Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 44 of 147
Found at i:8850744 original size:29 final size:28
Alignment explanation
Indices: 8850679--8850744 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
8850669 TTTTTCTTAC
* * *
8850679 ATTTTAAACTTTTTTAGTTTTTAATCTT
1 ATTTTGAACTCTTTTAGCTTTTAATCTT
8850707 ATTTTGAACTCTTTTAGCTTTTAATCTT
1 ATTTTGAACTCTTTTAGCTTTTAATCTT
*
8850735 GTTTTCGAAC
1 ATTTT-GAAC
8850745 AAACTTTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
28 29 0.88
29 4 0.12
ACGTcount: A:0.23, C:0.12, G:0.08, T:0.58
Consensus pattern (28 bp):
ATTTTGAACTCTTTTAGCTTTTAATCTT
Found at i:8856270 original size:13 final size:13
Alignment explanation
Indices: 8856252--8856276 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8856242 ATAATTATAC
8856252 AAAAAATATTTAT
1 AAAAAATATTTAT
8856265 AAAAAATATTTA
1 AAAAAATATTTA
8856277 CAATTCCTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAAAATATTTAT
Found at i:8856396 original size:4 final size:4
Alignment explanation
Indices: 8856387--8856426 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
8856377 AAAATTTTAA
* *
8856387 AAAT AAAT AAAT AAAT AAAT AATAG AAAC AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAA
8856427 CAGAATAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
4 29 0.91
5 3 0.09
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:8856421 original size:17 final size:16
Alignment explanation
Indices: 8856399--8856460 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 16
8856389 ATAAATAAAT
8856399 AAATAAATAATAGAAA
1 AAATAAATAATAGAAA
*
8856415 CAAATAAATAAACAGAATA
1 -AAATAAAT-AATAGAA-A
8856434 AAATAGAA-AATAGAAA
1 AAATA-AATAATAGAAA
8856450 AAATTAAATAA
1 AAA-TAAATAA
8856461 GATAGAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
16 6 0.16
17 18 0.47
18 11 0.29
19 3 0.08
ACGTcount: A:0.73, C:0.03, G:0.06, T:0.18
Consensus pattern (16 bp):
AAATAAATAATAGAAA
Found at i:8859208 original size:22 final size:22
Alignment explanation
Indices: 8859154--8859217 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 22
8859144 ATTTTTTTAG
*
8859154 ATATGTTAAAATTATATTTTTT
1 ATATTTTAAAATTATATTTTTT
* *
8859176 -TAACTTCTAAAATTTTATTTTTT
1 AT-A-TTTTAAAATTATATTTTTT
8859199 ATATTTTAAAATTAT-TTTT
1 ATATTTTAAAATTATATTTT
8859218 ATGATTTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
21 5 0.15
22 11 0.32
23 17 0.50
24 1 0.03
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (22 bp):
ATATTTTAAAATTATATTTTTT
Found at i:8860272 original size:19 final size:20
Alignment explanation
Indices: 8860245--8860284 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
8860235 ATTTTCAAGA
* *
8860245 ATTATAAAAATCTTTTTTTC
1 ATTATAAAAATATTTTCTTC
8860265 ATTA-AAAAATATTTTCTTC
1 ATTATAAAAATATTTTCTTC
8860284 A
1 A
8860285 ATTTATTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTATAAAAATATTTTCTTC
Found at i:8861927 original size:18 final size:18
Alignment explanation
Indices: 8861904--8861938 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8861894 ATATAAAATT
8861904 ATAATAAAATAAAATAAG
1 ATAATAAAATAAAATAAG
**
8861922 ATAATATTATAAAATAA
1 ATAATAAAATAAAATAA
8861939 TATTTGATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
ATAATAAAATAAAATAAG
Found at i:8862009 original size:21 final size:20
Alignment explanation
Indices: 8861963--8862012 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
8861953 AAAAATTATA
*
8861963 ATAAAATAATTTATTTATTG
1 ATAAAATTATTTATTTATTG
* *
8861983 ATTAAAATTATTTTTTTAATTT
1 A-TAAAATTATTTATTT-ATTG
8862005 ATAAAATT
1 ATAAAATT
8862013 TAAATTATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 20 0.80
22 4 0.16
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (20 bp):
ATAAAATTATTTATTTATTG
Found at i:8863866 original size:18 final size:19
Alignment explanation
Indices: 8863840--8863875 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
8863830 ATAAACTTCT
*
8863840 CCCATTTAAACTTAACATC
1 CCCATTTAAACCTAACATC
8863859 CCCA-TTAAACCTAACAT
1 CCCATTTAAACCTAACAT
8863876 AAAATACACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.28
Consensus pattern (19 bp):
CCCATTTAAACCTAACATC
Found at i:8866857 original size:22 final size:22
Alignment explanation
Indices: 8866824--8866874 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
8866814 TTAAAGGTCC
* * *
8866824 ATTTTCTTTTGGATATCCTA-A
1 ATTTTTTTTTGGACATCCCACA
8866845 ATTTTTTTCTTGGACATCCCACA
1 ATTTTTTT-TTGGACATCCCACA
8866868 ATTTTTT
1 ATTTTTT
8866875 ATTTTTTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 7 0.28
22 10 0.40
23 8 0.32
ACGTcount: A:0.22, C:0.18, G:0.08, T:0.53
Consensus pattern (22 bp):
ATTTTTTTTTGGACATCCCACA
Found at i:8867385 original size:43 final size:43
Alignment explanation
Indices: 8867324--8867408 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
8867314 CGACCATGTT
8867324 GGGTTGAAGAGTTACAGACTTACAGTTTTGTATTGAAGCAAAA
1 GGGTTGAAGAGTTACAGACTTACAGTTTTGTATTGAAGCAAAA
8867367 GGGTTGAAGAGTTACAGACTTACAGTTTTGTATTGAAGCAAA
1 GGGTTGAAGAGTTACAGACTTACAGTTTTGTATTGAAGCAAA
8867409 GAGTTTTGAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.31
Consensus pattern (43 bp):
GGGTTGAAGAGTTACAGACTTACAGTTTTGTATTGAAGCAAAA
Found at i:8873869 original size:26 final size:26
Alignment explanation
Indices: 8873817--8873867 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
8873807 TTCATATTTT
*
8873817 TTATCATTTTCTTATTATATTTCAAA
1 TTATCATTTTCTTAATATATTTCAAA
8873843 TTAT-ATTTTCTTAGATAT-TTTCAAA
1 TTATCATTTTCTTA-ATATATTTCAAA
8873868 ATAAGTGTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.31, C:0.10, G:0.02, T:0.57
Consensus pattern (26 bp):
TTATCATTTTCTTAATATATTTCAAA
Found at i:8875198 original size:37 final size:38
Alignment explanation
Indices: 8875139--8875216 Score: 131
Period size: 37 Copynumber: 2.1 Consensus size: 38
8875129 AAGAGAGTCT
*
8875139 TTTTAAGTCTTTTTTATCCTGACAGAAACATGGTTTCG
1 TTTTAAGGCTTTTTTATCCTGACAGAAACATGGTTTCG
*
8875177 TTTTAAGGC-TTTTTATCCTGACAGAAACATGGTTTGG
1 TTTTAAGGCTTTTTTATCCTGACAGAAACATGGTTTCG
8875214 TTT
1 TTT
8875217 GTTAGAAAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
37 30 0.79
38 8 0.21
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.45
Consensus pattern (38 bp):
TTTTAAGGCTTTTTTATCCTGACAGAAACATGGTTTCG
Found at i:8899747 original size:29 final size:29
Alignment explanation
Indices: 8899693--8899748 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
8899683 AATATGGTTA
*
8899693 AAAATTTTAAAAATATATTTTGAATAATT
1 AAAATTTTAAAAATATATATTGAATAATT
*
8899722 AAAATATTTAAAAATATGTATT-AATAA
1 AAAAT-TTTAAAAATATATATTGAATAA
8899749 AATATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (29 bp):
AAAATTTTAAAAATATATATTGAATAATT
Found at i:8900002 original size:29 final size:28
Alignment explanation
Indices: 8899948--8900011 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 28
8899938 AAATTAAGCT
*
8899948 TTAATATTTAAAATTTTAAATATATTTAA
1 TTAATATTTAAAATTATAAATATA-TTAA
*
8899977 TATAATATTT-AAATTATAAATTTATTAA
1 T-TAATATTTAAAATTATAAATATATTAA
8900005 TTAATAT
1 TTAATAT
8900012 GATATTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 6 0.19
28 5 0.16
29 13 0.41
30 8 0.25
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
TTAATATTTAAAATTATAAATATATTAA
Found at i:8900120 original size:29 final size:29
Alignment explanation
Indices: 8900065--8900148 Score: 107
Period size: 29 Copynumber: 2.8 Consensus size: 29
8900055 ATTGAAAATA
8900065 ATATTTTAAATAT-ATATTAATTAATAAATTT
1 ATATTTTAAATATGATATT-A--AATAAATTT
*
8900096 ATATTTTAAATATGATATTAAATAATTTT
1 ATATTTTAAATATGATATTAAATAAATTT
* *
8900125 AAATTTTAAATATGAAATTAAATA
1 ATATTTTAAATATGATATTAAATA
8900149 TTTTGTTATA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
29 30 0.61
31 14 0.29
32 5 0.10
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (29 bp):
ATATTTTAAATATGATATTAAATAAATTT
Found at i:8900138 original size:84 final size:83
Alignment explanation
Indices: 8899948--8900139 Score: 187
Period size: 84 Copynumber: 2.3 Consensus size: 83
8899938 AAATTAAGCT
* * * *
8899948 TTAATATTTAAAATTTTAAATAT-ATTTAATATAATATTTAAATTATAAATTTATTAATTAATAT
1 TTAAT-TTT-AAATTTTAAATATGATTGAAAATAATATTTAAATTATAAATTAATTAATAAATAT
**
8900012 GATATTTATTTTTATTATAA
64 GATATTTATTGATATTATAA
** *
8900032 TTAATTTTAAATAATAATATATGATTGAAAATAATATTTTAAA-TATATATTAATTAATAAAT-T
1 TTAATTTTAAATTTTAA-ATATGATTGAAAATAATA-TTTAAATTATAAATTAATTAATAAATAT
*
8900095 TATATTTTAAATATGATATTA-AA
64 GATA-TTT--AT-TGATATTATAA
8900118 -TAATTTTAAATTTTAAATATGA
1 TTAATTTTAAATTTTAAATATGA
8900140 AATTAAATAT
Statistics
Matches: 89, Mismatches: 12, Indels: 14
0.77 0.10 0.12
Matches are distributed among these distances:
82 7 0.08
83 11 0.12
84 41 0.46
85 20 0.22
86 4 0.04
87 6 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (83 bp):
TTAATTTTAAATTTTAAATATGATTGAAAATAATATTTAAATTATAAATTAATTAATAAATATGA
TATTTATTGATATTATAA
Found at i:8900612 original size:6 final size:6
Alignment explanation
Indices: 8900601--8900629 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
8900591 CCAACTATTT
8900601 GAGAAG GAGAAG GAGAAG GAGAAG GAGAA
1 GAGAAG GAGAAG GAGAAG GAGAAG GAGAA
8900630 TCTAACCCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (6 bp):
GAGAAG
Found at i:8908487 original size:5 final size:5
Alignment explanation
Indices: 8908477--8908507 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
8908467 TTATATATAT
8908477 AAATA AAATA AAATA AAATA AAATA AAATA A
1 AAATA AAATA AAATA AAATA AAATA AAATA A
8908508 TTTTATTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:8909377 original size:20 final size:20
Alignment explanation
Indices: 8909352--8909397 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
8909342 ATTTAGTAAC
*
8909352 ATTTATAA-ATGTTATTAAAA
1 ATTTATAATAT-TTATAAAAA
*
8909372 ATTTATAATATTTGTAAAAA
1 ATTTATAATATTTATAAAAA
8909392 ATTTAT
1 ATTTAT
8909398 TAAAAGTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (20 bp):
ATTTATAATATTTATAAAAA
Found at i:8909955 original size:24 final size:24
Alignment explanation
Indices: 8909921--8909972 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
8909911 ATTTGAAATT
**
8909921 TAAAATATAATATAATGATATAATA
1 TAAAATATAATATAAAAATAT-ATA
8909946 TAAAAT-TAATATAAAAATATATA
1 TAAAATATAATATAAAAATATATA
8909969 TAAA
1 TAAA
8909973 TAATACAGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 7 0.28
24 12 0.48
25 6 0.24
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (24 bp):
TAAAATATAATATAAAAATATATA
Found at i:8909957 original size:11 final size:11
Alignment explanation
Indices: 8909921--8910025 Score: 52
Period size: 12 Copynumber: 8.8 Consensus size: 11
8909911 ATTTGAAATT
8909921 TAAAATATAATA
1 TAAAAT-TAATA
*
8909933 TAATGATATAATA
1 TAA-AAT-TAATA
8909946 TAAAATTAATA
1 TAAAATTAATA
*
8909957 TAAAAATATATA
1 TAAAATTA-ATA
* *
8909969 TAAATAATACAGA
1 TAAA-ATTA-ATA
8909982 TTAAAATTTTAATA
1 -TAAAA--TTAATA
*
8909996 -AAAATCATATA
1 TAAAATTA-ATA
*
8910007 TAAATTTAATA
1 TAAAATTAATA
8910018 -AAAATTAA
1 TAAAATTAA
8910026 AAATATATAT
Statistics
Matches: 74, Mismatches: 11, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
10 9 0.12
11 18 0.24
12 21 0.28
13 18 0.24
14 6 0.08
15 2 0.03
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (11 bp):
TAAAATTAATA
Found at i:8915607 original size:22 final size:23
Alignment explanation
Indices: 8915543--8915607 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 23
8915533 ATATTTTTTA
* *
8915543 TTATTATCAAATTTGTATATAATTT
1 TTATTATC-ACTTTATATAT-ATTT
* *
8915568 TTATTATTATTTTA-ATATATTT
1 TTATTATCACTTTATATATATTT
8915590 TTA-TATCACTTTATATAT
1 TTATTATCACTTTATATAT
8915608 CATATTTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
21 8 0.24
22 11 0.32
23 4 0.12
24 4 0.12
25 7 0.21
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.60
Consensus pattern (23 bp):
TTATTATCACTTTATATATATTT
Found at i:8918414 original size:22 final size:22
Alignment explanation
Indices: 8918388--8918431 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
8918378 TGCTTATACA
8918388 TAATAACAT-TTTAATT-TTTATT
1 TAATAA-ATATTT-ATTATTTATT
8918410 TAATAAATATTTATTATTTATT
1 TAATAAATATTTATTATTTATT
8918432 ATTATTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (22 bp):
TAATAAATATTTATTATTTATT
Found at i:8920570 original size:27 final size:27
Alignment explanation
Indices: 8920516--8920571 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
8920506 ATATTATTTT
* *
8920516 ATTAATAAATAAATATTAATTTTTAAA
1 ATTAATAAATAAAAATTAATTTTAAAA
* *
8920543 ATTAATATATAAAAAATTAATTTAAAAA
1 ATTAATAAAT-AAAAATTAATTTTAAAA
8920571 A
1 A
8920572 AAATTTACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 9 0.38
28 15 0.62
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (27 bp):
ATTAATAAATAAAAATTAATTTTAAAA
Found at i:8920572 original size:15 final size:15
Alignment explanation
Indices: 8920540--8920573 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8920530 ATTAATTTTT
*
8920540 AAAATTAATATATAA
1 AAAATTAATATAAAA
*
8920555 AAAATTAATTTAAAA
1 AAAATTAATATAAAA
8920570 AAAA
1 AAAA
8920574 ATTTACTTAT
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:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAATTAATATAAAA
Found at i:8920899 original size:11 final size:11
Alignment explanation
Indices: 8920869--8920899 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
8920859 TTATTTAAAA
8920869 AATTATTTTTT
1 AATTATTTTTT
8920880 AATTAATTTTTT
1 AATT-ATTTTTT
8920892 AATTATTT
1 AATTATTT
8920900 ATATATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
AATTATTTTTT
Found at i:8920941 original size:30 final size:30
Alignment explanation
Indices: 8920900--8920958 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
8920890 TTAATTATTT
* * *
8920900 ATATATATATTTATATAATGATATTTTTAA
1 ATATATATATTTAAAAAATAATATTTTTAA
*
8920930 ATATTTATATTTAAAAAATAATATTTTTA
1 ATATATATATTTAAAAAATAATATTTTTA
8920959 TTGATTTCGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (30 bp):
ATATATATATTTAAAAAATAATATTTTTAA
Found at i:8928718 original size:2 final size:2
Alignment explanation
Indices: 8928711--8928744 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
8928701 GAATAGAGTA
8928711 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
8928745 CCAAGCTATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8939229 original size:2 final size:2
Alignment explanation
Indices: 8939222--8939250 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8939212 AAATAAATAA
8939222 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
8939251 AACAAAGAGG
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:8939761 original size:16 final size:17
Alignment explanation
Indices: 8939715--8939754 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
8939705 ATAAAAATAA
8939715 TTATTTTATATATAAAT
1 TTATTTTATATATAAAT
8939732 TTATTTTATATATAAAT
1 TTATTTTATATATAAAT
8939749 TTATTT
1 TTATTT
8939755 AAATATATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTATTTTATATATAAAT
Found at i:8939780 original size:22 final size:22
Alignment explanation
Indices: 8939739--8939790 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
8939729 AATTTATTTT
* *
8939739 ATATATAAA-TTTATTTAAAT-
1 ATATAAAAATTTTATTAAAATA
8939759 ATATTAAAAATTTTATTAAAATA
1 ATA-TAAAAATTTTATTAAAATA
8939782 ATATAAAAA
1 ATATAAAAA
8939791 GTTAAAAACC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 3 0.11
21 5 0.19
22 16 0.59
23 3 0.11
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
ATATAAAAATTTTATTAAAATA
Found at i:8940283 original size:16 final size:16
Alignment explanation
Indices: 8940262--8940294 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
8940252 AAAATTTTAA
8940262 TTTTTAGTTTTAATTT
1 TTTTTAGTTTTAATTT
8940278 TTTTTAGTTTTAATTT
1 TTTTTAGTTTTAATTT
8940294 T
1 T
8940295 AGTCCTAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (16 bp):
TTTTTAGTTTTAATTT
Found at i:8942092 original size:18 final size:17
Alignment explanation
Indices: 8942060--8942107 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
8942050 ATGATGAGAC
8942060 ATTTATTTTGCTTGTAA
1 ATTTATTTTGCTTGTAA
* *
8942077 ATTTATTTTTCTTTGTAT
1 ATTTATTTTGC-TTGTAA
8942095 ATATTA-TTTGCTT
1 AT-TTATTTTGCTT
8942108 ACTAACCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 12 0.46
18 11 0.42
19 3 0.12
ACGTcount: A:0.21, C:0.06, G:0.08, T:0.65
Consensus pattern (17 bp):
ATTTATTTTGCTTGTAA
Found at i:8942577 original size:13 final size:14
Alignment explanation
Indices: 8942559--8942587 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8942549 TGTTTTTATT
8942559 TATGTA-TTGCATA
1 TATGTATTTGCATA
8942572 TATGTATTTGCATA
1 TATGTATTTGCATA
8942586 TA
1 TA
8942588 GATCCGTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (14 bp):
TATGTATTTGCATA
Found at i:8942621 original size:133 final size:128
Alignment explanation
Indices: 8942461--8942708 Score: 354
Period size: 133 Copynumber: 1.9 Consensus size: 128
8942451 CATACATGTA
* * *
8942461 TGTAAACATGTTTGTATATACATTATTTTATTTGTTTGAAAAAATTTTTGCCT-TTTCAATTTTG
1 TGTAAACATCTTTGTATATACATTATTTCATTTGTTTGAAAAAATCTTTG-CTGTTTCAATTTTG
* *
8942525 TACATAGTTTTGGATATGAATTTTTGTTTTTATTTATGTATTGCATATATGTATTTGCATATAGA
65 TACATAGTTTT-GA-AT--ATTCTTGTTATTA-TTATGTATTGCATATATGTATTTGCATATAGA
8942590 TCCG
125 TCCG
* * * *
8942594 TGTAAACATCTTTGTATGTTCGTTATTTCATTTGTTTGGAAAAATCTTTGCTGTTTCAATTTTGT
1 TGTAAACATCTTTGTATATACATTATTTCATTTGTTTGAAAAAATCTTTGCTGTTTCAATTTTGT
8942659 ACATAGTTTTGAATATTCTTGTTATTATTATGTATTGCATATATGTATTT
66 ACATAGTTTTGAATATTCTTGTTATTATTATGTATTGCATATATGTATTT
8942709 ACATGTGTAT
Statistics
Matches: 105, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
128 23 0.22
129 11 0.10
131 2 0.02
132 4 0.04
133 65 0.62
ACGTcount: A:0.26, C:0.08, G:0.14, T:0.52
Consensus pattern (128 bp):
TGTAAACATCTTTGTATATACATTATTTCATTTGTTTGAAAAAATCTTTGCTGTTTCAATTTTGT
ACATAGTTTTGAATATTCTTGTTATTATTATGTATTGCATATATGTATTTGCATATAGATCCG
Found at i:8945522 original size:47 final size:47
Alignment explanation
Indices: 8945399--8945525 Score: 163
Period size: 46 Copynumber: 2.7 Consensus size: 47
8945389 TAAATGAGTT
*
8945399 TTTTTTCGAATGAGAATCTTTGAAATTTTGGATGTGAATCTACAAAA
1 TTTTTTCGAATGAGAATCTTTGAAATTTTGGATGAGAATCTACAAAA
* *
8945446 TTTCTT-GAATGCAAAAT-TTTG-AATCTTTGGATGAGAATCTTA-AAAA
1 TTTTTTCGAATG-AGAATCTTTGAAAT-TTTGGATGAGAATC-TACAAAA
*
8945492 TTTTTTCGAATGTGAATCTTTGAAATTTTGGATG
1 TTTTTTCGAATGAGAATCTTTGAAATTTTGGATG
8945526 TGAAGCCATA
Statistics
Matches: 68, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
45 3 0.04
46 34 0.50
47 28 0.41
48 3 0.04
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (47 bp):
TTTTTTCGAATGAGAATCTTTGAAATTTTGGATGAGAATCTACAAAA
Found at i:8945543 original size:47 final size:46
Alignment explanation
Indices: 8945399--8945543 Score: 143
Period size: 47 Copynumber: 3.1 Consensus size: 46
8945389 TAAATGAGTT
* *
8945399 TTTTTTCGAATGAGAATCTTTGAAATTTTGGATGTGAATCTACAAAA
1 TTTTTTCGAATGAGAATCTTTGAAATTTTGGATGTGAA-CCATAAAA
* * * * *
8945446 TTTCTT-GAATGCAAAAT-TTTG-AATCTTTGGATGAGAATCTTAAAAA
1 TTTTTTCGAATG-AGAATCTTTGAAAT-TTTGGATGTGAACCAT-AAAA
* *
8945492 TTTTTTCGAATGTGAATCTTTGAAATTTTGGATGTGAAGCCATAAAG
1 TTTTTTCGAATGAGAATCTTTGAAATTTTGGATGTGAA-CCATAAAA
8945539 TTTTT
1 TTTTT
8945544 AAAAAAGAAC
Statistics
Matches: 77, Mismatches: 14, Indels: 14
0.73 0.13 0.13
Matches are distributed among these distances:
45 3 0.04
46 32 0.42
47 37 0.48
48 5 0.06
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.42
Consensus pattern (46 bp):
TTTTTTCGAATGAGAATCTTTGAAATTTTGGATGTGAACCATAAAA
Found at i:8946078 original size:17 final size:18
Alignment explanation
Indices: 8946067--8946100 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8946057 TGAATCTTTA
8946067 ATTCTTACGAATCTAAAC
1 ATTCTTACGAATCTAAAC
8946085 ATTCTTACGAAT-TAAA
1 ATTCTTACGAATCTAAA
8946101 AAATCTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (18 bp):
ATTCTTACGAATCTAAAC
Found at i:8946107 original size:17 final size:18
Alignment explanation
Indices: 8946069--8946107 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
8946059 AATCTTTAAT
* *
8946069 TCTTACGAATCTAAACAT
1 TCTTACGAATCTAAAAAA
8946087 TCTTACGAAT-TAAAAAA
1 TCTTACGAATCTAAAAAA
8946104 TCTT
1 TCTT
8946108 TGTGAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (18 bp):
TCTTACGAATCTAAAAAA
Found at i:8946120 original size:17 final size:18
Alignment explanation
Indices: 8946100--8946174 Score: 59
Period size: 17 Copynumber: 4.3 Consensus size: 18
8946090 TACGAATTAA
8946100 AAAATCTTTGTGAAAT-T
1 AAAATCTTTGTGAAATCT
*
8946117 AAAACCTTTGTGAAA-CTT
1 AAAATCTTTGTGAAATC-T
*
8946135 GAAATC-TTGTG-AATCT
1 AAAATCTTTGTGAAATCT
* ** *
8946151 AGAATCTTTGCAAAATGT
1 AAAATCTTTGTGAAATCT
8946169 AAAATC
1 AAAATC
8946175 CTTTCGAATA
Statistics
Matches: 44, Mismatches: 9, Indels: 9
0.71 0.15 0.15
Matches are distributed among these distances:
16 7 0.16
17 23 0.52
18 14 0.32
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (18 bp):
AAAATCTTTGTGAAATCT
Found at i:8946311 original size:18 final size:17
Alignment explanation
Indices: 8946288--8946352 Score: 62
Period size: 18 Copynumber: 3.7 Consensus size: 17
8946278 TTTACAAACT
8946288 TTTGAAATCTTTGCAAAA
1 TTTGAAATCTTTGC-AAA
*
8946306 TTTGAAAT-TCTTACAAA
1 TTTGAAATCT-TTGCAAA
*
8946323 TTTGAAAATCTTTGCGAA
1 TTTG-AAATCTTTGCAAA
8946341 TCTTG-AATCTTT
1 T-TTGAAATCTTT
8946353 TACTAATCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
17 15 0.38
18 21 0.52
19 4 0.10
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.43
Consensus pattern (17 bp):
TTTGAAATCTTTGCAAA
Found at i:8950007 original size:3 final size:3
Alignment explanation
Indices: 8949999--8950048 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
8949989 GTCCAACCAA
8949999 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8950047 TA
1 TA
8950049 ATTTAATTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:8950771 original size:13 final size:13
Alignment explanation
Indices: 8950755--8950779 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8950745 TTTTCATTTT
8950755 ATTTTCTATTTAC
1 ATTTTCTATTTAC
8950768 ATTTTCTATTTA
1 ATTTTCTATTTA
8950780 TGTTATTTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTTTCTATTTAC
Found at i:8950822 original size:17 final size:16
Alignment explanation
Indices: 8950740--8950825 Score: 50
Period size: 17 Copynumber: 5.2 Consensus size: 16
8950730 TGGTCACATG
*
8950740 TTTTTTTTTCATTTTA
1 TTTTATTTTCATTTTA
* *
8950756 TTTTCTATTTACATTTTC
1 -TTT-TATTTTCATTTTA
* *
8950774 TATTTATGTT-A-TTTC
1 T-TTTATTTTCATTTTA
* *
8950789 TTATATTTTCTTATTTA
1 TTTTATTTTCAT-TTTA
8950806 TTTTATATTTCATTTTA
1 TTTTAT-TTTCATTTTA
8950823 TTT
1 TTT
8950826 GTTTTATTCT
Statistics
Matches: 52, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
14 6 0.12
15 5 0.10
16 1 0.02
17 23 0.44
18 17 0.33
ACGTcount: A:0.19, C:0.08, G:0.01, T:0.72
Consensus pattern (16 bp):
TTTTATTTTCATTTTA
Found at i:8950956 original size:8 final size:9
Alignment explanation
Indices: 8950935--8950959 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
8950925 TATTTTTTAA
8950935 AAAAATAAT
1 AAAAATAAT
8950944 AAAAATAAT
1 AAAAATAAT
8950953 AAAAATA
1 AAAAATA
8950960 TTTCTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
AAAAATAAT
Found at i:8951191 original size:14 final size:16
Alignment explanation
Indices: 8951172--8951203 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
8951162 AAGATTTAAT
8951172 ATAATTTT-TAA-AAA
1 ATAATTTTATAATAAA
8951186 ATAATTTTATAATAAA
1 ATAATTTTATAATAAA
8951202 AT
1 AT
8951204 CTCATCAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAATTTTATAATAAA
Found at i:8952099 original size:68 final size:69
Alignment explanation
Indices: 8951981--8952131 Score: 173
Period size: 68 Copynumber: 2.2 Consensus size: 69
8951971 AATTGGATCA
* * * * *
8951981 AAAGCTATAGCCAATACATTAATAAAAAGAAAAAGTTAGGTTAGAAATTATA-GATTATTATTTG
1 AAAGTTATAGCCAATACATCAATAAAAAGAAAAACTTAGGTTAGAAATTATATAATTATAATTTG
8952045 -GCC
66 AGCC
** *
8952048 TAAAGTTATAGCCAATAGGTCAATAAAAAGAAAAACTTTGGTTA-AAGATTATATTAATTATAAT
1 -AAAGTTATAGCCAATACATCAATAAAAAGAAAAACTTAGGTTAGAA-ATTATA-TAATTATAAT
8952112 TTGAGCC
63 TTGAGCC
8952119 AAAGGTTATAGCC
1 AAA-GTTATAGCC
8952132 TAAAATAAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
67 2 0.03
68 43 0.61
70 13 0.19
71 12 0.17
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.30
Consensus pattern (69 bp):
AAAGTTATAGCCAATACATCAATAAAAAGAAAAACTTAGGTTAGAAATTATATAATTATAATTTG
AGCC
Found at i:8956915 original size:77 final size:76
Alignment explanation
Indices: 8956834--8956983 Score: 189
Period size: 76 Copynumber: 2.0 Consensus size: 76
8956824 AAAGTTATAT
* * *
8956834 CCAATAGGTTA-GTAAAAAAAAAAAAGTTAGGCCAAA-TGCTATGAGTTATACATTAATATTTAG
1 CCAATAGG-TAGGT-AAAAAAAAAAAGTTAAGCCAAAGT-CTATAAGTTATAAATTAATATTTAG
8956897 G-CAAAAGGCTACAA
63 GTC-AAAGGCTACAA
* * *
8956911 CCAATTGGTAGGTAAGAAAAAAAAGTTAAGCCAAAGTCTATAAGTTATAAATTAGTATTTAGGTC
1 CCAATAGGTAGGTAAAAAAAAAAAGTTAAGCCAAAGTCTATAAGTTATAAATTAATATTTAGGTC
8956976 AAAGGCTA
66 AAAGGCTA
8956984 TAGTCATTAA
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
76 53 0.83
77 11 0.17
ACGTcount: A:0.45, C:0.11, G:0.18, T:0.26
Consensus pattern (76 bp):
CCAATAGGTAGGTAAAAAAAAAAAGTTAAGCCAAAGTCTATAAGTTATAAATTAATATTTAGGTC
AAAGGCTACAA
Found at i:8962418 original size:72 final size:70
Alignment explanation
Indices: 8962244--8962418 Score: 154
Period size: 73 Copynumber: 2.4 Consensus size: 70
8962234 TAATAATAGC
* * * * *
8962244 AAAAAATTGGACCAAAAGTTATAGGCTACAAGTTAGTATTTGGACATAAGTTAAACTAATAGATT
1 AAAAAATTGGGCC-AAAGCTATAGGCTATAAGTTAATATTTAGACATAAGTTAAACTAATAGATT
8962309 AATAACAA
65 AAT-A-AA
** * ** * * * *
8962317 AAAAAAGTTAAGTCAAAGCTATAAACTATAGGTTAATATTTAGAGATAAAGTTATAGCTAATATA
1 AAAAAA-TTGGGCCAAAGCTATAGGCTATAAGTTAATATTTAGACAT-AAGTTA-AACTAATAGA
8962382 TTAAT-AA
63 TTAATAAA
8962389 AAAAAATTGGGCCAATAGCTATAGGCTATA
1 AAAAAATTGGGCCAA-AGCTATAGGCTATA
8962419 TGTTGTTATT
Statistics
Matches: 79, Mismatches: 19, Indels: 9
0.74 0.18 0.08
Matches are distributed among these distances:
71 6 0.08
72 20 0.25
73 31 0.39
74 9 0.11
75 13 0.16
ACGTcount: A:0.48, C:0.09, G:0.15, T:0.29
Consensus pattern (70 bp):
AAAAAATTGGGCCAAAGCTATAGGCTATAAGTTAATATTTAGACATAAGTTAAACTAATAGATTA
ATAAA
Found at i:8963112 original size:72 final size:72
Alignment explanation
Indices: 8963016--8963153 Score: 165
Period size: 72 Copynumber: 1.9 Consensus size: 72
8963006 AAGAATTGGC
* * * * * *
8963016 CAAAAGCTATAGGTTATAATTTAGTGTTTGGGC-CAAAGACTATAG-CAAATAGGTTAATAAAAA
1 CAAAAGCTATAAGCTATAATTTAGTATTTAGACTCAAAG-CTATAGTC-AATAGGTGAATAAAAA
8963079 AAATTAAGT
64 AAATTAAGT
*
8963088 CAAAAGCTATAAGCTA-AAGTTTAGTATTTAGACTGAAAGCTATAGTCAATAGGTGAATAAAAAA
1 CAAAAGCTATAAGCTATAA-TTTAGTATTTAGACTCAAAGCTATAGTCAATAGGTGAATAAAAAA
8963152 AA
65 AA
8963154 AGTTGGACGA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
71 2 0.04
72 49 0.88
73 5 0.09
ACGTcount: A:0.46, C:0.09, G:0.17, T:0.28
Consensus pattern (72 bp):
CAAAAGCTATAAGCTATAATTTAGTATTTAGACTCAAAGCTATAGTCAATAGGTGAATAAAAAAA
ATTAAGT
Found at i:8963691 original size:17 final size:18
Alignment explanation
Indices: 8963663--8963698 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
8963653 ATCTATAGGT
8963663 TAATTAAAAAAAATTGGC
1 TAATTAAAAAAAATTGGC
8963681 TAATT-AAAAAAATTGGC
1 TAATTAAAAAAAATTGGC
8963698 T
1 T
8963699 TAAATATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.53, C:0.06, G:0.11, T:0.31
Consensus pattern (18 bp):
TAATTAAAAAAAATTGGC
Found at i:8966696 original size:16 final size:15
Alignment explanation
Indices: 8966665--8966698 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
8966655 GATTTTTTAT
8966665 AATTAAATTAATTTG
1 AATTAAATTAATTTG
*
8966680 AATTAAATTTGATTTG
1 AATTAAA-TTAATTTG
8966696 AAT
1 AAT
8966699 GAATTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (15 bp):
AATTAAATTAATTTG
Found at i:8967099 original size:21 final size:23
Alignment explanation
Indices: 8967075--8967126 Score: 81
Period size: 21 Copynumber: 2.3 Consensus size: 23
8967065 TTCGAAATTA
8967075 ATAAAATATTATTTT-TA-AAAT
1 ATAAAATATTATTTTATATAAAT
8967096 ATAAAATATTATTTTAATATAAAT
1 ATAAAATATTATTTT-ATATAAAT
8967120 ATAAAAT
1 ATAAAAT
8967127 TAAATAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.54
23 2 0.07
24 11 0.39
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
ATAAAATATTATTTTATATAAAT
Found at i:8967122 original size:6 final size:6
Alignment explanation
Indices: 8967111--8967148 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
8967101 ATATTATTTT
8967111 AATATA AATATA AA-ATTA AATA-A AATATA AATATA AAT
1 AATATA AATATA AATA-TA AATATA AATATA AATATA AAT
8967149 TAGATAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 6 0.21
6 22 0.76
7 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AATATA
Found at i:8967141 original size:23 final size:22
Alignment explanation
Indices: 8967111--8967156 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
8967101 ATATTATTTT
8967111 AATATAAATATAAAATTAAATAA
1 AATATAAATAT-AAATTAAATAA
*
8967134 AATATAAATATAAATTAGATAA
1 AATATAAATATAAATTAAATAA
8967156 A
1 A
8967157 TAATTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (22 bp):
AATATAAATATAAATTAAATAA
Found at i:8967164 original size:23 final size:24
Alignment explanation
Indices: 8967110--8967164 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
8967100 AATATTATTT
8967110 TAATATAAATATAAAATTAAATAA
1 TAATATAAATATAAAATTAAATAA
*
8967134 -AATATAAATAT-AAATTAGATAAA
1 TAATATAAATATAAAATTAAAT-AA
8967157 TAAT-TAAA
1 TAATATAAA
8967165 AAATAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 8 0.29
23 17 0.61
24 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
TAATATAAATATAAAATTAAATAA
Found at i:8967380 original size:1 final size:1
Alignment explanation
Indices: 8967376--8967405 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
8967366 TCTTGACTGG
8967376 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
8967406 GGAGTTAACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:8972598 original size:18 final size:18
Alignment explanation
Indices: 8972575--8972615 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
8972565 TCAAATTGAA
*
8972575 TTATATATATTTTAATTT
1 TTATATATATTTTAAATT
8972593 TTATATATATTTTAAATT
1 TTATATATATTTTAAATT
8972611 TTATA
1 TTATA
8972616 AAATAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTATATATATTTTAAATT
Found at i:8972698 original size:33 final size:33
Alignment explanation
Indices: 8972630--8972696 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
8972620 AAAAAAAAAT
* **
8972630 AATTTTATATTAAAATTTATTTAAACATATTAA
1 AATTTTATATTAAAATATACATAAACATATTAA
8972663 AATTTTATATTAAAATAATACATAAA-A-ATTAA
1 AATTTTATATTAAAAT-ATACATAAACATATTAA
8972695 AA
1 AA
8972697 ATCGATAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
32 7 0.23
33 17 0.57
34 6 0.20
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (33 bp):
AATTTTATATTAAAATATACATAAACATATTAA
Found at i:8973711 original size:17 final size:17
Alignment explanation
Indices: 8973689--8973721 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
8973679 AAAAACATTG
8973689 TTCAAGACAAGGATAAT
1 TTCAAGACAAGGATAAT
8973706 TTCAAGACAAGGATAA
1 TTCAAGACAAGGATAA
8973722 ACCGAGGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.21
Consensus pattern (17 bp):
TTCAAGACAAGGATAAT
Found at i:8976224 original size:1 final size:1
Alignment explanation
Indices: 8976218--8976248 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
8976208 AGGAAGACAG
8976218 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
8976249 CCCATTTCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:8979285 original size:41 final size:41
Alignment explanation
Indices: 8979218--8979295 Score: 99
Period size: 41 Copynumber: 1.9 Consensus size: 41
8979208 TTTAATATTT
8979218 TAATTAAGATATTAACTTGATAAAAA-TAATATATTTAAGAA
1 TAATTAAGATATTAACTTGATAAAAATTAATA-ATTTAAGAA
*
8979259 TAATTAAGATA-TAA-TTTATATTAAAATTAATAATTTA
1 TAATTAAGATATTAACTTGATA--AAAATTAATAATTTA
8979296 TTAAATTAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
39 5 0.15
40 3 0.09
41 20 0.61
42 5 0.15
ACGTcount: A:0.53, C:0.01, G:0.05, T:0.41
Consensus pattern (41 bp):
TAATTAAGATATTAACTTGATAAAAATTAATAATTTAAGAA
Found at i:8980003 original size:3 final size:3
Alignment explanation
Indices: 8979995--8980061 Score: 52
Period size: 3 Copynumber: 23.0 Consensus size: 3
8979985 TACTATATCA
* * *
8979995 TAT TAT TAT TAT ATGT TA- TAT TA- CAT TAC TAT TA- TAT TA- TAT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
8980037 TAG TAT ATAT TAT TAT TAT TAT TAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT
8980062 GTGTTTATTC
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
2 7 0.14
3 38 0.76
4 5 0.10
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:8980007 original size:16 final size:16
Alignment explanation
Indices: 8979982--8980061 Score: 67
Period size: 16 Copynumber: 4.9 Consensus size: 16
8979972 ATTATTTTTG
* *
8979982 TATTACTATATCATAT
1 TATTATTATATTATAT
8979998 TATTATTATATGTTATAT
1 TATTATTATA--TTATAT
*
8980016 TA-CATTACTATTATAT
1 TATTATTA-TATTATAT
8980032 TA-TATTAGTA-TATAT
1 TATTATTA-TATTATAT
8980047 TATTATTATTATTAT
1 TATTATTA-TATTAT
8980062 GTGTTTATTC
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
15 7 0.13
16 30 0.57
17 7 0.13
18 9 0.17
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (16 bp):
TATTATTATATTATAT
Found at i:8980022 original size:23 final size:22
Alignment explanation
Indices: 8979996--8980058 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 22
8979986 ACTATATCAT
8979996 ATTATTATTATATGTTATATTA-C
1 ATTATTATTATA--TTATATTAGC
* *
8980019 ATTACTATTATATTATATTAGT
1 ATTATTATTATATTATATTAGC
8980041 ATATATTATTATTATTAT
1 AT-TATTATTA-TATTAT
8980059 TATGTGTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 8 0.24
22 2 0.06
23 18 0.53
24 6 0.18
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (22 bp):
ATTATTATTATATTATATTAGC
Found at i:8980446 original size:20 final size:19
Alignment explanation
Indices: 8980423--8980470 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
8980413 TTGGGAATTC
8980423 TGGGTTTGATTTGAAGTTTT
1 TGGGTTTGATTTG-AGTTTT
* *
8980443 TGGGTTAGATTTGGGTTTT
1 TGGGTTTGATTTGAGTTTT
8980462 TGGGGTTTG
1 T-GGGTTTG
8980471 GATTAGGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.10, C:0.00, G:0.38, T:0.52
Consensus pattern (19 bp):
TGGGTTTGATTTGAGTTTT
Found at i:8980462 original size:19 final size:20
Alignment explanation
Indices: 8980423--8980465 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
8980413 TTGGGAATTC
*
8980423 TGGGTTTGATTTGAAGTTTT
1 TGGGTTAGATTTGAAGTTTT
*
8980443 TGGGTTAGATTTG-GGTTTT
1 TGGGTTAGATTTGAAGTTTT
8980462 TGGG
1 TGGG
8980466 GTTTGGATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.12, C:0.00, G:0.37, T:0.51
Consensus pattern (20 bp):
TGGGTTAGATTTGAAGTTTT
Found at i:8980891 original size:13 final size:13
Alignment explanation
Indices: 8980875--8980929 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
8980865 CTTTTTTTCA
*
8980875 TTTTCATTTTATT
1 TTTTAATTTTATT
8980888 TTTTAATTTTATT
1 TTTTAATTTTATT
* *
8980901 TTTT-ATCTCATT
1 TTTTAATTTTATT
8980913 GTTTTAAGTTTTATT
1 -TTTTAA-TTTTATT
8980928 TT
1 TT
8980930 ATTTTTTTGG
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
12 6 0.18
13 20 0.59
14 3 0.09
15 5 0.15
ACGTcount: A:0.18, C:0.05, G:0.04, T:0.73
Consensus pattern (13 bp):
TTTTAATTTTATT
Found at i:8980903 original size:19 final size:19
Alignment explanation
Indices: 8980867--8980902 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
8980857 AAGTTTCCCT
*
8980867 TTTTTTCATTTTCATTTTA
1 TTTTTTAATTTTCATTTTA
8980886 TTTTTTAATTTT-ATTTT
1 TTTTTTAATTTTCATTTT
8980903 TTATCTCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTTAATTTTCATTTTA
Found at i:8980936 original size:12 final size:12
Alignment explanation
Indices: 8980875--8980964 Score: 58
Period size: 12 Copynumber: 7.2 Consensus size: 12
8980865 CTTTTTTTCA
*
8980875 TTTTCATTTTAT
1 TTTTTATTTTAT
8980887 TTTTTAATTTTAT
1 TTTTT-ATTTTAT
* *
8980900 TTTTTATCTCAT
1 TTTTTATTTTAT
8980912 TGTTTTAAGTTTTAT
1 T-TTTT-A-TTTTAT
* **
8980927 TTTATTTTTTTGG
1 TTT-TTATTTTAT
8980940 TTTTTA-TTTAT
1 TTTTTATTTTAT
8980951 TTATTTA-TTTAT
1 TT-TTTATTTTAT
8980963 TT
1 TT
8980965 ACATTGAGTA
Statistics
Matches: 61, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
11 5 0.08
12 23 0.38
13 23 0.38
14 3 0.05
15 7 0.11
ACGTcount: A:0.18, C:0.03, G:0.04, T:0.74
Consensus pattern (12 bp):
TTTTTATTTTAT
Found at i:8981039 original size:12 final size:12
Alignment explanation
Indices: 8981013--8981045 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
8981003 TCTTTTTGGA
8981013 AAAT-AAAAAAT
1 AAATAAAAAAAT
8981024 -AATAAAAAAAT
1 AAATAAAAAAAT
8981035 AAATAAAAAAA
1 AAATAAAAAAA
8981046 CTTTTCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 3 0.15
11 7 0.35
12 10 0.50
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AAATAAAAAAAT
Found at i:8981886 original size:4 final size:4
Alignment explanation
Indices: 8981870--8981904 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
8981860 TACTACTTTA
*
8981870 TATT TACT TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TATT TATT TAT
8981905 CGTATATATC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (4 bp):
TATT
Found at i:8985689 original size:17 final size:16
Alignment explanation
Indices: 8985669--8985707 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
8985659 ACAAAAAGGC
8985669 AAAAAAATAAAAAATAA
1 AAAAAAATAAAAAA-AA
**
8985686 AAAAAGGTAAAAAAAA
1 AAAAAAATAAAAAAAA
8985702 AAAAAA
1 AAAAAA
8985708 GAGAAAAATG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.87, C:0.00, G:0.05, T:0.08
Consensus pattern (16 bp):
AAAAAAATAAAAAAAA
Found at i:8985714 original size:25 final size:25
Alignment explanation
Indices: 8985661--8985715 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
8985651 AGGTGTCAAC
* *
8985661 AAAAAGGCAAAAAAATAAAAAATAA
1 AAAAAGGCAAAAAAAAAAAAAAGAA
* *
8985686 AAAAAGGTAAAAAAAAAAAAAAGAG
1 AAAAAGGCAAAAAAAAAAAAAAGAA
8985711 AAAAA
1 AAAAA
8985716 TGAAGACTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.82, C:0.02, G:0.11, T:0.05
Consensus pattern (25 bp):
AAAAAGGCAAAAAAAAAAAAAAGAA
Found at i:8985715 original size:17 final size:17
Alignment explanation
Indices: 8985676--8985708 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8985666 GGCAAAAAAA
*
8985676 TAAAAAATAAAAAAAGG
1 TAAAAAAAAAAAAAAGG
8985693 TAAAAAAAAAAAAAAG
1 TAAAAAAAAAAAAAAG
8985709 AGAAAAATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (17 bp):
TAAAAAAAAAAAAAAGG
Found at i:8986618 original size:37 final size:37
Alignment explanation
Indices: 8986572--8986644 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
8986562 ATCTCAGCTC
* *
8986572 AGTCCATATCATTTTTTTGACTATTCAATCTTGATTT
1 AGTCCATATCATTTTTTTAACTATTCAATCTCGATTT
* *
8986609 AGTCTATATCATTTTTTTAACTATTCGATCTCGATT
1 AGTCCATATCATTTTTTTAACTATTCAATCTCGATT
8986645 CAATTCAGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.25, C:0.16, G:0.08, T:0.51
Consensus pattern (37 bp):
AGTCCATATCATTTTTTTAACTATTCAATCTCGATTT
Found at i:8986657 original size:37 final size:37
Alignment explanation
Indices: 8986579--8986661 Score: 96
Period size: 37 Copynumber: 2.2 Consensus size: 37
8986569 CTCAGTCCAT
* * * *
8986579 ATCATTTTTTTGACTATTCAATCTTGATTTAGTCTAT
1 ATCATTTTTTTAACTATTCAATCTCGATTAAGTCTAG
* *
8986616 ATCATTTTTTTAACTATTCGATCTCGATTCAATTC-AG
1 ATCATTTTTTTAACTATTCAATCTCGATT-AAGTCTAG
8986653 ATCATTTTT
1 ATCATTTTT
8986662 CAGACTTACA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
37 36 0.92
38 3 0.08
ACGTcount: A:0.25, C:0.16, G:0.07, T:0.52
Consensus pattern (37 bp):
ATCATTTTTTTAACTATTCAATCTCGATTAAGTCTAG
Found at i:8986860 original size:3 final size:3
Alignment explanation
Indices: 8986852--8986885 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
8986842 TACTATATCA
8986852 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
8986886 GTGTTTATTC
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:8987735 original size:14 final size:13
Alignment explanation
Indices: 8987716--8987778 Score: 51
Period size: 13 Copynumber: 4.8 Consensus size: 13
8987706 CTGGTTTCTT
8987716 TTTTATCTTTTTCA
1 TTTTAT-TTTTTCA
*
8987730 TTTTATTTTTTGA
1 TTTTATTTTTTCA
* *
8987743 TTTCATTATTTTAA
1 TTTTATT-TTTTCA
8987757 GTTTTA--TTTT-A
1 -TTTTATTTTTTCA
8987768 TTTTATTTTTT
1 TTTTATTTTTT
8987779 GGCTTTATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
10 5 0.12
11 1 0.02
12 8 0.20
13 12 0.29
14 11 0.27
15 4 0.10
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.75
Consensus pattern (13 bp):
TTTTATTTTTTCA
Found at i:8987906 original size:43 final size:45
Alignment explanation
Indices: 8987849--8987932 Score: 111
Period size: 43 Copynumber: 1.9 Consensus size: 45
8987839 TTTCTGGAAA
*
8987849 ACAAAATAATAATAATAAA-AAAACCTTTTCAAATAAGTTTAAAAG
1 ACAAAATAATAATAA-AAATAAAACCTTTTCAAATAAATTTAAAAG
* *
8987894 ACAAAA-AA-AATAAAAATAAATCTTTTTCAAATAAATTTA
1 ACAAAATAATAATAAAAATAAAACCTTTTCAAATAAATTTA
8987933 TGGAATTTAC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
42 3 0.09
43 24 0.69
44 2 0.06
45 6 0.17
ACGTcount: A:0.61, C:0.08, G:0.02, T:0.29
Consensus pattern (45 bp):
ACAAAATAATAATAAAAATAAAACCTTTTCAAATAAATTTAAAAG
Found at i:8989634 original size:29 final size:30
Alignment explanation
Indices: 8989538--8989671 Score: 114
Period size: 29 Copynumber: 4.5 Consensus size: 30
8989528 ATTTTATTTG
* *
8989538 AATAAATTTTT-ATATTT-TTATTG-ATTCA
1 AATAAATTTTTAATATTTAAT-TTGTATCCA
* * ** **
8989566 AATAAAATTTTAATTTTTAATTTACATTTA
1 AATAAATTTTTAATATTTAATTTGTATCCA
*
8989596 AA-AAACTTTTAATATTTAATTTGTATCCA
1 AATAAATTTTTAATATTTAATTTGTATCCA
* *
8989625 AATAAATTTTTAAATTTTTAATTTGTATCTA
1 AATAAATTTTT-AATATTTAATTTGTATCCA
*
8989656 AAAAAATTTTTAATAT
1 AATAAATTTTTAATAT
8989672 AAATTATTTT
Statistics
Matches: 85, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
28 10 0.12
29 30 0.35
30 18 0.21
31 27 0.32
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.51
Consensus pattern (30 bp):
AATAAATTTTTAATATTTAATTTGTATCCA
Found at i:8989648 original size:31 final size:31
Alignment explanation
Indices: 8989516--8989668 Score: 140
Period size: 31 Copynumber: 5.1 Consensus size: 31
8989506 TAAAAAACTC
*
8989516 TTAAATTTTATAATTT-TATTTGAATAAATTT
1 TTAAATTTT-TAATTTGTATTTAAATAAATTT
* * *
8989547 TTATATTTTT-A-TTG-ATTCAAATAAAATT
1 TTAAATTTTTAATTTGTATTTAAATAAATTT
** *
8989575 TT-AATTTTTAATTTACATTTAAA-AAACTT
1 TTAAATTTTTAATTTGTATTTAAATAAATTT
* **
8989604 TT-AATATTTAATTTGTATCCAAATAAATTT
1 TTAAATTTTTAATTTGTATTTAAATAAATTT
* *
8989634 TTAAATTTTTAATTTGTATCTAAAAAAATTT
1 TTAAATTTTTAATTTGTATTTAAATAAATTT
8989665 TTAA
1 TTAA
8989669 TATAAATTAT
Statistics
Matches: 99, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
27 6 0.06
28 16 0.16
29 26 0.26
30 14 0.14
31 37 0.37
ACGTcount: A:0.41, C:0.04, G:0.03, T:0.53
Consensus pattern (31 bp):
TTAAATTTTTAATTTGTATTTAAATAAATTT
Found at i:8996836 original size:30 final size:30
Alignment explanation
Indices: 8996801--8996857 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
8996791 TTGTGATAAT
*
8996801 AAATAATATTATACGTTTTTT-ATTTTATTA
1 AAATAATA-TATAAGTTTTTTAATTTTATTA
*
8996831 AAATAATATATAATTTTTTTAATTTTA
1 AAATAATATATAAGTTTTTTAATTTTA
8996858 ATTTATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (30 bp):
AAATAATATATAAGTTTTTTAATTTTATTA
Found at i:8996858 original size:6 final size:6
Alignment explanation
Indices: 8996847--8996887 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
8996837 TATATAATTT
* *
8996847 TTTTAA TTTTAA -TTT-A TTTTAT TTTTAA TTTTAA TTATAA T
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA T
8996888 ATCTATCATG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
4 1 0.03
5 6 0.20
6 23 0.77
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTTAA
Found at i:8996858 original size:27 final size:30
Alignment explanation
Indices: 8996801--8996858 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 30
8996791 TTGTGATAAT
* *
8996801 AAATAATATTATACGTTTTTTATTTTATTA
1 AAATAATATTATAAGTTTTTTATATTATTA
*
8996831 AAATAATA-TATAATTTTTTTA-ATT-TTA
1 AAATAATATTATAAGTTTTTTATATTATTA
8996858 A
1 A
8996859 TTTATTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
27 4 0.16
28 2 0.08
29 11 0.44
30 8 0.32
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (30 bp):
AAATAATATTATAAGTTTTTTATATTATTA
Found at i:8996859 original size:22 final size:22
Alignment explanation
Indices: 8996834--8996887 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
8996824 TTTATTAAAA
8996834 TAATATATAATT-TTTTTAATTT
1 TAAT-TATAATTATTTTTAATTT
*
8996856 TAATT-TATTTTATTTTTAATTT
1 TAATTATA-ATTATTTTTAATTT
8996878 TAATTATAAT
1 TAATTATAAT
8996888 ATCTATCATG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 2 0.07
21 3 0.11
22 20 0.74
23 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
TAATTATAATTATTTTTAATTT
Found at i:8996884 original size:16 final size:16
Alignment explanation
Indices: 8996841--8996877 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
8996831 AAATAATATA
8996841 TAATTT-TTTTAATTT
1 TAATTTATTTTAATTT
*
8996856 TAATTTATTTTATTTT
1 TAATTTATTTTAATTT
8996872 TAATTT
1 TAATTT
8996878 TAATTATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TAATTTATTTTAATTT
Found at i:8997387 original size:21 final size:21
Alignment explanation
Indices: 8997363--8997407 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
8997353 TTAGTAAACT
* * *
8997363 ATTAAATTTTTAATTTTAATA
1 ATTAAAATTTAAAATTTAATA
*
8997384 ATTAAAATTTAAAATTTGATA
1 ATTAAAATTTAAAATTTAATA
8997405 ATT
1 ATT
8997408 TTAAATATCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
ATTAAAATTTAAAATTTAATA
Found at i:8997655 original size:12 final size:12
Alignment explanation
Indices: 8997638--8997682 Score: 62
Period size: 12 Copynumber: 4.1 Consensus size: 12
8997628 TTTTTATATT
8997638 ATTTTAATATAA
1 ATTTTAATATAA
8997650 ATTTTAATAT--
1 ATTTTAATATAA
8997660 A-TTTAA-ATAA
1 ATTTTAATATAA
8997670 ATTTTAATATAA
1 ATTTTAATATAA
8997682 A
1 A
8997683 ATTATTATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
8 2 0.07
9 5 0.17
10 2 0.07
11 5 0.17
12 15 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
ATTTTAATATAA
Found at i:8997671 original size:20 final size:22
Alignment explanation
Indices: 8997626--8997680 Score: 78
Period size: 20 Copynumber: 2.5 Consensus size: 22
8997616 GTTTATTTTT
*
8997626 AATTTTTATATTATTTTAATATA
1 AATTTTAATA-TATTTTAATATA
8997649 AATTTTAATATA-TTTAA-ATA
1 AATTTTAATATATTTTAATATA
8997669 AATTTTAATATA
1 AATTTTAATATA
8997681 AAATTATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 15 0.48
21 5 0.16
22 2 0.06
23 9 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
AATTTTAATATATTTTAATATA
Found at i:8997716 original size:15 final size:17
Alignment explanation
Indices: 8997698--8997736 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
8997688 TATTTTATTT
8997698 TATA-AAAATTTAAA-A
1 TATATAAAATTTAAATA
*
8997713 TATATATAATTTAAATA
1 TATATAAAATTTAAATA
8997730 TATATAA
1 TATATAA
8997737 TTCTATTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 4 0.20
16 9 0.45
17 7 0.35
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TATATAAAATTTAAATA
Found at i:8997737 original size:15 final size:16
Alignment explanation
Indices: 8997704--8997738 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
8997694 ATTTTATAAA
8997704 AATTTAAAATATATAT
1 AATTTAAAATATATAT
8997720 AATTT-AAATATATAT
1 AATTTAAAATATATAT
8997735 AATT
1 AATT
8997739 CTATTTGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
AATTTAAAATATATAT
Found at i:9000610 original size:2 final size:2
Alignment explanation
Indices: 9000603--9000629 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9000593 TTGATACAAC
9000603 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 T
9000630 CAACAAGTGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9002433 original size:8 final size:7
Alignment explanation
Indices: 9002376--9002436 Score: 52
Period size: 7 Copynumber: 8.3 Consensus size: 7
9002366 AGATCTTTGG
9002376 AAAATAT
1 AAAATAT
*
9002383 AATAATTT
1 AA-AATAT
9002391 AAAATAT
1 AAAATAT
*
9002398 AATATGAT
1 AAAAT-AT
*
9002406 AATATGAT
1 AAAAT-AT
9002414 ATAAATAT
1 A-AAATAT
9002422 AAAATAT
1 AAAATAT
9002429 AAAA-AT
1 AAAATAT
9002435 AA
1 AA
9002437 TATAATTTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
6 4 0.09
7 20 0.43
8 20 0.43
9 3 0.06
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (7 bp):
AAAATAT
Found at i:9002544 original size:31 final size:31
Alignment explanation
Indices: 9002508--9002577 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 31
9002498 TTTTATATTA
*
9002508 TTATATTAATATAAATTATAATATAT-AATTT
1 TTATATTAATATAAA-AATAATATATAAATTT
*
9002539 TTATATAAAATATAAAAATAATATATAAATTT
1 TTATAT-TAATATAAAAATAATATATAAATTT
*
9002571 TAATATT
1 TTATATT
9002578 TTATATTACA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
31 15 0.45
32 18 0.55
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (31 bp):
TTATATTAATATAAAAATAATATATAAATTT
Found at i:9004326 original size:24 final size:23
Alignment explanation
Indices: 9004290--9004366 Score: 86
Period size: 24 Copynumber: 3.3 Consensus size: 23
9004280 ATTTTAAATC
9004290 ATATTATTT-TTATATCATATTT
1 ATATTATTTATTATATCATATTT
9004312 ATATTATATTATTATATCATATTTT
1 ATATTAT-TTATTATATCATA-TTT
* *
9004337 AAATTATTATATTTATATAATATTT
1 ATATTATT-TA-TTATATCATATTT
9004362 -TATTA
1 ATATTA
9004367 AAAATTATAT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
22 7 0.15
23 2 0.04
24 15 0.32
25 14 0.30
26 9 0.19
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (23 bp):
ATATTATTTATTATATCATATTT
Found at i:9008778 original size:8 final size:9
Alignment explanation
Indices: 9008752--9008796 Score: 53
Period size: 8 Copynumber: 5.3 Consensus size: 9
9008742 TTTAAGAATG
9008752 ATTATATAA
1 ATTATATAA
9008761 ATTA-ATTAA
1 ATTATA-TAA
9008770 ATTAT-TAA
1 ATTATATAA
9008778 A-TATATAA
1 ATTATATAA
9008786 A-TATATAA
1 ATTATATAA
9008794 ATT
1 ATT
9008797 TAAAATTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
7 3 0.09
8 17 0.53
9 12 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
ATTATATAA
Found at i:9014252 original size:21 final size:20
Alignment explanation
Indices: 9014226--9014267 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
9014216 GAGGTGGTTG
*
9014226 TATATATATTAATATAAGTGA
1 TATATAAATTAAT-TAAGTGA
*
9014247 TATATAAATTAATTAATTGA
1 TATATAAATTAATTAAGTGA
9014267 T
1 T
9014268 GTAGAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
TATATAAATTAATTAAGTGA
Found at i:9014942 original size:17 final size:17
Alignment explanation
Indices: 9014922--9014954 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
9014912 TGTTAAAATT
9014922 AAAAAGTTTCTCAATAA
1 AAAAAGTTTCTCAATAA
9014939 AAAAAGTTTCTCAATA
1 AAAAAGTTTCTCAATA
9014955 TTGTTTCTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (17 bp):
AAAAAGTTTCTCAATAA
Found at i:9017055 original size:17 final size:17
Alignment explanation
Indices: 9017035--9017073 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
9017025 AGAAAAAGGA
9017035 TAAAAAATATAAA-AACT
1 TAAAAAATA-AAATAACT
*
9017052 TAAAAAATAAAATAATT
1 TAAAAAATAAAATAACT
9017069 TAAAA
1 TAAAA
9017074 TTTTAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAAAAATAAAATAACT
Found at i:9017079 original size:25 final size:25
Alignment explanation
Indices: 9017034--9017118 Score: 70
Period size: 24 Copynumber: 3.5 Consensus size: 25
9017024 GAGAAAAAGG
9017034 ATAAAAAATATAAAAACTTAA-AAA
1 ATAAAAAATATAAAAACTTAATAAA
* **
9017058 ATAAAATAATTTAAAATTTTAATAAA
1 ATAAAA-AATATAAAAACTTAATAAA
** *
9017084 A-ATTAAATAT--AAATTTAATAAA
1 ATAAAAAATATAAAAACTTAATAAA
9017106 ATCAAAAAATATA
1 AT-AAAAAATATA
9017119 TTTTATATTT
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
22 12 0.26
24 17 0.36
25 14 0.30
26 4 0.09
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (25 bp):
ATAAAAAATATAAAAACTTAATAAA
Found at i:9025626 original size:2 final size:2
Alignment explanation
Indices: 9025615--9025643 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
9025605 ATGTGGATTC
9025615 AT AT -T 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
9025644 GTAACTGTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:9028364 original size:148 final size:148
Alignment explanation
Indices: 9028096--9028389 Score: 579
Period size: 148 Copynumber: 2.0 Consensus size: 148
9028086 TGATTGTTCA
9028096 AACGTATAAAGCTGAGCCTAGTTGTTGCCTGTCGTATCAAGTTGAACGAAAATGAGAGAGACAAT
1 AACGTATAAAGCTGAGCCTAGTTGTTGCCTGTCGTATCAAGTTGAACGAAAATGAGAGAGACAAT
9028161 TAAAGGAAATCATATAATCGTAATACCAATGAAATTAATCATTTAGTCTCTTCTTTCTTTTTGGT
66 TAAAGGAAATCATATAATCGTAATACCAATGAAATTAATCATTTAGTCTCTTCTTTCTTTTTGGT
9028226 CCCGGGATTAGTGATGTT
131 CCCGGGATTAGTGATGTT
*
9028244 AACGTATAAAGCTGAGCCTAGTTGTTGCCTGTCGTATCAAGTTGAACGAAACTGAGAGAGACAAT
1 AACGTATAAAGCTGAGCCTAGTTGTTGCCTGTCGTATCAAGTTGAACGAAAATGAGAGAGACAAT
9028309 TAAAGGAAATCATATAATCGTAATACCAATGAAATTAATCATTTAGTCTCTTCTTTCTTTTTGGT
66 TAAAGGAAATCATATAATCGTAATACCAATGAAATTAATCATTTAGTCTCTTCTTTCTTTTTGGT
9028374 CCCGGGATTAGTGATG
131 CCCGGGATTAGTGATG
9028390 ATAATGGATC
Statistics
Matches: 145, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
148 145 1.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (148 bp):
AACGTATAAAGCTGAGCCTAGTTGTTGCCTGTCGTATCAAGTTGAACGAAAATGAGAGAGACAAT
TAAAGGAAATCATATAATCGTAATACCAATGAAATTAATCATTTAGTCTCTTCTTTCTTTTTGGT
CCCGGGATTAGTGATGTT
Found at i:9028582 original size:23 final size:23
Alignment explanation
Indices: 9028551--9028609 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 23
9028541 ATTCGATTTG
* * *
9028551 AAATTAATAAAATATTATTTTTA
1 AAATAAATAAAATATTATATTAA
*
9028574 ATATAAATATAAA-ATTATATTAA
1 AAATAAATA-AAATATTATATTAA
*
9028597 AAATATATAAAAT
1 AAATAAATAAAAT
9028610 TAAATTAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
22 3 0.11
23 22 0.79
24 3 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
AAATAAATAAAATATTATATTAA
Found at i:9028602 original size:19 final size:20
Alignment explanation
Indices: 9028578--9028617 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
9028568 TTTTTAATAT
*
9028578 AAATATAAAATTATATTAAA
1 AAATATAAAATTAAATTAAA
9028598 AATATATAAAATTAAATTAA
1 AA-ATATAAAATTAAATTAA
9028618 TAATTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AAATATAAAATTAAATTAAA
Found at i:9028604 original size:27 final size:28
Alignment explanation
Indices: 9028574--9028627 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
9028564 ATTATTTTTA
9028574 ATATAAATATAAAATT-AT-ATTAAAAAT
1 ATATAAA-ATAAAATTAATAATTAAAAAT
*
9028601 ATATAAAATTAAATTAATAATTAAAAA
1 ATATAAAATAAAATTAATAATTAAAAA
9028628 AATAATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 7 0.29
27 9 0.38
28 8 0.33
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (28 bp):
ATATAAAATAAAATTAATAATTAAAAAT
Found at i:9030245 original size:24 final size:24
Alignment explanation
Indices: 9030200--9030268 Score: 70
Period size: 24 Copynumber: 3.0 Consensus size: 24
9030190 TGATAATACG
*
9030200 ATAT-AAAAATGATATAAATAAAA
1 ATATAAAAAATAATATAAATAAAA
**
9030223 ATATAAAAAATAATATATTTAAAA
1 ATATAAAAAATAATATAAATAAAA
* * *
9030247 TTTTAAAAAA-ATTATAAATAAA
1 ATATAAAAAATAATATAAATAAA
9030269 TTTAATAAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
23 13 0.35
24 24 0.65
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (24 bp):
ATATAAAAAATAATATAAATAAAA
Found at i:9030514 original size:11 final size:10
Alignment explanation
Indices: 9030500--9030538 Score: 51
Period size: 11 Copynumber: 3.7 Consensus size: 10
9030490 TAGTATAATT
9030500 TAAAATTTTAA
1 TAAAATTTT-A
*
9030511 TAAAATTATA
1 TAAAATTTTA
9030521 TATAAATTTTA
1 TA-AAATTTTA
9030532 TAAAATT
1 TAAAATT
9030539 AAAAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 8 0.32
11 17 0.68
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TAAAATTTTA
Found at i:9030578 original size:28 final size:30
Alignment explanation
Indices: 9030507--9030578 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 30
9030497 ATTTAAAATT
9030507 TTAATAAAATTATATATAAATTTTATAAAA
1 TTAATAAAATTATATATAAATTTTATAAAA
* *
9030537 TTAA-AAAA-TATATATTATATTTT-T-ACA
1 TTAATAAAATTATATA-TAAATTTTATAAAA
9030564 TTAATATAAATTATA
1 TTAATA-AAATTATA
9030579 ACATAAAAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
27 6 0.17
28 8 0.22
29 14 0.39
30 8 0.22
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (30 bp):
TTAATAAAATTATATATAAATTTTATAAAA
Found at i:9032636 original size:14 final size:14
Alignment explanation
Indices: 9032617--9032675 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
9032607 TTTTTAGAAA
9032617 TTTGGATTTTAGGT
1 TTTGGATTTTAGGT
*
9032631 TTTGGATTTTAGGG
1 TTTGGATTTTAGGT
* * * *
9032645 TTAGGGTTTCAAGT
1 TTTGGATTTTAGGT
*
9032659 TTTAGATTTTCAGGT
1 TTTGGATTTT-AGGT
9032674 TT
1 TT
9032676 AGGTTTTTTA
Statistics
Matches: 33, Mismatches: 11, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
14 28 0.85
15 5 0.15
ACGTcount: A:0.17, C:0.03, G:0.27, T:0.53
Consensus pattern (14 bp):
TTTGGATTTTAGGT
Found at i:9032695 original size:21 final size:22
Alignment explanation
Indices: 9032645--9032696 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
9032635 GATTTTAGGG
9032645 TTAGGGTTTCAAGTTTTAGATT
1 TTAGGGTTTCAAGTTTTAGATT
* **
9032667 TTCA-GGTTT-AGGTTTTTTATT
1 TT-AGGGTTTCAAGTTTTAGATT
9032688 TTAGGGTTT
1 TTAGGGTTT
9032697 GAGATTTGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
20 1 0.04
21 16 0.64
22 7 0.28
23 1 0.04
ACGTcount: A:0.17, C:0.04, G:0.23, T:0.56
Consensus pattern (22 bp):
TTAGGGTTTCAAGTTTTAGATT
Found at i:9032711 original size:28 final size:29
Alignment explanation
Indices: 9032680--9032745 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
9032670 AGGTTTAGGT
* *
9032680 TTTTTATTTTAGGGTTT-GAGATTTGGGG
1 TTTTAATTTTAGGGTTTAGAGATTTGGAG
9032708 TTTTAATTTTAGGGTTTAGAGATTTGGAG
1 TTTTAATTTTAGGGTTTAGAGATTTGGAG
*
9032737 TTTCAATTT
1 TTTTAATTT
9032746 CGAGGTTTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 16 0.47
29 18 0.53
ACGTcount: A:0.20, C:0.02, G:0.26, T:0.53
Consensus pattern (29 bp):
TTTTAATTTTAGGGTTTAGAGATTTGGAG
Found at i:9032752 original size:29 final size:29
Alignment explanation
Indices: 9032685--9032757 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
9032675 TAGGTTTTTT
* * *
9032685 ATTTTAGGGTTT-GAGATTTGGGGTTTTA
1 ATTTGAGGGTTTAGAGATTTGGAGTTTCA
*
9032713 ATTTTAGGGTTTAGAGATTTGGAGTTTCA
1 ATTTGAGGGTTTAGAGATTTGGAGTTTCA
9032742 ATTTCGA-GGTTTAGAG
1 ATTT-GAGGGTTTAGAG
9032758 GTTTTATGAT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
28 12 0.30
29 27 0.68
30 1 0.03
ACGTcount: A:0.22, C:0.03, G:0.30, T:0.45
Consensus pattern (29 bp):
ATTTGAGGGTTTAGAGATTTGGAGTTTCA
Found at i:9032805 original size:30 final size:30
Alignment explanation
Indices: 9032769--9033176 Score: 213
Period size: 30 Copynumber: 13.9 Consensus size: 30
9032759 TTTTATGATT
*
9032769 TTTTAGGGTTTAGAGGGTTTAAGGTTTTTA
1 TTTTAGGGTTTAGAGGGTTTAAGGTTTTAA
* * * *
9032799 TTTTAGGGTTTAGGGGGCTT-AGGGTTTCA
1 TTTTAGGGTTTAGAGGGTTTAAGGTTTTAA
* * *
9032828 TTTTA-AGTTTGGA-GGTTT-AGGATTTAA
1 TTTTAGGGTTTAGAGGGTTTAAGGTTTTAA
* *
9032855 TTTTAGGGTTT-GAAGGGTTTAAGGGTTTGA
1 TTTTAGGGTTTAG-AGGGTTTAAGGTTTTAA
* ***
9032885 TTTTAGGGTTTA-AGGGGTTTAGGGTTTCGT
1 TTTTAGGGTTTAGA-GGGTTTAAGGTTTTAA
* * * *
9032915 TTTTATGGTTTAGAGGATTT-GGGATTTAA
1 TTTTAGGGTTTAGAGGGTTTAAGGTTTTAA
* * ***
9032944 TTTTAGAGTTT-GAAGGGTTTATGGTTTCGT
1 TTTTAGGGTTTAG-AGGGTTTAAGGTTTTAA
* * *
9032974 TTTTATGGTTTAGAGGGTTT-GGGATTTAA
1 TTTTAGGGTTTAGAGGGTTTAAGGTTTTAA
*
9033003 TTTTAGGGTTT-GAAGGGTTT-AGGATTTTGA
1 TTTTAGGGTTTAG-AGGGTTTAAGG-TTTTAA
* * *
9033033 TTTTAGGATTTA-AGGGGTTT-AGGATTTCAT
1 TTTTAGGGTTTAGA-GGGTTTAAGG-TTTTAA
* * * * *
9033063 TTTTATGGTTTAAAGGATTTAGGGTTTTGA
1 TTTTAGGGTTTAGAGGGTTTAAGGTTTTAA
* * ***
9033093 TTTTAGGGTATA-AGGGGTTTAGGGTTTCGT
1 TTTTAGGGTTTAGA-GGGTTTAAGGTTTTAA
* * * *
9033123 TTTTAAGGTTTAGA-GATTTGA-GATTTAA
1 TTTTAGGGTTTAGAGGGTTTAAGGTTTTAA
9033151 TTTTAGGGTTTA-A-GGTTTAGAGGTTT
1 TTTTAGGGTTTAGAGGGTTTA-AGGTTT
9033177 AGAGTTTGGA
Statistics
Matches: 287, Mismatches: 71, Indels: 41
0.72 0.18 0.10
Matches are distributed among these distances:
27 22 0.08
28 27 0.09
29 70 0.24
30 162 0.56
31 6 0.02
ACGTcount: A:0.21, C:0.01, G:0.31, T:0.47
Consensus pattern (30 bp):
TTTTAGGGTTTAGAGGGTTTAAGGTTTTAA
Found at i:9032826 original size:86 final size:84
Alignment explanation
Indices: 9032682--9032970 Score: 248
Period size: 86 Copynumber: 3.4 Consensus size: 84
9032672 GTTTAGGTTT
* ** * *
9032682 TTTATTTTAGGGTTTG-A-GATTTGGGGTTTTAATTTTAGGGTTTA-GAGATTTGGAGTTTCAAT
1 TTTATTTTAGGGTTTGAAGGGTTTAAGGTTTTAATTTTAGGGTTTAGGGGATTAGG-GTTTC-AT
* *
9032744 TTCGAGGTTTAGAGGTTTTATGA
64 TT-GAAGTTTAGAGG-TTTAGGA
* *
9032767 -TT-TTTTAGGGTTT-AGAGGGTTTAAGGTTTTTATTTTAGGGTTTAGGGGGCTTAGGGTTTCAT
1 TTTATTTTAGGGTTTGA-AGGGTTTAAGGTTTTAATTTTAGGGTTTA-GGGGATTAGGGTTTCAT
* *
9032829 TTTAAGTTTGGAGGTTTAGGA
64 TTGAAGTTTAGAGGTTTAGGA
* * * *
9032850 TTTAATTTTAGGGTTTGAAGGGTTTAAGGGTTTGATTTTAGGGTTTAAGGGGTTTAGGGTTTCGT
1 TTT-ATTTTAGGGTTTGAAGGGTTTAAGGTTTTAATTTTAGGGTTT-AGGGGATTAGGGTTTC-A
* * *
9032915 TTTTATGGTTTAGAGGATTTGGGA
63 TTTGA-AGTTTAGAGG-TTTAGGA
* *
9032939 TTTAATTTTAGAGTTTGAAGGGTTTATGGTTT
1 TTT-ATTTTAGGGTTTGAAGGGTTTAAGGTTT
9032971 CGTTTTTATG
Statistics
Matches: 170, Mismatches: 21, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
83 17 0.10
84 14 0.08
85 27 0.16
86 56 0.33
87 13 0.08
88 8 0.05
89 35 0.21
ACGTcount: A:0.20, C:0.02, G:0.31, T:0.48
Consensus pattern (84 bp):
TTTATTTTAGGGTTTGAAGGGTTTAAGGTTTTAATTTTAGGGTTTAGGGGATTAGGGTTTCATTT
GAAGTTTAGAGGTTTAGGA
Found at i:9032947 original size:59 final size:59
Alignment explanation
Indices: 9032769--9033089 Score: 259
Period size: 59 Copynumber: 5.5 Consensus size: 59
9032759 TTTTATGATT
* * * * * *
9032769 TTTTAGGGTTT-AGAGGGTTTAAGGTTT-TTATTTTAGGGTTTAGGGGGCTTAGGG-TTTCA
1 TTTTAGGGTTTGA-AGGGTTTAGGGTTTCGT-TTTTATGGTTTAGAGGG-TTTGGGATTTAA
* * * ** * *
9032828 TTTTA-AGTTTGGA-GGTTTAGGATTT-AATTTTAGGGTTT-GAAGGGTTTAAGGG-TTTGA
1 TTTTAGGGTTTGAAGGGTTTAGGGTTTCGTTTTTATGGTTTAG-AGGGTTT--GGGATTTAA
*
9032885 TTTTAGGGTTT-AAGGGGTTTAGGGTTTCGTTTTTATGGTTTAGAGGATTTGGGATTTAA
1 TTTTAGGGTTTGAA-GGGTTTAGGGTTTCGTTTTTATGGTTTAGAGGGTTTGGGATTTAA
* *
9032944 TTTTAGAGTTTGAAGGGTTTATGGTTTCGTTTTTATGGTTTAGAGGGTTTGGGATTTAA
1 TTTTAGGGTTTGAAGGGTTTAGGGTTTCGTTTTTATGGTTTAGAGGGTTTGGGATTTAA
* * * * *
9033003 TTTTAGGGTTTGAAGGGTTTAGGATTTTGATTTTA-GGATTTA-AGGGGTTTAGGATTTCAT
1 TTTTAGGGTTTGAAGGGTTTAGGGTTTCGTTTTTATGG-TTTAGA-GGGTTTGGGATTT-AA
* * *
9033063 TTTTATGGTTTAAAGGATTTAGGGTTT
1 TTTTAGGGTTTGAAGGGTTTAGGGTTT
9033090 TGATTTTAGG
Statistics
Matches: 217, Mismatches: 31, Indels: 27
0.79 0.11 0.10
Matches are distributed among these distances:
55 3 0.01
56 14 0.06
57 23 0.11
58 15 0.07
59 119 0.55
60 42 0.19
61 1 0.00
ACGTcount: A:0.20, C:0.02, G:0.31, T:0.47
Consensus pattern (59 bp):
TTTTAGGGTTTGAAGGGTTTAGGGTTTCGTTTTTATGGTTTAGAGGGTTTGGGATTTAA
Found at i:9033010 original size:148 final size:149
Alignment explanation
Indices: 9032768--9033169 Score: 496
Period size: 148 Copynumber: 2.7 Consensus size: 149
9032758 GTTTTATGAT
* * * * * * * * * * *
9032768 TTTTTAGGGTTTAGAGGGTTTAAGGTTTTTATTTTAGGGTTTAGGGGGCTTAGGGTTTC-ATTTT
1 TTTTTATGGTTTAAAGGATTTAGGGATTTAATTTTAGAGTATAAGGGGTTTAGGGTTTCGTTTTT
* * *
9032832 AA-GTTTGGAGGTTTAGGATTTAATTTTAGGGTTTGAAGGGTTTAAGG-GTTTGATTTTAGGGTT
66 AAGGTTTAGAGGTTTGGGATTTAATTTTAGGGTTTGAAGGGTTTAAGGAGTTTGATTTTAGGATT
* *
9032895 TAAGGGGTTTAGGGTTTCG
131 TAAGGGGTTTAGGATTTCA
* * *
9032914 TTTTTATGGTTTAGAGGATTT-GGGATTTAATTTTAGAGTTTGAA-GGGTTTATGGTTTCGTTTT
1 TTTTTATGGTTTAAAGGATTTAGGGATTTAATTTTAGAGTAT-AAGGGGTTTAGGGTTTCGTTTT
* *
9032977 TATGGTTTAGAGGGTTTGGGATTTAATTTTAGGGTTTGAAGGGTTT-AGGATTTTGATTTTAGGA
65 TAAGGTTTAGA-GGTTTGGGATTTAATTTTAGGGTTTGAAGGGTTTAAGGAGTTTGATTTTAGGA
9033041 TTTAAGGGGTTTAGGATTTCA
129 TTTAAGGGGTTTAGGATTTCA
* * *
9033062 TTTTTATGGTTTAAAGGATTTAGGGTTTTGATTTTAGGGTATAAGGGGTTTAGGGTTTCGTTTTT
1 TTTTTATGGTTTAAAGGATTTAGGGATTTAATTTTAGAGTATAAGGGGTTTAGGGTTTCGTTTTT
* *
9033127 AAGGTTTAGAGATTTGAGATTTAATTTTAGGGTTT-AA-GGTTTA
66 AAGGTTTAGAGGTTTGGGATTTAATTTTAGGGTTTGAAGGGTTTA
9033170 GAGGTTTAGA
Statistics
Matches: 222, Mismatches: 26, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
145 28 0.13
146 30 0.14
147 11 0.05
148 109 0.49
149 44 0.20
ACGTcount: A:0.21, C:0.01, G:0.31, T:0.47
Consensus pattern (149 bp):
TTTTTATGGTTTAAAGGATTTAGGGATTTAATTTTAGAGTATAAGGGGTTTAGGGTTTCGTTTTT
AAGGTTTAGAGGTTTGGGATTTAATTTTAGGGTTTGAAGGGTTTAAGGAGTTTGATTTTAGGATT
TAAGGGGTTTAGGATTTCA
Found at i:9035852 original size:16 final size:16
Alignment explanation
Indices: 9035833--9035885 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
9035823 ATCATATTAT
9035833 AAATAATTTGAACCTA
1 AAATAATTTGAACCTA
*
9035849 AAATTATTTGAATCC-A
1 AAATAATTTGAA-CCTA
*
9035865 AAAT-ATTT-AA-ATA
1 AAATAATTTGAACCTA
9035878 AAATAATT
1 AAATAATT
9035886 CGACTTGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
13 5 0.16
14 5 0.16
15 4 0.12
16 16 0.50
17 2 0.06
ACGTcount: A:0.53, C:0.08, G:0.04, T:0.36
Consensus pattern (16 bp):
AAATAATTTGAACCTA
Found at i:9036360 original size:144 final size:144
Alignment explanation
Indices: 9036168--9036434 Score: 516
Period size: 144 Copynumber: 1.9 Consensus size: 144
9036158 AGATGTTTAC
*
9036168 CATCAGATGAAGAACATACTGAGCAAGACGCTTGTTCAATAATTTTAACTGAACAAGCATAAGCA
1 CATCAGATGAAGAACATACTGAGCAAGACGCTTGTTCAATAATGTTAACTGAACAAGCATAAGCA
9036233 GCCGGAAAATTCAAATATCGGTGAACAAAAATATTTACACCCGCGAGTGGTTCAAAGTCTCTTTT
66 GCCGGAAAATTCAAATATCGGTGAACAAAAATATTTACACCCGCGAGTGGTTCAAAGTCTCTTTT
9036298 GGAAACTGAACAAG
131 GGAAACTGAACAAG
9036312 CATCAGATGAAGAACATACTGAGCAAGACGCTTGTTCAATAATGTTAACTGAACAAGCATAAGCA
1 CATCAGATGAAGAACATACTGAGCAAGACGCTTGTTCAATAATGTTAACTGAACAAGCATAAGCA
*
9036377 GCCGGAAAATTCAAATATCGGTGAACAAAAATATTTACACCGGCGAGTGGTTCAAAGT
66 GCCGGAAAATTCAAATATCGGTGAACAAAAATATTTACACCCGCGAGTGGTTCAAAGT
9036435 TTATCTTGGA
Statistics
Matches: 121, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
144 121 1.00
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.23
Consensus pattern (144 bp):
CATCAGATGAAGAACATACTGAGCAAGACGCTTGTTCAATAATGTTAACTGAACAAGCATAAGCA
GCCGGAAAATTCAAATATCGGTGAACAAAAATATTTACACCCGCGAGTGGTTCAAAGTCTCTTTT
GGAAACTGAACAAG
Done.