Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold372
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: 1060101
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 8 of 9
Found at i:927260 original size:16 final size:16
Alignment explanation
Indices: 927222--927279 Score: 59
Period size: 16 Copynumber: 3.7 Consensus size: 16
927212 AAATAATATA
927222 AATATATTTAAATTATT
1 AATATA-TTAAATTATT
927239 AA-ATATTAAA-TATGT
1 AATATATTAAATTAT-T
*
927254 AATATATTAAAATATT
1 AATATATTAAATTATT
*
927270 TATA-ATTAAA
1 AATATATTAAA
927280 ATAATATATG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 3 0.08
15 14 0.38
16 15 0.41
17 5 0.14
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (16 bp):
AATATATTAAATTATT
Found at i:927586 original size:9 final size:8
Alignment explanation
Indices: 927568--927597 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
927558 TATAAGTTAT
927568 TAAAAAAA
1 TAAAAAAA
927576 TAAAAATAA
1 TAAAAA-AA
927585 TAAAAAAA
1 TAAAAAAA
927593 TAAAA
1 TAAAA
927598 TATCGAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (8 bp):
TAAAAAAA
Found at i:932614 original size:28 final size:26
Alignment explanation
Indices: 932566--932631 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 26
932556 TTTTAAATTT
*
932566 AATTGTTAATAATTTAATATTTTTATTA
1 AATT-TTAA-AATTTAATATTATTATTA
932594 AATTTTAAAATTTAAATTATTATTATTA
1 AATTTTAAAATTT-AA-TATTATTATTA
*
932622 AATTTCAAAA
1 AATTTTAAAA
932632 CTGAATTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 5 0.15
27 6 0.18
28 23 0.68
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (26 bp):
AATTTTAAAATTTAATATTATTATTA
Found at i:932804 original size:22 final size:23
Alignment explanation
Indices: 932768--932831 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 23
932758 TAAACATCTA
*
932768 TTTTTTAATTAAAAAACTA-CTATT
1 TTTTTTAA--AAAAAACTATCCATT
932792 TTTTTTAAAAAAAACTATCCATT
1 TTTTTTAAAAAAAACTATCCATT
932815 TTCTTTATGAAAAAAAA
1 TT-TTT-T-AAAAAAAA
932832 AACTTCCCAC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
22 9 0.26
23 6 0.17
24 11 0.31
25 1 0.03
26 8 0.23
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.44
Consensus pattern (23 bp):
TTTTTTAAAAAAAACTATCCATT
Found at i:932804 original size:23 final size:24
Alignment explanation
Indices: 932768--932832 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 24
932758 TAAACATCTA
* *
932768 TTTTTTAATTAAAAAACTA-CTATT
1 TTTTTTAA-AAAAAAACTATCCATT
932792 TTTTTT-AAAAAAAACTATCCATT
1 TTTTTTAAAAAAAAACTATCCATT
932815 TTCTTTATGAAAAAAAAA
1 TT-TTT-T-AAAAAAAAA
932833 ACTTCCCACT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
22 9 0.26
23 7 0.21
24 9 0.26
25 1 0.03
27 8 0.24
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.43
Consensus pattern (24 bp):
TTTTTTAAAAAAAAACTATCCATT
Found at i:932808 original size:19 final size:21
Alignment explanation
Indices: 932759--932809 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 21
932749 AATAATTATT
*
932759 AAACATCTATTTTTTAATTAAA
1 AAACAACTATTTTTT-ATTAAA
*
932781 AAACTACTATTTTTT-TTAAA
1 AAACAACTATTTTTTATTAAA
932801 AAA-AACTAT
1 AAACAACTAT
932810 CCATTTTCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 5 0.19
20 8 0.31
22 13 0.50
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (21 bp):
AAACAACTATTTTTTATTAAA
Found at i:933555 original size:24 final size:26
Alignment explanation
Indices: 933502--933556 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
933492 TTCCTATAAA
*
933502 AAATAATTATAATATTATTTTATATT
1 AAATAATTATAATATTATTTTAAATT
*
933528 -AATATTTAT-ATATTA-TTTAAATT
1 AAATAATTATAATATTATTTTAAATT
933551 AAATAA
1 AAATAA
933557 AATAATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
23 7 0.28
24 10 0.40
25 8 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
AAATAATTATAATATTATTTTAAATT
Found at i:933906 original size:33 final size:30
Alignment explanation
Indices: 933858--933935 Score: 83
Period size: 26 Copynumber: 2.6 Consensus size: 30
933848 AAATAAAGTT
* *
933858 TAATTATATATTTTTTAATTTAATAAAAATAA
1 TAATTAAATAATTTTTAATTT-A-AAAAATAA
933890 TAAATTAAATAA--TTT--TTTAAAAAATAA
1 T-AATTAAATAATTTTTAATTTAAAAAATAA
933917 TAATTAAATAATTTTTAAT
1 TAATTAAATAATTTTTAAT
933936 CGATATTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
26 10 0.26
27 9 0.23
28 4 0.10
29 3 0.08
30 1 0.03
31 3 0.08
32 1 0.03
33 8 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (30 bp):
TAATTAAATAATTTTTAATTTAAAAAATAA
Found at i:933931 original size:26 final size:27
Alignment explanation
Indices: 933882--933932 Score: 95
Period size: 26 Copynumber: 1.9 Consensus size: 27
933872 TTAATTTAAT
933882 AAAAATAATAAATTAAATAATTTTTTA
1 AAAAATAATAAATTAAATAATTTTTTA
933909 AAAAATAAT-AATTAAATAATTTTT
1 AAAAATAATAAATTAAATAATTTTT
933933 AATCGATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (27 bp):
AAAAATAATAAATTAAATAATTTTTTA
Found at i:934839 original size:17 final size:18
Alignment explanation
Indices: 934796--934840 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
934786 TTCATAAATC
*
934796 TAATTAA-ATTTTTTATT
1 TAATTAATATTTATTATT
934813 TAA-TATATATTTATT-TT
1 TAATTA-ATATTTATTATT
934830 TAATTAATATT
1 TAATTAATATT
934841 GAAAAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
16 2 0.08
17 14 0.58
18 8 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TAATTAATATTTATTATT
Found at i:935273 original size:19 final size:19
Alignment explanation
Indices: 935249--935288 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
935239 TATTTAAATT
* *
935249 TTTTATTTATTTGTATTAG
1 TTTTATTAATGTGTATTAG
935268 TTTTATTAATGTGTATTAG
1 TTTTATTAATGTGTATTAG
935287 TT
1 TT
935289 CATATTCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.12, T:0.65
Consensus pattern (19 bp):
TTTTATTAATGTGTATTAG
Found at i:935672 original size:6 final size:6
Alignment explanation
Indices: 935661--935688 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
935651 ATATTAAAAT
935661 ATATTA ATATTA ATATTA ATATTA ATAT
1 ATATTA ATATTA ATATTA ATATTA ATAT
935689 ATATAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATATTA
Found at i:936175 original size:18 final size:18
Alignment explanation
Indices: 936127--936186 Score: 61
Period size: 17 Copynumber: 3.3 Consensus size: 18
936117 TTTTTTTATG
* *
936127 AAATAATTTTATAATATAC
1 AAAT-ATTTTAAAATATAT
936146 AAA-ATTTT-AAATATAT
1 AAATATTTTAAAATATAT
*
936162 AAATATTTTAAAATTTAT
1 AAATATTTTAAAATATAT
936180 ATAATAT
1 A-AATAT
936187 AAATTATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
16 9 0.26
17 10 0.29
18 8 0.23
19 8 0.23
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
AAATATTTTAAAATATAT
Found at i:936213 original size:18 final size:19
Alignment explanation
Indices: 936173--936213 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
936163 AATATTTTAA
*
936173 AATTTATATAATATAAATT
1 AATTAATATAATATAAATT
*
936192 -ATTAATATATTA-AAATT
1 AATTAATATAATATAAATT
936209 AATTA
1 AATTA
936214 TAAAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AATTAATATAATATAAATT
Found at i:936216 original size:33 final size:33
Alignment explanation
Indices: 936153--936216 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
936143 TACAAAATTT
* *
936153 TAAATATATAAATATTTTAAAATTTATATAATA
1 TAAATATATAAATATATTAAAATTAATATAATA
*
936186 TAAAT-TATTAATATATTAAAATTAATTATAA
1 TAAATATATAAATATATTAAAATTAA-TATAA
936217 AAAAAAACCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 17 0.63
33 10 0.37
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (33 bp):
TAAATATATAAATATATTAAAATTAATATAATA
Found at i:936530 original size:32 final size:33
Alignment explanation
Indices: 936476--936537 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
936466 TATAATTATG
936476 TTTAAAAAATTATATTTATATAAATTTTAATTT
1 TTTAAAAAATTATATTTATATAAATTTTAATTT
* *
936509 TTTAAAATATTTTA-TTATATAAATTTTAA
1 TTTAAAAAATTATATTTATATAAATTTTAA
936538 AATATTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 15 0.56
33 12 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (33 bp):
TTTAAAAAATTATATTTATATAAATTTTAATTT
Found at i:936792 original size:37 final size:37
Alignment explanation
Indices: 936742--936816 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 37
936732 GCAAAAGCAC
936742 TAATATAGCTTAAAAAGTAATAGAA-CT-AAGAAACTTA
1 TAATATAGCTTAAAAAGTAATA-AACCTGAA-AAACTTA
* *
936779 TAATATGGTTTAAAAAGTAATAAACCTGAAAAACTTA
1 TAATATAGCTTAAAAAGTAATAAACCTGAAAAACTTA
936816 T
1 T
936817 TAGAAATGAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 2 0.06
37 30 0.88
38 2 0.06
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.29
Consensus pattern (37 bp):
TAATATAGCTTAAAAAGTAATAAACCTGAAAAACTTA
Found at i:938743 original size:59 final size:60
Alignment explanation
Indices: 938661--938779 Score: 186
Period size: 59 Copynumber: 2.0 Consensus size: 60
938651 CTATTAAAAT
* *
938661 TACTTAAACAAAATTAGCTTAATTTGTTAATAATAAAAGTTTAACGATATAATTTAATGA
1 TACTTAAACAAAATTAGCTTAATTTGTGAATAATAAAAGTTTAACAATATAATTTAATGA
* * *
938721 TACTT-AACAGAATTAGTTTAATTTGTGAATAATAAAAGTTTAATAATATAATTTAATGA
1 TACTTAAACAAAATTAGCTTAATTTGTGAATAATAAAAGTTTAACAATATAATTTAATGA
938780 AACTAGTTGA
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
59 49 0.91
60 5 0.09
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.39
Consensus pattern (60 bp):
TACTTAAACAAAATTAGCTTAATTTGTGAATAATAAAAGTTTAACAATATAATTTAATGA
Found at i:939502 original size:22 final size:22
Alignment explanation
Indices: 939471--939516 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
939461 ACAAATAAAA
*
939471 AATATCAAATCTAATAAATTTG
1 AATATCAAATCTAATAAACTTG
* * *
939493 AATATTAAATTTAATTAACTTG
1 AATATCAAATCTAATAAACTTG
939515 AA
1 AA
939517 ACTAATTAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.07, G:0.04, T:0.39
Consensus pattern (22 bp):
AATATCAAATCTAATAAACTTG
Found at i:939584 original size:36 final size:35
Alignment explanation
Indices: 939495--939584 Score: 92
Period size: 36 Copynumber: 2.5 Consensus size: 35
939485 TAAATTTGAA
* *
939495 TATTAAATTTAATTAACTTGAAACTAATTAATCGAG
1 TATTAAA-TTAATTAATTTGAAACTAATTAATCAAG
* * *
939531 TGTTAAATTAAAATAATTTG-AATTCAATTAACTCAAG
1 TATTAAATT-AATTAATTTGAAACT-AATTAA-TCAAG
939568 TATTAAATTAATTAATT
1 TATTAAATTAATTAATT
939585 AAAAATTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
35 5 0.11
36 27 0.61
37 12 0.27
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.41
Consensus pattern (35 bp):
TATTAAATTAATTAATTTGAAACTAATTAATCAAG
Found at i:939609 original size:16 final size:16
Alignment explanation
Indices: 939580--939628 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
939570 TTAAATTAAT
*
939580 TAATTAAAAATTAAAA
1 TAATTTAAAATTAAAA
*
939596 TAATTTAAATTTAAAA
1 TAATTTAAAATTAAAA
* *
939612 AAATTTAAAATCAAAA
1 TAATTTAAAATTAAAA
939628 T
1 T
939629 TAAAACTAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (16 bp):
TAATTTAAAATTAAAA
Found at i:940188 original size:24 final size:23
Alignment explanation
Indices: 940145--940190 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
940135 TACGTTTGAG
*
940145 TTTAAATATTTTTTTAATTTATT
1 TTTAAATATTTTATTAATTTATT
940168 TTTATAATATTATTATT-ATTTAT
1 TTTA-AATATT-TTATTAATTTAT
940191 ATCAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 12 0.60
25 4 0.20
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTAAATATTTTATTAATTTATT
Found at i:940236 original size:24 final size:26
Alignment explanation
Indices: 940182--940231 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
940172 TAATATTATT
940182 ATTATTTATATCAAAAAAATTAAAAA
1 ATTATTTATATCAAAAAAATTAAAAA
*
940208 ATTATTTAT-TAAAAAAATATTAAA
1 ATTATTTATATCAAAAAA-ATTAAA
940232 TTTATAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (26 bp):
ATTATTTATATCAAAAAAATTAAAAA
Found at i:940307 original size:32 final size:35
Alignment explanation
Indices: 940271--940370 Score: 95
Period size: 35 Copynumber: 2.9 Consensus size: 35
940261 TTAAAAGATA
940271 AATATATTAATAA-TTACAT-AATAT-AAATA-ATT
1 AATATATTAA-AATTTACATAAATATAAAATATATT
*
940303 AATATATTAAAATTTATATAAATATAAAATATATT
1 AATATATTAAAATTTACATAAATATAAAATATATT
* *
940338 AATTATAATTATAA--TATATAAATATATAAATAT
1 AA-TAT-ATTAAAATTTACATAAATATA-AAATAT
940371 GACATAAAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
31 2 0.03
32 15 0.25
33 5 0.08
34 5 0.08
35 17 0.29
36 9 0.15
37 6 0.10
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (35 bp):
AATATATTAAAATTTACATAAATATAAAATATATT
Found at i:940385 original size:8 final size:8
Alignment explanation
Indices: 940222--940370 Score: 75
Period size: 8 Copynumber: 18.8 Consensus size: 8
940212 TTTATTAAAA
940222 AAATAT-T
1 AAATATAT
*
940229 AAATTTAT
1 AAATATAT
* *
940237 AAAAATAAA
1 AAATAT-AT
940246 AAATATAT
1 AAATATAT
940254 AAA-ATAATT
1 AAATAT-A-T
*
940263 AAA-AGAT
1 AAATATAT
940270 AAATATAT
1 AAATATAT
*
940278 TAATA-ATT
1 AAATATA-T
*
940286 ACATAATAT
1 AAAT-ATAT
940295 AAATA-AT
1 AAATATAT
*
940302 TAATATATT
1 AAATATA-T
940311 AAAATTTATAT
1 -AAA--TATAT
940322 AAATATA-
1 AAATATAT
940329 AAATATAT
1 AAATATAT
*
940337 TAAT-TAT
1 AAATATAT
940344 -AAT-TAT
1 AAATATAT
940350 -AATATAT
1 AAATATAT
940357 AAATATAT
1 AAATATAT
940365 AAATAT
1 AAATAT
940371 GACATAAAAA
Statistics
Matches: 111, Mismatches: 15, Indels: 31
0.71 0.10 0.20
Matches are distributed among these distances:
6 9 0.08
7 31 0.28
8 43 0.39
9 17 0.15
10 6 0.05
11 1 0.01
12 4 0.04
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (8 bp):
AAATATAT
Found at i:940386 original size:85 final size:83
Alignment explanation
Indices: 940220--940396 Score: 209
Period size: 83 Copynumber: 2.1 Consensus size: 83
940210 TATTTATTAA
*
940220 AAAAATATT-AAATTTATAAAAATAAAAAATATATAAAATAATTAAAAGATAAATATATTAATAA
1 AAAAATATTAAAATTTATAAAAATAAAAAATATATAAAATAATTAAAAGATAAATATATAAATAA
*
940284 TTACATAATATAAATAAT
66 TGACATAATATAAATAAT
* * * * * *
940302 TAATATATTAAAATTTATATAAATATAAAATATATTAATTATAATTATAATATATAAATATATAA
1 AAAAATATTAAAATTTATAAAAATAAAAAATATA-TAA-AATAATTA-AA-AGATAAATATATAA
940367 AT-ATGACATAA-A-AATATAAT
62 ATAATGACATAATATAA-ATAAT
940387 AAAAATATTA
1 AAAAATATTA
940397 TGATCTTTCA
Statistics
Matches: 79, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
82 7 0.09
83 22 0.28
84 5 0.06
85 21 0.27
86 10 0.13
87 14 0.18
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (83 bp):
AAAAATATTAAAATTTATAAAAATAAAAAATATATAAAATAATTAAAAGATAAATATATAAATAA
TGACATAATATAAATAAT
Found at i:943189 original size:16 final size:17
Alignment explanation
Indices: 943165--943201 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
943155 TTAAAAATAT
*
943165 TATATTAAAATTTAT-A
1 TATAATAAAATTTATAA
943181 TATAATAAAATTTATAA
1 TATAATAAAATTTATAA
943198 TATA
1 TATA
943202 TCTGGAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TATAATAAAATTTATAA
Found at i:943404 original size:5 final size:5
Alignment explanation
Indices: 943394--943423 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
943384 GATTGTTTAT
943394 TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA
943424 CAAATATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:944308 original size:19 final size:18
Alignment explanation
Indices: 944275--944311 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
944265 TAATTATGAC
*
944275 ATAATAAAATTTATAAAT
1 ATAATAAAATATATAAAT
944293 ATAATATAAATATATAAAT
1 ATAATA-AAATATATAAAT
944312 TACTAAACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAATAAAATATATAAAT
Found at i:944681 original size:22 final size:23
Alignment explanation
Indices: 944648--944692 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
944638 TTATTTGATT
944648 TATTGTATTATTTTTAT-ATTAA
1 TATTGTATTATTTTTATAATTAA
944670 TATT-TATATATTTTTATAATTAA
1 TATTGTAT-TATTTTTATAATTAA
944693 ATTAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 3 0.14
22 13 0.62
23 5 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
TATTGTATTATTTTTATAATTAA
Found at i:945704 original size:17 final size:16
Alignment explanation
Indices: 945678--945712 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
945668 ATCAAGTTTT
945678 TTTATTTTAATAAATA
1 TTTATTTTAATAAATA
*
945694 TTTATTTTTAATTAATA
1 TTTA-TTTTAATAAATA
945711 TT
1 TT
945713 AAAGAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTATTTTAATAAATA
Found at i:946123 original size:27 final size:28
Alignment explanation
Indices: 946091--946144 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 28
946081 GTTATGATAT
946091 AAATATAATATAAAAATA-ATTAAAATA
1 AAATATAATATAAAAATATATTAAAATA
*
946118 AAATATAATATAAATATATATTAAAAT
1 AAATATAATATAAAAATATATTAAAAT
946145 TTATATTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 17 0.68
28 8 0.32
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (28 bp):
AAATATAATATAAAAATATATTAAAATA
Found at i:946223 original size:14 final size:15
Alignment explanation
Indices: 946185--946225 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
946175 ATTTTATAAA
*
946185 AATATATAATATTTT
1 AATATATAAAATTTT
946200 AAT-TATAAAATTTT
1 AATATATAAAATTTT
*
946214 AATATAAAAAAT
1 AATATATAAAAT
946226 AAAATAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
AATATATAAAATTTT
Found at i:946659 original size:31 final size:29
Alignment explanation
Indices: 946602--946671 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 29
946592 ATGAGAATAT
946602 TATATTTTATATAAATTTTAATATATTAA
1 TATATTTTATATAAATTTTAATATATTAA
*
946631 TAATTATTTTATATAAATTTT-ATAATATTTA
1 T-A-TATTTTATATAAATTTTAAT-ATATTAA
946662 TATATTTTAT
1 TATATTTTAT
946672 CATATTTGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
29 9 0.24
30 4 0.11
31 24 0.65
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (29 bp):
TATATTTTATATAAATTTTAATATATTAA
Found at i:946694 original size:18 final size:18
Alignment explanation
Indices: 946642--946688 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
946632 AATTATTTTA
* *
946642 TATAAATTTTATAATATT
1 TATATATTTTATCATATT
946660 TATATATTTTATCATATT
1 TATATATTTTATCATATT
*
946678 TGTATTATTTT
1 TATA-TATTTT
946689 TTATATCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (18 bp):
TATATATTTTATCATATT
Found at i:946709 original size:21 final size:23
Alignment explanation
Indices: 946669--946712 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
946659 TTATATATTT
*
946669 TATCATATTTGTATTATTTTTTA
1 TATCATATTTGTAATATTTTTTA
946692 TATCATATTT-TAAT-TTTTTTA
1 TATCATATTTGTAATATTTTTTA
946713 ATTTGTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 7 0.35
22 3 0.15
23 10 0.50
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (23 bp):
TATCATATTTGTAATATTTTTTA
Found at i:948307 original size:2 final size:2
Alignment explanation
Indices: 948294--948332 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
948284 AAACATCATA
* *
948294 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
948333 ATTCACTGTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:948937 original size:10 final size:11
Alignment explanation
Indices: 948916--948965 Score: 59
Period size: 10 Copynumber: 4.6 Consensus size: 11
948906 ATAAATTTAA
*
948916 AATAATACATT
1 AATAATATATT
948927 AA-AATATATT
1 AATAATATATT
*
948937 AATATTAATATT
1 AATAAT-ATATT
948949 AAT-ATATATT
1 AATAATATATT
948959 AATAATA
1 AATAATA
948966 AAATAAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
10 17 0.52
11 8 0.24
12 8 0.24
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (11 bp):
AATAATATATT
Found at i:948950 original size:22 final size:22
Alignment explanation
Indices: 948916--948976 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
948906 ATAAATTTAA
*
948916 AATAAT-ACATTAAAATATATT
1 AATAATAAAATTAAAATATATT
* * *
948937 AATATTAATATTAATATATATT
1 AATAATAAAATTAAAATATATT
*
948959 AATAATAAAATAAAAATA
1 AATAATAAAATTAAAATA
948977 ATATATATTT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 5 0.16
22 27 0.84
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
AATAATAAAATTAAAATATATT
Found at i:950959 original size:21 final size:20
Alignment explanation
Indices: 950935--950974 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
950925 TTTAATTAAG
950935 TTATTTGATTCATTAATAAAT
1 TTATTTGATT-ATTAATAAAT
*
950956 TTATTTTATTATTAA-AAAT
1 TTATTTGATTATTAATAAAT
950975 AATTTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 5 0.28
21 9 0.50
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (20 bp):
TTATTTGATTATTAATAAAT
Found at i:952748 original size:10 final size:10
Alignment explanation
Indices: 952702--952812 Score: 86
Period size: 10 Copynumber: 11.3 Consensus size: 10
952692 TATAAAAAAT
952702 TATTAATATTA
1 TATTAAT-TTA
*
952713 TATTATTTTA
1 TATTAATTTA
952723 -ATT--TTTA
1 TATTAATTTA
* *
952730 TATTTATTTG
1 TATTAATTTA
952740 TATTAATTTA
1 TATTAATTTA
**
952750 TATTAATACA
1 TATTAATTTA
952760 TATTAATTTA
1 TATTAATTTA
* *
952770 TTAGT-ATTTT
1 -TATTAATTTA
952780 TATTAATTTA
1 TATTAATTTA
*
952790 TATTAATTAA
1 TATTAATTTA
* *
952800 TATCAATTGA
1 TATTAATTTA
952810 TAT
1 TAT
952813 AAAATTTTAA
Statistics
Matches: 80, Mismatches: 15, Indels: 11
0.75 0.14 0.10
Matches are distributed among these distances:
7 4 0.05
8 3 0.04
9 6 0.08
10 58 0.73
11 9 0.11
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.59
Consensus pattern (10 bp):
TATTAATTTA
Found at i:952821 original size:40 final size:40
Alignment explanation
Indices: 952735--952833 Score: 103
Period size: 40 Copynumber: 2.5 Consensus size: 40
952725 TTTTATATTT
* * *
952735 ATTTGTATTAATTTATATTAATACATATTAATTTATTAGTA
1 ATTT-TATTAATTTATATTAATACATATCAATTGATTAGAA
*
952776 TTTTTATTAATTTATATTAATTA-ATATCAATTGATATA-AA
1 ATTTTATTAATTTATATTAA-TACATATCAATTGAT-TAGAA
* *
952816 ATTTTAATATTTTATATT
1 ATTTTATTAATTTATATT
952834 TTTAAAAAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
40 42 0.86
41 7 0.14
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (40 bp):
ATTTTATTAATTTATATTAATACATATCAATTGATTAGAA
Found at i:952872 original size:26 final size:26
Alignment explanation
Indices: 952813--952876 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
952803 CAATTGATAT
*
952813 AAAATTTTAATATTTTATATTTTTAAAA
1 AAAATTTT--TATTTGATATTTTTAAAA
952841 AAAATTATTTATTTGAT-TTTTTAAAA
1 AAAATT-TTTATTTGATATTTTTAAAA
**
952867 TTAATTTTTA
1 AAAATTTTTA
952877 ATTTTTTATC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
25 4 0.12
26 13 0.41
27 7 0.22
28 6 0.19
29 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (26 bp):
AAAATTTTTATTTGATATTTTTAAAA
Found at i:952882 original size:21 final size:22
Alignment explanation
Indices: 952841--952884 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
952831 ATTTTTAAAA
* *
952841 AAAATTATTTATTTGATTTTTT
1 AAAATTAATTATTTAATTTTTT
952863 AAAATTAATT-TTTAATTTTTT
1 AAAATTAATTATTTAATTTTTT
952884 A
1 A
952885 TCTTGAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
AAAATTAATTATTTAATTTTTT
Found at i:953299 original size:11 final size:11
Alignment explanation
Indices: 953285--953327 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 11
953275 TAATTTAGTG
953285 TATTTAATATT
1 TATTTAATATT
*
953296 TATTTAATTTAATA
1 TATTTAA--T-ATT
953310 TATTTAATATT
1 TATTTAATATT
953321 TATTTAA
1 TATTTAA
953328 CATTAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
11 16 0.59
12 1 0.04
13 1 0.04
14 9 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTTAATATT
Found at i:953305 original size:25 final size:25
Alignment explanation
Indices: 953275--953327 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
953265 TTTTTATTAA
* *
953275 TAATTTAGTGTATTTAATATTTATT
1 TAATTTAATATATTTAATATTTATT
953300 TAATTTAATATATTTAATATTTATT
1 TAATTTAATATATTTAATATTTATT
953325 TAA
1 TAA
953328 CATTAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (25 bp):
TAATTTAATATATTTAATATTTATT
Found at i:954928 original size:32 final size:35
Alignment explanation
Indices: 954892--954991 Score: 95
Period size: 35 Copynumber: 2.9 Consensus size: 35
954882 TTAAAAGATA
954892 AATATATTAATAA-TTACAT-AATAT-AAATA-ATT
1 AATATATTAA-AATTTACATAAATATAAAATATATT
*
954924 AATATATTAAAATTTATATAAATATAAAATATATT
1 AATATATTAAAATTTACATAAATATAAAATATATT
* *
954959 AATTATAATTATAA--TATATAAATATATAAATAT
1 AA-TAT-ATTAAAATTTACATAAATATA-AAATAT
954992 GACATAAAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
31 2 0.03
32 15 0.25
33 5 0.08
34 5 0.08
35 17 0.29
36 9 0.15
37 6 0.10
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (35 bp):
AATATATTAAAATTTACATAAATATAAAATATATT
Found at i:955006 original size:8 final size:8
Alignment explanation
Indices: 954856--954991 Score: 74
Period size: 8 Copynumber: 17.1 Consensus size: 8
954846 ATATTAGATT
*
954856 TATAAAAA
1 TATAAATA
*
954864 TAAAAATA
1 TATAAATA
954872 TATAAA-A
1 TATAAATA
954879 TAATTAAA-A
1 T-A-TAAATA
*
954888 GATAAATA
1 TATAAATA
*
954896 TATTAATA
1 TATAAATA
*
954904 -ATTACATAA
1 TA-TAAAT-A
954913 TATAAATA
1 TATAAATA
*
954921 -ATTAATA
1 TATAAATA
954928 TATTAAAATTTA
1 TA-T-AAA--TA
954940 TATAAATA
1 TATAAATA
954948 TA-AAATA
1 TATAAATA
*
954955 TATTAAT-
1 TATAAATA
954962 TAT-AAT-
1 TATAAATA
954968 TAT-AATA
1 TATAAATA
954975 TATAAATA
1 TATAAATA
954983 TATAAATA
1 TATAAATA
954991 T
1 T
954992 GACATAAAAA
Statistics
Matches: 102, Mismatches: 12, Indels: 28
0.72 0.08 0.20
Matches are distributed among these distances:
6 9 0.09
7 26 0.25
8 45 0.44
9 11 0.11
10 6 0.06
11 1 0.01
12 4 0.04
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (8 bp):
TATAAATA
Found at i:958023 original size:5 final size:5
Alignment explanation
Indices: 958013--958042 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
958003 GATTGTTTAT
958013 TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA
958043 CAAATATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:959644 original size:25 final size:24
Alignment explanation
Indices: 959616--959668 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 24
959606 TTTTATTCAA
* *
959616 TAAATATAATATATTAAATATTTTT
1 TAAAAATAATA-ATTAAATAATTTT
959641 TAAAAAATAATAATTAAATAATTTT
1 T-AAAAATAATAATTAAATAATTTT
959666 TAA
1 TAA
959669 TCAACATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 2 0.08
25 14 0.56
26 9 0.36
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
TAAAAATAATAATTAAATAATTTT
Found at i:960289 original size:17 final size:16
Alignment explanation
Indices: 960263--960299 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
960253 ATCAAGTTTT
960263 TTTATTTTAATAAATA
1 TTTATTTTAATAAATA
*
960279 TTTATTTTTAATTAATA
1 TTTA-TTTTAATAAATA
960296 TTTA
1 TTTA
960300 AGAATTAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTATTTTAATAAATA
Found at i:960687 original size:11 final size:11
Alignment explanation
Indices: 960671--960730 Score: 51
Period size: 11 Copynumber: 6.0 Consensus size: 11
960661 TAATGTTATG
960671 ATATAAATATA
1 ATATAAATATA
*
960682 ATATAAAAATA
1 ATATAAATATA
960693 AT-T--A-A-A
1 ATATAAATATA
960699 ATA-AAATATA
1 ATATAAATATA
* *
960709 ACATAAATATG
1 ATATAAATATA
960720 ATATAAATATA
1 ATATAAATATA
960731 TATTAAAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
6 3 0.08
7 1 0.03
8 2 0.05
9 1 0.03
10 4 0.11
11 27 0.71
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (11 bp):
ATATAAATATA
Found at i:960816 original size:13 final size:13
Alignment explanation
Indices: 960783--960817 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
960773 TTATATAAAT
*
960783 ATATAATATTTTA
1 ATATAAAATTTTA
960796 ATTATAAAATTTTA
1 A-TATAAAATTTTA
960810 ATATAAAA
1 ATATAAAA
960818 ATAAAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATAAAATTTTA
Found at i:960818 original size:14 final size:15
Alignment explanation
Indices: 960728--960819 Score: 64
Period size: 15 Copynumber: 5.7 Consensus size: 15
960718 TGATATAAAT
960728 ATATATTAAAATTTATA
1 ATATA-TAAAATTT-TA
* *
960745 TTATAT-TAATTATTA
1 ATATATAAAATT-TTA
960760 ATATATTAAAATTTTA
1 ATATA-TAAAATTTTA
960776 TATAAATATATAATATTTTA
1 -AT--ATATA-AA-ATTTTA
960796 AT-TATAAAATTTTA
1 ATATATAAAATTTTA
960810 ATATA-AAAAT
1 ATATATAAAAT
960820 AAAATAATAT
Statistics
Matches: 62, Mismatches: 4, Indels: 21
0.71 0.05 0.24
Matches are distributed among these distances:
14 13 0.21
15 14 0.23
16 10 0.16
17 10 0.16
18 2 0.03
19 7 0.11
20 6 0.10
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATATATAAAATTTTA
Found at i:961255 original size:31 final size:29
Alignment explanation
Indices: 961198--961267 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 29
961188 ATGAGAATAT
961198 TATATTTTATATAAATTTTAATATATTAA
1 TATATTTTATATAAATTTTAATATATTAA
*
961227 TAATTATTTTATATAAATTTT-ATAATATTTA
1 T-A-TATTTTATATAAATTTTAAT-ATATTAA
961258 TATATTTTAT
1 TATATTTTAT
961268 CATATTTGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
29 9 0.24
30 4 0.11
31 24 0.65
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (29 bp):
TATATTTTATATAAATTTTAATATATTAA
Found at i:961290 original size:18 final size:18
Alignment explanation
Indices: 961238--961284 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
961228 AATTATTTTA
* *
961238 TATAAATTTTATAATATT
1 TATATATTTTATCATATT
961256 TATATATTTTATCATATT
1 TATATATTTTATCATATT
*
961274 TGTATTATTTT
1 TATA-TATTTT
961285 TTATATCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (18 bp):
TATATATTTTATCATATT
Found at i:961305 original size:21 final size:23
Alignment explanation
Indices: 961265--961308 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
961255 TTATATATTT
*
961265 TATCATATTTGTATTATTTTTTA
1 TATCATATTTGTAATATTTTTTA
961288 TATCATATTT-TAAT-TTTTTTA
1 TATCATATTTGTAATATTTTTTA
961309 ATTTGTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 7 0.35
22 3 0.15
23 10 0.50
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (23 bp):
TATCATATTTGTAATATTTTTTA
Found at i:962902 original size:2 final size:2
Alignment explanation
Indices: 962889--962923 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
962879 AAACATCATA
* *
962889 AT AT AT AC AT AT AT AT AT AT AT AT AT TT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
962924 ATTCACTGTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:963530 original size:10 final size:11
Alignment explanation
Indices: 963509--963558 Score: 59
Period size: 10 Copynumber: 4.6 Consensus size: 11
963499 ATAAATTTAA
*
963509 AATAATACATT
1 AATAATATATT
963520 AA-AATATATT
1 AATAATATATT
*
963530 AATATTAATATT
1 AATAAT-ATATT
963542 AAT-ATATATT
1 AATAATATATT
963552 AATAATA
1 AATAATA
963559 AAATAAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
10 17 0.52
11 8 0.24
12 8 0.24
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (11 bp):
AATAATATATT
Found at i:963543 original size:22 final size:22
Alignment explanation
Indices: 963509--963569 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
963499 ATAAATTTAA
*
963509 AATAAT-ACATTAAAATATATT
1 AATAATAAAATTAAAATATATT
* * *
963530 AATATTAATATTAATATATATT
1 AATAATAAAATTAAAATATATT
*
963552 AATAATAAAATAAAAATA
1 AATAATAAAATTAAAATA
963570 ATATATATTT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 5 0.16
22 27 0.84
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
AATAATAAAATTAAAATATATT
Found at i:965552 original size:21 final size:20
Alignment explanation
Indices: 965528--965567 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
965518 TTTAATTAAG
965528 TTATTTGATTCATTAATAAAT
1 TTATTTGATT-ATTAATAAAT
*
965549 TTATTTTATTATTAA-AAAT
1 TTATTTGATTATTAATAAAT
965568 AATTTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 5 0.28
21 9 0.50
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (20 bp):
TTATTTGATTATTAATAAAT
Found at i:967351 original size:10 final size:10
Alignment explanation
Indices: 967305--967415 Score: 86
Period size: 10 Copynumber: 11.3 Consensus size: 10
967295 TATAAAAAAT
967305 TATTAATATTA
1 TATTAAT-TTA
*
967316 TATTATTTTA
1 TATTAATTTA
967326 -ATT--TTTA
1 TATTAATTTA
* *
967333 TATTTATTTG
1 TATTAATTTA
967343 TATTAATTTA
1 TATTAATTTA
**
967353 TATTAATACA
1 TATTAATTTA
967363 TATTAATTTA
1 TATTAATTTA
* *
967373 TTAGT-ATTTT
1 -TATTAATTTA
967383 TATTAATTTA
1 TATTAATTTA
*
967393 TATTAATTAA
1 TATTAATTTA
* *
967403 TATCAATTGA
1 TATTAATTTA
967413 TAT
1 TAT
967416 AAAATTTTAA
Statistics
Matches: 80, Mismatches: 15, Indels: 11
0.75 0.14 0.10
Matches are distributed among these distances:
7 4 0.05
8 3 0.04
9 6 0.08
10 58 0.73
11 9 0.11
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.59
Consensus pattern (10 bp):
TATTAATTTA
Found at i:967424 original size:40 final size:40
Alignment explanation
Indices: 967338--967436 Score: 103
Period size: 40 Copynumber: 2.5 Consensus size: 40
967328 TTTTATATTT
* * *
967338 ATTTGTATTAATTTATATTAATACATATTAATTTATTAGTA
1 ATTT-TATTAATTTATATTAATACATATCAATTGATTAGAA
*
967379 TTTTTATTAATTTATATTAATTA-ATATCAATTGATATA-AA
1 ATTTTATTAATTTATATTAA-TACATATCAATTGAT-TAGAA
* *
967419 ATTTTAATATTTTATATT
1 ATTTTATTAATTTATATT
967437 TTTAAAAAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
40 42 0.86
41 7 0.14
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (40 bp):
ATTTTATTAATTTATATTAATACATATCAATTGATTAGAA
Found at i:967446 original size:27 final size:26
Alignment explanation
Indices: 967416--967488 Score: 67
Period size: 26 Copynumber: 2.7 Consensus size: 26
967406 CAATTGATAT
967416 AAAATTTTAATATTTTATATTTTTAAA
1 AAAATTTTAATATTTTAT-TTTTTAAA
* *
967443 AAAA-TTTATTTATTTGATTTTTTAAA
1 AAAATTTTA-ATATTTTATTTTTTAAA
* *
967469 ATTAATTTTTAATTTTTTAT
1 A--AAATTTTAATATTTTAT
967489 CTTGAATCAT
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
26 13 0.36
27 11 0.31
28 8 0.22
29 4 0.11
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (26 bp):
AAAATTTTAATATTTTATTTTTTAAA
Found at i:967902 original size:11 final size:11
Alignment explanation
Indices: 967888--967930 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 11
967878 TAATTTAGTG
967888 TATTTAATATT
1 TATTTAATATT
*
967899 TATTTAATTTAATA
1 TATTTAA--T-ATT
967913 TATTTAATATT
1 TATTTAATATT
967924 TATTTAA
1 TATTTAA
967931 CATTAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
11 16 0.59
12 1 0.04
13 1 0.04
14 9 0.33
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATTTAATATT
Found at i:967908 original size:25 final size:25
Alignment explanation
Indices: 967878--967930 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
967868 TTTTTATTAA
* *
967878 TAATTTAGTGTATTTAATATTTATT
1 TAATTTAATATATTTAATATTTATT
967903 TAATTTAATATATTTAATATTTATT
1 TAATTTAATATATTTAATATTTATT
967928 TAA
1 TAA
967931 CATTAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (25 bp):
TAATTTAATATATTTAATATTTATT
Found at i:969533 original size:32 final size:35
Alignment explanation
Indices: 969497--969596 Score: 95
Period size: 35 Copynumber: 2.9 Consensus size: 35
969487 TTAAAAGATA
969497 AATATATTAATAA-TTACAT-AATAT-AAATA-ATT
1 AATATATTAA-AATTTACATAAATATAAAATATATT
*
969529 AATATATTAAAATTTATATAAATATAAAATATATT
1 AATATATTAAAATTTACATAAATATAAAATATATT
* *
969564 AATTATAATTATAA--TATATAAATATATAAATAT
1 AA-TAT-ATTAAAATTTACATAAATATA-AAATAT
969597 GACATAAAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
31 2 0.03
32 15 0.25
33 5 0.08
34 5 0.08
35 17 0.29
36 9 0.15
37 6 0.10
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (35 bp):
AATATATTAAAATTTACATAAATATAAAATATATT
Found at i:969611 original size:8 final size:8
Alignment explanation
Indices: 969461--969596 Score: 74
Period size: 8 Copynumber: 17.1 Consensus size: 8
969451 ATATTAGATT
*
969461 TATAAAAA
1 TATAAATA
*
969469 TAAAAATA
1 TATAAATA
969477 TATAAA-A
1 TATAAATA
969484 TAATTAAA-A
1 T-A-TAAATA
*
969493 GATAAATA
1 TATAAATA
*
969501 TATTAATA
1 TATAAATA
*
969509 -ATTACATAA
1 TA-TAAAT-A
969518 TATAAATA
1 TATAAATA
*
969526 -ATTAATA
1 TATAAATA
969533 TATTAAAATTTA
1 TA-T-AAA--TA
969545 TATAAATA
1 TATAAATA
969553 TA-AAATA
1 TATAAATA
*
969560 TATTAAT-
1 TATAAATA
969567 TAT-AAT-
1 TATAAATA
969573 TAT-AATA
1 TATAAATA
969580 TATAAATA
1 TATAAATA
969588 TATAAATA
1 TATAAATA
969596 T
1 T
969597 GACATAAAAA
Statistics
Matches: 102, Mismatches: 12, Indels: 28
0.72 0.08 0.20
Matches are distributed among these distances:
6 9 0.09
7 26 0.25
8 45 0.44
9 11 0.11
10 6 0.06
11 1 0.01
12 4 0.04
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (8 bp):
TATAAATA
Found at i:972413 original size:16 final size:17
Alignment explanation
Indices: 972389--972425 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
972379 TTAAAAATAT
*
972389 TATATTAAAATTTAT-A
1 TATAATAAAATTTATAA
972405 TATAATAAAATTTATAA
1 TATAATAAAATTTATAA
972422 TATA
1 TATA
972426 TCTGGAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TATAATAAAATTTATAA
Found at i:972628 original size:5 final size:5
Alignment explanation
Indices: 972618--972647 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
972608 GATTGTTTAT
972618 TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA
972648 CAAATATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:973515 original size:18 final size:18
Alignment explanation
Indices: 973486--973521 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
973476 TTAAACATAA
973486 TTATGATATAATA-AAAT
1 TTATGATATAATATAAAT
973503 TTATGAGTATAATATAAAT
1 TTATGA-TATAATATAAAT
973522 ATACAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 7 0.41
19 4 0.24
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (18 bp):
TTATGATATAATATAAAT
Found at i:974268 original size:25 final size:24
Alignment explanation
Indices: 974240--974292 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 24
974230 TTTTATTCAA
* *
974240 TAAATATAATATATTAAATATTTTT
1 TAAAAATAATA-ATTAAATAATTTT
974265 TAAAAAATAATAATTAAATAATTTT
1 T-AAAAATAATAATTAAATAATTTT
974290 TAA
1 TAA
974293 TCAACATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 2 0.08
25 14 0.56
26 9 0.36
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (24 bp):
TAAAAATAATAATTAAATAATTTT
Found at i:974917 original size:17 final size:16
Alignment explanation
Indices: 974891--974927 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
974881 ATCAAGTTTT
974891 TTTATTTTAATAAATA
1 TTTATTTTAATAAATA
*
974907 TTTATTTTTAATTAATA
1 TTTA-TTTTAATAAATA
974924 TTTA
1 TTTA
974928 AGAATTAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTATTTTAATAAATA
Found at i:975316 original size:11 final size:11
Alignment explanation
Indices: 975300--975359 Score: 60
Period size: 11 Copynumber: 6.0 Consensus size: 11
975290 TAATGTTATG
975300 ATATAAATATA
1 ATATAAATATA
*
975311 ATATAAAAATA
1 ATATAAATATA
975322 AT-T--A-A-A
1 ATATAAATATA
975328 ATAT-AATATA
1 ATATAAATATA
*
975338 ATATAAATATG
1 ATATAAATATA
975349 ATATAAATATA
1 ATATAAATATA
975360 TATTAAAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
6 3 0.07
7 2 0.05
8 2 0.05
9 1 0.02
10 6 0.15
11 27 0.66
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (11 bp):
ATATAAATATA
Found at i:975366 original size:22 final size:21
Alignment explanation
Indices: 975303--975366 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
975293 TGTTATGATA
*
975303 TAAATATAATATAAAAATA-AT
1 TAAATAT-ATATAAATATATAT
*
975324 TAAA-ATATA-ATATA-ATA-
1 TAAATATATATAAATATATAT
975341 TAAATATGATATAAATATATAT
1 TAAATAT-ATATAAATATATAT
975363 TAAA
1 TAAA
975367 ATTTATATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 11
0.71 0.06 0.23
Matches are distributed among these distances:
17 5 0.15
18 6 0.18
19 6 0.18
20 6 0.18
21 7 0.21
22 4 0.12
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
TAAATATATATAAATATATAT
Found at i:975445 original size:13 final size:13
Alignment explanation
Indices: 975412--975446 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
975402 TTATATAAAT
*
975412 ATATAATATTTTA
1 ATATAAAATTTTA
975425 ATTATAAAATTTTA
1 A-TATAAAATTTTA
975439 ATATAAAA
1 ATATAAAA
975447 AATAAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATAAAATTTTA
Found at i:975447 original size:14 final size:15
Alignment explanation
Indices: 975357--975449 Score: 64
Period size: 15 Copynumber: 5.7 Consensus size: 15
975347 TGATATAAAT
975357 ATATATTAAAATTTATA
1 ATATA-TAAAATTT-TA
* *
975374 TTATAT-TAATTATTA
1 ATATATAAAATT-TTA
975389 ATATATCAAAATTTTA
1 ATATAT-AAAATTTTA
975405 TATAAATATATAATATTTTA
1 -AT--ATATA-AA-ATTTTA
975425 AT-TATAAAATTTTA
1 ATATATAAAATTTTA
*
975439 ATATAAAAAAT
1 ATATATAAAAT
975450 AAAATAATAT
Statistics
Matches: 62, Mismatches: 5, Indels: 20
0.71 0.06 0.23
Matches are distributed among these distances:
14 8 0.13
15 20 0.32
16 9 0.15
17 10 0.16
18 1 0.02
19 8 0.13
20 6 0.10
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATATAAAATTTTA
Found at i:975858 original size:18 final size:18
Alignment explanation
Indices: 975832--975943 Score: 86
Period size: 18 Copynumber: 6.1 Consensus size: 18
975822 ATTATATTTA
*
975832 AAATATTATATTTTATAT
1 AAATTTTATATTTTATAT
975850 AAATTTTATAATATTTATAT
1 AAATTTTAT-AT-TTTATAT
975870 --ATTTTATTATATTTATAT
1 AAATTTTA-TAT-TTTATAT
* * *
975888 TATTTTTATATTATAT-T
1 AAATTTTATATTTTATAT
* *
975905 AAATTTTATATTATATTTT
1 AAATTTTATATTTTA-TAT
* *
975924 AAATTTTTTAATTTATAT
1 AAATTTTATATTTTATAT
975942 AA
1 AA
975944 TTATATCATA
Statistics
Matches: 78, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
17 14 0.18
18 33 0.42
19 19 0.24
20 12 0.15
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
AAATTTTATATTTTATAT
Found at i:975859 original size:38 final size:38
Alignment explanation
Indices: 975817--975941 Score: 96
Period size: 38 Copynumber: 3.3 Consensus size: 38
975807 TCTTTTTATG
975817 TTATAATTATATTTAAAATATTATATTTTATATAAATT
1 TTATAATTATATTTAAAATATTATATTTTATATAAATT
* * *** * *
975855 TTATAATATTTATATATTTTATTATA-TTTATATTATTT
1 TTATAAT-TATATTTAAAATATTATATTTTATATAAATT
* * *
975893 TTAT-ATTATA-TT-AAATTTTATATTATATTTTAAATT
1 TTATAATTATATTTAAAATATTATATTTTA-TATAAATT
*
975929 TTTTAATTTATAT
1 TTATAA-TTATAT
975942 AATTATATCA
Statistics
Matches: 63, Mismatches: 18, Indels: 11
0.68 0.20 0.12
Matches are distributed among these distances:
34 6 0.10
35 4 0.06
36 11 0.17
37 3 0.05
38 26 0.41
39 13 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (38 bp):
TTATAATTATATTTAAAATATTATATTTTATATAAATT
Found at i:975867 original size:27 final size:27
Alignment explanation
Indices: 975828--975914 Score: 81
Period size: 27 Copynumber: 3.2 Consensus size: 27
975818 TATAATTATA
*
975828 TTTAAAATA-TTATATTTTATATAAAT
1 TTTATAATATTTATATTTTATATAAAT
*
975854 TTTATAATATTTATATATTT-TAT-TAT
1 TTTATAATATTTATAT-TTTATATAAAT
* * *
975880 ATTTATATTATTTTTATATTATATTAAAT
1 -TTTATAATATTTATATTTTATA-TAAAT
975909 TTTATA
1 TTTATA
975915 TTATATTTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
26 12 0.24
27 25 0.51
28 10 0.20
29 2 0.04
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (27 bp):
TTTATAATATTTATATTTTATATAAAT
Found at i:975870 original size:11 final size:10
Alignment explanation
Indices: 975838--975961 Score: 64
Period size: 9 Copynumber: 13.5 Consensus size: 10
975828 TTTAAAATAT
975838 TATAT-TTTA
1 TATATATTTA
*
975847 TATAAATTT-
1 TATATATTTA
975856 TATAATATTTA
1 TAT-ATATTTA
975867 TATAT-TTTA
1 TATATATTTA
975876 T-TATATTTA
1 TATATATTTA
975885 TAT-TATTT-
1 TATATATTTA
975893 T-TATA-TTA
1 TATATATTTA
*
975901 TATTAAATTTTA
1 TA-TATA-TTTA
975913 TATTATATTT-
1 TA-TATATTTA
975923 TA-A-ATTT-
1 TATATATTTA
*
975930 TTTA-ATTTA
1 TATATATTTA
975939 TATA-A-TTA
1 TATATATTTA
975947 TATCATATTTA
1 TAT-ATATTTA
975958 -ATAT
1 TATAT
975962 TACTAAACTT
Statistics
Matches: 93, Mismatches: 6, Indels: 32
0.71 0.05 0.24
Matches are distributed among these distances:
7 8 0.09
8 19 0.20
9 29 0.31
10 19 0.20
11 9 0.10
12 9 0.10
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (10 bp):
TATATATTTA
Found at i:975882 original size:5 final size:5
Alignment explanation
Indices: 975812--975921 Score: 55
Period size: 5 Copynumber: 21.4 Consensus size: 5
975802 ATATATCTTT
* ** * * * *
975812 TTATG TTATAA TTATA TT-TA AAATA TTATA TTTTA TATAAA TTTTA TAATA
1 TTATA TTAT-A TTATA TTATA TTATA TTATA TTATA T-TATA TTATA TTATA
* * *
975863 TT-TA -TATA TTTTA TTATA TTTATA TTATTT TTATA TTATA TTAAATT
1 TTATA TTATA TTATA TTATA -TTATA TTA-TA TTATA TTATA TT--ATA
975910 TTATA TTATA TT
1 TTATA TTATA TT
975922 TTAAATTTTT
Statistics
Matches: 77, Mismatches: 19, Indels: 18
0.68 0.17 0.16
Matches are distributed among these distances:
3 1 0.01
4 6 0.08
5 50 0.65
6 16 0.21
7 4 0.05
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:975923 original size:29 final size:29
Alignment explanation
Indices: 975837--975949 Score: 121
Period size: 29 Copynumber: 4.0 Consensus size: 29
975827 ATTTAAAATA
975837 TTATATTTTATATAAATTTTATA--ATATT
1 TTATATTTTAT-TAAATTTTATATTATATT
*
975865 TATATATTTTATTATA-TTTATATTAT-TT
1 T-TATATTTTATTAAATTTTATATTATATT
*
975893 TTATATTATATTAAATTTTATATTATATT
1 TTATATTTTATTAAATTTTATATTATATT
*
975922 TTAAATTTT-TT-AATTTATATAATTATAT
1 TTATATTTTATTAAATTT-TAT-ATTATAT
975950 CATATTTAAT
Statistics
Matches: 73, Mismatches: 5, Indels: 13
0.80 0.05 0.14
Matches are distributed among these distances:
27 23 0.32
28 22 0.30
29 28 0.38
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (29 bp):
TTATATTTTATTAAATTTTATATTATATT
Found at i:975941 original size:21 final size:19
Alignment explanation
Indices: 975817--975930 Score: 80
Period size: 19 Copynumber: 6.1 Consensus size: 19
975807 TCTTTTTATG
* *
975817 TTATAATTATATTTAAAATA
1 TTAT-ATTATATTTTAAATT
* *
975837 TTATATTTTA-TATAAATT
1 TTATATTATATTTTAAATT
*
975855 TTATA--ATA-TTTATATAT
1 TTATATTATATTTTAAAT-T
*
975872 TT-TATTATATTTATATTATTT
1 TTATATTATATTT-TA--AATT
975893 TTATATTATA--TTAAATT
1 TTATATTATATTTTAAATT
975910 TTATATTATATTTTAAATT
1 TTATATTATATTTTAAATT
975929 TT
1 TT
975931 TTAATTTATA
Statistics
Matches: 74, Mismatches: 10, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
16 9 0.12
17 16 0.22
18 13 0.18
19 18 0.24
20 7 0.09
21 3 0.04
22 8 0.11
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TTATATTATATTTTAAATT
Found at i:976671 original size:16 final size:16
Alignment explanation
Indices: 976650--976697 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
976640 ATCGTTTGTG
976650 TCATTTTAGATTTAAA
1 TCATTTTAGATTTAAA
* *
976666 TCATTTTAAATATAAA
1 TCATTTTAGATTTAAA
*
976682 TTATTTTAGATATTAA
1 TCATTTTAGAT-TTAA
976698 TTGATTGATT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 23 0.88
17 3 0.12
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (16 bp):
TCATTTTAGATTTAAA
Found at i:977965 original size:26 final size:25
Alignment explanation
Indices: 977935--977984 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
977925 TTATTTAATA
977935 TAAATAATAATAATTTATTATATTTT
1 TAAATAATAATAATTTATT-TATTTT
* * *
977961 TAAATATTATTTATTTATTTATTT
1 TAAATAATAATAATTTATTTATTT
977985 GATATTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
TAAATAATAATAATTTATTTATTTT
Found at i:978180 original size:16 final size:16
Alignment explanation
Indices: 978155--978195 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
978145 AAAATAATAC
978155 ATTAAAATATATTAAT
1 ATTAAAATATATTAAT
*
978171 ATTAATATATATTAAT
1 ATTAAAATATATTAAT
*
978187 AATAAAATA
1 ATTAAAATA
978196 AAAATAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTAAAATATATTAAT
Found at i:978190 original size:27 final size:26
Alignment explanation
Indices: 978155--978210 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
978145 AAAATAATAC
* * * *
978155 ATTAAAATATATTAATATTAATATAT
1 ATTAAAATAAAATAAAAATAATATAT
978181 ATTAATAATAAAATAAAAATAATATAT
1 ATTAA-AATAAAATAAAAATAATATAT
978208 ATT
1 ATT
978211 TATCTGTACC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
ATTAAAATAAAATAAAAATAATATAT
Found at i:980181 original size:21 final size:20
Alignment explanation
Indices: 980157--980196 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
980147 TTTAATTAAG
980157 TTATTTGATTCATTAATAAAT
1 TTATTTGATT-ATTAATAAAT
*
980178 TTATTTTATTATTAA-AAAT
1 TTATTTGATTATTAATAAAT
980197 AATTTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 5 0.28
21 9 0.50
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (20 bp):
TTATTTGATTATTAATAAAT
Found at i:980248 original size:28 final size:30
Alignment explanation
Indices: 980217--980279 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 30
980207 TTATTTTTAT
* *
980217 ATTAATATTTATATA-TTATTA-TAATTAA
1 ATTAATATTAAAATATTTATTATTAATTAA
*
980245 ATTAA-ATTAAAATATTTATTATTATTTAA
1 ATTAATATTAAAATATTTATTATTAATTAA
980274 A-TAATA
1 ATTAATA
980280 ATTTGAATCG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
27 7 0.24
28 14 0.48
29 8 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (30 bp):
ATTAATATTAAAATATTTATTATTAATTAA
Found at i:980314 original size:18 final size:19
Alignment explanation
Indices: 980278--980315 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
980268 ATTTAAATAA
980278 TAATTTGAATCGAATTAAAT
1 TAATTTGAATC-AATTAAAT
980298 TAATTTGAATC-ATTAAAT
1 TAATTTGAATCAATTAAAT
980316 ATCATGTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
20 11 0.61
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (19 bp):
TAATTTGAATCAATTAAAT
Found at i:980604 original size:28 final size:28
Alignment explanation
Indices: 980575--980636 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
980565 TATTTTTTAA
*
980575 TTTAATAAAATTAATATATTAAATAAAAT
1 TTTAATAAAAATAATA-ATTAAATAAAAT
** *
980604 TTTTTTAAAAATAATAATTAAAT-AATT
1 TTTAATAAAAATAATAATTAAATAAAAT
980631 TTTAAT
1 TTTAAT
980637 CAATATTTAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
27 7 0.26
28 7 0.26
29 13 0.48
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
TTTAATAAAAATAATAATTAAATAAAAT
Found at i:980773 original size:17 final size:18
Alignment explanation
Indices: 980751--980785 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
980741 CAAAAATTTG
*
980751 ATAATTTT-TTATATGAA
1 ATAATTTTATAATATGAA
980768 ATAATTTTATAATATGAA
1 ATAATTTTATAATATGAA
980786 TAAAATATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (18 bp):
ATAATTTTATAATATGAA
Found at i:980812 original size:22 final size:20
Alignment explanation
Indices: 980787--980840 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 20
980777 TAATATGAAT
980787 AAAATATAAAAATTTAAATATA
1 AAAATATAAAAATTT--ATATA
980809 AAAATATATTAAAATTTATATA
1 AAAATATA--AAAATTTATATA
980831 AAATATATAA
1 AAA-ATATAA
980841 TATATTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
21 1 0.03
22 16 0.55
23 5 0.17
24 7 0.24
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAATATAAAAATTTATATA
Found at i:980817 original size:24 final size:24
Alignment explanation
Indices: 980773--980840 Score: 72
Period size: 24 Copynumber: 2.9 Consensus size: 24
980763 ATGAAATAAT
980773 TTTATAATATGAATAAA-ATATAAAAA
1 TTTA-AATAT-AA-AAATATATAAAAA
*
980799 TTTAAATATAAAAATATATTAAAA
1 TTTAAATATAAAAATATATAAAAA
980823 TTT--ATAT-AAAATATATAA
1 TTTAAATATAAAAATATATAA
980841 TATATTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
21 10 0.26
22 4 0.10
23 3 0.08
24 13 0.33
25 5 0.13
26 4 0.10
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (24 bp):
TTTAAATATAAAAATATATAAAAA
Found at i:980842 original size:28 final size:30
Alignment explanation
Indices: 980802--980872 Score: 92
Period size: 28 Copynumber: 2.4 Consensus size: 30
980792 ATAAAAATTT
*
980802 AAATATAAAAATATATTAAAATTTA-TATA
1 AAATATAAAAATATATTAAAATTAATTATA
*
980831 AAATAT-ATAATATATTAAAATTAATTATAA
1 AAATATAAAAATATATTAAAATTAATTAT-A
*
980861 AAAAATAAAAAT
1 AAATATAAAAAT
980873 GAAATCAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
28 16 0.46
29 9 0.26
30 6 0.17
31 4 0.11
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (30 bp):
AAATATAAAAATATATTAAAATTAATTATA
Found at i:981192 original size:25 final size:25
Alignment explanation
Indices: 981164--981233 Score: 68
Period size: 32 Copynumber: 2.5 Consensus size: 25
981154 TGCTTAATAA
981164 ATTATATTTATATAAATTTTAAAAT
1 ATTATATTTATATAAATTTTAAAAT
981189 ATTAAAAATTTATATTATATAAATTTTAAAAT
1 ATT----A--TAT-TTATATAAATTTTAAAAT
*
981221 ATTATTTTTATAT
1 ATTATATTTATAT
981234 TATATTATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
25 9 0.24
26 2 0.05
28 1 0.03
29 1 0.03
31 3 0.08
32 21 0.57
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
ATTATATTTATATAAATTTTAAAAT
Found at i:981198 original size:32 final size:33
Alignment explanation
Indices: 981157--981224 Score: 113
Period size: 32 Copynumber: 2.1 Consensus size: 33
981147 TACATTATGC
981157 TTAATAAA-TTATATTTATATAAATTTTAAAATA
1 TTAATAAATTTATA-TTATATAAATTTTAAAATA
981190 TTAA-AAATTTATATTATATAAATTTTAAAATA
1 TTAATAAATTTATATTATATAAATTTTAAAATA
981222 TTA
1 TTA
981225 TTTTTATATT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 25 0.74
33 9 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (33 bp):
TTAATAAATTTATATTATATAAATTTTAAAATA
Found at i:981216 original size:16 final size:16
Alignment explanation
Indices: 981160--981238 Score: 58
Period size: 16 Copynumber: 5.1 Consensus size: 16
981150 ATTATGCTTA
*
981160 ATAAATTATAT-TTAT
1 ATAAATTTTATATTAT
* *
981175 ATAAATTTTAAAATAT
1 ATAAATTTTATATTAT
*
981191 -TAAAAATTTATATTAT
1 AT-AAATTTTATATTAT
*
981207 ATAAATTTTA-A-AAT
1 ATAAATTTTATATTAT
* *
981221 ATTATTTTTATATTAT
1 ATAAATTTTATATTAT
981237 AT
1 AT
981239 TATATTTAAT
Statistics
Matches: 48, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
14 10 0.21
15 12 0.25
16 25 0.52
17 1 0.02
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATAAATTTTATATTAT
Found at i:981471 original size:37 final size:37
Alignment explanation
Indices: 981421--981494 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
981411 GCAAAAACAC
* *
981421 AAATATAGTTTAAAAGGTAATAGAAA-TAAGAAACTTA
1 AAATATAGTTTAAAAAGTAATA-AAATTAAAAAACTTA
981458 AAATATAGTTTAAAAAGTAATAAAATTAAAAAACTTA
1 AAATATAGTTTAAAAAGTAATAAAATTAAAAAACTTA
981495 TTATAGATAC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 3 0.09
37 31 0.91
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.28
Consensus pattern (37 bp):
AAATATAGTTTAAAAAGTAATAAAATTAAAAAACTTA
Found at i:981625 original size:2 final size:2
Alignment explanation
Indices: 981618--981653 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
981608 CACATTCTGA
*
981618 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
981654 CAAGCAAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:981763 original size:17 final size:16
Alignment explanation
Indices: 981741--981774 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
981731 ACTGAATTTT
981741 TATTCAACAATTTAAAA
1 TATTCAA-AATTTAAAA
*
981758 TATTCAAGATTTAAAA
1 TATTCAAAATTTAAAA
981774 T
1 T
981775 TGAGCAACTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.38
Consensus pattern (16 bp):
TATTCAAAATTTAAAA
Found at i:984247 original size:16 final size:16
Alignment explanation
Indices: 984226--984353 Score: 82
Period size: 16 Copynumber: 8.8 Consensus size: 16
984216 ACTCGAAATC
984226 AAAATAATTTAAATTT
1 AAAATAATTTAAATTT
* *
984242 AAAATAACTTAAACTT
1 AAAATAATTTAAATTT
*
984258 AAAATAATTTAAAATT
1 AAAATAATTTAAATTT
*
984274 --AA-AA-TTAAA-CT
1 AAAATAATTTAAATTT
* *
984285 AAAATAATTTATA-CT
1 AAAATAATTTAAATTT
984300 -AAA-AA-TT-AATTT
1 AAAATAATTTAAATTT
** *
984312 AAAAT-ATAAAAATAT
1 AAAATAATTTAAATTT
984327 AAAATAATTT-AATTT
1 AAAATAATTTAAATTT
*
984342 AAATTAATTTAA
1 AAAATAATTTAA
984354 TATAAAATTA
Statistics
Matches: 86, Mismatches: 15, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
11 2 0.02
12 8 0.09
13 10 0.12
14 7 0.08
15 28 0.33
16 31 0.36
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
AAAATAATTTAAATTT
Found at i:984304 original size:27 final size:27
Alignment explanation
Indices: 984237--984317 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
984227 AAATAATTTA
*
984237 AATTTAAAAT--AACTTAAACTTAAAAT
1 AATTTAAAATAAAAATTAAAC-TAAAAT
*
984263 AATTTAAAATTAAAATTAAACTAAAAT
1 AATTTAAAATAAAAATTAAACTAAAAT
* * **
984290 AATTTATACTAAAAATTAATTTAAAAT
1 AATTTAAAATAAAAATTAAACTAAAAT
984317 A
1 A
984318 TAAAAATATA
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 10 0.21
27 29 0.62
28 8 0.17
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (27 bp):
AATTTAAAATAAAAATTAAACTAAAAT
Found at i:984906 original size:14 final size:14
Alignment explanation
Indices: 984874--984933 Score: 50
Period size: 15 Copynumber: 4.1 Consensus size: 14
984864 ATATAAAAAT
**
984874 TAAAAATTATTTATT
1 TAAAAATTA-TTAAA
*
984889 TAAAAATTATTAGA
1 TAAAAATTATTAAA
984903 T-AAAATTATATAAA
1 TAAAAATTAT-TAAA
*
984917 TAAAAAATATATAAA
1 TAAAAATTAT-TAAA
984932 TA
1 TA
984934 TATTAAAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
13 8 0.21
14 8 0.21
15 23 0.59
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (14 bp):
TAAAAATTATTAAA
Found at i:984909 original size:13 final size:14
Alignment explanation
Indices: 984891--985009 Score: 54
Period size: 15 Copynumber: 8.6 Consensus size: 14
984881 TATTTATTTA
*
984891 AAAATTAT-TAGAT
1 AAAATTATATAAAT
984904 AAAATTATATAAAT
1 AAAATTATATAAAT
*
984918 AAAAAATATATAAAT
1 -AAAATTATATAAAT
*
984933 -ATATTA-A-AAAT
1 AAAATTATATAAAT
* * *
984944 TATATAATATAAATT
1 AAAATTATATAAA-T
984959 AATAA-TATAT-AA-
1 AA-AATTATATAAAT
*
984971 AAATTTATATAAAT
1 AAAATTATATAAAT
* *
984985 ATAAAATATTTTAAAT
1 A-AAATTA-TATAAAT
*
985001 ATAATTATA
1 AAAATTATA
985010 ATATAAAAAA
Statistics
Matches: 79, Mismatches: 15, Indels: 23
0.68 0.13 0.20
Matches are distributed among these distances:
11 5 0.06
12 13 0.16
13 15 0.19
14 11 0.14
15 27 0.34
16 8 0.10
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.39
Consensus pattern (14 bp):
AAAATTATATAAAT
Found at i:984915 original size:10 final size:9
Alignment explanation
Indices: 984902--985003 Score: 52
Period size: 9 Copynumber: 11.1 Consensus size: 9
984892 AAATTATTAG
984902 ATAAAAT-T
1 ATAAAATAT
984910 ATATAAATA-
1 ATA-AAATAT
984919 A-AAAATAT
1 ATAAAATAT
984927 AT-AAATAT
1 ATAAAATAT
984935 ATTAAAAATTAT
1 A-T-AAAA-TAT
* *
984947 ATAATATAA
1 ATAAAATAT
984956 ATTAATAATAT
1 A-TAA-AATAT
*
984967 ATAAAAATTT
1 AT-AAAATAT
*
984977 ATATAA-AT
1 ATAAAATAT
984985 ATAAAATAT
1 ATAAAATAT
* *
984994 TTTAAATAT
1 ATAAAATAT
985003 A
1 A
985004 ATTATAATAT
Statistics
Matches: 71, Mismatches: 11, Indels: 23
0.68 0.10 0.22
Matches are distributed among these distances:
7 5 0.07
8 18 0.25
9 21 0.30
10 13 0.18
11 10 0.14
12 4 0.06
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
ATAAAATAT
Found at i:984942 original size:20 final size:20
Alignment explanation
Indices: 984917--984999 Score: 73
Period size: 20 Copynumber: 4.2 Consensus size: 20
984907 ATTATATAAA
984917 TAAAAAATATATAAATATAT
1 TAAAAAATATATAAATATAT
* *
984937 TAAAAATTATATAATATAAAT
1 TAAAAAATATATAA-ATATAT
* *
984958 T-AATAATATATAAAAAT-T
1 TAAAAAATATATAAATATAT
* *
984976 TATATAAATATA-AAATATTT
1 TA-AAAAATATATAAATATAT
984996 TAAA
1 TAAA
985000 TATAATTATA
Statistics
Matches: 49, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
18 2 0.04
19 8 0.16
20 33 0.67
21 6 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
TAAAAAATATATAAATATAT
Found at i:984944 original size:48 final size:48
Alignment explanation
Indices: 984888--985019 Score: 132
Period size: 48 Copynumber: 2.7 Consensus size: 48
984878 AATTATTTAT
984888 TTAAAAATTATTAGATAAAATTATATAAATAAAAAA-TATATAAATATA
1 TTAAAAATTATTA-ATAAAATTATATAAATAAAAAATTATATAAATATA
984936 TTAAAAATTATATAATATAAATTA-ATAATATATAAAAATTTATATAAATATA
1 TTAAAAATTAT-TAATA-AAATTATATAA-ATA-AAAAA-TTATATAAATATA
* * *
984988 --AAATATT-TTAAATATAATTATA-ATATAAAAAA
1 TTAAAAATTATT-AATAAAATTATATAAATAAAAAA
985020 CATAATTATT
Statistics
Matches: 73, Mismatches: 3, Indels: 18
0.78 0.03 0.19
Matches are distributed among these distances:
46 5 0.07
47 3 0.04
48 25 0.34
49 17 0.23
50 11 0.15
52 12 0.16
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (48 bp):
TTAAAAATTATTAATAAAATTATATAAATAAAAAATTATATAAATATA
Found at i:984966 original size:18 final size:17
Alignment explanation
Indices: 984944--984989 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
984934 TATTAAAAAT
984944 TATATAATATAAATTAA
1 TATATAATATAAATTAA
* *
984961 TA-ATATATAAAAATTTA
1 TATATA-ATATAAATTAA
984978 TATA-AATATAAA
1 TATATAATATAAA
984990 ATATTTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
16 9 0.38
17 14 0.58
18 1 0.04
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TATATAATATAAATTAA
Found at i:984993 original size:40 final size:40
Alignment explanation
Indices: 984910--984993 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
984900 AGATAAAATT
* *
984910 ATATAAATAAAAAATATATAAATATATTAAAAATTATATA
1 ATATAAATAAAAAATATATAAAAATATTAAAAATTATAAA
* *
984950 ATATAAATTAATAATATATAAAAAT-TTATATAAA-TATAAA
1 ATATAAATAAAAAATATATAAAAATATTA-A-AAATTATAAA
984990 ATAT
1 ATAT
984994 TTTAAATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
39 3 0.08
40 32 0.84
41 3 0.08
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (40 bp):
ATATAAATAAAAAATATATAAAAATATTAAAAATTATAAA
Found at i:985024 original size:20 final size:20
Alignment explanation
Indices: 985001--985038 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
984991 TATTTTAAAT
985001 ATAATTATAATATAAAAAAC
1 ATAATTATAATATAAAAAAC
*
985021 ATAATTATTATATAAAAA
1 ATAATTATAATATAAAAA
985039 TACAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (20 bp):
ATAATTATAATATAAAAAAC
Found at i:985034 original size:67 final size:65
Alignment explanation
Indices: 984904--985038 Score: 141
Period size: 67 Copynumber: 2.0 Consensus size: 65
984894 ATTATTAGAT
* * *
984904 AAAATTATATAAATAAAAAATATATAAATATATTAAAAATTATATAATATAAATTAATAATATAT
1 AAAATTATATAAATAAAAAATATATAAATATATTAAAAATTAAAAAACATAAATTAATAATATA-
984969 A
65 A
* * * *
984970 AAAATTTATATAAATATAAAATATTTTAAATATAATT-ATAATATAAAAAACAT-AATT-ATTAT
1 AAAA-TTATATAAATAAAAAATA-TATAAATAT-ATTAAAAAT-TAAAAAACATAAATTAATAAT
985032 ATAA
62 ATAA
985036 AAA
1 AAA
985039 TACAATAAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
66 8 0.14
67 24 0.41
68 16 0.28
69 10 0.17
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (65 bp):
AAAATTATATAAATAAAAAATATATAAATATATTAAAAATTAAAAAACATAAATTAATAATATAA
Found at i:986910 original size:24 final size:25
Alignment explanation
Indices: 986879--986936 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 25
986869 GTAACCACCA
*
986879 TTGTTGACAAACAC-ATGGTGGCTT
1 TTGTTGACAAACACAAGGGTGGCTT
986903 TTGTTGACAAACACAAAGGGTGGCTT
1 TTGTTGACAAACAC-AAGGGTGGCTT
986929 TTGTTGAC
1 TTGTTGAC
986937 TAGCCACCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 14 0.45
26 17 0.55
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (25 bp):
TTGTTGACAAACACAAGGGTGGCTT
Found at i:988838 original size:21 final size:22
Alignment explanation
Indices: 988800--988845 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
988790 ATCTGTTGAA
* **
988800 ACTCCACCTGTTTTGGAGTA-T
1 ACTCCACCTGCTGCGGAGTACT
988821 ACTCCACCTGCTGCGGAGTACT
1 ACTCCACCTGCTGCGGAGTACT
988843 ACT
1 ACT
988846 TGTCTGAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (22 bp):
ACTCCACCTGCTGCGGAGTACT
Found at i:991480 original size:24 final size:25
Alignment explanation
Indices: 991449--991506 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 25
991439 GTAACCACCA
*
991449 TTGTTGACAAACAC-ATGGTGGCTT
1 TTGTTGACAAACACAAGGGTGGCTT
991473 TTGTTGACAAACACAAAGGGTGGCTT
1 TTGTTGACAAACAC-AAGGGTGGCTT
991499 TTGTTGAC
1 TTGTTGAC
991507 TAGCCACCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 14 0.45
26 17 0.55
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (25 bp):
TTGTTGACAAACACAAGGGTGGCTT
Found at i:991986 original size:7 final size:7
Alignment explanation
Indices: 991974--992004 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
991964 CGATATCATC
991974 AATTGCA
1 AATTGCA
991981 AATTGCA
1 AATTGCA
991988 AATTGCA
1 AATTGCA
991995 AATTGCA
1 AATTGCA
992002 AAT
1 AAT
992005 ATGGGTGACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (7 bp):
AATTGCA
Found at i:992472 original size:20 final size:20
Alignment explanation
Indices: 992434--992474 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
992424 AAATTGTGTA
* *
992434 TTTTATATTATACTTATATT
1 TTTTATATTATAATAATATT
*
992454 TTTTATGTTATAATAATATT
1 TTTTATATTATAATAATATT
992474 T
1 T
992475 AAAATATTAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTATATTATAATAATATT
Found at i:992496 original size:27 final size:27
Alignment explanation
Indices: 992457--992510 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
992447 TTATATTTTT
992457 TATGTTATAAT-AATATTTAAAATATTA
1 TATGTTATAATAAAT-TTTAAAATATTA
*
992484 TATGTT-TATATAAATTTTAATATATTA
1 TATGTTATA-ATAAATTTTAAAATATTA
992511 ATAATTCATG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 2 0.08
27 19 0.79
28 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (27 bp):
TATGTTATAATAAATTTTAAAATATTA
Found at i:992505 original size:34 final size:32
Alignment explanation
Indices: 992467--992542 Score: 91
Period size: 32 Copynumber: 2.3 Consensus size: 32
992457 TATGTTATAA
*
992467 TAATAT-TTAAAATATTATATGTTTATATAAATTT
1 TAATATATTAAAA-ATT-CATG-TTATATAAATTT
*
992501 TAATATATTAATAATTCATGTTATATAAATTT
1 TAATATATTAAAAATTCATGTTATATAAATTT
*
992533 TGATATATTA
1 TAATATATTA
992543 TATATACGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 21 0.55
33 3 0.08
34 9 0.24
35 5 0.13
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (32 bp):
TAATATATTAAAAATTCATGTTATATAAATTT
Done.