Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 45 of 133
Found at i:9666667 original size:36 final size:35
Alignment explanation
Indices: 9666544--9666776 Score: 58
Period size: 36 Copynumber: 6.5 Consensus size: 35
9666534 AAAAAATCAG
* * *
9666544 ATAAATAAATAAAATAAA-ATTA-ACAGATAATTAA
1 ATAAATAAATAAAATAAATATAATATAAATAA-TAA
* * * * *
9666578 AAAAATAAAATAAGATAAAT-TCA-A-AAATATTAC
1 ATAAAT-AAATAAAATAAATATAATATAAATAATAA
* *
9666611 A-AAATAATAATAATAATATAATATAA-ATATATAATTAT
1 ATAAAT-A-AATAA-AATA-AATATAATATAAATAA-TAA
** *
9666649 ATAAATAAAATATTTATAAATATTAACA-AAA-AATAA
1 ATAAAT-AAATA-AAATAAATA-TAATATAAATAATAA
*
9666685 ATAAATAAAATAAAAATAAA-ATAA-ATAAATAAATAG
1 ATAAAT-AAAT-AAAATAAATATAATATAAAT-AATAA
* *
9666721 ATAAATAAA-AATATACACATATTAATACATAATAATAATA
1 ATAAATAAATAAAATA-A-ATA-TAATATA-AATAAT-A-A
*
9666761 ATAAATACATAAAATA
1 ATAAATAAATAAAATA
9666777 CAAAAAAAAA
Statistics
Matches: 151, Mismatches: 23, Indels: 43
0.70 0.11 0.20
Matches are distributed among these distances:
32 6 0.04
33 14 0.09
34 19 0.13
35 22 0.15
36 32 0.21
37 14 0.09
38 20 0.13
39 11 0.07
40 8 0.05
41 5 0.03
ACGTcount: A:0.67, C:0.03, G:0.01, T:0.28
Consensus pattern (35 bp):
ATAAATAAATAAAATAAATATAATATAAATAATAA
Found at i:9666688 original size:4 final size:4
Alignment explanation
Indices: 9666679--9666729 Score: 61
Period size: 4 Copynumber: 12.8 Consensus size: 4
9666669 TATTAACAAA
*
9666679 AAAT AAAT AAAT AAA- ATAA- AAAT AAAAT AAAT AAAT AAAT AGAT AAAT
1 AAAT AAAT AAAT AAAT A-AAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT
9666727 AAA
1 AAA
9666730 AATATACACA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
3 3 0.07
4 35 0.83
5 4 0.10
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:9666702 original size:32 final size:32
Alignment explanation
Indices: 9666666--9666735 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
9666656 AAATATTTAT
*
9666666 AAATATTAACAAA-AAATAAATAAATAAAATAA
1 AAATATAAACAAATAAATAAATAAAT-AAATAA
* *
9666698 AAATA-AAATAAATAAATAAATAGATAAATAA
1 AAATATAAACAAATAAATAAATAAATAAATAA
9666729 AAATATA
1 AAATATA
9666736 CACATATTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 16 0.48
32 17 0.52
ACGTcount: A:0.74, C:0.01, G:0.01, T:0.23
Consensus pattern (32 bp):
AAATATAAACAAATAAATAAATAAATAAATAA
Found at i:9666776 original size:16 final size:15
Alignment explanation
Indices: 9666505--9666776 Score: 67
Period size: 16 Copynumber: 17.6 Consensus size: 15
9666495 CAAAAAAAAA
9666505 AATAATAATAAT-AAT
1 AATAA-AATAATAAAT
*
9666520 AATAAGATAATAAA-
1 AATAAAATAATAAAT
9666534 AA-AAAATCAGATAAAT
1 AATAAAAT-A-ATAAAT
*
9666550 AAATAAAATAA-AATT
1 -AATAAAATAATAAAT
*
9666565 AACAGATAATTAA-AAA-
1 AATA-A-AA-TAATAAAT
9666581 AATAAAATAAGATAAATT
1 AATAAAAT-A-ATAAA-T
* *
9666599 CA-AAAATATTACAA-
1 AATAAAATAATA-AAT
9666613 AAT--AATAAT-AAT
1 AATAAAATAATAAAT
*
9666625 AATATAAT-ATAAAT
1 AATAAAATAATAAAT
*
9666639 -ATATAATTATATAAAT
1 AATA-AAATA-ATAAAT
* *
9666655 AA-AATATTTATAAAT
1 AATAA-AATAATAAAT
* *
9666670 ATTAACAAAAAATAAAT
1 AAT-A-AAATAATAAAT
9666687 AAATAAAATAA-AAAT
1 -AATAAAATAATAAAT
*
9666702 AAAATAAATAAATAAAT
1 AATA-AAAT-AATAAAT
9666719 AGAT-AAATAA-AAAT
1 A-ATAAAATAATAAAT
*
9666733 -ATACACATATTAATACAT
1 AATA-A-A-A-TAATAAAT
9666751 AATAATAATAATAAAT
1 AATAA-AATAATAAAT
9666767 ACATAAAATA
1 A-ATAAAATA
9666777 CAAAAAAAAA
Statistics
Matches: 192, Mismatches: 24, Indels: 81
0.65 0.08 0.27
Matches are distributed among these distances:
11 2 0.01
12 5 0.03
13 15 0.08
14 31 0.16
15 39 0.20
16 46 0.24
17 36 0.19
18 15 0.08
19 3 0.02
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (15 bp):
AATAAAATAATAAAT
Found at i:9668343 original size:3 final size:3
Alignment explanation
Indices: 9668335--9668382 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
9668325 CGAGGAGCCC
* * * * *
9668335 TCT TCT TCT TCT TCC TCC TCT GCT TCT GCT TCT GCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
9668383 GCCAAACTCG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.38, G:0.06, T:0.56
Consensus pattern (3 bp):
TCT
Found at i:9675492 original size:16 final size:16
Alignment explanation
Indices: 9675471--9675503 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
9675461 TATCTTGTCG
9675471 ATGGTAAAAGAACACA
1 ATGGTAAAAGAACACA
9675487 ATGGTAAAAGAACACA
1 ATGGTAAAAGAACACA
9675503 A
1 A
9675504 CTATATAGGA
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:0.58, C:0.12, G:0.18, T:0.12
Consensus pattern (16 bp):
ATGGTAAAAGAACACA
Found at i:9677546 original size:6 final size:6
Alignment explanation
Indices: 9677535--9677565 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
9677525 GGTCAGCTTT
9677535 TATTTG TATTTG TATTTG TATTTG TATTTG T
1 TATTTG TATTTG TATTTG TATTTG TATTTG T
9677566 GTTGTTGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (6 bp):
TATTTG
Found at i:9677682 original size:6 final size:6
Alignment explanation
Indices: 9677671--9677719 Score: 98
Period size: 6 Copynumber: 8.2 Consensus size: 6
9677661 GGTCAGCTTT
9677671 TATTTG TATTTG TATTTG TATTTG TATTTG TATTTG TATTTG TATTTG
1 TATTTG TATTTG TATTTG TATTTG TATTTG TATTTG TATTTG TATTTG
9677719 T
1 T
9677720 GTTGTTGATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.67
Consensus pattern (6 bp):
TATTTG
Found at i:9677697 original size:136 final size:136
Alignment explanation
Indices: 9677453--9677701 Score: 498
Period size: 136 Copynumber: 1.8 Consensus size: 136
9677443 AATGTGTCGA
9677453 GGACTGGAGGAGGAAACATCGGTGAAGGTACCCTGAATTGTCAAGACTTTGAATATGTATGAGCG
1 GGACTGGAGGAGGAAACATCGGTGAAGGTACCCTGAATTGTCAAGACTTTGAATATGTATGAGCG
9677518 GGGTATTGGTCAGCTTTTATTTGTATTTGTATTTGTATTTGTATTTGTGTTGTTGATAACTAAGC
66 GGGTATTGGTCAGCTTTTATTTGTATTTGTATTTGTATTTGTATTTGTGTTGTTGATAACTAAGC
9677583 GTCCAG
131 GTCCAG
9677589 GGACTGGAGGAGGAAACATCGGTGAAGGTACCCTGAATTGTCAAGACTTTGAATATGTATGAGCG
1 GGACTGGAGGAGGAAACATCGGTGAAGGTACCCTGAATTGTCAAGACTTTGAATATGTATGAGCG
9677654 GGGTATTGGTCAGCTTTTATTTGTATTTGTATTTGTATTTGTATTTGT
66 GGGTATTGGTCAGCTTTTATTTGTATTTGTATTTGTATTTGTATTTGT
9677702 ATTTGTATTT
Statistics
Matches: 113, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
136 113 1.00
ACGTcount: A:0.24, C:0.10, G:0.28, T:0.37
Consensus pattern (136 bp):
GGACTGGAGGAGGAAACATCGGTGAAGGTACCCTGAATTGTCAAGACTTTGAATATGTATGAGCG
GGGTATTGGTCAGCTTTTATTTGTATTTGTATTTGTATTTGTATTTGTGTTGTTGATAACTAAGC
GTCCAG
Found at i:9678811 original size:14 final size:15
Alignment explanation
Indices: 9678773--9678814 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
9678763 TTTTAAAAAA
9678773 TAATATTTAATAAATT
1 TAATATTT-ATAAATT
9678789 TAA-ATTT-TAAAATT
1 TAATATTTAT-AAATT
9678803 TAATATTTATAA
1 TAATATTTATAA
9678815 TAATATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 1 0.04
14 8 0.35
15 10 0.43
16 4 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATATTTATAAATT
Found at i:9681244 original size:20 final size:20
Alignment explanation
Indices: 9681195--9681247 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
9681185 ATTTAACTTA
*
9681195 ATAAAAAAATATATTTATAT
1 ATAAAAAAATATATATATAT
*
9681215 ATAATTAAAATATA-ATATAT
1 ATAA-AAAAATATATATATAT
9681235 ATTAAAAAAATAT
1 A-TAAAAAAATAT
9681248 TTTATTAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAAAAAAATATATATATAT
Found at i:9682406 original size:23 final size:23
Alignment explanation
Indices: 9682380--9682423 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
9682370 TTTTCATTTT
*
9682380 TTTTGTTTTTTTTTAACTTTTGC
1 TTTTCTTTTTTTTTAACTTTTGC
9682403 TTTTCTTTTTTTTTAACTTTT
1 TTTTCTTTTTTTTTAACTTTT
9682424 TAACTTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.09, C:0.09, G:0.05, T:0.77
Consensus pattern (23 bp):
TTTTCTTTTTTTTTAACTTTTGC
Found at i:9682424 original size:24 final size:24
Alignment explanation
Indices: 9682380--9682439 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
9682370 TTTTCATTTT
* *
9682380 TTTTGTTTTTTTTTAACTTTT-GC
1 TTTTATTTTTTTTTAACTTTTAAC
*
9682403 TTTTCTTTTTTTTTAACTTTTTAAC
1 TTTTATTTTTTTTTAAC-TTTTAAC
9682428 TTTTATTTTTTT
1 TTTTATTTTTTT
9682440 ATTAGATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
23 16 0.50
24 4 0.12
25 12 0.38
ACGTcount: A:0.12, C:0.08, G:0.03, T:0.77
Consensus pattern (24 bp):
TTTTATTTTTTTTTAACTTTTAAC
Found at i:9683612 original size:22 final size:21
Alignment explanation
Indices: 9683579--9683619 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
9683569 TTTATTACAT
9683579 TTATATTTTTTATGTTTTTAAA
1 TTATATTTTTTAT-TTTTTAAA
9683601 TTAT-TTTATTTATTTTTTA
1 TTATATTT-TTTATTTTTTA
9683620 TTAAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (21 bp):
TTATATTTTTTATTTTTTAAA
Found at i:9684240 original size:17 final size:15
Alignment explanation
Indices: 9684204--9684242 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
9684194 TCATCAATTC
9684204 TTTTTTTTTTTTTTA
1 TTTTTTTTTTTTTTA
*
9684219 CTTTTGTTTTTTATTTA
1 -TTTT-TTTTTTTTTTA
9684236 TTTTTTT
1 TTTTTTT
9684243 AAAATATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 8 0.38
17 10 0.48
ACGTcount: A:0.08, C:0.03, G:0.03, T:0.87
Consensus pattern (15 bp):
TTTTTTTTTTTTTTA
Found at i:9685472 original size:16 final size:16
Alignment explanation
Indices: 9685443--9685478 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
9685433 TAATAATCAT
9685443 TAAATAATCAAATAAA
1 TAAATAATCAAATAAA
* *
9685459 TAAATTATCCAATAAA
1 TAAATAATCAAATAAA
9685475 TAAA
1 TAAA
9685479 AATATAACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (16 bp):
TAAATAATCAAATAAA
Found at i:9686023 original size:3 final size:3
Alignment explanation
Indices: 9686015--9686055 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
9686005 TTACCTTTTG
9686015 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
9686056 TAGGTGTAGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:9690131 original size:3 final size:3
Alignment explanation
Indices: 9690123--9690147 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
9690113 CCTTAAATAC
9690123 CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT C
9690148 CCTCGGCCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:9691065 original size:25 final size:26
Alignment explanation
Indices: 9691031--9691081 Score: 95
Period size: 25 Copynumber: 2.0 Consensus size: 26
9691021 ATTTAGATAG
9691031 TTAAAATTAATAAAA-AAAATTAAAA
1 TTAAAATTAATAAAAGAAAATTAAAA
9691056 TTAAAATTAATAAAAGAAAATTAAAA
1 TTAAAATTAATAAAAGAAAATTAAAA
9691082 AAAAATAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 15 0.60
26 10 0.40
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (26 bp):
TTAAAATTAATAAAAGAAAATTAAAA
Found at i:9691075 original size:14 final size:12
Alignment explanation
Indices: 9691033--9691086 Score: 63
Period size: 13 Copynumber: 4.2 Consensus size: 12
9691023 TTAGATAGTT
9691033 AAAATTAATAAAA
1 AAAATTAA-AAAA
**
9691046 AAAATTAAAATT
1 AAAATTAAAAAA
9691058 AAAATTAATAAAA
1 AAAATTAA-AAAA
9691071 GAAAATTAAAAAA
1 -AAAATTAAAAAA
9691084 AAA
1 AAA
9691087 TAATGATTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
12 13 0.37
13 14 0.40
14 8 0.23
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (12 bp):
AAAATTAAAAAA
Found at i:9691086 original size:25 final size:25
Alignment explanation
Indices: 9691033--9691087 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
9691023 TTAGATAGTT
*
9691033 AAAATTAATAAAAAAAATTAAAATT
1 AAAATTAATAAAAAAAATTAAAATA
9691058 AAAATTAATAAAAGAAAATTAAAA-A
1 AAAATTAATAAAA-AAAATTAAAATA
9691083 AAAAT
1 AAAAT
9691088 AATGATTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 18 0.64
26 10 0.36
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (25 bp):
AAAATTAATAAAAAAAATTAAAATA
Found at i:9691649 original size:23 final size:24
Alignment explanation
Indices: 9691623--9691667 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
9691613 TGTTTATATA
*
9691623 TTTTTA-TTGTATTTAAATAAAAT
1 TTTTTATTTGTATCTAAATAAAAT
9691646 TTTTTATTTGTATCTAAATAAA
1 TTTTTATTTGTATCTAAATAAA
9691668 TCATTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (24 bp):
TTTTTATTTGTATCTAAATAAAAT
Found at i:9691820 original size:30 final size:28
Alignment explanation
Indices: 9691771--9691826 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
9691761 TTTGAATGTA
*
9691771 AATAAAAATAAAAATTTTATTTAAATTT
1 AATAAAAATAAAAATTTTATCTAAATTT
*
9691799 AATAAAAATATAATGATTTTATCTAAAT
1 AATAAAAATA-AA-AATTTTATCTAAAT
9691827 AAAATGATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 10 0.42
29 2 0.08
30 12 0.50
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (28 bp):
AATAAAAATAAAAATTTTATCTAAATTT
Found at i:9691933 original size:2 final size:2
Alignment explanation
Indices: 9691928--9691952 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9691918 ATATTTGATG
9691928 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 A
9691953 ATGGCGGAGT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9694755 original size:2 final size:2
Alignment explanation
Indices: 9694748--9694778 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9694738 TTGCTTTTTA
9694748 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
9694779 GTGACCTGTC
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:9711186 original size:16 final size:16
Alignment explanation
Indices: 9711144--9711199 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
9711134 TAATAGTAGG
9711144 AATTT-TTTAAATTATA
1 AATTTATTTAAATT-TA
**
9711160 AA-TTAGATAAATTTA
1 AATTTATTTAAATTTA
9711175 AATTTATTTAAATGTTA
1 AATTTATTTAAAT-TTA
*
9711192 AAATTATT
1 AATTTATT
9711200 AAGATAATAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
15 6 0.19
16 16 0.50
17 10 0.31
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (16 bp):
AATTTATTTAAATTTA
Found at i:9711954 original size:21 final size:21
Alignment explanation
Indices: 9711908--9711955 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
9711898 ATATATGTGT
*
9711908 TTTTATTTTTTTTTTAAAATAA
1 TTTTA-TTTTTATTTAAAATAA
* *
9711930 -TTTATTTTTATTTGATATAA
1 TTTTATTTTTATTTAAAATAA
9711950 TTTTAT
1 TTTTAT
9711956 AGGTGTATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTTATTTTTATTTAAAATAA
Found at i:9712110 original size:22 final size:20
Alignment explanation
Indices: 9712071--9712109 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
9712061 ATATGATAAA
*
9712071 TTTTAAAAATTTAAATATAC
1 TTTTAAAAAATTAAATATAC
9712091 TTTTAAAAAAATT-AATATA
1 TTTT-AAAAAATTAAATATA
9712110 TGAATATATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (20 bp):
TTTTAAAAAATTAAATATAC
Found at i:9713455 original size:16 final size:16
Alignment explanation
Indices: 9713434--9713469 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
9713424 TAAATATATA
9713434 AAAATAATAATTTTTT
1 AAAATAATAATTTTTT
9713450 AAAATAATAATTTTTT
1 AAAATAATAATTTTTT
9713466 AAAA
1 AAAA
9713470 ATTTATTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AAAATAATAATTTTTT
Found at i:9713611 original size:30 final size:29
Alignment explanation
Indices: 9713574--9713661 Score: 131
Period size: 30 Copynumber: 3.0 Consensus size: 29
9713564 TTTTATTATA
*
9713574 ATCAATTAAATTTTTAAATATTTATTTTT
1 ATCAATTAAATTTTTAAATATTTGTTTTT
* *
9713603 ATTCAATTAAATCTTTAAATATCTGTTTTT
1 A-TCAATTAAATTTTTAAATATTTGTTTTT
9713633 ATCTAATTAAATTTTTAAATATTTGTTTT
1 ATC-AATTAAATTTTTAAATATTTGTTTT
9713662 CACTTAATTA
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
29 3 0.06
30 49 0.94
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (29 bp):
ATCAATTAAATTTTTAAATATTTGTTTTT
Found at i:9713670 original size:30 final size:29
Alignment explanation
Indices: 9713577--9713672 Score: 129
Period size: 30 Copynumber: 3.2 Consensus size: 29
9713567 TATTATAATC
*
9713577 AATTAAATTTTTAAATATTTATTTTTATT
1 AATTAAATTTTTAAATATTTGTTTTTATT
* *
9713606 CAATTAAATCTTTAAATATCTGTTTTTATCT
1 -AATTAAATTTTTAAATATTTGTTTTTAT-T
*
9713637 AATTAAATTTTTAAATATTTGTTTTCACTT
1 AATTAAATTTTTAAATATTTGTTTTTA-TT
9713667 AATTAA
1 AATTAA
9713673 TCTCTTAAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
30 56 0.97
31 2 0.03
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.55
Consensus pattern (29 bp):
AATTAAATTTTTAAATATTTGTTTTTATT
Found at i:9719427 original size:12 final size:12
Alignment explanation
Indices: 9719410--9719434 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9719400 TGGTTTTTGA
9719410 AAAAAAAAGAAT
1 AAAAAAAAGAAT
9719422 AAAAAAAAGAAT
1 AAAAAAAAGAAT
9719434 A
1 A
9719435 GGGCAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (12 bp):
AAAAAAAAGAAT
Found at i:9723922 original size:32 final size:32
Alignment explanation
Indices: 9723881--9723950 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
9723871 ATGGCAACAA
*
9723881 ATTTTTTTAGAAATATTCCCTTTTGATGAATC
1 ATTTTTTTAGAAATATTCCCTTTTAATGAATC
*
9723913 ATTTTTTTAGAAGTATTCCCTTTTAATGAATC
1 ATTTTTTTAGAAATATTCCCTTTTAATGAATC
9723945 ATTTTT
1 ATTTTT
9723951 CTTTTGTAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.27, C:0.11, G:0.09, T:0.53
Consensus pattern (32 bp):
ATTTTTTTAGAAATATTCCCTTTTAATGAATC
Found at i:9725245 original size:23 final size:23
Alignment explanation
Indices: 9725216--9725268 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
9725206 AGTTTTCTAT
* *
9725216 TTTTGAACAATTGAAACTGTTCA
1 TTTTGAACAATTAAAACTATTCA
* *
9725239 TTTTGAATAGTTAAAACTATTCA
1 TTTTGAACAATTAAAACTATTCA
9725262 TTTTGAA
1 TTTTGAA
9725269 TAGACTTATC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.43
Consensus pattern (23 bp):
TTTTGAACAATTAAAACTATTCA
Found at i:9725578 original size:16 final size:17
Alignment explanation
Indices: 9725541--9725575 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
9725531 ATCAAACTTG
* *
9725541 GGTTTTTTTTTTAATTT
1 GGTTTGTTTTTAAATTT
9725558 GGTTTGTTTTTAAATTT
1 GGTTTGTTTTTAAATTT
9725575 G
1 G
9725576 TTTTACTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.14, C:0.00, G:0.17, T:0.69
Consensus pattern (17 bp):
GGTTTGTTTTTAAATTT
Found at i:9741939 original size:185 final size:183
Alignment explanation
Indices: 9741577--9741941 Score: 453
Period size: 183 Copynumber: 2.0 Consensus size: 183
9741567 TACTACATAC
* * * ** *
9741577 TCTAGAAACTTCTTAAACCCTAGATCTTAGCTTTACCATCGGCAAAGGGAAGCATATCAAATTTC
1 TCTAAAAACTTCTTAAACCCTAGATCTTAGCTTCACCATCGACAAAGAAAAGCATATCAAATTAC
* * *
9741642 ATCTAACTCTTATAACATTCTAGAAACTTTTAGAAGCCTAGATCTTAGCTCCATCATTAGTAATA
66 ATCTAACTCTAATAACATTCTAGAAACTTTTAGAAGCCTAGATCTTAGCTCCATCATCAGTAACA
* *
9741707 TCAAAATGCATAGATCAATGGATTTGAAGTAAAATAAAGGCAAAGATAAACAT
131 TCAAAATGCATAGATCAATGAATTTGAAGTAAAATAAAAGCAAAGATAAACAT
* * ** *
9741760 TCTAAAAACTTTTTAAACCCTAGATCTTAGCTTCACCATCGACAAAGAAAAGCATGTCATGTTAG
1 TCTAAAAACTTCTTAAACCCTAGATCTTAGCTTCACCATCGACAAAGAAAAGCATATCAAATTAC
* *** * *
9741825 ATCTAACTCTAATAAGTATTCTAGAAACTTTTAGCCTCTTAGATCTTAGCTCTAT-ATCAGTAAA
66 ATCTAACTCTAATAA-CATTCTAGAAACTTTTAGAAGCCTAGATCTTAGCTCCATCATCAGT--A
*** * *
9741889 ACATCAAAATGCATAGATTGGTTAATTTGAAGTAAAATAAAAGTAAAGATAAA
128 ACATCAAAATGCATAGATCAATGAATTTGAAGTAAAATAAAAGCAAAGATAAA
9741942 AGATTTACCT
Statistics
Matches: 152, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
183 73 0.48
184 33 0.22
185 46 0.30
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (183 bp):
TCTAAAAACTTCTTAAACCCTAGATCTTAGCTTCACCATCGACAAAGAAAAGCATATCAAATTAC
ATCTAACTCTAATAACATTCTAGAAACTTTTAGAAGCCTAGATCTTAGCTCCATCATCAGTAACA
TCAAAATGCATAGATCAATGAATTTGAAGTAAAATAAAAGCAAAGATAAACAT
Found at i:9742133 original size:14 final size:14
Alignment explanation
Indices: 9742095--9742134 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
9742085 AGTGAAAAAG
*
9742095 ATGGATAAAAGTAA
1 ATGGATAAAAATAA
* *
9742109 ATGGTTTAAAATAA
1 ATGGATAAAAATAA
9742123 ATGGATAAAAAT
1 ATGGATAAAAAT
9742135 GATGAGGTTA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.17, T:0.28
Consensus pattern (14 bp):
ATGGATAAAAATAA
Found at i:9749320 original size:20 final size:21
Alignment explanation
Indices: 9749295--9749334 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
9749285 ATTAATTTTT
9749295 ATTTTT-TATATTTGAGATCG
1 ATTTTTATATATTTGAGATCG
*
9749315 ATTTTTAATTTATTTGAGAT
1 ATTTTT-ATATATTTGAGAT
9749335 ATTCCAACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
22 11 0.65
ACGTcount: A:0.28, C:0.03, G:0.12, T:0.57
Consensus pattern (21 bp):
ATTTTTATATATTTGAGATCG
Found at i:9754110 original size:17 final size:18
Alignment explanation
Indices: 9754079--9754143 Score: 66
Period size: 17 Copynumber: 3.8 Consensus size: 18
9754069 ATCAATTTAA
9754079 AAATAAAATTATATTAAAT
1 AAAT-AAATTATATTAAAT
9754098 AAATAAATT-TATTAAAT
1 AAATAAATTATATTAAAT
** *
9754115 ATTTAAA-T-TATT-GAT
1 AAATAAATTATATTAAAT
9754130 AAATAAATTATATT
1 AAATAAATTATATT
9754144 TAATTCATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
15 7 0.18
16 6 0.15
17 17 0.44
18 5 0.13
19 4 0.10
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
AAATAAATTATATTAAAT
Found at i:9759996 original size:3 final size:3
Alignment explanation
Indices: 9759990--9760041 Score: 86
Period size: 3 Copynumber: 17.3 Consensus size: 3
9759980 AAACAAGAAA
* *
9759990 ATG ATG ATG ATG ATG ATG ATG ATA ATG ATG ATG ATG ATG ATT ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
9760038 ATG A
1 ATG A
9760042 AACACATGAG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.37, C:0.00, G:0.29, T:0.35
Consensus pattern (3 bp):
ATG
Found at i:9762526 original size:21 final size:21
Alignment explanation
Indices: 9762483--9762528 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
9762473 TTTTTAGGAC
*
9762483 TTTTATGGATGTTATAGATAT
1 TTTTATGGATGTTATAGACAT
9762504 TTTTATGGATGTTAT-GAACAT
1 TTTTATGGATGTTATAG-ACAT
9762525 TTTT
1 TTTT
9762529 TAGTATTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.26, C:0.02, G:0.17, T:0.54
Consensus pattern (21 bp):
TTTTATGGATGTTATAGACAT
Found at i:9780073 original size:19 final size:20
Alignment explanation
Indices: 9780035--9780075 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
9780025 CAAGAAAAAA
9780035 AAAAGAGAAAAAAAGAAATG
1 AAAAGAGAAAAAAAGAAATG
9780055 AAAAGA-AACAAAAAG-AATG
1 AAAAGAGAA-AAAAAGAAATG
9780074 AA
1 AA
9780076 TAAAAAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.76, C:0.02, G:0.17, T:0.05
Consensus pattern (20 bp):
AAAAGAGAAAAAAAGAAATG
Found at i:9780366 original size:24 final size:24
Alignment explanation
Indices: 9780339--9780388 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
9780329 CTGAGGGATC
9780339 AAGAGGAAAGAGAAATATG-AAG-AA
1 AAGAGGAAA-A-AAATATGTAAGTAA
*
9780363 AAGATGAAAAAAATATGTAAGTAA
1 AAGAGGAAAAAAATATGTAAGTAA
9780387 AA
1 AA
9780389 AACAAAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 7 0.30
23 4 0.17
24 12 0.52
ACGTcount: A:0.64, C:0.00, G:0.22, T:0.14
Consensus pattern (24 bp):
AAGAGGAAAAAAATATGTAAGTAA
Found at i:9781661 original size:18 final size:18
Alignment explanation
Indices: 9781640--9781681 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
9781630 TAAACCTAGA
*
9781640 ATCTTTGCAAATCTTGGG
1 ATCTTTGCAAAACTTGGG
9781658 ATCTTTGCAAAACTTGGG
1 ATCTTTGCAAAACTTGGG
9781676 ATCTTT
1 ATCTTT
9781682 ATGAATCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (18 bp):
ATCTTTGCAAAACTTGGG
Found at i:9781691 original size:10 final size:10
Alignment explanation
Indices: 9781676--9781726 Score: 56
Period size: 10 Copynumber: 5.5 Consensus size: 10
9781666 AAAACTTGGG
9781676 ATCTTTATGA
1 ATCTTTATGA
9781686 ATCTTT-T-A
1 ATCTTTATGA
9781694 ATCTTTATGA
1 ATCTTTATGA
*
9781704 ATCTTGA--A
1 ATCTTTATGA
*
9781712 ACCTTTATGA
1 ATCTTTATGA
9781722 ATCTT
1 ATCTT
9781727 GGAACCTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
8 13 0.39
9 2 0.06
10 18 0.55
ACGTcount: A:0.29, C:0.14, G:0.08, T:0.49
Consensus pattern (10 bp):
ATCTTTATGA
Found at i:9781732 original size:18 final size:18
Alignment explanation
Indices: 9781678--9781736 Score: 82
Period size: 18 Copynumber: 3.3 Consensus size: 18
9781668 AACTTGGGAT
** *
9781678 CTTTATGAATCTTTTAAT
1 CTTTATGAATCTTGAAAC
9781696 CTTTATGAATCTTGAAAC
1 CTTTATGAATCTTGAAAC
*
9781714 CTTTATGAATCTTGGAAC
1 CTTTATGAATCTTGAAAC
9781732 CTTTA
1 CTTTA
9781737 CATGATTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.29, C:0.15, G:0.10, T:0.46
Consensus pattern (18 bp):
CTTTATGAATCTTGAAAC
Found at i:9782099 original size:17 final size:18
Alignment explanation
Indices: 9782079--9782117 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
9782069 TTTAATTTGA
9782079 TTTTGATTTGATTTTA-T
1 TTTTGATTTGATTTTACT
*
9782096 TTTTGGTTTGATTTTACT
1 TTTTGATTTGATTTTACT
9782114 TTTT
1 TTTT
9782118 TAGTCAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.13, C:0.03, G:0.13, T:0.72
Consensus pattern (18 bp):
TTTTGATTTGATTTTACT
Found at i:9783115 original size:23 final size:25
Alignment explanation
Indices: 9783074--9783133 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 25
9783064 GTCATCCTCT
***
9783074 TTTTGGTATTTT-TTATATTTTTATG
1 TTTT-GTATTTTATTATATTCAAATG
9783099 TTTT-TATTTTATT-TATTCAAATG
1 TTTTGTATTTTATTATATTCAAATG
9783122 TTTTGTATTTTA
1 TTTTGTATTTTA
9783134 ATTGGTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 17 0.57
24 9 0.30
25 4 0.13
ACGTcount: A:0.20, C:0.02, G:0.08, T:0.70
Consensus pattern (25 bp):
TTTTGTATTTTATTATATTCAAATG
Found at i:9783304 original size:99 final size:98
Alignment explanation
Indices: 9783194--9783424 Score: 338
Period size: 99 Copynumber: 2.3 Consensus size: 98
9783184 ATTTTCTTAT
* * * * *
9783194 TTTTTCAAAAAAATAAATTCATGAATCCTACCAAATGATTGAAGGATTTTAATTTTGAATTTTGA
1 TTTTTGAAAAAAATAAATT-TTTAATCCTACCAAATGATTGAAGAATTTTAATTTTGAATTATGA
* * *
9783259 ATTCTACTAAACATTTGGAGAATTTCATAATGAA
65 ATTCTACCAAACAATTAGAGAATTTCATAATGAA
* * *
9783293 TTTTTGAAAAAAAGAAACTTTTTAATCCTACTAAATGATTGGAGAATTTTAATTTTGAATTATGA
1 TTTTTGAAAAAAATAAA-TTTTTAATCCTACCAAATGATTGAAGAATTTTAATTTTGAATTATGA
9783358 ATTCTACCAAACAATTAGAGAATTTCATAATGAA
65 ATTCTACCAAACAATTAGAGAATTTCATAATGAA
9783392 TTTTTGAAAAAAAT-AATTTTTAATCCTACCAAA
1 TTTTTGAAAAAAATAAATTTTTAATCCTACCAAA
9783425 CAATTAGAGA
Statistics
Matches: 118, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
97 16 0.14
98 2 0.02
99 98 0.83
100 2 0.02
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (98 bp):
TTTTTGAAAAAAATAAATTTTTAATCCTACCAAATGATTGAAGAATTTTAATTTTGAATTATGAA
TTCTACCAAACAATTAGAGAATTTCATAATGAA
Found at i:9784470 original size:3 final size:3
Alignment explanation
Indices: 9784462--9784540 Score: 158
Period size: 3 Copynumber: 26.3 Consensus size: 3
9784452 TTTAACCTTT
9784462 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9784510 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
9784541 GTTAAATATG
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:9794676 original size:3 final size:3
Alignment explanation
Indices: 9794668--9794700 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
9794658 GAAGCAATAG
9794668 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
9794701 TGGGATAACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:9794758 original size:3 final size:3
Alignment explanation
Indices: 9794750--9794790 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
9794740 CCGCGCTACC
*
9794750 TAA TAA TAA TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
9794791 TATCAACATC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:9802662 original size:21 final size:20
Alignment explanation
Indices: 9802606--9802667 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 20
9802596 TTGATTAATC
* *
9802606 CCTAAAACATGCAAATTAAA
1 CCTAAAACATGTAAATTGAA
*
9802626 CTCTAACAAAAT-TAAATTGAA
1 C-CTAA-AACATGTAAATTGAA
*
9802647 CCTAAGAACATGTAAACTGAA
1 CCTAA-AACATGTAAATTGAA
9802668 TTAACTATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
20 9 0.27
21 20 0.61
22 4 0.12
ACGTcount: A:0.52, C:0.18, G:0.08, T:0.23
Consensus pattern (20 bp):
CCTAAAACATGTAAATTGAA
Found at i:9804251 original size:24 final size:24
Alignment explanation
Indices: 9804210--9804256 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
9804200 ATTTATCATT
9804210 TTGACAACAAGTAAATATATATAA
1 TTGACAACAAGTAAATATATATAA
*
9804234 TTGACTAACAA-TATATATATATA
1 TTGAC-AACAAGTAAATATATATA
9804257 TATTTAGGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (24 bp):
TTGACAACAAGTAAATATATATAA
Found at i:9806621 original size:3 final size:3
Alignment explanation
Indices: 9806613--9806643 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
9806603 TATGTTAATT
*
9806613 TAA TAA TAA GAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
9806644 TCAAATCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:9808010 original size:3 final size:3
Alignment explanation
Indices: 9808004--9808038 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
9807994 TGCTACACCA
9808004 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
9808039 AAGGCCCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:9812406 original size:6 final size:6
Alignment explanation
Indices: 9812395--9812421 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
9812385 CCAAAAGAGG
9812395 GAGGGA GAGGGA GAGGGA GAGGGA GAG
1 GAGGGA GAGGGA GAGGGA GAGGGA GAG
9812422 AGAAGGAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (6 bp):
GAGGGA
Found at i:9820082 original size:22 final size:21
Alignment explanation
Indices: 9820038--9820083 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
9820028 ATTTTAAAAT
** *
9820038 TTTAATAAAAATTATTATGTA
1 TTTAATAAAAATTAAAATATA
9820059 TTTAATAAAAATTAAAAATATA
1 TTTAATAAAAATT-AAAATATA
9820081 TTT
1 TTT
9820084 TATATTTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 13 0.62
22 8 0.38
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
TTTAATAAAAATTAAAATATA
Found at i:9831294 original size:22 final size:22
Alignment explanation
Indices: 9831266--9831313 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
9831256 AGAAAATGTG
* * *
9831266 TTATTTGTTTTTTTAGTTATTT
1 TTATTTGATGTTTTAGTTAATT
*
9831288 TTATTTGATGTTTTATTTAATT
1 TTATTTGATGTTTTAGTTAATT
9831310 TTAT
1 TTAT
9831314 ATTTATTTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (22 bp):
TTATTTGATGTTTTAGTTAATT
Found at i:9833279 original size:27 final size:27
Alignment explanation
Indices: 9833241--9833295 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
9833231 CAAAGTGTGA
9833241 TTAACTTATTATTTAAGATATACTTTT
1 TTAACTTATTATTTAAGATATACTTTT
9833268 TTAACTTATTATTTAAGATATACTTTT
1 TTAACTTATTATTTAAGATATACTTTT
9833295 T
1 T
9833296 GCAAAAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (27 bp):
TTAACTTATTATTTAAGATATACTTTT
Found at i:9836792 original size:74 final size:74
Alignment explanation
Indices: 9836671--9836817 Score: 240
Period size: 74 Copynumber: 2.0 Consensus size: 74
9836661 ACAAAAAGAA
* *
9836671 GAACCGAAAAGAAGCTTGAGCAGCAAGAACGAAAAAAGCTAGCAGGAACCAAAAAATAGTGGAAG
1 GAACCGAAAAGAAGATTGAGCAGCAAGAACGAAAAAAGCTAGCAGGAACCAAAAAATAGTAGAAG
9836736 GCAACAGTG
66 GCAACAGTG
* * * *
9836745 GAACCGAAAAGAAGATTGAGTAGCAAGAACGGAAGAAGCTAGCAGGAACCGAAAAATAGTAGAAG
1 GAACCGAAAAGAAGATTGAGCAGCAAGAACGAAAAAAGCTAGCAGGAACCAAAAAATAGTAGAAG
9836810 GCAACAGT
66 GCAACAGT
9836818 ACAGGGGAAC
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
74 67 1.00
ACGTcount: A:0.48, C:0.15, G:0.28, T:0.09
Consensus pattern (74 bp):
GAACCGAAAAGAAGATTGAGCAGCAAGAACGAAAAAAGCTAGCAGGAACCAAAAAATAGTAGAAG
GCAACAGTG
Found at i:9837452 original size:194 final size:193
Alignment explanation
Indices: 9837085--9837452 Score: 494
Period size: 193 Copynumber: 1.9 Consensus size: 193
9837075 TAACTAAAAT
** *
9837085 AAAAAAGTAAAAATAAAAAAAAATAAAATTTTGGAAATAAATATTAATTATCCAATGATGGAATT
1 AAAAAAGTAAAAATAAAAAAAAATAAAATTTTGGAAATAAATACAAATTATCCAAGGATGGAATT
* *
9837150 TATAAAAATTTCAAATAGTAAATTTTTATAAAATTCTTAGGTGAGAAATTTGTCTAAATTTGACC
66 TATAAAAATTTCAAATAGTAAATTTTTATAAAATTCTTAGATGAGAAATTTCTCTAAATTTGACC
**
9837215 CAAAATGGTGGAATAATTTAGACAGGGTTTCAATAACAATAATTAATATTTATTTTCAATCCA
131 CAAAATGGTGGAATAATTTAGACAGAATTTCAATAACAATAATTAATATTTATTTTCAATCCA
* * * * *
9837278 AAAAAATTAAAAATTATAAAATATAAAATTTTGGAATTAAATACAAATTATCCAAGGAT-GAGAT
1 AAAAAAGTAAAAATAAAAAAAAATAAAATTTTGGAAATAAATACAAATTATCCAAGGATGGA-AT
* * * *
9837342 TTTTAGAAATTTCAAATGGTAAATGTTTTA-AGAATTCTCTAGATGAGAAATTTTCTCTAAATTT
65 TTATAAAAATTTCAAATAGTAAAT-TTTTATAAAATTCT-TAGATGAGAAA-TTTCTCTAAATTT
*
9837406 GACCC-AAATGGTGGAATAATTTAGA-TGAAATTTCAATATA-AATAATT
127 GACCCAAAATGGTGGAATAATTTAGACAG-AATTTCAATA-ACAATAATT
9837453 TTATTGTTTT
Statistics
Matches: 152, Mismatches: 17, Indels: 11
0.84 0.09 0.06
Matches are distributed among these distances:
192 2 0.01
193 82 0.54
194 50 0.33
195 18 0.12
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (193 bp):
AAAAAAGTAAAAATAAAAAAAAATAAAATTTTGGAAATAAATACAAATTATCCAAGGATGGAATT
TATAAAAATTTCAAATAGTAAATTTTTATAAAATTCTTAGATGAGAAATTTCTCTAAATTTGACC
CAAAATGGTGGAATAATTTAGACAGAATTTCAATAACAATAATTAATATTTATTTTCAATCCA
Found at i:9849273 original size:83 final size:82
Alignment explanation
Indices: 9849163--9849739 Score: 660
Period size: 83 Copynumber: 7.0 Consensus size: 82
9849153 AAAGCCATTT
**
9849163 ATTTATTTTCTCAAAGTTTGTTGCCTCTATTTAGAGGAGCCATTTATTTTCTCAAAAGTTTGTTG
1 ATTTATTTTCTCAAAGTTTGTTGCCTCTATTTAGAGGAGCCATTTATTTTCTC-AAAGTTCATTG
*
9849228 CCTCTATTAAGAGGAGCC
65 CCTCTATTTAGAGGAGCC
* * * * **
9849246 ATTTATTTTTTCAAAGTTTATTGCCTCTATTTAGAGGAGCCATTTATTTTTTCAAAGTTCGTTTT
1 ATTTATTTTCTCAAAGTTTGTTGCCTCTATTTAGAGGAGCCATTTATTTTCTCAAAGTTCATTGC
9849311 CTCTATTTAGAGGAGCC
66 CTCTATTTAGAGGAGCC
* * * *
9849328 ATTTATTTTCTCAAAAGTTCGTTGCCTCTATATAAAGGAGCCGTTTATTTTCTCAAAAGTTCAAT
1 ATTTATTTTCTC-AAAGTTTGTTGCCTCTATTTAGAGGAGCCATTTATTTTCTC-AAAGTTC-AT
*
9849393 TGCCTCTATTCAGAGGAGCC
63 TGCCTCTATTTAGAGGAGCC
* * * * *
9849413 ATTTATTTTCTTAAAGTTCGTTGCCTCTATTTAAATGAGCCATTTA-TTTCTTCAAAGGTCATTG
1 ATTTATTTTCTCAAAGTTTGTTGCCTCTATTTAGAGGAGCCATTTATTTTC-TCAAAGTTCATTG
* *
9849477 CCTTTATTTAGAAGAGCC
65 CCTCTATTTAGAGGAGCC
** * * *
9849495 ATTTATTTTCTCAAAAGTTCATTGCCTCTATTCAAATGAGCCA--TATTTTCTCAAAGTTCATTG
1 ATTTATTTTCTC-AAAGTTTGTTGCCTCTATTTAGAGGAGCCATTTATTTTCTCAAAGTTCATTG
*
9849558 CCTCTATTTAAAGGAGCC
65 CCTCTATTTAGAGGAGCC
* * *
9849576 ATATATTTTCTCAAAAGTTTGTTGTCTCTATTTAGAGGAGCCATTTATTTTCTCAAAAGTTTATT
1 ATTTATTTTCTC-AAAGTTTGTTGCCTCTATTTAGAGGAGCCATTTATTTTCTC-AAAGTTCATT
* * *
9849641 GTCTCTATTTAGAGGAACA
64 GCCTCTATTTAGAGGAGCC
* ** * * * *
9849660 ATTTATTTCCTCAAAGTTTGTCACCTTTATTCAGAGGAACCATTTA-TTTCTCAAAGATT-GTTG
1 ATTTATTTTCTCAAAGTTTGTTGCCTCTATTTAGAGGAGCCATTTATTTTCTCAAAG-TTCATTG
* *
9849723 CCTCTGTTTAGAAGAGC
65 CCTCTATTTAGAGGAGC
9849740 TTTGCTTATT
Statistics
Matches: 426, Mismatches: 58, Indels: 22
0.84 0.11 0.04
Matches are distributed among these distances:
81 85 0.20
82 78 0.18
83 160 0.38
84 74 0.17
85 29 0.07
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.42
Consensus pattern (82 bp):
ATTTATTTTCTCAAAGTTTGTTGCCTCTATTTAGAGGAGCCATTTATTTTCTCAAAGTTCATTGC
CTCTATTTAGAGGAGCC
Found at i:9849274 original size:41 final size:41
Alignment explanation
Indices: 9849163--9849739 Score: 640
Period size: 42 Copynumber: 14.0 Consensus size: 41
9849153 AAAGCCATTT
9849163 ATTTATTTTCTCAAAGTTTGTTGCCTCTATTTAGAGGAGCC
1 ATTTATTTTCTCAAAGTTTGTTGCCTCTATTTAGAGGAGCC
*
9849204 ATTTATTTTCTCAAAAGTTTGTTGCCTCTATTAAGAGGAGCC
1 ATTTATTTTCTC-AAAGTTTGTTGCCTCTATTTAGAGGAGCC
* *
9849246 ATTTATTTTTTCAAAGTTTATTGCCTCTATTTAGAGGAGCC
1 ATTTATTTTCTCAAAGTTTGTTGCCTCTATTTAGAGGAGCC
* * **
9849287 ATTTATTTTTTCAAAGTTCGTTTTCTCTATTTAGAGGAGCC
1 ATTTATTTTCTCAAAGTTTGTTGCCTCTATTTAGAGGAGCC
* * *
9849328 ATTTATTTTCTCAAAAGTTCGTTGCCTCTATATAAAGGAGCC
1 ATTTATTTTCTC-AAAGTTTGTTGCCTCTATTTAGAGGAGCC
* ** *
9849370 GTTTATTTTCTCAAAAGTTCAATTGCCTCTATTCAGAGGAGCC
1 ATTTATTTTCTC-AAAGTT-TGTTGCCTCTATTTAGAGGAGCC
* * * *
9849413 ATTTATTTTCTTAAAGTTCGTTGCCTCTATTTAAATGAGCC
1 ATTTATTTTCTCAAAGTTTGTTGCCTCTATTTAGAGGAGCC
* ** * *
9849454 ATTTA-TTTCTTCAAAGGTCATTGCCTTTATTTAGAAGAGCC
1 ATTTATTTTC-TCAAAGTTTGTTGCCTCTATTTAGAGGAGCC
** * * *
9849495 ATTTATTTTCTCAAAAGTTCATTGCCTCTATTCAAATGAGCC
1 ATTTATTTTCTC-AAAGTTTGTTGCCTCTATTTAGAGGAGCC
** *
9849537 A--TATTTTCTCAAAGTTCATTGCCTCTATTTAAAGGAGCC
1 ATTTATTTTCTCAAAGTTTGTTGCCTCTATTTAGAGGAGCC
* *
9849576 ATATATTTTCTCAAAAGTTTGTTGTCTCTATTTAGAGGAGCC
1 ATTTATTTTCTC-AAAGTTTGTTGCCTCTATTTAGAGGAGCC
* * * *
9849618 ATTTATTTTCTCAAAAGTTTATTGTCTCTATTTAGAGGAACA
1 ATTTATTTTCTC-AAAGTTTGTTGCCTCTATTTAGAGGAGCC
* ** * * *
9849660 ATTTATTTCCTCAAAGTTTGTCACCTTTATTCAGAGGAACC
1 ATTTATTTTCTCAAAGTTTGTTGCCTCTATTTAGAGGAGCC
* * *
9849701 ATTTA-TTTCTCAAAGATTGTTGCCTCTGTTTAGAAGAGC
1 ATTTATTTTCTCAAAGTTTGTTGCCTCTATTTAGAGGAGC
9849740 TTTGCTTATT
Statistics
Matches: 463, Mismatches: 64, Indels: 19
0.85 0.12 0.03
Matches are distributed among these distances:
39 28 0.06
40 38 0.08
41 178 0.38
42 191 0.41
43 28 0.06
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.42
Consensus pattern (41 bp):
ATTTATTTTCTCAAAGTTTGTTGCCTCTATTTAGAGGAGCC
Found at i:9853164 original size:14 final size:13
Alignment explanation
Indices: 9853131--9853160 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
9853121 TTGTATAAAT
9853131 ATTATAGAAAAAA
1 ATTATAGAAAAAA
9853144 ATTATAGAAAAAA
1 ATTATAGAAAAAA
9853157 ATTA
1 ATTA
9853161 ATAGCATACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (13 bp):
ATTATAGAAAAAA
Found at i:9868404 original size:2 final size:2
Alignment explanation
Indices: 9868393--9868428 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
9868383 CAGATCATGC
9868393 AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9868429 TAAGGTGAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9869207 original size:15 final size:15
Alignment explanation
Indices: 9869173--9869201 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9869163 TATTAAATTC
9869173 AAATTATATATTCAT
1 AAATTATATATTCAT
9869188 AAATTATA-ATTCAT
1 AAATTATATATTCAT
9869202 TTAATTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (15 bp):
AAATTATATATTCAT
Found at i:9869323 original size:13 final size:13
Alignment explanation
Indices: 9869305--9869346 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
9869295 AATATTCTTA
9869305 TTAAATTAATATT
1 TTAAATTAATATT
* *
9869318 TTAAATTAAAATA
1 TTAAATTAATATT
9869331 TTAAA-TAATAATT
1 TTAAATTAAT-ATT
9869344 TTA
1 TTA
9869347 TTAATATAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 3 0.12
13 21 0.88
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTAAATTAATATT
Found at i:9869355 original size:59 final size:54
Alignment explanation
Indices: 9869219--9869367 Score: 127
Period size: 59 Copynumber: 2.6 Consensus size: 54
9869209 AAAAATAATT
* * * *
9869219 TAATAATTTTAATTTAATATAATATTTATAAAATATTATTTTTAATATAAATTATA
1 TAATAATTTT-A-TTAATATAATATTTATAAAATAATATTTTAAATAAAAATTAAA
** * *
9869275 TCTTAATTATATATAACTATAATATTCTTATTAAATTAATATTTTAAATTAAAATATTAAA
1 TAATAATTTTAT-TAA-TATAATA-T-TTA-TAAAATAATATTTTAAA-TAAAA-ATTAAA
**
9869336 TAATAATTTTATTAATATAATAAATATAAAAT
1 TAATAATTTTATTAATATAATATTTATAAAAT
9869368 TAAAATTAAA
Statistics
Matches: 72, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
54 1 0.01
55 4 0.06
56 19 0.26
57 3 0.04
58 3 0.04
59 21 0.29
60 7 0.10
61 14 0.19
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (54 bp):
TAATAATTTTATTAATATAATATTTATAAAATAATATTTTAAATAAAAATTAAA
Found at i:9877437 original size:3 final size:3
Alignment explanation
Indices: 9877429--9877468 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
9877419 GCCTTCCCCT
* *
9877429 CCA CCA CCA CCA CCA CCA CCA CCA CCA TCA CAA CCA CCA C
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA C
9877469 TGTCACCTCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.35, C:0.62, G:0.00, T:0.03
Consensus pattern (3 bp):
CCA
Found at i:9879419 original size:12 final size:12
Alignment explanation
Indices: 9879402--9879426 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9879392 AGTAACTTGA
9879402 TGATGTAAAAAC
1 TGATGTAAAAAC
9879414 TGATGTAAAAAC
1 TGATGTAAAAAC
9879426 T
1 T
9879427 AACTGGTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (12 bp):
TGATGTAAAAAC
Found at i:9880932 original size:190 final size:183
Alignment explanation
Indices: 9880574--9880948 Score: 457
Period size: 190 Copynumber: 2.0 Consensus size: 183
9880564 GCACTCATTT
* *
9880574 TTAATCCTTTCTTTTCTTGGATACCAACATATCCAGTATGCTATCTTATCTCAACTACACATCTT
1 TTAATCCTATCTTTTCTTGGATACCAACATATCCAGTATGCTATCTTATCTCAACTACACATCTC
* ** * * *
9880639 TTTCTGATATTGGCTCTTAGTTGCCTAACATTGAGTTCCAGCATTCATTTTTGGCCTTATATCTT
66 TTGCCAATATTGGCTCTTAGTTGCCTAACATTGAATTCCACCATTCATTGTTGGCC-TATATCTT
* *
9880704 TGTCATATGGAATTTCTCTTAATCATATTACTATGAAGTAGTGGATACAAAATA
130 TGTCATATAGAATTTCTCTTAATCATATTACCATGAAGTAGTGGATACAAAATA
* * *
9880758 TTAATCCTATCTTTTCTTGTATACCAGC-TCATCCATTATAGCTATCTTATCTCAACTACACTCA
1 TTAATCCTATCTTTTCTTGGATACCAACAT-ATCCAGTAT-GCTATCTTATCTCAACTACA--CA
* *
9880822 TCTCTTGCCAATGTTGGTTCTTAGAATAGTTGCCTAACATTGAATTCCACCATTCATTGTTGGCC
62 TCTCTTGCCAATATTGGCTC-T----TAGTTGCCTAACATTGAATTCCACCATTCATTGTTGGCC
* ** * * *
9880887 -ATATTTTTGTTGTGTAGAATTTCTCTTAATCATATTTCCATGAAGTGGTGGATACAAAATA
122 TATATCTTTGTCATATAGAATTTCTCTTAATCATATTACCATGAAGTAGTGGATACAAAATA
9880948 T
1 T
9880949 ATGTGACAAG
Statistics
Matches: 161, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
183 1 0.01
184 33 0.20
185 20 0.12
187 16 0.10
188 1 0.01
190 54 0.34
192 36 0.22
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.41
Consensus pattern (183 bp):
TTAATCCTATCTTTTCTTGGATACCAACATATCCAGTATGCTATCTTATCTCAACTACACATCTC
TTGCCAATATTGGCTCTTAGTTGCCTAACATTGAATTCCACCATTCATTGTTGGCCTATATCTTT
GTCATATAGAATTTCTCTTAATCATATTACCATGAAGTAGTGGATACAAAATA
Found at i:9886429 original size:2 final size:2
Alignment explanation
Indices: 9886422--9886472 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
9886412 AAGTGGCATG
* * *
9886422 AT AT AT AT AC AT AT AC AT GT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9886464 AT AT AT AT A
1 AT AT AT AT A
9886473 CACACACACA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:9886477 original size:2 final size:2
Alignment explanation
Indices: 9886472--9886496 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9886462 ATATATATAT
9886472 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
9886497 TACATACTTG
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:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:9886550 original size:2 final size:2
Alignment explanation
Indices: 9886543--9886579 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
9886533 GTCTGTGTAT
* *
9886543 GA GA GA GA GA GT GA GA GA GT GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
9886580 GAATGAGTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.43, C:0.00, G:0.51, T:0.05
Consensus pattern (2 bp):
GA
Found at i:9888628 original size:31 final size:29
Alignment explanation
Indices: 9888565--9888630 Score: 78
Period size: 31 Copynumber: 2.2 Consensus size: 29
9888555 AACACCTATA
9888565 ATTTTTAAATTTAAAAAAATTTTAATTAG
1 ATTTTTAAATTTAAAAAAATTTTAATTAG
* * * *
9888594 ATTTTTAATTATTAAAAATTATTTTACTTTG
1 ATTTTTAAAT-TTAAAAA-AATTTTAATTAG
9888625 ATTTTT
1 ATTTTT
9888631 TTCATTTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 9 0.29
30 7 0.23
31 15 0.48
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (29 bp):
ATTTTTAAATTTAAAAAAATTTTAATTAG
Found at i:9888740 original size:30 final size:31
Alignment explanation
Indices: 9888706--9888766 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
9888696 GTGATTAATG
* *
9888706 AAAAATCAAA-ATAAAATTATATTAAAATTT
1 AAAAATCAAAGAAAAAACTATATTAAAATTT
9888736 AAAAATCAAAGAAAAAACTATATTAAAATTT
1 AAAAATCAAAGAAAAAACTATATTAAAATTT
9888767 TATTTATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 10 0.36
31 18 0.64
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.30
Consensus pattern (31 bp):
AAAAATCAAAGAAAAAACTATATTAAAATTT
Found at i:9888960 original size:18 final size:19
Alignment explanation
Indices: 9888929--9888970 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
9888919 TTTAAAAGCC
*
9888929 AAAAA-ATTATTTTTTATT
1 AAAAATATTATTTTTAATT
9888947 AAAAATATTA-TTTTAATT
1 AAAAATATTATTTTTAATT
*
9888965 ATAAAT
1 AAAAAT
9888971 CATAGTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AAAAATATTATTTTTAATT
Found at i:9889478 original size:14 final size:14
Alignment explanation
Indices: 9889461--9889491 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
9889451 ATTTTTTCTC
*
9889461 TTTTATAAAATGTA
1 TTTTATAAAATATA
9889475 TTTTATAAAATATA
1 TTTTATAAAATATA
9889489 TTT
1 TTT
9889492 AAAAAGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (14 bp):
TTTTATAAAATATA
Found at i:9889738 original size:29 final size:29
Alignment explanation
Indices: 9889685--9889745 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
9889675 TATCTATTTT
9889685 TTATTTAAAACAAAAATCTATCAAATA-AA
1 TTATTTAAAACAAAAA-CTATCAAATATAA
*
9889714 TTATATTACAACAAAAA-TATGCAAATATAA
1 TTAT-TTAAAACAAAAACTAT-CAAATATAA
9889744 TT
1 TT
9889746 TTAAATTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 3 0.11
29 10 0.36
30 15 0.54
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (29 bp):
TTATTTAAAACAAAAACTATCAAATATAA
Found at i:9891832 original size:35 final size:35
Alignment explanation
Indices: 9891793--9891861 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 35
9891783 TATATAAACC
*
9891793 AAATGTTTTCTGAGCATAAATATACAACTGACTTT
1 AAATGTTTTCTGAGCATAAATATACAACTAACTTT
* * * *
9891828 AAATGTTTTTTGGGTATAAATCTACAACTAACTT
1 AAATGTTTTCTGAGCATAAATATACAACTAACTT
9891862 GACATATACA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (35 bp):
AAATGTTTTCTGAGCATAAATATACAACTAACTTT
Found at i:9893141 original size:63 final size:61
Alignment explanation
Indices: 9893074--9893213 Score: 156
Period size: 63 Copynumber: 2.3 Consensus size: 61
9893064 TTTATGAGGG
** * * * *
9893074 GATTATTGAAGGTGTTGTCTGCCAAAATTACCTTTAGTAATTCCCTATCAATTTTTTTA-ACAA
1 GATTATTGAAGGCATTGTCTGCCAAAAATACCTTTAGT-ATTCAC--TCAAATTTTTAAGACAA
* * * *
9893137 GATTATTCAAGCCATTTTCTGCCAAAAATACCTTTAGTATTCACTCAAATTTTTAAGACAG
1 GATTATTGAAGGCATTGTCTGCCAAAAATACCTTTAGTATTCACTCAAATTTTTAAGACAA
9893198 GATTATTGAAGGCATT
1 GATTATTGAAGGCATT
9893214 TTAATTGAAA
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
60 10 0.16
61 17 0.27
62 5 0.08
63 32 0.50
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (61 bp):
GATTATTGAAGGCATTGTCTGCCAAAAATACCTTTAGTATTCACTCAAATTTTTAAGACAA
Found at i:9902593 original size:445 final size:442
Alignment explanation
Indices: 9901758--9902655 Score: 1192
Period size: 445 Copynumber: 2.0 Consensus size: 442
9901748 TAATCACATG
* * * *
9901758 AAAATTTTATTGGAGATTATTGAATATATTTTTTATAAAAAAATACCTTTAATTATAAGCCTTTA
1 AAAATTTTATTAGAGATTATTGAAGATATTTTTTACAAAAAAACACCTTTAATTATAAGCCTTTA
*
9901823 AAATTATCCAACCAACTTATTAAAGGCATTTTTTATAAAAAAAAAAAAAAGCTTTTTCTAATTCT
66 AAATTATCCAACCAACTTATTAAAGGCATATTTTAT--AAAAAAAAAAAAGCTTTTTCTAATTCT
* *
9901888 TAAAAATTATAAAAGGCATTTTCAGTAAAAACCACCTTTAATAATTATGGATTTTCAAAGTTTAT
129 AAAAAATTATAAAAGGCATTTTCACTAAAAACCACCTTTAATAATTATGGATTTTCAAAGTTTAT
* * **
9901953 AACAAATTATTGAAGGCAGTTTTAATAAAAAATGCTTTTAACAATCCGAGAAAATTTTTTAAGAG
194 AACAAATTATTGAAGGCAGTTTTAATAAAAAATGCTTTTAACAATACGAAAAAAAATTTT-AGAG
* * * *
9902018 AAATTATTGAAGGCATTGTTTTCTGCAACCGCATTAAGTAATTATCTACAACTGTGATAAAAATT
258 AAATTATTGAAGACATTGTTATCTGCAACCACATTAAGTAATTATATACAACTGTGATAAAAATT
* * ** * * * *
9902083 ATTAAATGTGTCTTTCTTAGATATACGCCTTTAATAACAGTGTTAAAATTTGTGTGGCAGTATAT
323 ACTAAAGGCATCTATCTTAAATATACGCCTTCAATAACAGTATTAAAATTTGTGTGGCAGTATAT
* * * * *
9902148 AGAAGGTATTTTACAGT-GAAAAATGCCTTTAATAATTTTCAAAATTTTTAGTGAA
388 AAAAGGCATTTTACAATAG-AAAATGCCTTTAATAATTTTCAAAATATTTAATGAA
* * *
9902203 AAAATTTTATTAGAGATTATTGAAGGTATTTTTTACAAAAAAGACGCCTTTAATTATAAGCTTTT
1 AAAATTTTATTAGAGATTATTGAAGATATTTTTTACAAAAAA-ACACCTTTAATTATAAGCCTTT
* * *
9902268 AAAATTGTCCAACCAACTTATTAAAGGCGTATTTTAT-AAAAAAAAAATGCTTTTTCTAATTCTA
65 AAAATTATCCAACCAACTTATTAAAGGCATATTTTATAAAAAAAAAAAAGCTTTTTCTAATTCTA
* *
9902332 AAAAATTATAAAAGGCGTTTTCACTAAAAAATCA-CTTTCAATAATTATGGATTTTCAAAGTTTA
130 AAAAATTATAAAAGGCATTTTCACT-AAAAACCACCTTT-AATAATTATGGATTTTCAAAGTTTA
* * * * * *
9902396 TAATAAATTATTGAAGGCATTTTATAATTAAAGATGCTTTTAATAATTAGGAAAAAAAATTTT-G
193 TAACAAATTATTGAAGGCAGTTT-TAATAAAAAATGCTTTTAACAA-TACGAAAAAAAATTTTAG
* * * * *
9902460 GGAAATTATTGAAGACGTTGTTATCTGCAACCACCTTTAGTAATTATATACAAACTGTGATAGAA
256 AGAAATTATTGAAGACATTGTTATCTGCAACCACATTAAGTAATTATATAC-AACTGTGATAAAA
* * * **
9902525 ATTGCTAAAGGCATCTATCTTAAATATACGCCTTCAATAATAGTATTACAATTTGTGTGGTGGTA
320 ATTACTAAAGGCATCTATCTTAAATATACGCCTTCAATAACAGTATTAAAATTTGTGTGGCAGTA
* *
9902590 TATAAAAGGCATTTTACAATAGAAGATGCCTTTAATAATTTTCAAAATATTTAATGAG
385 TATAAAAGGCATTTTACAATAGAAAATGCCTTTAATAATTTTCAAAATATTTAATGAA
9902648 AAAATTTT
1 AAAATTTT
9902656 GAAGGTATCT
Statistics
Matches: 392, Mismatches: 54, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
443 52 0.13
444 97 0.25
445 178 0.45
446 65 0.17
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.37
Consensus pattern (442 bp):
AAAATTTTATTAGAGATTATTGAAGATATTTTTTACAAAAAAACACCTTTAATTATAAGCCTTTA
AAATTATCCAACCAACTTATTAAAGGCATATTTTATAAAAAAAAAAAAGCTTTTTCTAATTCTAA
AAAATTATAAAAGGCATTTTCACTAAAAACCACCTTTAATAATTATGGATTTTCAAAGTTTATAA
CAAATTATTGAAGGCAGTTTTAATAAAAAATGCTTTTAACAATACGAAAAAAAATTTTAGAGAAA
TTATTGAAGACATTGTTATCTGCAACCACATTAAGTAATTATATACAACTGTGATAAAAATTACT
AAAGGCATCTATCTTAAATATACGCCTTCAATAACAGTATTAAAATTTGTGTGGCAGTATATAAA
AGGCATTTTACAATAGAAAATGCCTTTAATAATTTTCAAAATATTTAATGAA
Found at i:9903250 original size:360 final size:356
Alignment explanation
Indices: 9902455--9903300 Score: 1106
Period size: 360 Copynumber: 2.4 Consensus size: 356
9902445 GGAAAAAAAA
* * *
9902455 TTTTGGGAAATTATTGAAGACGTTGTTATCTGCAACCACCTTTAGTAATTATATACAAACTGTGA
1 TTTTAGGAAATTATTGAAGGCGTTGTTTTCTGCAACCACCTTTAGTAATTATATACAAACTGTGA
** * * *
9902520 TAGAAATTGCTAAAGGCATCTATCTTAAATATACGCCTTCAATAATAGTATTACAATTTGTGTGG
66 TAGAAATTATTAAAGGCATCTATCTTAAATATACGCCTTCAATAACAGTGTTACAATTTGTGTGA
* * ** * *
9902585 TGGTATATAAAAGGCATTTTACAATAGAAGATGCCTTTAATAATTTTCAAAATATTTAATGAGAA
131 CGGTAAATAAAAGGCATTTTACAATAGAAGACACCTTTAATAATTTCCAAAATATTTAATAAGAA
* *
9902650 AATTTTGAAGGTATCTATTATTAACAAACGCCTTCAGTAATGGATTACTAAGTTTAAAGGTATAT
196 AATTTTAAAGGTATCTATTATTAACAAACACCTTCAGTAATGGATTACTAAGTTTAAAGGTATAT
** * * *
9902715 TGAAGGTGCATTTTCTAATAAATGCCTTCCATTACCATCATGATATATTGAAGGTATTTTATAAT
261 TGAAGGTGCATTTTCTAATAAACACCTTCCATTACCATCATGATATATTGAAGGCATCTCATAAT
* *
9902780 AAAATACGTCTTTAATAATCCAAAAAATTTT
326 AAAAGACGCCTTTAATAATCCAAAAAATTTT
* * * *
9902811 TTTTAGGAAAATTATTGAAGGCGTTGTTTTTTGAAACCACCTTTAATAATTATATACAAACTATG
1 TTTTAGG-AAATTATTGAAGGCGTTGTTTTCTGCAACCACCTTTAGTAATTATATACAAACTGTG
* * * *
9902876 ATAGAAATTATTAAAGGCGTCTATCTTAAATATACACATTCAATAACAGTGTTACAAGTTGTGTG
65 ATAGAAATTATTAAAGGCATCTATCTTAAATATACGCCTTCAATAACAGTGTTACAATTTGTGTG
* *
9902941 ACGGTAAATAAAAGGCATTTTACAGTAGAAGACACCTTTAATAA-TTCCAAAAATATTTAGTAAG
130 ACGGTAAATAAAAGGCATTTTACAATAGAAGACACCTTTAATAATTTCC-AAAATATTTAATAAG
* * * *
9903005 AAAATTTTAAAGGTGTGTTTGTTATTAACAAACACCTTCAGTAATGGATTTCTAAGTTTAAAGGT
194 AAAATTTTAAA-G-GTATCTATTATTAACAAACACCTTCAGTAATGGATTACTAAGTTTAAAGGT
* * * * *
9903070 ATATTGAAGGTGCTTTTTTCTAATAAACACCTTCTATTACCATCGT-AGTATATTTAAGGCGTCT
257 ATATTGAAGGTGC-ATTTTCTAATAAACACCTTCCATTACCATCATGA-TATATTGAAGGCATCT
*
9903134 CATAATAAAAGACGCCTTTAATAATCCGAAAAATTTT
320 CATAATAAAAGACGCCTTTAATAATCCAAAAAATTTT
* * * *
9903171 TTTTAAGGAAATTATTGAAGGGGTTATTTTCTGCAATC-GCTTTCAGTAATTA-ACTACAAACTG
1 TTTT-AGGAAATTATTGAAGGCGTTGTTTTCTGCAACCACCTTT-AGTAATTATA-TACAAACTG
* * ** * *
9903234 TGATAGGAATTATTAAAGGCATCTTTCTTGGATATATGCCTTCAATAACAGTGTTAGAATTTGTG
63 TGATAGAAATTATTAAAGGCATCTATCTTAAATATACGCCTTCAATAACAGTGTTACAATTTGTG
9903299 TG
128 TG
9903301 GCGATATGTT
Statistics
Matches: 420, Mismatches: 61, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
356 9 0.02
357 169 0.40
358 1 0.00
359 65 0.15
360 173 0.41
361 3 0.01
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (356 bp):
TTTTAGGAAATTATTGAAGGCGTTGTTTTCTGCAACCACCTTTAGTAATTATATACAAACTGTGA
TAGAAATTATTAAAGGCATCTATCTTAAATATACGCCTTCAATAACAGTGTTACAATTTGTGTGA
CGGTAAATAAAAGGCATTTTACAATAGAAGACACCTTTAATAATTTCCAAAATATTTAATAAGAA
AATTTTAAAGGTATCTATTATTAACAAACACCTTCAGTAATGGATTACTAAGTTTAAAGGTATAT
TGAAGGTGCATTTTCTAATAAACACCTTCCATTACCATCATGATATATTGAAGGCATCTCATAAT
AAAAGACGCCTTTAATAATCCAAAAAATTTT
Found at i:9905399 original size:21 final size:21
Alignment explanation
Indices: 9905373--9905423 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
9905363 TATATGAGAC
9905373 ATCATCGATGGTTAGATGATA
1 ATCATCGATGGTTAGATGATA
9905394 ATCATCGATGGTTAGATGATA
1 ATCATCGATGGTTAGATGATA
9905415 ATCATCGAT
1 ATCATCGAT
9905424 TTAGATTCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (21 bp):
ATCATCGATGGTTAGATGATA
Found at i:9913668 original size:21 final size:22
Alignment explanation
Indices: 9913627--9913669 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
9913617 AACATAAAAG
9913627 ACACATGTAAGAAGTAAAATAA
1 ACACATGTAAGAAGTAAAATAA
*
9913649 ACACATGTAAG-AGTAGAATAA
1 ACACATGTAAGAAGTAAAATAA
9913670 CTTTTGTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.56, C:0.09, G:0.16, T:0.19
Consensus pattern (22 bp):
ACACATGTAAGAAGTAAAATAA
Found at i:9914352 original size:15 final size:16
Alignment explanation
Indices: 9914328--9914360 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9914318 TCAAAAATCT
*
9914328 ATTTT-TTTTTTGAAA
1 ATTTTATTTTTAGAAA
9914343 ATTTTATTTTTAGAAA
1 ATTTTATTTTTAGAAA
9914359 AT
1 AT
9914361 CCCAGTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (16 bp):
ATTTTATTTTTAGAAA
Found at i:9915063 original size:59 final size:60
Alignment explanation
Indices: 9914998--9915153 Score: 164
Period size: 57 Copynumber: 2.7 Consensus size: 60
9914988 AAAAAAAAGG
* * *
9914998 TAAACCTTACCAACATATT-GAAAGTTTAAAATCTTTGAAAAAAATGAATTTTG-CATAAA
1 TAAACCTTACTAACATATTAGAAAGTTT-AAATCTTTGAAAAAAATGAAATTTGTCAAAAA
* * * *
9915057 TAAACCTCACTAATATATTAAAAAGTTTAAAT-TTT---AAAAATGAAATTTGTTAAAAA
1 TAAACCTTACTAACATATTAGAAAGTTTAAATCTTTGAAAAAAATGAAATTTGTCAAAAA
*
9915113 TAAAACCTTACTAACATATTAGAAGGTTTCAAA-CTTTGAAA
1 T-AAACCTTACTAACATATTAGAAAGTTT-AAATCTTTGAAA
9915154 TTATATTTTG
Statistics
Matches: 78, Mismatches: 11, Indels: 14
0.76 0.11 0.14
Matches are distributed among these distances:
55 13 0.17
56 5 0.06
57 23 0.29
58 9 0.12
59 20 0.26
60 7 0.09
61 1 0.01
ACGTcount: A:0.48, C:0.11, G:0.08, T:0.33
Consensus pattern (60 bp):
TAAACCTTACTAACATATTAGAAAGTTTAAATCTTTGAAAAAAATGAAATTTGTCAAAAA
Found at i:9915132 original size:57 final size:58
Alignment explanation
Indices: 9914998--9915133 Score: 145
Period size: 59 Copynumber: 2.3 Consensus size: 58
9914988 AAAAAAAAGG
* * * *
9914998 TAAACCTTACCAACATATT-GAAAGTTTAAAATCTTTGAAAAAAATGAATTTTGCATAAA
1 TAAACCTTACTAACATATTAAAAAGTTTAAAATCTTT--AAAAAATGAAATTTGCAAAAA
* * *
9915057 TAAACCTCACTAATATATTAAAAAGTTT-AAAT-TTT-AAAAATGAAATTTGTTAAAAA
1 TAAACCTTACTAACATATTAAAAAGTTTAAAATCTTTAAAAAATGAAATTTG-CAAAAA
9915113 TAAAACCTTACTAACATATTA
1 T-AAACCTTACTAACATATTA
9915134 GAAGGTTTCA
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
55 13 0.20
56 5 0.08
57 17 0.26
58 3 0.05
59 20 0.31
60 7 0.11
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.34
Consensus pattern (58 bp):
TAAACCTTACTAACATATTAAAAAGTTTAAAATCTTTAAAAAATGAAATTTGCAAAAA
Found at i:9921135 original size:15 final size:15
Alignment explanation
Indices: 9921112--9921145 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
9921102 TTTAATTGAT
*
9921112 ATTTTATTTTAATTC
1 ATTTCATTTTAATTC
9921127 ATTTCATTTTAATTC
1 ATTTCATTTTAATTC
9921142 ATTT
1 ATTT
9921146 AAAAAATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (15 bp):
ATTTCATTTTAATTC
Found at i:9922379 original size:38 final size:39
Alignment explanation
Indices: 9922323--9922433 Score: 104
Period size: 38 Copynumber: 2.9 Consensus size: 39
9922313 ATAAGATACT
* *
9922323 ATATGCATT-TCATTTCATACACATATTAATAAATAGTA-
1 ATATGCATTCT-ATCTCATACACATCTTAATAAATAGTAC
* * *
9922361 ATATGCATTCTATCTCATACATATCTTAATTAGATGGTAC
1 ATATGCATTCTATCTCATACACATCTTAA-TAAATAGTAC
* * *
9922401 ATGTG--TTCTATCTCATGCACATCTCAATAAATA
1 ATATGCATTCTATCTCATACACATCTTAATAAATA
9922434 ATGCATGCAC
Statistics
Matches: 59, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
37 4 0.07
38 43 0.73
39 8 0.14
40 4 0.07
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.39
Consensus pattern (39 bp):
ATATGCATTCTATCTCATACACATCTTAATAAATAGTAC
Found at i:9924328 original size:15 final size:16
Alignment explanation
Indices: 9924294--9924330 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
9924284 TGAGGGCATG
*
9924294 CAAAAAAAGAGAGAGA
1 CAAAAAAAGAGAGAAA
9924310 -AAAAAAAGAGA-AAA
1 CAAAAAAAGAGAGAAA
9924324 CAAAAAA
1 CAAAAAA
9924331 TGATTGTGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 2 0.11
15 17 0.89
ACGTcount: A:0.78, C:0.05, G:0.16, T:0.00
Consensus pattern (16 bp):
CAAAAAAAGAGAGAAA
Found at i:9927144 original size:40 final size:39
Alignment explanation
Indices: 9927066--9927351 Score: 143
Period size: 40 Copynumber: 7.2 Consensus size: 39
9927056 TTTTGAAAGA
* * * * * *
9927066 ATTTCAAGAC-TCTAGGTAGAATTTTAAAATTTTAAATG
1 ATTTTAAGACATCTGGGTAAAATCTTAAATTTTTTAATG
9927104 ATCTTTAAGACATCTGGGTAAAATCTTAAATTTTTTAATG
1 AT-TTTAAGACATCTGGGTAAAATCTTAAATTTTTTAATG
* * * * *
9927144 ATTTTCAAAACCT-TCGAGGCAAAATTTTAGATTTTTTAATG
1 ATTTT-AAGACATCT-G-GGTAAAATCTTAAATTTTTTAATG
* * * *
9927185 ATTTTAAGACTTCTGAGTAAAA-CTTCATATTTTTTAAAG
1 ATTTTAAGACATCTGGGTAAAATCTT-AAATTTTTTAATG
* * * * *
9927224 ATTTCCAAGACATATGGGCAAAA-CTTTAGATTTTTGAATG
1 ATTT-TAAGACATCTGGGTAAAATC-TTAAATTTTTTAATG
* * * ** *
9927264 ATTTCAAGA-ACTTTAGACAAAATCTTAAATTTTTAAAATG
1 ATTTTAAGACA-TCTGGGTAAAATCTTAAATTTTT-TAATG
* * * * * *
9927304 ATTTCAAGA-ACTCCGAGCAAAATCTTAGATTTTTTAGTG
1 ATTTTAAGACA-TCTGGGTAAAATCTTAAATTTTTTAATG
9927343 AATTTTAAG
1 -ATTTTAAG
9927352 TCCTCCAAAC
Statistics
Matches: 195, Mismatches: 40, Indels: 24
0.75 0.15 0.09
Matches are distributed among these distances:
38 5 0.03
39 56 0.29
40 105 0.54
41 29 0.15
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.40
Consensus pattern (39 bp):
ATTTTAAGACATCTGGGTAAAATCTTAAATTTTTTAATG
Found at i:9927205 original size:80 final size:80
Alignment explanation
Indices: 9927085--9927351 Score: 244
Period size: 79 Copynumber: 3.3 Consensus size: 80
9927075 CTCTAGGTAG
* * * * *
9927085 AATTTTAAAATTTTAAATGATCTTTAAGACATCTGGGTAAAATCTTAAATTTTTTAATGATTTTC
1 AATTTTAGATTTTTTAATGAT-TTTAAGACTTCTGAGTAAAATCTTAAATTTTTTAATGATTTTC
9927150 AAAACCTTCGAGGCAA
65 AAAACCTTCGAGGCAA
* * *
9927166 AATTTTAGATTTTTTAATGATTTTAAGACTTCTGAGTAAAA-CTTCATATTTTTTAAAGATTTCC
1 AATTTTAGATTTTTTAATGATTTTAAGACTTCTGAGTAAAATCTT-AAATTTTTTAATGATTTTC
* *
9927230 AAGACATAT-G-GGCAA
65 AAAACCT-TCGAGGCAA
* * * * *
9927245 AACTTTAGATTTTTGAATGATTTCAAGAACTT-T-AGACAAAATCTTAAATTTTTAAAATGA-TT
1 AATTTTAGATTTTTTAATGATTTTAAG-ACTTCTGAG-TAAAATCTTAAATTTTT-TAATGATTT
*
9927307 TCAAGAA-CTCCGA-GCAA
63 TCAA-AACCTTCGAGGCAA
* *
9927324 AATCTTAGATTTTTTAGTGAATTTTAAG
1 AATTTTAGATTTTTTAATG-ATTTTAAG
9927352 TCCTCCAAAC
Statistics
Matches: 150, Mismatches: 26, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
78 2 0.01
79 70 0.47
80 59 0.39
81 19 0.13
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.40
Consensus pattern (80 bp):
AATTTTAGATTTTTTAATGATTTTAAGACTTCTGAGTAAAATCTTAAATTTTTTAATGATTTTCA
AAACCTTCGAGGCAA
Found at i:9927460 original size:22 final size:22
Alignment explanation
Indices: 9927432--9927489 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
9927422 GCATAGTCTC
9927432 TAAGTCTTTCGAGTAAGATTCA
1 TAAGTCTTTCGAGTAAGATTCA
* * *
9927454 TAAGTCTTCCGAGCAAGTTTCA
1 TAAGTCTTTCGAGTAAGATTCA
* *
9927476 TAAGTTTTTTGAGT
1 TAAGTCTTTCGAGT
9927490 TGATTCTATT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.40
Consensus pattern (22 bp):
TAAGTCTTTCGAGTAAGATTCA
Found at i:9927703 original size:8 final size:9
Alignment explanation
Indices: 9927672--9927705 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
9927662 TAATGGCTTA
*
9927672 AAAAAAAAC
1 AAAAAAAAT
9927681 AAAAACAAAT
1 AAAAA-AAAT
9927691 AAAAAAAAT
1 AAAAAAAAT
9927700 AAAAAA
1 AAAAAA
9927706 GGGATAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.88, C:0.06, G:0.00, T:0.06
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:9928225 original size:70 final size:70
Alignment explanation
Indices: 9928151--9928292 Score: 153
Period size: 70 Copynumber: 2.0 Consensus size: 70
9928141 TGATTTACAA
* * * *
9928151 TTCAA-TCCCGATTATCTTTATTACTTAACTTGTTA-CTCAATCCTAGTCATTTTTATTTTTTAA
1 TTCAATTCCC-ATCATCTTTATTACTTAA-TTGGTAGCTCAATCCTAGTCATCTTTATTCTTTAA
*
9928214 CTTATGG
64 CTCATGG
** * ** *
9928221 TTCAATTTTCATCATTTTTATTTTTTAATTGGTAGCTCAGTCCTAGTCATCTTTATTCTTTAACT
1 TTCAATTCCCATCATCTTTATTACTTAATTGGTAGCTCAATCCTAGTCATCTTTATTCTTTAACT
9928286 CATGG
66 CATGG
9928291 TT
1 TT
9928293 TAGTTTTGGT
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
69 5 0.08
70 52 0.88
71 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.08, T:0.51
Consensus pattern (70 bp):
TTCAATTCCCATCATCTTTATTACTTAATTGGTAGCTCAATCCTAGTCATCTTTATTCTTTAACT
CATGG
Found at i:9928226 original size:35 final size:35
Alignment explanation
Indices: 9928187--9928292 Score: 99
Period size: 35 Copynumber: 3.0 Consensus size: 35
9928177 AACTTGTTAC
9928187 TCAATCCTAGTCATTTTTATTTTTTAACTTATGGT
1 TCAATCCTAGTCATTTTTATTTTTTAACTTATGGT
** * * *
9928222 TCAATTTTCA-TCATTTTTATTTTTTAA-TTGGTAGC
1 TCAATCCT-AGTCATTTTTATTTTTTAACTT-ATGGT
* * * *
9928257 TCAGTCCTAGTCATCTTTATTCTTTAACTCATGGT
1 TCAATCCTAGTCATTTTTATTTTTTAACTTATGGT
9928292 T
1 T
9928293 TAGTTTTGGT
Statistics
Matches: 53, Mismatches: 14, Indels: 8
0.71 0.19 0.11
Matches are distributed among these distances:
34 3 0.06
35 48 0.91
36 2 0.04
ACGTcount: A:0.22, C:0.16, G:0.09, T:0.53
Consensus pattern (35 bp):
TCAATCCTAGTCATTTTTATTTTTTAACTTATGGT
Found at i:9928305 original size:35 final size:35
Alignment explanation
Indices: 9928266--9928351 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
9928256 CTCAGTCCTA
* * *
9928266 GTCATCTTTATTCTTTAACTCATGGTTTAGTTTTG
1 GTCATCTTTATTCTTTAACTCATAGCTTAGTCTTG
* * * **
9928301 GTCATTTTTATTCTCTGACTTGTAGCTTAGTCTTG
1 GTCATCTTTATTCTTTAACTCATAGCTTAGTCTTG
9928336 GTCATCTTTATTCTTT
1 GTCATCTTTATTCTTT
9928352 GATTTGTGGT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.15, C:0.16, G:0.14, T:0.55
Consensus pattern (35 bp):
GTCATCTTTATTCTTTAACTCATAGCTTAGTCTTG
Found at i:9928306 original size:70 final size:70
Alignment explanation
Indices: 9928186--9928351 Score: 190
Period size: 70 Copynumber: 2.4 Consensus size: 70
9928176 TAACTTGTTA
* * * * * *
9928186 CTCAATCCTAGTCATTTTTATTTTTTAACTTATGGTTCAATTTTCATCATTTTTATT-TTTTAAT
1 CTCAGTCCTAGTCATCTTTATTCTTTAACTCATGGTTCAATTTTCATCATTTTTATTCTCTGAAT
9928250 TGGTAG
66 T-GTAG
* * ** *
9928256 CTCAGTCCTAGTCATCTTTATTCTTTAACTCATGGTTTAGTTTTGGTCATTTTTATTCTCTGACT
1 CTCAGTCCTAGTCATCTTTATTCTTTAACTCATGGTTCAATTTTCATCATTTTTATTCTCTGAAT
9928321 TGTAG
66 TGTAG
* * *
9928326 CTTAGTCTTGGTCATCTTTATTCTTT
1 CTCAGTCCTAGTCATCTTTATTCTTT
9928352 GATTTGTGGT
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
70 76 0.94
71 5 0.06
ACGTcount: A:0.19, C:0.16, G:0.11, T:0.54
Consensus pattern (70 bp):
CTCAGTCCTAGTCATCTTTATTCTTTAACTCATGGTTCAATTTTCATCATTTTTATTCTCTGAAT
TGTAG
Found at i:9928362 original size:140 final size:140
Alignment explanation
Indices: 9928232--9928493 Score: 303
Period size: 140 Copynumber: 1.9 Consensus size: 140
9928222 TCAATTTTCA
* * * * *
9928232 TCATTTTTATTTTTTAATTGGTAGCTCAGTCCTAGTCATCTTTATTCTTTAAC-TCATGGTTTAG
1 TCATCTTTATTTTTTAATTGATAGCTCAATCCTAGTCATCTTTATTCTTTAACTTCA-GGTTCAA
**** * * * *
9928296 TTTTGGTCATTTTTA-TTCTCTGACTTGTAGCTTAGTCTTGGTCATCTTTATTCTTTGATTTGTG
65 TCCCCGTCATCTTTATTTCT-TAACTTGCAGCTTAGTCTTGATCATCTTTATTCTTTGATTTGTG
*
9928360 GTTTAATAGCAT
129 GTTCAATAGCAT
* * * * * * *
9928372 TTATCTTTATTTTTTAATTTATGGCTCAATCCTGGTTATCTTTATTCTTTGACTTGAGGTTCAAT
1 TCATCTTTATTTTTTAATTGATAGCTCAATCCTAGTCATCTTTATTCTTTAACTTCAGGTTCAAT
9928437 CCCCGTCATCTTTATTTCTTAACTTGCAGCTTAGTCTTGATCATCTTTATTCTTTGA
66 CCCCGTCATCTTTATTTCTTAACTTGCAGCTTAGTCTTGATCATCTTTATTCTTTGA
9928494 CTCATAGTTT
Statistics
Matches: 100, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
140 94 0.94
141 6 0.06
ACGTcount: A:0.18, C:0.16, G:0.13, T:0.52
Consensus pattern (140 bp):
TCATCTTTATTTTTTAATTGATAGCTCAATCCTAGTCATCTTTATTCTTTAACTTCAGGTTCAAT
CCCCGTCATCTTTATTTCTTAACTTGCAGCTTAGTCTTGATCATCTTTATTCTTTGATTTGTGGT
TCAATAGCAT
Found at i:9928381 original size:70 final size:69
Alignment explanation
Indices: 9928301--9928495 Score: 183
Period size: 70 Copynumber: 2.8 Consensus size: 69
9928291 TTTAGTTTTG
* * * * *
9928301 GTCATTTTTATTCTCTGACTTGTAGCTTAGTCTTGGTCATCTTTATTCTTTGATTTGTGGTTTAA
1 GTCATCTTTATT-TCTAACTTGTAGCTTAGTCTTGGTCATCTTTATTCTTTGACTTGAGGTTCAA
*
9928366 TAGCA
65 TACCA
* * * * * * * * * *
9928371 TTTATCTTTATTTTTTAATTTATGGCTCAATCCTGGTTATCTTTATTCTTTGACTTGAGGTTCAA
1 GTCATCTTTA-TTTCTAACTTGTAGCTTAGTCTTGGTCATCTTTATTCTTTGACTTGAGGTTCAA
* *
9928436 TCCCC
65 TACCA
* *
9928441 GTCATCTTTATTTCTTAACTTGCAGCTTAGTCTTGATCATCTTTATTCTTTGACT
1 GTCATCTTTATTTC-TAACTTGTAGCTTAGTCTTGGTCATCTTTATTCTTTGACT
9928496 CATAGTTTAG
Statistics
Matches: 93, Mismatches: 30, Indels: 4
0.73 0.24 0.03
Matches are distributed among these distances:
69 3 0.03
70 88 0.95
71 2 0.02
ACGTcount: A:0.18, C:0.17, G:0.13, T:0.51
Consensus pattern (69 bp):
GTCATCTTTATTTCTAACTTGTAGCTTAGTCTTGGTCATCTTTATTCTTTGACTTGAGGTTCAAT
ACCA
Found at i:9928436 original size:35 final size:36
Alignment explanation
Indices: 9928397--9928495 Score: 96
Period size: 35 Copynumber: 2.8 Consensus size: 36
9928387 AATTTATGGC
* *
9928397 TCAATCCTGGTTATCTTTATTCTTTGACTTG-AGGT
1 TCAATCCTGGTCATCTTTATTCTTTGACTTGCAGCT
** *
9928432 TCAATCCCCGTCATCTTTATT-TCTTAACTTGCAGCT
1 TCAATCCTGGTCATCTTTATTCT-TTGACTTGCAGCT
* * *
9928468 T-AGTCTTGATCATCTTTATTCTTTGACT
1 TCAATCCTGGTCATCTTTATTCTTTGACT
9928496 CATAGTTTAG
Statistics
Matches: 50, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
34 1 0.02
35 44 0.88
36 5 0.10
ACGTcount: A:0.18, C:0.22, G:0.12, T:0.47
Consensus pattern (36 bp):
TCAATCCTGGTCATCTTTATTCTTTGACTTGCAGCT
Found at i:9928506 original size:35 final size:35
Alignment explanation
Indices: 9928467--9928647 Score: 134
Period size: 35 Copynumber: 5.2 Consensus size: 35
9928457 AACTTGCAGC
*
9928467 TTAGTCTTGATCATCTTTATTCTTTGACTCATAGT
1 TTAGTCTTGATCATCTTTATTCTTTGACTCACAGT
* * * *
9928502 TTAGTCTTGATCATCATTATT-TCTTAACTTACAAT
1 TTAGTCTTGATCATCTTTATTCT-TTGACTCACAGT
* * * * * * *
9928537 TCAATCTTGATCATTTTTATTCTTTAACACGCTGT
1 TTAGTCTTGATCATCTTTATTCTTTGACTCACAGT
* * *
9928572 TTAATCCTGATCATTTTTATT-TCTTGACTCACAGT
1 TTAGTCTTGATCATCTTTATTCT-TTGACTCACAGT
* * * *
9928607 TCAGT-TTCAATCATCTTTATTCTTCGACTCGCAGT
1 TTAGTCTT-GATCATCTTTATTCTTTGACTCACAGT
*
9928642 TCAGTC
1 TTAGTC
9928648 GCAATCATTT
Statistics
Matches: 113, Mismatches: 27, Indels: 11
0.75 0.18 0.07
Matches are distributed among these distances:
34 3 0.03
35 108 0.96
36 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.09, T:0.48
Consensus pattern (35 bp):
TTAGTCTTGATCATCTTTATTCTTTGACTCACAGT
Found at i:9928511 original size:18 final size:16
Alignment explanation
Indices: 9928467--9928516 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
9928457 AACTTGCAGC
9928467 TTAGTCTTGATCATCT
1 TTAGTCTTGATCATCT
* *
9928483 TTATTCTTTGACTCATAGT
1 TTAGTC-TTGA-TCAT-CT
9928502 TTAGTCTTGATCATC
1 TTAGTCTTGATCATC
9928517 ATTATTTCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
16 5 0.19
17 8 0.30
18 8 0.30
19 6 0.22
ACGTcount: A:0.20, C:0.18, G:0.12, T:0.50
Consensus pattern (16 bp):
TTAGTCTTGATCATCT
Found at i:9928516 original size:70 final size:71
Alignment explanation
Indices: 9928409--9928732 Score: 215
Period size: 70 Copynumber: 4.6 Consensus size: 71
9928399 AATCCTGGTT
* * * *
9928409 ATCTTTATTCTTTGACT--TGAGGTTCAATCCCCG-TCATCTTTATTTCTTAACTTGCAGCTT-A
1 ATCTTTATTCTTTGACTCAT-A-GTTTAAT-CCTGATCATTTTTATTTCTTAACTTACAGCTTCA
9928470 GTCTTGATC
63 GTCTTGATC
* * ** * *
9928479 ATCTTTATTCTTTGACTCATAGTTTAGTCTTGATCATCATTATTTCTTAACTTACA-ATTCAATC
1 ATCTTTATTCTTTGACTCATAGTTTAATCCTGATCATTTTTATTTCTTAACTTACAGCTTCAGTC
9928543 TTGATC
66 TTGATC
* * * * * *
9928549 ATTTTTATTCTTTAACACGCT-GTTTAATCCTGATCATTTTTATTTCTTGACTCACAG-TTCAGT
1 ATCTTTATTCTTTGACTC-ATAGTTTAATCCTGATCATTTTTATTTCTTAACTTACAGCTTCAGT
*
9928612 -TTCAATC
65 CTT-GATC
* ** * * * * * *
9928619 ATCTTTATTCTTCGACTCGCAGTTCAGTCGC-AATCATTTTTATTT-TCTGACTTGCAAC-TCAG
1 ATCTTTATTCTTTGACTCATAGTTTAATC-CTGATCATTTTTATTTCT-TAACTTACAGCTTCAG
*
9928681 -CCTGATC
64 TCTTGATC
* * *
9928688 ATTTTTATT-TTTCGACTTATAGTTTAATCCTGGTCATTTTTATTT
1 ATCTTTATTCTTT-GACTCATAGTTTAATCCTGATCATTTTTATTT
9928733 ACTGATTTGT
Statistics
Matches: 197, Mismatches: 43, Indels: 29
0.73 0.16 0.11
Matches are distributed among these distances:
68 3 0.02
69 41 0.21
70 149 0.76
71 3 0.02
72 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.10, T:0.48
Consensus pattern (71 bp):
ATCTTTATTCTTTGACTCATAGTTTAATCCTGATCATTTTTATTTCTTAACTTACAGCTTCAGTC
TTGATC
Found at i:9928653 original size:35 final size:35
Alignment explanation
Indices: 9928581--9928670 Score: 112
Period size: 35 Copynumber: 2.6 Consensus size: 35
9928571 TTTAATCCTG
**
9928581 ATCATTTTTATTTCTT-GACTCACAGTTCAGTTTCA
1 ATCATTTTTA-TTCTTCGACTCACAGTTCAGTCGCA
* *
9928616 ATCATCTTTATTCTTCGACTCGCAGTTCAGTCGCA
1 ATCATTTTTATTCTTCGACTCACAGTTCAGTCGCA
9928651 ATCATTTTTATT-TTCTGACT
1 ATCATTTTTATTCTTC-GACT
9928671 TGCAACTCAG
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
34 8 0.17
35 40 0.83
ACGTcount: A:0.21, C:0.22, G:0.10, T:0.47
Consensus pattern (35 bp):
ATCATTTTTATTCTTCGACTCACAGTTCAGTCGCA
Found at i:9928784 original size:35 final size:35
Alignment explanation
Indices: 9928684--9928802 Score: 114
Period size: 35 Copynumber: 3.4 Consensus size: 35
9928674 AACTCAGCCT
* * *
9928684 GATCATTTTTATTTT-TCGACTTATAGTTTAATCCT
1 GATCATTTTTATTTTCT-GACTTATGGCTTAATCCC
* * * * *
9928719 GGTCATTTTTATTTACTGATTTGTGACTTAATCCC
1 GATCATTTTTATTTTCTGACTTATGGCTTAATCCC
* *
9928754 GATCATTTTTATTTTCTAACTTATGGCTTAATCTC
1 GATCATTTTTATTTTCTGACTTATGGCTTAATCCC
* *
9928789 GACCATCTTTATTT
1 GATCATTTTTATTT
9928803 CTTAACTAGC
Statistics
Matches: 66, Mismatches: 17, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
35 65 0.98
36 1 0.02
ACGTcount: A:0.22, C:0.17, G:0.10, T:0.51
Consensus pattern (35 bp):
GATCATTTTTATTTTCTGACTTATGGCTTAATCCC
Found at i:9928870 original size:35 final size:35
Alignment explanation
Indices: 9928616--9928871 Score: 89
Period size: 35 Copynumber: 7.4 Consensus size: 35
9928606 TTCAGTTTCA
* * * * * *
9928616 ATCATCTTTATTCTTC-GACTCGCAGTTCAGTCGCA
1 ATCATTTTTATT-TTCTGACTTGCTGCTCAGTCCCG
** *
9928651 ATCATTTTTATTTTCTGACTTGCAACTCAG-CCTG
1 ATCATTTTTATTTTCTGACTTGCTGCTCAGTCCCG
* * * * *
9928685 ATCATTTTTATTTT-TCGACTT-ATAGTTTAATCCTG
1 ATCATTTTTATTTTCT-GACTTGCT-GCTCAGTCCCG
* * * * *
9928720 GTCATTTTTATTTACTGATTTG-TGACTTAATCCCG
1 ATCATTTTTATTTTCTGACTTGCTG-CTCAGTCCCG
* * * * *
9928755 ATCATTTTTATTTTCTAACTT-ATGGCTTAATCTCG
1 ATCATTTTTATTTTCTGACTTGCT-GCTCAGTCCCG
* * * * * * *
9928790 ACCATCTTTA-TTTCTTAACTAGCATTCT-AGTCTCA
1 ATCATTTTTATTTTC-TGACTTGC-TGCTCAGTCCCG
* *
9928825 ATCA-TATTATTTTTTGACTTGCTGCTCAGTCCCG
1 ATCATTTTTATTTTCTGACTTGCTGCTCAGTCCCG
9928859 ATCATTTTTATTT
1 ATCATTTTTATTT
9928872 CTTAACATAT
Statistics
Matches: 166, Mismatches: 40, Indels: 30
0.70 0.17 0.13
Matches are distributed among these distances:
33 4 0.02
34 48 0.29
35 109 0.66
36 4 0.02
37 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (35 bp):
ATCATTTTTATTTTCTGACTTGCTGCTCAGTCCCG
Found at i:9929113 original size:35 final size:35
Alignment explanation
Indices: 9929033--9929115 Score: 85
Period size: 35 Copynumber: 2.4 Consensus size: 35
9929023 CTCAGTCTCA
** * **
9929033 ATCATCTTTATTCTTTGACTAGTAGTTCAATCTTG
1 ATCATCTTTATTCACTGACTAGTAGCTCAATCCCG
* * * *
9929068 ATTATTTTTATTCACTGACTTGTGGCTCAATCCCG
1 ATCATCTTTATTCACTGACTAGTAGCTCAATCCCG
9929103 ATCATCTTTATTC
1 ATCATCTTTATTC
9929116 TTTGATTCAC
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (35 bp):
ATCATCTTTATTCACTGACTAGTAGCTCAATCCCG
Found at i:9929319 original size:35 final size:35
Alignment explanation
Indices: 9929280--9929393 Score: 113
Period size: 35 Copynumber: 3.3 Consensus size: 35
9929270 GTCCCAGTCG
9929280 TCTTTATTTTCTAACTCGTAGTTCAATTTCGATCA
1 TCTTTATTTTCTAACTCGTAGTTCAATTTCGATCA
* ** * * * *
9929315 TCTTTATTCTTC-GACTCACAATTCAATTTTGAACG
1 TCTTTATT-TTCTAACTCGTAGTTCAATTTCGATCA
* * * *
9929350 TCTTTATTTCCTAACTCGTAGTTTAGTCTCGATCA
1 TCTTTATTTTCTAACTCGTAGTTCAATTTCGATCA
9929385 TCTTTATTT
1 TCTTTATTT
9929394 CTTGACTTGC
Statistics
Matches: 59, Mismatches: 18, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
34 2 0.03
35 54 0.92
36 3 0.05
ACGTcount: A:0.22, C:0.21, G:0.09, T:0.48
Consensus pattern (35 bp):
TCTTTATTTTCTAACTCGTAGTTCAATTTCGATCA
Found at i:9931288 original size:22 final size:22
Alignment explanation
Indices: 9931260--9931322 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
9931250 AGGAGGAATA
9931260 AAAGAAAAAAGAAAAAGGAAAG
1 AAAGAAAAAAGAAAAAGGAAAG
* * **
9931282 AAGGAAAGAAGTGAAAGGAAAG
1 AAAGAAAAAAGAAAAAGGAAAG
9931304 AAAGAAAGAAA-AAAAAGGA
1 AAAGAAA-AAAGAAAAAGGA
9931323 TAAAGGAGAA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
22 30 0.94
23 2 0.06
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (22 bp):
AAAGAAAAAAGAAAAAGGAAAG
Found at i:9931308 original size:4 final size:4
Alignment explanation
Indices: 9931260--9931314 Score: 51
Period size: 4 Copynumber: 13.8 Consensus size: 4
9931250 AGGAGGAATA
* * *
9931260 AAAG AAA- AAAG AAA- AAGG AAAG AAGG AAAG AAGTG AAAGG AAAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AA-AG AAA-G AAAG AAAG
9931308 AAAG AAA
1 AAAG AAA
9931315 AAAAAGGATA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
3 5 0.12
4 29 0.71
5 7 0.17
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (4 bp):
AAAG
Found at i:9931795 original size:21 final size:21
Alignment explanation
Indices: 9931746--9931795 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
9931736 TCAAAAATAC
9931746 AAAAAAAA-A-AATATTTTAT
1 AAAAAAAATATAATATTTTAT
*
9931765 AAAAATAATATAATATTTT-T
1 AAAAAAAATATAATATTTTAT
9931785 AAATAAAAATA
1 AAA-AAAAATA
9931796 ACTTTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 7 0.27
20 5 0.19
21 14 0.54
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (21 bp):
AAAAAAAATATAATATTTTAT
Found at i:9932394 original size:8 final size:8
Alignment explanation
Indices: 9932371--9932428 Score: 53
Period size: 8 Copynumber: 7.2 Consensus size: 8
9932361 ATAAAAAAAG
9932371 AAACCTTA
1 AAACCTTA
*
9932379 AAATCTTA
1 AAACCTTA
*
9932387 TAACCTTA
1 AAACCTTA
* *
9932395 GAACCTTG
1 AAACCTTA
**
9932403 AAACCACA
1 AAACCTTA
*
9932411 AAACCTTG
1 AAACCTTA
9932419 AAACCTTA
1 AAACCTTA
9932427 AA
1 AA
9932429 TTCCCATTTT
Statistics
Matches: 37, Mismatches: 13, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
8 37 1.00
ACGTcount: A:0.47, C:0.24, G:0.05, T:0.24
Consensus pattern (8 bp):
AAACCTTA
Found at i:9932407 original size:16 final size:16
Alignment explanation
Indices: 9932370--9932428 Score: 66
Period size: 16 Copynumber: 3.7 Consensus size: 16
9932360 GATAAAAAAA
*
9932370 GAAACCTTAAAATCTT
1 GAAACCTTAAAACCTT
*
9932386 -ATAACCTTAGAACCTT
1 GA-AACCTTAAAACCTT
**
9932402 GAAACCACAAAACCTT
1 GAAACCTTAAAACCTT
9932418 GAAACCTTAAA
1 GAAACCTTAAA
9932429 TTCCCATTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
15 1 0.03
16 32 0.94
17 1 0.03
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.24
Consensus pattern (16 bp):
GAAACCTTAAAACCTT
Found at i:9932460 original size:15 final size:15
Alignment explanation
Indices: 9932440--9932482 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
9932430 TCCCATTTTT
*
9932440 CCTTGAAACCTTAAA
1 CCTTGAAACCCTAAA
9932455 CCTTGAAACCCTAAA
1 CCTTGAAACCCTAAA
*
9932470 --TTGAGACCCTAAA
1 CCTTGAAACCCTAAA
9932483 TCCTAAAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 12 0.46
15 14 0.54
ACGTcount: A:0.40, C:0.28, G:0.09, T:0.23
Consensus pattern (15 bp):
CCTTGAAACCCTAAA
Found at i:9932736 original size:6 final size:6
Alignment explanation
Indices: 9932719--9932760 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
9932709 TCCTTAACCC
* *
9932719 AAAATA ATAATA AAAATA AACAA-A AGAATA AAAATA AAAATA
1 AAAATA AAAATA AAAATA AA-AATA AAAATA AAAATA AAAATA
9932761 GGATCTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
5 2 0.07
6 26 0.87
7 2 0.07
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:9940121 original size:25 final size:25
Alignment explanation
Indices: 9940052--9940121 Score: 59
Period size: 27 Copynumber: 2.7 Consensus size: 25
9940042 AAAATTTTTA
* * * *
9940052 AAAAAACTAGAAAGCAAAAAAAACC
1 AAAAAACAAAAAAGAAAAAAAAAAC
* * *
9940077 AAAGAACTCAAAAGGTAAAAAAAAAAC
1 AAAAAAC-AAAAAAG-AAAAAAAAAAC
9940104 AAAAAACAAAAAAGAAAA
1 AAAAAACAAAAAAGAAAA
9940122 TATTGAAAAG
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
25 10 0.29
26 9 0.26
27 15 0.44
ACGTcount: A:0.76, C:0.11, G:0.09, T:0.04
Consensus pattern (25 bp):
AAAAAACAAAAAAGAAAAAAAAAAC
Found at i:9940434 original size:9 final size:10
Alignment explanation
Indices: 9940422--9940474 Score: 56
Period size: 9 Copynumber: 5.4 Consensus size: 10
9940412 TAAATCCACT
9940422 AAAAAAAG-G
1 AAAAAAAGAG
*
9940431 AAAAAAAGTG
1 AAAAAAAGAG
9940441 AAAAAAATGAG
1 AAAAAAA-GAG
*
9940452 AAAATAAGA-
1 AAAAAAAGAG
*
9940461 AAAAAGAGAG
1 AAAAAAAGAG
9940471 AAAA
1 AAAA
9940475 TGAAAGAATG
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 15 0.41
10 14 0.38
11 8 0.22
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (10 bp):
AAAAAAAGAG
Done.