Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 196 of 292
Found at i:58590591 original size:3 final size:3
Alignment explanation
Indices: 58590583--58590616 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
58590573 ACAAATTAAA
*
58590583 AAT AAT AAT ATT AAT AAT AAT -AT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
58590617 ATTTAAAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:58590673 original size:17 final size:17
Alignment explanation
Indices: 58590644--58590685 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 17
58590634 TATATAAAAG
58590644 GATATAAATAAATAAAT
1 GATATAAATAAATAAAT
58590661 GATA-AAATAAAATAAAT
1 GATATAAAT-AAATAAAT
58590678 GTATATAA
1 G-ATATAA
58590686 GAAAAAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 4 0.18
17 13 0.59
18 3 0.14
19 2 0.09
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (17 bp):
GATATAAATAAATAAAT
Found at i:58590984 original size:2 final size:2
Alignment explanation
Indices: 58590942--58590972 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
58590932 TTAAAATCCT
58590942 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
58590973 GAGGGATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:58591132 original size:13 final size:13
Alignment explanation
Indices: 58591114--58591140 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
58591104 TTAAAAGAAG
58591114 ATAAATAAAATAA
1 ATAAATAAAATAA
58591127 ATAAATAAAATAA
1 ATAAATAAAATAA
58591140 A
1 A
58591141 ACAGAACAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (13 bp):
ATAAATAAAATAA
Found at i:58593500 original size:13 final size:13
Alignment explanation
Indices: 58593482--58593506 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58593472 ATTGAAGAGG
58593482 AAAAATAAAAAAT
1 AAAAATAAAAAAT
58593495 AAAAATAAAAAA
1 AAAAATAAAAAA
58593507 AAAGGAAGGA
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:58594094 original size:21 final size:21
Alignment explanation
Indices: 58594068--58594110 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
58594058 TTTCCAAGTA
58594068 TATTTA-CGGAAATGGACCGAT
1 TATTTACCGGAAA-GGACCGAT
*
58594089 TATTTACCGGAAAGGGCCGAT
1 TATTTACCGGAAAGGACCGAT
58594110 T
1 T
58594111 TTGGCAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (21 bp):
TATTTACCGGAAAGGACCGAT
Found at i:58594178 original size:13 final size:13
Alignment explanation
Indices: 58594160--58594185 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
58594150 ATTTCCAGCA
58594160 AATCGCGCCCCTG
1 AATCGCGCCCCTG
58594173 AATCGCGCCCCTG
1 AATCGCGCCCCTG
58594186 GGGAAGCGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.46, G:0.23, T:0.15
Consensus pattern (13 bp):
AATCGCGCCCCTG
Found at i:58594625 original size:122 final size:125
Alignment explanation
Indices: 58594404--58594666 Score: 358
Period size: 122 Copynumber: 2.1 Consensus size: 125
58594394 GGGCTTAGGG
* *
58594404 TTTTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAGACGTTTTTGAACAAAGAGTGTAAAAAAT
1 TTTTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAAACGTTTCTGAACAAAGAGTGTAAAAAAT
* * *
58594469 GCTTTAAGCAGGATGCACTGTCAGCAAAAGTACTGAAAAATA-CTCCCACGTGGACACTAT
66 GCTTAAAGCAGAATCCACTGTCAGCAAAAGTACTGAAAAA-AGCTCCCACGTGGACACTAT
* *
58594529 TTTTCTACAGTAGTTCCT-AAAAA-AA-TTTGAGAAAACGTTTCTGAATAAATAGTGTAAAAAAC
1 TTTTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAAACGTTTCTGAACAAAGAGTGTAAAAAA-
* * * *
58594591 T-CTTCAAAG-AGAATCCACTGTCAGTAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCT
65 TGCTT-AAAGCAGAATCCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACACTAT
58594651 TTTTCTACAGTAGTTC
1 TTTTCTACAGTAGTTC
58594667 ATGTTTGGCC
Statistics
Matches: 124, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
121 1 0.01
122 94 0.76
123 6 0.05
124 5 0.04
125 18 0.15
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (125 bp):
TTTTCTACAGTAGTTCCTAAAAAATAATTTTGAGAAAACGTTTCTGAACAAAGAGTGTAAAAAAT
GCTTAAAGCAGAATCCACTGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACACTAT
Found at i:58598578 original size:27 final size:27
Alignment explanation
Indices: 58598558--58598642 Score: 107
Period size: 27 Copynumber: 3.1 Consensus size: 27
58598548 GGTATTTTAG
*
58598558 TAATTTTACAAATTGAAGGTATTTCGA
1 TAATTTTACAAATCGAAGGTATTTCGA
* *
58598585 TAATTTCACAAATCGGAGGTATTTCGA
1 TAATTTTACAAATCGAAGGTATTTCGA
* ** *
58598612 TAATTTTACAAACCGGGGGTATTTCAA
1 TAATTTTACAAATCGAAGGTATTTCGA
58598639 TAAT
1 TAAT
58598643 CTAAACAGTT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.36
Consensus pattern (27 bp):
TAATTTTACAAATCGAAGGTATTTCGA
Found at i:58598869 original size:18 final size:18
Alignment explanation
Indices: 58598848--58598883 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
58598838 AAAGTTTGTC
58598848 ACTAATCGAGGATTTTAT
1 ACTAATCGAGGATTTTAT
58598866 ACTAATCGAGGATTTTAT
1 ACTAATCGAGGATTTTAT
58598884 CCGTGCGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (18 bp):
ACTAATCGAGGATTTTAT
Found at i:58600008 original size:24 final size:25
Alignment explanation
Indices: 58599980--58600045 Score: 66
Period size: 24 Copynumber: 2.7 Consensus size: 25
58599970 CTCATTAAAT
*
58599980 CTCTCCATAAATCACTCCT-TGATT
1 CTCTCCATAAATCACTCCTATGATA
* *
58600004 TTCTCC-TAATATCTCT-CTATGATA
1 CTCTCCATAA-ATCACTCCTATGATA
*
58600028 CACTCCATAAATCACTCC
1 CTCTCCATAAATCACTCC
58600046 AACCTCTCAT
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
23 5 0.16
24 23 0.72
25 4 0.12
ACGTcount: A:0.27, C:0.33, G:0.03, T:0.36
Consensus pattern (25 bp):
CTCTCCATAAATCACTCCTATGATA
Found at i:58601135 original size:7 final size:7
Alignment explanation
Indices: 58601125--58601149 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
58601115 TTATATACAT
58601125 AATACTA
1 AATACTA
58601132 AATACTA
1 AATACTA
58601139 AATACTA
1 AATACTA
58601146 AATA
1 AATA
58601150 TGAAATGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:58602098 original size:18 final size:19
Alignment explanation
Indices: 58602054--58602099 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
58602044 ACAGACTGTT
*
58602054 ATAAAAAATTATAAAATAC
1 ATAAATAATTATAAAATAC
* *
58602073 A-AATTAATTA-AAATTAC
1 ATAAATAATTATAAAATAC
58602090 ATAAATAATT
1 ATAAATAATT
58602100 TTTTAAAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
17 7 0.32
18 14 0.64
19 1 0.05
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAAATAATTATAAAATAC
Found at i:58602319 original size:21 final size:21
Alignment explanation
Indices: 58602286--58602339 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
58602276 TAAAGAGAGT
** *
58602286 TTTGAGAAATTTAATGAGAAA
1 TTTGAGAGCTTTAAGGAGAAA
*
58602307 TTTGAGAGCTTTAGGGAGAAA
1 TTTGAGAGCTTTAAGGAGAAA
58602328 TTTGAGAGCTTT
1 TTTGAGAGCTTT
58602340 TTTGCTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (21 bp):
TTTGAGAGCTTTAAGGAGAAA
Found at i:58602667 original size:29 final size:30
Alignment explanation
Indices: 58602610--58602672 Score: 78
Period size: 29 Copynumber: 2.1 Consensus size: 30
58602600 CGTTTTGCCA
*
58602610 AAATCAGCCCTTTCTGGTAAATAATGTT-G
1 AAATCAGCCCTTTCTGATAAATAATGTTGG
58602639 AAATCAGCCCATTTCT-ATAAAT-ATAGTTGG
1 AAATCAGCCC-TTTCTGATAAATAAT-GTTGG
58602669 AAAT
1 AAAT
58602673 GGACCTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 2 0.07
29 18 0.60
30 10 0.33
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (30 bp):
AAATCAGCCCTTTCTGATAAATAATGTTGG
Found at i:58616408 original size:15 final size:15
Alignment explanation
Indices: 58616388--58616417 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
58616378 TGTTAAAAAA
58616388 TGGATAATTTTGTTG
1 TGGATAATTTTGTTG
58616403 TGGATAATTTTGTTG
1 TGGATAATTTTGTTG
58616418 GTTCATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (15 bp):
TGGATAATTTTGTTG
Found at i:58616563 original size:17 final size:17
Alignment explanation
Indices: 58616520--58616562 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
58616510 TATTTAATCT
* *
58616520 AATTCATTTGATATATTC
1 AATT-ATTTTATATATTA
58616538 AATTATTTTATATATTA
1 AATTATTTTATATATTA
58616555 AA-TATTTT
1 AATTATTTT
58616563 TTAAAAACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 6 0.26
17 13 0.57
18 4 0.17
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (17 bp):
AATTATTTTATATATTA
Found at i:58623160 original size:32 final size:32
Alignment explanation
Indices: 58623124--58623188 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
58623114 TTGTTTATTT
58623124 ATTTATAATCAATTGATAAAAATTAATTTGTG
1 ATTTATAATCAATTGATAAAAATTAATTTGTG
58623156 ATTTATAATCAATTGATAAAAATTAATTTGTG
1 ATTTATAATCAATTGATAAAAATTAATTTGTG
58623188 A
1 A
58623189 GATTTCTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.43
Consensus pattern (32 bp):
ATTTATAATCAATTGATAAAAATTAATTTGTG
Found at i:58623797 original size:17 final size:18
Alignment explanation
Indices: 58623770--58623815 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
58623760 GTAGTAATTT
58623770 TATAT-TATTATAAT-TG
1 TATATATATTATAATGTG
* *
58623786 TGTATATATTAT-GTGTG
1 TATATATATTATAATGTG
58623803 TATATATATTATA
1 TATATATATTATA
58623816 TGCATGTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 5 0.21
17 19 0.79
ACGTcount: A:0.35, C:0.00, G:0.11, T:0.54
Consensus pattern (18 bp):
TATATATATTATAATGTG
Found at i:58625585 original size:15 final size:17
Alignment explanation
Indices: 58625560--58625597 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
58625550 TCATTTACTT
*
58625560 CATACATATATTT-TTA
1 CATAAATATATTTATTA
58625576 -ATAAATATATTTATTA
1 CATAAATATATTTATTA
58625592 CATAAA
1 CATAAA
58625598 AAAATTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 11 0.58
16 3 0.16
17 5 0.26
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (17 bp):
CATAAATATATTTATTA
Found at i:58626108 original size:30 final size:32
Alignment explanation
Indices: 58626061--58626126 Score: 102
Period size: 30 Copynumber: 2.2 Consensus size: 32
58626051 TAATAAAAGT
*
58626061 AAAA-TTATATTTAAATTTTTTTAAAATTATA
1 AAAATTTATATTTAAATTTTTTAAAAATTATA
58626092 AAAATTTA-ATTT-AATTTTTTAAAAATTATA
1 AAAATTTATATTTAAATTTTTTAAAAATTATA
58626122 AAAAT
1 AAAAT
58626127 ATAGAATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
30 22 0.67
31 8 0.24
32 3 0.09
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (32 bp):
AAAATTTATATTTAAATTTTTTAAAAATTATA
Found at i:58627935 original size:22 final size:22
Alignment explanation
Indices: 58627903--58627945 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
58627893 TAAATTTTAA
58627903 ATTTTAAAA-TTAATATAAATT
1 ATTTTAAAATTTAATATAAATT
*
58627924 ATTTGTAAAATTTAATTTAAAT
1 ATTT-TAAAATTTAATATAAAT
58627946 AAATAAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 5 0.26
23 10 0.53
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
ATTTTAAAATTTAATATAAATT
Found at i:58628435 original size:26 final size:25
Alignment explanation
Indices: 58628406--58628455 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
58628396 AATGTAAAGC
* *
58628406 AACATTATTCAATATAATAACTAATT
1 AACATAATTAAATATAATAA-TAATT
*
58628432 AACATAATTAAATTTAATAATAAT
1 AACATAATTAAATATAATAATAAT
58628456 AAAAGGATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (25 bp):
AACATAATTAAATATAATAATAATT
Found at i:58630845 original size:103 final size:101
Alignment explanation
Indices: 58630667--58630917 Score: 260
Period size: 103 Copynumber: 2.5 Consensus size: 101
58630657 TGCCATAGTT
* * * * ****
58630667 CAACTATGGTCTTACACAT--ATATTGCCAT-GACCCTACCATGGTCTTACATTTGTAGTGCCAT
1 CAACTATGGTCTTACATATAAATATAGCCATGGA-CCAACCATGGTCTTACGTTAACGGTGCCAT
* ** *
58630729 AACCCAGTTATGGTC-TTATCATTAGGATGTTATAGCC
65 AACCCAGTTATGGTCATT-TCACTAAAATGCTATAGCC
* ** *
58630766 CAGCTATGGTCTTACACATATATTTACTA-CCATGGTCCAACCATGGTCTTACGTTAACGGTGCC
1 CAACTATGGTCTT--ACATATAAATA-TAGCCATGGACCAACCATGGTCTTACGTTAACGGTGCC
*
58630830 ATAACTCAGTTATGGTCATTTCACTAAAATGCTATAGCC
63 ATAACCCAGTTATGGTCATTTCACTAAAATGCTATAGCC
*
58630869 CAACTATGGTCTTACATTTAAATATAGCCATGGACCAACCATGGTCTTA
1 CAACTATGGTCTTACATATAAATATAGCCATGGACCAACCATGGTCTTA
58630918 TCCATCAATT
Statistics
Matches: 123, Mismatches: 21, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
99 12 0.10
100 2 0.02
101 34 0.28
103 71 0.58
104 4 0.03
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.33
Consensus pattern (101 bp):
CAACTATGGTCTTACATATAAATATAGCCATGGACCAACCATGGTCTTACGTTAACGGTGCCATA
ACCCAGTTATGGTCATTTCACTAAAATGCTATAGCC
Found at i:58633905 original size:93 final size:93
Alignment explanation
Indices: 58633797--58633969 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 93
58633787 CGCCCATAAG
** *
58633797 CGAACTCAGACTCAACTCAATGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
58633862 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
*
58633890 CGAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTTAACTCA
1 CGAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
58633955 ACGAGCTCGGATGCC
66 ACGAGCTCGGATGCC
58633970 CAAATATCCT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:58633965 original size:46 final size:46
Alignment explanation
Indices: 58633790--58633965 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
58633780 TATAACCCGC
* *
58633790 CCATAAGCGAACTCAGACTCAACTCAATGAGCTCGGGCATTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
58633836 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* *
58633886 -C-TCA-CGAACTCAGACTCAACTCAACAAGCTCGGACATTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
58633929 CCATAAGTGAACTCGGACTTAACTCAACGAGCTCGGA
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGA
58633966 TGCCCAAATA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 59 0.56
47 27 0.25
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:58639341 original size:40 final size:40
Alignment explanation
Indices: 58639286--58639535 Score: 385
Period size: 40 Copynumber: 6.2 Consensus size: 40
58639276 AACATTGGAA
58639286 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
58639326 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
58639366 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
58639406 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
58639446 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
58639485 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
58639526 CTATATCCGG
1 ATATATCCGG
58639536 TTAAATCCCG
Statistics
Matches: 191, Mismatches: 17, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 189 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:58644210 original size:46 final size:46
Alignment explanation
Indices: 58644158--58644382 Score: 378
Period size: 46 Copynumber: 4.9 Consensus size: 46
58644148 GTGCTCTCTC
*
58644158 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATTGCAACCTG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
58644204 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
58644250 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
** *
58644296 ATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
** **
58644342 ATGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCA
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
58644383 TCATGTCAAA
Statistics
Matches: 173, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 173 1.00
ACGTcount: A:0.39, C:0.14, G:0.24, T:0.23
Consensus pattern (46 bp):
ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:58644689 original size:16 final size:17
Alignment explanation
Indices: 58644668--58644700 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
58644658 ATGATGGTGC
58644668 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
58644684 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
58644701 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:58651030 original size:44 final size:44
Alignment explanation
Indices: 58650955--58651075 Score: 170
Period size: 44 Copynumber: 2.7 Consensus size: 44
58650945 TAAACTTGAT
* * *
58650955 CTGAATCTAACCCCACCCGACCTAACTGATTAGAACTAATTTAAC
1 CTGAATCTAGCCCCA-CCGACCTAACCGATTAGAACTAATTCAAC
* *
58651000 CTGAATCTAGCCCCATCGACCTAACCGATTAGCACTAATTCAAC
1 CTGAATCTAGCCCCACCGACCTAACCGATTAGAACTAATTCAAC
* *
58651044 CTGAATCTAGCCCAACCGACCTAATCGATTAG
1 CTGAATCTAGCCCCACCGACCTAACCGATTAG
58651076 CACAAATATT
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
44 54 0.79
45 14 0.21
ACGTcount: A:0.33, C:0.32, G:0.12, T:0.23
Consensus pattern (44 bp):
CTGAATCTAGCCCCACCGACCTAACCGATTAGAACTAATTCAAC
Found at i:58651401 original size:33 final size:34
Alignment explanation
Indices: 58651321--58651407 Score: 92
Period size: 33 Copynumber: 2.6 Consensus size: 34
58651311 TGACTATATA
* *
58651321 AAATTTACAATAAATAAAAAAATATAAAATTTTATT
1 AAATTTA-AA-AAATAATATAATATAAAATTTTATT
58651357 AAATATT--AAAATAATATAATAT-AAATATTT-TT
1 AAAT-TTAAAAAATAATATAATATAAAAT-TTTATT
58651389 AAATTTAAAAAATAATATA
1 AAATTTAAAAAATAATATA
58651408 TACGAGTCTA
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
31 2 0.04
32 10 0.22
33 26 0.58
34 1 0.02
36 4 0.09
37 2 0.04
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (34 bp):
AAATTTAAAAAATAATATAATATAAAATTTTATT
Found at i:58654514 original size:6 final size:6
Alignment explanation
Indices: 58654503--58654529 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
58654493 ATAATTTAAT
58654503 AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAA
58654530 AACATATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:58654589 original size:27 final size:27
Alignment explanation
Indices: 58654550--58654609 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
58654540 TTTATACAAA
* * *
58654550 TAATTCGGTTAATTCTGTTAATTTGGT
1 TAATTTGGGTAATTCGGTTAATTTGGT
58654577 TAATTTGGGTAATTCGGTTAATTTGGT
1 TAATTTGGGTAATTCGGTTAATTTGGT
58654604 TAATTT
1 TAATTT
58654610 TATACTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.23, C:0.05, G:0.20, T:0.52
Consensus pattern (27 bp):
TAATTTGGGTAATTCGGTTAATTTGGT
Found at i:58654609 original size:9 final size:9
Alignment explanation
Indices: 58654550--58654609 Score: 77
Period size: 9 Copynumber: 6.7 Consensus size: 9
58654540 TTTATACAAA
*
58654550 TAATTCGGT
1 TAATTTGGT
58654559 TAATTCT-GT
1 TAATT-TGGT
58654568 TAATTTGGT
1 TAATTTGGT
*
58654577 TAATTTGGG
1 TAATTTGGT
*
58654586 TAATTCGGT
1 TAATTTGGT
58654595 TAATTTGGT
1 TAATTTGGT
58654604 TAATTT
1 TAATTT
58654610 TATACTTATT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
8 1 0.02
9 43 0.98
ACGTcount: A:0.23, C:0.05, G:0.20, T:0.52
Consensus pattern (9 bp):
TAATTTGGT
Found at i:58657093 original size:50 final size:50
Alignment explanation
Indices: 58657016--58657192 Score: 266
Period size: 50 Copynumber: 3.5 Consensus size: 50
58657006 CCATGGCAAC
58657016 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
58657066 AAGTGATAAGTAATAGCTTCAGG-TACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTC-GGCTACACTTATCTGATCAAGGACAAATGA
* *
58657116 AAGTGATAAGTGATAGCTTCGGCTACACTAATCTGATCAATGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
58657166 CAAGTGAAAAGTGGTAGCTTCTGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
58657193 CTGATCGGTG
Statistics
Matches: 115, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
49 2 0.02
50 88 0.77
51 25 0.22
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:58657207 original size:31 final size:31
Alignment explanation
Indices: 58657168--58657285 Score: 175
Period size: 31 Copynumber: 3.8 Consensus size: 31
58657158 ACAAATGACA
*
58657168 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
58657199 GGTGAAAAGTGGTAGC-TCGGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
* *
58657230 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
58657261 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
58657286 AAGTGACAAG
Statistics
Matches: 77, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
30 2 0.03
31 74 0.96
32 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:58657384 original size:47 final size:46
Alignment explanation
Indices: 58657315--58657474 Score: 152
Period size: 47 Copynumber: 3.5 Consensus size: 46
58657305 ATTTCCATAG
*
58657315 AAGACCATATCTGGGATATGGCATCGGTGTA-ATATATGCTACTGTAT
1 AAGACCATATCTGGGATATGGCATCGGTG-AGATATATGATAC-GTAT
* * * *
58657362 AAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATTCGTGT
1 AAGACCATATCTGGGATATGGCATCGGTGAGATATATGATACGTAT
* * * *
58657408 AAGACCATAGCTGGGCTATGGCATC-----GATATATGAATATGTGT
1 AAGACCATATCTGGGATATGGCATCGGTGAGATATATG-ATACGTAT
* *
58657450 AAGACCATAGCTGGGCTATGGCATC
1 AAGACCATATCTGGGATATGGCATC
58657475 ATTATGTGAA
Statistics
Matches: 101, Mismatches: 10, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
41 7 0.07
42 31 0.31
46 27 0.27
47 36 0.36
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (46 bp):
AAGACCATATCTGGGATATGGCATCGGTGAGATATATGATACGTAT
Found at i:58657462 original size:42 final size:43
Alignment explanation
Indices: 58657404--58657518 Score: 171
Period size: 42 Copynumber: 2.7 Consensus size: 43
58657394 TATGTGATTC
*
58657404 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
*
58657446 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
58657488 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
58657519 GAAAACGAAG
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 1 0.02
42 64 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:58660836 original size:18 final size:19
Alignment explanation
Indices: 58660808--58660843 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
58660798 CAAATTTTAA
*
58660808 AAAAGAATAAAAATATTTT
1 AAAAGAATAAAAAAATTTT
58660827 AAAA-AATAAAAAAATTT
1 AAAAGAATAAAAAAATTT
58660844 CATAAGAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (19 bp):
AAAAGAATAAAAAAATTTT
Found at i:58660839 original size:20 final size:21
Alignment explanation
Indices: 58660801--58660841 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
58660791 ATTCATACAA
58660801 ATTTTAAAAAAGAATAAAAAT
1 ATTTTAAAAAAGAATAAAAAT
*
58660822 ATTTTAAAAAATAA-AAAAAT
1 ATTTTAAAAAAGAATAAAAAT
58660842 TTCATAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (21 bp):
ATTTTAAAAAAGAATAAAAAT
Found at i:58661986 original size:22 final size:22
Alignment explanation
Indices: 58661948--58661997 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
58661938 AAAATAGTAG
* * *
58661948 AAAAAATAGCGAGAAAATAACA
1 AAAAAATAACGAGAAAACAAAA
58661970 AAAAAATAAC-AGTAAAACAAAA
1 AAAAAATAACGAG-AAAACAAAA
58661992 AAAAAA
1 AAAAAA
58661998 AAGATAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.76, C:0.08, G:0.08, T:0.08
Consensus pattern (22 bp):
AAAAAATAACGAGAAAACAAAA
Found at i:58662861 original size:24 final size:24
Alignment explanation
Indices: 58662819--58662865 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
58662809 GGTTTGAATT
58662819 ATTTATTTATTTTTTATAAATTAAC
1 ATTTATTTATTTTTTAT-AATTAAC
58662844 ATTTATTTA-TTTTTATAATTAA
1 ATTTATTTATTTTTTATAATTAA
58662866 ATAATAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 6 0.27
24 7 0.32
25 9 0.41
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (24 bp):
ATTTATTTATTTTTTATAATTAAC
Found at i:58663223 original size:26 final size:24
Alignment explanation
Indices: 58663163--58663223 Score: 61
Period size: 26 Copynumber: 2.4 Consensus size: 24
58663153 TGGCTATGGA
* *
58663163 TATTTTTTTTGTTAATTTAGTTCT
1 TATTTTTTTAGTTAATTTAGATCT
58663187 TATTTTCTTTAGTTAAATTT-GATCAT
1 TATTTT-TTTAGTT-AATTTAGATC-T
58663213 TAATTTTTTTA
1 T-ATTTTTTTA
58663224 AAAGGAATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
24 6 0.19
25 9 0.29
26 11 0.35
27 5 0.16
ACGTcount: A:0.23, C:0.05, G:0.07, T:0.66
Consensus pattern (24 bp):
TATTTTTTTAGTTAATTTAGATCT
Found at i:58668264 original size:21 final size:23
Alignment explanation
Indices: 58668221--58668264 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
58668211 AATATTCCGA
*
58668221 GTGTGTTTGGGTTGGATATTCTG
1 GTGTGTTTGGGTTGGATAATCTG
58668244 GTGTGTTTGGG-TGGA-AATCTG
1 GTGTGTTTGGGTTGGATAATCTG
58668265 CGTATCTGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 4 0.20
23 11 0.55
ACGTcount: A:0.11, C:0.05, G:0.41, T:0.43
Consensus pattern (23 bp):
GTGTGTTTGGGTTGGATAATCTG
Found at i:58668998 original size:4 final size:4
Alignment explanation
Indices: 58668984--58669021 Score: 51
Period size: 4 Copynumber: 9.2 Consensus size: 4
58668974 CGAAATTTTT
58668984 ATAA A-AA ATAA ATAAA ATAA ATAAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA AT-AA ATAA AT-AA ATAA ATAA ATAA A
58669022 AATTTGGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
3 3 0.10
4 20 0.65
5 8 0.26
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (4 bp):
ATAA
Found at i:58669002 original size:9 final size:9
Alignment explanation
Indices: 58668988--58669021 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
58668978 ATTTTTATAA
58668988 AAAATAAAT
1 AAAATAAAT
58668997 AAAATAAAT
1 AAAATAAAT
58669006 AAAATAAAT
1 AAAATAAAT
58669015 -AAATAAA
1 AAAATAAA
58669022 AATTTGGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 7 0.28
9 18 0.72
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAAATAAAT
Found at i:58669005 original size:13 final size:13
Alignment explanation
Indices: 58668984--58669022 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
58668974 CGAAATTTTT
58668984 ATAAA-AAAT-AA
1 ATAAATAAATAAA
58668995 ATAAAATAAATAAA
1 AT-AAATAAATAAA
58669009 ATAAATAAATAAA
1 ATAAATAAATAAA
58669022 A
1 A
58669023 ATTTGGAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.08
12 3 0.12
13 16 0.64
14 4 0.16
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
ATAAATAAATAAA
Found at i:58669819 original size:143 final size:143
Alignment explanation
Indices: 58669562--58669821 Score: 321
Period size: 143 Copynumber: 1.8 Consensus size: 143
58669552 AGTTGCAAAC
58669562 TTAGTCCTTATACTCTAATCTAGTCAATTTAATCCATGTACTCTTTTGAATTTTAAAATTTTAAT
1 TTAGTCCTTATACTCTAATCTAGTCAATTTAATCCATGTACTCTTTTGAATTTTAAAATTTTAAT
* * * * * * * **
58669627 TATGACTCAAACGTTTATAGTTTAATTTGTTAGGTCAAAATTTGTTATTAGTTCATGTACTATGC
66 TATAACCCAAACGGTAACAGTTAAATCTGTTAGGTCAAAATTTACTATTAGTTCATGTACTATGC
58669692 ATCCGTAGCATAA
131 ATCCGTAGCATAA
* * * * *
58669705 TTAGT-CTCTATACTCTAATTTGGTCAATTTTAGTCCATGTA-TTTTTTGAATTTTGAAATTTTA
1 TTAGTCCT-TATACTCTAATCTAGTCAA-TTTAATCCATGTACTCTTTTGAATTTTAAAATTTTA
*
58669768 ATCT-TAACCCAAATGGTAACAGTTAAATCTGTTAGGTC-AAATTCTACTATTAGT
64 AT-TATAACCCAAACGGTAACAGTTAAATCTGTTAGGTCAAAATT-TACTATTAGT
58669822 CATTATATTA
Statistics
Matches: 98, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
142 7 0.07
143 78 0.80
144 13 0.13
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (143 bp):
TTAGTCCTTATACTCTAATCTAGTCAATTTAATCCATGTACTCTTTTGAATTTTAAAATTTTAAT
TATAACCCAAACGGTAACAGTTAAATCTGTTAGGTCAAAATTTACTATTAGTTCATGTACTATGC
ATCCGTAGCATAA
Found at i:58670407 original size:24 final size:25
Alignment explanation
Indices: 58670377--58670437 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
58670367 CGCGATTTAA
58670377 TTTTTTATATTAAAT-TT-TTTTGTT
1 TTTTTTATATTAAATATTATTTT-TT
*
58670401 TTTTTTA-ATAAAATATTATTTTTT
1 TTTTTTATATTAAATATTATTTTTT
*
58670425 TATTTT-TATTAAA
1 TTTTTTATATTAAA
58670438 AATATTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
23 6 0.19
24 21 0.68
25 4 0.13
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (25 bp):
TTTTTTATATTAAATATTATTTTTT
Found at i:58670422 original size:25 final size:23
Alignment explanation
Indices: 58670377--58670444 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 23
58670367 CGCGATTTAA
*
58670377 TTTTTTATATTAAAT-TTTTTTGTT
1 TTTTTTA-ATAAAATATTTTTT-TT
58670401 TTTTTTAATAAAATATTATTTTTT
1 TTTTTTAATAAAATATT-TTTTTT
*
58670425 TATTTTTATTAAAAATATTT
1 T-TTTTTAAT-AAAATATTT
58670445 AAATATATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
23 6 0.16
24 12 0.32
25 12 0.32
26 8 0.21
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (23 bp):
TTTTTTAATAAAATATTTTTTTT
Found at i:58670422 original size:26 final size:26
Alignment explanation
Indices: 58670393--58670443 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
58670383 ATATTAAATT
*
58670393 TTTTTGTTTTTTTTAAT-AAAATATTA
1 TTTTT-TTATTTTTAATAAAAATATTA
*
58670419 TTTTTTTATTTTTATTAAAAATATT
1 TTTTTTTATTTTTAATAAAAATATT
58670444 TAAATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (26 bp):
TTTTTTTATTTTTAATAAAAATATTA
Found at i:58670430 original size:28 final size:26
Alignment explanation
Indices: 58670390--58670443 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 26
58670380 TTTATATTAA
* *
58670390 ATTTTTTTGTTTTTTTTAATAAAATATT
1 ATTTTTTTATTTTTATT-A-AAAATATT
58670418 ATTTTTTTATTTTTATTAAAAATATT
1 ATTTTTTTATTTTTATTAAAAATATT
58670444 TAAATATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.33
27 1 0.04
28 15 0.62
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (26 bp):
ATTTTTTTATTTTTATTAAAAATATT
Found at i:58671296 original size:27 final size:27
Alignment explanation
Indices: 58671266--58671329 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
58671256 CCTACCATTT
** * *
58671266 GCGCCTCTGAGATGGGCACGATTAGTC
1 GCGCCTCTGAGAAAGGCACAACTAGTC
*
58671293 GCGCCTCTGAGAAAGGCTCAACTAGTC
1 GCGCCTCTGAGAAAGGCACAACTAGTC
58671320 GCGCCTCTGA
1 GCGCCTCTGA
58671330 CATAGGCGCA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.20, C:0.30, G:0.30, T:0.20
Consensus pattern (27 bp):
GCGCCTCTGAGAAAGGCACAACTAGTC
Found at i:58671336 original size:27 final size:27
Alignment explanation
Indices: 58671288--58671341 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
58671278 TGGGCACGAT
* *
58671288 TAGTCGCGCCTCTGAGAAAGGCTCAAC
1 TAGTCGCGCCTCTGACAAAGGCGCAAC
*
58671315 TAGTCGCGCCTCTGACATAGGCGCAAC
1 TAGTCGCGCCTCTGACAAAGGCGCAAC
58671342 CTGTATTCGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.24, C:0.31, G:0.26, T:0.19
Consensus pattern (27 bp):
TAGTCGCGCCTCTGACAAAGGCGCAAC
Found at i:58671413 original size:17 final size:19
Alignment explanation
Indices: 58671382--58671420 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
58671372 GATCCGAAAA
58671382 TAAAAAATAATATTTTATT
1 TAAAAAATAATATTTTATT
58671401 TAAAAAATAAT-TTTT-TT
1 TAAAAAATAATATTTTATT
58671418 TAA
1 TAA
58671421 TATAAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 5 0.25
18 4 0.20
19 11 0.55
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TAAAAAATAATATTTTATT
Found at i:58671429 original size:22 final size:19
Alignment explanation
Indices: 58671381--58671430 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
58671371 TGATCCGAAA
58671381 ATAAAAAATAATATTTTAT
1 ATAAAAAATAATATTTTAT
* *
58671400 TTAAAAAATAATTTTTTTTAAT
1 ATAAAAAATAA--TATTTT-AT
58671422 ATAAAAAAT
1 ATAAAAAAT
58671431 TGAATCGTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 10 0.40
21 5 0.20
22 10 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATAAAAAATAATATTTTAT
Found at i:58672521 original size:14 final size:15
Alignment explanation
Indices: 58672502--58672530 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
58672492 ACTATTTAAA
58672502 AAATTTT-AATTTTT
1 AAATTTTAAATTTTT
58672516 AAATTTTAAATTTTT
1 AAATTTTAAATTTTT
58672531 TTTTTTGTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
AAATTTTAAATTTTT
Found at i:58679106 original size:31 final size:31
Alignment explanation
Indices: 58679060--58679273 Score: 78
Period size: 31 Copynumber: 6.7 Consensus size: 31
58679050 AAATTTAATT
* *
58679060 TAAATAATATCTAAATAATTTAATATTATGA
1 TAAATAAAATATAAATAATTTAATATTATGA
* * * *
58679091 TACATGAAATATAAAT--TTTAATTTTTTGAA
1 TAAATAAAATATAAATAATTTAATATTATG-A
* * * *
58679121 GAAAT-TAATATAAATTATTTGTAAAATTATTGA
1 TAAATAAAATATAAA-TAATT-TAATATTA-TGA
* * *
58679154 TAAATTAAATATTATAAAAAATTAAATATCATGA
1 TAAA-TAAA-A-TATAAATAATTTAATATTATGA
* * * * * *
58679188 TAAATGATATTTAAATAATTTCATATAAAGA
1 TAAATAAAATATAAATAATTTAATATTATGA
* * * * *
58679219 TACATCATATTTAAATAATTTAA-AATATTGA
1 TAAATAAAATATAAATAATTTAATATTA-TGA
*
58679250 -AACATAAAATATTAATTAATTTAA
1 TAA-ATAAAATA-TAAATAATTTAA
58679274 ATATAGAAAT
Statistics
Matches: 132, Mismatches: 38, Indels: 25
0.68 0.19 0.13
Matches are distributed among these distances:
29 18 0.14
30 8 0.06
31 55 0.42
32 14 0.11
33 11 0.08
34 10 0.08
35 6 0.05
36 4 0.03
37 6 0.05
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (31 bp):
TAAATAAAATATAAATAATTTAATATTATGA
Found at i:58679141 original size:23 final size:23
Alignment explanation
Indices: 58679110--58679160 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
58679100 TATAAATTTT
*
58679110 AATTTTTTGAAGAAATTAAT-ATA
1 AATTATTTGAA-AAATTAATGATA
* *
58679133 AATTATTTGTAAAATTATTGATA
1 AATTATTTGAAAAATTAATGATA
58679156 AATTA
1 AATTA
58679161 AATATTATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (23 bp):
AATTATTTGAAAAATTAATGATA
Found at i:58679192 original size:17 final size:17
Alignment explanation
Indices: 58679151--58679192 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
58679141 GTAAAATTAT
*
58679151 TGATAAATTAAATATTA
1 TGATAAATTAAATATCA
* *
58679168 TAAAAAATTAAATATCA
1 TGATAAATTAAATATCA
58679185 TGATAAAT
1 TGATAAAT
58679193 GATATTTAAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (17 bp):
TGATAAATTAAATATCA
Found at i:58679307 original size:2 final size:2
Alignment explanation
Indices: 58679300--58679342 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
58679290 TAAATAGTTA
58679300 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
58679342 A
1 A
58679343 AAAGAGTATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:58679989 original size:19 final size:21
Alignment explanation
Indices: 58679947--58679988 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
58679937 TCAAATTTAG
58679947 AATATATAAAAATAAAATAAA
1 AATATATAAAAATAAAATAAA
*
58679968 AATATATTAAAA-AAAATAAA
1 AATATATAAAAATAAAATAAA
58679988 A
1 A
58679989 TGTACTGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (21 bp):
AATATATAAAAATAAAATAAA
Found at i:58690297 original size:14 final size:14
Alignment explanation
Indices: 58690256--58690298 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
58690246 TGAAAATGAT
*
58690256 TAAAATAATATGAA
1 TAAAATAATATTAA
*
58690270 TAAAATAATTTATTAC
1 TAAAATAA--TATTAA
58690286 TAAAATAATATTA
1 TAAAATAATATTA
58690299 GTTCAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 13 0.52
16 12 0.48
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (14 bp):
TAAAATAATATTAA
Found at i:58705169 original size:64 final size:63
Alignment explanation
Indices: 58704984--58705482 Score: 337
Period size: 64 Copynumber: 7.8 Consensus size: 63
58704974 AGTTTCAGGC
* * * * * ** *
58704984 TTTCAGCTAAAAGATAAAGCCATATAGCGT-CAAACTGAGTGAAAAAAACATAATGAAATTAAG
1 TTTCAGCTAAAAGATAAAGCTAAATAGCGTAAAAAATGAGTG-AAAAAACATAAAGATTTTCAG
* * * * * *** *
58705047 TTTCAGCTAGAAGATAGAGCTGAATAGCATCAAAACCAAGTG-AAAAACATAAAAATTTTCAG
1 TTTCAGCTAAAAGATAAAGCTAAATAGCGTAAAAAATGAGTGAAAAAACATAAAGATTTTCAG
* * *
58705109 TTTCAGATAAAACATAAA-CTAAATAGCGTAAAAAATGAGTGAAAAAAAACATAATGATTTTCAG
1 TTTCAGCTAAAAGATAAAGCTAAATAGCGTAAAAAATGAGTG--AAAAAACATAAAGATTTTCAG
* * * * *
58705173 TTTCAGCTAAAAGGTAAAGCTTAATAGCGTCAAAATTGAGTGAAAAAACA-AAACGGTTTTCAG
1 TTTCAGCTAAAAGATAAAGCTAAATAGCGTAAAAAATGAGTGAAAAAACATAAA-GATTTTCAG
* * ** * * * *
58705236 TTTCAGCTAAAAAGATAAAGCTAAATAGAGTCAAATTTTAGTTAAAAGTACATTAAGATTTACAG
1 TTTCAGCT-AAAAGATAAAGCTAAATAGCGTAAAAAATGAGTGAAAA-AACATAAAGA--T----
58705301 TTTCAG
58 TTTCAG
* * * **
58705307 ATTTTCAGCTCAAAGATAAAGCTAAATAGCGTCAAAATTTTGTGGAAAAAA-ATAAAGATTTTCA
1 --TTTCAGCTAAAAGATAAAGCTAAATAGCGTAAAAAATGAGT-GAAAAAACATAAAGATTTTCA
58705371 G
63 G
* * * * * * *
58705372 -TACAGATAAAAGATAAAG-AAAATAGCATCAAAATTGAGTGAAAAAGACGTAAAGATTTTCAG
1 TTTCAGCTAAAAGATAAAGCTAAATAGCGTAAAAAATGAGTGAAAAA-ACATAAAGATTTTCAG
* * * * * *
58705434 TTTCAGTTAAAAGATAAAGATTAATAACGTCAAAATTGAGTGGAAAAAA
1 TTTCAGCTAAAAGATAAAGCTAAATAGCGTAAAAAATGAGT-GAAAAAA
58705483 TAATAAAATA
Statistics
Matches: 349, Mismatches: 64, Indels: 45
0.76 0.14 0.10
Matches are distributed among these distances:
60 6 0.02
61 35 0.10
62 59 0.17
63 64 0.18
64 91 0.26
65 36 0.10
66 2 0.01
67 1 0.00
69 1 0.00
71 12 0.03
72 30 0.09
73 12 0.03
ACGTcount: A:0.48, C:0.11, G:0.16, T:0.26
Consensus pattern (63 bp):
TTTCAGCTAAAAGATAAAGCTAAATAGCGTAAAAAATGAGTGAAAAAACATAAAGATTTTCAG
Found at i:58707328 original size:91 final size:91
Alignment explanation
Indices: 58707085--58707358 Score: 329
Period size: 91 Copynumber: 3.0 Consensus size: 91
58707075 ATACGTCAAT
**
58707085 TTGCTCATAAGAGCTTTCCAACCGATAACATG-TCAGATGCACATAGTGCAAAGCCCATAGACTA
1 TTGCTCATAAGAGCTTTCCAACCGATAACATGCT-AGATGCACATAGTGCAAAGCCCATAGGTTA
* * * *
58707149 AATAATCTCTCTCAATAACACGCCGAA
65 AATATTCTCCCCCAATAACACGCAGAA
* * * * *
58707176 TTGCTTATAAGAGCTTTCCAACTGATAGCATGCTATACGCACATAGTGCAAAGCCCATAGGTTAA
1 TTGCTCATAAGAGCTTTCCAACCGATAACATGCTAGATGCACATAGTGCAAAGCCCATAGGTTAA
*
58707241 ATATTCTCCCCCAATAACACTTCAG-A
66 ATATTCTCCCCCAATAACAC-GCAGAA
* * *** *
58707267 TTGCTCATAAGAGCTTTCCAACCAATAACACGCTAGATGCACATAGTGCAAAGCTTGTAGGTTGA
1 TTGCTCATAAGAGCTTTCCAACCGATAACATGCTAGATGCACATAGTGCAAAGCCCATAGGTTAA
*
58707332 ATATTCT-CCCCGATAACACGCCAGAA
66 ATATTCTCCCCCAATAACACG-CAGAA
58707358 T
1 T
58707359 CTCTGAAAAG
Statistics
Matches: 154, Mismatches: 25, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
90 14 0.09
91 137 0.89
92 3 0.02
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (91 bp):
TTGCTCATAAGAGCTTTCCAACCGATAACATGCTAGATGCACATAGTGCAAAGCCCATAGGTTAA
ATATTCTCCCCCAATAACACGCAGAA
Found at i:58709521 original size:13 final size:13
Alignment explanation
Indices: 58709503--58709528 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
58709493 TTCACAGGCC
58709503 TCAACTTTTTATT
1 TCAACTTTTTATT
58709516 TCAACTTTTTATT
1 TCAACTTTTTATT
58709529 ATCGTTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (13 bp):
TCAACTTTTTATT
Found at i:58710425 original size:24 final size:25
Alignment explanation
Indices: 58710397--58710444 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
58710387 GATAAATGAA
58710397 ATACATGTGTAATAAATAT-TGTAC
1 ATACATGTGTAATAAATATATGTAC
* *
58710421 ATACATTTGTAATACATATATGTA
1 ATACATGTGTAATAAATATATGTA
58710445 TTTACTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.40
Consensus pattern (25 bp):
ATACATGTGTAATAAATATATGTAC
Found at i:58711937 original size:18 final size:18
Alignment explanation
Indices: 58711916--58711958 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
58711906 GTTTGCTACT
* *
58711916 GAATAATTGACTGTTACG
1 GAATAATCGACTGATACG
* *
58711934 GAATAAACGACTGATACT
1 GAATAATCGACTGATACG
58711952 GAATAAT
1 GAATAAT
58711959 AAATATTACT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.28
Consensus pattern (18 bp):
GAATAATCGACTGATACG
Found at i:58732071 original size:31 final size:31
Alignment explanation
Indices: 58732033--58732092 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
58732023 TTAAAAATGA
58732033 CCATTTCTTCTCTTCTCTTCTATTCCCCTCT
1 CCATTTCTTCTCTTCTCTTCTATTCCCCTCT
* *
58732064 CCATTTCTTTTCTTCTCTTCTATTTCCCT
1 CCATTTCTTCTCTTCTCTTCTATTCCCCT
58732093 TTCTTCTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.07, C:0.38, G:0.00, T:0.55
Consensus pattern (31 bp):
CCATTTCTTCTCTTCTCTTCTATTCCCCTCT
Found at i:58735077 original size:18 final size:17
Alignment explanation
Indices: 58735042--58735083 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
58735032 ATTTTTATGC
58735042 AAATAAATAAAAACAAT
1 AAATAAATAAAAACAAT
* *
58735059 AAATAACATAAATATAAT
1 AAATAA-ATAAAAACAAT
58735077 AAA-AAAT
1 AAATAAAT
58735084 TTATGAGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 2 0.09
17 8 0.36
18 12 0.55
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (17 bp):
AAATAAATAAAAACAAT
Found at i:58735513 original size:12 final size:11
Alignment explanation
Indices: 58735463--58735517 Score: 51
Period size: 12 Copynumber: 5.0 Consensus size: 11
58735453 TTTTTAAAAT
*
58735463 TATACATAATA
1 TATAAATAATA
*
58735474 TAATAAATAAGA
1 T-ATAAATAATA
*
58735486 TA-CAATAA-A
1 TATAAATAATA
58735495 TATAAATAATA
1 TATAAATAATA
58735506 TAATAAATAATA
1 T-ATAAATAATA
58735518 CAAATAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
9 3 0.08
10 10 0.28
11 4 0.11
12 19 0.53
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.31
Consensus pattern (11 bp):
TATAAATAATA
Found at i:58735575 original size:30 final size:29
Alignment explanation
Indices: 58735541--58735606 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 29
58735531 TATTTTTTAC
* * *
58735541 ATATAAATAAGGTTTAAAGTAAAATAAATA
1 ATATAAACAAGATTTAAAAT-AAATAAATA
* * *
58735571 ATATACACAATATTTAAAATAAATAAATT
1 ATATAAACAAGATTTAAAATAAATAAATA
58735600 ATATAAA
1 ATATAAA
58735607 ATATATATAT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
29 14 0.48
30 15 0.52
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.32
Consensus pattern (29 bp):
ATATAAACAAGATTTAAAATAAATAAATA
Found at i:58735612 original size:29 final size:30
Alignment explanation
Indices: 58735553--58735612 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 30
58735543 ATAAATAAGG
* *
58735553 TTTAAAGTAAAATAAATAATATACACAATA
1 TTTAAAATAAAATAAATAATATACAAAATA
*
58735583 TTTAAAAT-AAATAAATTATATA-AAATATA
1 TTTAAAATAAAATAAATAATATACAAA-ATA
58735612 T
1 T
58735613 ATATAAAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 2 0.08
29 17 0.65
30 7 0.27
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (30 bp):
TTTAAAATAAAATAAATAATATACAAAATA
Found at i:58739983 original size:26 final size:26
Alignment explanation
Indices: 58739952--58740059 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
58739942 TGAAATGCCC
*
58739952 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
58739978 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
58740004 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
58740030 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
58740056 ATCA
1 ATCA
58740060 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:58747051 original size:26 final size:26
Alignment explanation
Indices: 58747022--58747125 Score: 181
Period size: 26 Copynumber: 4.0 Consensus size: 26
58747012 ATGCCCATCG
*
58747022 TGGAACATTTACCTAAACCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
58747048 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
* *
58747074 TGGAATATTTACCTAATCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
58747100 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
58747126 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.33
Consensus pattern (26 bp):
TGGAACATTTACCTAACCCATTATCA
Found at i:58748312 original size:19 final size:20
Alignment explanation
Indices: 58748288--58748333 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 20
58748278 CATCCAAACA
58748288 CCAGAAAAGTAAATCA-TTT
1 CCAGAAAAGTAAATCATTTT
*
58748307 CCAGAAAAGTAAATTATTTT
1 CCAGAAAAGTAAATCATTTT
58748327 CCAGAAA
1 CCAGAAA
58748334 TCATTTTCCG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.26
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:58752989 original size:12 final size:12
Alignment explanation
Indices: 58752972--58753143 Score: 155
Period size: 12 Copynumber: 14.3 Consensus size: 12
58752962 GATTCGAGTA
*
58752972 ATATATACATAT
1 ATATATATATAT
*
58752984 ATATATACATAT
1 ATATATATATAT
* *
58752996 ACATATATACAT
1 ATATATATATAT
*
58753008 ATATATATACAT
1 ATATATATATAT
*
58753020 ATGTATATATAT
1 ATATATATATAT
* *
58753032 ATGTATATATGT
1 ATATATATATAT
*
58753044 ATATGTATATAT
1 ATATATATATAT
* *
58753056 ATGTATATATGT
1 ATATATATATAT
*
58753068 ATATGTATATAT
1 ATATATATATAT
* *
58753080 GTATATGTATAT
1 ATATATATATAT
* *
58753092 ACATATGTATAT
1 ATATATATATAT
*
58753104 ATATATGTATAT
1 ATATATATATAT
* * *
58753116 ATGTATATGTCT
1 ATATATATATAT
*
58753128 ATATATATGTAT
1 ATATATATATAT
58753140 ATAT
1 ATAT
58753144 CTGCAATTAT
Statistics
Matches: 132, Mismatches: 28, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
12 132 1.00
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (12 bp):
ATATATATATAT
Found at i:58753008 original size:26 final size:26
Alignment explanation
Indices: 58752972--58753041 Score: 104
Period size: 26 Copynumber: 2.7 Consensus size: 26
58752962 GATTCGAGTA
58752972 ATATATACATATATATATACATATAC
1 ATATATACATATATATATACATATAC
**
58752998 ATATATACATATATATATACATATGT
1 ATATATACATATATATATACATATAC
* *
58753024 ATATATATATGTATATAT
1 ATATATACATATATATAT
58753042 GTATATGTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (26 bp):
ATATATACATATATATATACATATAC
Found at i:58753021 original size:8 final size:8
Alignment explanation
Indices: 58752972--58753012 Score: 55
Period size: 8 Copynumber: 4.9 Consensus size: 8
58752962 GATTCGAGTA
58752972 ATATATAC
1 ATATATAC
*
58752980 ATATATAT
1 ATATATAC
58752988 ATACATATAC
1 AT--ATATAC
58752998 ATATATAC
1 ATATATAC
58753006 ATATATA
1 ATATATA
58753013 TATACATATG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
8 22 0.76
10 7 0.24
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATATAC
Found at i:58753029 original size:8 final size:8
Alignment explanation
Indices: 58753027--58753143 Score: 116
Period size: 8 Copynumber: 14.9 Consensus size: 8
58753017 CATATGTATA
58753027 TATATATG
1 TATATATG
58753035 TATATATG
1 TATATATG
* *
58753043 TATATGTA
1 TATATATG
58753051 TATATATG
1 TATATATG
58753059 TATATATG
1 TATATATG
58753067 --TATATG
1 TATATATG
58753073 TATATATG
1 TATATATG
58753081 --TATATG
1 TATATATG
**
58753087 TATATACA
1 TATATATG
* *
58753095 TATGTATA
1 TATATATG
58753103 TATATATG
1 TATATATG
58753111 TATATATG
1 TATATATG
* *
58753119 TATATGTCTA
1 TATA--TATG
58753129 TATATATG
1 TATATATG
58753137 TATATAT
1 TATATAT
58753144 CTGCAATTAT
Statistics
Matches: 89, Mismatches: 14, Indels: 12
0.77 0.12 0.10
Matches are distributed among these distances:
6 12 0.13
8 71 0.80
10 6 0.07
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.50
Consensus pattern (8 bp):
TATATATG
Found at i:58753110 original size:38 final size:38
Alignment explanation
Indices: 58752973--58753143 Score: 229
Period size: 38 Copynumber: 4.5 Consensus size: 38
58752963 ATTCGAGTAA
* * ** ** *
58752973 TATATACATATATATATACATATACATATATACATATA
1 TATATACATATGTATATATATATGTATATATGTATATG
58753011 TATATACATATGTATATATATATGTATATATGTATATG
1 TATATACATATGTATATATATATGTATATATGTATATG
58753049 TATAT--ATATGTATATATGTATATGTATATATGTATATG
1 TATATACATATGTATATA--TATATGTATATATGTATATG
58753087 TATATACATATGTATATATATATGTATATATGTATATG
1 TATATACATATGTATATATATATGTATATATGTATATG
* *
58753125 TCTATATATATGTATATAT
1 TATATACATATGTATATAT
58753144 CTGCAATTAT
Statistics
Matches: 120, Mismatches: 9, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
36 11 0.09
38 98 0.82
40 11 0.09
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (38 bp):
TATATACATATGTATATATATATGTATATATGTATATG
Found at i:58753189 original size:4 final size:4
Alignment explanation
Indices: 58753180--58753227 Score: 60
Period size: 4 Copynumber: 12.0 Consensus size: 4
58753170 GATTCGAGTA
* * * *
58753180 ATAT ATAT ATAC ATAT ATAT ATAC ATAC ATAT ATAT ATAC ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
58753228 GCATGCATGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (4 bp):
ATAT
Found at i:58753201 original size:16 final size:16
Alignment explanation
Indices: 58753180--58753227 Score: 78
Period size: 16 Copynumber: 3.0 Consensus size: 16
58753170 GATTCGAGTA
*
58753180 ATATATATATACATAT
1 ATATATACATACATAT
58753196 ATATATACATACATAT
1 ATATATACATACATAT
*
58753212 ATATATACATATATAT
1 ATATATACATACATAT
58753228 GCATGCATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATATACATACATAT
Found at i:58753227 original size:12 final size:12
Alignment explanation
Indices: 58753184--58753226 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
58753174 CGAGTAATAT
*
58753184 ATATATACATAT
1 ATATATACATAC
58753196 ATATATACATAC
1 ATATATACATAC
*
58753208 ATATATATATAC
1 ATATATACATAC
58753220 ATATATA
1 ATATATA
58753227 TGCATGCATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (12 bp):
ATATATACATAC
Found at i:58755100 original size:2 final size:2
Alignment explanation
Indices: 58755095--58755128 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
58755085 CTGTTTTTTA
58755095 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
58755129 TTTTTGTTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:58757402 original size:5 final size:5
Alignment explanation
Indices: 58757392--58757427 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
58757382 TTTTTTGAAC
*
58757392 ATTAA AATAA ATTAA ATTAA ATTAA ATTAA ATTAA A
1 ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA A
58757428 GTTAGAACAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (5 bp):
ATTAA
Found at i:58760865 original size:3 final size:3
Alignment explanation
Indices: 58760857--58760936 Score: 151
Period size: 3 Copynumber: 26.7 Consensus size: 3
58760847 TGAAATATGT
58760857 ATA ATA 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
*
58760905 ATA ATT ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
58760937 GTAACCAATA
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:58762929 original size:87 final size:87
Alignment explanation
Indices: 58762624--58763221 Score: 378
Period size: 87 Copynumber: 6.9 Consensus size: 87
58762614 CAATACAAAG
* * * * *
58762624 ATGCCAAATCATCTTAGATCTGCTTCAGTGTAAACA-CGTGAAAGCCAAATTTGCTGTGTCTTCG
1 ATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATC-TGAAAGTCAAATCTGCTATGTCTTCG
*
58762688 ATTTGCTCCTTGTGAA-CATAAGA
65 ATTTGCTCCTTGT-AAGCACAAGA
* * * * * *
58762711 ATGCCAATTCCTCTTGGATCTGCTTCAGTA-AAGTCATCTGAAGGTTAGATCTGCTATG---T--
1 ATGCCAAATCATCTTGGATCTGCTTCAGTATAA-ACATCTGAAAGTCAAATCTGCTATGTCTTCG
* * *
58762770 ATCTGCT-CTCCGT-CG-A-AATGGA
65 ATTTGCTCCT-TGTAAGCACAA--GA
* * * ** * *
58762792 GATGGCAGATCTGTTATCTTGGATCTACTTTGGTGTAAGAACATCCGAAAGTCAAATCTGCTATG
1 -ATGCCAAATC----ATCTTGGATCTGCTTCAGTAT-A-AACATCTGAAAGTCAAATCTGCTATG
*
58762857 TCTTCGATTTGTTCCTTGTAAGCACAAGA
59 TCTTCGATTTGCTCCTTGTAAGCACAAGA
* * *
58762886 ACGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCCAAATCTGCTGTGTCTTCGA
1 ATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGTCAAATCTGCTATGTCTTCGA
* *
58762951 TTTGCTCTTTGTGAA-CACAAGG
66 TTTGCTCCTTGT-AAGCACAAGA
* * * *
58762973 ATGCCAAATCATCTTGGATTTGCTTCAGTA-AAATCATCTGAAGGTTAGATCTGCTATG---T--
1 ATGCCAAATCATCTTGGATCTGCTTCAGTATAAA-CATCTGAAAGTCAAATCTGCTATGTCTTCG
* *
58763032 ATCTGCT-CTCTGT-CG-A-AATGGA
65 ATTTGCTCCT-TGTAAGCACAA--GA
* ** * *
58763054 GATGCCAGATCTGTTATCTTGGATCTGCTTTGGTGTGAGAACATCCGAAAGTCAAATCTGCTATG
1 -ATGCCAAATC----ATCTTGGATCTGCTTCAGTAT-A-AACATCTGAAAGTCAAATCTGCTATG
* * *
58763119 TCTTCGATTTGTTCCCTGTAAACACAAGA
59 TCTTCGATTTGCTCCTTGTAAGCACAAGA
* * * * *
58763148 ATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCCAAATTTGTTGTTTCTTCGA
1 ATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGTCAAATCTGCTATGTCTTCGA
*
58763213 TTTTCTCCT
66 TTTGCTCCT
58763222 CGTCGAAGAT
Statistics
Matches: 383, Mismatches: 82, Indels: 92
0.69 0.15 0.17
Matches are distributed among these distances:
79 4 0.01
80 2 0.01
81 6 0.02
82 33 0.09
84 2 0.01
86 36 0.09
87 168 0.44
88 47 0.12
89 38 0.10
91 2 0.01
93 31 0.08
94 8 0.02
95 2 0.01
96 4 0.01
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (87 bp):
ATGCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGTCAAATCTGCTATGTCTTCGA
TTTGCTCCTTGTAAGCACAAGA
Found at i:58763065 original size:262 final size:262
Alignment explanation
Indices: 58762626--58763221 Score: 996
Period size: 262 Copynumber: 2.3 Consensus size: 262
58762616 ATACAAAGAT
* *
58762626 GCCAAATCATCTTAGATCTGCTTCAGTGTAAACA-CGTGAAAGCCAAATTTGCTGTGTCTTCGAT
1 GCCAAATCATCTTGGATCTGCTTCAGTATAAACATC-TGAAAGCCAAATTTGCTGTGTCTTCGAT
* * * *
58762690 TTGCTCCTTGTGAACATAAGAATGCCAATTCCTCTTGGATCTGCTTCAGTAAAGTCATCTGAAGG
65 TTGCTCCTTGTGAACACAAGAATGCCAAATCATCTTGGATCTGCTTCAGTAAAATCATCTGAAGG
*
58762755 TTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGGCAGATCTGTTATCTTGGATCTAC
130 TTAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGATCTGTTATCTTGGATCTAC
* *
58762820 TTTGGTGTAAGAACATCCGAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAG
195 TTTGGTGTAAGAACATCCGAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCCTGTAAACACAAG
58762885 AAC
260 AAC
*
58762888 GCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCCAAATCTGCTGTGTCTTCGATT
1 GCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCCAAATTTGCTGTGTCTTCGATT
* * *
58762953 TGCTCTTTGTGAACACAAGGATGCCAAATCATCTTGGATTTGCTTCAGTAAAATCATCTGAAGGT
66 TGCTCCTTGTGAACACAAGAATGCCAAATCATCTTGGATCTGCTTCAGTAAAATCATCTGAAGGT
* *
58763018 TAGATCTGCTATGTATCTGCTCTCTGTCGAAATGGAGATGCCAGATCTGTTATCTTGGATCTGCT
131 TAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGATCTGTTATCTTGGATCTACT
*
58763083 TTGGTGTGAGAACATCCGAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCCTGTAAACACAAGA
196 TTGGTGTAAGAACATCCGAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCCTGTAAACACAAGA
*
58763148 AT
261 AC
* *
58763150 GCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCCAAATTTGTTGTTTCTTCGATT
1 GCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCCAAATTTGCTGTGTCTTCGATT
*
58763215 TTCTCCT
66 TGCTCCT
58763222 CGTCGAAGAT
Statistics
Matches: 311, Mismatches: 22, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
262 310 1.00
263 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (262 bp):
GCCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGCCAAATTTGCTGTGTCTTCGATT
TGCTCCTTGTGAACACAAGAATGCCAAATCATCTTGGATCTGCTTCAGTAAAATCATCTGAAGGT
TAGATCTGCTATGTATCTGCTCTCCGTCGAAATGGAGATGCCAGATCTGTTATCTTGGATCTACT
TTGGTGTAAGAACATCCGAAAGTCAAATCTGCTATGTCTTCGATTTGTTCCCTGTAAACACAAGA
AC
Found at i:58767055 original size:19 final size:19
Alignment explanation
Indices: 58767031--58767075 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
58767021 TATAGTCCTT
*
58767031 TTAAATATTTTTTTATCTA
1 TTAAATATTTTTATATCTA
*
58767050 TTAAATA-CTTTATATCTA
1 TTAAATATTTTTATATCTA
58767068 -TAAATATT
1 TTAAATATT
58767076 AATTATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 6 0.27
18 9 0.41
19 7 0.32
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.56
Consensus pattern (19 bp):
TTAAATATTTTTATATCTA
Found at i:58767109 original size:13 final size:14
Alignment explanation
Indices: 58767091--58767173 Score: 59
Period size: 13 Copynumber: 5.9 Consensus size: 14
58767081 TAAAAAATAG
58767091 TATATATTATTT-T
1 TATATATTATTTAT
58767104 TATATATTATTTAT
1 TATATATTATTTAT
* *
58767118 TATATTCTTTTTTACT
1 TATA-TATTATTTA-T
*
58767134 TATAAATTATATTTAT
1 TATATA-T-TATTTAT
58767150 T-TATA-TATTTCA-
1 TATATATTATTT-AT
58767162 TATATATT-TTTA
1 TATATATTATTTA
58767174 AAAAAATTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
12 7 0.12
13 20 0.36
14 6 0.11
15 10 0.18
16 8 0.14
17 5 0.09
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (14 bp):
TATATATTATTTAT
Found at i:58774550 original size:14 final size:16
Alignment explanation
Indices: 58774531--58774567 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
58774521 TGATGTCCTT
58774531 TTTGCAT-TCAT-GCA
1 TTTGCATCTCATAGCA
58774545 TTTGCATCTCATAGCA
1 TTTGCATCTCATAGCA
58774561 TTT-CATC
1 TTTGCATC
58774568 GCATTGTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.43
Consensus pattern (16 bp):
TTTGCATCTCATAGCA
Found at i:58782867 original size:86 final size:86
Alignment explanation
Indices: 58782771--58783208 Score: 331
Period size: 87 Copynumber: 5.0 Consensus size: 86
58782761 TCTCACACCA
*
58782771 AAGCAGATCCAAGATAACAGATCTGGCATCTCTATTTCGACGGAGAGTAGACACATAGCAGATCT
1 AAGCAGATCCAAGATAACAGATCTGGCATCTCTATTTCGACGGAGAATAGACACATAGCAGATCT
*
58782836 AACCTTCAGATGTTTATATTG
66 AACCTTCAGATGTTTATACTG
* * * * * *
58782857 AAGCAGATCCAAGAT----GATTTGGCATTCTTGTGTTTAC-AAGGAGCAAATCAAAGACATAGC
1 AAGCAGATCCAAGATAACAGATCTGGCA-TC-TCTATTT-CGACGGAG--AAT-AGACACATAGC
* * * * **
58782917 AGATTTGACTTTCAGATGTTCTCACACCA
60 AGATCTAACCTTCAGATGTT-T-ATACTG
* * *
58782946 AAGCAGATCCAAAATAACAGATCTGGCATCTCTATTTTGACGGAGAACAGACACATAGCAGATCT
1 AAGCAGATCCAAGATAACAGATCTGGCATCTCTATTTCGACGGAGAATAGACACATAGCAGATCT
*
58783011 AACCTTCAGATGGTTATACTG
66 AACCTTCAGATGTTTATACTG
* * * * * * *
58783032 AAGCAGATCCAAGAT----GATTTGGCATTCTTGTGTTTAC-AAGGAGCAAATCGCAGACAAAGC
1 AAGCAGATCCAAGATAACAGATCTGGCA-TC-TCTATTT-CGACGGAG--AATAG-ACACATAGC
* * * * **
58783092 AGATTTGACTTTC-GAATGTTCTCACACCA
60 AGATCTAACCTTCAG-ATGTT-T-ATACTG
* **
58783121 AAGCAGATCCAAGATAACAGATCTGGCACCTCTATTTCGACGGAGAGCAGACACATAGCAGATCT
1 AAGCAGATCCAAGATAACAGATCTGGCATCTCTATTTCGACGGAGAATAGACACATAGCAGATCT
*
58783186 AACCTTCAAATGTTTATACTG
66 AACCTTCAGATGTTTATACTG
58783207 AA
1 AA
58783209 ATAGATCTAA
Statistics
Matches: 260, Mismatches: 64, Indels: 56
0.68 0.17 0.15
Matches are distributed among these distances:
82 16 0.06
83 4 0.02
84 20 0.08
85 1 0.00
86 43 0.17
87 49 0.19
88 49 0.19
89 38 0.15
90 1 0.00
91 20 0.08
92 3 0.01
93 16 0.06
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (86 bp):
AAGCAGATCCAAGATAACAGATCTGGCATCTCTATTTCGACGGAGAATAGACACATAGCAGATCT
AACCTTCAGATGTTTATACTG
Found at i:58782965 original size:175 final size:175
Alignment explanation
Indices: 58782723--58783280 Score: 886
Period size: 175 Copynumber: 3.2 Consensus size: 175
58782713 TTTGACGAGA
*
58782723 AGCAAATCGAAGACATAACAGATTTGACTTTCGGATGTTCTCACACCAAAGCAGATCCAAGATAA
1 AGCAAATCGAAGACATAACAGATTTGACTTTCAGATGTTCTCACACCAAAGCAGATCCAAGATAA
*
58782788 CAGATCTGGCATCTCTATTTCGACGGAGAGTAGACACATAGCAGATCTAACCTTCAGATGTTTAT
66 CAGATCTGGCATCTCTATTTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTAT
*
58782853 ATTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGG
131 ACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGG
* * *
58782898 AGCAAATCAAAGACATAGCAGATTTGACTTTCAGATGTTCTCACACCAAAGCAGATCCAAAATAA
1 AGCAAATCGAAGACATAACAGATTTGACTTTCAGATGTTCTCACACCAAAGCAGATCCAAGATAA
* * *
58782963 CAGATCTGGCATCTCTATTTTGACGGAGAACAGACACATAGCAGATCTAACCTTCAGATGGTTAT
66 CAGATCTGGCATCTCTATTTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTAT
58783028 ACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGG
131 ACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGG
*
58783073 AGCAAATCGCAGACA-AAGCAGATTTGACTTTC-GAATGTTCTCACACCAAAGCAGATCCAAGAT
1 AGCAAATCGAAGACATAA-CAGATTTGACTTTCAG-ATGTTCTCACACCAAAGCAGATCCAAGAT
* *
58783136 AACAGATCTGGCACCTCTATTTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAAATGTTT
64 AACAGATCTGGCATCTCTATTTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTT
** * * * * *
58783201 ATACTGAAATAGATCTAAGATGTTTTGCCATCCTTGTGTTCACAAGG
129 ATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGG
* * *
58783248 AGAAAATCGAAGACACAACAGATTTGGCTTTCA
1 AGCAAATCGAAGACATAACAGATTTGACTTTCA
58783281 CGTGTTTACG
Statistics
Matches: 351, Mismatches: 28, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
174 2 0.01
175 347 0.99
176 2 0.01
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.26
Consensus pattern (175 bp):
AGCAAATCGAAGACATAACAGATTTGACTTTCAGATGTTCTCACACCAAAGCAGATCCAAGATAA
CAGATCTGGCATCTCTATTTCGACGGAGAGCAGACACATAGCAGATCTAACCTTCAGATGTTTAT
ACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGG
Found at i:58783019 original size:88 final size:90
Alignment explanation
Indices: 58782676--58783199 Score: 353
Period size: 88 Copynumber: 5.9 Consensus size: 90
58782666 GTTTACACTG
* * * * * *
58782676 AAGCAGATCAAAAATAACAAGATTTGGCTTCTCTATCTTTGAC-GAGAAGCAAATCGAAGACATA
1 AAGCAGATCCAAGATAAC-AGATCTGGCATCTCTATGTTTGACGGAGAAGC--A--G-ACACATA
* * * * *
58782740 ACAGATTTGACTTTCGGATGTTCTCACACCA
60 GCAGATCTAACCTTCAGATGTTCTCACACCA
* *
58782771 AAGCAGATCCAAGATAACAGATCTGGCATCTCTAT-TTCGACGGAG-AGTAGACACATAGCAGAT
1 AAGCAGATCCAAGATAACAGATCTGGCATCTCTATGTTTGACGGAGAAGCAGACACATAGCAGAT
* ***
58782834 CTAACCTTCAGATGTT-T-ATATTG
66 CTAACCTTCAGATGTTCTCACACCA
* * * * *
58782857 AAGCAGATCCAAGAT----GATTTGGCAT-TCT-TGTGTTTACAAGGAGCAAATCAAAGACATAG
1 AAGCAGATCCAAGATAACAGATCTGGCATCTCTATGT-TTGAC--GGAG--AAGCAGACACATAG
* * *
58782916 CAGATTTGACTTTCAGATGTTCTCACACCA
61 CAGATCTAACCTTCAGATGTTCTCACACCA
*
58782946 AAGCAGATCCAAAATAACAGATCTGGCATCTCTAT-TTTGACGGAGAA-CAGACACATAGCAGAT
1 AAGCAGATCCAAGATAACAGATCTGGCATCTCTATGTTTGACGGAGAAGCAGACACATAGCAGAT
* * **
58783009 CTAACCTTCAGATGGT-T-ATACTG
66 CTAACCTTCAGATGTTCTCACACCA
* *
58783032 AAGCAGATCCAAGAT----GATTTGGCAT-TCT-TGTGTTTACAAGGAGCAAATCGCAGACA-A-
1 AAGCAGATCCAAGATAACAGATCTGGCATCTCTATGT-TTGAC--GGAG--AA--GCAGACACAT
* * *
58783089 AGCAGATTTGACTTTC-GAATGTTCTCACACCA
59 AGCAGATCTAACCTTCAG-ATGTTCTCACACCA
* *
58783121 AAGCAGATCCAAGATAACAGATCTGGCACCTCTAT-TTCGACGGAG-AGCAGACACATAGCAGAT
1 AAGCAGATCCAAGATAACAGATCTGGCATCTCTATGTTTGACGGAGAAGCAGACACATAGCAGAT
*
58783184 CTAACCTTCAAATGTT
66 CTAACCTTCAGATGTT
58783200 TATACTGAAA
Statistics
Matches: 332, Mismatches: 60, Indels: 81
0.70 0.13 0.17
Matches are distributed among these distances:
80 2 0.01
81 8 0.02
82 25 0.08
84 8 0.02
86 44 0.13
87 47 0.14
88 71 0.21
89 43 0.13
91 9 0.03
93 31 0.09
94 26 0.08
95 18 0.05
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.26
Consensus pattern (90 bp):
AAGCAGATCCAAGATAACAGATCTGGCATCTCTATGTTTGACGGAGAAGCAGACACATAGCAGAT
CTAACCTTCAGATGTTCTCACACCA
Found at i:58783128 original size:89 final size:88
Alignment explanation
Indices: 58782857--58783135 Score: 274
Period size: 89 Copynumber: 3.2 Consensus size: 88
58782847 GTTTATATTG
* *
58782857 AAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAGCAAATCAAAGACATAGCAGATT
1 AAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAGCAAATC-CAGACAAAGCAGATT
58782922 TGACTTTCAGATGTTCTCACACCA
65 TGACTTTCAGATGTTCTCACACCA
* * *
58782946 AAGCAGATCCAAAATAACAGATCTGGCATCTCTAT-T-TTGAC--GGAG--AA--CAGACACATA
1 AAGCAGATCCAAGAT----GATTTGGCAT-TCT-TGTGTTTACAAGGAGCAAATCCAGACA-A-A
* * * * * **
58783003 GCAGATCTAACCTTCAGATGGT-T-ATACTG
58 GCAGATTTGACTTTCAGATGTTCTCACACCA
58783032 AAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAGCAAATCGCAGACAAAGCAGATT
1 AAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAGCAAATC-CAGACAAAGCAGATT
58783097 TGACTTTC-GAATGTTCTCACACCA
65 TGACTTTCAG-ATGTTCTCACACCA
58783121 AAGCAGATCCAAGAT
1 AAGCAGATCCAAGAT
58783136 AACAGATCTG
Statistics
Matches: 148, Mismatches: 22, Indels: 40
0.70 0.10 0.19
Matches are distributed among these distances:
80 1 0.01
81 4 0.03
82 13 0.09
84 4 0.03
86 25 0.17
87 18 0.12
88 21 0.14
89 40 0.27
91 4 0.03
93 13 0.09
94 4 0.03
95 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (88 bp):
AAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAGCAAATCCAGACAAAGCAGATTT
GACTTTCAGATGTTCTCACACCA
Found at i:58784850 original size:19 final size:19
Alignment explanation
Indices: 58784826--58784870 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
58784816 TATAGTCCTT
*
58784826 TTAAATATTTTTTTATCTA
1 TTAAATATTTTTATATCTA
*
58784845 TTAAATA-CTTTATATCTA
1 TTAAATATTTTTATATCTA
58784863 -TAAATATT
1 TTAAATATT
58784871 AATTATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 6 0.27
18 9 0.41
19 7 0.32
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.56
Consensus pattern (19 bp):
TTAAATATTTTTATATCTA
Found at i:58784904 original size:13 final size:14
Alignment explanation
Indices: 58784886--58784917 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
58784876 TAAAAAATAG
58784886 TATATATTATTT-T
1 TATATATTATTTGT
58784899 TATATATTATTTGT
1 TATATATTATTTGT
58784913 TATAT
1 TATAT
58784918 TCTTTTTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (14 bp):
TATATATTATTTGT
Found at i:58785378 original size:22 final size:22
Alignment explanation
Indices: 58785352--58785393 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
58785342 TTTTAATACG
**
58785352 TATTAAATTTTTTATATATTGT
1 TATTAAATCATTTATATATTGT
*
58785374 TATTATATCATTTATATATT
1 TATTAAATCATTTATATATT
58785394 AAATGCTAGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (22 bp):
TATTAAATCATTTATATATTGT
Found at i:58800691 original size:13 final size:13
Alignment explanation
Indices: 58800673--58800702 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
58800663 ATCAAATCAG
58800673 TCAAACCGATAAA
1 TCAAACCGATAAA
58800686 TCAAACCGATAAA
1 TCAAACCGATAAA
58800699 TCAA
1 TCAA
58800703 TGACCTGACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.23, G:0.07, T:0.17
Consensus pattern (13 bp):
TCAAACCGATAAA
Found at i:58802972 original size:17 final size:16
Alignment explanation
Indices: 58802952--58802983 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
58802942 AAAAAAATAG
58802952 TTTTATACTTCTTTTAT
1 TTTTATA-TTCTTTTAT
58802969 TTTTATATTCTTTTA
1 TTTTATATTCTTTTA
58802984 AACTTGTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTATATTCTTTTAT
Found at i:58816801 original size:12 final size:14
Alignment explanation
Indices: 58816775--58816806 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
58816765 AACTATTTTT
58816775 ATTTTTTTAATTTA
1 ATTTTTTTAATTTA
58816789 ATTTTTTT-A-TTA
1 ATTTTTTTAATTTA
58816801 ATTTTT
1 ATTTTT
58816807 AAAGGGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 9 0.50
13 1 0.06
14 8 0.44
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (14 bp):
ATTTTTTTAATTTA
Found at i:58818122 original size:16 final size:16
Alignment explanation
Indices: 58818101--58818131 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58818091 CATTTTATTT
*
58818101 ATATTAGGATAATTAA
1 ATATTAAGATAATTAA
58818117 ATATTAAGATAATTA
1 ATATTAAGATAATTA
58818132 TTATGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (16 bp):
ATATTAAGATAATTAA
Found at i:58824006 original size:9 final size:9
Alignment explanation
Indices: 58823994--58824052 Score: 64
Period size: 9 Copynumber: 6.6 Consensus size: 9
58823984 AAAAGTATAA
58823994 AATTAACCG
1 AATTAACCG
**
58824003 AATTAATTG
1 AATTAACCG
58824012 AATTAACCG
1 AATTAACCG
*
58824021 AATTACCCG
1 AATTAACCG
**
58824030 AATTAACAA
1 AATTAACCG
*
58824039 AATTAACTG
1 AATTAACCG
58824048 AATTA
1 AATTA
58824053 TTTGTATAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 40 1.00
ACGTcount: A:0.47, C:0.15, G:0.08, T:0.29
Consensus pattern (9 bp):
AATTAACCG
Found at i:58824042 original size:27 final size:27
Alignment explanation
Indices: 58823994--58824052 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
58823984 AAAAGTATAA
***
58823994 AATTAACCGAATTAATTGAATTAACCG
1 AATTAACCGAATTAACAAAATTAACCG
* *
58824021 AATTACCCGAATTAACAAAATTAACTG
1 AATTAACCGAATTAACAAAATTAACCG
58824048 AATTA
1 AATTA
58824053 TTTGTATAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.47, C:0.15, G:0.08, T:0.29
Consensus pattern (27 bp):
AATTAACCGAATTAACAAAATTAACCG
Found at i:58824372 original size:18 final size:18
Alignment explanation
Indices: 58824322--58824374 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
58824312 CTGAACCCTG
*
58824322 ACCGAATTAATTCGGTTA
1 ACCGAATTTATTCGGTTA
*
58824340 ACCGAATTTAGTCGGTTA
1 ACCGAATTTATTCGGTTA
*
58824358 ACCGAATTTTTTCGGTT
1 ACCGAATTTATTCGGTT
58824375 TTACCTGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (18 bp):
ACCGAATTTATTCGGTTA
Found at i:58828033 original size:23 final size:23
Alignment explanation
Indices: 58828002--58828046 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
58827992 TACAATAAAC
58828002 ATTACACATATC-AACAAGCCATA
1 ATTACACAT-TCAAACAAGCCATA
*
58828025 ATTAGACATTCAAAACAAGCCA
1 ATTACACATTC-AAACAAGCCA
58828047 AAATAAGTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 2 0.11
23 8 0.42
24 9 0.47
ACGTcount: A:0.49, C:0.24, G:0.07, T:0.20
Consensus pattern (23 bp):
ATTACACATTCAAACAAGCCATA
Found at i:58831916 original size:33 final size:33
Alignment explanation
Indices: 58831879--58832122 Score: 154
Period size: 33 Copynumber: 7.3 Consensus size: 33
58831869 TGGCCCTGCC
* *
58831879 ATGGTCTTACATTAGTAGTGCCATAGCCCAGTT
1 ATGGTCTTACATTAATAGTGCCATAGCCCAGCT
* * * *
58831912 ATGGTCTTATCGTCAA-AATACCATAGCCCAGCT
1 ATGGTCTTA-CATTAATAGTGCCATAGCCCAGCT
* * * * * *
58831945 ATGGTCTTACATATAATTACTACCATGGTCCAACC
1 ATGGTCTTACAT-TAA-TAGTGCCATAGCCCAGCT
* * *
58831980 ATGGTCTTACGTTCAA-AGTGCCATAACCCAGTT
1 ATGGTCTTACATT-AATAGTGCCATAGCCCAGCT
*
58832013 ATGGTCTTATCATTAGA-A-TGCCATAACCCAGCT
1 ATGGTCTTA-CATTA-ATAGTGCCATAGCCCAGCT
* * * * * *
58832046 ATGGTCTTACATATAAACACTGCCATGGTCCAACC
1 ATGGTCTTACAT-T-AATAGTGCCATAGCCCAGCT
* * * *
58832081 ATGGTCTTACGTTCATAGTGCCATAACCCAGTT
1 ATGGTCTTACATTAATAGTGCCATAGCCCAGCT
58832114 ATGGTCTTA
1 ATGGTCTTA
58832123 TCCGTCAATT
Statistics
Matches: 161, Mismatches: 39, Indels: 22
0.73 0.18 0.10
Matches are distributed among these distances:
32 5 0.03
33 98 0.61
34 12 0.07
35 46 0.29
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (33 bp):
ATGGTCTTACATTAATAGTGCCATAGCCCAGCT
Found at i:58832002 original size:101 final size:101
Alignment explanation
Indices: 58831877--58832130 Score: 384
Period size: 101 Copynumber: 2.5 Consensus size: 101
58831867 TATGGCCCTG
* * *
58831877 CCATGGTCTTACATT-AGTAGTGCCATAGCCCAGTTATGGTCTTATCGTCAAAATACCATAGCCC
1 CCATGGTCTTACGTTCA-TAGTGCCATAACCCAGTTATGGTCTTATCGTCAAAATACCATAACCC
**
58831941 AGCTATGGTCTTACATATAATTACTACCATGGTCCAA
65 AGCTATGGTCTTACATATAAACACTACCATGGTCCAA
* * * * *
58831978 CCATGGTCTTACGTTCAAAGTGCCATAACCCAGTTATGGTCTTATCATTAGAATGCCATAACCCA
1 CCATGGTCTTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCGTCAAAATACCATAACCCA
*
58832043 GCTATGGTCTTACATATAAACACTGCCATGGTCCAA
66 GCTATGGTCTTACATATAAACACTACCATGGTCCAA
58832079 CCATGGTCTTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCCGTCAA
1 CCATGGTCTTACGTTCATAGTGCCATAACCCAGTTATGGTCTTAT-CGTCAA
58832131 TTCATCCTTT
Statistics
Matches: 136, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
101 132 0.97
102 4 0.03
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (101 bp):
CCATGGTCTTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCGTCAAAATACCATAACCCA
GCTATGGTCTTACATATAAACACTACCATGGTCCAA
Found at i:58836962 original size:19 final size:19
Alignment explanation
Indices: 58836924--58836963 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
58836914 AAAATATCAT
*
58836924 ATTAATTTAAATTGATTTG
1 ATTAATTTAAATTGACTTG
* *
58836943 ATTAATTTAATTTTACTTG
1 ATTAATTTAAATTGACTTG
58836962 AT
1 AT
58836964 CAAAATTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (19 bp):
ATTAATTTAAATTGACTTG
Found at i:58839449 original size:23 final size:24
Alignment explanation
Indices: 58839415--58839459 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
58839405 CAAAGTATAT
58839415 TATTATTAATTTAAT-ATTAAAAA
1 TATTATTAATTTAATAATTAAAAA
*
58839438 TATT-TTATATTTTATAATTAAA
1 TATTATTA-ATTTAATAATTAAA
58839460 TTTAAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 3 0.16
23 10 0.53
24 6 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
TATTATTAATTTAATAATTAAAAA
Found at i:58840750 original size:2 final size:2
Alignment explanation
Indices: 58840745--58840775 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
58840735 CAAAAACATA
58840745 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
58840776 ACTATTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:58844905 original size:29 final size:29
Alignment explanation
Indices: 58844873--58844950 Score: 93
Period size: 29 Copynumber: 2.7 Consensus size: 29
58844863 AATACTGATA
*
58844873 TCATGGCCCGAAGCCAAATTAGCCAATAT
1 TCATAGCCCGAAGCCAAATTAGCCAATAT
* * * *
58844902 TCATAGCCTGAAGCCAAATCAGTCGATAT
1 TCATAGCCCGAAGCCAAATTAGCCAATAT
* *
58844931 TCATTGCTCGAAGCCAAATT
1 TCATAGCCCGAAGCCAAATT
58844951 GGTATAACTT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (29 bp):
TCATAGCCCGAAGCCAAATTAGCCAATAT
Found at i:58849774 original size:26 final size:26
Alignment explanation
Indices: 58849745--58849820 Score: 98
Period size: 26 Copynumber: 2.9 Consensus size: 26
58849735 TCTTATCCCT
**
58849745 ATTTTACCCTCAATAAAATTTTGACG
1 ATTTTACCCTTGATAAAATTTTGACG
* *
58849771 ATTTTACCTTTGATAAAATTTTAACG
1 ATTTTACCCTTGATAAAATTTTGACG
* *
58849797 ATTTTATCCTTGGTAAAATTTTGA
1 ATTTTACCCTTGATAAAATTTTGA
58849821 GAAAATATGT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.45
Consensus pattern (26 bp):
ATTTTACCCTTGATAAAATTTTGACG
Found at i:58849981 original size:12 final size:12
Alignment explanation
Indices: 58849964--58849988 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
58849954 TGCAAATGAA
58849964 TCATTTCCATTT
1 TCATTTCCATTT
58849976 TCATTTCCATTT
1 TCATTTCCATTT
58849988 T
1 T
58849989 GGAAACTCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (12 bp):
TCATTTCCATTT
Found at i:58853350 original size:33 final size:32
Alignment explanation
Indices: 58853306--58853372 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 32
58853296 GGAAACACCC
*
58853306 AAAAATCGAATATAGTTTAGTCACCAAAAA-GAA
1 AAAAATCG-A-ATAGTTGAGTCACCAAAAATGAA
* *
58853339 AAAAATTGAATAGTTGAGTGACCAAAAATGAA
1 AAAAATCGAATAGTTGAGTCACCAAAAATGAA
58853371 AA
1 AA
58853373 TTACTAATAG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
31 17 0.57
32 6 0.20
33 7 0.23
ACGTcount: A:0.55, C:0.09, G:0.15, T:0.21
Consensus pattern (32 bp):
AAAAATCGAATAGTTGAGTCACCAAAAATGAA
Found at i:58853952 original size:22 final size:21
Alignment explanation
Indices: 58853926--58853976 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
58853916 TTTTTAAAAA
58853926 TAAAAATATTAAAAGATATTTT
1 TAAAAATATTAAAA-ATATTTT
* *
58853948 TAAAATATTTTTAAAATATTTT
1 TAAAA-ATATTAAAAATATTTT
*
58853970 TATAAAT
1 TAAAAAT
58853977 TTTTTGAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 2 0.08
22 16 0.64
23 7 0.28
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
TAAAAATATTAAAAATATTTT
Found at i:58853958 original size:10 final size:11
Alignment explanation
Indices: 58853941--58853981 Score: 66
Period size: 11 Copynumber: 3.7 Consensus size: 11
58853931 ATATTAAAAG
58853941 ATATTTTTAAA
1 ATATTTTTAAA
58853952 ATATTTTTAAA
1 ATATTTTTAAA
58853963 ATATTTTTATAA
1 ATATTTTTA-AA
58853975 AT-TTTTT
1 ATATTTTT
58853982 GAATTTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 25 0.86
12 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
ATATTTTTAAA
Found at i:58857997 original size:2 final size:2
Alignment explanation
Indices: 58857990--58858022 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
58857980 AAAAAGAAAG
58857990 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
58858023 GGGACTAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:58873159 original size:22 final size:22
Alignment explanation
Indices: 58873106--58873160 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
58873096 TGTTTTGAGG
58873106 TAAAAAAA-TATTTAGAATAAT
1 TAAAAAAATTATTTAGAATAAT
**
58873127 TAAAAGTATTATTTA-AATAATT
1 TAAAAAAATTATTTAGAATAA-T
58873149 TAAAAAAATTAT
1 TAAAAAAATTAT
58873161 CCAAATTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 11 0.39
22 17 0.61
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (22 bp):
TAAAAAAATTATTTAGAATAAT
Done.