Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold163
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: 1788591
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.32
Warning! 179834 characters in sequence are not A, C, G, or T
File 9 of 13
Found at i:1133345 original size:32 final size:32
Alignment explanation
Indices: 1133306--1133370 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
1133296 AAAATTTTTA
1133306 AATTGATTAATTTTAAATTAAATCGATCTTAT
1 AATTGATTAATTTTAAATTAAATCGATCTTAT
1133338 AATTGATTAATTTTAAATTAAATCGATCTTAT
1 AATTGATTAATTTTAAATTAAATCGATCTTAT
1133370 A
1 A
1133371 TTATTACAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (32 bp):
AATTGATTAATTTTAAATTAAATCGATCTTAT
Found at i:1136702 original size:22 final size:22
Alignment explanation
Indices: 1136662--1136703 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
1136652 AACTCAAATT
*
1136662 TAATCTAACTTAATCTTTAATA
1 TAATCTAACTTAATATTTAATA
1136684 TAATCTAAACTTAA-ATTTAA
1 TAATCT-AACTTAATATTTAA
1136704 AAAATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.43
Consensus pattern (22 bp):
TAATCTAACTTAATATTTAATA
Found at i:1136729 original size:21 final size:23
Alignment explanation
Indices: 1136695--1136760 Score: 73
Period size: 22 Copynumber: 2.9 Consensus size: 23
1136685 AATCTAAACT
*
1136695 TAAATTTAAAAAATTTAAATAAA
1 TAAATTTAATAAATTTAAATAAA
* *
1136718 -AAATTT-TTAAATTTTAAAAAAA
1 TAAATTTAATAAA-TTTAAATAAA
1136740 TAAATTTAATATAATTTAAAT
1 TAAATTTAATA-AATTTAAAT
1136761 TTAAAATAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
21 3 0.09
22 15 0.44
23 6 0.18
24 8 0.24
25 2 0.06
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
TAAATTTAATAAATTTAAATAAA
Found at i:1136744 original size:30 final size:30
Alignment explanation
Indices: 1136694--1136780 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 30
1136684 TAATCTAAAC
* * *
1136694 TTAAATTTAAAAAATTTAAATAAAAAAT-TT
1 TTAAATTTAAAAAA-ATAAATATAAAATAAT
* *
1136724 TTAAATTTTAAAAAAATAAATTTAATATAAT
1 TTAAA-TTTAAAAAAATAAATATAAAATAAT
*
1136755 TTAAATTTAAAATAATAAATATAAAA
1 TTAAATTTAAAAAAATAAATATAAAA
1136781 CGTATTGAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
30 32 0.68
31 15 0.32
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (30 bp):
TTAAATTTAAAAAAATAAATATAAAATAAT
Found at i:1136761 original size:16 final size:16
Alignment explanation
Indices: 1136694--1136770 Score: 72
Period size: 15 Copynumber: 5.0 Consensus size: 16
1136684 TAATCTAAAC
1136694 TTAAATTTAAAA-AAT
1 TTAAATTTAAAATAAT
** *
1136709 TTAAATAAAAAAT-TT
1 TTAAATTTAAAATAAT
1136724 TTAAATTTTAAAA-AA-
1 TTAAA-TTTAAAATAAT
* *
1136739 ATAAATTTAATATAAT
1 TTAAATTTAAAATAAT
1136755 TTAAATTTAAAATAAT
1 TTAAATTTAAAATAAT
1136771 AAATATAAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
14 6 0.13
15 22 0.47
16 19 0.40
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTAAATTTAAAATAAT
Found at i:1136957 original size:2 final size:2
Alignment explanation
Indices: 1136952--1136992 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
1136942 TTAAAAAAGA
*
1136952 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1136993 AACCATGGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1139016 original size:18 final size:18
Alignment explanation
Indices: 1138993--1139027 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1138983 GATATAGATA
*
1138993 TATTTAATTTTTTTTAAG
1 TATTTAAATTTTTTTAAG
1139011 TATTTAAATTTTTTTAA
1 TATTTAAATTTTTTTAA
1139028 AAAATTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (18 bp):
TATTTAAATTTTTTTAAG
Found at i:1139040 original size:19 final size:19
Alignment explanation
Indices: 1138996--1139041 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
1138986 ATAGATATAT
** *
1138996 TTAAT-TTTTTTTAAGTAT
1 TTAATATTTTTTTAAAAAA
1139014 TTAA-ATTTTTTTAAAAAA
1 TTAATATTTTTTTAAAAAA
1139032 TTAATATTTT
1 TTAATATTTT
1139042 ATACTTATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
TTAATATTTTTTTAAAAAA
Found at i:1140102 original size:15 final size:16
Alignment explanation
Indices: 1140071--1140110 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
1140061 TTTTATATTA
*
1140071 ATAATTATATATTTTT
1 ATAATTAAATATTTTT
1140087 ATAATTAAAT-TTTTT
1 ATAATTAAATATTTTT
*
1140102 ATCATTAAA
1 ATAATTAAA
1140111 GGTGGTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
ATAATTAAATATTTTT
Found at i:1148261 original size:17 final size:17
Alignment explanation
Indices: 1148226--1148259 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1148216 TTTAAAATTA
1148226 TATTATATTATTATTTT
1 TATTATATTATTATTTT
*
1148243 TATTAT-TTTTTATTTT
1 TATTATATTATTATTTT
1148259 T
1 T
1148260 TAAAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TATTATATTATTATTTT
Found at i:1148395 original size:13 final size:13
Alignment explanation
Indices: 1148379--1148429 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
1148369 CAAATAATAT
1148379 ATTAATTTAATTA
1 ATTAATTTAATTA
1148392 ATTAATTTAATTTA
1 ATTAATTTAA-TTA
*
1148406 ATT-TTTTAA-TA
1 ATTAATTTAATTA
*
1148417 AATAA-TTAATTA
1 ATTAATTTAATTA
1148429 A
1 A
1148430 ATTATCTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
11 8 0.25
12 3 0.09
13 15 0.47
14 6 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
ATTAATTTAATTA
Found at i:1148617 original size:16 final size:15
Alignment explanation
Indices: 1148586--1148691 Score: 58
Period size: 17 Copynumber: 6.7 Consensus size: 15
1148576 TAGATTTATA
1148586 TTATA-TTTATATATT
1 TTATATTTTATA-ATT
1148601 TTATAATTTTATAATT
1 TTAT-ATTTTATAATT
* *
1148617 TTAT-TTTTAAAAAAT
1 TTATATTTT-ATAATT
1148632 TTATATTTATATAAATT
1 TTATATTT-TAT-AATT
* *
1148649 TTAAATTATAT-A-T
1 TTATATTTTATAATT
*
1148662 TTATATTATATTATATT
1 TTATATTTTA-TA-ATT
1148679 TTGATTATTTTAT
1 TT-A-TATTTTAT
1148692 TTATATTATA
Statistics
Matches: 71, Mismatches: 8, Indels: 21
0.71 0.08 0.21
Matches are distributed among these distances:
13 10 0.14
14 6 0.08
15 12 0.17
16 16 0.23
17 19 0.27
18 2 0.03
19 6 0.08
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (15 bp):
TTATATTTTATAATT
Found at i:1148666 original size:30 final size:29
Alignment explanation
Indices: 1148630--1148702 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 29
1148620 TTTTTAAAAA
1148630 ATTTATATTTATATAAATTTTAAATTA-TAT
1 ATTTATA-TTATATAAATTTT-AATTATTAT
* * *
1148660 ATTTATATTATATTATATTTTGATTATTTT
1 ATTTATATTATA-TAAATTTTAATTATTAT
1148690 ATTTATATTATAT
1 ATTTATATTATAT
1148703 TAATATAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
29 10 0.26
30 28 0.74
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (29 bp):
ATTTATATTATATAAATTTTAATTATTAT
Found at i:1148672 original size:5 final size:5
Alignment explanation
Indices: 1148653--1148704 Score: 56
Period size: 5 Copynumber: 10.8 Consensus size: 5
1148643 TAAATTTTAA
* *
1148653 ATTAT A-TAT -TTAT ATTAT ATTAT ATTTT GATTAT TTTAT -TTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT -ATTAT ATTAT ATTAT ATTAT
1148701 ATTA
1 ATTA
1148705 ATATAATTGA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
4 10 0.25
5 26 0.65
6 4 0.10
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (5 bp):
ATTAT
Found at i:1148676 original size:40 final size:40
Alignment explanation
Indices: 1148579--1148679 Score: 107
Period size: 40 Copynumber: 2.5 Consensus size: 40
1148569 CACCTAATAG
* *
1148579 ATTTATATTATATTTATATATTTTATAATTTTATAATTTTAT
1 ATTTATATTATA-TTATAT-TTATATAATTTTATAATTATAT
* * **
1148621 TTTTAAAAAAT-TTATATTTATATAAATTTTA-AATTATAT
1 ATTTATATTATATTATATTTATAT-AATTTTATAATTATAT
1148660 ATTTATATTATATTATATTT
1 ATTTATATTATATTATATTT
1148680 TGATTATTTT
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
39 19 0.40
40 21 0.45
42 7 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (40 bp):
ATTTATATTATATTATATTTATATAATTTTATAATTATAT
Found at i:1153215 original size:2 final size:2
Alignment explanation
Indices: 1153210--1153248 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
1153200 GCACACACAC
1153210 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1153249 GGAAGCTTAC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1158443 original size:47 final size:46
Alignment explanation
Indices: 1158324--1158449 Score: 144
Period size: 46 Copynumber: 2.7 Consensus size: 46
1158314 AGTTAGGATG
* * * *
1158324 AAATATAAAATAATCAAATACAAATCTAATTAAAGTTAAGTTATTATT
1 AAATATAAAA-AAT-AAACACAAATATTATTAAAGTTAAGTTATAATT
* * * * *
1158372 GAATACAAACAATAAACACAAATATTATTAAATTTAATTTATAATT
1 AAATATAAAAAATAAACACAAATATTATTAAAGTTAAGTTATAATT
1158418 AAATATAAAAAATAAAACACAAATATTATTAA
1 AAATATAAAAAAT-AAACACAAATATTATTAA
1158450 TTATATAATA
Statistics
Matches: 65, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
46 37 0.57
47 21 0.32
48 7 0.11
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (46 bp):
AAATATAAAAAATAAACACAAATATTATTAAAGTTAAGTTATAATT
Found at i:1159912 original size:25 final size:25
Alignment explanation
Indices: 1159878--1159929 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
1159868 GCTACAAAAG
1159878 AGAAAACACTCAAAGACTTATTCTT
1 AGAAAACACTCAAAGACTTATTCTT
1159903 AGAAAACACTCAAAGACTTATTCTT
1 AGAAAACACTCAAAGACTTATTCTT
1159928 AG
1 AG
1159930 TCATCCCCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.44, C:0.19, G:0.10, T:0.27
Consensus pattern (25 bp):
AGAAAACACTCAAAGACTTATTCTT
Found at i:1165119 original size:95 final size:94
Alignment explanation
Indices: 1164983--1165173 Score: 265
Period size: 95 Copynumber: 2.0 Consensus size: 94
1164973 GTTTAATTTG
* * * * * *
1164983 TACACCCATGTGAATACAAAAAACCAACTAGCATATGTGTTCACTAAGAGGCTAAACCCTATACA
1 TACAACCATGTGAATACAAAAAACCAACTAGCAAATATGTTCACTAAGAGACCAAACCCCATACA
* *
1165048 GTTTCAAAATTGTGTTTCCCAGCCAAGAA
66 GTTTCAAAATTGTATTTCCAAGCCAAGAA
*
1165077 TACAACCATGTGAATACAAAAAAATCAACTAGCAAATATGTTCACTAAGAGACCAAACCCCATAC
1 TACAACCATGTGAATAC-AAAAAACCAACTAGCAAATATGTTCACTAAGAGACCAAACCCCATAC
* * *
1165142 AGTTTCAAGATTGTATTTTCAAGCTAAGAA
65 AGTTTCAAAATTGTATTTCCAAGCCAAGAA
1165172 TA
1 TA
1165174 GTAGACCTTT
Statistics
Matches: 84, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
94 16 0.19
95 68 0.81
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.25
Consensus pattern (94 bp):
TACAACCATGTGAATACAAAAAACCAACTAGCAAATATGTTCACTAAGAGACCAAACCCCATACA
GTTTCAAAATTGTATTTCCAAGCCAAGAA
Found at i:1166892 original size:9 final size:9
Alignment explanation
Indices: 1166878--1166921 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
1166868 TAATTTTTTA
1166878 AAATTAATT
1 AAATTAATT
*
1166887 AAATTAAAT
1 AAATTAATT
* *
1166896 AAATTTATA
1 AAATTAATT
1166905 AAATTAATT
1 AAATTAATT
*
1166914 AAAATAAT
1 AAATTAAT
1166922 AAAAAATTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (9 bp):
AAATTAATT
Found at i:1166899 original size:18 final size:18
Alignment explanation
Indices: 1166878--1166925 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
1166868 TAATTTTTTA
*
1166878 AAATTAATTAAATTAAAT
1 AAATTAATAAAATTAAAT
* *
1166896 AAATTTATAAAATTAATT
1 AAATTAATAAAATTAAAT
*
1166914 AAAATAATAAAA
1 AAATTAATAAAA
1166926 AATTTTAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AAATTAATAAAATTAAAT
Found at i:1166911 original size:27 final size:27
Alignment explanation
Indices: 1166873--1166939 Score: 93
Period size: 28 Copynumber: 2.4 Consensus size: 27
1166863 AAATTTAATT
1166873 TTTTAAAATTAATT-AAAT-TAAATAAA
1 TTTTAAAATTAATTAAAATATAAA-AAA
1166899 TTTATAAAATTAATTAAAATAATAAAAAA
1 TTT-TAAAATTAATTAAAAT-ATAAAAAA
1166928 TTTTAAAATTAA
1 TTTTAAAATTAA
1166940 ACGAATTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
26 3 0.08
27 11 0.30
28 13 0.35
29 6 0.16
30 4 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (27 bp):
TTTTAAAATTAATTAAAATATAAAAAA
Found at i:1167027 original size:15 final size:17
Alignment explanation
Indices: 1166998--1167060 Score: 58
Period size: 17 Copynumber: 3.5 Consensus size: 17
1166988 TTAAATTATT
1166998 TATTATATAATATTTTA
1 TATTATATAATATTTTA
*
1167015 TATTATATAAT-TTTAAA
1 TATTATATAATATTT-TA
1167032 TTATTATATAAATATATTT-
1 -TATTATAT-AATAT-TTTA
1167051 TATTTATATA
1 TA-TTATATA
1167061 TAAAATATGA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
16 3 0.08
17 12 0.32
18 11 0.29
19 9 0.24
20 1 0.03
21 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TATTATATAATATTTTA
Found at i:1167031 original size:39 final size:37
Alignment explanation
Indices: 1166988--1167060 Score: 103
Period size: 39 Copynumber: 1.9 Consensus size: 37
1166978 ATTTTTAAAA
*
1166988 TTAAATTATT-TATTATATAATATTTTATATTATATAATT
1 TTAAATTATTATA-TAAAT-ATATTTTAT-TTATATAATT
1167027 TTAAATTATTATATAAATATATTTTATTTATATA
1 TTAAATTATTATATAAATATATTTTATTTATATA
1167061 TAAAATATGA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 7 0.22
38 9 0.28
39 14 0.44
40 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (37 bp):
TTAAATTATTATATAAATATATTTTATTTATATAATT
Found at i:1167063 original size:39 final size:39
Alignment explanation
Indices: 1166988--1167060 Score: 107
Period size: 38 Copynumber: 1.9 Consensus size: 39
1166978 ATTTTTAAAA
*
1166988 TTAAATTATTTATTATATAATATTTTATATTATATAATT
1 TTAAATTATTTATTAAATAATATTTTATATTATATAATT
1167027 TTAAATTA-TTATATAAAT-ATATTTTAT-TTATATA
1 TTAAATTATTTAT-TAAATAATATTTTATATTATATA
1167061 TAAAATATGA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 7 0.22
38 13 0.41
39 12 0.38
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (39 bp):
TTAAATTATTTATTAAATAATATTTTATATTATATAATT
Found at i:1167106 original size:21 final size:21
Alignment explanation
Indices: 1167080--1167203 Score: 67
Period size: 21 Copynumber: 5.6 Consensus size: 21
1167070 ATTAAAATAA
1167080 AATTAAA-ATAATTATTAATTT
1 AATTAAATA-AATTATTAATTT
*
1167101 AATTAATTAAATTATTAATTT
1 AATTAAATAAATTATTAATTT
*
1167122 AATTCAACCGAATAAATTATTATTTT
1 AATT--A---AATAAATTATTAATTT
* * *
1167148 AA-TAAAT-TATTTTTAAAATT
1 AATTAAATAAATTATT-AATTT
*
1167168 ATATTAATTAAATTTGATTAATTT
1 A-ATTAAATAAA-TT-ATTAATTT
1167192 -ATTAAATTAAAT
1 AATTAAA-TAAAT
1167204 CAAATAATGC
Statistics
Matches: 78, Mismatches: 12, Indels: 25
0.68 0.10 0.22
Matches are distributed among these distances:
19 5 0.06
20 7 0.09
21 23 0.29
22 11 0.14
23 7 0.09
24 6 0.08
25 3 0.04
26 16 0.21
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (21 bp):
AATTAAATAAATTATTAATTT
Found at i:1167168 original size:12 final size:13
Alignment explanation
Indices: 1167140--1167181 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
1167130 CGAATAAATT
1167140 ATTATTTTAATAA
1 ATTATTTTAATAA
*
1167153 ATTATTTTTA-AA
1 ATTATTTTAATAA
*
1167165 ATTATATTAATTAA
1 ATTATTTTAA-TAA
1167179 ATT
1 ATT
1167182 TGATTAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
12 10 0.42
13 9 0.38
14 5 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATTATTTTAATAA
Found at i:1167825 original size:23 final size:23
Alignment explanation
Indices: 1167788--1167843 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
1167778 AAATAATTTT
*
1167788 AATTTATATTTATAAA-AATAAAA
1 AATTTATA-TAATAAATAATAAAA
* *
1167811 GAATTTATATAATAAATATTTAAA
1 -AATTTATATAATAAATAATAAAA
1167835 AATTTATAT
1 AATTTATAT
1167844 CTATATTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 15 0.54
24 13 0.46
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
AATTTATATAATAAATAATAAAA
Found at i:1167980 original size:4 final size:4
Alignment explanation
Indices: 1167973--1168015 Score: 68
Period size: 4 Copynumber: 10.8 Consensus size: 4
1167963 AAATAAAAAG
* *
1167973 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATAT ATTT ATCT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT
1168016 GTTTTATAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (4 bp):
ATTT
Found at i:1168493 original size:17 final size:16
Alignment explanation
Indices: 1168460--1168496 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
1168450 TGATTTGATA
1168460 ATAT-TAAATATATTT
1 ATATATAAATATATTT
1168475 ATATATAAATATATATT
1 ATATATAAATATAT-TT
1168492 ATATA
1 ATATA
1168497 ATTTATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 4 0.20
16 9 0.45
17 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATATAAATATATTT
Found at i:1168543 original size:16 final size:16
Alignment explanation
Indices: 1168522--1168574 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 16
1168512 ATGTGATATT
1168522 ATATATTTTAAAATTA
1 ATATATTTTAAAATTA
*
1168538 ATATATTATTAATTATTA
1 ATATATT-TTAA-AATTA
*
1168556 ATATA--TTAAAATTT
1 ATATATTTTAAAATTA
1168570 ATATA
1 ATATA
1168575 AATATAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
14 8 0.25
15 4 0.12
16 7 0.22
17 4 0.12
18 9 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATATATTTTAAAATTA
Found at i:1168555 original size:18 final size:17
Alignment explanation
Indices: 1168517--1168563 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
1168507 GAATGATGTG
1168517 ATATT-ATATATT-TTA
1 ATATTAATATATTATTA
*
1168532 AAATTAATATATTATTA
1 ATATTAATATATTATTA
1168549 ATTATTAATATATTA
1 A-TATTAATATATTA
1168564 AAATTTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 4 0.15
16 7 0.26
17 4 0.15
18 12 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATATTAATATATTATTA
Found at i:1168571 original size:18 final size:18
Alignment explanation
Indices: 1168534--1168584 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
1168524 ATATTTTAAA
*
1168534 ATTAATATATTATTAA-TT
1 ATTAATATATTA-AAATTT
1168552 ATTAATATATTAAAATTT
1 ATTAATATATTAAAATTT
1168570 ATATAA-ATA-TAAAAT
1 AT-TAATATATTAAAAT
1168585 ATTTTAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 8 0.27
18 19 0.63
19 3 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTAATATATTAAAATTT
Found at i:1168607 original size:16 final size:15
Alignment explanation
Indices: 1168548--1168609 Score: 61
Period size: 16 Copynumber: 3.7 Consensus size: 15
1168538 ATATATTATT
1168548 AATTATTAATATATTAA
1 AATTATTAA-ATA-TAA
1168565 AATTTATATAAATATAA
1 AA-TTAT-TAAATATAA
*
1168582 AATATTTTAAATATAA
1 AAT-TATTAAATATAA
1168598 TAATTATTAAAT
1 -AATTATTAAAT
1168610 TTATATACGT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
16 17 0.44
17 12 0.31
18 7 0.18
19 3 0.08
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTATTAAATATAA
Found at i:1168719 original size:16 final size:16
Alignment explanation
Indices: 1168698--1168755 Score: 57
Period size: 15 Copynumber: 3.7 Consensus size: 16
1168688 TTTTATCGGT
1168698 AAGATAAAAAATTAAA
1 AAGATAAAAAATTAAA
*
1168714 AAGAT-AAAAATTTAA
1 AAGATAAAAAATTAAA
* *
1168729 ATGAGGAAAAAA-TAAA
1 AAGA-TAAAAAATTAAA
*
1168745 ATGATAAAAAA
1 AAGATAAAAAA
1168756 AAATTTTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
15 18 0.51
16 12 0.34
17 5 0.14
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (16 bp):
AAGATAAAAAATTAAA
Found at i:1168755 original size:15 final size:15
Alignment explanation
Indices: 1168700--1168755 Score: 58
Period size: 16 Copynumber: 3.6 Consensus size: 15
1168690 TTATCGGTAA
*
1168700 GATAAAAAATTAAAAA
1 GATAAAAAA-TAAAAT
* *
1168716 GATAAAAATTTAAAT
1 GATAAAAAATAAAAT
*
1168731 GAGGAAAAAATAAAAT
1 GA-TAAAAAATAAAAT
1168747 GATAAAAAA
1 GATAAAAAA
1168756 AAATTTTTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
15 12 0.38
16 20 0.62
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.20
Consensus pattern (15 bp):
GATAAAAAATAAAAT
Found at i:1168820 original size:36 final size:37
Alignment explanation
Indices: 1168780--1168854 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
1168770 ATGTGTTTGG
1168780 TAAAAATATGAAGAATAT-AAAAAAAATTATCCCCAT
1 TAAAAATATGAAGAATATAAAAAAAAATTATCCCCAT
1168816 TAAAAATATGAAGAATATAAAAAAAAATTATCCCCAT
1 TAAAAATATGAAGAATATAAAAAAAAATTATCCCCAT
1168853 TA
1 TA
1168855 TTTGGCATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 18 0.47
37 20 0.53
ACGTcount: A:0.59, C:0.11, G:0.05, T:0.25
Consensus pattern (37 bp):
TAAAAATATGAAGAATATAAAAAAAAATTATCCCCAT
Found at i:1168940 original size:13 final size:13
Alignment explanation
Indices: 1168917--1168952 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
1168907 TTAAATTTAC
1168917 TAAAAATTAAAATA
1 TAAAAA-TAAAATA
*
1168931 TAAAAATAAAATT
1 TAAAAATAAAATA
1168944 TAAAAATAA
1 TAAAAATAA
1168953 TAAATAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
TAAAAATAAAATA
Found at i:1168946 original size:20 final size:21
Alignment explanation
Indices: 1168917--1168977 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
1168907 TTAAATTTAC
*
1168917 TAAAAATTAAAATATAA-AAA
1 TAAAATTTAAAATATAATAAA
1168937 TAAAATTTAAAA-ATAATAAA
1 TAAAATTTAAAATATAATAAA
*
1168957 T-AATTTTATAAATATATATAA
1 TAAAATTTA-AAATATA-ATAA
1168978 TCAACTCACA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 10 0.29
20 18 0.51
21 3 0.09
22 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
TAAAATTTAAAATATAATAAA
Found at i:1168978 original size:18 final size:19
Alignment explanation
Indices: 1168923--1168970 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
1168913 TTACTAAAAA
*
1168923 TTAAAATATAA-AAATAAAAT
1 TTAAAA-ATAATAAAT-AATT
1168943 TTAAAAATAATAAATAATT
1 TTAAAAATAATAAATAATT
*
1168962 TTATAAATA
1 TTAAAAATA
1168971 TATATAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
TTAAAAATAATAAATAATT
Found at i:1169073 original size:5 final size:6
Alignment explanation
Indices: 1169058--1169083 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
1169048 AAATAATAAT
1169058 TTTTTA TTTTTA TTTTTA TTTTTA TT
1 TTTTTA TTTTTA TTTTTA TTTTTA TT
1169084 AAATACGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:1171184 original size:36 final size:36
Alignment explanation
Indices: 1171112--1171184 Score: 85
Period size: 36 Copynumber: 2.0 Consensus size: 36
1171102 GACTCGAGTG
* *
1171112 TAAGTGTCGGATATGAGCATGTATCCAATACGAGTA
1 TAAGGGTCGGATATGAGCATGTATCCAATACAAGTA
* * *
1171148 TAAGGGTCGGATAT-AGATATGTATCTAATATAAGTA
1 TAAGGGTCGGATATGAG-CATGTATCCAATACAAGTA
1171184 T
1 T
1171185 GTTCAATTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
35 2 0.06
36 29 0.94
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.32
Consensus pattern (36 bp):
TAAGGGTCGGATATGAGCATGTATCCAATACAAGTA
Found at i:1172168 original size:4 final size:4
Alignment explanation
Indices: 1172161--1172185 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1172151 TAGGTAGGTG
1172161 TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA T
1172186 ATGTTTGTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TGTA
Found at i:1175492 original size:28 final size:26
Alignment explanation
Indices: 1175418--1175492 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 26
1175408 ATCATATTTG
1175418 AAATATTTTATATTTATATAAATTTTA
1 AAATATTTTATA-TTATATAAATTTTA
*
1175445 ATTAATAATTTATATTATATAAATTTTA
1 A--AATATTTTATATTATATAAATTTTA
1175473 AAATATTTATATATTCATAT
1 AAATATTT-TATATT-ATAT
1175493 TATATAATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
26 6 0.14
27 7 0.17
28 19 0.45
29 10 0.24
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.53
Consensus pattern (26 bp):
AAATATTTTATATTATATAAATTTTA
Found at i:1179974 original size:22 final size:22
Alignment explanation
Indices: 1179944--1179986 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1179934 AAAACAATAT
*
1179944 AAAAGAGTCATGATTTTGTTAA
1 AAAAAAGTCATGATTTTGTTAA
1179966 AAAAAAGTCATGATTTTGTTA
1 AAAAAAGTCATGATTTTGTTA
1179987 TTAATTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.05, G:0.16, T:0.37
Consensus pattern (22 bp):
AAAAAAGTCATGATTTTGTTAA
Found at i:1180380 original size:21 final size:21
Alignment explanation
Indices: 1180356--1180467 Score: 81
Period size: 21 Copynumber: 5.4 Consensus size: 21
1180346 TGAGTTTGGA
1180356 TAATTTTATATTTAAATTATT
1 TAATTTTATATTTAAATTATT
*
1180377 TAATTTTA-AGTTAAATTAATT
1 TAATTTTATATTTAAATT-ATT
*
1180398 TAATTTTA-ATTT--TTTATT
1 TAATTTTATATTTAAATTATT
* *
1180416 CATATTTAAT-TTTAAATTATTT
1 TA-ATTTTATATTTAAATTA-TT
* * *
1180438 TAAATTAATTTTTTAAATTATT
1 TAATTTTA-TATTTAAATTATT
*
1180460 TAAATTTA
1 TAATTTTA
1180468 AATTATTTTA
Statistics
Matches: 74, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
18 4 0.05
19 10 0.14
20 8 0.11
21 30 0.41
22 13 0.18
23 9 0.12
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (21 bp):
TAATTTTATATTTAAATTATT
Found at i:1180384 original size:15 final size:15
Alignment explanation
Indices: 1180366--1180475 Score: 53
Period size: 15 Copynumber: 7.8 Consensus size: 15
1180356 TAATTTTATA
1180366 TTTAAATTATTTAAT
1 TTTAAATTATTTAAT
* *
1180381 TTTAAGTTAAATTAA-
1 TTTAAATT-ATTTAAT
1180396 TTT-AA-T-TTTAATT
1 TTTAAATTATTTAA-T
* *
1180409 TTTTATTCATATTTAAT
1 TTTAAAT--TATTTAAT
1180426 TTT-AA--A-TT-AT
1 TTTAAATTATTTAAT
*
1180436 TTTAAATTAATT--T
1 TTTAAATTATTTAAT
*
1180449 TTTAAATTATTTAAA
1 TTTAAATTATTTAAT
1180464 TTTAAATTATTT
1 TTTAAATTATTT
1180476 TAAATTCAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 28
0.67 0.07 0.26
Matches are distributed among these distances:
10 5 0.07
11 8 0.11
12 1 0.01
13 17 0.23
14 4 0.05
15 22 0.30
16 6 0.08
17 5 0.07
18 5 0.07
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (15 bp):
TTTAAATTATTTAAT
Found at i:1180453 original size:13 final size:14
Alignment explanation
Indices: 1180430--1180472 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
1180420 TTTAATTTTA
1180430 AATTATTTTAAATT
1 AATTATTTTAAATT
1180444 AATT-TTTTAAATT
1 AATTATTTTAAATT
* *
1180457 ATTTAAATTTAAATT
1 AATT-ATTTTAAATT
1180472 A
1 A
1180473 TTTTAAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 12 0.48
14 4 0.16
15 9 0.36
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
AATTATTTTAAATT
Found at i:1180455 original size:23 final size:25
Alignment explanation
Indices: 1180424--1180499 Score: 86
Period size: 27 Copynumber: 3.0 Consensus size: 25
1180414 TTCATATTTA
1180424 ATTTTAAATTATTTTAAA-TT-AATT
1 ATTTTAAATTA-TTTAAATTTAAATT
1180448 -TTTTAAATTATTTAAATTTAAATT
1 ATTTTAAATTATTTAAATTTAAATT
* *
1180472 ATTTTAAATTCAAATTAAATTCAAATT
1 ATTTTAAATT--ATTTAAATTTAAATT
1180499 A
1 A
1180500 ACTTAGGTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
22 6 0.13
23 12 0.27
24 4 0.09
25 9 0.20
27 14 0.31
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (25 bp):
ATTTTAAATTATTTAAATTTAAATT
Found at i:1180460 original size:38 final size:38
Alignment explanation
Indices: 1180387--1180481 Score: 120
Period size: 38 Copynumber: 2.4 Consensus size: 38
1180377 TAATTTTAAG
* * * *
1180387 TTAAATTAATTTAATTTTAATTTTTTATTCATATTTAATT
1 TTAAATTATTTTAA-ATTAATTTTTTAAT-ATATTTAAAT
1180427 TTAAATTATTTTAAATTAATTTTTTAA-ATTATTTAAAT
1 TTAAATTATTTTAAATTAATTTTTTAATA-TATTTAAAT
1180465 TTAAATTATTTTAAATT
1 TTAAATTATTTTAAATT
1180482 CAAATTAAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
37 1 0.02
38 25 0.50
39 11 0.22
40 13 0.26
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (38 bp):
TTAAATTATTTTAAATTAATTTTTTAATATATTTAAAT
Found at i:1180491 original size:11 final size:11
Alignment explanation
Indices: 1180475--1180500 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1180465 TTAAATTATT
1180475 TTAAATTCAAA
1 TTAAATTCAAA
1180486 TTAAATTCAAA
1 TTAAATTCAAA
1180497 TTAA
1 TTAA
1180501 CTTAGGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (11 bp):
TTAAATTCAAA
Found at i:1181567 original size:15 final size:15
Alignment explanation
Indices: 1181525--1181571 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
1181515 ATAAATTGCA
* *
1181525 TAAATAATT-ATTTT
1 TAAAAAATTAATTAT
*
1181539 TAAAAATTTAAATTAT
1 TAAAAAATT-AATTAT
1181555 TAAAAAATTAATTAT
1 TAAAAAATTAATTAT
1181570 TA
1 TA
1181572 TATTTGAGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 7 0.26
15 8 0.30
16 12 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TAAAAAATTAATTAT
Found at i:1182727 original size:23 final size:24
Alignment explanation
Indices: 1182699--1182749 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
1182689 GGTAACACTT
1182699 CTTT-AAATTTTCAATACAGATCA
1 CTTTAAAATTTTCAATACAGATCA
1182722 CTTTAAAATTTTCAATACAGATCA
1 CTTTAAAATTTTCAATACAGATCA
1182746 CTTT
1 CTTT
1182750 GGATTCATGC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 4 0.15
24 23 0.85
ACGTcount: A:0.37, C:0.18, G:0.04, T:0.41
Consensus pattern (24 bp):
CTTTAAAATTTTCAATACAGATCA
Found at i:1184178 original size:31 final size:32
Alignment explanation
Indices: 1184143--1184216 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 32
1184133 ATTATTTTTA
*
1184143 TTAAATTTAATTATAAATATTAATAA-AAAA-T
1 TTAAATTTAATTATAAATAATAA-AATAAAATT
*
1184174 TTAAATATT-ATTTTAAATAATAAAATAAAATT
1 TTAAAT-TTAATTATAAATAATAAAATAAAATT
1184206 TTAAA-TTAATT
1 TTAAATTTAATT
1184217 TAAGCTAAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
30 4 0.11
31 25 0.68
32 8 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (32 bp):
TTAAATTTAATTATAAATAATAAAATAAAATT
Found at i:1185747 original size:15 final size:15
Alignment explanation
Indices: 1185729--1185770 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
1185719 TAATTAATTA
* *
1185729 TATAAAATAACTATT
1 TATAAAATAAATAGT
1185744 TATAAAATAAATAGT
1 TATAAAATAAATAGT
1185759 TAT-AAATAAATA
1 TATAAAATAAATA
1185771 AATACAAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 9 0.36
15 16 0.64
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (15 bp):
TATAAAATAAATAGT
Found at i:1185809 original size:23 final size:22
Alignment explanation
Indices: 1185762--1185819 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 22
1185752 AAATAGTTAT
1185762 AAATAAATAAATACAAACATAG
1 AAATAAATAAATACAAACATAG
* * *
1185784 AAATAAAGTATATATAATCATAG
1 AAATAAA-TAAATACAAACATAG
* *
1185807 AAATTAAGAAATA
1 AAATAAATAAATA
1185820 ATTAAATAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
22 11 0.38
23 18 0.62
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.24
Consensus pattern (22 bp):
AAATAAATAAATACAAACATAG
Found at i:1185927 original size:9 final size:10
Alignment explanation
Indices: 1185904--1185936 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
1185894 TTTTATATTT
*
1185904 TAAAATATTA
1 TAAAATATAA
1185914 TAAAAT-TAA
1 TAAAATATAA
1185923 TAAAATATAA
1 TAAAATATAA
1185933 TAAA
1 TAAA
1185937 TAATTGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
TAAAATATAA
Found at i:1187184 original size:12 final size:12
Alignment explanation
Indices: 1187167--1187205 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
1187157 TATGAACAAC
1187167 AAAGAGAGAGAG
1 AAAGAGAGAGAG
*
1187179 AAAGAGAGAGAA
1 AAAGAGAGAGAG
*
1187191 AAAAAGAGAGAG
1 AAAGAGAGAGAG
1187203 AAA
1 AAA
1187206 AAGAATGAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (12 bp):
AAAGAGAGAGAG
Found at i:1187188 original size:14 final size:14
Alignment explanation
Indices: 1187169--1187207 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
1187159 TGAACAACAA
* *
1187169 AGAGAGAGAGAAAG
1 AGAGAGAAAAAAAG
1187183 AGAGAGAAAAAAAG
1 AGAGAGAAAAAAAG
1187197 AGAGAGAAAAA
1 AGAGAGAAAAA
1187208 GAATGAAGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (14 bp):
AGAGAGAAAAAAAG
Found at i:1187206 original size:12 final size:12
Alignment explanation
Indices: 1187171--1187209 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
1187161 AACAACAAAG
*
1187171 AGAGAGAGAAAG
1 AGAGAGAGAAAA
*
1187183 AGAGAGAAAAAA
1 AGAGAGAGAAAA
1187195 AGAGAGAGAAAA
1 AGAGAGAGAAAA
1187207 AGA
1 AGA
1187210 ATGAAGAGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (12 bp):
AGAGAGAGAAAA
Found at i:1187514 original size:39 final size:36
Alignment explanation
Indices: 1187470--1187555 Score: 93
Period size: 39 Copynumber: 2.3 Consensus size: 36
1187460 TAAGTATGGT
*
1187470 TTTATTGTTAAA-ATATAAATATTTAAATATATTATATTA
1 TTTATTATTAAATA-ATAAATA-TTAAATAT-TTA-ATTA
*
1187509 TTTATTATTAAGTAATAAATATTAAATATTTAATTA
1 TTTATTATTAAATAATAAATATTAAATATTTAATTA
*
1187545 TTACATTATTA
1 TT-TATTATTA
1187556 TTTTTAAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
36 6 0.14
37 10 0.24
38 8 0.19
39 17 0.40
40 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.51
Consensus pattern (36 bp):
TTTATTATTAAATAATAAATATTAAATATTTAATTA
Found at i:1191080 original size:19 final size:18
Alignment explanation
Indices: 1191038--1191111 Score: 69
Period size: 19 Copynumber: 3.8 Consensus size: 18
1191028 ACAACTTGTA
1191038 AATATAATTTTATTTATCTTT
1 AATAT-ATTTTATTTA--TTT
1191059 AATATATTCTTGA-TTATTT
1 AATATATT-TT-ATTTATTT
1191078 AATTATATTTTATTTATTT
1 AA-TATATTTTATTTATTT
*
1191097 TATATATTTTTATTT
1 AATATA-TTTTATTT
1191112 TTATTTTTAT
Statistics
Matches: 47, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
18 5 0.11
19 22 0.47
20 9 0.19
21 10 0.21
22 1 0.02
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (18 bp):
AATATATTTTATTTATTT
Found at i:1191101 original size:16 final size:15
Alignment explanation
Indices: 1191080--1191119 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
1191070 GATTATTTAA
1191080 TTATATTTTATTTATT
1 TTATATTTT-TTTATT
*
1191096 TTATATATTTTTATT
1 TTATATTTTTTTATT
1191111 TT-TATTTTT
1 TTATATTTTT
1191120 ATTACGATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 6 0.27
15 8 0.36
16 8 0.36
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (15 bp):
TTATATTTTTTTATT
Found at i:1191390 original size:17 final size:17
Alignment explanation
Indices: 1191337--1191395 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
1191327 TCAACGACAT
*
1191337 AATTTTTTATTGCTAAA
1 AATTATTTATTGCTAAA
* *
1191354 AA-TACTT-TTGCGTTAGA
1 AATTATTTATTGC--TAAA
1191371 AATTATTTATTGCTAAA
1 AATTATTTATTGCTAAA
1191388 AATTATTT
1 AATTATTT
1191396 CAGATGGATT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 4 0.12
16 3 0.09
17 18 0.55
18 4 0.12
19 4 0.12
ACGTcount: A:0.36, C:0.07, G:0.08, T:0.49
Consensus pattern (17 bp):
AATTATTTATTGCTAAA
Found at i:1195077 original size:19 final size:19
Alignment explanation
Indices: 1195036--1195093 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
1195026 AATTTTAATA
*
1195036 TATTCATATATTTATAT-T
1 TATTTATATATTTATATAT
* *
1195054 GTATTTTTATTTTTATATAT
1 -TATTTATATATTTATATAT
*
1195074 TATTTATATATATATATAT
1 TATTTATATATTTATATAT
1195093 T
1 T
1195094 TTATCTTATC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
19 31 0.97
20 1 0.03
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (19 bp):
TATTTATATATTTATATAT
Found at i:1196725 original size:22 final size:23
Alignment explanation
Indices: 1196680--1196724 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
1196670 GTTTTTTTTT
1196680 TAAAAAAAGTTATAATTTAAAAA
1 TAAAAAAAGTTATAATTTAAAAA
1196703 TAAAAAAA-TTATAAATTTAAAA
1 TAAAAAAAGTTAT-AATTTAAAA
1196725 TTTGAGTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (23 bp):
TAAAAAAAGTTATAATTTAAAAA
Found at i:1197477 original size:14 final size:14
Alignment explanation
Indices: 1197455--1197496 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
1197445 TTTGTCTAGT
1197455 TTATATATAAAAAA
1 TTATATATAAAAAA
*
1197469 TTATGTATAAAAATA
1 TTATATATAAAAA-A
*
1197484 TAATAT-TAAAAAA
1 TTATATATAAAAAA
1197497 AATTAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 1 0.04
14 18 0.75
15 5 0.21
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (14 bp):
TTATATATAAAAAA
Found at i:1198491 original size:13 final size:13
Alignment explanation
Indices: 1198473--1198503 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1198463 TTTCATTTTT
1198473 TTTAATATTTATA
1 TTTAATATTTATA
*
1198486 TTTAATATTTATG
1 TTTAATATTTATA
1198499 TTTAA
1 TTTAA
1198504 CATATGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (13 bp):
TTTAATATTTATA
Found at i:1201252 original size:18 final size:17
Alignment explanation
Indices: 1201221--1201254 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1201211 TTAAATTAAT
*
1201221 TTTTTATATTTTAATAA
1 TTTTTATATATTAATAA
1201238 TTTTTATATGATTAATA
1 TTTTTATAT-ATTAATA
1201255 TAATTATATA
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:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (17 bp):
TTTTTATATATTAATAA
Found at i:1201369 original size:27 final size:29
Alignment explanation
Indices: 1201318--1201415 Score: 74
Period size: 27 Copynumber: 3.7 Consensus size: 29
1201308 GATATAATGA
1201318 TTAA-AAAT-ATT-AAT-TTTTTTAATAT
1 TTAATAAATAATTAAATATTTTTTAATAT
* *
1201343 ATT-TTTAATAATTAAA-ATTTTTT-ATAT
1 -TTAATAAATAATTAAATATTTTTTAATAT
1201370 TTAATAAATAATTAAATA-TTTTT-A-AT
1 TTAATAAATAATTAAATATTTTTTAATAT
1201396 TTATATAAA-AATTAATATAT
1 TTA-ATAAATAATTAA-ATAT
1201416 ATAAATAAAA
Statistics
Matches: 59, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
26 18 0.31
27 32 0.54
28 9 0.15
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (29 bp):
TTAATAAATAATTAAATATTTTTTAATAT
Found at i:1201397 original size:26 final size:28
Alignment explanation
Indices: 1201349--1201415 Score: 88
Period size: 27 Copynumber: 2.5 Consensus size: 28
1201339 ATATATTTTT
1201349 AATAATTAAA-ATTTTTTATATTTA-ATA
1 AATAATTAAATA-TTTTTATATTTATATA
1201376 AATAATTAAATATTTTTA-ATTTATATA
1 AATAATTAAATATTTTTATATTTATATA
1201403 AA-AATTAATATAT
1 AATAATTAA-ATAT
1201416 ATAAATAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
26 11 0.30
27 25 0.68
28 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (28 bp):
AATAATTAAATATTTTTATATTTATATA
Found at i:1201435 original size:20 final size:19
Alignment explanation
Indices: 1201403--1201450 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
1201393 AATTTATATA
* *
1201403 AAAATTAATATATATAAAT
1 AAAATTAAAATATAAAAAT
1201422 AAAATATAAAATATAAAAAT
1 AAAAT-TAAAATATAAAAAT
*
1201442 TAAATTAAA
1 AAAATTAAA
1201451 TAAATTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAATTAAAATATAAAAAT
Found at i:1201890 original size:9 final size:9
Alignment explanation
Indices: 1201816--1201913 Score: 51
Period size: 9 Copynumber: 11.1 Consensus size: 9
1201806 TAATTAAAAA
*
1201816 AATTTATTA
1 AATTTATTT
*
1201825 AATTTAGTTA
1 AATTTA-TTT
*
1201835 AATTAATTT
1 AATTTATTT
* *
1201844 GATTCATTT
1 AATTTATTT
*
1201853 AAGTTA-TT
1 AATTTATTT
* *
1201861 ATTTTGTTT
1 AATTTATTT
**
1201870 AATTTAAAT
1 AATTTATTT
1201879 AATTTATTT
1 AATTTATTT
*
1201888 AATTGA-TT
1 AATTTATTT
1201896 AATTTGA-TT
1 AATTT-ATTT
1201905 AATTT-TTT
1 AATTTATTT
1201913 A
1 A
1201914 TTATTAAAAT
Statistics
Matches: 67, Mismatches: 18, Indels: 9
0.71 0.19 0.10
Matches are distributed among these distances:
8 14 0.21
9 45 0.67
10 8 0.12
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.57
Consensus pattern (9 bp):
AATTTATTT
Found at i:1202028 original size:23 final size:23
Alignment explanation
Indices: 1201974--1202037 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
1201964 TAATAAAATA
* * *
1201974 TAAATTTAAACTTAAATC-TATT
1 TAAATTTAAACTAAAAACTTATC
*
1201996 TAAATCTAAACTAAAAACTTATC
1 TAAATTTAAACTAAAAACTTATC
*
1202019 TAAATTTAAATTAAAAACT
1 TAAATTTAAACTAAAAACT
1202038 CAATTAAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
22 15 0.43
23 20 0.57
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.38
Consensus pattern (23 bp):
TAAATTTAAACTAAAAACTTATC
Found at i:1202045 original size:23 final size:22
Alignment explanation
Indices: 1201974--1202045 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 22
1201964 TAATAAAATA
* *
1201974 TAAATTTAAACTT-AAATCTATT
1 TAAATTTAAA-TTAAAAACTAAT
* * *
1201996 TAAATCTAAACTAAAAACTTAT
1 TAAATTTAAATTAAAAACTAAT
1202018 CTAAATTTAAATTAAAAACTCAAT
1 -TAAATTTAAATTAAAAACT-AAT
1202042 TAAA
1 TAAA
1202046 ATAACAAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
21 1 0.03
22 15 0.38
23 21 0.54
24 2 0.05
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (22 bp):
TAAATTTAAATTAAAAACTAAT
Found at i:1202378 original size:15 final size:14
Alignment explanation
Indices: 1202342--1202380 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
1202332 AATATTTATA
*
1202342 TAAAAATATTAAATT
1 TAAAAA-ATAAAATT
1202357 TAAAAAATAAAATTT
1 TAAAAAATAAAA-TT
1202372 TAAAAAATA
1 TAAAAAATA
1202381 GATTAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAAAAATAAAATT
Found at i:1202403 original size:17 final size:17
Alignment explanation
Indices: 1202353--1202393 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 17
1202343 AAAAATATTA
1202353 AATTTAAAAAATA-A--
1 AATTTAAAAAATAGATT
1202367 AATTTTAAAAAATAGATT
1 AA-TTTAAAAAATAGATT
1202385 AATTTAAAA
1 AATTTAAAA
1202394 CATAAGTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 1 0.04
17 7 0.30
18 2 0.09
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (17 bp):
AATTTAAAAAATAGATT
Found at i:1202424 original size:25 final size:24
Alignment explanation
Indices: 1202396--1202446 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 24
1202386 ATTTAAAACA
1202396 TAAG-TTAAATTTTGATTTTAATATT
1 TAAGATTAAA-TTTGA-TTTAATATT
1202421 TAAGATTTAAATTTGATTTAATATT
1 TAAGA-TTAAATTTGATTTAATATT
1202446 T
1 T
1202447 TTTTAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 14 0.58
26 5 0.21
27 5 0.21
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (24 bp):
TAAGATTAAATTTGATTTAATATT
Found at i:1202520 original size:15 final size:14
Alignment explanation
Indices: 1202500--1202546 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
1202490 AATGTATATC
1202500 ATATAAAGATTAAAT
1 ATATAAA-ATTAAAT
*
1202515 ATATAATATTATAAT
1 ATATAAAATTA-AAT
*
1202530 ATA-AAAATTAAAA
1 ATATAAAATTAAAT
1202543 ATAT
1 ATAT
1202547 GTTAAGTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
13 5 0.19
14 10 0.37
15 12 0.44
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (14 bp):
ATATAAAATTAAAT
Found at i:1202602 original size:28 final size:27
Alignment explanation
Indices: 1202563--1202623 Score: 79
Period size: 26 Copynumber: 2.2 Consensus size: 27
1202553 TTTTGTGTGT
1202563 TTAAAAACTTAAAAATATATATAAATTTA
1 TTAAAAACTTAAAAA-ATA-ATAAATTTA
* *
1202592 TTAAAAA-TTAAAAAATAATATATTTT
1 TTAAAAACTTAAAAAATAATAAATTTA
1202618 TTAAAA
1 TTAAAA
1202624 TTTATTCTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 13 0.43
27 3 0.10
28 7 0.23
29 7 0.23
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (27 bp):
TTAAAAACTTAAAAAATAATAAATTTA
Found at i:1205238 original size:34 final size:32
Alignment explanation
Indices: 1205176--1205265 Score: 89
Period size: 34 Copynumber: 2.8 Consensus size: 32
1205166 TATTTATAAA
*
1205176 TTAAAATA-AT-AAT-TT-ATTTAAATTTATT
1 TTAAAATATATAAATATTAATTTAAATATATT
1205204 TATAAAATATATAAATATTAATTTAAATAATATT
1 T-TAAAATATATAAATATTAATTTAAAT-ATATT
* * *
1205238 TTAATATATCTTAAATAATAATTTAAAT
1 TTAAAATAT-ATAAATATTAATTTAAAT
1205266 TATCAAATTA
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
28 1 0.02
29 7 0.14
30 2 0.04
31 3 0.06
32 2 0.04
33 15 0.29
34 21 0.41
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (32 bp):
TTAAAATATATAAATATTAATTTAAATATATT
Found at i:1205243 original size:11 final size:11
Alignment explanation
Indices: 1205190--1205265 Score: 59
Period size: 11 Copynumber: 6.8 Consensus size: 11
1205180 AATAATAATT
*
1205190 TATTTAAAT-T
1 TATTTAAATAA
1205200 TATTTATAA-AA
1 TATTTA-AATAA
* *
1205211 TATATAAATAT
1 TATTTAAATAA
1205222 TAATTTAAATAA
1 T-ATTTAAATAA
*
1205234 TATTTTAAT-A
1 TATTTAAATAA
1205244 TATCTTAAATAA
1 TAT-TTAAATAA
1205256 TAATTTAAAT
1 T-ATTTAAAT
1205266 TATCAAATTA
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
10 12 0.23
11 21 0.40
12 17 0.33
13 2 0.04
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (11 bp):
TATTTAAATAA
Found at i:1205269 original size:22 final size:22
Alignment explanation
Indices: 1205190--1205269 Score: 69
Period size: 23 Copynumber: 3.6 Consensus size: 22
1205180 AATAATAATT
*
1205190 TATTTAAATTTAT-TTATAA-AA
1 TATTTAAATATATCTTA-AATAA
*
1205211 TATATAAATATTAAT-TTAAATAA
1 TATTTAAATA-T-ATCTTAAATAA
*
1205234 TATTTTAATATATCTTAAATAA
1 TATTTAAATATATCTTAAATAA
1205256 TAATTTAAAT-TATC
1 T-ATTTAAATATATC
1205270 AAATTAAATT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
21 10 0.20
22 17 0.35
23 22 0.45
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (22 bp):
TATTTAAATATATCTTAAATAA
Found at i:1205603 original size:28 final size:28
Alignment explanation
Indices: 1205550--1205603 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
1205540 TTTCAATATA
* * *
1205550 ATTTAAATAAATTTTTTACTTCAAATGT
1 ATTTAAAAAAATTTTCTACTTAAAATGT
1205578 ATTTAAAAAAATTATTCT-CTTAAAAT
1 ATTTAAAAAAATT-TTCTACTTAAAAT
1205604 AATTTTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 19 0.86
29 3 0.14
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.46
Consensus pattern (28 bp):
ATTTAAAAAAATTTTCTACTTAAAATGT
Found at i:1207266 original size:13 final size:14
Alignment explanation
Indices: 1207248--1207276 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
1207238 ACTATACAAA
1207248 AAATTTTA-AAAAT
1 AAATTTTATAAAAT
1207261 AAATTTTATAAAAT
1 AAATTTTATAAAAT
1207275 AA
1 AA
1207277 TACATATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AAATTTTATAAAAT
Found at i:1208675 original size:20 final size:20
Alignment explanation
Indices: 1208650--1208689 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
1208640 CTAAATTTAC
1208650 CATTTATTTTTCTCTGTGGA
1 CATTTATTTTTCTCTGTGGA
*
1208670 CATTTATTTTTCTTTGTGGA
1 CATTTATTTTTCTCTGTGGA
1208690 TAGCTGATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.57
Consensus pattern (20 bp):
CATTTATTTTTCTCTGTGGA
Found at i:1208737 original size:16 final size:17
Alignment explanation
Indices: 1208718--1208759 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
1208708 TTGCATTTAG
1208718 TTTTCTCATTATTTGT-
1 TTTTCTCATTATTTGTC
* *
1208734 TTTTCTTACTATTTGTC
1 TTTTCTCATTATTTGTC
*
1208751 TTTGCTCAT
1 TTTTCTCAT
1208760 AAAGCAATGC
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.12, C:0.17, G:0.07, T:0.64
Consensus pattern (17 bp):
TTTTCTCATTATTTGTC
Found at i:1209930 original size:5 final size:5
Alignment explanation
Indices: 1209920--1209966 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
1209910 TCAAACCCTT
* * *
1209920 TGCCC TGCCC TGCCC TGCCC TGCCC CGACCC -GACC TGCCC CGCCC TG
1 TGCCC TGCCC TGCCC TGCCC TGCCC TG-CCC TGCCC TGCCC TGCCC TG
1209967 ACCCGCCCCT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
4 2 0.06
5 30 0.86
6 3 0.09
ACGTcount: A:0.04, C:0.60, G:0.21, T:0.15
Consensus pattern (5 bp):
TGCCC
Found at i:1209940 original size:15 final size:15
Alignment explanation
Indices: 1209920--1209975 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
1209910 TCAAACCCTT
*
1209920 TGCCCTGCCCTGCCC
1 TGCCCTGCCCCGCCC
1209935 TGCCCTGCCCCGACCC
1 TGCCCTGCCCCG-CCC
*
1209951 -GACCTGCCCCGCCC
1 TGCCCTGCCCCGCCC
1209965 TGACCC-GCCCC
1 TG-CCCTGCCCC
1209976 TCACCTTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
14 3 0.09
15 27 0.77
16 5 0.14
ACGTcount: A:0.05, C:0.62, G:0.20, T:0.12
Consensus pattern (15 bp):
TGCCCTGCCCCGCCC
Found at i:1209956 original size:20 final size:20
Alignment explanation
Indices: 1209933--1209971 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1209923 CCTGCCCTGC
*
1209933 CCTGCCCTGCCCCGACCCGA
1 CCTGCCCCGCCCCGACCCGA
*
1209953 CCTGCCCCGCCCTGACCCG
1 CCTGCCCCGCCCCGACCCG
1209972 CCCCTCACCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.08, C:0.62, G:0.21, T:0.10
Consensus pattern (20 bp):
CCTGCCCCGCCCCGACCCGA
Found at i:1213952 original size:84 final size:84
Alignment explanation
Indices: 1213838--1214023 Score: 209
Period size: 84 Copynumber: 2.2 Consensus size: 84
1213828 TACTTTAGAC
* ** *
1213838 ATTGTTTTGA-TAAGAT-AAGTATATCCATATTGTCTTAATGCATGCTT-T-CTTTAGACATTGT
1 ATTGTTTT-ATTAAGATAAACT-TATCCATATTGTCTTAACACA-G-TTCTACTTTAGACATTAT
* * *
1213899 CTTGTTAAGATAACTTTATTCAT
62 CTTGTTAAGACAACCTTATCCAT
* * *
1213922 ATTTTTTTATTAAGATAAACTTATCTATATTGTCTTAACACAGTTCTACTTTAGACATTATCTTT
1 ATTGTTTTATTAAGATAAACTTATCCATATTGTCTTAACACAGTTCTACTTTAGACATTATCTTG
1213987 TTAAGACAACCTTATCCAT
66 TTAAGACAACCTTATCCAT
*
1214006 ATTGTTTTATTAGGATAA
1 ATTGTTTTATTAAGATAA
1214024 GTTTATTTGC
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
82 2 0.02
83 3 0.03
84 78 0.91
85 3 0.03
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (84 bp):
ATTGTTTTATTAAGATAAACTTATCCATATTGTCTTAACACAGTTCTACTTTAGACATTATCTTG
TTAAGACAACCTTATCCAT
Found at i:1216142 original size:28 final size:28
Alignment explanation
Indices: 1216094--1216246 Score: 114
Period size: 28 Copynumber: 5.5 Consensus size: 28
1216084 TAAGGAAGTA
* * * *
1216094 TTAATAAGACAATGTGAATAAACTTGTC
1 TTAATAAGACAATATGGATAAAGTTGTT
* *
1216122 TTAATAAGACAATATGGATAAGGTTATT
1 TTAATAAGACAATATGGATAAAGTTGTT
* * * **
1216150 TTAACAAAACAATAT--TTAAAGTAAATAT
1 TTAATAAGACAATATGGATAAAGT-TGT-T
* ** *
1216178 ATGTTAAGATAATATGGAT-AAGCTTGTT
1 TTAATAAGACAATATGGATAAAG-TTGTT
*
1216206 TTGATAAGACAATATGGATAAAGTTGTT
1 TTAATAAGACAATATGGATAAAGTTGTT
1216234 TTAATAAGACAAT
1 TTAATAAGACAAT
1216247 TATTAAAGTA
Statistics
Matches: 95, Mismatches: 24, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
26 5 0.05
27 2 0.02
28 79 0.83
29 7 0.07
30 2 0.02
ACGTcount: A:0.44, C:0.06, G:0.15, T:0.35
Consensus pattern (28 bp):
TTAATAAGACAATATGGATAAAGTTGTT
Found at i:1216246 original size:84 final size:84
Alignment explanation
Indices: 1216111--1216298 Score: 245
Period size: 84 Copynumber: 2.2 Consensus size: 84
1216101 GACAATGTGA
* * *
1216111 ATAAACTTGTCTTAATAAGACAATATGGATAAGGTTATTTTAACAAAACAA-TATTTAAAGTA-A
1 ATAAGCTTGTTTTAATAAGACAATATGGATAAAGTTATTTTAACAAAACAATTA-TTAAAGTAGA
* *
1216174 ATATATGTTAAGATAATATGG
65 A-ATATGTTAAAATAATATAG
* * * *
1216195 ATAAGCTTGTTTTGATAAGACAATATGGATAAAGTTGTTTTAATAAGACAATTATTAAAGTAGAA
1 ATAAGCTTGTTTTAATAAGACAATATGGATAAAGTTATTTTAACAAAACAATTATTAAAGTAGAA
*
1216260 ATGTGTTAAAATAATATAG
66 ATATGTTAAAATAATATAG
*
1216279 ATAAGCTTGTTTTATTAAGA
1 ATAAGCTTGTTTTAATAAGA
1216299 GAATGCTTAA
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
84 86 0.96
85 4 0.04
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.36
Consensus pattern (84 bp):
ATAAGCTTGTTTTAATAAGACAATATGGATAAAGTTATTTTAACAAAACAATTATTAAAGTAGAA
ATATGTTAAAATAATATAG
Found at i:1219746 original size:17 final size:17
Alignment explanation
Indices: 1219724--1219775 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
1219714 GTTTAAAGTA
1219724 TTTTATATTATATAAAT
1 TTTTATATTATATAAAT
1219741 TTTTATATGT-TA-ATAA-
1 TTTTATAT-TATATA-AAT
1219757 -TTTATATTATATAAAT
1 TTTTATATTATATAAAT
1219773 TTT
1 TTT
1219776 GAGATATGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
14 1 0.03
15 11 0.38
16 2 0.07
17 14 0.48
18 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (17 bp):
TTTTATATTATATAAAT
Found at i:1219773 original size:15 final size:15
Alignment explanation
Indices: 1219725--1219774 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
1219715 TTTAAAGTAT
1219725 TTTATATTATATAAA
1 TTTATATTATATAAA
1219740 TTTTTATATGT-TA-ATAA
1 --TTTATAT-TATATA-AA
1219757 TTTATATTATATAAA
1 TTTATATTATATAAA
1219772 TTT
1 TTT
1219775 TGAGATATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
14 1 0.03
15 14 0.48
16 2 0.07
17 11 0.38
18 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (15 bp):
TTTATATTATATAAA
Found at i:1224533 original size:52 final size:52
Alignment explanation
Indices: 1224385--1224513 Score: 177
Period size: 52 Copynumber: 2.5 Consensus size: 52
1224375 CAAAATATGA
* * *
1224385 AAATTAGCCTACATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGAC
* ** * * *
1224437 TAATTTGTTTGTATATATCGATACATTTTATAGTGTATCGATACATCTGGAC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGAC
1224489 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1224514 AAGATCAGTG
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
52 63 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.37
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGAC
Found at i:1224540 original size:13 final size:13
Alignment explanation
Indices: 1224522--1224546 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1224512 CAAAGATCAG
1224522 TGTATCGATACAA
1 TGTATCGATACAA
1224535 TGTATCGATACA
1 TGTATCGATACA
1224547 TTTGGGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1224624 original size:19 final size:19
Alignment explanation
Indices: 1224600--1224649 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
1224590 CGATACATTA
1224600 TATCGATACAAAACTTATG
1 TATCGATACAAAACTTATG
*
1224619 TATCGATACAACACTTATG
1 TATCGATACAAAACTTATG
1224638 TATCGATACAAA
1 TATCGATACAAA
1224650 TCGTTGAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (19 bp):
TATCGATACAAAACTTATG
Found at i:1227688 original size:21 final size:21
Alignment explanation
Indices: 1227664--1227703 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1227654 TCATCTAAAA
1227664 AATGCATTC-TTTCATCCAACC
1 AATGCA-TCATTTCATCCAACC
1227685 AATGCATCATTTCATCCAA
1 AATGCATCATTTCATCCAA
1227704 ATATATCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.33
Consensus pattern (21 bp):
AATGCATCATTTCATCCAACC
Found at i:1230363 original size:23 final size:24
Alignment explanation
Indices: 1230315--1230365 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
1230305 AACAAAAAAA
1230315 AAACCTATTTGACCAAACAAATTT
1 AAACCTATTTGACCAAACAAATTT
* *
1230339 AAACCTATTTGGCTAAA-AAATTT
1 AAACCTATTTGACCAAACAAATTT
1230362 AAAC
1 AAAC
1230366 AAAAAAAGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 10 0.40
24 15 0.60
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (24 bp):
AAACCTATTTGACCAAACAAATTT
Found at i:1232834 original size:13 final size:12
Alignment explanation
Indices: 1232814--1232854 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
1232804 AGTCCTAAAC
1232814 TTTTATTATTTA
1 TTTTATTATTTA
1232826 TTATTATTA-TTA
1 TT-TTATTATTTA
1232838 TTTT-TTATTTA
1 TTTTATTATTTA
1232849 GTTTTA
1 -TTTTA
1232855 AAGTGCTGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
10 3 0.12
11 5 0.20
12 11 0.44
13 6 0.24
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (12 bp):
TTTTATTATTTA
Found at i:1232837 original size:16 final size:16
Alignment explanation
Indices: 1232816--1232846 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1232806 TCCTAAACTT
1232816 TTATTATTTATTATTA
1 TTATTATTTATTATTA
*
1232832 TTATTATTTTTTATT
1 TTATTATTTATTATT
1232847 TAGTTTTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTATTATTTATTATTA
Found at i:1234172 original size:19 final size:19
Alignment explanation
Indices: 1234150--1234186 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1234140 TTTTTCCTTA
* *
1234150 TTTTTTTTTATTTTTTAAG
1 TTTTTTTTAATTATTTAAG
1234169 TTTTTTTTAATTATTTAA
1 TTTTTTTTAATTATTTAA
1234187 TATTAAGAAG
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:0.22, C:0.00, G:0.03, T:0.76
Consensus pattern (19 bp):
TTTTTTTTAATTATTTAAG
Found at i:1235383 original size:19 final size:20
Alignment explanation
Indices: 1235350--1235390 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
1235340 ATAATAGGGA
1235350 ATAATAAAGGAAAAAGAAAC
1 ATAATAAAGGAAAAAGAAAC
1235370 ATAATAAA-GAAAAAGAAAC
1 ATAATAAAGGAAAAAGAAAC
1235389 AT
1 AT
1235391 GATCTTACCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.71, C:0.05, G:0.12, T:0.12
Consensus pattern (20 bp):
ATAATAAAGGAAAAAGAAAC
Found at i:1236708 original size:22 final size:23
Alignment explanation
Indices: 1236683--1236727 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
1236673 AAAATATCAA
1236683 TATAA-ATTATTTATTA-CAATTT
1 TATAATATTATTT-TTATCAATTT
1236705 TATAATATTATTTTTATCAATTT
1 TATAATATTATTTTTATCAATTT
1236728 ATCTCATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (23 bp):
TATAATATTATTTTTATCAATTT
Found at i:1239451 original size:2 final size:2
Alignment explanation
Indices: 1239444--1239483 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1239434 AAATGCCAAC
1239444 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1239484 TCAAATTTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1248901 original size:18 final size:18
Alignment explanation
Indices: 1248878--1248943 Score: 69
Period size: 18 Copynumber: 3.7 Consensus size: 18
1248868 AACTTAAGCT
*
1248878 TATACACACACACATATA
1 TATACACACACACATACA
* *
1248896 TATACACATACATATACA
1 TATACACACACACATACA
* *
1248914 TATACATACGCACATACA
1 TATACACACACACATACA
**
1248932 TACGCACACACA
1 TATACACACACA
1248944 AACACATACA
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.47, C:0.29, G:0.03, T:0.21
Consensus pattern (18 bp):
TATACACACACACATACA
Found at i:1248902 original size:16 final size:16
Alignment explanation
Indices: 1248878--1248911 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1248868 AACTTAAGCT
1248878 TATACACACACACATA
1 TATACACACACACATA
* *
1248894 TATATACACATACATA
1 TATACACACACACATA
1248910 TA
1 TA
1248912 CATATACATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (16 bp):
TATACACACACACATA
Found at i:1248904 original size:12 final size:12
Alignment explanation
Indices: 1248887--1248933 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
1248877 TTATACACAC
*
1248887 ACACATATATAT
1 ACACATACATAT
1248899 ACACATACATAT
1 ACACATACATAT
* *
1248911 ACATATACATAC
1 ACACATACATAT
*
1248923 GCACATACATA
1 ACACATACATA
1248934 CGCACACACA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.49, C:0.23, G:0.02, T:0.26
Consensus pattern (12 bp):
ACACATACATAT
Found at i:1248920 original size:16 final size:16
Alignment explanation
Indices: 1248883--1248922 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
1248873 AAGCTTATAC
* *
1248883 ACACACACATATATAT
1 ACACATACATATACAT
1248899 ACACATACATATACAT
1 ACACATACATATACAT
*
1248915 ATACATAC
1 ACACATAC
1248923 GCACATACAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (16 bp):
ACACATACATATACAT
Found at i:1248934 original size:12 final size:12
Alignment explanation
Indices: 1248900--1248939 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
1248890 CATATATATA
**
1248900 CACATACATATA
1 CACATACATACG
*
1248912 CATATACATACG
1 CACATACATACG
1248924 CACATACATACG
1 CACATACATACG
1248936 CACA
1 CACA
1248940 CACAAACACA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.45, C:0.30, G:0.05, T:0.20
Consensus pattern (12 bp):
CACATACATACG
Found at i:1249244 original size:22 final size:22
Alignment explanation
Indices: 1249216--1249261 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
1249206 AAGCATATCC
1249216 TCTCTTATAATGAATTCTTTCA
1 TCTCTTATAATGAATTCTTTCA
1249238 TCTCTTATAATGAATTCTTTCA
1 TCTCTTATAATGAATTCTTTCA
1249260 TC
1 TC
1249262 GATTTCAGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.20, G:0.04, T:0.50
Consensus pattern (22 bp):
TCTCTTATAATGAATTCTTTCA
Found at i:1260917 original size:2 final size:2
Alignment explanation
Indices: 1260910--1260935 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1260900 TCTCTACTAC
1260910 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
1260936 CCATTTTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1270864 original size:16 final size:16
Alignment explanation
Indices: 1270843--1270878 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
1270833 TAAAGTCGAT
*
1270843 TGATATGAATGTAAAA
1 TGATATGAATCTAAAA
1270859 TGATATGAATCTAAAA
1 TGATATGAATCTAAAA
1270875 TGAT
1 TGAT
1270879 TCAAATCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.47, C:0.03, G:0.17, T:0.33
Consensus pattern (16 bp):
TGATATGAATCTAAAA
Found at i:1271769 original size:20 final size:22
Alignment explanation
Indices: 1271736--1271776 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
1271726 TAGTTTTATT
1271736 AAAATTGATATTTAA-TAATTA
1 AAAATTGATATTTAATTAATTA
*
1271757 AAAATT-ATTTTTAATTAATT
1 AAAATTGATATTTAATTAATT
1271777 TTAATTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
AAAATTGATATTTAATTAATTA
Found at i:1272175 original size:2 final size:2
Alignment explanation
Indices: 1272168--1272201 Score: 59
Period size: 2 Copynumber: 16.5 Consensus size: 2
1272158 GTGCACCAAC
1272168 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
1272202 TTAATATCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1272412 original size:18 final size:18
Alignment explanation
Indices: 1272385--1272420 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1272375 TGCTTAATAT
*
1272385 ATTTTTATATTTATATAA
1 ATTTTGATATTTATATAA
*
1272403 ATTTTGATATTTTTATAA
1 ATTTTGATATTTATATAA
1272421 TTCGTATTAT
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:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
ATTTTGATATTTATATAA
Found at i:1272841 original size:17 final size:18
Alignment explanation
Indices: 1272819--1272858 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
1272809 AAAAGACTCA
1272819 CAATGATATGCA-CATTT
1 CAATGATATGCAGCATTT
*
1272836 CAATGATGTGCAGCATTT
1 CAATGATATGCAGCATTT
*
1272854 GAATG
1 CAATG
1272859 GATAATCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.33
Consensus pattern (18 bp):
CAATGATATGCAGCATTT
Found at i:1275854 original size:13 final size:14
Alignment explanation
Indices: 1275822--1275858 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
1275812 CTTTAAGTGG
1275822 TTAAA-TATTATGA
1 TTAAATTATTATGA
1275835 TTAAATTATTAT-A
1 TTAAATTATTATGA
*
1275848 TTGAATTATTA
1 TTAAATTATTA
1275859 GATATTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 16 0.73
14 6 0.27
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (14 bp):
TTAAATTATTATGA
Found at i:1276022 original size:19 final size:21
Alignment explanation
Indices: 1275998--1276038 Score: 68
Period size: 19 Copynumber: 2.0 Consensus size: 21
1275988 CATCTAAATA
1275998 TCAGAAAATC-TCT-ATTTTT
1 TCAGAAAATCTTCTCATTTTT
1276017 TCAGAAAATCTTCTCATTTTT
1 TCAGAAAATCTTCTCATTTTT
1276038 T
1 T
1276039 TTGGAAAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 10 0.50
20 3 0.15
21 7 0.35
ACGTcount: A:0.29, C:0.17, G:0.05, T:0.49
Consensus pattern (21 bp):
TCAGAAAATCTTCTCATTTTT
Done.