Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold500
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: 2046043
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 10
Found at i:499542 original size:52 final size:52
Alignment explanation
Indices: 499464--499568 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
499454 ATACTGGTTA
499464 ACCAAAATTGGTACAATCACTTAAGCTTGAAATTAAGTGACAGCATTGAATG
1 ACCAAAATTGGTACAATCACTTAAGCTTGAAATTAAGTGACAGCATTGAATG
*
499516 ACCAAAATTGGTACAATCACTTAAGCTTGAAATTAAGTGACAGTATTGAATG
1 ACCAAAATTGGTACAATCACTTAAGCTTGAAATTAAGTGACAGCATTGAATG
499568 A
1 A
499569 TCTTACCCTC
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (52 bp):
ACCAAAATTGGTACAATCACTTAAGCTTGAAATTAAGTGACAGCATTGAATG
Found at i:499788 original size:19 final size:19
Alignment explanation
Indices: 499766--499802 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
499756 AAAAAATTAA
499766 TAAATGTTAAATTTTAAAT
1 TAAATGTTAAATTTTAAAT
* *
499785 TAAATTTTATATTTTAAA
1 TAAATGTTAAATTTTAAA
499803 AATAATTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
TAAATGTTAAATTTTAAAT
Found at i:509627 original size:16 final size:16
Alignment explanation
Indices: 509606--509641 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
509596 ACCAAAACTC
*
509606 TTTATTATAATTAGAA
1 TTTATTATAATTAAAA
509622 TTTATTATAATTAAAA
1 TTTATTATAATTAAAA
509638 TTTA
1 TTTA
509642 AGTGTTCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTATTATAATTAAAA
Found at i:510384 original size:21 final size:21
Alignment explanation
Indices: 510342--510386 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
510332 TTAATTGTTC
*
510342 AAAATTTGGTTTAATAGGTTA
1 AAAATTTGGTTTAATAGCTTA
*
510363 AAAATATTGTTTTAAT-GCTTA
1 AAAAT-TTGGTTTAATAGCTTA
510384 AAA
1 AAA
510387 TAATTGCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.42, C:0.02, G:0.13, T:0.42
Consensus pattern (21 bp):
AAAATTTGGTTTAATAGCTTA
Found at i:511515 original size:18 final size:21
Alignment explanation
Indices: 511493--511540 Score: 66
Period size: 18 Copynumber: 2.4 Consensus size: 21
511483 TGATATAAAT
511493 TTAAAAAAATATA-TATA-TA
1 TTAAAAAAATATATTATATTA
*
511512 -TAAATAAATATATTATATTA
1 TTAAAAAAATATATTATATTA
511532 TTAAAAAAA
1 TTAAAAAAA
511541 CAAATTAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 11 0.46
19 4 0.17
20 2 0.08
21 7 0.29
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TTAAAAAAATATATTATATTA
Found at i:512206 original size:21 final size:22
Alignment explanation
Indices: 512155--512215 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
512145 TTTAAAATTT
* *
512155 AAAATACAAT-AATCTACATAATT
1 AAAATA-AATAAATATA-ATAATC
512178 AAAATAAA-AAATATAATAATC
1 AAAATAAATAAATATAATAATC
*
512199 AAATTAAATAAATATAA
1 AAAATAAATAAATATAA
512216 ATTTATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 12 0.36
22 15 0.45
23 6 0.18
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (22 bp):
AAAATAAATAAATATAATAATC
Found at i:512720 original size:2 final size:2
Alignment explanation
Indices: 512713--512748 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
512703 TGCACCTGCA
*
512713 TC TC TC TC TC TC TC TC TC TC TC TC TC TT TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
512749 AACCCAACCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:513570 original size:22 final size:23
Alignment explanation
Indices: 513539--513616 Score: 74
Period size: 22 Copynumber: 3.4 Consensus size: 23
513529 TATATAAGCT
513539 TAAATTATTTTTAA-AAATATTAA
1 TAAA-TATTTTTAATAAATATTAA
*
513562 TAAATATTTTTATATTAATATTAA
1 TAAATATTTTTA-ATAAATATTAA
513586 T--ATATTTTATAATAAAT-TTAAA
1 TAAATATTTT-TAATAAATATT-AA
*
513608 TAAAAATTT
1 TAAATATTT
513617 ATTATTTTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
21 2 0.04
22 23 0.50
23 7 0.15
24 14 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TAAATATTTTTAATAAATATTAA
Found at i:513595 original size:21 final size:18
Alignment explanation
Indices: 513555--513596 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 18
513545 ATTTTTAAAA
513555 ATATTAATAAATATTTTT
1 ATATTAATAAATATTTTT
513573 ATATTAATATTAATATATTTT
1 ATATTAATA--AATAT-TTTT
513594 ATA
1 ATA
513597 ATAAATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.43
20 5 0.24
21 7 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATATTAATAAATATTTTT
Found at i:513606 original size:21 final size:20
Alignment explanation
Indices: 513564--513606 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
513554 AATATTAATA
*
513564 AATATTTTTATATTAATATT
1 AATATTTTTATATAAATATT
513584 AATATATTTTATAATAAAT-TT
1 AATAT-TTTTAT-ATAAATATT
513605 AA
1 AA
513607 ATAAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
21 10 0.50
22 5 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AATATTTTTATATAAATATT
Found at i:514173 original size:21 final size:23
Alignment explanation
Indices: 514149--514190 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
514139 AGATTATACG
*
514149 TATATTA-ATGATAAT-TAAACT
1 TATATTAGATAATAATATAAACT
514170 TATATTAGATAATAATATAAA
1 TATATTAGATAATAATATAAA
514191 AAAAATGAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 7 0.39
23 4 0.22
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.40
Consensus pattern (23 bp):
TATATTAGATAATAATATAAACT
Found at i:521153 original size:27 final size:28
Alignment explanation
Indices: 521119--521171 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
521109 GTATTAATTA
* * *
521119 TTTTTAATTTAGTAA-ATATTTATATAT
1 TTTTTAATATAATAATATATTCATATAT
521146 TTTTTAATATAATAATATATTCATAT
1 TTTTTAATATAATAATATATTCATAT
521172 TATGTATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 13 0.59
28 9 0.41
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (28 bp):
TTTTTAATATAATAATATATTCATATAT
Found at i:525845 original size:157 final size:157
Alignment explanation
Indices: 525559--526168 Score: 1220
Period size: 157 Copynumber: 3.9 Consensus size: 157
525549 CTAAGAGAAT
525559 AAAACTAAGTACCATGGAAATCATAGCTACTAAACTTTAATCGACCAACCTTGTCTATGATAATG
1 AAAACTAAGTACCATGGAAATCATAGCTACTAAACTTTAATCGACCAACCTTGTCTATGATAATG
525624 CAAACCTTGCCAAACAAATTTTCAGGTACTGAGTAGCATCGCAAAACTTCTTGCAATAACTGTAA
66 CAAACCTTGCCAAACAAATTTTCAGGTACTGAGTAGCATCGCAAAACTTCTTGCAATAACTGTAA
525689 ACTAGCTATGTGTTAAAAACTCACAAA
131 ACTAGCTATGTGTTAAAAACTCACAAA
525716 AAAACTAAGTACCATGGAAATCATAGCTACTAAACTTTAATCGACCAACCTTGTCTATGATAATG
1 AAAACTAAGTACCATGGAAATCATAGCTACTAAACTTTAATCGACCAACCTTGTCTATGATAATG
525781 CAAACCTTGCCAAACAAATTTTCAGGTACTGAGTAGCATCGCAAAACTTCTTGCAATAACTGTAA
66 CAAACCTTGCCAAACAAATTTTCAGGTACTGAGTAGCATCGCAAAACTTCTTGCAATAACTGTAA
525846 ACTAGCTATGTGTTAAAAACTCACAAA
131 ACTAGCTATGTGTTAAAAACTCACAAA
525873 AAAACTAAGTACCATGGAAATCATAGCTACTAAACTTTAATCGACCAACCTTGTCTATGATAATG
1 AAAACTAAGTACCATGGAAATCATAGCTACTAAACTTTAATCGACCAACCTTGTCTATGATAATG
525938 CAAACCTTGCCAAACAAATTTTCAGGTACTGAGTAGCATCGCAAAACTTCTTGCAATAACTGTAA
66 CAAACCTTGCCAAACAAATTTTCAGGTACTGAGTAGCATCGCAAAACTTCTTGCAATAACTGTAA
526003 ACTAGCTATGTGTTAAAAACTCACAAA
131 ACTAGCTATGTGTTAAAAACTCACAAA
526030 AAAACTAAGTACCATGGAAATCATAGCTACTAAACTTTAATCGACCAACCTTGTCTATGATAATG
1 AAAACTAAGTACCATGGAAATCATAGCTACTAAACTTTAATCGACCAACCTTGTCTATGATAATG
526095 CAAACCTTGCCAAACAAATTTTCAGGTACTGAGTAGCATCGCAAAACTTCTTGCAATAACTGTAA
66 CAAACCTTGCCAAACAAATTTTCAGGTACTGAGTAGCATCGCAAAACTTCTTGCAATAACTGTAA
526160 ACTAGCTAT
131 ACTAGCTAT
526169 TATCACTAGC
Statistics
Matches: 453, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
157 453 1.00
ACGTcount: A:0.39, C:0.21, G:0.13, T:0.27
Consensus pattern (157 bp):
AAAACTAAGTACCATGGAAATCATAGCTACTAAACTTTAATCGACCAACCTTGTCTATGATAATG
CAAACCTTGCCAAACAAATTTTCAGGTACTGAGTAGCATCGCAAAACTTCTTGCAATAACTGTAA
ACTAGCTATGTGTTAAAAACTCACAAA
Found at i:527437 original size:22 final size:22
Alignment explanation
Indices: 527407--527449 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
527397 AATTATTATT
527407 TAATAATAAAAATATT-TAAATA
1 TAATAATAAAAAT-TTATAAATA
*
527429 TAATTATAAAAATTTATAAAT
1 TAATAATAAAAATTTATAAAT
527450 TTTAAAACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TAATAATAAAAATTTATAAATA
Found at i:528469 original size:13 final size:13
Alignment explanation
Indices: 528453--528478 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
528443 TTAATTATAA
528453 AATATAAAATATT
1 AATATAAAATATT
528466 AATATAAAATATT
1 AATATAAAATATT
528479 TTTTATTTAA
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AATATAAAATATT
Found at i:528471 original size:20 final size:21
Alignment explanation
Indices: 528434--528477 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
528424 ATAATATTTT
528434 TATATAAATTTAATTATAAAA
1 TATATAAATTTAATTATAAAA
528455 TATA-AAATATTAA-TATAAAA
1 TATATAAAT-TTAATTATAAAA
528475 TAT
1 TAT
528478 TTTTTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TATATAAATTTAATTATAAAA
Found at i:528506 original size:17 final size:16
Alignment explanation
Indices: 528483--528526 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
528473 AATATTTTTT
*
528483 ATTTAATTAAATAATA
1 ATTTAATTAAAAAATA
528499 ATTTTAATTTAAAAAATA
1 A-TTTAA-TTAAAAAATA
*
528517 AATTAATTAA
1 ATTTAATTAA
528527 TTTAAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 5 0.21
17 9 0.38
18 10 0.42
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
ATTTAATTAAAAAATA
Found at i:528515 original size:21 final size:22
Alignment explanation
Indices: 528464--528517 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
528454 ATATAAAATA
* * *
528464 TTAATATAA-AATATTTTTTAT
1 TTAATAAAATAATAATTTTAAT
*
528485 TTAATTAAATAATAATTTTAAT
1 TTAATAAAATAATAATTTTAAT
528507 TTAA-AAAATAA
1 TTAATAAAATAA
528518 ATTAATTAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 13 0.48
22 14 0.52
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TTAATAAAATAATAATTTTAAT
Found at i:528536 original size:6 final size:6
Alignment explanation
Indices: 528525--528550 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
528515 TAAATTAATT
528525 AATTTA AATTTA AATTTA AATTTA AA
1 AATTTA AATTTA AATTTA AATTTA AA
528551 ATTTTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
AATTTA
Found at i:529132 original size:21 final size:21
Alignment explanation
Indices: 529095--529134 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
529085 AAAAATTTTA
*
529095 AATTAATTTAAATTATTATTT
1 AATTAATTAAAATTATTATTT
529116 AATTAA-TAAAATATATTAT
1 AATTAATTAAAAT-TATTAT
529135 ATAAATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AATTAATTAAAATTATTATTT
Found at i:529963 original size:19 final size:20
Alignment explanation
Indices: 529941--529979 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
529931 ATATTTTATT
529941 ATATTATAATTTAT-TTAAA
1 ATATTATAATTTATATTAAA
* *
529960 ATATTTTTATTTATATTAAA
1 ATATTATAATTTATATTAAA
529980 TTATATTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATATTATAATTTATATTAAA
Found at i:529977 original size:31 final size:31
Alignment explanation
Indices: 529929--529987 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
529919 TTTAAAATTT
529929 ATATATTTTATTATATTATAATT-TATTTAAA
1 ATATATTTTATTATATTA-AATTATATTTAAA
529960 ATAT-TTTTATTTATATTAAATTATATTT
1 ATATATTTTA-TTATATTAAATTATATTT
529988 TAATTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 9 0.35
31 17 0.65
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (31 bp):
ATATATTTTATTATATTAAATTATATTTAAA
Found at i:529980 original size:19 final size:21
Alignment explanation
Indices: 529938--529995 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
529928 TATATATTTT
*
529938 ATTATATTATAATTTATTTAAA
1 ATTATATT-TTATTTATTTAAA
529960 A-TAT-TTTTATTTATATT-AA
1 ATTATATTTTATTTAT-TTAAA
*
529979 ATTATATTTTAATTATT
1 ATTATATTTTATTTATT
529996 ATATATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
19 10 0.32
20 8 0.26
21 12 0.39
22 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTATATTTTATTTATTTAAA
Found at i:529984 original size:36 final size:35
Alignment explanation
Indices: 529919--529989 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 35
529909 ACAATTCCTT
*
529919 TTTAAAATTTATATATTTTATTATATTATAATTTA
1 TTTAAAATTTATATATTTTATTAAATTATAATTTA
* *
529954 TTTAAAATATT-TTTATTTATATTAAATTATATTTTA
1 TTTAAAAT-TTATATATTT-TATTAAATTATAATTTA
529990 ATTATTATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 14 0.45
36 17 0.55
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (35 bp):
TTTAAAATTTATATATTTTATTAAATTATAATTTA
Found at i:530473 original size:15 final size:17
Alignment explanation
Indices: 530408--530470 Score: 56
Period size: 21 Copynumber: 3.5 Consensus size: 17
530398 ATGATTATGT
* *
530408 AATATAAATTTAATAAAA
1 AATATAAAATT-ATATAA
530426 AATAATTAAAATATAATATAA
1 AAT-A-TAAAAT-T-ATATAA
530447 AATATAAAATTATATAA
1 AATATAAAATTATATAA
530464 AA-ATAAA
1 AATATAAA
530471 TTAACATGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
16 5 0.12
17 8 0.20
18 4 0.10
19 7 0.17
20 6 0.15
21 10 0.25
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AATATAAAATTATATAA
Found at i:531625 original size:36 final size:36
Alignment explanation
Indices: 531577--531676 Score: 109
Period size: 36 Copynumber: 2.8 Consensus size: 36
531567 TAATATTTAA
531577 TAATTAAATTTAAATAAAAAATTTTATCACTTAATT
1 TAATTAAATTTAAATAAAAAATTTTATCACTTAATT
*
531613 TAAATT-AATTTAAAATAAAATAATTTTA--ATTTAATT
1 T-AATTAAATTT-AAATAAAA-AATTTTATCACTTAATT
* *
531649 TAATTCAAA-TTAAAGAAATAATTTTATC
1 TAATT-AAATTTAAATAAAAAATTTTATC
531677 TTACAAAGAT
Statistics
Matches: 54, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
34 7 0.13
35 10 0.19
36 16 0.30
37 14 0.26
38 7 0.13
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (36 bp):
TAATTAAATTTAAATAAAAAATTTTATCACTTAATT
Found at i:532184 original size:45 final size:46
Alignment explanation
Indices: 532128--532226 Score: 146
Period size: 45 Copynumber: 2.2 Consensus size: 46
532118 ATAAGTGTGT
*
532128 TAAAAATATTTTTACTTAAATTTAATATTAAATAATTT-TTTGTAA
1 TAAAGATATTTTTACTTAAATTTAATATTAAATAATTTCTTTGTAA
* * * *
532173 TAGAGATATTTTTACTTGAATTTAGTATTAAATAATTTCTTTTTAA
1 TAAAGATATTTTTACTTAAATTTAATATTAAATAATTTCTTTGTAA
532219 TAAAGATA
1 TAAAGATA
532227 AAAATATTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
45 34 0.72
46 13 0.28
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.49
Consensus pattern (46 bp):
TAAAGATATTTTTACTTAAATTTAATATTAAATAATTTCTTTGTAA
Found at i:533864 original size:12 final size:12
Alignment explanation
Indices: 533849--533884 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
533839 GAAGAAACCT
533849 GAAGAGAAAAAA
1 GAAGAGAAAAAA
*
533861 GAAGAGAAGAAA
1 GAAGAGAAAAAA
533873 GAAGAGAAAAAA
1 GAAGAGAAAAAA
533885 CCACCAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAGAAAAAA
Found at i:536738 original size:16 final size:17
Alignment explanation
Indices: 536719--536751 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
536709 CAATCAAAAA
536719 TAAAATTA-TTTTATTT
1 TAAAATTATTTTTATTT
536735 TAAAATTATTTTTATTT
1 TAAAATTATTTTTATTT
536752 GAATCAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TAAAATTATTTTTATTT
Found at i:537821 original size:2 final size:2
Alignment explanation
Indices: 537814--537841 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
537804 GCAAATATTT
537814 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
537842 ATTGCTGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:538070 original size:18 final size:18
Alignment explanation
Indices: 538047--538081 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
538037 ATAAATTTTA
*
538047 AAATTTAATTTTTATTGT
1 AAATTTAATTTTAATTGT
538065 AAATTTAATTTTAATTG
1 AAATTTAATTTTAATTG
538082 AATAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (18 bp):
AAATTTAATTTTAATTGT
Found at i:538223 original size:16 final size:16
Alignment explanation
Indices: 538204--538243 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
538194 TTCGTATATC
538204 TAAATTTTTATTATTT
1 TAAATTTTTATTATTT
* *
538220 TAAATATATATTATTT
1 TAAATTTTTATTATTT
*
538236 TACATTTT
1 TAAATTTT
538244 AACTTCCTAT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
TAAATTTTTATTATTT
Found at i:538808 original size:18 final size:16
Alignment explanation
Indices: 538776--538815 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
538766 TTAATCTATA
538776 AATTTTAATATAAAAT
1 AATTTTAATATAAAAT
*
538792 TATTTTAAATAATAAAAT
1 AATTTT-AAT-ATAAAAT
538810 AATTTT
1 AATTTT
538816 TTTAATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 5 0.25
17 3 0.15
18 12 0.60
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AATTTTAATATAAAAT
Found at i:539325 original size:18 final size:19
Alignment explanation
Indices: 539292--539327 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
539282 AGATCTGATT
*
539292 TAATATAAATTATTTTTAA
1 TAATATAAAATATTTTTAA
539311 TAATA-AAAATATTTTTA
1 TAATATAAAATATTTTTA
539328 TTTAAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TAATATAAAATATTTTTAA
Found at i:539363 original size:28 final size:28
Alignment explanation
Indices: 539294--539371 Score: 74
Period size: 28 Copynumber: 2.9 Consensus size: 28
539284 ATCTGATTTA
539294 ATATAAATTATT--TTTAATAATAAAAAT
1 ATATAAA-TATTAATTTAATAATAAAAAT
* ** *
539321 ATTTTTAT-TTAAATTTAATTATAAAAAT
1 ATATAAATATT-AATTTAATAATAAAAAT
539349 ATATAAATATTAATTTAA-AATAA
1 ATATAAATATTAATTTAATAATAA
539372 TATTTTAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
25 2 0.05
26 1 0.03
27 8 0.21
28 26 0.67
29 2 0.05
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (28 bp):
ATATAAATATTAATTTAATAATAAAAAT
Found at i:539806 original size:2 final size:2
Alignment explanation
Indices: 539799--539832 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
539789 TTTCATGATA
539799 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
539833 TCGAGATGGC
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:541531 original size:2 final size:2
Alignment explanation
Indices: 541519--541553 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
541509 TTGACAGTCC
541519 CT CT C- 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 CT CT CT
541554 ACATATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:542187 original size:17 final size:19
Alignment explanation
Indices: 542172--542208 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
542162 TTATTTAAAA
542172 ATATTAAAATTTTAAATAT
1 ATATTAAAATTTTAAATAT
*
542191 ATATTAACA-TTTAAATAT
1 ATATTAAAATTTTAAATAT
542209 TTTATAATTA
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:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATTAAAATTTTAAATAT
Found at i:542194 original size:19 final size:18
Alignment explanation
Indices: 542164--542230 Score: 59
Period size: 21 Copynumber: 3.6 Consensus size: 18
542154 TATTTTTATT
542164 ATTTAAA-A-ATATTAAA
1 ATTTAAATATATATTAAA
*
542180 ATTTTAAATATATATTAAC
1 A-TTTAAATATATATTAAA
542199 ATTTAAATATTTTATAATT-AA
1 ATTTAAATA---TAT-ATTAAA
542220 ATTTAAATATA
1 ATTTAAATATA
542231 AATATTTTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
16 1 0.02
17 6 0.14
18 11 0.26
19 8 0.19
21 13 0.31
22 3 0.07
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTTAAATATATATTAAA
Found at i:542211 original size:27 final size:27
Alignment explanation
Indices: 542170--542262 Score: 84
Period size: 27 Copynumber: 3.4 Consensus size: 27
542160 TATTATTTAA
*
542170 AAATATTAAA-ATTTTA-AATATATA-TT
1 AAAT-TTAAATATTTTATAAT-TAAATTT
542196 AACATTTAAATATTTTATAATTAAATTT
1 AA-ATTTAAATATTTTATAATTAAATTT
* * *
542224 AAATATAAATATTTTATTAAATAAATAAT
1 AAATTTAAATATTTTA-TAATTAAAT-TT
542253 AAATTTAAAT
1 AAATTTAAAT
542263 TAAATCAACT
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
26 7 0.12
27 24 0.43
28 15 0.27
29 10 0.18
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (27 bp):
AAATTTAAATATTTTATAATTAAATTT
Found at i:542944 original size:5 final size:5
Alignment explanation
Indices: 542934--543015 Score: 51
Period size: 5 Copynumber: 15.8 Consensus size: 5
542924 ATTAAATATA
* * *
542934 AATTT AATTT AATTT AAATAAT AATTT AAATT AATTT AATATA AATTAT
1 AATTT AATTT AATTT -AAT-TT AATTT AATTT AATTT AAT-TT AATT-T
* * *
542983 TATTT -ATAT AA-TA AATTTT AATTT AATTT AATT
1 AATTT AATTT AATTT AA-TTT AATTT AATTT AATT
543016 ATAAAATATT
Statistics
Matches: 59, Mismatches: 11, Indels: 14
0.70 0.13 0.17
Matches are distributed among these distances:
4 5 0.08
5 37 0.63
6 16 0.27
7 1 0.02
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (5 bp):
AATTT
Found at i:542978 original size:27 final size:28
Alignment explanation
Indices: 542932--542988 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 28
542922 TTATTAAATA
*
542932 TAAATTTAATTTAATTTAAATAATAATT
1 TAAATTTAATTTAATATAAATAATAATT
* *
542960 TAAA-TTAATTTAATATAAATTATTATT
1 TAAATTTAATTTAATATAAATAATAATT
542987 TA
1 TA
542989 TATAATAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (28 bp):
TAAATTTAATTTAATATAAATAATAATT
Found at i:543012 original size:24 final size:24
Alignment explanation
Indices: 542984--543035 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
542974 ATAAATTATT
* *
542984 ATTTATATAAT-AAATTTTAATTTA
1 ATTTA-ATAATAAAATATTAATATA
*
543008 ATTTAATTATAAAATATTAATATA
1 ATTTAATAATAAAATATTAATATA
543032 ATTT
1 ATTT
543036 TTAAATATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 4 0.17
24 20 0.83
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
ATTTAATAATAAAATATTAATATA
Found at i:543031 original size:39 final size:38
Alignment explanation
Indices: 542947--543041 Score: 99
Period size: 39 Copynumber: 2.5 Consensus size: 38
542937 TTAATTTAAT
542947 TTAA-ATAATAATTTAAATTAATTTAATATAAATTATTA
1 TTAATATAATAATTTAAATTAATTTAATATAAA-TATTA
* *
542985 TTTATATAATAAATTTTAATTTAATTTAATTATAAA-A-TA
1 TTAATATAAT-AA-TTTAAATTAATTTAA-TATAAATATTA
*
543024 TTAATATAAT-TTTTAAAT
1 TTAATATAATAATTTAAAT
543042 ATTTTAAATA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
36 6 0.12
38 3 0.06
39 16 0.33
40 3 0.06
41 14 0.29
42 6 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (38 bp):
TTAATATAATAATTTAAATTAATTTAATATAAATATTA
Found at i:543033 original size:19 final size:19
Alignment explanation
Indices: 543005--543044 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
542995 AAATTTTAAT
*
543005 TTAATTTAATTATAAAATA
1 TTAATATAATTATAAAATA
* *
543024 TTAATATAATTTTTAAATA
1 TTAATATAATTATAAAATA
543043 TT
1 TT
543045 TTAAATATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTAATATAATTATAAAATA
Found at i:543068 original size:20 final size:20
Alignment explanation
Indices: 543037--543074 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
543027 ATATAATTTT
543037 TAAATATTTTAAATATTAAAA
1 TAAATATTTTAAAT-TTAAAA
543058 TAAAT-TTTTAAATTTAA
1 TAAATATTTTAAATTTAA
543075 TCTAATCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 8 0.47
21 5 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TAAATATTTTAAATTTAAAA
Found at i:543896 original size:2 final size:2
Alignment explanation
Indices: 543889--543914 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
543879 GATTTAGTCC
543889 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
543915 TTAAAGCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:545848 original size:2 final size:2
Alignment explanation
Indices: 545841--545867 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
545831 TTCTCCAGAA
545841 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 A
545868 ATGATTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:545969 original size:15 final size:16
Alignment explanation
Indices: 545929--545970 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
545919 CATGAATAAA
545929 ATTAATAAA-ATTTGT
1 ATTAATAAATATTTGT
*
545944 ATTAATAAAATATTTTT
1 ATTAAT-AAATATTTGT
545961 ATT-ATAAATA
1 ATTAATAAATA
545971 ATATATTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 11 0.46
16 5 0.21
17 8 0.33
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
ATTAATAAATATTTGT
Found at i:555584 original size:16 final size:16
Alignment explanation
Indices: 555565--555599 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
555555 TGATATATTA
555565 AAAAATTTTAAAT-AAT
1 AAAAA-TTTAAATAAAT
555581 AAAAATTTAAATAAAT
1 AAAAATTTAAATAAAT
555597 AAA
1 AAA
555600 CATGATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AAAAATTTAAATAAAT
Found at i:565908 original size:2 final size:2
Alignment explanation
Indices: 565896--565939 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
565886 CTGATAGTAC
565896 AT AT A- 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
565937 AT A
1 AT A
565940 GTCCTACCTA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:573685 original size:15 final size:16
Alignment explanation
Indices: 573667--573698 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
573657 ATTTTAAGTG
573667 TTTATATTTT-TTATT
1 TTTATATTTTATTATT
573682 TTTATATTTTATTATT
1 TTTATATTTTATTATT
573698 T
1 T
573699 AAAATATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTATATTTTATTATT
Found at i:573737 original size:10 final size:10
Alignment explanation
Indices: 573694--573768 Score: 59
Period size: 10 Copynumber: 7.7 Consensus size: 10
573684 TATATTTTAT
573694 TATTTA-AAA
1 TATTTATAAA
573703 TA-TTAT-AA
1 TATTTATAAA
573711 -ATTTATATAA
1 TATTTATA-AA
573721 TATTTATAAA
1 TATTTATAAA
*
573731 TATTTATATA
1 TATTTATAAA
* **
573741 TATATATTTA
1 TATTTATAAA
*
573751 TATTTATATCA
1 TATTTATA-AA
573762 TATTTAT
1 TATTTAT
573769 TTTTTTGTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
7 1 0.02
8 9 0.17
9 2 0.04
10 27 0.50
11 15 0.28
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (10 bp):
TATTTATAAA
Found at i:573744 original size:27 final size:27
Alignment explanation
Indices: 573694--573756 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 27
573684 TATATTTTAT
*
573694 TATTTAAAATATTATAAATTTATATAA
1 TATTTAAAATATTATAAATATATATAA
* *
573721 TATTTATAAATATTTATATATATATATTTA
1 TATTTA-AAATA-TTATAAATATATA-TAA
573751 TATTTA
1 TATTTA
573757 TATCATATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 6 0.20
28 5 0.17
29 11 0.37
30 8 0.27
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (27 bp):
TATTTAAAATATTATAAATATATATAA
Found at i:573747 original size:14 final size:14
Alignment explanation
Indices: 573725--573759 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
573715 ATATAATATT
*
573725 TATAAATATTTATA
1 TATATATATTTATA
573739 TATATATATTTATA
1 TATATATATTTATA
*
573753 TTTATAT
1 TATATAT
573760 CATATTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATATATATTTATA
Found at i:575360 original size:18 final size:19
Alignment explanation
Indices: 575333--575374 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
575323 AAATATTAAA
575333 AATA-TTATTTTTAT-ATT
1 AATATTTATTTTTATAATT
575350 AATATTTATTTTTATAATT
1 AATATTTATTTTTATAATT
575369 AA-ATTT
1 AATATTT
575375 GAAATAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.17
18 14 0.61
19 5 0.22
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
AATATTTATTTTTATAATT
Found at i:575662 original size:16 final size:16
Alignment explanation
Indices: 575638--575689 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
575628 TAATTAAGGT
575638 TTTAATATTATATATA
1 TTTAATATTATATATA
* * *
575654 TTTATTATTAGATATT
1 TTTAATATTATATATA
575670 TTTAGCATATATATATATA
1 TTTA--ATAT-TATATATA
575689 T
1 T
575690 ATATATTTTC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
16 17 0.63
18 3 0.11
19 7 0.26
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (16 bp):
TTTAATATTATATATA
Found at i:581350 original size:14 final size:14
Alignment explanation
Indices: 581331--581357 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
581321 TGCATCGACC
581331 TTTTTTCTTTTTTT
1 TTTTTTCTTTTTTT
581345 TTTTTTCTTTTTT
1 TTTTTTCTTTTTT
581358 GAAAAATTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (14 bp):
TTTTTTCTTTTTTT
Found at i:585544 original size:37 final size:41
Alignment explanation
Indices: 585466--585557 Score: 129
Period size: 37 Copynumber: 2.3 Consensus size: 41
585456 ACATTTTTTA
585466 TAATTAAATTTAATAAAAAATTTAATTATTAAATATTAATT
1 TAATTAAATTTAATAAAAAATTTAATTATTAAATATTAATT
* *
585507 TAATTTAATTTAATAAAAAA-TT-A-T-TTAAATTTTAATT
1 TAATTAAATTTAATAAAAAATTTAATTATTAAATATTAATT
*
585544 TAAATAAATTTAAT
1 TAATTAAATTTAAT
585558 TTAATTTATT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
37 24 0.51
38 1 0.02
39 1 0.02
40 2 0.04
41 19 0.40
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (41 bp):
TAATTAAATTTAATAAAAAATTTAATTATTAAATATTAATT
Found at i:585555 original size:15 final size:15
Alignment explanation
Indices: 585470--585561 Score: 57
Period size: 12 Copynumber: 6.9 Consensus size: 15
585460 TTTTTATAAT
585470 TAAATTTAA--TAAA
1 TAAATTTAATTTAAA
*
585483 -AAATTTAA-TT-AT
1 TAAATTTAATTTAAA
*
585495 TAAATATTAATTTAAT
1 TAAAT-TTAATTTAAA
*
585511 TTAATTTAA--TAAA
1 TAAATTTAATTTAAA
585524 -AAA-TT-ATTTAAA
1 TAAATTTAATTTAAA
585536 T---TTTAATTTAAA
1 TAAATTTAATTTAAA
585548 TAAATTTAATTTAA
1 TAAATTTAATTTAA
585562 TTTATTTTAT
Statistics
Matches: 62, Mismatches: 4, Indels: 24
0.69 0.04 0.27
Matches are distributed among these distances:
10 1 0.02
11 4 0.06
12 23 0.37
13 8 0.13
14 4 0.06
15 16 0.26
16 6 0.10
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TAAATTTAATTTAAA
Found at i:585555 original size:42 final size:41
Alignment explanation
Indices: 585467--585562 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 41
585457 CATTTTTTAT
* * *
585467 AATTAAATTTAATAAAAAATTTAATTATTAAATATTAATTT
1 AATTTAATTTAATAAAAAATTTAATTATTAAATATTAAATA
585508 AATTTAATTTAATAAAAAATTATTTAAATT-TT-AAT-TTAAATA
1 AATTTAATTTAAT-AAAAA--ATTT-AATTATTAAATATTAAATA
585550 AATTTAATTTAAT
1 AATTTAATTTAAT
585563 TTATTTTATC
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
41 12 0.25
42 23 0.48
43 3 0.06
44 6 0.12
45 4 0.08
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (41 bp):
AATTTAATTTAATAAAAAATTTAATTATTAAATATTAAATA
Found at i:585589 original size:5 final size:5
Alignment explanation
Indices: 585484--585570 Score: 54
Period size: 5 Copynumber: 17.2 Consensus size: 5
585474 TTTAATAAAA
* ** *
585484 AATTT AA-TT -ATTA AATATT AATTT AATTT AATTT AATAAA AAATT -ATTT
1 AATTT AATTT AATTT AAT-TT AATTT AATTT AATTT AAT-TT AATTT AATTT
* * *
585533 AAATTTT AATTT AAATA AATTT AATTT AATTT ATTTT A
1 -AA-TTT AATTT AATTT AATTT AATTT AATTT AATTT A
585571 TCTGTGAATA
Statistics
Matches: 62, Mismatches: 13, Indels: 14
0.70 0.15 0.16
Matches are distributed among these distances:
3 1 0.02
4 6 0.10
5 43 0.69
6 9 0.15
7 3 0.05
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (5 bp):
AATTT
Found at i:586073 original size:19 final size:19
Alignment explanation
Indices: 586049--586087 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
586039 TTGACTGTCG
586049 AGAAATTTTGAATTATTCT
1 AGAAATTTTGAATTATTCT
586068 AGAAATTTTGAATTATTCT
1 AGAAATTTTGAATTATTCT
586087 A
1 A
586088 TGTTCTTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.46
Consensus pattern (19 bp):
AGAAATTTTGAATTATTCT
Found at i:591857 original size:10 final size:10
Alignment explanation
Indices: 591832--591899 Score: 65
Period size: 10 Copynumber: 7.2 Consensus size: 10
591822 GCTAAGATAT
591832 AATATAA-AA
1 AATATAATAA
*
591841 AA-GTAATAA
1 AATATAATAA
591850 AATATAATAA
1 AATATAATAA
*
591860 AAAATAATACA
1 AATATAATA-A
591871 AATAT-A-AA
1 AATATAATAA
*
591879 AATATATTAA
1 AATATAATAA
591889 AAT-TAATAA
1 AATATAATAA
591898 AA
1 AA
591900 ATCTGATATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
8 9 0.19
9 14 0.29
10 20 0.42
11 5 0.10
ACGTcount: A:0.71, C:0.01, G:0.01, T:0.26
Consensus pattern (10 bp):
AATATAATAA
Found at i:591858 original size:23 final size:22
Alignment explanation
Indices: 591828--591878 Score: 70
Period size: 21 Copynumber: 2.3 Consensus size: 22
591818 TCCGGCTAAG
591828 ATATAATATAAAAAAGTAATA-AA
1 ATATAA-ATAAAAAA-TAATACAA
591851 ATAT-AATAAAAAATAATACAA
1 ATATAAATAAAAAATAATACAA
591872 ATATAAA
1 ATATAAA
591879 AATATATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 5 0.19
21 14 0.54
22 3 0.12
23 4 0.15
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (22 bp):
ATATAAATAAAAAATAATACAA
Found at i:591915 original size:39 final size:39
Alignment explanation
Indices: 591827--591922 Score: 99
Period size: 39 Copynumber: 2.4 Consensus size: 39
591817 ATCCGGCTAA
591827 GATATAATATAAAAA-AGTAATAAAATATAATAAAAAAT
1 GATATAATATAAAAATAGTAATAAAATATAATAAAAAAT
* * * *
591865 AATACAAATATAAAAATA-TATTAAAAT-TAATAAAAATCT
1 GATA-TAATATAAAAATAGTAATAAAATATAATAAAAA-AT
591904 GATATATATATAATAAATA
1 GATATA-ATATAA-AAATA
591923 ATATAAATGC
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
38 13 0.28
39 28 0.60
40 6 0.13
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (39 bp):
GATATAATATAAAAATAGTAATAAAATATAATAAAAAAT
Found at i:593780 original size:2 final size:2
Alignment explanation
Indices: 593773--593821 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
593763 TAAACCTCTT
593773 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
593815 TA TA TA T
1 TA TA TA T
593822 TAGGGTATCG
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:596392 original size:16 final size:16
Alignment explanation
Indices: 596371--596403 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
596361 AAATTCATAT
596371 TTTAAATTAAAT-TAAA
1 TTTAAA-TAAATATAAA
596387 TTTAAATAAATATAAA
1 TTTAAATAAATATAAA
596403 T
1 T
596404 AATATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTTAAATAAATATAAA
Found at i:596672 original size:29 final size:30
Alignment explanation
Indices: 596634--596690 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
596624 TTAGACATTC
* *
596634 TTAAATTAATTTAA-CAATA-ATTAATGTGT
1 TTAAAATAATCTAATCAATATA-TAATGTGT
596663 TTAAAATAATCTAATCAATATATAATGT
1 TTAAAATAATCTAATCAATATATAATGT
596691 TTACCTTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 12 0.50
30 11 0.46
31 1 0.04
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (30 bp):
TTAAAATAATCTAATCAATATATAATGTGT
Found at i:596856 original size:2 final size:2
Alignment explanation
Indices: 596851--596894 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
596841 TATGTGTGTG
596851 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
596893 TA
1 TA
596895 AATAAAAGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:598232 original size:11 final size:10
Alignment explanation
Indices: 598204--598245 Score: 54
Period size: 9 Copynumber: 4.5 Consensus size: 10
598194 GTTCGGATAT
598204 AATATA-AAA
1 AATATATAAA
598213 AATA-ATAAA
1 AATATATAAA
*
598222 AATATATTAA
1 AATATATAAA
598232 AAT-TATAAA
1 AATATATAAA
598241 AATAT
1 AATAT
598246 GATATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
8 1 0.04
9 19 0.68
10 8 0.29
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
AATATATAAA
Found at i:600060 original size:2 final size:2
Alignment explanation
Indices: 600053--600088 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
600043 CTCTATTTTC
* *
600053 AT AT AT AT AA AT AT AT AT AT 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 AT
600089 TTTAGGGTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:602239 original size:16 final size:17
Alignment explanation
Indices: 602202--602240 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
602192 TGCTCAAAAA
602202 ATAAATTTTAAATCAAAT
1 ATAAA-TTTAAATCAAAT
602220 -TAAATTTAAAT-AAAT
1 ATAAATTTAAATCAAAT
602235 ATAAAT
1 ATAAAT
602241 AATATTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 4 0.20
16 12 0.60
17 4 0.20
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAAATTTAAATCAAAT
Found at i:602677 original size:2 final size:2
Alignment explanation
Indices: 602670--602724 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
602660 GCTTTCATAC
*
602670 AT AT AT AT AC 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
602712 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
602725 AAAGAAAGTG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:604341 original size:19 final size:18
Alignment explanation
Indices: 604313--604348 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
604303 AATATTTAAA
*
604313 TTAATAAATATAAAATAT
1 TTAATAAATAAAAAATAT
604331 TTAATTAAATAAAAAATA
1 TTAA-TAAATAAAAAATA
604349 AATAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TTAATAAATAAAAAATAT
Found at i:604352 original size:23 final size:23
Alignment explanation
Indices: 604303--604350 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
604293 AATATATTTT
*
604303 AATATTTAAATTAATAAATATAA
1 AATATTTAAATTAATAAAAATAA
604326 AATATTT-AATTAAATAAAAAATAA
1 AATATTTAAATT-AAT-AAAAATAA
604350 A
1 A
604351 TAATTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 4 0.18
23 10 0.45
24 8 0.36
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (23 bp):
AATATTTAAATTAATAAAAATAA
Found at i:604354 original size:19 final size:19
Alignment explanation
Indices: 604317--604355 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
604307 TTTAAATTAA
* **
604317 TAAATATAAAATATTTAAT
1 TAAATAAAAAATAAATAAT
604336 TAAATAAAAAATAAATAAT
1 TAAATAAAAAATAAATAAT
604355 T
1 T
604356 TTTTAAAAGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAATAAAAAATAAATAAT
Found at i:609171 original size:2 final size:2
Alignment explanation
Indices: 609164--609191 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
609154 TGGAGACCAA
609164 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
609192 TATGTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:614321 original size:22 final size:21
Alignment explanation
Indices: 614292--614333 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
614282 AATAATTATA
614292 TAAATTAATTAAATTAAATTT
1 TAAATTAATTAAATTAAATTT
*
614313 TAAATTTAATTATATTAAATT
1 TAAA-TTAATTAAATTAAATT
614334 ATACTAGTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TAAATTAATTAAATTAAATTT
Found at i:615096 original size:23 final size:23
Alignment explanation
Indices: 615070--615122 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
615060 GATAATTTAA
615070 AATATTTTTAAATTTTT-TATATT
1 AATATTTTTAAATTTTTATA-ATT
* *
615093 AATATTTATATATTTTTATAATT
1 AATATTTTTAAATTTTTATAATT
615116 AA-ATTTT
1 AATATTTT
615123 AATTTAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 4 0.15
23 20 0.77
24 2 0.08
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
AATATTTTTAAATTTTTATAATT
Found at i:616443 original size:2 final size:2
Alignment explanation
Indices: 616436--616467 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
616426 TCGATGATCA
616436 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
616468 TGACGTATGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:617527 original size:26 final size:26
Alignment explanation
Indices: 617475--617528 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
617465 ATTCACGTTT
*
617475 AATATAATTTTAAATATTACAATAAA
1 AATATAATTTTAAATATTACAAAAAA
*
617501 AATATAATCTTTAAA-A-TATAAAAAA
1 AATATAAT-TTTAAATATTACAAAAAA
617526 AAT
1 AAT
617529 TAAAAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 10 0.40
26 9 0.36
27 6 0.24
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (26 bp):
AATATAATTTTAAATATTACAAAAAA
Found at i:622436 original size:39 final size:40
Alignment explanation
Indices: 622387--622468 Score: 121
Period size: 40 Copynumber: 2.1 Consensus size: 40
622377 CCTCTCATAA
* * *
622387 TGTGTCTTTGCATGCCT-GCTGACAGAGAGAAGAACTCAT
1 TGTGTCTTTGCATACCTGGCTGACAGAGACAAGAACACAT
*
622426 TGTGTCTTTGCATACCTGGCTGATAGAGACAAGAACACAT
1 TGTGTCTTTGCATACCTGGCTGACAGAGACAAGAACACAT
622466 TGT
1 TGT
622469 ATAAACATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
39 16 0.42
40 22 0.58
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (40 bp):
TGTGTCTTTGCATACCTGGCTGACAGAGACAAGAACACAT
Found at i:629317 original size:19 final size:17
Alignment explanation
Indices: 629295--629343 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
629285 TTTTAAATTT
629295 TATTTTATTATTTAAAATA
1 TATTTTATTA-TTAAAA-A
**
629314 TATTAAATTATTAAAAA
1 TATTTTATTATTAAAAA
629331 TATTTTA-TATTAA
1 TATTTTATTATTAA
629344 TAGTTATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 6 0.23
17 6 0.23
18 6 0.23
19 8 0.31
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATTTTATTATTAAAAA
Found at i:629967 original size:2 final size:2
Alignment explanation
Indices: 629947--630007 Score: 61
Period size: 2 Copynumber: 30.5 Consensus size: 2
629937 ATTTTTTTAA
* *
629947 AT AT TT AT AT TT A- AT AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
* * *
629989 AT TT AA AT AT AA AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
630008 AAAATATGAT
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
1 1 0.02
2 44 0.94
3 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:630005 original size:31 final size:33
Alignment explanation
Indices: 629952--630031 Score: 105
Period size: 31 Copynumber: 2.5 Consensus size: 33
629942 TTTAAATATT
* *
629952 TATATTTAATATATATATATATATATATATATGA
1 TATATTTAA-ATATATATATATATAAAAATATGA
629986 TATATTTAAATATA-A-ATATATAAAAATATGA
1 TATATTTAAATATATATATATATAAAAATATGA
630017 T-TATTTAAA-ATATAT
1 TATATTTAAATATATAT
630032 TTAATATTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
29 3 0.07
30 9 0.21
31 15 0.36
32 1 0.02
33 5 0.12
34 9 0.21
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (33 bp):
TATATTTAAATATATATATATATAAAAATATGA
Found at i:633162 original size:21 final size:20
Alignment explanation
Indices: 633128--633169 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
633118 CGACGACAGC
* *
633128 AGCAGAGGAGGTGGAGGAGG
1 AGCAGAGCAGGTGGAAGAGG
633148 AGCAGCAGCAGGTGGAAGAGG
1 AGCAG-AGCAGGTGGAAGAGG
633169 A
1 A
633170 AGAAGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.33, C:0.10, G:0.52, T:0.05
Consensus pattern (20 bp):
AGCAGAGCAGGTGGAAGAGG
Found at i:635626 original size:30 final size:30
Alignment explanation
Indices: 635588--635653 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
635578 CCTCCTTGGT
635588 ACAT-TTCTTATTCACATAGCTCAAACTCA
1 ACATGTTCTTATTCACATAGCTCAAACTCA
635617 ACATGTTCTTATTCACATAGCTCAAACTCA
1 ACATGTTCTTATTCACATAGCTCAAACTCA
635647 ACATGTT
1 ACATGTT
635654 AAGATATGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 4 0.11
30 32 0.89
ACGTcount: A:0.33, C:0.26, G:0.06, T:0.35
Consensus pattern (30 bp):
ACATGTTCTTATTCACATAGCTCAAACTCA
Found at i:643410 original size:5 final size:5
Alignment explanation
Indices: 643397--643434 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
643387 TAATAATTTA
*
643397 ATTAT -TTAT ATTAT ATTTT ATTAT ATTAT ATATAT ATT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT-TAT ATT
643435 TAAAATAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 4 0.14
5 20 0.69
6 5 0.17
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
ATTAT
Found at i:643414 original size:19 final size:21
Alignment explanation
Indices: 643392--643437 Score: 69
Period size: 19 Copynumber: 2.3 Consensus size: 21
643382 TACGATAATA
643392 ATTTAATTAT-TTATAT-TAT
1 ATTTAATTATATTATATATAT
*
643411 ATTTTATTATATTATATATAT
1 ATTTAATTATATTATATATAT
643432 ATTTAA
1 ATTTAA
643438 AATAATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 9 0.39
20 6 0.26
21 8 0.35
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTTAATTATATTATATATAT
Found at i:660955 original size:19 final size:19
Alignment explanation
Indices: 660909--660956 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
660899 TTAAATCTTA
660909 AATAAATTAAAATAAATAT
1 AATAAATTAAAATAAATAT
*
660928 AA-AATATTAAGAA-ATATAT
1 AATAA-ATTAA-AATAAATAT
660947 AATAAATTAA
1 AATAAATTAA
660957 TTTTAATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 2 0.08
19 19 0.76
20 4 0.16
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (19 bp):
AATAAATTAAAATAAATAT
Found at i:661285 original size:18 final size:19
Alignment explanation
Indices: 661255--661294 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
661245 ATCAGAAGTT
*
661255 AATTAAAAGAATAAAATTA
1 AATTAAAAGAATAAAATAA
661274 AATTAAAA-AATAAAATAA
1 AATTAAAAGAATAAAATAA
661292 AAT
1 AAT
661295 CATATATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (19 bp):
AATTAAAAGAATAAAATAA
Found at i:661346 original size:21 final size:21
Alignment explanation
Indices: 661321--661365 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
661311 CAAATTGGTA
*
661321 CAATCAATAAAGACTGATGTC
1 CAATCAATAAAGACTGATATC
661342 CAATCAATAAAGACTGATATC
1 CAATCAATAAAGACTGATATC
661363 CAA
1 CAA
661366 ACCGAAACGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.47, C:0.20, G:0.11, T:0.22
Consensus pattern (21 bp):
CAATCAATAAAGACTGATATC
Found at i:662677 original size:29 final size:29
Alignment explanation
Indices: 662643--662700 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
662633 CCAAACAGAT
662643 AAATAACCAAACATAAACCATCCAATCCA
1 AAATAACCAAACATAAACCATCCAATCCA
*
662672 AAATAACCAAGCATAAACCATCCAATCCA
1 AAATAACCAAACATAAACCATCCAATCCA
662701 TCATAGCATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.53, C:0.31, G:0.02, T:0.14
Consensus pattern (29 bp):
AAATAACCAAACATAAACCATCCAATCCA
Found at i:669816 original size:18 final size:18
Alignment explanation
Indices: 669793--669827 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
669783 AGTTCATTCA
669793 TATATTTATATTA-ATTTT
1 TATATTTA-ATTATATTTT
669811 TATATTTAATTATATTT
1 TATATTTAATTATATTT
669828 AAAATATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TATATTTAATTATATTTT
Found at i:670694 original size:2 final size:2
Alignment explanation
Indices: 670666--670717 Score: 61
Period size: 2 Copynumber: 26.5 Consensus size: 2
670656 ATCAAATAAT
* * * *
670666 TA TA T- TA TA TA TT TA TG TA TG TG 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
670707 TA TA TA TA TA T
1 TA TA TA TA TA T
670718 GTTTATATTA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (2 bp):
TA
Found at i:674915 original size:19 final size:19
Alignment explanation
Indices: 674891--674930 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
674881 TATTATTATC
*
674891 TAATTAA-ATTTATTTTAAT
1 TAATTAATA-TTATTTCAAT
674910 TAATTAATATTATTTCAAT
1 TAATTAATATTATTTCAAT
674929 TA
1 TA
674931 TGTTTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 18 0.95
20 1 0.05
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATTAATATTATTTCAAT
Found at i:676613 original size:19 final size:19
Alignment explanation
Indices: 676529--676617 Score: 69
Period size: 19 Copynumber: 4.6 Consensus size: 19
676519 TCTAAGCGTA
*
676529 ATTA-ATTTATATATTAAT
1 ATTATATTTATATATTTAT
*
676547 A-TACTATTTATAT-TTTTT
1 ATTA-TATTTATATATTTAT
*
676565 ATTATTATGTAATATAAATTT-T
1 ATTA-TAT-T--TATATATTTAT
*
676587 AATATATTTATATATTTAT
1 ATTATATTTATATATTTAT
676606 ATTATATTTATA
1 ATTATATTTATA
676618 ATATATTTTT
Statistics
Matches: 56, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
17 2 0.04
18 13 0.23
19 25 0.45
20 2 0.04
21 3 0.05
22 8 0.14
23 3 0.05
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (19 bp):
ATTATATTTATATATTTAT
Found at i:676625 original size:11 final size:11
Alignment explanation
Indices: 676596--676625 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
676586 TAATATATTT
676596 ATATATTTATA
1 ATATATTTATA
*
676607 TTATATTTATA
1 ATATATTTATA
676618 ATATATTT
1 ATATATTT
676626 TTAGATCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
ATATATTTATA
Found at i:677531 original size:31 final size:32
Alignment explanation
Indices: 677470--677533 Score: 85
Period size: 36 Copynumber: 1.9 Consensus size: 32
677460 TTTTTAATAT
677470 TAATTAATTTAATTTAAATTATTTTTTAAATAAGTA
1 TAATTAATTTAATTTAAATTA----TTAAATAAGTA
677506 TAATTAATTTAATTTAAATTA-TAAATAA
1 TAATTAATTTAATTTAAATTATTAAATAA
677534 TAATATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
31 7 0.25
36 21 0.75
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (32 bp):
TAATTAATTTAATTTAAATTATTAAATAAGTA
Found at i:678335 original size:15 final size:15
Alignment explanation
Indices: 678317--678346 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
678307 TTTTTTTATT
678317 TTTTTAAATATTTAA
1 TTTTTAAATATTTAA
678332 TTTTTAAATATTTAA
1 TTTTTAAATATTTAA
678347 ATATATATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTTTAAATATTTAA
Found at i:678695 original size:2 final size:2
Alignment explanation
Indices: 678688--678717 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
678678 CGGGTCAGGC
678688 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
678718 GTAACTTAAT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:679080 original size:2 final size:2
Alignment explanation
Indices: 679073--679101 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
679063 ATCTTATTCA
679073 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
679102 TTATATATAT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:687141 original size:26 final size:26
Alignment explanation
Indices: 687111--687162 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
687101 ATATTTTCTC
687111 ATTTACAATTTGTCACAGAGTTTTTG
1 ATTTACAATTTGTCACAGAGTTTTTG
* *
687137 ATTTACAATTTGTCGCAGATTTTTTG
1 ATTTACAATTTGTCACAGAGTTTTTG
687163 TCGTACTCAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.48
Consensus pattern (26 bp):
ATTTACAATTTGTCACAGAGTTTTTG
Found at i:689794 original size:3 final size:3
Alignment explanation
Indices: 689786--689815 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
689776 ATATTTTCAA
689786 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
689816 TCACACACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:690931 original size:11 final size:11
Alignment explanation
Indices: 690917--690987 Score: 62
Period size: 11 Copynumber: 6.8 Consensus size: 11
690907 AAATATTAAT
690917 ATAATATAAAA
1 ATAATATAAAA
690928 ATAAT-T-AAA
1 ATAATATAAAA
*
690937 ATAAAATATAAA
1 ATAATATA-AAA
* *
690949 TTATTATAAAA
1 ATAATATAAAA
*
690960 ATAATATAAAT
1 ATAATATAAAA
690971 AT-AT-TAAAA
1 ATAATATAAAA
690980 ATAA-ATAA
1 ATAATATAA
690988 TATAAATTAT
Statistics
Matches: 47, Mismatches: 8, Indels: 11
0.71 0.12 0.17
Matches are distributed among these distances:
9 13 0.28
10 8 0.17
11 18 0.38
12 8 0.17
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
ATAATATAAAA
Found at i:690940 original size:20 final size:20
Alignment explanation
Indices: 690906--690979 Score: 62
Period size: 20 Copynumber: 3.6 Consensus size: 20
690896 AATTTTAAAT
*
690906 AAAAT-ATTAATATAATATA
1 AAAATAATTAAAATAATATA
*
690925 AAAATAATTAAAATAAAATA
1 AAAATAATTAAAATAATATA
* *
690945 TAAATTATTATAAA-AATAATA
1 AAAATAATTA-AAATAAT-ATA
*
690966 TAAATATATTAAAA
1 AAAATA-ATTAAAA
690980 ATAAATAATA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
19 5 0.11
20 22 0.49
21 14 0.31
22 4 0.09
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATAATTAAAATAATATA
Found at i:690957 original size:32 final size:34
Alignment explanation
Indices: 690902--690969 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 34
690892 TTGTAATTTT
*
690902 AAATAAAATATTAATATAATATAAAAATAAT-TA
1 AAATAAAATATAAATATAATATAAAAATAATATA
*
690935 AAATAAAATATAAAT-TATTATAAAAATAATATA
1 AAATAAAATATAAATATAATATAAAAATAATATA
690968 AA
1 AA
690970 TATATTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (34 bp):
AAATAAAATATAAATATAATATAAAAATAATATA
Found at i:690971 original size:32 final size:32
Alignment explanation
Indices: 690900--690971 Score: 101
Period size: 32 Copynumber: 2.2 Consensus size: 32
690890 TTTTGTAATT
*
690900 TTAAATAAAATATTAATATAATATAAAAATAA
1 TTAAATAAAATATAAATATAATATAAAAATAA
*
690932 TTAAAATAAAATATAAAT-TATTATAAAAATAA
1 TT-AAATAAAATATAAATATAATATAAAAATAA
690964 TATAAATA
1 T-TAAATA
690972 TATTAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
32 21 0.58
33 15 0.42
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (32 bp):
TTAAATAAAATATAAATATAATATAAAAATAA
Found at i:690980 original size:20 final size:20
Alignment explanation
Indices: 690904--690991 Score: 78
Period size: 22 Copynumber: 4.5 Consensus size: 20
690894 GTAATTTTAA
*
690904 ATAAA-ATATT-AATATAAT
1 ATAAATATATTAAAAATAAT
* *
690922 ATAAAAATAATTAAAATAAAAT
1 ATAAATAT-ATTAAAA-ATAAT
690944 ATAAAT-TATTATAAAAATAAT
1 ATAAATATA-T-TAAAAATAAT
690965 ATAAATATATTAAAAATAA-
1 ATAAATATATTAAAAATAAT
690984 AT-AATATA
1 ATAAATATA
690992 AATTATTTAT
Statistics
Matches: 59, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
18 11 0.19
19 4 0.07
20 13 0.22
21 15 0.25
22 16 0.27
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
ATAAATATATTAAAAATAAT
Found at i:690996 original size:20 final size:20
Alignment explanation
Indices: 690917--690996 Score: 72
Period size: 20 Copynumber: 3.9 Consensus size: 20
690907 AAATATTAAT
*
690917 ATAATATAAAAATAATTAAAA
1 ATAATATAAATA-AATTAAAA
* * *
690938 TAAAATATAAATTATTATAAAA
1 -ATAATATAAATAAAT-TAAAA
*
690960 ATAATATAAATATATTAAAA
1 ATAATATAAATAAATTAAAA
690980 ATAA-ATAATATAAATTA
1 ATAATATAA-ATAAATTA
690997 TTTATTTATA
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
19 4 0.09
20 16 0.34
21 13 0.28
22 14 0.30
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
ATAATATAAATAAATTAAAA
Found at i:691008 original size:24 final size:22
Alignment explanation
Indices: 690941--691001 Score: 70
Period size: 24 Copynumber: 2.7 Consensus size: 22
690931 ATTAAAATAA
*
690941 AATATAAATTA-TTATAAAAAT
1 AATATAAATTATTTATATAAAT
* *
690962 AATATAAATATATTAAAAATAAAT
1 AATATAAAT-TATT-TATATAAAT
690986 AATATAAATTATTTAT
1 AATATAAATTATTTAT
691002 TTATAAAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
21 9 0.28
22 3 0.09
23 5 0.16
24 15 0.47
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
AATATAAATTATTTATATAAAT
Found at i:691988 original size:19 final size:19
Alignment explanation
Indices: 691966--692037 Score: 83
Period size: 19 Copynumber: 3.6 Consensus size: 19
691956 AGTTATGAAT
*
691966 ATAATTTTA-AATTTTTTTA
1 ATAATTTTATAA-TTATTTA
691985 ATAATTTTATAATTATTTA
1 ATAATTTTATAATTATTTA
692004 ATATATTTTATATATTATTTA
1 ATA-ATTTTATA-ATTATTTA
692025 ATTTAATTTTATA
1 A--TAATTTTATA
692038 TAAAAATAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
19 18 0.38
20 10 0.21
21 9 0.19
22 8 0.17
23 2 0.04
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
ATAATTTTATAATTATTTA
Found at i:692033 original size:22 final size:22
Alignment explanation
Indices: 691963--692039 Score: 92
Period size: 20 Copynumber: 3.7 Consensus size: 22
691953 TTTAGTTATG
*
691963 AATATAATTTTA-A-ATTTTTT
1 AATATAATTTTATATATTATTT
*
691983 TA-ATAATTTTATA-ATTATTT
1 AATATAATTTTATATATTATTT
692003 AATAT-ATTTTATATATTATTT
1 AATATAATTTTATATATTATTT
*
692024 AATTTAATTTTATATA
1 AATATAATTTTATATA
692040 AAAATAAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
19 9 0.18
20 17 0.35
21 13 0.27
22 10 0.20
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
AATATAATTTTATATATTATTT
Found at i:702531 original size:2 final size:2
Alignment explanation
Indices: 702524--702551 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
702514 CTGTGTTTGC
702524 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
702552 ATGTGAAAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:703494 original size:13 final size:14
Alignment explanation
Indices: 703476--703513 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
703466 AAATATTAAA
703476 TAATGAAATAT-TT
1 TAATGAAATATATT
703489 TAATGAAATATCATT
1 TAATGAAATAT-ATT
*
703504 TAATTAAATA
1 TAATGAAATA
703514 ATATAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.50
15 11 0.50
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (14 bp):
TAATGAAATATATT
Found at i:705135 original size:17 final size:16
Alignment explanation
Indices: 705101--705165 Score: 67
Period size: 17 Copynumber: 3.9 Consensus size: 16
705091 ATTTTTATTA
**
705101 TATTTAAATAAATTTT
1 TATTTAAATAAAAATT
705117 TATTTTAAATAAAAATT
1 TA-TTTAAATAAAAATT
* *
705134 TATTCATATTAAAAATT
1 TATTTA-AATAAAAATT
*
705151 TATTTAAATATAAAT
1 TATTTAAATAAAAAT
705166 AAAATTTTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
16 12 0.30
17 28 0.70
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
TATTTAAATAAAAATT
Found at i:705145 original size:21 final size:18
Alignment explanation
Indices: 705094--705168 Score: 57
Period size: 17 Copynumber: 4.0 Consensus size: 18
705084 ATTTTATATT
705094 TTTATTATATTTAAATAAA
1 TTTATTATA-TTAAATAAA
*
705113 TTT-TTATTTTAAATAAAAA
1 TTTATTATATTAAAT--AAA
705132 TTTATTCATATT-AA-AAA
1 TTTATT-ATATTAAATAAA
*
705149 TTTATTTAAATATAAATAAA
1 TTTA-TTATAT-TAAATAAA
705169 ATTTTTAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 15
0.71 0.05 0.24
Matches are distributed among these distances:
17 16 0.36
18 7 0.16
19 11 0.24
20 7 0.16
21 4 0.09
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTATTATATTAAATAAA
Found at i:705206 original size:28 final size:29
Alignment explanation
Indices: 705143--705220 Score: 81
Period size: 28 Copynumber: 2.7 Consensus size: 29
705133 TTATTCATAT
*
705143 TAAAAATTTATTTAAATATAAATAAAATTT
1 TAAAAATTTATTT-AATATAAATAAAATTA
* *
705173 TTAAAATTTATTTAATGT-AATAACAA-TA
1 TAAAAATTTATTTAATATAAATAA-AATTA
*
705201 TAAAAATTTAATTAA-ATAAA
1 TAAAAATTTATTTAATATAAA
705221 ATGTTAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
27 1 0.03
28 21 0.52
29 6 0.15
30 12 0.30
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (29 bp):
TAAAAATTTATTTAATATAAATAAAATTA
Found at i:705298 original size:3 final size:3
Alignment explanation
Indices: 705290--705329 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
705280 CATTCCATCT
705290 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
705330 CTTTTACTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Done.