Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 38 of 410
Found at i:9639146 original size:14 final size:15
Alignment explanation
Indices: 9639119--9639154 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
9639109 ATTTATTCTC
9639119 TTCTTCTTCTTCTTT
1 TTCTTCTTCTTCTTT
*
9639134 TTCTTTTTC-TCTTT
1 TTCTTCTTCTTCTTT
9639148 TTCTTCT
1 TTCTTCT
9639155 ATTGTCCAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (15 bp):
TTCTTCTTCTTCTTT
Found at i:9645645 original size:17 final size:17
Alignment explanation
Indices: 9645614--9645660 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
9645604 TTCTTGATTT
*
9645614 TTTTTTATTTGTTTTTCA
1 TTTTTTAATT-TTTTTCA
*
9645632 GTTTTTTCATTTTTTTCA
1 -TTTTTTAATTTTTTTCA
9645650 TTTTTTAATTT
1 TTTTTTAATTT
9645661 GTTTGTCCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 10 0.40
18 7 0.28
19 8 0.32
ACGTcount: A:0.13, C:0.06, G:0.04, T:0.77
Consensus pattern (17 bp):
TTTTTTAATTTTTTTCA
Found at i:9645723 original size:26 final size:25
Alignment explanation
Indices: 9645643--9645723 Score: 67
Period size: 26 Copynumber: 3.1 Consensus size: 25
9645633 TTTTTTCATT
*
9645643 TTTTTC-ATTTTTTAATTTGTTTGTCC
1 TTTTTCAATTTTTT-ATTTATTTGT-C
* * *
9645669 TTTTTCATTTGTTTTTCTTTATTT-AC
1 TTTTTCA-AT-TTTTTATTTATTTGTC
9645695 TTTTTCAATTTATTTATTTATTTGTC
1 TTTTTCAATTT-TTTATTTATTTGTC
9645721 TTT
1 TTT
9645724 CTTCCTGTCT
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
24 2 0.05
25 11 0.26
26 18 0.42
28 7 0.16
29 5 0.12
ACGTcount: A:0.14, C:0.10, G:0.05, T:0.72
Consensus pattern (25 bp):
TTTTTCAATTTTTTATTTATTTGTC
Found at i:9645773 original size:14 final size:11
Alignment explanation
Indices: 9645737--9645766 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
9645727 CCTGTCTTTA
9645737 TTTTTATTATT
1 TTTTTATTATT
9645748 TTTTTATTATT
1 TTTTTATTATT
9645759 TGTTTTAT
1 T-TTTTAT
9645767 AATATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (11 bp):
TTTTTATTATT
Found at i:9653296 original size:34 final size:34
Alignment explanation
Indices: 9653207--9653378 Score: 245
Period size: 35 Copynumber: 5.0 Consensus size: 34
9653197 CGATTCACAA
* * * * *
9653207 CTCAGTATGGTTAATACCATATCTACGTTTCACAA
1 CTCAGTATGG-AAATACCATACCTACGTATCATAG
*
9653242 CTCAGTATGGAAAATACCATACCTACGTATTATAG
1 CTCAGTATGG-AAATACCATACCTACGTATCATAG
*
9653277 CTCAATATGGAAATACCATACCTACGTATCATAG
1 CTCAGTATGGAAATACCATACCTACGTATCATAG
*
9653311 CTCAGTATAGACAATACCATACCTACGTATCATAG
1 CTCAGTATGGA-AATACCATACCTACGTATCATAG
9653346 CTCAGTATGGAAATACCATACCTACGTATCATA
1 CTCAGTATGGAAATACCATACCTACGTATCATA
9653379 AATTTGCCAA
Statistics
Matches: 124, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
34 54 0.44
35 70 0.56
ACGTcount: A:0.36, C:0.23, G:0.12, T:0.28
Consensus pattern (34 bp):
CTCAGTATGGAAATACCATACCTACGTATCATAG
Found at i:9653330 original size:69 final size:69
Alignment explanation
Indices: 9653219--9653379 Score: 250
Period size: 69 Copynumber: 2.3 Consensus size: 69
9653209 CAGTATGGTT
* * * * *
9653219 AATACCATATCTACGTTTCACAACTCAGTATGGAAAATACCATACCTACGTATTATAGCTCAATA
1 AATACCATACCTACGTATCATAACTCAGTATAGAAAATACCATACCTACGTATCATAGCTCAATA
9653284 TGGA
66 TGGA
* * *
9653288 AATACCATACCTACGTATCATAGCTCAGTATAGACAATACCATACCTACGTATCATAGCTCAGTA
1 AATACCATACCTACGTATCATAACTCAGTATAGAAAATACCATACCTACGTATCATAGCTCAATA
9653353 TGGA
66 TGGA
9653357 AATACCATACCTACGTATCATAA
1 AATACCATACCTACGTATCATAA
9653380 ATTTGCCAAG
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 83 1.00
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.27
Consensus pattern (69 bp):
AATACCATACCTACGTATCATAACTCAGTATAGAAAATACCATACCTACGTATCATAGCTCAATA
TGGA
Found at i:9656591 original size:16 final size:16
Alignment explanation
Indices: 9656566--9656599 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
9656556 TGTACTCTTC
9656566 ATAAAATTTGAATTTA
1 ATAAAATTTGAATTTA
*
9656582 ATAAATTTTGAATTTA
1 ATAAAATTTGAATTTA
9656598 AT
1 AT
9656600 TTCTATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
ATAAAATTTGAATTTA
Found at i:9666649 original size:21 final size:21
Alignment explanation
Indices: 9666623--9666678 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
9666613 AACAGCGGTG
*
9666623 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
9666644 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
9666665 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
9666679 AACAGCGGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.09, G:0.38, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:9668655 original size:29 final size:28
Alignment explanation
Indices: 9668610--9668664 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 28
9668600 TTTACGAGCC
* *
9668610 TAGGGGAAAAGTGTAATCTTGACAAAGT
1 TAGGGGAAAAATATAATCTTGACAAAGT
* *
9668638 TAGGGGCAAAAATATAATTTTGCCAAA
1 TAGGGG-AAAAATATAATCTTGACAAA
9668665 ATATGATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 6 0.27
29 16 0.73
ACGTcount: A:0.42, C:0.09, G:0.24, T:0.25
Consensus pattern (28 bp):
TAGGGGAAAAATATAATCTTGACAAAGT
Found at i:9668861 original size:20 final size:19
Alignment explanation
Indices: 9668818--9668861 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
9668808 GTCTCAATAA
9668818 TATTGAAATGCTATATTTG
1 TATTGAAATGCTATATTTG
* * *
9668837 AATTGAAAATTCTATATTTT
1 TATTG-AAATGCTATATTTG
9668857 TATTG
1 TATTG
9668862 CACAAATGAC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (19 bp):
TATTGAAATGCTATATTTG
Found at i:9669532 original size:24 final size:24
Alignment explanation
Indices: 9669496--9669545 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
9669486 TGGACTGGTA
9669496 ATTCAGATCCGATCTCATTTGAGT
1 ATTCAGATCCGATCTCATTTGAGT
*
9669520 ATTCAGATTCGATCTCATTTGAGT
1 ATTCAGATCCGATCTCATTTGAGT
9669544 AT
1 AT
9669546 ATGTCGTTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (24 bp):
ATTCAGATCCGATCTCATTTGAGT
Found at i:9670547 original size:13 final size:14
Alignment explanation
Indices: 9670531--9670566 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
9670521 CAATCTCATA
9670531 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
9670544 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
9670557 TCTC-ATTTCA
1 TCTCAATTTCA
9670567 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:9670556 original size:18 final size:19
Alignment explanation
Indices: 9670518--9670558 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
9670508 TGGTTCATGT
9670518 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
9670537 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
9670555 TTTC
1 TTTC
9670559 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:9670748 original size:39 final size:38
Alignment explanation
Indices: 9670681--9670815 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
9670671 ACCAATATGG
* * *
9670681 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
9670720 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
9670758 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
9670799 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
9670816 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:9671080 original size:18 final size:19
Alignment explanation
Indices: 9671054--9671092 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
9671044 TTTCAATTCA
9671054 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
9671073 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
9671091 AT
1 AT
9671093 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:9672420 original size:5 final size:5
Alignment explanation
Indices: 9672410--9672462 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
9672400 TTACTTATTT
* *
9672410 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
9672458 ATATA
1 ATATA
9672463 TATTTTAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 30 0.73
6 7 0.17
7 4 0.10
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:9672426 original size:12 final size:12
Alignment explanation
Indices: 9672409--9672464 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
9672399 TTTACTTATT
9672409 TATATAATATAA
1 TATATAATATAA
9672421 TATATAATATAATA
1 TATATAATAT-A-A
9672435 TACTATAATATAA
1 TA-TATAATATAA
*
9672448 TA-ATAATTTAA
1 TATATAATATAA
9672459 TATATA
1 TATATA
9672465 TTTTAACACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:9676975 original size:13 final size:14
Alignment explanation
Indices: 9676959--9676994 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
9676949 CAATCTCATA
9676959 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
9676972 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
9676985 TCTC-ATTTCA
1 TCTCAATTTCA
9676995 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:9676984 original size:18 final size:19
Alignment explanation
Indices: 9676946--9676986 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
9676936 TGGTTCATGT
9676946 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
9676965 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
9676983 TTTC
1 TTTC
9676987 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:9677176 original size:39 final size:38
Alignment explanation
Indices: 9677109--9677243 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
9677099 ACCAATATGG
* * *
9677109 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
9677148 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
9677186 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
9677227 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
9677244 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:9677508 original size:18 final size:19
Alignment explanation
Indices: 9677482--9677520 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
9677472 TTTCAATTCA
9677482 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
9677501 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
9677519 AT
1 AT
9677521 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:9678847 original size:5 final size:5
Alignment explanation
Indices: 9678837--9678889 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
9678827 TTACTTATTT
* *
9678837 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
9678885 ATATA
1 ATATA
9678890 TATTTTAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 30 0.73
6 7 0.17
7 4 0.10
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:9678853 original size:12 final size:12
Alignment explanation
Indices: 9678836--9678891 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
9678826 TTTACTTATT
9678836 TATATAATATAA
1 TATATAATATAA
9678848 TATATAATATAATA
1 TATATAATAT-A-A
9678862 TACTATAATATAA
1 TA-TATAATATAA
*
9678875 TA-ATAATTTAA
1 TATATAATATAA
9678886 TATATA
1 TATATA
9678892 TTTTAACACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:9702741 original size:19 final size:19
Alignment explanation
Indices: 9702717--9702754 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
9702707 GAAGTAGGCT
9702717 TGAAAATTTAATGCATAAA
1 TGAAAATTTAATGCATAAA
9702736 TGAAAATTTAATGCATAAA
1 TGAAAATTTAATGCATAAA
9702755 ATTTAGTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.05, G:0.11, T:0.32
Consensus pattern (19 bp):
TGAAAATTTAATGCATAAA
Found at i:9703461 original size:2 final size:2
Alignment explanation
Indices: 9703454--9703492 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
9703444 GTCTGATGCA
9703454 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
9703493 TTATCTCCCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:9709971 original size:18 final size:18
Alignment explanation
Indices: 9709948--9709991 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
9709938 ATGTCATCTG
*
9709948 TGTATCCTAGCCCTTATA
1 TGTATCCTAACCCTTATA
9709966 TGTATCCTAACCCTTATA
1 TGTATCCTAACCCTTATA
*
9709984 TGTTTCCT
1 TGTATCCT
9709992 TTTCTCAGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.20, C:0.27, G:0.09, T:0.43
Consensus pattern (18 bp):
TGTATCCTAACCCTTATA
Found at i:9713698 original size:126 final size:126
Alignment explanation
Indices: 9713488--9714014 Score: 629
Period size: 126 Copynumber: 4.2 Consensus size: 126
9713478 TAAGGCCGAG
* * *
9713488 CAAGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGTTTTTTTCAGTAATTTTGCTGACATTGC
1 CAAGAACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * *
9713553 ATCCTGCTTAAAGCTTTTTTGACACTATTTTTTCAGAATAGTTTTATCAAAATTATTTTTT
66 ATCCTGCTTAAAGCGTTTTTGACACTATTTTTTCAGAATAGTCTTCTCAAAATTATTTTTT
* *
9713614 CAAGAACTACTGTAGAAAAAAAGTGTCCACGTAGGAGC-TTTTTCTAGTAATTTTGCTGACAGTG
1 CAAGAACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTC-AGTAATTTTGCTGACAGTG
* * **
9713678 CATCCTACTTAAAGTGTTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
65 CATCCTGCTTAAAGCGTTTTTGACACTATTTTTTCAGAATAGTCTTCTCAAAATTATTTTTT
* * ** * *
9713740 CAGGAACTACTGTAGAAAAAGAGCGTCCTTGTGGGAGCTTTTTTCAATAATTTTGCTGATAGTGC
1 CAAGAACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * * * * *
9713805 ATCCTGCTTGATGCGTTTTTGACATTATTTTTTTTAGAA-ATGTCTTCTCAAAAATATATTTT
66 ATCCTGCTTAAAGCGTTTTTGACACTA-TTTTTTCAGAATA-GTCTTCTCAAAATTATTTTTT
** * * *
9713867 C-AGAAACTACTACAGAAAAAAAAGCGTCCACATGGGAGCTTTTTT-AGTACTTTTGCTGACATT
1 CAAG-AACTACTGTAG-AAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGT
* * *
9713930 ACATCCTGCTTGAAGCGTTTTT-ATCACTATTTTTTCA-AAGTCA-TATTCTCAAAATTATTTTT
64 GCATCCTGCTTAAAGCGTTTTTGA-CACTATTTTTTCAGAA-T-AGTCTTCTCAAAATTATTTTT
9713992 T
126 T
9713993 C-AGAAACTACTGTAGAAAAAAA
1 CAAG-AACTACTGTAGAAAAAAA
9714015 AAACAAAAAC
Statistics
Matches: 342, Mismatches: 49, Indels: 21
0.83 0.12 0.05
Matches are distributed among these distances:
125 15 0.04
126 218 0.64
127 83 0.24
128 26 0.08
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.38
Consensus pattern (126 bp):
CAAGAACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
ATCCTGCTTAAAGCGTTTTTGACACTATTTTTTCAGAATAGTCTTCTCAAAATTATTTTTT
Found at i:9714159 original size:33 final size:35
Alignment explanation
Indices: 9714109--9714180 Score: 121
Period size: 33 Copynumber: 2.1 Consensus size: 35
9714099 ATTATTTTTA
9714109 AAAACCCTTAAACCCTAATTTAATTAATTTTCTTT
1 AAAACCCTTAAACCCTAATTTAATTAATTTTCTTT
*
9714144 AAAACCC-TAAA-CCTAATTTAATTAATTTTTTTT
1 AAAACCCTTAAACCCTAATTTAATTAATTTTCTTT
9714177 AAAA
1 AAAA
9714181 AATTAAATCT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 25 0.69
34 4 0.11
35 7 0.19
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (35 bp):
AAAACCCTTAAACCCTAATTTAATTAATTTTCTTT
Found at i:9722734 original size:19 final size:20
Alignment explanation
Indices: 9722710--9722750 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
9722700 ATTTTATATT
9722710 AATAATCATATTAA-TTAAA
1 AATAATCATATTAATTTAAA
*
9722729 AATAATTATATTAATTTAAA
1 AATAATCATATTAATTTAAA
9722749 AA
1 AA
9722751 AAATTCCTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
AATAATCATATTAATTTAAA
Found at i:9722749 original size:20 final size:19
Alignment explanation
Indices: 9722710--9722755 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
9722700 ATTTTATATT
*
9722710 AATAATCATATTAATTAAA
1 AATAATTATATTAATTAAA
9722729 AATAATTATATTAATTTAAA
1 AATAATTATATTAA-TTAAA
*
9722749 AAAAATT
1 AATAATT
9722756 CCTCCCCCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
AATAATTATATTAATTAAA
Found at i:9726569 original size:6 final size:6
Alignment explanation
Indices: 9726551--9726636 Score: 91
Period size: 6 Copynumber: 14.3 Consensus size: 6
9726541 ATATAAAGAC
* * *
9726551 AAAATA AACATA AAAATA AAAATA AAGATA AAGATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
** * * * *
9726599 AAAACG AAAATA ATAATA ATAATA AACATA AAGATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AA
9726637 TGGACTCAAT
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:9737015 original size:17 final size:17
Alignment explanation
Indices: 9736993--9737029 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
9736983 AATATAAAGG
9736993 ATTTGTTTTAATCTAAA
1 ATTTGTTTTAATCTAAA
9737010 ATTTGTTTTAATCTAAA
1 ATTTGTTTTAATCTAAA
9737027 ATT
1 ATT
9737030 AACTAACTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.54
Consensus pattern (17 bp):
ATTTGTTTTAATCTAAA
Found at i:9737355 original size:19 final size:21
Alignment explanation
Indices: 9737331--9737370 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9737321 CCCTTTAATT
9737331 CCTAAA-ATTAC-ATTTTTAC
1 CCTAAATATTACAATTTTTAC
*
9737350 CCTAAATTTTACAATTTTTAC
1 CCTAAATATTACAATTTTTAC
9737371 AATTTGATCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 4 0.22
21 8 0.44
ACGTcount: A:0.35, C:0.20, G:0.00, T:0.45
Consensus pattern (21 bp):
CCTAAATATTACAATTTTTAC
Found at i:9744477 original size:53 final size:53
Alignment explanation
Indices: 9744370--9744471 Score: 143
Period size: 53 Copynumber: 1.9 Consensus size: 53
9744360 CGGATCACAT
* *
9744370 ATCACACTGATGCCATATCCCAGATATGGTCTTACACAGAAGCACATAACCAC
1 ATCACACCGATGCCATATCCCAGATATGGTCTTACACAGAAACACATAACCAC
* *
9744423 ATCACACCGATGCCATATCCCA-ATTATGGTCTTATACGGAAAACACATA
1 ATCACACCGATGCCATATCCCAGA-TATGGTCTTACACAG-AAACACATA
9744472 TCACATGTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
52 1 0.02
53 34 0.79
54 8 0.19
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (53 bp):
ATCACACCGATGCCATATCCCAGATATGGTCTTACACAGAAACACATAACCAC
Found at i:9746216 original size:10 final size:10
Alignment explanation
Indices: 9746201--9746235 Score: 70
Period size: 10 Copynumber: 3.5 Consensus size: 10
9746191 AACGAATTTA
9746201 GTAAGTTTCC
1 GTAAGTTTCC
9746211 GTAAGTTTCC
1 GTAAGTTTCC
9746221 GTAAGTTTCC
1 GTAAGTTTCC
9746231 GTAAG
1 GTAAG
9746236 CTTACTCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (10 bp):
GTAAGTTTCC
Found at i:9746994 original size:21 final size:21
Alignment explanation
Indices: 9746970--9747009 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
9746960 TCACACACGA
*
9746970 GCGTGTGGGATGGTCACATAG
1 GCGTGTGGGATGGCCACATAG
9746991 GCGTGTGGGATGGCCACAT
1 GCGTGTGGGATGGCCACAT
9747010 GGCTATGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.42, T:0.23
Consensus pattern (21 bp):
GCGTGTGGGATGGCCACATAG
Found at i:9748477 original size:8 final size:8
Alignment explanation
Indices: 9748464--9748489 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
9748454 ACAGTATCAA
9748464 ATTAAAAC
1 ATTAAAAC
9748472 ATTAAAAC
1 ATTAAAAC
9748480 ATTAAAAC
1 ATTAAAAC
9748488 AT
1 AT
9748490 ATATTGAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.12, G:0.00, T:0.27
Consensus pattern (8 bp):
ATTAAAAC
Found at i:9750486 original size:27 final size:27
Alignment explanation
Indices: 9750456--9750507 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
9750446 GGAACTACCA
9750456 GTGTCGCCTATGACAT-GGACACCACTG
1 GTGTCGCCTATGACATAGG-CACCACTG
* *
9750483 GTGTCGCTTATGTCATAGGCACCAC
1 GTGTCGCCTATGACATAGGCACCAC
9750508 CAAAAAAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.21, C:0.29, G:0.25, T:0.25
Consensus pattern (27 bp):
GTGTCGCCTATGACATAGGCACCACTG
Found at i:9755269 original size:31 final size:31
Alignment explanation
Indices: 9755234--9755296 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
9755224 CTTTGTCTTC
9755234 AATCCGACCCTAGACTTTTCTTCACCTTTGA
1 AATCCGACCCTAGACTTTTCTTCACCTTTGA
9755265 AATCCGACCCTAGACTTTTCTTCACCTTTGA
1 AATCCGACCCTAGACTTTTCTTCACCTTTGA
9755296 A
1 A
9755297 TGCTGATAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.24, C:0.32, G:0.10, T:0.35
Consensus pattern (31 bp):
AATCCGACCCTAGACTTTTCTTCACCTTTGA
Found at i:9760617 original size:39 final size:40
Alignment explanation
Indices: 9760540--9760621 Score: 123
Period size: 40 Copynumber: 2.1 Consensus size: 40
9760530 ATTCCACAGC
*
9760540 ACTTCATTTATTCAGTATACATCCTCTGGTGTCAAGTCAA
1 ACTTCATTTATTCAGTATACATACTCTGGTGTCAAGTCAA
*
9760580 ACTTTATTTATTCAGTATACA-ACTCTGGT-TCCAAGTCAA
1 ACTTCATTTATTCAGTATACATACTCTGGTGT-CAAGTCAA
9760619 ACT
1 ACT
9760622 CATGCTGAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
38 1 0.03
39 18 0.46
40 20 0.51
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (40 bp):
ACTTCATTTATTCAGTATACATACTCTGGTGTCAAGTCAA
Found at i:9768183 original size:65 final size:65
Alignment explanation
Indices: 9768073--9768202 Score: 215
Period size: 65 Copynumber: 2.0 Consensus size: 65
9768063 AAACATTATA
* * *
9768073 TCAAACATCTTCCATACAAAAATTCAGTGCTAGAAAAGTATCCCTATGTACATAGAATTAAACAG
1 TCAAACATCTCCCATACAAAAATTCAGTGCTAGAAAAGCACCCCTATGTACATAGAATTAAACAG
* *
9768138 TCAAACGTCTCCCATACTAAAATTCAGTGCTAGAAAAGCACCCCTATGTACATAGAATTAAACAG
1 TCAAACATCTCCCATACAAAAATTCAGTGCTAGAAAAGCACCCCTATGTACATAGAATTAAACAG
9768203 CTACCAAAAG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 60 1.00
ACGTcount: A:0.42, C:0.22, G:0.12, T:0.25
Consensus pattern (65 bp):
TCAAACATCTCCCATACAAAAATTCAGTGCTAGAAAAGCACCCCTATGTACATAGAATTAAACAG
Found at i:9770589 original size:6 final size:6
Alignment explanation
Indices: 9770560--9770605 Score: 56
Period size: 6 Copynumber: 7.3 Consensus size: 6
9770550 TTTAATGATG
* *
9770560 TTAACAA TTAAAC TTAAATT TTAAAA TTAAAA TTAAAA TTAAAA TT
1 TTAA-AA TTAAAA TTAAA-A TTAAAA TTAAAA TTAAAA TTAAAA TT
9770606 TATAAAAGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
6 26 0.74
7 9 0.26
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (6 bp):
TTAAAA
Found at i:9783496 original size:3 final size:3
Alignment explanation
Indices: 9783488--9783519 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
9783478 CATTTTAGTA
9783488 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9783520 AAAAAGAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:9783870 original size:2 final size:2
Alignment explanation
Indices: 9783865--9783904 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
9783855 TAGGTATCTA
*
9783865 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9783905 GCTAAGTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:9784258 original size:30 final size:30
Alignment explanation
Indices: 9784222--9784326 Score: 156
Period size: 30 Copynumber: 3.5 Consensus size: 30
9784212 ACTACTCACT
9784222 CCTTTTCCACCACCAACTCCACTAGCCACA
1 CCTTTTCCACCACCAACTCCACTAGCCACA
* * **
9784252 CCTTTTCCACCACCAATTTCACTAGCCATT
1 CCTTTTCCACCACCAACTCCACTAGCCACA
*
9784282 CTTTTTCCACCACCAACTCCACTAGCCACA
1 CCTTTTCCACCACCAACTCCACTAGCCACA
*
9784312 CCTTCTCCACCACCA
1 CCTTTTCCACCACCA
9784327 CTTGTACCTA
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.25, C:0.48, G:0.03, T:0.25
Consensus pattern (30 bp):
CCTTTTCCACCACCAACTCCACTAGCCACA
Found at i:9784914 original size:27 final size:27
Alignment explanation
Indices: 9784884--9785013 Score: 83
Period size: 25 Copynumber: 5.0 Consensus size: 27
9784874 ATATTACGTA
*
9784884 TATATATATATTTTATACTATTTTA-T
1 TATATATATATTTTATACTATATTATT
* * *
9784910 T-TATATATCTTTAATATTATATTATT
1 TATATATATATTTTATACTATATTATT
* * *
9784936 TATATATATTTTTTTCTAC-ATGTTATCT
1 TATATATA-TATTTTATACTATATTAT-T
* * *
9784964 TATGTATATATCTTA-ACTATATTATG
1 TATATATATATTTTATACTATATTATT
* * *
9784990 TATGTAT-T-TTTAACACTATATTAT
1 TATATATATATTTTATACTATATTAT
9785014 GTACATATTT
Statistics
Matches: 81, Mismatches: 17, Indels: 13
0.73 0.15 0.12
Matches are distributed among these distances:
24 3 0.04
25 30 0.37
26 12 0.15
27 22 0.27
28 14 0.17
ACGTcount: A:0.32, C:0.07, G:0.03, T:0.58
Consensus pattern (27 bp):
TATATATATATTTTATACTATATTATT
Found at i:9784934 original size:25 final size:25
Alignment explanation
Indices: 9784886--9784946 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
9784876 ATTACGTATA
* *
9784886 TATATATATTTTATACTATTTTATT
1 TATATATATTTAATACTATATTATT
* *
9784911 TATATATCTTTAATATTATATTATT
1 TATATATATTTAATACTATATTATT
9784936 TATATATATTT
1 TATATATATTT
9784947 TTTTCTACAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (25 bp):
TATATATATTTAATACTATATTATT
Found at i:9784991 original size:22 final size:24
Alignment explanation
Indices: 9784963--9785021 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
9784953 ACATGTTATC
9784963 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
9784985 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
9785010 TTATGTACATAT
1 TTATGTATATAT
9785022 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:9785011 original size:25 final size:25
Alignment explanation
Indices: 9784979--9785027 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
9784969 ATATATCTTA
**
9784979 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
9785004 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
9785028 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:9785204 original size:16 final size:15
Alignment explanation
Indices: 9785180--9785227 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
9785170 TAATTATTAT
*
9785180 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
9785196 TATTTTAATATTTTA
1 TATTTTAATATTTTA
9785211 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
9785227 T
1 T
9785228 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:9785215 original size:7 final size:8
Alignment explanation
Indices: 9785180--9785231 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
9785170 TAATTATTAT
*
9785180 TATTCTAA
1 TATTTTAA
*
9785188 TATTTTGA
1 TATTTTAA
9785196 TATTTTAA
1 TATTTTAA
9785204 TATTTT-A
1 TATTTTAA
9785211 TATTTTATA
1 TATTTTA-A
*
9785220 TATTTTAT
1 TATTTTAA
9785228 TATT
1 TATT
9785232 CACATCATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:9795148 original size:71 final size:69
Alignment explanation
Indices: 9795050--9795223 Score: 217
Period size: 71 Copynumber: 2.5 Consensus size: 69
9795040 TTTTCAAGGG
* *
9795050 AAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTAT
9795114 GTTTT
65 GTTTT
** * *
9795119 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTA
1 --AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTA
9795184 TGTTTT
64 TGTTTT
** * *
9795190 AAATTGACTCATATTGCGA-AGGTGAGTTAAGCCT
1 AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
9795224 TTTAATTTTT
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
68 13 0.14
69 17 0.18
71 60 0.65
72 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.34
Consensus pattern (69 bp):
AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTTATG
TTTT
Found at i:9795342 original size:70 final size:71
Alignment explanation
Indices: 9795223--9795386 Score: 251
Period size: 70 Copynumber: 2.3 Consensus size: 71
9795213 GAGTTAAGCC
** * *
9795223 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTG-TTTTCAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
9795287 TGAGGTA
65 TGAGGTA
*
9795294 TTTTCAATTTTTGTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCT
1 TTTTCAATTTTTGTTTTCAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
9795358 GAGGTA
66 GAGGTA
*
9795364 TTTTCAATTTCTGTTTTCAATTT
1 TTTTCAATTTTTGTTTTCAATTT
9795387 ACGTTGTTCA
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
70 64 0.75
71 13 0.15
72 8 0.09
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.41
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTCAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCT
GAGGTA
Found at i:9795483 original size:140 final size:140
Alignment explanation
Indices: 9795319--9795945 Score: 1116
Period size: 140 Copynumber: 4.5 Consensus size: 140
9795309 TTAATTTCAA
9795319 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
9795384 TTTACGTTGTTCAAGAATCAACTCATATTGTGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
9795449 TCAAAATCAG
131 TCAAAATCAG
9795459 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
9795524 TTTACGTTGTTTAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
*
9795589 TCAAAATCAA
131 TCAAAATCAG
*
9795599 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTAAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
* *
9795664 TTTACGTTGTTCAAGAATCAACTCATATTGTGAGAAGTGGGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
9795729 TCAAAATCAG
131 TCAAAATCAG
9795739 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
*
9795804 TTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGT-GGTTGAACCTTTTAATTTCTACTTTT
66 TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
9795868 TCAAAATCAG
131 TCAAAATCAG
*
9795878 CTCATATTGCGAG-GGCTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATTTCTATCT
1 CTCATATTGCGAGAGG-TGAGTTGAGCCTCAGG-TCAC--GCTGAGGTATTTTCAATTTCTGT-T
9795941 TTCAA
61 TTCAA
9795946 AAAAAAAAAT
Statistics
Matches: 469, Mismatches: 13, Indels: 8
0.96 0.03 0.02
Matches are distributed among these distances:
138 4 0.01
139 66 0.14
140 371 0.79
141 22 0.05
142 6 0.01
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (140 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTCAATTTCTGTTTTCAA
TTTACGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTT
TCAAAATCAG
Found at i:9795802 original size:13 final size:13
Alignment explanation
Indices: 9795784--9795817 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
9795774 CGCTGAGGTA
*
9795784 TTTTCAATTTCTG
1 TTTTCAATTTATG
9795797 TTTTCAATTTATG
1 TTTTCAATTTATG
9795810 TTGTTCAA
1 TT-TTCAA
9795818 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:9796068 original size:72 final size:72
Alignment explanation
Indices: 9795951--9796091 Score: 282
Period size: 72 Copynumber: 2.0 Consensus size: 72
9795941 TTCAAAAAAA
9795951 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
9796016 TGTTTTC
66 TGTTTTC
9796023 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
9796088 TGTT
66 TGTT
9796092 CAAAATGAGT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 69 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (72 bp):
AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
TGTTTTC
Found at i:9796102 original size:49 final size:49
Alignment explanation
Indices: 9796045--9796140 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
9796035 ATATTGCGAG
*
9796045 AAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTCA
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
9796094 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
1 AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTT
9796141 TTCAAAATTC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (49 bp):
AAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTCA
Found at i:9796284 original size:78 final size:75
Alignment explanation
Indices: 9796097--9797261 Score: 769
Period size: 77 Copynumber: 15.1 Consensus size: 75
9796087 CTGTTCAAAA
* * *
9796097 TGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTG-TTTTC--AAAATTCAACTCATA
1 TGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATA
**
9796159 TTGCGAGAAA
66 TTGCGAGAGG
*
9796169 TTAGTTGAGCCTCAA-ACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAAATCAACTC
1 TGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTC---AAAAAAATCAACTC
* **
9796233 ATATTGTGAGAAA
63 ATATTGCGAGAGG
9796246 TGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATA
1 TGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATA
9796311 TTGCGAGAGG
66 TTGCGAGAGG
* * * * * *
9796321 TGAGTTGAGCC-CAGGACACGCTGAGGTAATTTCAATTTCTG-TTGTCAAAAAAATTAACTCGTA
1 TGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATA
*
9796384 TTGTGAGAGG
66 TTGCGAGAGG
* * * ** **
9796394 CGAGTTGAGCCTCAGGTCACACTGAGGTATTTTCAATTTCCATTTTTCAATTTCTGCCTTTCAAA
1 TGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAA------------AAA
** * * *
9796459 AAAAAAATCA-ACT-C-ATATTGCG
54 AATCAACTCATATTGCGAGA--G-G
* * * * * * * *
9796481 AGAGGTGAGTTGAGCCCCAGGACACGCTGAGGTAATTTC---TTC--TTTGTCAAAAAAATTAAC
1 TGAGTTGAG-----CCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAAC
9796541 TCATATTGCGAGAGG
61 TCATATTGCGAGAGG
* * *
9796556 TGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAATTTCCATTTTCAATTTTTTTCAAAAAA
1 TGAGTTGAGCCTCA-A-GACATGCTGAGGTATTTTC-A-----A-TTTC--TGTTTTTC--AAAA
9796621 AAATCAACTCATATTGCGAGA-G
53 AAATCAACTCATATTGCGAGAGG
** ** *
9796643 TGAGTTGAGCCTTGGC-TCACGCGCTGAGCTATTTTCAATTTCTG-TTTTC-AAAAAATCAACTC
1 TGAGTTGAGCC-T--CAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
9796705 ATATTGCG-GAGG
63 ATATTGCGAGAGG
*
9796717 TGAGTTGAGCTTC-AGATCA--CTGAGGTATTTTCAATTT-T-TTTTTCAAAAAAATCAACTCAT
1 TGAGTTGAGCCTCAAGA-CATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCAT
9796777 ATTGCGAGA-G
65 ATTGCGAGAGG
** **
9796787 TGAGTTGAGCCTCGGGTCACATGCTCGAGAGCTATTTTCAATTT-T-TTTTTCTTCAAAAATCAA
1 TGAGTTGAGCCTCAAG--ACATGCT-GAG-G-TATTTTCAATTTCTGTTTTTC-AAAAAAATCAA
9796850 CTCATATTGCGAGAGG
60 CTCATATTGCGAGAGG
**
9796866 TGAGTTGAGCCTTTCAATTTC-TGC-GAGAGTATTTTCTTTTAATTT-TGTTTTTC--AAAAATC
1 TGAGTTGAGCC--TCAA-GACATGCTGAG-GTATTTTC----AATTTCTGTTTTTCAAAAAAATC
9796926 AACTCATATTGCGAGAGG
58 AACTCATATTGCGAGAGG
*
9796944 TGAGTTGAGCCTTC-AGTCACAT-ATCGAGGTATTTTCAATTTCT-TTTCAAGTT-AAGTTTCAA
1 TGAGTTGAGCC-TCAAG--ACATGCT-GAGGTATTTTCAATTTCTGTTT----TTCAA-----AA
9797005 AAATCAACTCATATTGCGAGAGG
53 AAATCAACTCATATTGCGAGAGG
** * * *
9797028 TGAGTTGAGCCTTTGC-TCACATGCTGAGCTATTTTCAATTTCTGCTTTTCAAAAGAATCAACTC
1 TGAGTTGAGCC--T-CAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
9797092 ATATTGCGAGAGG
63 ATATTGCGAGAGG
** * * *
9797105 TGAGTTGAGCCTTTGC-TCACATGCTGAGCTATTTTCAATTTCTGCTTTTCAAAAGAATCAACTC
1 TGAGTTGAGCC--T-CAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTC
9797169 ATATTGCGAGAGG
63 ATATTGCGAGAGG
** * *
9797182 TGAGTTGAGCCTC-TCACACGCTGAGCG--TTTTCAATTTCTGCTTTTC--AAAAATCAACTCAT
1 TGAGTTGAGCCTCAAGACATGCTGAG-GTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCAT
9797242 ATTGCGAGAGG
65 ATTGCGAGAGG
9797253 TGAGTTGAG
1 TGAGTTGAG
9797262 TCTCGGGCCA
Statistics
Matches: 915, Mismatches: 79, Indels: 199
0.77 0.07 0.17
Matches are distributed among these distances:
69 6 0.01
70 55 0.06
71 62 0.07
72 39 0.04
73 61 0.07
74 106 0.12
75 64 0.07
76 12 0.01
77 183 0.20
78 105 0.11
79 18 0.02
80 11 0.01
81 11 0.01
82 5 0.01
84 59 0.06
85 5 0.01
86 10 0.01
87 53 0.06
88 25 0.03
89 3 0.00
90 1 0.00
92 21 0.02
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (75 bp):
TGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATA
TTGCGAGAGG
Found at i:9796542 original size:162 final size:159
Alignment explanation
Indices: 9796294--9796753 Score: 600
Period size: 162 Copynumber: 2.9 Consensus size: 159
9796284 TCTGTTTTTC
9796294 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CCCAGGACACGCTGAGGTAATTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGGTAATTTC-A-T
* * *
9796358 TCTGTTGTCAAAAAAATTAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTCACA-CTGAGGT
64 TCTGTTGTCAAAAAAATTAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGATCACACCTGAGGT
9796422 ATTTTCAATTTCCATTTTTCAATTTCTGCCTTTCAAA
129 ATTTTCAATTTCCA-TTTTCAATTT-T---TTTC-AA
9796459 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGGTAATTTC-TTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGGTAATTTCATTC
*
9796523 T-TTGTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTA
66 TGTTGTCAAAAAAATTAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGATCACAC-CTGAGGTA
9796587 TTTTCAATTTCCATTTTCAATTTTTTTCAA
130 TTTTCAATTTCCATTTTCAATTTTTTTCAA
** * * *
9796617 AAAAAAATCAACTCATATTGCGAGA-GTGAGTTGAG-CCTTGGCTCACGCGCTGAGCTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGG---ACACGCTGAGGTAATTTC-
* * * *
9796680 ATTTCTGTTTTC-AAAAAATCAACTCATATTGCG-GAGGTGAGTTGAGCTTCAGAT--CA-CTGA
62 A-TTCTGTTGTCAAAAAAATTAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGATCACACCTGA
9796740 GGTATTTTCAATTT
126 GGTATTTTCAATTT
9796754 TTTTTTCAAA
Statistics
Matches: 273, Mismatches: 12, Indels: 28
0.87 0.04 0.09
Matches are distributed among these distances:
156 4 0.01
157 28 0.10
158 27 0.10
159 21 0.08
161 20 0.07
162 74 0.27
163 18 0.07
164 21 0.08
165 36 0.13
166 24 0.09
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (159 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCAGGACACGCTGAGGTAATTTCATTC
TGTTGTCAAAAAAATTAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGATCACACCTGAGGTAT
TTTCAATTTCCATTTTCAATTTTTTTCAA
Found at i:9796676 original size:87 final size:88
Alignment explanation
Indices: 9796529--9796693 Score: 251
Period size: 87 Copynumber: 1.9 Consensus size: 88
9796519 CTTCTTTGTC
* *
9796529 AAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGCTATTTTCAA
9796594 TTTCCATTTTCAATTTTTTTCAA
66 TTTCCATTTTCAATTTTTTTCAA
** * *
9796617 AAAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGCTATTTTCAA
**
9796681 TTTCTGTTTTCAA
66 TTTCCATTTTCAA
9796694 AAAATCAACT
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
87 45 0.65
88 24 0.35
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (88 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGCTATTTTCAA
TTTCCATTTTCAATTTTTTTCAA
Found at i:9797280 original size:148 final size:151
Alignment explanation
Indices: 9796617--9797301 Score: 594
Period size: 148 Copynumber: 4.5 Consensus size: 151
9796607 TTTTTTTCAA
* * * *
9796617 AAAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAA
1 AAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTGGGCTCACACACTGAGCTATTTTCAA
* * *
9796681 TTTCTG-TTTTCAAAAAATCAACTCATATTGCG-GAGGTGAGTTGAG-C-T--TCAGATCACTGA
66 ATTCTGCTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGCTCACA-CGCTGA
* *
9796740 GGTATTTTCAATTT-T-TTTTTC
129 GCTATTTTCAATTTCTGCTTTTC
* * *
9796761 AAAAAAATCAACTCATATTGCGAGA-GTGAGTTGAGCCTCGGG-TCACATGCTCGAGAGCTATTT
1 AAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-GGGCTCACA--CAC-TGAGCTATTT
* * **
9796824 TCAATTTTTTTTTCTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT--TCA-ATTT
62 TCAAATTCTGCTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGCTCACA---
* *
9796886 CTGC-GAGAGTATTTTCTTTTAATTT-TGTTTTTC
123 C-GCTGAG-CTATTTTC----AATTTCTGCTTTTC
** * *
9796919 -AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTCAG-TCACATA-TCGAGGTATTTTC
1 AAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TGGGCTCACACACT-GAGCTATTTTC
* *
9796980 AATTTCTTTTCAAGTTAAGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTGCT
64 AAATTC---T---GCT---TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TTGCT
*
9797045 CACATGCTGAGCTATTTTCAATTTCTGCTTTTC
119 CACACGCTGAGCTATTTTCAATTTCTGCTTTTC
** **
9797078 AAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTGCTCACATGCTGAGCTATTTTCAA
1 AAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTGGGCTCACACACTGAGCTATTTTCAA
*
9797143 TTTCTGCTTTTCAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T-CTCACACGCTGA
66 ATTCTGCTTTTC-AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGCTCACACGCTGA
*
9797206 GC-GTTTTCAATTTCTGCTTTTC
129 GCTATTTTCAATTTCTGCTTTTC
* * *
9797228 -AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGC-CACACACTGAGGTCTTTTCA
1 AAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-GGGCTCACACACTGAGCTATTTTCA
*
9797290 AATTCTGTTTTT
65 AATTCTGCTTTT
9797302 AATTTCTGCT
Statistics
Matches: 464, Mismatches: 34, Indels: 82
0.80 0.06 0.14
Matches are distributed among these distances:
144 42 0.09
145 2 0.00
146 2 0.00
147 17 0.04
148 81 0.17
149 21 0.05
150 21 0.05
151 17 0.04
152 10 0.02
153 12 0.03
154 48 0.10
155 2 0.00
156 20 0.04
157 28 0.06
158 13 0.03
159 7 0.02
160 7 0.02
161 55 0.12
162 49 0.11
163 6 0.01
165 3 0.01
166 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.35
Consensus pattern (151 bp):
AAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTGGGCTCACACACTGAGCTATTTTCAA
ATTCTGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGCTCACACGCTGAGC
TATTTTCAATTTCTGCTTTTC
Found at i:9798184 original size:30 final size:30
Alignment explanation
Indices: 9798148--9798262 Score: 185
Period size: 30 Copynumber: 3.8 Consensus size: 30
9798138 ACTTTTCTCA
*
9798148 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
9798178 ACTAGCCACACCTTTTCCACCACTAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
9798208 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
9798238 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACACCTTTTCCACCACCA
9798263 CTTGTACCTA
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 77 1.00
ACGTcount: A:0.25, C:0.49, G:0.03, T:0.23
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:9798215 original size:60 final size:60
Alignment explanation
Indices: 9798148--9798260 Score: 208
Period size: 60 Copynumber: 1.9 Consensus size: 60
9798138 ACTTTTCTCA
*
9798148 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACTAACTCC
1 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCACTAACTCC
*
9798208 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCAC
1 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCAC
9798261 CACTTGTACC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.25, C:0.49, G:0.04, T:0.23
Consensus pattern (60 bp):
ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCACTAACTCC
Found at i:9798875 original size:25 final size:25
Alignment explanation
Indices: 9798827--9798887 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
9798817 ATTACGTATA
* *
9798827 TATATATATTTTATACTATTTTATT
1 TATATATATTTAATACTATATTATT
* *
9798852 TATATATCTTTAATATTATATTATT
1 TATATATATTTAATACTATATTATT
9798877 TATATATATTT
1 TATATATATTT
9798888 TTTTTCTACA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (25 bp):
TATATATATTTAATACTATATTATT
Found at i:9798933 original size:22 final size:24
Alignment explanation
Indices: 9798905--9798963 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
9798895 ACATGTTATC
9798905 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
9798927 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
9798952 TTATGTACATAT
1 TTATGTATATAT
9798964 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:9798953 original size:25 final size:25
Alignment explanation
Indices: 9798921--9798969 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
9798911 ATATATCTTA
**
9798921 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
9798946 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
9798970 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:9799144 original size:16 final size:15
Alignment explanation
Indices: 9799123--9799170 Score: 78
Period size: 16 Copynumber: 3.1 Consensus size: 15
9799113 TAATTATTAT
9799123 TATTTTAATATTTTGA
1 TATTTTAATATTTT-A
9799139 TATTTTAATATTTTA
1 TATTTTAATATTTTA
9799154 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
9799170 T
1 T
9799171 TATTCACATC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.26
16 23 0.74
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:9799158 original size:7 final size:8
Alignment explanation
Indices: 9799123--9799174 Score: 70
Period size: 8 Copynumber: 6.5 Consensus size: 8
9799113 TAATTATTAT
9799123 TATTTTAA
1 TATTTTAA
*
9799131 TATTTTGA
1 TATTTTAA
9799139 TATTTTAA
1 TATTTTAA
9799147 TATTTT-A
1 TATTTTAA
9799154 TATTTTATA
1 TATTTTA-A
*
9799163 TATTTTAT
1 TATTTTAA
9799171 TATT
1 TATT
9799175 CACATCATTG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.62
9 8 0.21
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (8 bp):
TATTTTAA
Found at i:9799174 original size:24 final size:24
Alignment explanation
Indices: 9799119--9799174 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
9799109 ATATTAATTA
9799119 TTATTATTTTAATATTTTGATATT
1 TTATTATTTTAATATTTTGATATT
* *
9799143 TTAATATTTT-ATATTTTATATATT
1 TTATTATTTTAATATTTT-GATATT
9799167 TTATTATT
1 TTATTATT
9799175 CACATCATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 7 0.25
24 21 0.75
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (24 bp):
TTATTATTTTAATATTTTGATATT
Found at i:9800009 original size:7 final size:7
Alignment explanation
Indices: 9799999--9800024 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
9799989 CTAACCATAT
9799999 TAAAAAA
1 TAAAAAA
9800006 TAAAAAA
1 TAAAAAA
9800013 TAAAAAA
1 TAAAAAA
9800020 TAAAA
1 TAAAA
9800025 GGATAAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:9802654 original size:19 final size:19
Alignment explanation
Indices: 9802596--9802646 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
9802586 ATTATTTTTA
9802596 TTAAAATAATATGAA-TTAAT
1 TTAAAATAAT-T-AACTTAAT
*
9802616 TTAAAATATTTAACTTAAT
1 TTAAAATAATTAACTTAAT
9802635 TT-AAATAATTAA
1 TTAAAATAATTAA
9802647 TTATAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 11 0.39
19 8 0.29
20 9 0.32
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
TTAAAATAATTAACTTAAT
Found at i:9802751 original size:16 final size:17
Alignment explanation
Indices: 9802720--9802779 Score: 63
Period size: 16 Copynumber: 3.7 Consensus size: 17
9802710 AATATTAAAA
9802720 TATTTTTAAATAAATAT
1 TATTTTTAAATAAATAT
9802737 TATTTTTAAAT-AATAT
1 TATTTTTAAATAAATAT
* ** *
9802753 TGTAATTAATTAAA-AT
1 TATTTTTAAATAAATAT
9802769 TA-TTTTAAATA
1 TATTTTTAAATA
9802780 TTAAATTTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
15 6 0.18
16 15 0.44
17 13 0.38
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
TATTTTTAAATAAATAT
Found at i:9805382 original size:34 final size:33
Alignment explanation
Indices: 9805321--9805440 Score: 114
Period size: 34 Copynumber: 3.5 Consensus size: 33
9805311 CTCATGCAAT
* * *
9805321 GCAATGTAACATGCTTATAGCATATCAATTCGATA
1 GCAAT-TAATATGCTTATAACAGATCAATT-GATA
* *
9805356 GCATTTAATATGCTTATAACAGATCAATAAGATA
1 GCAATTAATATGCTTATAACAGATCAAT-TGATA
* * * * *
9805390 ACAATTAATATGTTTATAATAGTTCAATATGGTA
1 GCAATTAATATGCTTATAACAGATCAAT-TGATA
9805424 GCAATTAATATGCTTAT
1 GCAATTAATATGCTTAT
9805441 CATAAATCAA
Statistics
Matches: 70, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
34 66 0.94
35 4 0.06
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (33 bp):
GCAATTAATATGCTTATAACAGATCAATTGATA
Found at i:9805451 original size:34 final size:34
Alignment explanation
Indices: 9805352--9805451 Score: 119
Period size: 34 Copynumber: 2.9 Consensus size: 34
9805342 ATATCAATTC
* *
9805352 GATAGCATTTAATATGCTTATAACAGATCAATAA
1 GATAGCAATTAATATGCTTATAATAGATCAATAA
* * * *
9805386 GATAACAATTAATATGTTTATAATAGTTCAATAT
1 GATAGCAATTAATATGCTTATAATAGATCAATAA
* * *
9805420 GGTAGCAATTAATATGCTTATCATAAATCAAT
1 GATAGCAATTAATATGCTTATAATAGATCAAT
9805452 TCAACAGTAA
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 54 1.00
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (34 bp):
GATAGCAATTAATATGCTTATAATAGATCAATAA
Found at i:9808340 original size:28 final size:28
Alignment explanation
Indices: 9808309--9808408 Score: 94
Period size: 28 Copynumber: 3.6 Consensus size: 28
9808299 GTTAAGTTCG
* *
9808309 CTTTGTGTGAGCTCTTTGTTTGGCTCTA
1 CTTTGTGCGAGCTCTCTGTTTGGCTCTA
* * ** ** *
9808337 CTTTATGCAAGCTCTCTACTAAGTTC-A
1 CTTTGTGCGAGCTCTCTGTTTGGCTCTA
*
9808364 TTTTGTGCGAGCTCTCTGTTTGGCTCTA
1 CTTTGTGCGAGCTCTCTGTTTGGCTCTA
*
9808392 CTTTGTGTGAGCTCTCT
1 CTTTGTGCGAGCTCTCT
9808409 ATTTAGCTTT
Statistics
Matches: 52, Mismatches: 19, Indels: 2
0.71 0.26 0.03
Matches are distributed among these distances:
27 19 0.37
28 33 0.63
ACGTcount: A:0.12, C:0.22, G:0.21, T:0.45
Consensus pattern (28 bp):
CTTTGTGCGAGCTCTCTGTTTGGCTCTA
Found at i:9808369 original size:55 final size:55
Alignment explanation
Indices: 9808284--9808409 Score: 155
Period size: 55 Copynumber: 2.3 Consensus size: 55
9808274 AAAGCACAAA
* ** * * *
9808284 TTTATGCAAGCT-TATGTTAAGTTCGCTTTGTGTGAGCTCTTTGTTTGGCTCTAC
1 TTTATGCAAGCTCTCTACTAAGTTCACTTTGTGCGAGCTCTCTGTTTGGCTCTAC
*
9808338 TTTATGCAAGCTCTCTACTAAGTTCATTTTGTGCGAGCTCTCTGTTTGGCTCTAC
1 TTTATGCAAGCTCTCTACTAAGTTCACTTTGTGCGAGCTCTCTGTTTGGCTCTAC
* **
9808393 TTTGTGTGAGCTCTCTA
1 TTTATGCAAGCTCTCTA
9808410 TTTAGCTTTG
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
54 12 0.20
55 49 0.80
ACGTcount: A:0.15, C:0.20, G:0.21, T:0.44
Consensus pattern (55 bp):
TTTATGCAAGCTCTCTACTAAGTTCACTTTGTGCGAGCTCTCTGTTTGGCTCTAC
Found at i:9808569 original size:41 final size:41
Alignment explanation
Indices: 9808510--9808587 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
9808500 GTTAAGTCTC
* *
9808510 ACTCTGCGTGTTCTTTGAGAGCATGAGCTTTTGTGAGCCTT
1 ACTCTGCGTGCTCATTGAGAGCATGAGCTTTTGTGAGCCTT
*
9808551 ACTCTGCGTGCTCATTGAGAGCATGGGCTTTTGTGAG
1 ACTCTGCGTGCTCATTGAGAGCATGAGCTTTTGTGAG
9808588 ATTTGTGATA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.15, C:0.19, G:0.29, T:0.36
Consensus pattern (41 bp):
ACTCTGCGTGCTCATTGAGAGCATGAGCTTTTGTGAGCCTT
Found at i:9811322 original size:22 final size:22
Alignment explanation
Indices: 9811290--9811337 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
9811280 AAGTGAGGTT
*
9811290 CAAAGAGAATTACAATTATTGA
1 CAAAGAAAATTACAATTATTGA
9811312 CAAAGAAAATTACAATTATTGA
1 CAAAGAAAATTACAATTATTGA
9811334 CAAA
1 CAAA
9811338 CAATATAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.54, C:0.10, G:0.10, T:0.25
Consensus pattern (22 bp):
CAAAGAAAATTACAATTATTGA
Found at i:9813037 original size:11 final size:11
Alignment explanation
Indices: 9813023--9813068 Score: 60
Period size: 11 Copynumber: 4.4 Consensus size: 11
9813013 ATCCTCTCAC
9813023 AATTCTCTCTA
1 AATTCTCTCTA
*
9813034 AATTCTTTCTA
1 AATTCTCTCTA
9813045 AATTCTCTC-A
1 AATTCTCTCTA
*
9813055 AATT-TCTCTC
1 AATTCTCTCTA
9813065 AATT
1 AATT
9813069 TTTGTTAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
9 4 0.13
10 9 0.29
11 18 0.58
ACGTcount: A:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (11 bp):
AATTCTCTCTA
Found at i:9815581 original size:14 final size:15
Alignment explanation
Indices: 9815555--9815584 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
9815545 GCCAATATTT
9815555 TTTATTATTTTTATA
1 TTTATTATTTTTATA
9815570 TTTATT-TTTTTATA
1 TTTATTATTTTTATA
9815584 T
1 T
9815585 AGTTTTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTATTATTTTTATA
Found at i:9815662 original size:131 final size:129
Alignment explanation
Indices: 9815317--9815692 Score: 650
Period size: 131 Copynumber: 2.9 Consensus size: 129
9815307 TTGTAGAAAC
* *
9815317 TTTTTTATATAG-TTTCATATAATGAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTT
1 TTTTTTATATAGTTTTAAT-TAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTT
9815381 TTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATT-TTTTTATATTTA
65 TTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTATTTTTATATTTA
9815445 -TTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
1 TTTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
9815509 TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTTATTATTTTTATATTTA
66 TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATA-TTTTTATTATTTTTATATTTA
9815574 TTTTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTT
1 -TTTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTT
* * *
9815639 TTTTTAATTTTAATACAATAAATGTTTTTTTAAATTAGCCAATAATTTTTATTA
65 TTTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAAT-ATTTTTATTA
9815693 AGATAAATGT
Statistics
Matches: 237, Mismatches: 5, Indels: 9
0.94 0.02 0.04
Matches are distributed among these distances:
127 99 0.42
128 13 0.05
129 12 0.05
131 112 0.47
132 1 0.00
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.57
Consensus pattern (129 bp):
TTTTTTATATAGTTTTAATTAATAAAATAAAAGTTGTTTTTAATATTTTAATTGTACTTTACTTT
TTTTAATTTTATTAAAATAAATGTTCTTTTAAATTAGCCAATATTTTTATTATTTTTATATTTA
Found at i:9819194 original size:127 final size:125
Alignment explanation
Indices: 9818769--9819203 Score: 676
Period size: 126 Copynumber: 3.5 Consensus size: 125
9818759 AGTCTAAGGC
* * * * * *
9818769 TTTTTCAGATACTACTATAGC-AAAAGAGTGTCCATATGGGAGCTTTTTTCTGTAATTTTGCTGA
1 TTTTTCAGATACTACTGTAGCAAAAAAAG-GTCCACATGGGAGATTTTTTCCGTAATTTTGCTAA
* *
9818833 CAGTACATCCTTCTTGAAGTGTTTTTGACACTATTTGTTCAGAAATATCTTCTCAAATTTT
65 CAGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAATATCTTCTCAAATTTT
*
9818894 TTTTTCAGATACTACTGTAGCAAAAAAAGGTCCACGTGGGAGATTTTTTTCCGTAATTTTGCTAA
1 TTTTTCAGATACTACTGTAGCAAAAAAAGGTCCACATGGGAGA-TTTTTTCCGTAATTTTGCTAA
9818959 CAGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAATATCTTCTCAAATTTT
65 CAGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAATATCTTCTCAAATTTT
*
9819020 TTTTTCAGATACTACTGTAGCAAAAAAAGGTCCACGTGGGAGATTTTTTTCCGTAATTTTGCTAA
1 TTTTTCAGATACTACTGTAGCAAAAAAAGGTCCACATGGGAGA-TTTTTTCCGTAATTTTGCTAA
* *
9819085 CAGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAATATCTTTTCAAAATTAT
65 CAGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAATATCTTCTC-AAATTTT
* * *
9819147 TTTTTCAGATACTATTGTAGC-AAAAGAGCGTCCACATGGGAGCTTTTTTCCGTAATT
1 TTTTTCAGATACTACTGTAGCAAAAAAAG-GTCCACATGGGAGATTTTTTCCGTAATT
9819204 AATAGTTAAT
Statistics
Matches: 291, Mismatches: 15, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
125 31 0.11
126 222 0.76
127 38 0.13
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.40
Consensus pattern (125 bp):
TTTTTCAGATACTACTGTAGCAAAAAAAGGTCCACATGGGAGATTTTTTCCGTAATTTTGCTAAC
AGTGCATCCTTCTTGAAGCGTTTTTGACACTATTTGTTCAGAAATATCTTCTCAAATTTT
Found at i:9819357 original size:24 final size:24
Alignment explanation
Indices: 9819320--9819365 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
9819310 TAATTTTTTC
9819320 TTAAAAACACTAAAACC-CTAAATA
1 TTAAAAACACT-AAACCACTAAATA
9819344 TTAAAAAC-CTTAAACCACTAAA
1 TTAAAAACAC-TAAACCACTAAA
9819366 CACTAACCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.57, C:0.22, G:0.00, T:0.22
Consensus pattern (24 bp):
TTAAAAACACTAAACCACTAAATA
Found at i:9819559 original size:29 final size:30
Alignment explanation
Indices: 9819513--9819573 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
9819503 TAAAATCCTA
* *
9819513 AACCCTAAAAACCAT-AAACCATTAAACCTT
1 AACCCTAAAAACAATAAAAACATT-AACCTT
9819543 AACCCT-AAAACAATAAAAACATTAACCTT
1 AACCCTAAAAACAATAAAAACATTAACCTT
9819572 AA
1 AA
9819574 AAACCCTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 15 0.54
30 13 0.46
ACGTcount: A:0.54, C:0.26, G:0.00, T:0.20
Consensus pattern (30 bp):
AACCCTAAAAACAATAAAAACATTAACCTT
Found at i:9819646 original size:175 final size:170
Alignment explanation
Indices: 9819231--9819888 Score: 857
Period size: 175 Copynumber: 3.8 Consensus size: 170
9819221 ATAAACCCTA
* *
9819231 AAAAACCCTAAACCCTAATTTAATTAATTTTTTTAATTTCATAGTTAATTTGATTAATTAATCCT
1 AAAAACCCTAAACCCTAATTTAATTAATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCCT
* * *** *
9819296 CAAATCTAATT-AATTAATTTTT-TCTT-AAAAACACTAAAACCCTAAATATTAAAAACCTTAAA
66 CAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCCTAAAAACCATAAA
*
9819358 CCACTAAACACTAACCCTAAAAAAATAAAAA-ATCCTAACCTT
131 CCACTAAAC-CTAACCCTAAAACAATAAAAACAT--TAACCTT
** *
9819400 AAAAAACTTTAAACCCTAATTTAATTAATTTTTTTAATTTCATAGTTAATTTGATTAATTAACCC
1 -AAAAACCCTAAACCCTAATTTAATTAATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCC
** * *
9819465 TCAACTCTAATTAAATTAATTTTTCCCTTAAAAATTATTAAAATCCTAAACCCTAAAAACCATAA
65 TCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCCTAAAAACCATAA
*
9819530 ACCATTAAACCTTAACCCTAAAACAATAAAAACATTAACCTT
130 ACCACTAAACC-TAACCCTAAAACAATAAAAACATTAACCTT
*
9819572 AAAAACCCTAAACCCTAATTTAATTGATTTTTTTTTTAAATTTCATAGTTAATTTAATTAATTAA
1 AAAAACCCTAAACCCTAATTTAATT-A--ATTTTTTT-AATTTCATAGTTAATTTAATTAATTAA
* * *
9819637 CCCTCAACTCTAATTAAATTAATTTTGCCCTTAAAAAACATTGAAACCCTAAACCCTAAAAACCA
62 CCCTCAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCCTAAAAACCA
** *
9819702 TAAACCACTAAACCCTAACCCTAAAACAATCAAAAACCCTAACCATAA
127 TAAACCACTAAA-CCTAACCCTAAAACAAT-AAAAACATTAACC-T-T
* *
9819750 AAAAATCTTAAACCCTAATTTAATTAA-TTTTTTAATTTCATAGTTAATTTAATTAATTAACCCT
1 AAAAACCCTAAACCCTAATTTAATTAATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCCT
* * *
9819814 CAACTCAAATTAAATTAA-TTTTCCCTTAAAAAACACTAAAATCTTAAACCCT--AAACCACTAA
66 CAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCCTAAAAACCA-TAA
*
9819876 ACC-CTAACCCTAA
130 ACCACTAAACCTAA
9819889 AATAATCAAA
Statistics
Matches: 436, Mismatches: 38, Indels: 29
0.87 0.08 0.06
Matches are distributed among these distances:
169 5 0.01
170 82 0.19
171 40 0.09
172 41 0.09
173 103 0.24
174 15 0.03
175 112 0.26
176 13 0.03
177 2 0.00
178 23 0.05
ACGTcount: A:0.45, C:0.20, G:0.01, T:0.34
Consensus pattern (170 bp):
AAAAACCCTAAACCCTAATTTAATTAATTTTTTTAATTTCATAGTTAATTTAATTAATTAACCCT
CAACTCTAATTAAATTAATTTTTCCCTTAAAAAACACTAAAACCCTAAACCCTAAAAACCATAAA
CCACTAAACCTAACCCTAAAACAATAAAAACATTAACCTT
Found at i:9819692 original size:7 final size:7
Alignment explanation
Indices: 9819680--9819726 Score: 51
Period size: 7 Copynumber: 6.4 Consensus size: 7
9819670 AAAAACATTG
9819680 AAACCCT
1 AAACCCT
9819687 AAACCCT
1 AAACCCT
*
9819694 AAAAACCAT
1 --AAACCCT
9819703 AAACCACT
1 AAACC-CT
9819711 AAACCCT
1 AAACCCT
9819718 -AACCCT
1 AAACCCT
9819724 AAA
1 AAA
9819727 ACAATCAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
6 6 0.18
7 16 0.47
8 6 0.18
9 6 0.18
ACGTcount: A:0.51, C:0.36, G:0.00, T:0.13
Consensus pattern (7 bp):
AAACCCT
Found at i:9819705 original size:16 final size:17
Alignment explanation
Indices: 9819680--9819713 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
9819670 AAAAACATTG
*
9819680 AAACCCTAAACC-CTAA
1 AAACCATAAACCACTAA
9819696 AAACCATAAACCACTAA
1 AAACCATAAACCACTAA
9819713 A
1 A
9819714 CCCTAACCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.56, C:0.32, G:0.00, T:0.12
Consensus pattern (17 bp):
AAACCATAAACCACTAA
Found at i:9819738 original size:24 final size:24
Alignment explanation
Indices: 9819711--9819767 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
9819701 ATAAACCACT
* *
9819711 AAACCCTAACCCTAAAACAATCAA
1 AAACCCTAACCATAAAAAAATCAA
**
9819735 AAACCCTAACCATAAAAAAATCTT
1 AAACCCTAACCATAAAAAAATCAA
9819759 AAACCCTAA
1 AAACCCTAA
9819768 TTTAATTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.54, C:0.30, G:0.00, T:0.16
Consensus pattern (24 bp):
AAACCCTAACCATAAAAAAATCAA
Found at i:9820147 original size:13 final size:13
Alignment explanation
Indices: 9820129--9820155 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
9820119 ATGATCGAAT
9820129 TCGAAAGATTACA
1 TCGAAAGATTACA
9820142 TCGAAAGATTACA
1 TCGAAAGATTACA
9820155 T
1 T
9820156 TGGCATCGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (13 bp):
TCGAAAGATTACA
Found at i:9823413 original size:5 final size:5
Alignment explanation
Indices: 9823403--9823449 Score: 71
Period size: 5 Copynumber: 9.8 Consensus size: 5
9823393 TTATTTGTTT
*
9823403 TATAA TATAA TATAA TATAA CATAA TATAA TAT-A TATAA TAT-A TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
9823450 CTTAATTATT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
4 8 0.21
5 30 0.79
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:9825949 original size:25 final size:26
Alignment explanation
Indices: 9825909--9826103 Score: 83
Period size: 25 Copynumber: 7.4 Consensus size: 26
9825899 AGAAAAGAAA
*
9825909 ATTATTAAGTTTAATAA--TTATTTAAT
1 ATTATT-ATTTTAATAATGTTA-TTAAT
9825935 ATTATTATTTTAATAATGTTATTAAT
1 ATTATTATTTTAATAATGTTATTAAT
*
9825961 -TTATTATTTTTTATACTTAAAT-TTTTTAAT
1 ATTATTA--TTTTA-A--T-AATGTTATTAAT
* * *
9825991 AATTTTGAAATTAAGTTTCATAAT-TTTTTAAT
1 -A--TT---ATT-ATTTTAATAATGTTATTAAT
* * *
9826023 ATTATTATTTGAATAA--TTCTGAA-
1 ATTATTATTTTAATAATGTTATTAAT
*
9826046 ATTA-TGT-TTAATAAT-TT-TTAAT
1 ATTATTATTTTAATAATGTTATTAAT
9826068 ATTATTATTTTAATAATGTTATTAAT
1 ATTATTATTTTAATAATGTTATTAAT
9826094 -TTATTATTTT
1 ATTATTATTTT
9826104 TTATACTTAA
Statistics
Matches: 134, Mismatches: 13, Indels: 45
0.70 0.07 0.23
Matches are distributed among these distances:
21 9 0.07
22 8 0.06
23 6 0.04
24 13 0.10
25 34 0.25
26 19 0.14
27 8 0.06
28 1 0.01
29 2 0.01
30 8 0.06
31 4 0.03
32 11 0.08
33 1 0.01
34 2 0.01
35 1 0.01
36 3 0.02
37 3 0.02
38 1 0.01
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (26 bp):
ATTATTATTTTAATAATGTTATTAAT
Found at i:9826059 original size:21 final size:21
Alignment explanation
Indices: 9825985--9826159 Score: 81
Period size: 21 Copynumber: 8.0 Consensus size: 21
9825975 ACTTAAATTT
*
9825985 TTTAATAATTTTGAAATTAAG
1 TTTAATAATTTTGAAATTATG
* * *
9826006 TTTCATAATTTTTTAATATTATTA
1 TTTAATAA-TTTTGAA-ATTA-TG
*
9826030 TTTGAATAATTCTGAAATTATG
1 TTT-AATAATTTTGAAATTATG
* *
9826052 TTTAATAATTTTTAATATTATTAT
1 TTTAATAATTTTGAA-ATTA-T-G
* *
9826076 TTTAATAATGTTATTAATTTATTATT
1 TTTAATAAT-TT-TGAA---ATTATG
* *
9826102 TTTTAT-A-CTT-AAATT-T-
1 TTTAATAATTTTGAAATTATG
*
9826118 TTTAATAATTTTGAAATTAAG
1 TTTAATAATTTTGAAATTATG
*
9826139 TTTAATAATTTTTAATATTAT
1 TTTAATAATTTTGAA-ATTAT
9826160 TATTTTAATA
Statistics
Matches: 119, Mismatches: 18, Indels: 33
0.70 0.11 0.19
Matches are distributed among these distances:
16 5 0.04
17 2 0.02
18 5 0.04
19 5 0.04
21 33 0.28
22 19 0.16
23 10 0.08
24 17 0.14
25 7 0.06
26 10 0.08
27 1 0.01
28 5 0.04
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.57
Consensus pattern (21 bp):
TTTAATAATTTTGAAATTATG
Found at i:9826126 original size:87 final size:87
Alignment explanation
Indices: 9826034--9826259 Score: 328
Period size: 87 Copynumber: 2.6 Consensus size: 87
9826024 TTATTATTTG
* * *
9826034 AATAATTCTGAAATTATGTTTAATAATTTTTAATATTATTATTTTAATAATGT-TATTAATTTAT
1 AATAATTTTGAAATTAAGTTTAATAATTTTTAATATTATTATTTTAATAAT-TCTACTAATTTAT
9826098 TATTTTTTATACTTAAATTTTTT
65 TATTTTTTATACTTAAATTTTTT
*
9826121 AATAATTTTGAAATTAAGTTTAATAATTTTTAATATTATTATTTTAATAATTCTGCTAATTTATT
1 AATAATTTTGAAATTAAGTTTAATAATTTTTAATATTATTATTTTAATAATTCTACTAATTTATT
* *
9826186 ATTTTTTATGCTTAGATTTTTT
66 ATTTTTTATACTTAAATTTTTT
* * * * * *
9826208 AATATTTTTAAAATTAAGTCTAATATTTTTTAGTATTATTAATTTAATAATT
1 AATAATTTTGAAATTAAGTTTAATAATTTTTAATATTATTATTTTAATAATT
9826260 TTTTATTGGA
Statistics
Matches: 126, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
86 1 0.01
87 125 0.99
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.57
Consensus pattern (87 bp):
AATAATTTTGAAATTAAGTTTAATAATTTTTAATATTATTATTTTAATAATTCTACTAATTTATT
ATTTTTTATACTTAAATTTTTT
Found at i:9826166 original size:24 final size:24
Alignment explanation
Indices: 9826117--9826190 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 24
9826107 TACTTAAATT
*
9826117 TTTTAATAATTTTGAA-ATTA--A
1 TTTTAATAATTTTTAATATTATTA
*
9826138 GTTTAATAATTTTTAATATTATTA
1 TTTTAATAATTTTTAATATTATTA
*
9826162 TTTTAATAATTCTGCTAAT-TTATTA
1 TTTTAATAATT-T-TTAATATTATTA
9826187 TTTT
1 TTTT
9826191 TTATGCTTAG
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
21 14 0.32
22 4 0.09
24 11 0.25
25 11 0.25
26 4 0.09
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.58
Consensus pattern (24 bp):
TTTTAATAATTTTTAATATTATTA
Found at i:9826239 original size:133 final size:132
Alignment explanation
Indices: 9825919--9826175 Score: 417
Period size: 133 Copynumber: 1.9 Consensus size: 132
9825909 ATTATTAAGT
* *
9825919 TTAATAATTATTTAATATTATTATTTTAATAATGTTATTAATTTATTATTTTTTATACTTAAATT
1 TTAAT-ATT-TTTAATATTATTATTTTAATAATGTTATTAATCTAATATTTTTTATACTTAAATT
*
9825984 TTTTAATAATTTTGAAATTAAGTTTCATAATTTTTTAATATTATTATTTGAATAATTCTGAAATT
64 TTTTAATAATTTTGAAATTAAGTTTAATAATTTTTTAATATTATTATTTGAATAATTCTGAAATT
*
9826049 ATGT
129 ATGA
* *
9826053 TTAATAATTTTTAATATTATTATTTTAATAATGTTATTAATTTATTATTTTTTATACTTAAATTT
1 TTAAT-ATTTTTAATATTATTATTTTAATAATGTTATTAATCTAATATTTTTTATACTTAAATTT
*
9826118 TTTAATAATTTTGAAATTAAGTTTAATAA-TTTTTAATATTATTATTTTAATAATTCTG
65 TTTAATAATTTTGAAATTAAGTTTAATAATTTTTTAATATTATTATTTGAATAATTCTG
9826176 CTAATTTATT
Statistics
Matches: 121, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
132 28 0.23
133 84 0.69
134 9 0.07
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.58
Consensus pattern (132 bp):
TTAATATTTTTAATATTATTATTTTAATAATGTTATTAATCTAATATTTTTTATACTTAAATTTT
TTAATAATTTTGAAATTAAGTTTAATAATTTTTTAATATTATTATTTGAATAATTCTGAAATTAT
GA
Found at i:9826648 original size:33 final size:33
Alignment explanation
Indices: 9826585--9826671 Score: 93
Period size: 33 Copynumber: 2.6 Consensus size: 33
9826575 TGATGAACTA
** * *
9826585 GAGCCGGGTGGAGTAGAGAACGGCGCTGGATAT
1 GAGCCGGAAGGAGTAGAGTACGGCGATGGATAT
* * * *
9826618 GGGCTGGGAGGAGTAGAGTACGGTGATGGATAT
1 GAGCCGGAAGGAGTAGAGTACGGCGATGGATAT
*
9826651 GAGCCGGAAGGAATAGAGTAC
1 GAGCCGGAAGGAGTAGAGTAC
9826672 AGATGTGGCA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.28, C:0.11, G:0.45, T:0.16
Consensus pattern (33 bp):
GAGCCGGAAGGAGTAGAGTACGGCGATGGATAT
Found at i:9828481 original size:11 final size:11
Alignment explanation
Indices: 9828467--9828494 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
9828457 ACATTATATC
9828467 AAAATTACATT
1 AAAATTACATT
9828478 AAAATTACATT
1 AAAATTACATT
9828489 AAAATT
1 AAAATT
9828495 TCTTACTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAATTACATT
Found at i:9829561 original size:3 final size:3
Alignment explanation
Indices: 9829555--9829665 Score: 188
Period size: 3 Copynumber: 36.7 Consensus size: 3
9829545 TAACATTTTT
*
9829555 TTC TTC TTCC TTC TTC TCC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TT-C TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
9829601 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
9829649 TTC TTC TT- TTC TCTC TT
1 TTC TTC TTC TTC T-TC TT
9829666 TGCTGCTGCC
Statistics
Matches: 103, Mismatches: 2, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
2 2 0.02
3 95 0.92
4 6 0.06
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:9829950 original size:25 final size:24
Alignment explanation
Indices: 9829891--9829949 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
9829881 AAATTTAAAA
9829891 ATTATTAAAATATAATAAAATAAT
1 ATTATTAAAATATAATAAAATAAT
* **
9829915 AATATTTAAAATAT-ATATTATATAT
1 ATTA-TTAAAATATAATAAAATA-AT
9829940 ATTATTAAAA
1 ATTATTAAAA
9829950 AAATGGGTCG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 15 0.52
25 14 0.48
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
ATTATTAAAATATAATAAAATAAT
Found at i:9830423 original size:2 final size:2
Alignment explanation
Indices: 9830410--9830458 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
9830400 CATGAGATAA
*
9830410 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9830452 AT AT AT A
1 AT AT AT A
9830459 AAAGATATCA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:9839468 original size:24 final size:24
Alignment explanation
Indices: 9839408--9839471 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 24
9839398 CATTCTATGT
* * *
9839408 CAAAGGATGAATCGATAGTAAATG
1 CAAAGGATGAATTGACAGTAAATA
*
9839432 CAAATGATGAATTGACAGTAAATA
1 CAAAGGATGAATTGACAGTAAATA
*
9839456 CAAAGGAGGAATTGAC
1 CAAAGGATGAATTGAC
9839472 GAAAAATTAC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.47, C:0.09, G:0.23, T:0.20
Consensus pattern (24 bp):
CAAAGGATGAATTGACAGTAAATA
Found at i:9856536 original size:13 final size:13
Alignment explanation
Indices: 9856518--9856545 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
9856508 CAGAAGAGTA
9856518 ATGAATACAAAAC
1 ATGAATACAAAAC
9856531 ATGAATACAAAAC
1 ATGAATACAAAAC
9856544 AT
1 AT
9856546 AAAGAAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.14, G:0.07, T:0.18
Consensus pattern (13 bp):
ATGAATACAAAAC
Found at i:9862250 original size:24 final size:24
Alignment explanation
Indices: 9862218--9862265 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
9862208 TCGTTCTATG
*
9862218 GCAAAGGATGAATTGATGGTAAAT
1 GCAAAGGATGAATTGATGGAAAAT
9862242 GCAAAGGATGAATTGATGGAAAAT
1 GCAAAGGATGAATTGATGGAAAAT
9862266 TACCAAGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.04, G:0.29, T:0.23
Consensus pattern (24 bp):
GCAAAGGATGAATTGATGGAAAAT
Found at i:9867214 original size:15 final size:15
Alignment explanation
Indices: 9867194--9867245 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
9867184 ACTACAAAAC
9867194 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
9867209 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
9867228 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
9867243 ATT
1 ATT
9867246 AATATTGAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:9867383 original size:22 final size:22
Alignment explanation
Indices: 9867324--9867369 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
9867314 TTAAAATAAA
* *
9867324 ATTAAAATATTAAA--TAATTT
1 ATTAAAATAATAAATTTTATTT
9867344 ATTAAAATAATAAATTTTATTT
1 ATTAAAATAATAAATTTTATTT
9867366 ATTA
1 ATTA
9867370 TATTAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 13 0.59
22 9 0.41
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTAAAATAATAAATTTTATTT
Found at i:9868930 original size:21 final size:21
Alignment explanation
Indices: 9868904--9868997 Score: 61
Period size: 21 Copynumber: 4.4 Consensus size: 21
9868894 ATAATTTACA
*
9868904 ATAATAAAAATAATATAATAT
1 ATAATAAAAATAATATAAAAT
*
9868925 ATAATAAATAT-ATCATAAAAT
1 ATAATAAAAATAAT-ATAAAAT
*
9868946 ATAA-ACAATATAATA-AACAAT
1 ATAATA-AAAATAATATAA-AAT
* *
9868967 GCATAAGTAAAAGTAATAT-ATAT
1 --ATAA-TAAAAATAATATAAAAT
9868990 ATAATAAA
1 ATAATAAA
9868998 TTATTTAGAT
Statistics
Matches: 59, Mismatches: 5, Indels: 19
0.71 0.06 0.23
Matches are distributed among these distances:
20 9 0.15
21 33 0.56
22 2 0.03
23 6 0.10
24 8 0.14
25 1 0.02
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.30
Consensus pattern (21 bp):
ATAATAAAAATAATATAAAAT
Found at i:9869068 original size:20 final size:21
Alignment explanation
Indices: 9869032--9869075 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
9869022 TAGTAAAAAT
*
9869032 AAATAATATATAATATATTTA
1 AAATAATATATAATATATATA
9869053 AAATAA-ATA-AATTATATATA
1 AAATAATATATAA-TATATATA
9869073 AAA
1 AAA
9869076 AAGGATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 13 0.62
21 6 0.29
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
AAATAATATATAATATATATA
Found at i:9871316 original size:90 final size:90
Alignment explanation
Indices: 9870690--9871302 Score: 974
Period size: 90 Copynumber: 6.8 Consensus size: 90
9870680 AATCTGTACC
* *
9870690 TCGATGTAAACACACGAATATCAGATCTGCTACCTTCGATCTGCTCCCCGTCTAATACAGAGATG
1 TCGATGTAAACACACGAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGATG
*
9870755 CCAAATCTGTCATCTTCGATTTGCT
66 CCAAATCTGTCATCTTCGATCTGCT
* *
9870780 TCGATGTAAACACACGAATGTCAGATCTACTATCTTCGATCTGCTCCCCATCTAATACAGAGATG
1 TCGATGTAAACACACGAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGATG
*
9870845 CCAAATCTGTCATCTTCGATTTGCT
66 CCAAATCTGTCATCTTCGATCTGCT
*
9870870 TCGATGTAAACACACGAATGCCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGATG
1 TCGATGTAAACACACGAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGATG
* *
9870935 CCAAATCTGTCGTCTTCGATCTACT
66 CCAAATCTGTCATCTTCGATCTGCT
* * *
9870960 TCGATGTAAACACACGAATGTTAGATCTGCTATCTTCGATCTGCTCCTCGTCTAATACAGAGATC
1 TCGATGTAAACACACGAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGATG
* *
9871025 CCAAATCTATCATCTTTGATCTGCT
66 CCAAATCTGTCATCTTCGATCTGCT
* * *
9871050 TTGATGTAAACACACGAATGTCAGATCTGCTATCTTTGATCTGCTCCCCATCTAATACAGAGATG
1 TCGATGTAAACACACGAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGATG
9871115 CCAAATCTGTCATCTTCGATCTGCT
66 CCAAATCTGTCATCTTCGATCTGCT
* * *
9871140 TTGATGTAAACACACGAATGTCAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATG
1 TCGATGTAAACACACGAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGATG
* *
9871205 CCAAATCTGTCGTCTTTGATCTGCT
66 CCAAATCTGTCATCTTCGATCTGCT
* * ** * *
9871230 TCGATGTAAATACACGAATGCCAGATCTGCTATCTTCGATCTGCTCCTTGTCTAATATAGAGACG
1 TCGATGTAAACACACGAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGATG
9871295 CCAAATCT
66 CCAAATCT
9871303 ATCACCGGTG
Statistics
Matches: 482, Mismatches: 41, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 482 1.00
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (90 bp):
TCGATGTAAACACACGAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGATG
CCAAATCTGTCATCTTCGATCTGCT
Found at i:9879350 original size:2 final size:2
Alignment explanation
Indices: 9879343--9879375 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
9879333 AGGTTTTCTT
9879343 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
9879376 GTAATTTTAA
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:9883070 original size:19 final size:18
Alignment explanation
Indices: 9883028--9883076 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 18
9883018 AAGAAGGTTA
* **
9883028 AAAAAAATAAAAATAAAG
1 AAAAAAATAAATATAATT
*
9883046 ATAAAAACTAAATATAATT
1 A-AAAAAATAAATATAATT
9883065 AAAAAAATAAAT
1 AAAAAAATAAAT
9883077 GAGGTATCAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (18 bp):
AAAAAAATAAATATAATT
Found at i:9883294 original size:3 final size:3
Alignment explanation
Indices: 9883288--9883388 Score: 56
Period size: 3 Copynumber: 34.7 Consensus size: 3
9883278 ATGTATTATT
* *
9883288 TAA TAA TAA TTTA CAA TAA TAA T-A TAA T-A TAA TATA TAA TAA -AA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
* * *
9883332 TAA AAA TAA T-A TAA TTGA TAA T-A TATA TAA TAA -AA TGA T-A TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
9883375 TATA TAA TAA -AA TA
1 TA-A TAA TAA TAA TA
9883389 TGTAAATAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 26
0.68 0.08 0.23
Matches are distributed among these distances:
2 16 0.21
3 47 0.62
4 13 0.17
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:9883316 original size:5 final size:5
Alignment explanation
Indices: 9883306--9883427 Score: 64
Period size: 5 Copynumber: 25.2 Consensus size: 5
9883296 ATTTACAATA
* *
9883306 ATAAT ATAAT ATAAT AT-AT AATAAA ATAAAA ATAAT ATAATT GATAAT
1 ATAAT ATAAT ATAAT ATAAT -ATAAT AT-AAT ATAAT ATAA-T -ATAAT
* * * *
9883354 AT-AT ATAAT A-AA- ATGAT ATAAT AT-AT AATAAA AT-AT GTAA- ATAAA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT ATAAT ATAAT
* *
9883399 AT-AT ATAAT AAAAT ATAA- ACAAT ATAAT A
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT A
9883428 AACAATGCAT
Statistics
Matches: 90, Mismatches: 13, Indels: 28
0.69 0.10 0.21
Matches are distributed among these distances:
3 1 0.01
4 22 0.24
5 54 0.60
6 9 0.10
7 4 0.04
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (5 bp):
ATAAT
Found at i:9883326 original size:12 final size:12
Alignment explanation
Indices: 9883303--9883415 Score: 78
Period size: 12 Copynumber: 9.7 Consensus size: 12
9883293 ATAATTTACA
9883303 ATAATAATATAAT
1 ATAAT-ATATAAT
9883316 ATAATATATAAT
1 ATAATATATAAT
*
9883328 A-AA-ATA-AAA
1 ATAATATATAAT
*
9883337 ATAATATA-ATT
1 ATAATATATAAT
9883348 GATAATATAT-AT
1 -ATAATATATAAT
*
9883360 AATAA-A-ATGAT
1 -ATAATATATAAT
9883371 ATAATATATAAT
1 ATAATATATAAT
* *
9883383 AAAATATGTAAAT
1 ATAATATAT-AAT
*
9883396 AAAATATATAAT
1 ATAATATATAAT
*
9883408 AAAATATA
1 ATAATATA
9883416 AACAATATAA
Statistics
Matches: 83, Mismatches: 9, Indels: 17
0.76 0.08 0.16
Matches are distributed among these distances:
9 3 0.04
10 11 0.13
11 10 0.12
12 43 0.52
13 16 0.19
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.35
Consensus pattern (12 bp):
ATAATATATAAT
Found at i:9883327 original size:33 final size:33
Alignment explanation
Indices: 9883290--9883363 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
9883280 GTATTATTTA
*
9883290 ATAATAATTTACAATAATAATATAA-T-ATAATAT
1 ATAATAATATA-AA-AATAATATAATTGATAATAT
*
9883323 ATAATAAAATAAAAATAATATAATTGATAATAT
1 ATAATAATATAAAAATAATATAATTGATAATAT
9883356 AT-ATAATA
1 ATAATAATA
9883364 AAATGATATA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
31 10 0.28
32 8 0.22
33 18 0.50
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (33 bp):
ATAATAATATAAAAATAATATAATTGATAATAT
Found at i:9883415 original size:55 final size:55
Alignment explanation
Indices: 9883303--9883427 Score: 136
Period size: 55 Copynumber: 2.3 Consensus size: 55
9883293 ATAATTTACA
* * *
9883303 ATAATAATATAATATAATATATAATAAAATAAAAATAATATAATTGATAATATAT
1 ATAATAAAATAATATAATATATAATAAAATAAAAATAAAATAATTGATAATAAAT
* *
9883358 ATAATAAAATGATATAATATATAATAAAATATGTAAATAAAAT-A-T-ATAATAAA-
1 ATAATAAAATAATATAATATATAATAAAATA--AAAATAAAATAATTGATAATAAAT
*
9883411 AT-AT-AAACAATATAATA
1 ATAATAAAATAATATAATA
9883428 AACAATGCAT
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
51 11 0.18
52 2 0.03
53 2 0.03
54 7 0.11
55 30 0.49
56 1 0.02
57 8 0.13
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (55 bp):
ATAATAAAATAATATAATATATAATAAAATAAAAATAAAATAATTGATAATAAAT
Found at i:9883447 original size:80 final size:77
Alignment explanation
Indices: 9883313--9883462 Score: 176
Period size: 80 Copynumber: 1.9 Consensus size: 77
9883303 ATAATAATAT
* * ** * *
9883313 AATATAATATATAATAAAATAAAAATAATATAATTGATAATATATATAATAAAATGATATAATAT
1 AATAAAATATATAATAAAATAAAAACAATATAATAAACAATACATATAATAAAAT-A-AT-ATAT
9883378 ATAATAAAATATGTA
63 ATAATAAAATATGTA
* * *
9883393 AATAAAATATATAATAAAATATAAACAATATAATAAACAATGCATA-AGTAAAAATAATATATAT
1 AATAAAATATATAATAAAATAAAAACAATATAATAAACAATACATATAAT-AAAATAATATATAT
9883457 AATAAA
65 AATAAA
9883463 TTATTTAGAT
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
77 12 0.20
78 2 0.03
79 3 0.05
80 43 0.72
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.31
Consensus pattern (77 bp):
AATAAAATATATAATAAAATAAAAACAATATAATAAACAATACATATAATAAAATAATATATATA
ATAAAATATGTA
Found at i:9883534 original size:22 final size:25
Alignment explanation
Indices: 9883492--9883542 Score: 72
Period size: 22 Copynumber: 2.2 Consensus size: 25
9883482 GTTGTTAGTA
*
9883492 AAAATAAATAATATATAATATATTT
1 AAAATAAATAATATATAATATATAT
9883517 AAAATAAATAA-AT-T-ATATATAT
1 AAAATAAATAATATATAATATATAT
9883539 AAAA
1 AAAA
9883543 AAGGATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 11 0.44
23 1 0.04
24 2 0.08
25 11 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (25 bp):
AAAATAAATAATATATAATATATAT
Found at i:9884927 original size:18 final size:18
Alignment explanation
Indices: 9884904--9884941 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
9884894 AAACAAAAGA
9884904 ACAATGTACTTCGTAGTT
1 ACAATGTACTTCGTAGTT
*
9884922 ACAATGTACTTTGTAGTT
1 ACAATGTACTTCGTAGTT
9884940 AC
1 AC
9884942 TTCTATGTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (18 bp):
ACAATGTACTTCGTAGTT
Found at i:9885371 original size:17 final size:18
Alignment explanation
Indices: 9885351--9885388 Score: 69
Period size: 17 Copynumber: 2.2 Consensus size: 18
9885341 TTTTCATATC
9885351 TTTCTTTTCATAG-AATT
1 TTTCTTTTCATAGAAATT
9885368 TTTCTTTTCATAGAAATT
1 TTTCTTTTCATAGAAATT
9885386 TTT
1 TTT
9885389 TAGAGTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.24, C:0.11, G:0.05, T:0.61
Consensus pattern (18 bp):
TTTCTTTTCATAGAAATT
Found at i:9885545 original size:24 final size:27
Alignment explanation
Indices: 9885494--9885546 Score: 76
Period size: 24 Copynumber: 2.1 Consensus size: 27
9885484 TTATTATCTA
*
9885494 TTTTAATTTAATTTATTGTTACATAAT
1 TTTTAATATAATTTATTGTTACATAAT
9885521 TTTTAATAT-ATTTA-TG-TACATAAT
1 TTTTAATATAATTTATTGTTACATAAT
9885545 TT
1 TT
9885547 ATTTTTTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 10 0.40
25 2 0.08
26 5 0.20
27 8 0.32
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (27 bp):
TTTTAATATAATTTATTGTTACATAAT
Done.