Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold401
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: 1910012
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 11 of 13
Found at i:1580609 original size:22 final size:21
Alignment explanation
Indices: 1580583--1580638 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
1580573 TAAATTTTTT
1580583 ATATTTTTTATTTAATTAAATA
1 ATATTTTTTATTTAA-TAAATA
* *
1580605 ATATTATTTA-TTAATAATTA
1 ATATTTTTTATTTAATAAATA
*
1580625 AAATTATTTTATTT
1 ATATT-TTTTATTT
1580639 TTTTAAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 9 0.32
21 8 0.29
22 11 0.39
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATATTTTTTATTTAATAAATA
Found at i:1580613 original size:25 final size:25
Alignment explanation
Indices: 1580584--1580641 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
1580574 AAATTTTTTA
*
1580584 TATTTTTTATTTAATT-AAATAATAT
1 TATTTTTTA-ATAATTAAAATAATAT
* * *
1580609 TATTTATTAATAATTAAAATTATTT
1 TATTTTTTAATAATTAAAATAATAT
1580634 TATTTTTT
1 TATTTTTT
1580642 TAAAAAATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 5 0.19
25 22 0.81
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (25 bp):
TATTTTTTAATAATTAAAATAATAT
Found at i:1580635 original size:21 final size:22
Alignment explanation
Indices: 1580588--1580637 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 22
1580578 TTTTTATATT
*
1580588 TTTTATTTAATTAAATAATATTA
1 TTTTA-TTAATTAAATAAAATTA
*
1580611 -TTTATTAA-TAATTAAAATTA
1 TTTTATTAATTAAATAAAATTA
1580631 TTTTATT
1 TTTTATT
1580638 TTTTTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 10 0.42
21 10 0.42
22 4 0.17
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTTATTAATTAAATAAAATTA
Found at i:1581026 original size:22 final size:22
Alignment explanation
Indices: 1580988--1581032 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1580978 AATGGTCAAC
*
1580988 TCAATTCATAAATATTTTTATT
1 TCAATTCATAAATATTTTGATT
*
1581010 TCAATTTCATGAA-ATTTTGATT
1 TCAA-TTCATAAATATTTTGATT
1581032 T
1 T
1581033 ATAAAATTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.53
Consensus pattern (22 bp):
TCAATTCATAAATATTTTGATT
Found at i:1581951 original size:34 final size:32
Alignment explanation
Indices: 1581912--1582000 Score: 83
Period size: 32 Copynumber: 2.7 Consensus size: 32
1581902 TATAAGTGTG
* *
1581912 TTAAAATTTTATTATAAT-ATATATTTTAATTTTT
1 TTAAAATTATATTA-AATAATAT-TTTTAA-TATT
*
1581946 TTAAAAAATATATTAAATAATATTTTTAATATT
1 TT-AAAATTATATTAAATAATATTTTTAATATT
*
1581979 TTAAAATTA-ATTTTAATAATAT
1 TTAAAATTATA-TTAAATAATAT
1582001 AATATTTGAT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
31 1 0.02
32 16 0.34
33 5 0.11
34 11 0.23
35 14 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (32 bp):
TTAAAATTATATTAAATAATATTTTTAATATT
Found at i:1581956 original size:23 final size:23
Alignment explanation
Indices: 1581916--1581959 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
1581906 AGTGTGTTAA
* *
1581916 AATTTTATTATAATATATATTTT
1 AATTTTATTAAAAAATATATTTT
*
1581939 AATTTTTTTAAAAAATATATT
1 AATTTTATTAAAAAATATATT
1581960 AAATAATATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
AATTTTATTAAAAAATATATTTT
Found at i:1581976 original size:21 final size:20
Alignment explanation
Indices: 1581952--1581996 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
1581942 TTTTTTAAAA
*
1581952 AATATATTAAATAATATTTTT
1 AATATATTAAA-AATAATTTT
* *
1581973 AATATTTTAAAATTAATTTT
1 AATATATTAAAAATAATTTT
1581993 AATA
1 AATA
1581997 ATATAATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AATATATTAAAAATAATTTT
Found at i:1582715 original size:23 final size:23
Alignment explanation
Indices: 1582670--1582721 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
1582660 AAATGTAAAA
* *
1582670 AAATAATTAAAATGATGTTATAT
1 AAATAATTAAAATGATATAATAT
*
1582693 GAATATATTAAAAT-ATATAATAT
1 AAATA-ATTAAAATGATATAATAT
1582716 AAATAA
1 AAATAA
1582722 AATAAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
22 1 0.04
23 15 0.62
24 8 0.33
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.37
Consensus pattern (23 bp):
AAATAATTAAAATGATATAATAT
Found at i:1582722 original size:18 final size:18
Alignment explanation
Indices: 1582688--1582725 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
1582678 AAAATGATGT
*
1582688 TATATGAATATATTAAAA
1 TATATGAATATAATAAAA
1582706 TATAT-AATATAAATAAAA
1 TATATGAATAT-AATAAAA
1582724 TA
1 TA
1582726 AAAAATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (18 bp):
TATATGAATATAATAAAA
Found at i:1582771 original size:27 final size:28
Alignment explanation
Indices: 1582723--1582787 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 28
1582713 TATAAATAAA
* *
1582723 ATAAAA-AATTATAATTATTATAATTTT
1 ATAAAATAATTATAATAAATATAATTTT
1582750 ATAAAATAATTA-AATAAATATAATTTT
1 ATAAAATAATTATAATAAATATAATTTT
*
1582777 TTAAAAATAAT
1 AT-AAAATAAT
1582788 GAAAATTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
27 20 0.61
28 13 0.39
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
ATAAAATAATTATAATAAATATAATTTT
Found at i:1582781 original size:14 final size:14
Alignment explanation
Indices: 1582741--1582787 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
1582731 TTATAATTAT
1582741 TATAATTTTATAAA
1 TATAATTTTATAAA
**
1582755 -ATAATTAAATAAA
1 TATAATTTTATAAA
*
1582768 TATAATTTTTTAAA
1 TATAATTTTATAAA
*
1582782 AATAAT
1 TATAAT
1582788 GAAAATTTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
13 11 0.42
14 15 0.58
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TATAATTTTATAAA
Found at i:1582868 original size:17 final size:17
Alignment explanation
Indices: 1582833--1582881 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
1582823 AATTAAATCG
1582833 TATAAAT-T-ATTAT-A
1 TATAAATATAATTATAA
1582847 TATAAATATAATTATAA
1 TATAAATATAATTATAA
* *
1582864 TATAAAAATAATTCTAA
1 TATAAATATAATTATAA
1582881 T
1 T
1582882 TCGCATCCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
14 7 0.23
15 1 0.03
16 5 0.17
17 17 0.57
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
TATAAATATAATTATAA
Found at i:1584478 original size:22 final size:22
Alignment explanation
Indices: 1584451--1584521 Score: 81
Period size: 22 Copynumber: 3.0 Consensus size: 22
1584441 ATAATAAAAT
1584451 ATTTTAAATTTTATTTAAATAA
1 ATTTTAAATTTTATTTAAATAA
*
1584473 ATTTT-AATTTATATTAAAATAA
1 ATTTTAAATTT-TATTTAAATAA
1584495 ATCTTTAAAATTTTAATTTATAATAA
1 AT-TTT-AAATTTT-ATTTA-AATAA
1584521 A
1 A
1584522 ATAAATCTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
21 5 0.12
22 17 0.41
23 3 0.07
24 1 0.02
25 9 0.22
26 6 0.15
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTTTAAATTTTATTTAAATAA
Found at i:1584545 original size:30 final size:31
Alignment explanation
Indices: 1584471--1584561 Score: 130
Period size: 31 Copynumber: 2.9 Consensus size: 31
1584461 TTATTTAAAT
1584471 AAATTTTAATTTATATTAAAATAAATCTTTA
1 AAATTTTAATTTATATTAAAATAAATCTTTA
*
1584502 AAATTTTAATTTATAATAAAATAAATCTTT-
1 AAATTTTAATTTATATTAAAATAAATCTTTA
* * *
1584532 AATTTTTACTTTATATTTAAATAAACTCTT
1 AAATTTTAATTTATATTAAAATAAA-TCTT
1584562 AATATAAATT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
30 21 0.39
31 33 0.61
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.49
Consensus pattern (31 bp):
AAATTTTAATTTATATTAAAATAAATCTTTA
Found at i:1587997 original size:1 final size:1
Alignment explanation
Indices: 1587991--1588015 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
1587981 TTGGAAGCTC
1587991 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
1588016 ACATGCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:1590333 original size:24 final size:24
Alignment explanation
Indices: 1590306--1590377 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
1590296 AGGGTAATTA
* *
1590306 TGCTGGCATGACTGCTTCTTCCGG
1 TGCTGACATGACTGCTTCTTCCAG
* *
1590330 TGCTGACATGGCTACTTCTTCCAG
1 TGCTGACATGACTGCTTCTTCCAG
*
1590354 TGCTGACATAACTG-TTCCTTCCAG
1 TGCTGACATGACTGCTT-CTTCCAG
1590378 ATGAGTCATT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
23 2 0.05
24 38 0.95
ACGTcount: A:0.15, C:0.29, G:0.22, T:0.33
Consensus pattern (24 bp):
TGCTGACATGACTGCTTCTTCCAG
Found at i:1597917 original size:19 final size:19
Alignment explanation
Indices: 1597885--1597922 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
1597875 TCTCACTTGA
*
1597885 TAATTTTTCGTATAGTATTT
1 TAATTTTTCATATA-TATTT
1597905 TAATTTTT-ATATATATTT
1 TAATTTTTCATATATATTT
1597923 ATATTATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 4 0.24
20 8 0.47
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (19 bp):
TAATTTTTCATATATATTT
Found at i:1599578 original size:18 final size:16
Alignment explanation
Indices: 1599542--1599603 Score: 56
Period size: 16 Copynumber: 3.8 Consensus size: 16
1599532 TTATAATTAA
1599542 ATTTAATTAAAAAAAT
1 ATTTAATTAAAAAAAT
*
1599558 ATTTTATTAATAAATAAT
1 ATTTAATTAA-AAA-AAT
**
1599576 ATTTAAATTATTAAAAT
1 ATTT-AATTAAAAAAAT
1599593 -TTT-ATTAAAAA
1 ATTTAATTAAAAA
1599604 CTTAATCTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
14 6 0.16
16 12 0.32
17 6 0.16
18 9 0.24
19 4 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTTAATTAAAAAAAT
Found at i:1599585 original size:19 final size:17
Alignment explanation
Indices: 1599542--1599591 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 17
1599532 TTATAATTAA
1599542 ATTTAATTAA-AAAAAT
1 ATTTAATTAATAAAAAT
*
1599558 ATTTTATTAATAAATAAT
1 ATTTAATTAATAAA-AAT
*
1599576 ATTTAAATTATTAAAA
1 ATTT-AATTAATAAAA
1599592 TTTTATTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 9 0.32
17 3 0.11
18 8 0.29
19 8 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTTAATTAATAAAAAT
Found at i:1599639 original size:19 final size:22
Alignment explanation
Indices: 1599617--1599656 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
1599607 AATCTTTAAA
1599617 TAAA-TTTAAT-TA-ATTTTTT
1 TAAATTTTAATATATATTTTTT
1599636 TAAATTTTAATATATATTTTT
1 TAAATTTTAATATATATTTTT
1599657 ATTTTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 6 0.33
21 2 0.11
22 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TAAATTTTAATATATATTTTTT
Found at i:1599734 original size:12 final size:12
Alignment explanation
Indices: 1599705--1599747 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
1599695 TCTTAAAATT
1599705 TAAATATAAATAA
1 TAAATATAAA-AA
*
1599718 TTAAATTTAAAAA
1 -TAAATATAAAAA
*
1599731 TAAATATAAAAT
1 TAAATATAAAAA
1599743 TAAAT
1 TAAAT
1599748 TTTTTTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 15 0.58
13 2 0.08
14 9 0.35
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
TAAATATAAAAA
Found at i:1601248 original size:2 final size:2
Alignment explanation
Indices: 1601241--1601269 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1601231 GCATGCATAA
1601241 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1601270 CTCGTGTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1601378 original size:25 final size:24
Alignment explanation
Indices: 1601348--1601414 Score: 61
Period size: 24 Copynumber: 2.8 Consensus size: 24
1601338 ATTAGTTATC
1601348 TTTTAAATATTTATTAAATTAATAT
1 TTTTAAATATTTATTAAATT-ATAT
* *
1601373 TTTT-AAT-TATAGTTTAA-TATAT
1 TTTTAAATATTTA-TTAAATTATAT
1601395 TATTTAAA-ATTTATTAAATT
1 T-TTTAAATATTTATTAAATT
1601415 TTAATATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 11
0.69 0.08 0.23
Matches are distributed among these distances:
22 5 0.15
23 11 0.33
24 13 0.39
25 4 0.12
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (24 bp):
TTTTAAATATTTATTAAATTATAT
Found at i:1601417 original size:29 final size:29
Alignment explanation
Indices: 1601385--1601456 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
1601375 TTAATTATAG
**
1601385 TTTAATAT-ATTATTTAAAATTTATTAAAT
1 TTTAATATAATTAAATAAAA-TTATTAAAT
1601414 TTTAATATAATTAAATAAAATTATTAAAAT
1 TTTAATATAATTAAATAAAATTATT-AAAT
*
1601444 ATT-ATATAATTAA
1 TTTAATATAATTAA
1601457 TATTTCTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 23 0.61
30 15 0.39
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (29 bp):
TTTAATATAATTAAATAAAATTATTAAAT
Found at i:1601447 original size:21 final size:21
Alignment explanation
Indices: 1601410--1601452 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
1601400 AAAATTTATT
*
1601410 AAATTTTAATATAATTAAATA
1 AAATTTTAAAATAATTAAATA
*
1601431 AAATTATTAAAAT-ATTATATA
1 AAATT-TTAAAATAATTAAATA
1601452 A
1 A
1601453 TTAATATTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATTTTAAAATAATTAAATA
Found at i:1601768 original size:22 final size:21
Alignment explanation
Indices: 1601738--1601787 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
1601728 CTCTTAAAAT
1601738 ATTAAAAAATAATAATTCTTAA
1 ATTAAAAAATAATAA-TCTTAA
* *
1601760 ATTACAAAATATTAATCTT-A
1 ATTAAAAAATAATAATCTTAA
*
1601780 TTTAAAAA
1 ATTAAAAA
1601788 TTTTCATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 7 0.29
21 4 0.17
22 13 0.54
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (21 bp):
ATTAAAAAATAATAATCTTAA
Found at i:1601994 original size:2 final size:2
Alignment explanation
Indices: 1601987--1602012 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1601977 AGTCATAAAA
1601987 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
1602013 TGGAATGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1603249 original size:19 final size:21
Alignment explanation
Indices: 1603214--1603262 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
1603204 ATGTTAAATA
1603214 ATAA-TATATTAAAATTT-AT
1 ATAATTATATTAAAATTTAAT
*
1603233 ATAATTATA-TAATATTTAAAT
1 ATAATTATATTAAAATTT-AAT
1603254 ATAATTATA
1 ATAATTATA
1603263 CATAAAAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 11 0.42
20 4 0.15
21 11 0.42
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATAATTATATTAAAATTTAAT
Found at i:1605953 original size:21 final size:20
Alignment explanation
Indices: 1605928--1605972 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
1605918 TTAAAATGAC
*
1605928 TAAATCGATTAAATTTAAGTT
1 TAAATCAATT-AATTTAAGTT
* *
1605949 TAAATCAATTATTTTAATTT
1 TAAATCAATTAATTTAAGTT
1605969 TAAA
1 TAAA
1605973 ATTGTTTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.47
Consensus pattern (20 bp):
TAAATCAATTAATTTAAGTT
Found at i:1606026 original size:9 final size:9
Alignment explanation
Indices: 1605977--1606026 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
1605967 TTTAAAATTG
1605977 TTTAATTAA
1 TTTAATTAA
*
1605986 TTTGATTAA
1 TTTAATTAA
* *
1605995 TTTTATAAA
1 TTTAATTAA
*
1606004 TTTATTTAA
1 TTTAATTAA
1606013 TTTAATTAA
1 TTTAATTAA
1606022 TTTAA
1 TTTAA
1606027 AAACTTTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (9 bp):
TTTAATTAA
Found at i:1607523 original size:2 final size:2
Alignment explanation
Indices: 1607516--1607562 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
1607506 AAGATCTCTT
1607516 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1607558 T- TA TA
1 TA TA TA
1607563 ACTTCCCCCC
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1612705 original size:16 final size:15
Alignment explanation
Indices: 1612680--1612714 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 15
1612670 GAATGCAATG
1612680 GAAAAAAAAAAAAAA
1 GAAAAAAAAAAAAAA
1612695 GAAAAAGAAAAAAAAA
1 GAAAAA-AAAAAAAAA
1612711 GAAA
1 GAAA
1612715 GACAATTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (15 bp):
GAAAAAAAAAAAAAA
Found at i:1614362 original size:32 final size:32
Alignment explanation
Indices: 1614303--1614363 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
1614293 CATGTTTGTG
** * *
1614303 CCATGTAAATGCTAACGTGGCAGAGATAAGAA
1 CCATGTAAACACTAACGTAGCAAAGATAAGAA
*
1614335 CCATGTAAACACTAATGTAGCAAAGATAA
1 CCATGTAAACACTAACGTAGCAAAGATAA
1614364 TTGATTTTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 24 1.00
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.20
Consensus pattern (32 bp):
CCATGTAAACACTAACGTAGCAAAGATAAGAA
Found at i:1614506 original size:13 final size:13
Alignment explanation
Indices: 1614484--1614518 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
1614474 CTTTTTAGGA
*
1614484 TTTTAGCCTTTTC
1 TTTTATCCTTTTC
1614497 TTTTATCCTTTTC
1 TTTTATCCTTTTC
1614510 TTTT-TCCTT
1 TTTTATCCTT
1614519 CTATATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 5 0.24
13 16 0.76
ACGTcount: A:0.06, C:0.23, G:0.03, T:0.69
Consensus pattern (13 bp):
TTTTATCCTTTTC
Found at i:1615712 original size:2 final size:2
Alignment explanation
Indices: 1615707--1615751 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
1615697 GGGGGGAGGG
1615707 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1615749 GA G
1 GA G
1615752 GGGTTTTGAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1616460 original size:1 final size:1
Alignment explanation
Indices: 1616454--1616485 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
1616444 TCGCATACAG
1616454 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1616486 CTCAAATTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1621794 original size:22 final size:23
Alignment explanation
Indices: 1621751--1621803 Score: 81
Period size: 22 Copynumber: 2.3 Consensus size: 23
1621741 AAATCAAAAT
* *
1621751 ATTTTAATATTATTATTATTTTA
1 ATTTTTATATTAATATTATTTTA
1621774 ATTTTTATATTAAT-TTATTTTA
1 ATTTTTATATTAATATTATTTTA
1621796 ATTTTTAT
1 ATTTTTAT
1621804 GAGTATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
22 16 0.57
23 12 0.43
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (23 bp):
ATTTTTATATTAATATTATTTTA
Found at i:1622093 original size:16 final size:16
Alignment explanation
Indices: 1622066--1622105 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
1622056 GATTACAATT
*
1622066 TTTATA-TTTTAAATA
1 TTTATATTTTTAAAAA
1622081 TTTATATTTTTAAAAA
1 TTTATATTTTTAAAAA
*
1622097 TTTACATTT
1 TTTATATTT
1622106 GCATATGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTATATTTTTAAAAA
Found at i:1622627 original size:20 final size:20
Alignment explanation
Indices: 1622589--1622627 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1622579 AATAATTTAA
* *
1622589 ATATTAAATAGATATTAAAG
1 ATATTAAATACATAATAAAG
*
1622609 ATATTAAATACTTAATAAA
1 ATATTAAATACATAATAAA
1622628 ATAATTTAGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (20 bp):
ATATTAAATACATAATAAAG
Found at i:1622816 original size:22 final size:21
Alignment explanation
Indices: 1622776--1622826 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
1622766 TATTAAATTA
1622776 AATTAAA-AAATTATATTTAT
1 AATTAAATAAATTATATTTAT
*
1622796 CATTAAATAAATTAATATTTAT
1 AATTAAATAAATT-ATATTTAT
1622818 AATATAAAT
1 AAT-TAAAT
1622827 TACAAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 6 0.23
21 5 0.19
22 10 0.38
23 5 0.19
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
AATTAAATAAATTATATTTAT
Found at i:1624281 original size:10 final size:10
Alignment explanation
Indices: 1624256--1624306 Score: 54
Period size: 10 Copynumber: 5.2 Consensus size: 10
1624246 ATTTAATAAT
1624256 TAATATATTTA
1 TAATAT-TTTA
1624267 T-ATATTTTA
1 TAATATTTTA
1624276 TAATA--TTA
1 TAATATTTTA
1624284 TAATTATTTTA
1 TAA-TATTTTA
*
1624295 AAATATTTTA
1 TAATATTTTA
1624305 TA
1 TA
1624307 TTTAAATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
8 6 0.18
9 7 0.21
10 15 0.44
11 6 0.18
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
TAATATTTTA
Found at i:1624319 original size:17 final size:15
Alignment explanation
Indices: 1624287--1624330 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
1624277 AATATTATAA
*
1624287 TTATTTTAAAATATT
1 TTATTTTAAAAAATT
1624302 TTATATTTAAATAAATT
1 TTAT-TTTAAA-AAATT
*
1624319 TTATTATAAAAA
1 TTATTTTAAAAA
1624331 TATAACAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 6 0.24
16 11 0.44
17 8 0.32
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTATTTTAAAAAATT
Found at i:1627264 original size:34 final size:34
Alignment explanation
Indices: 1627226--1627290 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
1627216 CTTTTTGAAA
*
1627226 AATATATCCTATTTTTTTTATCAGCATTTTGTAC
1 AATATATCCTATATTTTTTATCAGCATTTTGTAC
*
1627260 AATATATTCTATATTTTTTATCAGCATTTTG
1 AATATATCCTATATTTTTTATCAGCATTTTG
1627291 ACTATTGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.28, C:0.12, G:0.06, T:0.54
Consensus pattern (34 bp):
AATATATCCTATATTTTTTATCAGCATTTTGTAC
Found at i:1630310 original size:2 final size:2
Alignment explanation
Indices: 1630305--1630335 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1630295 TTATATATGC
1630305 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1630336 GTAAAGTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1631470 original size:37 final size:35
Alignment explanation
Indices: 1631419--1631506 Score: 95
Period size: 37 Copynumber: 2.5 Consensus size: 35
1631409 GAGTTGGATG
* * *
1631419 ATAAAATTAATATTAATTTTTAAAATAATATTAAAAA
1 ATAATATTTATATTAATATTTAAAATAATATT--AAA
* * * *
1631456 ATAATTTTTATATTAATATTTATAATTATATTTAA
1 ATAATATTTATATTAATATTTAAAATAATATTAAA
1631491 ATAATATTTATATTAA
1 ATAATATTTATATTAA
1631507 ATAAATAATA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
35 17 0.40
37 26 0.60
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (35 bp):
ATAATATTTATATTAATATTTAAAATAATATTAAA
Found at i:1631472 original size:12 final size:12
Alignment explanation
Indices: 1631457--1631506 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
1631447 TATTAAAAAA
*
1631457 TAATTTTTATAT
1 TAATATTTATAT
1631469 TAATATTTATAAT
1 TAATATTTAT-AT
*
1631482 T-ATATTTA-AA
1 TAATATTTATAT
1631492 TAATATTTATAT
1 TAATATTTATAT
1631504 TAA
1 TAA
1631507 ATAAATAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
10 2 0.06
11 7 0.22
12 20 0.62
13 3 0.09
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TAATATTTATAT
Found at i:1631498 original size:23 final size:21
Alignment explanation
Indices: 1631469--1631534 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 21
1631459 ATTTTTATAT
1631469 TAATATTTATAATTATATTTAAA
1 TAATATTTATAATTA-A-TTAAA
*
1631492 TAATATTTAT-ATTAAATAAA
1 TAATATTTATAATTAATTAAA
1631512 TAATAATTTA-AATTAAATTAAA
1 TAAT-ATTTATAATT-AATTAAA
1631534 T
1 T
1631535 TTAAAAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
20 8 0.21
21 9 0.24
22 11 0.29
23 10 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TAATATTTATAATTAATTAAA
Found at i:1631522 original size:16 final size:16
Alignment explanation
Indices: 1631485--1631552 Score: 54
Period size: 16 Copynumber: 4.4 Consensus size: 16
1631475 TTATAATTAT
* *
1631485 ATTTAAAT-AATATTT
1 ATTTAAATAAATAATA
1631500 ATATTAAATAAATAATA
1 AT-TTAAATAAATAATA
*
1631517 ATTTAAATTAAATTA-A
1 ATTTAAA-TAAATAATA
*
1631533 ATTTAAA-AAA-ATTA
1 ATTTAAATAAATAATA
1631547 ATTTAA
1 ATTTAA
1631553 TTTAATATAG
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
14 10 0.23
15 2 0.05
16 19 0.43
17 13 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
ATTTAAATAAATAATA
Found at i:1631526 original size:21 final size:21
Alignment explanation
Indices: 1631469--1631534 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 21
1631459 ATTTTTATAT
*
1631469 TAATATTTATAATTATATTTAAA
1 TAATATTTA-AATTA-AATTAAA
*
1631492 TAATATTTATATTAAA-TAAA
1 TAATATTTAAATTAAATTAAA
1631512 TAATAATTTAAATTAAATTAAA
1 TAAT-ATTTAAATTAAATTAAA
1631534 T
1 T
1631535 TTAAAAAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
20 8 0.21
21 12 0.32
22 9 0.24
23 9 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TAATATTTAAATTAAATTAAA
Found at i:1632928 original size:24 final size:25
Alignment explanation
Indices: 1632873--1632928 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
1632863 TTTATATTTG
* * * *
1632873 ATATTAGTATTAATTACATAAATTT
1 ATATTATTATTAAATACATAAAATA
1632898 ATA-TATTATTAAATA-ATAAAATA
1 ATATTATTATTAAATACATAAAATA
1632921 ATATTATT
1 ATATTATT
1632929 TAATTTATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 9 0.35
24 14 0.54
25 3 0.12
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (25 bp):
ATATTATTATTAAATACATAAAATA
Found at i:1633195 original size:17 final size:17
Alignment explanation
Indices: 1633150--1633195 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
1633140 TAATATTATT
*
1633150 ATAA-AAAATT-TAAAA
1 ATAATAAAATTATTAAA
1633165 ATAAT-AAATATATTAAA
1 ATAATAAAAT-TATTAAA
1633182 ATAATAAAATTATT
1 ATAATAAAATTATT
1633196 TTATTTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 8 0.31
16 1 0.04
17 13 0.50
18 4 0.15
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATAATAAAATTATTAAA
Found at i:1633235 original size:18 final size:18
Alignment explanation
Indices: 1633150--1633235 Score: 51
Period size: 15 Copynumber: 4.9 Consensus size: 18
1633140 TAATATTATT
1633150 ATAAAAAAT-TTA--AAA
1 ATAAAAAATATTATTAAA
*
1633165 ATAATAAATA-TATTAAA
1 ATAAAAAATATTATTAAA
*
1633182 ATAATAAAATTATTTTATTTAA
1 ATAA-AAAA-TA--TTATTAAA
**
1633204 AT-ATTAAT-TT-TTAAA
1 ATAAAAAATATTATTAAA
1633219 ATAAAAAATATTATTAA
1 ATAAAAAATATTATTAA
1633236 TTAAATTATA
Statistics
Matches: 52, Mismatches: 8, Indels: 19
0.66 0.10 0.24
Matches are distributed among these distances:
15 16 0.31
16 6 0.12
17 9 0.17
18 7 0.13
19 3 0.06
20 2 0.04
21 1 0.02
22 8 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
ATAAAAAATATTATTAAA
Found at i:1633240 original size:36 final size:37
Alignment explanation
Indices: 1633177--1633252 Score: 104
Period size: 36 Copynumber: 2.1 Consensus size: 37
1633167 AATAAATATA
*
1633177 TTAAAATAATAAAATTATTTTATTTAAA-TATTAATTT
1 TTAAAATAATAAAATTATTTTAATTAAATTA-TAATTT
1633214 TTAAAATAA-AAAA-TATTATTAATTAAATTATAATTT
1 TTAAAATAATAAAATTATT-TTAATTAAATTATAATTT
1633250 TTA
1 TTA
1633253 TCATCAAGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
35 4 0.11
36 21 0.58
37 11 0.31
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (37 bp):
TTAAAATAATAAAATTATTTTAATTAAATTATAATTT
Found at i:1633253 original size:21 final size:22
Alignment explanation
Indices: 1633229--1633279 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 22
1633219 ATAAAAAATA
*
1633229 TTATTAATTAA-ATTATAATTT
1 TTATTAATTAAGATTAAAATTT
* *
1633250 TTA-TCATCAAGATTAAAATTT
1 TTATTAATTAAGATTAAAATTT
*
1633271 TTATAAATT
1 TTATTAATT
1633280 TAATATGCAA
Statistics
Matches: 22, Mismatches: 6, Indels: 3
0.71 0.19 0.10
Matches are distributed among these distances:
20 5 0.23
21 15 0.68
22 2 0.09
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (22 bp):
TTATTAATTAAGATTAAAATTT
Found at i:1635558 original size:2 final size:2
Alignment explanation
Indices: 1635551--1635575 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1635541 TAACTATAAC
1635551 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
1635576 TAGTTAGAGT
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:1638605 original size:24 final size:23
Alignment explanation
Indices: 1638578--1638646 Score: 79
Period size: 24 Copynumber: 3.0 Consensus size: 23
1638568 TGGGTTTTAT
1638578 TAAAATTAAAATTAATAATGATAA
1 TAAAATTAAAATT-ATAATGATAA
* *
1638602 TAAAATT--AATTATTATAATAA
1 TAAAATTAAAATTATAATGATAA
*
1638623 TAAAAATAAATATTATAATGATAA
1 TAAAATTAAA-ATTATAATGATAA
1638647 AATTAAAATC
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
21 14 0.38
22 4 0.11
23 1 0.03
24 18 0.49
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (23 bp):
TAAAATTAAAATTATAATGATAA
Found at i:1638607 original size:18 final size:18
Alignment explanation
Indices: 1638584--1638622 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
1638574 TTATTAAAAT
1638584 TAAAATTAATAATGATAA
1 TAAAATTAATAATGATAA
* *
1638602 TAAAATTAATTATTATAA
1 TAAAATTAATAATGATAA
1638620 TAA
1 TAA
1638623 TAAAAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
TAAAATTAATAATGATAA
Found at i:1638624 original size:21 final size:21
Alignment explanation
Indices: 1638598--1638653 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
1638588 ATTAATAATG
*
1638598 ATAATAAAATTAATTATTATA
1 ATAATAAAATTAAATATTATA
*
1638619 ATAATAAAAATAAATATTATA
1 ATAATAAAATTAAATATTATA
*
1638640 ATGATAAAATTAAA
1 ATAATAAAATTAAA
1638654 ATCGATCTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
ATAATAAAATTAAATATTATA
Found at i:1638827 original size:35 final size:32
Alignment explanation
Indices: 1638762--1638827 Score: 96
Period size: 34 Copynumber: 2.0 Consensus size: 32
1638752 AAATTATTTT
1638762 TATATATTTTATTAATATTTAAAATTTTAATA
1 TATATATTTTATTAATATTTAAAATTTTAATA
*
1638794 TATATTATTTTATATATTATTTAAATATTTTAAT
1 TATA-TATTTTAT-TAATATTTAAA-ATTTTAAT
1638828 TAAATAACTA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 4 0.13
33 8 0.27
34 10 0.33
35 8 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (32 bp):
TATATATTTTATTAATATTTAAAATTTTAATA
Found at i:1639300 original size:2 final size:2
Alignment explanation
Indices: 1639255--1639286 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1639245 AAATATGAAC
1639255 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
1639287 TCATTGGCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1640637 original size:31 final size:30
Alignment explanation
Indices: 1640565--1640642 Score: 77
Period size: 32 Copynumber: 2.4 Consensus size: 30
1640555 AAAAAAGTGG
*
1640565 AATATACTTTATAATTTTTAAAATATAAAATC
1 AATATA-TTTAT-ATTTTTAAAATAAAAAATC
*
1640597 ATATATATTTAT-TTTTTACATAATAAAAAATT
1 A-ATATATTTATATTTTTA-A-AATAAAAAATC
1640629 AATATATTTTATAT
1 AATATA-TTTATAT
1640643 AATTAAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
30 6 0.15
31 6 0.15
32 21 0.54
33 6 0.15
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATATATTTATATTTTTAAAATAAAAAATC
Found at i:1643947 original size:18 final size:19
Alignment explanation
Indices: 1643897--1643951 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 19
1643887 TGATTCGTTA
1643897 TTAATTT-TAAATTATTAT
1 TTAATTTATAAATTATTAT
*
1643915 TTAAATATTAAAAATTATT-T
1 TT-AAT-TTATAAATTATTAT
1643935 TTAATTTATAAA-TATTA
1 TTAATTTATAAATTATTA
1643952 ATATAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
17 4 0.13
18 8 0.26
19 6 0.19
20 5 0.16
21 8 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTAATTTATAAATTATTAT
Found at i:1643987 original size:32 final size:33
Alignment explanation
Indices: 1643907--1643990 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 33
1643897 TTAATTTTAA
1643907 ATTATTATTTAAATATTAAAAATTATTTTTAATTT
1 ATTATT-TTTAAATA-TAAAAATTATTTTTAATTT
* * * *
1643942 ATAAATATT-AATATAAAAA-TATTTTTTATTT
1 ATTATTTTTAAATATAAAAATTATTTTTAATTT
*
1643973 TTTATTTTTAAATATAAA
1 ATTATTTTTAAATATAAA
1643991 TAAATAATTC
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
31 16 0.40
32 14 0.35
33 4 0.10
34 2 0.05
35 4 0.10
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (33 bp):
ATTATTTTTAAATATAAAAATTATTTTTAATTT
Found at i:1644331 original size:21 final size:21
Alignment explanation
Indices: 1644307--1644352 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
1644297 TTAATTATTA
*
1644307 AAAAT-ATAAAATTAAAGTAAT
1 AAAATCATAAAA-TAAAGGAAT
1644328 AAAATCATAAAATAAAGGAAT
1 AAAATCATAAAATAAAGGAAT
1644349 AAAA
1 AAAA
1644353 CAAGGATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (21 bp):
AAAATCATAAAATAAAGGAAT
Found at i:1645877 original size:12 final size:12
Alignment explanation
Indices: 1645862--1645901 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
1645852 ATTTTAACAA
*
1645862 ATATACATATAC
1 ATATACATATAT
1645874 ATATACATATAT
1 ATATACATATAT
*
1645886 ATATATATATAT
1 ATATACATATAT
1645898 ATAT
1 ATAT
1645902 GACTTTGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.42
Consensus pattern (12 bp):
ATATACATATAT
Found at i:1645887 original size:2 final size:2
Alignment explanation
Indices: 1645862--1645901 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
1645852 ATTTTAACAA
* * *
1645862 AT AT AC AT AT AC AT AT AC 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
1645902 GACTTTGATA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:1649168 original size:22 final size:24
Alignment explanation
Indices: 1649131--1649191 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 24
1649121 TTTAATTTTT
1649131 ATAAATAATAATATTATTAATATA
1 ATAAATAATAATATTATTAATATA
*
1649155 ATAAA-AA-AATATTATTGATATA
1 ATAAATAATAATATTATTAATATA
*
1649177 A-AAATTATTAATATT
1 ATAAA-TAATAATATT
1649192 TTATTCGATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 3 0.09
22 15 0.47
23 3 0.09
24 11 0.34
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (24 bp):
ATAAATAATAATATTATTAATATA
Found at i:1649932 original size:30 final size:29
Alignment explanation
Indices: 1649896--1649953 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
1649886 ATAAATGATT
* *
1649896 TAATTTATTAATAA-TAAAAATTTAGTAATA
1 TAATTTAATAA-AATTAAAAAATTA-TAATA
1649926 TAATTTAATAAAATTAAAAAATTATAAT
1 TAATTTAATAAAATTAAAAAATTATAAT
1649954 TTATATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 6 0.24
30 19 0.76
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (29 bp):
TAATTTAATAAAATTAAAAAATTATAATA
Found at i:1650606 original size:25 final size:24
Alignment explanation
Indices: 1650568--1650614 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
1650558 ATAATATATT
1650568 TTTATATATAATAATATAATTAAAA
1 TTTATATATAATAA-ATAATTAAAA
*
1650593 TTTATAT-TATATAAATTATTAA
1 TTTATATATA-ATAAATAATTAA
1650615 TTTAAAATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (24 bp):
TTTATATATAATAAATAATTAAAA
Found at i:1656206 original size:29 final size:29
Alignment explanation
Indices: 1656151--1656209 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
1656141 ATTAAAATAT
*
1656151 AAATTATTTATCAAAATATAGTAATTTTA
1 AAATTATTTATCAAAATATACTAATTTTA
*
1656180 AAATTATTTATCAAATTATTACT-ATTTTA
1 AAATTATTTATCAAAATA-TACTAATTTTA
1656209 A
1 A
1656210 TTTAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 24 0.89
30 3 0.11
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.47
Consensus pattern (29 bp):
AAATTATTTATCAAAATATACTAATTTTA
Found at i:1661138 original size:22 final size:22
Alignment explanation
Indices: 1661110--1661160 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
1661100 TTTATATTTA
* *
1661110 TATTTTTATATTGTA-TTTATAT
1 TATTTTTATAATATATTTTA-AT
1661132 TATTTTTATAATATATTTTAAT
1 TATTTTTATAATATATTTTAAT
1661154 TATTTTT
1 TATTTTT
1661161 TTTATGTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (22 bp):
TATTTTTATAATATATTTTAAT
Found at i:1661139 original size:11 final size:11
Alignment explanation
Indices: 1661110--1661160 Score: 59
Period size: 11 Copynumber: 4.6 Consensus size: 11
1661100 TTTATATTTA
1661110 TATTTTTATAT
1 TATTTTTATAT
* *
1661121 TGTATTTATAT
1 TATTTTTATAT
*
1661132 TATTTTTATAA
1 TATTTTTATAT
1661143 TATATTTTA-AT
1 TAT-TTTTATAT
1661154 TATTTTT
1 TATTTTT
1661161 TTTATGTTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
10 4 0.12
11 24 0.73
12 5 0.15
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (11 bp):
TATTTTTATAT
Found at i:1661156 original size:27 final size:25
Alignment explanation
Indices: 1661116--1661165 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
1661106 TTTATATTTT
*
1661116 TATATTGTATTTATATTATTTTTATAA
1 TATATTGTAATTAT-TT-TTTTTATAA
*
1661143 TATATTTTAATTATTTTTTTTAT
1 TATATTGTAATTATTTTTTTTAT
1661166 GTTAAACAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 2 0.10
27 12 0.57
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (25 bp):
TATATTGTAATTATTTTTTTTATAA
Found at i:1661539 original size:3 final size:3
Alignment explanation
Indices: 1661531--1661569 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
1661521 GTAAGGCTAT
* *
1661531 TAA TAA TAA TAA TAA TAA TAA TAA TGA TGA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1661570 AAAGAAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1661826 original size:17 final size:17
Alignment explanation
Indices: 1661796--1661842 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
1661786 TCGTAATATA
1661796 TAAAT-TAT-AATTTTT
1 TAAATATATAAATTTTT
1661811 TAAATATATAAATTTTT
1 TAAATATATAAATTTTT
*
1661828 TAAAATAAATAAATT
1 T-AAATATATAAATT
1661843 AATATCAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 5 0.18
16 3 0.11
17 8 0.29
18 12 0.43
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAAATATATAAATTTTT
Found at i:1663891 original size:19 final size:20
Alignment explanation
Indices: 1663867--1663915 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
1663857 TAATTTAAAA
1663867 ATATTAAAAATATAT-TTTT
1 ATATTAAAAATATATATTTT
**
1663886 ATATTAATATTTATATATTTT
1 ATATTAA-AAATATATATTTT
1663907 ATTATTAAA
1 A-TATTAAA
1663916 TTTAAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 7 0.28
20 6 0.24
21 6 0.24
22 6 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATATTAAAAATATATATTTT
Found at i:1663901 original size:22 final size:21
Alignment explanation
Indices: 1663876--1663919 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
1663866 AATATTAAAA
1663876 ATATATTTT-TATATTAATATTT
1 ATATATTTTAT-TATTAA-ATTT
1663898 ATATATTTTATTATTAAATTT
1 ATATATTTTATTATTAAATTT
1663919 A
1 A
1663920 AATAAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 5 0.24
22 15 0.71
23 1 0.05
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
ATATATTTTATTATTAAATTT
Found at i:1664095 original size:2 final size:2
Alignment explanation
Indices: 1664088--1664118 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1664078 TTAATAGCTT
1664088 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1664119 TTCTAATCTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1664390 original size:14 final size:16
Alignment explanation
Indices: 1664373--1664409 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
1664363 AAAATATGTA
1664373 TTATTTAAT-AAA-TT
1 TTATTTAATAAAATTT
1664387 TTATTT-ATAAAATTT
1 TTATTTAATAAAATTT
1664402 TTATTTAA
1 TTATTTAA
1664410 GTATCAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 2 0.10
14 9 0.45
15 8 0.40
16 1 0.05
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTATTTAATAAAATTT
Found at i:1667574 original size:20 final size:22
Alignment explanation
Indices: 1667532--1667590 Score: 79
Period size: 21 Copynumber: 2.8 Consensus size: 22
1667522 GCTACCAATA
1667532 ATATATTTAATATATTTTAATT
1 ATATATTTAATATATTTTAATT
1667554 ATATATTT-ATATATTTT-ATT
1 ATATATTTAATATATTTTAATT
*
1667574 ATAT-TATAATTATATTT
1 ATATATTTAA-TATATTT
1667591 AAAATATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
19 2 0.06
20 8 0.24
21 16 0.47
22 8 0.24
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
ATATATTTAATATATTTTAATT
Found at i:1667587 original size:21 final size:22
Alignment explanation
Indices: 1667533--1667590 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 22
1667523 CTACCAATAA
1667533 TATATT-TAA-TATATTTTAAT
1 TATATTATAATTATATTTTAAT
*
1667553 TATA-TAT--TTATATATTTTAT
1 TATATTATAATTATAT-TTTAAT
1667573 TATATTATAATTATATTT
1 TATATTATAATTATATTT
1667591 AAAATATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
19 6 0.19
20 14 0.45
21 3 0.10
22 2 0.06
23 6 0.19
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATATTATAATTATATTTTAAT
Found at i:1667602 original size:16 final size:17
Alignment explanation
Indices: 1667583--1667623 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
1667573 TATATTATAA
1667583 TTATATTTAAAAT-ATT
1 TTATATTTAAAATAATT
*
1667599 TTATATTTAAATTAATT
1 TTATATTTAAAATAATT
1667616 TTA-ATTTA
1 TTATATTTA
1667624 TTAAGAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 17 0.74
17 6 0.26
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTATATTTAAAATAATT
Found at i:1668681 original size:50 final size:50
Alignment explanation
Indices: 1668512--1668672 Score: 229
Period size: 50 Copynumber: 3.3 Consensus size: 50
1668502 AGATGTTTAG
* * *
1668512 AGTCAACAATTACGGTCACTTTTCTC---TGTCAAAGGTTGGTGAGAAAT
1 AGTCAACAATTACGGTCACCTCTCTCGATTGTCAAAGGTTGGTGAAAAAT
* *
1668559 AATCAACAATTACGGTCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTACGGTCACCTCTCTCGATTGTCAAAGGTTGGTGAAAAAT
* * *
1668609 AGTTAAAAATTACGGTCACCTCTCTCGATTGTCAAAAGTTGGTGAAAAAT
1 AGTCAACAATTACGGTCACCTCTCTCGATTGTCAAAGGTTGGTGAAAAAT
1668659 AGTCAACAATTACG
1 AGTCAACAATTACG
1668673 ACTACCTCTT
Statistics
Matches: 99, Mismatches: 12, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
47 23 0.23
50 76 0.77
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (50 bp):
AGTCAACAATTACGGTCACCTCTCTCGATTGTCAAAGGTTGGTGAAAAAT
Found at i:1673084 original size:50 final size:50
Alignment explanation
Indices: 1673025--1673195 Score: 218
Period size: 50 Copynumber: 3.4 Consensus size: 50
1673015 AGATACTTAG
* * * *
1673025 AGTCAACAATTACGGTCACCTTTTTCTATTGTCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTACGATCACCTCTCTCAATTGTCAAAGGTTGGTGAAGAAT
* * *
1673075 AGTCAACAATTACCACCACCTCTCTCAATTGTCAAAGGTTGGTGAGGAAT
1 AGTCAACAATTACGATCACCTCTCTCAATTGTCAAAGGTTGGTGAAGAAT
* * *
1673125 ATTCAACAATTACGATCACCTCTCTCGATTGTCAAAGGTCGGTGAAGAAT
1 AGTCAACAATTACGATCACCTCTCTCAATTGTCAAAGGTTGGTGAAGAAT
* *
1673175 -GATCAACAATTATGACCACCT
1 AG-TCAACAATTACGATCACCT
1673196 TTTTTGTACC
Statistics
Matches: 104, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
50 104 1.00
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.29
Consensus pattern (50 bp):
AGTCAACAATTACGATCACCTCTCTCAATTGTCAAAGGTTGGTGAAGAAT
Found at i:1673420 original size:35 final size:36
Alignment explanation
Indices: 1673353--1673423 Score: 92
Period size: 35 Copynumber: 2.0 Consensus size: 36
1673343 CAAAATTATA
* * *
1673353 TTTTTTAAAAATATATTAATATTTAAATTAATAAAT
1 TTTTTTAAAAATATATTAAAATATAAAATAATAAAT
1673389 TTTTTTAAAAA-A-ATTAAAATAATAAAATAATAAAT
1 TTTTTTAAAAATATATTAAAAT-ATAAAATAATAAAT
1673424 AATAAATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
34 7 0.23
35 13 0.42
36 11 0.35
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (36 bp):
TTTTTTAAAAATATATTAAAATATAAAATAATAAAT
Found at i:1673439 original size:15 final size:15
Alignment explanation
Indices: 1673405--1673433 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1673395 AAAAAAATTA
1673405 AAATAATAAAATAAT
1 AAATAATAAAATAAT
1673420 AAATAAT-AAATAAT
1 AAATAATAAAATAAT
1673434 TTAATATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAATAATAAAATAAT
Found at i:1673675 original size:23 final size:22
Alignment explanation
Indices: 1673640--1673687 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
1673630 TTCTTACTTG
*
1673640 AAATTTTTTTTATT-TATTTATT
1 AAATTTTTATTATTATATTT-TT
1673662 AAATTTATTATTATTATATTTTT
1 AAATTT-TTATTATTATATTTTT
1673685 AAA
1 AAA
1673688 ATAGTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 6 0.26
23 12 0.52
24 5 0.22
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
AAATTTTTATTATTATATTTTT
Found at i:1675902 original size:2 final size:2
Alignment explanation
Indices: 1675859--1675891 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1675849 TACCCCCTTC
1675859 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1675892 CACATCTCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:1682208 original size:22 final size:21
Alignment explanation
Indices: 1682176--1682220 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
1682166 TATTTATATT
*
1682176 ATAAAATTTAAATTTATTTAA
1 ATAAAATTTAAATTTAATTAA
*
1682197 ATAATAATTTAATTTTAATTAA
1 ATAA-AATTTAAATTTAATTAA
1682219 AT
1 AT
1682221 TATCTTTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATAAAATTTAAATTTAATTAA
Found at i:1682265 original size:17 final size:16
Alignment explanation
Indices: 1682238--1682269 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
1682228 AAGTATTAAA
1682238 AATTTATTTTAAATTC
1 AATTTATTTTAAATTC
1682254 AATTTAATTTTAAATT
1 AATTT-ATTTTAAATT
1682270 GAATCAGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
AATTTATTTTAAATTC
Found at i:1682994 original size:8 final size:8
Alignment explanation
Indices: 1682978--1683026 Score: 55
Period size: 8 Copynumber: 5.9 Consensus size: 8
1682968 AAAACATAAA
1682978 AAATAATAT
1 AAAT-ATAT
1682987 AAATATAT
1 AAATATAT
1682995 AAATATAT
1 AAATATAT
1683003 -AATATAT
1 AAATATAT
*
1683010 TAATATTAT
1 AAATA-TAT
1683019 ATAATATA
1 A-AATATA
1683027 AATTCACTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
7 7 0.19
8 16 0.44
9 9 0.25
10 4 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
AAATATAT
Found at i:1689894 original size:65 final size:65
Alignment explanation
Indices: 1689787--1689920 Score: 178
Period size: 65 Copynumber: 2.1 Consensus size: 65
1689777 AAGGTTATAC
* ** * * *
1689787 TGCACCAGATCAATTAATTAAGCAAAAGTAATAATATATAATTACTAAAACAAAAGGTACCATGT
1 TGCACCAAATCAATTAAACAAGCAAAAATAACAATATATAATTACTAAAACAAAAGGTACCATAT
* * * *
1689852 TGCACCAAATCAATTAAACAAGCAAAAATAACACTATGTAATTATTAAAACAAAAGGTATCATAT
1 TGCACCAAATCAATTAAACAAGCAAAAATAACAATATATAATTACTAAAACAAAAGGTACCATAT
1689917 TGCA
1 TGCA
1689921 TTGAATTGAT
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
65 59 1.00
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (65 bp):
TGCACCAAATCAATTAAACAAGCAAAAATAACAATATATAATTACTAAAACAAAAGGTACCATAT
Found at i:1690771 original size:15 final size:16
Alignment explanation
Indices: 1690743--1690773 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
1690733 TTTTTTCATC
1690743 AAAATTTAAATTTTAT
1 AAAATTTAAATTTTAT
1690759 AAAATTT-AATTTTAT
1 AAAATTTAAATTTTAT
1690774 TAATCAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AAAATTTAAATTTTAT
Found at i:1691575 original size:2 final size:2
Alignment explanation
Indices: 1691568--1691596 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1691558 CATTACATTG
1691568 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1691597 CTTTTACATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1699301 original size:28 final size:26
Alignment explanation
Indices: 1699264--1699324 Score: 77
Period size: 28 Copynumber: 2.3 Consensus size: 26
1699254 GATTTTGTCA
* *
1699264 TATTTATATATTTGTATTATATTCATAT
1 TATTTTTATATTAG-ATTATATTCA-AT
*
1699292 TATTTTTATATTAGATTATATTTAAT
1 TATTTTTATATTAGATTATATTCAAT
1699318 TATTTTT
1 TATTTTT
1699325 TTATATTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 9 0.30
27 9 0.30
28 12 0.40
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (26 bp):
TATTTTTATATTAGATTATATTCAAT
Found at i:1700213 original size:16 final size:16
Alignment explanation
Indices: 1700188--1700232 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
1700178 TATTTAAAGT
* *
1700188 TTAAAAATTTTTAATA
1 TTAAATATTTATAATA
1700204 TTAAATATTTATAATA
1 TTAAATATTTATAATA
* *
1700220 TTTAATATCTATA
1 TTAAATATTTATA
1700233 TTTTTATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAAATATTTATAATA
Found at i:1701301 original size:19 final size:18
Alignment explanation
Indices: 1701257--1701303 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 18
1701247 CTTAGTTAAG
1701257 AAATTAATAAAAAAATAA
1 AAATTAATAAAAAAATAA
1701275 AAATTTAATAAAATAAA-AA
1 AAA-TTAATAAAA-AAATAA
1701294 TAAATTAATA
1 -AAATTAATA
1701304 TGTCATTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 3 0.12
19 17 0.65
20 6 0.23
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
AAATTAATAAAAAAATAA
Found at i:1701342 original size:20 final size:20
Alignment explanation
Indices: 1701317--1701375 Score: 77
Period size: 20 Copynumber: 3.0 Consensus size: 20
1701307 CATTTCTCAA
1701317 ATTTTTTAAAAATATATTTT
1 ATTTTTTAAAAATATATTTT
*
1701337 ATTTTTTAAAAAAATA-TTT
1 ATTTTTTAAAAATATATTTT
*
1701356 ATTTCTATAAAAAT-TATTTT
1 ATTT-TTTAAAAATATATTTT
1701376 TCTGTTCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 9 0.26
20 25 0.74
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTTTTTAAAAATATATTTT
Found at i:1701367 original size:19 final size:18
Alignment explanation
Indices: 1701317--1701374 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 18
1701307 CATTTCTCAA
*
1701317 ATTTTTTAAAAATATATTTT
1 ATTTTATAAAAA-ATA-TTT
*
1701337 ATTTTTTAAAAAAATATTT
1 ATTTTAT-AAAAAATATTT
*
1701356 ATTTCTATAAAAATTATTT
1 ATTT-TATAAAAAATATTT
1701375 TTCTGTTCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
19 17 0.50
20 12 0.35
21 5 0.15
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTATAAAAAATATTT
Found at i:1702005 original size:3 final size:3
Alignment explanation
Indices: 1701985--1702019 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
1701975 ATATATACGT
* *
1701985 TGA TGG TGA TGG TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
1702020 GTTGATGAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.26, C:0.00, G:0.40, T:0.34
Consensus pattern (3 bp):
TGA
Found at i:1702597 original size:6 final size:6
Alignment explanation
Indices: 1702580--1702622 Score: 77
Period size: 6 Copynumber: 7.2 Consensus size: 6
1702570 TTCCCCTTAC
*
1702580 CTATAT CCATAT CTATAT CTATAT CTATAT CTATAT CTATAT C
1 CTATAT CTATAT CTATAT CTATAT CTATAT CTATAT CTATAT C
1702623 AACAAGAATG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.47
Consensus pattern (6 bp):
CTATAT
Found at i:1703701 original size:12 final size:12
Alignment explanation
Indices: 1703684--1703715 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
1703674 ACTGCTAATA
1703684 TTTCTAATAGAG
1 TTTCTAATAGAG
1703696 TTTCTAATAGAG
1 TTTCTAATAGAG
1703708 TTTCTAAT
1 TTTCTAAT
1703716 GCAAGTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.47
Consensus pattern (12 bp):
TTTCTAATAGAG
Found at i:1705337 original size:11 final size:10
Alignment explanation
Indices: 1705302--1705367 Score: 62
Period size: 10 Copynumber: 6.5 Consensus size: 10
1705292 ATAATCATAG
1705302 ATATTTTATT
1 ATATTTTATT
* *
1705312 AAATTTTAAT
1 ATATTTTATT
1705322 ATATTTATATT
1 ATATTT-TATT
*
1705333 ATATTTATATA
1 ATATTT-TATT
*
1705344 ATATTTAATT
1 ATATTTTATT
*
1705354 AT-TTTTCTT
1 ATATTTTATT
1705363 ATATT
1 ATATT
1705368 ATGTTTACGT
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
9 7 0.16
10 19 0.42
11 19 0.42
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (10 bp):
ATATTTTATT
Found at i:1705338 original size:21 final size:23
Alignment explanation
Indices: 1705302--1705359 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 23
1705292 ATAATCATAG
*
1705302 ATATTT-TATTAAATTTTA-AT-
1 ATATTTATATTATATTTTATATA
1705322 ATATTTATATTATA-TTTATATA
1 ATATTTATATTATATTTTATATA
1705344 ATATTTA-ATTAT-TTTT
1 ATATTTATATTATATTTT
1705360 CTTATATTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
20 10 0.30
21 16 0.48
22 7 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (23 bp):
ATATTTATATTATATTTTATATA
Found at i:1706549 original size:32 final size:27
Alignment explanation
Indices: 1706518--1706571 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
1706508 TTAAATTTAA
*
1706518 TAAAAGTAAAATATTAAATACAATTTTTT
1 TAAAAATAAAA-ATTAAATA-AATTTTTT
*
1706547 TAAAAATAATAATTAAATAAATTTT
1 TAAAAATAAAAATTAAATAAATTTT
1706572 AAGTAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 6 0.26
28 8 0.35
29 9 0.39
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (27 bp):
TAAAAATAAAAATTAAATAAATTTTTT
Found at i:1706991 original size:16 final size:18
Alignment explanation
Indices: 1706970--1707018 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
1706960 GATAATATAT
1706970 ATATTT-AATTT-TTTAA
1 ATATTTAAATTTATTTAA
1706986 ATATTTAAATTTATTTAA
1 ATATTTAAATTTATTTAA
*
1707004 TTTATTTGAAATTTA
1 -ATATTT-AAATTTA
1707019 AAATTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
16 6 0.21
17 5 0.18
18 5 0.18
19 5 0.18
20 7 0.25
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (18 bp):
ATATTTAAATTTATTTAA
Found at i:1707017 original size:26 final size:28
Alignment explanation
Indices: 1706971--1707036 Score: 79
Period size: 26 Copynumber: 2.5 Consensus size: 28
1706961 ATAATATATA
*
1706971 TATTTAATTT-TTTAAATATTT-AAATT
1 TATTTAATTTATTTGAATATTTAAAATT
1706997 TATTTAATTTATTTGAA-ATTTAAAATT
1 TATTTAATTTATTTGAATATTTAAAATT
*
1707024 T-TTTTA-TTATTTG
1 TATTTAATTTATTTG
1707037 TTTTATTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
25 7 0.19
26 18 0.50
27 11 0.31
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (28 bp):
TATTTAATTTATTTGAATATTTAAAATT
Found at i:1707103 original size:17 final size:17
Alignment explanation
Indices: 1707081--1707118 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
1707071 AATATTTATC
1707081 AAATATTTAAATCTATT
1 AAATATTTAAATCTATT
*
1707098 AAATATTTAAATTTATT
1 AAATATTTAAATCTATT
1707115 AAAT
1 AAAT
1707119 TAATTCTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATATTTAAATCTATT
Found at i:1707910 original size:3 final size:3
Alignment explanation
Indices: 1707902--1707929 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1707892 ATATATGGTT
1707902 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1707930 CAAATTACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1708519 original size:65 final size:65
Alignment explanation
Indices: 1708441--1708564 Score: 153
Period size: 65 Copynumber: 1.9 Consensus size: 65
1708431 CTGGCAGAAG
* * *
1708441 AAACAAAGGCAGTTGGACACGAAAATTAATTTCTTAATAATAAAAATAAGA-ATAATTATATGAA
1 AAACAAAGGCAGTTGGACACAAAAATTAATTCCCTAATAATAAAAATAA-ATATAATTATATGAA
1708505 A
65 A
* * **
1708506 AAAC-AAGGACAGTTTGACATAAAAATTGGTTCCCTAATAATAAAAATAAATATAATTAT
1 AAACAAAGG-CAGTTGGACACAAAAATTAATTCCCTAATAATAAAAATAAATATAATTAT
1708565 CTTTTCTTAG
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
64 5 0.10
65 45 0.90
ACGTcount: A:0.52, C:0.09, G:0.11, T:0.27
Consensus pattern (65 bp):
AAACAAAGGCAGTTGGACACAAAAATTAATTCCCTAATAATAAAAATAAATATAATTATATGAAA
Found at i:1709683 original size:26 final size:27
Alignment explanation
Indices: 1709647--1709703 Score: 89
Period size: 26 Copynumber: 2.1 Consensus size: 27
1709637 AAATAATTTT
1709647 TTTATTTTATTAATAT-ATTTATAAAC
1 TTTATTTTATTAATATGATTTATAAAC
* *
1709673 TTTATTTTATTAATATGTTTTGTAAAC
1 TTTATTTTATTAATATGATTTATAAAC
1709700 TTTA
1 TTTA
1709704 AAACTTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 16 0.57
27 12 0.43
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (27 bp):
TTTATTTTATTAATATGATTTATAAAC
Found at i:1710251 original size:17 final size:17
Alignment explanation
Indices: 1710229--1710263 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
1710219 ATTTTAAATA
1710229 TAAAAATAATAAATTAT
1 TAAAAATAATAAATTAT
1710246 TAAAAATAATAAATTAT
1 TAAAAATAATAAATTAT
1710263 T
1 T
1710264 TTAATAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TAAAAATAATAAATTAT
Found at i:1710287 original size:11 final size:11
Alignment explanation
Indices: 1710267--1710302 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
1710257 AATTATTTTA
*
1710267 ATAATTTAAAT
1 ATAATATAAAT
1710278 ATAATATAAAT
1 ATAATATAAAT
1710289 ATAATAT-AAT
1 ATAATATAAAT
1710299 ATAA
1 ATAA
1710303 CACTTAAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 7 0.29
11 17 0.71
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
ATAATATAAAT
Found at i:1710333 original size:3 final size:3
Alignment explanation
Indices: 1710325--1710358 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
1710315 ATTCAATCGG
1710325 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1710359 ACGTTTTGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1714786 original size:15 final size:15
Alignment explanation
Indices: 1714762--1714808 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
1714752 TTTATAATTT
*
1714762 TTTATGTAATTTATA
1 TTTATTTAATTTATA
*
1714777 TTTATTTAATTTATTT
1 TTTATTTAATTTA-TA
1714793 TTTATTT--TTTATA
1 TTTATTTAATTTATA
1714806 TTT
1 TTT
1714809 TATTCATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 4 0.14
14 4 0.14
15 12 0.43
16 8 0.29
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (15 bp):
TTTATTTAATTTATA
Found at i:1715185 original size:55 final size:56
Alignment explanation
Indices: 1715100--1715210 Score: 188
Period size: 55 Copynumber: 2.0 Consensus size: 56
1715090 ATAATTATGA
*
1715100 AAGCCTTGAACCTTAAGAATTTAGAATTCCCACGATGGAAATCAAGCCAACAATTG
1 AAGCCTTGAACCTTAAGAATTTAGAATTCCCACGATGAAAATCAAGCCAACAATTG
* *
1715156 AAGCCTTGAACCTT-GGAATTTAGAATTCCCATGATGAAAATCAAGCCAACAATTG
1 AAGCCTTGAACCTTAAGAATTTAGAATTCCCACGATGAAAATCAAGCCAACAATTG
1715211 GGACTATAAG
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
55 38 0.73
56 14 0.27
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (56 bp):
AAGCCTTGAACCTTAAGAATTTAGAATTCCCACGATGAAAATCAAGCCAACAATTG
Found at i:1715410 original size:2 final size:2
Alignment explanation
Indices: 1715405--1715434 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1715395 AAAATGAGAA
1715405 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
1715435 GACAGATGAT
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:1717802 original size:23 final size:25
Alignment explanation
Indices: 1717771--1717818 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
1717761 TTCATTGGAT
*
1717771 TTTTTCCCT-TTTTT-TATTTTAAA
1 TTTTCCCCTATTTTTCTATTTTAAA
*
1717794 TTTTCCCCTATTTTTCTTTTTTAAA
1 TTTTCCCCTATTTTTCTATTTTAAA
1717819 AAAACTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 8 0.38
24 5 0.24
25 8 0.38
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (25 bp):
TTTTCCCCTATTTTTCTATTTTAAA
Found at i:1720845 original size:16 final size:15
Alignment explanation
Indices: 1720821--1720893 Score: 69
Period size: 16 Copynumber: 4.7 Consensus size: 15
1720811 AATTTATCAA
*
1720821 AATATAATAAATTTAT
1 AATAAAATAAA-TTAT
*
1720837 AATAAAATAAAATTAA
1 AATAAAAT-AAATTAT
1720853 AATAAAAT-AATTAT
1 AATAAAATAAATTAT
*
1720867 AATAACAATTTAATT-T
1 AATAA-AA-TAAATTAT
1720883 AATAAAATAAA
1 AATAAAATAAA
1720894 ATACTATAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
14 13 0.27
15 4 0.08
16 25 0.51
17 7 0.14
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (15 bp):
AATAAAATAAATTAT
Found at i:1729819 original size:2 final size:2
Alignment explanation
Indices: 1729812--1729849 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1729802 CTATAATATT
1729812 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1729850 CCTTACTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Done.