Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 2 of 221
Found at i:431957 original size:16 final size:18
Alignment explanation
Indices: 431913--431958 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
431903 TGAAAATGAT
431913 AATATAAATAACAATAAC
1 AATATAAATAACAATAAC
431931 AATATATAATAAC-ATAA-
1 AATATA-AATAACAATAAC
*
431948 ATTATAAATAA
1 AATATAAATAA
431959 TCTAAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 5 0.19
17 5 0.19
18 10 0.38
19 6 0.23
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (18 bp):
AATATAAATAACAATAAC
Found at i:432013 original size:23 final size:25
Alignment explanation
Indices: 431986--432044 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 25
431976 TCATAAAAAG
431986 TAATAAATAAATAA-ATAATGG-AA
1 TAATAAATAAATAAGATAATGGCAA
432009 TAAT-AATAAA-AATGATAATGGCAA
1 TAATAAATAAATAA-GATAATGGCAA
*
432033 -AATAAAAAAATA
1 TAATAAATAAATA
432045 CAAAAAACAA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
21 2 0.07
22 6 0.20
23 14 0.47
24 7 0.23
25 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.08, T:0.24
Consensus pattern (25 bp):
TAATAAATAAATAAGATAATGGCAA
Found at i:432149 original size:18 final size:18
Alignment explanation
Indices: 432126--432161 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
432116 TTAAAAATTG
432126 AAAATAAATAAAT-AAATA
1 AAAAT-AATAAATGAAATA
432144 AAAATAATAAATGAAATA
1 AAAATAATAAATGAAATA
432162 GTTTAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (18 bp):
AAAATAATAAATGAAATA
Found at i:432173 original size:21 final size:20
Alignment explanation
Indices: 432126--432180 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
432116 TTAAAAATTG
432126 AAAATAAATAAATAAATAAA
1 AAAATAAATAAATAAATAAA
** *
432146 AATAATAAATGAAATAGTTTAA
1 AA-AATAAAT-AAATAAATAAA
*
432168 AAAATAAAAAAAT
1 AAAATAAATAAAT
432181 TGAAGTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 6 0.21
21 13 0.45
22 10 0.34
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.24
Consensus pattern (20 bp):
AAAATAAATAAATAAATAAA
Found at i:433460 original size:17 final size:17
Alignment explanation
Indices: 433438--433475 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
433428 TTGTCTCCAC
433438 TCAAATTCTCCATATTT
1 TCAAATTCTCCATATTT
433455 TCAAATTCTCCATATTT
1 TCAAATTCTCCATATTT
433472 TCAA
1 TCAA
433476 GATCCAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.32, C:0.24, G:0.00, T:0.45
Consensus pattern (17 bp):
TCAAATTCTCCATATTT
Found at i:439827 original size:9 final size:9
Alignment explanation
Indices: 439815--439883 Score: 50
Period size: 9 Copynumber: 7.2 Consensus size: 9
439805 AAATATATTT
439815 ATTTTTTAA
1 ATTTTTTAA
439824 ATTTTTTAA
1 ATTTTTTAA
*
439833 A-TTTTAAA
1 ATTTTTTAA
439841 ATATTTTTAAAA
1 AT-TTTTT--AA
*
439853 TACTTTTTTTA
1 -A-TTTTTTAA
*
439864 ATTTTTTTA
1 ATTTTTTAA
*
439873 ATTTTTAAA
1 ATTTTTTAA
439882 AT
1 AT
439884 AAATTTTTGA
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
8 7 0.14
9 27 0.55
10 5 0.10
11 1 0.02
12 2 0.04
13 6 0.12
14 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (9 bp):
ATTTTTTAA
Found at i:439847 original size:18 final size:17
Alignment explanation
Indices: 439817--439851 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
439807 ATATATTTAT
*
439817 TTTTTAAATTTTTTAAA
1 TTTTAAAATTTTTTAAA
439834 TTTTAAAATATTTTTAAA
1 TTTTAAAAT-TTTTTAAA
439852 ATACTTTTTT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTTAAAATTTTTTAAA
Found at i:439899 original size:31 final size:30
Alignment explanation
Indices: 439843--439904 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
439833 ATTTTAAAAT
** * *
439843 ATTTTTAAAATACTTTTTTTAATTTTTTTA
1 ATTTTTAAAATAAATTTTTGAATTTTATTA
439873 ATTTTTAAAATAAATTTTTGATATTTTATTA
1 ATTTTTAAAATAAATTTTTGA-ATTTTATTA
439904 A
1 A
439905 AAATGGGCCG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 18 0.67
31 9 0.33
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (30 bp):
ATTTTTAAAATAAATTTTTGAATTTTATTA
Found at i:442786 original size:55 final size:56
Alignment explanation
Indices: 442678--442790 Score: 167
Period size: 55 Copynumber: 2.0 Consensus size: 56
442668 TATTGTTTGG
*
442678 TAAGAAAGTCGATTGATGAATGAGAAGAATTTATGAGAAAATGGATATTTATAGTTT
1 TAAGAAAGTCGATTGATGAATGAGAAGAATTCAT-AGAAAATGGATATTTATAGTTT
* *
442735 TAAGAAGGT-GATTGATGAATGAGAAGAGTCTCAT-GAAAATGGATATTTATAGTTT
1 TAAGAAAGTCGATTGATGAATGAGAAGAAT-TCATAGAAAATGGATATTTATAGTTT
442790 T
1 T
442791 GCAGATTAAG
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
55 22 0.42
56 19 0.37
57 11 0.21
ACGTcount: A:0.40, C:0.03, G:0.24, T:0.34
Consensus pattern (56 bp):
TAAGAAAGTCGATTGATGAATGAGAAGAATTCATAGAAAATGGATATTTATAGTTT
Found at i:447460 original size:29 final size:26
Alignment explanation
Indices: 447416--447470 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 26
447406 TTTGATTCTT
447416 TTTAATATAGGGACTAA-ATTGATCCA
1 TTTAATATAGGGACTAACA-TGATCCA
447442 TTTAATAATAGAGGTACTAACATGATCCA
1 TTTAAT-ATAG-GG-ACTAACATGATCCA
447471 GCCCCTATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
26 6 0.24
27 4 0.16
28 2 0.08
29 12 0.48
30 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (26 bp):
TTTAATATAGGGACTAACATGATCCA
Found at i:456576 original size:93 final size:93
Alignment explanation
Indices: 456413--456602 Score: 353
Period size: 93 Copynumber: 2.0 Consensus size: 93
456403 TATTTGTTCA
* *
456413 GTAAAGGAGACAAAATGCAATTTAAATCTTAGTATATTTTAATATAAAGGCCTCCATGATGCTTT
1 GTAAAGGAGACAAAATACAAATTAAATCTTAGTATATTTTAATATAAAGGCCTCCATGATGCTTT
456478 CACCACCGAAGAATAATGAGAAGACACT
66 CACCACCGAAGAATAATGAGAAGACACT
456506 GTAAAGGAGACAAAATACAAATTAAATCTTAGTATATTTTAATATAAAGGCCTCCATGATGCTTT
1 GTAAAGGAGACAAAATACAAATTAAATCTTAGTATATTTTAATATAAAGGCCTCCATGATGCTTT
*
456571 TACCACCGAAGAATAATGAGAAGACACT
66 CACCACCGAAGAATAATGAGAAGACACT
456599 GTAA
1 GTAA
456603 CACCATAAAT
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 94 1.00
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (93 bp):
GTAAAGGAGACAAAATACAAATTAAATCTTAGTATATTTTAATATAAAGGCCTCCATGATGCTTT
CACCACCGAAGAATAATGAGAAGACACT
Found at i:472350 original size:22 final size:24
Alignment explanation
Indices: 472298--472350 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
472288 TAAAATATTA
472298 AAATTTAATATTTTGAATTAATTC
1 AAATTTAATATTTTGAATTAATTC
* *
472322 AAATTTATTATTTT-AA-TAATTT
1 AAATTTAATATTTTGAATTAATTC
472344 AAATTTA
1 AAATTTA
472351 GGTTTGGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 12 0.44
23 2 0.07
24 13 0.48
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
AAATTTAATATTTTGAATTAATTC
Found at i:476464 original size:31 final size:31
Alignment explanation
Indices: 476423--476493 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
476413 TAAATATATC
* * * *
476423 ATTTGATATTTGAGTTTAGTTTTAATGTTTA
1 ATTTGATATTTGAATTTAGCTTCAATGTTCA
*
476454 ATTTGGTATTTGAATTTAGCTTCAATGTTCA
1 ATTTGATATTTGAATTTAGCTTCAATGTTCA
*
476485 ATTTTATAT
1 ATTTGATAT
476494 AAAATAGTAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.27, C:0.04, G:0.14, T:0.55
Consensus pattern (31 bp):
ATTTGATATTTGAATTTAGCTTCAATGTTCA
Found at i:484547 original size:14 final size:16
Alignment explanation
Indices: 484523--484558 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
484513 TTTTAAAAAA
484523 TTAATATATAT-ATTT
1 TTAATATATATAATTT
484538 TTAA-ATATATAATTT
1 TTAATATATATAATTT
484553 TTAATA
1 TTAATA
484559 ATTTACTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 6 0.32
15 12 0.63
16 1 0.05
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTAATATATATAATTT
Found at i:496240 original size:74 final size:74
Alignment explanation
Indices: 496162--496311 Score: 282
Period size: 74 Copynumber: 2.0 Consensus size: 74
496152 TTATATGGCT
*
496162 TTCTCTTTTTCCCTCTTTTCTACAGTTCATTTTTTTAATGAAAATAACTTTGGATGTCACGAATT
1 TTCTCTTTTTCCCTCTCTTCTACAGTTCATTTTTTTAATGAAAATAACTTTGGATGTCACGAATT
496227 TGTGAATCA
66 TGTGAATCA
*
496236 TTCTCTTTTTTCCTCTCTTCTACAGTTCATTTTTTTAATGAAAATAACTTTGGATGTCACGAATT
1 TTCTCTTTTTCCCTCTCTTCTACAGTTCATTTTTTTAATGAAAATAACTTTGGATGTCACGAATT
496301 TGTGAATCA
66 TGTGAATCA
496310 TT
1 TT
496312 GTACCAATCG
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.24, C:0.17, G:0.11, T:0.48
Consensus pattern (74 bp):
TTCTCTTTTTCCCTCTCTTCTACAGTTCATTTTTTTAATGAAAATAACTTTGGATGTCACGAATT
TGTGAATCA
Found at i:496999 original size:184 final size:184
Alignment explanation
Indices: 496690--497062 Score: 746
Period size: 184 Copynumber: 2.0 Consensus size: 184
496680 CTTCTATTGT
496690 TTCTTGTTTTTCCAAGTTTTGTTTGACTTTGTTTCTCCTTGTGTTGTTCCATGGAAGCACCAATG
1 TTCTTGTTTTTCCAAGTTTTGTTTGACTTTGTTTCTCCTTGTGTTGTTCCATGGAAGCACCAATG
496755 CTAAGCTTTCAACCAATTTTTACTCAAAATCATGCCCCAACTTGTTACCGATTGTGAAATTCATT
66 CTAAGCTTTCAACCAATTTTTACTCAAAATCATGCCCCAACTTGTTACCGATTGTGAAATTCATT
496820 GTTCACTCTGCTATAATGAAAGAGGCTCGAATGGGTGCTTCTTTGCTTCGCTTG
131 GTTCACTCTGCTATAATGAAAGAGGCTCGAATGGGTGCTTCTTTGCTTCGCTTG
496874 TTCTTGTTTTTCCAAGTTTTGTTTGACTTTGTTTCTCCTTGTGTTGTTCCATGGAAGCACCAATG
1 TTCTTGTTTTTCCAAGTTTTGTTTGACTTTGTTTCTCCTTGTGTTGTTCCATGGAAGCACCAATG
496939 CTAAGCTTTCAACCAATTTTTACTCAAAATCATGCCCCAACTTGTTACCGATTGTGAAATTCATT
66 CTAAGCTTTCAACCAATTTTTACTCAAAATCATGCCCCAACTTGTTACCGATTGTGAAATTCATT
497004 GTTCACTCTGCTATAATGAAAGAGGCTCGAATGGGTGCTTCTTTGCTTCGCTTG
131 GTTCACTCTGCTATAATGAAAGAGGCTCGAATGGGTGCTTCTTTGCTTCGCTTG
497058 TTCTT
1 TTCTT
497063 TCATGACTGC
Statistics
Matches: 189, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
184 189 1.00
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.41
Consensus pattern (184 bp):
TTCTTGTTTTTCCAAGTTTTGTTTGACTTTGTTTCTCCTTGTGTTGTTCCATGGAAGCACCAATG
CTAAGCTTTCAACCAATTTTTACTCAAAATCATGCCCCAACTTGTTACCGATTGTGAAATTCATT
GTTCACTCTGCTATAATGAAAGAGGCTCGAATGGGTGCTTCTTTGCTTCGCTTG
Found at i:503583 original size:17 final size:17
Alignment explanation
Indices: 503561--503602 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
503551 GGACATATAT
*
503561 TTTATATTTATATTGTA
1 TTTATAATTATATTGTA
503578 TTTATAATTATATTGTA
1 TTTATAATTATATTGTA
*
503595 TTTGTAAT
1 TTTATAAT
503603 CGTAATTCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (17 bp):
TTTATAATTATATTGTA
Found at i:507576 original size:24 final size:23
Alignment explanation
Indices: 507523--507576 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 23
507513 TATAGATATC
* * *
507523 TTTAATATTTTTTAATGTTTACA
1 TTTAATATTATTTAATATTTAAA
*
507546 TTATAATATTATTTATTATTATAAA
1 TT-TAATATTATTTAATATT-TAAA
507571 TTTAAT
1 TTTAAT
507577 TTTTGTATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 2 0.08
24 18 0.72
25 5 0.20
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (23 bp):
TTTAATATTATTTAATATTTAAA
Found at i:508591 original size:15 final size:16
Alignment explanation
Indices: 508560--508600 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
508550 TAATTTTTAA
508560 AATTTTTATATTATTT
1 AATTTTTATATTATTT
508576 AATTTTT-T-TTATTTT
1 AATTTTTATATTA-TTT
508591 AATTATTTAT
1 AATT-TTTAT
508601 GTTTTTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 3 0.14
15 8 0.36
16 10 0.45
17 1 0.05
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
AATTTTTATATTATTT
Found at i:511597 original size:16 final size:17
Alignment explanation
Indices: 511566--511599 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
511556 CATTGTATTT
*
511566 AATTTCTATAATTTTAA
1 AATTTATATAATTTTAA
511583 AATTTATAT-ATTTTAA
1 AATTTATATAATTTTAA
511599 A
1 A
511600 CTAAATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
AATTTATATAATTTTAA
Found at i:517287 original size:51 final size:51
Alignment explanation
Indices: 517205--517420 Score: 344
Period size: 51 Copynumber: 4.3 Consensus size: 51
517195 ACTTCTGATC
*
517205 AGTGATAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATCAGTGACA
* *
517256 AGTGGCAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTAATCAGTGACA
1 AGTGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATCAGTGACA
* *
517307 AATGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATTTGATCAGTGACA
1 AGTGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATCAGTGACA
* * *
517358 AGTGGCAAGTGATAAGTGGTAGCTT-AGCTATACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATCAGTGACA
*
517408 AGTGATAAGTGAT
1 AGTGACAAGTGAT
517421 CATACGTAAG
Statistics
Matches: 151, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 34 0.23
51 117 0.77
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATCAGTGACA
Found at i:527739 original size:17 final size:17
Alignment explanation
Indices: 527707--527768 Score: 70
Period size: 17 Copynumber: 3.4 Consensus size: 17
527697 TTAAAGCTAT
527707 TTTTTTATATTTTATTTA
1 TTTTTTA-ATTTTATTTA
* *
527725 TTTTTTAATTGTATTTG
1 TTTTTTAATTTTATTTA
527742 TTGTTGTCTAATTTTATTTA
1 TT-TT-T-TAATTTTATTTA
527762 TTTTTTA
1 TTTTTTA
527769 TATATTCTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
17 12 0.32
18 10 0.27
19 3 0.08
20 12 0.32
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.73
Consensus pattern (17 bp):
TTTTTTAATTTTATTTA
Found at i:528688 original size:25 final size:26
Alignment explanation
Indices: 528635--528688 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
528625 CATACTAAGG
528635 AAGATTTTCTTAGCCTGATTTTCTTT
1 AAGATTTTCTTAGCCTGATTTTCTTT
*
528661 AAGATTTTCTTGGCCTGA-TTTCTTT
1 AAGATTTTCTTAGCCTGATTTTCTTT
528686 AAG
1 AAG
528689 TATTCTACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 10 0.37
26 17 0.63
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.50
Consensus pattern (26 bp):
AAGATTTTCTTAGCCTGATTTTCTTT
Found at i:529205 original size:55 final size:55
Alignment explanation
Indices: 529121--529230 Score: 204
Period size: 55 Copynumber: 2.0 Consensus size: 55
529111 AGATAACTAG
529121 TATATTTTTCTCTTTATTCCTTGTTTTGTGGATTA-TATAACGAATATTGATGTAC
1 TATATTTTTCTCTTTATTCCTTGTTTTGTGGATTACT-TAACGAATATTGATGTAC
529176 TATATTTTTCTCTTTATTCCTTGTTTTGTGGATTACTTAACGAATATTGATGTAC
1 TATATTTTTCTCTTTATTCCTTGTTTTGTGGATTACTTAACGAATATTGATGTAC
529231 GATAATGTTT
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
55 53 0.98
56 1 0.02
ACGTcount: A:0.23, C:0.12, G:0.13, T:0.53
Consensus pattern (55 bp):
TATATTTTTCTCTTTATTCCTTGTTTTGTGGATTACTTAACGAATATTGATGTAC
Found at i:532316 original size:21 final size:21
Alignment explanation
Indices: 532290--532330 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
532280 AGACGAGCAA
* *
532290 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
532311 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
532331 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:541613 original size:25 final size:27
Alignment explanation
Indices: 541555--541613 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 27
541545 AAAATAAAGT
541555 CCCAAAATTACAACAAACAAAACCAGG
1 CCCAAAATTACAACAAACAAAACCAGG
* **
541582 CCTAAAATTA-AACAAACCCAA-CAGG
1 CCCAAAATTACAACAAACAAAACCAGG
541607 CCCAAAA
1 CCCAAAA
541614 ATTTTAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 10 0.36
26 9 0.32
27 9 0.32
ACGTcount: A:0.54, C:0.31, G:0.07, T:0.08
Consensus pattern (27 bp):
CCCAAAATTACAACAAACAAAACCAGG
Found at i:541614 original size:26 final size:27
Alignment explanation
Indices: 541558--541616 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
541548 ATAAAGTCCC
*
541558 AAAATTACAACAAACAAAACCAGGCCT
1 AAAATTACAACAAACAAAACCAGGCCA
**
541585 AAAATTA-AACAAACCCAA-CAGGCCCA
1 AAAATTACAACAAACAAAACCAGG-CCA
541611 AAAATT
1 AAAATT
541617 TTAAAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 4 0.14
26 17 0.61
27 7 0.25
ACGTcount: A:0.56, C:0.25, G:0.07, T:0.12
Consensus pattern (27 bp):
AAAATTACAACAAACAAAACCAGGCCA
Found at i:542913 original size:3 final size:3
Alignment explanation
Indices: 542905--542952 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
542895 ACTTTTTGCC
542905 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
542953 ATTATTATTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:542957 original size:3 final size:3
Alignment explanation
Indices: 542951--543097 Score: 177
Period size: 3 Copynumber: 49.0 Consensus size: 3
542941 CTTCTTCTTC
* * *
542951 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTG TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * ** * * * *
542999 TTG TTG TGG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTG TTG TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
**
543047 TGG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
543095 TTA
1 TTA
543098 CTACTGGCAC
Statistics
Matches: 136, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 136 1.00
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:543025 original size:42 final size:42
Alignment explanation
Indices: 542966--543078 Score: 217
Period size: 42 Copynumber: 2.7 Consensus size: 42
542956 ATTATTATTA
*
542966 TTATTATTATTATTATTATTATTATTGTTGTTGTTGTTGTGG
1 TTATTATTATTATTATTATTATTATTATTGTTGTTGTTGTGG
543008 TTATTATTATTATTATTATTATTATTATTGTTGTTGTTGTGG
1 TTATTATTATTATTATTATTATTATTATTGTTGTTGTTGTGG
543050 TTATTATTATTATTATTATTATTATTATT
1 TTATTATTATTATTATTATTATTATTATT
543079 ATTATTATTA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.23, C:0.00, G:0.12, T:0.65
Consensus pattern (42 bp):
TTATTATTATTATTATTATTATTATTATTGTTGTTGTTGTGG
Found at i:559159 original size:25 final size:27
Alignment explanation
Indices: 559101--559159 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 27
559091 AAAATAAAGT
559101 CCCAAAATTACAACAAACAAAACCAGG
1 CCCAAAATTACAACAAACAAAACCAGG
* **
559128 CCTAAAATTA-AACAAACCCAA-CAGG
1 CCCAAAATTACAACAAACAAAACCAGG
559153 CCCAAAA
1 CCCAAAA
559160 ATTTTAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 10 0.36
26 9 0.32
27 9 0.32
ACGTcount: A:0.54, C:0.31, G:0.07, T:0.08
Consensus pattern (27 bp):
CCCAAAATTACAACAAACAAAACCAGG
Found at i:559160 original size:26 final size:27
Alignment explanation
Indices: 559104--559162 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
559094 ATAAAGTCCC
*
559104 AAAATTACAACAAACAAAACCAGGCCT
1 AAAATTACAACAAACAAAACCAGGCCA
**
559131 AAAATTA-AACAAACCCAA-CAGGCCCA
1 AAAATTACAACAAACAAAACCAGG-CCA
559157 AAAATT
1 AAAATT
559163 TTAAAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 4 0.14
26 17 0.61
27 7 0.25
ACGTcount: A:0.56, C:0.25, G:0.07, T:0.12
Consensus pattern (27 bp):
AAAATTACAACAAACAAAACCAGGCCA
Found at i:560459 original size:3 final size:3
Alignment explanation
Indices: 560451--560498 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
560441 ACTTTTTGCC
560451 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
560499 ATTATTATTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:560503 original size:3 final size:3
Alignment explanation
Indices: 560497--560634 Score: 168
Period size: 3 Copynumber: 46.0 Consensus size: 3
560487 CTTCTTCTTC
* * *
560497 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTG TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * ** * * *
560545 TTG TTG TGG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTG TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
**
560593 TGG TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
560635 CTACTGGCAC
Statistics
Matches: 127, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 127 1.00
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:576393 original size:170 final size:172
Alignment explanation
Indices: 576072--576419 Score: 522
Period size: 170 Copynumber: 2.0 Consensus size: 172
576062 TTTAATTTTA
*
576072 GCCTAAAAAAAAAAATCTTGACTTGGTCCCTTTCGGGCAAATTACACATAAAAGCATTATTTTTT
1 GCCTCAAAAAAAAAATCTTGACTTGGTCCCTTTCGGGCAAATTACACATAAAAGCATTATTTTTT
* * *
576137 TAAAATTTACGGAAATAAGCTCGGTATTTTATTATTTACTGGAATGAGTCATTTTCCCCAAAATC
66 TAAAATTTACCGAAATAAGCCCGGTATTTTATTATTTACCGGAATGAGTCATTTTCCCCAAAATC
* * * *
576202 GCGTCTACGTTAGCGCGATGTCAGGGGACGTCAGCAAATCGC
131 GCGTCTACATCAGCGCGATGTCAAGGGACGTCAGAAAATCGC
*
576244 GCCTCAAAAAAAAAATCTTGACTTGGTCCCTTTCGGGCAAATTACACATAAAAGCCTT-TTTTTT
1 GCCTCAAAAAAAAAATCTTGACTTGGTCCCTTTCGGGCAAATTACACATAAAAGCATTATTTTTT
* * * *
576308 TTAAATTTACCGAAATAGGCCCGGTA-TTTATTATTTACCGGAATG-GGCTATTTTTCCCAAAAT
66 TAAAATTTACCGAAATAAGCCCGGTATTTTATTATTTACCGGAATGAGTC-ATTTTCCCCAAAAT
* *
576371 TGCTTCTACATCAGCGCGATGTCAAGGGACGTCAGAAAATCGC
130 CGCGTCTACATCAGCGCGATGTCAAGGGACGTCAGAAAATCGC
576414 GTCCTC
1 G-CCTC
576420 GTAGGCACAA
Statistics
Matches: 159, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
169 2 0.01
170 69 0.43
171 32 0.20
172 56 0.35
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (172 bp):
GCCTCAAAAAAAAAATCTTGACTTGGTCCCTTTCGGGCAAATTACACATAAAAGCATTATTTTTT
TAAAATTTACCGAAATAAGCCCGGTATTTTATTATTTACCGGAATGAGTCATTTTCCCCAAAATC
GCGTCTACATCAGCGCGATGTCAAGGGACGTCAGAAAATCGC
Found at i:577976 original size:15 final size:15
Alignment explanation
Indices: 577951--577985 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
577941 GACTCTATTT
*
577951 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
577965 TAATTAATATTAAGA
1 TAATTAATATTAAGA
577980 TAATTA
1 TAATTA
577986 TTAAAGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:580426 original size:30 final size:30
Alignment explanation
Indices: 580380--580470 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 30
580370 TTTTATTATG
*
580380 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
580411 CCAATATTTGATACCCATATCTTTGAC-TT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
580440 --ATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
580468 CCA
1 CCA
580471 TAAATATGGA
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
27 23 0.43
28 2 0.04
29 2 0.04
30 20 0.37
31 7 0.13
ACGTcount: A:0.26, C:0.24, G:0.07, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:585114 original size:27 final size:29
Alignment explanation
Indices: 585042--585129 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 29
585032 TTTATTATGC
* *
585042 CAATATCTCGATACCCATATATTTGACTTT
1 CAATAT-TTGATACCCATATCTTTGACTTT
585072 CCAATATTTGATACCCATATCTTTGAC-TT
1 -CAATATTTGATACCCATATCTTTGACTTT
* *
585101 -ATTATTTGATACCCATATCTTTGATTTT
1 CAATATTTGATACCCATATCTTTGACTTT
585129 C
1 C
585130 CATAAATATG
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
27 23 0.45
28 2 0.04
29 2 0.04
30 18 0.35
31 6 0.12
ACGTcount: A:0.27, C:0.22, G:0.07, T:0.44
Consensus pattern (29 bp):
CAATATTTGATACCCATATCTTTGACTTT
Found at i:589113 original size:18 final size:18
Alignment explanation
Indices: 589090--589149 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
589080 AGATGTTCGA
589090 CTTGGATTTTTCCGAAAC
1 CTTGGATTTTTCCGAAAC
* * *
589108 CTTGGA-CTTCCCTGAGAC
1 CTTGGATTTTTCC-GAAAC
* * *
589126 ATTGGATTTCTCTGAAAC
1 CTTGGATTTTTCCGAAAC
589144 CTTGGA
1 CTTGGA
589150 GATCCTCAGG
Statistics
Matches: 30, Mismatches: 10, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
17 4 0.13
18 24 0.80
19 2 0.07
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (18 bp):
CTTGGATTTTTCCGAAAC
Found at i:594677 original size:36 final size:36
Alignment explanation
Indices: 594625--594711 Score: 156
Period size: 36 Copynumber: 2.4 Consensus size: 36
594615 CCCAACTACT
*
594625 GTATACGTGAACAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
*
594661 GTATACGTAAATAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
594697 GTATACGTGAATAGT
1 GTATACGTGAATAGT
594712 GCCGTAAACG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (36 bp):
GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
Found at i:594712 original size:18 final size:18
Alignment explanation
Indices: 594625--594717 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
594615 CCCAACTACT
* * *
594625 GTATACGTGAACAGTACT
1 GTATACGTGAATAGTGCC
594643 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTGCC
* * *
594661 GTATACGTAAATAGTACT
1 GTATACGTGAATAGTGCC
594679 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTGCC
594697 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTGCC
594715 GTA
1 GTA
594718 AACGGTCGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTGCC
Found at i:596612 original size:54 final size:53
Alignment explanation
Indices: 596499--596664 Score: 278
Period size: 54 Copynumber: 3.1 Consensus size: 53
596489 GATACCAAGT
*
596499 ATATTTTTCTCTTTATTCCTTGTTTTGTGGATTATATAACGAATATTGATGTACT
1 ATATTTTTCTCTTTATTCCTTGTTTT-TGGATTAT-TAACGAATATTGATGTACG
596554 ATATTTTTCTCTTTATTCCTTGTTTTTGGATTACTTAACGAATATTGATGTACG
1 ATATTTTTCTCTTTATTCCTTGTTTTTGGATTA-TTAACGAATATTGATGTACG
*
596608 ATATTTTTCTCTTTATTCCTTATTTTTGGATTATTTAACGAATATTGATGTACG
1 ATATTTTTCTCTTTATTCCTTGTTTTTGGATTA-TTAACGAATATTGATGTACG
596662 ATA
1 ATA
596665 ATACTTTGGT
Statistics
Matches: 107, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
54 80 0.75
55 27 0.25
ACGTcount: A:0.24, C:0.11, G:0.12, T:0.52
Consensus pattern (53 bp):
ATATTTTTCTCTTTATTCCTTGTTTTTGGATTATTAACGAATATTGATGTACG
Found at i:597508 original size:22 final size:22
Alignment explanation
Indices: 597483--597551 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
597473 TTTTTTGTAA
597483 TTCAATTGTTAAAGTATGTAGT
1 TTCAATTGTTAAAGTATGTAGT
*** * *
597505 TTC-ATACAT-AATTATTGTTGT
1 TTCAATTGTTAAAGTA-TGTAGT
597526 TTCAATTGTTAAAGTATGTAGT
1 TTCAATTGTTAAAGTATGTAGT
597548 TTCA
1 TTCA
597552 TACATAATTA
Statistics
Matches: 34, Mismatches: 10, Indels: 6
0.68 0.20 0.12
Matches are distributed among these distances:
20 4 0.12
21 11 0.32
22 15 0.44
23 4 0.12
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.48
Consensus pattern (22 bp):
TTCAATTGTTAAAGTATGTAGT
Found at i:597527 original size:21 final size:21
Alignment explanation
Indices: 597503--597569 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
597493 AAAGTATGTA
597503 GTTTCATACATAATTATTGTT
1 GTTTCATACATAATTATTGTT
*** * *
597524 GTTTCAATTGTTAAAGTA-TGTA
1 GTTTC-ATACAT-AATTATTGTT
597546 GTTTCATACATAATTATTGTT
1 GTTTCATACATAATTATTGTT
597567 GTT
1 GTT
597570 AATTTAGAAT
Statistics
Matches: 33, Mismatches: 10, Indels: 6
0.67 0.20 0.12
Matches are distributed among these distances:
20 4 0.12
21 14 0.42
22 11 0.33
23 4 0.12
ACGTcount: A:0.28, C:0.07, G:0.13, T:0.51
Consensus pattern (21 bp):
GTTTCATACATAATTATTGTT
Found at i:597530 original size:43 final size:43
Alignment explanation
Indices: 597483--597569 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
597473 TTTTTTGTAA
597483 TTCAATTGTTAAAGTATGTAGTTTCATACATAATTATTGTTGT
1 TTCAATTGTTAAAGTATGTAGTTTCATACATAATTATTGTTGT
597526 TTCAATTGTTAAAGTATGTAGTTTCATACATAATTATTGTTGT
1 TTCAATTGTTAAAGTATGTAGTTTCATACATAATTATTGTTGT
597569 T
1 T
597570 AATTTAGAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.49
Consensus pattern (43 bp):
TTCAATTGTTAAAGTATGTAGTTTCATACATAATTATTGTTGT
Found at i:600428 original size:20 final size:20
Alignment explanation
Indices: 600403--600452 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
600393 TGGCTTAAAA
600403 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
600423 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
600440 GTGGTAGTGGATT
1 TTGGTAGTGGATT
600453 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:605067 original size:20 final size:20
Alignment explanation
Indices: 605042--605091 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
605032 TGGCTTAAAA
605042 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
605062 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
605079 GTGGTAGTGGATT
1 TTGGTAGTGGATT
605092 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:606392 original size:171 final size:172
Alignment explanation
Indices: 606104--606446 Score: 532
Period size: 171 Copynumber: 2.0 Consensus size: 172
606094 TTAGCCTAAA
606104 AAAAAAAAAATCTTGACTTGGTCCCTTTCGGGCAAATTACACATAAAAGCATTATTTTTTTAAAA
1 AAAAAAAAAATCTTGACTTGGTCCCTTTCGGGCAAATTACACATAAAAGCATTATTTTTTTAAAA
* *
606169 TTTACGGAAATAAGCCCGGTATTTTATTATTTACTGGAATGAGTCATTTTCCCCAAAATCGCGTC
66 TTTACCGAAATAAGCCCGGTATTTTATTATTTACCGGAATGAGTCATTTT-CCCAAAATCGCGTC
* * *
606234 TACGTTAGCGCGATGTCAGGGGA-GTCAGCAAATCGCG-CCTC
130 TACATTAGCGCGATGTCAAGGGACGTCAGAAAATCGCGTCCTC
* *
606275 AAAAAAAAAATCTTGACTTGGTCCCTTTCGGGCAAATTACACATAAAAGCCTTATTTTTTTTAAA
1 AAAAAAAAAATCTTGACTTGGTCCCTTTCGGGCAAATTACACATAAAAGCATTATTTTTTTAAAA
* * * *
606340 TTTACCGAAATAGGCCCGGTA-TTTATTATTTACCGGAATG-GGCTATTTTTCCCAAAATTGCTT
66 TTTACCGAAATAAGCCCGGTATTTTATTATTTACCGGAATGAGTC-A-TTTTCCCAAAATCGCGT
606403 CTACATTAGCGCGATGTCAAGGGACGTCAGAAAATCGCGTCCTC
129 CTACATTAGCGCGATGTCAAGGGACGTCAGAAAATCGCGTCCTC
606447 GTAGGCACAA
Statistics
Matches: 157, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
169 2 0.01
170 52 0.33
171 99 0.63
172 4 0.03
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (172 bp):
AAAAAAAAAATCTTGACTTGGTCCCTTTCGGGCAAATTACACATAAAAGCATTATTTTTTTAAAA
TTTACCGAAATAAGCCCGGTATTTTATTATTTACCGGAATGAGTCATTTTCCCAAAATCGCGTCT
ACATTAGCGCGATGTCAAGGGACGTCAGAAAATCGCGTCCTC
Found at i:608006 original size:15 final size:15
Alignment explanation
Indices: 607981--608015 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
607971 GACTCTATTT
*
607981 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
607995 TAATTAATATTAAGA
1 TAATTAATATTAAGA
608010 TAATTA
1 TAATTA
608016 TTAAAGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:610504 original size:27 final size:27
Alignment explanation
Indices: 610470--610647 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
610460 TAAATTGTAC
610470 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
610497 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
610523 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* * *
610551 GGCACTAAGTGTGCGAGTCTAACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
610579 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
610606 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
610633 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
610648 GGCTCAATAT
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 104 0.83
28 21 0.17
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:610587 original size:82 final size:81
Alignment explanation
Indices: 610471--610626 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
610461 AAATTGTACA
* * * *
610471 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATCTAACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
610535 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
610552 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TCTAACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
610617 TGCGAGTTGA
65 TGCGAATTGA
610627 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 15 0.23
82 49 0.75
83 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATCTAACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:610638 original size:82 final size:81
Alignment explanation
Indices: 610467--610647 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
610457 GAGTAAATTG
* * * *
610467 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATCTAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
610532 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
610548 TGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TCTAACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
610612 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
610630 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
610648 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 18 0.22
82 64 0.78
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATCTAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:610658 original size:27 final size:27
Alignment explanation
Indices: 610552--610658 Score: 81
Period size: 27 Copynumber: 3.9 Consensus size: 27
610542 TGACCATGCG
*
610552 GCACTAAGTGTGCGAG-TCTAACTATGTA
1 GCACTAAGTGTGCGAGCTC-AA-TATATA
** * * **
610580 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
610607 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
610634 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
610659 CATTCGTGAA
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
27 49 0.74
28 16 0.24
29 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:616751 original size:21 final size:21
Alignment explanation
Indices: 616719--616759 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
616709 GAACATTTGG
616719 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
616740 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
616760 CTTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:622223 original size:18 final size:18
Alignment explanation
Indices: 622200--622259 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
622190 AGATGTTCGA
622200 CTTGGATTTTTCCGAAAC
1 CTTGGATTTTTCCGAAAC
** * *
622218 CTTGGA-CCTCCCTGAGAC
1 CTTGGATTTTTCC-GAAAC
* *
622236 CTTGGATTTCTCTGAAAC
1 CTTGGATTTTTCCGAAAC
622254 CTTGGA
1 CTTGGA
622260 GATCCTCAGG
Statistics
Matches: 30, Mismatches: 10, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
17 3 0.10
18 26 0.87
19 1 0.03
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (18 bp):
CTTGGATTTTTCCGAAAC
Found at i:624526 original size:54 final size:54
Alignment explanation
Indices: 624364--624529 Score: 296
Period size: 54 Copynumber: 3.1 Consensus size: 54
624354 GATACCAAGT
*
624364 ATATTTTTCTCTTTATTCCTTGTTTTGTGGATTATATAACGAATATTGATGTACT
1 ATATTTTTCTCTTTATTCCTTGTTTT-TGGATTATATAACGAATATTGATGTACG
624419 ATATTTTTCTCTTTATTCCTTGTTTTTGGATTATATAACGAATATTGATGTACG
1 ATATTTTTCTCTTTATTCCTTGTTTTTGGATTATATAACGAATATTGATGTACG
* *
624473 ATATTTTTCTCTTTATTCCTTATTTTTGGATTATTTAACGAATATTGATGTACG
1 ATATTTTTCTCTTTATTCCTTGTTTTTGGATTATATAACGAATATTGATGTACG
624527 ATA
1 ATA
624530 ATACTTTGGT
Statistics
Matches: 108, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
54 82 0.76
55 26 0.24
ACGTcount: A:0.25, C:0.11, G:0.12, T:0.52
Consensus pattern (54 bp):
ATATTTTTCTCTTTATTCCTTGTTTTTGGATTATATAACGAATATTGATGTACG
Found at i:625373 original size:22 final size:22
Alignment explanation
Indices: 625348--625416 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
625338 TTTTTTGTAA
625348 TTCAATTGTTAAAGTATGTAGT
1 TTCAATTGTTAAAGTATGTAGT
*** * *
625370 TTC-ATACAT-AATTATTGTTGT
1 TTCAATTGTTAAAGTA-TGTAGT
625391 TTCAATTGTTAAAGTATGTAGT
1 TTCAATTGTTAAAGTATGTAGT
625413 TTCA
1 TTCA
625417 TACATAATTA
Statistics
Matches: 34, Mismatches: 10, Indels: 6
0.68 0.20 0.12
Matches are distributed among these distances:
20 4 0.12
21 11 0.32
22 15 0.44
23 4 0.12
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.48
Consensus pattern (22 bp):
TTCAATTGTTAAAGTATGTAGT
Found at i:625392 original size:21 final size:21
Alignment explanation
Indices: 625368--625434 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
625358 AAAGTATGTA
625368 GTTTCATACATAATTATTGTT
1 GTTTCATACATAATTATTGTT
*** * *
625389 GTTTCAATTGTTAAAGTA-TGTA
1 GTTTC-ATACAT-AATTATTGTT
625411 GTTTCATACATAATTATTGTT
1 GTTTCATACATAATTATTGTT
625432 GTT
1 GTT
625435 AATTTAGAAT
Statistics
Matches: 33, Mismatches: 10, Indels: 6
0.67 0.20 0.12
Matches are distributed among these distances:
20 4 0.12
21 14 0.42
22 11 0.33
23 4 0.12
ACGTcount: A:0.28, C:0.07, G:0.13, T:0.51
Consensus pattern (21 bp):
GTTTCATACATAATTATTGTT
Found at i:625395 original size:43 final size:43
Alignment explanation
Indices: 625348--625434 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
625338 TTTTTTGTAA
625348 TTCAATTGTTAAAGTATGTAGTTTCATACATAATTATTGTTGT
1 TTCAATTGTTAAAGTATGTAGTTTCATACATAATTATTGTTGT
625391 TTCAATTGTTAAAGTATGTAGTTTCATACATAATTATTGTTGT
1 TTCAATTGTTAAAGTATGTAGTTTCATACATAATTATTGTTGT
625434 T
1 T
625435 AATTTAGAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.49
Consensus pattern (43 bp):
TTCAATTGTTAAAGTATGTAGTTTCATACATAATTATTGTTGT
Found at i:629203 original size:17 final size:17
Alignment explanation
Indices: 629181--629214 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
629171 ATCCACTAAT
*
629181 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
629198 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
629215 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:633843 original size:17 final size:17
Alignment explanation
Indices: 633821--633854 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
633811 ATCCACTAAT
*
633821 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
633838 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
633855 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:638651 original size:18 final size:18
Alignment explanation
Indices: 638628--638687 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
638618 AGATGTTCGA
638628 CTTGGATTTTTCCGAAAC
1 CTTGGATTTTTCCGAAAC
** * *
638646 CTTGGA-CCTCCCTGAGAC
1 CTTGGATTTTTCC-GAAAC
* *
638664 CTTGGATTTCTCTGAAAC
1 CTTGGATTTTTCCGAAAC
638682 CTTGGA
1 CTTGGA
638688 GATCCTCAGG
Statistics
Matches: 30, Mismatches: 10, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
17 3 0.10
18 26 0.87
19 1 0.03
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (18 bp):
CTTGGATTTTTCCGAAAC
Found at i:640954 original size:54 final size:54
Alignment explanation
Indices: 640792--640957 Score: 296
Period size: 54 Copynumber: 3.1 Consensus size: 54
640782 GATACCAAGT
*
640792 ATATTTTTCTCTTTATTCCTTGTTTTGTGGATTATATAACGAATATTGATGTACT
1 ATATTTTTCTCTTTATTCCTTGTTTT-TGGATTATATAACGAATATTGATGTACG
640847 ATATTTTTCTCTTTATTCCTTGTTTTTGGATTATATAACGAATATTGATGTACG
1 ATATTTTTCTCTTTATTCCTTGTTTTTGGATTATATAACGAATATTGATGTACG
* *
640901 ATATTTTTCTCTTTATTCCTTATTTTTGGATTATTTAACGAATATTGATGTACG
1 ATATTTTTCTCTTTATTCCTTGTTTTTGGATTATATAACGAATATTGATGTACG
640955 ATA
1 ATA
640958 ATACTTTGGT
Statistics
Matches: 108, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
54 82 0.76
55 26 0.24
ACGTcount: A:0.25, C:0.11, G:0.12, T:0.52
Consensus pattern (54 bp):
ATATTTTTCTCTTTATTCCTTGTTTTTGGATTATATAACGAATATTGATGTACG
Found at i:641800 original size:22 final size:22
Alignment explanation
Indices: 641775--641843 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
641765 TTTTTTGTAA
641775 TTCAATTGTTAAAGTATGTAGT
1 TTCAATTGTTAAAGTATGTAGT
*** * *
641797 TTC-ATACAT-AATTATTGTTGT
1 TTCAATTGTTAAAGTA-TGTAGT
641818 TTCAATTGTTAAAGTATGTAGT
1 TTCAATTGTTAAAGTATGTAGT
641840 TTCA
1 TTCA
641844 TACATAATTA
Statistics
Matches: 34, Mismatches: 10, Indels: 6
0.68 0.20 0.12
Matches are distributed among these distances:
20 4 0.12
21 11 0.32
22 15 0.44
23 4 0.12
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.48
Consensus pattern (22 bp):
TTCAATTGTTAAAGTATGTAGT
Found at i:641809 original size:43 final size:43
Alignment explanation
Indices: 641775--641861 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
641765 TTTTTTGTAA
641775 TTCAATTGTTAAAGTATGTAGTTTCATACATAATTATTGTTGT
1 TTCAATTGTTAAAGTATGTAGTTTCATACATAATTATTGTTGT
641818 TTCAATTGTTAAAGTATGTAGTTTCATACATAATTATTGTTGT
1 TTCAATTGTTAAAGTATGTAGTTTCATACATAATTATTGTTGT
641861 T
1 T
641862 AATTTAGAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.49
Consensus pattern (43 bp):
TTCAATTGTTAAAGTATGTAGTTTCATACATAATTATTGTTGT
Found at i:641819 original size:21 final size:21
Alignment explanation
Indices: 641795--641861 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
641785 AAAGTATGTA
641795 GTTTCATACATAATTATTGTT
1 GTTTCATACATAATTATTGTT
*** * *
641816 GTTTCAATTGTTAAAGTA-TGTA
1 GTTTC-ATACAT-AATTATTGTT
641838 GTTTCATACATAATTATTGTT
1 GTTTCATACATAATTATTGTT
641859 GTT
1 GTT
641862 AATTTAGAAT
Statistics
Matches: 33, Mismatches: 10, Indels: 6
0.67 0.20 0.12
Matches are distributed among these distances:
20 4 0.12
21 14 0.42
22 11 0.33
23 4 0.12
ACGTcount: A:0.28, C:0.07, G:0.13, T:0.51
Consensus pattern (21 bp):
GTTTCATACATAATTATTGTT
Found at i:647915 original size:18 final size:18
Alignment explanation
Indices: 647892--647940 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
647882 TATTAGTAAC
*
647892 AAAAATCATAATATGAAT
1 AAAAATAATAATATGAAT
* * *
647910 ATAAATAATCATATTAAT
1 AAAAATAATAATATGAAT
647928 AAAAATAATAATA
1 AAAAATAATAATA
647941 GTGGAAACGA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (18 bp):
AAAAATAATAATATGAAT
Found at i:655240 original size:63 final size:63
Alignment explanation
Indices: 655167--655294 Score: 238
Period size: 63 Copynumber: 2.0 Consensus size: 63
655157 ATCACTACAC
* *
655167 TATTTTAAAATTTTTATTTAAGTTATTGGGTCGAAAACTCTCATTCCCTTCTCTGTATAGTTT
1 TATTTTAAAATTTTTATTTAAGTCATTGGGTCGAAAACTCTCATTCCCTTCTCTGCATAGTTT
655230 TATTTTAAAATTTTTATTTAAGTCATTGGGTCGAAAACTCTCATTCCCTTCTCTGCATAGTTT
1 TATTTTAAAATTTTTATTTAAGTCATTGGGTCGAAAACTCTCATTCCCTTCTCTGCATAGTTT
655293 TA
1 TA
655295 GGTTTTTTTT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.26, C:0.16, G:0.11, T:0.48
Consensus pattern (63 bp):
TATTTTAAAATTTTTATTTAAGTCATTGGGTCGAAAACTCTCATTCCCTTCTCTGCATAGTTT
Found at i:657254 original size:16 final size:18
Alignment explanation
Indices: 657235--657271 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
657225 AATGTATAAA
657235 TTTTAAA-AGA-ATTTTT
1 TTTTAAATAGAGATTTTT
*
657251 TTTTAAATATAGATTTTT
1 TTTTAAATAGAGATTTTT
657269 TTT
1 TTT
657272 CACCCATAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 2 0.11
18 9 0.50
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
TTTTAAATAGAGATTTTT
Found at i:663951 original size:10 final size:10
Alignment explanation
Indices: 663936--663961 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
663926 CAAAATTTTA
663936 TAATTATAAT
1 TAATTATAAT
663946 TAATTATAAT
1 TAATTATAAT
663956 TAATTA
1 TAATTA
663962 AAACGCATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
TAATTATAAT
Found at i:667792 original size:57 final size:58
Alignment explanation
Indices: 667729--667859 Score: 155
Period size: 57 Copynumber: 2.3 Consensus size: 58
667719 ATATTTTTTT
* *
667729 CTTTTTTGATCATCAAACTATGAAAAGTTATAAAATGGA-CACTCAATTAGTAAATT-C
1 CTTTTTTGATCATCAAACTATGAAAAGTTACAAAAT-GATCACTCAACTAGTAAATTGC
* * *
667786 CTTTTTTTG-TCACTC-AACTATGAAAAGTTACAAAATGATCATTCAACTATTCAATTGC
1 C-TTTTTTGATCA-TCAAACTATGAAAAGTTACAAAATGATCACTCAACTAGTAAATTGC
667844 CTTTTTTGATCA-CAAA
1 CTTTTTTGATCATCAAA
667860 ATTATCTTAG
Statistics
Matches: 63, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
56 3 0.05
57 46 0.73
58 14 0.22
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (58 bp):
CTTTTTTGATCATCAAACTATGAAAAGTTACAAAATGATCACTCAACTAGTAAATTGC
Found at i:670917 original size:23 final size:22
Alignment explanation
Indices: 670874--670919 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
670864 CTACTTTTTT
*
670874 TAATTTTTATGTAAAAAATAAA
1 TAATTTTTATATAAAAAATAAA
670896 TAATTTTT-TATAAAATAGATAAA
1 TAATTTTTATATAAAA-A-ATAAA
670919 T
1 T
670920 CGAACTGAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 6 0.29
22 9 0.43
23 6 0.29
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.43
Consensus pattern (22 bp):
TAATTTTTATATAAAAAATAAA
Found at i:678818 original size:25 final size:24
Alignment explanation
Indices: 678772--678818 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
678762 TCTTTGGGAG
* **
678772 CTAAATTATATTTTTATTATTTAA
1 CTAAATTATAATTTTAAAATTTAA
678796 CTAAATTTATAATTTTAAAATTT
1 CTAAA-TTATAATTTTAAAATTT
678819 TTGAAGGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 5 0.26
25 14 0.74
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (24 bp):
CTAAATTATAATTTTAAAATTTAA
Found at i:685838 original size:26 final size:26
Alignment explanation
Indices: 685801--685851 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
685791 CTTTGACATC
685801 TTGCTAAGCTTGCAGCTTGCACATTT
1 TTGCTAAGCTTGCAGCTTGCACATTT
685827 TTGCTGAA-CTTGCAGCTTGCACATT
1 TTGCT-AAGCTTGCAGCTTGCACATT
685852 GGAAAGCTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 22 0.92
27 2 0.08
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.37
Consensus pattern (26 bp):
TTGCTAAGCTTGCAGCTTGCACATTT
Found at i:686023 original size:65 final size:65
Alignment explanation
Indices: 685919--686044 Score: 225
Period size: 65 Copynumber: 1.9 Consensus size: 65
685909 GGGTCTCACA
*
685919 TTGTTGTCTTCTCTACAAGCAGTCCTTAATGACATGCTTGTGCTTTGACATCTTCTTTCTTACTG
1 TTGTTGTCTTCTCTACAAGCAGTCCTTAATGACATGCTTGTGCTTTGACAGCTTCTTTCTTACTG
* *
685984 TTGTTGTCTTCTCTACAAGCAGTCTTTAATGACATGCTTGTGTTTTGACAGCTTCTTTCTT
1 TTGTTGTCTTCTCTACAAGCAGTCCTTAATGACATGCTTGTGCTTTGACAGCTTCTTTCTT
686045 TTTAACAAAC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 58 1.00
ACGTcount: A:0.17, C:0.21, G:0.16, T:0.46
Consensus pattern (65 bp):
TTGTTGTCTTCTCTACAAGCAGTCCTTAATGACATGCTTGTGCTTTGACAGCTTCTTTCTTACTG
Found at i:702207 original size:17 final size:16
Alignment explanation
Indices: 702170--702231 Score: 106
Period size: 16 Copynumber: 3.8 Consensus size: 16
702160 AAATAATTTA
*
702170 GATTAGAGGCGTATTG
1 GATTAGAGGTGTATTG
702186 GATTAGAGGTGTATTGG
1 GATTAGAGGTGTATT-G
702203 GATTAGAGGTGTATTG
1 GATTAGAGGTGTATTG
702219 GATTAGAGGTGTA
1 GATTAGAGGTGTA
702232 ATAGCTAATC
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
16 28 0.64
17 16 0.36
ACGTcount: A:0.26, C:0.02, G:0.39, T:0.34
Consensus pattern (16 bp):
GATTAGAGGTGTATTG
Found at i:702296 original size:44 final size:45
Alignment explanation
Indices: 702212--702302 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
702202 GGATTAGAGG
* * *
702212 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
702257 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
702301 TG
1 TG
702303 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:702488 original size:18 final size:17
Alignment explanation
Indices: 702467--702501 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
702457 TTATTATTAA
*
702467 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
702485 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
702502 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:702739 original size:17 final size:17
Alignment explanation
Indices: 702706--702739 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
702696 TTATTATTAA
* *
702706 ATATATTTTAATTAAAT
1 ATATAATTTAATAAAAT
702723 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
702740 TCTTAATAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:703068 original size:120 final size:120
Alignment explanation
Indices: 702450--703908 Score: 2809
Period size: 120 Copynumber: 12.2 Consensus size: 120
702440 ATCATATTTA
* *
702450 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
*
702515 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGT-AAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
* **
702569 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
702634 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
702689 AACATAATTATTATTAAATATATTTTAATTAAA-TATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
702753 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
702808 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTT-AAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
702872 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
**
702927 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
702992 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
703047 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
703112 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
703167 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
703232 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
703287 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
703352 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
703407 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTT-AAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
703471 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
703526 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
703591 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
703646 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
703711 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
703766 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
703831 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
703886 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
703909 AACTTGAAAA
Statistics
Matches: 1328, Mismatches: 8, Indels: 7
0.99 0.01 0.01
Matches are distributed among these distances:
119 461 0.35
120 867 0.65
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:703479 original size:479 final size:480
Alignment explanation
Indices: 702450--703908 Score: 2827
Period size: 479 Copynumber: 3.0 Consensus size: 480
702440 ATCATATTTA
*
702450 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
*
702515 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGT-AAATATAAATTAACATAATTA
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
* **
702579 TTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAATATTCTTATA
131 TTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATA
702644 TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATA
196 TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATA
*
702709 TATTTTAATTAAA-TATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATTAATTTACT
261 TATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACT
702773 CAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATT
326 CAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATT
702838 AAACTATATAATTT-AAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAA
391 AAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAA
702902 TATATGATACTGTAAAATATAAATT
456 TATATGATACTGTAAAATATAAATT
*
702927 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
702992 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
703057 TTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATA
131 TTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATA
703122 TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATA
196 TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATA
703187 TATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACT
261 TATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACT
703252 CAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATT
326 CAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATT
703317 AAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAA
391 AAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAA
703382 TATATGATACTGTAAAATATAAATT
456 TATATGATACTGTAAAATATAAATT
703407 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAA-AAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
703471 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
703536 TTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATA
131 TTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATA
703601 TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATA
196 TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATA
703666 TATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACT
261 TATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACT
703731 CAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATT
326 CAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATT
703796 AAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAA
391 AAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAA
703861 TATATGATACTGTAAAATATAAATT
456 TATATGATACTGTAAAATATAAATT
703886 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
703909 AACTTGAAAA
Statistics
Matches: 971, Mismatches: 8, Indels: 4
0.99 0.01 0.00
Matches are distributed among these distances:
477 105 0.11
478 161 0.17
479 584 0.60
480 121 0.12
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (480 bp):
AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
TTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATA
TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATA
TATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACT
CAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATT
AAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAA
TATATGATACTGTAAAATATAAATT
Found at i:703585 original size:599 final size:598
Alignment explanation
Indices: 702450--703908 Score: 2821
Period size: 599 Copynumber: 2.4 Consensus size: 598
702440 ATCATATTTA
* *
702450 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
*
702515 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGT-AAATATAAATTAACATAATTA
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
* **
702579 TTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAATATTCTTATA
131 TTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATA
702644 TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATA
196 TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATA
*
702709 TATTTTAATTAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATTAATTTACTC
261 TATTTTAATTAAATATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTC
702774 AAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATTA
326 AAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATTA
702839 AACTATATAATTTAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAATA
391 AACTATATAATTTAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAATA
702904 TATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATTAAACTATATAAT
456 TATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATTAAACTATATAAT
**
702969 TTAATGAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTG
521 TTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTG
703034 TAAAATATAAATT
586 TAAAATATAAATT
703047 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
703112 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
703177 TTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATA
131 TTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATA
703242 TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATA
196 TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATA
703307 TATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACT
261 TATTTTAATTAAA-TATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACT
703372 CAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATT
325 CAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATT
703437 AAACTATATAATTTAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAAT
390 AAACTATATAATTTAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAAT
703502 ATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATTAAACTATATAA
455 ATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATTAAACTATATAA
703567 TTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACT
520 TTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACT
703632 GTAAAATATAAATT
585 GTAAAATATAAATT
703646 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
703711 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
703776 TTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATA
131 TTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATA
703841 TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATA
196 TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATA
703906 TAT
261 TAT
703909 AACTTGAAAA
Statistics
Matches: 851, Mismatches: 9, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
597 105 0.12
598 161 0.19
599 585 0.69
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (598 bp):
AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
TTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATA
TTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATA
TATTTTAATTAAATATATAATTTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTC
AAATCATAATATATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATTA
AACTATATAATTTAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAATA
TATGATACTGTAAAATATAAATTAACATAATTATTATTAAATATATTTTAATTAAACTATATAAT
TTAAAAAAATTCTTAATAATTAATATTCTTATATTAATTTACTCAAATCATAATATATGATACTG
TAAAATATAAATT
Found at i:706579 original size:23 final size:23
Alignment explanation
Indices: 706551--706634 Score: 132
Period size: 23 Copynumber: 3.7 Consensus size: 23
706541 AACATAAACA
*
706551 AATCAACACAATTTCCAGCAGAC
1 AATCAAAACAATTTCCAGCAGAC
*
706574 AATCAAAACAATTTCCAGCAGCC
1 AATCAAAACAATTTCCAGCAGAC
* *
706597 AATCATACCAATTTCCAGCAGAC
1 AATCAAAACAATTTCCAGCAGAC
706620 AATCAAAACAATTTC
1 AATCAAAACAATTTC
706635 AGAACAAATC
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.44, C:0.29, G:0.07, T:0.20
Consensus pattern (23 bp):
AATCAAAACAATTTCCAGCAGAC
Found at i:706662 original size:22 final size:21
Alignment explanation
Indices: 706620--706665 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
706610 TCCAGCAGAC
* *
706620 AATCAAAACAATTTCAGAACA
1 AATCAAAACAATATCAAAACA
*
706641 AATCAAGACCAATATCAAAACA
1 AATCAA-AACAATATCAAAACA
706663 AAT
1 AAT
706666 GCAACAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.59, C:0.20, G:0.04, T:0.17
Consensus pattern (21 bp):
AATCAAAACAATATCAAAACA
Found at i:708545 original size:5 final size:5
Alignment explanation
Indices: 708535--708560 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
708525 AAAGAGAGTT
708535 AGAAA AGAAA AGAAA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA A
708561 AAGAGAGTTG
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:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:709373 original size:3 final size:3
Alignment explanation
Indices: 709367--709417 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
709357 TAAATACGAC
709367 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
709415 GAT
1 GAT
709418 TCCACGTGTG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:712820 original size:13 final size:13
Alignment explanation
Indices: 712791--712832 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 13
712781 AATTAAATAC
*
712791 TAAAAATTGTAAA
1 TAAAAATTGAAAA
712804 -AAAAATTGAAAA
1 TAAAAATTGAAAA
712816 TAAAAA-TGAAAGA
1 TAAAAATTGAAA-A
712829 TAAA
1 TAAA
712833 GAAGGGATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (13 bp):
TAAAAATTGAAAA
Found at i:722127 original size:21 final size:21
Alignment explanation
Indices: 722101--722141 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
722091 ATCTGCTCAA
* *
722101 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
722122 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
722142 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:728131 original size:18 final size:18
Alignment explanation
Indices: 728107--728149 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
728097 AATTGATTTT
728107 TTAATTAAATAACTTTAAA
1 TTAATTAAA-AACTTTAAA
*
728126 -TAATTAAAAATTTTAAA
1 TTAATTAAAAACTTTAAA
728143 TTAATTA
1 TTAATTA
728150 TAGGAAAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAATTAAAAACTTTAAA
Found at i:737167 original size:2 final size:2
Alignment explanation
Indices: 737160--737193 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
737150 TTGGTCATTG
* *
737160 AT AT AT AT AT AT AT AT AG AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
737194 GTAAAGGGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (2 bp):
AT
Found at i:745156 original size:21 final size:21
Alignment explanation
Indices: 745132--745172 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
745122 TAAATATCAC
745132 AATTTATATGTATTT-TATATT
1 AATTTATATG-ATTTATATATT
*
745153 AATTTTTATGATTTATATAT
1 AATTTATATGATTTATATAT
745173 ATATATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (21 bp):
AATTTATATGATTTATATATT
Found at i:745617 original size:103 final size:104
Alignment explanation
Indices: 745349--745617 Score: 368
Period size: 103 Copynumber: 2.6 Consensus size: 104
745339 TTACTTCAAC
* * * * *
745349 TTTGTCTTTTCC-TTTTCATGTCCTTTTTAGTTTTCTGATCTA-TGCTTATCTACTTCTATTTCA
1 TTTGTCTTTGCCTTTTTCATCT-CTTTTTAGTTTTCAGATC-ACTGCTTCTTTAC-TCTATTTCA
*
745412 GTGGGTTTTTTTTTGTTTTTTGGGTTTTCAACTTTAGAACAAG
63 GCGGG-TTTTTTTTGTTTTTTGGGTTTTCAACTTTAGAACAAG
* * *
745455 TTTATCTTTGCTTTTTTCATCTCTTTTTTAGTTTTCAGATCACTGCTTCTTT-TTCTATTTCAGC
1 TTTGTCTTTGCCTTTTTCATCTC-TTTTTAGTTTTCAGATCACTGCTTCTTTACTCTATTTCAGC
745519 GGG-TTTTTTTGTTTTTTGGGTTTTCAACTTTAGAACAAG
65 GGGTTTTTTTTGTTTTTTGGGTTTTCAACTTTAGAACAAG
745558 TTTGTCTTTGCCTTTTTCATCTCTGTTTTAGTTTTCAGATCACTGCTTCTTTACT-TATTT
1 TTTGTCTTTGCCTTTTTCATCTCT-TTTTAGTTTTCAGATCACTGCTTCTTTACTCTATTT
745618 TTCAGTGGGG
Statistics
Matches: 146, Mismatches: 12, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
102 1 0.01
103 89 0.61
104 1 0.01
105 13 0.09
106 11 0.08
107 31 0.21
ACGTcount: A:0.14, C:0.16, G:0.13, T:0.57
Consensus pattern (104 bp):
TTTGTCTTTGCCTTTTTCATCTCTTTTTAGTTTTCAGATCACTGCTTCTTTACTCTATTTCAGCG
GGTTTTTTTTGTTTTTTGGGTTTTCAACTTTAGAACAAG
Found at i:747434 original size:33 final size:33
Alignment explanation
Indices: 747392--747456 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
747382 GAAGTCATTA
*
747392 AACTTCCATTGTTAACCAAATAGGGTTTTATTG
1 AACTTCCATTGTTAACCAAACAGGGTTTTATTG
*
747425 AACTTCCATTGTTAACTAAACAGGGTTTTATT
1 AACTTCCATTGTTAACCAAACAGGGTTTTATT
747457 ATATACACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (33 bp):
AACTTCCATTGTTAACCAAACAGGGTTTTATTG
Found at i:750610 original size:42 final size:42
Alignment explanation
Indices: 750539--750619 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 42
750529 CATTACAGGC
* *
750539 AGACTTGTATTGATACAACTCATAAGATGTATGGGTAGACGT
1 AGACTTGTATTGATACAACTCACAAGATGTATAGGTAGACGT
*
750581 AGACTTGTATTGATACAA-TGCACATGATGTATAGGTAGA
1 AGACTTGTATTGATACAACT-CACAAGATGTATAGGTAGA
750620 GGTCCCCCAG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
41 1 0.03
42 34 0.97
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (42 bp):
AGACTTGTATTGATACAACTCACAAGATGTATAGGTAGACGT
Found at i:754247 original size:13 final size:13
Alignment explanation
Indices: 754229--754253 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
754219 CTAAATAGAT
754229 AATTTTTTTAATC
1 AATTTTTTTAATC
754242 AATTTTTTTAAT
1 AATTTTTTTAAT
754254 TATACGTGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (13 bp):
AATTTTTTTAATC
Found at i:756825 original size:15 final size:17
Alignment explanation
Indices: 756807--756852 Score: 57
Period size: 15 Copynumber: 3.0 Consensus size: 17
756797 TTTTTAAGAG
756807 AATTATTTATAAA-AA-
1 AATTATTTATAAATAAT
756822 AATTA-TTA-AAATAAT
1 AATTATTTATAAATAAT
756837 AATTATTTAT-AATAAT
1 AATTATTTATAAATAAT
756853 TAGTAATTCG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
13 3 0.11
14 5 0.19
15 10 0.37
16 9 0.33
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AATTATTTATAAATAAT
Found at i:762254 original size:8 final size:8
Alignment explanation
Indices: 762241--762271 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
762231 CGGAATTATC
762241 ATATTTAA
1 ATATTTAA
762249 ATATTTAA
1 ATATTTAA
762257 ATATTTAA
1 ATATTTAA
762265 ATATTTA
1 ATATTTA
762272 CTTGACATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
ATATTTAA
Found at i:767140 original size:18 final size:18
Alignment explanation
Indices: 767121--767213 Score: 134
Period size: 18 Copynumber: 5.2 Consensus size: 18
767111 CCCAACTACT
* *
767121 GTATACGTGAACAGTACT
1 GTATACGTGAATAGTACC
767139 GTATACGTGAATAGTGA-C
1 GTATACGTGAATAGT-ACC
767157 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
* *
767175 GTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACC
767193 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
767211 GTA
1 GTA
767214 AACGGTCGTA
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
17 1 0.01
18 65 0.97
19 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:767173 original size:36 final size:36
Alignment explanation
Indices: 767121--767213 Score: 150
Period size: 36 Copynumber: 2.6 Consensus size: 36
767111 CCCAACTACT
* * *
767121 GTATACGTGAACAGTACTGTATACGTGAATAGTGAC
1 GTATACGTGAATAGTACCGTATACGTAAATAGTGAC
*
767157 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTAAATAGTGAC
767193 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
767214 AACGGTCGTA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTAAATAGTGAC
Found at i:773672 original size:38 final size:38
Alignment explanation
Indices: 773628--773703 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
773618 ATCTACTCTT
*
773628 TTTTGAAATATCAAATTTAAACATTTTTACCCTGTCGA
1 TTTTGAAATATCAAATTTAAACATTTGTACCCTGTCGA
* *
773666 TTTTGAAATATTAAATTTAAATATTTGTACCCTGTCGA
1 TTTTGAAATATCAAATTTAAACATTTGTACCCTGTCGA
773704 AGTAAGGAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.43
Consensus pattern (38 bp):
TTTTGAAATATCAAATTTAAACATTTGTACCCTGTCGA
Found at i:779457 original size:3 final size:3
Alignment explanation
Indices: 779449--779491 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
779439 ATAAATTTCA
* *
779449 TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT TTT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
779492 GCTTTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:779497 original size:15 final size:15
Alignment explanation
Indices: 779451--779499 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
779441 AAATTTCATA
*
779451 TTATTATTGTTA-TT
1 TTATTATTATTACTT
*
779465 ATTATTATTATTATTT
1 -TTATTATTATTACTT
*
779481 TTATTATTATTGCTT
1 TTATTATTATTACTT
779496 TTAT
1 TTAT
779500 ATATATATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
15 28 0.93
16 2 0.07
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.69
Consensus pattern (15 bp):
TTATTATTATTACTT
Found at i:780352 original size:107 final size:108
Alignment explanation
Indices: 780164--780467 Score: 461
Period size: 108 Copynumber: 2.8 Consensus size: 108
780154 TTTCTAATTG
* *
780164 AGGCAATATTTAGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAG-AAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
*
780229 CGTTCAACCAACTAGCTAAATATCCTTTC-AAAATTACAAAATA
65 CGTTCAACCAAATAGCTAAATATCCTTTCAAAAATTACAAAATA
780272 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTC
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTC
780337 GTTCAACCAAATAGCTAAATATCCTTTCAAAAATTACAAAATA
66 GTTCAACCAAATAGCTAAATATCCTTTCAAAAATTACAAAATA
* * * * * * *
780380 AGGCAATGTTTTGCATTTGAAAATTCGAGGAACGTGCTCTAAGATGCTGGGTTTCGA--TTTCTC
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTC
* * *
780443 GTTTAACCAAATTGCCAAATATCCT
66 GTTCAACCAAATAGCTAAATATCCT
780468 CTTGAATTTT
Statistics
Matches: 182, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
106 28 0.15
107 63 0.35
108 91 0.50
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (108 bp):
AGGCAATGTTTTGCGTTTGGAAATTCGAGAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTC
GTTCAACCAAATAGCTAAATATCCTTTCAAAAATTACAAAATA
Found at i:805784 original size:43 final size:43
Alignment explanation
Indices: 805715--805806 Score: 98
Period size: 43 Copynumber: 2.1 Consensus size: 43
805705 GTGACATGGT
* * *
805715 CGTGTGACCCAATATCAAATGCACACATGGGCAGG-CGCACGGC
1 CGTGTGACCCAATATCAAATACACACACGGGC-GGACACACGGC
* * *
805758 CGTGTGACCTTAAT-TCAAATATACACACGGGCGGACACACGGT
1 CGTGTGACC-CAATATCAAATACACACACGGGCGGACACACGGC
805801 CGTGTG
1 CGTGTG
805807 TCTCGACTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
42 2 0.05
43 36 0.88
44 3 0.07
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.18
Consensus pattern (43 bp):
CGTGTGACCCAATATCAAATACACACACGGGCGGACACACGGC
Found at i:805999 original size:11 final size:11
Alignment explanation
Indices: 805983--806007 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
805973 GTGTATGTTT
805983 ATTGTGAATTG
1 ATTGTGAATTG
805994 ATTGTGAATTG
1 ATTGTGAATTG
806005 ATT
1 ATT
806008 AATTGTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (11 bp):
ATTGTGAATTG
Found at i:816236 original size:17 final size:17
Alignment explanation
Indices: 816214--816247 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
816204 TATTCTTTGC
*
816214 TTTGTGGATTAGCTAAT
1 TTTGTGGATTAGATAAT
816231 TTTGTGGATTAGATAAT
1 TTTGTGGATTAGATAAT
816248 GAATATTCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.03, G:0.24, T:0.47
Consensus pattern (17 bp):
TTTGTGGATTAGATAAT
Found at i:818970 original size:19 final size:19
Alignment explanation
Indices: 818946--818993 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
818936 GTGTCCCTTA
818946 TTTTTCAAAATTTT-CATCT
1 TTTTTCAAAATTTTCCAT-T
* *
818965 TTTTTCTAACTTTTCCATT
1 TTTTTCAAAATTTTCCATT
818984 TTGTTTCAAA
1 TT-TTTCAAA
818994 TTGACCTCAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.23, C:0.17, G:0.02, T:0.58
Consensus pattern (19 bp):
TTTTTCAAAATTTTCCATT
Found at i:828426 original size:136 final size:125
Alignment explanation
Indices: 828234--828673 Score: 508
Period size: 125 Copynumber: 3.4 Consensus size: 125
828224 AATAAGAGAG
* * * * * * *
828234 TAAAATCAAAATAACAACGAAAATAAAAAATCGAGCACACTCCTTAGCATCGCACCTTAAATGCA
1 TAAAAACAAAAGAAGAACAAAAATAAAAAATCAAGCACACTCCTTAGCATCACACCTTAAATGTA
* * * *
828299 AGATCATACCTTAACGTAGACAACATAGAAACTCCGAAACATTATAGCAAGAATACTCCG
66 AGATCATACCTTAACATAGACAACCTAGAAACTCCGAAACATTGTAGCAAGAATACTCCA
* *
828359 TAAAAACAACCAAGCTCAATAATAGAGTAAA-AACAAAATAACAA-CGAGCACTCCTTAGCATCA
1 TAAAAACAA--AAG---AAGAACA-A--AAATAA-AAAAT--CAAGC-A-CACTCCTTAGCATCA
* *
828422 CACCTTAAATGTAAGATCATCCCTTAACATAGACAACCTAGAAACTCCGAAACATTGTAGCAAAA
53 CACCTTAAATGTAAGATCATACCTTAACATAGACAACCTAGAAACTCCGAAACATTGTAGCAAGA
828487 ATACTCCA
118 ATACTCCA
* * *
828495 TGAAAACAAAAGAAGAACAAAAATTAGAAATCAAGCACACTCCTTAGCATCACACCTTAAATGTA
1 TAAAAACAAAAGAAGAACAAAAATAAAAAATCAAGCACACTCCTTAGCATCACACCTTAAATGTA
* * *
828560 AGATCATACCTTAACATAGACAACCTAAAAACTCCAAAAAATTGTAGCAAGAATACTCCA
66 AGATCATACCTTAACATAGACAACCTAGAAACTCCGAAACATTGTAGCAAGAATACTCCA
* * * *
828620 TAAAAACAAAAGAACG-ACGAAAATTAAAAATCGAGCACACTCGTTAGCATCACA
1 TAAAAACAAAAGAA-GAACAAAAATAAAAAATCAAGCACACTCCTTAGCATCACA
828674 AAACATCAGA
Statistics
Matches: 270, Mismatches: 29, Indels: 32
0.82 0.09 0.10
Matches are distributed among these distances:
125 138 0.51
126 5 0.02
127 3 0.01
128 7 0.03
129 1 0.00
130 5 0.02
131 6 0.02
132 2 0.01
133 8 0.03
134 4 0.01
135 3 0.01
136 88 0.33
ACGTcount: A:0.48, C:0.23, G:0.10, T:0.19
Consensus pattern (125 bp):
TAAAAACAAAAGAAGAACAAAAATAAAAAATCAAGCACACTCCTTAGCATCACACCTTAAATGTA
AGATCATACCTTAACATAGACAACCTAGAAACTCCGAAACATTGTAGCAAGAATACTCCA
Found at i:837206 original size:31 final size:31
Alignment explanation
Indices: 837171--837229 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
837161 AATGCCATGT
*
837171 TATCAAGTTTAGGGACTAA-ATTGAAAAAGGA
1 TATCAAATTTAGGGACTAATA-TGAAAAAGGA
837202 TATCAAATTTAGGGACTAATATGAAAAA
1 TATCAAATTTAGGGACTAATATGAAAAA
837230 ATAGGACTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.47, C:0.07, G:0.19, T:0.27
Consensus pattern (31 bp):
TATCAAATTTAGGGACTAATATGAAAAAGGA
Found at i:837469 original size:2 final size:2
Alignment explanation
Indices: 837462--837513 Score: 61
Period size: 2 Copynumber: 26.5 Consensus size: 2
837452 GCCATGGTTA
* * *
837462 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AC AT AC AT TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
837503 AT AT CT AT AT A
1 AT AT AT AT AT A
837514 CTCTATTTGA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:841308 original size:14 final size:14
Alignment explanation
Indices: 841289--841316 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
841279 TGTTGGTATG
841289 AAATAAATTTAACA
1 AAATAAATTTAACA
841303 AAATAAATTTAACA
1 AAATAAATTTAACA
841317 GTATTAATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (14 bp):
AAATAAATTTAACA
Found at i:866491 original size:21 final size:20
Alignment explanation
Indices: 866458--866496 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
866448 TGACCTCACA
866458 TTTTAATATTAGAATTTTTC
1 TTTTAATATTAGAATTTTTC
*
866478 TTTTAGATTTTAG-ATTTTT
1 TTTTA-ATATTAGAATTTTT
866497 TGAACCGTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.26, C:0.03, G:0.08, T:0.64
Consensus pattern (20 bp):
TTTTAATATTAGAATTTTTC
Found at i:868632 original size:4 final size:4
Alignment explanation
Indices: 868625--868655 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
868615 GTGCGTGTAT
868625 GTGA GTGA GTGA GTGA GTGA GTGA GTGA GTG
1 GTGA GTGA GTGA GTGA GTGA GTGA GTGA GTG
868656 TGAGAGAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.52, T:0.26
Consensus pattern (4 bp):
GTGA
Found at i:879195 original size:31 final size:30
Alignment explanation
Indices: 879159--879232 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 30
879149 CACTATCAAC
* *
879159 TTAATTTAATTACATTATATAACATTTTAAT
1 TTAATTTAATTACATTACATAACA-ATTAAT
* * *
879190 TTAATTTAATCACATTACGTAATAATTAAT
1 TTAATTTAATTACATTACATAACAATTAAT
879220 TTAATTTAATTAC
1 TTAATTTAATTAC
879233 CATATTATAT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 17 0.46
31 20 0.54
ACGTcount: A:0.42, C:0.08, G:0.01, T:0.49
Consensus pattern (30 bp):
TTAATTTAATTACATTACATAACAATTAAT
Found at i:879410 original size:5 final size:5
Alignment explanation
Indices: 879400--879474 Score: 141
Period size: 5 Copynumber: 15.0 Consensus size: 5
879390 CATCCGTACA
*
879400 CATAT CATAT CATAT CATAT CATAT TATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
879450 CATAT CATAT CATAT CATAT CATAT
1 CATAT CATAT CATAT CATAT CATAT
879475 ATGTAATAAA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 68 1.00
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.41
Consensus pattern (5 bp):
CATAT
Found at i:880536 original size:9 final size:9
Alignment explanation
Indices: 880511--880549 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
880501 TTAGGAATGA
*
880511 AAAAAGAAC
1 AAAAAGAAG
880520 AGAAAAGAAG
1 A-AAAAGAAG
880530 AAAAAGAAG
1 AAAAAGAAG
*
880539 AAGAAGAAG
1 AAAAAGAAG
880548 AA
1 AA
880550 GCAAAATCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
9 19 0.70
10 8 0.30
ACGTcount: A:0.74, C:0.03, G:0.23, T:0.00
Consensus pattern (9 bp):
AAAAAGAAG
Found at i:885078 original size:27 final size:27
Alignment explanation
Indices: 885027--885077 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
885017 TTTTTCAATG
*
885027 AATTAAAAAATTGAAGTATAAAAAAGA
1 AATTAAAAAATGGAAGTATAAAAAAGA
885054 AATTAAAAAA-GGAAGTATAAAAAA
1 AATTAAAAAATGGAAGTATAAAAAA
885078 AATCAATGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.69, C:0.00, G:0.12, T:0.20
Consensus pattern (27 bp):
AATTAAAAAATGGAAGTATAAAAAAGA
Found at i:905279 original size:31 final size:31
Alignment explanation
Indices: 905244--905302 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
905234 TAAAACTTAT
*
905244 GCCCCAATACGAGAAAAATTACCTAATTTAA
1 GCCCCAATACGAGAAAAATTACCAAATTTAA
* *
905275 GCCCCAATATGAGAATAATTACCAAATT
1 GCCCCAATACGAGAAAAATTACCAAATT
905303 CAGAGACTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.44, C:0.22, G:0.10, T:0.24
Consensus pattern (31 bp):
GCCCCAATACGAGAAAAATTACCAAATTTAA
Found at i:906723 original size:22 final size:22
Alignment explanation
Indices: 906687--906752 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 22
906677 ATATTAAAAC
* * **
906687 CCTAAACTCTTAACCCTACTAT
1 CCTAAACACTAAACCCTAAGAT
906709 CCTAAACACTAAA-CCTAAGAT
1 CCTAAACACTAAACCCTAAGAT
* *
906730 CATAAACACTAACCCCTAA-AT
1 CCTAAACACTAAACCCTAAGAT
906751 CC
1 CC
906753 GAGAGTTATT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
21 20 0.56
22 16 0.44
ACGTcount: A:0.41, C:0.35, G:0.02, T:0.23
Consensus pattern (22 bp):
CCTAAACACTAAACCCTAAGAT
Found at i:908111 original size:30 final size:31
Alignment explanation
Indices: 908041--908111 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
908031 GGTAAGTTTG
* *
908041 AGGACCAAATTGATAGAATTTGTAAATGTGA
1 AGGACTAAATTGATAGAATATGTAAATGTGA
*
908072 AGGATTAAATTGATAGAATATGTAATAT-T-A
1 AGGACTAAATTGATAGAATATGTAA-ATGTGA
908102 AGGACTAAAT
1 AGGACTAAAT
908112 GTGTTATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 10 0.29
31 23 0.66
32 2 0.06
ACGTcount: A:0.45, C:0.04, G:0.20, T:0.31
Consensus pattern (31 bp):
AGGACTAAATTGATAGAATATGTAAATGTGA
Done.