Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 317 of 320
Found at i:101635896 original size:23 final size:24
Alignment explanation
Indices: 101635847--101635896 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
101635837 GAAATGGTGT
**
101635847 TTTTAAGTAAAATATGTATTAACA
1 TTTTAAGTAAAATATGTAGAAACA
* *
101635871 TTTTAA-TAAAATATTTAGAAATA
1 TTTTAAGTAAAATATGTAGAAACA
101635894 TTT
1 TTT
101635897 AACTATTTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (24 bp):
TTTTAAGTAAAATATGTAGAAACA
Found at i:101643804 original size:18 final size:18
Alignment explanation
Indices: 101643773--101643807 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
101643763 TTTAATGAAT
**
101643773 TTTTTATGTTTTTTTAAA
1 TTTTTATGAATTTTTAAA
101643791 TTTTTATGAATTTTTAA
1 TTTTTATGAATTTTTAA
101643808 TTAATTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.69
Consensus pattern (18 bp):
TTTTTATGAATTTTTAAA
Found at i:101648484 original size:20 final size:21
Alignment explanation
Indices: 101648446--101648487 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
101648436 TGATGCTTTC
* *
101648446 TTTCTTTATTCTTTGTTTTTT
1 TTTCTTTATCCTTTATTTTTT
101648467 TTTCTTTA-CCTTTATTTTTT
1 TTTCTTTATCCTTTATTTTTT
101648487 T
1 T
101648488 GCCTAGCAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.07, C:0.12, G:0.02, T:0.79
Consensus pattern (21 bp):
TTTCTTTATCCTTTATTTTTT
Found at i:101660120 original size:13 final size:13
Alignment explanation
Indices: 101660102--101660128 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
101660092 GTTTATTGCC
101660102 TTACAAGAGAGCA
1 TTACAAGAGAGCA
101660115 TTACAAGAGAGCA
1 TTACAAGAGAGCA
101660128 T
1 T
101660129 GCCTAGGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.15, G:0.22, T:0.19
Consensus pattern (13 bp):
TTACAAGAGAGCA
Found at i:101662503 original size:18 final size:18
Alignment explanation
Indices: 101662480--101662516 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
101662470 TAGGAATATT
101662480 CGCGTAATAGTTTGGTGG
1 CGCGTAATAGTTTGGTGG
101662498 CGCGTAATAGTTTGGTGG
1 CGCGTAATAGTTTGGTGG
101662516 C
1 C
101662517 CGAAGGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.14, G:0.38, T:0.32
Consensus pattern (18 bp):
CGCGTAATAGTTTGGTGG
Found at i:101662819 original size:3 final size:3
Alignment explanation
Indices: 101662811--101662838 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
101662801 TCCTCCATTA
101662811 CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT C
101662839 CACTGTATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:101663406 original size:15 final size:15
Alignment explanation
Indices: 101663380--101663419 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
101663370 TTAGATATAA
* *
101663380 TTATTATTTAAATAT
1 TTATTATATAAATAG
*
101663395 TTTTTATATAAATAG
1 TTATTATATAAATAG
101663410 TTATTATATA
1 TTATTATATA
101663420 CTGATTTATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (15 bp):
TTATTATATAAATAG
Found at i:101664600 original size:3 final size:3
Alignment explanation
Indices: 101664592--101664623 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
101664582 CATATTTACC
101664592 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
101664624 TGTGTAGGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:101665664 original size:9 final size:9
Alignment explanation
Indices: 101665650--101665769 Score: 100
Period size: 9 Copynumber: 12.9 Consensus size: 9
101665640 CAATATTTTT
101665650 TTATAAAAA
1 TTATAAAAA
101665659 TTATAAAAA
1 TTATAAAAA
*
101665668 ATATAAAAGA
1 TTATAAAA-A
* *
101665678 TCAAAAAAGA
1 TTATAAAA-A
101665688 TTTATAAAAA
1 -TTATAAAAA
101665698 -T-TAAAAA
1 TTATAAAAA
*
101665705 TTATTAAAA
1 TTATAAAAA
*
101665714 TTATTAAAA
1 TTATAAAAA
101665723 TTAATATAAAA
1 TT-ATA-AAAA
* *
101665734 TTTTTAAAA
1 TTATAAAAA
101665743 TTATAAAAA
1 TTATAAAAA
*
101665752 CTTATAAATA
1 -TTATAAAAA
101665762 TTATAAAA
1 TTATAAAA
101665770 CTATATAATA
Statistics
Matches: 90, Mismatches: 14, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
7 6 0.07
8 2 0.02
9 50 0.56
10 20 0.22
11 12 0.13
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (9 bp):
TTATAAAAA
Found at i:101665734 original size:20 final size:19
Alignment explanation
Indices: 101665701--101665745 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
101665691 ATAAAAATTA
101665701 AAAATT-ATTAAAATTATT
1 AAAATTAATTAAAATTATT
*
101665719 AAAATTAATATAAAATTTTT
1 AAAATTAAT-TAAAATTATT
101665739 AAAATTA
1 AAAATTA
101665746 TAAAAACTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 6 0.25
19 2 0.08
20 16 0.67
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATTAATTAAAATTATT
Found at i:101665776 original size:19 final size:18
Alignment explanation
Indices: 101665689--101665788 Score: 64
Period size: 18 Copynumber: 5.4 Consensus size: 18
101665679 CAAAAAAGAT
*
101665689 TTATAAAAATTA-AAA-A
1 TTATAAAACTTATAAATA
101665705 TTATTAAAA-TTATTAAAATTA
1 TTA-TAAAACTTA-T-AAA-TA
* * *
101665726 ATATAAAATTTTTAAA-A
1 TTATAAAACTTATAAATA
101665743 TTATAAAAACTTATAAATA
1 TTAT-AAAACTTATAAATA
101665762 TTATAAAACTATATAATATA
1 TTATAAAACT-TATAA-ATA
*
101665782 TAATAAA
1 TTATAAA
101665789 TTCTAATAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
16 6 0.09
17 9 0.13
18 16 0.24
19 16 0.24
20 15 0.22
21 5 0.07
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (18 bp):
TTATAAAACTTATAAATA
Found at i:101665893 original size:28 final size:29
Alignment explanation
Indices: 101665862--101665924 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
101665852 ATTAGAATTC
*
101665862 TTAAAATTTATAAATAA-TTATAAAA-ATA
1 TTAAAATTGAT-AATAACTTATAAAAGATA
*
101665890 TTAAAATTGATATTAACTTATAAAAGATA
1 TTAAAATTGATAATAACTTATAAAAGATA
*
101665919 TAAAAA
1 TTAAAA
101665925 AATCATAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 4 0.13
28 18 0.60
29 8 0.27
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.37
Consensus pattern (29 bp):
TTAAAATTGATAATAACTTATAAAAGATA
Found at i:101667576 original size:21 final size:22
Alignment explanation
Indices: 101667552--101667594 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
101667542 TTTTATAAAT
*
101667552 TTTATAGAACTTT-AATATGTA
1 TTTATAAAACTTTAAATATGTA
*
101667573 TTTATAAAATTTTAAATATGTA
1 TTTATAAAACTTTAAATATGTA
101667595 CTATTAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (22 bp):
TTTATAAAACTTTAAATATGTA
Found at i:101681221 original size:25 final size:24
Alignment explanation
Indices: 101681171--101681221 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
101681161 TGAAGTATAA
* * * *
101681171 TTTTTTATTTTATACTTAAACATT
1 TTTTTTAATTTAGACCTAAAAATT
*
101681195 TTTTTTAATTTAGACCTAAAAAGT
1 TTTTTTAATTTAGACCTAAAAATT
101681219 TTT
1 TTT
101681222 AATTACATCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.57
Consensus pattern (24 bp):
TTTTTTAATTTAGACCTAAAAATT
Found at i:101682272 original size:18 final size:18
Alignment explanation
Indices: 101682251--101682286 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
101682241 TATTTTTAAT
*
101682251 TAAATATAATCAAAAATA
1 TAAATATAATAAAAAATA
*
101682269 TAAATATTATAAAAAATA
1 TAAATATAATAAAAAATA
101682287 ATATTTTGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAATATAATAAAAAATA
Found at i:101686359 original size:28 final size:29
Alignment explanation
Indices: 101686310--101686364 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
101686300 AACTATACCC
*
101686310 ATTATTTTAAATTAGTACCTAAACTTTAA
1 ATTATTTTAAATTAATACCTAAACTTTAA
101686339 ATTATTTT-AATTACAT-CCTAAACTTT
1 ATTATTTTAAATTA-ATACCTAAACTTT
101686365 TGAAGTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 15 0.62
29 9 0.38
ACGTcount: A:0.38, C:0.13, G:0.02, T:0.47
Consensus pattern (29 bp):
ATTATTTTAAATTAATACCTAAACTTTAA
Found at i:101699205 original size:24 final size:23
Alignment explanation
Indices: 101699165--101699209 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
101699155 AAGAAAGAAT
101699165 AAAAAAATGTGAAAAGTGAAAATG
1 AAAAAAATGTGAAAAGT-AAAATG
*
101699189 AAAAAAA-GTAGAGAAGTAAAA
1 AAAAAAATGT-GAAAAGTAAAA
101699210 GTCACTGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.67, C:0.00, G:0.20, T:0.13
Consensus pattern (23 bp):
AAAAAAATGTGAAAAGTAAAATG
Found at i:101704097 original size:16 final size:18
Alignment explanation
Indices: 101704071--101704112 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
101704061 AAAAGCCTTG
101704071 AAATGATAAAAAA-ATT-T
1 AAAT-ATAAAAAATATTAT
101704088 AAATATAAAAAATATTAT
1 AAATATAAAAAATATTAT
101704106 AAA-ATAA
1 AAATATAA
101704113 TATTAAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 8 0.35
17 11 0.48
18 4 0.17
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (18 bp):
AAATATAAAAAATATTAT
Found at i:101705770 original size:26 final size:26
Alignment explanation
Indices: 101705734--101705803 Score: 131
Period size: 26 Copynumber: 2.7 Consensus size: 26
101705724 ATTATCTAAT
101705734 CCTTGTTGATAAGGATAGAGATTTCC
1 CCTTGTTGATAAGGATAGAGATTTCC
101705760 CCTTGTTGATAAGGATAGAGATTTCC
1 CCTTGTTGATAAGGATAGAGATTTCC
*
101705786 CCTTGTTGATAATGATAG
1 CCTTGTTGATAAGGATAG
101705804 CTTGTTTATA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (26 bp):
CCTTGTTGATAAGGATAGAGATTTCC
Found at i:101706041 original size:24 final size:23
Alignment explanation
Indices: 101706009--101706055 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
101705999 ACTTGATTAT
* * *
101706009 TAATTTAAATTTTTAAAATTTTA
1 TAATTTAAAATATTAAAAATTTA
101706032 TAATTATAAAATATTAAAAATTTA
1 TAATT-TAAAATATTAAAAATTTA
101706056 AAAAATAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TAATTTAAAATATTAAAAATTTA
Found at i:101706057 original size:16 final size:17
Alignment explanation
Indices: 101706033--101706077 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
101706023 AAAATTTTAT
101706033 AATTATAAAATATTAAA
1 AATTATAAAATATTAAA
* *
101706050 AATT-TAAAAAATAAGAA
1 AATTATAAAATATTA-AA
101706067 AATTATAAAAT
1 AATTATAAAAT
101706078 TATAAAGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 8 0.35
17 10 0.43
18 5 0.22
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (17 bp):
AATTATAAAATATTAAA
Found at i:101717597 original size:19 final size:19
Alignment explanation
Indices: 101717527--101717599 Score: 65
Period size: 20 Copynumber: 3.7 Consensus size: 19
101717517 TTCATAATAA
*
101717527 TTGATATACTCTTATAATGT
1 TTGATATACTTTTATAAT-T
* * * *
101717547 TTGATCTTCCTTCATAATT
1 TTGATATACTTTTATAATT
*
101717566 TTCGATACACTTTTATAATT
1 TT-GATATACTTTTATAATT
*
101717586 TTGATATTCTTTTA
1 TTGATATACTTTTA
101717600 AAAATTAAAA
Statistics
Matches: 40, Mismatches: 12, Indels: 3
0.73 0.22 0.05
Matches are distributed among these distances:
19 13 0.32
20 27 0.68
ACGTcount: A:0.26, C:0.14, G:0.07, T:0.53
Consensus pattern (19 bp):
TTGATATACTTTTATAATT
Found at i:101718643 original size:14 final size:14
Alignment explanation
Indices: 101718624--101718653 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
101718614 TTATATCGAG
101718624 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
101718638 ACCAATCCAATTCA
1 ACCAATCCAAATCA
101718652 AC
1 AC
101718654 ATATTTTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:101726662 original size:20 final size:20
Alignment explanation
Indices: 101726637--101726705 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
101726627 AAATATTTAG
101726637 CATAATTTTTTG-TATTTCTT
1 CATAA-TTTTTGATATTTCTT
**
101726657 CATAATAATTGATATATT-TT
1 CATAATTTTTGATAT-TTCTT
* *
101726677 TATAATGTTTGATATTTCTT
1 CATAATTTTTGATATTTCTT
101726697 CATAATTTT
1 CATAATTTT
101726706 CGGTACACTT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
19 6 0.15
20 31 0.79
21 2 0.05
ACGTcount: A:0.29, C:0.07, G:0.06, T:0.58
Consensus pattern (20 bp):
CATAATTTTTGATATTTCTT
Found at i:101726741 original size:20 final size:21
Alignment explanation
Indices: 101726678--101726750 Score: 64
Period size: 20 Copynumber: 3.7 Consensus size: 21
101726668 ATATATTTTT
* * *
101726678 ATAATGTTTGATATT-TCTTC
1 ATAATTTTTGGTATTCTCTTA
* **
101726698 ATAATTTTCGGTACACT-TTA
1 ATAATTTTTGGTATTCTCTTA
101726718 ATAATTTTTGGTATTCTCTT-
1 ATAATTTTTGGTATTCTCTTA
101726738 ATAA-TTTTGGTAT
1 ATAATTTTTGGTAT
101726751 AGTTTTTGAA
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
19 9 0.21
20 30 0.71
21 3 0.07
ACGTcount: A:0.26, C:0.10, G:0.11, T:0.53
Consensus pattern (21 bp):
ATAATTTTTGGTATTCTCTTA
Found at i:101732954 original size:76 final size:75
Alignment explanation
Indices: 101732856--101733004 Score: 237
Period size: 76 Copynumber: 2.0 Consensus size: 75
101732846 TGGTTTTGCA
* *
101732856 CACATTTTTATCATGGCTTTGCCATTATCACAT-ACTTTATCACATTGCCATAGCTTAACTATGG
1 CACATTTTTATCATGGCCTTGCCATGATCACATGA-TTTATCACATTGCCATAGCTTAACTATGG
*
101732920 TCTTGCACTTG
65 TCTTACACTTG
*
101732931 CACATATTTTATCATGGCCTTGCCATGATCACATGATTTATCACATTGCCATAGCTTAGCTATGG
1 CACAT-TTTTATCATGGCCTTGCCATGATCACATGATTTATCACATTGCCATAGCTTAACTATGG
101732996 TCTTACACT
65 TCTTACACT
101733005 GGCAAAAAAA
Statistics
Matches: 68, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
75 5 0.07
76 62 0.91
77 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.38
Consensus pattern (75 bp):
CACATTTTTATCATGGCCTTGCCATGATCACATGATTTATCACATTGCCATAGCTTAACTATGGT
CTTACACTTG
Found at i:101736705 original size:18 final size:18
Alignment explanation
Indices: 101736679--101736734 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 18
101736669 GAATTAATAG
*
101736679 AATTAAATTAATTAAATT
1 AATTCAATTAATTAAATT
* *
101736697 ATTTCAATTCGA-TAAATT
1 AATTCAATT-AATTAAATT
101736715 AATTCAATTTTAATTAAATT
1 AATTCAA--TTAATTAAATT
101736735 TTGCTTAACT
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
18 19 0.66
19 2 0.07
20 8 0.28
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.46
Consensus pattern (18 bp):
AATTCAATTAATTAAATT
Found at i:101738182 original size:15 final size:17
Alignment explanation
Indices: 101738144--101738188 Score: 60
Period size: 15 Copynumber: 2.8 Consensus size: 17
101738134 TCAAATCGAG
101738144 TTGAGTGAAA-TGAAAT
1 TTGAGTGAAATTGAAAT
101738160 TCTGAGTGAAATTG-AA-
1 T-TGAGTGAAATTGAAAT
101738176 TTGAGTGAAATTG
1 TTGAGTGAAATTG
101738189 TTCAAATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 12 0.44
16 2 0.07
17 11 0.41
18 2 0.07
ACGTcount: A:0.38, C:0.02, G:0.27, T:0.33
Consensus pattern (17 bp):
TTGAGTGAAATTGAAAT
Found at i:101738289 original size:10 final size:10
Alignment explanation
Indices: 101738276--101738313 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
101738266 ATTCTTTTAA
101738276 ATATTTTTTT
1 ATATTTTTTT
101738286 ATATTTTCTTT
1 ATATTTT-TTT
*
101738297 AGATTTTTTT
1 ATATTTTTTT
101738307 ATATTTT
1 ATATTTT
101738314 CTATTTTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (10 bp):
ATATTTTTTT
Found at i:101740243 original size:20 final size:20
Alignment explanation
Indices: 101740210--101740249 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
101740200 AAAAATTATG
101740210 AATTTTTTGAATTTTTTTTA
1 AATTTTTTGAATTTTTTTTA
101740230 AATTATTTTG-ATTTTTTTTA
1 AATT-TTTTGAATTTTTTTTA
101740250 TTGGATGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (20 bp):
AATTTTTTGAATTTTTTTTA
Found at i:101745529 original size:28 final size:29
Alignment explanation
Indices: 101745471--101745544 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 29
101745461 TTAATGACTA
101745471 AATTAAGATTTCTAAATTGAAAAGTAAAAT
1 AATTAA-ATTTCTAAATTGAAAAGTAAAAT
* * * *
101745501 AATTAAATTTTTAATTTTAAAA-TATAAT
1 AATTAAATTTCTAAATTGAAAAGTAAAAT
*
101745529 AATTAAATCTC-AAATT
1 AATTAAATTTCTAAATT
101745545 TTATAAAAGT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
27 4 0.11
28 14 0.38
29 13 0.35
30 6 0.16
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (29 bp):
AATTAAATTTCTAAATTGAAAAGTAAAAT
Found at i:101752999 original size:46 final size:46
Alignment explanation
Indices: 101752949--101753121 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
101752939 TGGTTGAGCA
*
101752949 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
101752995 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
101753040 CATCCGAACTCGTTGAGTTTAGTCCGAGTTCACTTATGGATACGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
101753088 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
101753122 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.56
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:101753105 original size:93 final size:93
Alignment explanation
Indices: 101752946--101753116 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
101752936 GGATGGTTGA
* * *
101752946 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
101753011 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
101753039 GCATCCGAACTCGTTGAGTTTAGTCCGAGTTCACTTATGGATACGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
101753104 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
101753117 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:101754221 original size:18 final size:19
Alignment explanation
Indices: 101754198--101754240 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
101754188 ATTTTTATTT
101754198 ATATATTATAAAT-ATTAA
1 ATATATTATAAATAATTAA
*
101754216 ATATATTTTAAATAATTAA
1 ATATATTATAAATAATTAA
*
101754235 AAATAT
1 ATATAT
101754241 ATTAAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATATATTATAAATAATTAA
Found at i:101754235 original size:19 final size:18
Alignment explanation
Indices: 101754198--101754247 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
101754188 ATTTTTATTT
*
101754198 ATATATTATAAATATTAA
1 ATATATTTTAAATATTAA
101754216 ATATATTTTAAATAATTAA
1 ATATATTTTAAAT-ATTAA
* *
101754235 AAATATATTAAAT
1 ATATATTTTAAAT
101754248 TAAGTCAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 12 0.43
19 16 0.57
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATATTTTAAATATTAA
Found at i:101754428 original size:30 final size:29
Alignment explanation
Indices: 101754390--101754449 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
101754380 CAATTACTTT
101754390 TGTTTATAAATTTTATAATACAAAAATTA
1 TGTTTATAAATTTTATAATACAAAAATTA
* * *
101754419 TGTTGTATAAATTTTTTTATACAAAACTTA
1 TGTT-TATAAATTTTATAATACAAAAATTA
101754449 T
1 T
101754450 ATCTACTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 4 0.15
30 23 0.85
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (29 bp):
TGTTTATAAATTTTATAATACAAAAATTA
Found at i:101761420 original size:42 final size:42
Alignment explanation
Indices: 101761357--101761438 Score: 155
Period size: 42 Copynumber: 2.0 Consensus size: 42
101761347 CTTTATAACA
*
101761357 ATCATATATAAACGTAGAATTGTAATTTCATACAATGTGATG
1 ATCATATATAAACGTAAAATTGTAATTTCATACAATGTGATG
101761399 ATCATATATAAACGTAAAATTGTAATTTCATACAATGTGA
1 ATCATATATAAACGTAAAATTGTAATTTCATACAATGTGA
101761439 CGAGGTGAGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (42 bp):
ATCATATATAAACGTAAAATTGTAATTTCATACAATGTGATG
Found at i:101767622 original size:22 final size:22
Alignment explanation
Indices: 101767562--101767619 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
101767552 TATAAAATAA
* *
101767562 TTATTAAACTATTCAATAA-TTT
1 TTATTAAATTATTTAA-AATTTT
101767584 TTATTAAATTATTTAAAATTTT
1 TTATTAAATTATTTAAAATTTT
101767606 TTATTTAAATTATT
1 TTA-TTAAATTATT
101767620 AAATTATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
21 2 0.06
22 20 0.62
23 10 0.31
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (22 bp):
TTATTAAATTATTTAAAATTTT
Found at i:101794282 original size:177 final size:177
Alignment explanation
Indices: 101793784--101795252 Score: 2543
Period size: 177 Copynumber: 8.3 Consensus size: 177
101793774 ATAGATTGAA
101793784 GAAGAAAGTAGATCTTGTCTTCATTGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCT
1 GAAGAAAGTAGATCTTGTCTTCA-TGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCT
101793849 TCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAG
65 TCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAG
101793914 GTCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATC
130 GTCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATC
101793962 GAAGAAAGTAGATCTTGTCTTCATTGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCT
1 GAAGAAAGTAGATCTTGTCTTCA-TGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCT
101794027 TCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAG
65 TCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAG
101794092 GTCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATC
130 GTCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATC
*
101794140 GAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTT
1 GAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTT
101794205 CCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGG
66 CCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGG
101794270 TCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATC
131 TCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATC
101794317 GAAGAAAGTAGATCTTGTCTTCATTGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCT
1 GAAGAAAGTAGATCTTGTCTTCA-TGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCT
101794382 TCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAG
65 TCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAG
101794447 GTCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATC
130 GTCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATC
*
101794495 GAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTT
1 GAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTT
*
101794560 CCTATATTGGTAGGAAGTGGATCGAAGATGCAGATATTGTCTTCCCATATTGGTGGCGAAGTAGG
66 CCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGG
101794625 TCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATC
131 TCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATC
101794672 GAAGAAAGTAGATCTTGTCTTCATTGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCT
1 GAAGAAAGTAGATCTTGTCTTCA-TGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCT
*
101794737 TCCTATATTGGTAGGAAGTGGATCGAAGATACAGATCTTGTCTTCCCATATTGGTGGCGAAGTAG
65 TCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAG
101794802 GTCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATC
130 GTCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATC
*
101794850 GAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTT
1 GAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTT
*
101794915 CCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGA
66 CCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGG
* *
101794980 TCGAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATC
131 TCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATC
*** * * * * * *
101795026 GAAGAAAGTAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTATCT
1 GAAGAAAGTAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATATCAGATCCTATCT
* * * * * * * * *
101795091 TCATGTATTGG-CGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAG-GAAGT
65 TCCTATATTGGTAG-GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGT
* *
101795154 -GGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATC
128 AGG-TCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATC
* * * *
101795203 GAAGAAAGCAGATCTTGTCTTCAGGCATTAGCGTGAAGTAGATCGAAGAT
1 GAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAT
101795253 GCCGATCTTG
Statistics
Matches: 1243, Mismatches: 42, Indels: 14
0.96 0.03 0.01
Matches are distributed among these distances:
176 82 0.07
177 589 0.47
178 572 0.46
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (177 bp):
GAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTT
CCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGG
TCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATC
Found at i:101794459 original size:355 final size:355
Alignment explanation
Indices: 101793784--101795252 Score: 2590
Period size: 355 Copynumber: 4.1 Consensus size: 355
101793774 ATAGATTGAA
*
101793784 GAAGAAAGTAGATCTTGTCTTCATTGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCT
1 GAAGAAAGCAGATCTTGTCTTCA-TGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCT
101793849 TCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAG
65 TCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAG
101793914 GTCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGAAGAAAGTAGATCTTG
130 GTCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGAAGAAAGTAGATCTTG
101793979 TCTTCATTGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAGGAA
195 TCTTCATTGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAGGAA
101794044 GTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGGTCGAAGAAAGCAGATC
260 GTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGGTCGAAGAAAGCAGATC
101794109 TTGTCTTCCCATATTGGTGGCGAAGCAGATC
325 TTGTCTTCCCATATTGGTGGCGAAGCAGATC
101794140 GAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTT
1 GAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTT
101794205 CCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGG
66 CCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGG
101794270 TCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGAAGAAAGTAGATCTTGT
131 TCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGAAGAAAGTAGATCTTGT
101794335 CTTCATTGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAGGAAG
196 CTTCATTGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAGGAAG
101794400 TGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGGTCGAAGAAAGCAGATCT
261 TGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGGTCGAAGAAAGCAGATCT
101794465 TGTCTTCCCATATTGGTGGCGAAGCAGATC
326 TGTCTTCCCATATTGGTGGCGAAGCAGATC
101794495 GAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTT
1 GAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTT
*
101794560 CCTATATTGGTAGGAAGTGGATCGAAGATGCAGATATTGTCTTCCCATATTGGTGGCGAAGTAGG
66 CCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGG
101794625 TCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGAAGAAAGTAGATCTTGT
131 TCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGAAGAAAGTAGATCTTGT
101794690 CTTCATTGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAGGAAG
196 CTTCATTGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAGGAAG
*
101794755 TGGATCGAAGATACAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGGTCGAAGAAAGCAGATCT
261 TGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGGTCGAAGAAAGCAGATCT
101794820 TGTCTTCCCATATTGGTGGCGAAGCAGATC
326 TGTCTTCCCATATTGGTGGCGAAGCAGATC
101794850 GAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTT
1 GAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTT
*
101794915 CCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGA
66 CCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGG
* *
101794980 TCGAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGT
131 TCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGAAGAAAGTAGATCTTGT
*** * * * * * * * * *
101795044 CTTC-CCATATTGGTGGCGAAGCAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGG-CGTGA
196 CTTCATTGTATTGG-CGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAG-GA
* * * * * * *
101795107 AGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAG-GAAGT-GGATCGAAG-ATGCAG
259 AGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGG-TCGAAGAAAGCAG
*
101795169 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATC
322 ATCTTGTCTTCCCATATTGGTGGCGAAGCAGATC
* * *
101795203 GAAGAAAGCAGATCTTGTCTTCAGGCATTAGCGTGAAGTAGATCGAAGAT
1 GAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGAT
101795253 GCCGATCTTG
Statistics
Matches: 1079, Mismatches: 30, Indels: 11
0.96 0.03 0.01
Matches are distributed among these distances:
353 94 0.09
354 122 0.11
355 841 0.78
356 22 0.02
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (355 bp):
GAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTT
CCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGG
TCGAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATCGAAGAAAGTAGATCTTGT
CTTCATTGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGTAGGAAG
TGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGGTCGAAGAAAGCAGATCT
TGTCTTCCCATATTGGTGGCGAAGCAGATC
Found at i:101795355 original size:44 final size:44
Alignment explanation
Indices: 101793784--101795436 Score: 1402
Period size: 45 Copynumber: 37.3 Consensus size: 44
101793774 ATAGATTGAA
* * * *
101793784 GAAGAAAGTAGATCTTGTCTTCATTGTATTGGCGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTC-CTATATTGGCGTGAAGTAGATC
* * * * *
101793829 GAAGATATCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATC
* * * *
101793873 GAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGGTC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATC
* * * * *
101793917 GAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATC
* * * *
101793962 GAAGAAAGTAGATCTTGTCTTCATTGTATTGGCGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTC-CTATATTGGCGTGAAGTAGATC
* * * * *
101794007 GAAGATATCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATC
* * * *
101794051 GAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGGTC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATC
* * * * *
101794095 GAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATC
* * *
101794140 GAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATC
* * * * *
101794184 GAAGATATCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATC
* * * *
101794228 GAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGGTC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATC
* * * * *
101794272 GAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATC
* * * *
101794317 GAAGAAAGTAGATCTTGTCTTCATTGTATTGGCGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTC-CTATATTGGCGTGAAGTAGATC
* * * * *
101794362 GAAGATATCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATC
* * * *
101794406 GAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGGTC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATC
* * * * *
101794450 GAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATC
* * *
101794495 GAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATC
* * * * *
101794539 GAAGATATCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATC
* * * * *
101794583 GAAGAT-GCAGATATTGTCTTCCCATATTGGTGGCGAAGTAGGTC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATC
* * * * *
101794627 GAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATC
* * * *
101794672 GAAGAAAGTAGATCTTGTCTTCATTGTATTGGCGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTC-CTATATTGGCGTGAAGTAGATC
* * * * *
101794717 GAAGATATCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATC
* * * *
101794761 GAAGATA-CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGGTC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATC
* * * * *
101794805 GAAGAAAGCAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATC
* * *
101794850 GAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATC
* * * * *
101794894 GAAGATATCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATC
* * *
101794938 GAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATC
* * *
101794982 GAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATC
* * * * * *
101795026 GAAGAAAGTAGATCTTGTCTTCCCATATTGGTGGCGAAGCAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATC
* * * *
101795071 GAAGAAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATC
* * * * *
101795115 GAAGATATCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATC
* * *
101795159 GAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATC
* **** *
101795203 GAAGAAAGCAGATCTTGTCTTCAGGCATTAGCGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATC
* * * *
101795247 GAAGAT-GCCGATCTTGTCTTCCCATATTGGCGGCGAAGTAGATT
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGC-GTGAAGTAGATC
* * * *
101795291 GCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATC
* * ** * * *
101795335 AAAGGTAGCAGATCCGGTCTTCCTATATTGGTAG-GAAGTGGATT
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATC
* * * *
101795379 GACGAT-GCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATC
1 GAAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATC
*
101795423 GAAGAAAGCAGATC
1 GAAGATAGCAGATC
101795437 GACAATGGCG
Statistics
Matches: 1338, Mismatches: 238, Indels: 64
0.82 0.15 0.04
Matches are distributed among these distances:
43 216 0.16
44 527 0.39
45 577 0.43
46 18 0.01
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (44 bp):
GAAGATAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATC
Found at i:101798174 original size:106 final size:106
Alignment explanation
Indices: 101798038--101798238 Score: 375
Period size: 106 Copynumber: 1.9 Consensus size: 106
101798028 AAAATTTTTC
101798038 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
*
101798103 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTT
66 TTCTCGTTCGACCAAACAGCCAAATATCCTTTTTAAACTTT
*
101798144 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
*
101798209 TTCTCGTTCGACTAAACAGCCAAATATCCT
66 TTCTCGTTCGACCAAACAGCCAAATATCCT
101798239 CTTAAAGCTT
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 92 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.30
Consensus pattern (106 bp):
TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGAT
TTCTCGTTCGACCAAACAGCCAAATATCCTTTTTAAACTTT
Found at i:101808623 original size:18 final size:19
Alignment explanation
Indices: 101808597--101808637 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
101808587 GTTTCTAAAA
*
101808597 TAATTTTAAATT-TTTA-T
1 TAATTTTTAATTGTTTATT
101808614 TAATTTTTAATTGTTTATT
1 TAATTTTTAATTGTTTATT
101808633 TAATT
1 TAATT
101808638 GATGTTGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 11 0.52
18 4 0.19
19 6 0.29
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
TAATTTTTAATTGTTTATT
Found at i:101814156 original size:8 final size:8
Alignment explanation
Indices: 101814143--101814176 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
101814133 CTTTTAACAT
101814143 TTATAAAA
1 TTATAAAA
101814151 TTAT-AAA
1 TTATAAAA
101814158 TTATAAAA
1 TTATAAAA
*
101814166 TAATAAAA
1 TTATAAAA
101814174 TTA
1 TTA
101814177 CAATTTAACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TTATAAAA
Found at i:101814163 original size:15 final size:15
Alignment explanation
Indices: 101814143--101814172 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
101814133 CTTTTAACAT
*
101814143 TTATAAAATTATAAA
1 TTATAAAATAATAAA
101814158 TTATAAAATAATAAA
1 TTATAAAATAATAAA
101814173 ATTACAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TTATAAAATAATAAA
Found at i:101817022 original size:17 final size:16
Alignment explanation
Indices: 101816994--101817046 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
101816984 TTTGGTTCGC
101816994 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
101817010 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
101817027 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
101817043 TGTA
1 TGTA
101817047 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:101817111 original size:44 final size:45
Alignment explanation
Indices: 101817027--101817117 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
101817017 GGATTAGAGG
* * *
101817027 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
101817072 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
101817116 TG
1 TG
101817118 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:101817303 original size:18 final size:19
Alignment explanation
Indices: 101817282--101817318 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
101817272 TTATTATTAA
101817282 ATAT-ATTT-TAATTAAAAT
1 ATATAATTTATAA-TAAAAT
101817300 ATATAATTTATAATAAAAT
1 ATATAATTTATAATAAAAT
101817319 TCTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 10 0.59
20 3 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATAATTTATAATAAAAT
Found at i:101817426 original size:59 final size:58
Alignment explanation
Indices: 101817360--101817545 Score: 157
Period size: 59 Copynumber: 3.1 Consensus size: 58
101817350 CTCAAATCAT
* *
101817360 AATATATGATACTATAAAATATAATTTGAAATAATTAATATTAAATATATTTTAATTAA
1 AATATATGATACTATAAAATATAATTT-AAATAATTATTATTAAATATATTTTAATAAA
* * * * *
101817419 AATATATGAT-TTAATAAAATTCTTAATATTAAAT-ATTCTTATATGAAT-T-TTCTAA-AATCA
1 AATATATGATACT-ATAAAA-T-ATAAT-TTAAATAATTATTAT-TAAATATATTTTAATAA--A
* **
101817479 TAATATATAATACTATAAAATATAATTTAACATAATTATTATTAAATATAAGTTAATAAA
1 -AATATATGATACTATAAAATATAATTTAA-ATAATTATTATTAAATATATTTTAATAAA
101817539 AATATAT
1 AATATAT
101817546 AATTTATCAT
Statistics
Matches: 98, Mismatches: 15, Indels: 28
0.70 0.11 0.20
Matches are distributed among these distances:
58 6 0.06
59 38 0.39
60 19 0.19
61 30 0.31
62 5 0.05
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (58 bp):
AATATATGATACTATAAAATATAATTTAAATAATTATTATTAAATATATTTTAATAAA
Found at i:101817483 original size:120 final size:120
Alignment explanation
Indices: 101817262--101817551 Score: 456
Period size: 120 Copynumber: 2.4 Consensus size: 120
101817252 TTAATCATAT
101817262 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTATAATAAAATTCTTAATA
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAA-TT-TAATAAAATTCTTAATA
* * *
101817327 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAA
64 ATAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * *
101817384 TTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAT
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
*
101817448 TAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
65 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
** *
101817504 TTTAACATAATTATTATTAAATATAAGTTAATAAAAATATATAATTTA
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTA
101817552 TCATCATACT
Statistics
Matches: 154, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
119 2 0.01
120 109 0.71
121 2 0.01
122 39 0.25
123 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:101822100 original size:149 final size:150
Alignment explanation
Indices: 101821935--101822228 Score: 518
Period size: 149 Copynumber: 2.0 Consensus size: 150
101821925 TATAAAATTA
*
101821935 TAAATTGAATGAAAATTCAAATTTAATTTTGATATTTATTCTAAATATTTTTTAAAACTAAATCT
1 TAAATTGAATCAAAATTCAAATTTAATTTTGATATTTATTCTAAATATTTTTTAAAACTAAATCT
*
101822000 CACGTATGTAAATTATATATTTACTTCACCCTGTGTCAACTGAAAACACATCAAAGCTAGCGGCA
66 CACGTATGTAAATTATATATTTACTTCACCCTGTGCCAACTGAAAACACATCAAAGCTAGCGGCA
*
101822065 GAGAG-AAGGGGGGGGGCCT
131 GAGAGCAAGAGGGGGGGCCT
* *
101822084 TAAATTGAATCAAAATTCAAATTTATTTTTGATATTTATTCTAACTATTTTTTAAAACTAAATCT
1 TAAATTGAATCAAAATTCAAATTTAATTTTGATATTTATTCTAAATATTTTTTAAAACTAAATCT
* *
101822149 CATGTATGTAAATTATATATTTACTTCACCCTGTGCCAACTGAAGACACATCAAAGCTAGCGGCA
66 CACGTATGTAAATTATATATTTACTTCACCCTGTGCCAACTGAAAACACATCAAAGCTAGCGGCA
101822214 GAGAGCAAGAGGGGG
131 GAGAGCAAGAGGGGG
101822229 CCCCTATTCT
Statistics
Matches: 137, Mismatches: 7, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
149 129 0.94
150 8 0.06
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (150 bp):
TAAATTGAATCAAAATTCAAATTTAATTTTGATATTTATTCTAAATATTTTTTAAAACTAAATCT
CACGTATGTAAATTATATATTTACTTCACCCTGTGCCAACTGAAAACACATCAAAGCTAGCGGCA
GAGAGCAAGAGGGGGGGCCT
Found at i:101824027 original size:24 final size:24
Alignment explanation
Indices: 101823980--101824027 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
101823970 AAAAAAACCT
**
101823980 TATAATGATATTCTTTTTTATAAA
1 TATAATGATATAATTTTTTATAAA
101824004 TATAATGATATAATTTATTT-TAAA
1 TATAATGATATAATTT-TTTATAAA
101824028 AAAAAGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (24 bp):
TATAATGATATAATTTTTTATAAA
Found at i:101834042 original size:40 final size:40
Alignment explanation
Indices: 101833987--101834068 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
101833977 GTGTCTTATA
101833987 TATTAAAAAATAATAATTTTATCCTTATACACATTTTTTT
1 TATTAAAAAATAATAATTTTATCCTTATACACATTTTTTT
101834027 TATTAAAAAATAATAATTTTATCCTTATACACATTTTTTT
1 TATTAAAAAATAATAATTTTATCCTTATACACATTTTTTT
101834067 TA
1 TA
101834069 AATTACTAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (40 bp):
TATTAAAAAATAATAATTTTATCCTTATACACATTTTTTT
Found at i:101835255 original size:31 final size:29
Alignment explanation
Indices: 101835217--101835277 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 29
101835207 AGTCTCAAAA
*
101835217 TTATATATGAATTTTAGTTTAATGTGTAATT
1 TTATATATGAATTTTAATTT--TGTGTAATT
101835248 TTATATATGAATTTTAATTTTGTGTAATT
1 TTATATATGAATTTTAATTTTGTGTAATT
101835277 T
1 T
101835278 CATACATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 10 0.34
31 19 0.66
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.57
Consensus pattern (29 bp):
TTATATATGAATTTTAATTTTGTGTAATT
Found at i:101835298 original size:29 final size:29
Alignment explanation
Indices: 101835239--101835297 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
101835229 TTTAGTTTAA
* * *
101835239 TGTGTAATTTTATATATGAATTTTAATTT
1 TGTGTAATTTCATACATAAATTTTAATTT
*
101835268 TGTGTAATTTCATACATAAAATTTTGATTT
1 TGTGTAATTTCATACAT-AAATTTTAATTT
101835298 GATCTAGTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.32, C:0.03, G:0.10, T:0.54
Consensus pattern (29 bp):
TGTGTAATTTCATACATAAATTTTAATTT
Found at i:101835436 original size:31 final size:30
Alignment explanation
Indices: 101835400--101835496 Score: 106
Period size: 31 Copynumber: 3.2 Consensus size: 30
101835390 ATAAAAATAA
101835400 ATGTATATAATTGAACCAAAATTAAAGTTTC
1 ATGTATATAATTGAACCAAAATTAAA-TTTC
* * *
101835431 ATGTATACATTTGAACCAAAATAAAATTTCC
1 ATGTATATAATTGAACCAAAATTAAATTT-C
** * *
101835462 ATAAATATAATTTAACC-AAATTAAAATTC
1 ATGTATATAATTGAACCAAAATTAAATTTC
101835491 ATGTAT
1 ATGTAT
101835497 CAAATTACAC
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
29 5 0.09
30 12 0.23
31 36 0.68
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.35
Consensus pattern (30 bp):
ATGTATATAATTGAACCAAAATTAAATTTC
Found at i:101836485 original size:29 final size:28
Alignment explanation
Indices: 101836453--101836519 Score: 71
Period size: 30 Copynumber: 2.3 Consensus size: 28
101836443 TAATTTTTCC
** * *
101836453 TTAATAATTATTAAATTATTTTATTGAA
1 TTAATAATTAAAAAATTAATTTATCGAA
*
101836481 TTTAATAAATAAAAAAATTAATTTATCGAA
1 -TTAAT-AATTAAAAAATTAATTTATCGAA
101836511 TTAATAATT
1 TTAATAATT
101836520 TTGTTCAATC
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
28 3 0.10
29 10 0.32
30 18 0.58
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (28 bp):
TTAATAATTAAAAAATTAATTTATCGAA
Found at i:101845934 original size:46 final size:46
Alignment explanation
Indices: 101845882--101846148 Score: 297
Period size: 46 Copynumber: 5.6 Consensus size: 46
101845872 TTTGAGTACT
* **
101845882 TCTGATCAAATGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAATGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* * *
101845928 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAATGAC------AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
101845980 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAATGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
101846026 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAATGAC------AAAGTGATAAGTGATAGCTTCGGCTACACTTA
**
101846078 TCTGATCAAGA-GACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAA-ATGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
101846124 TCTGATC-AA-GACAAAGTGATAAGTG
1 TCTGATCAAATGACAAAGTGATAAGTG
101846149 GCTACACTTA
Statistics
Matches: 195, Mismatches: 13, Indels: 28
0.83 0.06 0.12
Matches are distributed among these distances:
44 17 0.09
45 1 0.01
46 93 0.48
52 84 0.43
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (46 bp):
TCTGATCAAATGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:101845979 original size:52 final size:51
Alignment explanation
Indices: 101845896--101846133 Score: 307
Period size: 52 Copynumber: 4.8 Consensus size: 51
101845886 ATCAAATGAC
* **
101845896 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGT-G
* *
101845948 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
101845994 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
* *
101846045 AAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC-----
1 -AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
**
101846092 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAG
101846134 ACAAAGTGAT
Statistics
Matches: 168, Mismatches: 12, Indels: 18
0.85 0.06 0.09
Matches are distributed among these distances:
46 83 0.49
52 85 0.51
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (51 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
Found at i:101846003 original size:98 final size:98
Alignment explanation
Indices: 101845882--101846133 Score: 441
Period size: 98 Copynumber: 2.6 Consensus size: 98
101845872 TTTGAGTACT
* *
101845882 TCTGATCAAATGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
101845947 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
101845980 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
101846045 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
101846078 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAG
101846134 ACAAAGTGAT
Statistics
Matches: 145, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 145 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:101846175 original size:37 final size:37
Alignment explanation
Indices: 101846114--101846257 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
101846104 GATAGCTTTA
101846114 GCTACACTTATCTGATCAAG--ACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
101846149 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
101846186 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
101846223 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
101846258 ATCATACGTA
Statistics
Matches: 103, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
35 31 0.30
36 4 0.04
37 68 0.66
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:101846250 original size:72 final size:72
Alignment explanation
Indices: 101846114--101846257 Score: 229
Period size: 72 Copynumber: 2.0 Consensus size: 72
101846104 GATAGCTTTA
101846114 GCTACACTTATCTGATCAAGACAAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAAAGTG
1 GCTACACTTATCTGATCAAGACAAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAAAGTG
101846179 ATAAGTG
66 ATAAGTG
* **
101846186 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTGGCTACACTTATCTGATC-AGGGAC-AAG
1 GCTACACTTATCTGATCAAG--ACAAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAAAG
101846249 TGATAAGTG
64 TGATAAGTG
101846258 ATCATACGTA
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
72 32 0.48
73 4 0.06
74 31 0.46
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (72 bp):
GCTACACTTATCTGATCAAGACAAAGTGATAAGTGGCTACACTTATCTGATCAAGAAACAAAGTG
ATAAGTG
Found at i:101848067 original size:39 final size:39
Alignment explanation
Indices: 101848020--101848274 Score: 370
Period size: 39 Copynumber: 6.5 Consensus size: 39
101848010 GTGTGAGATA
* *
101848020 TATATCCGGGCTAATTCCCGAAGGCATTCGTGCTAGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
* *
101848059 TATATCCGGGCTAAGTCCCGAAGGTATTCGTGCTGGTAT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
* *
101848098 TATATCCAGGCTAAGTCCCGAAGGTATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
101848137 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
101848176 TATA-CCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
1 TATATCC-GGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
* * * *
101848215 TATATCCGGGCTAAGTCCTGAAGGC-TTTGTGCTAGTAT
1 TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
*
101848253 TACATCCGGGCTTAAAGTCCCG
1 TATATCCGGGC-T-AAGTCCCG
101848275 CATGCTTTGT
Statistics
Matches: 198, Mismatches: 14, Indels: 7
0.90 0.06 0.03
Matches are distributed among these distances:
38 22 0.11
39 167 0.84
40 9 0.05
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (39 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGT
Found at i:101848167 original size:117 final size:116
Alignment explanation
Indices: 101847990--101848274 Score: 371
Period size: 117 Copynumber: 2.4 Consensus size: 116
101847980 ATTTTAACCG
* * * *
101847990 GGCTAAGACCCGCAGGCCTTGTG-TGAG-ATATATATCCGGGCTAATTCCCGAAGGCATTCGTGC
1 GGCTAAGTCCCGAAGGCTTTGTGCT-AGTAT-TATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
101848053 TAGTGTTATATCC-GGGCTAAGTCCCGAAGGTATTCGTGCTGGTATTATATCCA
64 TAGTGTTATA-CCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCA
* *
101848106 GGCTAAGTCCCGAAGG-TATTCGTGCTGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 GGCTAAGTCCCGAAGGCT-TT-GTGCTAGTATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* * *
101848170 TGGTGTTATACCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATATCCG
64 TAGTGTTATACCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCA
* *
101848223 GGCTAAGTCCTGAAGGCTTTGTGCTAGTATTACATCCGGGCTTAAAGTCCCG
1 GGCTAAGTCCCGAAGGCTTTGTGCTAGTATTATATCCGGGC-T-AAGTCCCG
101848275 CATGCTTTGT
Statistics
Matches: 147, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
116 36 0.24
117 100 0.68
118 11 0.07
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.29
Consensus pattern (116 bp):
GGCTAAGTCCCGAAGGCTTTGTGCTAGTATTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTA
GTGTTATACCTGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATTATATCCA
Found at i:101848291 original size:78 final size:75
Alignment explanation
Indices: 101847987--101848291 Score: 303
Period size: 78 Copynumber: 3.9 Consensus size: 75
101847977 AGGATTTTAA
* * * * *
101847987 CCGGGCTAAGACCCGCAGGCCTTGTG-TGAG-ATATATATCCGGGCTAATTCCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCTTTGTGCTG-GTAT-TATATCCGGGCTAAGTCCCGAA-GC-TTTG
*
101848050 TGCTAGTGTTATAT
62 TGCTGGTGTTATAT
* *
101848064 CCGGGCTAAGTCCCGAAGG-TATTCGTGCTGGTATTATATCCAGGCTAAGTCCCGAAGGTATTCG
1 CCGGGCTAAGTCCCGAAGGCT-TT-GTGCTGGTATTATATCCGGGCTAAGTCCCGAAGCT-TT-G
101848128 TGCTGGTGTTATAT
62 TGCTGGTGTTATAT
* * *
101848142 CCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTGTTATA-CCTGGGCTAAGTCCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTGGTATTATATCC-GGGCTAAGTCCCGAA-GC-TTTG
101848206 TGCTGGTGTTATAT
62 TGCTGGTGTTATAT
* * * *
101848220 CCGGGCTAAGTCCTGAAGGCTTTGTGCTAGTATTACATCCGGGCTTAAAGTCCCGCATGCTTTGT
1 CCGGGCTAAGTCCCGAAGGCTTTGTGCTGGTATTATATCCGGGC-T-AAGTCCCG-AAGCTTTGT
*
101848285 GGTGGTG
63 GCTGGTG
101848292 ATTGGATTTG
Statistics
Matches: 192, Mismatches: 21, Indels: 29
0.79 0.09 0.12
Matches are distributed among these distances:
76 1 0.01
77 40 0.21
78 131 0.68
79 17 0.09
80 3 0.02
ACGTcount: A:0.19, C:0.22, G:0.29, T:0.29
Consensus pattern (75 bp):
CCGGGCTAAGTCCCGAAGGCTTTGTGCTGGTATTATATCCGGGCTAAGTCCCGAAGCTTTGTGCT
GGTGTTATAT
Found at i:101853410 original size:19 final size:19
Alignment explanation
Indices: 101853386--101853427 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
101853376 ATTATATTCA
101853386 ATAAAAGATAACA-AAATAT
1 ATAAAA-ATAACACAAATAT
*
101853405 ATAAAATTAACACAAATAT
1 ATAAAAATAACACAAATAT
101853424 -TAAA
1 ATAAA
101853428 GTTTTACAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.24
Consensus pattern (19 bp):
ATAAAAATAACACAAATAT
Found at i:101856292 original size:14 final size:14
Alignment explanation
Indices: 101856243--101856293 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
101856233 AGTGATATAA
*
101856243 TTAAAAAAATAATAT
1 TTAATAAAATAAT-T
*
101856258 TGTAATAAAATTAAAT
1 T-TAATAAAA-TAATT
101856274 TTAATAAAATAATT
1 TTAATAAAATAATT
101856288 TTAATA
1 TTAATA
101856294 GTATTAACGA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 10 0.32
15 9 0.29
16 9 0.29
17 3 0.10
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (14 bp):
TTAATAAAATAATT
Found at i:101860087 original size:15 final size:15
Alignment explanation
Indices: 101860065--101860099 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
101860055 CGGATGAAAT
101860065 TTTA-ATTTTTATAA
1 TTTATATTTTTATAA
101860079 TTTATATTTTTATAA
1 TTTATATTTTTATAA
101860094 TTTATA
1 TTTATA
101860100 AAGGATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTTATATTTTTATAA
Found at i:101866778 original size:11 final size:11
Alignment explanation
Indices: 101866762--101866798 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
101866752 TTATAAATTA
101866762 TAATTAATATG
1 TAATTAATATG
101866773 TAATTAA-A--
1 TAATTAATATG
101866781 TAATTAATATG
1 TAATTAATATG
101866792 TAATTAA
1 TAATTAA
101866799 ATAAACTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
8 7 0.30
9 1 0.04
10 1 0.04
11 14 0.61
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.43
Consensus pattern (11 bp):
TAATTAATATG
Found at i:101866785 original size:19 final size:19
Alignment explanation
Indices: 101866761--101866802 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
101866751 TTTATAAATT
101866761 ATAATTAATATGTAATTAA
1 ATAATTAATATGTAATTAA
101866780 ATAATTAATATGTAATTAA
1 ATAATTAATATGTAATTAA
101866799 ATAA
1 ATAA
101866803 ACTTTTAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (19 bp):
ATAATTAATATGTAATTAA
Found at i:101872412 original size:12 final size:11
Alignment explanation
Indices: 101872394--101872423 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
101872384 AATTGAGATT
101872394 AAAAAATATTA
1 AAAAAATATTA
101872405 ATAAAAATATTA
1 A-AAAAATATTA
101872417 AAAAAAT
1 AAAAAAT
101872424 TAAAGTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AAAAAATATTA
Found at i:101874202 original size:3 final size:3
Alignment explanation
Indices: 101874184--101874234 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
101874174 TTAAATACTC
* *
101874184 TTA TTA TTT TTA -TA TTA TTAA TT- TTA TTA TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
101874228 TGTA TTA
1 T-TA TTA
101874235 GTTTATGTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 4 0.10
3 30 0.75
4 6 0.15
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:101874214 original size:15 final size:15
Alignment explanation
Indices: 101874184--101874234 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
101874174 TTAAATACTC
*
101874184 TTATTATTTTTA-TA
1 TTATTAATTTTATTA
101874198 TTATTAATTTTATTA
1 TTATTAATTTTATTA
*
101874213 TTATTAATATTATTA
1 TTATTAATTTTATTA
101874228 TGTATTA
1 T-TATTA
101874235 GTTTATGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.33
15 17 0.52
16 5 0.15
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
TTATTAATTTTATTA
Found at i:101876501 original size:168 final size:167
Alignment explanation
Indices: 101876223--101876689 Score: 582
Period size: 155 Copynumber: 2.9 Consensus size: 167
101876213 AAGATTTTCA
* * * *
101876223 TAAAGAAGCTGAATATAAGTCACTTAATTTGTTTATCATATAGTCCTTGTGTCCATAATTGCTAT
1 TAAAGAAGCTGAATATAGGTCACTTAATTTGTTTATCATGTAGTCCTTGTGTCCATAATTACTTT
* *
101876288 TTAGACTCAATTATATAATTTTGGGCTTTAGAATTGGGTTTAGGAATAGGTCACATAATTACTTT
66 TTAGACTCAATTATATAAATTTAGGCTTTAGAATTGGGTTTAGGAATAGGTCACATAATTA-TTT
*
101876353 CAACTCATAATTTTGCAAGTCAATAATTAATTTTACCT
130 CAACTCATAATTTTGCAAGTCAATAATTAATTTTACCC
* * *
101876391 TAAAGAAGTTGAATATAGGTCATTTAATTTGTTTATCATGTATTCCTTGTGTCCATAATTACTTT
1 TAAAGAAGCTGAATATAGGTCACTTAATTTGTTTATCATGTAGTCCTTGTGTCCATAATTACTTT
* *
101876456 TTAGACTAAATTATATAAATTTAGGCTTTAGAATTGGGTTTAGGAAGAGGTCAC------A--T-
66 TTAGACTCAATTATATAAATTTAGGCTTTAGAATTGGGTTTAGGAATAGGTCACATAATTATTTC
* * * *
101876512 AA-T--TGATTTGGCATGTCTATAATTAATTTTACCC
131 AACTCATAATTTTGCAAGTCAATAATTAATTTTACCC
* * * *
101876546 TAAAGAAGGTGAATATAGGTCACTTAATTTGTTTATCATGTAGTCCTTGTGTCCTTAGTTACATT
1 TAAAGAAGCTGAATATAGGTCACTTAATTTGTTTATCATGTAGTCCTTGTGTCCATAATTACTTT
* * ** *
101876611 ATAGGCTCAATTATAT-AATTCTAGGCTTTAGGCTTGGGTTTAGGAATAGGTCGCATAATTATTT
66 TTAGACTCAATTATATAAATT-TAGGCTTTAGAATTGGGTTTAGGAATAGGTCACATAATTA-TT
*
101876675 TCGACTCATAATTTT
129 TCAACTCATAATTTT
101876690 ATTAATCTAC
Statistics
Matches: 253, Mismatches: 32, Indels: 28
0.81 0.10 0.09
Matches are distributed among these distances:
154 4 0.02
155 127 0.50
157 1 0.00
158 2 0.01
159 1 0.00
161 1 0.00
162 1 0.00
164 1 0.00
165 1 0.00
166 1 0.00
168 113 0.45
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (167 bp):
TAAAGAAGCTGAATATAGGTCACTTAATTTGTTTATCATGTAGTCCTTGTGTCCATAATTACTTT
TTAGACTCAATTATATAAATTTAGGCTTTAGAATTGGGTTTAGGAATAGGTCACATAATTATTTC
AACTCATAATTTTGCAAGTCAATAATTAATTTTACCC
Found at i:101878166 original size:30 final size:30
Alignment explanation
Indices: 101878121--101878199 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 30
101878111 GGTTTTGTAC
* * *
101878121 AATTAAATATATAAATTTTTATTTAAATTT
1 AATTATATATTTAAATATTTATTTAAATTT
* *
101878151 AATTGTATATTTAAATATTTATTTTAATTT
1 AATTATATATTTAAATATTTATTTAAATTT
101878181 AATTATATACATTTAAATA
1 AATTATAT--ATTTAAATA
101878200 AATACTTTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
30 32 0.78
32 9 0.22
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (30 bp):
AATTATATATTTAAATATTTATTTAAATTT
Found at i:101878209 original size:32 final size:30
Alignment explanation
Indices: 101878146--101878222 Score: 82
Period size: 32 Copynumber: 2.4 Consensus size: 30
101878136 TTTTTATTTA
* ** *
101878146 AATTTAATTGTATATTTAAATATTTATTTT
1 AATTTAATTATATATTTAAATAAATACTTT
101878176 AATTTAATTATATACATTTAAATAAATACTTT
1 AATTTAATTATAT--ATTTAAATAAATACTTT
101878208 AATTTATAGTTATAT
1 AATTTA-A-TTATAT
101878223 TAGATAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
30 12 0.31
32 20 0.51
33 1 0.03
34 6 0.15
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (30 bp):
AATTTAATTATATATTTAAATAAATACTTT
Found at i:101880068 original size:25 final size:25
Alignment explanation
Indices: 101880040--101880095 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
101880030 CTGAAAATTG
*
101880040 AAAAAATCTTTAT-AATCTA-ATAAA
1 AAAAAATATTTATAAAT-TATATAAA
101880064 TAAAAAA-ATTTATAAATTATATAAA
1 -AAAAAATATTTATAAATTATATAAA
101880089 AAAAAAT
1 AAAAAAT
101880096 TTAATTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
24 13 0.48
25 14 0.52
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (25 bp):
AAAAAATATTTATAAATTATATAAA
Found at i:101882384 original size:26 final size:26
Alignment explanation
Indices: 101882355--101882415 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 26
101882345 CAAAAAACAA
*
101882355 ACCCATTTTACAAAATTAAAATTCTT
1 ACCCATTTTACAAAATTAAAAGTCTT
101882381 ACCCATTTTACAAAATTAAAAGTCTT
1 ACCCATTTTACAAAATTAAAAGTCTT
101882407 ACTCCATTT
1 AC-CCATTT
101882416 GATAAGTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 27 0.82
27 6 0.18
ACGTcount: A:0.39, C:0.21, G:0.02, T:0.38
Consensus pattern (26 bp):
ACCCATTTTACAAAATTAAAAGTCTT
Found at i:101901229 original size:167 final size:167
Alignment explanation
Indices: 101900953--101901284 Score: 619
Period size: 167 Copynumber: 2.0 Consensus size: 167
101900943 ATTTAACCAC
* *
101900953 TAGACCCCGGCTGGTTGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGCGACCCGGG
1 TAGACCCCAGCTGGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGCGACCCGGG
* *
101901018 TTCGATCCTCGGCAACGGCGTTTTCTTTTCATTTTTACATTTTAGGTTTAATTCTGCTTTTAGTC
66 TTCGATCCCCGGCAACGGCGTTTTCTTTCCATTTTTACATTTTAGGTTTAATTCTGCTTTTAGTC
101901083 CCTCTATTATACTGGAATTTAAGATTTGATCTTTCAT
131 CCTCTATTATACTGGAATTTAAGATTTGATCTTTCAT
101901120 TAGACCCCAGCTGGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGCGACCCGGG
1 TAGACCCCAGCTGGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGCGACCCGGG
101901185 TTCGATCCCCGGCAACGGCGTTTTCTTTCCATTTTTACATTTTAGGTTTAATTCTGCTTTTAGTC
66 TTCGATCCCCGGCAACGGCGTTTTCTTTCCATTTTTACATTTTAGGTTTAATTCTGCTTTTAGTC
*
101901250 CCTCTATTATGCTGGAATTTAAGATTTGATCTTTC
131 CCTCTATTATACTGGAATTTAAGATTTGATCTTTC
101901285 TATTTTAATT
Statistics
Matches: 160, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
167 160 1.00
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (167 bp):
TAGACCCCAGCTGGTCGTTGTAGTATAGTGGTGAGTATTCCCGCCTGTCACGCGGGCGACCCGGG
TTCGATCCCCGGCAACGGCGTTTTCTTTCCATTTTTACATTTTAGGTTTAATTCTGCTTTTAGTC
CCTCTATTATACTGGAATTTAAGATTTGATCTTTCAT
Found at i:101908737 original size:14 final size:14
Alignment explanation
Indices: 101908718--101908745 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
101908708 ACCGCCCACG
101908718 TCCACACTGCTTCT
1 TCCACACTGCTTCT
101908732 TCCACACTGCTTCT
1 TCCACACTGCTTCT
101908746 CCATTCTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.43, G:0.07, T:0.36
Consensus pattern (14 bp):
TCCACACTGCTTCT
Found at i:101921499 original size:205 final size:204
Alignment explanation
Indices: 101921029--101921707 Score: 973
Period size: 205 Copynumber: 3.3 Consensus size: 204
101921019 AGCAGTTAAC
* *
101921029 ATACAGTTTTCGAGCATTACAAGATGGAAACACTATATCATGCATCCATCTTAAGGCATTCAACT
1 ATACAGTTTTCAAGCATTACAAGATGGAAACACTATATCATGCATCCATATTAAGGCATTCAACT
* * * *
101921094 TGCATTTTATATGGTACAATTATCCAAAAGAAATCAAGGCAGAGCAGTGGAACAAT-AAAATCAG
66 TACA-TTTATATGGTACAATTATCCAAATGAAAACAAGGCAGAGCAGTAGAAC-ATGAAAATCAG
*
101921158 CAGTTCAATGACAGAAATATTACTAATTTTTGAAACACAAAACACAA-ATGCAATTATACTTTCA
129 CAGTT-AATGACAGAAATATTACTAA-TTTTGATACACAAAACACAAGATGCAATTATACTTTCA
101921222 TCCACTCTGGTTTAT
192 TCCACTCTGG-TT-T
* *
101921237 ATACAGTTTTCAAGCATTACAAGATGGAAACGCTATATCATGCATCCATACTAAGGCATTCAACT
1 ATACAGTTTTCAAGCATTACAAGATGGAAACACTATATCATGCATCCATATTAAGGCATTCAACT
* * * *
101921302 TACATCTTATATGGTACAATTATCTAAATGAAAACAAGGGAGAGCAGCAGAACATGAAAATTAGC
66 TACAT-TTATATGGTACAATTATCCAAATGAAAACAAGGCAGAGCAGTAGAACATGAAAATCAGC
* *
101921367 AGTTAATGACAGAAATATTGCTAATTTTGATACACAAAACACAAGATGCAATAATAC-TTCAATC
130 AGTTAATGACAGAAATATTACTAATTTTGATACACAAAACACAAGATGCAATTATACTTTC-ATC
101921431 CACTCTGGTTT
194 CACTCTGGTTT
101921442 ATACAGTTTTCAAGCATTACAAGATGGAAACACTATATCATGCATCCATATTAAGGCATTCAACT
1 ATACAGTTTTCAAGCATTACAAGATGGAAACACTATATCATGCATCCATATTAAGGCATTCAACT
* * *
101921507 TACATTATATATGGTAAAATCATCCAAATGAAAACAAGGCAGAGCAGTAGAACATGCAAATCAGC
66 TACATT-TATATGGTACAATTATCCAAATGAAAACAAGGCAGAGCAGTAGAACATGAAAATCAGC
101921572 AGTTAATGACAGAAATATTACTAA-TTT--T----AAAACACAAGATGCAATTATACTTTCATCC
130 AGTTAATGACAGAAATATTACTAATTTTGATACACAAAACACAAGATGCAATTATACTTTCATCC
*
101921630 ATTCTGGTTT
195 ACTCTGGTTT
* * * * *
101921640 ATACACAGTTTTCAAGCATTACAAGATAGAAACACCATACCATGCATCCTTATTAAGGCACTCAA
1 AT--ACAGTTTTCAAGCATTACAAGATGGAAACACTATATCATGCATCCATATTAAGGCATTCAA
101921705 CTT
64 CTT
101921708 TCTAATTTCT
Statistics
Matches: 431, Mismatches: 32, Indels: 24
0.89 0.07 0.05
Matches are distributed among these distances:
198 36 0.08
199 3 0.01
200 59 0.14
202 1 0.00
204 4 0.01
205 143 0.33
206 24 0.06
207 44 0.10
208 117 0.27
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.28
Consensus pattern (204 bp):
ATACAGTTTTCAAGCATTACAAGATGGAAACACTATATCATGCATCCATATTAAGGCATTCAACT
TACATTTATATGGTACAATTATCCAAATGAAAACAAGGCAGAGCAGTAGAACATGAAAATCAGCA
GTTAATGACAGAAATATTACTAATTTTGATACACAAAACACAAGATGCAATTATACTTTCATCCA
CTCTGGTTT
Found at i:101926557 original size:33 final size:33
Alignment explanation
Indices: 101926512--101926576 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
101926502 CAAAAACAGA
*
101926512 ACCAATACCAAAACAAAA-GACACTCTCTCATGT
1 ACCAATACCAAAACAAAATGAC-CTCTCCCATGT
*
101926545 ACCAATATCAAAACAAAATGACCTCTCCCATG
1 ACCAATACCAAAACAAAATGACCTCTCCCATG
101926577 GATAAAAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 26 0.90
34 3 0.10
ACGTcount: A:0.45, C:0.31, G:0.06, T:0.18
Consensus pattern (33 bp):
ACCAATACCAAAACAAAATGACCTCTCCCATGT
Found at i:101928551 original size:23 final size:23
Alignment explanation
Indices: 101928517--101928564 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
101928507 AAAAAGAACG
*
101928517 ATTTTTAAGATTTAATAATTGGC
1 ATTTTTAAGATTTAATAATTAGC
* *
101928540 ATTTTTAGGATTTAATCATTAGC
1 ATTTTTAAGATTTAATAATTAGC
101928563 AT
1 AT
101928565 AATGATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.48
Consensus pattern (23 bp):
ATTTTTAAGATTTAATAATTAGC
Found at i:101932545 original size:17 final size:17
Alignment explanation
Indices: 101932523--101932557 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
101932513 ACTAAACCGA
101932523 CCACTAACTCCATCACC
1 CCACTAACTCCATCACC
101932540 CCACTAACTCCATCACC
1 CCACTAACTCCATCACC
101932557 C
1 C
101932558 TACTTGCCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.54, G:0.00, T:0.17
Consensus pattern (17 bp):
CCACTAACTCCATCACC
Found at i:101932593 original size:13 final size:13
Alignment explanation
Indices: 101932575--101932600 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
101932565 CACTAATTCC
101932575 ATCACCCCACTAA
1 ATCACCCCACTAA
101932588 ATCACCCCACTAA
1 ATCACCCCACTAA
101932601 CCCTATTACC
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:0.46, G:0.00, T:0.15
Consensus pattern (13 bp):
ATCACCCCACTAA
Found at i:101933650 original size:39 final size:38
Alignment explanation
Indices: 101933583--101933658 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 38
101933573 GCCAATATAG
*
101933583 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAA-AGTTGA
* *
101933622 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAAAGTTG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAAAGTTG
101933659 GTACCTAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
38 5 0.15
39 25 0.76
40 3 0.09
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAAAGTTGA
Found at i:101935299 original size:5 final size:5
Alignment explanation
Indices: 101935281--101935316 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
101935271 TTTCTTTTAT
*
101935281 ATATA ATAATA ATATA ATATA ATACA ATATA ATATA
1 ATATA AT-ATA ATATA ATATA ATATA ATATA ATATA
101935317 CTTAATTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (5 bp):
ATATA
Found at i:101941442 original size:38 final size:39
Alignment explanation
Indices: 101941358--101941492 Score: 116
Period size: 39 Copynumber: 3.4 Consensus size: 39
101941348 GCCAATATGG
*
101941358 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
* * *
101941397 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAGTTGA
* * * *
101941435 TACCCAGTACCTCATCGAATCTA-TCCGAAGAAATA-TAGTGA
1 CACCCAGTGCCTCATCGGA--TAGTCCGAAGTAATAGT--TGA
*
101941476 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
101941493 ACTCGAGGTC
Statistics
Matches: 75, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
38 19 0.25
39 36 0.48
40 4 0.05
41 16 0.21
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
Found at i:101942335 original size:5 final size:5
Alignment explanation
Indices: 101942310--101942354 Score: 74
Period size: 5 Copynumber: 9.0 Consensus size: 5
101942300 TTTCTTTTAT
101942310 ATATA ATAATA ATAT- ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA AT-ATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
101942355 CTTAATTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.11
5 29 0.76
6 5 0.13
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:101943110 original size:15 final size:14
Alignment explanation
Indices: 101943092--101943149 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
101943082 TAATTTTTTC
101943092 TTGTTGTATTTTCTT
1 TTGTT-TATTTTCTT
*
101943107 TTGTATATTTTCATT
1 TTGTTTATTTTC-TT
* *
101943122 TTGTTTTATTATATT
1 TTG-TTTATTTTCTT
*
101943137 TTATTTATTTTCT
1 TTGTTTATTTTCT
101943150 CTTTTATGGA
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
14 15 0.44
15 13 0.38
16 6 0.18
ACGTcount: A:0.16, C:0.05, G:0.07, T:0.72
Consensus pattern (14 bp):
TTGTTTATTTTCTT
Found at i:101943189 original size:21 final size:22
Alignment explanation
Indices: 101943161--101943203 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
101943151 TTTTATGGAC
*
101943161 ATTTTT-TAAATATTATGTTATT
1 ATTTTTATATATATTAT-TTATT
101943183 ATTTTTATATATATTATTTAT
1 ATTTTTATATATATTATTTAT
101943204 ATTAAGCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
ATTTTTATATATATTATTTATT
Found at i:101943621 original size:35 final size:35
Alignment explanation
Indices: 101943577--101943671 Score: 172
Period size: 35 Copynumber: 2.7 Consensus size: 35
101943567 TAAAGTTTTG
101943577 CATATAGTTTATTTTATGTATTGTTTGTCTGTATA
1 CATATAGTTTATTTTATGTATTGTTTGTCTGTATA
101943612 CATATAGTTTATTTTATGTATTGTTTGTCTGTATA
1 CATATAGTTTATTTTATGTATTGTTTGTCTGTATA
* *
101943647 TATATAATTTATTTTATGTATTGTT
1 CATATAGTTTATTTTATGTATTGTT
101943672 CGTTTGTTTA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 58 1.00
ACGTcount: A:0.24, C:0.04, G:0.13, T:0.59
Consensus pattern (35 bp):
CATATAGTTTATTTTATGTATTGTTTGTCTGTATA
Found at i:101945957 original size:15 final size:17
Alignment explanation
Indices: 101945937--101945968 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
101945927 TAATATTAGT
101945937 ACCAATC-AAA-TAAAA
1 ACCAATCTAAAGTAAAA
101945952 ACCAATCTAAAGTAAAA
1 ACCAATCTAAAGTAAAA
101945969 CAATCAGCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.62, C:0.19, G:0.03, T:0.16
Consensus pattern (17 bp):
ACCAATCTAAAGTAAAA
Found at i:101949826 original size:3 final size:3
Alignment explanation
Indices: 101949787--101949814 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
101949777 TTCCCTTCTG
101949787 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
101949815 CGTTGTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:101951380 original size:21 final size:22
Alignment explanation
Indices: 101951356--101951398 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
101951346 TAAAGAGTAA
101951356 ATTAATTTTT-TTGGTAAAAAT
1 ATTAATTTTTATTGGTAAAAAT
* *
101951377 ATTATTTTTTATTGTTAAAAAT
1 ATTAATTTTTATTGGTAAAAAT
101951399 TAGTCTCTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (22 bp):
ATTAATTTTTATTGGTAAAAAT
Found at i:101955958 original size:31 final size:31
Alignment explanation
Indices: 101955922--101955981 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
101955912 CCATTTAATA
* *
101955922 TAAATATCAGATTAAACATTAAAACTAAATT
1 TAAATACCAAATTAAACATTAAAACTAAATT
*
101955953 TAAATACCAAATTAAATATTAAAACTAAA
1 TAAATACCAAATTAAACATTAAAACTAAA
101955982 AATCAAATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.30
Consensus pattern (31 bp):
TAAATACCAAATTAAACATTAAAACTAAATT
Found at i:101961074 original size:29 final size:29
Alignment explanation
Indices: 101961028--101961113 Score: 84
Period size: 29 Copynumber: 2.9 Consensus size: 29
101961018 CATATCCTCT
101961028 TTAAATTATTAATAAATTTATATTTTAATTA
1 TTAAATT-TTAA-AAATTTATATTTTAATTA
* *** *
101961059 TTTAATTTTAAAAATTTATAAAATGATTA
1 TTAAATTTTAAAAATTTATATTTTAATTA
*
101961088 TTAAATTTTTAAAAATTT-TCTTTTAA
1 TTAAA-TTTTAAAAATTTATATTTTAA
101961114 ATCATCAAAT
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
29 21 0.49
30 16 0.37
31 6 0.14
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (29 bp):
TTAAATTTTAAAAATTTATATTTTAATTA
Found at i:101974431 original size:33 final size:33
Alignment explanation
Indices: 101974394--101974465 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
101974384 TCAGCCTCAT
* *
101974394 CTTCATCGTCTTCATCAACAAATTCGCTATCAC
1 CTTCATCATCGTCATCAACAAATTCGCTATCAC
* * * *
101974427 CTTCATCATGGTCGTCAACGAATTCGCTATCAT
1 CTTCATCATCGTCATCAACAAATTCGCTATCAC
101974460 CTTCAT
1 CTTCAT
101974466 AGTCATCAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.25, C:0.31, G:0.10, T:0.35
Consensus pattern (33 bp):
CTTCATCATCGTCATCAACAAATTCGCTATCAC
Found at i:101979228 original size:19 final size:19
Alignment explanation
Indices: 101979204--101979240 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
101979194 TTTATGCATG
101979204 AATAACAAAAACTCGAACC
1 AATAACAAAAACTCGAACC
* *
101979223 AATAACATAATCTCGAAC
1 AATAACAAAAACTCGAAC
101979241 TACATTACTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.24, G:0.05, T:0.16
Consensus pattern (19 bp):
AATAACAAAAACTCGAACC
Found at i:101996765 original size:25 final size:26
Alignment explanation
Indices: 101996733--101996787 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
101996723 TTATTAAATT
*
101996733 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
101996758 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
101996783 A-ATAT
1 ATATAT
101996788 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:101996974 original size:44 final size:45
Alignment explanation
Indices: 101996925--101997019 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
101996915 TTACACCTCT
* *
101996925 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
101996969 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
101997014 ATTACA
1 ATTACA
101997020 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:101997019 original size:16 final size:16
Alignment explanation
Indices: 101997000--101997051 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
101996990 GATTTGCTAT
* *
101997000 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
101997016 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
101997032 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
101997048 TACA
1 TACA
101997052 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:101999050 original size:8 final size:8
Alignment explanation
Indices: 101999037--101999062 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
101999027 TACACGAATT
101999037 TTTAAATA
1 TTTAAATA
101999045 TTTAAATA
1 TTTAAATA
101999053 TTTAAATA
1 TTTAAATA
101999061 TT
1 TT
101999063 ACATATAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
TTTAAATA
Found at i:102021621 original size:717 final size:713
Alignment explanation
Indices: 102020251--102021676 Score: 2807
Period size: 717 Copynumber: 2.0 Consensus size: 713
102020241 CATGAGATTC
102020251 TAGAATATTTGATAAGGTTTTCATCCTTTGTAGTAGTTGAAGCTCCATGCGTTTCCTTCTCACAC
1 TAGAATATTTGATAAGGTTTTCATCCTTTGTAGTAGTTGAAGCTCCATGCGTTTCCTTCTCACAC
102020316 GATCATACAACTCTGATATCTTCACCTCAAGAGAATAAAGTATTCTCTAACAAAAGTGGATCAAA
66 GATCATACAACTCTGATATCTTCACCTCAAGAGAATAAAGTATTCTCTAACAAAAGTGGATCAAA
102020381 TCATCATAAAGAAAGAGTGAGATGCTTAATTATATCATAAACAAGTTCCTACATGAACTAAAACA
131 TCATCATAAAGAAAGAGTGAGATGCTTAATTATATCATAAACAAGTTCCTACATGAACTAAAACA
102020446 TACGCGTACGAAACAAAAAAAACTGAAGTATACCAATCAAAACCATTTCTTAAACAAGAAGATAC
196 TACGCGTACGAAACAAAAAAAACTGAAGTATACCAATCAAAACCATTTCTTAAACAAGAAGATAC
102020511 TATATGAAGTTCTGATGAGTTGATTAAGGTGAAAGTATCATGGAAGCCCTTGTAGTCGGATTACA
261 TATATGAAGTTCTGATGAGTTGATTAAGGTGAAAGTATCATGGAAGCCCTTGTAGTCGGATTACA
102020576 TTTTTCTCTATTTACTAAAAAAAAGAGTACATTAGTCTTTCACCCATTTCTACATGGACTAATTT
326 TTTTTCTCTATTTACTAAAAAAAAGAGTACATTAGTCTTTCACCCATTTCTACATGGACTAATTT
102020641 GCTTCTTTTTTTTTAAGTAAAAAGAGTAAAATGCAATCTCATTCTTTGTATAAGGGCCTCTATGG
391 GCTTCTTTTTTTTTAAGTAAAAAGAGTAAAATGCAATCTCATTCTTTGTATAAGGGCCTCTATGG
102020706 TACTTTTACCATTAACTAATCAACATTTCACGATAATGAATTGATGTAACATAATAAGATGCATA
456 TACTTTTACCATTAACTAATCAACATTTCACGATAATGAATTGATGTAACATAATAAGATGCATA
102020771 TGTTAATAAAAGAAAGAACATTAAGAGCATAAGGGCTAACCTCAGTTTCTCTTTTCTGAATTTGA
521 TGTTAATAAAAGAAAGAACATTAAGAGCATAAGGGCTAACCTCAGTTTCTCTTTTCTGAATTTGA
*
102020836 GTAGAGTTTTCTGCCTTGGCATTAGCAAATCTCCCTTGTAAATAACAATTGTAAAGCAATTTCAA
586 GTAGAGTTTTCTGCCTTGGCATTAGCAAATCTCCATTGTAAATAACAATTGTAAAGCAATTTCAA
102020901 GGAATGTAAATCCTCTTGATGACGAGAAATTTTCTTTGATCCCCTTATTGTATCAGTCCTTTG
651 GGAATGTAAATCCTCTTGATGACGAGAAATTTTCTTTGATCCCCTTATTGTATCAGTCCTTTG
102020964 TAGAATATTTGATAAGGTTTTCATCCTTTGTAGTAGTTGAAGCTCCATGCGTTTCCTTCTCACAC
1 TAGAATATTTGATAAGGTTTTCATCCTTTGTAGTAGTTGAAGCTCCATGCGTTTCCTTCTCACAC
102021029 GATCATACAACTCTGATATCTTCACCTCAAGAGAATAAAGTATTCTCTAACAAAAGTGGATCAAA
66 GATCATACAACTCTGATATCTTCACCTCAAGAGAATAAAGTATTCTCTAACAAAAGTGGATCAAA
102021094 TCATCATAAAGAAAGAGTGAGATGCTTAATTATATCATAAACAAGTTCCTACATGAACTAAAACA
131 TCATCATAAAGAAAGAGTGAGATGCTTAATTATATCATAAACAAGTTCCTACATGAACTAAAACA
102021159 TACGCGTACGAAACAAAAAAAAACTGAAGTATACCAATCAAAACCATTTCTTAAACAAGAAGATA
196 TACGCGTACGAAAC-AAAAAAAACTGAAGTATACCAATCAAAACCATTTCTTAAACAAGAAGATA
102021224 CTATATGAAGTTCTGATGAGTTGATTAAGGTGAAAGTATCATGGAAGCCCTTGTAGTCGGATTAC
260 CTATATGAAGTTCTGATGAGTTGATTAAGGTGAAAGTATCATGGAAGCCCTTGTAGTCGGATTAC
102021289 ATTTTTCTCTATTTACTAAAAAAAAGAGTACATTAGTCTTTCACCCATTTCTACATGGACTAATT
325 ATTTTTCTCTATTTACTAAAAAAAAGAGTACATTAGTCTTTCACCCATTTCTACATGGACTAATT
102021354 TGCTTCTTCTTTTTTTTAAAGTAAAAAGAGTAAAATGCAATCTCATTCTTTGTATAAGGGCCTCT
390 TGCTTC-T-TTTTTTTT-AAGTAAAAAGAGTAAAATGCAATCTCATTCTTTGTATAAGGGCCTCT
102021419 ATGGTACTTTTACCATTAACTAATCAACATTTCACGATAATGAATTGATGTAACATAATAAGATG
452 ATGGTACTTTTACCATTAACTAATCAACATTTCACGATAATGAATTGATGTAACATAATAAGATG
102021484 CATATGTTAATAAAAGAAAGAACATTAAGAGCATAAGGGCTAACCTCAGTTTCTCTTTTCTGAAT
517 CATATGTTAATAAAAGAAAGAACATTAAGAGCATAAGGGCTAACCTCAGTTTCTCTTTTCTGAAT
102021549 TTGAGTAGAGTTTTCTGCCTTGGCATTAGCAAATCTCCATTGTAAATAACAATTGTAAAGCAATT
582 TTGAGTAGAGTTTTCTGCCTTGGCATTAGCAAATCTCCATTGTAAATAACAATTGTAAAGCAATT
102021614 TCAAGGAATGTAAATCCTCTTGATGACGAGAAATTTTCTTTGATCCCCTTATTGTATCAGTCC
647 TCAAGGAATGTAAATCCTCTTGATGACGAGAAATTTTCTTTGATCCCCTTATTGTATCAGTCC
102021677 CATGCTTTGT
Statistics
Matches: 708, Mismatches: 1, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
713 209 0.30
714 186 0.26
715 1 0.00
716 8 0.01
717 304 0.43
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.33
Consensus pattern (713 bp):
TAGAATATTTGATAAGGTTTTCATCCTTTGTAGTAGTTGAAGCTCCATGCGTTTCCTTCTCACAC
GATCATACAACTCTGATATCTTCACCTCAAGAGAATAAAGTATTCTCTAACAAAAGTGGATCAAA
TCATCATAAAGAAAGAGTGAGATGCTTAATTATATCATAAACAAGTTCCTACATGAACTAAAACA
TACGCGTACGAAACAAAAAAAACTGAAGTATACCAATCAAAACCATTTCTTAAACAAGAAGATAC
TATATGAAGTTCTGATGAGTTGATTAAGGTGAAAGTATCATGGAAGCCCTTGTAGTCGGATTACA
TTTTTCTCTATTTACTAAAAAAAAGAGTACATTAGTCTTTCACCCATTTCTACATGGACTAATTT
GCTTCTTTTTTTTTAAGTAAAAAGAGTAAAATGCAATCTCATTCTTTGTATAAGGGCCTCTATGG
TACTTTTACCATTAACTAATCAACATTTCACGATAATGAATTGATGTAACATAATAAGATGCATA
TGTTAATAAAAGAAAGAACATTAAGAGCATAAGGGCTAACCTCAGTTTCTCTTTTCTGAATTTGA
GTAGAGTTTTCTGCCTTGGCATTAGCAAATCTCCATTGTAAATAACAATTGTAAAGCAATTTCAA
GGAATGTAAATCCTCTTGATGACGAGAAATTTTCTTTGATCCCCTTATTGTATCAGTCCTTTG
Found at i:102024003 original size:21 final size:21
Alignment explanation
Indices: 102023966--102024024 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
102023956 TTTTCACAAG
*
102023966 ATATA-AAAAAT-AGAAATAA
1 ATATATAAAAATAAAAAATAA
**
102023985 ATATATAAAAATAAAAAATGT
1 ATATATAAAAATAAAAAATAA
*
102024006 ATTTATAAAATATAAAAAA
1 ATATATAAAA-ATAAAAAA
102024025 CATATAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 5 0.15
20 6 0.18
21 14 0.42
22 8 0.24
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.27
Consensus pattern (21 bp):
ATATATAAAAATAAAAAATAA
Found at i:102024032 original size:18 final size:18
Alignment explanation
Indices: 102023967--102024057 Score: 60
Period size: 18 Copynumber: 4.7 Consensus size: 18
102023957 TTTCACAAGA
*
102023967 TATAAAAAATAGAAATAAAT
1 TATAAAATATA-AAA-AAAT
102023987 ATATAAAA-ATAAAAAATGTATT
1 -TATAAAATATAAAAAA---A-T
102024009 TATAAAATATAAAAAACA-
1 TATAAAATATAAAAAA-AT
* *
102024027 TATAAATTGTAAAAAAAT
1 TATAAAATATAAAAAAAT
*
102024045 TATAAAAAATAAA
1 TATAAAATATAAA
102024058 TTTTACAAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
17 1 0.02
18 26 0.45
19 3 0.05
20 4 0.07
21 15 0.26
22 9 0.16
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.27
Consensus pattern (18 bp):
TATAAAATATAAAAAAAT
Found at i:102024517 original size:28 final size:27
Alignment explanation
Indices: 102024486--102024538 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
102024476 AATATTTAAA
102024486 TATTTAATATTATAAT-TTTCTATTTTTT
1 TATTTAA-ATT-TAATGTTTCTATTTTTT
*
102024514 TATTTAAATTTAATGTTTTTATTTT
1 TATTTAAATTTAATGTTTCTATTTT
102024539 AAATAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 4 0.17
27 12 0.52
28 7 0.30
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (27 bp):
TATTTAAATTTAATGTTTCTATTTTTT
Found at i:102031348 original size:29 final size:29
Alignment explanation
Indices: 102031306--102031363 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
102031296 TTATAGGGAC
*
102031306 TAAATAAAATTAGTCCCTCTATTATTAAA
1 TAAATAAAATTAGTCCCTATATTATTAAA
* * *
102031335 TAAATTAATTTAGTCTCTATATTATTAAA
1 TAAATAAAATTAGTCCCTATATTATTAAA
102031364 AAGAATCAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.43
Consensus pattern (29 bp):
TAAATAAAATTAGTCCCTATATTATTAAA
Found at i:102031709 original size:16 final size:17
Alignment explanation
Indices: 102031688--102031719 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
102031678 ATTTAGAGTT
102031688 TAAATTAAA-AAAATTG
1 TAAATTAAATAAAATTG
102031704 TAAATTAAATAAAATT
1 TAAATTAAATAAAATT
102031720 ATTTGCTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (17 bp):
TAAATTAAATAAAATTG
Found at i:102034040 original size:17 final size:17
Alignment explanation
Indices: 102034020--102034061 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
102034010 TTATAATGTT
102034020 ATATTAA-TTAATTTCTA
1 ATATTAATTTAATTT-TA
102034037 ATATTAATTTAATTTTA
1 ATATTAATTTAATTTTA
102034054 AGTATTAA
1 A-TATTAA
102034062 ATGTCGGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (17 bp):
ATATTAATTTAATTTTA
Found at i:102036721 original size:11 final size:12
Alignment explanation
Indices: 102036703--102036735 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
102036693 AGTGGATTGA
*
102036703 ATAATTTTTTTT
1 ATAATTTTTTTC
102036715 A-AATTTTTTTC
1 ATAATTTTTTTC
102036726 ATAATTTTTT
1 ATAATTTTTT
102036736 AATTGAATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (12 bp):
ATAATTTTTTTC
Found at i:102042601 original size:21 final size:21
Alignment explanation
Indices: 102042575--102042617 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
102042565 GCTACTTTGC
*
102042575 CCAGTTTATAAAGTACATGAA
1 CCAGTTTATAAAGTACAAGAA
102042596 CCAGTTTATAAAGTACAAGAA
1 CCAGTTTATAAAGTACAAGAA
102042617 C
1 C
102042618 TACTTTGCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (21 bp):
CCAGTTTATAAAGTACAAGAA
Found at i:102043575 original size:268 final size:265
Alignment explanation
Indices: 102043094--102043595 Score: 803
Period size: 268 Copynumber: 1.9 Consensus size: 265
102043084 CTTGTAAGTA
* * *
102043094 CTTTTCTCATTTCTGTATATGTAAATGAATTTTTGGAGTCCTTTCTCCAAGTTCTTTGTGACCAT
1 CTTTTCCCATTTCTGTATATGTAAATGAATTTTTGGAGTCCTTTCTCCAAGGTCTTTGTAACCAT
* *
102043159 TTGATGAGCACATTGTCATTTGCTTATTGTTTTGAGATATACTTTGTATTCTTCATGTTTCAATA
66 TTGATGAGCACACTGTCATTTGCTGATTGTTTTGAGATATACTTTGTATTCTTCATGTTTCAATA
102043224 ATAGAATTTGCTTCATTTTGATGTCAATGAAATGTTTCACAATGCTAAGCTATTTTTCTTTTTTG
131 ATAGAATTTGCTTCATTTTGATGTCAATGAAATGTTTCACAATGCTAAGCTATTTTTCTTTTTTG
102043289 GCTTTGTTTTCTGGGTTATTTGCACCAGATGTCCCAAAATTATGGTCCGAATTTCAGACTGGTCC
196 GCTTTGTTTTCTGGGTTATTTGCACCAGATGTCCCAAAATTATGGTCCGAATTTCAGACTGGTCC
102043354 CTAAG
261 CTAAG
*
102043359 CTTTTCCCATTTCTGTATATGTAATTGAATTTTTGGAGTCCTTTCTCCAATGGTCTTTGTAACCA
1 CTTTTCCCATTTCTGTATATGTAAATGAATTTTTGGAGTCCTTTCTCCAA-GGTCTTTGTAACCA
* *
102043424 TTTGTTTTGAGCACACTGTCA-TTGCTGATTTGTTTTGAGATATTCTTTGTATTCTTCATGTTTC
65 TTTG--ATGAGCACACTGTCATTTGCTGA-TTGTTTTGAGATATACTTTGTATTCTTCATGTTTC
* * * * *
102043488 AATAATGGAATTTGGTTCATTTTGATGTCAATG-GAT-TTTGCACAATGTTAAGCTGTTTTTCCT
127 AATAATAGAATTTGCTTCATTTTGATGTCAATGAAATGTTT-CACAATGCTAAGCTATTTTT-CT
*
102043551 TTTTTGGCTTTGTTTTCTGGGTTATTTGCACTAGATGTCCCAAAA
190 TTTTTGGCTTTGTTTTCTGGGTTATTTGCACCAGATGTCCCAAAA
102043596 ATTTGAGTCT
Statistics
Matches: 217, Mismatches: 14, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
265 48 0.22
266 19 0.09
267 26 0.12
268 124 0.57
ACGTcount: A:0.21, C:0.16, G:0.17, T:0.46
Consensus pattern (265 bp):
CTTTTCCCATTTCTGTATATGTAAATGAATTTTTGGAGTCCTTTCTCCAAGGTCTTTGTAACCAT
TTGATGAGCACACTGTCATTTGCTGATTGTTTTGAGATATACTTTGTATTCTTCATGTTTCAATA
ATAGAATTTGCTTCATTTTGATGTCAATGAAATGTTTCACAATGCTAAGCTATTTTTCTTTTTTG
GCTTTGTTTTCTGGGTTATTTGCACCAGATGTCCCAAAATTATGGTCCGAATTTCAGACTGGTCC
CTAAG
Found at i:102050579 original size:19 final size:19
Alignment explanation
Indices: 102050549--102050585 Score: 58
Period size: 18 Copynumber: 1.9 Consensus size: 19
102050539 CAATTACACC
102050549 AAATTAAAATTTATATATCG
1 AAATTAAAATTT-TATATCG
102050569 AAATT-AAATTTTATATC
1 AAATTAAAATTTTATATC
102050586 TCAATTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 6 0.35
20 5 0.29
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (19 bp):
AAATTAAAATTTTATATCG
Found at i:102050914 original size:32 final size:33
Alignment explanation
Indices: 102050852--102050916 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 33
102050842 ATAAAAAAAC
* *
102050852 AAAAATTATATTATAAATTTAATTCGAGTTCAA
1 AAAAATTATATTATAAATATAATTCAAGTTCAA
*
102050885 AAAAATATATATT-TAAA-ATATTTCAAGTTCAA
1 AAAAAT-TATATTATAAATATAATTCAAGTTCAA
102050917 TAATATTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 12 0.43
33 10 0.36
34 6 0.21
ACGTcount: A:0.51, C:0.06, G:0.05, T:0.38
Consensus pattern (33 bp):
AAAAATTATATTATAAATATAATTCAAGTTCAA
Found at i:102052424 original size:21 final size:22
Alignment explanation
Indices: 102052398--102052444 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
102052388 CTCTGCTCAA
*
102052398 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
102052419 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
102052441 ACTC
1 ACTC
102052445 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:102065457 original size:60 final size:59
Alignment explanation
Indices: 102065390--102065510 Score: 165
Period size: 60 Copynumber: 2.0 Consensus size: 59
102065380 ATATCATGAA
102065390 CTAACTTGGACAAAAAA-AAAGTTCAAA-CTCCAATGTGAGAACAATTGCCAAGTTCAAGGC
1 CTAACTTGGACAAAAAAGAAAGTTCAAACCT-C-ATGTGAGAACAATTGCCAAGTTC-AGGC
** * *
102065450 CTAACTTGGACAAAAAAGAAAGTTCAGGCCTCATGTGAGAATAGTTGCCAAGTTCAGGC
1 CTAACTTGGACAAAAAAGAAAGTTCAAACCTCATGTGAGAACAATTGCCAAGTTCAGGC
102065509 CT
1 CT
102065511 TAAAAAATGA
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
59 6 0.11
60 38 0.69
61 9 0.16
62 2 0.04
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (59 bp):
CTAACTTGGACAAAAAAGAAAGTTCAAACCTCATGTGAGAACAATTGCCAAGTTCAGGC
Found at i:102065861 original size:4 final size:4
Alignment explanation
Indices: 102065852--102065888 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
102065842 CTTATGAGAC
102065852 CATA CATA CATA CATA CATA CATA CATA CATA CATA C
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA C
102065889 CTTAGAGCTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:102069538 original size:13 final size:13
Alignment explanation
Indices: 102069520--102069545 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
102069510 TTATAATAAA
102069520 TTTTATATATTAT
1 TTTTATATATTAT
102069533 TTTTATATATTAT
1 TTTTATATATTAT
102069546 GTAATTTATA
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTATATATTAT
Found at i:102069897 original size:17 final size:18
Alignment explanation
Indices: 102069877--102069910 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
102069867 TCTTTTTCCT
102069877 TTTTTAAATT-TTTATGA
1 TTTTTAAATTATTTATGA
*
102069894 TTTTTTAATTATTTATG
1 TTTTTAAATTATTTATG
102069911 TAATTATTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (18 bp):
TTTTTAAATTATTTATGA
Done.