Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 35 of 210
Found at i:12402192 original size:19 final size:19
Alignment explanation
Indices: 12402161--12402209 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
12402151 AAAAATATAA
*
12402161 ATTTTGAAATTTTTATAAA-T
1 ATTTTG-AATTTTGA-AAATT
12402181 ATTTTGAATTTTGAAAATT
1 ATTTTGAATTTTGAAAATT
12402200 ATTTTGAATT
1 ATTTTGAATT
12402210 ATTTTGTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 3 0.11
19 18 0.67
20 6 0.22
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (19 bp):
ATTTTGAATTTTGAAAATT
Found at i:12402307 original size:9 final size:9
Alignment explanation
Indices: 12402293--12402324 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
12402283 ATACAAATCT
12402293 ATTATTCGA
1 ATTATTCGA
12402302 ATTATTCGA
1 ATTATTCGA
*
12402311 GTTATTCGA
1 ATTATTCGA
12402320 ATTAT
1 ATTAT
12402325 AAAATTAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.47
Consensus pattern (9 bp):
ATTATTCGA
Found at i:12408317 original size:15 final size:15
Alignment explanation
Indices: 12408281--12408311 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
12408271 TTTTTAATGG
12408281 AAAAAAAAAAAGAAA
1 AAAAAAAAAAAGAAA
12408296 AAAAAAAAAAAGAAA
1 AAAAAAAAAAAGAAA
12408311 A
1 A
12408312 GTAAAAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAGAAA
Found at i:12417906 original size:21 final size:21
Alignment explanation
Indices: 12417848--12417911 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
12417838 CTTTTCGTTT
* * *
12417848 AGCTCTCACGAGCTTCTATTT
1 AGCTCTTACGAGCTTCCATTC
* * * *
12417869 AACCCTTATGAGTTTCCATTC
1 AGCTCTTACGAGCTTCCATTC
*
12417890 AGCTCTTACGAGCTTCCGTTC
1 AGCTCTTACGAGCTTCCATTC
12417911 A
1 A
12417912 ACCCTTATGG
Statistics
Matches: 31, Mismatches: 12, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.20, C:0.30, G:0.14, T:0.36
Consensus pattern (21 bp):
AGCTCTTACGAGCTTCCATTC
Found at i:12417918 original size:21 final size:21
Alignment explanation
Indices: 12417855--12417918 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
12417845 TTTAGCTCTC
* *
12417855 ACGAGCTTCTATTTAACCCTT
1 ACGAGCTTCCATTCAACCCTT
* * * *
12417876 ATGAGTTTCCATTCAGCTCTT
1 ACGAGCTTCCATTCAACCCTT
*
12417897 ACGAGCTTCCGTTCAACCCTT
1 ACGAGCTTCCATTCAACCCTT
12417918 A
1 A
12417919 TGGGTTTCTG
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.22, C:0.30, G:0.12, T:0.36
Consensus pattern (21 bp):
ACGAGCTTCCATTCAACCCTT
Found at i:12417936 original size:42 final size:41
Alignment explanation
Indices: 12417840--12417953 Score: 120
Period size: 42 Copynumber: 2.7 Consensus size: 41
12417830 CGTGTTTACT
* *
12417840 TTTCGTTTAGCTCTCACGAGCTTCTATTTAACCCTTATGAG
1 TTTCGTTTAGCTCTCACGAGCTTCCATTCAACCCTTATGAG
* * * * *
12417881 TTTCCATTCAGCTCTTACGAGCTTCCGTTCAACCCTTATGGG
1 TTT-CGTTTAGCTCTCACGAGCTTCCATTCAACCCTTATGAG
* * *
12417923 TTTCTGTTTAGCTCCCATGAGCTTCTATTCA
1 TTTC-GTTTAGCTCTCACGAGCTTCCATTCA
12417954 GCTTTCGGGC
Statistics
Matches: 57, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
41 4 0.07
42 53 0.93
ACGTcount: A:0.18, C:0.27, G:0.15, T:0.40
Consensus pattern (41 bp):
TTTCGTTTAGCTCTCACGAGCTTCCATTCAACCCTTATGAG
Found at i:12419801 original size:11 final size:11
Alignment explanation
Indices: 12419785--12419811 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
12419775 TCAAAAGTAG
12419785 TTAATTTAAAT
1 TTAATTTAAAT
12419796 TTAATTTAAAT
1 TTAATTTAAAT
12419807 TTAAT
1 TTAAT
12419812 ATGCACAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TTAATTTAAAT
Found at i:12436370 original size:25 final size:28
Alignment explanation
Indices: 12436338--12436393 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
12436328 TGTTTGAATT
12436338 TTAAAATT-ATATT-TA-TTTTTTATAA
1 TTAAAATTAATATTATATTTTTTTATAA
*
12436363 TTAAAATTAATTTTATATTTTTTTATAA
1 TTAAAATTAATATTATATTTTTTTATAA
12436391 TTA
1 TTA
12436394 GGACCCAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 8 0.30
26 4 0.15
27 2 0.07
28 13 0.48
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (28 bp):
TTAAAATTAATATTATATTTTTTTATAA
Found at i:12442720 original size:18 final size:18
Alignment explanation
Indices: 12442697--12442750 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
12442687 ACATCATCAC
12442697 TTATATTTTTATATTTTT
1 TTATATTTTTATATTTTT
*
12442715 TTATATTTTGAATATTTTT
1 TTATATTTT-TATATTTTT
*
12442734 TT-TAATTTTTAGATTTT
1 TTAT-ATTTTTATATTTT
12442751 ATATTTTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 16 0.52
19 15 0.48
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (18 bp):
TTATATTTTTATATTTTT
Found at i:12443666 original size:13 final size:14
Alignment explanation
Indices: 12443642--12443675 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
12443632 TCGTGTTTAA
12443642 TATTTATAATAAT-T
1 TATTT-TAATAATAT
12443656 TATTTTAATAATAT
1 TATTTTAATAATAT
12443670 TATTTT
1 TATTTT
12443676 TAAAATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TATTTTAATAATAT
Found at i:12443676 original size:15 final size:14
Alignment explanation
Indices: 12443642--12443683 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
12443632 TCGTGTTTAA
*
12443642 TATTTATAATAATT
1 TATTTTTAATAATT
12443656 TA-TTTTAATAATAT
1 TATTTTTAATAAT-T
12443670 TATTTTTAA-AATT
1 TATTTTTAATAATT
12443683 T
1 T
12443684 GAAAATGGAC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 11 0.44
14 8 0.32
15 6 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TATTTTTAATAATT
Found at i:12444979 original size:14 final size:15
Alignment explanation
Indices: 12444960--12444992 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
12444950 AAAAAAAAAA
*
12444960 TGTTGTTGTTTT-AT
1 TGTTGTCGTTTTCAT
12444974 TGTTGTCGTTTTCAT
1 TGTTGTCGTTTTCAT
12444989 TGTT
1 TGTT
12444993 ACGCCATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.06, C:0.06, G:0.21, T:0.67
Consensus pattern (15 bp):
TGTTGTCGTTTTCAT
Found at i:12445026 original size:22 final size:22
Alignment explanation
Indices: 12445001--12445052 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
12444991 TTACGCCATC
12445001 ATTTTATTATTATAT-TACTATT
1 ATTTTATTATTATATAT-CTATT
* * * *
12445023 ATTTGAATATTGTATATCTCTT
1 ATTTTATTATTATATATCTATT
12445045 ATTTTATT
1 ATTTTATT
12445053 GTTACTTTTG
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.62
Consensus pattern (22 bp):
ATTTTATTATTATATATCTATT
Found at i:12445503 original size:256 final size:257
Alignment explanation
Indices: 12445179--12445691 Score: 1019
Period size: 256 Copynumber: 2.0 Consensus size: 257
12445169 AATGTGTTAT
12445179 ATTTTTAAATTTTATTTTTATATAAAAAAGTCAATATAAGCAAGCCAAATTTGAGCAAAATTTTA
1 ATTTTTAAATTTTATTTTTATATAAAAAAGTCAATATAAGCAAGCCAAATTTGAGCAAAATTTTA
12445244 GACATATTTTTCGGATCCAACCAAACCCAAACCTATCAAATAAACCTAAAATTTTATCTATTTAT
66 GACATATTTTTCGGATCCAACCAAACCCAAACCTATCAAATAAACCTAAAATTTTATCTATTTAT
12445309 TGTAGATAAAGATTAATTTAATTTAAAGTTCAAAAGTAGAAATCTTATCACTGCAATTGTTGTTT
131 TGTAGATAAAGATTAATTTAATTTAAAGTTCAAAAGTAGAAATCTTATCACTGCAATTGTTGTTT
12445374 AAATTAAATTAAGTTTATCATCATCATTGTTTAAATGGATAAATGAAAATTATTTATACTTG
196 AAATTAAATTAAGTTTATCATCATCATTGTTTAAATGGATAAATGAAAATTATTTATACTTG
12445436 ATTTTTAAA-TTTATTTTTATATAAAAAAGTCAATATAAGCAAGCCAAATTTGAGCAAAATTTTA
1 ATTTTTAAATTTTATTTTTATATAAAAAAGTCAATATAAGCAAGCCAAATTTGAGCAAAATTTTA
12445500 GACATATTTTTCGGATCCAACCAAACCCAAACCTATCAAATAAACCTAAAATTTTATCTATTTAT
66 GACATATTTTTCGGATCCAACCAAACCCAAACCTATCAAATAAACCTAAAATTTTATCTATTTAT
12445565 TGTAGATAAAGATTAATTTAATTTAAAGTTCAAAAGTAGAAATCTTATCACTGCAATTGTTGTTT
131 TGTAGATAAAGATTAATTTAATTTAAAGTTCAAAAGTAGAAATCTTATCACTGCAATTGTTGTTT
12445630 AAATTAAATTAAGTTTATCATCATCATTGTTTAAATGGATAAATGAAAATTATTTATACTTG
196 AAATTAAATTAAGTTTATCATCATCATTGTTTAAATGGATAAATGAAAATTATTTATACTTG
12445692 TGCCAAATAA
Statistics
Matches: 256, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
256 247 0.96
257 9 0.04
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.38
Consensus pattern (257 bp):
ATTTTTAAATTTTATTTTTATATAAAAAAGTCAATATAAGCAAGCCAAATTTGAGCAAAATTTTA
GACATATTTTTCGGATCCAACCAAACCCAAACCTATCAAATAAACCTAAAATTTTATCTATTTAT
TGTAGATAAAGATTAATTTAATTTAAAGTTCAAAAGTAGAAATCTTATCACTGCAATTGTTGTTT
AAATTAAATTAAGTTTATCATCATCATTGTTTAAATGGATAAATGAAAATTATTTATACTTG
Found at i:12447936 original size:20 final size:20
Alignment explanation
Indices: 12447898--12447937 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
12447888 AATATTTTCT
* *
12447898 AGTAAATCATTTTATAGAAA
1 AGTAAAACATTTTACAGAAA
*
12447918 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
12447938 TTATTTTACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:12447952 original size:34 final size:35
Alignment explanation
Indices: 12447886--12447952 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 35
12447876 CAAACACCAA
* * *
12447886 AAAATATTTTCTAGTAAATCATTTTATAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
12447921 AAAACATTTTCCAG-AAATTATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
12447953 CATTTTACTG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 15 0.56
35 12 0.44
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.36
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:12449060 original size:30 final size:30
Alignment explanation
Indices: 12449026--12449120 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
12449016 TATAATGTTA
12449026 AAATATGACATAAGTCCCTATATTAATCAT
1 AAATATGACATAAGTCCCTATATTAATCAT
* ** * *
12449056 AAATATGGA-ATTTAGT-TTTATAAT-GTCA-
1 AAATAT-GACA-TAAGTCCCTATATTAATCAT
* *
12449084 AAATATGACATAAGTCCCTGTATTATTCAT
1 AAATATGACATAAGTCCCTATATTAATCAT
12449114 AAATATG
1 AAATATG
12449121 GAATTTAATT
Statistics
Matches: 48, Mismatches: 11, Indels: 12
0.68 0.15 0.17
Matches are distributed among these distances:
27 6 0.12
28 11 0.23
29 6 0.12
30 19 0.40
31 6 0.12
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.37
Consensus pattern (30 bp):
AAATATGACATAAGTCCCTATATTAATCAT
Found at i:12449108 original size:58 final size:58
Alignment explanation
Indices: 12449014--12449127 Score: 201
Period size: 58 Copynumber: 2.0 Consensus size: 58
12449004 AACTAATATA
*
12449014 TTTATAATGTTAAAATATGACATAAGTCCCTATATTAATCATAAATATGGAATTTAGT
1 TTTATAATGTCAAAATATGACATAAGTCCCTATATTAATCATAAATATGGAATTTAGT
* *
12449072 TTTATAATGTCAAAATATGACATAAGTCCCTGTATTATTCATAAATATGGAATTTA
1 TTTATAATGTCAAAATATGACATAAGTCCCTATATTAATCATAAATATGGAATTTA
12449128 ATTTATGCTC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 53 1.00
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39
Consensus pattern (58 bp):
TTTATAATGTCAAAATATGACATAAGTCCCTATATTAATCATAAATATGGAATTTAGT
Found at i:12449371 original size:3 final size:3
Alignment explanation
Indices: 12449363--12449398 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
12449353 ATACATTCAA
12449363 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
12449399 NNNNNNNNNN
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:12452077 original size:133 final size:135
Alignment explanation
Indices: 12451890--12452232 Score: 421
Period size: 133 Copynumber: 2.6 Consensus size: 135
12451880 GCGCTTCCAC
* **
12451890 AAAAACGCCGCAAACAATTGGAATATAGCGGCGTTTTCTTAGAAACGCCGGTAAAGATAACGAAT
1 AAAAACGCCGCAAACAATTGGAATATAGCGACGTTTTCAGAGAAACGCCGGTAAAGATAACGAAT
* *
12451955 TTGAGGAAAAAATCTGAG-CAAAACAG-TACCGTTTTGTTGTTTCATTTTATTTCTTTAGCGGCG
66 TTGAGGAAAAAAT-TGAGACAAAAC-GCTACCGTTTTATTGCTTCATTTTATTTCTTTAGCGGCG
12452018 CATTGTA
129 CATTGTA
* * *
12452025 AAAAACGCCGGAAA-AGATT-GAAT-TAGCGACGTTTTCAGGGAAACGCCGGTAAAGATAACTAA
1 AAAAACGCCGCAAACA-ATTGGAATATAGCGACGTTTTCAGAGAAACGCCGGTAAAGATAACGAA
* *
12452087 TTTGAGGAAAAAATTTAGACAAAACGCTACCGTTTTATTGCTTCATTTTATTTCTTTAGTGGCGC
65 TTTGAGGAAAAAATTGAGACAAAACGCTACCGTTTTATTGCTTCATTTTATTTCTTTAGCGGCGC
12452152 ATTGTA
130 ATTGTA
* * * * ** * * * *
12452158 AAAGACGCCGCAAA-TATTGGGATATAGTGGGGTTATT-GGAGAAACACCGGTAAAGATATCTAA
1 AAAAACGCCGCAAACAATTGGAATATAGCGACGTT-TTCAGAGAAACGCCGGTAAAGATAACGAA
12452221 TTTGAGGAAAAA
65 TTTGAGGAAAAA
12452233 CTTTGAATGA
Statistics
Matches: 181, Mismatches: 21, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
132 7 0.04
133 110 0.61
134 46 0.25
135 18 0.10
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (135 bp):
AAAAACGCCGCAAACAATTGGAATATAGCGACGTTTTCAGAGAAACGCCGGTAAAGATAACGAAT
TTGAGGAAAAAATTGAGACAAAACGCTACCGTTTTATTGCTTCATTTTATTTCTTTAGCGGCGCA
TTGTA
Found at i:12453671 original size:30 final size:30
Alignment explanation
Indices: 12453635--12453701 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
12453625 GGCTAAATAG
*
12453635 TTTGTTTCGGTTCTTGCCTGTATTGCATTA
1 TTTGTTTCGGTTCTTGCCTATATTGCATTA
12453665 TTTGTTTCGGTTCTTGCCTATATTGCATTA
1 TTTGTTTCGGTTCTTGCCTATATTGCATTA
12453695 TTTGTTT
1 TTTGTTT
12453702 GAGTTAATCG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.10, C:0.15, G:0.18, T:0.57
Consensus pattern (30 bp):
TTTGTTTCGGTTCTTGCCTATATTGCATTA
Found at i:12455535 original size:13 final size:13
Alignment explanation
Indices: 12455517--12455542 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12455507 TCTAAATCAG
12455517 AATTATTTTTGAA
1 AATTATTTTTGAA
12455530 AATTATTTTTGAA
1 AATTATTTTTGAA
12455543 CTCAAAAGCA
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:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
AATTATTTTTGAA
Found at i:12455741 original size:29 final size:28
Alignment explanation
Indices: 12455676--12455747 Score: 119
Period size: 28 Copynumber: 2.6 Consensus size: 28
12455666 TTAATTCCGA
12455676 AGACG-AAAAATTTATGCAAATTGCTAT
1 AGACGAAAAAATTTATGCAAATTGCTAT
*
12455703 AGACGAAAAAATTTATGTAAATTGCTAT
1 AGACGAAAAAATTTATGCAAATTGCTAT
12455731 AGACGAAAAAAATTTAT
1 AGACG-AAAAAATTTAT
12455748 AATTTATAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
27 5 0.12
28 26 0.62
29 11 0.26
ACGTcount: A:0.49, C:0.08, G:0.14, T:0.29
Consensus pattern (28 bp):
AGACGAAAAAATTTATGCAAATTGCTAT
Found at i:12459565 original size:39 final size:40
Alignment explanation
Indices: 12459522--12459626 Score: 106
Period size: 44 Copynumber: 2.5 Consensus size: 40
12459512 TTCTATTATG
12459522 CTATTACTCCTATATTCCATTCAACCAAACACA-AGA-TTA
1 CTATTACTCCTATATTCCATTCAACCAAACA-ATAGATTTA
* *
12459561 CTATTACGTCTCTATTCCATTACATTCAACCAAACAATTGATTTA
1 CTATTAC-TC-CTA-T--ATTCCATTCAACCAAACAATAGATTTA
* *
12459606 CTATTACGCCTCTATTCCATT
1 CTATTACTCCTATATTCCATT
12459627 ACACCTCTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
39 7 0.13
40 9 0.17
41 3 0.06
42 2 0.04
43 3 0.06
44 20 0.37
45 10 0.19
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.36
Consensus pattern (40 bp):
CTATTACTCCTATATTCCATTCAACCAAACAATAGATTTA
Found at i:12459588 original size:44 final size:45
Alignment explanation
Indices: 12459539--12459629 Score: 141
Period size: 45 Copynumber: 2.0 Consensus size: 45
12459529 TCCTATATTC
*
12459539 CATTCAACCAAACACA-AGA-TTACTATTACGTCTCTATTCCATTA
1 CATTCAACCAAACA-ATAGATTTACTATTACGCCTCTATTCCATTA
*
12459583 CATTCAACCAAACAATTGATTTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAATAGATTTACTATTACGCCTCTATTCCATTA
12459628 CA
1 CA
12459630 CCTCTATTCC
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 16 0.37
45 26 0.60
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.33
Consensus pattern (45 bp):
CATTCAACCAAACAATAGATTTACTATTACGCCTCTATTCCATTA
Found at i:12459633 original size:16 final size:16
Alignment explanation
Indices: 12459608--12459653 Score: 83
Period size: 16 Copynumber: 2.9 Consensus size: 16
12459598 TTGATTTACT
12459608 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
12459624 ATTACACCTCTATTCC
1 ATTACGCCTCTATTCC
12459640 ATTACGCCTCTATT
1 ATTACGCCTCTATT
12459654 TCAATACAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.22, C:0.35, G:0.04, T:0.39
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:12463214 original size:64 final size:64
Alignment explanation
Indices: 12463113--12463242 Score: 260
Period size: 64 Copynumber: 2.0 Consensus size: 64
12463103 ATATAAGGAC
12463113 AGGTCAGTTTTGAGCCACTATCCCACCATGTGGGATTATCAAAATGATTGAAACAAAATTGTAA
1 AGGTCAGTTTTGAGCCACTATCCCACCATGTGGGATTATCAAAATGATTGAAACAAAATTGTAA
12463177 AGGTCAGTTTTGAGCCACTATCCCACCATGTGGGATTATCAAAATGATTGAAACAAAATTGTAA
1 AGGTCAGTTTTGAGCCACTATCCCACCATGTGGGATTATCAAAATGATTGAAACAAAATTGTAA
12463241 AG
1 AG
12463243 ACTTCTTTCA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (64 bp):
AGGTCAGTTTTGAGCCACTATCCCACCATGTGGGATTATCAAAATGATTGAAACAAAATTGTAA
Found at i:12467185 original size:46 final size:46
Alignment explanation
Indices: 12467114--12467203 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
12467104 TGATACACGT
* * * *
12467114 TTTGAAGCTTTCGTTAATTTATCATAATTTTATTTTATCTCCACAC
1 TTTGAAGCTTTCATTAATTTATCATAAATTCATTTTATCCCCACAC
*
12467160 TTTGAAGCTTTCATTAATTTCTCATAAATTCATTTTATCCCCAC
1 TTTGAAGCTTTCATTAATTTATCATAAATTCATTTTATCCCCAC
12467204 GCACCAACAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.27, C:0.20, G:0.06, T:0.48
Consensus pattern (46 bp):
TTTGAAGCTTTCATTAATTTATCATAAATTCATTTTATCCCCACAC
Found at i:12468626 original size:30 final size:30
Alignment explanation
Indices: 12468564--12468626 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
12468554 ACTTATTTTA
* *
12468564 TTGTTCATTTTGTTATTATTTTAAAGATAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
12468594 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
12468624 TTG
1 TTG
12468627 CTTGTTAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.24, C:0.03, G:0.14, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:12469112 original size:18 final size:18
Alignment explanation
Indices: 12469070--12469110 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
12469060 TATATTTTTT
* *
12469070 TAAATATATTAATTACTA
1 TAAAAATATTAATTACGA
12469088 TAAAAATATTAA-TACGA
1 TAAAAATATTAATTACGA
12469105 TAAAAA
1 TAAAAA
12469111 ATTCTAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (18 bp):
TAAAAATATTAATTACGA
Found at i:12470449 original size:18 final size:19
Alignment explanation
Indices: 12470416--12470465 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
12470406 ATTATTTTTA
**
12470416 ATTATTTTATAAAATATAG
1 ATTATTTTATTTAATATAG
*
12470435 ATT-TTTTATTTAATATTG
1 ATTATTTTATTTAATATAG
12470453 ATTACTTTTATTT
1 ATTA-TTTTATTT
12470466 TTTGAAAAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 15 0.58
19 3 0.12
20 8 0.31
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (19 bp):
ATTATTTTATTTAATATAG
Found at i:12473638 original size:592 final size:592
Alignment explanation
Indices: 12472430--12474126 Score: 2091
Period size: 592 Copynumber: 2.9 Consensus size: 592
12472420 AAAACTTGGG
* *
12472430 AAGATGTTCAAAATTTAAAATTAACTCATATCTTTTTTGAAACATTCTGTGCTTTCATTTAAAAC
1 AAGATGTTCAAAATTTAAAATTAACTCATATCTTTCTTGAAACATTTTGTGCTTTCATTTAAAAC
* * * *
12472495 ACGACAAAAGACAATAAAAATGATACCCGA-GTGTATTCAATAGTTATAAATAAAAAAGAAGAAT
66 ACGACAAAATACAATAAAAATGATA-TCTATGTGTATTTAATAGTTATAAAT-AAAAAGAAGAAT
* * * * *
12472559 CTATTTGTTGTCAATTTTATTTAAATTTTCAGTGAACGCTAGCATATATAAAAGTCTTATTCATC
129 CTATTTGTTGCCAAATTTATTTAAATTTT-AGTGAACGTTAACATATACAAAAGTCTTATTCATC
* * *
12472624 AAAACTTA-AAAAGATGTTCAAATTTTAAAATATCAACTC-ATATCCTTATTGAAACGTTTCGTT
193 AAAACTTAGAAAA-ATGTTCAAA---TAAAATATAAACTCAATAT-CTTTTTGAAACGTTTTGTT
* * *
12472687 CTCTCATTTAAAACATGACAAAATACAATAAAAATGATATCTATGTGTATTTAATAGTTATAAAT
253 CTTTCATTTAAAACATGACAAAATATAACAAAAATGATA--TATGTGTATTTAATAGTTATAAAT
* *
12472752 AAAAAGAAGAATTTGTTTGTTGTCAAATTTATTTAAAATTTT-AGTTAAAGTTAACACATACATA
316 AAAAAGAAGAATTTGTTTGTTGTCAAATTTATTT-AAATTTTCAGTGAAAGTTAACAAATACATA
* *
12472816 AAAACTTAGGAAGATGTTCAAAATTTAAAATTAACTCATATCTTTCTTGAAAC-TT-TCTGTTTT
380 AAAACTTAGGAAGATGTTCAAAATTTAAAATTAACTCATATATTTCTTGAAACATTCTGTGTTTT
* * * *
12472879 CACTTAAAACACGACAAAATATAATAAAAATGATATATGTGTGTATTTAATAGTTATAAATAAAA
445 CATTTAAAACACGACAAAATATAATAAAAATGACACACGTGTGTATTTAATAGTTATAAATAAAA
* * *
12472944 AGAATAACCTGTTTGTTGCCAATTTTATTTAAATTTTCAGTGAACATTAACATATGCAAAAGCCT
510 AGAATAACCTGATTGTTGCCAATTTTATTTAAATTTCCAGTGAACATTAACATATACAAAAGCCT
12473009 CGTTCATCAAAACTTAAA
575 CGTTCATCAAAACTTAAA
* *
12473027 AAGATGTTCAAAATTTAAAATTAACTCATATATTTCTTAAAACATTTTGTG-TCTTCATTTAAAA
1 AAGATGTTCAAAATTTAAAATTAACTCATATCTTTCTTGAAACATTTTGTGCT-TTCATTTAAAA
* * *
12473091 CACGACAAAATATAATAAAAATGATATTTATGTGTATTTAATAGCTATAAATAAAGAAGAAGAAT
65 CACGACAAAATACAATAAAAATGATATCTATGTGTATTTAATAGTTATAAATAAA-AAGAAGAAT
* *
12473156 CTATTTGTTGCCAAATTTATTTAAACTTTTAGTGAAGGTTAACATATACAAAAGTTTTATTCATC
129 CTATTTGTTGCCAAATTTATTTAAA-TTTTAGTGAACGTTAACATATACAAAAGTCTTATTCATC
** * * *
12473221 AAAGTTTAGAAAAATGTTCAAA-AAAAAAAAAAC-CAATATCTTTCTTGAAAGGTTTTGTTCTTT
193 AAAACTTAGAAAAATGTTCAAATAAAATATAAACTCAATATCTTT-TTGAAACGTTTTGTTCTTT
* * *
12473284 CATTTAAAACACGACAAAATGTAACAAAAATGATATATGTGTATTTAATAATTATAAATAAAAAG
257 CATTTAAAACATGACAAAATATAACAAAAATGATATATGTGTATTTAATAGTTATAAATAAAAAG
* * * * * *
12473349 AA-AAATTATTTGTTGTCAAATTCATTTAAATTTTCAATGAATGTTAACATATACATAAAAACTT
322 AAGAATTTGTTTGTTGTCAAATTTATTTAAATTTTCAGTGAAAGTTAACAAATACATAAAAACTT
* *
12473413 AGGAAGATGTTCAAAATTTAAAATTAACTCGTATATTTCTTGAAACATTCTGTGTTTTCATTTGA
387 AGGAAGATGTTCAAAATTTAAAATTAACTCATATATTTCTTGAAACATTCTGTGTTTTCATTTAA
* *
12473478 AACACGACAAAATACAATAAAAATGACACACGTGTGTATTTAATAGTTATAAATAATAAGAATAA
452 AACACGACAAAATATAATAAAAATGACACACGTGTGTATTTAATAGTTATAAATAAAAAGAATAA
* * *
12473543 TCTGATTGTTGCCAATTTTATTTAAATTTCCGGTGAACATTAACATATACAAAAGCCTTGTTCAT
517 CCTGATTGTTGCCAATTTTATTTAAATTTCCAGTGAACATTAACATATACAAAAGCCTCGTTCAT
** *
12473608 CAATGCTTAGA
582 CAAAACTTAAA
* ** * *
12473619 AAGATATTCAAAATTTAAAATTAACTCATATCTTTCTTGAAACGCTTCGTGCTTTCATTTAAGAC
1 AAGATGTTCAAAATTTAAAATTAACTCATATCTTTCTTGAAACATTTTGTGCTTTCATTTAAAAC
* * * * * * *
12473684 ATGACAAAATACAATAAAAATAATATCTGTATGTATTTAATAGTTAT-AA-GAAAAGAATAATTT
66 ACGACAAAATACAATAAAAATGATATCTATGTGTATTTAATAGTTATAAATAAAAAGAAGAATCT
* ** * * * *
12473747 GTTTGTTGCCAAATTTATTTAAAATTCCAGTGAATGTTAACATATACAAAAGCCTTGTTTATCAA
131 ATTTGTTGCCAAATTTATTT-AAATTTTAGTGAACGTTAACATATACAAAAGTCTTATTCATCAA
* * *** * ** *
12473812 AACTTAGAAAGATATTCAAATTTTCATATTAACTCATATAT-TTTTTGAAATATCTCGTGTT-TT
195 AACTTAGAAAAATGTTCAAA-TAAAATATAAACTCA-ATATCTTTTTGAAACGT-T-TTGTTCTT
*
12473875 T-ATTTAATACATGACAAAATATAACAAAAATGATATATGTGTATTTAATAGTTATAAATAAAAA
256 TCATTTAAAACATGACAAAATATAACAAAAATGATATATGTGTATTTAATAGTTATAAATAAAAA
* * * *
12473939 GAATAATTTGTTTGCTGTCAAGTTTATTTAAATTTTCAGTGAACA-TTAACAAATACATCAAAAC
321 GAAGAATTTGTTTGTTGTCAAATTTATTTAAATTTTCAGTGAA-AGTTAACAAATACATAAAAAC
* ** * * * * * *
12474003 TCAAAAAGATGTTCAAAATTCAAAATCAATTCAT-TTTTTTTTGAAACATTCTGTGCTTT-AGTT
385 TTAGGAAGATGTTCAAAATTTAAAATTAACTCATATATTTCTTGAAACATTCTGTGTTTTCA-TT
* * * * * *
12474066 TAAAATACGACAAAATATAATAAAAATGATATC-TGTGTGCATTAAATAGTCATAAATAAAA
449 TAAAACACGACAAAATATAATAAAAATGACA-CACGTGTGTATTTAATAGTTATAAATAAAA
12474127 TGAAGAATTT
Statistics
Matches: 950, Mismatches: 128, Indels: 50
0.84 0.11 0.04
Matches are distributed among these distances:
589 85 0.09
590 97 0.10
591 183 0.19
592 326 0.34
593 68 0.07
596 5 0.01
597 178 0.19
598 8 0.01
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.36
Consensus pattern (592 bp):
AAGATGTTCAAAATTTAAAATTAACTCATATCTTTCTTGAAACATTTTGTGCTTTCATTTAAAAC
ACGACAAAATACAATAAAAATGATATCTATGTGTATTTAATAGTTATAAATAAAAAGAAGAATCT
ATTTGTTGCCAAATTTATTTAAATTTTAGTGAACGTTAACATATACAAAAGTCTTATTCATCAAA
ACTTAGAAAAATGTTCAAATAAAATATAAACTCAATATCTTTTTGAAACGTTTTGTTCTTTCATT
TAAAACATGACAAAATATAACAAAAATGATATATGTGTATTTAATAGTTATAAATAAAAAGAAGA
ATTTGTTTGTTGTCAAATTTATTTAAATTTTCAGTGAAAGTTAACAAATACATAAAAACTTAGGA
AGATGTTCAAAATTTAAAATTAACTCATATATTTCTTGAAACATTCTGTGTTTTCATTTAAAACA
CGACAAAATATAATAAAAATGACACACGTGTGTATTTAATAGTTATAAATAAAAAGAATAACCTG
ATTGTTGCCAATTTTATTTAAATTTCCAGTGAACATTAACATATACAAAAGCCTCGTTCATCAAA
ACTTAAA
Found at i:12473845 original size:201 final size:199
Alignment explanation
Indices: 12473406--12473995 Score: 729
Period size: 201 Copynumber: 2.9 Consensus size: 199
12473396 CATATACATA
* * *
12473406 AAAACTTAGGAAGATGTTCAAAATTTAAAATTAACTCGTATATTTCTTGAAACATTCTGTGTTTT
1 AAAACTTAGAAAGATATTCAAAATTTAAAATTAACTCATATATTTCTTGAAACATTC-GTGTTTT
* *
12473471 CATTTGAAACACGACAAAATACAATAAAAATGACACA-C-GTGTGTATTTAATAGTTATAAATAA
65 CATTT-AAACATGACAAAATACAATAAAAAT-A-ATATCTGT-TGTATTTAATAGTTATAAA-AA
* * * * *
12473534 TAAGAATAATCTGATTGTTGCCAATTTTATTTAAATTTCCGGTGAACATTAACATATACAAAAGC
125 AAAGAATAATTTGTTTGTTGCCAAATTTATTTAAATTTCCAGTGAACATTAACATATACAAAAGC
12473599 CTTGTTCATC
190 CTTGTTCATC
** * * *
12473609 AATGCTTAGAAAGATATTCAAAATTTAAAATTAACTCATATCTTTCTTGAAACGCTTCGTGCTTT
1 AAAACTTAGAAAGATATTCAAAATTTAAAATTAACTCATATATTTCTTGAAAC-ATTCGTGTTTT
*
12473674 CATTTAAGACATGACAAAATACAATAAAAATAATATCTGTATGTATTTAATAGTTAT-AAGAAAA
65 CATTTAA-ACATGACAAAATACAATAAAAATAATATCTGT-TGTATTTAATAGTTATAAAAAAAA
* **
12473738 GAATAATTTGTTTGTTGCCAAATTTATTTAAAATTCCAGTGAATGTTAACATATACAAAAGCCTT
128 GAATAATTTGTTTGTTGCCAAATTTATTTAAATTTCCAGTGAACATTAACATATACAAAAGCCTT
*
12473803 GTTTATC
193 GTTCATC
* * * * *
12473810 AAAACTTAGAAAGATATTCAAATTTTCATATTAACTCATATATTTTTTGAAATATCTCGTGTTTT
1 AAAACTTAGAAAGATATTCAAAATTTAAAATTAACTCATATATTTCTTGAAACAT-TCGTGTTTT
* * * * *
12473875 TATTTAATACATGACAAAATATAACAAAAATGATATATG-TGTATTTAATAGTTATAAATAAAAA
65 CATTTAA-ACATGACAAAATACAATAAAAATAATATCTGTTGTATTTAATAGTTATAAA-AAAAA
* * * * *
12473939 GAATAATTTGTTTGCTGTCAAGTTTATTTAAATTTTCAGTGAACATTAACAAATACA
128 GAATAATTTGTTTGTTGCCAAATTTATTTAAATTTCCAGTGAACATTAACATATACA
12473996 TCAAAACTCA
Statistics
Matches: 334, Mismatches: 46, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
199 16 0.05
200 3 0.01
201 208 0.62
202 6 0.02
203 98 0.29
204 3 0.01
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (199 bp):
AAAACTTAGAAAGATATTCAAAATTTAAAATTAACTCATATATTTCTTGAAACATTCGTGTTTTC
ATTTAAACATGACAAAATACAATAAAAATAATATCTGTTGTATTTAATAGTTATAAAAAAAAGAA
TAATTTGTTTGTTGCCAAATTTATTTAAATTTCCAGTGAACATTAACATATACAAAAGCCTTGTT
CATC
Found at i:12474250 original size:174 final size:173
Alignment explanation
Indices: 12473961--12474533 Score: 813
Period size: 174 Copynumber: 3.3 Consensus size: 173
12473951 TGCTGTCAAG
* *
12473961 TTTATTTAAATTTTCAGTGAACA-TTAACAAATACATCAAAACTCAAAAAGATGTTCAAAATTCA
1 TTTATTTAAATTTTCAGTGAACATTTAACATATACATC-AAACTTAAAAAGATGTTCAAAATTCA
* *
12474025 AAATCAATTCATTT-TTTTTTGAAACATTCTGTGCTTTAGTTTAAAATACGACAAAATATAATAA
65 AAATCAACTCATTTCATTTTTGAAAC-TTCTGTGCTTTAGTTTAAAATACGACAAAATATAATAA
*
12474089 AAATGATATCTGTGTGCATTAAATAGTCATAAATAAAATGAAGAA
129 AAACGATATCTGTGTGCATTAAATAGTCATAAATAAAATGAAGAA
* *
12474134 TTTATTTAAA-TTTCTAGTGAACATTTAACACATACATCAAACTTAAAAAGATGTTCAAAATTGA
1 TTTATTTAAATTTTC-AGTGAACATTTAACATATACATCAAACTTAAAAAGATGTTCAAAATTCA
** *
12474198 AAATTTACTCATTTCGTTTTTGAAACGTTCTGTGCTTTAGTTTAAAATACGACAAAATATAATAA
65 AAATCAACTCATTTCATTTTTGAAAC-TTCTGTGCTTTAGTTTAAAATACGACAAAATATAATAA
* *
12474263 AAACGATATCTGTGCGCATTAAATAGTCATAAATAAAATGAAGAG
129 AAACGATATCTGTGTGCATTAAATAGTCATAAATAAAATGAAGAA
* * * *
12474308 TTTATTTAAATTTTCCGTGAACGTTTAACATATACATCAAACTTTAAAAGATGTTCAAAATTTAA
1 TTTATTTAAATTTTCAGTGAACATTTAACATATACATCAAACTTAAAAAGATGTTCAAAATTCAA
*
12474373 AATCAACTCATTTCATTTTTGAAA---C---GCTTTAATTTAAAATACGACAAAATATAATAAAA
66 AATCAACTCATTTCATTTTTGAAACTTCTGTGCTTTAGTTTAAAATACGACAAAATATAATAAAA
** *
12474432 ACGGCATCTGTGTGCATTAAATAGTCATAAATAAAATGAAAAA
131 ACGATATCTGTGTGCATTAAATAGTCATAAATAAAATGAAGAA
* * ** * *
12474475 TTTATTTAAAATTTCAGTGAACGTTTAATTTATATATCAAACTTAAAAATATGTTCAAA
1 TTTATTTAAATTTTCAGTGAACATTTAACATATACATCAAACTTAAAAAGATGTTCAAA
12474534 GTTTAAAACT
Statistics
Matches: 364, Mismatches: 32, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
167 123 0.34
170 1 0.00
172 4 0.01
173 53 0.15
174 179 0.49
175 4 0.01
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.35
Consensus pattern (173 bp):
TTTATTTAAATTTTCAGTGAACATTTAACATATACATCAAACTTAAAAAGATGTTCAAAATTCAA
AATCAACTCATTTCATTTTTGAAACTTCTGTGCTTTAGTTTAAAATACGACAAAATATAATAAAA
ACGATATCTGTGTGCATTAAATAGTCATAAATAAAATGAAGAA
Found at i:12474593 original size:341 final size:344
Alignment explanation
Indices: 12473959--12474593 Score: 865
Period size: 341 Copynumber: 1.8 Consensus size: 344
12473949 TTTGCTGTCA
12473959 AGTTTATTTAAATTTTCAGTGAACATTAACAAATACATCAAAACTCAAAAAGATGTTCAAAATTC
1 AGTTTATTTAAATTTTCAGTGAACATTAACAAATACATCAAAACTCAAAAAGATGTTCAAAATTC
* * *
12474024 AAAATCAATTCATTTTTTTTTGAAACATTCTGTGCTTTAGTTTAAAATACGACAAAATATAATAA
66 AAAATCAACTCATTTATTTTTGAAACA-TC--TGCTTTAATTTAAAATACGACAAAATATAATAA
* * *
12474089 AAATGATATCTGTGTGCATTAAATAGTCATAAATAAAATGAAGAATTTATTTAAATTTCTAGTGA
128 AAACGACATCTGTGTGCATTAAATAGTCATAAATAAAATGAAAAATTTATTTAAATTTCTAGTGA
* * *
12474154 ACATTTAACACATACATCAAACTTAAAAAGATGTTCAAAATTGAAAATTTACTCATTTCGTTTTT
193 ACATTTAACACATACATCAAACTTAAAAAGATGTTCAAAATTGAAAACTAACTCATTTCATTTTT
* * *
12474219 GAAACGTTCTGTGCTTTAGTTTAAAATACGACAAAATATAATAAAAACGATATCTGTGCGCATTA
258 GAAACGTTCTGTACTTCAGTTTAAAACACGACAAAATATAATAAAAACGATATCTGTGCGCATTA
12474284 AATAGTCATAAATAAAATGAAG
323 AATAGTCATAAATAAAATGAAG
* * * **
12474306 AGTTTATTTAAATTTTCCGTGAACGTTTAACATATACATC-AAACTTTAAAAGATGTTCAAAATT
1 AGTTTATTTAAATTTTCAGTGAAC-ATTAACAAATACATCAAAACTCAAAAAGATGTTCAAAATT
*
12474370 TAAAATCAACTCATTTCATTTTTG-AA-A-C-GCTTTAATTTAAAATACGACAAAATATAATAAA
65 CAAAATCAACTCATTT-ATTTTTGAAACATCTGCTTTAATTTAAAATACGACAAAATATAATAAA
*
12474431 AACGGCATCTGTGTGCATTAAATAGTCATAAATAAAATGAAAAATTTATTTAAAATTTC-AGTGA
129 AACGACATCTGTGTGCATTAAATAGTCATAAATAAAATGAAAAATTTATTT-AAATTTCTAGTGA
* *** * * * * *
12474495 ACGTTTAATTTATATATCAAACTTAAAAATATGTTCAAAGTTTAAAACTAACTTATTT-ATTTCT
193 ACATTTAACACATACATCAAACTTAAAAAGATGTTCAAAATTGAAAACTAACTCATTTCATTT-T
*
12474559 TGGAACGTT-TCGTACATTCA-TTTAAAACACGACAA
257 TGAAACGTTCT-GTAC-TTCAGTTTAAAACACGACAA
12474594 TAATTTACAG
Statistics
Matches: 253, Mismatches: 29, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
340 4 0.02
341 157 0.62
342 10 0.04
344 1 0.00
346 1 0.00
347 61 0.24
348 19 0.08
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (344 bp):
AGTTTATTTAAATTTTCAGTGAACATTAACAAATACATCAAAACTCAAAAAGATGTTCAAAATTC
AAAATCAACTCATTTATTTTTGAAACATCTGCTTTAATTTAAAATACGACAAAATATAATAAAAA
CGACATCTGTGTGCATTAAATAGTCATAAATAAAATGAAAAATTTATTTAAATTTCTAGTGAACA
TTTAACACATACATCAAACTTAAAAAGATGTTCAAAATTGAAAACTAACTCATTTCATTTTTGAA
ACGTTCTGTACTTCAGTTTAAAACACGACAAAATATAATAAAAACGATATCTGTGCGCATTAAAT
AGTCATAAATAAAATGAAG
Found at i:12475493 original size:2 final size:2
Alignment explanation
Indices: 12475488--12475519 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
12475478 AAAAAAGCAG
12475488 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
12475520 ATTTTTTTTT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:12492778 original size:30 final size:30
Alignment explanation
Indices: 12492744--12492808 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
12492734 ACTTATTTTA
*
12492744 TTGTTCATTTTGTTATTATTTT-GAAGACAT
1 TTGTTAATTTTGTTATTATTTTAG-AGACAT
*
12492774 TTGTTAATTTTGTTATTATTTTAGAGATAT
1 TTGTTAATTTTGTTATTATTTTAGAGACAT
12492804 TTGTT
1 TTGTT
12492809 TGTTAAGTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 31 0.97
31 1 0.03
ACGTcount: A:0.23, C:0.03, G:0.14, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAGAGACAT
Found at i:12492910 original size:18 final size:20
Alignment explanation
Indices: 12492889--12492929 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
12492879 GAAATATTTA
*
12492889 TTTTGATGT-TTTTA-ATAT
1 TTTTGATGTATTATATATAT
12492907 TTTTGATGTATTATATATAT
1 TTTTGATGTATTATATATAT
12492927 TTT
1 TTT
12492930 AAAATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 9 0.45
19 4 0.20
20 7 0.35
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.66
Consensus pattern (20 bp):
TTTTGATGTATTATATATAT
Found at i:12492979 original size:123 final size:123
Alignment explanation
Indices: 12492898--12493148 Score: 448
Period size: 123 Copynumber: 2.0 Consensus size: 123
12492888 ATTTTGATGT
12492898 TTTTAATATTTTTGATGTATTATATATATTTTAAAATAATATAAAAATTAATGTGGGCGGGCTGG
1 TTTTAATA-TTTTGATGTATTATATATATTTTAAAATAATATAAAAATTAATGTGGGCGGGCTGG
* *
12492963 GTCGGGCTCGAGTTTTAACATTTTTATCCGAGTCGAGCTTGGACAAAATTTTAAGCCCA
65 GTCGGGCTCGAGTTTTAACATTTTTATCCGAATCGAGCTTGGACAAAATTTTAAGACCA
*
12493022 TTTTAATATTTTGATGTATTATATATATTTTAAAATCATATAAAAATTAATGTGGGCGGGCTGGG
1 TTTTAATATTTTGATGTATTATATATATTTTAAAATAATATAAAAATTAATGTGGGCGGGCTGGG
* *
12493087 TCGGGCTCGAGTTTTAACATTTTTATCCGAGTCGAGCTTGGACAAAATTTTAAGCCCA
66 TCGGGCTCGAGTTTTAACATTTTTATCCGAATCGAGCTTGGACAAAATTTTAAGACCA
12493145 TTTT
1 TTTT
12493149 TCCAGTCAGG
Statistics
Matches: 126, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
123 118 0.94
124 8 0.06
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (123 bp):
TTTTAATATTTTGATGTATTATATATATTTTAAAATAATATAAAAATTAATGTGGGCGGGCTGGG
TCGGGCTCGAGTTTTAACATTTTTATCCGAATCGAGCTTGGACAAAATTTTAAGACCA
Found at i:12495311 original size:15 final size:14
Alignment explanation
Indices: 12495291--12495321 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
12495281 ATATAATTTT
12495291 AAAAAATTATATATA
1 AAAAAATTA-ATATA
12495306 AAAAAATTAATATA
1 AAAAAATTAATATA
12495320 AA
1 AA
12495322 TAAGCTAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAAAATTAATATA
Found at i:12514542 original size:16 final size:17
Alignment explanation
Indices: 12514518--12514550 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
12514508 TGCTTAGCTA
12514518 CATG-AAAAATTACATG
1 CATGAAAAAATTACATG
*
12514534 CATGGAAAAATTACATG
1 CATGAAAAAATTACATG
12514551 AATAAGGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (17 bp):
CATGAAAAAATTACATG
Found at i:12517895 original size:18 final size:18
Alignment explanation
Indices: 12517860--12517897 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
12517850 CAATTACAGT
*
12517860 AACTTAATGATCACGAAA
1 AACTTAATCATCACGAAA
12517878 AACTTGAATCATCA-GAAA
1 AACTT-AATCATCACGAAA
12517896 AA
1 AA
12517898 GTGACACCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.53, C:0.16, G:0.11, T:0.21
Consensus pattern (18 bp):
AACTTAATCATCACGAAA
Found at i:12518901 original size:21 final size:19
Alignment explanation
Indices: 12518875--12518928 Score: 54
Period size: 21 Copynumber: 2.7 Consensus size: 19
12518865 AAATATTTTT
12518875 AAAATTATAAATATGTACAAA
1 AAAATTATAAATAT-T-CAAA
* * *
12518896 AAAATTAAAAAAATTCATA
1 AAAATTATAAATATTCAAA
12518915 AAAATTATATAATA
1 AAAATTATA-AATA
12518929 AACAAAATAC
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 11 0.41
20 4 0.15
21 12 0.44
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.30
Consensus pattern (19 bp):
AAAATTATAAATATTCAAA
Found at i:12519037 original size:19 final size:18
Alignment explanation
Indices: 12519008--12519053 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
12518998 GATGGTCACC
*
12519008 TTAAAAAATTAT-TCATT
1 TTAAAAAATTATATAATT
12519025 TGTAAAAATATTATATAATT
1 T-TAAAAA-ATTATATAATT
12519045 TTAAAAAAT
1 TTAAAAAAT
12519054 ATCTTGTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 1 0.04
18 8 0.32
19 11 0.44
20 5 0.20
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (18 bp):
TTAAAAAATTATATAATT
Found at i:12520511 original size:33 final size:33
Alignment explanation
Indices: 12520473--12520539 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 33
12520463 AAATCTAACC
*
12520473 CTTAATATTTA-TCCTTTTTGTTACATTTAGGGG
1 CTTAATATTTACT-CTTTTTGTCACATTTAGGGG
12520506 CTTAATATTTACTCTTTTTGTCACATTTAGGGG
1 CTTAATATTTACTCTTTTTGTCACATTTAGGGG
12520539 C
1 C
12520540 GAAGGCAGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.21, C:0.15, G:0.15, T:0.49
Consensus pattern (33 bp):
CTTAATATTTACTCTTTTTGTCACATTTAGGGG
Found at i:12524399 original size:3 final size:3
Alignment explanation
Indices: 12524391--12524424 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
12524381 GCAGCGTCAT
*
12524391 CAG CAG CAG CAG CAG CAG CAG CAG CAA CAG CAG C
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG C
12524425 CCAAACCGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.35, C:0.35, G:0.29, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:12531921 original size:8 final size:8
Alignment explanation
Indices: 12531908--12531935 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
12531898 TTCATGTCGT
12531908 TAATTGCA
1 TAATTGCA
12531916 TAATTGCA
1 TAATTGCA
12531924 TAATTGCA
1 TAATTGCA
12531932 TAAT
1 TAAT
12531936 AAATATAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (8 bp):
TAATTGCA
Found at i:12541158 original size:55 final size:56
Alignment explanation
Indices: 12541068--12541173 Score: 135
Period size: 55 Copynumber: 1.9 Consensus size: 56
12541058 ACAAAATTAA
* * ** *
12541068 TAAAATAAAGTGTTTAAAAATGGGAAAATGGTTTTTCAGAG-GGAGTTTTTATTGG
1 TAAAATAAAATATTTAAAAATCCGAAAATGATTTTTCAGAGTGGAGTTTTTATTGG
*
12541123 TAAAATAAAATATTTAAAAA-CCGAATAATGATTTTTCATAGTGGAGTTTTT
1 TAAAATAAAATATTTAAAAATCCGAA-AATGATTTTTCAGAGTGGAGTTTTT
12541174 GACAAAACAA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
54 3 0.07
55 31 0.72
56 9 0.21
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (56 bp):
TAAAATAAAATATTTAAAAATCCGAAAATGATTTTTCAGAGTGGAGTTTTTATTGG
Found at i:12547068 original size:19 final size:19
Alignment explanation
Indices: 12547046--12547084 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
12547036 CTATTTTACA
*
12547046 TTAATAAAACTAACACAAC
1 TTAAAAAAACTAACACAAC
*
12547065 TTAAAAAAATTAACACAAC
1 TTAAAAAAACTAACACAAC
12547084 T
1 T
12547085 CTTTTTATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.59, C:0.18, G:0.00, T:0.23
Consensus pattern (19 bp):
TTAAAAAAACTAACACAAC
Found at i:12547686 original size:19 final size:17
Alignment explanation
Indices: 12547654--12547738 Score: 58
Period size: 17 Copynumber: 5.1 Consensus size: 17
12547644 CCAATATCTA
12547654 AATTAAAATATAAAATT
1 AATTAAAATATAAAATT
12547671 AATTAATAATTATAAAATCT
1 AATTAA-AA-TATAAAAT-T
*
12547691 AACTT--CATA-AAAA-T
1 AA-TTAAAATATAAAATT
*
12547705 AATT-AAA-ATGAAATT
1 AATTAAAATATAAAATT
12547720 ACATTAAAA-ATAAAATT
1 A-ATTAAAATATAAAATT
12547737 AA
1 AA
12547739 AAATATTACA
Statistics
Matches: 55, Mismatches: 4, Indels: 19
0.71 0.05 0.24
Matches are distributed among these distances:
13 3 0.05
14 7 0.13
15 2 0.04
16 8 0.15
17 19 0.35
18 3 0.05
19 8 0.15
20 3 0.05
21 2 0.04
ACGTcount: A:0.61, C:0.05, G:0.01, T:0.33
Consensus pattern (17 bp):
AATTAAAATATAAAATT
Found at i:12573839 original size:24 final size:24
Alignment explanation
Indices: 12573788--12573839 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
12573778 TTTTTTGGTT
* *
12573788 TTTTTTTTATAAAAATAACTCGTT
1 TTTTTTTTACAAAAATAACTCGTC
* *
12573812 TTTTTTTTACAAAAATGACTTGTC
1 TTTTTTTTACAAAAATAACTCGTC
12573836 TTTT
1 TTTT
12573840 CAATTAAGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.10, G:0.06, T:0.56
Consensus pattern (24 bp):
TTTTTTTTACAAAAATAACTCGTC
Found at i:12576835 original size:16 final size:16
Alignment explanation
Indices: 12576785--12576836 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 16
12576775 GGGTGAGAAG
12576785 TAAAAGTTTAGAGGGAAAA
1 TAAAAGTTT-GAGGG--AA
**
12576804 TAAAAAGTTTTTGGGAA
1 T-AAAAGTTTGAGGGAA
12576821 TAAAAGTTTGAGGGAA
1 TAAAAGTTTGAGGGAA
12576837 AGTAAATAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
16 13 0.46
17 3 0.11
19 4 0.14
20 8 0.29
ACGTcount: A:0.46, C:0.00, G:0.27, T:0.27
Consensus pattern (16 bp):
TAAAAGTTTGAGGGAA
Found at i:12592475 original size:102 final size:103
Alignment explanation
Indices: 12592345--12592560 Score: 425
Period size: 102 Copynumber: 2.1 Consensus size: 103
12592335 AAAAATTATG
12592345 TAAAAACAAAACAATATTTTAAGTTAAAATTGAGATTTTAAATATTAATTTCAAAATTTTTTTGC
1 TAAAAACAAAACAATATTTTAAGTTAAAATTGAGATTTTAAATATTAATTTCAAAATTTTTTTGC
12592410 GTACGCAATTTATAAATTTTATATAAAAAATATTTAAA
66 GTACGCAATTTATAAATTTTATATAAAAAATATTTAAA
12592448 TAAAAACAAAAC-ATATTTTAAGTTAAAATTGAGATTTTAAATATTAATTTCAAAATTTTTTTGC
1 TAAAAACAAAACAATATTTTAAGTTAAAATTGAGATTTTAAATATTAATTTCAAAATTTTTTTGC
12592512 GTACGCAATTTATAAATTTTATATAAAAAATATTTAAA
66 GTACGCAATTTATAAATTTTATATAAAAAATATTTAAA
12592550 TAAAAACAAAA
1 TAAAAACAAAA
12592561 TAACCATTAT
Statistics
Matches: 113, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
102 101 0.89
103 12 0.11
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.39
Consensus pattern (103 bp):
TAAAAACAAAACAATATTTTAAGTTAAAATTGAGATTTTAAATATTAATTTCAAAATTTTTTTGC
GTACGCAATTTATAAATTTTATATAAAAAATATTTAAA
Found at i:12605577 original size:1 final size:1
Alignment explanation
Indices: 12605571--12605595 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
12605561 AGTCAGAAGT
12605571 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
12605596 CAAAGGCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:12606277 original size:739 final size:739
Alignment explanation
Indices: 12604861--12606339 Score: 2940
Period size: 739 Copynumber: 2.0 Consensus size: 739
12604851 CTGCTCTCGT
12604861 GGCAATGAAAATCATGCCACCTTCTTTGCAACTTGCTGCACCCCTCCAACCCTAAAAGATCCTGT
1 GGCAATGAAAATCATGCCACCTTCTTTGCAACTTGCTGCACCCCTCCAACCCTAAAAGATCCTGT
12604926 ATTTATTTTCCTTACATTACATTATAAAATTTATATAAAGGAGCTTTGTTTTTATTAAGACTTAT
66 ATTTATTTTCCTTACATTACATTATAAAATTTATATAAAGGAGCTTTGTTTTTATTAAGACTTAT
12604991 GGTTCGTACAAAATTACCTTCATATTATTTTTAGAATTTTTGTTCACACGGATGGAAGGTGTATG
131 GGTTCGTACAAAATTACCTTCATATTATTTTTAGAATTTTTGTTCACACGGATGGAAGGTGTATG
12605056 ACCAAATTTTATTATAAAATTCTAATCATTTACCAAGTCAACATTCTAGAAATTCAACAATAATT
196 ACCAAATTTTATTATAAAATTCTAATCATTTACCAAGTCAACATTCTAGAAATTCAACAATAATT
12605121 TCGATTAAGAAATCTTCCTATTTAATTCACTAATATTAATTTTATATTATAAAATTATATATTTG
261 TCGATTAAGAAATCTTCCTATTTAATTCACTAATATTAATTTTATATTATAAAATTATATATTTG
12605186 ACATTTATGATATATATAAAAATAAAATACAATATTATAACATTAAAAACAGATCAAGCCGAGTT
326 ACATTTATGATATATATAAAAATAAAATACAATATTATAACATTAAAAACAGATCAAGCCGAGTT
12605251 CGGTTAAGACCTTCAACGTTGAAGTACAAGCTTGACTTATATTTTAAATGAGCCTGGCTTAAGTT
391 CGGTTAAGACCTTCAACGTTGAAGTACAAGCTTGACTTATATTTTAAATGAGCCTGGCTTAAGTT
12605316 CAATTTTCAAATCCTTTCAATTGTTGAGAGAGATTTGAACTTGAATGAATAGTTCAACTCTTGAA
456 CAATTTTCAAATCCTTTCAATTGTTGAGAGAGATTTGAACTTGAATGAATAGTTCAACTCTTGAA
12605381 TAAGTATAGTCATTCGTATAAATGATGCTATGCTTTTTTTTTTAATTTTTATTAAACGATAAAAG
521 TAAGTATAGTCATTCGTATAAATGATGCTATGCTTTTTTTTTTAATTTTTATTAAACGATAAAAG
12605446 GTGTTGTAATTTATAATAAAACAAAAATTAAAATTTAAAAAATTATGAAATATAATATACATTGA
586 GTGTTGTAATTTATAATAAAACAAAAATTAAAATTTAAAAAATTATGAAATATAATATACATTGA
12605511 ATGCCTTAGGAGAGAACAACAAATTTCAAATCAGATATCTAAACAAATAGAGTCAGAAGTAAAAA
651 ATGCCTTAGGAGAGAACAACAAATTTCAAATCAGATATCTAAACAAATAGAGTCAGAAGTAAAAA
12605576 AAAAAAAAAAAAAAAAAAAACAAA
716 AAAAAAAAAAAAAAAAAAAACAAA
12605600 GGCAATGAAAATCATGCCACCTTCTTTGCAACTTGCTGCACCCCTCCAACCCTAAAAGATCCTGT
1 GGCAATGAAAATCATGCCACCTTCTTTGCAACTTGCTGCACCCCTCCAACCCTAAAAGATCCTGT
12605665 ATTTATTTTCCTTACATTACATTATAAAATTTATATAAAGGAGCTTTGTTTTTATTAAGACTTAT
66 ATTTATTTTCCTTACATTACATTATAAAATTTATATAAAGGAGCTTTGTTTTTATTAAGACTTAT
12605730 GGTTCGTACAAAATTACCTTCATATTATTTTTAGAATTTTTGTTCACACGGATGGAAGGTGTATG
131 GGTTCGTACAAAATTACCTTCATATTATTTTTAGAATTTTTGTTCACACGGATGGAAGGTGTATG
12605795 ACCAAATTTTATTATAAAATTCTAATCATTTACCAAGTCAACATTCTAGAAATTCAACAATAATT
196 ACCAAATTTTATTATAAAATTCTAATCATTTACCAAGTCAACATTCTAGAAATTCAACAATAATT
12605860 TCGATTAAGAAATCTTCCTATTTAATTCACTAATATTAATTTTATATTATAAAATTATATATTTG
261 TCGATTAAGAAATCTTCCTATTTAATTCACTAATATTAATTTTATATTATAAAATTATATATTTG
12605925 ACATTTATGATATATATAAAAATAAAATACAATATTATAACATTAAAAACAGATCAAGCCGAGTT
326 ACATTTATGATATATATAAAAATAAAATACAATATTATAACATTAAAAACAGATCAAGCCGAGTT
12605990 CGGTTAAGACCTTCAACGTTGAAGTACAAGCTTGACTTATATTTTAAATGAGCCTGGCTTAAGTT
391 CGGTTAAGACCTTCAACGTTGAAGTACAAGCTTGACTTATATTTTAAATGAGCCTGGCTTAAGTT
12606055 CAATTTTCAAATCCTTTCAATTGTTGAGAGAGATTTGAACTTGAATGAATAGTTCAACTCTTGAA
456 CAATTTTCAAATCCTTTCAATTGTTGAGAGAGATTTGAACTTGAATGAATAGTTCAACTCTTGAA
12606120 TAAGTATAGTCATTCGTATAAATGATGCTATGCTTTTTTTTTTAATTTTTATTAAACGATAAAAG
521 TAAGTATAGTCATTCGTATAAATGATGCTATGCTTTTTTTTTTAATTTTTATTAAACGATAAAAG
12606185 GTGTTGTAATTTATAATAAAACAAAAATTAAAATTTAAAAAATTATGAAATATAATATACATTGA
586 GTGTTGTAATTTATAATAAAACAAAAATTAAAATTTAAAAAATTATGAAATATAATATACATTGA
12606250 ATGCCTTAGGAGAGAACAACAAATTTCAAATCAGATATCTAAACAAATAGAGTCAGAAGTAAAAA
651 ATGCCTTAGGAGAGAACAACAAATTTCAAATCAGATATCTAAACAAATAGAGTCAGAAGTAAAAA
* *
12606315 AAAAAAAAAAAGAAAAGAAACAAA
716 AAAAAAAAAAAAAAAAAAAACAAA
12606339 G
1 G
12606340 AAAGATATTA
Statistics
Matches: 738, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
739 738 1.00
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.35
Consensus pattern (739 bp):
GGCAATGAAAATCATGCCACCTTCTTTGCAACTTGCTGCACCCCTCCAACCCTAAAAGATCCTGT
ATTTATTTTCCTTACATTACATTATAAAATTTATATAAAGGAGCTTTGTTTTTATTAAGACTTAT
GGTTCGTACAAAATTACCTTCATATTATTTTTAGAATTTTTGTTCACACGGATGGAAGGTGTATG
ACCAAATTTTATTATAAAATTCTAATCATTTACCAAGTCAACATTCTAGAAATTCAACAATAATT
TCGATTAAGAAATCTTCCTATTTAATTCACTAATATTAATTTTATATTATAAAATTATATATTTG
ACATTTATGATATATATAAAAATAAAATACAATATTATAACATTAAAAACAGATCAAGCCGAGTT
CGGTTAAGACCTTCAACGTTGAAGTACAAGCTTGACTTATATTTTAAATGAGCCTGGCTTAAGTT
CAATTTTCAAATCCTTTCAATTGTTGAGAGAGATTTGAACTTGAATGAATAGTTCAACTCTTGAA
TAAGTATAGTCATTCGTATAAATGATGCTATGCTTTTTTTTTTAATTTTTATTAAACGATAAAAG
GTGTTGTAATTTATAATAAAACAAAAATTAAAATTTAAAAAATTATGAAATATAATATACATTGA
ATGCCTTAGGAGAGAACAACAAATTTCAAATCAGATATCTAAACAAATAGAGTCAGAAGTAAAAA
AAAAAAAAAAAAAAAAAAAACAAA
Found at i:12614141 original size:14 final size:15
Alignment explanation
Indices: 12614114--12614155 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 15
12614104 AACTAAGAGA
*
12614114 TTTTATAATATTTAT
1 TTTTAAAATATTTAT
12614129 TTTTAAAAT-TTTA-
1 TTTTAAAATATTTAT
*
12614142 TTTTAAATTATTTA
1 TTTTAAAATATTTA
12614156 AACAGCTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 8 0.33
15 8 0.33
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTTAAAATATTTAT
Found at i:12614145 original size:13 final size:14
Alignment explanation
Indices: 12614113--12614155 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
12614103 AAACTAAGAG
*
12614113 ATTTTATAATATTT
1 ATTTTAAAATATTT
12614127 ATTTTTAAAAT-TTT
1 A-TTTTAAAATATTT
*
12614141 ATTTTAAATTATTT
1 ATTTTAAAATATTT
12614155 A
1 A
12614156 AACAGCTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 8 0.32
14 9 0.36
15 8 0.32
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
ATTTTAAAATATTT
Found at i:12619036 original size:90 final size:91
Alignment explanation
Indices: 12618924--12619104 Score: 355
Period size: 90 Copynumber: 2.0 Consensus size: 91
12618914 GACCATCTAT
12618924 AATTATTTTATTTCATAAAAGTAAATATTAATTTTTAAAAATATATTTTATATTAATTTGGATAG
1 AATTATTTTATTTCATAAAAGTAAATATTAATTTTTAAAAATATATTTTATATTAATTTGGATAG
12618989 TTTTGGATGAAAGATAAACATGATAA
66 TTTTGGATGAAAGATAAACATGATAA
12619015 AATTATTTTA-TTCATAAAAGTAAATATTAATTTTTAAAAATATATTTTATATTAATTTGGATAG
1 AATTATTTTATTTCATAAAAGTAAATATTAATTTTTAAAAATATATTTTATATTAATTTGGATAG
12619079 TTTTGGATGAAAGATAAACATGATAA
66 TTTTGGATGAAAGATAAACATGATAA
12619105 TTTGTATATC
Statistics
Matches: 90, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
90 80 0.89
91 10 0.11
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (91 bp):
AATTATTTTATTTCATAAAAGTAAATATTAATTTTTAAAAATATATTTTATATTAATTTGGATAG
TTTTGGATGAAAGATAAACATGATAA
Found at i:12619747 original size:21 final size:21
Alignment explanation
Indices: 12619708--12619746 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
12619698 ATTCTATTCT
*
12619708 TTTTATTTTCTTTAATTTTCC
1 TTTTATTTTCTCTAATTTTCC
12619729 TTTTA-TTTCTCTAATTTT
1 TTTTATTTTCTCTAATTTT
12619747 TTTGTTCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTATTTTCTCTAATTTTCC
Found at i:12629869 original size:43 final size:43
Alignment explanation
Indices: 12629817--12629931 Score: 160
Period size: 43 Copynumber: 2.7 Consensus size: 43
12629807 TGTGTTTTTT
*
12629817 GTGTAAGACCACGTCTGGGACATTGGCATCGACT-TGTGTTTAC
1 GTGTAAGACCACGTCTGGGACATTGGCATCGA-TATGTGATTAC
** *
12629860 GTGTAAGACCTTGTCTGGGACAGTGGCATCGATATGTGATTAC
1 GTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTAC
* *
12629903 ATGTAAGACCACGTCTGGGACGTTGGCAT
1 GTGTAAGACCACGTCTGGGACATTGGCAT
12629932 TGTACGAGTT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 1 0.02
43 61 0.98
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGACATTGGCATCGATATGTGATTAC
Found at i:12632435 original size:7 final size:7
Alignment explanation
Indices: 12632423--12632450 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
12632413 GATTTGAAAG
12632423 AGAAACA
1 AGAAACA
12632430 AGAAACA
1 AGAAACA
12632437 AGAAACA
1 AGAAACA
12632444 AGAAACA
1 AGAAACA
12632451 GAGAGAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.14, G:0.14, T:0.00
Consensus pattern (7 bp):
AGAAACA
Found at i:12635175 original size:20 final size:20
Alignment explanation
Indices: 12635150--12635188 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
12635140 ATTCTTGGTG
12635150 TTGCTGAAGTTCCTGATTTT
1 TTGCTGAAGTTCCTGATTTT
12635170 TTGCTGAAGTTCCTGATTT
1 TTGCTGAAGTTCCTGATTT
12635189 CTTTTACTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.15, G:0.21, T:0.49
Consensus pattern (20 bp):
TTGCTGAAGTTCCTGATTTT
Found at i:12635838 original size:16 final size:15
Alignment explanation
Indices: 12635829--12635861 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
12635819 AAAGATAGCT
12635829 AAAGAAAAAGAAGAG
1 AAAGAAAAAGAAGAG
12635844 AAAGAAAAA-AA-AG
1 AAAGAAAAAGAAGAG
12635857 AAAGA
1 AAAGA
12635862 GAAACCCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 2 0.11
15 9 0.50
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAGAAGAG
Found at i:12642536 original size:982 final size:981
Alignment explanation
Indices: 12640634--12642596 Score: 3748
Period size: 982 Copynumber: 2.0 Consensus size: 981
12640624 AACAAATCCC
*
12640634 TGAACCCCATTCCCCCTAACCATTTTGGTCTACATAGAGTTTCCCAAGTACTCCAATGGATCCCC
1 TGAACCCCATTCCCCCTAACCATTTTGGTCTACATAGAGTTTCCCAAGTACCCCAATGGATCCCC
*
12640699 TTTGACGTTTTATTATTAGTCCACCAAAGTTTATTCATAACTCCCTCAAGTTTTTGACAGACAGC
66 TTTGACGTTTTATTATTAGTCCACCAAAATTTATTCATAACTCCCTCAAGTTTTTGACAGACAGC
*
12640764 CTTTGGTAAAAGGAAACATTGCATCACATAAGTTGTCAAAGCCTGCACAACGACTTTATGAAAAC
131 CTTTGGTAAAAGGAAACATTGCATCACATAAGTTGTCAAAGCCTGCACAACAACTTTATGAAAAC
* *
12640829 CTCCTTTCCCCCCATAGATAGATAACGCACACTCCAATCGTCAACCCGTTTCCGGAATCTGTCCA
196 CTCCTTTCCCCCCACAGATAGATAACGCACACTCCAACCGTCAACCCGTTTCCGGAATCTGTCCA
*
12640894 CATAATTTGCAAAAGCCCATTTTTTCTTCCTCCCTACCATCATTGGCAAACCTAAATACTTCTCT
261 CATAATTTGCAAAAGCCCATTTTTTCTTCCTCCCTACCATCATCGGCAAACCTAAATACTTCTCT
12640959 GGGTTTGAAGCCACTCGAACATCAAGCTGATTTACAATAGCCGCCTTTGTCTCATCGTTCACATT
326 GGGTTTGAAGCCACTCGAACATCAAGCTGATTTACAATAGCCGCCTTTGTCTCATCGTTCACATT
12641024 AGCCCCAAAATAGATGAGCGACTTATCAAAATTCACCCGTTGACCTGACGCCTTTTCATATTCAC
391 AGCCCCAAAATAGATGAGCGACTTATCAAAATTCACCCGTTGACCTGACGCCTTTTCATATTCAC
* *
12641089 AAATAACCTCCCGGACAATTCTTGCTCCCTTGGGAGATGCATCTCTAAATAAGAGACAGTCATCC
456 AAATAACCTCCCGGACAATTCTTGCTCCCTCGGGAGATGCATCTCCAAATAAGAGACAGTCATCC
12641154 GCAAAAAACAGGTGGTTCACTGCAAATCTTTCCCTTCCAATTGTTGCTCCCACCATCCTCCCTTT
521 GCAAAAAACAGGTGGTTCACTGCAAATCTTTCCCTTCCAATTGTTGCTCCCACCATCCTCCCTTT
*
12641219 ATTACTTGTATCATTTATAAGGGCTGAAAACCCCTCTGCACATATCAGGAACAAATAAGGACTAA
586 ATTACTTGCATCATTTATAAGGGCTGAAAACCCCTCTGCACATATCAGGAACAAATAAGGACTAA
12641284 GCGGATCTCCTTGCCTTAAGCCTCTAGAAGGGGAAAACCAATCGCCATGGTAGCCATTAATACTA
651 GCGGATCTCCTTGCCTTAAGCCTCTAGAAGGGGAAAACCAATCGCCATGGTAGCCATTAATACTA
* *
12641349 ACCGAGTATGTTACAGAACACACGCAACGCATAATTAAAACAATCCAATCATTGTGAAACCCCAA
716 ACCGAGTATGTCACAGAACACACGCAACGCATAATTAAAACAATCCAATCATTGTAAAACCCCAA
*
12641414 ATGCTTCATCATACCTGCCAAGAAATCCCATTCAACACGATCATATGCCTTACTCATGTCCAGTT
781 ATGCTTCATCATACCTGCCAAAAAATCCCATTCAACACGATCATATGCCTTACTCATGTCCAGTT
*
12641479 TGAACGCAAAATGACCTTTTTTACCGCGTTTCTTCATCTTTAATGAATGCAGAACTTCATAGGCA
846 TGAACGCAAAATGACATTTTTTACCGCGTTTCTTCATCTTTAATGAATGCAGAACTTCATAGGCA
12641544 ATTAAAACGTTATCAGAAATTAGGCGACCCGGAATAAAAGCCCCCTGGGCCTCATTTATACATTG
911 ATTAAAACGTTATCAGAAATTAGGCGACCCGGAATAAAAGCCCCCTGGGCCTCATTTATACATTG
12641609 TCCCAA
976 TCCCAA
12641615 TGAACCCCATTCCCCCTAACCATTTTGGTCTACATAGAGTTTCCCAAGTACCCCAATGGATCCCC
1 TGAACCCCATTCCCCCTAACCATTTTGGTCTACATAGAGTTTCCCAAGTACCCCAATGGATCCCC
12641680 TTTGACGTTTTATTATTAGTCCACCAAAATTTATTCATAACTCCCTCAAGTTTTTGACAGACAGC
66 TTTGACGTTTTATTATTAGTCCACCAAAATTTATTCATAACTCCCTCAAGTTTTTGACAGACAGC
*
12641745 CTTTGGTAAAAGGAAACATTGCATCACATAAGTTGTCAAAGCCTGCAGAACCAACTTTATGAAAA
131 CTTTGGTAAAAGGAAACATTGCATCACATAAGTTGTCAAAGCCTGCACAA-CAACTTTATGAAAA
12641810 CCTCCTTTCCCCCCACAGATAGATAACGCACACTCCAACCGTCAACCCGTTTCCGGAATCTGTCC
195 CCTCCTTTCCCCCCACAGATAGATAACGCACACTCCAACCGTCAACCCGTTTCCGGAATCTGTCC
12641875 ACATAATTTGCAAAAGCCCATTTTTTCTTCCTCCCTACCATCATCGGCAAACCTAAATACTTCTC
260 ACATAATTTGCAAAAGCCCATTTTTTCTTCCTCCCTACCATCATCGGCAAACCTAAATACTTCTC
12641940 TGGGTTTGAAGCCACTCGAACATCAAGCTGATTTACAATAGCCGCCTTTGTCTCATCGTTCACAT
325 TGGGTTTGAAGCCACTCGAACATCAAGCTGATTTACAATAGCCGCCTTTGTCTCATCGTTCACAT
12642005 TAGCCCCAAAATAGATGAGCGACTTATCAAAATTCACCCGTTGACCTGACGCCTTTTCATATTCA
390 TAGCCCCAAAATAGATGAGCGACTTATCAAAATTCACCCGTTGACCTGACGCCTTTTCATATTCA
12642070 CAAATAACCTCCCGGACAATTCTTGCTCCCTCGGGAGATGCATCTCCAAATAAGAGACAGTCATC
455 CAAATAACCTCCCGGACAATTCTTGCTCCCTCGGGAGATGCATCTCCAAATAAGAGACAGTCATC
*
12642135 CGCAAAAAACAGGTGGTTCACTGTAAATCTTTCCCTTCCAATTGTTGCTCCCACCATCCTCCCTT
520 CGCAAAAAACAGGTGGTTCACTGCAAATCTTTCCCTTCCAATTGTTGCTCCCACCATCCTCCCTT
12642200 TATTACTTGCATCATTTATAAGGGCTGAAAACCCCTCTGCACATATCAGGAACAAATAAGGACTA
585 TATTACTTGCATCATTTATAAGGGCTGAAAACCCCTCTGCACATATCAGGAACAAATAAGGACTA
12642265 AGCGGATCTCCTTGCCTTAAGCCTCTAGAAGGGGAAAACCAATCGCCATGGTAGCCATTAATACT
650 AGCGGATCTCCTTGCCTTAAGCCTCTAGAAGGGGAAAACCAATCGCCATGGTAGCCATTAATACT
12642330 AACCGAGTATGTCACAGAACACACGCAACGCATAATTAAAACAATCCAATCATTGTAAAACCCCA
715 AACCGAGTATGTCACAGAACACACGCAACGCATAATTAAAACAATCCAATCATTGTAAAACCCCA
12642395 AATG-TGTCATCATACCTGCCAAAAAATCCCATTCAACACGATCATATGCCTTACTCATGTCCAG
780 AATGCT-TCATCATACCTGCCAAAAAATCCCATTCAACACGATCATATGCCTTACTCATGTCCAG
* *
12642459 TTTGAGCGCAAAATGACATTTTTTACCGCGTTTCTTCATCTTTAATGAGTGCAGAACTTCATAGG
844 TTTGAACGCAAAATGACATTTTTTACCGCGTTTCTTCATCTTTAATGAATGCAGAACTTCATAGG
12642524 CAATTAAAACGTTATCAGAAATTAGGCGACCCGGAATAAAAGCCCCCTGGGCCTCATTTATACAT
909 CAATTAAAACGTTATCAGAAATTAGGCGACCCGGAATAAAAGCCCCCTGGGCCTCATTTATACAT
12642589 TGTCCCAA
974 TGTCCCAA
12642597 CTTACTGCTC
Statistics
Matches: 963, Mismatches: 17, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
981 178 0.18
982 785 0.82
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (981 bp):
TGAACCCCATTCCCCCTAACCATTTTGGTCTACATAGAGTTTCCCAAGTACCCCAATGGATCCCC
TTTGACGTTTTATTATTAGTCCACCAAAATTTATTCATAACTCCCTCAAGTTTTTGACAGACAGC
CTTTGGTAAAAGGAAACATTGCATCACATAAGTTGTCAAAGCCTGCACAACAACTTTATGAAAAC
CTCCTTTCCCCCCACAGATAGATAACGCACACTCCAACCGTCAACCCGTTTCCGGAATCTGTCCA
CATAATTTGCAAAAGCCCATTTTTTCTTCCTCCCTACCATCATCGGCAAACCTAAATACTTCTCT
GGGTTTGAAGCCACTCGAACATCAAGCTGATTTACAATAGCCGCCTTTGTCTCATCGTTCACATT
AGCCCCAAAATAGATGAGCGACTTATCAAAATTCACCCGTTGACCTGACGCCTTTTCATATTCAC
AAATAACCTCCCGGACAATTCTTGCTCCCTCGGGAGATGCATCTCCAAATAAGAGACAGTCATCC
GCAAAAAACAGGTGGTTCACTGCAAATCTTTCCCTTCCAATTGTTGCTCCCACCATCCTCCCTTT
ATTACTTGCATCATTTATAAGGGCTGAAAACCCCTCTGCACATATCAGGAACAAATAAGGACTAA
GCGGATCTCCTTGCCTTAAGCCTCTAGAAGGGGAAAACCAATCGCCATGGTAGCCATTAATACTA
ACCGAGTATGTCACAGAACACACGCAACGCATAATTAAAACAATCCAATCATTGTAAAACCCCAA
ATGCTTCATCATACCTGCCAAAAAATCCCATTCAACACGATCATATGCCTTACTCATGTCCAGTT
TGAACGCAAAATGACATTTTTTACCGCGTTTCTTCATCTTTAATGAATGCAGAACTTCATAGGCA
ATTAAAACGTTATCAGAAATTAGGCGACCCGGAATAAAAGCCCCCTGGGCCTCATTTATACATTG
TCCCAA
Found at i:12646894 original size:14 final size:15
Alignment explanation
Indices: 12646866--12646894 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12646856 CTAGCATACA
12646866 CAATCAAAGACTTTC
1 CAATCAAAGACTTTC
12646881 CAATCAAA-ACTTTC
1 CAATCAAAGACTTTC
12646895 TTTTTCCGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.41, C:0.28, G:0.03, T:0.28
Consensus pattern (15 bp):
CAATCAAAGACTTTC
Found at i:12656909 original size:114 final size:114
Alignment explanation
Indices: 12656789--12657326 Score: 789
Period size: 114 Copynumber: 4.8 Consensus size: 114
12656779 GTTTACTTGT
*
12656789 AAGCGCCGCAAAATATCGTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* * *
12656854 GCTTATGAAAAAACGCCGCTAAAGCACATAATTAGCGACGCCTT-TATAA
66 GCTTATGAAAAAACGCCGCTAAAGCACATCATTAGCGGCGCATTATA-AA
**
12656903 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCACTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* * ***
12656968 ACTTATGAAAAAACACCGCTAAAGCACGGAATTAGCGGCGCATTATAAA
66 GCTTATGAAAAAACGCCGCTAAAGCACATCATTAGCGGCGCATTATAAA
12657017 AAGCG-C-C-----A-C---A--AAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* *
12657069 GCTTATGAAAAAACGCCGCTAAAGCACAGCATTAGCAGCGCATTATAAA
66 GCTTATGAAAAAACGCCGCTAAAGCACATCATTAGCGGCGCATTATAAA
12657118 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTTAGAATTAGTGG
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATA-TTAGAATTAGTGG
*
12657183 CGCTTATGAGAAAACGCCGCTAAAGCACATCATTAGCGGCGCATTATAAA
65 CGCTTATGAAAAAACGCCGCTAAAGCACATCATTAGCGGCGCATTATAAA
* * * *
12657233 AAGCACCGCAAAATATCTTAACCAAAATGCAGCATTTGGTCTTGATGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
*
12657298 GCTTATGAGAAAACGCCGCTAAAGCACAT
66 GCTTATGAAAAAACGCCGCTAAAGCACAT
12657327 TTTATAATGC
Statistics
Matches: 386, Mismatches: 23, Indels: 30
0.88 0.05 0.07
Matches are distributed among these distances:
101 89 0.23
102 1 0.00
103 2 0.01
106 1 0.00
107 1 0.00
108 1 0.00
109 1 0.00
112 2 0.01
113 1 0.00
114 178 0.46
115 109 0.28
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (114 bp):
AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
GCTTATGAAAAAACGCCGCTAAAGCACATCATTAGCGGCGCATTATAAA
Found at i:12657103 original size:101 final size:101
Alignment explanation
Indices: 12656926--12657459 Score: 500
Period size: 101 Copynumber: 5.0 Consensus size: 101
12656916 TATCTTAACC
** * * *
12656926 AAAACGCAGCACTTGGTCTTGAGGTATATTAGAATTAGTGGCACTTATGAAAAAACACCGCTAAA
1 AAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAGAAAACGCCGCTAAA
***
12656991 GCACGGAATTAGCGGCGCATTATAAAAAGCGCCACA
66 GCACATCATTAGCGGCGCATTATAAAAAGCGCCACA
*
12657027 AAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAACGCCGCTAAA
1 AAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAGAAAACGCCGCTAAA
* *
12657092 GCACAGCATTAGCAGCGCATTATAAAAAGCGCCGCAAAATATCTTAA
66 GCACATCATTAGCGGCGCATTATAAAAAGCG-C-C-----A-C---A
12657139 CCAAAACGCAGCGTTTGGTCTTGAGGTATATTTAGAATTAGTGGCGCTTATGAGAAAACGCCGCT
1 --AAAACGCAGCGTTTGGTCTTGAGGTATA-TTAGAATTAGTGGCGCTTATGAGAAAACGCCGCT
*
12657204 AAAGCACATCATTAGCGGCGCATTATAAAAAGCACCGCAAAATATCTTAACC
63 AAAGCACATCATTAGCGGCGCATTATAAAAAG---CGC-------C---ACA
* * *
12657256 AAAATGCAGCATTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTATGAGAAAACGCCGCTAAA
1 AAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAGAAAACGCCGCTAAA
* * * * * *** *
12657321 GCACATTTTATAATGCGCCGC---A-AAATATCTTAACC
66 GCACA--TCATTA-GCGGCGCATTATAAAAAGCGCCACA
* * * * *
12657356 AAAATGCAACGTTAGGTCTTGATGTATATTAAAATTAGTGGCGCTTATGAGAAAACGCCGCTAAA
1 AAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAGAAAACGCCGCTAAA
*
12657421 GCACATCATTAGCGGCGCATTATAAAAAGCGCCGCA
66 GCACATCATTAGCGGCGCATTATAAAAAGCGCCACA
12657457 AAA
1 AAA
12657460 TATCTTAACC
Statistics
Matches: 363, Mismatches: 40, Indels: 60
0.78 0.09 0.13
Matches are distributed among these distances:
97 6 0.02
98 4 0.01
100 70 0.19
101 98 0.27
102 1 0.00
103 1 0.00
108 1 0.00
109 1 0.00
110 1 0.00
112 1 0.00
113 4 0.01
114 71 0.20
115 88 0.24
116 4 0.01
117 7 0.02
118 2 0.01
120 1 0.00
121 1 0.00
123 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (101 bp):
AAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAGAAAACGCCGCTAAA
GCACATCATTAGCGGCGCATTATAAAAAGCGCCACA
Found at i:12657227 original size:115 final size:114
Alignment explanation
Indices: 12657027--12657497 Score: 682
Period size: 114 Copynumber: 4.2 Consensus size: 114
12657017 AAGCGCCACA
*
12657027 AAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAAAAAACGCCGCTAAA
1 AAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAGAAAACGCCGCTAAA
* *
12657092 GCACAGCATTAGCAGCGCATTATAAAAAGCGCCGCAAAATATCTTAACC
66 GCACATCATTAGCAGCGCATTATAAAAAGCACCGCAAAATATCTTAACC
12657141 AAAACGCAGCGTTTGGTCTTGAGGTATATTTAGAATTAGTGGCGCTTATGAGAAAACGCCGCTAA
1 AAAACGCAGCGTTTGGTCTTGAGGTATA-TTAGAATTAGTGGCGCTTATGAGAAAACGCCGCTAA
*
12657206 AGCACATCATTAGCGGCGCATTATAAAAAGCACCGCAAAATATCTTAACC
65 AGCACATCATTAGCAGCGCATTATAAAAAGCACCGCAAAATATCTTAACC
* * *
12657256 AAAATGCAGCATTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTATGAGAAAACGCCGCTAAA
1 AAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAGAAAACGCCGCTAAA
* *
12657321 G--CA-CATT---------TTAT--AATGCGCCGCAAAATATCTTAACC
66 GCACATCATTAGCAGCGCATTATAAAAAGCACCGCAAAATATCTTAACC
* * * * *
12657356 AAAATGCAACGTTAGGTCTTGATGTATATTAAAATTAGTGGCGCTTATGAGAAAACGCCGCTAAA
1 AAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAGAAAACGCCGCTAAA
* *
12657421 GCACATCATTAGCGGCGCATTATAAAAAGCGCCGCAAAATATCTTAACC
66 GCACATCATTAGCAGCGCATTATAAAAAGCACCGCAAAATATCTTAACC
*
12657470 AAAATGCAGCGTTTGGTCTTGAGGTATA
1 AAAACGCAGCGTTTGGTCTTGAGGTATA
12657498 GAGCCAATAG
Statistics
Matches: 325, Mismatches: 17, Indels: 30
0.87 0.05 0.08
Matches are distributed among these distances:
100 84 0.26
102 6 0.02
103 4 0.01
111 4 0.01
112 6 0.02
114 114 0.35
115 107 0.33
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (114 bp):
AAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGAGAAAACGCCGCTAAA
GCACATCATTAGCAGCGCATTATAAAAAGCACCGCAAAATATCTTAACC
Found at i:12657411 original size:100 final size:100
Alignment explanation
Indices: 12657238--12657426 Score: 342
Period size: 100 Copynumber: 1.9 Consensus size: 100
12657228 ATAAAAAGCA
* * *
12657238 CCGCAAAATATCTTAACCAAAATGCAGCATTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTA
1 CCGCAAAATATCTTAACCAAAATGCAACATTAGGTCTTGATGTATATTAAAATTAGTGGCGCTTA
12657303 TGAGAAAACGCCGCTAAAGCACATTTTATAATGCG
66 TGAGAAAACGCCGCTAAAGCACATTTTATAATGCG
*
12657338 CCGCAAAATATCTTAACCAAAATGCAACGTTAGGTCTTGATGTATATTAAAATTAGTGGCGCTTA
1 CCGCAAAATATCTTAACCAAAATGCAACATTAGGTCTTGATGTATATTAAAATTAGTGGCGCTTA
12657403 TGAGAAAACGCCGCTAAAGCACAT
66 TGAGAAAACGCCGCTAAAGCACAT
12657427 CATTAGCGGC
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 85 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (100 bp):
CCGCAAAATATCTTAACCAAAATGCAACATTAGGTCTTGATGTATATTAAAATTAGTGGCGCTTA
TGAGAAAACGCCGCTAAAGCACATTTTATAATGCG
Found at i:12657420 original size:329 final size:327
Alignment explanation
Indices: 12656789--12657497 Score: 1046
Period size: 329 Copynumber: 2.2 Consensus size: 327
12656779 GTTTACTTGT
*
12656789 AAGCGCCGCAAAATATCGTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
* *
12656854 GCTTATGAAAAAACGCCGCTAAAGCACATAATTAGCGACGCCTTTATAAAAGCGCCGCAAAATAT
66 GCTTATGAAAAAACGCCGCTAAAGCACATAATTAGCGACGCATTTATAAAAGCACCGCAAAATAT
12656919 CTTAACCAAAACGCAGCACTTGGTCTTGAGGTATATTAGAATTAGTGGCACTTATGAAAAAACAC
131 CTTAACCAAAACGCAGCACTTGGTCTTGAGGTATATTAGAATTAGTGGCACTTATGAAAAAACAC
* * * * *
12656984 CGCTAAAGCACGGAATTAGCGGCGCATTATAAAAAGCGCCACAAAAACGCAGCGTTTGGTCTTGA
196 CGCTAAAGCACGGAATAAGCGCCGC--TATAAAAAGCGCAACAAAAACGCAACGTTAGGTCTTGA
*
12657049 GGTATATTAGAATTAGTGGCGCTTATGAAAAAACGCCGCTAAAGCACAGCATTAGCAGCGCATTA
259 GGTATATTAAAATTAGTGGCGCTTATGAAAAAACGCCGCTAAAGCACAGCATTAGCAGCGCATTA
12657114 TAAA
324 TAAA
12657118 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTTAGAATTAGTGG
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATA-TTAGAATTAGTGG
* * *
12657183 CGCTTATGAGAAAACGCCGCTAAAGCACATCATTAGCGGCGCA-TTATAAAAAGCACCGCAAAAT
65 CGCTTATGAAAAAACGCCGCTAAAGCACATAATTAGCGACGCATTTAT-AAAAGCACCGCAAAAT
* * * * *
12657247 ATCTTAACCAAAATGCAGCATTTGGTCTTGATGTATATTAGAATTAGTGGCGCTTATGAGAAAAC
129 ATCTTAACCAAAACGCAGCACTTGGTCTTGAGGTATATTAGAATTAGTGGCACTTATGAAAAAAC
* *** * * ** * *
12657312 GCCGCTAAAGCACATTTTATAATGCGCCGC-A-AAATATCTTAACCAAAATGCAACGTTAGGTCT
194 ACCGCTAAAGCAC--GGAATAA-GCGCCGCTATAAAAAGCGCAACAAAAACGCAACGTTAGGTCT
* * * *
12657375 TGATGTATATTAAAATTAGTGGCGCTTATGAGAAAACGCCGCTAAAGCACATCATTAGCGGCGCA
256 TGAGGTATATTAAAATTAGTGGCGCTTATGAAAAAACGCCGCTAAAGCACAGCATTAGCAGCGCA
12657440 TTATAAA
321 TTATAAA
*
12657447 AAGCGCCGCAAAATATCTTAACCAAAATGCAGCGTTTGGTCTTGAGGTATA
1 AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATA
12657498 GAGCCAATAG
Statistics
Matches: 343, Mismatches: 32, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
329 194 0.57
330 140 0.41
332 3 0.01
333 6 0.02
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.24
Consensus pattern (327 bp):
AAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTATATTAGAATTAGTGGC
GCTTATGAAAAAACGCCGCTAAAGCACATAATTAGCGACGCATTTATAAAAGCACCGCAAAATAT
CTTAACCAAAACGCAGCACTTGGTCTTGAGGTATATTAGAATTAGTGGCACTTATGAAAAAACAC
CGCTAAAGCACGGAATAAGCGCCGCTATAAAAAGCGCAACAAAAACGCAACGTTAGGTCTTGAGG
TATATTAAAATTAGTGGCGCTTATGAAAAAACGCCGCTAAAGCACAGCATTAGCAGCGCATTATA
AA
Found at i:12657718 original size:114 final size:115
Alignment explanation
Indices: 12657569--12657783 Score: 263
Period size: 114 Copynumber: 1.9 Consensus size: 115
12657559 GAAAACTCTG
* * * * * *
12657569 AAAAGTTTTAAACCGAAACGCAACGTTTCGTCTTGAGCTATAG-CGTCGTTAGCGGCGCTTACCA
1 AAAAGTTTTAAACCAAAACGCAACGTTACGGCTTGAACTATAGATG-CATTAGCGGCGCTTACCA
* *** *
12657633 GAAAACGCCTCTATATTTCAGCTTTTAGTGGCGCTTTCTTCTAAAACGCCC
65 GAAAACGCCGCTATAGAGCAACTTTTAGTGGCGCTTTCTTCTAAAACGCCC
* * ***
12657684 AAAAGTTTT-GACCAAAACGCATCGTTACGGCTTGAACTATAGATGCATTAGCGGCGCTTATTTG
1 AAAAGTTTTAAACCAAAACGCAACGTTACGGCTTGAACTATAGATGCATTAGCGGCGCTTACCAG
12657748 AAAACGCCGCTATAGAGCAACTTTTAGTGGCGCTTT
66 AAAACGCCGCTATAGAGCAACTTTTAGTGGCGCTTT
12657784 AGTGAAAGCG
Statistics
Matches: 83, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
114 73 0.88
115 10 0.12
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (115 bp):
AAAAGTTTTAAACCAAAACGCAACGTTACGGCTTGAACTATAGATGCATTAGCGGCGCTTACCAG
AAAACGCCGCTATAGAGCAACTTTTAGTGGCGCTTTCTTCTAAAACGCCC
Found at i:12658397 original size:28 final size:29
Alignment explanation
Indices: 12658365--12658427 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
12658355 GTTAATTGAC
* *
12658365 GGGTTTAGGG-TTTAAGTTTTATGGTTTG
1 GGGTTTAGGGATTTAAGGTTTATAGTTTG
*
12658393 GGGTTT-GGGATTTAGGGTTTATAGTTTG
1 GGGTTTAGGGATTTAAGGTTTATAGTTTG
12658421 GGGTTTA
1 GGGTTTA
12658428 AGATTTACGG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 3 0.10
28 27 0.90
ACGTcount: A:0.14, C:0.00, G:0.38, T:0.48
Consensus pattern (29 bp):
GGGTTTAGGGATTTAAGGTTTATAGTTTG
Found at i:12658432 original size:28 final size:28
Alignment explanation
Indices: 12658382--12658439 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
12658372 GGGTTTAAGT
* ** *
12658382 TTTATGGTTTGGGGTTTGGGATTTAGGG
1 TTTATAGTTTGGGGTTTAAGATTTACGG
12658410 TTTATAGTTTGGGGTTTAAGATTTACGG
1 TTTATAGTTTGGGGTTTAAGATTTACGG
12658438 TT
1 TT
12658440 AAGGCTTACA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.16, C:0.02, G:0.34, T:0.48
Consensus pattern (28 bp):
TTTATAGTTTGGGGTTTAAGATTTACGG
Found at i:12658434 original size:21 final size:21
Alignment explanation
Indices: 12658395--12658434 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
12658385 ATGGTTTGGG
* *
12658395 GTTTGGGATTTAGGGTTTATA
1 GTTTGGGATTTAAGATTTATA
*
12658416 GTTTGGGGTTTAAGATTTA
1 GTTTGGGATTTAAGATTTA
12658435 CGGTTAAGGC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (21 bp):
GTTTGGGATTTAAGATTTATA
Found at i:12658583 original size:15 final size:16
Alignment explanation
Indices: 12658563--12658598 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
12658553 GATATTTTAG
*
12658563 AATATACATATAAA-T
1 AATATAAATATAAATT
12658578 AATATAAATATAAATT
1 AATATAAATATAAATT
12658594 AATAT
1 AATAT
12658599 TTAAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (16 bp):
AATATAAATATAAATT
Found at i:12658839 original size:21 final size:20
Alignment explanation
Indices: 12658799--12658836 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
12658789 AATATATTGA
*
12658799 TGTATTTATTTTTTAAAATG
1 TGTAATTATTTTTTAAAATG
12658819 TGTAATTATTTTTTAAAA
1 TGTAATTATTTTTTAAAA
12658837 ATGCATTACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (20 bp):
TGTAATTATTTTTTAAAATG
Found at i:12659156 original size:24 final size:24
Alignment explanation
Indices: 12659129--12659187 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
12659119 TCCCTCAGTT
12659129 TTCCCCTCAAATTTTTCCCCAAAA
1 TTCCCCTCAAATTTTTCCCCAAAA
*
12659153 TTCCCCTCCAATTTTTCCCCAAAA
1 TTCCCCTCAAATTTTTCCCCAAAA
12659177 TTCCCC-CAAAT
1 TTCCCCTCAAAT
12659188 CTAGAACCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
23 4 0.12
24 29 0.88
ACGTcount: A:0.27, C:0.41, G:0.00, T:0.32
Consensus pattern (24 bp):
TTCCCCTCAAATTTTTCCCCAAAA
Found at i:12660371 original size:12 final size:12
Alignment explanation
Indices: 12660354--12660378 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12660344 GGTGTTCATT
12660354 CGGTTAACCGAC
1 CGGTTAACCGAC
12660366 CGGTTAACCGAC
1 CGGTTAACCGAC
12660378 C
1 C
12660379 CGAAATAACA
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:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:12660928 original size:26 final size:26
Alignment explanation
Indices: 12660892--12660950 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
12660882 CTCGTTGCAT
*
12660892 AATAATTCTTACTCTATAGCTTATCA
1 AATAATTCTTACTCTATAGCTTATAA
12660918 AATAATTCTTACTCTATAGCTTATAA
1 AATAATTCTTACTCTATAGCTTATAA
12660944 AATAATT
1 AATAATT
12660951 AAATTGTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.39, C:0.15, G:0.03, T:0.42
Consensus pattern (26 bp):
AATAATTCTTACTCTATAGCTTATAA
Found at i:12662877 original size:20 final size:21
Alignment explanation
Indices: 12662844--12662886 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
12662834 TTTATTTGTG
*
12662844 TTGTGTTGTGTTTATTTATTT
1 TTGTGTTGTGTTTAATTATTT
*
12662865 TTGTTTTGT-TTTAATTATTT
1 TTGTGTTGTGTTTAATTATTT
12662885 TT
1 TT
12662887 TCTATATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.12, C:0.00, G:0.14, T:0.74
Consensus pattern (21 bp):
TTGTGTTGTGTTTAATTATTT
Found at i:12664590 original size:18 final size:19
Alignment explanation
Indices: 12664563--12664601 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
12664553 CTGGACTTTG
*
12664563 ATTTGCTGAACTTTCA-GC
1 ATTTGCTGAAATTTCATGC
*
12664581 ATTTGTTGAAATTTCATGC
1 ATTTGCTGAAATTTCATGC
12664600 AT
1 AT
12664602 GGAATTGCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (19 bp):
ATTTGCTGAAATTTCATGC
Found at i:12671273 original size:43 final size:43
Alignment explanation
Indices: 12671179--12671274 Score: 102
Period size: 43 Copynumber: 2.2 Consensus size: 43
12671169 CGGCTCTTCG
* * *
12671179 AAAAAACGCTGCTAAAAATCATGTTCTTTAGCGGCGCTTTCAT
1 AAAAAACGCCGCGAAAAATAATGTTCTTTAGCGGCGCTTTCAT
* ** * * * *
12671222 CACGAACGCCGCGAAAAGTAATGTTCTTTAGTGGGGCTTTTAT
1 AAAAAACGCCGCGAAAAATAATGTTCTTTAGCGGCGCTTTCAT
12671265 AAAAAACGCC
1 AAAAAACGCC
12671275 ACTAATTTTG
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (43 bp):
AAAAAACGCCGCGAAAAATAATGTTCTTTAGCGGCGCTTTCAT
Found at i:12671687 original size:21 final size:21
Alignment explanation
Indices: 12671663--12671711 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
12671653 GCTTCTCTCG
12671663 CTACTTCTCGCGCTGCAGCCT
1 CTACTTCTCGCGCTGCAGCCT
* *
12671684 CTACTTCTCTCGCTGTAGCCT
1 CTACTTCTCGCGCTGCAGCCT
*
12671705 CTGCTTC
1 CTACTTC
12671712 CCTCGTTGTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.08, C:0.41, G:0.16, T:0.35
Consensus pattern (21 bp):
CTACTTCTCGCGCTGCAGCCT
Found at i:12671716 original size:21 final size:21
Alignment explanation
Indices: 12671673--12671731 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
12671663 CTACTTCTCG
* * *
12671673 CGCTGCAGCCTCTACTTCTCT
1 CGCTGTAGCCTCTGCTTCCCT
12671694 CGCTGTAGCCTCTGCTTCCCT
1 CGCTGTAGCCTCTGCTTCCCT
* *
12671715 CGTTGTCGCCTCTGCTT
1 CGCTGTAGCCTCTGCTT
12671732 TAAGTTGTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.05, C:0.41, G:0.19, T:0.36
Consensus pattern (21 bp):
CGCTGTAGCCTCTGCTTCCCT
Found at i:12692338 original size:147 final size:145
Alignment explanation
Indices: 12692019--12692344 Score: 334
Period size: 146 Copynumber: 2.2 Consensus size: 145
12692009 GTTTATAAAT
* * * * * *
12692019 AAGCGCCACTAACTATAAGTCAAAACGAAGCCGTTTCATCAACAAATAGCTCACACCTGTGGCGT
1 AAGCGCCACTAACTAT-AGTCAAAACGAAGTCGCTTCATCAACAAATACCTCAAACCCGTGGCAT
* ** *
12692084 TTTTGAATAAACGCCACTAATAATACAGCAAAACGGCCTCATATCAATAAATGTTAAAACATTTT
65 TTTTGAAAAAACGCCACTAATAATACAGCAAAACGGCAGCATATCAATAAATGTTAAAACAATTT
*
12692149 TGCGGCGTTTGAACCA
130 TGCAGCGTTTGAACCA
* * * **
12692165 AACCGCCACTAACTATAAATCAAAACGCAGTCGCTTCATCAACACTTACCTCAAACCCGTGGCAT
1 AAGCGCCACTAACTAT-AGTCAAAACGAAGTCGCTTCATCAACAAATACCTCAAACCCGTGGCAT
** * * ** * *
12692230 TTTTGAAAAAACGCCACTAATAACATTTA-CAAAACGGCAGCGTTTCTGTAAATGTTAGAATAAT
65 TTTTGAAAAAACGCCACTAAT-A-ATACAGCAAAACGGCAGCATATCAATAAATGTTAAAACAAT
**
12692294 TTTGCAGCGTTTTG-AGTA
128 TTTGCAGCG-TTTGAACCA
12692312 AAGCGCCACTAACTATGAGCTC-AAACGAAGTCG
1 AAGCGCCACTAACTAT-AG-TCAAAACGAAGTCG
12692345 TTTCCCCAAC
Statistics
Matches: 146, Mismatches: 30, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
146 74 0.51
147 63 0.43
148 9 0.06
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (145 bp):
AAGCGCCACTAACTATAGTCAAAACGAAGTCGCTTCATCAACAAATACCTCAAACCCGTGGCATT
TTTGAAAAAACGCCACTAATAATACAGCAAAACGGCAGCATATCAATAAATGTTAAAACAATTTT
GCAGCGTTTGAACCA
Found at i:12692355 original size:147 final size:145
Alignment explanation
Indices: 12692019--12692365 Score: 340
Period size: 147 Copynumber: 2.4 Consensus size: 145
12692009 GTTTATAAAT
* * * * * *
12692019 AAGCGCCACTAACTATAAGTCAAAACGAAGCCGTTTCATCAACAAATAGCTCACACCTGTGGCGT
1 AAGCGCCACTAACTAT-AGTCAAAACGAAGTCGTTTCATCAACAATTAACTCAAACCCGTGGCAT
* ** *
12692084 TTTTGAATAAACGCCACTAATAATACAGCAAAACGGCCTCATATCAATAAATGTTAAAACATTTT
65 TTTTGAAAAAACGCCACTAATAATACAGCAAAACGGCAGCATATCAATAAATGTTAAAACAATTT
*
12692149 TGCGGCGTTTGAACCA
130 TGCAGCGTTTGAACCA
* * * * * *
12692165 AACCGCCACTAACTATAAATCAAAACGCAGTCGCTTCATCAACACTTACCTCAAACCCGTGGCAT
1 AAGCGCCACTAACTAT-AGTCAAAACGAAGTCGTTTCATCAACAATTAACTCAAACCCGTGGCAT
** * * ** * *
12692230 TTTTGAAAAAACGCCACTAATAACATTTA-CAAAACGGCAGCGTTTCTGTAAATGTTAGAATAAT
65 TTTTGAAAAAACGCCACTAAT-A-ATACAGCAAAACGGCAGCATATCAATAAATGTTAAAACAAT
**
12692294 TTTGCAGCGTTTTG-AGTA
128 TTTGCAGCG-TTTGAACCA
** *
12692312 AAGCGCCACTAACTATGAGCTC-AAACGAAGTCGTTTCCCCAACAGTTAACTCAA
1 AAGCGCCACTAACTAT-AG-TCAAAACGAAGTCGTTTCATCAACAATTAACTCAA
12692366 GCTTGTGGCG
Statistics
Matches: 162, Mismatches: 35, Indels: 7
0.79 0.17 0.03
Matches are distributed among these distances:
146 74 0.46
147 79 0.49
148 9 0.06
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (145 bp):
AAGCGCCACTAACTATAGTCAAAACGAAGTCGTTTCATCAACAATTAACTCAAACCCGTGGCATT
TTTGAAAAAACGCCACTAATAATACAGCAAAACGGCAGCATATCAATAAATGTTAAAACAATTTT
GCAGCGTTTGAACCA
Found at i:12693390 original size:20 final size:21
Alignment explanation
Indices: 12693361--12693411 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
12693351 CATAAATTCT
*
12693361 AAACCTTAAACCCCAAA-ACC
1 AAACCCTAAACCCCAAATACC
*
12693381 AAACCCTAAACCCCAAATCCC
1 AAACCCTAAACCCCAAATACC
12693402 AAACCCTAAA
1 AAACCCTAAA
12693412 AGTCAAAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.49, C:0.41, G:0.00, T:0.10
Consensus pattern (21 bp):
AAACCCTAAACCCCAAATACC
Found at i:12693405 original size:14 final size:14
Alignment explanation
Indices: 12693361--12693411 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
12693351 CATAAATTCT
*
12693361 AAACCTTAAACCCC
1 AAACCCTAAACCCC
* *
12693375 AAAACC-AAACCCT
1 AAACCCTAAACCCC
* *
12693388 AAACCCCAAATCCC
1 AAACCCTAAACCCC
12693402 AAACCCTAAA
1 AAACCCTAAA
12693412 AGTCAAAACA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
13 11 0.38
14 18 0.62
ACGTcount: A:0.49, C:0.41, G:0.00, T:0.10
Consensus pattern (14 bp):
AAACCCTAAACCCC
Found at i:12693814 original size:14 final size:14
Alignment explanation
Indices: 12693797--12693836 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
12693787 TTCTAACCCT
12693797 TAACCCCAAACTAC
1 TAACCCCAAACTAC
*
12693811 TAACCCCTAACTAC
1 TAACCCCAAACTAC
*
12693825 TACCCCCTAAAC
1 TAACCCC-AAAC
12693837 CTTATTTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 19 0.86
15 3 0.14
ACGTcount: A:0.38, C:0.45, G:0.00, T:0.17
Consensus pattern (14 bp):
TAACCCCAAACTAC
Found at i:12694064 original size:14 final size:15
Alignment explanation
Indices: 12694045--12694077 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
12694035 CTTAAACAAG
12694045 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
12694059 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
12694074 AATC
1 AATC
12694078 TATGAACGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:12694616 original size:114 final size:113
Alignment explanation
Indices: 12694459--12694805 Score: 411
Period size: 114 Copynumber: 3.0 Consensus size: 113
12694449 AAACGACGCC
* *
12694459 GTTGGGCTTAGGTTTTTTTGCGGCGCTTCAACAAAAACGCCGCTAAAGCCCTAAGCATTAGCGGC
1 GTTGGGCTTA-GTTTTTTTGCGGCGCTTC-TCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGC
* * * * **
12694524 GCATT-CTT-AAAACGCCGCTAAAGCCCACGAATTG-TCAGAAAATGGTGT-A
64 GC-TTACTTAAAAACGCCACTAAA-CCCACGAA-AGCTCAAAAAACGGCATCA
*
12694573 GTTGGGCTTAGTTTTTGTTGCGGCGCTTACTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCAGC
1 GTTGGGCTTAGTTTTT-TTGCGGCGCTT-CTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGC
*
12694638 GCTTACTTAAAAACGCCACTAAATCCACGAAAGCTCAAAAAACGGCATCA
64 GCTTACTTAAAAACGCCACTAAACCCACGAAAGCTCAAAAAACGGCATCA
* * * *
12694688 -TTGGGCTTTGGTTTTTTTGTGGCGCTTTCTCAAAAACGCTGCTAAAGCCCTGAGCATTAGCGGT
1 GTTGGGC-TTAGTTTTTTTGCGGCGC-TTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGC
* *
12694752 GCTTACTTAAAAACGCCACAAAATCCC-CGAAAGCTCAAAAAACGGCGTC-
64 GCTTACTTAAAAACGCCACTAAA-CCCACGAAAGCTCAAAAAACGGCATCA
12694801 GTTGG
1 GTTGG
12694806 CTAATGCCGC
Statistics
Matches: 205, Mismatches: 18, Indels: 20
0.84 0.07 0.08
Matches are distributed among these distances:
113 9 0.04
114 169 0.82
115 27 0.13
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (113 bp):
GTTGGGCTTAGTTTTTTTGCGGCGCTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGC
TTACTTAAAAACGCCACTAAACCCACGAAAGCTCAAAAAACGGCATCA
Found at i:12694837 original size:89 final size:89
Alignment explanation
Indices: 12694728--12694894 Score: 280
Period size: 89 Copynumber: 1.9 Consensus size: 89
12694718 CAAAAACGCT
*
12694728 GCTAAAGCCCTGAGCATTAGCGGTGCTTACTTAAAAACGCCACAAAATCCCCGAAAGCTCAAAAA
1 GCTAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAAACGCCACAAAATCCCCGAAAGCTCAAAAA
12694793 ACGGCGTCGTTGGCTAATGCCGCC
66 ACGGCGTCGTTGGCTAATGCCGCC
* * * *
12694817 GCTAAAGCCCTGAGCATTAGCTGCGTTTACTTAAAAACGTCACTAAATCCCCGAAAGCTCAAAAA
1 GCTAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAAACGCCACAAAATCCCCGAAAGCTCAAAAA
*
12694882 ACGGTGTCGTTGG
66 ACGGCGTCGTTGG
12694895 GCTTTGGTTT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
89 72 1.00
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (89 bp):
GCTAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAAACGCCACAAAATCCCCGAAAGCTCAAAAA
ACGGCGTCGTTGGCTAATGCCGCC
Found at i:12695418 original size:3 final size:3
Alignment explanation
Indices: 12695410--12695434 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
12695400 AAAAACACTC
12695410 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
12695435 GAAATCTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:12704685 original size:15 final size:16
Alignment explanation
Indices: 12704655--12704687 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
12704645 CAAAGCTCTG
*
12704655 ATATTTTACCATTTTT
1 ATATTTTACAATTTTT
12704671 ATATTTTA-AATTTTT
1 ATATTTTACAATTTTT
12704686 AT
1 AT
12704688 CAAAATAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (16 bp):
ATATTTTACAATTTTT
Found at i:12714189 original size:15 final size:16
Alignment explanation
Indices: 12714164--12714199 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
12714154 TCTTCGTTGT
12714164 TAAAA-GTTT-AAAAA
1 TAAAATGTTTAAAAAA
12714178 TAAAATGTTTAAAAAA
1 TAAAATGTTTAAAAAA
12714194 TAAAAT
1 TAAAAT
12714200 AATTGTTCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 5 0.25
15 4 0.20
16 11 0.55
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.31
Consensus pattern (16 bp):
TAAAATGTTTAAAAAA
Found at i:12724694 original size:47 final size:47
Alignment explanation
Indices: 12724586--12724716 Score: 131
Period size: 47 Copynumber: 2.8 Consensus size: 47
12724576 GACAGTAGTT
* * *
12724586 TGGAAGATATTCATCTGAAATCTTATAGTTCTGTTTACACTATATTG
1 TGGAAAATGTTCATCTGAAATCTTATAGTACTGTTTACACTATATTG
* * ** *
12724633 TGGAAAATGCTCATCTGAAATCTTATAGTACTTTTTATGCTGTAGTTCG
1 TGGAAAATGTTCATCTGAAATCTTATAGTACTGTTTACACTATA-TT-G
* * *
12724682 -GG-AAATGTTCATCTCAAATCCTATAGTATTGTTTA
1 TGGAAAATGTTCATCTGAAATCTTATAGTACTGTTTA
12724717 GATCTGATTC
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
47 64 0.93
48 4 0.06
49 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (47 bp):
TGGAAAATGTTCATCTGAAATCTTATAGTACTGTTTACACTATATTG
Found at i:12738321 original size:28 final size:27
Alignment explanation
Indices: 12738286--12738368 Score: 78
Period size: 29 Copynumber: 3.0 Consensus size: 27
12738276 CCATACGGAA
12738286 TTAATATTAATCGAATT-AATTAATTTT
1 TTAATATTAATCGAATTGAATT-ATTTT
* *
12738313 TTAATTATTAATTGAATTGAATTTTTTT
1 TTAA-TATTAATCGAATTGAATTATTTT
* * *
12738341 TTAAAAATTTAATCAAATCGAATTATTT
1 TT-AATA-TTAATCGAATTGAATTATTT
12738369 CAATTAATTC
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
27 4 0.09
28 19 0.42
29 22 0.49
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.52
Consensus pattern (27 bp):
TTAATATTAATCGAATTGAATTATTTT
Found at i:12739270 original size:10 final size:10
Alignment explanation
Indices: 12739255--12739295 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
12739245 NNNNTTAAAA
12739255 TTTTAAATTT
1 TTTTAAATTT
12739265 TTTTAAATATT
1 TTTTAAAT-TT
*
12739276 TTTTTAATTT
1 TTTTAAATTT
12739286 TTTT-AATTT
1 TTTTAAATTT
12739295 T
1 T
12739296 AAAATATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 6 0.21
10 14 0.48
11 9 0.31
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTTAAATTT
Found at i:12739279 original size:11 final size:11
Alignment explanation
Indices: 12739255--12739319 Score: 52
Period size: 11 Copynumber: 6.4 Consensus size: 11
12739245 NNNNTTAAAA
12739255 TTTTAAAT-TT
1 TTTTAAATATT
12739265 TTTTAAATATT
1 TTTTAAATATT
*
12739276 TTTTTAAT-TT
1 TTTTAAATATT
12739286 TTTT--A-A-T
1 TTTTAAATATT
*
12739293 TTTAAAATATT
1 TTTTAAATATT
*
12739304 TTTAAAATACTT
1 TTTTAAATA-TT
12739316 TTTT
1 TTTT
12739320 TTAATTTTTG
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
7 4 0.09
8 1 0.02
9 1 0.02
10 15 0.33
11 19 0.42
12 5 0.11
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (11 bp):
TTTTAAATATT
Found at i:12748629 original size:12 final size:13
Alignment explanation
Indices: 12748592--12748634 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 13
12748582 AACATTACAA
*
12748592 TATAATCTAATAT
1 TATAATCTTATAT
*
12748605 TAT-ATCTTTTAT
1 TATAATCTTATAT
12748617 TATAAT-TTATAT
1 TATAATCTTATAT
12748629 TATAAT
1 TATAAT
12748635 AATAGTGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 21 0.81
13 5 0.19
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (13 bp):
TATAATCTTATAT
Found at i:12748896 original size:33 final size:32
Alignment explanation
Indices: 12748822--12748896 Score: 80
Period size: 33 Copynumber: 2.3 Consensus size: 32
12748812 CACTCTATAA
* *
12748822 TTTAACATAAAAATTATTATTAATTATTTTTCT
1 TTTAA-ATAAAAATTATTATCAATTATTTTTAT
* *
12748855 TATT-AATAAAATTTTATTATCATTTATTTTTAT
1 T-TTAAATAAAA-ATTATTATCAATTATTTTTAT
12748888 TTTAAATAA
1 TTTAAATAA
12748897 GATTATAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
32 8 0.23
33 25 0.71
34 2 0.06
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (32 bp):
TTTAAATAAAAATTATTATCAATTATTTTTAT
Found at i:12753461 original size:24 final size:24
Alignment explanation
Indices: 12753434--12753480 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
12753424 TTCATGTGAA
*
12753434 AGTAGACTCATTCAGCTT-TAATTT
1 AGTA-ACTCACTCAGCTTCTAATTT
*
12753458 AGTATCTCACTCAGCTTCTAATT
1 AGTAACTCACTCAGCTTCTAATT
12753481 CAATTTCCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (24 bp):
AGTAACTCACTCAGCTTCTAATTT
Found at i:12754108 original size:45 final size:46
Alignment explanation
Indices: 12753986--12754141 Score: 278
Period size: 46 Copynumber: 3.4 Consensus size: 46
12753976 CCAAACACTT
*
12753986 ACCATACCTACTTTTCACAACTCAGTATGGTTTTCTTCACTGAAAC
1 ACCATACCTACTTTTCACAACTCAGTATGGTTTTCTTCACCGAAAC
*
12754032 ACCATACCTACTTTTCATAACTCAGTATGGTTTTCTTCACCGAAAC
1 ACCATACCTACTTTTCACAACTCAGTATGGTTTTCTTCACCGAAAC
*
12754078 ACCATACCTAC-TTTCACAACTCGGTATGGTTTTCTTCACCGAAAC
1 ACCATACCTACTTTTCACAACTCAGTATGGTTTTCTTCACCGAAAC
12754123 ACCATACCTACTTTTCACA
1 ACCATACCTACTTTTCACA
12754142 CTTTTCCATG
Statistics
Matches: 105, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
45 43 0.41
46 62 0.59
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.33
Consensus pattern (46 bp):
ACCATACCTACTTTTCACAACTCAGTATGGTTTTCTTCACCGAAAC
Found at i:12760540 original size:23 final size:23
Alignment explanation
Indices: 12760496--12760540 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
12760486 GGTCGAGCTG
*
12760496 ATATAGCTAATTAGTTTGAACTA
1 ATATAGCTAATTAGTATGAACTA
12760519 ATATAGCTAATTAGCTAT-AACT
1 ATATAGCTAATTAG-TATGAACT
12760541 TATAAAGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (23 bp):
ATATAGCTAATTAGTATGAACTA
Found at i:12761950 original size:37 final size:37
Alignment explanation
Indices: 12761900--12761973 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
12761890 TATGGCTATC
12761900 ATTTTGCATAGCTGATCAATCTCATTCTTGGGTCATG
1 ATTTTGCATAGCTGATCAATCTCATTCTTGGGTCATG
*
12761937 ATTTTGCATAGCTGATCAATCTCATTTTTGGGTCATG
1 ATTTTGCATAGCTGATCAATCTCATTCTTGGGTCATG
12761974 TTATTGGATA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.42
Consensus pattern (37 bp):
ATTTTGCATAGCTGATCAATCTCATTCTTGGGTCATG
Found at i:12762250 original size:32 final size:32
Alignment explanation
Indices: 12762209--12762331 Score: 210
Period size: 32 Copynumber: 3.8 Consensus size: 32
12762199 TTTATCAAAA
*
12762209 GATTTTCGCTGTTAGTAAGACTGGTCATTTAG
1 GATTTTCACTGTTAGTAAGACTGGTCATTTAG
*
12762241 GATTTTCGCTGTTAGTAAGACTGGTCATTTAG
1 GATTTTCACTGTTAGTAAGACTGGTCATTTAG
*
12762273 GATTTTCATTGTTAGTAAGACTGGTCATTTAG
1 GATTTTCACTGTTAGTAAGACTGGTCATTTAG
*
12762305 GATTTTCATTGTTAGTAAGACTGGTCA
1 GATTTTCACTGTTAGTAAGACTGGTCA
12762332 ACTGAAGTAT
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 89 1.00
ACGTcount: A:0.24, C:0.11, G:0.24, T:0.41
Consensus pattern (32 bp):
GATTTTCACTGTTAGTAAGACTGGTCATTTAG
Found at i:12763419 original size:14 final size:14
Alignment explanation
Indices: 12763402--12763430 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
12763392 TTTACTTAAT
12763402 TTGTTCATATTTGC
1 TTGTTCATATTTGC
12763416 TTGTTCATATTTGC
1 TTGTTCATATTTGC
12763430 T
1 T
12763431 CCCACAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.59
Consensus pattern (14 bp):
TTGTTCATATTTGC
Found at i:12768332 original size:28 final size:29
Alignment explanation
Indices: 12768291--12768359 Score: 97
Period size: 28 Copynumber: 2.4 Consensus size: 29
12768281 ATTTTAAAAT
**
12768291 ATTTTTAAAATACTTTTTTTA-TTTTTTA
1 ATTTTTAAAATACTTTTTAAATTTTTTTA
12768319 A-TTTTAAAAGTACTTTTTAAATTTTTTTA
1 ATTTTTAAAA-TACTTTTTAAATTTTTTTA
12768348 ATTTTTAAAATA
1 ATTTTTAAAATA
12768360 AATTTTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
27 8 0.22
28 10 0.28
29 10 0.28
30 8 0.22
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (29 bp):
ATTTTTAAAATACTTTTTAAATTTTTTTA
Found at i:12768361 original size:22 final size:23
Alignment explanation
Indices: 12768336--12768380 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
12768326 AAGTACTTTT
12768336 TAAATTTTTT-TAATTT-TTAAAA
1 TAAATTTTTTGT-ATTTATTAAAA
12768358 TAAATTTTTTGTATTTATTAAAA
1 TAAATTTTTTGTATTTATTAAAA
12768381 AATAGGTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
TAAATTTTTTGTATTTATTAAAA
Found at i:12768366 original size:23 final size:22
Alignment explanation
Indices: 12768336--12768380 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
12768326 AAGTACTTTT
*
12768336 TAAATTTTTTTAATTT-TTAAAA
1 TAAATTTTTGT-ATTTATTAAAA
12768358 TAAATTTTTTGTATTTATTAAAA
1 TAAA-TTTTTGTATTTATTAAAA
12768381 AATAGGTTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
TAAATTTTTGTATTTATTAAAA
Found at i:12776869 original size:17 final size:18
Alignment explanation
Indices: 12776847--12776882 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
12776837 AAAAAACAAC
*
12776847 TTTTGAATC-TTTTCTTT
1 TTTTGAACCGTTTTCTTT
12776864 TTTTGAACCGTTTTCTTT
1 TTTTGAACCGTTTTCTTT
12776882 T
1 T
12776883 ATTATTTCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.11, C:0.14, G:0.08, T:0.67
Consensus pattern (18 bp):
TTTTGAACCGTTTTCTTT
Found at i:12777875 original size:100 final size:100
Alignment explanation
Indices: 12777696--12778514 Score: 1054
Period size: 100 Copynumber: 8.2 Consensus size: 100
12777686 CTGTTTGTCG
* * * * * * *
12777696 GGGAAGTAAGCTTCACTGTTGTGGCTTCAATCTTTTTAACTACATTGTCGGGGAAGCAAGATTCG
1 GGGAAGTAAGATTCGCTGTTGTGACTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCA
* * * *
12777761 CTGTTATAGCTTCAATCTGTTCCACTACACCGCTA
66 CCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
*
12777796 GGGAAGTAAGATTCGCTGTTGTGACTTCAATCTTTTTAATTGTAATGTCGGGGAAGCAAGATTCA
1 GGGAAGTAAGATTCGCTGTTGTGACTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCA
* **
12777861 CCGTTGTAGTTTCAATAAGTTCCACTGCACCGCCA
66 CCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
*
12777896 GGGAAGTAAGATTCGCTGTTGTGACTTCAATCTTTTTAATTTCAATGTCGGGGAAGCAAGATTCA
1 GGGAAGTAAGATTCGCTGTTGTGACTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCA
* *
12777961 CTGTTGTAGCTTCAATCTGTTCCACCGCACCGCCA
66 CCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* * * *
12777996 GGGAAGTAAGATTCGCCGTTGT-AGCGTCAAT-TTTTTAATTGCAATGTTGGGAAAGCAAGATTC
1 GGGAAGTAAGATTCGCTGTTGTGA-CTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTC
* * * * *
12778059 GCTGTTGTAGATTCAATCTGTTCCACTGCACCACCTG
65 ACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCC-A
* * * * * *
12778096 GGGAAGTATGATTTGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGCGGAAGCAAGATTCG
1 GGGAAGTAAGATTCGCTGTTGTGACTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCA
* * *
12778161 CCGTTGTAGCTTTAATCTGTTCCATTGCAGCGCCA
66 CCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* * *
12778196 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGTAATGTCGGGGAAGCAAGATTCA
1 GGGAAGTAAGATTCGCTGTTGTGACTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCA
* * * * *
12778261 CCATTGTAGCTTCAATCTATTCCACTACACCATCTA
66 CCGTTGTAGCTTCAATCTGTTCCACTGCACC-GCCA
* * *
12778297 GGGAAGTAAGATTCGCTGTTGT-AGCTTCAATCTTTTCAATTGTAATGTCGAGGAAGCAAGATTC
1 GGGAAGTAAGATTCGCTGTTGTGA-CTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTC
* *
12778361 ACCGTTGTAGCTTCAATCTGTTCCACTGCACCACCT
65 ACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* * *
12778397 GGGAAAGTGAGATTCGCTGTTGT-AGCTTCAAT-ATTTTAATTGCAATGTCGGGGAAGTAAGATT
1 GGG-AAGTAAGATTCGCTGTTGTGA-CTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATT
* *
12778460 CGCCGTTGCAGCTTCAATCTGTTCCACTGCACCGCCA
64 CACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
*
12778497 GGGAAATAAGATTCGCTG
1 GGGAAGTAAGATTCGCTG
12778515 CCTTCGATCT
Statistics
Matches: 631, Mismatches: 81, Indels: 15
0.87 0.11 0.02
Matches are distributed among these distances:
99 74 0.12
100 382 0.61
101 175 0.28
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.32
Consensus pattern (100 bp):
GGGAAGTAAGATTCGCTGTTGTGACTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCA
CCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
Found at i:12778508 original size:150 final size:151
Alignment explanation
Indices: 12777746--12778514 Score: 612
Period size: 150 Copynumber: 5.1 Consensus size: 151
12777736 TACATTGTCG
* * * * *
12777746 GGGAAGCAAGATTCGCTGTTATAGCTTCAATCTGTTCCACTACACC-GCT-AGGGAAGTAAGATT
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCACCTCGGGGAAGTAAGATT
* * * *
12777809 CGCTGTTGT-GACTTCAATCTTTTTAATTGTAATGTCGGGGAAGCAAGATTCACCGTTGTAGTTT
66 CGCTGTTGTAG-CTTCAATC-TTTTAATTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAGCTT
** * *
12777873 CAATAAGTTCCACTGCACCGCCA
129 CAATCTGTTCCATTGCAACGCCA
* ** * * ** *
12777896 GGGAAGTAAGATTCGCTGTTGT-GACTTCAATCTTTTTAATTTCA--ATGTCGGGGAAGCAAGAT
1 GGGAAGTAAGATTCGCTGTTGTAG-CTTCAATCTGTTCCACTGCACCACCTCGGGGAAGTAAGAT
* ** ** ** * * *
12777958 TCACTGTTGTAGCTTCAATCTGTTCCACCGCACCGCCAGGGAAGTAAGATTCGCCGTTGTAGCGT
65 TCGCTGTTGTAGCTTCAATCT-TTTAATTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAGCTT
* ** * **
12778023 CAAT-TTTTTAATTGCAATG-TT
129 CAATCTGTTCCATTGCAACGCCA
* * *
12778044 GGGAAAGCAAGATTCGCTGTTGTAGATTCAATCTGTTCCACTGCACCACCT-GGGGAAGTATGAT
1 GGG-AAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCACCTCGGGGAAGTAAGAT
* * * * *
12778108 TTGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGCGGAAGCAAGATTCGCCGTTGTAGCTT
65 TCGCTGTTGTAGCTTCAATC-TTTTAATTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAGCTT
* *
12778173 TAATCTGTTCCATTGCAGCGCCA
129 CAATCTGTTCCATTGCAACGCCA
* * * ** * * ** *
12778196 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGTA--ATGTCGGGGAAGCAAGATT
1 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCACCTCGGGGAAGTAAGATT
* ** ** * * * * *
12778259 CACCATTGTAGCTTCAATCTATTCCACTACACCATCT-AGGGAAGTAAGATTCGCTGTTGTAGCT
66 CGCTGTTGTAGCTTCAATCT-TTTAATTGCA--ATGTCGGGGAAGTAAGATTCGCCGTTGTAGCT
* * * * *
12778323 TCAATCTTTTCAATTGTAATGTC-
128 TCAATCTGTTCCATTGCAACGCCA
* * * * *
12778346 GAGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCACCT-GGGAAAGTGAGAT
1 G-GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCACCTCGGGGAAGTAAGAT
* *
12778410 TCGCTGTTGTAGCTTCAATATTTTAATTGCAATGTCGGGGAAGTAAGATTCGCCGTTGCAGCTTC
65 TCGCTGTTGTAGCTTCAATCTTTTAATTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTC
* *
12778475 AATCTGTTCCACTGCACCGCCA
130 AATCTGTTCCATTGCAACGCCA
*
12778497 GGGAAATAAGATTCGCTG
1 GGGAAGTAAGATTCGCTG
12778515 CCTTCGATCT
Statistics
Matches: 461, Mismatches: 137, Indels: 42
0.72 0.21 0.07
Matches are distributed among these distances:
148 3 0.01
149 49 0.11
150 247 0.54
151 127 0.28
152 33 0.07
153 2 0.00
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.32
Consensus pattern (151 bp):
GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCACCTCGGGGAAGTAAGATT
CGCTGTTGTAGCTTCAATCTTTTAATTGCAATGTCGGGGAAGTAAGATTCGCCGTTGTAGCTTCA
ATCTGTTCCATTGCAACGCCA
Found at i:12778511 original size:50 final size:50
Alignment explanation
Indices: 12777746--12778512 Score: 495
Period size: 50 Copynumber: 15.3 Consensus size: 50
12777736 TACATTGTCG
* * * * * * *
12777746 GGGAAGCAAGATTCGCTGTTATAGCTTCAATCTGTTCCACTACACCGCTA
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCAACGCCA
* * ** * * * *
12777796 GGGAAGTAAGATTCGCTGTTGT-GACTTCAATCTTTTTAATTGTAATGTCG
1 GGGAAGTAAGATTCGCCGTTGTAG-CTTCAATCTGTTCCATTGCAACGCCA
* * * ** * *
12777846 GGGAAGCAAGATTCACCGTTGTAGTTTCAATAAGTTCCACTGCACCGCCA
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCAACGCCA
* * ** * * * *
12777896 GGGAAGTAAGATTCGCTGTTGT-GACTTCAATCTTTTTAATTTCAATGTCG
1 GGGAAGTAAGATTCGCCGTTGTAG-CTTCAATCTGTTCCATTGCAACGCCA
* * * ** *
12777946 GGGAAGCAAGATTCACTGTTGTAGCTTCAATCTGTTCCACCGCACCGCCA
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCAACGCCA
* * ** * **
12777996 GGGAAGTAAGATTCGCCGTTGTAGCGTCAAT-TTTTTAATTGCAATG-TT
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCAACGCCA
* * * * * * *
12778044 GGGAAAGCAAGATTCGCTGTTGTAGATTCAATCTGTTCCACTGCACCACCTG
1 GGG-AAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCAACGCC-A
* * * * ** * *
12778096 GGGAAGTATGATTTGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTC-
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCAACGCCA
* * *
12778145 GCGGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGTTCCATTGCAGCGCCA
1 G-GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCAACGCCA
* * ** * * * *
12778196 GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGTAATGTCG
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCAACGCCA
* * * * * * * * *
12778246 GGGAAGCAAGATTCACCATTGTAGCTTCAATCTATTCCACTACACCATCTA
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCAAC-GCCA
* * * * * *
12778297 GGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTCAATTGTAATGTC-
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCAACGCCA
* * * * * *
12778346 GAGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCACCT
1 G-GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCAACGCCA
* * * ** * * *
12778397 GGGAAAGTGAGATTCGCTGTTGTAGCTTCAATAT-TTTAATTGCAATGTCG
1 GGG-AAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCAACGCCA
* * *
12778447 GGGAAGTAAGATTCGCCGTTGCAGCTTCAATCTGTTCCACTGCACCGCCA
1 GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCAACGCCA
*
12778497 GGGAAATAAGATTCGC
1 GGGAAGTAAGATTCGC
12778513 TGCCTTCGAT
Statistics
Matches: 519, Mismatches: 183, Indels: 30
0.71 0.25 0.04
Matches are distributed among these distances:
48 3 0.01
49 62 0.12
50 355 0.68
51 96 0.18
52 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.32
Consensus pattern (50 bp):
GGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTGTTCCATTGCAACGCCA
Found at i:12778840 original size:132 final size:133
Alignment explanation
Indices: 12778502--12778870 Score: 526
Period size: 133 Copynumber: 2.8 Consensus size: 133
12778492 CGCCAGGGAA
* * * *
12778502 ATAAGATTCGCTGCCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATTTACAATCTTCGCC
1 ATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATTTACAATCTTCGAC
* * *
12778567 CTACTCCACTACTGCTTAGTGAGATAGAATTGGTGGTTTAAATCTGCTTCCCTACTACCATTTGA
66 CTACTCCACTACTGCTTAGGGAGATAGGACTGGTGGTTTAAATCTGCTTCCCTACTACCATTTGA
12778632 AAG
131 AAG
* * * * *
12778635 GTAAGATTCACCGTTTTTGATCTGCTCCACTATTGCTTAGAGAGACAGGATTTACAATCTTCGAC
1 ATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATTTACAATCTTCGAC
12778700 CTACTCCACTACTGCTTAGGGAGATAGGACTGGTGGTTTAAATCTGCTTCCCTACTA-CA-TTGA
66 CTACTCCACTACTGCTTAGGGAGATAGGACTGGTGGTTTAAATCTGCTTCCCTACTACCATTTGA
*
12778763 GAAT
131 -AAG
* * * * *
12778767 ATAAGATTCACCGTCTTCGATTTGCTCCACTACTACTTAGGGAGACAGGATCTAAAATCTTTGAC
1 ATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATTTACAATCTTCGAC
* * *
12778832 CTATTCCACTGCTGCTCAGGGAGATAGGACTGGTGGTTT
66 CTACTCCACTACTGCTTAGGGAGATAGGACTGGTGGTTT
12778871 CACCGATCTG
Statistics
Matches: 209, Mismatches: 26, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
131 4 0.02
132 95 0.45
133 110 0.53
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (133 bp):
ATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATTTACAATCTTCGAC
CTACTCCACTACTGCTTAGGGAGATAGGACTGGTGGTTTAAATCTGCTTCCCTACTACCATTTGA
AAG
Found at i:12780123 original size:4 final size:4
Alignment explanation
Indices: 12780114--12780146 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
12780104 TCTTATGTTT
12780114 TTTC TTTC TTTC TTTC TTTC -TTC TTT- TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
12780147 AAATATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
3 6 0.22
4 21 0.78
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (4 bp):
TTTC
Found at i:12780139 original size:7 final size:8
Alignment explanation
Indices: 12780114--12780146 Score: 52
Period size: 7 Copynumber: 4.4 Consensus size: 8
12780104 TCTTATGTTT
12780114 TTTCTTTC
1 TTTCTTTC
12780122 TTTCTTTC
1 TTTCTTTC
12780130 TTTC-TTC
1 TTTCTTTC
12780137 TTT-TTTC
1 TTTCTTTC
12780144 TTT
1 TTT
12780147 AAATATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 12 0.50
8 12 0.50
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTCTTTC
Found at i:12782822 original size:12 final size:12
Alignment explanation
Indices: 12782791--12782824 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
12782781 CTTTTCTAGT
12782791 TGTTCTTGCATC
1 TGTTCTTGCATC
**
12782803 TGGGCTTGCATC
1 TGTTCTTGCATC
12782815 TGTTCTTGCA
1 TGTTCTTGCA
12782825 ATTGCTCTAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.09, C:0.24, G:0.24, T:0.44
Consensus pattern (12 bp):
TGTTCTTGCATC
Found at i:12806846 original size:2 final size:2
Alignment explanation
Indices: 12806839--12806865 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
12806829 GAAATGGATT
12806839 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
12806866 TTTTGAGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:12807225 original size:6 final size:6
Alignment explanation
Indices: 12807214--12807242 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
12807204 TTAAGAAGAA
12807214 ATATAC ATATAC ATATAC ATATAC ATATA
1 ATATAC ATATAC ATATAC ATATAC ATATA
12807243 TACACCACCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (6 bp):
ATATAC
Done.