Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 58 of 91
Found at i:9618739 original size:2 final size:2
Alignment explanation
Indices: 9618726--9618756 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
9618716 TCAAACTTCA
*
9618726 TC TC TC TG 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 T
9618757 ATATATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.45, G:0.03, T:0.52
Consensus pattern (2 bp):
TC
Found at i:9618761 original size:2 final size:2
Alignment explanation
Indices: 9618756--9618783 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9618746 TCTCTCTCTC
9618756 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9618784 ATAAAATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9619779 original size:104 final size:104
Alignment explanation
Indices: 9619644--9619856 Score: 376
Period size: 104 Copynumber: 2.1 Consensus size: 104
9619634 TGAGAGATGA
9619644 GCAATTCATTGAAAAAAAAATGGCAACTGTTGGATAAGTTTTAAATGTCAAAATTACCC-TTGTT
1 GCAATTCATTGAAAAAAAAATGGCAACTGTTGGATAAGTTTTAAATGTCAAAATTACCCTTTGTT
*
9619708 TGGTAAACGAAGACAATGATATGTCTCTTTGTTTTACTT
66 TGGTAAACGAAGACAATGATATATCTCTTTGTTTTACTT
*
9619747 GCAATTCATTGAAAAAAAAAATGGCAACTGTTGGATAATTTTTAAATGTCAAAATTACCCTTTGT
1 GCAATTCATTG-AAAAAAAAATGGCAACTGTTGGATAAGTTTTAAATGTCAAAATTACCCTTTGT
*
9619812 TTGGTACACGAAGACAATGATATATCTCTTTGTTTTACTT
65 TTGGTAAACGAAGACAATGATATATCTCTTTGTTTTACTT
9619852 G-AATT
1 GCAATT
9619857 TTTCAATTTC
Statistics
Matches: 105, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
103 11 0.10
104 51 0.49
105 43 0.41
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (104 bp):
GCAATTCATTGAAAAAAAAATGGCAACTGTTGGATAAGTTTTAAATGTCAAAATTACCCTTTGTT
TGGTAAACGAAGACAATGATATATCTCTTTGTTTTACTT
Found at i:9621655 original size:18 final size:18
Alignment explanation
Indices: 9621619--9621656 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
9621609 TATTTTTTGT
*
9621619 ATTTATATATATGATGAA
1 ATTTATATATATGAAGAA
9621637 ATTTATATTATAT-AAGAA
1 ATTTATA-TATATGAAGAA
9621655 AT
1 AT
9621657 AAATAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (18 bp):
ATTTATATATATGAAGAA
Found at i:9633655 original size:22 final size:21
Alignment explanation
Indices: 9633619--9633660 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
9633609 ATCAAATCTA
9633619 ATAATTTAAAATAAAAAAATT
1 ATAATTTAAAATAAAAAAATT
*
9633640 ATAATATTAAATTAAAAAAAT
1 ATAAT-TTAAAATAAAAAAAT
9633661 CTATTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAATTTAAAATAAAAAAATT
Found at i:9642217 original size:2 final size:2
Alignment explanation
Indices: 9642210--9642256 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
9642200 ACCCTAACCA
*
9642210 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT 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
9642252 AT AT A
1 AT AT A
9642257 CACACACAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9643168 original size:14 final size:15
Alignment explanation
Indices: 9643146--9643182 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
9643136 ATATTTTTGT
*
9643146 AAATCAAATTA-AAA
1 AAATTAAATTACAAA
9643160 AAATTAAATTACAAA
1 AAATTAAATTACAAA
9643175 AAATTAAA
1 AAATTAAA
9643183 ATTTCGGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATTAAATTACAAA
Found at i:9644859 original size:8 final size:8
Alignment explanation
Indices: 9644846--9644900 Score: 51
Period size: 8 Copynumber: 6.8 Consensus size: 8
9644836 TTGATTCAAC
9644846 TATTTTTT
1 TATTTTTT
9644854 TA-TTTTT
1 TATTTTTT
9644861 TATTTTTT
1 TATTTTTT
9644869 T-TTAATTTT
1 TATT--TTTT
* *
9644878 TATATTAT
1 TATTTTTT
9644886 TATTTTTGT
1 TATTTTT-T
9644895 TATTTT
1 TATTTT
9644901 GAGTTTTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
7 9 0.24
8 16 0.42
9 12 0.32
10 1 0.03
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (8 bp):
TATTTTTT
Found at i:9644870 original size:17 final size:17
Alignment explanation
Indices: 9644848--9644880 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9644838 GATTCAACTA
*
9644848 TTTTTTTATTTTTTATT
1 TTTTTTTAATTTTTATT
9644865 TTTTTTTAATTTTTAT
1 TTTTTTTAATTTTTAT
9644881 ATTATTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTTTAATTTTTATT
Found at i:9644909 original size:24 final size:23
Alignment explanation
Indices: 9644858--9644913 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
9644848 TTTTTTTATT
*
9644858 TTTTATT-TTTTTTTAATTTTTA
1 TTTTATTATTTTTTTAATTTTGA
*
9644880 TATTATTATTTTTGTT-ATTTTGA
1 TTTTATTATTTTT-TTAATTTTGA
9644903 GTTTTATTATT
1 -TTTTATTATT
9644914 AATATTTATG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 6 0.21
23 11 0.39
24 11 0.39
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (23 bp):
TTTTATTATTTTTTTAATTTTGA
Found at i:9645024 original size:16 final size:16
Alignment explanation
Indices: 9644970--9645022 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
9644960 GATTGTTTTT
9644970 AATAATAATAAAAATG
1 AATAATAATAAAAATG
9644986 AA-AATAATAAAAAAT-
1 AATAATAAT-AAAAATG
*
9645001 AATAATGATAAAAATG
1 AATAATAATAAAAATG
9645017 AATAAT
1 AATAAT
9645023 GACTATATAG
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
15 14 0.42
16 19 0.58
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.25
Consensus pattern (16 bp):
AATAATAATAAAAATG
Found at i:9645511 original size:21 final size:22
Alignment explanation
Indices: 9645485--9645546 Score: 60
Period size: 21 Copynumber: 2.9 Consensus size: 22
9645475 AATTAAAACT
9645485 CTAAAACCACAAACCCTAAA-A
1 CTAAAACCACAAACCCTAAAGA
*
9645506 CTAAAACC-CTAAA-CCTCAAAGC
1 CTAAAACCAC-AAACCCT-AAAGA
*
9645528 CTAAAATCA-AAACCCTAAA
1 CTAAAACCACAAACCCTAAA
9645547 CCCTTCCAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
20 4 0.12
21 20 0.59
22 10 0.29
ACGTcount: A:0.53, C:0.32, G:0.02, T:0.13
Consensus pattern (22 bp):
CTAAAACCACAAACCCTAAAGA
Found at i:9645649 original size:14 final size:14
Alignment explanation
Indices: 9645466--9645787 Score: 111
Period size: 14 Copynumber: 22.1 Consensus size: 14
9645456 CAAACCCTTG
*
9645466 AAACCCTAAAATTA
1 AAACCCTAAAATCA
* *
9645480 AAACTCTAAAACCA
1 AAACCCTAAAATCA
9645494 CAAACCCTAAAA-CTA
1 -AAACCCTAAAATC-A
*
9645509 AAACCCTAAACCTC-
1 AAACCCTAAA-ATCA
*
9645523 AAAGCCTAAAATCA
1 AAACCCTAAAATCA
* *
9645537 AAACCCTAAACCCTTCC
1 AAACCCTAAA---ATCA
* *
9645554 AACCCCTAAACTTC-
1 AAACCCTAAA-ATCA
9645568 AAACCCTAAAA-CTA
1 AAACCCTAAAATC-A
* *
9645582 AAACCCTAAACCCTTTA
1 AAACCCTAAA---ATCA
*
9645599 AAA-CATAAAATCA
1 AAACCCTAAAATCA
* *
9645612 AAATCCTAAAATCC
1 AAACCCTAAAATCA
** *
9645626 AAACTTTAAAATCG
1 AAACCCTAAAATCA
* **
9645640 AAACCCTAAACCCTTT
1 AAACCCTAAA--ATCA
* *
9645656 AAACCTTAAAGTCA
1 AAACCCTAAAATCA
* *
9645670 AACCCCTAAACTCCA
1 AAACCCTAAAAT-CA
**
9645685 AAA-CCTAAAATTG
1 AAACCCTAAAATCA
*
9645698 AAACCC-AAAACCCTCC
1 AAACCCTAAAA---TCA
*
9645714 AAGCCCTAAAA-CTA
1 AAACCCTAAAATC-A
** *
9645728 AAACCCTAAACCCC
1 AAACCCTAAAATCA
*
9645742 AAATCCTAAAATCA
1 AAACCCTAAAATCA
*
9645756 AAGCCCTAAAATTCA
1 AAACCCTAAAA-TCA
9645771 AAATCCCTAAAATCA
1 AAA-CCCTAAAATCA
9645786 AA
1 AA
9645788 CTTTTAAACC
Statistics
Matches: 227, Mismatches: 54, Indels: 53
0.68 0.16 0.16
Matches are distributed among these distances:
12 1 0.00
13 15 0.07
14 132 0.58
15 30 0.13
16 30 0.13
17 19 0.08
ACGTcount: A:0.49, C:0.31, G:0.02, T:0.18
Consensus pattern (14 bp):
AAACCCTAAAATCA
Found at i:9645694 original size:58 final size:57
Alignment explanation
Indices: 9645557--9645765 Score: 181
Period size: 58 Copynumber: 3.6 Consensus size: 57
9645547 CCCTTCCAAC
* * * *
9645557 CCCTAAACTTCAAACCCTAAAA-CTAAAACCCTAAACCCTTTAAAACATAAAATCAAAA
1 CCCTAAACTCCAAAACCTAAAATC-GAAACCCTAAACCCTTTAAACCAT-AAATCAAAA
* * * * *
9645615 TCCTAAAATCC-AAACTTTAAAATCGAAACCCTAAACCCTTTAAACCTTAAAGTCAAAC
1 CCCTAAACTCCAAAAC-CTAAAATCGAAACCCTAAACCCTTTAAACCATAAA-TCAAAA
* * ** * * *
9645673 CCCTAAACTCCAAAACCTAAAATTGAAACCCAAAACCCTCCAAGCCCTAAAACTAAAA
1 CCCTAAACTCCAAAACCTAAAATCGAAACCCTAAACCCTTTAAACCATAAATC-AAAA
* *
9645731 CCCTAAACCCCAAATCCTAAAATC-AAAGCCCTAAA
1 CCCTAAACTCCAAAACCTAAAATCGAAA-CCCTAAA
9645766 ATTCAAAATC
Statistics
Matches: 121, Mismatches: 24, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
57 10 0.08
58 106 0.88
59 5 0.04
ACGTcount: A:0.48, C:0.32, G:0.02, T:0.18
Consensus pattern (57 bp):
CCCTAAACTCCAAAACCTAAAATCGAAACCCTAAACCCTTTAAACCATAAATCAAAA
Found at i:9645744 original size:116 final size:116
Alignment explanation
Indices: 9645554--9645765 Score: 250
Period size: 116 Copynumber: 1.8 Consensus size: 116
9645544 AAACCCTTCC
* * * ** *
9645554 AACCCCTAAACTTCAAACCCTAAAACTAAAACCCTAAACCCTTTAAAACATAAAATCAAAATCCT
1 AACCCCTAAACTCCAAAACCTAAAACTAAAACCCAAAACCCTCCAAAACATAAAATCAAAACCCT
* *
9645619 AAAATCCAAA-CTTTAAAATCGAAA-CCCTAAACCCTTTAAACCTTAAAGTCA
66 AAAACCCAAATC-CTAAAATC-AAAGCCCTAAACCCTTTAAACCTTAAAGTCA
* * ** *
9645670 AACCCCTAAACTCCAAAACCTAAAATTGAAACCCAAAACCCTCCAAGCCCTAAAA-CTAAAACCC
1 AACCCCTAAACTCCAAAACCTAAAACTAAAACCCAAAACCCTCCAAAACATAAAATC-AAAACCC
*
9645734 TAAACCCCAAATCCTAAAATCAAAGCCCTAAA
65 TAAAACCCAAATCCTAAAATCAAAGCCCTAAA
9645766 ATTCAAAATC
Statistics
Matches: 79, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
115 4 0.05
116 74 0.94
117 1 0.01
ACGTcount: A:0.48, C:0.32, G:0.02, T:0.18
Consensus pattern (116 bp):
AACCCCTAAACTCCAAAACCTAAAACTAAAACCCAAAACCCTCCAAAACATAAAATCAAAACCCT
AAAACCCAAATCCTAAAATCAAAGCCCTAAACCCTTTAAACCTTAAAGTCA
Found at i:9645752 original size:28 final size:27
Alignment explanation
Indices: 9645557--9645765 Score: 96
Period size: 30 Copynumber: 7.3 Consensus size: 27
9645547 CCCTTCCAAC
** *
9645557 CCCTAAACTTCAAACCCTAAAACTAAAA
1 CCCTAAACCCCAAAACCTAAAA-TAAAA
* *
9645585 CCCTAAACCCTTTAAAACATAAAATCAAAA
1 CCCTAAACCC--CAAAACCTAAAAT-AAAA
* ** * *
9645615 TCCTAAAATCC-AAACTTTAAAATCGAAA
1 CCCTAAACCCCAAAAC-CTAAAAT-AAAA
** * *
9645643 CCCTAAACCCTTTAAACCTTAAAGTCAAAC
1 CCCTAAACCC-CAAAACC-TAAAAT-AAAA
* *
9645673 CCCTAAACTCCAAAACCTAAAATTGAAA
1 CCCTAAACCCCAAAACCTAAAA-TAAAA
* **
9645701 CCCAAAACCCTCCAAGCCCTAAAACTAAAA
1 CCCTAAA-CC-CCAAAACCTAAAA-TAAAA
* *
9645731 CCCTAAACCCCAAATCCTAAAATCAAAG
1 CCCTAAACCCCAAAACCTAAAAT-AAAA
9645759 CCCTAAA
1 CCCTAAA
9645766 ATTCAAAATC
Statistics
Matches: 135, Mismatches: 35, Indels: 22
0.70 0.18 0.11
Matches are distributed among these distances:
27 5 0.04
28 58 0.43
29 10 0.07
30 62 0.46
ACGTcount: A:0.48, C:0.32, G:0.02, T:0.18
Consensus pattern (27 bp):
CCCTAAACCCCAAAACCTAAAATAAAA
Found at i:9645786 original size:15 final size:15
Alignment explanation
Indices: 9645742--9645787 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
9645732 CCTAAACCCC
9645742 AAAT-CCTAAAATC-
1 AAATCCCTAAAATCA
*
9645755 AAAGCCCTAAAATTCA
1 AAATCCCTAAAA-TCA
9645771 AAATCCCTAAAATCA
1 AAATCCCTAAAATCA
9645786 AA
1 AA
9645788 CTTTTAAACC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 3 0.11
14 7 0.25
15 7 0.25
16 11 0.39
ACGTcount: A:0.54, C:0.24, G:0.02, T:0.20
Consensus pattern (15 bp):
AAATCCCTAAAATCA
Found at i:9645849 original size:16 final size:16
Alignment explanation
Indices: 9645828--9645859 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9645818 ACCATAAACC
9645828 TTCAAAACCCGAAAAT
1 TTCAAAACCCGAAAAT
*
9645844 TTCAAAACCCTAAAAT
1 TTCAAAACCCGAAAAT
9645860 CCAAAACTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.25, G:0.03, T:0.22
Consensus pattern (16 bp):
TTCAAAACCCGAAAAT
Found at i:9645874 original size:15 final size:15
Alignment explanation
Indices: 9645466--9645866 Score: 80
Period size: 14 Copynumber: 27.3 Consensus size: 15
9645456 CAAACCCTTG
*
9645466 AAACCCTAAAAT-TA
1 AAACCCTAAAATCCA
*
9645480 AAACTCTAAAA-CCA
1 AAACCCTAAAATCCA
*
9645494 CAAACCCTAAAA-CTA
1 -AAACCCTAAAATCCA
*
9645509 AAACCCT-AAA-CCTC
1 AAACCCTAAAATCC-A
*
9645523 AAAGCCTAAAAT-CA
1 AAACCCTAAAATCCA
*
9645537 AAACCCTAAACCCTTCC-
1 AAACCCTAAA---ATCCA
* * *
9645554 AACCCCTAAACTTC-
1 AAACCCTAAAATCCA
*
9645568 AAACCCTAAAA-CTA
1 AAACCCTAAAATCCA
*
9645582 AAACCCT-AAACCCTTTA
1 AAACCCTAAAATCC---A
*
9645599 AAA-CATAAAAT-CA
1 AAACCCTAAAATCCA
*
9645612 AAATCCTAAAATCC-
1 AAACCCTAAAATCCA
** *
9645626 AAACTTTAAAAT-CG
1 AAACCCTAAAATCCA
* *
9645640 AAACCCT-AAACCCTTT
1 AAACCCTAAAATCC--A
* *
9645656 AAACCTTAAAGT-CA
1 AAACCCTAAAATCCA
* *
9645670 AACCCCTAAACTCCA
1 AAACCCTAAAATCCA
**
9645685 AAA-CCTAAAAT-TG
1 AAACCCTAAAATCCA
9645698 AAACCC-AAAACCCTCC-
1 AAACCCTAAAA---TCCA
* *
9645714 AAGCCCTAAAA-CTA
1 AAACCCTAAAATCCA
* *
9645728 AAACCCT-AAACCCC
1 AAACCCTAAAATCCA
*
9645742 AAATCCTAAAAT-CA
1 AAACCCTAAAATCCA
* *
9645756 AAGCCCTAAAATTCA
1 AAACCCTAAAATCCA
9645771 AAATCCCTAAAAT-C-
1 AAA-CCCTAAAATCCA
** * *
9645785 AAACTTTTAAACCCTTA
1 AAACCCTAAAATCC--A
*
9645802 AAACCCT-AAACCCA
1 AAACCCTAAAATCCA
* * * *
9645816 ATACCATAAACCTTCA
1 AAACCCTAAA-ATCCA
* *
9645832 AAACCCGAAAATTTCA
1 AAACCCTAAAA-TCCA
9645848 AAACCCTAAAATCCA
1 AAACCCTAAAATCCA
9645863 AAAC
1 AAAC
9645867 TCCAAAATTG
Statistics
Matches: 278, Mismatches: 68, Indels: 81
0.65 0.16 0.19
Matches are distributed among these distances:
13 31 0.11
14 126 0.45
15 38 0.14
16 54 0.19
17 28 0.10
18 1 0.00
ACGTcount: A:0.49, C:0.31, G:0.02, T:0.18
Consensus pattern (15 bp):
AAACCCTAAAATCCA
Found at i:9646573 original size:26 final size:26
Alignment explanation
Indices: 9646522--9646573 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
9646512 GAGATTTTCT
*
9646522 CAATATTTTTAAATAAGGAAGTTTAG
1 CAATATTTTTAAATAAGGAAGATTAG
*
9646548 CAATTTTTTTAAATGAAGGAA-ATTAG
1 CAATATTTTTAAAT-AAGGAAGATTAG
9646574 TATTAAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.42, C:0.04, G:0.15, T:0.38
Consensus pattern (26 bp):
CAATATTTTTAAATAAGGAAGATTAG
Found at i:9647665 original size:287 final size:287
Alignment explanation
Indices: 9647149--9647719 Score: 1124
Period size: 287 Copynumber: 2.0 Consensus size: 287
9647139 ATTCATTGTT
9647149 TTAGGCACATATGCATTTCATGATATTCTTTAGTCATCATATTCATGTGTTTGTAAACATACTCT
1 TTAGGCACATATGCATTTCATGATATTCTTTAGTCATCATATTCATGTGTTTGTAAACATACTCT
9647214 GTGTGTCATATAAGTTAAAAATTATTTTTGTGGTATTCATTTAATAAGGGTAATAATATAAAATT
66 GTGTGTCATATAAGTTAAAAATTATTTTTGTGGTATTCATTTAATAAGGGTAATAATATAAAATT
*
9647279 TTTAACCTATGTCCTGGAATAAAATGTTTGTCTTAGTGGGAATCAAAATGGAAAAAATGAGAGAT
131 TTTAACCTATGTCCTGAAATAAAATGTTTGTCTTAGTGGGAATCAAAATGGAAAAAATGAGAGAT
9647344 TAATTGGAAGCAAGAATTAGTGCATTGGAATTGAATCAAGAGAAATTTGGGCTCAAGCTTTGGGA
196 TAATTGGAAGCAAGAATTAGTGCATTGGAATTGAATCAAGAGAAATTTGGGCTCAAGCTTTGGGA
9647409 AATAAAACAACAGAGGGCTCAATTATC
261 AATAAAACAACAGAGGGCTCAATTATC
9647436 TTAGGCACATATGCATTTCATGATATTCTTTAGTCATCATATTCATGTGTTTGTAAACATACTCT
1 TTAGGCACATATGCATTTCATGATATTCTTTAGTCATCATATTCATGTGTTTGTAAACATACTCT
9647501 GTGTGTCATATAAGTTAAAAATTATTTTTGTGGTATTCATTTAATAAGGGTAATAATATAAAATT
66 GTGTGTCATATAAGTTAAAAATTATTTTTGTGGTATTCATTTAATAAGGGTAATAATATAAAATT
*
9647566 TTTAACCTATGTCCTGAAATAAAATGTTTGTCTTAGTGGGAATCAAAATGGCAAAAATGAGAGAT
131 TTTAACCTATGTCCTGAAATAAAATGTTTGTCTTAGTGGGAATCAAAATGGAAAAAATGAGAGAT
9647631 TAATTGGAAGCAAGAATTAGTGCATTGGAATTGAATCAAGAGAAATTTGGGCTCAAGCTTTGGGA
196 TAATTGGAAGCAAGAATTAGTGCATTGGAATTGAATCAAGAGAAATTTGGGCTCAAGCTTTGGGA
9647696 AATAAAACAACAGAGGGCTCAATT
261 AATAAAACAACAGAGGGCTCAATT
9647720 GATAGAAATG
Statistics
Matches: 282, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
287 282 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.35
Consensus pattern (287 bp):
TTAGGCACATATGCATTTCATGATATTCTTTAGTCATCATATTCATGTGTTTGTAAACATACTCT
GTGTGTCATATAAGTTAAAAATTATTTTTGTGGTATTCATTTAATAAGGGTAATAATATAAAATT
TTTAACCTATGTCCTGAAATAAAATGTTTGTCTTAGTGGGAATCAAAATGGAAAAAATGAGAGAT
TAATTGGAAGCAAGAATTAGTGCATTGGAATTGAATCAAGAGAAATTTGGGCTCAAGCTTTGGGA
AATAAAACAACAGAGGGCTCAATTATC
Found at i:9653674 original size:96 final size:96
Alignment explanation
Indices: 9653534--9654217 Score: 521
Period size: 96 Copynumber: 6.9 Consensus size: 96
9653524 TTTTTTAAAC
* * * * *
9653534 ATTTTAAAGTTTCATTGCCTCTTATTAGAGGACCATTCAAAGATTTTAAAATTTATAAGATCTCC
1 ATTTTAAAGTTTCATTGCCTCTAATTAGAGGAGCATTCAAAGATTTTGAAATTTGTAAGACCTCC
* *
9653599 AAGCATAATTTTCATGACCTCCAGGAAAAAT
66 AAGCATAATTTTCAAGACCTCCGGGAAAAAT
* * * *
9653630 ATTTTAAAGTTTCATTACCTCTGATTAGAGGAGCATTCAAAGATTTTAAAATTTGTAAAACCTCC
1 ATTTTAAAGTTTCATTGCCTCTAATTAGAGGAGCATTCAAAGATTTTGAAATTTGTAAGACCTCC
* * *
9653695 GAGCACAATTTTCAAGACCTCCGGGTAAAAT
66 AAGCATAATTTTCAAGACCTCCGGGAAAAAT
* * * * * * * * * *
9653726 ATTTTCAAGTTTCATTACCTTTGATTAAAGAAGCATTCAAAAATTTTTAAAATTTCTATGACCT-
1 ATTTTAAAGTTTCATTGCCTCTAATTAGAGGAGCATTCAAAGA-TTTTGAAATTTGTAAGACCTC
* ** * *
9653790 -TAGGGTAAATTTTTAAGACCTCTGGGCAAAAAGATTTTT
65 CAAGCAT-AATTTTCAAGACCTCCGGG--AAAA-A----T
* * * *
9653829 ACATTTTAAAGTTTCATTACCTCTAATTAGAAGGAGCATTTAAATATTTTGAAATTTGTAAAACC
1 --ATTTTAAAGTTTCATTGCCTCTAATTAG-AGGAGCATTCAAAGATTTTGAAATTTGTAAGACC
* * * * * * *
9653894 TCTAGGCACAATTTTCAAGACTTCTGGGCAAAAC
63 TCCAAGCATAATTTTCAAGACCTCCGGGAAAAAT
* * * *
9653928 ATTTTAAAGTTTCATTGCCT-TGATTAAGAGAAGCATTCAAAGATTTTGAAACTTGTGAGACCTC
1 ATTTTAAAGTTTCATTGCCTCTAATT-AGAGGAGCATTCAAAGATTTTGAAATTTGTAAGACCTC
* * * *
9653992 CGAGTATAATTTTTAAGACCTCTGGGCAAAAAATTTTT
65 CAAGCATAATTTTCAAGACCTCCGGG--AAAAA----T
* * * * * *
9654030 GCATTTTAAAGTTTCATTGTCTTTAATTAGGAGGAGTATTCAAATATTTTGATATTTGTAAGACT
1 --ATTTTAAAGTTTCATTGCCTCTAATTA-GAGGAGCATTCAAAGATTTTGAAATTTGTAAGACC
* * ** * *
9654095 TCC-AGACATAATCTTTAAAGACATCCAAGTAAAAC
63 TCCAAG-CATAAT-TTTCAAGACCTCCGGGAAAAAT
*
9654130 ATCTTAAAGTTTCATTGCCTCTAATTAGAAGGAGCATTCAAAGATTTTGAAATTTGTAAGACCTC
1 ATTTTAAAGTTTCATTGCCTCTAATTAG-AGGAGCATTCAAAGATTTTGAAATTTGTAAGACCTC
*** * *
9654195 TGGGCATAATTTTTAAAACCTCC
65 CAAGCATAATTTTCAAGACCTCC
9654218 AAGCACAATC
Statistics
Matches: 467, Mismatches: 92, Indels: 57
0.76 0.15 0.09
Matches are distributed among these distances:
95 2 0.00
96 193 0.41
97 49 0.10
98 69 0.15
99 2 0.00
103 2 0.00
104 29 0.06
105 80 0.17
106 40 0.09
107 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (96 bp):
ATTTTAAAGTTTCATTGCCTCTAATTAGAGGAGCATTCAAAGATTTTGAAATTTGTAAGACCTCC
AAGCATAATTTTCAAGACCTCCGGGAAAAAT
Found at i:9653892 original size:202 final size:197
Alignment explanation
Indices: 9653630--9654216 Score: 667
Period size: 202 Copynumber: 2.9 Consensus size: 197
9653620 CAGGAAAAAT
* * *
9653630 ATTTTAAAGTTTCATTACCTCTGATTAGAGGAGCATTCAAAGATTTTAAAATTTGTAAAACCTCC
1 ATTTTAAAGTTTCATTACCTCTAATTAGAGGAGCATTCAAATATTTTGAAATTTGTAAAACCTCC
* * * *
9653695 GAGCACAATTTTCAAGACCTCCGGGTAAAATATTTTCAAGTTTCATTACCTTTGATTAAAGAAGC
66 -AGCACAATTTTCAAGACATCCGGGTAAAACATTTTAAAGTTTCATTGCCTTTGATTAAAGAAGC
*
9653760 ATTCAAAAATTTTTAAAATTTCTATGACCTTAGGGTA-AATTTTTAAGACCTCTGGGCAAAAAGA
130 ATTCAAAGATTTTTAAAATTT-TA-GACCTT-GGGTATAATTTTTAAGACCTCTGGGCAAAAA-A
9653824 TTTTTAC
191 TTTTTAC
*
9653831 ATTTTAAAGTTTCATTACCTCTAATTAGAAGGAGCATTTAAATATTTTGAAATTTGTAAAACCTC
1 ATTTTAAAGTTTCATTACCTCTAATTAG-AGGAGCATTCAAATATTTTGAAATTTGTAAAACCTC
* * * *
9653896 TAGGCACAATTTTCAAGACTTCTGGGCAAAACATTTTAAAGTTTCATTGCC-TTGATTAAGAGAA
65 CA-GCACAATTTTCAAGACATCCGGGTAAAACATTTTAAAGTTTCATTGCCTTTGATTAA-AGAA
* * * * *
9653960 GCATTCAAAGATTTTGAAACTTGTGAGACCTCCGAGTATAATTTTTAAGACCTCTGGGCAAAAAA
128 GCATTCAAAGATTTTTAAAATT-TTAGACCT-TGGGTATAATTTTTAAGACCTCTGGGCAAAAAA
*
9654025 TTTTTGC
191 TTTTTAC
** * * * * *
9654032 ATTTTAAAGTTTCATTGTCTTTAATTAGGAGGAGTATTCAAATATTTTGATATTTGTAAGACTTC
1 ATTTTAAAGTTTCATTACCTCTAATTA-GAGGAGCATTCAAATATTTTGAAATTTGTAAAACCTC
* * ** * * * *
9654097 CAGACATAATCTTTAAAGACATCCAAGTAAAACATCTTAAAGTTTCATTGCCTCTAATTAGAAGG
65 CAG-CACAAT-TTTCAAGACATCCGGGTAAAACATTTTAAAGTTTCATTGCCTTTGATTA-AAGA
* * *
9654162 AGCATTCAAAGA-TTTTGAAATTTGTAAGACCTCTGGGCATAATTTTTAAAACCTC
127 AGCATTCAAAGATTTTTAAAATTT-T-AGACCT-TGGGTATAATTTTTAAGACCTC
9654217 CAAGCACAAT
Statistics
Matches: 327, Mismatches: 46, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
200 1 0.00
201 114 0.35
202 166 0.51
203 45 0.14
204 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (197 bp):
ATTTTAAAGTTTCATTACCTCTAATTAGAGGAGCATTCAAATATTTTGAAATTTGTAAAACCTCC
AGCACAATTTTCAAGACATCCGGGTAAAACATTTTAAAGTTTCATTGCCTTTGATTAAAGAAGCA
TTCAAAGATTTTTAAAATTTTAGACCTTGGGTATAATTTTTAAGACCTCTGGGCAAAAAATTTTT
AC
Found at i:9654292 original size:22 final size:23
Alignment explanation
Indices: 9654242--9654295 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
9654232 AGACCTTTGA
9654242 GCATAATTTTCTAAGACATCCAG
1 GCATAATTTTCTAAGACATCCAG
* *
9654265 GTATAATTTTC-AAGATC-TCTAG
1 GCATAATTTTCTAAGA-CATCCAG
9654287 GCATAATTT
1 GCATAATTT
9654296 CAACTTACGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 16 0.59
23 11 0.41
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (23 bp):
GCATAATTTTCTAAGACATCCAG
Found at i:9654386 original size:37 final size:36
Alignment explanation
Indices: 9654306--9654413 Score: 117
Period size: 37 Copynumber: 2.9 Consensus size: 36
9654296 CAACTTACGT
*
9654306 TGTTGTCCTGATCGATTCTTTATTTTTGAACTTATAA
1 TGTTATCCTGATCGATTCTTTATTTTTG-ACTTATAA
** * **
9654343 CATTATCCTGATCGATTCTTTACTTTTTGATTTATGG
1 TGTTATCCTGATCGATTCTTTA-TTTTTGACTTATAA
* *
9654380 TGTTATCTTGGTCGATTCTTTATTTTTTGACTTA
1 TGTTATCCTGATCGATTCTTTA-TTTTTGACTTA
9654414 CAGCATCATC
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
37 52 0.90
38 6 0.10
ACGTcount: A:0.19, C:0.14, G:0.14, T:0.54
Consensus pattern (36 bp):
TGTTATCCTGATCGATTCTTTATTTTTGACTTATAA
Found at i:9656420 original size:21 final size:21
Alignment explanation
Indices: 9656394--9656440 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
9656384 CTAAACCCTT
*
9656394 AAAACCCCATAATCAAAACTC
1 AAAACCCCAAAATCAAAACTC
*
9656415 AAAACCCTAAAATCAAAACTC
1 AAAACCCCAAAATCAAAACTC
*
9656436 TAAAC
1 AAAAC
9656441 TTCAAATCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.55, C:0.30, G:0.00, T:0.15
Consensus pattern (21 bp):
AAAACCCCAAAATCAAAACTC
Found at i:9656430 original size:14 final size:14
Alignment explanation
Indices: 9656408--9656525 Score: 53
Period size: 14 Copynumber: 8.2 Consensus size: 14
9656398 CCCCATAATC
9656408 AAAACTCAAAACCCT
1 AAAA-TCAAAACCCT
*
9656423 AAAATCAAAACTCT
1 AAAATCAAAACCCT
* *
9656437 AAACTTC-AAATCCT
1 AAA-ATCAAAACCCT
9656451 -AAATCTAAAACCCT
1 AAAATC-AAAACCCT
* * *
9656465 AAACCCTTTAAAA-CAT
1 AAA---ATCAAAACCCT
*
9656481 AAAATCAAAATCCT
1 AAAATCAAAACCCT
** * **
9656495 AAACCCCAAACTTT
1 AAAATCAAAACCCT
9656509 AAAATCAAAACCCT
1 AAAATCAAAACCCT
9656523 AAA
1 AAA
9656526 CCCTTTAAAT
Statistics
Matches: 72, Mismatches: 23, Indels: 17
0.64 0.21 0.15
Matches are distributed among these distances:
12 2 0.03
13 7 0.10
14 45 0.62
15 8 0.11
16 5 0.07
17 4 0.06
18 1 0.01
ACGTcount: A:0.53, C:0.27, G:0.00, T:0.20
Consensus pattern (14 bp):
AAAATCAAAACCCT
Found at i:9656451 original size:28 final size:28
Alignment explanation
Indices: 9656420--9656583 Score: 100
Period size: 28 Copynumber: 5.7 Consensus size: 28
9656410 AACTCAAAAC
*
9656420 CCTAAAATCAAAACTCTAAACTTCAAAT
1 CCTAAAATCAAAACCCTAAACTTCAAAT
* *
9656448 CCT-AAATCTAAAACCCTAAACCCTTTAAAA
1 CCTAAAATC-AAAACCCTAAA--CTTCAAAT
* * **
9656478 CATAAAATCAAAATCCTAAACCCCAAA-
1 CCTAAAATCAAAACCCTAAACTTCAAAT
* *
9656505 CTTTAAAATCAAAACCCTAAACCCTTTAAAT
1 C-CTAAAATCAAAACCCTAAA--CTTCAAAT
* * ** *
9656536 CTTAAAGTCAAAATGCTAAA-TCCCAAAT
1 CCTAAAATCAAAACCCTAAACT-TCAAAT
* *
9656564 TCTAAAATCGAAACCCTAAA
1 CCTAAAATCAAAACCCTAAA
9656584 ATCCTCTAAG
Statistics
Matches: 103, Mismatches: 24, Indels: 18
0.71 0.17 0.12
Matches are distributed among these distances:
27 7 0.07
28 52 0.50
30 38 0.37
31 6 0.06
ACGTcount: A:0.49, C:0.26, G:0.02, T:0.23
Consensus pattern (28 bp):
CCTAAAATCAAAACCCTAAACTTCAAAT
Found at i:9656489 original size:58 final size:58
Alignment explanation
Indices: 9656422--9656583 Score: 186
Period size: 58 Copynumber: 2.8 Consensus size: 58
9656412 CTCAAAACCC
**
9656422 TAAAATCAAAA-CTCTAAACTTCAAA-TCCT-AAATCTAAAACCCTAAACCCTTTAAAACA
1 TAAAATCAAAATC-CTAAACCCCAAACT-CTAAAATC-AAAACCCTAAACCCTTTAAAACA
* * *
9656480 TAAAATCAAAATCCTAAACCCCAAACTTTAAAATCAAAACCCTAAACCCTTTAAATCT
1 TAAAATCAAAATCCTAAACCCCAAACTCTAAAATCAAAACCCTAAACCCTTTAAAACA
* * * * *
9656538 TAAAGTCAAAATGCTAAATCCCAAATTCTAAAATCGAAACCCTAAA
1 TAAAATCAAAATCCTAAACCCCAAACTCTAAAATCAAAACCCTAAA
9656584 ATCCTCTAAG
Statistics
Matches: 90, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
58 83 0.92
59 7 0.08
ACGTcount: A:0.49, C:0.25, G:0.02, T:0.23
Consensus pattern (58 bp):
TAAAATCAAAATCCTAAACCCCAAACTCTAAAATCAAAACCCTAAACCCTTTAAAACA
Found at i:9656496 original size:30 final size:30
Alignment explanation
Indices: 9656422--9656548 Score: 113
Period size: 30 Copynumber: 4.4 Consensus size: 30
9656412 CTCAAAACCC
* * * *
9656422 TAAAATCAAAACTCTAAA--CTTCAAATCC
1 TAAAATCAAAACCCTAAACCCTTTAAAACT
*
9656450 T-AAATCTAAAACCCTAAACCCTTTAAAACA
1 TAAAATC-AAAACCCTAAACCCTTTAAAACT
* *
9656480 TAAAATCAAAATCCTAAACCC---CAAACTT
1 TAAAATCAAAACCCTAAACCCTTTAAAAC-T
*
9656508 TAAAATCAAAACCCTAAACCCTTTAAATCT
1 TAAAATCAAAACCCTAAACCCTTTAAAACT
*
9656538 TAAAGTCAAAA
1 TAAAATCAAAA
9656549 TGCTAAATCC
Statistics
Matches: 80, Mismatches: 11, Indels: 14
0.76 0.10 0.13
Matches are distributed among these distances:
27 9 0.11
28 31 0.39
30 32 0.40
31 8 0.10
ACGTcount: A:0.50, C:0.25, G:0.01, T:0.24
Consensus pattern (30 bp):
TAAAATCAAAACCCTAAACCCTTTAAAACT
Found at i:9666364 original size:13 final size:13
Alignment explanation
Indices: 9666346--9666370 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9666336 AATAACCTTG
9666346 ATATATATTAATT
1 ATATATATTAATT
9666359 ATATATATTAAT
1 ATATATATTAAT
9666371 AAAATAATAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATATATATTAATT
Found at i:9666659 original size:16 final size:17
Alignment explanation
Indices: 9666637--9666682 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
9666627 AATCAAAAAG
9666637 ATGAAATGAAATTCAAC
1 ATGAAATGAAATTCAAC
*
9666654 -TGAAATGAAA-TGAAC
1 ATGAAATGAAATTCAAC
*
9666669 AAGAAATGAAATTC
1 ATGAAATGAAATTC
9666683 CAATACTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 4 0.17
16 19 0.79
17 1 0.04
ACGTcount: A:0.54, C:0.09, G:0.15, T:0.22
Consensus pattern (17 bp):
ATGAAATGAAATTCAAC
Found at i:9669428 original size:59 final size:60
Alignment explanation
Indices: 9669356--9669659 Score: 443
Period size: 59 Copynumber: 5.0 Consensus size: 60
9669346 TTTTGTGTAG
9669356 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTG-AAACTTTTATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAACTTTTATTTTCAA
*
9669415 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTTGAAAACTTTAATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCC-AAAA-ATA-TTTTTTTGAAAACTTTTATTTTCAA
* * *
9669478 AGAAAATTGATATTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAA--TTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGAAAACTTTTATTTTCAA
* *
9669537 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATGTTTTTTTGAAAACTTTTATTTTCGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAACTTTTATTTTCAA
* * * *
9669597 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTAAAATCTTTTTATCTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAA-C-TTTTATTTTCAA
9669659 G
1 G
9669660 AATTATTTAA
Statistics
Matches: 221, Mismatches: 16, Indels: 13
0.88 0.06 0.05
Matches are distributed among these distances:
58 12 0.05
59 69 0.31
60 56 0.25
61 20 0.09
62 23 0.10
63 41 0.19
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.45
Consensus pattern (60 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAACTTTTATTTTCAA
Found at i:9669652 original size:122 final size:123
Alignment explanation
Indices: 9669357--9669659 Score: 449
Period size: 122 Copynumber: 2.5 Consensus size: 123
9669347 TTTGTGTAGG
*
9669357 GAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGAAACTTTTATTTTCAAGGAAAA
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTAAAACTTTTATTTTCAAGGAAAA
*
9669421 TTGATACTTTCAACTTTTCCCCAAAAATATATTTTTTTTGAAAACTTTAATTTTCAAA
66 TTGATACTTTCAACTTTTCCCCAAAAATATAGTTTTTTTGAAAACTTTAATTTTCAAA
* *
9669479 GAAAATTGATATTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAA--TTTATTTTTAAGGAAA
1 GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTT-AAAACTTTTATTTTCAAGGAAA
* *
9669542 ATTGATACTTTCAACTTTTCCCC-AAAA-AT-GTTTTTTTGAAAACTTTTATTTTC-GA
65 ATTGATACTTTCAACTTTTCCCCAAAAATATAGTTTTTTTGAAAACTTTAATTTTCAAA
* *
9669597 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTAAAATCTTTTTATCTTCAAG
1 G-AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTAAAA-C-TTTTATTTTCAAG
9669660 AATTATTTAA
Statistics
Matches: 164, Mismatches: 10, Indels: 14
0.87 0.05 0.07
Matches are distributed among these distances:
118 6 0.04
119 61 0.37
120 2 0.01
121 4 0.02
122 81 0.49
123 7 0.04
124 3 0.02
ACGTcount: A:0.35, C:0.14, G:0.06, T:0.45
Consensus pattern (123 bp):
GAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTAAAACTTTTATTTTCAAGGAAAA
TTGATACTTTCAACTTTTCCCCAAAAATATAGTTTTTTTGAAAACTTTAATTTTCAAA
Found at i:9671647 original size:18 final size:18
Alignment explanation
Indices: 9671624--9671662 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
9671614 CCAGTTTTTT
* *
9671624 CTCCTATTCGGATTTCTC
1 CTCCTATTCAGATTCCTC
9671642 CTCCTATTCAGATTCCTC
1 CTCCTATTCAGATTCCTC
9671660 CTC
1 CTC
9671663 TATCTTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.13, C:0.38, G:0.08, T:0.41
Consensus pattern (18 bp):
CTCCTATTCAGATTCCTC
Found at i:9672461 original size:16 final size:16
Alignment explanation
Indices: 9672442--9672493 Score: 68
Period size: 16 Copynumber: 3.1 Consensus size: 16
9672432 TATTACAAGA
*
9672442 AAAAAATAATAATAAT
1 AAAAAATTATAATAAT
9672458 AAAAAATTATAATAAT
1 AAAAAATTATAATAAT
*
9672474 GAATAAATTATAATATAT
1 -AAAAAATTATAATA-AT
9672492 AA
1 AA
9672494 TTAATATAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
16 15 0.47
17 15 0.47
18 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (16 bp):
AAAAAATTATAATAAT
Found at i:9672463 original size:19 final size:20
Alignment explanation
Indices: 9672441--9672480 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
9672431 ATATTACAAG
9672441 AAAAAAATAATAAT-AATAA
1 AAAAAAATAATAATGAATAA
**
9672460 AAAATTATAATAATGAATAA
1 AAAAAAATAATAATGAATAA
9672480 A
1 A
9672481 TTATAATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (20 bp):
AAAAAAATAATAATGAATAA
Found at i:9672493 original size:14 final size:16
Alignment explanation
Indices: 9672445--9672494 Score: 64
Period size: 17 Copynumber: 3.0 Consensus size: 16
9672435 TACAAGAAAA
* *
9672445 AAATAATAATAATAAA
1 AAATTATAATAATAAT
9672461 AAATTATAATAATGAAT
1 AAATTATAATAAT-AAT
9672478 AAATTATAATATATAAT
1 AAATTATAATA-ATAAT
9672495 TAATATAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
16 12 0.40
17 16 0.53
18 2 0.07
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (16 bp):
AAATTATAATAATAAT
Found at i:9672574 original size:24 final size:24
Alignment explanation
Indices: 9672541--9672595 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
9672531 TTAACAGAAA
*
9672541 AAAATAAATAAGTAA-AAATATACAT
1 AAAAT-AATAAATAATAAA-ATACAT
*
9672566 ATAATAATAAATAATAAAATACAT
1 AAAATAATAAATAATAAAATACAT
9672590 AAAATA
1 AAAATA
9672596 CAAAAAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 19 0.73
25 7 0.27
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (24 bp):
AAAATAATAAATAATAAAATACAT
Found at i:9672650 original size:66 final size:66
Alignment explanation
Indices: 9672515--9672640 Score: 150
Period size: 66 Copynumber: 1.9 Consensus size: 66
9672505 CTATATAAAC
** * * * *
9672515 AAAATACATATAAATATTAACAGAAAAAAATAAATAAGTAAAAATATACATATAATAATAAATAA
1 AAAATACATATAAATACAAAAAGAAAAAAAAAAAGAAGTAAAAAAATACATATAATAATAAATAA
9672580 T
66 T
9672581 AAAATACATA-AAATACAAAAAGAAAGAAAAGAAAAGAAG-AAAAAAATA-ATAATAATAATA
1 AAAATACATATAAATACAAAAAGAAA-AAAA-AAAAGAAGTAAAAAAATACAT-ATAATAATA
9672641 CAAAGTAAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
65 14 0.27
66 31 0.61
67 6 0.12
ACGTcount: A:0.71, C:0.04, G:0.06, T:0.20
Consensus pattern (66 bp):
AAAATACATATAAATACAAAAAGAAAAAAAAAAAGAAGTAAAAAAATACATATAATAATAAATAA
T
Found at i:9672815 original size:1 final size:1
Alignment explanation
Indices: 9672804--9672870 Score: 71
Period size: 1 Copynumber: 67.0 Consensus size: 1
9672794 AACATTGTCA
* * * * * * *
9672804 TTTTTTGTTTTTTTTGTTTTTTTGTTTTTTTGTGTTTTTTTTTGTTTTTTTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
9672869 TT
1 TT
9672871 ACCAAAGCTC
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (1 bp):
T
Found at i:9672817 original size:8 final size:8
Alignment explanation
Indices: 9672804--9672870 Score: 86
Period size: 8 Copynumber: 8.5 Consensus size: 8
9672794 AACATTGTCA
9672804 TTTTTTGTT
1 TTTTTTG-T
9672813 TTTTTTGT
1 TTTTTTGT
9672821 TTTTTTGT
1 TTTTTTGT
9672829 TTTTTTGT
1 TTTTTTGT
9672837 GTTTTTT-T
1 -TTTTTTGT
*
9672845 TTGTTT-T
1 TTTTTTGT
9672852 TTTTTTGT
1 TTTTTTGT
9672860 TTTTTT-T
1 TTTTTTGT
9672867 TTTT
1 TTTT
9672871 ACCAAAGCTC
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
7 16 0.30
8 25 0.46
9 13 0.24
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (8 bp):
TTTTTTGT
Found at i:9672817 original size:10 final size:10
Alignment explanation
Indices: 9672804--9672867 Score: 89
Period size: 10 Copynumber: 6.6 Consensus size: 10
9672794 AACATTGTCA
9672804 TTTTTTG-TT
1 TTTTTTGTTT
9672813 TTTTTTG--T
1 TTTTTTGTTT
9672821 TTTTTTGTTT
1 TTTTTTGTTT
*
9672831 TTTTGTGTTT
1 TTTTTTGTTT
9672841 TTTTTTGTTTT
1 TTTTTTG-TTT
9672852 TTTTTTGTTT
1 TTTTTTGTTT
9672862 TTTTTT
1 TTTTTT
9672868 TTTACCAAAG
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
8 8 0.16
9 7 0.14
10 25 0.50
11 10 0.20
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (10 bp):
TTTTTTGTTT
Found at i:9672992 original size:42 final size:41
Alignment explanation
Indices: 9672928--9673079 Score: 218
Period size: 41 Copynumber: 3.7 Consensus size: 41
9672918 GCTCCTCTAA
* *
9672928 ACCACAACTTTGAAAAGATAAATTGCTCCTCTAAACACAGGC
1 ACCACGACTTTGAAAAG-TAAATTGCTCCTCTAAACAGAGGC
9672970 ACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGC
1 ACCACGACTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGC
*
9673012 ACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGC
1 ACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGC
*
9673053 A--ACGGAACTTTGGAAAGTAAATTGCTC
1 ACCAC-G-ACTTTGAAAAGTAAATTGCTC
9673080 ATTGACAATC
Statistics
Matches: 102, Mismatches: 5, Indels: 7
0.89 0.04 0.06
Matches are distributed among these distances:
39 2 0.02
40 1 0.01
41 48 0.47
42 46 0.45
43 5 0.05
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.22
Consensus pattern (41 bp):
ACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGC
Found at i:9673045 original size:41 final size:41
Alignment explanation
Indices: 9672928--9673079 Score: 218
Period size: 42 Copynumber: 3.7 Consensus size: 41
9672918 GCTCCTCTAA
* *
9672928 ACCACAACTTTGAAAAGATAAATTGCTCCTCTAAACACAGGC
1 ACCACGACTTTGAAAA-ATAAATTGCTCCTCTAAACAGAGGC
9672970 ACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGC
1 ACCACGACTTTGAAAAA-TAAATTGCTCCTCTAAACAGAGGC
9673012 ACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGC
1 ACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGC
* *
9673053 A--ACGGAACTTTGGAAAGTAAATTGCTC
1 ACCAC-G-ACTTTGAAAAATAAATTGCTC
9673080 ATTGACAATC
Statistics
Matches: 103, Mismatches: 4, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
39 2 0.02
40 1 0.01
41 45 0.44
42 55 0.53
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.22
Consensus pattern (41 bp):
ACCACGACTTTGAAAAATAAATTGCTCCTCTAAACAGAGGC
Found at i:9676284 original size:20 final size:20
Alignment explanation
Indices: 9676256--9676297 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
9676246 AGTAATTTTC
* **
9676256 AAGATAAAAAAATTAAAAAA
1 AAGAGAAAAAAAGCAAAAAA
9676276 AAGAGAAAAAAAGCAAAAAA
1 AAGAGAAAAAAAGCAAAAAA
9676296 AA
1 AA
9676298 ATTTCTTTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.81, C:0.02, G:0.10, T:0.07
Consensus pattern (20 bp):
AAGAGAAAAAAAGCAAAAAA
Found at i:9677213 original size:55 final size:57
Alignment explanation
Indices: 9677147--9677257 Score: 147
Period size: 55 Copynumber: 2.0 Consensus size: 57
9677137 CAACAAAATT
* *
9677147 ATATTTTTTATCTTAAAAATGTCATCTTTATTAAATT-T-TAAAA-AATAATTTTTTC
1 ATATTTTTTATCTCAAAAATATCATCTTTATTAAATTATATAAAATAA-AATTTTTTC
* * *
9677202 ATATTTTTTATCTCAAGAATATCATTTTTGTTAAATTATATAAAATAAAATTTTTT
1 ATATTTTTTATCTCAAAAATATCATCTTTATTAAATTATATAAAATAAAATTTTTT
9677258 ATCTTTTCAA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
55 32 0.67
56 1 0.02
57 13 0.27
58 2 0.04
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (57 bp):
ATATTTTTTATCTCAAAAATATCATCTTTATTAAATTATATAAAATAAAATTTTTTC
Found at i:9677599 original size:16 final size:17
Alignment explanation
Indices: 9677578--9677614 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
9677568 AAATCAAATT
9677578 AAAAAAATT-AAATTAC
1 AAAAAAATTAAAATTAC
*
9677594 -AAAAAATTAAAATTTC
1 AAAAAAATTAAAATTAC
9677610 AAAAA
1 AAAAA
9677615 TAATAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 8 0.44
16 6 0.33
17 4 0.22
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAAAAATTAAAATTAC
Found at i:9677615 original size:15 final size:15
Alignment explanation
Indices: 9677568--9677614 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
9677558 ATATTTTTGT
*
9677568 AAATCAAATTA-AAA
1 AAATTAAATTACAAA
9677582 AAATTAAATTACAAA
1 AAATTAAATTACAAA
*
9677597 AAATTAAAATTTCAAA
1 AAATT-AAATTACAAA
9677613 AA
1 AA
9677615 TAATAATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 10 0.34
15 8 0.28
16 11 0.38
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
AAATTAAATTACAAA
Found at i:9680770 original size:96 final size:96
Alignment explanation
Indices: 9680633--9681318 Score: 559
Period size: 96 Copynumber: 6.9 Consensus size: 96
9680623 TTTAAATATC
* ** *
9680633 TTAAAGTTTCATTGCCTCTGATTAGAAAAGTATTCAAAGATTTTAAAATTTGTAAGACCTCCAAG
1 TTAAAGTTTCATTACCTCTGATTAGAGGAGCATTCAAAGATTTTAAAATTTGTAAGACCTCCAAG
* * * * **
9680698 TATAATTTTCATGACCTCTAAACAAAATGTT
66 CATAATTTTTAAGACCTCTAAGCAAAACATT
* * * *
9680729 TTAAAGTTTCATTACCTTTGATTAGATGAGCATTCAAAGATTTTAAAATTTGTAAGACCTTCGAG
1 TTAAAGTTTCATTACCTCTGATTAGAGGAGCATTCAAAGATTTTAAAATTTGTAAGACCTCCAAG
* **
9680794 CACAATTTTTAAGACCTCTGGGCAAAACATT
66 CATAATTTTTAAGACCTCTAAGCAAAACATT
* ** * * *
9680825 TTAAAGTTTCATTGCCTCTGATTAGAGGAATATTCAAAGATTTTAAAATTTCTATGACCT-CAGG
1 TTAAAGTTTCATTACCTCTGATTAGAGGAGCATTCAAAGATTTTAAAATTTGTAAGACCTCCA-A
* * *
9680889 GTATAATTTTTAAAACCTCTAGGCAAAGGATTTTTACATT
65 GCATAATTTTTAAGACCTCTAAGC-AA--A-----ACATT
* * * *
9680929 TTAAAGTTTCATTACCTCTAATTAGGAGGAACATTCAAATATTTTGAAATTTGTAAGACCTCCAA
1 TTAAAGTTTCATTACCTCTGATTA-GAGGAGCATTCAAAGATTTTAAAATTTGTAAGACCTCCAA
* **
9680994 GCATAATTTTCAAGACCTCTGGGCAAAACATT
65 GCATAATTTTTAAGACCTCTAAGCAAAACATT
* * * * ***
9681026 TTAAAGTTTCATTACCTCTGATTAAGAGAAGCATTCAAAGATTTTGAAACTTGTGAGACCTCTGG
1 TTAAAGTTTCATTACCTCTGATT-AGAGGAGCATTCAAAGATTTTAAAATTTGTAAGACCTCCAA
* * *
9681091 GTATAATTTTTAAGATCTCTAGGCAAAAAATTTTTACATT
65 GCATAATTTTTAAGACCTCTAAGC---AAA-----ACATT
** * * ** * * * *
9681131 TTAAAGTTTCATTGTCTTTGATTGGGAAAAGCATTCAAATATTTTGATATTTGTAAGACCT-CTA
1 TTAAAGTTTCATTACCTCTGATT-AGAGGAGCATTCAAAGATTTTAAAATTTGTAAGACCTCCAA
* * * *
9681195 GACATAATCTTTAAAGACATCCAAGCAAAACATC
65 G-CATAAT-TTTTAAGACCTCTAAGCAAAACATT
* * *
9681229 TTAAAGTTTCATTACCTCTAATTAGAAGGAGCATTCAAAAATTTTAAATTTTGTAAGACC-CCTA
1 TTAAAGTTTCATTACCTCTGATTAG-AGGAGCATTCAAAGATTTTAAAATTTGTAAGACCTCC-A
* * * *
9681293 GGCAAAATTTTTAAAACCTCCAAGCA
64 AGCATAATTTTTAAGACCTCTAAGCA
9681319 CAATCTCTAA
Statistics
Matches: 474, Mismatches: 91, Indels: 49
0.77 0.15 0.08
Matches are distributed among these distances:
95 1 0.00
96 153 0.32
97 97 0.20
98 58 0.12
99 2 0.00
100 3 0.01
102 1 0.00
103 3 0.01
104 30 0.06
105 112 0.24
106 14 0.03
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.35
Consensus pattern (96 bp):
TTAAAGTTTCATTACCTCTGATTAGAGGAGCATTCAAAGATTTTAAAATTTGTAAGACCTCCAAG
CATAATTTTTAAGACCTCTAAGCAAAACATT
Found at i:9681168 original size:202 final size:199
Alignment explanation
Indices: 9680633--9681276 Score: 675
Period size: 202 Copynumber: 3.2 Consensus size: 199
9680623 TTTAAATATC
* * * * * * *
9680633 TTAAAGTTTCATTGCCTCTGATTAGAAAAGTATTCAAAGATTTTAAAATTTGTAAGACCTCCA-A
1 TTAAAGTTTCATTACCTCTGATTAGAGAAGCATTCAAAGATTTTAAAACTTCTATGACCT-CAGG
* ** * *
9680697 GTATAATTTTCATGACCTCTA---AACAAAA----T--GTTTTAAAGTTTCATTACCTTTGATTA
65 GTATAATTTTTAAAACCTCTAGGCAA-AAAATTTTTACATTTTAAAGTTTCATTACCTTTGATTG
** * * * * *
9680753 GATGAGCATTCAAAGATTTTAAAATTTGTAAGACCTTCGAGCACAATTTTTAAGACCTCTGGGCA
129 GAAAAGCATTCAAATATTTTGAAATTTGTAAGACC-TCAAGCATAATTTTAAAGACCTCTGGGCA
9680818 AAACATT
193 AAACATT
* * *
9680825 TTAAAGTTTCATTGCCTCTGATTAGAGGAA-TATTCAAAGATTTTAAAATTTCTATGACCTCAGG
1 TTAAAGTTTCATTACCTCTGATTAGA-GAAGCATTCAAAGATTTTAAAACTTCTATGACCTCAGG
** * *
9680889 GTATAATTTTTAAAACCTCTAGGCAAAGGATTTTTACATTTTAAAGTTTCATTACCTCTAATTAG
65 GTATAATTTTTAAAACCTCTAGGCAAAAAATTTTTACATTTTAAAGTTTCATTACCTTTGATT-G
* *
9680954 GAGGAA-CATTCAAATATTTTGAAATTTGTAAGACCTCCAAGCATAATTTTCAAGACCTCTGGGC
129 GA-AAAGCATTCAAATATTTTGAAATTTGTAAGACCT-CAAGCATAATTTTAAAGACCTCTGGGC
9681018 AAAACATT
192 AAAACATT
* * *
9681026 TTAAAGTTTCATTACCTCTGATTAAGAGAAGCATTCAAAGATTTTGAAACTTGTGA-GACCTCTG
1 TTAAAGTTTCATTACCTCTGATT-AGAGAAGCATTCAAAGATTTTAAAACTTCT-ATGACCTCAG
* * **
9681090 GGTATAATTTTTAAGATCTCTAGGCAAAAAATTTTTACATTTTAAAGTTTCATTGTCTTTGATTG
64 GGTATAATTTTTAAAACCTCTAGGCAAAAAATTTTTACATTTTAAAGTTTCATTACCTTTGATT-
* * * ***
9681155 GGAAAAGCATTCAAATATTTTGATATTTGTAAGACCTCTAGACATAATCTTTAAAGACATCCAAG
128 GGAAAAGCATTCAAATATTTTGAAATTTGTAAGACCTCAAG-CATAAT-TTTAAAGACCTCTGGG
*
9681220 CAAAACATC
191 CAAAACATT
* * *
9681229 TTAAAGTTTCATTACCTCTAATTAGAAGGAGCATTCAAAAATTTTAAA
1 TTAAAGTTTCATTACCTCTGATTAG-AGAAGCATTCAAAGATTTTAAA
9681277 TTTTGTAAGA
Statistics
Matches: 383, Mismatches: 48, Indels: 31
0.83 0.10 0.07
Matches are distributed among these distances:
191 2 0.01
192 72 0.19
193 2 0.01
194 2 0.01
195 2 0.01
198 1 0.00
200 24 0.06
201 91 0.24
202 126 0.33
203 61 0.16
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.36
Consensus pattern (199 bp):
TTAAAGTTTCATTACCTCTGATTAGAGAAGCATTCAAAGATTTTAAAACTTCTATGACCTCAGGG
TATAATTTTTAAAACCTCTAGGCAAAAAATTTTTACATTTTAAAGTTTCATTACCTTTGATTGGA
AAAGCATTCAAATATTTTGAAATTTGTAAGACCTCAAGCATAATTTTAAAGACCTCTGGGCAAAA
CATT
Found at i:9681352 original size:23 final size:23
Alignment explanation
Indices: 9681326--9681370 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
9681316 GCACAATCTC
** *
9681326 TAAGACCTTTGGGTATAATTTTT
1 TAAGACCTCCGGGCATAATTTTT
9681349 TAAGACCTCCGGGCATAATTTT
1 TAAGACCTCCGGGCATAATTTT
9681371 CAAGATCTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.40
Consensus pattern (23 bp):
TAAGACCTCCGGGCATAATTTTT
Found at i:9681504 original size:37 final size:37
Alignment explanation
Indices: 9681415--9681509 Score: 111
Period size: 37 Copynumber: 2.6 Consensus size: 37
9681405 TGTCCCGATT
* * * *
9681415 GATTTTTTATTTTTTAACTTGTGGTGTTATCTCGATC
1 GATTCTTTATTTTTTGACTTATGGTGTTATCTAGATC
* *
9681452 GATTCTTTACTTTTTGATTTATGGTGTTATCTTAG-TC
1 GATTCTTTATTTTTTGACTTATGGTGTTATC-TAGATC
*
9681489 GATTCTTTATTTTTTGTCTTA
1 GATTCTTTATTTTTTGACTTA
9681510 CGGCATCGTC
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
37 46 0.96
38 2 0.04
ACGTcount: A:0.16, C:0.11, G:0.15, T:0.59
Consensus pattern (37 bp):
GATTCTTTATTTTTTGACTTATGGTGTTATCTAGATC
Found at i:9681577 original size:10 final size:10
Alignment explanation
Indices: 9681560--9681598 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
9681550 ATTCAATCCA
9681560 AAAAAAAATT
1 AAAAAAAATT
*
9681570 ACAAAAAA-T
1 AAAAAAAATT
*
9681579 AAAAAAAATA
1 AAAAAAAATT
9681589 AAAAAAAATT
1 AAAAAAAATT
9681599 CTCGATTTGC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (10 bp):
AAAAAAAATT
Found at i:9681584 original size:9 final size:9
Alignment explanation
Indices: 9681560--9681595 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
9681550 ATTCAATCCA
9681560 AAAAAAAATT
1 AAAAAAAA-T
*
9681570 ACAAAAAAT
1 AAAAAAAAT
9681579 AAAAAAAAT
1 AAAAAAAAT
9681588 AAAAAAAA
1 AAAAAAAA
9681596 ATTCTCGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 17 0.71
10 7 0.29
ACGTcount: A:0.86, C:0.03, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:9681584 original size:19 final size:19
Alignment explanation
Indices: 9681560--9681597 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
9681550 ATTCAATCCA
* *
9681560 AAAAAAAATTACAAAAAAT
1 AAAAAAAATAAAAAAAAAT
9681579 AAAAAAAATAAAAAAAAAT
1 AAAAAAAATAAAAAAAAAT
9681598 TCTCGATTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.13
Consensus pattern (19 bp):
AAAAAAAATAAAAAAAAAT
Found at i:9681863 original size:20 final size:20
Alignment explanation
Indices: 9681838--9681877 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
9681828 AAATACAAAC
* *
9681838 AAAAAAATATAAAA-AAAGA
1 AAAAAAAAAGAAAAGAAAGA
9681857 AAAAAAAAAGAAAAGAAAGA
1 AAAAAAAAAGAAAAGAAAGA
9681877 A
1 A
9681878 GAATAAGACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (20 bp):
AAAAAAAAAGAAAAGAAAGA
Found at i:9683173 original size:3 final size:3
Alignment explanation
Indices: 9683161--9683208 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
9683151 AATAAACTTT
9683161 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9683208 A
1 A
9683209 AATGCTTATA
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:9683545 original size:21 final size:21
Alignment explanation
Indices: 9683519--9683586 Score: 111
Period size: 21 Copynumber: 3.2 Consensus size: 21
9683509 TAAACCCTTA
9683519 AAACCCCAAAATCAAAACTCC
1 AAACCCCAAAATCAAAACTCC
9683540 AAACCCCAAAATCAAAACTCC
1 AAACCCCAAAATCAAAACTCC
*
9683561 AAACCCTAAAATCAAAAC-CC
1 AAACCCCAAAATCAAAACTCC
9683581 TAAACC
1 -AAACC
9683587 ATTTAAACCT
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
20 2 0.04
21 43 0.96
ACGTcount: A:0.53, C:0.37, G:0.00, T:0.10
Consensus pattern (21 bp):
AAACCCCAAAATCAAAACTCC
Found at i:9683578 original size:14 final size:14
Alignment explanation
Indices: 9683561--9683709 Score: 77
Period size: 14 Copynumber: 10.1 Consensus size: 14
9683551 TCAAAACTCC
9683561 AAACCCTAAAATCA
1 AAACCCTAAAATCA
**
9683575 AAACCCTAAACCATTT
1 AAACCCTAAA--ATCA
* *
9683591 AAACCTTAAAGTCA
1 AAACCCTAAAATCA
** *
9683605 AAATGCT-AAATCCC
1 AAACCCTAAAAT-CA
* *
9683619 AAATCCTAAAATCG
1 AAACCCTAAAATCA
*
9683633 AAACCCTAAAATCCTCC
1 AAACCCTAAAA---TCA
* *
9683650 AAGCCGTAAAA-CTA
1 AAACCCTAAAATC-A
* *
9683664 AAACCTTAAAATCG
1 AAACCCTAAAATCA
9683678 AAACCCTAAAATCCA
1 AAACCCTAAAAT-CA
9683693 GAAACCCTAAAATCA
1 -AAACCCTAAAATCA
9683708 AA
1 AA
9683710 CTTTTAAACC
Statistics
Matches: 101, Mismatches: 23, Indels: 22
0.69 0.16 0.15
Matches are distributed among these distances:
13 4 0.04
14 55 0.54
15 8 0.08
16 23 0.23
17 11 0.11
ACGTcount: A:0.50, C:0.28, G:0.05, T:0.18
Consensus pattern (14 bp):
AAACCCTAAAATCA
Found at i:9686767 original size:19 final size:18
Alignment explanation
Indices: 9686729--9686767 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
9686719 ATTTATGTTT
* *
9686729 TTTTCCACTTGCTTCTGC
1 TTTTCCACTTGCTCCAGC
9686747 TTTTCCACTTGCCTCCAGC
1 TTTTCCACTTG-CTCCAGC
9686766 TT
1 TT
9686768 GAAAATTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.08, C:0.36, G:0.10, T:0.46
Consensus pattern (18 bp):
TTTTCCACTTGCTCCAGC
Found at i:9688579 original size:21 final size:21
Alignment explanation
Indices: 9688555--9688617 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
9688545 TACAAGACCT
*
9688555 CACAACAGC-TTCTAGTTCAAA
1 CACAACAGCTTTC-AGCTCAAA
*
9688576 CACAACAGCTTTCAGCTCAAT
1 CACAACAGCTTTCAGCTCAAA
9688597 CACAACAGCTTTCAGCTCAAA
1 CACAACAGCTTTCAGCTCAAA
9688618 AAATGTTGTC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 35 0.92
22 3 0.08
ACGTcount: A:0.37, C:0.32, G:0.10, T:0.22
Consensus pattern (21 bp):
CACAACAGCTTTCAGCTCAAA
Found at i:9689288 original size:17 final size:15
Alignment explanation
Indices: 9689243--9689289 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 15
9689233 ATGAAATAAT
9689243 AAAATAT-TAACAA-
1 AAAATATATAACAAC
*
9689256 ATAATATATAACAAC
1 AAAATATATAACAAC
9689271 AAAATATAATAACTAAC
1 AAAATAT-ATAAC-AAC
9689288 AA
1 AA
9689290 TATGTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 6 0.21
14 6 0.21
15 6 0.21
16 5 0.18
17 5 0.18
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAATATATAACAAC
Found at i:9695781 original size:2 final size:2
Alignment explanation
Indices: 9695774--9695823 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
9695764 TACTTTTGTT
9695774 TC TC TC TC TC TC T- TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
9695815 TC TC TC TC T
1 TC TC TC TC T
9695824 ATCTATCTAT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:9700400 original size:16 final size:17
Alignment explanation
Indices: 9700379--9700421 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
9700369 TATTAAGTTT
*
9700379 AAATGAAATTCAAC-TG
1 AAATGAAATTCAACAAG
*
9700395 AAATGAAA-TGAACAAG
1 AAATGAAATTCAACAAG
9700411 AAATGAAATTC
1 AAATGAAATTC
9700422 CAATACTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 4 0.18
16 17 0.77
17 1 0.05
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (17 bp):
AAATGAAATTCAACAAG
Found at i:9703217 original size:16 final size:16
Alignment explanation
Indices: 9703192--9703227 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
9703182 GAAGGTTTTA
9703192 TATATATATATGTATG
1 TATATATATATGTATG
* *
9703208 TATGTATATATATATG
1 TATATATATATGTATG
9703224 TATA
1 TATA
9703228 AATTTTAGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (16 bp):
TATATATATATGTATG
Found at i:9708788 original size:3 final size:3
Alignment explanation
Indices: 9708780--9708832 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
9708770 CCCTAATCAA
* *
9708780 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9708828 AAT AA
1 AAT AA
9708833 ACCTTGAGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:9714513 original size:21 final size:23
Alignment explanation
Indices: 9714480--9714521 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
9714470 GGAATTTAAA
9714480 TTTTAATATTTATAATTTTTTAT
1 TTTTAATATTTATAATTTTTTAT
*
9714503 TTTTAA-A-TTATTATTTTTT
1 TTTTAATATTTATAATTTTTT
9714522 TATAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 1 0.06
23 6 0.33
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTTAATATTTATAATTTTTTAT
Found at i:9714953 original size:30 final size:30
Alignment explanation
Indices: 9714919--9715017 Score: 135
Period size: 30 Copynumber: 3.3 Consensus size: 30
9714909 TTTTTTTCAA
*
9714919 TCAAAAATTTAATTGGATAAAAATAAATAT
1 TCAAAAATTTAATTAGATAAAAATAAATAT
9714949 TCAAAAATTTAATTAGATAAAAATAAATAT
1 TCAAAAATTTAATTAGATAAAAATAAATAT
* ** * *
9714979 TTAATGATTTAATTACATGAAAATAAATAT
1 TCAAAAATTTAATTAGATAAAAATAAATAT
*
9715009 TTAAAAATT
1 TCAAAAATT
9715018 CAGTTGAATG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (30 bp):
TCAAAAATTTAATTAGATAAAAATAAATAT
Found at i:9718483 original size:11 final size:11
Alignment explanation
Indices: 9718463--9718503 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
9718453 ATAGAAAATT
*
9718463 AAAATTAAAAC
1 AAAATCAAAAC
9718474 AAAATCAAAATC
1 AAAATCAAAA-C
*
9718486 AAAATCAAATC
1 AAAATCAAAAC
9718497 AAAATCA
1 AAAATCA
9718504 TTTCATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 17 0.63
12 10 0.37
ACGTcount: A:0.68, C:0.15, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATCAAAAC
Found at i:9718483 original size:17 final size:18
Alignment explanation
Indices: 9718457--9718503 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
9718447 ATAAAAATAG
* *
9718457 AAAATTAAAATTAAAA-C
1 AAAATCAAAATCAAAATC
9718474 AAAATCAAAATCAAAATC
1 AAAATCAAAATCAAAATC
9718492 -AAATCAAAATCA
1 AAAATCAAAATCA
9718504 TTTCATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 26 0.96
18 1 0.04
ACGTcount: A:0.68, C:0.13, G:0.00, T:0.19
Consensus pattern (18 bp):
AAAATCAAAATCAAAATC
Found at i:9718495 original size:5 final size:6
Alignment explanation
Indices: 9718457--9718503 Score: 62
Period size: 6 Copynumber: 8.2 Consensus size: 6
9718447 ATAAAAATAG
* *
9718457 AAAATT AAAATT AAAA-C AAAATC AAAATC AAAATC -AAATC AAAATC
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
9718503 A
1 A
9718504 TTTCATTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
5 9 0.24
6 29 0.76
ACGTcount: A:0.68, C:0.13, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAATC
Found at i:9722896 original size:10 final size:10
Alignment explanation
Indices: 9722881--9722905 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
9722871 TTCAAGTCTC
9722881 CTAAACAAAA
1 CTAAACAAAA
9722891 CTAAACAAAA
1 CTAAACAAAA
9722901 CTAAA
1 CTAAA
9722906 ATTTTTACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.68, C:0.20, G:0.00, T:0.12
Consensus pattern (10 bp):
CTAAACAAAA
Found at i:9728327 original size:35 final size:35
Alignment explanation
Indices: 9728281--9728358 Score: 147
Period size: 35 Copynumber: 2.2 Consensus size: 35
9728271 ATGAAGCACC
9728281 ATTCATTCGATTCTTCTATTGCTGTGAGTACCTTA
1 ATTCATTCGATTCTTCTATTGCTGTGAGTACCTTA
9728316 ATTCATTCGATTCTTCTATTGCTGTGAGTACCTTA
1 ATTCATTCGATTCTTCTATTGCTGTGAGTACCTTA
*
9728351 ATTTATTC
1 ATTCATTC
9728359 AAAATCTTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (35 bp):
ATTCATTCGATTCTTCTATTGCTGTGAGTACCTTA
Found at i:9729986 original size:15 final size:15
Alignment explanation
Indices: 9729948--9729983 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
9729938 AGCAAATCCC
9729948 TTATAA-TAATTATA
1 TTATAATTAATTATA
9729962 TTATAATTAATTA-A
1 TTATAATTAATTATA
9729976 TTATAATT
1 TTATAATT
9729984 TAAAATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTATAATTAATTATA
Found at i:9735053 original size:18 final size:18
Alignment explanation
Indices: 9735032--9735076 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
9735022 GAACTAATAA
*
9735032 AAAGATTCGATAAGTGTT
1 AAAGATTCAATAAGTGTT
9735050 AAAGATTCAATAAGTGTT
1 AAAGATTCAATAAGTGTT
*
9735068 AAATATTCA
1 AAAGATTCA
9735077 CTTACATGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.44, C:0.07, G:0.16, T:0.33
Consensus pattern (18 bp):
AAAGATTCAATAAGTGTT
Found at i:9740239 original size:2 final size:2
Alignment explanation
Indices: 9740232--9740263 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9740222 TTGTAAGAGA
9740232 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
9740264 TGACAATGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9741670 original size:17 final size:18
Alignment explanation
Indices: 9741650--9741683 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9741640 TAAAAAATTG
9741650 AAAAATAAAAA-AAAAAC
1 AAAAATAAAAAGAAAAAC
*
9741667 AAAACTAAAAAGAAAAA
1 AAAAATAAAAAGAAAAA
9741684 TGAAAAAGCA
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:0.85, C:0.06, G:0.03, T:0.06
Consensus pattern (18 bp):
AAAAATAAAAAGAAAAAC
Found at i:9741690 original size:14 final size:13
Alignment explanation
Indices: 9741673--9741715 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
9741663 AAACAAAACT
*
9741673 AAAAAGAAAAATG
1 AAAAAGAAAAAGG
*
9741686 AAAAAGCAAAAGAG
1 AAAAAGAAAAAG-G
*
9741700 AAAAAGAATAAGG
1 AAAAAGAAAAAGG
9741713 AAA
1 AAA
9741716 GAATGGGAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.74, C:0.02, G:0.19, T:0.05
Consensus pattern (13 bp):
AAAAAGAAAAAGG
Found at i:9746269 original size:27 final size:28
Alignment explanation
Indices: 9746239--9746292 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
9746229 TGTTTTAATT
9746239 CTTTCTTTTGCTT-CA-CTTTTCTTTTTC
1 CTTTCTTTT-CTTGCATCTTTTCTTTTTC
*
9746266 CTTTCTTTTCTTGCATTTTTTCTTTTT
1 CTTTCTTTTCTTGCATCTTTTCTTTTT
9746293 TTTCTCTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 3 0.12
27 11 0.46
28 10 0.42
ACGTcount: A:0.04, C:0.22, G:0.04, T:0.70
Consensus pattern (28 bp):
CTTTCTTTTCTTGCATCTTTTCTTTTTC
Found at i:9746873 original size:20 final size:20
Alignment explanation
Indices: 9746848--9746893 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
9746838 CAAATAGAAG
* *
9746848 GTAAATTGAAATTGAAAATT
1 GTAAATTGAAAGTGAAAAAT
9746868 GTAAATTGAAAGTGAAAAAT
1 GTAAATTGAAAGTGAAAAAT
9746888 GTAAAT
1 GTAAAT
9746894 AATATAAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.52, C:0.00, G:0.17, T:0.30
Consensus pattern (20 bp):
GTAAATTGAAAGTGAAAAAT
Found at i:9747431 original size:12 final size:12
Alignment explanation
Indices: 9747414--9747440 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
9747404 TAAACAATTC
9747414 TCTTCTTTATTG
1 TCTTCTTTATTG
9747426 TCTTCTTTATTG
1 TCTTCTTTATTG
9747438 TCT
1 TCT
9747441 CGACCAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.19, G:0.07, T:0.67
Consensus pattern (12 bp):
TCTTCTTTATTG
Found at i:9748932 original size:18 final size:18
Alignment explanation
Indices: 9748909--9748946 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
9748899 AAGTTAGATA
9748909 AATAATAACAACAACAAT
1 AATAATAACAACAACAAT
* *
9748927 AATAATAATAATAACAAT
1 AATAATAACAACAACAAT
9748945 AA
1 AA
9748947 GTATCATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.68, C:0.11, G:0.00, T:0.21
Consensus pattern (18 bp):
AATAATAACAACAACAAT
Found at i:9757012 original size:24 final size:24
Alignment explanation
Indices: 9756976--9757028 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
9756966 TTAGTTTTTT
* *
9756976 AAAAATTAAAAAACT-GAAAAATA
1 AAAAATAAAAAAACTAGAAAAAAA
9756999 AAAAATAAACAAAACTAGAAAAAAA
1 AAAAATAAA-AAAACTAGAAAAAAA
9757024 AAAAA
1 AAAAA
9757029 AGAAAAGCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 8 0.31
24 6 0.23
25 12 0.46
ACGTcount: A:0.79, C:0.06, G:0.04, T:0.11
Consensus pattern (24 bp):
AAAAATAAAAAAACTAGAAAAAAA
Found at i:9757796 original size:23 final size:24
Alignment explanation
Indices: 9757765--9757810 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
9757755 AACATGTGAC
9757765 ATTTATATAAT-CATTTATTTAAT
1 ATTTATATAATACATTTATTTAAT
* *
9757788 ATTTTTATAATATATTTATTTAA
1 ATTTATATAATACATTTATTTAA
9757811 CATATGAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (24 bp):
ATTTATATAATACATTTATTTAAT
Found at i:9760489 original size:10 final size:10
Alignment explanation
Indices: 9760474--9760500 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
9760464 TATATAAAAC
9760474 AAAAAAAAGA
1 AAAAAAAAGA
9760484 AAAAAAAAGA
1 AAAAAAAAGA
9760494 AAAAAAA
1 AAAAAAA
9760501 GTCAACTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:9764329 original size:21 final size:21
Alignment explanation
Indices: 9764288--9764329 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9764278 TCGTCTGAAG
* **
9764288 ATGTTTTTATTTTTATTTTTT
1 ATGTTTTTAATTTTACATTTT
9764309 ATGTTTTTAATTTTACATTTT
1 ATGTTTTTAATTTTACATTTT
9764330 TAAAAATTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.19, C:0.02, G:0.05, T:0.74
Consensus pattern (21 bp):
ATGTTTTTAATTTTACATTTT
Found at i:9764964 original size:30 final size:29
Alignment explanation
Indices: 9764923--9765009 Score: 113
Period size: 30 Copynumber: 3.0 Consensus size: 29
9764913 AACTAAATTT
*
9764923 TTAAA-ATTTATTTTCATGTAATTAAATCA
1 TTAAATATTTATTTTCATCTAATTAAAT-A
* *
9764952 TTAAATATTTATTTTCATCTACTTAAAATT
1 TTAAATATTTATTTTCATCTAATT-AAATA
*
9764982 TTAAATATTTATTTTTATCTAATTAAAT
1 TTAAATATTTATTTTCATCTAATTAAAT
9765010 GTTTTATTGA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
29 9 0.18
30 38 0.75
31 4 0.08
ACGTcount: A:0.39, C:0.07, G:0.01, T:0.53
Consensus pattern (29 bp):
TTAAATATTTATTTTCATCTAATTAAATA
Found at i:9771151 original size:3 final size:3
Alignment explanation
Indices: 9771130--9771182 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
9771120 TACTCAAGGT
* *
9771130 TTA TTG TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9771178 TTA TT
1 TTA TT
9771183 TTGATTAGGG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:9778574 original size:58 final size:56
Alignment explanation
Indices: 9778434--9778988 Score: 560
Period size: 58 Copynumber: 9.7 Consensus size: 56
9778424 TTTGTACAGA
* * * * **
9778434 AAAAATTGATACTTTAAACTTTTTTTCAAAATATTTTTTTTGAAAACTTTAATTTCGAG
1 AAAAATTGATACTTTCAACTTTTCTTCAAAA-ATATTTTTT-AAAAC-TTATTTTTAAG
* *
9778493 GAAAATTGATACTTTCAACTTTTCCTCAAAAACTCATTTTTTAAAACTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTCTTCAAAAA-T-ATTTTTTAAAACTTATTTTTAAG
** *
9778551 AAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAACTT-TTAATTTCGAA-
1 AAAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTAAAACTTATT--TTT--AAG
* * * *
9778609 AAAAATTGATACTTTCAACTTTT-TCTCAAAAATTCACTTTTGAAAACTTGTTTCTAAG
1 AAAAATTGATACTTTCAACTTTTCT-TCAAAAA-T-ATTTTTTAAAACTTATTTTTAAG
* * *
9778667 GAAAATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTGAAAACTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTCTTCAAAAA--TATTTTTTAAAACTTATTTTTAAG
* * * *
9778725 GAGAATTGATACTTTCAACTTTTTTTCAAAAATATTTTTTAGAAAGCTTATTTTCAA-
1 AAAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTA-AAA-CTTATTTTTAAG
*
9778782 AGAAAATTGATACTTTTAACTTTTTCTTCAAAAATATTTTTTAGAAAGCTTA---TT---
1 A-AAAATTGATACTTTCAAC-TTTTCTTCAAAAATATTTTTTA-AAA-CTTATTTTTAAG
*
9778836 ---AATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTAGAAAGCTTATTTTCAAG
1 AAAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTA-AAA-CTTATTTTTAAG
* * *
9778891 AACAATTGATACTTTCAACTTTTCTTCAAAAATGTTTTTTAGAAAATTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTT--AAAACTTATTTTTAAG
9778949 AAAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTT
1 AAAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTT
9778989 TTGAATTTTA
Statistics
Matches: 429, Mismatches: 39, Indels: 57
0.82 0.07 0.11
Matches are distributed among these distances:
49 31 0.07
50 15 0.03
52 1 0.00
55 2 0.00
56 22 0.05
57 9 0.02
58 256 0.60
59 73 0.17
60 18 0.04
61 2 0.00
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.45
Consensus pattern (56 bp):
AAAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTAAAACTTATTTTTAAG
Found at i:9778722 original size:174 final size:171
Alignment explanation
Indices: 9778433--9778987 Score: 645
Period size: 174 Copynumber: 3.2 Consensus size: 171
9778423 TTTTGTACAG
* * *
9778433 AAAAAATTGATACTTTAAACTTTTT-TTCAAAATATTTTTTTTGAAAACTTTAATTTCGAGGAAA
1 AAAAAATTGATACTTTCAACTTTTTCTTCAAAA-ATTATTTTTGAAAAC-TT--TTTCTAGGAAA
* * *
9778497 ATTGATACTTTCAACTTTTCCTCAAAAACTCATTTTTTAAAACTTATTTTTAAGAAAAATTGATA
62 ATTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTGAAAACTTATTTTTAAGAAAAATTGATA
**
9778562 CTTTCAACTTTTCCCCAAAAATATTTTTT-GAAACTTTTAATTTCGA
127 CTTTCAACTTTTCTTCAAAAATATTTTTTAGAAAC-TTTAATTTC-A
*
9778608 AAAAAATTGATACTTTCAACTTTTTC-TCAAAAATTCACTTTTGAAAACTTGTTTCTAAGGAAAA
1 AAAAAATTGATACTTTCAACTTTTTCTTCAAAAATT-ATTTTTGAAAACTT-TTTCT-AGGAAAA
* *
9778672 TTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTGAAAACTTATTTTTAAGGAGAATTGATAC
63 TTGATACTTTCAACTTTTCCTCAAAAATTTATTTTTGAAAACTTATTTTTAAGAAAAATTGATAC
* *
9778737 TTTCAACTTTTTTTCAAAAATATTTTTTAGAAAGC-TTATTTTCA
128 TTTCAACTTTTCTTCAAAAATATTTTTTAGAAA-CTTTAATTTCA
* * *
9778781 AAGAAAATTGATACTTTTAACTTTTTCTTCAAAAA-TATTTTTTAGAAAGC-TTAT-T-----AA
1 AA-AAAATTGATACTTTCAACTTTTTCTTCAAAAATTA-TTTTT-GAAAACTTTTTCTAGGAAAA
* * * * *
9778838 TTGATACTTTCAACTTTTCTTCAAAAATATT-TTTTAGAAAGCTTATTTTCAAGAACAATTGATA
63 TTGATACTTTCAACTTTTCCTCAAAAAT-TTATTTTTGAAAACTTATTTTTAAGAAAAATTGATA
* * * *
9778902 CTTTCAACTTTTCTTCAAAAATGTTTTTTAGAAAATTTATTTTTA
127 CTTTCAACTTTTCTTCAAAAATATTTTTTAGAAACTTTAATTTCA
9778947 AGAAAAATTGATACTTTCAAC-TTTTCTTCAAAAA-TATTTTT
1 A-AAAAATTGATACTTTCAACTTTTTCTTCAAAAATTATTTTT
9778988 TTTGAATTTT
Statistics
Matches: 339, Mismatches: 29, Indels: 35
0.84 0.07 0.09
Matches are distributed among these distances:
164 5 0.01
165 15 0.04
166 115 0.34
167 3 0.01
172 1 0.00
173 10 0.03
174 133 0.39
175 56 0.17
176 1 0.00
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (171 bp):
AAAAAATTGATACTTTCAACTTTTTCTTCAAAAATTATTTTTGAAAACTTTTTCTAGGAAAATTG
ATACTTTCAACTTTTCCTCAAAAATTTATTTTTGAAAACTTATTTTTAAGAAAAATTGATACTTT
CAACTTTTCTTCAAAAATATTTTTTAGAAACTTTAATTTCA
Found at i:9779015 original size:5 final size:5
Alignment explanation
Indices: 9779007--9779078 Score: 55
Period size: 5 Copynumber: 14.4 Consensus size: 5
9778997 TATTTAAAAT
*
9779007 AATAA AAT-- AATAA AATAA AATAAA AATGAA AGTAAA AATAA AGA-AA
1 AATAA AATAA AATAA AATAA AAT-AA AAT-AA AAT-AA AATAA A-ATAA
9779053 AATAA GAATAA AAT-A AA-AA AATAA AA
1 AATAA -AATAA AATAA AATAA AATAA AA
9779079 AAATATATTA
Statistics
Matches: 55, Mismatches: 4, Indels: 16
0.73 0.05 0.21
Matches are distributed among these distances:
3 3 0.05
4 7 0.13
5 26 0.47
6 19 0.35
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.17
Consensus pattern (5 bp):
AATAA
Found at i:9779072 original size:28 final size:28
Alignment explanation
Indices: 9779007--9779081 Score: 82
Period size: 28 Copynumber: 2.6 Consensus size: 28
9778997 TATTTAAAAT
9779007 AATAAAATAATAAAATAAAATAAAAATGAA
1 AATAAAA-AATAAAA-AAAATAAAAATGAA
* *
9779037 AGT-AAAAATAAAGAAAAATAAGAAT-AA
1 AATAAAAAATAAA-AAAAATAAAAATGAA
9779064 AATAAAAAAATAAAAAAA
1 AAT-AAAAAATAAAAAAA
9779082 TATATTAAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
27 4 0.10
28 20 0.51
29 13 0.33
30 2 0.05
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (28 bp):
AATAAAAAATAAAAAAAATAAAAATGAA
Found at i:9779075 original size:8 final size:8
Alignment explanation
Indices: 9779002--9779083 Score: 51
Period size: 8 Copynumber: 9.8 Consensus size: 8
9778992 AATTTTATTT
*
9779002 AAAATAAT
1 AAAATAAA
*
9779010 AAAATAAT
1 AAAATAAA
9779018 AAAATAAA
1 AAAATAAA
*
9779026 ATAAA-AATG
1 A-AAATAA-A
*
9779035 AAAGTAAA
1 AAAATAAA
*
9779043 AATAA-AGA
1 AA-AATAAA
9779051 AAAATAAGAA
1 AAAAT-A-AA
9779061 TAAAATAAA
1 -AAAATAAA
9779070 AAAATAAA
1 AAAATAAA
9779078 AAAATA
1 AAAATA
9779084 TATTAAACAA
Statistics
Matches: 59, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
7 2 0.03
8 40 0.68
9 10 0.17
10 2 0.03
11 5 0.08
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (8 bp):
AAAATAAA
Found at i:9779588 original size:31 final size:32
Alignment explanation
Indices: 9779540--9779604 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 32
9779530 GAAAACTGAG
9779540 AAGTTGATCAAAAAATTCAAAC-TTGACCGAAA
1 AAGTTGATCAAAAAATTCAAACGTT-ACCGAAA
*
9779572 AAGTTG-TCGAAAAATTCAAACGTTACCGAAA
1 AAGTTGATCAAAAAATTCAAACGTTACCGAAA
9779603 AA
1 AA
9779605 TTCAACTAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
31 23 0.74
32 8 0.26
ACGTcount: A:0.49, C:0.15, G:0.14, T:0.22
Consensus pattern (32 bp):
AAGTTGATCAAAAAATTCAAACGTTACCGAAA
Found at i:9779957 original size:24 final size:23
Alignment explanation
Indices: 9779929--9780015 Score: 86
Period size: 24 Copynumber: 3.6 Consensus size: 23
9779919 CTTAACCGAA
9779929 AATTAATAAAAAAAAAGATAAAT
1 AATTAATAAAAAAAAAGATAAAT
* *
9779952 ATATTAATAGATAAAAAA-ATAATT
1 A-ATTAATA-AAAAAAAAGATAAAT
* *
9779976 AGATAAATAAAATAAATAGATAAAT
1 A-ATTAATAAAA-AAAAAGATAAAT
9780001 AATATAATAAAAAAA
1 AAT-TAATAAAAAAA
9780016 TAAAAGCAGA
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
23 3 0.06
24 28 0.55
25 20 0.39
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (23 bp):
AATTAATAAAAAAAAAGATAAAT
Found at i:9779989 original size:17 final size:17
Alignment explanation
Indices: 9779944--9780008 Score: 80
Period size: 17 Copynumber: 3.9 Consensus size: 17
9779934 ATAAAAAAAA
* *
9779944 AGATAAATATATTAA-T
1 AGATAAATAAAATAATT
9779960 AGATAAA-AAAATAATT
1 AGATAAATAAAATAATT
*
9779976 AGATAAATAAAATAAAT
1 AGATAAATAAAATAATT
*
9779993 AGATAAATAATATAAT
1 AGATAAATAAAATAAT
9780009 AAAAAAATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
15 5 0.12
16 15 0.36
17 22 0.52
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (17 bp):
AGATAAATAAAATAATT
Found at i:9779989 original size:29 final size:28
Alignment explanation
Indices: 9779957--9780019 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
9779947 TAAATATATT
*
9779957 AATAGATAAAAAAATAAT-TAGATAAATAA
1 AATAAATAAAAAAATAATATA-ATAAA-AA
* *
9779986 AATAAATAGATAAATAATATAATAAAAA
1 AATAAATAAAAAAATAATATAATAAAAA
9780014 AATAAA
1 AATAAA
9780020 AGCAGATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 8 0.27
29 20 0.67
30 2 0.07
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (28 bp):
AATAAATAAAAAAATAATATAATAAAAA
Found at i:9779991 original size:41 final size:39
Alignment explanation
Indices: 9779946--9780090 Score: 118
Period size: 36 Copynumber: 3.6 Consensus size: 39
9779936 AAAAAAAAAG
**
9779946 ATAAATATATTAATAGATAAAAAAATAATTAGATAAATAAA
1 ATAAATATATTAATAGATAAAAAAATAAGCAGATAAAT--A
* *
9779987 ATAAATAGATAAATAATATAATAAAAAAATAAAAGCAGATAAATA
1 ATAAAT--AT-ATTAATA-GATAAAAAAAT--AAGCAGATAAATA
* *
9780032 ATAAAAATATTAATAGATAAAAAAATAA--AAATAAA-A
1 ATAAATATATTAATAGATAAAAAAATAAGCAGATAAATA
*
9780068 ATATATATATTAAATA-ATAAAAA
1 ATAAATATATT-AATAGATAAAAA
9780091 TAAAAATAAA
Statistics
Matches: 87, Mismatches: 10, Indels: 19
0.75 0.09 0.16
Matches are distributed among these distances:
36 17 0.20
37 10 0.11
39 2 0.02
41 16 0.18
42 6 0.07
43 4 0.05
44 6 0.07
45 16 0.18
47 10 0.11
ACGTcount: A:0.69, C:0.01, G:0.04, T:0.26
Consensus pattern (39 bp):
ATAAATATATTAATAGATAAAAAAATAAGCAGATAAATA
Found at i:9779992 original size:4 final size:4
Alignment explanation
Indices: 9779928--9780019 Score: 53
Period size: 4 Copynumber: 22.8 Consensus size: 4
9779918 TCTTAACCGA
* * * * * * *
9779928 AAAT TAAT AAA- AAAA AAGAT AAAT ATAT TAAT AGAT AAAA AAAT AATT
1 AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* * *
9779976 AGAT AAAT AAAAT AAAT AGAT AAAT -AAT ATAAT AAAA AAAT AAA
1 AAAT AAAT -AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AAAT AAA
9780020 AGCAGATAAA
Statistics
Matches: 64, Mismatches: 19, Indels: 10
0.69 0.20 0.11
Matches are distributed among these distances:
3 6 0.09
4 47 0.73
5 11 0.17
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:9779999 original size:33 final size:33
Alignment explanation
Indices: 9779944--9780101 Score: 96
Period size: 33 Copynumber: 4.7 Consensus size: 33
9779934 ATAAAAAAAA
* *
9779944 AGATAAAT-ATATTAATAGATAAAAAAATA-ATT
1 AGATAAATAAAATAAATA-ATAAAAAAATATATT
* *
9779976 AGATAAATAAAATAAATAGAT-AAATAATATAAT
1 AGATAAATAAAATAAATA-ATAAAAAAATATATT
* * * * *
9780009 AAAAAAATAAAAGCAGATAAATAATAAAAATATTAAT
1 AGATAAATAAAA-TAAAT-AATAA-AAAAATA-TATT
9780046 AGATAAA-AAAATAAA-AATAAAAATATATATATT
1 AGATAAATAAAATAAATAATAAAAA-A-ATATATT
*
9780079 AAAT-AATAAAAATAAA-AATAAAA
1 AGATAAAT-AAAATAAATAATAAAA
9780102 GCTCATTGGA
Statistics
Matches: 100, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
32 20 0.20
33 34 0.34
34 23 0.23
35 4 0.04
36 10 0.10
37 9 0.09
ACGTcount: A:0.70, C:0.01, G:0.04, T:0.25
Consensus pattern (33 bp):
AGATAAATAAAATAAATAATAAAAAAATATATT
Found at i:9780029 original size:30 final size:30
Alignment explanation
Indices: 9779968--9780034 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
9779958 ATAGATAAAA
*
9779968 AAATAAT-TAGATAAATAAAATAAATAGAT
1 AAATAATATAGATAAATAAAATAAACAGAT
9779997 AAATAATATA-ATAAA-AAAATAAAAGCAGAT
1 AAATAATATAGATAAATAAAAT-AAA-CAGAT
9780027 AAATAATA
1 AAATAATA
9780035 AAAATATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
28 5 0.15
29 15 0.44
30 14 0.41
ACGTcount: A:0.69, C:0.01, G:0.06, T:0.24
Consensus pattern (30 bp):
AAATAATATAGATAAATAAAATAAACAGAT
Found at i:9780031 original size:47 final size:48
Alignment explanation
Indices: 9779933--9780040 Score: 125
Period size: 47 Copynumber: 2.2 Consensus size: 48
9779923 ACCGAAAATT
* **
9779933 AATAAAAAAAAAGATAAATATATTAATAGATAAAAAAATAATTAGATA
1 AATAAAAAAATAGATAAATATATTAATAGATAAAAAAATAAGCAGATA
9779981 AATAAAATAAATAGATAAATA-A-T-ATA-ATAAAAAAATAAAAGCAGATA
1 AATAAAA-AAATAGATAAATATATTAATAGATAAAAAAAT--AAGCAGATA
9780028 AATAATAAAAATA
1 AATAA-AAAAATA
9780041 TTAATAGATA
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
45 10 0.19
46 3 0.06
47 18 0.34
48 10 0.19
49 12 0.23
ACGTcount: A:0.70, C:0.01, G:0.06, T:0.23
Consensus pattern (48 bp):
AATAAAAAAATAGATAAATATATTAATAGATAAAAAAATAAGCAGATA
Found at i:9780054 original size:17 final size:17
Alignment explanation
Indices: 9779952--9780055 Score: 56
Period size: 17 Copynumber: 6.1 Consensus size: 17
9779942 AAAGATAAAT
9779952 ATATTAATAGATAAAAA
1 ATATTAATAGATAAAAA
9779969 A-A-TAATTAGATAAATAA
1 ATATTAA-TAGATAAA-AA
* *
9779986 A-ATAAATAGATAAATA
1 ATATTAATAGATAAAAA
*
9780002 ATA-TAATA-AAAAAATA
1 ATATTAATAGATAAAA-A
* ** *
9780018 AAAGCAGATAAATAATAAAA
1 ATATTA-ATAGAT-A-AAAA
9780038 ATATTAATAGATAAAAA
1 ATATTAATAGATAAAAA
9780055 A
1 A
9780056 ATAAAAATAA
Statistics
Matches: 65, Mismatches: 12, Indels: 20
0.67 0.12 0.21
Matches are distributed among these distances:
15 7 0.11
16 18 0.28
17 20 0.31
18 6 0.09
19 6 0.09
20 5 0.08
21 3 0.05
ACGTcount: A:0.68, C:0.01, G:0.06, T:0.25
Consensus pattern (17 bp):
ATATTAATAGATAAAAA
Found at i:9780067 original size:5 final size:6
Alignment explanation
Indices: 9780025--9780101 Score: 57
Period size: 6 Copynumber: 12.0 Consensus size: 6
9780015 ATAAAAGCAG
** *
9780025 ATAAATA ATAAAA ATATTA ATAGATA A-AAAA ATAAAA ATAAAA ATATATATA
1 ATAAA-A ATAAAA ATAAAA ATA-AAA ATAAAA ATAAAA ATAAAA ATA-A-A-A
*
9780077 TTAAATA ATAAAA ATAAAA ATAAAA
1 ATAAA-A ATAAAA ATAAAA ATAAAA
9780102 GCTCATTGGA
Statistics
Matches: 59, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
5 3 0.05
6 35 0.59
7 16 0.27
8 2 0.03
9 3 0.05
ACGTcount: A:0.73, C:0.00, G:0.01, T:0.26
Consensus pattern (6 bp):
ATAAAA
Found at i:9780076 original size:70 final size:70
Alignment explanation
Indices: 9779957--9780089 Score: 164
Period size: 69 Copynumber: 1.9 Consensus size: 70
9779947 TAAATATATT
* *
9779957 AATAGATAAAAAAATAATTAGATAAATAAAATAAATAGATAAATAATATAATAAAAAAATAAAAG
1 AATAGATAAAAAAATAATTAGATAAATAAAATAAAAAGAAAAATAATAT-ATAAAAAAATAAAAG
9780022 CAGATA
65 CAGATA
* * * *
9780028 AATA-ATAAAAATATTAA-TAGATAAA-AAAATAAAAATAAAAATATATATATTAAATAATAAAA
1 AATAGATAAAAA-AATAATTAGATAAATAAAATAAAAAGAAAAATA-ATATATAAAAAAATAAAA
9780090 ATAAAAATAA
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
69 27 0.50
70 19 0.35
71 8 0.15
ACGTcount: A:0.70, C:0.01, G:0.05, T:0.25
Consensus pattern (70 bp):
AATAGATAAAAAAATAATTAGATAAATAAAATAAAAAGAAAAATAATATATAAAAAAATAAAAGC
AGATA
Found at i:9780094 original size:28 final size:30
Alignment explanation
Indices: 9780025--9780101 Score: 100
Period size: 34 Copynumber: 2.4 Consensus size: 30
9780015 ATAAAAGCAG
9780025 ATAAATAATAAAAATATTAATAGATAAAAAA
1 ATAAA-AATAAAAATATTAATAGATAAAAAA
*
9780056 ATAAAAATAAAAATATATATATTAAATAATAAAA
1 ATAAAAATAAAAATAT-TA-A-TAGATAA-AAAA
9780090 ATAAAAATAAAA
1 ATAAAAATAAAA
9780102 GCTCATTGGA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
30 11 0.27
31 7 0.17
32 1 0.02
33 6 0.15
34 16 0.39
ACGTcount: A:0.73, C:0.00, G:0.01, T:0.26
Consensus pattern (30 bp):
ATAAAAATAAAAATATTAATAGATAAAAAA
Found at i:9780512 original size:41 final size:41
Alignment explanation
Indices: 9780419--9780714 Score: 339
Period size: 41 Copynumber: 7.1 Consensus size: 41
9780409 CATAAATAAA
* *
9780419 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACAACTTTG-AAAAGTAAATG
9780461 GCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAGTAAATG
1 GCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAGTAAATG
* **
9780502 GCTCTTCTAATCAGAGGCTCAACAACTTTGAAAA-TAACTAAA
1 GCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAGTAA--ATG
* *
9780544 GCTCCTTTAATCAGAGGCTCAACGACTTTTGAAAAGTAAATG
1 GCTCCTCTAATCAGAGGCTCAACAAC-TTTGAAAAGTAAATG
* *
9780586 GCTCCTCTAAAT-AGAGG-TACCACAACTTTGAAAAGTAAATT
1 GCTCCTCT-AATCAGAGGCT-CAACAACTTTGAAAAGTAAATG
* * * *
9780627 GCTCCTCTAAAT-AGAGGCACCACAACTTTGAAAAATAAATT
1 GCTCCTCT-AATCAGAGGCTCAACAACTTTGAAAAGTAAATG
* * * * *
9780668 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAGTAAATG
9780709 GCTCCT
1 GCTCCT
9780715 TGACAATCAT
Statistics
Matches: 227, Mismatches: 19, Indels: 17
0.86 0.07 0.06
Matches are distributed among these distances:
40 5 0.02
41 137 0.60
42 71 0.31
43 11 0.05
44 3 0.01
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (41 bp):
GCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAGTAAATG
Found at i:9780643 original size:125 final size:123
Alignment explanation
Indices: 9780413--9780714 Score: 398
Period size: 125 Copynumber: 2.4 Consensus size: 123
9780403 GAGAAACATA
*
9780413 AATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAAATAAATGGCTCCTCTAATCAGAGG
1 AATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTG-AAAAGTAAATGGCTCCTCTAATCAGAGG
* *
9780478 CTCAACAACTTTGAAAAGTAAATGGCTCTTCTAATCAGAGGCTCAACAACTTTGAAAAT
65 CTCAACAACTTTGAAAAGTAAATGGCTCCTCTAATCAGAGGCACAACAACTTTGAAAAT
*
9780537 AACTAAAGCTCCTTTAATCAGAGGCTCAACGACTTTTGAAAAGTAAATGGCTCCTCTAAAT-AGA
1 AA-TAAAGCTCCTCTAATCAGAGGCTCAACGAC-TTTGAAAAGTAAATGGCTCCTCT-AATCAGA
* * *
9780601 GG-TACCACAACTTTGAAAAGTAAATTGCTCCTCTAAAT-AGAGGCACCACAACTTTG-AAA-
63 GGCT-CAACAACTTTGAAAAGTAAATGGCTCCTCT-AATCAGAGGCACAACAACTTTGAAAAT
* * * *
9780660 AATAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCT
1 AATAAA--GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAGTAAATGGCTCCT
9780715 TGACAATCAT
Statistics
Matches: 159, Mismatches: 12, Indels: 15
0.85 0.06 0.08
Matches are distributed among these distances:
122 4 0.03
123 22 0.14
124 28 0.18
125 95 0.60
126 10 0.06
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (123 bp):
AATAAAGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAGTAAATGGCTCCTCTAATCAGAGGC
TCAACAACTTTGAAAAGTAAATGGCTCCTCTAATCAGAGGCACAACAACTTTGAAAAT
Found at i:9782478 original size:18 final size:17
Alignment explanation
Indices: 9782435--9782482 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
9782425 AATTTAAATC
*
9782435 TCTT-TTTTTTTTCATT
1 TCTTCTTTTTTTTCATA
*
9782451 TTTTCATTTTTTTTCATCA
1 TCTTC-TTTTTTTTCAT-A
9782470 TCTTCTTTTTTTT
1 TCTTCTTTTTTTT
9782483 TTCTCATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 3 0.12
18 19 0.73
19 4 0.15
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (17 bp):
TCTTCTTTTTTTTCATA
Found at i:9787431 original size:58 final size:57
Alignment explanation
Indices: 9787303--9787692 Score: 437
Period size: 58 Copynumber: 6.7 Consensus size: 57
9787293 TTTTGTATAG
* * * * *
9787303 GGAAAATTGATACTTTTAACTTTTTCTCAAAATATTTTTTTTGAAAACTTTAATTTCGA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAA-ATATTTTTTGAAAAC-TTATTTTCAA
** *
9787362 GGAAAATTGATACTTTCAACTTTTCCTCAAAACCCCA-TTTTTGAAAACTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAA--ATATTTTTTGAAAACTTATTTTCAA
* * *
9787420 GGAAAATTGATACTTTTAACTTTTCCTCAAAAATATTTTTTG-AAACTTTTAATTTCGA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAAC--TTATTTTCAA
* *
9787478 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATCCA-TTTTTGAAAACTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT--ATTTTTTGAAAACTTATTTTCAA
* * ** *
9787536 AGAGAATTGATACTTTCAACTTTTTTTCAAAAATATTTTTTAGAAAGCTTATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT-GAAAACTTATTTTCAA
* * * * *
9787594 GGAAAACTGATACTTTTAATTTTTCTTCAAAAATATTTTTTAGAAAGCTTATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT-GAAAACTTATTTTCAA
*
9787652 GAAAAATTGATACTGTT-AACTTTTCCTCAAAAATATTTTTT
1 GGAAAATTGATACT-TTCAACTTTTCCTCAAAAATATTTTTT
9787693 TGAATTTTAT
Statistics
Matches: 284, Mismatches: 37, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
56 6 0.02
57 11 0.04
58 213 0.75
59 49 0.17
60 5 0.02
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.44
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAACTTATTTTCAA
Found at i:9787508 original size:116 final size:113
Alignment explanation
Indices: 9787303--9787692 Score: 494
Period size: 116 Copynumber: 3.4 Consensus size: 113
9787293 TTTTGTATAG
* *
9787303 GGAAAATTGATACTTTTAACTTTTTCTCAAAATATTTTTTTTGAAAACTTTAATTTCGAGGAAAA
1 GGAAAATTGATACTTTTAACTTTTCCTCAAAA-ATATTTTTTG-AAACTTTAATTTCGAGGAAAA
9787368 TTGATACTTTCAACTTTTCCTCAAAACCCCATTTTTGAAAACTTATTTTTAA
64 TTGATACTTTCAACTTTTCCTCAAAA--CCATTTTTGAAAACTTATTTTTAA
*
9787420 GGAAAATTGATACTTTTAACTTTTCCTCAAAAATATTTTTTGAAACTTTTAATTTCGAGAAAAAT
1 GGAAAATTGATACTTTTAACTTTTCCTCAAAAATATTTTTTGAAAC-TTTAATTTCGAGGAAAAT
9787485 TGATACTTTCAACTTTTCCTCAAAAATCCATTTTTGAAAACTTATTTTTAA
65 TGATACTTTCAACTTTTCCTC-AAAA-CCATTTTTGAAAACTTATTTTTAA
* * * ** * *
9787536 AGAGAATTGATACTTTCAACTTTTTTTCAAAAATATTTTTTAGAAAGC-TTATTTTCAAGGAAAA
1 GGAAAATTGATACTTTTAACTTTTCCTCAAAAATATTTTTT-GAAA-CTTTAATTTCGAGGAAAA
* * * * ** * *
9787600 CTGATACTTTTAATTTTTCTTCAAAAATATTTTTTAGAAAGCTTATTTTCAA
64 TTGATACTTTCAACTTTTCCTCAAAACCA-TTTTT-GAAAACTTATTTTTAA
* *
9787652 GAAAAATTGATACTGTTAACTTTTCCTCAAAAATATTTTTT
1 GGAAAATTGATACTTTTAACTTTTCCTCAAAAATATTTTTT
9787693 TGAATTTTAT
Statistics
Matches: 240, Mismatches: 27, Indels: 13
0.86 0.10 0.05
Matches are distributed among these distances:
114 1 0.00
115 13 0.05
116 186 0.77
117 39 0.16
118 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.08, T:0.44
Consensus pattern (113 bp):
GGAAAATTGATACTTTTAACTTTTCCTCAAAAATATTTTTTGAAACTTTAATTTCGAGGAAAATT
GATACTTTCAACTTTTCCTCAAAACCATTTTTGAAAACTTATTTTTAA
Found at i:9787695 original size:174 final size:172
Alignment explanation
Indices: 9787305--9787696 Score: 486
Period size: 174 Copynumber: 2.2 Consensus size: 172
9787295 TTGTATAGGG
* * *
9787305 AAAATTGATACTTTTAACTTTTTCTC-AAAATATTTTTTTTGAAAACTTTAATTTCGAGGAAAAT
1 AAAATTGATAC-TTTAACTTTTCCTCAAAAATA-TTTTTTTGAAAACTTTAATTTCAAAGAAAAT
* * *
9787369 TGATACTTTCAACTTTTCCTCAAAACCCCATTTTTGAAAACTTATTTTTAAGGAAAATTGATACT
64 TGATACTTTCAACTTTTCCTCAAAA-CACATTTTTGAAAACTTATTTTCAAGGAAAACTGATACT
*
9787434 TTTAACTTTTCCTCAAAAATATTTTTTGAAACTTTTAATTTCGAGA
128 TTTAACTTTTCCTCAAAAATATTTTTTGAAAC-TTTAATTTCAAGA
*** * * *
9787480 AAAATTGATACTTTCAACTTTTCCTCAAAAATCCATTTTTGAAAAC-TTATTTTTAAAGAGAATT
1 AAAATTGATACTTT-AACTTTTCCTCAAAAATATTTTTTTGAAAACTTTAATTTCAAAGAAAATT
** * *
9787544 GATACTTTCAACTTTTTTTCAAAA-ATATTTTTTAGAAAGCTTATTTTCAAGGAAAACTGATACT
65 GATACTTTCAACTTTTCCTCAAAACACA-TTTTT-GAAAACTTATTTTCAAGGAAAACTGATACT
* * *
9787608 TTTAATTTTTCTTCAAAAATATTTTTTAGAAAGC-TTATTTTCAAGA
128 TTTAACTTTTCCTCAAAAATATTTTTT-GAAA-CTTTAATTTCAAGA
9787654 AAAATTGATACTGTTAACTTTTCCTCAAAAATATTTTTTTGAA
1 AAAATTGATACT-TTAACTTTTCCTCAAAAATATTTTTTTGAA
9787697 TTTTATTTAT
Statistics
Matches: 187, Mismatches: 23, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
172 1 0.01
173 5 0.03
174 137 0.73
175 38 0.20
176 6 0.03
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (172 bp):
AAAATTGATACTTTAACTTTTCCTCAAAAATATTTTTTTGAAAACTTTAATTTCAAAGAAAATTG
ATACTTTCAACTTTTCCTCAAAACACATTTTTGAAAACTTATTTTCAAGGAAAACTGATACTTTT
AACTTTTCCTCAAAAATATTTTTTGAAACTTTAATTTCAAGA
Found at i:9787764 original size:3 final size:3
Alignment explanation
Indices: 9787756--9787786 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
9787746 TAAACAAATC
9787756 AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
9787787 ATAAATTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:9787767 original size:6 final size:6
Alignment explanation
Indices: 9787711--9787786 Score: 58
Period size: 6 Copynumber: 13.3 Consensus size: 6
9787701 ATTTATAGAA
* *
9787711 AATAA- AATAAT AA-AAT AAAAAT AA-AA- AATATAT ATTAA- ACA-AAT
1 AATAAT AATAAT AATAAT AATAAT AATAAT AATA-AT AATAAT A-ATAAT
9787755 CAATAAT AATAAT AATAAT AATAAT AA-AAT AA
1 -AATAAT AATAAT AATAAT AATAAT AATAAT AA
9787787 ATAAATTAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 18
0.75 0.03 0.22
Matches are distributed among these distances:
4 2 0.03
5 21 0.35
6 30 0.50
7 7 0.12
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (6 bp):
AATAAT
Found at i:9787770 original size:9 final size:9
Alignment explanation
Indices: 9787711--9787786 Score: 58
Period size: 9 Copynumber: 8.9 Consensus size: 9
9787701 ATTTATAGAA
9787711 AATAA-AAT
1 AATAATAAT
9787719 AATAA-AAT
1 AATAATAAT
*
9787727 AAAAATAA-
1 AATAATAAT
9787735 AA-AATATAT
1 AATAATA-AT
*
9787744 ATTAA-ACA-
1 AATAATA-AT
9787752 AATCAATAAT
1 AAT-AATAAT
9787762 AATAATAAT
1 AATAATAAT
9787771 AATAATAAT
1 AATAATAAT
9787780 AA-AATAA
1 AATAATAA
9787787 ATAAATTAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
7 4 0.07
8 22 0.39
9 25 0.44
10 6 0.11
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (9 bp):
AATAATAAT
Found at i:9788308 original size:31 final size:32
Alignment explanation
Indices: 9788244--9788308 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 32
9788234 GAAAACTGCG
*
9788244 AAGTTGGTCGAAAAATTCAAACTTGACCGAAA
1 AAGTTGGTCGAAAAATTCAAACTTGACCAAAA
*
9788276 AAGTT-GTTGAAAAATTCAAACGTTG-CCAAAA
1 AAGTTGGTCGAAAAATTCAAAC-TTGACCAAAA
9788307 AA
1 AA
9788309 TTCAACTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
31 22 0.73
32 8 0.27
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.23
Consensus pattern (32 bp):
AAGTTGGTCGAAAAATTCAAACTTGACCAAAA
Found at i:9788673 original size:19 final size:19
Alignment explanation
Indices: 9788651--9788704 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
9788641 AAAAAAAGAT
*
9788651 AAATATATTA-ATAGATAAA
1 AAATA-ATTAGATAAATAAA
9788670 AAATAATTAGATAAATAAA
1 AAATAATTAGATAAATAAA
*
9788689 AGA-AA-TAGATAAATAA
1 AAATAATTAGATAAATAA
9788705 TAATAATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 11 0.34
18 6 0.19
19 15 0.47
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (19 bp):
AAATAATTAGATAAATAAA
Found at i:9788712 original size:17 final size:17
Alignment explanation
Indices: 9788647--9788712 Score: 68
Period size: 17 Copynumber: 4.1 Consensus size: 17
9788637 AATAAAAAAA
*
9788647 AGATAAAT-ATATTAAT
1 AGATAAATAATAATAAT
*
9788663 AGATAAAAAATAAT--T
1 AGATAAATAATAATAAT
*
9788678 AGATAAATAA-AAGAAAT
1 AGATAAATAATAA-TAAT
9788695 AGATAAATAATAATAAT
1 AGATAAATAATAATAAT
9788712 A
1 A
9788713 AAAAATAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
14 2 0.05
15 10 0.25
16 7 0.17
17 19 0.47
18 2 0.05
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (17 bp):
AGATAAATAATAATAAT
Found at i:9788741 original size:23 final size:22
Alignment explanation
Indices: 9788706--9788768 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 22
9788696 GATAAATAAT
9788706 AATAATAAAAAATAAAAGCAGATA
1 AATAAT-AAAAATAAAA-CAGATA
* *
9788730 AATAATAAAAATATTAATAGATA
1 AATAATAAAAATA-AAACAGATA
*
9788753 AAAAATAAAAATAAAA
1 AATAATAAAAATAAAA
9788769 ATAAAAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
22 2 0.06
23 24 0.71
24 8 0.24
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.21
Consensus pattern (22 bp):
AATAATAAAAATAAAACAGATA
Done.