Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167993.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_25, whole genome shotgun sequence
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: 17943224
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 94000 characters in sequence are not A, C, G, or T
File 4 of 100
Found at i:596153 original size:10 final size:9
Alignment explanation
Indices: 596135--596167 Score: 50
Period size: 10 Copynumber: 3.7 Consensus size: 9
596125 CTTCTTAGAA
596135 TTTTTTTTC
1 TTTTTTTTC
596144 TTTTTCTTTC
1 TTTTT-TTTC
596154 TTTTTTTT-
1 TTTTTTTTC
596162 TTTTTT
1 TTTTTT
596168 GCTCATTGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 6 0.26
9 8 0.35
10 9 0.39
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:596913 original size:3 final size:3
Alignment explanation
Indices: 596905--596931 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
596895 TAACCACAGT
596905 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
596932 ATAGAAGCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:613655 original size:22 final size:22
Alignment explanation
Indices: 613613--613656 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
613603 TTTATTAATC
* *
613613 AAATTAAATTTATGAATTTTAA
1 AAATTAAATTGATGAAATTTAA
613635 AAATT-AATTGATAGAAATTTAA
1 AAATTAAATTGAT-GAAATTTAA
613657 TTCGGTTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (22 bp):
AAATTAAATTGATGAAATTTAA
Found at i:613863 original size:16 final size:16
Alignment explanation
Indices: 613844--613874 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
613834 CATGTATTTT
*
613844 TTATTTTATATTTGAA
1 TTATGTTATATTTGAA
613860 TTATGTTATATTTGA
1 TTATGTTATATTTGA
613875 TAAAAATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (16 bp):
TTATGTTATATTTGAA
Found at i:614211 original size:29 final size:30
Alignment explanation
Indices: 614164--614225 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
614154 TTTAATTTTA
*
614164 TTAAATTTATATATAATTATTATTAAAATT
1 TTAAATTTATATATAATTAATATTAAAATT
* *
614194 TTAAA-TTATATCAT-ATTAATATTTATATT
1 TTAAATTTATAT-ATAATTAATATTAAAATT
614223 TTA
1 TTA
614226 TATCATATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 21 0.75
30 7 0.25
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (30 bp):
TTAAATTTATATATAATTAATATTAAAATT
Found at i:614237 original size:13 final size:13
Alignment explanation
Indices: 614199--614260 Score: 51
Period size: 13 Copynumber: 5.1 Consensus size: 13
614189 AAATTTTAAA
*
614199 TTATATCATATTA
1 TTATATCATATTT
* *
614212 ATAT-TTATA-TT
1 TTATATCATATTT
614223 TTATATCATATTT
1 TTATATCATATTT
*
614236 TTAT-T-ATATTA
1 TTATATCATATTT
*
614247 TTATATTATATTT
1 TTATATCATATTT
614260 T
1 T
614261 AAATTATTAA
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
11 13 0.34
12 10 0.26
13 15 0.39
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATATCATATTT
Found at i:614259 original size:24 final size:25
Alignment explanation
Indices: 614198--614260 Score: 85
Period size: 24 Copynumber: 2.6 Consensus size: 25
614188 AAAATTTTAA
**
614198 ATTATATCATATTAATATTTATATT
1 ATTATATCATATTTTTATTTATATT
614223 -TTATATCATATTTTTA-TTATATT
1 ATTATATCATATTTTTATTTATATT
*
614246 ATTATATTATATTTT
1 ATTATATCATATTTT
614261 AAATTATTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 7 0.21
24 27 0.79
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (25 bp):
ATTATATCATATTTTTATTTATATT
Found at i:619660 original size:2 final size:2
Alignment explanation
Indices: 619653--619682 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
619643 TTTAACTGCA
619653 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
619683 CCAACATAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:631104 original size:2 final size:2
Alignment explanation
Indices: 631097--631133 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
631087 TTTGCTGTTC
* *
631097 CT CT CT CT CT CT CT CA CT CT CT CT CT CT CT CT TT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
631134 ATGTCTGTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.03, C:0.49, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:634613 original size:17 final size:18
Alignment explanation
Indices: 634588--634623 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
634578 TTTGGAGTGC
*
634588 ATTATAGTTGTA-GGAAA
1 ATTAAAGTTGTAGGGAAA
634605 ATTAAAGTTGTAGGGAAA
1 ATTAAAGTTGTAGGGAAA
634623 A
1 A
634624 CCTTAAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (18 bp):
ATTAAAGTTGTAGGGAAA
Found at i:640225 original size:22 final size:22
Alignment explanation
Indices: 640197--640238 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
640187 TTACAGGTAA
640197 ATTTAATAAAT-ATAATAATATC
1 ATTTAATAAATCA-AATAATATC
*
640219 ATTTAATTAATCAAATAATA
1 ATTTAATAAATCAAATAATA
640239 ATGATATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (22 bp):
ATTTAATAAATCAAATAATATC
Found at i:640684 original size:24 final size:24
Alignment explanation
Indices: 640650--640698 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
640640 CTTATAATTT
*
640650 AAAATATAATATGAATA-TGATATA
1 AAAATAGAATATGAA-AGTGATATA
640674 AAAATAGAATATGAAAGTGATATA
1 AAAATAGAATATGAAAGTGATATA
640698 A
1 A
640699 TTTTAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.04
24 22 0.96
ACGTcount: A:0.59, C:0.00, G:0.12, T:0.29
Consensus pattern (24 bp):
AAAATAGAATATGAAAGTGATATA
Found at i:641495 original size:15 final size:15
Alignment explanation
Indices: 641475--641533 Score: 57
Period size: 15 Copynumber: 3.8 Consensus size: 15
641465 AATAGATTCG
*
641475 AATATTTAAATACAT
1 AATATTTAAATAAAT
**
641490 AATATTTATTTAAAT
1 AATATTTAAATAAAT
641505 AA-ATTTAAATTAAAAT
1 AATATTTAAA-T-AAAT
641521 AAATATTTAAATA
1 -AATATTTAAATA
641534 TATTTAAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
14 5 0.14
15 15 0.43
16 5 0.14
17 3 0.09
18 7 0.20
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (15 bp):
AATATTTAAATAAAT
Found at i:641527 original size:28 final size:27
Alignment explanation
Indices: 641478--641564 Score: 95
Period size: 28 Copynumber: 3.1 Consensus size: 27
641468 AGATTCGAAT
**
641478 ATTTAAATACATAATATTTATTTAAATAA
1 ATTTAAATA-A-AATAAATATTTAAATAA
*
641507 ATTTAAATTAAAATAAATATTTAAATAT
1 ATTTAAA-TAAAATAAATATTTAAATAA
**
641535 ATTTAAATATTATAAATA-TTAAATAA
1 ATTTAAATAAAATAAATATTTAAATAA
641561 ATTT
1 ATTT
641565 TGAAACAAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
26 11 0.22
27 9 0.18
28 21 0.41
29 8 0.16
30 2 0.04
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (27 bp):
ATTTAAATAAAATAAATATTTAAATAA
Found at i:641954 original size:31 final size:31
Alignment explanation
Indices: 641891--641957 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
641881 TATAAAATAT
* **
641891 TAAAATTTATATATTTATATTTTATTTTATA
1 TAAAAATTATATATTTATATTTTATTCGATA
641922 TAAAAATTATAT-TTTATATTTTATATCGATA
1 TAAAAATTATATATTTATATTTTAT-TCGATA
641953 TAAAA
1 TAAAA
641958 TTAAAAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
30 12 0.38
31 20 0.62
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (31 bp):
TAAAAATTATATATTTATATTTTATTCGATA
Found at i:641958 original size:30 final size:30
Alignment explanation
Indices: 641891--641960 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
641881 TATAAAATAT
**
641891 TAAAATTTATATATTTATATTTTATTTTATA
1 TAAAA-TTATATATTTATATTTTATTCGATA
641922 TAAAAATTATAT-TTTATATTTTATATCGATA
1 T-AAAATTATATATTTATATTTTAT-TCGATA
641953 TAAAATTA
1 TAAAATTA
641961 AAAATATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 19 0.54
31 12 0.34
32 4 0.11
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (30 bp):
TAAAATTATATATTTATATTTTATTCGATA
Found at i:642421 original size:7 final size:7
Alignment explanation
Indices: 642409--642486 Score: 52
Period size: 7 Copynumber: 10.6 Consensus size: 7
642399 ACGGTTAGAA
642409 TTTAAAT
1 TTTAAAT
642416 TTTAAATT
1 TTTAAA-T
642424 TATTAAAT
1 T-TTAAAT
* *
642432 ATTATAT
1 TTTAAAT
642439 TTTAAAAT
1 TTT-AAAT
*
642447 ATTTATAT
1 -TTTAAAT
*
642455 TATAAAT
1 TTTAAAT
642462 TAATTAAA-
1 T--TTAAAT
642470 TTTAAA-
1 TTTAAAT
642476 TTTAAAT
1 TTTAAAT
642483 TTTA
1 TTTA
642487 TTAACTTCTA
Statistics
Matches: 56, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
6 11 0.20
7 23 0.41
8 10 0.18
9 12 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
TTTAAAT
Found at i:642448 original size:15 final size:16
Alignment explanation
Indices: 642423--642460 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
642413 AATTTTAAAT
*
642423 TTATTAAATA-TTATA
1 TTATAAAATATTTATA
*
642438 TTTTAAAATATTTATA
1 TTATAAAATATTTATA
642454 TTATAAA
1 TTATAAA
642461 TTAATTAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTATAAAATATTTATA
Found at i:642489 original size:22 final size:22
Alignment explanation
Indices: 642447--642508 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 22
642437 ATTTTAAAAT
* *
642447 ATTTATATTATAAA-TTAATTAA
1 ATTTAAATT-TAAATTTTATTAA
642469 ATTTAAATTTAAATTTTATTAA
1 ATTTAAATTTAAATTTTATTAA
* * *
642491 CTTCTAATTTTTAATTTT
1 ATT-TAAATTTAAATTTT
642509 TATGCTTGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
21 4 0.12
22 17 0.52
23 12 0.36
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.56
Consensus pattern (22 bp):
ATTTAAATTTAAATTTTATTAA
Found at i:643392 original size:13 final size:13
Alignment explanation
Indices: 643370--643405 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
643360 ATCGAATTTT
643370 AAATTAAAAAATTA
1 AAATT-AAAAATTA
643384 AAATTAAAAATTA
1 AAATTAAAAATTA
*
643397 AAAATAAAA
1 AAATTAAAA
643406 CGAACCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 16 0.76
14 5 0.24
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (13 bp):
AAATTAAAAATTA
Found at i:644526 original size:15 final size:15
Alignment explanation
Indices: 644506--644536 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
644496 CATAATTTAT
644506 ATTAAAAAATTATAA
1 ATTAAAAAATTATAA
*
644521 ATTAAAATATTATAA
1 ATTAAAAAATTATAA
644536 A
1 A
644537 ATATTAATTT
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
ATTAAAAAATTATAA
Found at i:646336 original size:23 final size:23
Alignment explanation
Indices: 646292--646353 Score: 60
Period size: 23 Copynumber: 2.7 Consensus size: 23
646282 TATTTTGTAA
646292 TAAAATATATTAATTT-TAATTAATT
1 TAAAATA-A-TAATTTATAATT-ATT
646317 TAAAATAATAATTTAT-ATTATT
1 TAAAATAATAATTTATAATTATT
646339 TAATAA-AA-AATTTAT
1 TAA-AATAATAATTTAT
646354 TTACTAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
21 7 0.20
22 8 0.23
23 11 0.31
24 2 0.06
25 7 0.20
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TAAAATAATAATTTATAATTATT
Found at i:647767 original size:17 final size:18
Alignment explanation
Indices: 647734--647768 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
647724 GCAGTCGTGG
647734 TGGTGGCTAGTCCCTTCT
1 TGGTGGCTAGTCCCTTCT
*
647752 TGGTGG-TAGTCTCTTCT
1 TGGTGGCTAGTCCCTTCT
647769 ATCGCGTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.06, C:0.23, G:0.29, T:0.43
Consensus pattern (18 bp):
TGGTGGCTAGTCCCTTCT
Found at i:648714 original size:20 final size:21
Alignment explanation
Indices: 648671--648721 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
648661 TTAAAATAAT
*
648671 AATTATATTATTTAATAAAAA
1 AATTATATTATTAAATAAAAA
* *
648692 AATTAT-TTATTAAATATATA
1 AATTATATTATTAAATAAAAA
648712 AATATATATT
1 AAT-TATATT
648722 TATATTTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 14 0.56
21 9 0.36
22 2 0.08
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
AATTATATTATTAAATAAAAA
Found at i:652256 original size:109 final size:109
Alignment explanation
Indices: 652065--652282 Score: 400
Period size: 109 Copynumber: 2.0 Consensus size: 109
652055 ATGCCTTGTG
652065 CCTTTAAAATAAAACAATTCATGTAGTCTTTTTCTCCTCTTGTTATGGTATACATTATCAAGGGT
1 CCTTTAAAATAAAACAATTCATGTAGTCTTTTTCTCCTCTTGTTATGGTATACATTATCAAGGGT
652130 ACCTGCTCTAAATATGTACTCCACCATATAATTAAGAGCTTAAT
66 ACCTGCTCTAAATATGTACTCCACCATATAATTAAGAGCTTAAT
*
652174 CCTTTAAAATAAAACAATTCATGTAGTGTTTTTCTCCTCTTGTTATGGTATACATTATCAAGGGT
1 CCTTTAAAATAAAACAATTCATGTAGTCTTTTTCTCCTCTTGTTATGGTATACATTATCAAGGGT
* * *
652239 GCCTGCTCTAAATATGTACTCTACCATATAATTAATAGCTTAAT
66 ACCTGCTCTAAATATGTACTCCACCATATAATTAAGAGCTTAAT
652283 TACTGTAAAA
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
109 105 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (109 bp):
CCTTTAAAATAAAACAATTCATGTAGTCTTTTTCTCCTCTTGTTATGGTATACATTATCAAGGGT
ACCTGCTCTAAATATGTACTCCACCATATAATTAAGAGCTTAAT
Found at i:655887 original size:14 final size:16
Alignment explanation
Indices: 655848--655891 Score: 60
Period size: 14 Copynumber: 3.0 Consensus size: 16
655838 ATATTTATAA
655848 ATAA-TAAATAAA-TT
1 ATAACTAAATAAATTT
655862 ATAACTAAATAAATTT
1 ATAACTAAATAAATTT
655878 A-AAC-AAATAAATTT
1 ATAACTAAATAAATTT
655892 TGAACAAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 14 0.50
15 11 0.39
16 3 0.11
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (16 bp):
ATAACTAAATAAATTT
Found at i:655899 original size:15 final size:14
Alignment explanation
Indices: 655853--655899 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
655843 TATAAATAAT
*
655853 AAATAAATTATAAC
1 AAATAAATTTTAAC
*
655867 TAAATAAATTTAAAC
1 -AAATAAATTTTAAC
655882 AAATAAATTTTGAAC
1 AAATAAATTTT-AAC
655897 AAA
1 AAA
655900 CATAAGCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 10 0.36
15 18 0.64
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (14 bp):
AAATAAATTTTAAC
Found at i:656145 original size:12 final size:12
Alignment explanation
Indices: 656124--656157 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
656114 AAATCAAACA
656124 TATTTA-CAAAT
1 TATTTATCAAAT
656135 TATTTATCAAAT
1 TATTTATCAAAT
*
656147 AATTTATCAAA
1 TATTTATCAAA
656158 AACTCTCTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 6 0.29
12 15 0.71
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (12 bp):
TATTTATCAAAT
Found at i:663147 original size:3 final size:3
Alignment explanation
Indices: 663141--663176 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
663131 TAACAATGAG
*
663141 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
663177 TTTTTGGGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:678446 original size:188 final size:188
Alignment explanation
Indices: 678129--678510 Score: 755
Period size: 188 Copynumber: 2.0 Consensus size: 188
678119 CCGTATTGTC
678129 AGATCCAATATCAGTTAAAGGGTTAGAAGTGATTGAGTTAGATCTGATAGTACGTTCATTCCCCT
1 AGATCCAATATCAGTTAAAGGGTTAGAAGTGATTGAGTTAGATCTGATAGTACGTTCATTCCCCT
678194 CAAAAGGATTTAATCCATAGCAAATATCAACAGGTGCTACAGAGGATTCTGAACTAATATCTCTG
66 CAAAAGGATTTAATCCATAGCAAATATCAACAGGTGCTACAGAGGATTCTGAACTAATATCTCTG
678259 ATATGTATTTTTTTCAATCTACTTTTCTAACGATGAAACCTCTTCAAGAAAATAAATG
131 ATATGTATTTTTTTCAATCTACTTTTCTAACGATGAAACCTCTTCAAGAAAATAAATG
678317 AGATCCAATATCAGTTAAAGGGTTAGAAGTGATTGAGTTAGATCTGATAGTACGTTCATTCCCCT
1 AGATCCAATATCAGTTAAAGGGTTAGAAGTGATTGAGTTAGATCTGATAGTACGTTCATTCCCCT
*
678382 CCAAAGGATTTAATCCATAGCAAATATCAACAGGTGCTACAGAGGATTCTGAACTAATATCTCTG
66 CAAAAGGATTTAATCCATAGCAAATATCAACAGGTGCTACAGAGGATTCTGAACTAATATCTCTG
678447 ATATGTATTTTTTTCAATCTACTTTTCTAACGATGAAACCTCTTCAAGAAAATAAATG
131 ATATGTATTTTTTTCAATCTACTTTTCTAACGATGAAACCTCTTCAAGAAAATAAATG
678505 AGATCC
1 AGATCC
678511 TTGAATACTC
Statistics
Matches: 193, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
188 193 1.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (188 bp):
AGATCCAATATCAGTTAAAGGGTTAGAAGTGATTGAGTTAGATCTGATAGTACGTTCATTCCCCT
CAAAAGGATTTAATCCATAGCAAATATCAACAGGTGCTACAGAGGATTCTGAACTAATATCTCTG
ATATGTATTTTTTTCAATCTACTTTTCTAACGATGAAACCTCTTCAAGAAAATAAATG
Found at i:681091 original size:12 final size:12
Alignment explanation
Indices: 681074--681121 Score: 52
Period size: 11 Copynumber: 4.3 Consensus size: 12
681064 GGATGGCAAA
681074 AAAAAAAGAAAG
1 AAAAAAAGAAAG
681086 -AAAAAAG--AG
1 AAAAAAAGAAAG
681095 AAAAAAA-AAGAG
1 AAAAAAAGAA-AG
681107 AAAAAAAGAAA-
1 AAAAAAAGAAAG
681118 AAAA
1 AAAA
681122 TGAAAAGGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
9 2 0.06
10 6 0.19
11 11 0.35
12 10 0.32
13 2 0.06
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAG
Found at i:681099 original size:10 final size:10
Alignment explanation
Indices: 681074--681121 Score: 53
Period size: 10 Copynumber: 4.6 Consensus size: 10
681064 GGATGGCAAA
681074 AAAAAAAGAAAG
1 AAAAAAAG--AG
*
681086 AAAAAAGAGAA
1 AAAAAA-AGAG
681097 AAAAAAAGAG
1 AAAAAAAGAG
681107 AAAAAAAGA-
1 AAAAAAAGAG
681116 AAAAAA
1 AAAAAA
681122 TGAAAAGGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
9 6 0.18
10 12 0.36
11 7 0.21
12 6 0.18
13 2 0.06
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAG
Found at i:681100 original size:20 final size:20
Alignment explanation
Indices: 681072--681121 Score: 73
Period size: 23 Copynumber: 2.4 Consensus size: 20
681062 ATGGATGGCA
681072 AAAAAAAAAGAAAGAAAAAAGAG
1 AAAAAAAAAG--AGAAAAAA-AG
681095 AAAAAAAAAGAGAAAAAAAG
1 AAAAAAAAAGAGAAAAAAAG
681115 AAAAAAA
1 AAAAAAA
681122 TGAAAAGGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.33
21 8 0.30
23 10 0.37
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAGAGAAAAAAAG
Found at i:682413 original size:46 final size:45
Alignment explanation
Indices: 682366--682654 Score: 343
Period size: 46 Copynumber: 6.4 Consensus size: 45
682356 TTGAATCCTT
* *
682366 AAATGAGAACCTTTGAGTTTTAAATGAGAATCTTTAAGACATCCTT-
1 AAATGAGAACCTTTGAGTCTTAAATGAGAATCTTTAAGA-AT-TTTC
* * *
682412 AAATGAAAACCTTTGAGTCTTAAATGAAAATCTTTAAAATATTTTC
1 AAATGAGAACCTTTGAGTCTTAAATGAGAATCTTTAAGA-ATTTTC
* * * *
682458 AAATGAGAACCTTTAAATCTTAAATGAAAATCTTTAAGATTTTTTC
1 AAATGAGAACCTTTGAGTCTTAAATGAGAATCTTTAAGA-ATTTTC
*
682504 AAATGAGAACCTTTGAGTCTTAAATGAGAATCTTTAAGACGTTTTC
1 AAATGAGAACCTTTGAGTCTTAAATGAGAATCTTTAAGA-ATTTTC
* * *
682550 AAATAAGAACCTTTGAGTCATAAATGAGAATCTTTAAGAAGTTTTA
1 AAATGAGAACCTTTGAGTCTTAAATGAGAATCTTTAAGAA-TTTTC
* * *
682596 AAATGAGAACCTTTGAGTCTTAAATAAGAATATTT--GAGTTTT-
1 AAATGAGAACCTTTGAGTCTTAAATGAGAATCTTTAAGAATTTTC
*
682638 AAATGAGAAACTTTGAG
1 AAATGAGAACCTTTGAG
682655 AAACTGAGTT
Statistics
Matches: 215, Mismatches: 26, Indels: 8
0.86 0.10 0.03
Matches are distributed among these distances:
42 16 0.07
43 4 0.02
44 2 0.01
45 2 0.01
46 191 0.89
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.35
Consensus pattern (45 bp):
AAATGAGAACCTTTGAGTCTTAAATGAGAATCTTTAAGAATTTTC
Found at i:682425 original size:25 final size:23
Alignment explanation
Indices: 682385--682542 Score: 103
Period size: 21 Copynumber: 6.9 Consensus size: 23
682375 CCTTTGAGTT
*
682385 TTAAATGAGAATCTTTAAGACATCC
1 TTAAATGAAAATCTTTAAGA-AT-C
* *
682410 TTAAATGAAAACCTTT--GAGTC
1 TTAAATGAAAATCTTTAAGAATC
* *
682431 TTAAATGAAAATCTTTAAAATATT
1 TTAAATGAAAATCTTTAAGA-ATC
* *
682455 TTCAAATGAGAACCTTT-A-AATC
1 TT-AAATGAAAATCTTTAAGAATC
* *
682477 TTAAATGAAAATCTTTAAGATTTT
1 TTAAATGAAAATCTTTAAGA-ATC
* * *
682501 TTCAAATGAGAACCTTT--GAGTC
1 TT-AAATGAAAATCTTTAAGAATC
*
682523 TTAAATGAGAATCTTTAAGA
1 TTAAATGAAAATCTTTAAGA
682543 CGTTTTCAAA
Statistics
Matches: 104, Mismatches: 19, Indels: 22
0.72 0.13 0.15
Matches are distributed among these distances:
21 41 0.39
22 9 0.09
23 9 0.09
24 7 0.07
25 38 0.37
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.36
Consensus pattern (23 bp):
TTAAATGAAAATCTTTAAGAATC
Found at i:682575 original size:67 final size:64
Alignment explanation
Indices: 682504--682654 Score: 151
Period size: 67 Copynumber: 2.3 Consensus size: 64
682494 AGATTTTTTC
* * * *
682504 AAATGAGAACCTTTGAGTCTT-AAATGAGAATCTTTAAGACGTTTTCAAATAAGAACCTTTGAGT
1 AAATGAGAAACTTTGAGTCTTAAAATGAGAACCTTT--GA-GTCTT-AAATAAGAACATTTGAGT
682568 CAT
62 CAT
* * * *
682571 AAATGAGAATCTTTAAGAAGTTTTAAAATGAGAACCTTTGAGTCTTAAATAAGAATATTTGAGTT
1 AAATGAGAAACTTT--G-AGTCTTAAAATGAGAACCTTTGAGTCTTAAATAAGAACATTTGAGTC
*
682636 TT
63 AT
682638 AAATGAGAAACTTTGAG
1 AAATGAGAAACTTTGAG
682655 AAACTGAGTT
Statistics
Matches: 71, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
64 2 0.03
65 1 0.01
67 43 0.61
68 4 0.06
69 3 0.04
70 5 0.07
71 13 0.18
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.34
Consensus pattern (64 bp):
AAATGAGAAACTTTGAGTCTTAAAATGAGAACCTTTGAGTCTTAAATAAGAACATTTGAGTCAT
Found at i:682617 original size:138 final size:138
Alignment explanation
Indices: 682366--682620 Score: 381
Period size: 138 Copynumber: 1.8 Consensus size: 138
682356 TTGAATCCTT
*
682366 AAATGAGAACCTTTGAGTTTTAAATGAGAATCTTTAAGACATCCTTAAATGAAAACCTTTGAGTC
1 AAATGAGAACCTTTGAGTCTTAAATGAGAATCTTTAAGACATCCTTAAATGAAAACCTTTGAGTC
* *
682431 TTAAATGAAAATCTTTAAAATATTTTCAAATGAGAACCTTTAAATCTTAAATGAAAATCTTTAAG
66 ATAAATGAAAATCTTTAAAATATTTTAAAATGAGAACCTTTAAATCTTAAATGAAAATCTTTAAG
682496 ATTTTTTC
131 ATTTTTTC
* *
682504 AAATGAGAACCTTTGAGTCTTAAATGAGAATCTTTAAGACGT-TTTCAAAT-AAGAACCTTTGAG
1 AAATGAGAACCTTTGAGTCTTAAATGAGAATCTTTAAGACATCCTT-AAATGAA-AACCTTTGAG
* * * *
682567 TCATAAATGAGAATCTTTAAGAA-GTTTTAAAATGAGAACCTTTGAGTCTTAAAT
64 TCATAAATGAAAATCTTTAA-AATATTTTAAAATGAGAACCTTTAAATCTTAAAT
682621 AAGAATATTT
Statistics
Matches: 105, Mismatches: 9, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
137 4 0.04
138 99 0.94
139 2 0.02
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.35
Consensus pattern (138 bp):
AAATGAGAACCTTTGAGTCTTAAATGAGAATCTTTAAGACATCCTTAAATGAAAACCTTTGAGTC
ATAAATGAAAATCTTTAAAATATTTTAAAATGAGAACCTTTAAATCTTAAATGAAAATCTTTAAG
ATTTTTTC
Found at i:682968 original size:107 final size:106
Alignment explanation
Indices: 682755--682954 Score: 285
Period size: 107 Copynumber: 1.9 Consensus size: 106
682745 TGTGAAACTC
* * * *
682755 TAAATGTGAACCTTTGAACTCGAATAAGAAGTTTTGAACTTTTGGATGTGAATATCTAAAATTCG
1 TAAATGTGAACCTTTGAACTCGAATAAAAAGCTTTAAACTTTTGGATGTGAATATCTAAAATTCA
* *
682820 AACGAAAAGCTTTCAACTTTTGGATATGAACCATAAATTTG
66 AACGAAAAGCTTTCAAATGTTGGATATGAACCATAAATTTG
* *
682861 TCAAATGTGAACCTTTGAACTCGAATAAAAAGCTTTAAACTTTTGGATGTGAATCTTTAAAATTC
1 T-AAATGTGAACCTTTGAACTCGAATAAAAAGCTTTAAACTTTTGGATGTGAATATCTAAAATTC
* * *
682926 AAATGAGAATCTTT-AAATGTTGGATATGA
65 AAACGAAAAGCTTTCAAATGTTGGATATGA
682955 GTCTTGCTAT
Statistics
Matches: 82, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
106 14 0.17
107 68 0.83
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.34
Consensus pattern (106 bp):
TAAATGTGAACCTTTGAACTCGAATAAAAAGCTTTAAACTTTTGGATGTGAATATCTAAAATTCA
AACGAAAAGCTTTCAAATGTTGGATATGAACCATAAATTTG
Found at i:683318 original size:81 final size:82
Alignment explanation
Indices: 683176--683681 Score: 547
Period size: 81 Copynumber: 6.2 Consensus size: 82
683166 TCGAAAAGCT
* * * * * *
683176 TTTTATTTTTCAAAATCGTTGTACCTCTGTTTAAATAAGTCTTTTATTTTTCAAAGTTGTTGTAC
1 TTTTATTTTTCAAAGTCATTGTACCTCTGTTTAGATGAGCCTTTTATTTTTCAAAGTTGTTGTGC
* * *
683241 CTCTGTTTATAGGAGCA
66 CTCTATTTAGAGGAGCC
* * *
683258 TTTTA-TTTTCAAAGTCATTGTACCTCTGCTTAGATGAGCATTTTATTTTTCAAAGATGTTGTGC
1 TTTTATTTTTCAAAGTCATTGTACCTCTGTTTAGATGAGCCTTTTATTTTTCAAAGTTGTTGTGC
* *
683322 CTCTACTTAGATGAGCC
66 CTCTATTTAGAGGAGCC
* *
683339 TTTTATTTTTCAAAGTCATT-AAGCCTCTGTTTAAATGAGCCTTTTTATTTTTCAAAGTTGTTGT
1 TTTTATTTTTCAAAGTCATTGTA-CCTCTGTTTAGATGAGCC-TTTTATTTTTCAAAGTTGTTGT
* **
683403 ACCTCTGCTTAGAGGAGCC
64 GCCTCTATTTAGAGGAGCC
* * * *
683422 TTTTATTTTTTAAAGTCATTG-AGCCTCTATTTAGAGGAGCTCTTTTATTTTTCAAAGTTGTTAT
1 TTTTATTTTTCAAAGTCATTGTA-CCTCTGTTTAGATGAGC-CTTTTATTTTTCAAAGTTGTTGT
* *
683486 GCCTCTAATTAGAAGAG-C
64 GCCTCTATTTAGAGGAGCC
** * * * *
683504 TTTTATTTTTCAAAGTTGTTGT-CCTCTATTTAGAAGAGCCTTTTATTTTTTTAAAGTTATTGTG
1 TTTTATTTTTCAAAGTCATTGTACCTCTGTTTAGATGAGCCTTTTA-TTTTTCAAAGTTGTTGTG
* * *
683568 TCTTTATTTAGAGAAG-C
65 CCTCTATTTAGAGGAGCC
* * * * * *
683585 TTTTATTTTTCAAAGTCGTTATGCCGCTGTTTAGAGGAACCTTTTATTTTTCAAAAGTTGTTGTG
1 TTTTATTTTTCAAAGTCATTGTACCTCTGTTTAGATGAGCCTTTTATTTTTC-AAAGTTGTTGTG
*
683650 CCTCTGTTTAGAGGAGCC
65 CCTCTATTTAGAGGAGCC
683668 TTTTATTTTTCAAA
1 TTTTATTTTTCAAA
683682 AGTTGTTGAG
Statistics
Matches: 359, Mismatches: 55, Indels: 19
0.83 0.13 0.04
Matches are distributed among these distances:
80 6 0.02
81 136 0.38
82 95 0.26
83 121 0.34
84 1 0.00
ACGTcount: A:0.24, C:0.14, G:0.16, T:0.47
Consensus pattern (82 bp):
TTTTATTTTTCAAAGTCATTGTACCTCTGTTTAGATGAGCCTTTTATTTTTCAAAGTTGTTGTGC
CTCTATTTAGAGGAGCC
Found at i:683408 original size:42 final size:41
Alignment explanation
Indices: 683176--683689 Score: 491
Period size: 41 Copynumber: 12.5 Consensus size: 41
683166 TCGAAAAGCT
* * * ** *
683176 TTTTATTTTTCAAAATCGTTGTACCTCTGTTTAAATAAGTC
1 TTTTATTTTTCAAAGTTGTTGTACCTCTGTTTAGAGGAGCC
* *
683217 TTTTATTTTTCAAAGTTGTTGTACCTCTGTTTATAGGAGCA
1 TTTTATTTTTCAAAGTTGTTGTACCTCTGTTTAGAGGAGCC
** * * *
683258 TTTTA-TTTTCAAAGTCATTGTACCTCTGCTTAGATGAGCA
1 TTTTATTTTTCAAAGTTGTTGTACCTCTGTTTAGAGGAGCC
* * ** *
683298 TTTTATTTTTCAAAGATGTTGTGCCTCTACTTAGATGAGCC
1 TTTTATTTTTCAAAGTTGTTGTACCTCTGTTTAGAGGAGCC
** * * *
683339 TTTTATTTTTCAAAGTCATT-AAGCCTCTGTTTAAATGAGCC
1 TTTTATTTTTCAAAGTTGTTGTA-CCTCTGTTTAGAGGAGCC
*
683380 TTTTTATTTTTCAAAGTTGTTGTACCTCTGCTTAGAGGAGCC
1 -TTTTATTTTTCAAAGTTGTTGTACCTCTGTTTAGAGGAGCC
* ** *
683422 TTTTATTTTTTAAAGTCATTG-AGCCTCTATTTAGAGGAGCTC
1 TTTTATTTTTCAAAGTTGTTGTA-CCTCTGTTTAGAGGAGC-C
* * ** *
683464 TTTTATTTTTCAAAGTTGTTATGCCTCTAATTAGAAGAG-C
1 TTTTATTTTTCAAAGTTGTTGTACCTCTGTTTAGAGGAGCC
* *
683504 TTTTATTTTTCAAAGTTGTTGT-CCTCTATTTAGAAGAGCC
1 TTTTATTTTTCAAAGTTGTTGTACCTCTGTTTAGAGGAGCC
* * ** * * *
683544 TTTTATTTTTTTAAAGTTATTGTGTCTTTATTTAGAGAAG-C
1 TTTTA-TTTTTCAAAGTTGTTGTACCTCTGTTTAGAGGAGCC
* * * * *
683585 TTTTATTTTTCAAAGTCGTTATGCCGCTGTTTAGAGGAACC
1 TTTTATTTTTCAAAGTTGTTGTACCTCTGTTTAGAGGAGCC
*
683626 TTTTATTTTTCAAAAGTTGTTGTGCCTCTGTTTAGAGGAGCC
1 TTTTATTTTTC-AAAGTTGTTGTACCTCTGTTTAGAGGAGCC
683668 TTTTATTTTTCAAAAGTTGTTG
1 TTTTATTTTTC-AAAGTTGTTG
683690 AGTTTCTATT
Statistics
Matches: 395, Mismatches: 66, Indels: 23
0.82 0.14 0.05
Matches are distributed among these distances:
39 15 0.04
40 88 0.22
41 166 0.42
42 125 0.32
43 1 0.00
ACGTcount: A:0.23, C:0.14, G:0.16, T:0.47
Consensus pattern (41 bp):
TTTTATTTTTCAAAGTTGTTGTACCTCTGTTTAGAGGAGCC
Found at i:683545 original size:205 final size:206
Alignment explanation
Indices: 683171--683688 Score: 600
Period size: 205 Copynumber: 2.5 Consensus size: 206
683161 GATTGTCGAA
* * ** * *
683171 AAGCTTTTTATTTTTCAAAATCGTTGTACCTCTGTTTAAATAAGTCTTTTATTTTTCAAAGTTGT
1 AAGCTTTTTATTTTTCAAAGTCGTTGTACCTCTGTTTAGAGGAGCCTTTTATTTTTAAAAGTTGT
* * ** * ** *
683236 TGTA-CCTCTGTTTATAGGAGCATTTTA-TTTTCAAAGTCATTGTACCTCTGCTTAGATGAGCAT
66 TG-AGCCTCTGTTTAGAGGAGCCTTTTATTTTTCAAAGTTGTTATACCTCTAATTAGAAGAGCAT
*
683299 TTTATTTTTCAAAGATGTTGTGCCTCTACTTAGATGAGCCTTTTA-TTTTTCAAAGTCATTAAGC
130 TTTATTTTTCAAAGATGTTGTGCCTCTACTTAGAAGAGCCTTTTATTTTTTCAAAGTCATTAAGC
*
683363 CTCTGTTTAAATG
195 CTCTATTTAAA-G
* * * **
683376 -AGCCTTTTTATTTTTCAAAGTTGTTGTACCTCTGCTTAGAGGAGCCTTTTATTTTTTAAAGTCA
1 AAG-CTTTTTATTTTTCAAAGTCGTTGTACCTCTGTTTAGAGGAGCCTTTTATTTTTAAAAGTTG
* *
683440 TTGAGCCTCTATTTAGAGGAGCTCTTTTATTTTTCAAAGTTGTTATGCCTCTAATTAGAAGAGC-
65 TTGAGCCTCTGTTTAGAGGAGC-CTTTTATTTTTCAAAGTTGTTATACCTCTAATTAGAAGAGCA
* * * * **
683504 TTTTATTTTTCAAAGTTGTTGT-CCTCTATTTAGAAGAGCCTTTTATTTTTTTAAAGTTATTGTG
129 TTTTATTTTTCAAAGATGTTGTGCCTCTACTTAGAAGAGCCTTTTATTTTTTCAAAGTCATTAAG
* * *
683568 TCTTTATTTAGAG
194 CCTCTATTTAAAG
* * * *
683581 AAGC-TTTTATTTTTCAAAGTCGTTATGCCGCTGTTTAGAGGAACCTTTTATTTTTCAAAAGTTG
1 AAGCTTTTTATTTTTCAAAGTCGTTGTACCTCTGTTTAGAGGAGCCTTTTATTTTT-AAAAGTTG
*
683645 TTGTGCCTCTGTTTAGAGGAGCCTTTTATTTTTCAAAAGTTGTT
65 TTGAGCCTCTGTTTAGAGGAGCCTTTTATTTTTC-AAAGTTGTT
683689 GAGTTTCTAT
Statistics
Matches: 263, Mismatches: 42, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
204 60 0.23
205 126 0.48
206 50 0.19
207 27 0.10
ACGTcount: A:0.24, C:0.14, G:0.16, T:0.47
Consensus pattern (206 bp):
AAGCTTTTTATTTTTCAAAGTCGTTGTACCTCTGTTTAGAGGAGCCTTTTATTTTTAAAAGTTGT
TGAGCCTCTGTTTAGAGGAGCCTTTTATTTTTCAAAGTTGTTATACCTCTAATTAGAAGAGCATT
TTATTTTTCAAAGATGTTGTGCCTCTACTTAGAAGAGCCTTTTATTTTTTCAAAGTCATTAAGCC
TCTATTTAAAG
Found at i:683753 original size:6 final size:6
Alignment explanation
Indices: 683723--683756 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
683713 TTTACTTTTT
* *
683723 CAAAAA AAAAAA AAAAAA CAAAAA CAAAAA CAAA
1 CAAAAA CAAAAA CAAAAA CAAAAA CAAAAA CAAA
683757 GGAAGTGTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (6 bp):
CAAAAA
Found at i:687178 original size:35 final size:35
Alignment explanation
Indices: 687139--687209 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
687129 TATATATAAA
*
687139 TCAAATATTTTCTGGGCATAAATATACAAATGACT
1 TCAAATATTTTCTGGGCATAAACATACAAATGACT
* * * * *
687174 TCAAATGTTTTTTGGGTATAAACCTACAACTGACT
1 TCAAATATTTTCTGGGCATAAACATACAAATGACT
687209 T
1 T
687210 AATATATATA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (35 bp):
TCAAATATTTTCTGGGCATAAACATACAAATGACT
Found at i:688092 original size:62 final size:63
Alignment explanation
Indices: 687938--688103 Score: 178
Period size: 62 Copynumber: 2.6 Consensus size: 63
687928 CAAAATATTT
* * *
687938 TTGAAGGCGTTTTTGACAAAAACTACCTTCAATAATCCGACTATTCAAATTTATTGTGTGGAATA
1 TTGAAGGCGTTTTTGACAAAAA-TGCCTTCAATAATCC-ACTATCCAAATTTATTGTATGGAATA
* * * *
688003 TTAAAGGCG-TTTTGAGCCAAAAATGCCTTCAAGAATCCA-T-TCCAACTTT-TGTGTATGGATT
1 TTGAAGGCGTTTTTGA--CAAAAATGCCTTCAATAATCCACTATCCAAATTTAT-TGTATGGAAT
688064 A
63 A
*
688065 TTGAAGGCGTTTTTGACAAAAATTGCCTTTAATAATCCA
1 TTGAAGGCGTTTTTGACAAAAA-TGCCTTCAATAATCCA
688104 AATTAAAAAT
Statistics
Matches: 86, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
61 7 0.08
62 38 0.44
63 7 0.08
64 7 0.08
65 21 0.24
66 6 0.07
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (63 bp):
TTGAAGGCGTTTTTGACAAAAATGCCTTCAATAATCCACTATCCAAATTTATTGTATGGAATA
Found at i:694886 original size:13 final size:13
Alignment explanation
Indices: 694870--694906 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
694860 TTTTTTAAAA
694870 TTTTATTTTTTAT
1 TTTTATTTTTTAT
*
694883 TTTTATTATTTAT
1 TTTTATTTTTTAT
*
694896 TATTATTTTTT
1 TTTTATTTTTT
694907 TGAAAATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTATTTTTTAT
Found at i:696663 original size:23 final size:21
Alignment explanation
Indices: 696606--696663 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 21
696596 TAGAATATTT
696606 AAATAAATAATAAATATGATAA
1 AAATAAATAA-AAATATGATAA
* *
696628 ATATAAA-ATAAAATCTGAAATAA
1 AAATAAATA-AAAATATG--ATAA
696651 AAATAAATAAAAA
1 AAATAAATAAAAA
696664 AAGTTTCATA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
21 7 0.24
22 7 0.24
23 14 0.48
24 1 0.03
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.24
Consensus pattern (21 bp):
AAATAAATAAAAATATGATAA
Found at i:703131 original size:15 final size:15
Alignment explanation
Indices: 703111--703139 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
703101 TCTAACAAAG
703111 TTTAATGAAACTAAT
1 TTTAATGAAACTAAT
703126 TTTAATGAAACTAA
1 TTTAATGAAACTAA
703140 CCCTGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (15 bp):
TTTAATGAAACTAAT
Found at i:710272 original size:15 final size:14
Alignment explanation
Indices: 710237--710273 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
710227 TGATATGAAA
*
710237 TTCATCTCATAAAT
1 TTCATATCATAAAT
710251 TTCATATCATAAAT
1 TTCATATCATAAAT
710265 TATCATATC
1 T-TCATATC
710274 TAATGAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.43
Consensus pattern (14 bp):
TTCATATCATAAAT
Found at i:710645 original size:13 final size:13
Alignment explanation
Indices: 710629--710669 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
710619 TTTTTTTTTT
*
710629 AAAAAAA-ATAAC
1 AAAAAAAGAAAAC
*
710641 AAAAAAAGAAAAG
1 AAAAAAAGAAAAC
710654 AAAAAAAGAAAA-
1 AAAAAAAGAAAAC
710666 AAAA
1 AAAA
710670 TAGAATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 11 0.42
13 15 0.58
ACGTcount: A:0.88, C:0.02, G:0.07, T:0.02
Consensus pattern (13 bp):
AAAAAAAGAAAAC
Found at i:710712 original size:20 final size:19
Alignment explanation
Indices: 710689--710745 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
710679 AAATATAGGT
*
710689 AAAATAAATAAAATAAAATG
1 AAAATAAA-AAAATAAAAAG
710709 AAAATAAAAAAATAAAAAG
1 AAAATAAAAAAATAAAAAG
* *
710728 AAAATGAAAAAAGAAAAA
1 AAAATAAAAAAATAAAAA
710746 CTTGCAAATG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 26 0.76
20 8 0.24
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.12
Consensus pattern (19 bp):
AAAATAAAAAAATAAAAAG
Found at i:711047 original size:120 final size:121
Alignment explanation
Indices: 710833--711073 Score: 403
Period size: 120 Copynumber: 2.0 Consensus size: 121
710823 CGACATTGTT
710833 TCGACGCTATATAAAAGGGCCCTTTCAGCGTTTTCTTCAAAAATCCCAGAAGCTCTCTCTTTCTA
1 TCGACGCTATATAAAAGGGCCCTTTCAGCGTTTTCTTCAAAAATCCCAGAAGCTCTCTCTTTCTA
* *
710898 CCCTTCCAAAATTCTCTGCATTCTCTCTAAAAGCCGTCAAAAAGTTCAACTGAAAA
66 CCCTTCCAAAATCCTCTGCATTCTCTCTAAAAGCCGCCAAAAAGTTCAACTGAAAA
* * *
710954 TCGACGCTGTATAAAAGGG-CCTTTCAGCGTTTTCTTCAAAAATCCTAGAAGCTTTCTCTTTCTA
1 TCGACGCTATATAAAAGGGCCCTTTCAGCGTTTTCTTCAAAAATCCCAGAAGCTCTCTCTTTCTA
* * *
711018 CCCTTTCAAAATCCTCTGCCTTCTCTCTAAAAGCCGCCAAAAAGTTCAATTGAAAA
66 CCCTTCCAAAATCCTCTGCATTCTCTCTAAAAGCCGCCAAAAAGTTCAACTGAAAA
711074 CTGGAGATCT
Statistics
Matches: 112, Mismatches: 8, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
120 94 0.84
121 18 0.16
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (121 bp):
TCGACGCTATATAAAAGGGCCCTTTCAGCGTTTTCTTCAAAAATCCCAGAAGCTCTCTCTTTCTA
CCCTTCCAAAATCCTCTGCATTCTCTCTAAAAGCCGCCAAAAAGTTCAACTGAAAA
Found at i:711279 original size:13 final size:13
Alignment explanation
Indices: 711258--711290 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
711248 AAAATTTCAG
711258 AAAAA-TCCTAAA
1 AAAAATTCCTAAA
711270 AAAAATTCCTAAA
1 AAAAATTCCTAAA
711283 AAAAATTC
1 AAAAATTC
711291 TTGGATCATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 5 0.25
13 15 0.75
ACGTcount: A:0.64, C:0.15, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAAATTCCTAAA
Found at i:711693 original size:10 final size:9
Alignment explanation
Indices: 711672--711711 Score: 53
Period size: 10 Copynumber: 4.2 Consensus size: 9
711662 ACAACGAAAG
711672 AAAGAAAGAA
1 AAAGAAA-AA
*
711682 AAAGGAAAA
1 AAAGAAAAA
711691 AAAGAAAAAA
1 AAAG-AAAAA
711701 AAAGAAAAA
1 AAAGAAAAA
711710 AA
1 AA
711712 TAGTAGTAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
9 13 0.48
10 14 0.52
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:711694 original size:19 final size:18
Alignment explanation
Indices: 711667--711711 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
711657 AGGAAACAAC
* *
711667 GAAAGAAAGAAAGAAAAAG
1 GAAAAAAAGAAA-AAAAAA
711686 GAAAAAAAGAAAAAAAAA
1 GAAAAAAAGAAAAAAAAA
711704 GAAAAAAA
1 GAAAAAAA
711712 TAGTAGTAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 13 0.54
19 11 0.46
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (18 bp):
GAAAAAAAGAAAAAAAAA
Found at i:711730 original size:3 final size:3
Alignment explanation
Indices: 711724--711783 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
711714 GTAGTAGTAG
711724 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
711772 TAA TAA TAA TAA
1 TAA TAA TAA TAA
711784 AAAACACATT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:712431 original size:89 final size:89
Alignment explanation
Indices: 712287--713129 Score: 752
Period size: 89 Copynumber: 9.5 Consensus size: 89
712277 AGGCCGAGCT
* * * * * * * * * *
712287 GAGGTC-AAAATATATGATC-AGGACGAAACCATGAATCACGCGATCGGGATAAAACCAGGAGCC
1 GAGGTCAAAAATAAATGATCGA-GATGAAACCACGAATCATGTGACCGAGATGAAACCACGAGTC
*
712350 AAAATAAGGTGACCAAGA-CTGAGTC
65 AAACTAAGGTGACCAAGATC-GAGTC
* * * *
712375 GAGGTAAAAAATAAATGATCGGGATGAAACCATGAATCATGTGACCGAGATGAAACCATGAGTCA
1 GAGGTCAAAAATAAATGATCGAGATGAAACCACGAATCATGTGACCGAGATGAAACCACGAGTCA
*
712440 AACTAAGGTGACCAGGATCGAGTC
66 AACTAAGGTGACCAAGATCGAGTC
* * * * *
712464 GAGGTTAAAAATAAATGATCGGGATGAAACCATGAATCATGTGATCGAGATGAAACTACGAGTCA
1 GAGGTCAAAAATAAATGATCGAGATGAAACCACGAATCATGTGACCGAGATGAAACCACGAGTCA
*
712529 AACTAAGGTGATCAAGATCGAGTC
66 AACTAAGGTGACCAAGATCGAGTC
* * * * * * * * * **
712553 GAGGTCGAGAATAAATGATCGGGATGAAATCATGACTCATGTGACTGAAATGAAATCATAAGTCA
1 GAGGTCAAAAATAAATGATCGAGATGAAACCACGAATCATGTGACCGAGATGAAACCACGAGTCA
* *
712618 AAATAAGGTGACCAGGATCGAGTC
66 AACTAAGGTGACCAAGATCGAGTC
* * * * *
712642 GAGGTCAAAAATAAATGATTGAGA-GAAATCATGAATCATGTGACCGGGATGAAACCATGAGTCA
1 GAGGTCAAAAATAAATGATCGAGATGAAACCACGAATCATGTGACCGAGATGAAACCACGAGTCA
* *
712706 AACTAAGGTGATCAAGATCAAGTC
66 AACTAAGGTGACCAAGATCGAGTC
* * * * * * *
712730 AAGGTAAAAAATAAATGATCGAAATAAAACTACGAATCATGTGACCG-GAGCGAAGCCACGAGTC
1 GAGGTCAAAAATAAATGATCGAGATGAAACCACGAATCATGTGACCGAGA-TGAAACCACGAGTC
* * * * *
712794 AAACTAAGGCGACCAAG-GCTAAATT
65 AAACTAAGGTGACCAAGATC-GAGTC
* * * * * *
712819 GAGGTCGAAAATAAATAATC-AGGATGAAACCACGACTCATGTTACCTG-GACGAAACCATGAGT
1 GAGGTCAAAAATAAATGATCGA-GATGAAACCACGAATCATGTGACC-GAGATGAAACCACGAGT
* * * *
712882 CAAAATAAAGTGATCAGGA-CTGAGTC
64 CAAACTAAGGTGACCAAGATC-GAGTC
** ** * *
712908 GAGGTCAAAAATAAATGATCGAGATGAAACCACGAATCATACGATTGAGGTGAAACCACAAGTCA
1 GAGGTCAAAAATAAATGATCGAGATGAAACCACGAATCATGTGACCGAGATGAAACCACGAGTCA
**
712973 AACTAAGGCAACCAAGATCGAGTC
66 AACTAAGGTGACCAAGATCGAGTC
* * * * * * * ** *
712997 AAGGTTAAAACTAAATGATCAAGAAGAAACCACGACTCGTGCAACTGAGACT-AAACCACGAGTC
1 GAGGTCAAAAATAAATGATCGAGATGAAACCACGAATCATGTGACCGAGA-TGAAACCACGAGTC
* *
713061 AAAATAAGGTGACCAGGATCGAGTC
65 AAACTAAGGTGACCAAGATCGAGTC
* * **
713086 GGGGTCAAAAATAAATGATCAAGACAAAACCACGAATCATGTGA
1 GAGGTCAAAAATAAATGATCGAGATGAAACCACGAATCATGTGA
713130 AATGGTTTGG
Statistics
Matches: 615, Mismatches: 127, Indels: 25
0.80 0.17 0.03
Matches are distributed among these distances:
88 84 0.14
89 524 0.85
90 7 0.01
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.18
Consensus pattern (89 bp):
GAGGTCAAAAATAAATGATCGAGATGAAACCACGAATCATGTGACCGAGATGAAACCACGAGTCA
AACTAAGGTGACCAAGATCGAGTC
Found at i:724991 original size:51 final size:51
Alignment explanation
Indices: 724936--725339 Score: 482
Period size: 50 Copynumber: 8.0 Consensus size: 51
724926 CTTTGAGAAT
* * *
724936 AGATGAG-ATTTTTAAAATTGTTGAGTCTCTGCTAAGAGAAGCCATTTTTTA
1 AGATGAGAATTTTTAAAGTTGTTGAGCCTCTGCTAAGAGAAGCC-TTTTTCA
* * *
724987 AGATGAGAAATTTTAAAATTGTTGAGCCTCTGCTGAGATG-AG-CTCTTTTCA
1 AGATGAGAATTTTTAAAGTTGTTGAGCCTCTGCTAAGA-GAAGCCT-TTTTCA
* * * *
725038 AGATGAGAATTTTTGAAGTTGTTAAGCCTCTGCTGAGAGGAACCCTTTTT-A
1 AGATGAGAATTTTTAAAGTTGTTGAGCCTCTGCTAAGA-GAAGCCTTTTTCA
* *
725089 AGATGAG-ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCA
1 AGATGAGAATTTTTAAAGTTGTTGAGCCTCTGCTAAGAGAAGCCTTTTTCA
* * * *
725138 AGATGAGAATTTTTAAAGTTGTTGAGCCTCCGCTGAGATAAGCCCTTTTCA
1 AGATGAGAATTTTTAAAGTTGTTGAGCCTCTGCTAAGAGAAGCCTTTTTCA
* * * *
725189 AGATGAGAATTTTTAAAGTTGTTAAGCCTCTACTAAGAGGAGTCTTTTTCA
1 AGATGAGAATTTTTAAAGTTGTTGAGCCTCTGCTAAGAGAAGCCTTTTTCA
* *
725240 AGATGAG-ATTTTTAAAGTTGTTGAGCCTCTACTAAGAGGAGCCTTTTTCA
1 AGATGAGAATTTTTAAAGTTGTTGAGCCTCTGCTAAGAGAAGCCTTTTTCA
* * * *
725290 AGAT-AAAATTTTTAAAGTTGTTGAGCCTTTGCTAAGAGGAGTCTTTTTCA
1 AGATGAGAATTTTTAAAGTTGTTGAGCCTCTGCTAAGAGAAGCCTTTTTCA
725340 GATTTTAAAA
Statistics
Matches: 312, Mismatches: 32, Indels: 19
0.86 0.09 0.05
Matches are distributed among these distances:
48 6 0.02
49 11 0.04
50 145 0.46
51 113 0.36
52 34 0.11
53 3 0.01
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.37
Consensus pattern (51 bp):
AGATGAGAATTTTTAAAGTTGTTGAGCCTCTGCTAAGAGAAGCCTTTTTCA
Found at i:725164 original size:151 final size:152
Alignment explanation
Indices: 724936--725336 Score: 576
Period size: 151 Copynumber: 2.7 Consensus size: 152
724926 CTTTGAGAAT
* * * * *
724936 AGATGAGATTTTTAAAATTGTTGAGTCTCTGCTAAGAGAAGCCATTTTTTAAGATGAGAAATTTT
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGCC-TTTTTCAAGATGAGAATTTTT
* *
725001 AAAATTGTTGAGCCTCTGCTGAGATGAGCTCTTTTCAAGATGAGAATTTTTGAAGTTGTTAAGCC
65 AAAGTTGTTGAGCCTCTGCTGAGATGAGCTCTTTTCAAGATGAGAATTTTTAAAGTTGTTAAGCC
* *
725066 TCTGCTGAGAGGAACCCTTTTT-A
130 TCTACTAAGAGG-ACCCTTTTTCA
*
725089 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTCAAGATGAGAATTTTTA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGCCTTTTTCAAGATGAGAATTTTTA
* * *
725153 AAGTTGTTGAGCCTCCGCTGAGATAAGCCCTTTTCAAGATGAGAATTTTTAAAGTTGTTAAGCCT
66 AAGTTGTTGAGCCTCTGCTGAGATGAGCTCTTTTCAAGATGAGAATTTTTAAAGTTGTTAAGCCT
**
725218 CTACTAAGAGGAGTCTTTTTCA
131 CTACTAAGAGGACCCTTTTTCA
* *
725240 AGATGAGATTTTTAAAGTTGTTGAGCCTCTACTAAGAGGAGCCTTTTTCAAGAT-AAAATTTTTA
1 AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGCCTTTTTCAAGATGAGAATTTTTA
* * *
725304 AAGTTGTTGAGCCTTTGCTAAGAGGAG-TCTTTT
66 AAGTTGTTGAGCCTCTGCTGAGATGAGCTCTTTT
725337 TCAGATTTTA
Statistics
Matches: 222, Mismatches: 24, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
150 12 0.05
151 160 0.72
152 13 0.06
153 37 0.17
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.37
Consensus pattern (152 bp):
AGATGAGATTTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAGCCTTTTTCAAGATGAGAATTTTTA
AAGTTGTTGAGCCTCTGCTGAGATGAGCTCTTTTCAAGATGAGAATTTTTAAAGTTGTTAAGCCT
CTACTAAGAGGACCCTTTTTCA
Found at i:725652 original size:18 final size:19
Alignment explanation
Indices: 725611--725651 Score: 68
Period size: 17 Copynumber: 2.3 Consensus size: 19
725601 AAAATTAAAC
725611 AAAAATAGCAAAATAGCAA
1 AAAAATAGCAAAATAGCAA
725630 AAAAATA-CAAAATA-CAA
1 AAAAATAGCAAAATAGCAA
725647 AAAAA
1 AAAAA
725652 AGAACAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.36
18 7 0.32
19 7 0.32
ACGTcount: A:0.76, C:0.10, G:0.05, T:0.10
Consensus pattern (19 bp):
AAAAATAGCAAAATAGCAA
Found at i:726649 original size:24 final size:24
Alignment explanation
Indices: 726604--726650 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
726594 TAATTTTTGA
*
726604 TTTTTTAAAATATTATTTTTGATT
1 TTTTTTAAAATATTATTATTGATT
*
726628 TTTTTTAAAAGT-TTGTTATTGAT
1 TTTTTTAAAA-TATTATTATTGAT
726651 ATTTATGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.64
Consensus pattern (24 bp):
TTTTTTAAAATATTATTATTGATT
Found at i:726988 original size:18 final size:18
Alignment explanation
Indices: 726949--726991 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
726939 TTTTATAAAG
* *
726949 TAATAAATAAGAGTTAAT
1 TAATAAATAAGAGATAAC
726967 TAATAAATTAAGA-ATAAC
1 TAATAAA-TAAGAGATAAC
726985 TAATAAA
1 TAATAAA
726992 AAATAAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.30
Consensus pattern (18 bp):
TAATAAATAAGAGATAAC
Found at i:734520 original size:19 final size:19
Alignment explanation
Indices: 734490--734537 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 19
734480 TATAGGTAAT
*
734490 ATAAATAAAATAAAATGAAA
1 ATAAA-AAAATAAAAAGAAA
734510 ATAAAAAAATAAAAAGAAA
1 ATAAAAAAATAAAAAGAAA
734529 ATGAAAAAA
1 AT-AAAAAA
734538 GGAAAACCTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (19 bp):
ATAAAAAAATAAAAAGAAA
Found at i:734543 original size:19 final size:20
Alignment explanation
Indices: 734501--734543 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
734491 TAAATAAAAT
*
734501 AAAATGAAAATAAAAAAATA
1 AAAATGAAAATAAAAAAAGA
*
734521 AAAA-GAAAATGAAAAAAGGA
1 AAAATGAAAAT-AAAAAAAGA
734541 AAA
1 AAA
734544 CCTGCGAACG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (20 bp):
AAAATGAAAATAAAAAAAGA
Found at i:735398 original size:11 final size:10
Alignment explanation
Indices: 735384--735424 Score: 57
Period size: 11 Copynumber: 4.0 Consensus size: 10
735374 ACAACAGAAG
735384 AAAGAAAGAAA
1 AAAGAAA-AAA
735395 AAAG-AAAAA
1 AAAGAAAAAA
735404 AAAGAAAAGAA
1 AAAGAAAA-AA
735415 AAAGAAAAAA
1 AAAGAAAAAA
735425 CAGAAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 7 0.25
10 7 0.25
11 14 0.50
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:735406 original size:9 final size:9
Alignment explanation
Indices: 735392--735430 Score: 51
Period size: 9 Copynumber: 4.1 Consensus size: 9
735382 AGAAAGAAAG
735392 AAAAAAGAA
1 AAAAAAGAA
735401 AAAAAAGAAA
1 AAAAAAG-AA
735411 AGAAAAAGAA
1 A-AAAAAGAA
*
735421 AAAACAGAA
1 AAAAAAGAA
735430 A
1 A
735431 TAATAATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 15 0.56
10 6 0.22
11 6 0.22
ACGTcount: A:0.85, C:0.03, G:0.13, T:0.00
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:735407 original size:20 final size:20
Alignment explanation
Indices: 735384--735430 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
735374 ACAACAGAAG
735384 AAAG-AAAGAAAAAAGAAAAA
1 AAAGAAAAG-AAAAAGAAAAA
735404 AAAGAAAAGAAAAAGAAAAA
1 AAAGAAAAGAAAAAGAAAAA
*
735424 ACAGAAA
1 AAAGAAA
735431 TAATAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (20 bp):
AAAGAAAAGAAAAAGAAAAA
Found at i:735437 original size:3 final size:3
Alignment explanation
Indices: 735429--735463 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
735419 AAAAAACAGA
*
735429 AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
735464 AACACATTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:735717 original size:2 final size:2
Alignment explanation
Indices: 735712--735738 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
735702 TATATATATA
735712 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
735739 CCATTTCAAA
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:740648 original size:23 final size:23
Alignment explanation
Indices: 740602--740648 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
740592 AACTTTTCAA
* *
740602 ATTAGATAAATTCATGTACCATT
1 ATTAGATAAATTCATGAACAATT
* *
740625 ATTAGATAGATTCATGAATAATT
1 ATTAGATAAATTCATGAACAATT
740648 A
1 A
740649 GGTTCATGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.38
Consensus pattern (23 bp):
ATTAGATAAATTCATGAACAATT
Found at i:741939 original size:59 final size:58
Alignment explanation
Indices: 741687--741966 Score: 342
Period size: 57 Copynumber: 4.9 Consensus size: 58
741677 TGAGAGTTTC
* *
741687 TATTTT-AAGGAAAATTGATACTTCCAACTTTTTCTC-AAAATATTTTTCT--AAAACTT
1 TATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTT-TAGAAAAC-T
* * *
741743 TAATTTCGAA-GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAAAAAAATT
1 TATTTTC-AAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT-AGAAAACT
* * * * *
741802 TATTTTTAA-GAAAATTGATACTTTTACCTTCTCTTC-AAAATATTTTTTAGAAAA-T
1 TATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACT
*
741857 TATTTTCAAGGAAAATTGATACTTTTAACTTTTCCTCAAAAATATTTTTTAGAAAAACT
1 TATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAG-AAAACT
*
741916 TATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATATTTTT
1 TATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTT
741967 TTAGAATTTT
Statistics
Matches: 196, Mismatches: 17, Indels: 18
0.85 0.07 0.08
Matches are distributed among these distances:
55 9 0.05
56 34 0.17
57 52 0.27
58 42 0.21
59 50 0.26
60 9 0.05
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (58 bp):
TATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACT
Found at i:742007 original size:5 final size:5
Alignment explanation
Indices: 741997--742042 Score: 56
Period size: 5 Copynumber: 8.4 Consensus size: 5
741987 AATCATTAAA
741997 AAAAT AAAAT AAAAT AAAAAT AAGAAT AAGAAT AAAAAT AAAAT AA
1 AAAAT AAAAT AAAAT -AAAAT AA-AAT AA-AAT -AAAAT AAAAT AA
742043 GGAATACCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
5 19 0.50
6 17 0.45
7 2 0.05
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:742016 original size:6 final size:6
Alignment explanation
Indices: 741996--742039 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
741986 AAATCATTAA
* *
741996 AAAAAT -AAAAT -AAAAT AAAAAT AAGAAT AAGAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
742040 TAAGGAATAC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 10 0.29
6 25 0.71
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:742048 original size:12 final size:11
Alignment explanation
Indices: 741999--742048 Score: 57
Period size: 12 Copynumber: 4.4 Consensus size: 11
741989 TCATTAAAAA
741999 AATAAAATAA-
1 AATAAAATAAG
742009 AATAAAAATAAG
1 AAT-AAAATAAG
*
742021 AATAAGAATAAA
1 AATAA-AATAAG
742033 AATAAAATAAGG
1 AATAAAATAA-G
742045 AATA
1 AATA
742049 CCAAATTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 3 0.09
11 14 0.41
12 17 0.50
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (11 bp):
AATAAAATAAG
Found at i:742078 original size:3 final size:3
Alignment explanation
Indices: 742065--742134 Score: 106
Period size: 3 Copynumber: 23.0 Consensus size: 3
742055 TATTCTAATC
742065 TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
742111 TAA -AA GAAA TAA TAA TAA TAA TAA
1 TAA TAA -TAA TAA TAA TAA TAA TAA
742135 ATAAGGAAAA
Statistics
Matches: 63, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
2 2 0.03
3 56 0.89
4 5 0.08
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:742545 original size:11 final size:11
Alignment explanation
Indices: 742529--742560 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
742519 TTTCGTCGGA
742529 TTCTAGAAAAT
1 TTCTAGAAAAT
*
742540 TTCTAGAAATT
1 TTCTAGAAAAT
742551 TTCTAGAAAA
1 TTCTAGAAAA
742561 AAAAACTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.44, C:0.09, G:0.09, T:0.38
Consensus pattern (11 bp):
TTCTAGAAAAT
Found at i:742878 original size:34 final size:33
Alignment explanation
Indices: 742829--742911 Score: 107
Period size: 34 Copynumber: 2.5 Consensus size: 33
742819 AAATCAATCA
*
742829 AGATAAAATAAAAAAATACATATTAATAATTAAT
1 AGAT-AAATAAAAAAATACATATTAATAAATAAT
*
742863 AGATAAATAATAAAAATATATATTAATAAATAAT
1 AGATAAATAA-AAAAATACATATTAATAAATAAT
*
742897 A-AT-AATACAAAAATA
1 AGATAAATAAAAAAATA
742912 AAATACAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
31 7 0.16
32 4 0.09
33 8 0.18
34 26 0.58
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (33 bp):
AGATAAATAAAAAAATACATATTAATAAATAAT
Found at i:742925 original size:14 final size:14
Alignment explanation
Indices: 742868--742922 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 14
742858 TTAATAGATA
742868 AATAATA-AAAATAT
1 AATAATACAAAA-AT
*
742882 ATATTAATA-AATAAT
1 A-A-TAATACAAAAAT
742897 AATAATACAAAAAT
1 AATAATACAAAAAT
742911 AA-AATACAAAAA
1 AATAATACAAAAA
742923 ATACAAAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
13 15 0.42
14 9 0.25
15 4 0.11
16 8 0.22
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (14 bp):
AATAATACAAAAAT
Found at i:753417 original size:28 final size:29
Alignment explanation
Indices: 753386--753447 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
753376 AAATAATAGC
*
753386 ATAAAACAAAA-ATAAATAAAAC-CACAAA
1 ATAAAACAAAATATAAACAAAACAC-CAAA
*
753414 AT-AAACAAAATATAAACAAAATACCAAA
1 ATAAAACAAAATATAAACAAAACACCAAA
753442 ATAAAA
1 ATAAAA
753448 GTGGCTTGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
27 8 0.28
28 17 0.59
29 4 0.14
ACGTcount: A:0.74, C:0.13, G:0.00, T:0.13
Consensus pattern (29 bp):
ATAAAACAAAATATAAACAAAACACCAAA
Found at i:754649 original size:43 final size:45
Alignment explanation
Indices: 754586--754700 Score: 105
Period size: 43 Copynumber: 2.6 Consensus size: 45
754576 TATTTAACAC
* *
754586 TTTGAAAAACAT-AA-AA-GCTTCTTTCAACAGAGACTCAATAACT
1 TTTGAAAAA-ATAAATAAGGCTTCTTTCAACAAAGACTCAACAACT
* * * * * *
754629 TTTG-ACAAATATAT-AGGCTTCTCTAAATAAAGACTCAACGACT
1 TTTGAAAAAATAAATAAGGCTTCTTTCAACAAAGACTCAACAACT
*
754672 TTTGAAAAAATAAATAAGACTTCTTTCAA
1 TTTGAAAAAATAAATAAGGCTTCTTTCAA
754701 TATCTTTTGA
Statistics
Matches: 54, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
41 2 0.04
42 5 0.09
43 29 0.54
44 8 0.15
45 10 0.19
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.30
Consensus pattern (45 bp):
TTTGAAAAAATAAATAAGGCTTCTTTCAACAAAGACTCAACAACT
Found at i:754973 original size:16 final size:17
Alignment explanation
Indices: 754940--754976 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
754930 TAATTCAAAG
*
754940 ATTCGCAAGACTTTCAA
1 ATTCGCAAGACATTCAA
754957 ATTCGCAAGA-ATTCAA
1 ATTCGCAAGACATTCAA
754973 ATTC
1 ATTC
754977 ACAAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.30
Consensus pattern (17 bp):
ATTCGCAAGACATTCAA
Found at i:755020 original size:34 final size:33
Alignment explanation
Indices: 754931--755020 Score: 81
Period size: 33 Copynumber: 2.6 Consensus size: 33
754921 AAAGGTTCGT
* * *
754931 AATTCAAAGATTCGCAAGACTTTCAAATTCGCAAG
1 AATTC-AA-ATTCACAAGATTTTCAAATTCACAAG
* *
754966 AATTCAAATTCACAAAATTTTCATATTCACAAG
1 AATTCAAATTCACAAGATTTTCAAATTCACAAG
* * *
754999 CATATCAGATTCATAAGATTTT
1 AAT-TCAAATTCACAAGATTTT
755021 TCGTTCTCAA
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
33 23 0.51
34 17 0.38
35 5 0.11
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (33 bp):
AATTCAAATTCACAAGATTTTCAAATTCACAAG
Found at i:755070 original size:17 final size:17
Alignment explanation
Indices: 755046--755100 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
755036 TCAAGTTTGT
* *
755046 AAGAATTTCATATTCGC
1 AAGAATTTCAGATTCAC
*
755063 AAGTATTTCAGATTCAC
1 AAGAATTTCAGATTCAC
* *
755080 AAGAATTTTAGATTCAT
1 AAGAATTTCAGATTCAC
755097 AAGA
1 AAGA
755101 GTTTTCATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (17 bp):
AAGAATTTCAGATTCAC
Found at i:755081 original size:84 final size:84
Alignment explanation
Indices: 754984--755137 Score: 227
Period size: 84 Copynumber: 1.8 Consensus size: 84
754974 TTCACAAAAT
* * * * * *
754984 TTTCATATTCACAAGCATATCAGATTCATAAGATTTTTCGTTCTCAAGGATTTCAAGTTTGTAAG
1 TTTCAGATTCACAAGAATATCAGATTCATAAGAGTTTTCATTCTCAAGGATTTCAAGTTTGCAAC
755049 AATTTCATATTCGCAAGTA
66 AATTTCATATTCGCAAGTA
* * *
755068 TTTCAGATTCACAAGAATTTTAGATTCATAAGAGTTTTCATTTTCAAGGATTTCAAGTTTGCAAC
1 TTTCAGATTCACAAGAATATCAGATTCATAAGAGTTTTCATTCTCAAGGATTTCAAGTTTGCAAC
755133 AATTT
66 AATTT
755138 GATTACCAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
84 61 1.00
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.40
Consensus pattern (84 bp):
TTTCAGATTCACAAGAATATCAGATTCATAAGAGTTTTCATTCTCAAGGATTTCAAGTTTGCAAC
AATTTCATATTCGCAAGTA
Found at i:755600 original size:92 final size:92
Alignment explanation
Indices: 755499--755672 Score: 249
Period size: 92 Copynumber: 1.9 Consensus size: 92
755489 AATTTAGAAG
* * *
755499 TTCACATCCAAAACTTCAAAACTTCTCATTCGAGCTCAAAGATTCACATTCGATAAATTTTAGAG
1 TTCACATCCAAAACTTCAAAACTTCTAATTCAAGCTCAAAGATTCACATTCGATAAATTTTAAAG
755564 CTTCACATCTAAATTCAGTAGTTTTCA
66 CTTCACATCTAAATTCAGTAGTTTTCA
* * * ** * *
755591 TTCATATCCAAAATTTTAAAGTTTCTAATTCAAGTTCAAAGATTCGCATTCGATAAATTTTAAAG
1 TTCACATCCAAAACTTCAAAACTTCTAATTCAAGCTCAAAGATTCACATTCGATAAATTTTAAAG
*
755656 TTTCACATCTAAATTCA
66 CTTCACATCTAAATTCA
755673 AAGGTTCTCA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
92 71 1.00
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (92 bp):
TTCACATCCAAAACTTCAAAACTTCTAATTCAAGCTCAAAGATTCACATTCGATAAATTTTAAAG
CTTCACATCTAAATTCAGTAGTTTTCA
Found at i:755673 original size:44 final size:44
Alignment explanation
Indices: 755534--755729 Score: 141
Period size: 44 Copynumber: 4.3 Consensus size: 44
755524 TCATTCGAGC
* * *
755534 TCAAAGATTCACATTCGATAAATTTTAGAGCTTCACATCTAAAT
1 TCAAAGATTCTCATTCGATAAATTTTAAAGTTTCACATCTAAAT
* * * *
755578 TCAGTAG-TTTTCATTCATATCCAAAATTTTAAAGTTTCTA-AT-TCAAGT
1 TCA-AAGATTCTCATTC-GAT---AAATTTTAAAGTTTC-ACATCT-AAAT
*
755626 TCAAAGATTCGCATTCGATAAATTTTAAAGTTTCACATCTAAAT
1 TCAAAGATTCTCATTCGATAAATTTTAAAGTTTCACATCTAAAT
* * * **
755670 TCAAAGGTTCTCATTC-AAAAAATTTAGGGGTTT-ACATCTAAAATT
1 TCAAAGATTCTCATTCGATAAATTTTA-AAGTTTCACATCT-AAA-T
*
755715 TCAAAGCTTCTCATT
1 TCAAAGATTCTCATT
755730 TGAGTTCAAA
Statistics
Matches: 120, Mismatches: 19, Indels: 25
0.73 0.12 0.15
Matches are distributed among these distances:
43 15 0.12
44 51 0.43
45 20 0.17
47 5 0.04
48 28 0.23
49 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (44 bp):
TCAAAGATTCTCATTCGATAAATTTTAAAGTTTCACATCTAAAT
Found at i:755737 original size:109 final size:109
Alignment explanation
Indices: 755600--755798 Score: 299
Period size: 109 Copynumber: 1.8 Consensus size: 109
755590 ATTCATATCC
* * *
755600 AAAATTTTAAAGTTTCTAATTCAAGTTCAAAGATTCGCATTCGATAAATTTTAAAGTTTCACATC
1 AAAATTTCAAAGCTTCTAATTCAAGTTCAAAGATTCACATTCGATAAATTTTAAAGTTTCACATC
*
755665 TAAATTCAAAGGTTCTCATTCAAAAAATTTAGGGGTTTACATCT
66 TAAATTCAAAGATTCTCATTCAAAAAATTTAGGGGTTTACATCT
* ** * * * *
755709 AAAATTTCAAAGCTTCTCATTTGAGTTCAAAGATTTATATTTGATAGATTTTAAAGTTTCACATC
1 AAAATTTCAAAGCTTCTAATTCAAGTTCAAAGATTCACATTCGATAAATTTTAAAGTTTCACATC
755774 TAAATTCAAAGATTCTCATTCAAAA
66 TAAATTCAAAGATTCTCATTCAAAA
755799 CTCAAAGATT
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
109 79 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (109 bp):
AAAATTTCAAAGCTTCTAATTCAAGTTCAAAGATTCACATTCGATAAATTTTAAAGTTTCACATC
TAAATTCAAAGATTCTCATTCAAAAAATTTAGGGGTTTACATCT
Found at i:755803 original size:21 final size:21
Alignment explanation
Indices: 755779--755888 Score: 114
Period size: 21 Copynumber: 5.1 Consensus size: 21
755769 ACATCTAAAT
755779 TCAAAGATTCTCATTCAAAAC
1 TCAAAGATTCTCATTCAAAAC
755800 TCAAAGATTCTCACTT-AAAAC
1 TCAAAGATTCTCA-TTCAAAAC
* *
755821 TCAAAGATTCTTATTTAAAAC
1 TCAAAGATTCTCATTCAAAAC
* * * *
755842 TTTTTAAAGATTGTCATTTAAAAG
1 ---TCAAAGATTCTCATTCAAAAC
*
755866 ACAAAGATTCTCATTCAAAAC
1 TCAAAGATTCTCATTCAAAAC
755887 TC
1 TC
755889 CCCATTTAAA
Statistics
Matches: 73, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
20 2 0.03
21 52 0.71
22 2 0.03
24 17 0.23
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.34
Consensus pattern (21 bp):
TCAAAGATTCTCATTCAAAAC
Found at i:755871 original size:45 final size:45
Alignment explanation
Indices: 755780--755887 Score: 132
Period size: 45 Copynumber: 2.5 Consensus size: 45
755770 CATCTAAATT
* *
755780 CAAAGATTCTCATTCAAAAC---TCAAAGATTCTCACTTAAAACT
1 CAAAGATTCTCATTCAAAACTTTTTAAAGATTCTCACTTAAAACA
* * * * *
755822 CAAAGATTCTTATTTAAAACTTTTTAAAGATTGTCATTTAAAAGA
1 CAAAGATTCTCATTCAAAACTTTTTAAAGATTCTCACTTAAAACA
755867 CAAAGATTCTCATTCAAAACT
1 CAAAGATTCTCATTCAAAACT
755888 CCCCATTTAA
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
42 18 0.33
45 36 0.67
ACGTcount: A:0.43, C:0.18, G:0.06, T:0.33
Consensus pattern (45 bp):
CAAAGATTCTCATTCAAAACTTTTTAAAGATTCTCACTTAAAACA
Found at i:755944 original size:65 final size:65
Alignment explanation
Indices: 755862--755991 Score: 183
Period size: 65 Copynumber: 2.0 Consensus size: 65
755852 TTGTCATTTA
*
755862 AAAGACAAAGATTCTCATTCAAA-ACTCCCCATTTAAAAATTC-TTAAAGATTCTTAGTTAAAAC
1 AAAGACAAAGATTCTCATTCAAAGA-TCCCCATTTAAAAATTCTTTAAA-ATTCTCAGTTAAAAC
755925 TC
64 TC
* * * *
755927 AAAGACAAAGATTCTCATTCAAAGATTCTCATTTAAAACTTCTTTAAAATTCTCATTTAAAACTC
1 AAAGACAAAGATTCTCATTCAAAGATCCCCATTTAAAAATTCTTTAAAATTCTCAGTTAAAACTC
755992 TTTAAAGATT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
65 52 0.90
66 6 0.10
ACGTcount: A:0.42, C:0.19, G:0.05, T:0.33
Consensus pattern (65 bp):
AAAGACAAAGATTCTCATTCAAAGATCCCCATTTAAAAATTCTTTAAAATTCTCAGTTAAAACTC
Found at i:755951 original size:14 final size:14
Alignment explanation
Indices: 755932--755959 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
755922 AACTCAAAGA
755932 CAAAGATTCTCATT
1 CAAAGATTCTCATT
755946 CAAAGATTCTCATT
1 CAAAGATTCTCATT
755960 TAAAACTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.36
Consensus pattern (14 bp):
CAAAGATTCTCATT
Found at i:755969 original size:14 final size:13
Alignment explanation
Indices: 755937--755988 Score: 63
Period size: 14 Copynumber: 4.1 Consensus size: 13
755927 AAAGACAAAG
*
755937 ATTCTCATTCAAA
1 ATTCTCATTTAAA
755950 GATTCTCATTTAAA
1 -ATTCTCATTTAAA
*
755964 ACT-TC-TTTAAA
1 ATTCTCATTTAAA
755975 ATTCTCATTTAAA
1 ATTCTCATTTAAA
755988 A
1 A
755989 CTCTTTAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
11 8 0.24
12 4 0.12
13 9 0.27
14 12 0.36
ACGTcount: A:0.38, C:0.17, G:0.02, T:0.42
Consensus pattern (13 bp):
ATTCTCATTTAAA
Found at i:755997 original size:23 final size:25
Alignment explanation
Indices: 755947--756007 Score: 99
Period size: 24 Copynumber: 2.5 Consensus size: 25
755937 ATTCTCATTC
755947 AAAGATTCTCATTTAAAACTTCTTT
1 AAAGATTCTCATTTAAAACTTCTTT
755972 AAA-ATTCTCATTTAAAAC-TCTTT
1 AAAGATTCTCATTTAAAACTTCTTT
*
755995 AAAGATTTTCATT
1 AAAGATTCTCATT
756008 ATTTTTAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
23 8 0.24
24 23 0.68
25 3 0.09
ACGTcount: A:0.38, C:0.15, G:0.03, T:0.44
Consensus pattern (25 bp):
AAAGATTCTCATTTAAAACTTCTTT
Found at i:756614 original size:79 final size:79
Alignment explanation
Indices: 756483--756640 Score: 253
Period size: 79 Copynumber: 2.0 Consensus size: 79
756473 TTTTTTAGCA
* * *
756483 TCTCAGCACTAACAATTTTAGAACAAATTCCATCCACTGATCCATATTATTTCTATTACTTAATT
1 TCTCAACACTAACAATTTTAGAACAAATTCCATCCACTGATCCATATTATTTCCATCACTTAATT
756548 ACAATTCACAGGCT
66 ACAATTCACAGGCT
* * * *
756562 TCTCAACACTAGCAATTTTAGAACAAATTTCATCCACTGATCCCTATTATTTCCATCACTTGATT
1 TCTCAACACTAACAATTTTAGAACAAATTCCATCCACTGATCCATATTATTTCCATCACTTAATT
756627 ACAATTCACAGGCT
66 ACAATTCACAGGCT
756641 ATGTCAACCA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 72 1.00
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.35
Consensus pattern (79 bp):
TCTCAACACTAACAATTTTAGAACAAATTCCATCCACTGATCCATATTATTTCCATCACTTAATT
ACAATTCACAGGCT
Found at i:757468 original size:59 final size:58
Alignment explanation
Indices: 757240--757527 Score: 377
Period size: 58 Copynumber: 4.9 Consensus size: 58
757230 AAAATTCATT
* * * * *
757240 ACTTTTGTACAAGAAAAATTGATACTTTCAACTTTCCCTC-AAAATATTTTTT-GGAA
1 ACTTTTTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAA
* * *
757296 ACTTTAATTTCGAA-GAAAATTGATACTTTCAACTTTTCCTCAAAAAAAACTTTTTTTTGAAA
1 ACTTT-TTTTC-AAGGAAAATTGATACTTTCAACTTTTCCTC-AAAAATA--TTTTTTAGAAA
* *
757358 ACTTATTTTT-AAGAAAAATTGATACTTTCAACTTTTCCTCGAAAATATTTTTTAGAAA
1 ACTT-TTTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAA
757416 ACTTTTTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAA
1 ACTTTTTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAG-AAA
* *
757475 ACTTATTTTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTT
1 ACTTTTTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
757528 TTGAATTTTA
Statistics
Matches: 205, Mismatches: 16, Indels: 19
0.85 0.07 0.08
Matches are distributed among these distances:
56 5 0.02
57 32 0.16
58 59 0.29
59 59 0.29
60 7 0.03
61 32 0.16
62 10 0.05
63 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.42
Consensus pattern (58 bp):
ACTTTTTTTCAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAA
Found at i:757528 original size:119 final size:118
Alignment explanation
Indices: 757249--757527 Score: 397
Period size: 117 Copynumber: 2.4 Consensus size: 118
757239 TACTTTTGTA
* * *
757249 CAAGAAAAATTGATACTTTCAAC-TTTCCCTCAAAATATTTTTTGGAAACTTTAATTTCGAAGAA
1 CAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTGAAAACTTTAATTTCGAAGAA
*
757313 AATTGATACTTTCAACTTTTCCTCAAAAAAAACTTTTTTTTGAAAACTTATTTT
66 AATTGATACTTTCAACTTTTCCTCAAAAAAAAC-TTTTTTAGAAAACTTATTTT
* ** *
757367 TAAGAAAAATTGATACTTTCAACTTTTCCTCGAAAATATTTTTTAGAAAACTTT-TTTTC-AAGG
1 CAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTT-GAAAACTTTAATTTCGAA-G
*
757430 AAAATTGATACTTTCAACTTTTCCTC-AAAAATA-TTTTTTAGAAAAACTTATTTT
64 AAAATTGATACTTTCAACTTTTCCTCAAAAAAAACTTTTTTAG-AAAACTTATTTT
*
757484 CAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTT
757528 TTGAATTTTA
Statistics
Matches: 145, Mismatches: 12, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
116 7 0.05
117 52 0.36
118 30 0.21
119 48 0.33
120 8 0.06
ACGTcount: A:0.37, C:0.14, G:0.07, T:0.42
Consensus pattern (118 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTGAAAACTTTAATTTCGAAGAA
AATTGATACTTTCAACTTTTCCTCAAAAAAAACTTTTTTAGAAAACTTATTTT
Found at i:757565 original size:10 final size:10
Alignment explanation
Indices: 757550--757605 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
757540 TAAAGAAAAT
757550 AATAAAATTA
1 AATAAAATTA
757560 AATAAAATTAA
1 AATAAAATT-A
757571 AATTAAAATT-
1 AA-TAAAATTA
757581 -A-AAAATTA
1 AATAAAATTA
*
757589 AATAAAATAA
1 AATAAAATTA
757599 AATAAAA
1 AATAAAA
757606 GTACTAAACA
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
7 6 0.15
9 2 0.05
10 22 0.55
11 3 0.08
12 7 0.17
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (10 bp):
AATAAAATTA
Found at i:757567 original size:5 final size:5
Alignment explanation
Indices: 757550--757605 Score: 58
Period size: 5 Copynumber: 10.4 Consensus size: 5
757540 TAAAGAAAAT
* *
757550 AATAA AATTA AATAA AATTAA AATTAA AATTAAA AATTA AATAA AATAA
1 AATAA AATAA AATAA AA-TAA AA-TAA AA-T-AA AATAA AATAA AATAA
757599 AATAA AA
1 AATAA AA
757606 GTACTAAACA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
5 27 0.60
6 14 0.31
7 4 0.09
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (5 bp):
AATAA
Found at i:758488 original size:20 final size:19
Alignment explanation
Indices: 758445--758503 Score: 77
Period size: 20 Copynumber: 3.1 Consensus size: 19
758435 AAAAGAAAAA
*
758445 AATAA-AGAT-AATATATT
1 AATAATAGATAAATATAAT
758462 AATTAATAGATAAATAATAAT
1 AA-TAATAGATAAAT-ATAAT
758483 AATAATAGATAAATATAAT
1 AATAATAGATAAATATAAT
758502 AA
1 AA
758504 AGTATATATA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
17 2 0.05
18 3 0.08
19 11 0.30
20 15 0.41
21 6 0.16
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (19 bp):
AATAATAGATAAATATAAT
Found at i:758509 original size:10 final size:9
Alignment explanation
Indices: 758445--758569 Score: 50
Period size: 9 Copynumber: 13.9 Consensus size: 9
758435 AAAAGAAAAA
*
758445 AATAAAGAT
1 AATAAATAT
*
758454 AATATAT-T
1 AATAAATAT
*
758462 AATTAATA-
1 AATAAATAT
*
758470 GATAAATAAT
1 AATAAAT-AT
758480 AAT-AATAAT
1 AATAAAT-AT
758489 AGATAAATAT
1 A-ATAAATAT
758499 AATAAAGTAT
1 AATAAA-TAT
*
758509 -ATATAT-T
1 AATAAATAT
* *
758516 AACAGATA-
1 AATAAATAT
758524 AAT-AATAAT
1 AATAAAT-AT
758533 AA-AAATATT
1 AATAAATA-T
758542 AATAAATAGT
1 AATAAATA-T
758552 AATAAATAAT
1 AATAAAT-AT
*
758562 AAAAAATA
1 AATAAATA
758570 CAAAAAAATA
Statistics
Matches: 88, Mismatches: 14, Indels: 28
0.68 0.11 0.22
Matches are distributed among these distances:
7 3 0.03
8 20 0.23
9 31 0.35
10 30 0.34
11 4 0.05
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (9 bp):
AATAAATAT
Found at i:758524 original size:50 final size:56
Alignment explanation
Indices: 758445--758557 Score: 148
Period size: 50 Copynumber: 2.1 Consensus size: 56
758435 AAAAGAAAAA
* * *
758445 AATAAAGATAATATATTAATTAATAGATAAATAATAATAATAATA-GATAAATA-T
1 AATAAAGATAATATATTAATTAACAGATAAATAATAATAAAAATATAATAAATAGT
758499 AATAAAG-T-ATATA-T-ATTAACAGATAAATAATAATAAAAATATTAATAAATAGT
1 AATAAAGATAATATATTAATTAACAGATAAATAATAATAAAAATA-TAATAAATAGT
758552 AATAAA
1 AATAAA
758558 TAATAAAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
50 25 0.47
51 1 0.02
52 12 0.23
53 8 0.15
54 7 0.13
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (56 bp):
AATAAAGATAATATATTAATTAACAGATAAATAATAATAAAAATATAATAAATAGT
Found at i:758579 original size:17 final size:18
Alignment explanation
Indices: 758555--758605 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
758545 AAATAGTAAT
758555 AAAT-AATAAAAAATACA
1 AAATAAATAAAAAATACA
*
758572 AAA-AAATACAAAATACA
1 AAATAAATAAAAAATACA
*
758589 AAATAAAAAATAAAATA
1 AAATAAATAA-AAAATA
758606 AAATAGAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 18 0.64
18 4 0.14
19 6 0.21
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.16
Consensus pattern (18 bp):
AAATAAATAAAAAATACA
Found at i:758579 original size:24 final size:23
Alignment explanation
Indices: 758552--758606 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
758542 AATAAATAGT
758552 AATAAATAATAAAAAATACAAAAA
1 AATAAATAATAAAAAATA-AAAAA
*
758576 AATACAA-AATACAAAATAAAAAA
1 AATA-AATAATAAAAAATAAAAAA
*
758599 TA-AAATAA
1 AATAAATAA
758607 AATAGAATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
21 2 0.07
22 3 0.11
23 6 0.22
24 14 0.52
25 2 0.07
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.16
Consensus pattern (23 bp):
AATAAATAATAAAAAATAAAAAA
Found at i:758601 original size:7 final size:7
Alignment explanation
Indices: 758552--758603 Score: 50
Period size: 7 Copynumber: 7.0 Consensus size: 7
758542 AATAAATAGT
*
758552 AATAAAT
1 AATAAAA
758559 AATAAAA
1 AATAAAA
758566 AATACAAAAA
1 AAT---AAAA
*
758576 AATACAA
1 AATAAAA
*
758583 AATACAA
1 AATAAAA
758590 AATAAAA
1 AATAAAA
758597 AATAAAA
1 AATAAAA
758604 TAAAATAGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
7 32 0.82
10 7 0.18
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (7 bp):
AATAAAA
Found at i:758777 original size:12 final size:12
Alignment explanation
Indices: 758760--758790 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
758750 ACTTGACACC
758760 TTTTTTTTG-TT
1 TTTTTTTTGCTT
758771 TTTTTTTTGCTT
1 TTTTTTTTGCTT
758783 TTTTTTTT
1 TTTTTTTT
758791 AAATTTTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.47
12 10 0.53
ACGTcount: A:0.00, C:0.03, G:0.06, T:0.90
Consensus pattern (12 bp):
TTTTTTTTGCTT
Found at i:758878 original size:45 final size:45
Alignment explanation
Indices: 758829--759046 Score: 224
Period size: 41 Copynumber: 5.1 Consensus size: 45
758819 AGGCTCAATG
* *
758829 ACTTTTGAAAAGATAAATAAAGTTCCTCTAAACAGAAGCTTAACA
1 ACTTTTGAAAAGATAAATAAAGCTCCTCTAAACAGAGGCTTAACA
*
758874 ACTTTTAAAAAGATAAATAAAGCTCCTCTAAACAGAGGCTTAACA
1 ACTTTTGAAAAGATAAATAAAGCTCCTCTAAACAGAGGCTTAACA
* * *
758919 ACTTTT-AAAA-AT-AA-AAAGCTCCTCTAATCAGAGGCTCAATA
1 ACTTTTGAAAAGATAAATAAAGCTCCTCTAAACAGAGGCTTAACA
* * * * *
758960 ACTTTTGAAAAG-TAAAT--TGCTCCTTTAATCAGAGGCATCACA
1 ACTTTTGAAAAGATAAATAAAGCTCCTCTAAACAGAGGCTTAACA
* * * *
759002 AC-TTTGAAAA-ATAGAT--TGCTCCTCTAAACAGAGGCATCACA
1 ACTTTTGAAAAGATAAATAAAGCTCCTCTAAACAGAGGCTTAACA
759043 ACTT
1 ACTT
759047 CAAAAAATAG
Statistics
Matches: 152, Mismatches: 15, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
41 67 0.44
42 29 0.19
43 4 0.03
44 4 0.03
45 48 0.32
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (45 bp):
ACTTTTGAAAAGATAAATAAAGCTCCTCTAAACAGAGGCTTAACA
Found at i:759005 original size:83 final size:83
Alignment explanation
Indices: 758832--759098 Score: 277
Period size: 83 Copynumber: 3.2 Consensus size: 83
758822 CTCAATGACT
* * * *
758832 TTTGAAAAGATAAATAAAGTTCCTCTAAACAGAAGCTTAACAACTTTTAAAAAGATAAATAAAGC
1 TTTGAAAA-AT-AA-AAAGCTCCTCTAAACAGAGGCTCAACAACTTTTAAAAAG-TAAAT--TGC
* * *
758897 TCCTCTAAACAGAGGCTTAACAAC
60 TCCTTTAAACAGAGGCATCACAAC
* * * *
758921 TTTTAAAAATAAAAAGCTCCTCTAATCAGAGGCTCAATAACTTTTGAAAAGTAAATTGCTCCTTT
1 TTTGAAAAATAAAAAGCTCCTCTAAACAGAGGCTCAACAACTTTTAAAAAGTAAATTGCTCCTTT
*
758986 AATCAGAGGCATCACAAC
66 AAACAGAGGCATCACAAC
* ** * * *
759004 TTTGAAAAATAGATTGCTCCTCTAAACAGAGGCATC-ACAAC-TTCAAAAAATAGATTGCTCCTT
1 TTTGAAAAATAAAAAGCTCCTCTAAACAGAGGC-TCAACAACTTTTAAAAAGTAAATTGCTCCTT
*
759067 TAAACAGAGACATCACAAC
65 TAAACAGAGGCATCACAAC
*
759086 TTCGAAAAATAAA
1 TTTGAAAAATAAA
759099 TTGCTCATTG
Statistics
Matches: 151, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
82 46 0.30
83 54 0.36
84 2 0.01
85 5 0.03
86 33 0.22
87 2 0.01
88 2 0.01
89 7 0.05
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.26
Consensus pattern (83 bp):
TTTGAAAAATAAAAAGCTCCTCTAAACAGAGGCTCAACAACTTTTAAAAAGTAAATTGCTCCTTT
AAACAGAGGCATCACAAC
Found at i:759102 original size:41 final size:41
Alignment explanation
Indices: 758852--759104 Score: 247
Period size: 41 Copynumber: 6.0 Consensus size: 41
758842 TAAATAAAGT
* * * * *
758852 TCCTCTAAACAGAAGCTTAACAACTTTTAAAAAGATAAATAAAGC
1 TCCTCTAAACAGAGGCATCACAAC-TTTGAAAA-ATAAAT--TGC
* * * **
758897 TCCTCTAAACAGAGGCTTAACAACTTTTAAAAATAAAAAGC
1 TCCTCTAAACAGAGGCATCACAACTTTGAAAAATAAATTGC
* * *
758938 TCCTCTAATCAGAGGC-TCAATAACTTTTGAAAAGTAAATTGC
1 TCCTCTAAACAGAGGCATC-ACAAC-TTTGAAAAATAAATTGC
* * *
758980 TCCTTTAATCAGAGGCATCACAACTTTGAAAAATAGATTGC
1 TCCTCTAAACAGAGGCATCACAACTTTGAAAAATAAATTGC
** *
759021 TCCTCTAAACAGAGGCATCACAACTTCAAAAAATAGATTGC
1 TCCTCTAAACAGAGGCATCACAACTTTGAAAAATAAATTGC
* * *
759062 TCCTTTAAACAGAGACATCACAACTTCGAAAAATAAATTGC
1 TCCTCTAAACAGAGGCATCACAACTTTGAAAAATAAATTGC
759103 TC
1 TC
759105 ATTGACAATC
Statistics
Matches: 183, Mismatches: 22, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
40 1 0.01
41 113 0.62
42 32 0.17
43 7 0.04
44 7 0.04
45 23 0.13
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.26
Consensus pattern (41 bp):
TCCTCTAAACAGAGGCATCACAACTTTGAAAAATAAATTGC
Found at i:760135 original size:16 final size:16
Alignment explanation
Indices: 760104--760148 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
760094 TCACTTTTTC
*
760104 TTTTCTTGTTTC--TT
1 TTTTCTTTTTTCATTT
760118 TTTT-TTTTTTCATTT
1 TTTTCTTTTTTCATTT
760133 TTTTCTTTTTTCATTT
1 TTTTCTTTTTTCATTT
760149 CATTTTTTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 6 0.22
14 4 0.15
15 6 0.22
16 11 0.41
ACGTcount: A:0.04, C:0.11, G:0.02, T:0.82
Consensus pattern (16 bp):
TTTTCTTTTTTCATTT
Found at i:760137 original size:22 final size:22
Alignment explanation
Indices: 760112--760168 Score: 80
Period size: 21 Copynumber: 2.6 Consensus size: 22
760102 TCTTTTCTTG
**
760112 TTTCTTTTTTTTTTTTCATTTT
1 TTTCTTTTTTTCATTTCATTTT
760134 TTTC-TTTTTTCATTTCATTTT
1 TTTCTTTTTTTCATTTCATTTT
760155 TTCTCTTTTTTTCA
1 TT-TCTTTTTTTCA
760169 AGCATAGTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 17 0.55
22 6 0.19
23 8 0.26
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTCTTTTTTTCATTTCATTTT
Found at i:760137 original size:29 final size:30
Alignment explanation
Indices: 760104--760167 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 30
760094 TCACTTTTTC
* *
760104 TTTTCTTGTTTC-TTT-TTTTTTTTTCATTT
1 TTTTCTTGTTTCATTTCATTTTTTCTC-TTT
*
760133 TTTTCTTTTTTCATTTCATTTTTTCTCTTT
1 TTTTCTTGTTTCATTTCATTTTTTCTCTTT
760163 TTTTC
1 TTTTC
760168 AAGCATAGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 11 0.37
30 11 0.37
31 8 0.27
ACGTcount: A:0.05, C:0.14, G:0.02, T:0.80
Consensus pattern (30 bp):
TTTTCTTGTTTCATTTCATTTTTTCTCTTT
Found at i:760154 original size:20 final size:18
Alignment explanation
Indices: 760080--760164 Score: 68
Period size: 19 Copynumber: 4.6 Consensus size: 18
760070 TTGTCTTGAG
* *
760080 TTTTCCTTTTTCATTCACT
1 TTTTCTTTTTTCATTC-TT
**
760099 TTTTCTTTTCTTGTTTCTT
1 TTTTCTTTT-TTCATTCTT
760118 TTTT-TTTTTTCA-T-TT
1 TTTTCTTTTTTCATTCTT
760133 TTTTCTTTTTTCATTTCATT
1 TTTTCTTTTTTCA-TTC-TT
760153 TTTTCTCTTTTT
1 TTTTCT-TTTTT
760165 TTCAAGCATA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
15 6 0.11
16 9 0.17
17 2 0.04
18 5 0.09
19 13 0.25
20 13 0.25
21 5 0.09
ACGTcount: A:0.06, C:0.16, G:0.01, T:0.76
Consensus pattern (18 bp):
TTTTCTTTTTTCATTCTT
Found at i:765286 original size:161 final size:162
Alignment explanation
Indices: 765020--765445 Score: 827
Period size: 162 Copynumber: 2.6 Consensus size: 162
765010 NNNNNNNNNN
765020 ATTATTCTACAATTTAAGATAAATTTAGAGAAAATTTTCCACCTAAAATTTTTTTAAGAATTTAC
1 ATTATTCTACAATTTAAGATAAATTTAGAGAAAATTTT-CACCTAAAATTTTTTTAAGAATTTAC
765085 CATTTGCAATTTCTAAGAATCTCATCATTGGATAATTATT-AATATTTCAACCAAATTTGAAAAA
65 CATTTGCAATTTCTAAGAATCTCATCATTGGATAATTATTAAATATTTCAACCAAATTTGAAAAA
765149 GAATACAATTATTTTTATTGAAATTTTATCTAA
130 GAATACAATTATTTTTATTGAAATTTTATCTAA
765182 ATTATTCTACAATTTAAGATAAATTTAGAGAAAATTTTCACCTAAAATTTTTTTAAGAATTTACC
1 ATTATTCTACAATTTAAGATAAATTTAGAGAAAATTTTCACCTAAAATTTTTTTAAGAATTTACC
765247 ATTTGCAATTTCTAAGAATCTCATCATTGGATAATTATTAAATATTTCAACCAAATTTGAAAAAG
66 ATTTGCAATTTCTAAGAATCTCATCATTGGATAATTATTAAATATTTCAACCAAATTTGAAAAAG
765312 AATACAATTATTTTTATTGAAATTTTATCTAA
131 AATACAATTATTTTTATTGAAATTTTATCTAA
*
765344 ATTATTCTACAATTTAAGATAAATTTAGAGAAAATTTTCACCTAAAAGTTTTTTAAGAATTTACC
1 ATTATTCTACAATTTAAGATAAATTTAGAGAAAATTTTCACCTAAAATTTTTTTAAGAATTTACC
765409 ATTTGCAATTTCTAAGAATCTCATCATTGGATAATTA
66 ATTTGCAATTTCTAAGAATCTCATCATTGGATAATTA
765446 ATATTTTTTT
Statistics
Matches: 262, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
161 66 0.25
162 196 0.75
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (162 bp):
ATTATTCTACAATTTAAGATAAATTTAGAGAAAATTTTCACCTAAAATTTTTTTAAGAATTTACC
ATTTGCAATTTCTAAGAATCTCATCATTGGATAATTATTAAATATTTCAACCAAATTTGAAAAAG
AATACAATTATTTTTATTGAAATTTTATCTAA
Found at i:765494 original size:17 final size:17
Alignment explanation
Indices: 765462--765493 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
765452 TTTTAAAATT
765462 TTATTTTTTATCTTTTA
1 TTATTTTTTATCTTTTA
765479 TTATTTTTTAT-TTTT
1 TTATTTTTTATCTTTT
765494 TTTTGAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (17 bp):
TTATTTTTTATCTTTTA
Found at i:770544 original size:2 final size:2
Alignment explanation
Indices: 770537--770576 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
770527 ATGCATTATC
770537 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
770577 GTCCATTTCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:773749 original size:15 final size:15
Alignment explanation
Indices: 773729--773757 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
773719 TCTAACAAAG
773729 TTTAATGAAACTAAT
1 TTTAATGAAACTAAT
773744 TTTAATGAAACTAA
1 TTTAATGAAACTAA
773758 CCCTGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (15 bp):
TTTAATGAAACTAAT
Found at i:777574 original size:14 final size:14
Alignment explanation
Indices: 777547--777589 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
777537 ATAGAAACCT
* *
777547 TATTAAAAAAATAA
1 TATTAATAATATAA
*
777561 TATTATTAATATAA
1 TATTAATAATATAA
*
777575 TATTAATATTATAA
1 TATTAATAATATAA
777589 T
1 T
777590 CTGATCTCAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
TATTAATAATATAA
Found at i:781217 original size:25 final size:25
Alignment explanation
Indices: 781189--781254 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
781179 TCGCCTTTTT
*
781189 CTTTTTCCTTTTTTTATAGTT-TATA
1 CTTTTTCCTTTTTTT-TACTTATATA
* * *
781214 CTTTATCCCTTTTTTTTACTTATTTT
1 CTTT-TTCCTTTTTTTTACTTATATA
781240 CTTTTTCCTTTTTTT
1 CTTTTTCCTTTTTTT
781255 CTTTTAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
25 18 0.53
26 16 0.47
ACGTcount: A:0.11, C:0.17, G:0.02, T:0.71
Consensus pattern (25 bp):
CTTTTTCCTTTTTTTTACTTATATA
Found at i:781254 original size:15 final size:15
Alignment explanation
Indices: 781226--781259 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
781216 TTATCCCTTT
781226 TTTTTACTTATTTTC
1 TTTTTACTTATTTTC
* *
781241 TTTTTCCTTTTTTTC
1 TTTTTACTTATTTTC
781256 TTTT
1 TTTT
781260 AAAAAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTACTTATTTTC
Found at i:781277 original size:14 final size:14
Alignment explanation
Indices: 781260--781300 Score: 50
Period size: 12 Copynumber: 3.1 Consensus size: 14
781250 TTTTTCTTTT
* *
781260 AAAAAAATAATAGA
1 AAAAAAAGAAAAGA
781274 AAAAAAAGAAAAG-
1 AAAAAAAGAAAAGA
781287 -AAAAAAGAAAAGA
1 AAAAAAAGAAAAGA
781300 A
1 A
781301 TATAAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 12 0.52
14 11 0.48
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.05
Consensus pattern (14 bp):
AAAAAAAGAAAAGA
Found at i:781290 original size:12 final size:12
Alignment explanation
Indices: 781275--781300 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
781265 AATAATAGAA
781275 AAAAAAGAAAAG
1 AAAAAAGAAAAG
781287 AAAAAAGAAAAG
1 AAAAAAGAAAAG
781299 AA
1 AA
781301 TATAAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAAG
Done.