Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold212
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: 1080337
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 6 of 10
Found at i:638665 original size:23 final size:23
Alignment explanation
Indices: 638639--638688 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
638629 AACTTTGAGA
*
638639 TAAATTTATTAAAATATT-TTATT
1 TAAATTAATT-AAATATTGTTATT
*
638662 TAAATTAATTAATTATTGTTATT
1 TAAATTAATTAAATATTGTTATT
638685 TAAA
1 TAAA
638689 AATATAATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
TAAATTAATTAAATATTGTTATT
Found at i:638957 original size:25 final size:24
Alignment explanation
Indices: 638924--638986 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 24
638914 TAAATTATTT
638924 TTAAA-TAAAAATAACATA-ATAAA
1 TTAAATTAAAAATAACATATAT-AA
* *
638947 TTAATATTAAAATTAATATATATAA
1 TTAA-ATTAAAAATAACATATATAA
638972 TTAAATTAAAAATAA
1 TTAAATTAAAAATAA
638987 ATCTAAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
23 4 0.12
24 11 0.32
25 17 0.50
26 2 0.06
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (24 bp):
TTAAATTAAAAATAACATATATAA
Found at i:640666 original size:27 final size:27
Alignment explanation
Indices: 640618--640669 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
640608 TTTGATTTTA
* *
640618 AAATTTTTAAAATAGATTAAATTAAAT
1 AAATTTATAAAATAGATCAAATTAAAT
640645 AAATTTATAAAATTA-ATCAAATTAA
1 AAATTTATAAAA-TAGATCAAATTAA
640670 TTATTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (27 bp):
AAATTTATAAAATAGATCAAATTAAAT
Found at i:641471 original size:30 final size:32
Alignment explanation
Indices: 641426--641488 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
641416 AAAAAATTTA
* *
641426 ATTATTTAGATTAATATAA-TTTTATTTAAATT
1 ATTATTTA-ATTAATAAAATTTTTATTAAAATT
641458 ATTATTT-ATTAATAAAATTTTTATTAAAATT
1 ATTATTTAATTAATAAAATTTTTATTAAAATT
641489 TAAATATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 9 0.32
31 12 0.43
32 7 0.25
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (32 bp):
ATTATTTAATTAATAAAATTTTTATTAAAATT
Found at i:641510 original size:26 final size:26
Alignment explanation
Indices: 641471--641521 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
641461 ATTTATTAAT
641471 AAAATTTTTATTAAAATTTAAATATA
1 AAAATTTTTATTAAAATTTAAATATA
*
641497 AAAATATTTT-TTAATATTTAAATAT
1 AAAAT-TTTTATTAAAATTTAAATAT
641522 TATTTAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
AAAATTTTTATTAAAATTTAAATATA
Found at i:641536 original size:18 final size:19
Alignment explanation
Indices: 641486--641536 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
641476 TTTTATTAAA
*
641486 ATTTAAATATAAAAATATT
1 ATTTAAATATATAAATATT
* *
641505 -TTTTAATATTTAAATATT
1 ATTTAAATATATAAATATT
641523 ATTTAAATA-ATAAA
1 ATTTAAATATATAAA
641537 ATAAGTTATT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 19 0.73
19 7 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTTAAATATATAAATATT
Found at i:641602 original size:16 final size:17
Alignment explanation
Indices: 641581--641614 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
641571 TTAAATTTAA
641581 ATAATTTT-TTTAAATT
1 ATAATTTTATTTAAATT
641597 ATAATTTTATTTAAATT
1 ATAATTTTATTTAAATT
641614 A
1 A
641615 AAATAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATAATTTTATTTAAATT
Found at i:641784 original size:2 final size:2
Alignment explanation
Indices: 641779--641813 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
641769 TTTCCTCCAT
641779 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G- GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
641814 AATCCCCAAG
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:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:642916 original size:7 final size:7
Alignment explanation
Indices: 642906--642930 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
642896 AGAAAAGGAA
642906 AAAGGGC
1 AAAGGGC
642913 AAAGGGC
1 AAAGGGC
642920 AAAGGGC
1 AAAGGGC
642927 AAAG
1 AAAG
642931 ATAATCACTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.12, G:0.40, T:0.00
Consensus pattern (7 bp):
AAAGGGC
Found at i:644400 original size:17 final size:17
Alignment explanation
Indices: 644329--644401 Score: 64
Period size: 17 Copynumber: 4.5 Consensus size: 17
644319 TTTTATAATC
*
644329 ATATTTAATATTATATAT
1 ATATTTAATA-TATTTAT
* *
644347 ATTTTTAATATATTAAT
1 ATATTTAATATATTTAT
644364 A-ATTTAAT-TA--TAT
1 ATATTTAATATATTTAT
*
644377 AAATTTAATATATTTAT
1 ATATTTAATATATTTAT
*
644394 ATGTTTAA
1 ATATTTAA
644402 AATTATTGAT
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
13 3 0.07
14 7 0.16
15 4 0.09
16 6 0.14
17 15 0.34
18 9 0.20
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (17 bp):
ATATTTAATATATTTAT
Found at i:644764 original size:22 final size:21
Alignment explanation
Indices: 644734--644775 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
644724 AACAATTCTA
644734 AATATAATAATAAA-ATTATTC
1 AATATAAT-ATAAAGATTATTC
644755 AATATTAATATAAAGATTATT
1 AATA-TAATATAAAGATTATT
644776 ATTTAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
AATATAATATAAAGATTATTC
Found at i:650311 original size:21 final size:22
Alignment explanation
Indices: 650287--650332 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
650277 AATATTAAAT
650287 AAAATATAAA-ATTTATT-TTAA
1 AAAATATAAATATTT-TTATTAA
*
650308 AAAATTTAAATATTTTTATTAA
1 AAAATATAAATATTTTTATTAA
650330 AAA
1 AAA
650333 TTTAAATCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAATATAAATATTTTTATTAA
Found at i:650660 original size:37 final size:37
Alignment explanation
Indices: 650619--650693 Score: 109
Period size: 37 Copynumber: 2.0 Consensus size: 37
650609 AAAATAATAT
650619 TAAAAA-ATTTATATTAATATTTATAAT-TAAATTTAAA
1 TAAAAATATTT-TATTAATATTTA-AATATAAATTTAAA
*
650656 TAAAAATATTTTATTATTATTTAAATATAAATTTAAA
1 TAAAAATATTTTATTAATATTTAAATATAAATTTAAA
650693 T
1 T
650694 TTATATGAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
36 3 0.09
37 28 0.80
38 4 0.11
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (37 bp):
TAAAAATATTTTATTAATATTTAAATATAAATTTAAA
Found at i:651615 original size:3 final size:3
Alignment explanation
Indices: 651607--651631 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
651597 ACCTCGTAAC
651607 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
651632 TTCATTAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:653005 original size:17 final size:18
Alignment explanation
Indices: 652963--653019 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 18
652953 AATAAAATTT
*
652963 AAATTTTAAATTTTATAAA
1 AAATTTT-AATATTATAAA
652982 AAA--TTAATATTA-AAA
1 AAATTTTAATATTATAAA
*
652997 AAATTTTAAT-TTCATAAT
1 AAATTTTAATATT-ATAAA
653015 AAATT
1 AAATT
653020 AATTTAACTC
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
15 6 0.19
16 8 0.25
17 8 0.25
18 7 0.22
19 3 0.09
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATTTTAATATTATAAA
Found at i:653034 original size:33 final size:34
Alignment explanation
Indices: 652963--653026 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
652953 AATAAAATTT
*
652963 AAATTTTAAATTTTATAAAAAATTAATATTAAAA
1 AAATTTTAAATTTCATAAAAAATTAATATTAAAA
*
652997 AAATTTT-AATTTCATAATAAATTAAT-TTAA
1 AAATTTTAAATTTCATAAAAAATTAATATTAA
653027 CTCAAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 4 0.14
33 17 0.61
34 7 0.25
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (34 bp):
AAATTTTAAATTTCATAAAAAATTAATATTAAAA
Found at i:653039 original size:20 final size:20
Alignment explanation
Indices: 653014--653059 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
653004 AATTTCATAA
653014 TAAATTAATTTA-ACTCAAAT
1 TAAATTAA-TTAGACTCAAAT
*
653034 TAAATTAATTAGACTCGAAT
1 TAAATTAATTAGACTCAAAT
653054 TAAATT
1 TAAATT
653060 TCAACCCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (20 bp):
TAAATTAATTAGACTCAAAT
Found at i:653212 original size:16 final size:16
Alignment explanation
Indices: 653162--653206 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 16
653152 TATATTTGAT
* *
653162 AATATTAAATATAATA
1 AATATTATATAAAATA
*
653178 TA-ATTATATAAAATA
1 AATATTATATAAAATA
653193 AATATTATATAAAA
1 AATATTATATAAAA
653207 ATAATAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AATATTATATAAAATA
Found at i:653248 original size:27 final size:28
Alignment explanation
Indices: 653207--653274 Score: 86
Period size: 27 Copynumber: 2.4 Consensus size: 28
653197 TTATATAAAA
*
653207 ATAATA-AAAATAATTATAAAATATGAT
1 ATAATATAAAATAATTAAAAAATATGAT
653234 ATAATATAAAA-AATTAAAAAATATGAT
1 ATAATATAAAATAATTAAAAAATATGAT
*
653261 GTAAATATATAAAT
1 AT-AATATA-AAAT
653275 TTCTGAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 22 0.63
28 10 0.29
29 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.32
Consensus pattern (28 bp):
ATAATATAAAATAATTAAAAAATATGAT
Found at i:653267 original size:38 final size:37
Alignment explanation
Indices: 653183--653305 Score: 101
Period size: 38 Copynumber: 3.2 Consensus size: 37
653173 TAATATAATT
* *
653183 ATATAAA-ATA-AATATTATATAAAAATAATAAAAATAATT
1 ATATAAATATATAA-ATTATA-AAAAATTA-AAAAAT-ATG
653222 ATA-AAATATGATATAA-TATAAAAAATTAAAAAATATG
1 ATATAAATAT-ATA-AATTATAAAAAATTAAAAAATATG
* * * *
653259 ATGTAAATATATAAATTTCTGAAAAATTAAAAACTATG
1 ATATAAATATATAAA-TTATAAAAAATTAAAAAATATG
653297 ATATAAATA
1 ATATAAATA
653306 AAATTATAGC
Statistics
Matches: 70, Mismatches: 7, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
36 2 0.03
37 7 0.10
38 41 0.59
39 12 0.17
40 5 0.07
41 2 0.03
42 1 0.01
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.33
Consensus pattern (37 bp):
ATATAAATATATAAATTATAAAAAATTAAAAAATATG
Found at i:653678 original size:9 final size:10
Alignment explanation
Indices: 653644--653676 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
653634 CCAATTTAAT
*
653644 TATTT-AAAT
1 TATTTAAAAA
653653 TATTTAAAAA
1 TATTTAAAAA
653663 TATTTAAAAA
1 TATTTAAAAA
653673 TATT
1 TATT
653677 AATAATAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 5 0.23
10 17 0.77
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
TATTTAAAAA
Found at i:654029 original size:19 final size:17
Alignment explanation
Indices: 654005--654043 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
653995 AGATCTATCA
654005 ATTTATATATTTATATTAT
1 ATTTATATATTT-TATT-T
*
654024 ATTTATGTATTTTATTT
1 ATTTATATATTTTATTT
654041 ATT
1 ATT
654044 ATAATAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 4 0.21
19 11 0.58
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
ATTTATATATTTTATTT
Found at i:654804 original size:16 final size:16
Alignment explanation
Indices: 654771--654821 Score: 61
Period size: 15 Copynumber: 3.2 Consensus size: 16
654761 TATTCAGATT
*
654771 TTTTAGATTT-AATCA
1 TTTTAGATTTAAATTA
654786 TTTTAGATTTAAATTA
1 TTTTAGATTTAAATTA
*
654802 -TTTCGAGTTTAAATTA
1 TTTTAGA-TTTAAATTA
654818 TTTT
1 TTTT
654822 CGGGTTGTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 15 0.48
16 13 0.42
17 3 0.10
ACGTcount: A:0.31, C:0.04, G:0.08, T:0.57
Consensus pattern (16 bp):
TTTTAGATTTAAATTA
Found at i:655958 original size:18 final size:18
Alignment explanation
Indices: 655910--655959 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
655900 AATATTTTTT
*
655910 ATATATTAATTTTAGTTA
1 ATATATTAATTATAGTTA
* *
655928 ATATATTATTTATA-TTG
1 ATATATTAATTATAGTTA
655945 ATGATATTAATTATA
1 AT-ATATTAATTATA
655960 ATAGTTTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (18 bp):
ATATATTAATTATAGTTA
Found at i:658113 original size:3 final size:3
Alignment explanation
Indices: 658105--658152 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
658095 AGCATAAACG
658105 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
658153 AGGAAAAATA
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:659654 original size:13 final size:13
Alignment explanation
Indices: 659636--659666 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
659626 TTTTTAATCT
659636 AATATTCTTTAAA
1 AATATTCTTTAAA
659649 AATATTCTTTAAA
1 AATATTCTTTAAA
659662 AATAT
1 AATAT
659667 ATATTTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (13 bp):
AATATTCTTTAAA
Found at i:660079 original size:20 final size:20
Alignment explanation
Indices: 660040--660084 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
660030 ATATAAGGAC
*
660040 AAAATTATAATTATAATAAT
1 AAAATTATAATTAAAATAAT
660060 AAAATTA-AATTAAAAGTAAT
1 AAAATTATAATTAAAA-TAAT
*
660080 TAAAT
1 AAAAT
660085 CTTTTAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
AAAATTATAATTAAAATAAT
Found at i:661263 original size:2 final size:2
Alignment explanation
Indices: 661251--661308 Score: 66
Period size: 2 Copynumber: 29.5 Consensus size: 2
661241 GCAACATAGA
* * *
661251 AT AT GT AT AT AT AT AT AT AT AT AC AT AG A- AT GA- 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
661292 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
661309 CACATAGATG
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
1 2 0.04
2 45 0.94
3 1 0.02
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (2 bp):
AT
Found at i:665701 original size:20 final size:20
Alignment explanation
Indices: 665656--665702 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
665646 TTTATAACTA
*
665656 AAATTAAATAATAAATATTT
1 AAATTAAAAAATAAATATTT
**
665676 TTATTAAAAAAT-AATAATTT
1 AAATTAAAAAATAAAT-ATTT
665696 AAATTAA
1 AAATTAA
665703 TTTTATATTT
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AAATTAAAAAATAAATATTT
Found at i:666039 original size:27 final size:29
Alignment explanation
Indices: 665986--666040 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 29
665976 TACCTATAAT
*
665986 ATATATATATATATATTGAAAGTATAAAA
1 ATATATATATATATATTCAAAGTATAAAA
666015 ATATATATA-ATAT-TTCAAGAG-ATAAA
1 ATATATATATATATATTCAA-AGTATAAA
666041 TTATAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 9 0.38
28 6 0.25
29 9 0.38
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (29 bp):
ATATATATATATATATTCAAAGTATAAAA
Found at i:666218 original size:13 final size:13
Alignment explanation
Indices: 666202--666254 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
666192 TAAAAATTTT
666202 AAATATAATATAA
1 AAATATAATATAA
666215 AAATATAATAT--
1 AAATATAATATAA
*
666226 AAATATAACATAA
1 AAATATAATATAA
*
666239 TCAATA-AATATAA
1 -AAATATAATATAA
666252 AAA
1 AAA
666255 CGATATAACA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
11 10 0.30
12 2 0.06
13 17 0.52
14 4 0.12
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATATAATATAA
Found at i:666226 original size:18 final size:17
Alignment explanation
Indices: 666203--666254 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
666193 AAAAATTTTA
*
666203 AATATAATATAAAAATAT
1 AATATAATATAAAAAT-C
666221 AATATAAATATAACATAATC
1 AATAT-AATATAA-A-AATC
666241 AATA-AATATAAAAA
1 AATATAATATAAAAA
666255 CGATATAACA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
16 2 0.07
17 1 0.03
18 12 0.40
19 7 0.23
20 5 0.17
21 3 0.10
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (17 bp):
AATATAATATAAAAATC
Found at i:666228 original size:24 final size:24
Alignment explanation
Indices: 666201--666252 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
666191 TTAAAAATTT
*
666201 TAAATATAATATAA-AAATATAATA
1 TAAATATAACATAATAAATA-AATA
*
666225 TAAATATAACATAATCAATAAATA
1 TAAATATAACATAATAAATAAATA
666249 TAAA
1 TAAA
666253 AACGATATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 21 0.84
25 4 0.16
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (24 bp):
TAAATATAACATAATAAATAAATA
Found at i:666527 original size:22 final size:23
Alignment explanation
Indices: 666486--666529 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
666476 AAATATGCTT
* *
666486 TTTTATATATAAATACATTAATA
1 TTTTATACATAAATAAATTAATA
666509 TTTTATACA-AAATAAATTAAT
1 TTTTATACATAAATAAATTAAT
666530 TTTATTCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (23 bp):
TTTTATACATAAATAAATTAATA
Found at i:667621 original size:2 final size:2
Alignment explanation
Indices: 667614--667659 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
667604 ATCTCCAGTA
*
667614 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC CC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
667656 TC TC
1 TC TC
667660 GGTTTCCCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:672281 original size:35 final size:33
Alignment explanation
Indices: 672235--672303 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 33
672225 ATTTGAGTTG
* *
672235 ATTTAATTTTAATTATTATATAAATAATAATTTTT
1 ATTTAAATTTAA-TATTA-ATAAAAAATAATTTTT
*
672270 ATTTAAATTTAATATTAATAAAAAATTATTTTT
1 ATTTAAATTTAATATTAATAAAAAATAATTTTT
672303 A
1 A
672304 AAATAATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 15 0.48
34 5 0.16
35 11 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (33 bp):
ATTTAAATTTAATATTAATAAAAAATAATTTTT
Found at i:673091 original size:18 final size:17
Alignment explanation
Indices: 673068--673106 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
673058 TTAAAAATTA
673068 TTTA-TTTATTTTTAATAT
1 TTTATTTTA-TTTTAA-AT
673086 TTTATTTTATTTTAAAT
1 TTTATTTTATTTTAAAT
673103 TTTA
1 TTTA
673107 AAAAATATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 6 0.30
18 10 0.50
19 4 0.20
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTATTTTATTTTAAAT
Found at i:678327 original size:33 final size:33
Alignment explanation
Indices: 678283--678353 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
678273 GACGTAAATG
*
678283 CTGAAAGTTGAAGTCAGACCTGTTGAATACCAA
1 CTGAAAGTTGAACTCAGACCTGTTGAATACCAA
*
678316 CTGAAATTTGAACTCAGACCTGTTGAATACCAA
1 CTGAAAGTTGAACTCAGACCTGTTGAATACCAA
678349 CTGAA
1 CTGAA
678354 CTAAGTTTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.25
Consensus pattern (33 bp):
CTGAAAGTTGAACTCAGACCTGTTGAATACCAA
Found at i:678485 original size:3 final size:3
Alignment explanation
Indices: 678477--678502 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
678467 TAGTTGTGTG
678477 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
678503 TTGGGTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:680006 original size:14 final size:14
Alignment explanation
Indices: 679964--680007 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
679954 TTCACATTTT
679964 TTTTACATAATTAAGA
1 TTTTA-ATAATTAA-A
* *
679980 TTGTAAAAATTAAA
1 TTTTAATAATTAAA
679994 TTTTAATAATTAAA
1 TTTTAATAATTAAA
680008 ATTAAAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 13 0.54
15 7 0.29
16 4 0.17
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (14 bp):
TTTTAATAATTAAA
Found at i:680025 original size:29 final size:30
Alignment explanation
Indices: 679964--680027 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
679954 TTCACATTTT
*
679964 TTTTACATAATTAAGATTGTAAAAATTAAA
1 TTTTACATAATTAAGAATGTAAAAATTAAA
679994 TTTTA-ATAATTAA-AAT-TAAAAATTTAATA
1 TTTTACATAATTAAGAATGTAAAAA-TTAA-A
680023 TTTTA
1 TTTTA
680028 TCAGCTGATC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
27 6 0.19
28 6 0.19
29 14 0.45
30 5 0.16
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (30 bp):
TTTTACATAATTAAGAATGTAAAAATTAAA
Found at i:680135 original size:3 final size:3
Alignment explanation
Indices: 680127--680159 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
680117 TTTGTTAGGA
680127 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
680160 GATAACATGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:680307 original size:32 final size:33
Alignment explanation
Indices: 680270--680341 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 33
680260 TAATATGTAT
* *
680270 ATATAAATGATGAATATCTTAAAATTTATAT-A
1 ATATAAATGATGAATATATCAAAATTTATATAA
* * * *
680302 ATATAAATTATTAATGTATCAAATTTTATATAA
1 ATATAAATGATGAATATATCAAAATTTATATAA
680335 ATATAAA
1 ATATAAA
680342 AATATTAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
32 25 0.76
33 8 0.24
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.42
Consensus pattern (33 bp):
ATATAAATGATGAATATATCAAAATTTATATAA
Found at i:680988 original size:16 final size:16
Alignment explanation
Indices: 680967--681022 Score: 51
Period size: 16 Copynumber: 3.2 Consensus size: 16
680957 TGGGTTTAAG
680967 GAAGAAAGAAAGCAGA
1 GAAGAAAGAAAGCAGA
680983 GAAGAAACG-AAGCAGA
1 GAAGAAA-GAAAGCAGA
*
680999 GGAAGGGAAGAAACGCAGCA
1 -GAA-GAAAGAAA-GCAG-A
681019 GAAG
1 GAAG
681023 CAGAGAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
16 14 0.42
17 5 0.15
18 6 0.18
19 7 0.21
20 1 0.03
ACGTcount: A:0.54, C:0.11, G:0.36, T:0.00
Consensus pattern (16 bp):
GAAGAAAGAAAGCAGA
Found at i:681045 original size:22 final size:22
Alignment explanation
Indices: 681017--681073 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
681007 AGAAACGCAG
681017 CAGAAGCAGAGAAAAATC-AAA
1 CAGAAGCAGAGAAAAATCGAAA
* *
681038 GCTGAAGCAAAGAAAAATCGAAA
1 -CAGAAGCAGAGAAAAATCGAAA
681061 CAGAAGCAGAGAA
1 CAGAAGCAGAGAA
681074 GACATGCACA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 27 0.90
23 3 0.10
ACGTcount: A:0.58, C:0.14, G:0.23, T:0.05
Consensus pattern (22 bp):
CAGAAGCAGAGAAAAATCGAAA
Found at i:686323 original size:43 final size:41
Alignment explanation
Indices: 686242--686324 Score: 96
Period size: 43 Copynumber: 2.0 Consensus size: 41
686232 TAAAAATTAT
* * * *
686242 TAAAATTTATATAATATAAATTATTATTATTATTATTATAG
1 TAAAATTTAAATAATATAAATTATTATAAATATAATTATAG
686283 TAAAATTTTAAATAAATATATAA-TATTATAAATATAATTATA
1 TAAAA-TTTAAAT-AATATA-AATTATTATAAATATAATTATA
686325 ATACGTAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
41 5 0.14
42 6 0.17
43 22 0.63
44 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (41 bp):
TAAAATTTAAATAATATAAATTATTATAAATATAATTATAG
Found at i:686620 original size:42 final size:40
Alignment explanation
Indices: 686573--686713 Score: 96
Period size: 40 Copynumber: 3.5 Consensus size: 40
686563 AATATATTTT
*
686573 ATTATATTTTA-ATTATTTTATATTTAGATAAATT-TTTATATA
1 ATTATATTTTATATTATATTA-ATTT---TAAATTATTTATATA
* *
686615 ATTATAATTTATGTTATATTAATTTTAAATTATTTATATA
1 ATTATATTTTATATTATATTAATTTTAAATTATTTATATA
* * * *
686655 TTTATATTATT-T-TTATATTATTATATTATATTATAT-TATA
1 ATTATATT-TTATATTATATTA--ATTTTAAATTATTTATATA
*
686695 ATTAGT-TTTAATATTATAT
1 ATTA-TATTTTATATTATAT
686714 AAATATAATT
Statistics
Matches: 81, Mismatches: 10, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
39 15 0.19
40 25 0.31
41 20 0.25
42 14 0.17
43 7 0.09
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (40 bp):
ATTATATTTTATATTATATTAATTTTAAATTATTTATATA
Found at i:686623 original size:17 final size:18
Alignment explanation
Indices: 686603--686698 Score: 67
Period size: 17 Copynumber: 5.3 Consensus size: 18
686593 TATTTAGATA
686603 AATT-TTTATATAATTAT
1 AATTATTTATATAATTAT
*
686620 AATTTATGTTATATTAATTTT
1 AA-TTAT-TTATA-TAATTAT
*
686641 AAATTATTTATATATTTAT
1 -AATTATTTATATAATTAT
*
686660 -ATTATTTTTAT-ATTAT
1 AATTATTTATATAATTAT
*
686676 TA-TA-TTATATTATATTAT
1 AATTATTTATA-TA-ATTAT
686694 AATTA
1 AATTA
686699 GTTTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
15 4 0.06
16 7 0.11
17 13 0.21
18 8 0.13
19 8 0.13
20 10 0.16
21 10 0.16
22 2 0.03
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (18 bp):
AATTATTTATATAATTAT
Found at i:686649 original size:59 final size:57
Alignment explanation
Indices: 686565--686694 Score: 165
Period size: 59 Copynumber: 2.2 Consensus size: 57
686555 GGCTTATAAA
*
686565 TATATTTTATTATATTTTAATTATTT-TATATTTAGATAAATTTTTATATAATTATAATT
1 TATATTATATTATATTTTAATTATTTATATATTTAGAT-AATTTTTATATAATTAT-A-T
* * * *
686624 TATGTTATATTA-ATTTTAAATTATTTATATATTTATATTATTTTTATATTATTATAT
1 TATATTATATTATATTTT-AATTATTTATATATTTAGATAATTTTTATATAATTATAT
686681 TATATTATATTATA
1 TATATTATATTATA
686695 ATTAGTTTTA
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
57 12 0.19
58 7 0.11
59 33 0.53
60 10 0.16
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (57 bp):
TATATTATATTATATTTTAATTATTTATATATTTAGATAATTTTTATATAATTATAT
Found at i:687180 original size:21 final size:22
Alignment explanation
Indices: 687139--687186 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
687129 ATAAAATTTT
* *
687139 AATAAAATAATTATGTTATAAA
1 AATAAAATAAATATATTATAAA
*
687161 AATAAAATAAATA-ATTATAAC
1 AATAAAATAAATATATTATAAA
687182 AATAA
1 AATAA
687187 TTTAATTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (22 bp):
AATAAAATAAATATATTATAAA
Found at i:687896 original size:19 final size:20
Alignment explanation
Indices: 687872--687913 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
687862 AATATTTAAT
687872 AAATA-TTATAATTATATAA
1 AAATATTTATAATTATATAA
*
687891 AAATATTTTATATTTATATAA
1 AAATA-TTTATAATTATATAA
687912 AA
1 AA
687914 TTTAATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
21 15 0.75
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATATTTATAATTATATAA
Found at i:688205 original size:21 final size:21
Alignment explanation
Indices: 688174--688227 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
688164 ATTAATATAT
688174 TTTTA-ATATTTAAAA-AATA
1 TTTTATATATTTAAAAGAATA
*
688193 TTTTAATATATTTAAAAGATTA
1 TTTT-ATATATTTAAAAGAATA
*
688215 TTTTTTATATTTA
1 TTTTATATATTTA
688228 TATTTAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.13
20 1 0.03
21 18 0.60
22 7 0.23
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
TTTTATATATTTAAAAGAATA
Found at i:688251 original size:27 final size:27
Alignment explanation
Indices: 688199--688251 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
688189 AATATTTTAA
* **
688199 TATATTTAAAAGATTATTTTTTATATT
1 TATATTTAAAAGATTATATTAAATATT
688226 TATATTTAAAA-ATATATATTAAATAT
1 TATATTTAAAAGAT-TATATTAAATAT
688252 AAATATTAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 2 0.09
27 20 0.91
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (27 bp):
TATATTTAAAAGATTATATTAAATATT
Found at i:688446 original size:10 final size:11
Alignment explanation
Indices: 688431--688462 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
688421 TATTTATATT
688431 TTAAA-TTAAA
1 TTAAATTTAAA
688441 TTAAATTTAAA
1 TTAAATTTAAA
688452 -TAAATTTAAA
1 TTAAATTTAAA
688462 T
1 T
688463 CATATTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 15 0.75
11 5 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:688449 original size:16 final size:16
Alignment explanation
Indices: 688430--688462 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
688420 ATATTTATAT
688430 TTTAAATTAAA-TTAAA
1 TTTAAA-TAAATTTAAA
688446 TTTAAATAAATTTAAA
1 TTTAAATAAATTTAAA
688462 T
1 T
688463 CATATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTTAAATAAATTTAAA
Found at i:689422 original size:27 final size:28
Alignment explanation
Indices: 689332--689428 Score: 76
Period size: 27 Copynumber: 3.5 Consensus size: 28
689322 AACCGTCTGA
* *
689332 ATTTTTAAAATTT-TTTTACATAATTTAAT
1 ATTTTAAAAATTTATTTT--ATTATTTAAT
* *
689361 -TTTTATAAATTTATTTTATTATTTAAAA
1 ATTTTAAAAATTTATTTTATTATTT-AAT
*
689389 ATATTAAAAATTTA-TTT-TTATATTAAT
1 ATTTTAAAAATTTATTTTATTAT-TTAAT
*
689416 ATTTTAATAATTT
1 ATTTTAAAAATTT
689429 TTATAATTAA
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
27 23 0.42
28 17 0.31
29 15 0.27
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (28 bp):
ATTTTAAAAATTTATTTTATTATTTAAT
Found at i:689431 original size:29 final size:29
Alignment explanation
Indices: 689399--689463 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
689389 ATATTAAAAA
* * **
689399 TTTATTTTTATATTAATATTTTAATAATT
1 TTTATTTTTAAATTAAAATTAAAATAATT
**
689428 TTTATAATTAAATTAAAATTAAAATAATT
1 TTTATTTTTAAATTAAAATTAAAATAATT
689457 TTTATTT
1 TTTATTT
689464 AATAAATAAT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (29 bp):
TTTATTTTTAAATTAAAATTAAAATAATT
Found at i:689474 original size:27 final size:28
Alignment explanation
Indices: 689421--689475 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
689411 TTAATATTTT
*
689421 AATAATTTTTATAATTAAATTAAAATTAA
1 AATAATTTTTAT-ATTAAATAAAAATTAA
689450 AATAATTTTTAT-TT-AATAAATAATTA
1 AATAATTTTTATATTAAATAAA-AATTA
689476 TTTAAATCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 5 0.21
27 7 0.29
29 12 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
AATAATTTTTATATTAAATAAAAATTAA
Found at i:689714 original size:13 final size:13
Alignment explanation
Indices: 689696--689743 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
689686 TAAAATTTAA
689696 ATATAATTATAAT
1 ATATAATTATAAT
*
689709 ATATAAAATATAAAT
1 ATAT-AATTAT-AAT
* *
689724 ATATAATAAAAAT
1 ATATAATTATAAT
689737 ATATAAT
1 ATATAAT
689744 AAAAATGTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 14 0.48
14 8 0.28
15 7 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATATAATTATAAT
Found at i:689715 original size:26 final size:28
Alignment explanation
Indices: 689672--689726 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 28
689662 AAATAATAAA
* *
689672 AATTATTAATGTATTAAAATTTAAATAT
1 AATTATTAATATATTAAAATATAAATAT
689700 AATTA-TAATATA-TAAAATATAAATAT
1 AATTATTAATATATTAAAATATAAATAT
689726 A
1 A
689727 TAATAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 14 0.56
27 6 0.24
28 5 0.20
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (28 bp):
AATTATTAATATATTAAAATATAAATAT
Found at i:689719 original size:20 final size:19
Alignment explanation
Indices: 689694--689744 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
689684 ATTAAAATTT
*
689694 AAATATAATTATA-ATATATA
1 AAATATAAATATATA-ATA-A
689714 AAATATAAATATATAATAA
1 AAATATAAATATATAATAA
689733 AAATATATAATA
1 AAATATA-AATA
689745 AAAATGTACA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 8 0.29
20 19 0.68
21 1 0.04
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
AAATATAAATATATAATAA
Found at i:689726 original size:15 final size:15
Alignment explanation
Indices: 689706--689763 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 15
689696 ATATAATTAT
*
689706 AATATATAAAATATA
1 AATATATAAAATAAA
689721 AATATAT--AATAAA
1 AATATATAAAATAAA
689734 AATATAT--AATAAA
1 AATATATAAAATAAA
* * *
689747 AATGTACAAATTAAA
1 AATATATAAAATAAA
689762 AA
1 AA
689764 ACTTATCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
13 23 0.62
15 14 0.38
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (15 bp):
AATATATAAAATAAA
Found at i:689738 original size:26 final size:26
Alignment explanation
Indices: 689686--689749 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 26
689676 ATTAATGTAT
* * *
689686 TAAAATTTAAATATAATTATAATATA
1 TAAAATATAAATATAAATATAAAATA
689712 TAAAATATAAATATATAATA-AAAATA
1 TAAAATATAAATATA-AATATAAAATA
* *
689738 TATAATAAAAAT
1 TAAAATATAAAT
689750 GTACAAATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 29 0.91
27 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (26 bp):
TAAAATATAAATATAAATATAAAATA
Found at i:689744 original size:13 final size:13
Alignment explanation
Indices: 689709--689749 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
689699 TAATTATAAT
* *
689709 ATATAAAATATAA
1 ATATATAATAAAA
689722 ATATATAATAAAA
1 ATATATAATAAAA
689735 ATATATAATAAAA
1 ATATATAATAAAA
689748 AT
1 AT
689750 GTACAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
ATATATAATAAAA
Found at i:690424 original size:2 final size:2
Alignment explanation
Indices: 690417--690446 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
690407 TGTGTAGGTC
690417 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
690447 TAATCGCCAA
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:691051 original size:21 final size:21
Alignment explanation
Indices: 691026--691066 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
691016 ATCACATATA
691026 TAAATTATACTT-ATAAATAAG
1 TAAATTATA-TTAATAAATAAG
691047 TAAATTATATTAATAAATAA
1 TAAATTATATTAATAAATAA
691067 TAATTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (21 bp):
TAAATTATATTAATAAATAAG
Found at i:692029 original size:13 final size:12
Alignment explanation
Indices: 692011--692047 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
692001 AATAAAGTTA
692011 AATTTATTATTAT
1 AATTTATTATT-T
692024 AATTTATTATTT
1 AATTTATTATTT
*
692036 TATTTATTATTT
1 AATTTATTATTT
692048 TCAATGCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
AATTTATTATTT
Found at i:693184 original size:22 final size:21
Alignment explanation
Indices: 693153--693199 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
693143 ATTATATTTA
*
693153 AAATATTTTATA-ATTGTATAT
1 AAATATTTTATACAGT-TATAT
693174 AAATATATTTATACAGTTATAT
1 AAATAT-TTTATACAGTTATAT
693196 AAAT
1 AAAT
693200 TTTAATATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 6 0.26
22 15 0.65
23 2 0.09
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (21 bp):
AAATATTTTATACAGTTATAT
Found at i:693641 original size:8 final size:8
Alignment explanation
Indices: 693578--693646 Score: 50
Period size: 8 Copynumber: 7.9 Consensus size: 8
693568 AATAAATTAT
693578 TTTTATATA
1 TTTTA-ATA
693587 TTTTAATAA
1 TTTTAAT-A
*
693596 TATTTAAAA
1 T-TTTAATA
693605 TTTTAATA
1 TTTTAATA
*
693613 TATATAAT-
1 T-TTTAATA
693621 TTTATATATTA
1 TTT-TA-A-TA
693632 TTTTAATA
1 TTTTAATA
693640 TTTTAAT
1 TTTTAAT
693647 TAACTAATTA
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
7 1 0.02
8 21 0.43
9 16 0.33
10 8 0.16
11 3 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TTTTAATA
Found at i:693644 original size:53 final size:54
Alignment explanation
Indices: 693573--693693 Score: 140
Period size: 53 Copynumber: 2.2 Consensus size: 54
693563 GTATTAATAA
* *
693573 ATTATTTTTATATATTTTAA-TAA-TATTTAAAATTTTAATATATATAATTTTATAT
1 ATTA-TTTTATATATTTTAATTAACTAATTAAAA-TTTAAT-TATATAAATTTATAT
** *
693628 ATTATTTTA-ATATTTTAATTAACTAATTATCATTTAATTATATAAATTTATTT
1 ATTATTTTATATATTTTAATTAACTAATTAAAATTTAATTATATAAATTTATAT
*
693681 ATTATGTTATATA
1 ATTATTTTATATA
693694 AATATAATTT
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
53 30 0.53
54 17 0.30
55 10 0.18
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.57
Consensus pattern (54 bp):
ATTATTTTATATATTTTAATTAACTAATTAAAATTTAATTATATAAATTTATAT
Found at i:693655 original size:34 final size:33
Alignment explanation
Indices: 693581--693646 Score: 89
Period size: 35 Copynumber: 2.0 Consensus size: 33
693571 AAATTATTTT
693581 TATAT-ATTTTAATAATATTTAAAATTTTAATA
1 TATATAATTTTAATAATATTTAAAATTTTAATA
* *
693613 TATATAATTTTATATATTATTTTAATATTTTAAT
1 TATATAATTTTA-ATAATA-TTTAAAATTTTAAT
693647 TAACTAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 5 0.17
33 6 0.21
34 5 0.17
35 13 0.45
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (33 bp):
TATATAATTTTAATAATATTTAAAATTTTAATA
Found at i:693817 original size:13 final size:13
Alignment explanation
Indices: 693799--693857 Score: 54
Period size: 13 Copynumber: 4.7 Consensus size: 13
693789 TAGTAGTAAT
693799 ATTATATTAATTA
1 ATTATATTAATTA
693812 ATTATATATAATT-
1 ATTATAT-TAATTA
**
693825 ATGGTA-TAATTA
1 ATTATATTAATTA
693837 TATTATATT-ATTA
1 -ATTATATTAATTA
693850 ATTA-ATTA
1 ATTATATTA
693858 TATAAATAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 11
0.71 0.08 0.21
Matches are distributed among these distances:
11 8 0.22
12 4 0.11
13 19 0.51
14 6 0.16
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (13 bp):
ATTATATTAATTA
Found at i:693855 original size:21 final size:22
Alignment explanation
Indices: 693803--693860 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 22
693793 AGTAATATTA
693803 TATTAATTAATTATA-TATAAT
1 TATTAATTAATTATATTATAAT
693824 TATGGT-A-TAATTATATTAT-AT
1 TAT--TAATTAATTATATTATAAT
693845 TATTAATTAATTATAT
1 TATTAATTAATTATAT
693861 AAATAAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
19 1 0.03
20 1 0.03
21 25 0.78
22 4 0.12
23 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (22 bp):
TATTAATTAATTATATTATAAT
Found at i:694217 original size:17 final size:17
Alignment explanation
Indices: 694189--694223 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
694179 TCATCATTCA
694189 TTGCATCTTTCACTCTTT
1 TTGCATCTTTCACT-TTT
694207 TTGCA-CTTTCACTTTT
1 TTGCATCTTTCACTTTT
694223 T
1 T
694224 AACATTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 8 0.47
18 5 0.29
ACGTcount: A:0.11, C:0.26, G:0.06, T:0.57
Consensus pattern (17 bp):
TTGCATCTTTCACTTTT
Found at i:694993 original size:29 final size:28
Alignment explanation
Indices: 694960--695031 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 28
694950 CTCAAAGTAA
694960 TTTATTATATTTAAA-TAAGTTTTTGAATT
1 TTTATTATATTTAAATTAA-TTTTT-AATT
*
694989 TTTATTAT-TATTAAATTAATTTTTATTT
1 TTTATTATAT-TTAAATTAATTTTTAATT
695017 TTTGATTAATATTTA
1 TTT-ATT-ATATTTA
695032 TTAAAATTCT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
28 7 0.19
29 21 0.57
30 8 0.22
31 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (28 bp):
TTTATTATATTTAAATTAATTTTTAATT
Found at i:695282 original size:17 final size:16
Alignment explanation
Indices: 695257--695292 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
695247 AAAATTTTTA
695257 AATAAAATATTAAACAT
1 AATAAAATATTAAAC-T
*
695274 AATAGAATATTAAACT
1 AATAAAATATTAAACT
695290 AAT
1 AAT
695293 TTATTTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.31
Consensus pattern (16 bp):
AATAAAATATTAAACT
Found at i:696050 original size:2 final size:2
Alignment explanation
Indices: 696045--696069 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
696035 TCTCTCTCTC
696045 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
696070 CTTAATCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:696374 original size:17 final size:16
Alignment explanation
Indices: 696334--696376 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
696324 TTCAAATTTT
696334 AAATTTAATAAATATTA
1 AAATTTAA-AAATATTA
* *
696351 TATTTTAAAAATAATTA
1 AAATTTAAAAAT-ATTA
696368 AAATTTAAA
1 AAATTTAAA
696377 TTTAAAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AAATTTAAAAATATTA
Found at i:697504 original size:145 final size:147
Alignment explanation
Indices: 697294--697568 Score: 342
Period size: 145 Copynumber: 1.9 Consensus size: 147
697284 CAGCCAATCC
* * * * *
697294 ACCAAAATTATATTTTTATTTTGGATAATAAAAAGTTAGTTTGATAGGAAAAAAAAATTGCCAAA
1 ACCAAAATTATATATTTATTTGGGATAATAAAAAGTTAGTTCGACAGGAAAAAAAAATTACCAAA
** * * * * * *
697359 GATTTTATCACTAAAAATTTTGTTAGCGATGAAAATTCGT-ACAAAAATTTGGTGAAAAATATGA
66 GATACTACCACTAAAAATCTTATTAACGATGAAAATTCGTAAAAAAAATTTGATGAAAAATATGA
697423 TTTTTTTATTTAAATTT
131 TTTTTTTATTTAAATTT
* *
697440 ACCAAAATTTTATATTT-TTTGGGATAATAAAAA-TTAGTTCGACACAGG-AAAAAAAATTATCA
1 ACCAAAATTATATATTTATTTGGGATAATAAAAAGTTAGTTCG--ACAGGAAAAAAAAATTACCA
* *
697502 AAGATACTACCACTAGAAATCTTATTAACGATGAAAATTCGTAAAAAAAAATTTGATGAGAAATA
64 AAGATACTACCACTAAAAATCTTATTAACGATGAAAATTCGT-AAAAAAAATTTGATGAAAAATA
697567 TG
128 TG
697569 TCGGGGAAAT
Statistics
Matches: 108, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
144 7 0.06
145 62 0.57
146 19 0.18
147 20 0.19
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.35
Consensus pattern (147 bp):
ACCAAAATTATATATTTATTTGGGATAATAAAAAGTTAGTTCGACAGGAAAAAAAAATTACCAAA
GATACTACCACTAAAAATCTTATTAACGATGAAAATTCGTAAAAAAAATTTGATGAAAAATATGA
TTTTTTTATTTAAATTT
Found at i:699447 original size:32 final size:32
Alignment explanation
Indices: 699382--699447 Score: 75
Period size: 32 Copynumber: 2.0 Consensus size: 32
699372 TTAGTTTCAA
699382 AAAAATATAAATTAAATAATTTTAATATCAAAT
1 AAAAATATAAATTAAATAATTTTAATA-CAAAT
699415 AAAAAT-TAAA-TATAATAAATATTTAATA-AAAT
1 AAAAATATAAATTA-AAT-AAT-TTTAATACAAAT
699447 A
1 A
699448 TATATATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
31 2 0.07
32 12 0.40
33 9 0.30
34 7 0.23
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (32 bp):
AAAAATATAAATTAAATAATTTTAATACAAAT
Found at i:699465 original size:18 final size:17
Alignment explanation
Indices: 699423--699474 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 17
699413 ATAAAAATTA
*
699423 AATATAATAA-ATATTT
1 AATAAAATAATATATTT
699439 AATAAAATATATATATTT
1 AATAAAATA-ATATATTT
**
699457 AATTGAATAATATGATTT
1 AATAAAATAATAT-ATTT
699475 TTATTATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 8 0.27
17 5 0.17
18 17 0.57
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (17 bp):
AATAAAATAATATATTT
Found at i:702562 original size:25 final size:26
Alignment explanation
Indices: 702533--702613 Score: 65
Period size: 25 Copynumber: 3.4 Consensus size: 26
702523 TATATTATAT
*
702533 TATATTATTATTT-ATTAATTAAAATA
1 TATATTATTATTTAATT-ATAAAAATA
702559 -ATATT-TTAATTTAATTATAAAAATA
1 TATATTATT-ATTTAATTATAAAAATA
702584 TATA--A-TA-TTAA-TATAAAAATA
1 TATATTATTATTTAATTATAAAAATA
702605 -AT-TTATTAT
1 TATATTATTAT
702614 ATTTTAAATA
Statistics
Matches: 46, Mismatches: 1, Indels: 19
0.70 0.02 0.29
Matches are distributed among these distances:
20 2 0.04
21 11 0.24
22 6 0.13
23 1 0.02
24 3 0.07
25 17 0.37
26 6 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
TATATTATTATTTAATTATAAAAATA
Found at i:702563 original size:22 final size:22
Alignment explanation
Indices: 702538--702616 Score: 58
Period size: 22 Copynumber: 3.5 Consensus size: 22
702528 TATATTATAT
702538 TATTATTTATTAATTAAAATAA
1 TATTATTTATTAATTAAAATAA
*
702560 TATT-TTAATTTAATTATAAA-AA
1 TATTATTTA-TTAATTA-AAATAA
*
702582 TA-TATAATATTAATATAAAAATAA
1 TATTAT-TTATTAAT-T-AAAATAA
702606 T-TTATTATATT
1 TATTATT-TATT
702617 TTAAATAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
21 4 0.09
22 21 0.48
23 8 0.18
24 11 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TATTATTTATTAATTAAAATAA
Found at i:702598 original size:21 final size:21
Alignment explanation
Indices: 702547--702604 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 21
702537 TTATTATTTA
*
702547 TTAATTA-AAATAATATTTTAAT
1 TTAATTATAAA-AATA-TATAAT
702569 TTAATTATAAAAATATATAAT
1 TTAATTATAAAAATATATAAT
702590 ATTAA-TATAAAAATA
1 -TTAATTATAAAAATA
702605 ATTTATTATA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
21 15 0.45
22 15 0.45
23 3 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TTAATTATAAAAATATATAAT
Found at i:702652 original size:18 final size:18
Alignment explanation
Indices: 702609--702659 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
702599 AAAATAATTT
*
702609 ATTATATTTTAAATAATA
1 ATTAAATTTTAAATAATA
702627 ATTTAAATTTTCAAATAA-A
1 A-TTAAATTTT-AAATAATA
702646 ATTAAATTTTAAAT
1 ATTAAATTTTAAAT
702660 TTTAAAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 4 0.13
18 10 0.33
19 10 0.33
20 6 0.20
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTAAATTTTAAATAATA
Found at i:702669 original size:15 final size:15
Alignment explanation
Indices: 702649--702679 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
702639 AAATAAAATT
*
702649 AAATTTTAAATTTTA
1 AAATTTTAAATCTTA
702664 AAATTTTAAATCTTA
1 AAATTTTAAATCTTA
702679 A
1 A
702680 TTTGAGTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (15 bp):
AAATTTTAAATCTTA
Found at i:703869 original size:17 final size:18
Alignment explanation
Indices: 703822--703870 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 18
703812 TAAATTTTTA
703822 ATTTTATATTAAAAATCAT
1 ATTTT-TATTAAAAATCAT
*
703841 ATTATTTAATTAAATAT-AT
1 ATT-TTT-ATTAAAAATCAT
703860 ATTTTTATTAA
1 ATTTTTATTAA
703871 GTATTTTGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 5 0.19
18 3 0.11
19 9 0.33
20 10 0.37
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTTTATTAAAAATCAT
Found at i:704785 original size:16 final size:16
Alignment explanation
Indices: 704766--704812 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
704756 AAAAATAAAT
704766 ATATTTTTTAATATTA
1 ATATTTTTTAATATTA
*
704782 ATA-TTTTTAATTTTTA
1 ATATTTTTTAA-TATTA
704798 AT-TTTTTTATATATT
1 ATATTTTTTA-ATATT
704813 TTAAAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 7 0.27
16 18 0.69
17 1 0.04
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
ATATTTTTTAATATTA
Found at i:717633 original size:29 final size:29
Alignment explanation
Indices: 717568--717625 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
717558 TTTATAAAAT
* * *
717568 AATAATAGTAAATTTATTTATTATAATTA
1 AATAATAATAAAATTAATTATTATAATTA
717597 AATAATAATAAAATTAATTATTATAATTA
1 AATAATAATAAAATTAATTATTATAATTA
717626 TAAGATAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (29 bp):
AATAATAATAAAATTAATTATTATAATTA
Found at i:719632 original size:29 final size:32
Alignment explanation
Indices: 719589--719647 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
719579 ATTAATTTTT
*
719589 TTATTTGTT-ATA-ATATTTTAA-AAAATAAA
1 TTATTTGTTAAAATATATTTTAATAAAATAAA
*
719618 TTATTTTTTAAAATATATTTTAATAAAATA
1 TTATTTGTTAAAATATATTTTAATAAAATA
719648 TATAATAAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 8 0.32
30 2 0.08
31 9 0.36
32 6 0.24
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (32 bp):
TTATTTGTTAAAATATATTTTAATAAAATAAA
Found at i:719905 original size:19 final size:20
Alignment explanation
Indices: 719867--719906 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
719857 TATTTTTTAC
*
719867 ATTAAATATTTAAAAAATAA
1 ATTAAATATATAAAAAATAA
*
719887 ATTAAA-ATATAAAATATAA
1 ATTAAATATATAAAAAATAA
719906 A
1 A
719907 AAAATATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
ATTAAATATATAAAAAATAA
Found at i:723722 original size:15 final size:16
Alignment explanation
Indices: 723692--723724 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
723682 AATTATATAA
*
723692 TTAAAATGTTTTTTAT
1 TTAAAATGTATTTTAT
723708 TTAAAATG-ATTTTAT
1 TTAAAATGTATTTTAT
723723 TT
1 TT
723725 TTAATTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (16 bp):
TTAAAATGTATTTTAT
Found at i:723836 original size:17 final size:17
Alignment explanation
Indices: 723787--723836 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
723777 TAAAATAAAT
723787 TTATT-TATTATATTTAA
1 TTATTATATTATA-TTAA
* *
723804 ATATTTAAATTA-ATTAA
1 TTA-TTATATTATATTAA
723821 TTATTATATTATATTA
1 TTATTATATTATATTA
723837 TACTATATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
16 7 0.27
17 12 0.46
18 3 0.12
19 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTATTATATTATATTAA
Found at i:723952 original size:3 final size:3
Alignment explanation
Indices: 723944--723974 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
723934 ATTGAAAAGA
723944 AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
723975 AGTTGGAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:724247 original size:16 final size:16
Alignment explanation
Indices: 724237--724268 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
724227 AATTATTTTT
724237 AATTATTATTAAATTA
1 AATTATTATTAAATTA
724253 AATTATTATTAAATTA
1 AATTATTATTAAATTA
724269 TATTTTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AATTATTATTAAATTA
Found at i:724312 original size:37 final size:36
Alignment explanation
Indices: 724226--724329 Score: 104
Period size: 37 Copynumber: 2.8 Consensus size: 36
724216 GTTAATTTTA
* *
724226 AAATTATTTTTAA-TTATTATTAAATTAAATTATTATT
1 AAATTATTTTTAATTTATTA-TATATTAAATTACT-TT
*
724263 AAATTATATTTTAATTTATGTGTATATTAAA-TACTTT
1 AAATTAT-TTTTAATTTAT-TATATATTAAATTACTTT
*
724300 AAATTTATTTTTAGTTTGATTATATATTAA
1 AAA-TTATTTTTAATTT-ATTATATATTAA
724330 CTTTTAAATA
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
37 29 0.51
38 15 0.26
39 12 0.21
40 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (36 bp):
AAATTATTTTTAATTTATTATATATTAAATTACTTT
Found at i:724423 original size:8 final size:8
Alignment explanation
Indices: 724410--724443 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
724400 AAATTGGTTA
724410 AAAAAAAT
1 AAAAAAAT
724418 AAAAAAAT
1 AAAAAAAT
724426 AAAAAATAT
1 AAAAAA-AT
*
724435 AGAAAAAT
1 AAAAAAAT
724443 A
1 A
724444 CATATTAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 17 0.71
9 7 0.29
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (8 bp):
AAAAAAAT
Found at i:724430 original size:17 final size:17
Alignment explanation
Indices: 724408--724443 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
724398 TAAAATTGGT
724408 TAAAAAAAATAAAAAAA
1 TAAAAAAAATAAAAAAA
* *
724425 TAAAAAATATAGAAAAA
1 TAAAAAAAATAAAAAAA
724442 TA
1 TA
724444 CATATTAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.17
Consensus pattern (17 bp):
TAAAAAAAATAAAAAAA
Found at i:724983 original size:25 final size:25
Alignment explanation
Indices: 724920--724984 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
724910 AATTGATAAA
* *
724920 AAATATATTTTTTA-TTTAAAATTT
1 AAATATATTTTATATTTTAAAATAT
* ** *
724944 ATATATAAATAATATTTTAAAATAT
1 AAATATATTTTATATTTTAAAATAT
724969 AAATATATTTTATATT
1 AAATATATTTTATATT
724985 AAATTTTAAA
Statistics
Matches: 30, Mismatches: 10, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
24 9 0.30
25 21 0.70
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
AAATATATTTTATATTTTAAAATAT
Found at i:725215 original size:39 final size:39
Alignment explanation
Indices: 725154--725235 Score: 128
Period size: 39 Copynumber: 2.1 Consensus size: 39
725144 TCTGTAAGGA
* *
725154 AAGTAAAGCCCTTTATGTTCAGATTGGGCTGATCAAATT
1 AAGTAAAGCCCTTCATGATCAGATTGGGCTGATCAAATT
* *
725193 AAGTAAAGCCCTTCATGATCAGATTGGGCTGATCCACTT
1 AAGTAAAGCCCTTCATGATCAGATTGGGCTGATCAAATT
725232 AAGT
1 AAGT
725236 CACATCGATA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (39 bp):
AAGTAAAGCCCTTCATGATCAGATTGGGCTGATCAAATT
Found at i:726866 original size:11 final size:11
Alignment explanation
Indices: 726850--726959 Score: 89
Period size: 11 Copynumber: 9.5 Consensus size: 11
726840 CATAATTATA
*
726850 ATAAATATATT
1 ATAAATATAAT
*
726861 ATAAATAAAAT
1 ATAAATATAAT
*
726872 AAAAATATAAT
1 ATAAATATAAT
726883 ATAATATATTAA-
1 ATAA-ATA-TAAT
726895 ATAAATA-AGAT
1 ATAAATATA-AT
726906 ATAATTATATAAT
1 ATAA--ATATAAT
726919 ATAAATATAAT
1 ATAAATATAAT
* *
726930 ATAAAAAATTAT
1 AT-AAATATAAT
726942 AGTATAATATAAT
1 A-TA-AATATAAT
726955 ATAAA
1 ATAAA
726960 AGTTTACATA
Statistics
Matches: 80, Mismatches: 9, Indels: 20
0.73 0.08 0.18
Matches are distributed among these distances:
9 1 0.01
10 1 0.01
11 39 0.49
12 18 0.22
13 20 0.25
14 1 0.01
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (11 bp):
ATAAATATAAT
Found at i:726883 original size:5 final size:5
Alignment explanation
Indices: 726841--726958 Score: 85
Period size: 5 Copynumber: 24.8 Consensus size: 5
726831 TAAATACTAC
* *
726841 ATAATT ATAAT A-AAT ATATT ATAA- ATAAA ATAA- A-AAT ATAAT ATAAT
1 ATAA-T ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
*
726888 ATATT A-AAT A-AAT A-AGAT ATAAT -T-AT ATAAT ATAAAT ATAAT ATAA-
1 ATAAT ATAAT ATAAT ATA-AT ATAAT ATAAT ATAAT AT-AAT ATAAT ATAAT
* *
726934 AAAATT ATAGT ATAAT ATAAT ATAA
1 ATAA-T ATAAT ATAAT ATAAT ATAA
726959 AAGTTTACAT
Statistics
Matches: 93, Mismatches: 8, Indels: 23
0.75 0.06 0.19
Matches are distributed among these distances:
3 4 0.04
4 23 0.25
5 54 0.58
6 12 0.13
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (5 bp):
ATAAT
Found at i:726886 original size:36 final size:35
Alignment explanation
Indices: 726841--726955 Score: 87
Period size: 34 Copynumber: 3.3 Consensus size: 35
726831 TAAATACTAC
726841 ATAATTATAATAAATATATTATAAATAAAATAAAAAT
1 ATAA-TATAATAAATATA-TATAAATAAAATAAAAAT
* * * * *
726878 ATAATATAATATAT-TAAATAAATAAGATATAATT
1 ATAATATAATAAATATATATAAATAAAATAAAAAT
* * *
726912 AT-ATA-ATATAAATATA-ATATAA-AAAATTATAGT
1 ATAATATA-ATAAATATATATA-AATAAAATAAAAAT
726945 ATAATATAATA
1 ATAATATAATA
726956 TAAAAGTTTA
Statistics
Matches: 62, Mismatches: 11, Indels: 13
0.72 0.13 0.15
Matches are distributed among these distances:
32 1 0.02
33 19 0.31
34 26 0.42
35 3 0.05
36 9 0.15
37 4 0.06
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (35 bp):
ATAATATAATAAATATATATAAATAAAATAAAAAT
Found at i:726956 original size:36 final size:35
Alignment explanation
Indices: 726875--726959 Score: 95
Period size: 36 Copynumber: 2.4 Consensus size: 35
726865 ATAAAATAAA
726875 AATATAATATAATATATTAAATAAATAAGATATAAT
1 AATATAATATAA-ATATTAAATAAATAAGATATAAT
*
726911 TATATAATATAAATA-TAATATAAA-AA-ATTATAGTAT
1 AATATAATATAAATATTAA-ATAAATAAGA-TATA--AT
726947 AATATAATATAAA
1 AATATAATATAAA
726960 AGTTTACATA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
33 1 0.02
34 9 0.21
35 8 0.19
36 25 0.58
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (35 bp):
AATATAATATAAATATTAAATAAATAAGATATAAT
Found at i:727106 original size:11 final size:11
Alignment explanation
Indices: 727086--727202 Score: 89
Period size: 11 Copynumber: 10.5 Consensus size: 11
727076 AAATACAGAT
*
727086 TATAAAATAAA
1 TATAATATAAA
*
727097 TATATTATAAA
1 TATAATATAAA
*
727108 TAAAAT-TAAAA
1 TATAATAT-AAA
*
727119 TATGATATAATA
1 TATAATATAA-A
*
727131 TATAAAATAAA
1 TATAATATAAA
727142 TATAATATAATTA
1 TATAATATAA--A
727155 TATAATATAAA
1 TATAATATAAA
727166 TATAATATGAAA
1 TATAATAT-AAA
*
727178 -AAAAT-TAAAA
1 TATAATAT-AAA
*
727188 TATACTAT-AA
1 TATAATATAAA
727198 TATAA
1 TATAA
727203 ATTTTACATA
Statistics
Matches: 84, Mismatches: 14, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
10 11 0.13
11 48 0.57
12 14 0.17
13 11 0.13
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (11 bp):
TATAATATAAA
Found at i:727134 original size:29 final size:31
Alignment explanation
Indices: 727086--727163 Score: 80
Period size: 31 Copynumber: 2.7 Consensus size: 31
727076 AAATACAGAT
727086 TATAAAATAA--ATAT-AT-TAT-AAATAAA
1 TATAAAATAATGATATAATATATAAAATAAA
727112 -ATTAAAAT-ATGATATAATATATAAAATAAA
1 TA-TAAAATAATGATATAATATATAAAATAAA
* *
727142 TATAATATAATTATATAATATA
1 TATAAAATAATGATATAATATA
727164 AATATAATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
25 2 0.05
26 6 0.14
27 4 0.10
28 2 0.05
29 3 0.07
30 12 0.29
31 13 0.31
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (31 bp):
TATAAAATAATGATATAATATATAAAATAAA
Found at i:727144 original size:18 final size:18
Alignment explanation
Indices: 727103--727150 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
727093 TAAATATATT
727103 ATAAATA-AA-AT-TAAA
1 ATAAATATAATATATAAA
*
727118 ATATGATATAATATATAAA
1 ATA-AATATAATATATAAA
727137 ATAAATATAATATA
1 ATAAATATAATATA
727151 ATTATATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 3 0.11
16 3 0.11
17 2 0.07
18 12 0.44
19 7 0.26
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (18 bp):
ATAAATATAATATATAAA
Found at i:727152 original size:5 final size:5
Alignment explanation
Indices: 727117--727202 Score: 63
Period size: 5 Copynumber: 17.4 Consensus size: 5
727107 ATAAAATTAA
* *
727117 AATAT GATAT AATAT -ATAA AATA- AATAT AATAT AAT-T -ATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
* * * *
727163 AAATAT AATAT GAAAAA AATTAA AATAT ACTAT AATAT AA
1 -AATAT AATAT -AATAT AA-TAT AATAT AATAT AATAT AA
727203 ATTTTACATA
Statistics
Matches: 65, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
3 2 0.03
4 9 0.14
5 42 0.65
6 12 0.18
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (5 bp):
AATAT
Found at i:727182 original size:244 final size:243
Alignment explanation
Indices: 726731--727215 Score: 742
Period size: 244 Copynumber: 2.0 Consensus size: 243
726721 ATTAAAGAAA
* *
726731 AACGTTGTAAAGGCAAGGATTCAATTGATAAATAAACCTTAAAGTGGAAGCGAAATAGCTGTGGA
1 AACGTTGTAAAGGCAAGGATTCAATTGATAAATAAACCTTAAAGTGCAAGCAAAATAGCTGTGGA
** * *
726796 TGAGAGAGTGAAAGTAGAGATTATATTTAAAATTTTAAATACTACATAATTATAATAAATATATT
66 CAAGAGAGTGAAAGTAGAGACTATATTTAAAATTTTAAATACTACATAATTAAAATAAATATATT
*
726861 ATAAATAAAATAAAAATATAATATAATATATTAAATAAATAAGATATAATTATATAATATAAATA
131 ATAAATAAAATAAAAATATAATATAATATATAAAATAAATAAGATATAATTATATAATATAAATA
* *
726926 TAATATAAAAAATTATAGTATAATATAATATAAAAGTTTACATATCATG
196 TAATATAAAAAATTAAAATATAATATAATAT-AAAGTTTACATATCATG
* * * *
726975 AACGTTGTAAAGGCAAGGATTCAATTGATAAATGAACCTTAGAGTGCAAGCAAAATAGTTGTGTA
1 AACGTTGTAAAGGCAAGGATTCAATTGATAAATAAACCTTAAAGTGCAAGCAAAATAGCTGTGGA
* *
727040 CAAGAGAGTGAAAGTAGAGACTATATTTAAAATTTTAAATAC-AGATTA-TAAAATAAATATATT
66 CAAGAGAGTGAAAGTAGAGACTATATTTAAAATTTTAAATACTACATAATTAAAATAAATATATT
* *
727103 ATAAATAAAATTAAAATATGATATAATATATAAAATAAATATA-ATATAATTATATAATATAAAT
131 ATAAATAAAATAAAAATATAATATAATATATAAAATAAATA-AGATATAATTATATAATATAAAT
* *
727167 ATAATATGAAAAAAATTAAAATATACTATAATATAAATTTTACATATCA
195 ATAATAT--AAAAAATTAAAATATAATATAATATAAAGTTTACATATCA
727216 AGAATTGTTA
Statistics
Matches: 219, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
242 80 0.37
243 19 0.09
244 120 0.55
ACGTcount: A:0.52, C:0.05, G:0.11, T:0.32
Consensus pattern (243 bp):
AACGTTGTAAAGGCAAGGATTCAATTGATAAATAAACCTTAAAGTGCAAGCAAAATAGCTGTGGA
CAAGAGAGTGAAAGTAGAGACTATATTTAAAATTTTAAATACTACATAATTAAAATAAATATATT
ATAAATAAAATAAAAATATAATATAATATATAAAATAAATAAGATATAATTATATAATATAAATA
TAATATAAAAAATTAAAATATAATATAATATAAAGTTTACATATCATG
Found at i:729822 original size:28 final size:29
Alignment explanation
Indices: 729775--729833 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
729765 ACTATTAAAA
729775 TTAAAATTAATTATCAAAATATATT-TTAT
1 TTAAAATTAATTATCAAAAT-TATTATTAT
729804 TTAAAA-TAATTTATC-AAATTATTATTAT
1 TTAAAATTAA-TTATCAAAATTATTATTAT
729832 TT
1 TT
729834 TAACCTTGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
27 4 0.14
28 13 0.46
29 11 0.39
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (29 bp):
TTAAAATTAATTATCAAAATTATTATTAT
Found at i:729836 original size:29 final size:29
Alignment explanation
Indices: 729757--729833 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 29
729747 TGGCAAATCA
** *
729757 ATCAAAATACTATTAAAATTAAAATTAATT
1 ATCAAAATA-TATTTTATTTAAAATTAATT
729787 ATCAAAATATATTTTATTTAAAA-TAATTT
1 ATCAAAATATATTTTATTTAAAATTAA-TT
729816 ATC-AAAT-TATTATTATTT
1 ATCAAAATATATT-TTATTT
729834 TAACCTTGAC
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 4 0.10
28 13 0.31
29 16 0.38
30 9 0.21
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.45
Consensus pattern (29 bp):
ATCAAAATATATTTTATTTAAAATTAATT
Found at i:730591 original size:29 final size:29
Alignment explanation
Indices: 730539--730597 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
730529 GTTAAAATAT
730539 AAATTATTTATCGAAATATAATTATTTTA
1 AAATTATTTATCGAAATATAATTATTTTA
* *
730568 AAATTATTTAT-TAAATTATTATTATTTTA
1 AAATTATTTATCGAAA-TATAATTATTTTA
730597 A
1 A
730598 TTCAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 3 0.11
29 24 0.89
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (29 bp):
AAATTATTTATCGAAATATAATTATTTTA
Found at i:731862 original size:29 final size:28
Alignment explanation
Indices: 731814--731872 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
731804 AGCAAGGTTA
*
731814 AAATAATAATAATTTGATAAATT-ATTTT
1 AAATAATAATAATTTAAT-AATTAATTTT
731842 AAATAA-AATATATTTTAATAATTAATTTT
1 AAATAATAATA-A-TTTAATAATTAATTTT
731871 AA
1 AA
731873 TTTTAACAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 4 0.15
28 11 0.41
29 12 0.44
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (28 bp):
AAATAATAATAATTTAATAATTAATTTT
Found at i:732219 original size:29 final size:29
Alignment explanation
Indices: 732153--732242 Score: 117
Period size: 29 Copynumber: 3.0 Consensus size: 29
732143 ATGAATATAG
*
732153 AGATATAACCATCAAATACATAAAAAAAATTT
1 AGATATGACCATCAAATACAT-AAAAAAA--T
*
732185 AGATATGACTATCAAATACATAAAAAAAT
1 AGATATGACCATCAAATACATAAAAAAAT
**
732214 AGATATGACCATCAAATATGTAAAAAAAT
1 AGATATGACCATCAAATACATAAAAAAAT
732243 TAAAAAAATT
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
29 27 0.51
31 7 0.13
32 19 0.36
ACGTcount: A:0.58, C:0.11, G:0.07, T:0.24
Consensus pattern (29 bp):
AGATATGACCATCAAATACATAAAAAAAT
Found at i:739079 original size:22 final size:25
Alignment explanation
Indices: 739033--739080 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 25
739023 TATTTTTATA
739033 TTTTAATAATTAAAATTAAATAATT
1 TTTTAATAATTAAAATTAAATAATT
*
739058 TTTTGATAA-TAAAA-T-AATAATT
1 TTTTAATAATTAAAATTAAATAATT
739080 T
1 T
739081 AAATTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 1 0.05
24 5 0.23
25 8 0.36
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (25 bp):
TTTTAATAATTAAAATTAAATAATT
Found at i:739119 original size:16 final size:16
Alignment explanation
Indices: 739084--739122 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
739074 ATAATTTAAA
*
739084 TTAAATT-AAATCAAT
1 TTAAATTAAAAACAAT
*
739099 TTAAATTAAAAACATT
1 TTAAATTAAAAACAAT
739115 TTAAATTA
1 TTAAATTA
739123 GACTCGTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (16 bp):
TTAAATTAAAAACAAT
Found at i:739216 original size:3 final size:3
Alignment explanation
Indices: 739204--739240 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
739194 CTCTACATTT
739204 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
739241 TTATTATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:739245 original size:3 final size:3
Alignment explanation
Indices: 739239--739263 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
739229 ATAATAATAA
739239 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
739264 GTTAAGTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:739523 original size:3 final size:3
Alignment explanation
Indices: 739515--739565 Score: 93
Period size: 3 Copynumber: 17.0 Consensus size: 3
739505 AATAAATGAA
*
739515 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
739563 AAT
1 AAT
739566 GATGATGTGC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:739570 original size:9 final size:9
Alignment explanation
Indices: 739516--739571 Score: 67
Period size: 9 Copynumber: 6.2 Consensus size: 9
739506 ATAAATGAAA
*
739516 ATAATAATA
1 ATAATAATG
*
739525 ATAATAATA
1 ATAATAATG
*
739534 ATAATAATA
1 ATAATAATG
*
739543 ATAATAATA
1 ATAATAATG
739552 ATAATAATG
1 ATAATAATG
*
739561 ATAATGATG
1 ATAATAATG
739570 AT
1 AT
739572 GTGCCACGTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 45 1.00
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (9 bp):
ATAATAATG
Done.