406 GTTTTAGCTG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
6 11 0.31
7 24 0.69
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (7 bp):
ATAAAAT
Found at i:13613176 original size:48 final size:48
Alignment explanation
Indices: 13613115--13613206 Score: 130
Period size: 48 Copynumber: 1.9 Consensus size: 48
13613105 TGTGTATTTT
* * *
13613115 TTGGTGGTAAAGGAGAGGATTGAATAATAGGAGACGCTAGAGTGTTTG
1 TTGGGGGTAAAGGAGAGGACTGAATAATAGGAAACGCTAGAGTGTTTG
* * *
13613163 TTGGGGGTAAAGGAGATGACTGAATAGTAGGAAAGGCTAGAGTG
1 TTGGGGGTAAAGGAGAGGACTGAATAATAGGAAACGCTAGAGTG
13613207 CTAGTGGGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.33, C:0.04, G:0.39, T:0.24
Consensus pattern (48 bp):
TTGGGGGTAAAGGAGAGGACTGAATAATAGGAAACGCTAGAGTGTTTG
Found at i:13617918 original size:16 final size:16
Alignment explanation
Indices: 13617899--13617945 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 16
13617889 AAATTTGAAT
13617899 AATAATAAATTAATCA
1 AATAATAAATTAATCA
13617915 AATAAT-AATT--T-A
1 AATAATAAATTAATCA
*
13617927 AGTAA-AAATTAATCA
1 AATAATAAATTAATCA
13617942 AATA
1 AATA
13617946 TATATTGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 9
0.69 0.06 0.25
Matches are distributed among these distances:
12 9 0.36
13 1 0.04
14 1 0.04
15 8 0.32
16 6 0.24
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (16 bp):
AATAATAAATTAATCA
Found at i:13624018 original size:11 final size:11
Alignment explanation
Indices: 13623998--13624058 Score: 58
Period size: 11 Copynumber: 5.6 Consensus size: 11
13623988 AGAAAATTAA
13623998 AAAAAGTATTTT
1 AAAAA-TATTTT
13624010 AAAAATATTTT
1 AAAAATATTTT
*
13624021 AAAAATA---A
1 AAAAATATTTT
13624029 AAAAAGTATTTT
1 AAAAA-TATTTT
13624041 -AAAATACTTTT
1 AAAAATA-TTTT
13624052 AAAAATA
1 AAAAATA
13624059 AAAAATATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
8 5 0.12
9 2 0.05
10 2 0.05
11 21 0.51
12 11 0.27
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:13624033 original size:31 final size:31
Alignment explanation
Indices: 13623977--13624063 Score: 131
Period size: 31 Copynumber: 2.7 Consensus size: 31
13623967 AATAAACACC
*
13623977 AAAAATTTTTTAGAAAATTAAAAAAAGTATTTT
1 AAAAATATTTTA-AAAA-TAAAAAAAGTATTTT
13624010 AAAAATATTTTAAAAATAAAAAAAGTATTTT
1 AAAAATATTTTAAAAATAAAAAAAGTATTTT
13624041 -AAAATACTTTTAAAAATAAAAAA
1 AAAAATA-TTTTAAAAATAAAAAA
13624064 TATATATTTA
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
30 6 0.12
31 31 0.60
32 4 0.08
33 11 0.21
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (31 bp):
AAAAATATTTTAAAAATAAAAAAAGTATTTT
Found at i:13624760 original size:9 final size:9
Alignment explanation
Indices: 13624741--13624772 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
13624731 TTCTACAGTT
13624741 AATTT-TTC
1 AATTTATTC
13624749 AATTTATTC
1 AATTTATTC
13624758 AATTTATTC
1 AATTTATTC
13624767 AATTTA
1 AATTTA
13624773 GTCCTTAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.22
9 18 0.78
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.56
Consensus pattern (9 bp):
AATTTATTC
Found at i:13627890 original size:9 final size:9
Alignment explanation
Indices: 13627876--13627901 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
13627866 TTAAAACACA
13627876 AACTAAAAT
1 AACTAAAAT
13627885 AACTAAAAT
1 AACTAAAAT
13627894 AACTAAAA
1 AACTAAAA
13627902 ATTAATGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.12, G:0.00, T:0.19
Consensus pattern (9 bp):
AACTAAAAT
Found at i:13627891 original size:21 final size:23
Alignment explanation
Indices: 13627851--13627892 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
13627841 TAATGATGTG
*
13627851 CAAACTATAACATAATTAAAACA
1 CAAACTATAACATAACTAAAACA
13627874 CAAACTA-AA-ATAACTAAAA
1 CAAACTATAACATAACTAAAA
13627893 TAACTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 2 0.11
23 7 0.39
ACGTcount: A:0.64, C:0.17, G:0.00, T:0.19
Consensus pattern (23 bp):
CAAACTATAACATAACTAAAACA
Found at i:13635279 original size:19 final size:19
Alignment explanation
Indices: 13635255--13635291 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
13635245 TTTGATGTTG
13635255 TGGTATG-ATAGTTTAAATA
1 TGGTATGTAT-GTTTAAATA
13635274 TGGTATGTATGTTTAAAT
1 TGGTATGTATGTTTAAAT
13635292 CCATGTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (19 bp):
TGGTATGTATGTTTAAATA
Found at i:13637741 original size:3 final size:3
Alignment explanation
Indices: 13637680--13637726 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
13637670 TTGATCAGCA
*
13637680 CAT CAT CAT CAT CAT CAT CAT CAT AAT CAT CAT CAT CAT CAT C-T CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
13637727 TTCATGATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.34, C:0.32, G:0.00, T:0.34
Consensus pattern (3 bp):
CAT
Found at i:13647608 original size:79 final size:78
Alignment explanation
Indices: 13647506--13647728 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
13647496 GCTCCTCGTT
* *
13647506 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
13647571 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
13647586 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
13647649 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
13647664 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
13647727 GA
63 GA
13647729 CATCATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.38
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:13647623 original size:39 final size:40
Alignment explanation
Indices: 13647506--13647728 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
13647496 GCTCCTCGTT
* *
13647506 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
13647546 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
13647586 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
13647625 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
13647664 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
13647705 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
13647729 CATCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:13655631 original size:79 final size:82
Alignment explanation
Indices: 13655520--13655704 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
13655510 GCTACTCGTT
* *
13655520 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
13655583 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
13655600 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
13655663 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
13655680 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
13655705 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:13655704 original size:40 final size:40
Alignment explanation
Indices: 13655501--13655704 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
13655491 CGGAATTTAA
** *
13655501 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
13655541 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
13655581 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
13655620 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
13655660 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
13655700 CCGGA
1 CCGGA
13655705 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:13660357 original size:43 final size:43
Alignment explanation
Indices: 13660296--13660383 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
13660286 TCTAATGCCA
13660296 TTAACCTCTATAGTTTCACAATTCGGGCCTTGAATTGAAAAAT
1 TTAACCTCTATAGTTTCACAATTCGGGCCTTGAATTGAAAAAT
*
13660339 TTAACGTCTATAGTTTCACAATTCGGGCCTTGAATTGAAAAAT
1 TTAACCTCTATAGTTTCACAATTCGGGCCTTGAATTGAAAAAT
13660382 TT
1 TT
13660384 TTCTTCTAAC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (43 bp):
TTAACCTCTATAGTTTCACAATTCGGGCCTTGAATTGAAAAAT
Found at i:13663713 original size:18 final size:18
Alignment explanation
Indices: 13663686--13663725 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13663676 AAAACAAAAT
* *
13663686 AAAAACTAAAACTGAAAG
1 AAAAAATAAAAATGAAAG
*
13663704 AAAAAATAAAAATGAAAT
1 AAAAAATAAAAATGAAAG
13663722 AAAA
1 AAAA
13663726 TGTACTTGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.75, C:0.05, G:0.07, T:0.12
Consensus pattern (18 bp):
AAAAAATAAAAATGAAAG
Found at i:13664215 original size:11 final size:11
Alignment explanation
Indices: 13664199--13664223 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13664189 TCTACAAATA
13664199 TTTAATCTATT
1 TTTAATCTATT
13664210 TTTAATCTATT
1 TTTAATCTATT
13664221 TTT
1 TTT
13664224 CCTATTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTAATCTATT
Found at i:13664237 original size:9 final size:9
Alignment explanation
Indices: 13664197--13664245 Score: 55
Period size: 9 Copynumber: 5.2 Consensus size: 9
13664187 CTTCTACAAA
13664197 TATTTAATC
1 TATTTAATC
13664206 TATTTTTAATC
1 TA--TTTAATC
*
13664217 TATTT-TTCC
1 TATTTAAT-C
13664226 TATTTAATC
1 TATTTAATC
13664235 TATTTAATC
1 TATTTAATC
13664244 TA
1 TA
13664246 CAAATATCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
8 1 0.03
9 23 0.68
10 1 0.03
11 9 0.26
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (9 bp):
TATTTAATC
Found at i:13679667 original size:100 final size:105
Alignment explanation
Indices: 13679526--13679715 Score: 246
Period size: 100 Copynumber: 1.8 Consensus size: 105
13679516 TCTTGTACTA
* * ** * *
13679526 CCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCAT-A-T-A-GGTGCCCATGCCATG
1 CCAACGCCATATCCCAGACATGGTCTTACATGAGACCTCTCATAACTAATGATGCCAATGCCATG
*
13679587 TCCCAGACATGGTCTTAC-TGGGGACCTCTCATCTTGGTG
66 TCCCAAACATGGTCTTACATGGGGACCTCTCATCTTGGTG
* *
13679626 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTAAATGATGCCAATGCCA
1 CCAACGCCATATCCCAGACATGGTCTTACATGAGACCTCTCATAA-CT-AATGATGCCAATGCCA
13679691 TGTCCCAAACATGGTCTTACATGGG
64 TGTCCCAAACATGGTCTTACATGGG
13679716 ATCTCTTTAC
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
100 37 0.50
101 1 0.01
103 1 0.01
105 1 0.01
106 30 0.41
107 4 0.05
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.27
Consensus pattern (105 bp):
CCAACGCCATATCCCAGACATGGTCTTACATGAGACCTCTCATAACTAATGATGCCAATGCCATG
TCCCAAACATGGTCTTACATGGGGACCTCTCATCTTGGTG
Found at i:13679685 original size:56 final size:50
Alignment explanation
Indices: 13679474--13679721 Score: 198
Period size: 50 Copynumber: 4.9 Consensus size: 50
13679464 TGAATATAAC
* * * * *
13679474 ATGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGA--TGT-TTCTTG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
* * * * * ** * *
13679521 TACTACCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAG
1 -A-TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
* * *
13679573 GTGCCCATGCCATGTCCCAGACATGGTCTTAC-TGGGGACCTCTCATCTTG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACAT-GGGACCTCTCATCTTG
*
13679623 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTAAATG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCT---TG
* * *
13679679 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCTCT
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
13679722 TTACCCAAAT
Statistics
Matches: 161, Mismatches: 27, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
48 1 0.01
49 31 0.19
50 78 0.48
51 3 0.02
52 3 0.02
53 4 0.02
56 41 0.25
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.29
Consensus pattern (50 bp):
ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
Found at i:13681320 original size:17 final size:17
Alignment explanation
Indices: 13681290--13681344 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 17
13681280 AGCAACTCAT
13681290 TTATTAATCTAAGATGAG
1 TTATTAA-CTAAGATGAG
*
13681308 TTATTAACTAAGATGAAC
1 TTATTAACTAAGATG-AG
*
13681326 TCAATTAACTAAGATGAG
1 T-TATTAACTAAGATGAG
13681344 T
1 T
13681345 AATTTATTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 8 0.25
18 11 0.34
19 13 0.41
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.35
Consensus pattern (17 bp):
TTATTAACTAAGATGAG
Found at i:13685640 original size:61 final size:64
Alignment explanation
Indices: 13685570--13685703 Score: 152
Period size: 64 Copynumber: 2.1 Consensus size: 64
13685560 TTAACTTAAG
* * *
13685570 TAAATGAAC-TAAAACAT-ATGCATTAATTATTCC-AGCAACTAG-TTAATTAAAGAAGCAT-AA
1 TAAATGAACTTAAAACATCAT-CAATAAATAATCCTAGCAACTAGATTAATT-AAGAAGCATCAA
13685630 T
64 T
* * *
13685631 TAAATGAACTTAACACATGCATCAATAAATAATCCTAGGAACTAGATTAATTAAGAAGCATCTAT
1 TAAATGAACTTAAAACAT-CATCAATAAATAATCCTAGCAACTAGATTAATTAAGAAGCATCAAT
13685696 TAAATGAA
1 TAAATGAA
13685704 GTTCAATAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
61 9 0.15
62 7 0.11
63 10 0.16
64 19 0.31
65 16 0.26
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.28
Consensus pattern (64 bp):
TAAATGAACTTAAAACATCATCAATAAATAATCCTAGCAACTAGATTAATTAAGAAGCATCAAT
Found at i:13685794 original size:17 final size:17
Alignment explanation
Indices: 13685764--13685818 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 17
13685754 AGCAACTCAT
13685764 TTATTAATCTAAGATGAG
1 TTATTAA-CTAAGATGAG
*
13685782 TTATTAACTAAGATGAAC
1 TTATTAACTAAGATG-AG
*
13685800 TCAATTAACTAAGATGAG
1 T-TATTAACTAAGATGAG
13685818 T
1 T
13685819 ACTTTATTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 8 0.25
18 11 0.34
19 13 0.41
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.35
Consensus pattern (17 bp):
TTATTAACTAAGATGAG
Found at i:13708121 original size:76 final size:76
Alignment explanation
Indices: 13708021--13708173 Score: 297
Period size: 76 Copynumber: 2.0 Consensus size: 76
13708011 ACAGTAGAAG
13708021 AAAGATTGAATAAAATAACATTTAACCCAGAAATCATGTATACTTCTTTACAAACATGAAATAGA
1 AAAGATTGAATAAAATAACATTTAACCCAGAAATCATGTATACTTCTTTACAAACATGAAATAGA
13708086 AAGTAATCACC
66 AAGTAATCACC
*
13708097 AAAGATTGAATAAAATAACATTTAACCTAGAAATCATGTATACTTCTTTACAAACATGAAATAGA
1 AAAGATTGAATAAAATAACATTTAACCCAGAAATCATGTATACTTCTTTACAAACATGAAATAGA
13708162 AAGTAATCACC
66 AAGTAATCACC
13708173 A
1 A
13708174 GCATTTAGAA
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.49, C:0.15, G:0.09, T:0.27
Consensus pattern (76 bp):
AAAGATTGAATAAAATAACATTTAACCCAGAAATCATGTATACTTCTTTACAAACATGAAATAGA
AAGTAATCACC
Found at i:13726433 original size:25 final size:25
Alignment explanation
Indices: 13726376--13726438 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
13726366 TGGTGAATAT
13726376 TTTGTAAAGCCTTTATGGCAAACTC
1 TTTGTAAAGCCTTTATGGCAAACTC
* * * * *
13726401 TCTATAAAGCTTTTGTGGCGAACTC
1 TTTGTAAAGCCTTTATGGCAAACTC
*
13726426 TTTGTAAAACCTT
1 TTTGTAAAGCCTT
13726439 CTTGGCATAT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (25 bp):
TTTGTAAAGCCTTTATGGCAAACTC
Found at i:13737490 original size:18 final size:16
Alignment explanation
Indices: 13737467--13737502 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
13737457 ATAGGGTTTT
13737467 TAAAAGTATATTATAAAA
1 TAAAAGT-TATTA-AAAA
13737485 TAAAAGTTATTAAAAA
1 TAAAAGTTATTAAAAA
13737501 TA
1 TA
13737503 TTGGATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 5 0.28
18 7 0.39
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (16 bp):
TAAAAGTTATTAAAAA
Found at i:13739358 original size:44 final size:44
Alignment explanation
Indices: 13739310--13739440 Score: 106
Period size: 43 Copynumber: 3.0 Consensus size: 44
13739300 CTTCGATCTG
13739310 CTCCACTACTTCTTAGGGAGATAAGTTCTGTAATTTTCAACCTA
1 CTCCACTACTTCTTAGGGAGATAAGTTCTGTAATTTTCAACCTA
* * * * *** * * *
13739354 CTCCACT-GTTGTTCAGGGAGACAAG-GCTGGGGTCTTCAATCTG
1 CTCCACTACTTCTT-AGGGAGATAAGTTCTGTAATTTTCAACCTA
* * *
13739397 CTCCAATACTGCTCAGGGAGATAAGATT-TGTAATTTTCAACCTA
1 CTCCACTACTTCTTAGGGAGATAAG-TTCTGTAATTTTCAACCTA
13739441 ATTCACTGCT
Statistics
Matches: 60, Mismatches: 23, Indels: 8
0.66 0.25 0.09
Matches are distributed among these distances:
43 31 0.52
44 29 0.48
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (44 bp):
CTCCACTACTTCTTAGGGAGATAAGTTCTGTAATTTTCAACCTA
Found at i:13739389 original size:87 final size:87
Alignment explanation
Indices: 13739298--13739456 Score: 239
Period size: 87 Copynumber: 1.8 Consensus size: 87
13739288 TAGGATTAGA
* * * * *
13739298 GTCTTCGATCTGCTCCACTACTTCTTAGGGAGATAAG-TTCTGTAATTTTCAACCTACTCCACTG
1 GTCTTCAATCTGCTCCAATACTGCTCAGGGAGATAAGATT-TGTAATTTTCAACCTAATCCACTG
*
13739362 TTGTTCAGGGAGACAAGGCTGGG
65 CTGTTCAGGGAGACAAGGCTGGG
*
13739385 GTCTTCAATCTGCTCCAATACTGCTCAGGGAGATAAGATTTGTAATTTTCAACCTAATTCACTGC
1 GTCTTCAATCTGCTCCAATACTGCTCAGGGAGATAAGATTTGTAATTTTCAACCTAATCCACTGC
13739450 TGTTCAG
66 TGTTCAG
13739457 AGAGCTAGGA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
87 62 0.97
88 2 0.03
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (87 bp):
GTCTTCAATCTGCTCCAATACTGCTCAGGGAGATAAGATTTGTAATTTTCAACCTAATCCACTGC
TGTTCAGGGAGACAAGGCTGGG
Found at i:13739510 original size:44 final size:44
Alignment explanation
Indices: 13739478--13739910 Score: 679
Period size: 44 Copynumber: 9.8 Consensus size: 44
13739468 ATGCAATCTC
** * *
13739478 CCACCTATTCCACTGCTGGTCAGGGAGTTAGGACTTACAATCTT
1 CCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACAGTCTT
** *
13739522 CCACCTATTCCACTGCAAGTAAGGGAACTAGGGCTTACAGTCTT
1 CCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACAGTCTT
**
13739566 CCACCTATTCCACTATTGGTCAGGGAACTAGGGCTTACAGTCTT
1 CCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACAGTCTT
*
13739610 CCACCTATTCCAACTGCTGGTCAGGGAACTAGGACTTACAGTCTT
1 CCACCTATTCC-ACTGCTGGTCAGGGAACTAGGGCTTACAGTCTT
*
13739655 CCACCTATTCCGCTGCTGGTCAGGGAACTAGGGCTTACAGTCTT
1 CCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACAGTCTT
* *
13739699 TCACCTATTCCACTGCTGGTCAGGGAACTAAGGCTTACAGTCTT
1 CCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACAGTCTT
*
13739743 CCACCTATTCCAACTGTTGGTCAGGGAACTAGGGCTTACAGTCTT
1 CCACCTATTCC-ACTGCTGGTCAGGGAACTAGGGCTTACAGTCTT
* *
13739788 CCACCTATTCCACTACTGGTCAAGGAACTAGGGCTTACAG-CTT
1 CCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACAGTCTT
*
13739831 CCACCTATTCCACTGCTGGTCAAGGAACTAGGGCTTACAGTCTT
1 CCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACAGTCTT
*
13739875 CTACCTATTCCACTGCTGGTCAGGGAACTAGGGCTT
1 CCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTT
13739911 GTGATTTCAC
Statistics
Matches: 357, Mismatches: 29, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
43 42 0.12
44 232 0.65
45 83 0.23
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (44 bp):
CCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACAGTCTT
Found at i:13739655 original size:133 final size:132
Alignment explanation
Indices: 13739478--13739906 Score: 673
Period size: 133 Copynumber: 3.2 Consensus size: 132
13739468 ATGCAATCTC
** * **
13739478 CCACCTATTCCACTGCTGGTCAGGGAGTTAGGACTTACAATCTTCCACCTATTCCACTGCAAGTA
1 CCACCTATTCCACTGCTGGTCAGGGAACTAGGACTTACAGTCTTCCACCTATTCCACTGCTGGTA
**
13739543 AGGGAACTAGGGCTTACAGTCTTCCACCTATTCCACTATTGGTCAGGGAACTAGGGCTTACAGTC
66 AGGGAACTAGGGCTTACAGTCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACAGTC
13739608 TT
131 TT
*
13739610 CCACCTATTCCAACTGCTGGTCAGGGAACTAGGACTTACAGTCTTCCACCTATTCCGCTGCTGGT
1 CCACCTATTCC-ACTGCTGGTCAGGGAACTAGGACTTACAGTCTTCCACCTATTCCACTGCTGGT
* * *
13739675 CAGGGAACTAGGGCTTACAGTCTTTCACCTATTCCACTGCTGGTCAGGGAACTAAGGCTTACAGT
65 AAGGGAACTAGGGCTTACAGTCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACAGT
13739740 CTT
130 CTT
* * *
13739743 CCACCTATTCCAACTGTTGGTCAGGGAACTAGGGCTTACAGTCTTCCACCTATTCCACTACTGGT
1 CCACCTATTCC-ACTGCTGGTCAGGGAACTAGGACTTACAGTCTTCCACCTATTCCACTGCTGGT
*
13739808 CAA-GGAACTAGGGCTTACAG-CTTCCACCTATTCCACTGCTGGTCAAGGAACTAGGGCTTACAG
65 -AAGGGAACTAGGGCTTACAGTCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACAG
13739871 TCTT
129 TCTT
*
13739875 CTACCTATTCCACTGCTGGTCAGGGAACTAGG
1 CCACCTATTCCACTGCTGGTCAGGGAACTAGG
13739907 GCTTGTGATT
Statistics
Matches: 274, Mismatches: 21, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
131 20 0.07
132 65 0.24
133 188 0.69
134 1 0.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (132 bp):
CCACCTATTCCACTGCTGGTCAGGGAACTAGGACTTACAGTCTTCCACCTATTCCACTGCTGGTA
AGGGAACTAGGGCTTACAGTCTTCCACCTATTCCACTGCTGGTCAGGGAACTAGGGCTTACAGTC
TT
Done.