Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold174
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: 2085601
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 25 characters in sequence are not A, C, G, or T
File 8 of 15
Found at i:922121 original size:39 final size:38
Alignment explanation
Indices: 922063--922138 Score: 89
Period size: 39 Copynumber: 2.0 Consensus size: 38
922053 GTTTGATATG
* * *
922063 AAAATTTATTTTATTATTTAAAATATATTAAAATTTTAA
1 AAAAATTATATTAATATTT-AAATATATTAAAATTTTAA
* * *
922102 AAAAATTATATTAATATTTATATATTTTTAAATTTTA
1 AAAAATTATATTAATATTTAAATATATTAAAATTTTA
922139 TGATATTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
38 15 0.48
39 16 0.52
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (38 bp):
AAAAATTATATTAATATTTAAATATATTAAAATTTTAA
Found at i:922627 original size:18 final size:17
Alignment explanation
Indices: 922550--922653 Score: 69
Period size: 17 Copynumber: 6.4 Consensus size: 17
922540 TGAATATGAT
* *
922550 ATATAAAA-TAATAAAA
1 ATATAAAATTTATATAA
* ** *
922566 ATATAACATAAATATAC
1 ATATAAAATTTATATAA
922583 ATATAAAAATTT-TAT-A
1 ATAT-AAAATTTATATAA
922599 ATAT-AAA-TTAT-TAA
1 ATATAAAATTTATATAA
922613 TATATCAAAATTTATATAA
1 -ATAT-AAAATTTATATAA
*
922632 ATATAAAATATA-ATAA
1 ATATAAAATTTATATAA
922648 ATATAA
1 ATATAA
922654 TTATAATATA
Statistics
Matches: 70, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
13 3 0.04
14 5 0.07
15 4 0.06
16 21 0.30
17 22 0.31
18 12 0.17
19 3 0.04
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
ATATAAAATTTATATAA
Found at i:922649 original size:16 final size:16
Alignment explanation
Indices: 922550--922673 Score: 73
Period size: 15 Copynumber: 7.8 Consensus size: 16
922540 TGAATATGAT
922550 ATATAAAATAATAA-AA
1 ATATAAAAT-ATAATAA
*
922566 ATATAACATA-AATATA
1 ATATAAAATATAATA-A
**
922582 CATATAAAA-ATTTTATA
1 -ATATAAAATATAATA-A
*
922599 ATAT-AAAT-TATTAA
1 ATATAAAATATAATAA
*
922613 TATATCAAAATTTATATAA
1 -ATAT-AAAATATA-ATAA
922632 ATATAAAATATAATAA
1 ATATAAAATATAATAA
* *
922648 ATAT-AATTATAATAT
1 ATATAAAATATAATAA
922663 A-ATAAAATATA
1 ATATAAAATATA
922674 TGAATGCATA
Statistics
Matches: 87, Mismatches: 10, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
14 5 0.06
15 29 0.33
16 22 0.25
17 22 0.25
18 6 0.07
19 3 0.03
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (16 bp):
ATATAAAATATAATAA
Found at i:922850 original size:16 final size:16
Alignment explanation
Indices: 922829--922859 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
922819 ACCTAAGTTT
*
922829 AATTTAAATTAAATTG
1 AATTTAAAGTAAATTG
922845 AATTTAAAGTAAATT
1 AATTTAAAGTAAATT
922860 TTTAGTAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (16 bp):
AATTTAAAGTAAATTG
Found at i:923199 original size:21 final size:20
Alignment explanation
Indices: 923147--923201 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 20
923137 ATCAATTAAT
*
923147 AAATTTATATAATAAATATAC
1 AAATTTATATAA-AAATATAA
*
923168 ATA-TT-TA-AAAAATAATAA
1 AAATTTATATAAAAAT-ATAA
923186 AAATTTATATAAAAAT
1 AAATTTATATAAAAAT
923202 TAATCATACA
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
17 4 0.15
18 7 0.26
19 4 0.15
20 4 0.15
21 8 0.30
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
AAATTTATATAAAAATATAA
Found at i:923748 original size:3 final size:3
Alignment explanation
Indices: 923740--923767 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
923730 CTGGCTAGCT
923740 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
923768 AAAAAAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:924395 original size:16 final size:16
Alignment explanation
Indices: 924374--924446 Score: 74
Period size: 16 Copynumber: 4.6 Consensus size: 16
924364 TTTTTTAATG
*
924374 TTATTTTTATTTTAAA
1 TTATTTTAATTTTAAA
*
924390 TTATTTTAAATTTAAA
1 TTATTTTAATTTTAAA
* **
924406 TAATTTTAATTTTACG
1 TTATTTTAATTTTAAA
* *
924422 TCATTTTAAATTTAAA
1 TTATTTTAATTTTAAA
*
924438 TAATTTTAA
1 TTATTTTAA
924447 AAATTAAGAT
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (16 bp):
TTATTTTAATTTTAAA
Found at i:924418 original size:32 final size:32
Alignment explanation
Indices: 924376--924446 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 32
924366 TTTTAATGTT
* *
924376 ATTTTTATTTTAAATTATTTTAAATTTAAATA
1 ATTTTAATTTTAAATCATTTTAAATTTAAATA
**
924408 ATTTTAATTTTACGTCATTTTAAATTTAAATA
1 ATTTTAATTTTAAATCATTTTAAATTTAAATA
924440 ATTTTAA
1 ATTTTAA
924447 AAATTAAGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.56
Consensus pattern (32 bp):
ATTTTAATTTTAAATCATTTTAAATTTAAATA
Found at i:924447 original size:16 final size:16
Alignment explanation
Indices: 924384--924447 Score: 83
Period size: 16 Copynumber: 4.0 Consensus size: 16
924374 TTATTTTTAT
*
924384 TTTAAATTATTTTAAA
1 TTTAAATAATTTTAAA
*
924400 TTTAAATAATTTTAAT
1 TTTAAATAATTTTAAA
** *
924416 TTTACGTCATTTTAAA
1 TTTAAATAATTTTAAA
924432 TTTAAATAATTTTAAA
1 TTTAAATAATTTTAAA
924448 AATTAAGATT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (16 bp):
TTTAAATAATTTTAAA
Found at i:924471 original size:25 final size:23
Alignment explanation
Indices: 924427--924472 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
924417 TTACGTCATT
924427 TTAAATTTAAATAATTTTAAAAA
1 TTAAATTTAAATAATTTTAAAAA
*
924450 TTAAGATTTAAGATTATTTTAAA
1 TTAA-ATTTAA-ATAATTTTAAA
924473 TTTTTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 6 0.30
25 10 0.50
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (23 bp):
TTAAATTTAAATAATTTTAAAAA
Found at i:924853 original size:24 final size:26
Alignment explanation
Indices: 924826--924893 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 26
924816 GAGGATTCAC
924826 TTAAATATTATAATAAATTA-A-TTA
1 TTAAATATTATAATAAATTATATTTA
924850 TTAAAT-TTAATAATATAATTATATTTA
1 TTAAATATT-ATAATA-AATTATATTTA
*
924877 TTATATA-TATAA-AAATT
1 TTAAATATTATAATAAATT
924894 TAAATTAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
23 2 0.05
24 16 0.42
25 6 0.16
26 5 0.13
27 9 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
TTAAATATTATAATAAATTATATTTA
Found at i:924969 original size:27 final size:25
Alignment explanation
Indices: 924935--925009 Score: 64
Period size: 27 Copynumber: 2.9 Consensus size: 25
924925 TAAAAATTAT
*
924935 ATTTTTATATATATTTAATAGTTAAA
1 ATTTTTATAT-TATTTAATAATTAAA
* *
924961 ATTTGTTATATTAAATAAATAATTAAA
1 ATTT-TTATATT-ATTTAATAATTAAA
924988 ATTTTT-TAATTTATTTAA-AATT
1 ATTTTTAT-A-TTATTTAATAATT
925010 TGATAAAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
25 5 0.12
26 12 0.30
27 23 0.57
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (25 bp):
ATTTTTATATTATTTAATAATTAAA
Found at i:925050 original size:17 final size:17
Alignment explanation
Indices: 925028--925067 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
925018 TATATAAAAT
925028 TAAATAATTAAATTATA
1 TAAATAATTAAATTATA
925045 TAAAT-A-TAAATTATA
1 TAAATAATTAAATTATA
925060 TAAA-AATT
1 TAAATAATT
925068 TTAATTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 14 0.67
16 2 0.10
17 5 0.24
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAATAATTAAATTATA
Found at i:925056 original size:15 final size:15
Alignment explanation
Indices: 925019--925063 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
925009 TTGATAAAAT
*
925019 ATATAAAATTAAAT-A
1 ATAT-AAATTATATAA
925034 AT-TAAATTATATAA
1 ATATAAATTATATAA
925048 ATATAAATTATATAA
1 ATATAAATTATATAA
925063 A
1 A
925064 AATTTTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 8 0.30
14 4 0.15
15 15 0.56
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATATAAATTATATAA
Found at i:927272 original size:42 final size:41
Alignment explanation
Indices: 927222--927300 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 41
927212 TAAAAAATAA
* *
927222 TTTTTATTTAAAT-TTAATTATAAATATTAATATAAATATAT
1 TTTTTATTTAAATATT-ATTATAAATAATAAAATAAATATAT
*
927263 TTTTATATTTAAATATTATTTTAAATAATAAAATAAAT
1 TTTT-TATTTAAATATTATTATAAATAATAAAATAAAT
927301 TTTTAAATCA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
41 4 0.12
42 27 0.82
43 2 0.06
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (41 bp):
TTTTTATTTAAATATTATTATAAATAATAAAATAAATATAT
Found at i:927434 original size:2 final size:2
Alignment explanation
Indices: 927427--927455 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
927417 GCAATTATCC
927427 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
927456 TGGGCAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:928221 original size:2 final size:2
Alignment explanation
Indices: 928214--928244 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
928204 CTGAAACATG
928214 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
928245 CATAATGGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:929614 original size:22 final size:22
Alignment explanation
Indices: 929573--929614 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
929563 ATTAAAATAT
*
929573 TATTTTTATATTAATGTTTATA
1 TATTTTTATATTAATATTTATA
929595 TATTTTTATAATTAA-ATTTA
1 TATTTTTAT-ATTAATATTTA
929615 AATAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
TATTTTTATATTAATATTTATA
Found at i:931462 original size:16 final size:16
Alignment explanation
Indices: 931412--931465 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
931402 AATTATGGTA
*
931412 ATTTATAATTAAAATTT
1 ATTTA-AATTATAATTT
* * *
931429 ATTT-TATTTTATTTT
1 ATTTAAATTATAATTT
931444 ATTTAAATTATAATTT
1 ATTTAAATTATAATTT
931460 ATTTAA
1 ATTTAA
931466 TTAAATAATA
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
15 11 0.38
16 14 0.48
17 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTTAAATTATAATTT
Found at i:931462 original size:21 final size:21
Alignment explanation
Indices: 931436--931498 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 21
931426 TTTATTTTAT
931436 TTTATTTTATTTAAATTATAA
1 TTTATTTTATTTAAATTATAA
* * *
931457 TTTA-TTTAATTAAATAATATT
1 TTTATTTTATTTAAATTATA-A
*
931478 TTTATTTAATATT-AATTATAA
1 TTTATTTTAT-TTAAATTATAA
931499 AATATAAAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
20 13 0.41
21 8 0.25
22 9 0.28
23 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTATTTTATTTAAATTATAA
Found at i:931762 original size:29 final size:30
Alignment explanation
Indices: 931745--931801 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
931735 ATTTATTAGT
*
931745 TTATT-TTTAATCTAAATTATATTTTTAAA
1 TTATTATTTAATATAAATTATATTTTTAAA
*
931774 TTATTATTTAATATAAA-TATAATTTTAA
1 TTATTATTTAATATAAATTATATTTTTAA
931802 TAAATTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (30 bp):
TTATTATTTAATATAAATTATATTTTTAAA
Found at i:931819 original size:38 final size:38
Alignment explanation
Indices: 931767--931883 Score: 132
Period size: 38 Copynumber: 3.1 Consensus size: 38
931757 TAAATTATAT
931767 TTTTAAATTATTATTTAATATAAATATAATTTTAATAAA
1 TTTT-AATTATTATTTAATATAAATATAATTTTAATAAA
* * * *
931806 TTTTAATTATTATTCAAAATAAATATAATTTTATTTATA
1 TTTTAATTATTATTTAATATAAATATAATTTTA-ATAAA
* * *
931845 TTTT-ATTA-T-TTTAATATAATTATAATTTTCATAAT
1 TTTTAATTATTATTTAATATAAATATAATTTTAATAAA
931880 TTTT
1 TTTT
931884 TTATTAATTT
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
35 6 0.09
36 17 0.26
37 1 0.02
38 31 0.47
39 11 0.17
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (38 bp):
TTTTAATTATTATTTAATATAAATATAATTTTAATAAA
Found at i:935042 original size:20 final size:20
Alignment explanation
Indices: 935014--935057 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
935004 ATTAGATCGA
* *
935014 ATTTGAATAA-AAGATTTTAT
1 ATTTAAATAATAACATTTT-T
935034 ATTTAAATAATAACATTTTT
1 ATTTAAATAATAACATTTTT
935054 ATTT
1 ATTT
935058 TTATTTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (20 bp):
ATTTAAATAATAACATTTTT
Found at i:937511 original size:97 final size:96
Alignment explanation
Indices: 937345--937539 Score: 345
Period size: 97 Copynumber: 2.0 Consensus size: 96
937335 GATCAGACAC
* *
937345 AAAAGTCATGAGCTTAGTACTTTAATCAAAGCTACGAGCGGCTCCAGCCATGACGTAGGGCTCAT
1 AAAAGTCACGACCTTAGTACTTTAATCAAAGCTACGAGCGGCTCCAGCCATGACGTAGGGCTCAT
937410 CATAGTCCGCTAAAAAAAAAAAAAAAAATTAA
66 CATAGTCCGC-AAAAAAAAAAAAAAAAATTAA
937442 AAAAGTCACGACCTTAGTACTTTAATCAAAGCTACGAGCGGCTCCAGCCATGACGTAGGGCTCAT
1 AAAAGTCACGACCTTAGTACTTTAATCAAAGCTACGAGCGGCTCCAGCCATGACGTAGGGCTCAT
**
937507 CATAGTCCGCAAAAAAAAAAAAATCAATTAA
66 CATAGTCCGCAAAAAAAAAAAAAAAAATTAA
937538 AA
1 AA
937540 TTAATTTAAT
Statistics
Matches: 94, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
96 21 0.22
97 73 0.78
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.20
Consensus pattern (96 bp):
AAAAGTCACGACCTTAGTACTTTAATCAAAGCTACGAGCGGCTCCAGCCATGACGTAGGGCTCAT
CATAGTCCGCAAAAAAAAAAAAAAAAATTAA
Found at i:937554 original size:27 final size:27
Alignment explanation
Indices: 937524--937577 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
937514 CGCAAAAAAA
*
937524 AAAAAATCAATTAAAATTAATTTAATT
1 AAAAAATAAATTAAAATTAATTTAATT
* *
937551 AAAAAATAAATTTAATTTAATTTAATT
1 AAAAAATAAATTAAAATTAATTTAATT
937578 TAATTTTGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (27 bp):
AAAAAATAAATTAAAATTAATTTAATT
Found at i:937567 original size:5 final size:5
Alignment explanation
Indices: 937559--937593 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
937549 TTAAAAAATA
*
937559 AATTT AATTT AATTT AATTT AATTTT GATTT AATT
1 AATTT AATTT AATTT AATTT AA-TTT AATTT AATT
937594 AAATAATTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:937583 original size:15 final size:16
Alignment explanation
Indices: 937559--937593 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
937549 TTAAAAAATA
937559 AATTTAA-TTTAATTT
1 AATTTAATTTTAATTT
*
937574 AATTTAATTTTGATTT
1 AATTTAATTTTAATTT
937590 AATT
1 AATT
937594 AAATAATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (16 bp):
AATTTAATTTTAATTT
Found at i:937591 original size:11 final size:11
Alignment explanation
Indices: 937561--937593 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
937551 AAAAAATAAA
937561 TTTAATTTAA-
1 TTTAATTTAAT
937571 TTTAATTTAAT
1 TTTAATTTAAT
*
937582 TTTGATTTAAT
1 TTTAATTTAAT
937593 T
1 T
937594 AAATAATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (11 bp):
TTTAATTTAAT
Found at i:937690 original size:6 final size:6
Alignment explanation
Indices: 937675--937720 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
937665 AAATATATTT
* * *
937675 AATA-A AATATA AATATA AATTTA AATTTA TATA-A AATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
937721 TTTAATAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
5 8 0.23
6 27 0.77
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
AATATA
Found at i:937690 original size:29 final size:28
Alignment explanation
Indices: 937657--937745 Score: 76
Period size: 29 Copynumber: 3.1 Consensus size: 28
937647 TAATTTAATT
937657 AATATTTAAAATATATTTAATAAAATATA
1 AATATTTAAAATA-ATTTAATAAAATATA
*
937686 AATA--TAAATTTAAATTTATATAAAATATA
1 AATATTTAAA-AT-AATTTA-ATAAAATATA
* * *
937715 AATATATT-TAATAATTTAATTAAATTTA
1 AATAT-TTAAAATAATTTAATAAAATATA
937743 AAT
1 AAT
937746 TTATATAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
27 4 0.08
28 17 0.35
29 25 0.51
30 1 0.02
31 1 0.02
32 1 0.02
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (28 bp):
AATATTTAAAATAATTTAATAAAATATA
Found at i:937696 original size:22 final size:22
Alignment explanation
Indices: 937642--937698 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
937632 TTATATCAAT
* *
937642 TAAAAT-AATTTAATTAATATT
1 TAAAATAAATTTAATTAAAATA
*
937663 TAAAATATATTTAA-TAAAATA
1 TAAAATAAATTTAATTAAAATA
937684 TAAATATAAATTTAA
1 TAAA-ATAAATTTAA
937699 ATTTATATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 15 0.50
22 15 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TAAAATAAATTTAATTAAAATA
Found at i:937708 original size:16 final size:16
Alignment explanation
Indices: 937687--937762 Score: 72
Period size: 16 Copynumber: 4.9 Consensus size: 16
937677 TAAAATATAA
937687 ATATAAATTTAAATTT
1 ATATAAATTTAAATTT
* *
937703 ATATAAAATATAAATAT
1 ATAT-AAATTTAAATTT
*
937720 AT-TTAA--T-AATTT
1 ATATAAATTTAAATTT
937732 A-ATTAAATTTAAATTT
1 ATA-TAAATTTAAATTT
937748 ATATAAATTTAAATT
1 ATATAAATTTAAATT
937763 AAAAACTCAT
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
12 5 0.10
13 4 0.08
15 3 0.06
16 23 0.48
17 13 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATAAATTTAAATTT
Found at i:937749 original size:45 final size:48
Alignment explanation
Indices: 937665--937754 Score: 141
Period size: 45 Copynumber: 1.9 Consensus size: 48
937655 TTAATATTTA
937665 AAATATATTTAATAAAATATAAATATAAATTTAAATTTATATAAAATAT
1 AAATATATTTAAT-AAATATAAATATAAATTTAAATTTATATAAAATAT
*
937714 AAATATATTTAAT-AAT-TTAAT-TAAATTTAAATTTATATAAA
1 AAATATATTTAATAAATATAAATATAAATTTAAATTTATATAAA
937755 TTTAAATTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
45 20 0.50
46 4 0.10
47 3 0.08
49 13 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (48 bp):
AAATATATTTAATAAATATAAATATAAATTTAAATTTATATAAAATAT
Found at i:937783 original size:45 final size:46
Alignment explanation
Indices: 937684--937801 Score: 127
Period size: 45 Copynumber: 2.6 Consensus size: 46
937674 TAATAAAATA
* * **
937684 TAAATATAAATTTAAATTTATATAAAATATAAATATATTTAATAATT
1 TAAATTTAAATTTAAATTTATAT-AAATTTAAATATATAAAATAATT
*
937731 T-AA-TTAAATTTAAATTTATATAAATTTAAAT-TA-AAAACTCATT
1 TAAATTTAAATTTAAATTTATATAAATTTAAATATATAAAA-TAATT
* *
937774 TAAATTTAAACTTAAATTTATTTAAATT
1 TAAATTTAAATTTAAATTTATATAAATT
937802 AAAAAATCGA
Statistics
Matches: 61, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
42 2 0.03
43 7 0.11
44 11 0.18
45 38 0.62
46 2 0.03
47 1 0.02
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.46
Consensus pattern (46 bp):
TAAATTTAAATTTAAATTTATATAAATTTAAATATATAAAATAATT
Found at i:937882 original size:31 final size:32
Alignment explanation
Indices: 937821--937918 Score: 103
Period size: 32 Copynumber: 3.0 Consensus size: 32
937811 ATCAAACTTA
*
937821 TTAATTTTAATATCAATTTAATTATTTTAATT
1 TTAAATTTAATATCAATTTAATTATTTTAATT
937853 TTAAATTTAATATCAA-TTAATT-TTATTAATT
1 TTAAATTTAATATCAATTTAATTATT-TTAATT
* * *
937884 TTAATATTAAAT-TTAATTAAATTAATTTTTAATT
1 TTAA-ATTTAATATCAATTTAATT-A-TTTTAATT
937918 T
1 T
937919 AATTAAATGG
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
30 2 0.04
31 19 0.34
32 26 0.46
34 7 0.12
35 2 0.04
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (32 bp):
TTAAATTTAATATCAATTTAATTATTTTAATT
Found at i:937898 original size:21 final size:19
Alignment explanation
Indices: 937818--937898 Score: 51
Period size: 21 Copynumber: 4.2 Consensus size: 19
937808 TCGATCAAAC
*
937818 TTATTAATTTTAATATCAAT
1 TTATT-ATTTTAATATAAAT
*
937838 TTAATTATTTTAATTTTAAAT
1 TT-ATTATTTTAA-TATAAAT
* * *
937859 TTA--ATATCAAT-TAATT
1 TTATTATTTTAATATAAAT
937875 TTATTAATTTTAATATTAAAT
1 TTATT-ATTTTAATA-TAAAT
937896 TTA
1 TTA
937899 ATTAAATTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 13
0.69 0.12 0.19
Matches are distributed among these distances:
16 7 0.15
17 1 0.02
18 5 0.11
19 6 0.13
20 10 0.22
21 17 0.37
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
TTATTATTTTAATATAAAT
Found at i:937917 original size:21 final size:21
Alignment explanation
Indices: 937869--937926 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
937859 TTAATATCAA
* *
937869 TTAATTTTATTAATTTTAATAT
1 TTAATTTAATTAA-ATTAATAT
* *
937891 TAAATTTAATTAAATTAATTT
1 TTAATTTAATTAAATTAATAT
937912 TTAATTTAATTAAAT
1 TTAATTTAATTAAAT
937927 GGAAGCCGTG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
21 20 0.65
22 11 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TTAATTTAATTAAATTAATAT
Found at i:937926 original size:31 final size:37
Alignment explanation
Indices: 937835--937912 Score: 115
Period size: 36 Copynumber: 2.2 Consensus size: 37
937825 TTTTAATATC
* * *
937835 AATTTAATT-ATTTTAATTTTAAATTTAATATCAATT
1 AATTTTATTAATTTTAATATTAAATTTAATATAAATT
937871 AATTTTATTAATTTTAATATTAAATTTAAT-TAAATT
1 AATTTTATTAATTTTAATATTAAATTTAATATAAATT
937907 AATTTT
1 AATTTT
937913 TAATTTAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 19 0.50
37 19 0.50
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.56
Consensus pattern (37 bp):
AATTTTATTAATTTTAATATTAAATTTAATATAAATT
Found at i:938740 original size:2 final size:2
Alignment explanation
Indices: 938733--938763 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
938723 TTGTTTACAT
938733 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
938764 GTATGTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:939502 original size:53 final size:53
Alignment explanation
Indices: 939418--939572 Score: 226
Period size: 50 Copynumber: 3.0 Consensus size: 53
939408 TTTTCTTGAA
* * * *
939418 AACTTGCTTTTGATATTGACAAATTTCATCATATTATCTAAAAGGTGCAGAAG
1 AACTTGCATTTGATATTGACAAATTTGATCATATTAACTAAAAGTTGCAGAAG
* *
939471 AACTTGCATTTGATTTTGACAAATTTGATCATATTAACTGAAAGTTGC---AG
1 AACTTGCATTTGATATTGACAAATTTGATCATATTAACTAAAAGTTGCAGAAG
*
939521 AACTTGTATTTGATATTGACAAATTTGATCATATTAACTAAAAGTTGCAGAA
1 AACTTGCATTTGATATTGACAAATTTGATCATATTAACTAAAAGTTGCAGAA
939573 TAGTTATGAG
Statistics
Matches: 90, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
50 47 0.52
53 43 0.48
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (53 bp):
AACTTGCATTTGATATTGACAAATTTGATCATATTAACTAAAAGTTGCAGAAG
Found at i:942332 original size:2 final size:2
Alignment explanation
Indices: 942325--942384 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
942315 GGGCACATAA
942325 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
942367 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
942385 TGCTCTTAGT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:946780 original size:14 final size:15
Alignment explanation
Indices: 946763--946800 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
946753 AATTTAAAAT
946763 ATTTTAAATAA-TTA
1 ATTTTAAATAATTTA
*
946777 ATTTAAAATAATTTA
1 ATTTTAAATAATTTA
*
946792 AATTTAAAT
1 ATTTTAAAT
946801 TAAATATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTTTAAATAATTTA
Found at i:946781 original size:23 final size:21
Alignment explanation
Indices: 946745--946813 Score: 93
Period size: 23 Copynumber: 3.1 Consensus size: 21
946735 ATAAATTTAA
946745 TTAAATTTAATTTAAAATATT
1 TTAAATTTAATTTAAAATATT
*
946766 TTAAATAATTAATTTAAAATAAT
1 TTAAAT--TTAATTTAAAATATT
*
946789 TTAAATTTAAATTAAATATATT
1 TTAAATTTAATTTAAA-ATATT
946811 TTA
1 TTA
946814 TTGTAAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
21 15 0.36
22 7 0.17
23 20 0.48
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTAAATTTAATTTAAAATATT
Found at i:946940 original size:22 final size:20
Alignment explanation
Indices: 946902--946941 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
946892 TATTTTTATT
946902 TAAATTTAATTAAAAATATA
1 TAAATTTAATTAAAAATATA
946922 TAAATATTAATATAAAAATA
1 TAAAT-TTAAT-TAAAAATA
946942 ATATTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 5 0.28
22 8 0.44
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TAAATTTAATTAAAAATATA
Found at i:947768 original size:24 final size:23
Alignment explanation
Indices: 947717--947772 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
947707 ATTAAATAAT
*
947717 TATTTTATTTTAATATTTATATA
1 TATTTTATATTAATATTTATATA
947740 T-TTTTATAATTAA-ATTTATATA
1 TATTTTAT-ATTAATATTTATATA
947762 TAATTTT-TATT
1 T-ATTTTATATT
947773 GATAAATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
22 19 0.66
23 6 0.21
24 4 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
TATTTTATATTAATATTTATATA
Found at i:949195 original size:12 final size:13
Alignment explanation
Indices: 949163--949197 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
949153 TTTATAGAGC
949163 ACTTTTCTTTATT
1 ACTTTTCTTTATT
949176 ACTTTTCTTTATT
1 ACTTTTCTTTATT
*
949189 -GTTTTCTTT
1 ACTTTTCTTT
949198 TTTTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 8 0.38
13 13 0.62
ACGTcount: A:0.11, C:0.14, G:0.03, T:0.71
Consensus pattern (13 bp):
ACTTTTCTTTATT
Found at i:949525 original size:2 final size:2
Alignment explanation
Indices: 949518--949542 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
949508 TTATACATGC
949518 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
949543 AAATTGGCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:949809 original size:22 final size:22
Alignment explanation
Indices: 949766--949812 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
949756 TTCGAACATG
* *
949766 AATATAAAAATAATATCTTTTA
1 AATATAAAAAAAATAACTTTTA
949788 AATATAAAAAAAATTAAC-TTTA
1 AATATAAAAAAAA-TAACTTTTA
949810 AAT
1 AAT
949813 TTGACTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (22 bp):
AATATAAAAAAAATAACTTTTA
Found at i:950000 original size:2 final size:2
Alignment explanation
Indices: 949993--950091 Score: 134
Period size: 2 Copynumber: 49.5 Consensus size: 2
949983 AATTTAAATG
949993 TA TA TA TA T- TCA TA TA TA TA TA TA TA TA TA T- TCA TA TA TA TA
1 TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA
950035 TA TA TA TA T- TCA TA TA TA TA TA TA TA TA T- TCA TA TA TA TA TA
1 TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA
950077 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
950092 GCACATTTTC
Statistics
Matches: 89, Mismatches: 0, Indels: 16
0.85 0.00 0.15
Matches are distributed among these distances:
1 4 0.04
2 81 0.91
3 4 0.04
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:950018 original size:22 final size:20
Alignment explanation
Indices: 949993--950091 Score: 166
Period size: 20 Copynumber: 5.0 Consensus size: 20
949983 AATTTAAATG
949993 TATATATATTCATATATATATA
1 TATATATATTC--ATATATATA
950015 TATATATATTCATATATATA
1 TATATATATTCATATATATA
950035 TATATATATTCATATATATA
1 TATATATATTCATATATATA
950055 TATATATATTCATATATATA
1 TATATATATTCATATATATA
950075 TATATATA-T-ATATATAT
1 TATATATATTCATATATAT
950092 GCACATTTTC
Statistics
Matches: 77, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.10
19 1 0.01
20 57 0.74
22 11 0.14
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (20 bp):
TATATATATTCATATATATA
Found at i:951153 original size:3 final size:3
Alignment explanation
Indices: 951145--951177 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
951135 TTGCGATTGA
*
951145 TGG TGG TGG TGA TGG TGG TGG TGG TGG TGG TGG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG
951178 AGATTGAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.03, C:0.00, G:0.64, T:0.33
Consensus pattern (3 bp):
TGG
Found at i:951159 original size:12 final size:12
Alignment explanation
Indices: 951142--951177 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
951132 AGGTTGCGAT
951142 TGATGGTGGTGG
1 TGATGGTGGTGG
951154 TGATGGTGGTGG
1 TGATGGTGGTGG
*
951166 TGGTGGTGGTGG
1 TGATGGTGGTGG
951178 AGATTGAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.06, C:0.00, G:0.61, T:0.33
Consensus pattern (12 bp):
TGATGGTGGTGG
Found at i:952747 original size:2 final size:2
Alignment explanation
Indices: 952740--952768 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
952730 TATTTTTATC
952740 AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
952769 GTAATGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:952761 original size:13 final size:13
Alignment explanation
Indices: 952743--952768 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
952733 TTTTATCATA
952743 TATATATATATAT
1 TATATATATATAT
952756 TATATATATATAT
1 TATATATATATAT
952769 GTAATGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATATATATATAT
Found at i:953132 original size:30 final size:30
Alignment explanation
Indices: 953098--953156 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
953088 AGTAAGCTCG
953098 AAAAT-TTATTTTATTATTTAGAAT-ATAATA
1 AAAATATT-TTTTATTATTTA-AATAATAATA
953128 AAAATATTTTTTATTATTTAAATAATAAT
1 AAAATATTTTTTATTATTTAAATAATAAT
953157 TTAAACTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 3 0.11
30 22 0.81
31 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (30 bp):
AAAATATTTTTTATTATTTAAATAATAATA
Found at i:954329 original size:18 final size:18
Alignment explanation
Indices: 954306--954360 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 18
954296 TTATAAAATA
954306 ATATTAAAAATTATTTTT
1 ATATTAAAAATTATTTTT
* *
954324 ATATT-AATATT-TATTT
1 ATATTAAAAATTATTTTT
* *
954340 AAAATAAAAATTAATTTTT
1 ATATTAAAAATT-ATTTTT
954359 AT
1 AT
954361 CATATAAATA
Statistics
Matches: 27, Mismatches: 7, Indels: 5
0.69 0.18 0.13
Matches are distributed among these distances:
16 7 0.26
17 10 0.37
18 5 0.19
19 5 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATATTAAAAATTATTTTT
Found at i:954516 original size:12 final size:12
Alignment explanation
Indices: 954499--954531 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
954489 GATTTTAGTT
954499 TTTCAATTTTTC
1 TTTCAATTTTTC
*
954511 TTTCAAATTTTC
1 TTTCAATTTTTC
954523 TTTCAATTT
1 TTTCAATTT
954532 CTACAACAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.21, C:0.15, G:0.00, T:0.64
Consensus pattern (12 bp):
TTTCAATTTTTC
Found at i:955324 original size:2 final size:2
Alignment explanation
Indices: 955305--955341 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
955295 AAATTTTAAA
*
955305 AT AT AA AT AT -T A- AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
955342 AAAGTGTAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:956738 original size:23 final size:24
Alignment explanation
Indices: 956695--956741 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
956685 CTTTTCTTTT
956695 CTTTAAAATTATGTATATTATATAA
1 CTTTAAAATTA-GTATATTATATAA
956720 CTTTAAAATTA-TATATTATATA
1 CTTTAAAATTAGTATATTATATA
956742 TATTATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 11 0.50
25 11 0.50
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (24 bp):
CTTTAAAATTAGTATATTATATAA
Found at i:956742 original size:25 final size:25
Alignment explanation
Indices: 956695--956744 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 25
956685 CTTTTCTTTT
*
956695 CTTTAAAATTATGTATATTATATAA
1 CTTTAAAATTATATATATTATATAA
956720 CTTTAAAATTATATATTATATATAT
1 CTTTAAAATTATATA-TAT-TATAT
956745 TATTTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 14 0.64
26 3 0.14
27 5 0.23
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (25 bp):
CTTTAAAATTATATATATTATATAA
Found at i:957250 original size:16 final size:17
Alignment explanation
Indices: 957229--957262 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
957219 TATTTTTCAT
957229 TATTTTT-ATT-CAAAA
1 TATTTTTAATTACAAAA
957244 TATTTTTAATTACAAAA
1 TATTTTTAATTACAAAA
957261 TA
1 TA
957263 ATTAGAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 3 0.18
17 7 0.41
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
TATTTTTAATTACAAAA
Found at i:957698 original size:22 final size:21
Alignment explanation
Indices: 957676--957718 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 21
957666 TTTGTCTTTA
957676 AATAAAAATAACACGAATA-T
1 AATAAAAATAACACGAATATT
957696 --TAAAAATAACACGAATATAT
1 AATAAAAATAACACGAATAT-T
957716 AAT
1 AAT
957719 TAAATTAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 6
0.76 0.00 0.24
Matches are distributed among these distances:
18 17 0.89
20 1 0.05
22 1 0.05
ACGTcount: A:0.63, C:0.09, G:0.05, T:0.23
Consensus pattern (21 bp):
AATAAAAATAACACGAATATT
Found at i:957701 original size:18 final size:18
Alignment explanation
Indices: 957678--957713 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
957668 TGTCTTTAAA
957678 TAAAAATAACACGAATAT
1 TAAAAATAACACGAATAT
957696 TAAAAATAACACGAATAT
1 TAAAAATAACACGAATAT
957714 ATAATTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.61, C:0.11, G:0.06, T:0.22
Consensus pattern (18 bp):
TAAAAATAACACGAATAT
Found at i:970194 original size:18 final size:18
Alignment explanation
Indices: 970177--970210 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
970167 ATTAAAAATA
970177 ATTAATAAA-ATAATAAT
1 ATTAATAAATATAATAAT
*
970194 ATTATTAAATATAATAA
1 ATTAATAAATATAATAA
970211 ATACGTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTAATAAATATAATAAT
Found at i:974063 original size:27 final size:27
Alignment explanation
Indices: 974001--974065 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
973991 AACCAAATGC
*
974001 CGGGTGGAGGTGGAGGTGGAGGAGGGGG
1 CGGG-GGAGGTGGAGGTGGAGGAGGAGG
** *
974029 AAGCGGAGGTGGAGGTGCG-GGAGGAGG
1 CGGGGGAGGTGGAGGTG-GAGGAGGAGG
974056 CGGGGGAGGT
1 CGGGGGAGGT
974066 ATGTCACAGA
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
27 27 0.93
28 2 0.07
ACGTcount: A:0.17, C:0.06, G:0.68, T:0.09
Consensus pattern (27 bp):
CGGGGGAGGTGGAGGTGGAGGAGGAGG
Found at i:985428 original size:142 final size:142
Alignment explanation
Indices: 985171--985526 Score: 489
Period size: 142 Copynumber: 2.5 Consensus size: 142
985161 ATGTTTTTTT
* * * *
985171 CATGCTTTAGTGTAAGAAATAGATAGTTGATATCTGAATCTGAGTACTCTGATTTGGTGGTCTTA
1 CATGCTTTAGTCTAAGAAATAGATAGTTGATATCTGAATCCGAGTACTCTG-GTTGGTGATCTTA
* ** *
985236 GTTTTATGATAACTTTTTGCAGTCCATTGCTGTCAGTGCTCGCCATTGTTCTCTTTTGAGTTCAT
65 ATTTTATGATAACTTCATACAGTCCATTGCTGTCAGTGCTCGCCATTGTTCTCTTTTGAGTTCAT
*
985301 ACCATATGTATTG
130 ACCATATATATTG
* * * * * * *
985314 CATGCTGTAGTTTAAGAAATAGGTAGTTGACATCTGAATCCGAGTATTTTGGTTGATGATCTTAA
1 CATGCTTTAGTCTAAGAAATAGATAGTTGATATCTGAATCCGAGTACTCTGGTTGGTGATCTTAA
* * *
985379 TTTTATGATAACTTCATACAGTCCATTGCTTTCAGTGCTTGCCATTGTTCTCTTTTGGGTTCATA
66 TTTTATGATAACTTCATACAGTCCATTGCTGTCAGTGCTCGCCATTGTTCTCTTTTGAGTTCATA
**
985444 CTGTATATATTG
131 CCATATATATTG
* *
985456 CATGCTTTAGTCTGAGAAATAGAT-GTTGATATCCGAATCCGAGTACTCTGGTTGGTGATCTTAA
1 CATGCTTTAGTCTAAGAAATAGATAGTTGATATCTGAATCCGAGTACTCTGGTTGGTGATCTTAA
985520 TTTTATG
66 TTTTATG
985527 TATTGTTTTT
Statistics
Matches: 184, Mismatches: 29, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
141 42 0.23
142 98 0.53
143 44 0.24
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (142 bp):
CATGCTTTAGTCTAAGAAATAGATAGTTGATATCTGAATCCGAGTACTCTGGTTGGTGATCTTAA
TTTTATGATAACTTCATACAGTCCATTGCTGTCAGTGCTCGCCATTGTTCTCTTTTGAGTTCATA
CCATATATATTG
Found at i:985561 original size:2 final size:2
Alignment explanation
Indices: 985554--985584 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
985544 TTGTTTCCAT
985554 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
985585 ATTTAATGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:986877 original size:2 final size:2
Alignment explanation
Indices: 986870--986899 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
986860 AAAGCCATTA
986870 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
986900 ATATATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:987088 original size:16 final size:16
Alignment explanation
Indices: 987067--987098 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
987057 GAACCTCTTC
987067 TCGTTTGTTCTGCTTT
1 TCGTTTGTTCTGCTTT
987083 TCGTTTGTTCTGCTTT
1 TCGTTTGTTCTGCTTT
987099 CTTAGACTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.00, C:0.19, G:0.19, T:0.62
Consensus pattern (16 bp):
TCGTTTGTTCTGCTTT
Found at i:987800 original size:16 final size:16
Alignment explanation
Indices: 987779--987814 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
987769 AAATAAAAAA
987779 TTAATTTAAATTTAAT
1 TTAATTTAAATTTAAT
* *
987795 TTAATTTGAGTTTAAT
1 TTAATTTAAATTTAAT
987811 TTAA
1 TTAA
987815 ATAATTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TTAATTTAAATTTAAT
Found at i:990045 original size:82 final size:81
Alignment explanation
Indices: 989939--990109 Score: 247
Period size: 82 Copynumber: 2.1 Consensus size: 81
989929 ATATACAATT
*
989939 AAAC-AAATTAATTTAAATTCGATTCAATTATTTCACTTGATATAACA-AGTTTATTTGATTTTA
1 AAACTAAATTAATGTAAATTCGATTCAATTATTTCACTTGAT-TAA-AGAGTTTATTTGATTTTA
990002 TTGATTTAAAAAATTTTA
64 TTGATTTAAAAAATTTTA
* * *
990020 AAATTAAATTAATGTAAATTTGATTCAATTATTTCCCTTGATTAAATGAGTTTATTTGATTTTAT
1 AAACTAAATTAATGTAAATTCGATTCAATTATTTCACTTGATTAAA-GAGTTTATTTGATTTTAT
* *
990085 TGATTTTAAAATTTTTA
65 TGATTTAAAAAATTTTA
990102 AAACTAAA
1 AAACTAAA
990110 CGGAAGGGAT
Statistics
Matches: 80, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
80 1 0.01
81 6 0.08
82 73 0.91
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.47
Consensus pattern (81 bp):
AAACTAAATTAATGTAAATTCGATTCAATTATTTCACTTGATTAAAGAGTTTATTTGATTTTATT
GATTTAAAAAATTTTA
Found at i:990519 original size:29 final size:29
Alignment explanation
Indices: 990442--990507 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
990432 CATAATCTTA
*
990442 TTTAAAATATT--TT-ATATTTATATAAAT
1 TTTAAAATATTAATTCATA-TTACATAAAT
*
990469 TTTAATATATTAATTCATATTACATAAAT
1 TTTAAAATATTAATTCATATTACATAAAT
990498 TTTAAAATAT
1 TTTAAAATAT
990508 ATATCTCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 10 0.30
29 20 0.61
30 3 0.09
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (29 bp):
TTTAAAATATTAATTCATATTACATAAAT
Found at i:991370 original size:2 final size:2
Alignment explanation
Indices: 991363--991396 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
991353 GGAGTGGTTA
991363 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
991397 ATTTGAACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:991537 original size:43 final size:43
Alignment explanation
Indices: 991471--991562 Score: 166
Period size: 43 Copynumber: 2.1 Consensus size: 43
991461 GTTGAGATCA
*
991471 AAAAGCCCTCTAGATTTTCTTATACATCTTTCATCTCAACAATT
1 AAAA-CCCTCTAGATTTTCTTATACATCTTTCATCTCAACAACT
991515 AAAACCCTCTAGATTTTCTTATACATCTTTCATCTCAACAACT
1 AAAACCCTCTAGATTTTCTTATACATCTTTCATCTCAACAACT
991558 AAAAC
1 AAAAC
991563 GGGCATGCAA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 43 0.91
44 4 0.09
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.36
Consensus pattern (43 bp):
AAAACCCTCTAGATTTTCTTATACATCTTTCATCTCAACAACT
Found at i:993898 original size:6 final size:6
Alignment explanation
Indices: 993828--993881 Score: 69
Period size: 6 Copynumber: 9.5 Consensus size: 6
993818 AATATTTTTT
* *
993828 TAAATA TAAATA TAAA-A TAAA-A T-ATTA AAAATA TAAATA TAAATA
1 TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA
993873 TAAATA TAA
1 TAAATA TAA
993882 TAGATATATT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
4 1 0.02
5 8 0.19
6 33 0.79
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
TAAATA
Found at i:993985 original size:37 final size:38
Alignment explanation
Indices: 993916--993987 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
993906 ATATTTTATA
* **
993916 TCATATTTATTATATTATTTTAATTTTCATTAAATATG
1 TCATATTTATTATATTATTTAAAAATTCATTAAATATG
993954 TCATA-TTATTATATTATATTAAAAATT-ATTAAAT
1 TCATATTTATTATATTAT-TTAAAAATTCATTAAAT
993988 TTAATTTTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
37 19 0.63
38 11 0.37
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.54
Consensus pattern (38 bp):
TCATATTTATTATATTATTTAAAAATTCATTAAATATG
Found at i:994091 original size:22 final size:22
Alignment explanation
Indices: 994061--994110 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
994051 AGAGTCCAAG
* *
994061 AAAA-ATTTTTAATTTTTATTA
1 AAAATATTTTTAATTATTAATA
* *
994082 TAAATATTTTTTATTATTAATA
1 AAAATATTTTTAATTATTAATA
994104 AAAATAT
1 AAAATAT
994111 CATATATATA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
AAAATATTTTTAATTATTAATA
Found at i:994094 original size:16 final size:16
Alignment explanation
Indices: 994073--994103 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
994063 AAATTTTTAA
994073 TTTTTATTATAAATAT
1 TTTTTATTATAAATAT
*
994089 TTTTTATTATTAATA
1 TTTTTATTATAAATA
994104 AAAATATCAT
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTTATTATAAATAT
Found at i:994315 original size:8 final size:8
Alignment explanation
Indices: 994304--994361 Score: 50
Period size: 8 Copynumber: 7.6 Consensus size: 8
994294 TCAATAATTC
994304 ATATATTT
1 ATATATTT
*
994312 ATATATAT
1 ATATATTT
*
994320 ATATATAT
1 ATATATTT
*
994328 A-ATAATT
1 ATATATTT
*
994335 ATAT-TTA
1 ATATATTT
*
994342 AAATA-TT
1 ATATATTT
994349 ATATATTT
1 ATATATTT
994357 ATATA
1 ATATA
994362 AATTTTAATA
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
7 14 0.36
8 25 0.64
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
ATATATTT
Found at i:994423 original size:12 final size:12
Alignment explanation
Indices: 994407--994445 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
994397 GATCTTTTCG
*
994407 TATTTTATATTG
1 TATTTTATATTA
994419 TA-TTTATATTA
1 TATTTTATATTA
*
994430 TTTTTTATATTA
1 TATTTTATATTA
994442 TATT
1 TATT
994446 CGTATCATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (12 bp):
TATTTTATATTA
Found at i:994630 original size:25 final size:26
Alignment explanation
Indices: 994567--994631 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 26
994557 AGTTTGAATT
994567 AATTTATAAATTTATTTTATTATTAAA
1 AATTTATAAA-TTATTTTATTATTAAA
994594 AATATTA-AAATTATTTTA-TATT-AA
1 AAT-TTATAAATTATTTTATTATTAAA
*
994618 TATTTATATAATTA
1 AATTTATA-AATTA
994632 AATTTAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
23 3 0.09
24 5 0.15
25 9 0.26
26 8 0.24
27 6 0.18
28 3 0.09
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
AATTTATAAATTATTTTATTATTAAA
Found at i:995204 original size:21 final size:21
Alignment explanation
Indices: 995180--995222 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
995170 TATCATAATA
* *
995180 TTTTAATTTTTTTAAGTTTTT
1 TTTTAATTTTTTAAAATTTTT
995201 TTTTAATTTTTTAAAATTTTT
1 TTTTAATTTTTTAAAATTTTT
995222 T
1 T
995223 AAAAAATCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (21 bp):
TTTTAATTTTTTAAAATTTTT
Found at i:996135 original size:67 final size:67
Alignment explanation
Indices: 996024--996160 Score: 256
Period size: 67 Copynumber: 2.0 Consensus size: 67
996014 TGAAAGGTTA
* *
996024 TGATTAGTTATCTTATCCGGACTCTTTATTTTTTGAAAAGTATTCATATTCGATATATATTTGCA
1 TGATTAGTTATCTTATCCGGACTCTTTATTTTCTGAAAAATATTCATATTCGATATATATTTGCA
996089 CG
66 CG
996091 TGATTAGTTATCTTATCCGGACTCTTTATTTTCTGAAAAATATTCATATTCGATATATATTTGCA
1 TGATTAGTTATCTTATCCGGACTCTTTATTTTCTGAAAAATATTCATATTCGATATATATTTGCA
996156 CG
66 CG
996158 TGA
1 TGA
996161 ATATGGAGTA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.28, C:0.14, G:0.13, T:0.45
Consensus pattern (67 bp):
TGATTAGTTATCTTATCCGGACTCTTTATTTTCTGAAAAATATTCATATTCGATATATATTTGCA
CG
Found at i:997213 original size:2 final size:2
Alignment explanation
Indices: 997201--997231 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
997191 CTGATCTTCC
*
997201 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
997232 AAACTCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:999770 original size:14 final size:14
Alignment explanation
Indices: 999753--999792 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
999743 ATTATTTTAT
999753 TTTATTTTAAATTA
1 TTTATTTTAAATTA
999767 TTTATTTTAAA--A
1 TTTATTTTAAATTA
999779 TTTA-TTTAAATTA
1 TTTATTTTAAATTA
999792 T
1 T
999793 AAATATTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.25
12 5 0.21
13 2 0.08
14 11 0.46
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTATTTTAAATTA
Found at i:999801 original size:25 final size:26
Alignment explanation
Indices: 999753--999801 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
999743 ATTATTTTAT
** *
999753 TTTATTTTAAATTATTTATTTTAAAA
1 TTTATTTTAAATTATAAATATTAAAA
999779 TTTA-TTTAAATTATAAATATTAA
1 TTTATTTTAAATTATAAATATTAA
999802 TATAAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
TTTATTTTAAATTATAAATATTAAAA
Found at i:1002479 original size:2 final size:2
Alignment explanation
Indices: 1002472--1002505 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1002462 ATGGCTTCAA
1002472 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
1002506 CCAACTCTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1002752 original size:14 final size:14
Alignment explanation
Indices: 1002733--1002766 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1002723 TTTCATCATT
*
1002733 AAATAATTAAATAA
1 AAATAATAAAATAA
1002747 AAATAATAAAATAA
1 AAATAATAAAATAA
*
1002761 ACATAA
1 AAATAA
1002767 AATCATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (14 bp):
AAATAATAAAATAA
Found at i:1003560 original size:16 final size:17
Alignment explanation
Indices: 1003529--1003561 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1003519 TTATAGTCTC
*
1003529 AAAATTTATATAAATAT
1 AAAATATATATAAATAT
1003546 AAAATATAT-TAAATAT
1 AAAATATATATAAATAT
1003562 GATTATAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAATATATATAAATAT
Found at i:1005362 original size:24 final size:24
Alignment explanation
Indices: 1005329--1005377 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
1005319 ATGATACATA
* *
1005329 AGTATTAAATTTAT-TGGTTTTAT
1 AGTATTAAATATATATGGATTTAT
1005352 AGTATTTAAATATATATGGATTTAT
1 AGTA-TTAAATATATATGGATTTAT
1005377 A
1 A
1005378 TCATATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 4 0.18
24 9 0.41
25 9 0.41
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (24 bp):
AGTATTAAATATATATGGATTTAT
Found at i:1008768 original size:2 final size:2
Alignment explanation
Indices: 1008752--1008795 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
1008742 TTTAATTAAA
*
1008752 AT AT AA AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1008793 AT A
1 AT A
1008796 CACACACACA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:1010115 original size:21 final size:22
Alignment explanation
Indices: 1010091--1010138 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
1010081 ACTGTATAAA
**
1010091 TAATAAAAAAATATTTAAAT-T
1 TAATAAAAAAATACATAAATAT
* *
1010112 TAATTATAAAATACATAAATAT
1 TAATAAAAAAATACATAAATAT
1010134 TAATA
1 TAATA
1010139 TAAATTTTTT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
TAATAAAAAAATACATAAATAT
Found at i:1010487 original size:5 final size:5
Alignment explanation
Indices: 1010477--1010502 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
1010467 GCACCTACTT
1010477 TTTCA TTTCA TTTCA TTTCA TTTCA T
1 TTTCA TTTCA TTTCA TTTCA TTTCA T
1010503 ACATCTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.00, T:0.62
Consensus pattern (5 bp):
TTTCA
Found at i:1010991 original size:21 final size:18
Alignment explanation
Indices: 1010961--1011002 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
1010951 TACAAATATA
1010961 TTTTATAATTCATATATTTT
1 TTTTATAATT-ATAT-TTTT
1010981 TTTTCATAATTATATTTTT
1 TTTT-ATAATTATATTTTT
1011000 TTT
1 TTT
1011003 CAAAAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.33
20 8 0.38
21 6 0.29
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTATAATTATATTTTT
Found at i:1015087 original size:18 final size:19
Alignment explanation
Indices: 1015054--1015090 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
1015044 TATATTTAAT
*
1015054 ATAAATAATTTTAAAATTA
1 ATAAATAATATTAAAATTA
1015073 ATAAATAA-ATTAAAATTA
1 ATAAATAATATTAAAATTA
1015091 TATATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAAATAATATTAAAATTA
Found at i:1015560 original size:26 final size:23
Alignment explanation
Indices: 1015531--1015580 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 23
1015521 TAATATTTTA
1015531 TTTTAATTTAATTATAAATATTAATT
1 TTTTAATTT--TT-TAAATATTAATT
*
1015557 TTTTAATTTTTTTAATATTAATT
1 TTTTAATTTTTTAAATATTAATT
1015580 T
1 T
1015581 AAATGCTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 12 0.52
24 2 0.09
26 9 0.39
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTTAATTTTTTAAATATTAATT
Found at i:1019374 original size:30 final size:32
Alignment explanation
Indices: 1019317--1019380 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 32
1019307 ATTTGTTTAA
1019317 TTATATTTAAAATATTATATATTTATATAAAT
1 TTATATTTAAAATATTATATATTTATATAAAT
*
1019349 TTATATGTTAATA-ATT-TATA-TTATATAAAT
1 TTATAT-TTAAAATATTATATATTTATATAAAT
1019379 TT
1 TT
1019381 TAATATATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 12 0.40
31 4 0.13
32 9 0.30
33 5 0.17
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (32 bp):
TTATATTTAAAATATTATATATTTATATAAAT
Found at i:1019379 original size:15 final size:15
Alignment explanation
Indices: 1019334--1019380 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
1019324 TAAAATATTA
1019334 TATATTTATATAAATT
1 TATA-TTATATAAATT
1019350 TATATGT-TA-ATAATT
1 TATAT-TATATA-AATT
1019365 TATATTATATAAATT
1 TATATTATATAAATT
1019380 T
1 T
1019381 TAATATATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 9
0.75 0.00 0.25
Matches are distributed among these distances:
14 2 0.07
15 19 0.70
16 6 0.22
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
TATATTATATAAATT
Found at i:1019409 original size:28 final size:28
Alignment explanation
Indices: 1019364--1019443 Score: 67
Period size: 27 Copynumber: 2.9 Consensus size: 28
1019354 TGTTAATAAT
* *
1019364 TTATA-TTATATAAATTTTAATATATTTA
1 TTATATTTATAT-TATTTTTATATATTTA
* *
1019392 -TGTATTTATATTATTTTT-TATTTTTA
1 TTATATTTATATTATTTTTATATATTTA
*
1019418 TTATATTTTTAATTATTTTTTATATA
1 TTATATTTAT-ATTA-TTTTTATATA
1019444 GTATCAAATC
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
26 7 0.17
27 15 0.38
28 10 0.25
29 5 0.12
30 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (28 bp):
TTATATTTATATTATTTTTATATATTTA
Found at i:1019413 original size:16 final size:17
Alignment explanation
Indices: 1019384--1019433 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
1019374 TAAATTTTAA
1019384 TATATTTATGTATTTATAT
1 TATATTT-T-TATTTATAT
*
1019403 TAT-TTTTTATTTTTAT
1 TATATTTTTATTTATAT
*
1019419 TATATTTTTAATTAT
1 TATATTTTTATTTAT
1019434 TTTTTATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 11 0.41
17 10 0.37
18 3 0.11
19 3 0.11
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (17 bp):
TATATTTTTATTTATAT
Found at i:1019422 original size:21 final size:21
Alignment explanation
Indices: 1019378--1019437 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 21
1019368 ATTATATAAA
1019378 TTTTAATATATTTATGTATTTATAT
1 TTTTAAT-TATTT-T-TA-TTATAT
*
1019403 TATTT-TTTATTTTTATTATAT
1 T-TTTAATTATTTTTATTATAT
1019424 TTTTAATTATTTTT
1 TTTTAATTATTTTT
1019438 TATATAGTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
20 3 0.10
21 15 0.48
22 2 0.06
23 1 0.03
24 5 0.16
25 2 0.06
26 3 0.10
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTTAATTATTTTTATTATAT
Found at i:1019742 original size:22 final size:21
Alignment explanation
Indices: 1019695--1019743 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 21
1019685 TTTAATTTTA
* *
1019695 ATTTGATTTGATAATTTAAAT
1 ATTTTATTTGATAATTAAAAT
* *
1019716 TTTTTATTTTATATATTAAAAT
1 ATTTTATTTGATA-ATTAAAAT
1019738 ATTTTA
1 ATTTTA
1019744 AAACTTTTAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (21 bp):
ATTTTATTTGATAATTAAAAT
Found at i:1019811 original size:20 final size:21
Alignment explanation
Indices: 1019781--1019820 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
1019771 TTTAAATTAA
1019781 ATTTATATAAA-ATATTATTTT
1 ATTTATATAAATA-ATTATTTT
1019802 ATTT-TATAAATAATTATTT
1 ATTTATATAAATAATTATTT
1019821 AAATTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTATATAAATAATTATTTT
Found at i:1020887 original size:2 final size:2
Alignment explanation
Indices: 1020880--1020912 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1020870 GCATACATAC
1020880 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1020913 GCCAAAGAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1021254 original size:22 final size:23
Alignment explanation
Indices: 1021217--1021266 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
1021207 CATTAGTTTG
1021217 AATTATCGATTTTTAAAATTTTAA
1 AATTATC-ATTTTTAAAATTTTAA
* *
1021241 AATTATC-TTTTTAATATTTTTA
1 AATTATCATTTTTAAAATTTTAA
1021263 AATT
1 AATT
1021267 TGTCATTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 17 0.71
24 7 0.29
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (23 bp):
AATTATCATTTTTAAAATTTTAA
Found at i:1022961 original size:2 final size:2
Alignment explanation
Indices: 1022954--1022986 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1022944 TTTGCTTCAA
1022954 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1022987 GTGTTTTCGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1023069 original size:2 final size:2
Alignment explanation
Indices: 1023062--1023110 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
1023052 ATGTCTGCTT
1023062 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1023104 TA TA TA T
1 TA TA TA T
1023111 TTCTGGTTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1023499 original size:2 final size:2
Alignment explanation
Indices: 1023487--1023529 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
1023477 ATTGCAACAT
* * * *
1023487 TA TA TA CA TA TA TA TA TA TA TA TA TA TG TG TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1023529 T
1 T
1023530 TATGTTCCAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1024739 original size:31 final size:31
Alignment explanation
Indices: 1024701--1024763 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
1024691 GGGTTTATGT
*
1024701 TCATTTCGGCTTAAAATTATTATATTAGGTA
1 TCATTTCGACTTAAAATTATTATATTAGGTA
*
1024732 TCATTTCGATTTAAAATTATTATATTAGGTA
1 TCATTTCGACTTAAAATTATTATATTAGGTA
1024763 T
1 T
1024764 GGCATGAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.48
Consensus pattern (31 bp):
TCATTTCGACTTAAAATTATTATATTAGGTA
Found at i:1025559 original size:9 final size:9
Alignment explanation
Indices: 1025545--1025571 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
1025535 AATTTTAAAT
1025545 ATAAATATA
1 ATAAATATA
1025554 ATAAATATA
1 ATAAATATA
1025563 ATAAATATA
1 ATAAATATA
1025572 TTATATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
ATAAATATA
Found at i:1027360 original size:22 final size:21
Alignment explanation
Indices: 1027335--1027376 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
1027325 ATATTTTTAT
1027335 ATAAAT-TTAATTTATAAAATAA
1 ATAAATATTAA-TTA-AAAATAA
1027357 ATAAATATTAATTAAAAATA
1 ATAAATATTAATTAAAAATA
1027377 TTTTTAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 9 0.47
23 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
ATAAATATTAATTAAAAATAA
Found at i:1027794 original size:11 final size:11
Alignment explanation
Indices: 1027774--1027826 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
1027764 AAAAAATTAA
1027774 TTTA-ATTATT
1 TTTATATTATT
1027784 TTTATATTATT
1 TTTATATTATT
**
1027795 TGAATATTATT
1 TTTATATTATT
1027806 TTTA-A-TATT
1 TTTATATTATT
*
1027815 TATATATT-TT
1 TTTATATTATT
1027825 TT
1 TT
1027827 ATAATTAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
9 7 0.21
10 9 0.26
11 18 0.53
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (11 bp):
TTTATATTATT
Found at i:1027831 original size:20 final size:20
Alignment explanation
Indices: 1027782--1027831 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
1027772 AATTTAATTA
*
1027782 TTTTTATATTATTTGAATAT
1 TTTTTATAATATTTGAATAT
1027802 TATTTT-TAATATTT-ATATAT
1 T-TTTTATAATATTTGA-ATAT
1027822 TTTTTATAAT
1 TTTTTATAAT
1027832 TAAATTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 5 0.19
20 17 0.65
21 4 0.15
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
TTTTTATAATATTTGAATAT
Found at i:1028398 original size:33 final size:34
Alignment explanation
Indices: 1028327--1028405 Score: 110
Period size: 34 Copynumber: 2.4 Consensus size: 34
1028317 AATTAAGATA
*
1028327 AATTTAATATAATTAAATGTATATTTATAATCAT
1 AATTTAATATAATTAAATATATATTTATAATCAT
*
1028361 AATTTAACTA-AATTAAATATGTATTTAT-ATCAT
1 AATTTAA-TATAATTAAATATATATTTATAATCAT
1028394 AATTTAA-ATAAT
1 AATTTAATATAAT
1028406 CCCACATGGT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
31 1 0.02
32 3 0.07
33 12 0.29
34 23 0.56
35 2 0.05
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.46
Consensus pattern (34 bp):
AATTTAATATAATTAAATATATATTTATAATCAT
Found at i:1030170 original size:7 final size:7
Alignment explanation
Indices: 1030158--1030183 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
1030148 ATTTTAGCTT
1030158 AAATTTA
1 AAATTTA
1030165 AAATTTA
1 AAATTTA
1030172 AAATTTA
1 AAATTTA
1030179 AAATT
1 AAATT
1030184 ATTTTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AAATTTA
Found at i:1032453 original size:20 final size:21
Alignment explanation
Indices: 1032396--1032485 Score: 71
Period size: 20 Copynumber: 4.2 Consensus size: 21
1032386 TATTTTTAAA
*
1032396 TATAAATATAAAATATAATTT
1 TATAAATATATAATATAATTT
*
1032417 TTTAAATATATAA-ATAATTT
1 TATAAATATATAATATAATTT
1032437 TATAAAAAGTAATATAATCAT-ATTT
1 TAT--AAA-T-ATATAAT-ATAATTT
*
1032462 TATATATATAT-ATAT-ATTT
1 TATAAATATATAATATAATTT
1032481 ATATA
1 -TATA
1032486 TAAAAAGTCT
Statistics
Matches: 58, Mismatches: 4, Indels: 15
0.75 0.05 0.19
Matches are distributed among these distances:
19 6 0.10
20 15 0.26
21 15 0.26
22 4 0.07
23 3 0.05
24 6 0.10
25 7 0.12
26 2 0.03
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (21 bp):
TATAAATATATAATATAATTT
Found at i:1034577 original size:16 final size:15
Alignment explanation
Indices: 1034554--1034595 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 15
1034544 ATTACGAGAA
1034554 TTAAAAA-TTAAATAT
1 TTAAAAATTTAAA-AT
1034569 TTAATAAATTTAAAAT
1 TTAA-AAATTTAAAAT
1034585 TT-AAAATTTAA
1 TTAAAAATTTAA
1034596 TATTAATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 8 0.32
15 5 0.20
16 7 0.28
17 5 0.20
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TTAAAAATTTAAAAT
Found at i:1036404 original size:51 final size:51
Alignment explanation
Indices: 1036343--1036455 Score: 181
Period size: 51 Copynumber: 2.2 Consensus size: 51
1036333 GGGTGAAGAA
* * *
1036343 GTTGGTGGCTTATATGGCGGAGAGGGAACCTTGGTTGGTGGTGCTGGCGTT
1 GTTGGCGGCTTATATGGCGGAGAGGGAACCTTGGTTGGTGGTACTGGAGTT
* *
1036394 GTTGGCGGCTTATATGGCGGAGTGGGAGCCTTGGTTGGTGGTACTGGAGTT
1 GTTGGCGGCTTATATGGCGGAGAGGGAACCTTGGTTGGTGGTACTGGAGTT
1036445 GTTGGCGGCTT
1 GTTGGCGGCTT
1036456 GGTTGGAGGG
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.11, C:0.12, G:0.45, T:0.32
Consensus pattern (51 bp):
GTTGGCGGCTTATATGGCGGAGAGGGAACCTTGGTTGGTGGTACTGGAGTT
Found at i:1036457 original size:30 final size:30
Alignment explanation
Indices: 1036423--1036485 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
1036413 GAGTGGGAGC
* *
1036423 CTTGGTTGGTGGTACTGGAGTTGTTGGCGG
1 CTTGGTTGGAGGGACTGGAGTTGTTGGCGG
* *
1036453 CTTGGTTGGAGGGGCTGGAGTTGTTGGTGG
1 CTTGGTTGGAGGGACTGGAGTTGTTGGCGG
1036483 CTT
1 CTT
1036486 ATATGGCGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.06, C:0.10, G:0.48, T:0.37
Consensus pattern (30 bp):
CTTGGTTGGAGGGACTGGAGTTGTTGGCGG
Found at i:1036470 original size:81 final size:81
Alignment explanation
Indices: 1036372--1036677 Score: 422
Period size: 81 Copynumber: 3.8 Consensus size: 81
1036362 GAGAGGGAAC
* * * *
1036372 CTTGGTTGGTGGTGCTGGCGTTGTTGGCGGCTTATATGGCGGAGTGGGAGCCTTGGTTGGTGGTA
1 CTTGGTTGGAGGGGCTGGAGTTGTTGGCGGCTTATATGGCGGAGTGGGAGCCTTGGTTGGTGGTG
1036437 CTGGAGTTGTTGGCGG
66 CTGGAGTTGTTGGCGG
*
1036453 CTTGGTTGGAGGGGCTGGAGTTGTTGGTGGCTTATATGGCGGAGTGGGAGCCTTGGTTGGTGGTG
1 CTTGGTTGGAGGGGCTGGAGTTGTTGGCGGCTTATATGGCGGAGTGGGAGCCTTGGTTGGTGGTG
1036518 CTGGAGTTGTTGGCGG
66 CTGGAGTTGTTGGCGG
* * * * *
1036534 CTTGGTTGGAGGGGCTGGAGTTGTTGGTGGCTTGA-ACGGCGGAGTAGGAGCCTTGATCGGTGGT
1 CTTGGTTGGAGGGGCTGGAGTTGTTGGCGGCTT-ATATGGCGGAGTGGGAGCCTTGGTTGGTGGT
* * *
1036598 GCAGGAGTGGTTGGTGG
65 GCTGGAGTTGTTGGCGG
* ** *
1036615 CTTGGTT-G-GGGG-TGAAGGAGTTGGCGGCTTGTATGGCGGAGTGGGAGCCTTGGTTGGTGGTG
1 CTTGGTTGGAGGGGCTGGAGTTGTTGGCGGCTTATATGGCGGAGTGGGAGCCTTGGTTGGTGGTG
1036677 C
66 C
1036678 AGGAACTGGG
Statistics
Matches: 202, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
78 41 0.20
79 4 0.02
80 1 0.00
81 155 0.77
82 1 0.00
ACGTcount: A:0.09, C:0.11, G:0.49, T:0.30
Consensus pattern (81 bp):
CTTGGTTGGAGGGGCTGGAGTTGTTGGCGGCTTATATGGCGGAGTGGGAGCCTTGGTTGGTGGTG
CTGGAGTTGTTGGCGG
Done.