Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 97 of 318
Found at i:32099585 original size:11 final size:11
Alignment explanation
Indices: 32099569--32099598 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
32099559 TAATATTAAC
32099569 TAATTTAAATA
1 TAATTTAAATA
32099580 TAATTTAAATA
1 TAATTTAAATA
32099591 TATATTTA
1 TA-ATTTA
32099599 TTACTTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TAATTTAAATA
Found at i:32100216 original size:44 final size:43
Alignment explanation
Indices: 32100167--32100254 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
32100157 TTTAGGCATC
* * *
32100167 TAGCAGCCCTTATATTCGCCCCAACTTACATCAATATTTTAATA
1 TAGCAGCCCCTATA-TCCCCCCAACATACATCAATATTTTAATA
** *
32100211 TAGCAGCCCCTATATCCCCCCTGCATCCATCAATATTTTAATA
1 TAGCAGCCCCTATATCCCCCCAACATACATCAATATTTTAATA
32100254 T
1 T
32100255 GTTAGTGATT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
43 25 0.66
44 13 0.34
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.33
Consensus pattern (43 bp):
TAGCAGCCCCTATATCCCCCCAACATACATCAATATTTTAATA
Found at i:32101425 original size:17 final size:16
Alignment explanation
Indices: 32101391--32101425 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
32101381 ATCGAATCAT
*
32101391 TGTAATACGAATAGAA
1 TGTAATACGAAAAGAA
32101407 TGTAATACGATAAAGAA
1 TGTAATACGA-AAAGAA
32101424 TG
1 TG
32101426 AACTTTGAAA
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:0.49, C:0.06, G:0.20, T:0.26
Consensus pattern (16 bp):
TGTAATACGAAAAGAA
Found at i:32103118 original size:16 final size:16
Alignment explanation
Indices: 32103097--32103130 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
32103087 GAGGAAATTC
32103097 TAACGGCAATTAAAGG
1 TAACGGCAATTAAAGG
32103113 TAACGGCAATTAAAGG
1 TAACGGCAATTAAAGG
32103129 TA
1 TA
32103131 TTGCACCACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.24, T:0.21
Consensus pattern (16 bp):
TAACGGCAATTAAAGG
Found at i:32104255 original size:16 final size:16
Alignment explanation
Indices: 32104234--32104265 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
32104224 TGGTGGAGAG
32104234 ATTCAAAAACAAGGAA
1 ATTCAAAAACAAGGAA
32104250 ATTCAAAAACAAGGAA
1 ATTCAAAAACAAGGAA
32104266 GGAAATTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.12, G:0.12, T:0.12
Consensus pattern (16 bp):
ATTCAAAAACAAGGAA
Found at i:32106207 original size:11 final size:11
Alignment explanation
Indices: 32106191--32106221 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
32106181 AAGTATGGGT
32106191 AGGTATGGGAA
1 AGGTATGGGAA
*
32106202 AGGTATGGGCA
1 AGGTATGGGAA
32106213 AGGTATGGG
1 AGGTATGGG
32106222 GTATGGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:32110298 original size:18 final size:18
Alignment explanation
Indices: 32110275--32110331 Score: 105
Period size: 18 Copynumber: 3.2 Consensus size: 18
32110265 CCCAACTACT
*
32110275 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
32110293 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
32110311 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
32110329 GTA
1 GTA
32110332 AACGGTCGTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:32110891 original size:11 final size:11
Alignment explanation
Indices: 32110875--32110905 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
32110865 AAGTATGGGT
32110875 AGGTATGGGAA
1 AGGTATGGGAA
*
32110886 AGGTATGGGCA
1 AGGTATGGGAA
32110897 AGGTATGGG
1 AGGTATGGG
32110906 GTATGGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:32113028 original size:68 final size:68
Alignment explanation
Indices: 32112938--32113202 Score: 372
Period size: 68 Copynumber: 3.9 Consensus size: 68
32112928 ATGCGGTCAT
* * * *
32112938 GCACTTAATCCAACCGATTTTGTCTTAAAATTTTCACATTGGACAGCATGTATAACCTTAACAAG
1 GCACTTAATTCAACCAAATTTGTCTTAAAATTTTCACATTGGACAGCATGTATAACCTCAACAAG
*
32113003 ATA
66 ACA
*
32113006 GCACTTAATTCAACCAAATTTGTCTTCAAAA-TTTCACGTTGGACAGCATGTATAACCTCAACAA
1 GCACTTAATTCAACCAAATTTGTCTT-AAAATTTTCACATTGGACAGCATGTATAACCTCAACAA
32113070 GACA
65 GACA
* * **
32113074 GCACTTAATTCAACCAAATTTGTCTGAACATTTTCGTATTCGG-CAGCATGTATAACCTCAACAA
1 GCACTTAATTCAACCAAATTTGTCTTAAAATTTTCACATT-GGACAGCATGTATAACCTCAACAA
32113138 GACA
65 GACA
* * * *
32113142 ACACTTAATTCAACCAAATTTGTCTTAAAATTTTCATATTGGACAGTATGTAAAACCTCAA
1 GCACTTAATTCAACCAAATTTGTCTTAAAATTTTCACATTGGACAGCATGTATAACCTCAA
32113203 TCGGACATAC
Statistics
Matches: 176, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
67 5 0.03
68 165 0.94
69 6 0.03
ACGTcount: A:0.36, C:0.22, G:0.11, T:0.31
Consensus pattern (68 bp):
GCACTTAATTCAACCAAATTTGTCTTAAAATTTTCACATTGGACAGCATGTATAACCTCAACAAG
ACA
Found at i:32113184 original size:136 final size:136
Alignment explanation
Indices: 32112904--32113202 Score: 379
Period size: 136 Copynumber: 2.2 Consensus size: 136
32112894 TTTTTTTTTT
* * * * * * *
32112904 ACATTGGACAGCATGTAAAACCACATGC-GGTCATGCACTTAATCCAACCGATTTTGTCTTAAAA
1 ACATTGGACAGCATGTAAAACCTCA-ACAAGACA-GCACTTAATCCAACCAAATTTGTCTGAAAA
* * *
32112968 TTTTCACATTGGACAGCATGTATAACCTTAACAAGATAGCACTTAATTCAACCAAATTTGTCTTC
64 TTTTCACATTGGACAGCATGTATAACCTCAACAAGACAACACTTAATTCAACCAAATTTGTCTTC
32113033 AAAATTTC
129 AAAATTTC
* * * *
32113041 ACGTTGGACAGCATGTATAACCTCAACAAGACAGCACTTAATTCAACCAAATTTGTCTGAACATT
1 ACATTGGACAGCATGTAAAACCTCAACAAGACAGCACTTAATCCAACCAAATTTGTCTGAAAATT
**
32113106 TTCGTATTCGG-CAGCATGTATAACCTCAACAAGACAACACTTAATTCAACCAAATTTGTCTT-A
66 TTCACATT-GGACAGCATGTATAACCTCAACAAGACAACACTTAATTCAACCAAATTTGTCTTCA
32113169 AAATTTTC
130 AAA-TTTC
* *
32113177 ATATTGGACAGTATGTAAAACCTCAA
1 ACATTGGACAGCATGTAAAACCTCAA
32113203 TCGGACATAC
Statistics
Matches: 139, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
135 4 0.03
136 108 0.78
137 27 0.19
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (136 bp):
ACATTGGACAGCATGTAAAACCTCAACAAGACAGCACTTAATCCAACCAAATTTGTCTGAAAATT
TTCACATTGGACAGCATGTATAACCTCAACAAGACAACACTTAATTCAACCAAATTTGTCTTCAA
AATTTC
Found at i:32114383 original size:24 final size:24
Alignment explanation
Indices: 32114351--32114399 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
32114341 GAACCAATAC
32114351 AAGCCGGTTGAACCGATTTTTTCT
1 AAGCCGGTTGAACCGATTTTTTCT
32114375 AAGCCGGTTGAACCGATTTTTTCT
1 AAGCCGGTTGAACCGATTTTTTCT
32114399 A
1 A
32114400 TCTTTAAATA
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:0.22, C:0.20, G:0.20, T:0.37
Consensus pattern (24 bp):
AAGCCGGTTGAACCGATTTTTTCT
Found at i:32114829 original size:144 final size:143
Alignment explanation
Indices: 32114637--32114895 Score: 346
Period size: 144 Copynumber: 1.8 Consensus size: 143
32114627 AACGATTAAG
* ** * *
32114637 CTAATAGAGGTACCAACTTGGGAAAAAATATAATTAGGTACCATTTGTGA-CAA-A-AAATGTTT
1 CTAACAGAGGTACCAACTTAAGAAAAAATATAATTAGATACCACTTGTGACCAAGAGAAA--TTT
*
32114699 AGGTACCAAAATAGGAAAAGAAAATATAGTTTAGGTACCAATTTGTGGGTTAAGCATTTCTTTAA
64 AGGTACCAAAATAGGAAAAG--AATATAGTTTAGGTACCAATTTGTGAGTTAAGCATTTCTTTAA
32114764 ATAAACTTAAAGTTTGA
127 ATAAACTTAAAGTTTGA
*
32114781 CTAACAGAGGTACCAACTTAAGAAAAAA-ATAATTTAGATACTACTTGTGACCAAGAGAAATTTA
1 CTAACAGAGGTACCAACTTAAGAAAAAATATAA-TTAGATACCACTTGTGACCAAGAGAAATTTA
* ** *
32114845 GGTACCAAGATAGGAAAAGGCTATAGTTTAGGTACCGATTTGTGAGTTAAG
65 GGTACCAAAATAGGAAAAGAATATAGTTTAGGTACCAATTTGTGAGTTAAG
32114896 ACTTAAATAT
Statistics
Matches: 100, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
143 32 0.32
144 39 0.39
145 25 0.25
146 1 0.01
147 3 0.03
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.29
Consensus pattern (143 bp):
CTAACAGAGGTACCAACTTAAGAAAAAATATAATTAGATACCACTTGTGACCAAGAGAAATTTAG
GTACCAAAATAGGAAAAGAATATAGTTTAGGTACCAATTTGTGAGTTAAGCATTTCTTTAAATAA
ACTTAAAGTTTGA
Found at i:32119737 original size:4 final size:4
Alignment explanation
Indices: 32119728--32119771 Score: 63
Period size: 4 Copynumber: 11.2 Consensus size: 4
32119718 AAAGAAGTAA
* *
32119728 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATGC AAAC ATAC -TAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
32119772 CACACACACA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 3 0.09
4 32 0.91
ACGTcount: A:0.50, C:0.25, G:0.02, T:0.23
Consensus pattern (4 bp):
ATAC
Found at i:32119776 original size:2 final size:2
Alignment explanation
Indices: 32119769--32119801 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
32119759 CAAACATACT
32119769 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
32119802 TATGTATATC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:32121072 original size:27 final size:27
Alignment explanation
Indices: 32121031--32121091 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 27
32121021 CTCATGACAA
32121031 TTTTAAAGAATTTTTAATTGTTTATCTT
1 TTTTAAAGAATTTTTAATTGTTTAT-TT
32121059 TTTTAAAGAATTTTTAATTGTTTATTT
1 TTTTAAAGAATTTTTAATTGTTTATTT
32121086 TTTTAA
1 TTTTAA
32121092 TAAACTTGAC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 8 0.24
28 25 0.76
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.62
Consensus pattern (27 bp):
TTTTAAAGAATTTTTAATTGTTTATTT
Found at i:32121561 original size:28 final size:27
Alignment explanation
Indices: 32121499--32121563 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 27
32121489 TCATGTGACA
**
32121499 ATTAAAATAAAAACATTAAATTTAAAT
1 ATTAAAATAAAAACATTAAATACAAAT
*
32121526 TTTAAAAATAAAAA-ATTATAATAACAAAT
1 ATT-AAAATAAAAACATTA-AAT-ACAAAT
32121555 ATTAAAATA
1 ATTAAAATA
32121564 TTAAAAATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
27 6 0.19
28 19 0.61
29 6 0.19
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (27 bp):
ATTAAAATAAAAACATTAAATACAAAT
Found at i:32121563 original size:15 final size:13
Alignment explanation
Indices: 32121498--32121563 Score: 51
Period size: 14 Copynumber: 4.8 Consensus size: 13
32121488 TTCATGTGAC
32121498 AATTAAAATAAAA
1 AATTAAAATAAAA
* *
32121511 ACATTAAATTTAAA
1 A-ATTAAAATAAAA
**
32121525 TTTTAAAAATAAAA
1 AATT-AAAATAAAA
*
32121539 AATTATAATAACAA
1 AATTAAAATAA-AA
32121553 ATATTAAAATA
1 A-ATTAAAATA
32121564 TTAAAAATAG
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
13 9 0.23
14 22 0.56
15 8 0.21
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (13 bp):
AATTAAAATAAAA
Found at i:32122571 original size:17 final size:16
Alignment explanation
Indices: 32122528--32122572 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
32122518 AAAAAATCAC
*
32122528 ATTTTTTACATTTAAT
1 ATTTTTTAAATTTAAT
32122544 ATTTTTT-AATTTAAT
1 ATTTTTTAAATTTAAT
32122559 ATATTTTTAAATTT
1 AT-TTTTTAAATTT
32122573 TAAAATACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 9 0.35
16 12 0.46
17 5 0.19
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTTTTTAAATTTAAT
Found at i:32122674 original size:282 final size:281
Alignment explanation
Indices: 32122319--32122838 Score: 794
Period size: 282 Copynumber: 1.8 Consensus size: 281
32122309 CCTAAATAGT
* * *
32122319 AATAATTTAATTTATATACTATTTATATTATTAAATTAAATTTCATAATCTGTACTATTTATATT
1 AATAATTTAATTTATATACAATTTATATTATTAAATTAAATTTAACAATCTGTACTATTTATATT
* *
32122384 ATTGAATTGTTTAATTATATT-AGATCTTTAAAAATTTATGTTAAAATTGAATTATTGATGATGC
66 AATGAATTGTTTAATCATATTGA-ATCTTTAAAAATTTATGTTAAAATTGAATTATTGATGATGC
* * *
32122448 TATAAAATATTCATGTCAAAATTTTATATTGGTATCAATTTCATATTTTATTTTTAAAATAAATT
130 CATAAAATATTCATGTCAAAATTTTA-ATTGGTATCAATTTCACATTTTATCTTTAAAATAAATT
32122513 TTATCAAAAAATCACATTTTTTACATTT-A-ATATTTTTTAATTTAATATATTTTTAAATTTTAA
194 TTATCAAAAAATCACATTTTTTACATTTAATATATTTTTTAATTTAATATATTTTTAAATTTTAA
32122576 AATACATAGTGAGAAGAATAAAA
259 AATACATAGTGAGAAGAATAAAA
* * *
32122599 AATAATTTTATTTATATATACAATTTATATTATTAAATTAAATTTAACATTTTGTACTATTTATA
1 AATAA-TTTAATT-TATATACAATTTATATTATTAAATTAAATTTAACAATCTGTACTATTTATA
* *
32122664 TTAATGAATTGTTTAATCATATTGAATCTTTATAAATTTATGTTAAGATTGAATTATTGATGATG
64 TTAATGAATTGTTTAATCATATTGAATCTTTAAAAATTTATGTTAAAATTGAATTATTGATGATG
* ** * *
32122729 CCATAAATTATTTGTGTTAAAATTTTAGTTGGTATCAATTTCACATTTTATCTTTAAAATAAATT
129 CCATAAAATATTCATGTCAAAATTTTAATTGGTATCAATTTCACATTTTATCTTTAAAATAAATT
* * *
32122794 TTATTAAAAAATTATATTTTTTACATTTAATATATTTTTTAATTT
194 TTATCAAAAAATCACATTTTTTACATTTAATATATTTTTTAATTT
32122839 TAAAATACAT
Statistics
Matches: 214, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
280 5 0.02
281 66 0.31
282 128 0.60
283 15 0.07
ACGTcount: A:0.39, C:0.05, G:0.06, T:0.49
Consensus pattern (281 bp):
AATAATTTAATTTATATACAATTTATATTATTAAATTAAATTTAACAATCTGTACTATTTATATT
AATGAATTGTTTAATCATATTGAATCTTTAAAAATTTATGTTAAAATTGAATTATTGATGATGCC
ATAAAATATTCATGTCAAAATTTTAATTGGTATCAATTTCACATTTTATCTTTAAAATAAATTTT
ATCAAAAAATCACATTTTTTACATTTAATATATTTTTTAATTTAATATATTTTTAAATTTTAAAA
TACATAGTGAGAAGAATAAAA
Found at i:32133643 original size:44 final size:45
Alignment explanation
Indices: 32133590--32133694 Score: 122
Period size: 44 Copynumber: 2.3 Consensus size: 45
32133580 CATGTCTTTG
* * *
32133590 ATATGGACTTACATGAATTATTCATGTCTCCAATGCCATA-TATA
1 ATATGGACTTACATGAATCAATCATGTCTCCAAAGCCATATTATA
** * * *
32133634 ATATGGACTTACATGGCTCAATCCTGTCTCTAAAGCCATATTTCTA
1 ATATGGACTTACATGAATCAATCATGTCTCCAAAGCCATA-TTATA
32133680 ATATGGACTTACATG
1 ATATGGACTTACATG
32133695 GCTCATTTCT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 33 0.65
46 18 0.35
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.35
Consensus pattern (45 bp):
ATATGGACTTACATGAATCAATCATGTCTCCAAAGCCATATTATA
Found at i:32136458 original size:25 final size:25
Alignment explanation
Indices: 32136410--32136458 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
32136400 CATAATTAAA
* * *
32136410 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
32136435 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
32136459 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:32143833 original size:15 final size:15
Alignment explanation
Indices: 32143797--32143825 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
32143787 GAGAAACCTC
32143797 TGACTGATATATTTT
1 TGACTGATATATTTT
32143812 TGACTGATATATTT
1 TGACTGATATATTT
32143826 CTTTCTGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.07, G:0.14, T:0.52
Consensus pattern (15 bp):
TGACTGATATATTTT
Found at i:32144658 original size:22 final size:23
Alignment explanation
Indices: 32144632--32144677 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
32144622 CAACCAAACC
32144632 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
32144654 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
32144677 A
1 A
32144678 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:32144683 original size:23 final size:23
Alignment explanation
Indices: 32144639--32144683 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
32144629 ACCAATTCAA
*
32144639 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
32144662 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
32144684 CACATACCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:32145094 original size:24 final size:24
Alignment explanation
Indices: 32145062--32145120 Score: 118
Period size: 24 Copynumber: 2.5 Consensus size: 24
32145052 CCAATAATAT
32145062 ATACCATGATTGATGAGCTCATCA
1 ATACCATGATTGATGAGCTCATCA
32145086 ATACCATGATTGATGAGCTCATCA
1 ATACCATGATTGATGAGCTCATCA
32145110 ATACCATGATT
1 ATACCATGATT
32145121 TCCATTTCCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (24 bp):
ATACCATGATTGATGAGCTCATCA
Found at i:32145967 original size:61 final size:61
Alignment explanation
Indices: 32145872--32145997 Score: 243
Period size: 61 Copynumber: 2.1 Consensus size: 61
32145862 CTAAATTATT
*
32145872 TATAACTCAAGATACGGAACTTCAAATTAATATCCGTTAATTTTACCTGAAACTAGACTCA
1 TATAACTCAAGATACGGAACTCCAAATTAATATCCGTTAATTTTACCTGAAACTAGACTCA
32145933 TATAACTCAAGATACGGAACTCCAAATTAATATCCGTTAATTTTACCTGAAACTAGACTCA
1 TATAACTCAAGATACGGAACTCCAAATTAATATCCGTTAATTTTACCTGAAACTAGACTCA
32145994 TATA
1 TATA
32145998 TCTTCTTACC
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.31
Consensus pattern (61 bp):
TATAACTCAAGATACGGAACTCCAAATTAATATCCGTTAATTTTACCTGAAACTAGACTCA
Found at i:32148941 original size:92 final size:92
Alignment explanation
Indices: 32148784--32148968 Score: 352
Period size: 92 Copynumber: 2.0 Consensus size: 92
32148774 AGTGGAAGAC
32148784 TAAGTTTAGAAATGCATAGCATAATTTATTATTCGAATGTATAAGAATCTAGCATGAAAGTATTA
1 TAAGTTTAGAAATGCATAGCATAATTTATTATTCGAATGTATAAGAATCTAGCATGAAAGTATTA
*
32148849 GATTGTCGTGACCTGCCCCTACATATT
66 GATTGCCGTGACCTGCCCCTACATATT
32148876 TAAGTTTAGAAATGCATAGCATAATTTATTATTCGAATGTATAAGAATCTAGCATGAAAGTATTA
1 TAAGTTTAGAAATGCATAGCATAATTTATTATTCGAATGTATAAGAATCTAGCATGAAAGTATTA
*
32148941 GATTGCCGTGACTTGCCCCTACATATT
66 GATTGCCGTGACCTGCCCCTACATATT
32148968 T
1 T
32148969 TAATGTTATT
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 91 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (92 bp):
TAAGTTTAGAAATGCATAGCATAATTTATTATTCGAATGTATAAGAATCTAGCATGAAAGTATTA
GATTGCCGTGACCTGCCCCTACATATT
Found at i:32155098 original size:21 final size:22
Alignment explanation
Indices: 32155065--32155119 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
32155055 ACGACCTCCA
* * *
32155065 ACACAGGCGTGTCCCAAGG-TC
1 ACACGGGCATGTCCCAAGGACC
**
32155086 ACACGGGCATGTCCCTTGGACC
1 ACACGGGCATGTCCCAAGGACC
32155108 ACACGGGCATGT
1 ACACGGGCATGT
32155120 GAGCCTTGCA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 15 0.54
22 13 0.46
ACGTcount: A:0.22, C:0.33, G:0.29, T:0.16
Consensus pattern (22 bp):
ACACGGGCATGTCCCAAGGACC
Found at i:32156673 original size:20 final size:21
Alignment explanation
Indices: 32156645--32156684 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
32156635 ATGTATTCAA
* *
32156645 AAAATTTTAGAATTTTTCATC
1 AAAATTTTACAACTTTTCATC
32156666 AAAA-TTTACAACTTTTCAT
1 AAAATTTTACAACTTTTCAT
32156685 TTTAGCCCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.40, C:0.12, G:0.03, T:0.45
Consensus pattern (21 bp):
AAAATTTTACAACTTTTCATC
Found at i:32164927 original size:40 final size:40
Alignment explanation
Indices: 32164881--32164961 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
32164871 TATTATTTAT
*
32164881 AAAATGATTGATTTTCGGTAATTCTTCAAGTTGGGACACA
1 AAAATGATTGAATTTCGGTAATTCTTCAAGTTGGGACACA
32164921 AAAATGATTGAATTTCGGTAATTCTTCAAGTTGGGACACA
1 AAAATGATTGAATTTCGGTAATTCTTCAAGTTGGGACACA
32164961 A
1 A
32164962 TTGAAGATTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (40 bp):
AAAATGATTGAATTTCGGTAATTCTTCAAGTTGGGACACA
Found at i:32167932 original size:48 final size:47
Alignment explanation
Indices: 32167863--32167958 Score: 122
Period size: 48 Copynumber: 2.0 Consensus size: 47
32167853 CTATGTGTTC
* * *
32167863 TTTTAAATTGTTATATATATTATTTATTTTAAGATTGCATTATTCTAT
1 TTTTAAATTCTTATATATATTAATTATTTT-AGATTGCATTATACTAT
* *
32167911 TTTTAAATTACTT-TATGTATTAATTATTTTAGATTGTATTATACTAT
1 TTTTAAATT-CTTATATATATTAATTATTTTAGATTGCATTATACTAT
32167958 T
1 T
32167959 CACTTTATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
47 16 0.38
48 24 0.57
49 2 0.05
ACGTcount: A:0.31, C:0.04, G:0.06, T:0.58
Consensus pattern (47 bp):
TTTTAAATTCTTATATATATTAATTATTTTAGATTGCATTATACTAT
Found at i:32168362 original size:22 final size:21
Alignment explanation
Indices: 32168323--32168363 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
32168313 TCCATGATAT
* *
32168323 AAATATAAAAAAATTTTATTA
1 AAATAAAAAAAAAATTTATTA
32168344 AAATAAAAATAAAAATTTAT
1 AAATAAAAA-AAAAATTTAT
32168364 AATCAAAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
AAATAAAAAAAAAATTTATTA
Found at i:32168371 original size:25 final size:23
Alignment explanation
Indices: 32168331--32168381 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 23
32168321 ATAAATATAA
*
32168331 AAAAATTTTATTAAAA-TAAAAAT
1 AAAAATTTTATCAAAACT-AAAAT
32168354 AAAAATTTATAATCAAAACTAAAAT
1 AAAAATTT-T-ATCAAAACTAAAAT
32168379 AAA
1 AAA
32168382 TAATAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 8 0.33
24 1 0.04
25 14 0.58
26 1 0.04
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (23 bp):
AAAAATTTTATCAAAACTAAAAT
Found at i:32169232 original size:20 final size:20
Alignment explanation
Indices: 32169188--32169239 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
32169178 TTTTTACTTC
*
32169188 TAAATTCAACAATTCGACTCA
1 TAAATTCAAC-ATTCCACTCA
* *
32169209 TAAATTCAACATTCCTCTCT
1 TAAATTCAACATTCCACTCA
32169229 TAAATT-AACAT
1 TAAATTCAACAT
32169240 AAATTCCAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 5 0.18
20 13 0.46
21 10 0.36
ACGTcount: A:0.40, C:0.23, G:0.02, T:0.35
Consensus pattern (20 bp):
TAAATTCAACATTCCACTCA
Found at i:32170339 original size:22 final size:22
Alignment explanation
Indices: 32170314--32170358 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
32170304 TTTAATAAAG
32170314 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
32170336 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
32170358 A
1 A
32170359 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:32173991 original size:33 final size:33
Alignment explanation
Indices: 32173949--32174034 Score: 156
Period size: 33 Copynumber: 2.6 Consensus size: 33
32173939 TACCATGTAG
32173949 AAATCAGAGTATTTTTTATACTAAATAGAACAT
1 AAATCAGAGTATTTTTTATACTAAATAGAACAT
32173982 AAATCAGAGTATTTTTTATACTAAATAGAACAT
1 AAATCAGAGTATTTTTTATACTAAATAGAACAT
*
32174015 AAATCAGAGT-TTTTATATAC
1 AAATCAGAGTATTTTTTATAC
32174035 AATCTATGAC
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 9 0.17
33 43 0.83
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.37
Consensus pattern (33 bp):
AAATCAGAGTATTTTTTATACTAAATAGAACAT
Found at i:32174148 original size:22 final size:22
Alignment explanation
Indices: 32174123--32174167 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
32174113 TTTAATAAAG
32174123 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
32174145 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
32174167 A
1 A
32174168 CACTAACCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:32178168 original size:8 final size:8
Alignment explanation
Indices: 32178157--32178200 Score: 72
Period size: 8 Copynumber: 5.6 Consensus size: 8
32178147 AATATTAAAA
32178157 TTTTAAGT
1 TTTTAAGT
32178165 TTTTAAGT
1 TTTTAAGT
32178173 TTTTAAGT
1 TTTTAAGT
32178181 TTTTAA-T
1 TTTTAAGT
*
32178188 TTTTAATT
1 TTTTAAGT
32178196 TTTTA
1 TTTTA
32178201 TTTTTCAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.20
8 28 0.80
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (8 bp):
TTTTAAGT
Found at i:32178203 original size:7 final size:7
Alignment explanation
Indices: 32178157--32178255 Score: 99
Period size: 7 Copynumber: 13.6 Consensus size: 7
32178147 AATATTAAAA
32178157 TTTTAAGT
1 TTTTAA-T
32178165 TTTTAAGT
1 TTTTAA-T
32178173 TTTTAAGT
1 TTTTAA-T
32178181 TTTTAAT
1 TTTTAAT
32178188 TTTTAAT
1 TTTTAAT
*
32178195 TTTTTAT
1 TTTTAAT
32178202 TTTTCAAT
1 TTTT-AAT
*
32178210 TTTCAAT
1 TTTTAAT
*
32178217 TTTCAAT
1 TTTTAAT
*
32178224 TTTCAAT
1 TTTTAAT
*
32178231 TTTCAAT
1 TTTTAAT
*
32178238 TTTCAAT
1 TTTTAAT
*
32178245 TTTCAAT
1 TTTTAAT
32178252 TTTT
1 TTTT
32178256 TTAAAGACTT
Statistics
Matches: 86, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
7 59 0.69
8 27 0.31
ACGTcount: A:0.25, C:0.07, G:0.03, T:0.65
Consensus pattern (7 bp):
TTTTAAT
Found at i:32178205 original size:8 final size:8
Alignment explanation
Indices: 32178157--32178212 Score: 62
Period size: 8 Copynumber: 7.2 Consensus size: 8
32178147 AATATTAAAA
*
32178157 TTTTAAGT
1 TTTTAATT
*
32178165 TTTTAAGT
1 TTTTAATT
*
32178173 TTTTAAGT
1 TTTTAATT
32178181 TTTTAA-T
1 TTTTAATT
32178188 TTTTAATT
1 TTTTAATT
32178196 TTTT-ATT
1 TTTTAATT
*
32178203 TTTCAATT
1 TTTTAATT
32178211 TT
1 TT
32178213 CAATTTTCAA
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
7 13 0.29
8 32 0.71
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.70
Consensus pattern (8 bp):
TTTTAATT
Found at i:32179135 original size:20 final size:20
Alignment explanation
Indices: 32179112--32179149 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
32179102 TTATATTTCA
32179112 TTTTTATTTA-TTATCAATG
1 TTTTTATTTATTTATCAATG
32179131 TTTTTATTTATTTATCAAT
1 TTTTTATTTATTTATCAAT
32179150 ATATTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (20 bp):
TTTTTATTTATTTATCAATG
Found at i:32179957 original size:41 final size:41
Alignment explanation
Indices: 32179894--32180002 Score: 148
Period size: 41 Copynumber: 2.7 Consensus size: 41
32179884 GTTATATGAC
*
32179894 TTTTAGCGGCG-TTTTACTAAAAACGCCACTATTGTTCTGTT
1 TTTTAGCGGCGCTTTTAC-AAAAACGCCACTATTGCTCTGTT
* * **
32179935 TTTTAGCGGCGCTTTGACAAAAATGCTGCTATTGCTCTGTT
1 TTTTAGCGGCGCTTTTACAAAAACGCCACTATTGCTCTGTT
*
32179976 TTTTAGCGGCGCTTTTCCAAAAACGCC
1 TTTTAGCGGCGCTTTTACAAAAACGCC
32180003 GCTAATATAT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
41 53 0.91
42 5 0.09
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.38
Consensus pattern (41 bp):
TTTTAGCGGCGCTTTTACAAAAACGCCACTATTGCTCTGTT
Found at i:32180049 original size:12 final size:12
Alignment explanation
Indices: 32180034--32180059 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32180024 CGTTTTTCAT
32180034 AAAACGCCGCTA
1 AAAACGCCGCTA
32180046 AAAACGCCGCTA
1 AAAACGCCGCTA
32180058 AA
1 AA
32180060 GCCCTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:32180919 original size:18 final size:17
Alignment explanation
Indices: 32180888--32180923 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
32180878 GACCAATGTC
32180888 AAATTTTTAGTAAAACA
1 AAATTTTTAGTAAAACA
*
32180905 AAATATTTTATTAAAACA
1 AAAT-TTTTAGTAAAACA
32180923 A
1 A
32180924 TCAAATTACG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.36
Consensus pattern (17 bp):
AAATTTTTAGTAAAACA
Found at i:32181556 original size:15 final size:16
Alignment explanation
Indices: 32181536--32181569 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
32181526 TTTTATATCT
32181536 TATTATATA-ATAATA
1 TATTATATACATAATA
32181551 TATTATATATCATAATA
1 TATTATATA-CATAATA
32181568 TA
1 TA
32181570 AAAAATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
TATTATATACATAATA
Found at i:32181649 original size:23 final size:23
Alignment explanation
Indices: 32181597--32181642 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
32181587 TCAAAATTTA
*
32181597 AAAAAAAACTTCACCAATAAGGT
1 AAAAAAAACTTCACCAATAAAGT
32181620 AAAAAAAAC-TCTACCAATAAAGT
1 AAAAAAAACTTC-ACCAATAAAGT
32181643 TGAAAAATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 2 0.10
23 19 0.90
ACGTcount: A:0.59, C:0.17, G:0.07, T:0.17
Consensus pattern (23 bp):
AAAAAAAACTTCACCAATAAAGT
Found at i:32183381 original size:51 final size:50
Alignment explanation
Indices: 32183260--32183396 Score: 125
Period size: 51 Copynumber: 2.7 Consensus size: 50
32183250 TCAAACTATT
32183260 TTATTTATTATTT-AATTAATTAGAGATAAAATAATAATTTAATATTATCAC
1 TTATTTA--ATTTAAATTAATTAGAGATAAAATAATAATTTAATATTATCAC
* * ** * * * *
32183311 TTAATTATTTTATTTTTAATTAGTGTTAATAT-ATAATTTTAATACTTATCTC
1 TTATTTAATTTA-AATTAATTAGAGATAAAATAATAA-TTTAATA-TTATCAC
* *
32183363 TTATTTAATTTAAATTAATTAGAAAAAAAATAAT
1 TTATTTAATTTAAATTAATTAGAGATAAAATAAT
32183397 TACGACACAT
Statistics
Matches: 64, Mismatches: 17, Indels: 9
0.71 0.19 0.10
Matches are distributed among these distances:
49 3 0.05
50 4 0.06
51 39 0.61
52 18 0.28
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.50
Consensus pattern (50 bp):
TTATTTAATTTAAATTAATTAGAGATAAAATAATAATTTAATATTATCAC
Found at i:32183927 original size:23 final size:24
Alignment explanation
Indices: 32183894--32183950 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
32183884 CACTACCTAT
* *
32183894 AAAGAAAAAAATGC-AAA-AATAGC
1 AAAGAACAAAA-GCAAAATAATAGA
32183917 AAAGAACAAAAGCAAAATAATAGA
1 AAAGAACAAAAGCAAAATAATAGA
32183941 AAAG-ACAAAA
1 AAAGAACAAAA
32183951 AAAAAGGATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 2 0.07
23 19 0.63
24 9 0.30
ACGTcount: A:0.72, C:0.09, G:0.12, T:0.07
Consensus pattern (24 bp):
AAAGAACAAAAGCAAAATAATAGA
Found at i:32183951 original size:24 final size:22
Alignment explanation
Indices: 32183894--32183951 Score: 55
Period size: 24 Copynumber: 2.5 Consensus size: 22
32183884 CACTACCTAT
*
32183894 AAAGAAAAAAATGCAAAAATAGC
1 AAAG-AAAAAATGCAAAAATAGA
32183917 AAAGAACAAAA-GCAAAATAATAGA
1 AAAGAA-AAAATGC-AAA-AATAGA
32183941 AAAGACAAAAA
1 AAAGA-AAAAA
32183952 AAAAGGATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
22 4 0.13
23 11 0.37
24 14 0.47
25 1 0.03
ACGTcount: A:0.72, C:0.09, G:0.12, T:0.07
Consensus pattern (22 bp):
AAAGAAAAAATGCAAAAATAGA
Found at i:32184962 original size:34 final size:34
Alignment explanation
Indices: 32184924--32185088 Score: 276
Period size: 34 Copynumber: 4.9 Consensus size: 34
32184914 AAATATGCAG
*
32184924 TAGGGCCTTAGCCCATCATAGTATCAGTACGCAT
1 TAGGGCCTTAGCCCATCACAGTATCAGTACGCAT
*
32184958 TAGGGCCTTAGCCCATCATAGTATCAGTACGCAT
1 TAGGGCCTTAGCCCATCACAGTATCAGTACGCAT
* *
32184992 TAGGGTCTTAGCCCATCACAGTATTAGTACGCAT
1 TAGGGCCTTAGCCCATCACAGTATCAGTACGCAT
* *
32185026 TAGGGTCTTAGCCCACCACAGTATCAGTACGCAT
1 TAGGGCCTTAGCCCATCACAGTATCAGTACGCAT
32185060 TAGGGCCTTAGCCCATCACAGTATCAGTA
1 TAGGGCCTTAGCCCATCACAGTATCAGTA
32185089 GCAGTCATGC
Statistics
Matches: 124, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 124 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (34 bp):
TAGGGCCTTAGCCCATCACAGTATCAGTACGCAT
Found at i:32187308 original size:60 final size:60
Alignment explanation
Indices: 32187215--32187337 Score: 194
Period size: 60 Copynumber: 2.0 Consensus size: 60
32187205 TGTCCTAGGT
* *
32187215 TTTGGGATATTTTCCCATTTATCCCCTGTTATTTTTCACATATTATATTTTAGTACTTTA
1 TTTGGGATATTCTCCCATTTAGCCCCTGTTATTTTTCACATATTATATTTTAGTACTTTA
* *
32187275 TTTGGGAATATTCT-CCATTTAGCCCCTGTTATTTTTCACATGTTATATTTTAGTCCTTTA
1 TTTGGG-ATATTCTCCCATTTAGCCCCTGTTATTTTTCACATATTATATTTTAGTACTTTA
32187335 TTT
1 TTT
32187338 ACTTTTTTAT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
60 52 0.90
61 6 0.10
ACGTcount: A:0.20, C:0.17, G:0.10, T:0.53
Consensus pattern (60 bp):
TTTGGGATATTCTCCCATTTAGCCCCTGTTATTTTTCACATATTATATTTTAGTACTTTA
Found at i:32187518 original size:3 final size:3
Alignment explanation
Indices: 32187510--32187552 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
32187500 TTTTTCACCC
* *
32187510 TTA TTA TTA TTG TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
32187553 GATAGTAACT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:32190866 original size:21 final size:21
Alignment explanation
Indices: 32190827--32190866 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
32190817 AATCCTAAAT
* * *
32190827 AAGATTGAAGAGTTGAAGGGA
1 AAGATAGAAGAGCTCAAGGGA
32190848 AAGATAGAAGAGCTCAAGG
1 AAGATAGAAGAGCTCAAGG
32190867 CCGCACTGCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.05, G:0.35, T:0.15
Consensus pattern (21 bp):
AAGATAGAAGAGCTCAAGGGA
Found at i:32192931 original size:42 final size:43
Alignment explanation
Indices: 32192885--32192980 Score: 117
Period size: 43 Copynumber: 2.3 Consensus size: 43
32192875 AGACCATGCA
32192885 TGGGACATCGGCATCG-TATCTG-ATTTCATGTAAGACC-CTGTC
1 TGGGACATCGGCATCGATAT-TGAATTTCATGTAAGACCAC-GTC
** *
32192927 TGGGACAGAGGTATCGATATTGAATTTCATGTAAGACCACGTC
1 TGGGACATCGGCATCGATATTGAATTTCATGTAAGACCACGTC
*
32192970 TGGGACGTCGG
1 TGGGACATCGG
32192981 TATTGTACTT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
42 15 0.33
43 29 0.64
44 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (43 bp):
TGGGACATCGGCATCGATATTGAATTTCATGTAAGACCACGTC
Found at i:32196703 original size:10 final size:10
Alignment explanation
Indices: 32196675--32196704 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
32196665 TAATTTTAGC
*
32196675 ATTTATCTCT
1 ATTTATCTTT
32196685 ATTTATCTTT
1 ATTTATCTTT
32196695 ATTTATCTTT
1 ATTTATCTTT
32196705 TAGAATTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.20, C:0.13, G:0.00, T:0.67
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:32205493 original size:44 final size:44
Alignment explanation
Indices: 32205424--32205879 Score: 472
Period size: 44 Copynumber: 10.4 Consensus size: 44
32205414 AGTCCTATAC
* *
32205424 CCCTGAAGTTGCAGT-GAGTCGGATTAAAGCTGCAAATCTTATCT
1 CCCTGAAGTTGCAGTGGAG-CAGATTAAAGCTACAAATCTTATCT
* * * * *
32205468 CTCTGAAGTTGTAGTGGAGCAGATTAAAACCACAAATCTAATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCT
* * * * *
32205512 CCCTGAAGTTGTAGTGGAACAGATTGAAGTTACAAATTTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCT
* * *
32205556 CCCTGAAGTTTCAGTGGAGCAGATTAAAG---CGAACCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCT
* *** *
32205597 CCCTGAAATTTTTTGTGGAGCAGATTAAAGCTACTAATCTTATCT
1 CCCTG-AAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCT
** * *
32205642 CATTGAAGTTGCAGTGGAGCAGATTAAAGCTACTAATCTTATTT
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCT
* * * * *
32205686 CCTTGAAGTTGTAGTGGAGCAGGTTAAAGCCACAAATCTAATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCT
* * * *
32205730 CCCTGAAGTTGCAGCGGAGCAGATTGAAGTTGCAAATCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCT
* *
32205774 CCTTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCT
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCT
* * * * *
32205818 CCATGAAGTTGCAGTGGAGCAGATTGAAGCGATAAATCCTATAC-
1 CCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTAT-CT
**
32205862 CTTTGAAGTTGCAGTGGA
1 CCCTGAAGTTGCAGTGGA
32205880 TTAGAATGAA
Statistics
Matches: 346, Mismatches: 60, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
41 14 0.04
42 21 0.06
44 294 0.85
45 17 0.05
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (44 bp):
CCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCT
Found at i:32206087 original size:17 final size:17
Alignment explanation
Indices: 32206034--32206087 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
32206024 TGTCTGACCC
*
32206034 AAAACTAAA-AATAAATA
1 AAAAATAAATAAT-AATA
* * *
32206051 AAAAATATATAAAAACA
1 AAAAATAAATAATAATA
32206068 AAAAATAAATAATAATA
1 AAAAATAAATAATAATA
32206085 AAA
1 AAA
32206088 CCCAAGTCCA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
17 27 0.93
18 2 0.07
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.19
Consensus pattern (17 bp):
AAAAATAAATAATAATA
Found at i:32207028 original size:13 final size:14
Alignment explanation
Indices: 32207007--32207035 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
32206997 TGAAAAATGA
32207007 ATTAGAAAATATTT
1 ATTAGAAAATATTT
32207021 ATTA-AAAATATTT
1 ATTAGAAAATATTT
32207034 AT
1 AT
32207036 GAAGTTAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
ATTAGAAAATATTT
Found at i:32207598 original size:31 final size:32
Alignment explanation
Indices: 32207549--32207612 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 32
32207539 ATATTAAATA
*
32207549 AGATATTTATTAATTAAATA-ATTATATTATG
1 AGATATTTATTAATTAAATATATTAAATTATG
*
32207580 AGATTTTTATGTAA-TAAATATATTAAATTATG
1 AGATATTTAT-TAATTAAATATATTAAATTATG
32207612 A
1 A
32207613 CAAATGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 15 0.52
32 14 0.48
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (32 bp):
AGATATTTATTAATTAAATATATTAAATTATG
Found at i:32208563 original size:15 final size:15
Alignment explanation
Indices: 32208540--32208583 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
32208530 TATCAAATTT
32208540 ATATTGATTGAAATC
1 ATATTGATTGAAATC
* * *
32208555 ATTTTGATTGAATTT
1 ATATTGATTGAAATC
32208570 ATATTGATTGAAAT
1 ATATTGATTGAAAT
32208584 TTAATATATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (15 bp):
ATATTGATTGAAATC
Found at i:32208982 original size:23 final size:23
Alignment explanation
Indices: 32208954--32209011 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
32208944 TAATATTCCG
32208954 GGTGTGTTTGGGTTGGATATTCT
1 GGTGTGTTTGGGTTGGATATTCT
32208977 GGTGTGTTTGGGTTGGATATTCT
1 GGTGTGTTTGGGTTGGATATTCT
*
32209000 GGTGTGCTTGGG
1 GGTGTGTTTGGG
32209012 AGGAATCCTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.07, C:0.05, G:0.43, T:0.45
Consensus pattern (23 bp):
GGTGTGTTTGGGTTGGATATTCT
Found at i:32209137 original size:18 final size:19
Alignment explanation
Indices: 32209116--32209156 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
32209106 AATGAAATGA
32209116 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
32209134 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
32209153 GAAA
1 GAAA
32209157 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:32215420 original size:30 final size:30
Alignment explanation
Indices: 32215384--32215442 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
32215374 CAAAAGAAAA
32215384 TTGTTTAGGAAATTATAAGGTAGAAATTTT
1 TTGTTTAGGAAATTATAAGGTAGAAATTTT
32215414 TTGTTTAGGAAATTATAAGGTAGAAATTT
1 TTGTTTAGGAAATTATAAGGTAGAAATTT
32215443 ATTTAAAATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.42
Consensus pattern (30 bp):
TTGTTTAGGAAATTATAAGGTAGAAATTTT
Found at i:32218020 original size:22 final size:22
Alignment explanation
Indices: 32217992--32218033 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
32217982 CAGCTGGATA
*
32217992 GATTTTTATAAT-TTTTATTTTT
1 GATTTTT-TAATAATTTATTTTT
32218014 GATTTTTTAATAATTTATTT
1 GATTTTTTAATAATTTATTT
32218034 GCTTTAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (22 bp):
GATTTTTTAATAATTTATTTTT
Found at i:32218343 original size:6 final size:6
Alignment explanation
Indices: 32218332--32218356 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
32218322 ATTTTGTAAA
32218332 AAAATT AAAATT AAAATT AAAATT A
1 AAAATT AAAATT AAAATT AAAATT A
32218357 TTTATGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAAATT
Found at i:32222124 original size:10 final size:9
Alignment explanation
Indices: 32222109--32222164 Score: 58
Period size: 10 Copynumber: 5.7 Consensus size: 9
32222099 AAATTTTAGG
32222109 ATTTATTTT
1 ATTTATTTT
32222118 CATTTATCTTT
1 -ATTTAT-TTT
32222129 ATTTATTTTT
1 ATTTA-TTTT
*
32222139 AATTATCTTT
1 ATTTAT-TTT
32222149 ATTTATTTGT
1 ATTTATTT-T
32222159 ATTTAT
1 ATTTAT
32222165 CTTTTAGAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
9 3 0.08
10 33 0.82
11 4 0.10
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (9 bp):
ATTTATTTT
Found at i:32222132 original size:20 final size:19
Alignment explanation
Indices: 32222109--32222168 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 19
32222099 AAATTTTAGG
32222109 ATTTATTTTCATTTATCTTT
1 ATTTATTTT-ATTTATCTTT
*
32222129 ATTTATTTTTAATTATCTTT
1 ATTTA-TTTTATTTATCTTT
32222149 ATTTATTTGTATTTATCTTT
1 ATTTATTT-TATTTATCTTT
32222169 TAGAATTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
19 3 0.08
20 29 0.81
21 4 0.11
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.70
Consensus pattern (19 bp):
ATTTATTTTATTTATCTTT
Found at i:32222153 original size:30 final size:31
Alignment explanation
Indices: 32222111--32222170 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
32222101 ATTTTAGGAT
32222111 TTATTTTCATTTATCTT-TATTTAT-TTTTAA
1 TTATTTTCATTTAT-TTGTATTTATCTTTTAA
32222141 TTATCTTT-ATTTATTTGTATTTATCTTTTA
1 TTAT-TTTCATTTATTTGTATTTATCTTTTA
32222171 GAATTTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 2 0.07
30 17 0.63
31 8 0.30
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.70
Consensus pattern (31 bp):
TTATTTTCATTTATTTGTATTTATCTTTTAA
Found at i:32223096 original size:12 final size:12
Alignment explanation
Indices: 32223079--32223111 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
32223069 CTACTTCCCA
*
32223079 TTTACTATTATT
1 TTTACTATTAAT
32223091 TTTACTATTAAT
1 TTTACTATTAAT
32223103 TTTACTATT
1 TTTACTATT
32223112 TTACAGGGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (12 bp):
TTTACTATTAAT
Found at i:32229423 original size:16 final size:16
Alignment explanation
Indices: 32229404--32229435 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
32229394 ATTTATATAT
32229404 ATACACATTTGTCAAC
1 ATACACATTTGTCAAC
32229420 ATACACATTTGTCAAC
1 ATACACATTTGTCAAC
32229436 TTTAAATGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (16 bp):
ATACACATTTGTCAAC
Found at i:32230184 original size:131 final size:128
Alignment explanation
Indices: 32229949--32230278 Score: 459
Period size: 131 Copynumber: 2.5 Consensus size: 128
32229939 CTATTCATTC
32229949 AAAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTG
1 AAAAATTC-TTAAAACGAAGGCAATGTTCGATGTTTGGCAATTC-GGGAATCGTGCCCTATCGTG
* * *
32230014 CTGGATTGCAATATCTCGTTTGTCCAAAATAATCGAATATTCCTTTGGAATTTCACTCATGTCTT
64 CTGGGTTGCAATATCTCGTTTGTCCAAAATAATCAAATATTCCTTTAGAATTTCACTCATGT-TT
32230079 T
128 T
* *
32230080 AAAAATTCTTCAAAACGAAGGAAATGTTCGATGTTTAGCAATTCGGAGAATCGTGCCCTATCGTG
1 AAAAATTCTT-AAAACGAAGGCAATGTTCGATGTTTGGCAATTCGG-GAATCGTGCCCTATCGTG
*
32230145 CTGGGTTGCAATTTCTCGTTTG-CTCAAAATAATCAAATATTCCTTTAGAATTTCACTCATGTTT
64 CTGGGTTGCAATATCTCGTTTGTC-CAAAATAATCAAATATTCCTTTAGAATTTCACTCATGTTT
32230209 T
128 T
** * * * * *
32230210 CTAAATTC-TAAAAC-AAGGCAATGCTCAATATTTGGAAATTCAGGGAATCGTGCCCTACCGTGC
1 AAAAATTCTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTC-GGGAATCGTGCCCTATCGTGC
32230273 TGGGTT
65 TGGGTT
32230279 TCGATTTTTC
Statistics
Matches: 180, Mismatches: 15, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
127 45 0.25
128 7 0.04
129 1 0.01
130 14 0.08
131 113 0.63
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (128 bp):
AAAAATTCTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGAATCGTGCCCTATCGTGCT
GGGTTGCAATATCTCGTTTGTCCAAAATAATCAAATATTCCTTTAGAATTTCACTCATGTTTT
Found at i:32232886 original size:53 final size:53
Alignment explanation
Indices: 32232805--32232955 Score: 187
Period size: 53 Copynumber: 2.8 Consensus size: 53
32232795 CTTACACGGT
* * * *
32232805 TCACATATCATACCGAAGTCATATCCCAGAC-ATGGTCTTTTACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
* *
32232860 TCACATTATACCGATGCCATAGCCCAGCTAGGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
32232913 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
32232956 GCGCACTTAT
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
52 1 0.01
53 77 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:32244457 original size:264 final size:265
Alignment explanation
Indices: 32243939--32244716 Score: 946
Period size: 264 Copynumber: 3.0 Consensus size: 265
32243929 CAAAGACGGA
** * * * * *
32243939 AAGCCTTAACCCCCTAAGTAGTAGGGTAACAGGTTAAAGATTGTAGATCTTGTCTCCCTAAACAG
1 AAGCCTTAACCCCCTAAGTAGTAAAGTAACAAGCTGAAGATTGCAGATCTTGTCT-CCTCAA-AG
* * * **** * * * * *
32244004 -T--AGTGGAGCACATCGAAGA-AACAAGCCTTAACCCCATAAGTAGCAGGGTAACAAGTTGAAT
64 TTGCAGTGGAACAGATCAAAGACGGTGAGCCTTGACCCCCTAAGTAGTAGGGTAACAGGTTGAAG
* * * * * * * *
32244065 ATTATAGGTCTTGTC-TCTTCGAAGTTGCAGTGGAACAAATCAAAGACGGTGAGCCTTGACCCTC
129 ATTGTAGATCTTGTCGCCCT-GAAGTTGCAGTGGAACAGATCAAAGACGGTAAGCCTTAACCCCC
* * * *
32244129 TAAGCAGTA-GGTAACAGGTTGAAGATTATAGATCTTGTCTCCCTAAATAGTAGTGGATCAAATC
193 TAAGCAGTAGGGTAACAGGCTGAAAATTATAGATCTTGTCTCCCTAAACAGTAGTGGAGCAAATC
32244193 GAAGAAGC
258 GAAGAAGC
* *
32244201 AAGCCTTAACCCCCTAAGTAGTAAAGTAACAGGCTGAAGATTGCAGA-CTTGTCTCCTCGAAGTT
1 AAGCCTTAACCCCCTAAGTAGTAAAGTAACAAGCTGAAGATTGCAGATCTTGTCTCCTCAAAGTT
* * *
32244265 GCAGTGGAACAGATCAAAGACGGTGATCCTTGACCCTCTAAGTAGTAGGGTAACAGGCTGAAGAT
66 GCAGTGGAACAGATCAAAGACGGTGAGCCTTGACCCCCTAAGTAGTAGGGTAACAGGTTGAAGAT
* *
32244330 TGTAGATCTTGTCGCCCTGAAGTTGCAGTGGAACAGATCAAAAATGGTAAGCCTTAACCCCCTAA
131 TGTAGATCTTGTCGCCCTGAAGTTGCAGTGGAACAGATCAAAGACGGTAAGCCTTAACCCCCTAA
* * * *
32244395 GTAGCAGGGTAACAGGCTGAATATTGTAGATCTTGTCTCCCTAAACAGTAGTGGAGCAAATCGAA
196 GCAGTAGGGTAACAGGCTGAAAATTATAGATCTTGTCTCCCTAAACAGTAGTGGAGCAAATCGAA
32244460 GAAGC
261 GAAGC
* *
32244465 AAGCCTTAACCCCCTAAGTAGTAGAGTAACAAGCTGAAGATTGCAGATCTTGTTTCCTCAAAGTT
1 AAGCCTTAACCCCCTAAGTAGTAAAGTAACAAGCTGAAGATTGCAGATCTTGTCTCCTCAAAGTT
32244530 GCAGTGGAACAGATCAAAGACGGTGAGCCTTGACCCCCTAAGTAGTAGGGTAACAGGTTGAAGAT
66 GCAGTGGAACAGATCAAAGACGGTGAGCCTTGACCCCCTAAGTAGTAGGGTAACAGGTTGAAGAT
** * * * * *
32244595 TGTAGATCTTGTCGCCCT-AAGCAGTAGCGGAGCAGATCGAAGACAGTGAA-CCTTAACCCCCTA
131 TGTAGATCTTGTCGCCCTGAAGTTGCAGTGGAACAGATCAAAGACGGT-AAGCCTTAACCCCCTA
* * * *
32244658 AGCAGTAGGGTAAC-GGCCTGAAAATTACAGATCCTATCTCCCTAAGCAGTAGTGGAGCA
195 AGCAGTAGGGTAACAGG-CTGAAAATTATAGATCTTGTCTCCCTAAACAGTAGTGGAGCA
32244717 GACTGAAGAT
Statistics
Matches: 444, Mismatches: 63, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
259 2 0.00
260 5 0.01
261 7 0.02
262 57 0.13
263 90 0.20
264 186 0.42
265 97 0.22
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (265 bp):
AAGCCTTAACCCCCTAAGTAGTAAAGTAACAAGCTGAAGATTGCAGATCTTGTCTCCTCAAAGTT
GCAGTGGAACAGATCAAAGACGGTGAGCCTTGACCCCCTAAGTAGTAGGGTAACAGGTTGAAGAT
TGTAGATCTTGTCGCCCTGAAGTTGCAGTGGAACAGATCAAAGACGGTAAGCCTTAACCCCCTAA
GCAGTAGGGTAACAGGCTGAAAATTATAGATCTTGTCTCCCTAAACAGTAGTGGAGCAAATCGAA
GAAGC
Found at i:32244615 original size:44 final size:44
Alignment explanation
Indices: 32244119--32244621 Score: 116
Period size: 44 Copynumber: 11.5 Consensus size: 44
32244109 GACGGTGAGC
* * * *
32244119 CTTGACCCTCTAAGCAGTA-GGTAACAGGTTGAAGATTATAGAT
1 CTTGTCCCCCTAAGTAGTAGGGTAACAGGTTGAAGATTGTAGAT
* * * ** * * * *
32244162 CTTGTCTCCCTAAATAGTAGTGG-ATCAAATCGAAGA-AGCA-AGC
1 CTTGTCCCCCTAAGTAGTAG-GGTAACAGGTTGAAGATTGTAGA-T
** ** * *
32244205 CTTAACCCCCTAAGTAGTAAAGTAACAGGCTGAAGATTGCAGA-
1 CTTGTCCCCCTAAGTAGTAGGGTAACAGGTTGAAGATTGTAGAT
* * * * * ** **
32244248 CTTGTCTCCTCGAAGTTGCAGTGG-AACAGATCAAAGACGGT-GAT
1 CTTGTC-CCCCTAAGTAGTAG-GGTAACAGGTTGAAGATTGTAGAT
* * *
32244292 CCTTGACCCTCTAAGTAGTAGGGTAACAGGCTGAAGATTGTAGAT
1 -CTTGTCCCCCTAAGTAGTAGGGTAACAGGTTGAAGATTGTAGAT
* * * * ** * * *
32244337 CTTGTCGCCCTGAAGTTGCAGTGG-AACAGATCAAAAATGGTA-AGC
1 CTTGTCCCCCT-AAGTAGTAG-GGTAACAGGTTGAAGATTGTAGA-T
** * * *
32244382 CTTAACCCCCTAAGTAGCAGGGTAACAGGCTGAATATTGTAGAT
1 CTTGTCCCCCTAAGTAGTAGGGTAACAGGTTGAAGATTGTAGAT
* ** * ** * * * *
32244426 CTTGTCTCCCTAAACAGTAGTGG-AGCAAATCGAAGA-AGCA-AGC
1 CTTGTCCCCCTAAGTAGTAG-GGTAACAGGTTGAAGATTGTAGA-T
** * * * *
32244469 CTTAACCCCCTAAGTAGTAGAGTAACAAGCTGAAGATTGCAGAT
1 CTTGTCCCCCTAAGTAGTAGGGTAACAGGTTGAAGATTGTAGAT
* * * * * * ** ** *
32244513 CTTGTTTCCTCAAAGTTGCAGTGG-AACAGATCAAAGACGGT-GAGC
1 CTTG-TCCCCCTAAGTAGTAG-GGTAACAGGTTGAAGATTGTAGA-T
*
32244558 CTTGACCCCCTAAGTAGTAGGGTAACAGGTTGAAGATTGTAGAT
1 CTTGTCCCCCTAAGTAGTAGGGTAACAGGTTGAAGATTGTAGAT
* *
32244602 CTTGTCGCCCTAAGCAGTAG
1 CTTGTCCCCCTAAGTAGTAG
32244622 CGGAGCAGAT
Statistics
Matches: 301, Mismatches: 132, Indels: 53
0.62 0.27 0.11
Matches are distributed among these distances:
42 4 0.01
43 76 0.25
44 150 0.50
45 68 0.23
46 3 0.01
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (44 bp):
CTTGTCCCCCTAAGTAGTAGGGTAACAGGTTGAAGATTGTAGAT
Found at i:32244666 original size:88 final size:89
Alignment explanation
Indices: 32243897--32244718 Score: 731
Period size: 88 Copynumber: 9.3 Consensus size: 89
32243887 AATTCACAGT
* * *
32243897 TCTTGTCTCCCTGAAGTTGCAGTGGAACTGATCAAAGAC-G-GAAAGCCTTAACCCCCTAAGTAG
1 TCTTGTCTCCCT-AAGTAGTAGTGGAACAGATCAAAGACAGTG-AAGCCTTAACCCCCTAAGTAG
* *
32243960 TAGGGTAACAGGTTAAAGATTGTAGA
64 TAGGGTAACAGGCTGAAGATTGTAGA
** * * * ** * *
32243986 TCTTGTCTCCCTAAACAGTAGTGGAGCACATCGAAGA-A-ACAAGCCTTAACCCCATAAGTAGCA
1 TCTTGTCTCCCTAAGTAGTAGTGGAACAGATCAAAGACAGTGAAGCCTTAACCCCCTAAGTAGTA
* * * * *
32244049 GGGTAACAAGTTGAATATTATAGG
66 GGGTAACAGGCTGAAGATTGTAGA
* * * * * * * * *
32244073 TCTTGTCTCTTCGAAGTTGCAGTGGAACAAATCAAAGACGGTG-AGCCTTGACCCTCTAAGCAGT
1 TCTTGTCTC-CCTAAGTAGTAGTGGAACAGATCAAAGACAGTGAAGCCTTAACCCCCTAAGTAGT
* *
32244137 A-GGTAACAGGTTGAAGATTATAGA
65 AGGGTAACAGGCTGAAGATTGTAGA
* * * * *
32244161 TCTTGTCTCCCTAAATAGTAGTGGATCAAATCGAAGA-AG-CAAGCCTTAACCCCCTAAGTAGTA
1 TCTTGTCTCCCTAAGTAGTAGTGGAACAGATCAAAGACAGTGAAGCCTTAACCCCCTAAGTAGTA
** *
32244224 AAGTAACAGGCTGAAGATTGCAGA
66 GGGTAACAGGCTGAAGATTGTAGA
* * * * * * *
32244248 -CTTGTCTCCTCGAAGTTGCAGTGGAACAGATCAAAGACGGTG-ATCCTTGACCCTCTAAGTAGT
1 TCTTGTCTCC-CTAAGTAGTAGTGGAACAGATCAAAGACAGTGAAGCCTTAACCCCCTAAGTAGT
32244311 AGGGTAACAGGCTGAAGATTGTAGA
65 AGGGTAACAGGCTGAAGATTGTAGA
* * * * ** *
32244336 TCTTGTCGCCCTGAAGTTGCAGTGGAACAGATCAAAAATGGT-AAGCCTTAACCCCCTAAGTAGC
1 TCTTGTCTCCCT-AAGTAGTAGTGGAACAGATCAAAGACAGTGAAGCCTTAACCCCCTAAGTAGT
*
32244400 AGGGTAACAGGCTGAATATTGTAGA
65 AGGGTAACAGGCTGAAGATTGTAGA
** * * * *
32244425 TCTTGTCTCCCTAAACAGTAGTGGAGCAAATCGAAGA-AG-CAAGCCTTAACCCCCTAAGTAGTA
1 TCTTGTCTCCCTAAGTAGTAGTGGAACAGATCAAAGACAGTGAAGCCTTAACCCCCTAAGTAGTA
* * *
32244488 GAGTAACAAGCTGAAGATTGCAGA
66 GGGTAACAGGCTGAAGATTGTAGA
* * * * * *
32244512 TCTTGTTTCCTCAAAGTTGCAGTGGAACAGATCAAAGACGGTG-AGCCTTGACCCCCTAAGTAGT
1 TCTTGTCTCC-CTAAGTAGTAGTGGAACAGATCAAAGACAGTGAAGCCTTAACCCCCTAAGTAGT
*
32244576 AGGGTAACAGGTTGAAGATTGTAGA
65 AGGGTAACAGGCTGAAGATTGTAGA
* * * * * *
32244601 TCTTGTCGCCCTAAGCAGTAGCGGAGCAGATCGAAGACAGTGAA-CCTTAACCCCCTAAGCAGTA
1 TCTTGTCTCCCTAAGTAGTAGTGGAACAGATCAAAGACAGTGAAGCCTTAACCCCCTAAGTAGTA
* **
32244665 GGGTAAC-GGCCTGAAAATTACAGA
66 GGGTAACAGG-CTGAAGATTGTAGA
* * * *
32244689 TCCTATCTCCCTAAGCAGTAGTGGAGCAGA
1 TCTTGTCTCCCTAAGTAGTAGTGGAACAGA
32244719 CTGAAGATTA
Statistics
Matches: 587, Mismatches: 127, Indels: 39
0.78 0.17 0.05
Matches are distributed among these distances:
86 29 0.05
87 163 0.28
88 228 0.39
89 167 0.28
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (89 bp):
TCTTGTCTCCCTAAGTAGTAGTGGAACAGATCAAAGACAGTGAAGCCTTAACCCCCTAAGTAGTA
GGGTAACAGGCTGAAGATTGTAGA
Found at i:32245417 original size:18 final size:16
Alignment explanation
Indices: 32245394--32245439 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 16
32245384 CCACCAAAAT
32245394 ACAAAATAAATATAAA
1 ACAAAATAAATATAAA
*
32245410 ATCTAAAAAAAATATAAA
1 A-C-AAAATAAATATAAA
32245428 ACAAAATAAATA
1 ACAAAATAAATA
32245440 CTGTCCAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 10 0.38
17 2 0.08
18 14 0.54
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.20
Consensus pattern (16 bp):
ACAAAATAAATATAAA
Found at i:32248042 original size:130 final size:127
Alignment explanation
Indices: 32247808--32248120 Score: 450
Period size: 130 Copynumber: 2.4 Consensus size: 127
32247798 CTATTCATTC
32247808 AAAATTCTTTAAAACGAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATCGTGC
1 AAAATTC-TTAAAA-GAAGGCAATGTTCGATGTTTGGCAATTCGGGG-ATCGTGCCCTATCGTGC
* *
32247873 TGGGTTGCAATATCCCGTTTGTCCAAAATAATCGAATATTCCTTTGGAATTTCACTCATGTCTTT
63 TGGGTTGCAATATCCCGTTTGTCCAAAATAATCGAATATTCCTTTAGAATTTCACTCATAT-TTT
32247938 A
127 A
*
32247939 AAAATTCTTCAAAATGAAGGAAATGTTCGATGTTTGGCAATTCGGGGATCGTGCCCTATCGTGCT
1 AAAATTCTT-AAAA-GAAGGCAATGTTCGATGTTTGGCAATTCGGGGATCGTGCCCTATCGTGCT
* *
32248004 GGGTTGCAATTTCCCGTTTG-CTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATATTTTC
64 GGGTTGCAATATCCCGTTTGTC-CAAAATAATCGAATATTCCTTTAGAATTTCACTCATATTTTA
* * * * *
32248068 TAAATTC-TAAAACAAGGCAATGTTCAATGTTTGGAAATTCGGAGAATCGTGCC
1 AAAATTCTTAAAAGAAGGCAATGTTCGATGTTTGGCAATTCGG-GGATCGTGCC
32248121 TTACTGTGCT
Statistics
Matches: 167, Mismatches: 12, Indels: 10
0.88 0.06 0.05
Matches are distributed among these distances:
126 26 0.16
127 13 0.08
128 1 0.01
129 10 0.06
130 75 0.45
131 42 0.25
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.34
Consensus pattern (127 bp):
AAAATTCTTAAAAGAAGGCAATGTTCGATGTTTGGCAATTCGGGGATCGTGCCCTATCGTGCTGG
GTTGCAATATCCCGTTTGTCCAAAATAATCGAATATTCCTTTAGAATTTCACTCATATTTTA
Found at i:32253109 original size:22 final size:22
Alignment explanation
Indices: 32253084--32253126 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
32253074 TTTAGATTTG
**
32253084 GATTTTTGTTGATTCAAATATA
1 GATTTTTACTGATTCAAATATA
32253106 GATTTTTACTGATTCAAATAT
1 GATTTTTACTGATTCAAATAT
32253127 CCGACATATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.49
Consensus pattern (22 bp):
GATTTTTACTGATTCAAATATA
Found at i:32253477 original size:11 final size:11
Alignment explanation
Indices: 32253461--32253489 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
32253451 TTACTCGAAG
32253461 AATTTACAGAT
1 AATTTACAGAT
32253472 AATTTACAGAT
1 AATTTACAGAT
32253483 AATTTAC
1 AATTTAC
32253490 GGATTCAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (11 bp):
AATTTACAGAT
Found at i:32255950 original size:29 final size:30
Alignment explanation
Indices: 32255911--32255977 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 30
32255901 TAAAGTAATC
*
32255911 TTAATTATTGTATAATTATATATAT-AAATT
1 TTAATT-TTGTATAATTATATAAATGAAATT
* *
32255941 TTAATTTTGTGTAATTTTATAAATGAAATT
1 TTAATTTTGTATAATTATATAAATGAAATT
32255971 TTAATTT
1 TTAATTT
32255978 GATTCAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 15 0.45
30 18 0.55
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (30 bp):
TTAATTTTGTATAATTATATAAATGAAATT
Found at i:32257036 original size:16 final size:16
Alignment explanation
Indices: 32257015--32257049 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
32257005 AGGAAAAAGA
32257015 TGGCCGCATGGACAGT
1 TGGCCGCATGGACAGT
32257031 TGGCCGCATGGACAGT
1 TGGCCGCATGGACAGT
32257047 TGG
1 TGG
32257050 TTTTGCGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.17, C:0.23, G:0.40, T:0.20
Consensus pattern (16 bp):
TGGCCGCATGGACAGT
Found at i:32259272 original size:30 final size:30
Alignment explanation
Indices: 32259219--32259280 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
32259209 TAATTAAAGT
* *
32259219 AAAATTATATTTTATCCCCTAAAAATAATA
1 AAAATTATATTTAATCACCTAAAAATAATA
** *
32259249 AAAATTATATTTAATCATTTAAAAATTATA
1 AAAATTATATTTAATCACCTAAAAATAATA
32259279 AA
1 AA
32259281 GATATAAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (30 bp):
AAAATTATATTTAATCACCTAAAAATAATA
Found at i:32261003 original size:15 final size:15
Alignment explanation
Indices: 32260983--32261013 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
32260973 TATAAGAGAT
32260983 GTAGAAAACTAACTC
1 GTAGAAAACTAACTC
32260998 GTAGAAAACTAACTC
1 GTAGAAAACTAACTC
32261013 G
1 G
32261014 GAACATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.19, G:0.16, T:0.19
Consensus pattern (15 bp):
GTAGAAAACTAACTC
Found at i:32264215 original size:32 final size:32
Alignment explanation
Indices: 32264179--32264242 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
32264169 AACACTGAAG
32264179 TTAGCTATGGTTTCTGCAAAATTTGATTCAGT
1 TTAGCTATGGTTTCTGCAAAATTTGATTCAGT
32264211 TTAGCTATGGTTTCTGCAAAATTTGATTCAGT
1 TTAGCTATGGTTTCTGCAAAATTTGATTCAGT
32264243 CCTCTTATGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (32 bp):
TTAGCTATGGTTTCTGCAAAATTTGATTCAGT
Found at i:32265390 original size:6 final size:6
Alignment explanation
Indices: 32265381--32265410 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
32265371 ACATGTACAA
*
32265381 TTGTGT TTGTAT TTGTAT TTGTAT TTGTAT
1 TTGTAT TTGTAT TTGTAT TTGTAT TTGTAT
32265411 GGTGAATCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.13, C:0.00, G:0.20, T:0.67
Consensus pattern (6 bp):
TTGTAT
Found at i:32277469 original size:43 final size:43
Alignment explanation
Indices: 32277421--32277507 Score: 115
Period size: 43 Copynumber: 2.0 Consensus size: 43
32277411 ATATGTGATT
* *
32277421 TCGATATGTGTTTACGA-GTAAGACC-CTGTCTGGGACAGTGGCA
1 TCGATATATGGTTAC-ATGTAAGACCAC-GTCTGGGACAGTGGCA
*
32277464 TCGATATATGGTTACATGTAAGACCACGTCTGGGACATTGGCA
1 TCGATATATGGTTACATGTAAGACCACGTCTGGGACAGTGGCA
32277507 T
1 T
32277508 TGTACGATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
42 1 0.03
43 37 0.95
44 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (43 bp):
TCGATATATGGTTACATGTAAGACCACGTCTGGGACAGTGGCA
Found at i:32280703 original size:20 final size:20
Alignment explanation
Indices: 32280667--32280704 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
32280657 ATTTATTTTC
*
32280667 ATTTATCTTTAATTATTTGT
1 ATTTATCTTTAAGTATTTGT
*
32280687 ATTTATCTTTTAGTATTT
1 ATTTATCTTTAAGTATTT
32280705 AATTAGGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (20 bp):
ATTTATCTTTAAGTATTTGT
Found at i:32281449 original size:17 final size:18
Alignment explanation
Indices: 32281417--32281450 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
32281407 TATTCTCCAT
*
32281417 TTTAATTTTGGCAATTTA
1 TTTAATTTTCGCAATTTA
32281435 TTTAA-TTTCGCAATTT
1 TTTAATTTTCGCAATTT
32281451 CAATCTGACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.56
Consensus pattern (18 bp):
TTTAATTTTCGCAATTTA
Found at i:32287160 original size:28 final size:28
Alignment explanation
Indices: 32287097--32287169 Score: 119
Period size: 28 Copynumber: 2.6 Consensus size: 28
32287087 TAAATTTTAT
* *
32287097 TATTTATTATTTTATTTCATTTTATTAG
1 TATTTATTATTTTATTTCATTTTATCAA
*
32287125 TATCTATTATTTTATTTCATTTTATCAA
1 TATTTATTATTTTATTTCATTTTATCAA
32287153 TATTTATTATTTTATTT
1 TATTTATTATTTTATTT
32287170 AATTATTTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.26, C:0.05, G:0.01, T:0.67
Consensus pattern (28 bp):
TATTTATTATTTTATTTCATTTTATCAA
Found at i:32287162 original size:23 final size:20
Alignment explanation
Indices: 32287136--32287189 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 20
32287126 ATCTATTATT
32287136 TTATTTCATTTTATCAATATTTA
1 TTATTT-ATTTTA--AATATTTA
*
32287159 TTATTT-TATTTAATTATTTA
1 TTATTTAT-TTTAAATATTTA
32287179 TTATTTATTTT
1 TTATTTATTTT
32287190 GGATATTAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 16 0.57
21 2 0.07
22 4 0.14
23 6 0.21
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.69
Consensus pattern (20 bp):
TTATTTATTTTAAATATTTA
Found at i:32287196 original size:20 final size:19
Alignment explanation
Indices: 32287092--32287188 Score: 71
Period size: 19 Copynumber: 5.2 Consensus size: 19
32287082 TTACTTAAAT
*
32287092 TTTATTATTTATTATTTTA
1 TTTAATATTTATTATTTTA
* *
32287111 TTTCAT-TTTATTAGTATCTA
1 TTTAATATTTATTA-T-TTTA
32287131 -TT-AT-TTTATTTCATTTTA
1 TTTAATATTTA-TT-ATTTTA
*
32287149 -TCAATATTTATTATTTTA
1 TTTAATATTTATTATTTTA
32287167 TTTAATTATTTATTA-TTTA
1 TTTAA-TATTTATTATTTTA
32287186 TTT
1 TTT
32287189 TGGATATTAA
Statistics
Matches: 64, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
18 23 0.36
19 24 0.38
20 17 0.27
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.68
Consensus pattern (19 bp):
TTTAATATTTATTATTTTA
Found at i:32289470 original size:20 final size:20
Alignment explanation
Indices: 32289445--32289485 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
32289435 CTATTAGGAT
32289445 GAATAATTATGATTAATAGA
1 GAATAATTATGATTAATAGA
32289465 GAATAATTATGATTAATAGA
1 GAATAATTATGATTAATAGA
32289485 G
1 G
32289486 TTAACCCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (20 bp):
GAATAATTATGATTAATAGA
Found at i:32290658 original size:10 final size:10
Alignment explanation
Indices: 32290643--32290692 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
32290633 TAATTTTAGA
32290643 ATTTAT-TTT
1 ATTTATCTTT
32290652 CATTTATCTTT
1 -ATTTATCTTT
*
32290663 ATTTATATTT
1 ATTTATCTTT
*
32290673 AATTAT-TTGT
1 ATTTATCTT-T
32290683 ATTTATCTTT
1 ATTTATCTTT
32290693 TAGTATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 2 0.06
10 27 0.79
11 5 0.15
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:32290699 original size:20 final size:20
Alignment explanation
Indices: 32290662--32290700 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
32290652 CATTTATCTT
*
32290662 TATTTATATTTAATTATTTG
1 TATTTATATTTAAGTATTTG
* *
32290682 TATTTATCTTTTAGTATTT
1 TATTTATATTTAAGTATTT
32290701 AATTAGGAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (20 bp):
TATTTATATTTAAGTATTTG
Found at i:32292088 original size:51 final size:52
Alignment explanation
Indices: 32292033--32292143 Score: 179
Period size: 51 Copynumber: 2.2 Consensus size: 52
32292023 TTCTTTTTCG
* *
32292033 TTTTCATTTTTGAGAAAACCACATTCATTTCCAAATGATTC-TATTTCTCCA
1 TTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCTTATTTCTCCA
* *
32292084 TTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCTTATTTCTCCA
1 TTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCTTATTTCTCCA
32292136 TTTTCATT
1 TTTTCATT
32292144 ACTTCTATCC
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
51 37 0.67
52 18 0.33
ACGTcount: A:0.28, C:0.20, G:0.06, T:0.46
Consensus pattern (52 bp):
TTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCTTATTTCTCCA
Found at i:32294862 original size:28 final size:28
Alignment explanation
Indices: 32294764--32294862 Score: 69
Period size: 28 Copynumber: 3.4 Consensus size: 28
32294754 GAGTTAACTG
* * *
32294764 GGCCTTAGCCCATATCAATATTAAT-TT
1 GGCCATAGCCCATATCAGTATCAATCTT
* *
32294791 GGGCCATAGCCCCT-TACAGTATCAGGGTATACTG
1 -GGCCATAGCCCATAT-CAGTATCA----AT-CTT
32294825 GGCC-TAGCCCATATCAGTATCAATCTT
1 GGCCATAGCCCATATCAGTATCAATCTT
32294852 GGCCATAGCCC
1 GGCCATAGCCC
32294863 TATTACAAGT
Statistics
Matches: 55, Mismatches: 7, Indels: 18
0.69 0.09 0.22
Matches are distributed among these distances:
27 7 0.13
28 25 0.45
32 17 0.31
33 5 0.09
34 1 0.02
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (28 bp):
GGCCATAGCCCATATCAGTATCAATCTT
Found at i:32294895 original size:60 final size:60
Alignment explanation
Indices: 32294760--32294901 Score: 155
Period size: 60 Copynumber: 2.4 Consensus size: 60
32294750 ATTAGAGTTA
* * *
32294760 ACTGGGCCTTAGCCCATATCAATATTAATTTGGGCCATAGCCCCTTACAGTATCAGGGTAT
1 ACTGGGCCTT-GCCCATATCAATATCAATTTGGGCCATAGCCCATTACAGTATCAGGATAT
* * *
32294821 ACTGGGCCTAGCCCATATCAGTATCAATCTT-GGCCATAGCCCTATTACAAGT-TGA-GATAT
1 ACTGGGCCTTGCCCATATCAATATCAAT-TTGGGCCATAGCCC-ATTAC-AGTATCAGGATAT
* *
32294881 ATTGGGTCTTGCCCATATCAA
1 ACTGGGCCTTGCCCATATCAA
32294902 CACAGTTGGG
Statistics
Matches: 68, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
60 48 0.71
61 17 0.25
62 3 0.04
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.30
Consensus pattern (60 bp):
ACTGGGCCTTGCCCATATCAATATCAATTTGGGCCATAGCCCATTACAGTATCAGGATAT
Found at i:32294916 original size:20 final size:20
Alignment explanation
Indices: 32294891--32294930 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
32294881 ATTGGGTCTT
32294891 GCCCATATCAACACAGTTGG
1 GCCCATATCAACACAGTTGG
* *
32294911 GCCCATTTCAATACAGTTGG
1 GCCCATATCAACACAGTTGG
32294931 CCTATAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.25
Consensus pattern (20 bp):
GCCCATATCAACACAGTTGG
Found at i:32296434 original size:9 final size:9
Alignment explanation
Indices: 32296409--32296443 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
32296399 AAGAAAATAG
32296409 AAGAAGAGA
1 AAGAAGAGA
*
32296418 GGAGAAGAGA
1 -AAGAAGAGA
32296428 AAGAAGAGA
1 AAGAAGAGA
32296437 AAGAAGA
1 AAGAAGA
32296444 ATTTGGCACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (9 bp):
AAGAAGAGA
Found at i:32297748 original size:33 final size:33
Alignment explanation
Indices: 32297710--32297783 Score: 130
Period size: 33 Copynumber: 2.2 Consensus size: 33
32297700 TTCATGTTTT
*
32297710 TCATATAAATACCAATAATAGTTCACATCGAAC
1 TCATATAAATACCAATAATAATTCACATCGAAC
*
32297743 TCATATAAATACCAATAATAATTCATATCGAAC
1 TCATATAAATACCAATAATAATTCACATCGAAC
32297776 TCATATAA
1 TCATATAA
32297784 TCTCATAACA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.47, C:0.19, G:0.04, T:0.30
Consensus pattern (33 bp):
TCATATAAATACCAATAATAATTCACATCGAAC
Found at i:32297976 original size:25 final size:25
Alignment explanation
Indices: 32297923--32297980 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
32297913 AAGCTCTTCT
* **
32297923 GAGCTAAATAACAAGAAGCTCATGC
1 GAGCTGAATAACAAGAAGCTCATAA
*
32297948 GAGCTGAATAACAGGAAGCTCATAA
1 GAGCTGAATAACAAGAAGCTCATAA
32297973 GAGCTGAA
1 GAGCTGAA
32297981 ATCGGTGACC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.43, C:0.17, G:0.24, T:0.16
Consensus pattern (25 bp):
GAGCTGAATAACAAGAAGCTCATAA
Found at i:32304954 original size:31 final size:31
Alignment explanation
Indices: 32304919--32304984 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
32304909 ACTTTTAGTA
*
32304919 ACAAAAGCATAATTTATTACAATGAGTGGTG
1 ACAAAAGCATAATTTATTACAATGAATGGTG
*
32304950 ACAAAAGCATAATTTATTACTATGAATGGTG
1 ACAAAAGCATAATTTATTACAATGAATGGTG
32304981 ACAA
1 ACAA
32304985 CTCTTGATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.29
Consensus pattern (31 bp):
ACAAAAGCATAATTTATTACAATGAATGGTG
Found at i:32311549 original size:23 final size:23
Alignment explanation
Indices: 32311518--32311572 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
32311508 CATGTATTGA
*
32311518 CCTATTCCTCATCATCCACCTCT
1 CCTACTCCTCATCATCCACCTCT
32311541 CCTACTCCTCATCATCCACCTCT
1 CCTACTCCTCATCATCCACCTCT
32311564 CCTACTCCT
1 CCTACTCCT
32311573 TACACTGTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.16, C:0.51, G:0.00, T:0.33
Consensus pattern (23 bp):
CCTACTCCTCATCATCCACCTCT
Found at i:32313081 original size:22 final size:22
Alignment explanation
Indices: 32313056--32313097 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
32313046 ACTTATATTG
* *
32313056 GACATAAAGTAAAGTACTTTTA
1 GACATAAAGCAAAATACTTTTA
32313078 GACATAAAGCAAAATACTTT
1 GACATAAAGCAAAATACTTT
32313098 AATTATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.29
Consensus pattern (22 bp):
GACATAAAGCAAAATACTTTTA
Found at i:32317990 original size:22 final size:22
Alignment explanation
Indices: 32317965--32318006 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
32317955 TTTAATAATT
* *
32317965 AAAGTATTTTGCTTTATGTCTA
1 AAAGTACTTTACTTTATGTCTA
32317987 AAAGTACTTTACTTTATGTC
1 AAAGTACTTTACTTTATGTC
32318007 CAATATAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.48
Consensus pattern (22 bp):
AAAGTACTTTACTTTATGTCTA
Found at i:32319108 original size:10 final size:10
Alignment explanation
Indices: 32319095--32319252 Score: 55
Period size: 10 Copynumber: 16.2 Consensus size: 10
32319085 AAATTCAAAT
32319095 AAATTATAAA
1 AAATTATAAA
32319105 AAATTAT-AA
1 AAATTATAAA
* *
32319114 AAGTAATAAA
1 AAATTATAAA
32319124 ATATATT-TAAA
1 A-A-ATTATAAA
* *
32319135 ATATT-TAAT
1 AAATTATAAA
***
32319144 TTTTTATAAA
1 AAATTATAAA
** *
32319154 AACGTATTAA
1 AAATTATAAA
*
32319164 AATTCTATA-A
1 AAAT-TATAAA
*
32319174 AAATCAT-AA
1 AAATTATAAA
32319183 AAATTATAAA
1 AAATTATAAA
*
32319193 AAA--ATTAA
1 AAATTATAAA
*
32319201 AAATTAT-TA
1 AAATTATAAA
*
32319210 AAATTGATATA
1 AAATT-ATAAA
*
32319221 AACTTAT-AA
1 AAATTATAAA
32319230 AAATTATAAAA
1 AAATTAT-AAA
*
32319241 AAATCATAAA
1 AAATTATAAA
32319251 AA
1 AA
32319253 CTTGAATTGA
Statistics
Matches: 109, Mismatches: 26, Indels: 26
0.68 0.16 0.16
Matches are distributed among these distances:
8 7 0.06
9 38 0.35
10 40 0.37
11 23 0.21
12 1 0.01
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (10 bp):
AAATTATAAA
Found at i:32319184 original size:9 final size:9
Alignment explanation
Indices: 32319169--32319241 Score: 76
Period size: 9 Copynumber: 7.9 Consensus size: 9
32319159 ATTAAAATTC
32319169 TATAAAAAT
1 TATAAAAAT
*
32319178 CATAAAAAT
1 TATAAAAAT
32319187 TATAAAAA-
1 TATAAAAAT
*
32319195 AATTAAAAAT
1 TA-TAAAAAT
*
32319205 TATTAAAAT
1 TATAAAAAT
*
32319214 TGATATAAACT
1 T-ATA-AAAAT
32319225 TATAAAAAT
1 TATAAAAAT
32319234 TATAAAAA
1 TATAAAAA
32319242 AATCATAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
8 1 0.02
9 40 0.77
10 6 0.12
11 5 0.10
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (9 bp):
TATAAAAAT
Found at i:32319706 original size:21 final size:20
Alignment explanation
Indices: 32319668--32319708 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
32319658 TTTATACCAA
32319668 TTTTAATATTTTTATATTTT
1 TTTTAATATTTTTATATTTT
32319688 TTTTCAAT-TTTTTATTATTTT
1 TTTT-AATATTTTTA-TATTTT
32319709 AAGAATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTAATATTTTTATATTTT
Found at i:32319786 original size:28 final size:27
Alignment explanation
Indices: 32319693--32319911 Score: 140
Period size: 28 Copynumber: 8.3 Consensus size: 27
32319683 ATTTTTTTTC
*
32319693 AATTTTTTATTATTTTAAGAA-TTTTAA
1 AATTTTTTA-TATTTTAATAATTTTTAA
* *
32319720 TACTTTTTTA-ATTTTAAATAAGTTTTT-T
1 -AATTTTTTATATTTT-AATAA-TTTTTAA
*
32319748 AA--TTTTATATTTTCATAATTTATTAA
1 AATTTTTTATATTTTAATAATTT-TTAA
*
32319774 AATTTTTTATATTTT-ATAATTTTTAT
1 AATTTTTTATATTTTAATAATTTTTAA
* * *
32319800 AAGTTTTTATATTTTTTATAATTTTAAA
1 AATTTTTTATA-TTTTAATAATTTTTAA
32319828 AAGTTTATATTA-ATTTTAAT-ATTTTT-A
1 AA-TTT-T-TTATATTTTAATAATTTTTAA
* * *
32319855 AATTTTTAAAATTTTAAT-ATATTT--
1 AATTTTTTATATTTTAATAATTTTTAA
* *
32319879 -ATTTTTTATTTTTTTATAATTTTTAA
1 AATTTTTTATATTTTAATAATTTTTAA
*
32319905 TATTTTT
1 AATTTTT
32319912 AATCATTCTT
Statistics
Matches: 153, Mismatches: 20, Indels: 37
0.73 0.10 0.18
Matches are distributed among these distances:
23 13 0.08
24 10 0.07
25 25 0.16
26 28 0.18
27 25 0.16
28 35 0.23
29 12 0.08
30 2 0.01
31 3 0.02
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (27 bp):
AATTTTTTATATTTTAATAATTTTTAA
Found at i:32319808 original size:10 final size:9
Alignment explanation
Indices: 32319638--32319912 Score: 128
Period size: 9 Copynumber: 30.7 Consensus size: 9
32319628 AGTTTTTATG
32319638 TTTTATATAA
1 TTTT-TATAA
*
32319648 TATTTATAA
1 TTTTTATAA
* *
32319657 GTTTATACCAA
1 -TTTTTA-TAA
*
32319668 TTTTAAT-A
1 TTTTTATAA
*
32319676 TTTTTATAT
1 TTTTTATAA
*
32319685 TTTTTTTCAA
1 TTTTTAT-AA
*
32319695 TTTTTTATTA
1 -TTTTTATAA
* *
32319705 TTTTAAGAA
1 TTTTTATAA
* *
32319714 TTTTAATAC
1 TTTTTATAA
32319723 TTTTT-TAA
1 TTTTTATAA
*
32319731 TTTTAAATAA
1 TTTT-TATAA
32319741 GTTTTT-TAA
1 -TTTTTATAA
32319750 -TTTTAT-A
1 TTTTTATAA
*
32319757 TTTTCATAA
1 TTTTTATAA
*
32319766 TTTATTAAAA
1 TTT-TTATAA
32319776 TTTTT-T-A
1 TTTTTATAA
32319783 TATTTTATAA
1 T-TTTTATAA
32319793 TTTTTATAA
1 TTTTTATAA
*
32319802 GTTTTTATAT
1 -TTTTTATAA
32319812 TTTTTATAA
1 TTTTTATAA
* *
32319821 TTTTAAAAA
1 TTTTTATAA
*
32319830 GTTTATATTAA
1 -TTTTTA-TAA
*
32319841 TTTTAAT-A
1 TTTTTATAA
32319849 TTTTTA-AA
1 TTTTTATAA
*
32319857 TTTTTAAAA
1 TTTTTATAA
*
32319866 TTTTAAT-A
1 TTTTTATAA
*
32319874 TATTTAT--
1 TTTTTATAA
*
32319881 TTTTTAT-T
1 TTTTTATAA
32319889 TTTTTATAA
1 TTTTTATAA
32319898 TTTTTA-ATA
1 TTTTTATA-A
32319907 TTTTTA
1 TTTTTA
32319913 ATCATTCTTA
Statistics
Matches: 200, Mismatches: 42, Indels: 47
0.69 0.15 0.16
Matches are distributed among these distances:
7 13 0.06
8 50 0.25
9 82 0.41
10 41 0.20
11 14 0.07
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:32319816 original size:36 final size:34
Alignment explanation
Indices: 32319742--32319825 Score: 100
Period size: 35 Copynumber: 2.4 Consensus size: 34
32319732 TTTAAATAAG
32319742 TTTTTTA-ATTTTATATTTTCATAATTTATTAAAA
1 TTTTTTATATTTTATATTTTCATAATTTATT-AAA
* *
32319776 TTTTTTATATTTTATAATTTTTATAAGTTT-TTATA
1 TTTTTTATATTTTAT-ATTTTCATAA-TTTATTAAA
32319811 TTTTTTATAATTTTA
1 TTTTTTAT-ATTTTA
32319826 AAAAGTTTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
34 7 0.16
35 17 0.39
36 17 0.39
37 3 0.07
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.67
Consensus pattern (34 bp):
TTTTTTATATTTTATATTTTCATAATTTATTAAA
Found at i:32323090 original size:44 final size:45
Alignment explanation
Indices: 32322995--32323109 Score: 144
Period size: 44 Copynumber: 2.6 Consensus size: 45
32322985 ACAGGACAGA
*
32322995 ACAGAAATAAGCCATGTAAGTCCATATTAGAAATATGGCTTCGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCTTCGGAG
* * *
32323041 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATT-GGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGC-TTCGGAG
**
32323085 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATAAGCCATGTAAGTCCAT
32323110 GTCAAAGACA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
44 33 0.55
45 2 0.03
46 25 0.42
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.27
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCTTCGGAG
Found at i:32330442 original size:46 final size:45
Alignment explanation
Indices: 32330383--32330498 Score: 142
Period size: 45 Copynumber: 2.6 Consensus size: 45
32330373 ACAGGACAGA
* * *
32330383 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAGAAAT-TGGCATTAGAG
* * *
32330429 ACAGGATTGAGCCATGTAAGTCCATATTATATATTGGCATTAGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAGAAATTGGCATTAGAG
* **
32330474 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
32330499 GTCAAAGACA
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
45 30 0.50
46 30 0.50
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAGAAATTGGCATTAGAG
Found at i:32335998 original size:45 final size:45
Alignment explanation
Indices: 32335921--32336024 Score: 145
Period size: 45 Copynumber: 2.3 Consensus size: 45
32335911 TCAGAAACGA
* * *
32335921 TAACAGTAACAGTAAAAGTATTCAACACACAAAGTGTTGAATCTG
1 TAACAGTAACAGTAAAAGTATTCAACAAACAAAGTGTCGAATCGG
* * * *
32335966 TAATAGTAACGGTAACAGTATTCGACAAACAAAGTGTCGAATCGG
1 TAACAGTAACAGTAAAAGTATTCAACAAACAAAGTGTCGAATCGG
32336011 TAACAGTAACAGTA
1 TAACAGTAACAGTA
32336025 GTCGGCACAT
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.23
Consensus pattern (45 bp):
TAACAGTAACAGTAAAAGTATTCAACAAACAAAGTGTCGAATCGG
Found at i:32336278 original size:40 final size:40
Alignment explanation
Indices: 32336229--32336314 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
32336219 ATTCATTTTA
* * *
32336229 TCAGAAATTTTACAATTCAATGCAGTATACATAACAATAT
1 TCAGTAATTTCACAATTCAATGCAGTATACAAAACAATAT
* * * *
32336269 TCAGTAATTTCACAGTTCAATTCGGTATTCAAAACAATAT
1 TCAGTAATTTCACAATTCAATGCAGTATACAAAACAATAT
32336309 TCAGTA
1 TCAGTA
32336315 TCCCATAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (40 bp):
TCAGTAATTTCACAATTCAATGCAGTATACAAAACAATAT
Found at i:32337124 original size:19 final size:17
Alignment explanation
Indices: 32337090--32337126 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
32337080 GTTTATTTGT
32337090 TTTTCTTTTATATTTTA
1 TTTTCTTTTATATTTTA
32337107 TTTTCTTTGTATTATTTTA
1 TTTTCTTT-TA-TATTTTA
32337126 T
1 T
32337127 CATTTAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 2 0.11
19 8 0.44
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTCTTTTATATTTTA
Found at i:32341216 original size:15 final size:15
Alignment explanation
Indices: 32341198--32341251 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
32341188 TAGTTTTTAA
32341198 TTAATTACAATTAA-C
1 TTAATTA-AATTAAGC
** *
32341213 TTAATTAACCTAAGT
1 TTAATTAAATTAAGC
32341228 TTAATTAAAATTAAGC
1 TTAATT-AAATTAAGC
32341244 TTAATTAA
1 TTAATTAA
32341252 CACTTTTGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
14 4 0.13
15 15 0.48
16 12 0.39
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (15 bp):
TTAATTAAATTAAGC
Found at i:32348597 original size:16 final size:16
Alignment explanation
Indices: 32348567--32348597 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32348557 TTATAATAAA
*
32348567 AAATTATAAAAATATT
1 AAATCATAAAAATATT
32348583 AAATCATAAAAATAT
1 AAATCATAAAAATAT
32348598 AATAATCCAT
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:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATCATAAAAATATT
Found at i:32348703 original size:25 final size:27
Alignment explanation
Indices: 32348675--32348724 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
32348665 CTATTTTAAT
*
32348675 TAAAT-TATTT-TTACATTATTGATCA
1 TAAATATATTTATTACAATATTGATCA
32348700 TAAATATATTTATTACAATATTGAT
1 TAAATATATTTATTACAATATTGAT
32348725 AATTTTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.23
26 5 0.23
27 12 0.55
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (27 bp):
TAAATATATTTATTACAATATTGATCA
Found at i:32350903 original size:21 final size:21
Alignment explanation
Indices: 32350877--32350927 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
32350867 GGAAAAGCAA
32350877 TAATAATTTCACAATGGAGAG
1 TAATAATTTCACAATGGAGAG
32350898 TAATAATTTCACAATGGAGAG
1 TAATAATTTCACAATGGAGAG
* *
32350919 AAATTATTT
1 TAATAATTT
32350928 TGTAAAGAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (21 bp):
TAATAATTTCACAATGGAGAG
Done.