Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 14 of 226
Found at i:6549696 original size:9 final size:9
Alignment explanation
Indices: 6549624--6549696 Score: 53
Period size: 9 Copynumber: 8.0 Consensus size: 9
6549614 AAAAAGTATT
*
6549624 TTTAAAATA
1 TTTAAAAAA
*
6549633 TTT-TAAAA
1 TTTAAAAAA
6549641 -TTAAAAAA
1 TTTAAAAAA
*
6549649 TTAAAAAAGTA
1 TTTAAAAA--A
6549660 TTTTAAAAATA
1 -TTTAAAAA-A
*
6549671 TTT-TAAAA
1 TTTAAAAAA
6549679 TTTAAAAAA
1 TTTAAAAAA
6549688 TTTAAAAAA
1 TTTAAAAAA
6549697 AGTATTTTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
7 2 0.04
8 11 0.22
9 25 0.49
10 3 0.06
11 3 0.06
12 7 0.14
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (9 bp):
TTTAAAAAA
Found at i:6549708 original size:41 final size:40
Alignment explanation
Indices: 6549601--6549733 Score: 207
Period size: 41 Copynumber: 3.4 Consensus size: 40
6549591 TTTAAAAATT
* *
6549601 TTTAAAAACTTAAAAAAAGTATTTTTAAAATATTTTAAAA
1 TTTAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAA
6549641 -TTAAAAAATT-AAAAAAGTATTTTAAAAATATTTTAAAA
1 TTTAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAA
6549679 TTTAAAAAATTTAAAAAAAGTATTTTAAAAATATTTTAAAA
1 TTTAAAAAA-TTAAAAAAAGTATTTTAAAAATATTTTAAAA
* *
6549720 ATTAAAAAAATAAA
1 TTTAAAAAATTAAA
6549734 TATATTTATT
Statistics
Matches: 86, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
38 27 0.31
39 17 0.20
40 6 0.07
41 36 0.42
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (40 bp):
TTTAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAA
Found at i:6549720 original size:11 final size:11
Alignment explanation
Indices: 6549588--6549721 Score: 80
Period size: 11 Copynumber: 13.1 Consensus size: 11
6549578 GCCCCATTTT
6549588 TATTTTAAAAA
1 TATTTTAAAAA
6549599 T-TTTTAAAAA
1 TATTTTAAAAA
* **
6549609 -CTTAAAAAAA
1 TATTTTAAAAA
*
6549619 GTATTTTTAAAA
1 -TATTTTAAAAA
6549631 TATTTT--AAA
1 TATTTTAAAAA
6549640 -A--TTAAAAA
1 TATTTTAAAAA
*
6549648 -A-TTAAAAAA
1 TATTTTAAAAA
6549657 GTATTTTAAAAA
1 -TATTTTAAAAA
6549669 TATTTT--AAA
1 TATTTTAAAAA
6549678 -A-TTTAAAAA
1 TATTTTAAAAA
*
6549687 -ATTTAAAAAAA
1 TATTT-TAAAAA
6549698 GTATTTTAAAAA
1 -TATTTTAAAAA
6549710 TATTTTAAAAA
1 TATTTTAAAAA
6549721 T
1 T
6549722 TAAAAAAATA
Statistics
Matches: 98, Mismatches: 10, Indels: 30
0.71 0.07 0.22
Matches are distributed among these distances:
6 2 0.02
7 3 0.03
8 6 0.06
9 16 0.16
10 18 0.18
11 31 0.32
12 18 0.18
13 4 0.04
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:6555878 original size:14 final size:14
Alignment explanation
Indices: 6555859--6555886 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6555849 AAGGGTTAAC
6555859 TATTAAGCAGTTAG
1 TATTAAGCAGTTAG
6555873 TATTAAGCAGTTAG
1 TATTAAGCAGTTAG
6555887 AAAGTTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
TATTAAGCAGTTAG
Found at i:6562441 original size:37 final size:40
Alignment explanation
Indices: 6562389--6562488 Score: 116
Period size: 41 Copynumber: 2.5 Consensus size: 40
6562379 AAGTAATAAT
* * *
6562389 TTGACACCTAGTGCCTCATCG-GTTAAACCG-A-AGTAAA
1 TTGACACCCAATGCCTCATCGAATTAAACCGAAGAGTAAA
* *
6562426 TTGACACTCAATGCCTCATCGAATTAATCCGAAGTAGTAAA
1 TTGACACCCAATGCCTCATCGAATTAAACCGAAG-AGTAAA
*
6562467 TTGACACCCAATGTCTCATCGA
1 TTGACACCCAATGCCTCATCGA
6562489 CTTGCAGTCG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
37 18 0.35
38 7 0.13
39 1 0.02
41 26 0.50
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (40 bp):
TTGACACCCAATGCCTCATCGAATTAAACCGAAGAGTAAA
Found at i:6563374 original size:4 final size:4
Alignment explanation
Indices: 6563367--6563423 Score: 64
Period size: 4 Copynumber: 14.0 Consensus size: 4
6563357 TTTCTCCTTC
*
6563367 CTTT CTTT CTTT -TTT CTTT -TTT TTTT CTTT CTTT CTATTT CGTTT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT C--TTT C-TTT CTTT
6563416 CTTT CTTT
1 CTTT CTTT
6563424 TTATTTATTC
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
3 6 0.13
4 33 0.70
5 4 0.09
6 4 0.09
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (4 bp):
CTTT
Found at i:6563412 original size:19 final size:18
Alignment explanation
Indices: 6563368--6563421 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
6563358 TTCTCCTTCC
*
6563368 TTTCTTTCTTT-TTTCTTT
1 TTTCTTTCTTTCTTTC-TA
*
6563386 TTTTTTTCTTTCTTTCTA
1 TTTCTTTCTTTCTTTCTA
6563404 TTTCGTTTCTTTCTTTCT
1 TTTC-TTTCTTTCTTTCT
6563422 TTTTATTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 14 0.45
19 17 0.55
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.78
Consensus pattern (18 bp):
TTTCTTTCTTTCTTTCTA
Found at i:6578445 original size:20 final size:21
Alignment explanation
Indices: 6578410--6578452 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
6578400 TTTTTTATTC
6578410 ATCATTTTTCCAATAAAAAAA
1 ATCATTTTTCCAATAAAAAAA
* *
6578431 ATCATTTTTTC-ATAAAATAA
1 ATCATTTTTCCAATAAAAAAA
6578451 AT
1 AT
6578453 AAAAAAATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.40
Consensus pattern (21 bp):
ATCATTTTTCCAATAAAAAAA
Found at i:6583945 original size:17 final size:18
Alignment explanation
Indices: 6583915--6583948 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6583905 TTTCAGATGA
*
6583915 GTTTTTCCATTAAAAAGT
1 GTTTTTCCACTAAAAAGT
6583933 GTTTTTCC-CTAAAAAG
1 GTTTTTCCACTAAAAAG
6583949 CAATGAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (18 bp):
GTTTTTCCACTAAAAAGT
Found at i:6607190 original size:21 final size:21
Alignment explanation
Indices: 6607152--6607191 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6607142 ATTATATATT
*
6607152 TTTAATTTTTAATTTTATTAA
1 TTTAATTTTTAATATTATTAA
6607173 TTTAATATTTT-ATATTATT
1 TTTAAT-TTTTAATATTATT
6607192 TTGGATAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTAATTTTTAATATTATTAA
Found at i:6611161 original size:29 final size:32
Alignment explanation
Indices: 6611119--6611182 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
6611109 TTAATCTCAC
* *
6611119 AAAAATTTCAATTAAAC-C-CAATTTTTTTAA
1 AAAAAATTCAATTAAACTCTAAATTTTTTTAA
6611149 AAAAAATTC-ATTAAACTTCTAAATTTTTTTAA
1 AAAAAATTCAATTAAAC-TCTAAATTTTTTTAA
6611181 AA
1 AA
6611183 TTTTACTAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 7 0.24
30 8 0.28
31 1 0.03
32 13 0.45
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (32 bp):
AAAAAATTCAATTAAACTCTAAATTTTTTTAA
Found at i:6616179 original size:96 final size:96
Alignment explanation
Indices: 6615999--6616224 Score: 260
Period size: 96 Copynumber: 2.3 Consensus size: 96
6615989 CGTGTTTATT
* * * *
6615999 GTTTTTTAAGAAAAAATTAATTAAATTAGGGTTTAAGGTTACTTAAGTAATTTAATTAAAAAAAT
1 GTTTTTTAAGAAAAAATCAAATAAATTAGGGTTCAAGGTTACTTAAGTAAATTAATTAAAAAAAT
6616064 TTTAAAAATCAAATTAGGGTTTAG-AGTTAAA
66 TTTAAAAATCAAATTAGGGTTTAGTA-TTAAA
* * * *
6616095 GTTTTTTAAGAAAAAATCAAATAAATTAGGGTTCATGGTTACTTGAGTAAATTAATT-ATAAATT
1 GTTTTTTAAGAAAAAATCAAATAAATTAGGGTTCAAGGTTACTTAAGTAAATTAATTAAAAAAAT
* * * *
6616159 TTTAATAAAT-TAGTTAAGGGTTTAGTATTTAG
66 TTTAA-AAATCAAATT-AGGGTTTAGTATTAAA
* * *
6616191 GGTTTTTAAGTAAAAACTCAAATAAATTAAGGTT
1 GTTTTTTAAG-AAAAAATCAAATAAATTAGGGTT
6616225 TGGGGTTTAA
Statistics
Matches: 111, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
95 13 0.12
96 76 0.68
97 22 0.20
ACGTcount: A:0.43, C:0.03, G:0.15, T:0.39
Consensus pattern (96 bp):
GTTTTTTAAGAAAAAATCAAATAAATTAGGGTTCAAGGTTACTTAAGTAAATTAATTAAAAAAAT
TTTAAAAATCAAATTAGGGTTTAGTATTAAA
Found at i:6616495 original size:126 final size:126
Alignment explanation
Indices: 6616265--6616565 Score: 449
Period size: 126 Copynumber: 2.4 Consensus size: 126
6616255 TTGTTAATTT
* *** *
6616265 AAAGAAGCTCCCACGTGGACGCGTTTTTGCTACAGTAGGTTCTGAAAAAATAATTTCGAGTAGAT
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCCCCTGAAAAAATAATTTCGAGTAGAC
* * * * * *
6616330 GTTTTTGAGCAAATAGTGTCAAAAATGCTTTAAGAAGGATGCTTTGTCAGTAGAAGTACTG
66 GTTTCTGAGCAAACAGTGTCAAAAACGCTTTAAGAAGGATGCTTTATCAGCAGAAGTACTA
* *
6616391 AAAGAATCTCCCACGTGGACGCGCTTTTGCTACAGTATCCCCTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCCCCTGAAAAAATAATTTCGAGTAGAC
*
6616456 GTTTCTGAGCAAACAGTGTCAAAAACGCTTTAAGCAGGATGCTTTATCAGCAGAAGTACTA
66 GTTTCTGAGCAAACAGTGTCAAAAACGCTTTAAGAAGGATGCTTTATCAGCAGAAGTACTA
* **
6616517 AAAGAAGCTCCCACATGGACGCGCTTTTGCTACAGTAGCCTTTGAAAAA
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCCCCTGAAAAA
6616566 GCTCCCGCGT
Statistics
Matches: 156, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
126 156 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (126 bp):
AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCCCCTGAAAAAATAATTTCGAGTAGAC
GTTTCTGAGCAAACAGTGTCAAAAACGCTTTAAGAAGGATGCTTTATCAGCAGAAGTACTA
Found at i:6618161 original size:107 final size:107
Alignment explanation
Indices: 6617982--6618180 Score: 355
Period size: 107 Copynumber: 1.9 Consensus size: 107
6617972 GTTTTAAGAG
*
6617982 GATATTTGGCTATTTAGTCGAATGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
1 GATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
*
6618047 TTCCAAACGCTAAATATTGCCTTATTTTAAAAGTTTAAAAAT
66 TTCCAAACGCGAAATATTGCCTTATTTTAAAAGTTTAAAAAT
*
6618089 GATATTTGGTTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA-T
1 GATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
6618153 TTCTCAAACGCGAAATATTGCCTTATTT
66 TTC-CAAACGCGAAATATTGCCTTATTT
6618181 AGAAAAACTT
Statistics
Matches: 88, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
106 4 0.05
107 84 0.95
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (107 bp):
GATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
TTCCAAACGCGAAATATTGCCTTATTTTAAAAGTTTAAAAAT
Found at i:6623503 original size:46 final size:46
Alignment explanation
Indices: 6623444--6623675 Score: 340
Period size: 46 Copynumber: 5.0 Consensus size: 46
6623434 CTATGGCAAA
* *
6623444 TTGTGAAAAGTAAGTATGGTGCTTCAGTGAAGAAAACCATACTGAC
1 TTGTGAAAAGTAAGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
* * * *
6623490 TTGCGAAAAGTAAGTATGGTATTTC-GATAAAGAAAATCATACTGAG
1 TTGTGAAAAGTAAGTATGGTGTTTCAG-TGAAGAAAACCATACTGAG
*
6623536 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAAGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
* *
6623582 TTGTGAAAAGTAGGTATGGTGTTTCAGTAAAGAAAACCATACTGAG
1 TTGTGAAAAGTAAGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
* * *
6623628 TTGTGAAAAGTAAGTATGGTATTTCCGTGAAGAAAACCATATTGAG
1 TTGTGAAAAGTAAGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
6623674 TT
1 TT
6623676 ATAGCAATGT
Statistics
Matches: 167, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
45 1 0.01
46 165 0.99
47 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.25, T:0.29
Consensus pattern (46 bp):
TTGTGAAAAGTAAGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
Found at i:6625525 original size:21 final size:21
Alignment explanation
Indices: 6625501--6625548 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
6625491 GCGGGAGTTG
*
6625501 TGGTTGCT-CTGGCGGGGATTC
1 TGGTTGCTCCTGGAGGGGA-TC
* *
6625522 TGGTTCCTCCTGTAGGGGATC
1 TGGTTGCTCCTGGAGGGGATC
6625543 TGGTTG
1 TGGTTG
6625549 TCGGTGTTGG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.06, C:0.19, G:0.40, T:0.35
Consensus pattern (21 bp):
TGGTTGCTCCTGGAGGGGATC
Found at i:6627690 original size:11 final size:11
Alignment explanation
Indices: 6627676--6627721 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
6627666 TTTAAATAGG
*
6627676 AATTTAAGAGA
1 AATTTGAGAGA
*
6627687 AATTTGAGAGG
1 AATTTGAGAGA
6627698 AATTTGAGAGA
1 AATTTGAGAGA
*
6627709 ATATTAGAGAGA
1 A-ATTTGAGAGA
6627721 A
1 A
6627722 TATTAGAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
11 20 0.67
12 10 0.33
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (11 bp):
AATTTGAGAGA
Found at i:6627698 original size:22 final size:21
Alignment explanation
Indices: 6627673--6627732 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 21
6627663 TCTTTTAAAT
*
6627673 AGGAATTTAAGAGAAATTTGAG
1 AGGAATTT-AGAGAAATTAGAG
6627695 AGGAATTTGAGAGAATATTAGAG
1 AGGAATTT-AGAGAA-ATTAGAG
6627718 A-GAATATTAGAGAAA
1 AGGAAT-TTAGAGAAA
6627733 GGGTTTAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 1 0.03
22 24 0.71
23 9 0.26
ACGTcount: A:0.48, C:0.00, G:0.27, T:0.25
Consensus pattern (21 bp):
AGGAATTTAGAGAAATTAGAG
Found at i:6627720 original size:12 final size:12
Alignment explanation
Indices: 6627682--6627730 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
6627672 TAGGAATTTA
*
6627682 AGAGAA-ATTTG
1 AGAGAATATTAG
6627693 AGAGGAAT-TT-G
1 AGA-GAATATTAG
6627704 AGAGAATATTAG
1 AGAGAATATTAG
6627716 AGAGAATATTAG
1 AGAGAATATTAG
6627728 AGA
1 AGA
6627731 AAGGGTTTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
10 4 0.12
11 9 0.26
12 21 0.62
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (12 bp):
AGAGAATATTAG
Found at i:6631784 original size:2 final size:2
Alignment explanation
Indices: 6631777--6631816 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
6631767 ATAGTAGTAG
6631777 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6631817 TAAACAGCTG
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6663685 original size:3 final size:3
Alignment explanation
Indices: 6663677--6663705 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
6663667 ATTGGGTTGA
6663677 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
6663706 ACATCTGCGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:6674646 original size:37 final size:37
Alignment explanation
Indices: 6674585--6674767 Score: 316
Period size: 37 Copynumber: 5.0 Consensus size: 37
6674575 TACGTATGAT
* *
6674585 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
6674620 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
6674657 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
6674694 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
6674731 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
6674768 TAAAGCTATT
Statistics
Matches: 141, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
35 9 0.06
36 3 0.02
37 129 0.91
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:6674785 original size:46 final size:46
Alignment explanation
Indices: 6674731--6675045 Score: 387
Period size: 46 Copynumber: 6.6 Consensus size: 46
6674721 TAAGTGTAGC
* * *
6674731 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTAT
* * *
6674777 TACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTAT
* * *
6674823 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCAAAGCTAT
*
6674875 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTAT
*
6674921 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTAT
* * * *
6674967 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTATAGCCAAAGCTAT
6675019 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
6675046 AGTACTCAAA
Statistics
Matches: 237, Mismatches: 20, Indels: 24
0.84 0.07 0.09
Matches are distributed among these distances:
46 153 0.65
48 1 0.00
49 2 0.01
50 1 0.00
52 80 0.34
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTAT
Found at i:6674896 original size:98 final size:98
Alignment explanation
Indices: 6674731--6675039 Score: 396
Period size: 98 Copynumber: 3.1 Consensus size: 98
6674721 TAAGTGTAGC
* * *
6674731 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATTACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATTACTTATCACTTTGTCACT
6674796 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
6674830 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATTACTTATCACTTTGTCACTT
6674895 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* **
6674928 CAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTG
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATTACTTATCAC--T----TTG
* ** *
6674987 TCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
60 TCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
6675026 CACTTTGTCACTTG
1 CACTTT-TCACTTG
6675040 ATCAGAAGTA
Statistics
Matches: 183, Mismatches: 14, Indels: 20
0.84 0.06 0.09
Matches are distributed among these distances:
92 40 0.22
94 1 0.01
95 1 0.01
98 128 0.70
99 9 0.05
102 1 0.01
105 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATTACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:6674896 original size:144 final size:144
Alignment explanation
Indices: 6674730--6675045 Score: 560
Period size: 144 Copynumber: 2.2 Consensus size: 144
6674720 ATAAGTGTAG
* * * * *
6674730 CCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATTACTTATCACTTTGTCTC
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTGTCAC
*
6674795 TTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAG
66 TTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAG
6674860 TGTAGCTAAAGCTA
131 TGTAGCTAAAGCTA
*
6674874 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTGTCAC
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTGTCAC
*
6674939 TTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAG
66 TTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAG
6675004 TGTAGCTAAAGCTA
131 TGTAGCTAAAGCTA
6675018 CCACTTATCACTTTGTCACTTGATCAGA
1 CCACTTATCACTTTGTCACTTGATCAGA
6675046 AGTACTCAAA
Statistics
Matches: 164, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
144 164 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (144 bp):
CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTGTCAC
TTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAG
TGTAGCTAAAGCTA
Found at i:6688385 original size:5 final size:5
Alignment explanation
Indices: 6688317--6688369 Score: 99
Period size: 5 Copynumber: 10.8 Consensus size: 5
6688307 CAGTATTAAG
6688317 TATA- TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
6688366 TATA
1 TATA
6688370 GTAAAACAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
4 4 0.08
5 44 0.92
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:6688463 original size:17 final size:18
Alignment explanation
Indices: 6688420--6688463 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
6688410 ATAAATGAAA
*
6688420 GAAAAAGAAATAGAAAGT
1 GAAAAAGAAATAGAAAGG
*
6688438 G-AAACGAAATAG-AAGG
1 GAAAAAGAAATAGAAAGG
6688454 GAAAAAGAAA
1 GAAAAAGAAA
6688464 GAAAAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 4 0.18
17 17 0.77
18 1 0.05
ACGTcount: A:0.66, C:0.02, G:0.25, T:0.07
Consensus pattern (18 bp):
GAAAAAGAAATAGAAAGG
Found at i:6688474 original size:14 final size:14
Alignment explanation
Indices: 6688455--6688482 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6688445 AATAGAAGGG
6688455 AAAAAGAAAGAAAA
1 AAAAAGAAAGAAAA
6688469 AAAAAGAAAGAAAA
1 AAAAAGAAAGAAAA
6688483 GGAGAAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAGAAAA
Found at i:6689170 original size:24 final size:23
Alignment explanation
Indices: 6689138--6689184 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
6689128 TTTGTAATTG
6689138 AAATGTATTG-ATTTAGTATGTGAT
1 AAATGTATTGAATTTA-TAT-TGAT
*
6689162 AAATTTATTGAATTTATATTGAT
1 AAATGTATTGAATTTATATTGAT
6689185 TGAATTGGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 12 0.57
25 5 0.24
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (23 bp):
AAATGTATTGAATTTATATTGAT
Found at i:6689188 original size:15 final size:15
Alignment explanation
Indices: 6689167--6689214 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
6689157 GTGATAAATT
6689167 TATTGAATTTATAT-
1 TATTGAATTTATATA
6689181 TGATTGAATTGGTATATA
1 T-ATTGAATT--TATATA
*
6689199 TATTGAATATATATA
1 TATTGAATTTATATA
6689214 T
1 T
6689215 TGGTTGTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 1 0.03
15 15 0.52
17 12 0.41
18 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (15 bp):
TATTGAATTTATATA
Found at i:6689447 original size:40 final size:40
Alignment explanation
Indices: 6689326--6689465 Score: 142
Period size: 40 Copynumber: 3.5 Consensus size: 40
6689316 AACTTCGAGT
* * * *
6689326 CGATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATT
1 CGATGAGACACTGGGTGTCAAATTATTACTTTGGATT-ATC
* * * *
6689367 CGATGAGGCACTGGGTG-CCAA-T-TTACTTTGGTTTAGC
1 CGATGAGACACTGGGTGTCAAATTATTACTTTGGATTATC
* *
6689404 CGATGAGACACTGGATGTCAAATTATTACTTTGAATTATC
1 CGATGAGACACTGGGTGTCAAATTATTACTTTGGATTATC
* *
6689444 CGATGAGACACTAGGTGCCAAA
1 CGATGAGACACTGGGTGTCAAA
6689466 CTGGTGTGTT
Statistics
Matches: 79, Mismatches: 17, Indels: 7
0.77 0.17 0.07
Matches are distributed among these distances:
37 16 0.20
38 12 0.15
39 2 0.03
40 33 0.42
41 16 0.20
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAAATTATTACTTTGGATTATC
Found at i:6701538 original size:16 final size:17
Alignment explanation
Indices: 6701517--6701549 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
6701507 GTGATTTATA
6701517 AAATTTTATAA-ATATT
1 AAATTTTATAATATATT
6701533 AAATTTTATAATATATT
1 AAATTTTATAATATATT
6701550 TTTAATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
AAATTTTATAATATATT
Found at i:6711114 original size:19 final size:20
Alignment explanation
Indices: 6711087--6711133 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
6711077 AAATATTTCA
6711087 ATATAA-TTTATTAAATTAT
1 ATATAATTTTATTAAATTAT
*
6711106 ATATTATTTTTATTAAATTAT
1 ATA-TAATTTTATTAAATTAT
*
6711127 ATTTAAT
1 ATATAAT
6711134 AATATTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 3 0.13
20 5 0.22
21 15 0.65
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
ATATAATTTTATTAAATTAT
Found at i:6711147 original size:25 final size:25
Alignment explanation
Indices: 6711113--6711162 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
6711103 TATATATTAT
* *
6711113 TTTTATTAAATTATATTTAATAATA
1 TTTTAATAAAATATATTTAATAATA
*
6711138 TTTTAATAAAATATTTTTAATAATA
1 TTTTAATAAAATATATTTAATAATA
6711163 ATCCTATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
TTTTAATAAAATATATTTAATAATA
Found at i:6711157 original size:14 final size:14
Alignment explanation
Indices: 6711110--6711160 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 14
6711100 AATTATATAT
* *
6711110 TATTTTTATTAAAT
1 TATTTTTAATAAAA
*
6711124 TATATTTAAT--AA
1 TATTTTTAATAAAA
6711136 TA-TTTTAATAAAA
1 TATTTTTAATAAAA
6711149 TATTTTTAATAA
1 TATTTTTAATAA
6711161 TAATCCTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
11 6 0.20
12 3 0.10
13 4 0.13
14 17 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TATTTTTAATAAAA
Found at i:6718519 original size:27 final size:27
Alignment explanation
Indices: 6718462--6718520 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
6718452 CAAATATTAT
* * * *
6718462 AAAAACTTCAAGAGACTCTACAATGCT
1 AAAAACTTCAAGAGACACAAAAATGCA
6718489 AAAAACTTCAAGAGACACAAAAATAG-A
1 AAAAACTTCAAGAGACACAAAAAT-GCA
6718516 AAAAA
1 AAAAA
6718521 TTAAAAGAGC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.58, C:0.17, G:0.10, T:0.15
Consensus pattern (27 bp):
AAAAACTTCAAGAGACACAAAAATGCA
Found at i:6729469 original size:41 final size:40
Alignment explanation
Indices: 6729388--6729477 Score: 108
Period size: 42 Copynumber: 2.2 Consensus size: 40
6729378 AAATAATATT
* ** * *
6729388 AAAATAATCAAAACAACATGCCAAATAAATTTCTTAAAAA
1 AAAAAAATCAAAACAACATAACAAATAAATTACATAAAAA
6729428 AAAAAAATCTAAAACACACATAACAAATAAATTACATAAAAA
1 AAAAAAATC-AAAACA-ACATAACAAATAAATTACATAAAAA
*
6729470 AATAAAAT
1 AAAAAAAT
6729478 ATTCTTTGTA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 8 0.19
41 6 0.14
42 28 0.67
ACGTcount: A:0.66, C:0.13, G:0.01, T:0.20
Consensus pattern (40 bp):
AAAAAAATCAAAACAACATAACAAATAAATTACATAAAAA
Found at i:6730802 original size:16 final size:17
Alignment explanation
Indices: 6730781--6730818 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
6730771 TTCTATATTG
*
6730781 ATTTTACT-TTTATTTT
1 ATTTTACTATGTATTTT
6730797 ATTTTACTACTGTATTTT
1 ATTTTACTA-TGTATTTT
6730815 ATTT
1 ATTT
6730819 AAATAAGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
18 11 0.58
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.68
Consensus pattern (17 bp):
ATTTTACTATGTATTTT
Found at i:6733515 original size:22 final size:22
Alignment explanation
Indices: 6733487--6733549 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 22
6733477 ACTAATGAAT
* *
6733487 AGAGAGCATTGAAGTGCTATAC
1 AGAGAGCACTGAAGTGCTAAAC
* *
6733509 AGAGAGCACAGATGTGCTAAAC
1 AGAGAGCACTGAAGTGCTAAAC
* *
6733531 GGAGAGCACTGACGTGCTA
1 AGAGAGCACTGAAGTGCTA
6733550 GTAATCAAAG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.17
Consensus pattern (22 bp):
AGAGAGCACTGAAGTGCTAAAC
Found at i:6733563 original size:25 final size:25
Alignment explanation
Indices: 6733533--6733587 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
6733523 TGCTAAACGG
**
6733533 AGAGCACTGACGTGCTAGTAATCAA
1 AGAGCACCAACGTGCTAGTAATCAA
*
6733558 AGAGCACCAACGTGCTAGTAATCAG
1 AGAGCACCAACGTGCTAGTAATCAA
6733583 AGAGC
1 AGAGC
6733588 GCGCTAAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.16
Consensus pattern (25 bp):
AGAGCACCAACGTGCTAGTAATCAA
Found at i:6734553 original size:2 final size:2
Alignment explanation
Indices: 6734546--6734594 Score: 68
Period size: 2 Copynumber: 26.0 Consensus size: 2
6734536 TCATTTACTT
6734546 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
6734586 AA TA -A TA TA
1 TA TA TA TA TA
6734595 ACAATATCTT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
1 3 0.07
2 39 0.93
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:6767036 original size:15 final size:15
Alignment explanation
Indices: 6767016--6767045 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6767006 AGAATTTTCA
6767016 ATAATTTTTAAAAAT
1 ATAATTTTTAAAAAT
6767031 ATAATTTTTAAAAAT
1 ATAATTTTTAAAAAT
6767046 TTTGTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATAATTTTTAAAAAT
Found at i:6773233 original size:27 final size:27
Alignment explanation
Indices: 6773192--6773270 Score: 140
Period size: 27 Copynumber: 2.9 Consensus size: 27
6773182 TAGTATTGGC
* *
6773192 GCCTATCTGGAAGGCGCCAATGGTGGT
1 GCCTATTTGGGAGGCGCCAATGGTGGT
6773219 GCCTATTTGGGAGGCGCCAATGGTGGT
1 GCCTATTTGGGAGGCGCCAATGGTGGT
6773246 GCCTATTTGGGAGGCGCCAATGGTG
1 GCCTATTTGGGAGGCGCCAATGGTG
6773271 AACAAAATAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.16, C:0.20, G:0.39, T:0.24
Consensus pattern (27 bp):
GCCTATTTGGGAGGCGCCAATGGTGGT
Found at i:6773405 original size:27 final size:27
Alignment explanation
Indices: 6773370--6773618 Score: 129
Period size: 27 Copynumber: 9.4 Consensus size: 27
6773360 ATATCCCCAC
*
6773370 ATTATAATATTCATACAAAATTACAAA
1 ATTACAATATTCATACAAAATTACAAA
6773397 ATTACAATATTCATAC--AA--A-AAA
1 ATTACAATATTCATACAAAATTACAAA
* * *
6773419 ATTGCAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTACAAA
*
6773446 ATTACAATATTCATACAACATTACAATA
1 ATTACAATATTCATACAAAATTACAA-A
* * * * *
6773474 TTCATAAAAAAGTT-ATA-ATATTCATACAAA
1 AT--TACAATA-TTCATACAAAAT--TACAAA
6773504 ATTACAATATTACAATATTCATACAA--A-AAA
1 ATTACAATATT-C-ATA--CA-A-AATTACAAA
* *
6773534 ATTACAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTACAAA
6773561 ATTAACAATA-T--T-C---ATT-CAAA
1 ATT-ACAATATTCATACAAAATTACAAA
* *
6773581 AATATAATATTCATACAAAATTACAAA
1 ATTACAATATTCATACAAAATTACAAA
6773608 ATTACAATATT
1 ATTACAATATT
6773619 NNNNNNNNNN
Statistics
Matches: 166, Mismatches: 25, Indels: 62
0.66 0.10 0.25
Matches are distributed among these distances:
19 5 0.03
20 5 0.03
21 3 0.02
22 19 0.11
23 2 0.01
24 5 0.03
25 4 0.02
26 7 0.04
27 61 0.37
28 15 0.09
29 3 0.02
30 27 0.16
31 8 0.05
33 1 0.01
35 1 0.01
ACGTcount: A:0.53, C:0.12, G:0.01, T:0.33
Consensus pattern (27 bp):
ATTACAATATTCATACAAAATTACAAA
Found at i:6773426 original size:22 final size:22
Alignment explanation
Indices: 6773394--6773600 Score: 112
Period size: 19 Copynumber: 9.0 Consensus size: 22
6773384 ACAAAATTAC
6773394 AAAATTACAATATTCATACAAA
1 AAAATTACAATATTCATACAAA
*
6773416 AAAATTGCAATATTCATACAAAA
1 AAAATTACAATATTCATAC-AAA
6773439 TTATAATATTACAATATTCATAC---
1 --A-AA-ATTACAATATTCATACAAA
*
6773462 AACATTACAATATTCAT--AAA
1 AAAATTACAATATTCATACAAA
* *
6773482 AAAGTTATAATATTCATAC---
1 AAAATTACAATATTCATACAAA
6773501 AAAATTACAATATTACAATATTCATACAA
1 AAAATTACAATATT-C-ATA--C--A-AA
6773530 AAAAATTACAATATTCATACAAAA
1 AA-AATTACAATATTCATAC-AAA
*
6773554 TTATAATATTAACAATATTCATTC--A
1 --A-AA-ATT-ACAATATTCATACAAA
*
6773579 AAAA-TATAATATTCATACAAA
1 AAAATTACAATATTCATACAAA
6773600 A
1 A
6773601 TTACAAAATT
Statistics
Matches: 145, Mismatches: 12, Indels: 57
0.68 0.06 0.27
Matches are distributed among these distances:
19 37 0.26
20 17 0.12
21 7 0.05
22 20 0.14
23 5 0.03
24 2 0.01
25 3 0.02
26 5 0.03
27 19 0.13
28 15 0.10
29 3 0.02
30 12 0.08
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (22 bp):
AAAATTACAATATTCATACAAA
Found at i:6773495 original size:20 final size:19
Alignment explanation
Indices: 6773391--6773563 Score: 119
Period size: 19 Copynumber: 8.9 Consensus size: 19
6773381 CATACAAAAT
6773391 TACAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
*
6773410 TACAAAAAAATTGCAATATTCA
1 TAC---AAAATTACAATATTCA
6773432 TACAAAATTATAATATTACAATATTCA
1 TAC------A-AA-ATTACAATATTCA
*
6773459 TACAACATTACAATATTCA
1 TACAAAATTACAATATTCA
* *
6773478 TAAAAAAGTTATAATATTCA
1 TACAAAA-TTACAATATTCA
6773498 TACAAAATTACAATA-T--
1 TACAAAATTACAATATTCA
*
6773514 TACAATATT-C-ATA--CA
1 TACAAAATTACAATATTCA
*
6773529 -AAAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
*
6773547 TACAAAATTATAATATT
1 TACAAAATTACAATATT
6773564 AACAATATTC
Statistics
Matches: 123, Mismatches: 15, Indels: 32
0.72 0.09 0.19
Matches are distributed among these distances:
14 9 0.07
15 2 0.02
16 11 0.09
18 3 0.02
19 42 0.34
20 18 0.15
21 1 0.01
22 18 0.15
25 2 0.02
26 2 0.02
27 15 0.12
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.33
Consensus pattern (19 bp):
TACAAAATTACAATATTCA
Found at i:6773495 original size:115 final size:116
Alignment explanation
Indices: 6773371--6773600 Score: 390
Period size: 115 Copynumber: 2.0 Consensus size: 116
6773361 TATCCCCACA
*
6773371 TTATAATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAATTGCAATATTCATACA
1 TTATAATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAATTACAATATTCATACA
* *
6773436 AAATTATAATATT-ACAATATTCATACAACATTACAATATTCATAAAAAAG
66 AAATTATAATATTAACAATATTCATACAAAAATACAATATTCATAAAAAAG
*
6773486 TTATAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAATTACAATATTCATACA
1 TTATAATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAATTACAATATTCATACA
* * *
6773551 AAATTATAATATTAACAATATTCATTCAAAAATATAATATTCATACAAAA
66 AAATTATAATATTAACAATATTCATACAAAAATACAATATTCATAAAAAA
6773601 TTACAAAATT
Statistics
Matches: 107, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
115 76 0.71
116 31 0.29
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.33
Consensus pattern (116 bp):
TTATAATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAATTACAATATTCATACA
AAATTATAATATTAACAATATTCATACAAAAATACAATATTCATAAAAAAG
Found at i:6773510 original size:47 final size:46
Alignment explanation
Indices: 6773394--6773618 Score: 225
Period size: 47 Copynumber: 4.9 Consensus size: 46
6773384 ACAAAATTAC
* * *
6773394 AAAATTACAATATTCATAC-AAA--A-AA-ATTGCAATATTCATAC
1 AAAATTATAATATTCATACAAAATTACAATATTACAATATTCATAA
* *
6773435 AAAATTATAATA-T--TACAATATTCATACAACATTACAATATTCATAA
1 AAAATTATAATATTCATACAA-AAT--TACAATATTACAATATTCATAA
6773481 AAAAGTTATAATATTCATACAAAATTACAATATTACAATATTCATACAAA
1 AAAA-TTATAATATTCATACAAAATTACAATATTACAATATTCAT---AA
* * *
6773531 AAAATTACAATATTCATACAAAATTATAATATTAACAATATTCATTCA
1 AAAATTATAATATTCATACAAAATTACAATATT-ACAATATTCA-TAA
*
6773579 AAAA-TATAATATTCATACAAAATTACAAAATTACAATATT
1 AAAATTATAATATTCATACAAAATTACAATATTACAATATT
6773619 NNNNNNNNNN
Statistics
Matches: 155, Mismatches: 12, Indels: 29
0.79 0.06 0.15
Matches are distributed among these distances:
38 3 0.02
39 1 0.01
40 2 0.01
41 11 0.07
44 1 0.01
45 2 0.01
46 26 0.17
47 52 0.34
48 6 0.04
49 29 0.19
50 21 0.14
51 1 0.01
ACGTcount: A:0.54, C:0.12, G:0.01, T:0.33
Consensus pattern (46 bp):
AAAATTATAATATTCATACAAAATTACAATATTACAATATTCATAA
Found at i:6773510 original size:96 final size:94
Alignment explanation
Indices: 6773311--6773608 Score: 256
Period size: 96 Copynumber: 3.1 Consensus size: 94
6773301 CTAACAAATT
* * * *
6773311 AATTATAAAATAATTGCAATATTCATACAAAAAATTACAATATTACAATA-TATCCCCACATTAT
1 AATTACAAAAAAATTGCAATATTCATAC-AAAAATTACAATATTACAATATTAT--CAACATTAC
* * *
6773375 AATATTCATACAAAATTACAA-AAT--TACAA
63 AATATTCATAAAAAATTATAATATTCATACAA
* *
6773404 TATTCATACAAAAAAATTGCAATATTCATAC-AAAATTATAATATTACAATATTCATACAACATT
1 -AAT--TACAAAAAAATTGCAATATTCATACAAAAATTACAATATTACAATATT-AT-CAACATT
6773468 ACAATATTCATAAAAAAGTTATAATATTCATACAA
61 ACAATATTCATAAAAAA-TTATAATATTCATACAA
* * * *
6773503 AATTAC---AATATTACAATATTCATACAAAAAAATTACAATATTCATACAAAATTAT-AATATT
1 AATTACAAAAAAATTGCAATATTCATAC--AAAAATTACAATA-T--TACAATATTATCAACATT
*
6773564 AACAATATTCATTCAAAAA-TATAATATTCATACAA
61 -ACAATATTCA-TAAAAAATTATAATATTCATACAA
6773599 AATTACAAAA
1 AATTACAAAA
6773609 TTACAATATT
Statistics
Matches: 168, Mismatches: 17, Indels: 33
0.77 0.08 0.15
Matches are distributed among these distances:
93 17 0.10
94 21 0.12
95 22 0.13
96 71 0.42
97 13 0.08
98 10 0.06
99 14 0.08
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.32
Consensus pattern (94 bp):
AATTACAAAAAAATTGCAATATTCATACAAAAATTACAATATTACAATATTATCAACATTACAAT
ATTCATAAAAAATTATAATATTCATACAA
Found at i:6773515 original size:66 final size:65
Alignment explanation
Indices: 6773391--6773606 Score: 247
Period size: 66 Copynumber: 3.2 Consensus size: 65
6773381 CATACAAAAT
** *
6773391 TACAAAATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAATTATAATATTACAATAT
1 TACAAAATTACAATATTCAT---AAAAAATTATAATATTCATACAAAATTACAATATTACAATAT
6773456 TCA
63 TCA
*
6773459 TACAACATTACAATATTCATAAAAAAGTTATAATATTCATACAAAATTACAATATTACAATATTC
1 TACAAAATTACAATATTCATAAAAAA-TTATAATATTCATACAAAATTACAATATTACAATATTC
6773524 A
65 A
* * * * *
6773525 TACAAAAAAATTACAATATTCATACAAAATTATAATATT-A-ACAATATTCATTCAAAAATATAA
1 TAC---AAAATTACAATATTCATAAAAAATTATAATATTCATACAAAATT-A--CAATATTACAA
6773588 TATTCA
60 TATTCA
6773594 TACAAAATTACAA
1 TACAAAATTACAA
6773607 AATTACAATA
Statistics
Matches: 131, Mismatches: 10, Indels: 16
0.83 0.06 0.10
Matches are distributed among these distances:
65 6 0.05
66 56 0.43
67 2 0.02
68 29 0.22
69 38 0.29
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (65 bp):
TACAAAATTACAATATTCATAAAAAATTATAATATTCATACAAAATTACAATATTACAATATTCA
Found at i:6773535 original size:30 final size:27
Alignment explanation
Indices: 6773490--6773618 Score: 131
Period size: 27 Copynumber: 5.2 Consensus size: 27
6773480 AAAAAGTTAT
6773490 AATATTCATACAAAATTACAATATTAC
1 AATATTCATACAAAATTACAATATTAC
6773517 AATATTCATAC-AAA--A-AA-ATTAC
1 AATATTCATACAAAATTACAATATTAC
*
6773539 AATATTCATACAAAATTATAATATTAAC
1 AATATTCATACAAAATTACAATATT-AC
*
6773567 AATATTCATTC--AA--A-AATA-T--
1 AATATTCATACAAAATTACAATATTAC
*
6773586 AATATTCATACAAAATTACAAAATTAC
1 AATATTCATACAAAATTACAATATTAC
6773613 AATATT
1 AATATT
6773619 NNNNNNNNNN
Statistics
Matches: 85, Mismatches: 3, Indels: 28
0.73 0.03 0.24
Matches are distributed among these distances:
19 10 0.12
21 2 0.02
22 17 0.20
23 10 0.12
24 5 0.06
25 2 0.02
26 7 0.08
27 20 0.24
28 12 0.14
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.33
Consensus pattern (27 bp):
AATATTCATACAAAATTACAATATTAC
Found at i:6773580 original size:28 final size:27
Alignment explanation
Indices: 6773490--6773591 Score: 133
Period size: 28 Copynumber: 3.9 Consensus size: 27
6773480 AAAAAGTTAT
*
6773490 AATATTCATACAAAATTACAATATTAC
1 AATATTCATACAAAATTATAATATTAC
6773517 AATATTCATAC-AAA--A-AA-ATTAC
1 AATATTCATACAAAATTATAATATTAC
6773539 AATATTCATACAAAATTATAATATTAAC
1 AATATTCATACAAAATTATAATATT-AC
* *
6773567 AATATTCATTCAAAAATATAATATT
1 AATATTCATACAAAATTATAATATT
6773592 CATACAAAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 11
0.84 0.03 0.14
Matches are distributed among these distances:
22 16 0.24
23 5 0.07
24 1 0.01
25 1 0.01
26 5 0.07
27 14 0.21
28 25 0.37
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (27 bp):
AATATTCATACAAAATTATAATATTAC
Found at i:6778018 original size:19 final size:19
Alignment explanation
Indices: 6777976--6778018 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
6777966 TAATAAAATC
* *
6777976 ATTTT-TAATTATTTATTA
1 ATTTTATAAATATTTAATA
*
6777994 ACTTTATAAATATTTAATA
1 ATTTTATAAATATTTAATA
6778013 ATTTTA
1 ATTTTA
6778019 ATTTCTCATT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTTTATAAATATTTAATA
Found at i:6789620 original size:19 final size:20
Alignment explanation
Indices: 6789596--6789636 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
6789586 TCTGGTGCAG
6789596 TAAAAT-ATTTTCAATTTTT
1 TAAAATAATTTTCAATTTTT
6789615 TAAAATAAATTTTCAATTTTT
1 TAAAAT-AATTTTCAATTTTT
6789636 T
1 T
6789637 CTTAAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 6 0.30
21 14 0.70
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (20 bp):
TAAAATAATTTTCAATTTTT
Found at i:6803031 original size:12 final size:12
Alignment explanation
Indices: 6803014--6803038 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6803004 TAAAAAGTGC
6803014 GATATTAGATAA
1 GATATTAGATAA
6803026 GATATTAGATAA
1 GATATTAGATAA
6803038 G
1 G
6803039 TTTGAACTCT
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:0.00, G:0.20, T:0.32
Consensus pattern (12 bp):
GATATTAGATAA
Found at i:6805348 original size:4 final size:4
Alignment explanation
Indices: 6805339--6805372 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
6805329 AATAAAATAA
6805339 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
6805373 CTTGGATGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:6808369 original size:2 final size:2
Alignment explanation
Indices: 6808364--6808396 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
6808354 GAGAGACACA
6808364 AG AG AG ATG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG A-G AG AG AG AG AG AG AG AG AG AG AG AG
6808397 TTACAGCTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.48, T:0.03
Consensus pattern (2 bp):
AG
Found at i:6813236 original size:21 final size:23
Alignment explanation
Indices: 6813196--6813237 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
6813186 TCATTCTTGT
6813196 TAAACATTTAGAACAAATAAATC
1 TAAACATTTAGAACAAATAAATC
*
6813219 TAAAC-TTTA-AACACATAAA
1 TAAACATTTAGAACAAATAAA
6813238 GATGTTCACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 4 0.22
23 5 0.28
ACGTcount: A:0.57, C:0.14, G:0.02, T:0.26
Consensus pattern (23 bp):
TAAACATTTAGAACAAATAAATC
Found at i:6813841 original size:17 final size:18
Alignment explanation
Indices: 6813798--6813841 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 18
6813788 GAGAATTATT
6813798 TTATTTTTATATGAAATAA
1 TTATTTTTATA-GAAATAA
6813817 TT-TGTTTTATA-AAATAA
1 TTAT-TTTTATAGAAATAA
6813834 TTATTTTT
1 TTATTTTT
6813842 CGAAAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 12 0.52
18 2 0.09
19 9 0.39
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
TTATTTTTATAGAAATAA
Found at i:6814253 original size:3 final size:3
Alignment explanation
Indices: 6814245--6814279 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
6814235 AGTGATATAT
6814245 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
6814280 TTGGTATGCT
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:6815611 original size:11 final size:11
Alignment explanation
Indices: 6815595--6815642 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
6815585 TTTTTATTTT
6815595 AAAAATTTTAA
1 AAAAATTTTAA
**
6815606 AAAAATTAAAA
1 AAAAATTTTAA
6815617 AAATATATTTTAA
1 AAA-A-ATTTTAA
*
6815630 AAATATTTTAA
1 AAAAATTTTAA
6815641 AA
1 AA
6815643 TTAAAAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
11 21 0.70
12 1 0.03
13 8 0.27
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAAATTTTAA
Found at i:6815631 original size:33 final size:32
Alignment explanation
Indices: 6815589--6815651 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 32
6815579 GGCCCATTTT
6815589 TATTTTAAAAAT-TTTAAAAAAATTAAAAAAATA
1 TATTTTAAAAATATTT--AAAAATTAAAAAAATA
*
6815622 TATTTTAAAAATATTTTAAAATTAAAAAAA
1 TATTTTAAAAATATTTAAAAATTAAAAAAA
6815652 ATAAAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 13 0.46
33 12 0.43
34 3 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (32 bp):
TATTTTAAAAATATTTAAAAATTAAAAAAATA
Found at i:6815670 original size:11 final size:11
Alignment explanation
Indices: 6815656--6815681 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6815646 AAAAAAATAA
6815656 AAAAATATTTT
1 AAAAATATTTT
6815667 AAAAATATTTT
1 AAAAATATTTT
6815678 AAAA
1 AAAA
6815682 TTAAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:6815689 original size:40 final size:39
Alignment explanation
Indices: 6815602--6815772 Score: 229
Period size: 39 Copynumber: 4.4 Consensus size: 39
6815592 TTTAAAAATT
*
6815602 TTAAAAAAATTAAAAAAATATATTTTAAAAATATTTTAAAA
1 TTAAAAAAAAT-AAAAAA-ATATTTTAAAAATATTTTAAAA
6815643 TTAAAAAAAATAAAAAAATATTTTAAAAATATTTTAAAA
1 TTAAAAAAAATAAAAAAATATTTTAAAAATATTTTAAAA
* *
6815682 TTAAAAAAATTAAAAAAAGTTTTTTAAAAATATTTTAAAA
1 TTAAAAAAAATAAAAAAA-TATTTTAAAAATATTTTAAAA
* * * *
6815722 TT-AAAAAAATTAAAAAGTATGTAAAAAATATTTTAAAA
1 TTAAAAAAAATAAAAAAATATTTTAAAAATATTTTAAAA
*
6815760 TT-TAAAAAATAAA
1 TTAAAAAAAATAAA
6815773 TATATTTATT
Statistics
Matches: 118, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
38 29 0.25
39 51 0.43
40 28 0.24
41 10 0.08
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (39 bp):
TTAAAAAAAATAAAAAAATATTTTAAAAATATTTTAAAA
Found at i:6843017 original size:24 final size:24
Alignment explanation
Indices: 6842988--6843038 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
6842978 AAAAAGCCTA
6842988 TAACGGGTAGCTCTAAAGAGCAAT
1 TAACGGGTAGCTCTAAAGAGCAAT
*
6843012 TAACGGGTAGCTCTGAAGAGCAAT
1 TAACGGGTAGCTCTAAAGAGCAAT
6843036 TAA
1 TAA
6843039 TGGGAAGCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (24 bp):
TAACGGGTAGCTCTAAAGAGCAAT
Found at i:6843149 original size:26 final size:26
Alignment explanation
Indices: 6843088--6843143 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
6843078 GAGCACTAAC
* *
6843088 GGGAAGCTTACAAAGAGCCTTTAATT
1 GGGAAGCTCACAAAGAGCCTATAATT
6843114 GGGAAGCTCACAAAGAGCCATATAA-T
1 GGGAAGCTCACAAAGAGCC-TATAATT
6843140 GGGA
1 GGGA
6843144 CACTCATAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 23 0.85
27 4 0.15
ACGTcount: A:0.38, C:0.16, G:0.27, T:0.20
Consensus pattern (26 bp):
GGGAAGCTCACAAAGAGCCTATAATT
Found at i:6850303 original size:21 final size:21
Alignment explanation
Indices: 6850277--6850334 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
6850267 CGTGTTTTAC
*
6850277 TTTCTGTTCAACTCTTATGAG
1 TTTCTGTTCAACTCTTACGAG
*
6850298 TTTCTGTT-AAGCTTTTACGAG
1 TTTCTGTTCAA-CTCTTACGAG
*
6850319 CTTCTGTTCAACTCTT
1 TTTCTGTTCAACTCTT
6850335 TTGTATCGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.17, C:0.21, G:0.14, T:0.48
Consensus pattern (21 bp):
TTTCTGTTCAACTCTTACGAG
Found at i:6851690 original size:66 final size:66
Alignment explanation
Indices: 6851575--6851700 Score: 234
Period size: 66 Copynumber: 1.9 Consensus size: 66
6851565 CATTTCAGAG
*
6851575 AGCAGACTCCCGCGAACCTCATCCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTGCAAGA
1 AGCACACTCCCGCGAACCTCATCCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTGCAAGA
6851640 T
66 T
*
6851641 AGCACACTCCCGCGAACCTCATCCTTACAGCGGGATTACCAGTCTAGGCTAAATCCCCTG
1 AGCACACTCCCGCGAACCTCATCCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTG
6851701 TAATATAAAC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.26, C:0.36, G:0.19, T:0.19
Consensus pattern (66 bp):
AGCACACTCCCGCGAACCTCATCCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCTGCAAGA
T
Found at i:6855777 original size:72 final size:72
Alignment explanation
Indices: 6855677--6855848 Score: 260
Period size: 72 Copynumber: 2.4 Consensus size: 72
6855667 AACAACAATG
* * *
6855677 CTAAA-CTAGTTTTGTCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTT
1 CTAAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTT
6855741 ATTTAT-
66 ATTTATA
* * *
6855747 GTGTAATCTAGTTTTATTAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACT
1 CT-AAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACT
6855812 TATTTATA
65 TATTTATA
6855820 CTAAAT-TAGTTTTATCAATAGTTGTTTAT
1 CTAAATCTAGTTTTATCAATAGTTGTTTAT
6855849 ATATGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
70 1 0.01
71 24 0.27
72 64 0.71
73 1 0.01
ACGTcount: A:0.25, C:0.06, G:0.15, T:0.54
Consensus pattern (72 bp):
CTAAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTT
ATTTATA
Found at i:6866186 original size:6 final size:6
Alignment explanation
Indices: 6866175--6866209 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
6866165 TTCTAAGACA
* *
6866175 GATGGT GATGGT GATGGT GATGGT AATGGT AATGG
1 GATGGT GATGGT GATGGT GATGGT GATGGT GATGG
6866210 AAGCTATCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.23, C:0.00, G:0.46, T:0.31
Consensus pattern (6 bp):
GATGGT
Found at i:6877964 original size:31 final size:31
Alignment explanation
Indices: 6877926--6877984 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
6877916 TTATAACATA
* *
6877926 TTTCATATTTTGTTTTCAATTCACTATCGTT
1 TTTCATATTCTATTTTCAATTCACTATCGTT
6877957 TTTCATATTCTATTTTCAATTCACTATC
1 TTTCATATTCTATTTTCAATTCACTATC
6877985 TCATATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.22, C:0.19, G:0.03, T:0.56
Consensus pattern (31 bp):
TTTCATATTCTATTTTCAATTCACTATCGTT
Found at i:6878128 original size:22 final size:22
Alignment explanation
Indices: 6878077--6878143 Score: 57
Period size: 22 Copynumber: 3.0 Consensus size: 22
6878067 ACTAATGAAC
* *
6878077 AGAGAGCACTA-AAGTGCTATAC
1 AGAGAGCAC-AGAAGTGCTAAAT
* *
6878099 AGACAGCACAGATGTGCTAAAT
1 AGAGAGCACAGAAGTGCTAAAT
*
6878121 AGAGAGCACTGACA-TGCTAAAT
1 AGAGAGCACAGA-AGTGCTAAAT
6878143 A
1 A
6878144 TCAGAGAGCG
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
21 1 0.03
22 35 0.97
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (22 bp):
AGAGAGCACAGAAGTGCTAAAT
Found at i:6881627 original size:13 final size:14
Alignment explanation
Indices: 6881604--6881638 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
6881594 ACCAAAATTC
6881604 CCTTTTCTTTCTTT
1 CCTTTTCTTTCTTT
*
6881618 -CTTTTGTTTCTTT
1 CCTTTTCTTTCTTT
6881631 CCTTTTCT
1 CCTTTTCT
6881639 CATTCTCTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.00, C:0.26, G:0.03, T:0.71
Consensus pattern (14 bp):
CCTTTTCTTTCTTT
Found at i:6883886 original size:17 final size:17
Alignment explanation
Indices: 6883864--6883903 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
6883854 AGTAAATATG
6883864 TAATTTTATTATTTTAA
1 TAATTTTATTATTTTAA
* *
6883881 TAA-TTTATTTTTTTTA
1 TAATTTTATTATTTTAA
6883897 TAATTTT
1 TAATTTT
6883904 TAAAGGATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TAATTTTATTATTTTAA
Found at i:6883941 original size:31 final size:32
Alignment explanation
Indices: 6883887--6883946 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
6883877 TTAATAATTT
*
6883887 ATTTTTTTTATAATTTTTAAAGGATTAAATCA
1 ATTTTTTTTATAATTTTTAAAGGACTAAATCA
*
6883919 ATTTTTTTTATCATTTTT-AAGGACTAAA
1 ATTTTTTTTATAATTTTTAAAGGACTAAA
6883947 GTATAATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 9 0.35
32 17 0.65
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (32 bp):
ATTTTTTTTATAATTTTTAAAGGACTAAATCA
Found at i:6899374 original size:17 final size:16
Alignment explanation
Indices: 6899352--6899393 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
6899342 GCTACCTATA
*
6899352 TTTTATTTCCTATTTCT
1 TTTTATTTCC-ATTTAT
6899369 TTTTATTTCCATTTAT
1 TTTTATTTCCATTTAT
6899385 TTTATATTT
1 TTT-TATTT
6899394 TACTAGAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTATTTCCATTTAT
Found at i:6899920 original size:24 final size:25
Alignment explanation
Indices: 6899903--6899953 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
6899893 AACATAATTT
*
6899903 TTTATTTATAAAATAACAGATATTA
1 TTTATTAATAAAATAACAGATATTA
* *
6899928 TTTGTTAATAAAATAA-AAATATTA
1 TTTATTAATAAAATAACAGATATTA
6899952 TT
1 TT
6899954 ATTTTATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (25 bp):
TTTATTAATAAAATAACAGATATTA
Found at i:6901854 original size:16 final size:17
Alignment explanation
Indices: 6901835--6901866 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
6901825 AGGGGGTCTC
6901835 AACAGTACC-GAGCTCT
1 AACAGTACCTGAGCTCT
6901851 AACAGTACCTGAGCTC
1 AACAGTACCTGAGCTC
6901867 ACCCAGCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (17 bp):
AACAGTACCTGAGCTCT
Found at i:6912667 original size:17 final size:17
Alignment explanation
Indices: 6912647--6912684 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
6912637 ACAGAAATTT
*
6912647 AAAGAATAAATAAATAA
1 AAAGAAAAAATAAATAA
6912664 AAAGAAAAAATAAATAA
1 AAAGAAAAAATAAATAA
6912681 AAAG
1 AAAG
6912685 TTCTGGTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.13
Consensus pattern (17 bp):
AAAGAAAAAATAAATAA
Found at i:6921542 original size:16 final size:15
Alignment explanation
Indices: 6921517--6921546 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
6921507 ACATGATCCC
6921517 TTTTTTTTTTTTCTT
1 TTTTTTTTTTTTCTT
6921532 TTTTTTCTTTTTTCT
1 TTTTTT-TTTTTTCT
6921547 GCTTTACAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTTTTTTTTTCTT
Found at i:6922512 original size:22 final size:22
Alignment explanation
Indices: 6922485--6922530 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
6922475 AAGTAAATAT
*
6922485 ATATAATATAATAATA-AAGTAA
1 ATATAATAAAATAA-ACAAGTAA
6922507 ATATAATAAAATAAACAAGTAA
1 ATATAATAAAATAAACAAGTAA
6922529 AT
1 AT
6922531 GAAACAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.28
Consensus pattern (22 bp):
ATATAATAAAATAAACAAGTAA
Found at i:6926712 original size:23 final size:23
Alignment explanation
Indices: 6926686--6926876 Score: 364
Period size: 23 Copynumber: 8.3 Consensus size: 23
6926676 AGTGTTATTG
6926686 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACGT
6926709 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACGT
6926732 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACGT
6926755 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACGT
*
6926778 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACGT
6926801 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACGT
6926824 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACGT
*
6926847 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACGT
6926870 ATCAGTG
1 ATCAGTG
6926877 TGGCACTTAT
Statistics
Matches: 165, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 165 1.00
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACGT
Found at i:6956669 original size:19 final size:20
Alignment explanation
Indices: 6956626--6956669 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
6956616 TAAAAATTAA
6956626 AAAAAATTAAAAACATAGTT
1 AAAAAATTAAAAACATAGTT
*
6956646 TAAAAA-TAAAAACA-ATGTT
1 AAAAAATTAAAAACATA-GTT
6956665 AAAAA
1 AAAAA
6956670 TGTTTTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 15 0.71
20 5 0.24
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (20 bp):
AAAAAATTAAAAACATAGTT
Found at i:6957620 original size:9 final size:9
Alignment explanation
Indices: 6957606--6957672 Score: 98
Period size: 9 Copynumber: 7.4 Consensus size: 9
6957596 GTAGTGATTC
*
6957606 AATTCGGGT
1 AATTCGGTT
*
6957615 AATTCGGGT
1 AATTCGGTT
*
6957624 AATCCGGTT
1 AATTCGGTT
6957633 AATTCGGTT
1 AATTCGGTT
6957642 AATTCGGTT
1 AATTCGGTT
*
6957651 AATTCGGGT
1 AATTCGGTT
6957660 AATTCGGTT
1 AATTCGGTT
6957669 AATT
1 AATT
6957673 TTTAATTTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.24, C:0.12, G:0.25, T:0.39
Consensus pattern (9 bp):
AATTCGGTT
Found at i:6960713 original size:37 final size:37
Alignment explanation
Indices: 6960655--6960730 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
6960645 ACTAAGAGAG
*
6960655 GATGCTGTTCTACTTAGAAAGGTGATAGGTTACATTT
1 GATGCTGTTCTACTTAGAAAGGTCATAGGTTACATTT
6960692 GATGCTGTTCTACCTTA-AAAGGTCATAGGTTACATTT
1 GATGCTGTTCTA-CTTAGAAAGGTCATAGGTTACATTT
6960729 GA
1 GA
6960731 GAAGGTAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
37 33 0.89
38 4 0.11
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (37 bp):
GATGCTGTTCTACTTAGAAAGGTCATAGGTTACATTT
Found at i:6967206 original size:12 final size:12
Alignment explanation
Indices: 6967189--6967213 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6967179 GGTGTGCATT
6967189 CGGTTAACCGAC
1 CGGTTAACCGAC
6967201 CGGTTAACCGAC
1 CGGTTAACCGAC
6967213 C
1 C
6967214 CGAATTAGTA
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:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:6967390 original size:9 final size:9
Alignment explanation
Indices: 6967376--6967446 Score: 97
Period size: 9 Copynumber: 7.9 Consensus size: 9
6967366 TGGTTAAAAA
6967376 TTAACCGAC
1 TTAACCGAC
*
6967385 TTAACCGAT
1 TTAACCGAC
* *
6967394 TTAACTGAT
1 TTAACCGAC
6967403 TTAACCGAC
1 TTAACCGAC
* *
6967412 TTAACCAAT
1 TTAACCGAC
6967421 TTAACCGAC
1 TTAACCGAC
6967430 TTAACCGAC
1 TTAACCGAC
6967439 TTAACCGA
1 TTAACCGA
6967447 TTTAGTTCAA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 54 1.00
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.28
Consensus pattern (9 bp):
TTAACCGAC
Found at i:6967406 original size:27 final size:27
Alignment explanation
Indices: 6967376--6967450 Score: 123
Period size: 27 Copynumber: 2.8 Consensus size: 27
6967366 TGGTTAAAAA
* *
6967376 TTAACCGACTTAACCGATTTAACTGAT
1 TTAACCGACTTAACCGATTTAACCGAC
*
6967403 TTAACCGACTTAACCAATTTAACCGAC
1 TTAACCGACTTAACCGATTTAACCGAC
6967430 TTAACCGACTTAACCGATTTA
1 TTAACCGACTTAACCGATTTA
6967451 GTTCAACTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.35, C:0.25, G:0.09, T:0.31
Consensus pattern (27 bp):
TTAACCGACTTAACCGATTTAACCGAC
Found at i:6968615 original size:15 final size:14
Alignment explanation
Indices: 6968586--6968619 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
6968576 AGAAAGAAAA
6968586 AAGAAAAACTAAAG
1 AAGAAAAACTAAAG
*
6968600 AAGAAAGAACTGAAG
1 AAGAAA-AACTAAAG
6968615 AAGAA
1 AAGAA
6968620 CTGAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.68, C:0.06, G:0.21, T:0.06
Consensus pattern (14 bp):
AAGAAAAACTAAAG
Found at i:6971470 original size:81 final size:81
Alignment explanation
Indices: 6971406--6971650 Score: 230
Period size: 81 Copynumber: 3.1 Consensus size: 81
6971396 GCAATACTCG
* * *
6971406 CCACCCGCTCAAGGTCGCACACCACCTACACAAGCTCATTCACCACCAACGCAATACCCGCCACC
1 CCACCCACTCAAGGTCGCACACCACCTACACAAGCTCATCCACCACCAACACAATACCCGCCACC
*
6971471 CACTCAAACTCATCCA
66 CACTCAAACGCATCCA
* * * * * *
6971487 CCACCTACTCAAGGTTGCACACCACCTACTCAAGCTCATCCACCACCAACACAATTCACACCACC
1 CCACCCACTCAAGGTCGCACACCACCTACACAAGCTCATCCACCACCAACACAATACCCGCCACC
* * *
6971552 CACTCAAGCTCATCCT
66 CACTCAAACGCATCCA
* ** * ** ** *
6971568 CCACCAAGACAA--TAC-C-CACCACCCATTCAAGCTCATCCACCACCAAGGCAATACTCGCCAC
1 CCACCCACTCAAGGT-CGCACACCACCTACACAAGCTCATCCACCACCAACACAATACCCGCCAC
*
6971629 CCACTC-AAGGCCATCCA
65 CCACTCAAACG-CATCCA
6971646 CCACC
1 CCACC
6971651 TACACTAACT
Statistics
Matches: 136, Mismatches: 26, Indels: 7
0.80 0.15 0.04
Matches are distributed among these distances:
77 1 0.01
78 54 0.40
79 2 0.01
81 79 0.58
ACGTcount: A:0.31, C:0.47, G:0.08, T:0.13
Consensus pattern (81 bp):
CCACCCACTCAAGGTCGCACACCACCTACACAAGCTCATCCACCACCAACACAATACCCGCCACC
CACTCAAACGCATCCA
Found at i:6971483 original size:39 final size:39
Alignment explanation
Indices: 6971423--6971948 Score: 281
Period size: 39 Copynumber: 13.3 Consensus size: 39
6971413 CTCAAGGTCG
* * *
6971423 CACACCACCTACACAAGCTCATTCACCACCAACGCAATA
1 CACACCACCCACTCAAGCTCATCCACCACCAACGCAATA
* * * * * *
6971462 CCCGCCACCCACTCAAACTCATCCACCACCTACTCAAGGTTG
1 CACACCACCCACTCAAGCTCATCCACCACCAACGCAA---TA
* * *
6971504 CACACCACCTACTCAAGCTCATCCACCACCAACACAATT
1 CACACCACCCACTCAAGCTCATCCACCACCAACGCAATA
*
6971543 CACACCACCCACTCAAGCTCATCCTCCACCAA-GACAATA
1 CACACCACCCACTCAAGCTCATCCACCACCAACG-CAATA
* * *
6971582 CCCACCACCCATTCAAGCTCATCCACCACCAAGGCAATA
1 CACACCACCCACTCAAGCTCATCCACCACCAACGCAATA
* * * * *
6971621 CTCGCCACCCACTCAAGGC-CATCCACCACCTACACTA-A
1 CACACCACCCACTCAA-GCTCATCCACCACCAACGCAATA
* * * *
6971659 CTCACC-CTCCAC-CAAGGC-AATGCCCACCACCCACTCAA-A
1 CACACCAC-CCACTCAA-GCTCAT--CCACCACCAACGCAATA
* *
6971698 CACATCCA-CCAC-CAA-CTCAAACTCCTCCACCAAGGCAATA
1 CACA-CCACCCACTCAAGCTC--A-TCCACCACCAACGCAATA
* * * * *
6971738 CCCGCCACCCACTCAAGCACATCCACCACCAAGGCTATA
1 CACACCACCCACTCAAGCTCATCCACCACCAACGCAATA
* * * * *
6971777 CCCACCACCTATTCAAGCTCATCCACCACCCACTCAA-A
1 CACACCACCCACTCAAGCTCATCCACCACCAACGCAATA
* * * * *
6971815 CACATCCA-CCGC-CAACGCAAT-ACCCGCCACCCACACAAGCT-
1 CACA-CCACCCACTCAA-GC--TCATCCACCACCAACGCAA--TA
* * * * *
6971856 CATCCGCCACCCACTCAAACCCATCCACCATCAAGGCAATA
1 CA--CACCACCCACTCAAGCTCATCCACCACCAACGCAATA
* * * * *
6971897 CTCACCACCCATTCAAACACATCCACCACCAATGCAATA
1 CACACCACCCACTCAAGCTCATCCACCACCAACGCAATA
*
6971936 CACGCCACCCACT
1 CACACCACCCACT
6971949 AAAGGTTGTG
Statistics
Matches: 375, Mismatches: 80, Indels: 64
0.72 0.15 0.12
Matches are distributed among these distances:
37 13 0.03
38 17 0.05
39 266 0.71
40 16 0.04
41 7 0.02
42 48 0.13
43 5 0.01
44 3 0.01
ACGTcount: A:0.33, C:0.48, G:0.06, T:0.13
Consensus pattern (39 bp):
CACACCACCCACTCAAGCTCATCCACCACCAACGCAATA
Found at i:6971489 original size:60 final size:60
Alignment explanation
Indices: 6971381--6971499 Score: 159
Period size: 60 Copynumber: 2.0 Consensus size: 60
6971371 CTATTGAAAG
* * **
6971381 TCATCCACCACCAACGCAATACTCGCCACCCGCTCAAGGTCGCACACCACCTACACAAGC
1 TCATCCACCACCAACGCAATACCCGCCACCCACTCAAACTCGCACACCACCTACACAAGC
* * *
6971441 TCATTCACCACCAACGCAATACCCGCCACCCACTCAAACTCATC-CACCACCTACTCAAG
1 TCATCCACCACCAACGCAATACCCGCCACCCACTCAAACTC-GCACACCACCTACACAAG
6971500 GTTGCACACC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
60 50 0.98
61 1 0.02
ACGTcount: A:0.31, C:0.47, G:0.08, T:0.13
Consensus pattern (60 bp):
TCATCCACCACCAACGCAATACCCGCCACCCACTCAAACTCGCACACCACCTACACAAGC
Found at i:6971533 original size:24 final size:22
Alignment explanation
Indices: 6971484--6971534 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
6971474 TCAAACTCAT
* *
6971484 CCACCACCTACTCAAGGTTGCA
1 CCACCACCTACTCAAGCTTCCA
6971506 -CACCACCTACTCAAGCTCATCCA
1 CCACCACCTACTCAAGCT--TCCA
6971529 CCACCA
1 CCACCA
6971535 ACACAATTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 16 0.67
23 3 0.12
24 5 0.21
ACGTcount: A:0.29, C:0.47, G:0.08, T:0.16
Consensus pattern (22 bp):
CCACCACCTACTCAAGCTTCCA
Found at i:6971647 original size:57 final size:56
Alignment explanation
Indices: 6971586--6971764 Score: 175
Period size: 57 Copynumber: 3.1 Consensus size: 56
6971576 ACAATACCCA
* * *
6971586 CCACCCATTCAAGCTCATCCACCACCAAGGCAATACTCGCCACCCACTCAAGGC-CAT
1 CCACCCATACAA-CTCATCCTCCACCAAGGCAATACCCGCCACCCACTCAA-GCACAT
* * * * *
6971643 CCACCACCTACACTAACTCACCCTCCACCAAGGCAATGCCCACCACCCACTCAAACACAT
1 CCA-C-CC-ATAC-AACTCATCCTCCACCAAGGCAATACCCGCCACCCACTCAAGCACAT
*
6971703 CCA-CCA-CCAACTCAAACTCCTCCACCAAGGCAATACCCGCCACCCACTCAAGCACAT
1 CCACCCATACAACTC--A-TCCTCCACCAAGGCAATACCCGCCACCCACTCAAGCACAT
6971760 CCACC
1 CCACC
6971765 ACCAAGGCTA
Statistics
Matches: 100, Mismatches: 13, Indels: 17
0.77 0.10 0.13
Matches are distributed among these distances:
54 5 0.05
55 1 0.01
56 2 0.02
57 44 0.44
58 2 0.02
59 3 0.03
60 41 0.41
61 2 0.02
ACGTcount: A:0.32, C:0.49, G:0.07, T:0.12
Consensus pattern (56 bp):
CCACCCATACAACTCATCCTCCACCAAGGCAATACCCGCCACCCACTCAAGCACAT
Found at i:6971647 original size:60 final size:59
Alignment explanation
Indices: 6971583--6971767 Score: 225
Period size: 60 Copynumber: 3.1 Consensus size: 59
6971573 AAGACAATAC
* * *
6971583 CCACCACCCATTCAAGCTCATCCACCACCAAGGCAATACTCGCCACCCACTCAAGGC-CAT
1 CCACCACCCACTCAA-CTCATCCTCCACCAAGGCAATACCCGCCACCCACTCAA-GCACAT
* * * *
6971643 CCACCACCTACACT-AACTCACCCTCCACCAAGGCAATGCCCACCACCCACTCAAACACAT
1 CCACCACC--CACTCAACTCATCCTCCACCAAGGCAATACCCGCCACCCACTCAAGCACAT
* *
6971703 CCACCACCAACTCAA-AC-TCCTCCACCAAGGCAATACCCGCCACCCACTCAAGCACAT
1 CCACCACCCACTCAACTCATCCTCCACCAAGGCAATACCCGCCACCCACTCAAGCACAT
6971760 CCACCACC
1 CCACCACC
6971768 AAGGCTATAC
Statistics
Matches: 108, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
57 44 0.41
58 4 0.04
59 3 0.03
60 52 0.48
61 2 0.02
62 3 0.03
ACGTcount: A:0.32, C:0.50, G:0.07, T:0.11
Consensus pattern (59 bp):
CCACCACCCACTCAACTCATCCTCCACCAAGGCAATACCCGCCACCCACTCAAGCACAT
Found at i:6971765 original size:57 final size:58
Alignment explanation
Indices: 6971607--6971769 Score: 222
Period size: 57 Copynumber: 2.8 Consensus size: 58
6971597 AGCTCATCCA
* * *
6971607 CCACCAAGGCAATACTCGCCACCCACTCAAGGC-CATCCACCACCTACACTAACTCACCCT
1 CCACCAAGGCAATACCCGCCACCCACTCAA-GCACATCCACCACCAACACAAACT--CCCT
* * * *
6971667 CCACCAAGGCAATGCCCACCACCCACTCAAACACATCCACCACCAACTCAAACT-CCT
1 CCACCAAGGCAATACCCGCCACCCACTCAAGCACATCCACCACCAACACAAACTCCCT
6971724 CCACCAAGGCAATACCCGCCACCCACTCAAGCACATCCACCACCAA
1 CCACCAAGGCAATACCCGCCACCCACTCAAGCACATCCACCACCAA
6971770 GGCTATACCC
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
57 46 0.50
59 1 0.01
60 45 0.49
ACGTcount: A:0.33, C:0.49, G:0.07, T:0.10
Consensus pattern (58 bp):
CCACCAAGGCAATACCCGCCACCCACTCAAGCACATCCACCACCAACACAAACTCCCT
Found at i:6971819 original size:60 final size:60
Alignment explanation
Indices: 6971682--6971926 Score: 255
Period size: 60 Copynumber: 4.1 Consensus size: 60
6971672 AAGGCAATGC
** * * ** *
6971682 CCACCACCCACTCAAACACATCCACCACCAACTCAA-ACTCCTCCACCAAGGCAA--T-AC
1 CCACCACCCACTCAAACACATCCACCACCAAGGCAATAC-CCACCACCCATTCAAGCTCAT
* * * *
6971739 CCGCCACCCACTCAAGCACATCCACCACCAAGGCTATACCCACCACCTATTCAAGCTCAT
1 CCACCACCCACTCAAACACATCCACCACCAAGGCAATACCCACCACCCATTCAAGCTCAT
* * * **
6971799 CCACCACCCACTCAAACACATCCACCGCCAACGCAATACCCGCCACCCACACAAGCTCAT
1 CCACCACCCACTCAAACACATCCACCACCAAGGCAATACCCACCACCCATTCAAGCTCAT
* * * * * *
6971859 CCGCCACCCACTCAAACCCATCCACCATCAAGGCAATACTCACCACCCATTCAAACACAT
1 CCACCACCCACTCAAACACATCCACCACCAAGGCAATACCCACCACCCATTCAAGCTCAT
6971919 CCACCACC
1 CCACCACC
6971927 AATGCAATAC
Statistics
Matches: 153, Mismatches: 31, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
57 42 0.27
58 2 0.01
59 1 0.01
60 108 0.71
ACGTcount: A:0.33, C:0.49, G:0.06, T:0.11
Consensus pattern (60 bp):
CCACCACCCACTCAAACACATCCACCACCAAGGCAATACCCACCACCCATTCAAGCTCAT
Found at i:6971860 original size:99 final size:99
Alignment explanation
Indices: 6971506--6971947 Score: 375
Period size: 99 Copynumber: 4.5 Consensus size: 99
6971496 CAAGGTTGCA
* * * * * * * *
6971506 CACCACCTACTCAAGCTCATCCACCACCAACACAATTCACACCACCCACTCAAGCTCATCCTCCA
1 CACCACCAACTCAAACACATCCACCACCAACGCAATACCCGCCACCCACACAAGCTCATCCTCCA
*
6971571 CCAAGACAATACCCACCACCCATTCAAGCTCATC
66 CCAAGGCAATACCCACCACCCATTCAAGCTCATC
** * * * * * * *
6971605 CACCACCAAGGCAATACTC-GCCACCCACTCAAGGCCAT--CCACCACCTACACTAA-CTCACCC
1 CACCACCAACTCAA-ACACATCCA-CCAC-CAACGCAATACCCGCCACCCACAC-AAGCTCATCC
* * * *
6971666 TCCACCAAGGCAATGCCCACCACCCACTCAAACACATC
62 TCCACCAAGGCAATACCCACCACCCATTCAAGCTCATC
* * * * *
6971704 CACCACCAACTC-AA-AC-TCCTCCACCAAGGCAATACCCGCCACCCACTCAAGCACATCCACCA
1 CACCACCAACTCAAACACATCCACCACCAACGCAATACCCGCCACCCACACAAGCTCATCCTCCA
* *
6971766 CCAAGGCTATACCCACCACCTATTCAAGCTCATC
66 CCAAGGCAATACCCACCACCCATTCAAGCTCATC
* * *
6971800 CACCACCCACTCAAACACATCCACCGCCAACGCAATACCCGCCACCCACACAAGCTCATCCGCCA
1 CACCACCAACTCAAACACATCCACCACCAACGCAATACCCGCCACCCACACAAGCTCATCCTCCA
* ** *
6971865 CCCACTCAA-ACCCATCCA-CCA-TCAAGGC-AATAC
66 CCAAGGCAATACCCA-CCACCCATTCAA-GCTCAT-C
* * * *
6971898 TCACCACCCATTCAAACACATCCACCACCAATGCAATACACGCCACCCAC
1 -CACCACCAACTCAAACACATCCACCACCAACGCAATACCCGCCACCCAC
6971948 TAAAGGTTGT
Statistics
Matches: 277, Mismatches: 52, Indels: 28
0.78 0.15 0.08
Matches are distributed among these distances:
94 8 0.03
95 6 0.02
96 60 0.22
97 9 0.03
98 13 0.05
99 166 0.60
100 9 0.03
101 6 0.02
ACGTcount: A:0.33, C:0.48, G:0.06, T:0.12
Consensus pattern (99 bp):
CACCACCAACTCAAACACATCCACCACCAACGCAATACCCGCCACCCACACAAGCTCATCCTCCA
CCAAGGCAATACCCACCACCCATTCAAGCTCATC
Found at i:6971965 original size:99 final size:99
Alignment explanation
Indices: 6971800--6972064 Score: 291
Period size: 99 Copynumber: 2.7 Consensus size: 99
6971790 CAAGCTCATC
* * **
6971800 CACCACCCACTCAAACACATCCACCGCCAACGCAATACCCGCCACCCAC-ACAAGCTCATCCGCC
1 CACCACCCACTCAAACACATCCACCACCAACGCAATACACGCCACCCACTA-AAGCTCATCAACC
*
6971864 ACCCACTCAAACCCATCCACCATCAAGGCAATACT
65 ACCCACTCAAACCCATCCACCACCAAGGCAATACT
* * * ** *
6971899 CACCACCCATTCAAACACATCCACCACCAATGCAATACACGCCACCCACTAAAGGTTGTGAACCA
1 CACCACCCACTCAAACACATCCACCACCAACGCAATACACGCCACCCACTAAAGCTCATCAACCA
* * * * *
6971964 CCTACTCAAGCTCATCCTCCACCGAGGCAATACT
66 CCCACTCAAACCCATCCACCACCAAGGCAATACT
* * * * * * *
6971998 CACCTCCAACTCAAACTCATCCACCACCAACCCAATACTCGCCGCCCACTCAAAG-TCATCCACC
1 CACCACCCACTCAAACACATCCACCACCAACGCAATACACGCCACCCACT-AAAGCTCATCAACC
6972062 ACC
65 ACC
6972065 AATGCAGTAC
Statistics
Matches: 136, Mismatches: 28, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
99 131 0.96
100 5 0.04
ACGTcount: A:0.33, C:0.46, G:0.08, T:0.13
Consensus pattern (99 bp):
CACCACCCACTCAAACACATCCACCACCAACGCAATACACGCCACCCACTAAAGCTCATCAACCA
CCCACTCAAACCCATCCACCACCAAGGCAATACT
Found at i:6972090 original size:39 final size:39
Alignment explanation
Indices: 6971960--6972097 Score: 143
Period size: 39 Copynumber: 3.5 Consensus size: 39
6971950 AAGGTTGTGA
* * *
6971960 ACCACCTACTC-AAGCTCATCCTCCACCGAGGCAATACTC
1 ACCACCTACTCAAAG-TCATCCACCACCAACGCAATACTC
* * * *
6971999 ACCTCCAACTCAAACTCATCCACCACCAACCCAATACTC
1 ACCACCTACTCAAAGTCATCCACCACCAACGCAATACTC
* * * * *
6972038 GCCGCCCACTCAAAGTCATCCACCACCAATGCAGTACTC
1 ACCACCTACTCAAAGTCATCCACCACCAACGCAATACTC
*
6972077 ACCACCTACTCAAATTCATCC
1 ACCACCTACTCAAAGTCATCC
6972098 GCAGCCTCCT
Statistics
Matches: 80, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
39 78 0.98
40 2 0.03
ACGTcount: A:0.31, C:0.45, G:0.07, T:0.17
Consensus pattern (39 bp):
ACCACCTACTCAAAGTCATCCACCACCAACGCAATACTC
Found at i:6986228 original size:13 final size:13
Alignment explanation
Indices: 6986187--6986239 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
6986177 TTTAAACCAA
*
6986187 ACTTCTCAAATGC
1 ACTTCTCAAAAGC
* *
6986200 ACTTTTCCACAA-C
1 ACTTCT-CAAAAGC
6986213 ACTTCTCAAAAGC
1 ACTTCTCAAAAGC
*
6986226 ACTTTTCAAAAGC
1 ACTTCTCAAAAGC
6986239 A
1 A
6986240 TTGCCAAACT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
12 4 0.12
13 25 0.78
14 3 0.09
ACGTcount: A:0.36, C:0.30, G:0.06, T:0.28
Consensus pattern (13 bp):
ACTTCTCAAAAGC
Found at i:6997250 original size:21 final size:21
Alignment explanation
Indices: 6997226--6997266 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6997216 TTTTTTTCAC
* * *
6997226 GTTAGGTTTTTGGTTTTTAGG
1 GTTAGGGTTTGGGGTTTTAGG
6997247 GTTAGGGTTTGGGGTTTTAG
1 GTTAGGGTTTGGGGTTTTAG
6997267 AGAAAAAAGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.00, G:0.39, T:0.51
Consensus pattern (21 bp):
GTTAGGGTTTGGGGTTTTAGG
Found at i:6997710 original size:125 final size:125
Alignment explanation
Indices: 6997346--6997783 Score: 743
Period size: 125 Copynumber: 3.5 Consensus size: 125
6997336 AAAATCAAAA
* *
6997346 CAGGATGCTTTATAAGAAGAATTTGTGAAATCGCGCCCTCGTGGATGCGCTTTTGCTACAGTAGG
1 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGG
** *
6997411 TCCTGGAAAAAATAATTTCGAGTTGATATTTCTGAGCAAATAGTATAAAAACGTTTCAAG
66 TCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTCAAG
*
6997471 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCC-CGTGGACGTGCTTTTGCTACAGTAGG
1 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGG
* *
6997535 TCCTGGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAACACTTCAAG
66 TCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTCAAG
*
6997595 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGTTTTTGCTACAGTAGG
1 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGG
*
6997660 TCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAATATAAAAACGCTTCAAG
66 TCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTCAAG
* * * *
6997720 CAGGATGCTTTATGACAAGAACTTGTGAGATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAG
1 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
6997784 CATGTTTGGG
Statistics
Matches: 294, Mismatches: 18, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
124 117 0.40
125 177 0.60
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (125 bp):
CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGG
TCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTCAAG
Found at i:7000484 original size:29 final size:30
Alignment explanation
Indices: 7000425--7000482 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
7000415 TCCGAGCCTT
*
7000425 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
7000455 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
7000483 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:7000712 original size:13 final size:13
Alignment explanation
Indices: 7000694--7000725 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
7000684 TTTCCAGAAA
7000694 TTATGAATTTATT
1 TTATGAATTTATT
7000707 TTATGAATTTATT
1 TTATGAATTTATT
*
7000720 TGATGA
1 TTATGA
7000726 TGACCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:7000933 original size:50 final size:51
Alignment explanation
Indices: 7000820--7001061 Score: 283
Period size: 50 Copynumber: 4.7 Consensus size: 51
7000810 ATTTGGGTAA
* * *
7000820 AGAGATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--AAGATC--G
* *
7000876 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGA-CG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATCG
* * *
7000926 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT-G
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATCG
* * * *
7000976 AGATGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATC-
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATCG
**
7001026 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
7001062 TTTGGCATGT
Statistics
Matches: 164, Mismatches: 19, Indels: 11
0.85 0.10 0.06
Matches are distributed among these distances:
50 91 0.55
51 29 0.18
52 1 0.01
53 3 0.02
55 2 0.01
56 38 0.23
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.20
Consensus pattern (51 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATCG
Found at i:7001009 original size:100 final size:103
Alignment explanation
Indices: 7000820--7001069 Score: 337
Period size: 100 Copynumber: 2.4 Consensus size: 103
7000810 ATTTGGGTAA
*
7000820 AGAGATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* * *
7000885 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGA-C
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATC
* * * *
7000925 GAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGATGTCCCCT
1 -AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCT
7000987 ATAAGACCATGTCTGGGACATGGCATGGGCACCAACATC
65 ATAAGACCATGTCTGGGACATGGCATGGGCACCAACATC
* *
7001026 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
7001070 GTTATTATCA
Statistics
Matches: 130, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
100 49 0.38
101 40 0.31
105 2 0.02
106 39 0.30
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCAACATC
Found at i:7003650 original size:6 final size:6
Alignment explanation
Indices: 7003633--7003662 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
7003623 GTACCAGTCA
*
7003633 AGGGTT AAGGTT AGGGTT AGGGTT AGGGTT
1 AGGGTT AGGGTT AGGGTT AGGGTT AGGGTT
7003663 TTTAAGTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.20, C:0.00, G:0.47, T:0.33
Consensus pattern (6 bp):
AGGGTT
Found at i:7003701 original size:21 final size:21
Alignment explanation
Indices: 7003653--7003727 Score: 107
Period size: 21 Copynumber: 3.5 Consensus size: 21
7003643 TTAGGGTTAG
7003653 GGTTAGGGTTTTTAAGTT-AA
1 GGTTAGGGTTTTTAAGTTAAA
7003673 GTGTTTAGGGTTTTTAAGTTAAA
1 G-G-TTAGGGTTTTTAAGTTAAA
*
7003696 GGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAA
*
7003717 GGTTAGAGTTT
1 GGTTAGGGTTT
7003728 AGGGTTTAGG
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
20 1 0.02
21 29 0.58
22 17 0.34
23 3 0.06
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (21 bp):
GGTTAGGGTTTTTAAGTTAAA
Found at i:7003795 original size:22 final size:22
Alignment explanation
Indices: 7003769--7003883 Score: 106
Period size: 22 Copynumber: 5.0 Consensus size: 22
7003759 GGTTTTTCAG
*
7003769 TTAAGTCAAGGGTTTAGGGTTT
1 TTAAGTTAAGGGTTTAGGGTTT
** *
7003791 TTAAGTTAAAAGTTTAAGGTTT
1 TTAAGTTAAGGGTTTAGGGTTT
7003813 TTAAGTTAAGGGTTAGGGTTTAGGGTTT
1 TTAAGTT-A-----AGGGTTTAGGGTTT
** *
7003841 TTAAGTTAAAAGTTTAAGGTTT
1 TTAAGTTAAGGGTTTAGGGTTT
7003863 TTAAGTTAAGGG-TTAGGGTTT
1 TTAAGTTAAGGGTTTAGGGTTT
7003884 AGAGTTTATG
Statistics
Matches: 74, Mismatches: 13, Indels: 13
0.74 0.13 0.13
Matches are distributed among these distances:
21 8 0.11
22 46 0.62
23 1 0.01
27 1 0.01
28 18 0.24
ACGTcount: A:0.28, C:0.01, G:0.28, T:0.43
Consensus pattern (22 bp):
TTAAGTTAAGGGTTTAGGGTTT
Found at i:7003841 original size:50 final size:50
Alignment explanation
Indices: 7003777--7003890 Score: 219
Period size: 50 Copynumber: 2.3 Consensus size: 50
7003767 AGTTAAGTCA
7003777 AGGGTTTAGGGTTTTTAAGTTAAAAGTTTAAGGTTTTTAAGTTAAGGGTT
1 AGGGTTTAGGGTTTTTAAGTTAAAAGTTTAAGGTTTTTAAGTTAAGGGTT
7003827 AGGGTTTAGGGTTTTTAAGTTAAAAGTTTAAGGTTTTTAAGTTAAGGGTT
1 AGGGTTTAGGGTTTTTAAGTTAAAAGTTTAAGGTTTTTAAGTTAAGGGTT
*
7003877 AGGGTTTAGAGTTT
1 AGGGTTTAGGGTTT
7003891 ATGGTTTTTA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 63 1.00
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.44
Consensus pattern (50 bp):
AGGGTTTAGGGTTTTTAAGTTAAAAGTTTAAGGTTTTTAAGTTAAGGGTT
Found at i:7003931 original size:50 final size:51
Alignment explanation
Indices: 7003777--7003940 Score: 210
Period size: 50 Copynumber: 3.1 Consensus size: 51
7003767 AGTTAAGTCA
7003777 AGGGTTTAGGGTTTTTAAGTTAAAAGTTTAAGGTTTTTAAGTTAAGGG-TT
1 AGGGTTTAGGGTTTTTAAGTTAAAAGTTTAAGGTTTTTAAGTTAAGGGTTT
7003827 AGGGTTTAGGGTTTTTAAGTTAAAAGTTTAAGGTTTTTAAGTTAAGGG-TT
1 AGGGTTTAGGGTTTTTAAGTTAAAAGTTTAAGGTTTTTAAGTTAAGGGTTT
* *
7003877 AGGGTTTAGAGTTTATGGTTTTTAAGTT-AAGGGTT-AGGATTTTTAAGTTAAGGGTTT
1 AGGGTTT--AG-----GGTTTTTAAGTTAAAAGTTTAAGG-TTTTTAAGTTAAGGGTTT
7003934 AGGGTTT
1 AGGGTTT
7003941 GTCAATTAAA
Statistics
Matches: 103, Mismatches: 2, Indels: 11
0.89 0.02 0.09
Matches are distributed among these distances:
50 57 0.55
52 2 0.02
55 3 0.03
56 20 0.19
57 21 0.20
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (51 bp):
AGGGTTTAGGGTTTTTAAGTTAAAAGTTTAAGGTTTTTAAGTTAAGGGTTT
Found at i:7003935 original size:22 final size:21
Alignment explanation
Indices: 7003887--7003936 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 21
7003877 AGGGTTTAGA
7003887 GTTTATGGTTTTTAAGTTAAGG
1 GTTTA-GGTTTTTAAGTTAAGG
7003909 G-TTAGGATTTTTAAGTTAAGG
1 GTTTAGG-TTTTTAAGTTAAGG
7003930 GTTTAGG
1 GTTTAGG
7003937 GTTTGTCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 2 0.08
21 18 0.69
22 6 0.23
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (21 bp):
GTTTAGGTTTTTAAGTTAAGG
Found at i:7004203 original size:21 final size:21
Alignment explanation
Indices: 7004179--7004223 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
7004169 TTGTCTAGCT
*
7004179 TCCGGCGACGG-TTGTGGTTCC
1 TCCGGCG-CGGATTCTGGTTCC
*
7004200 TCCGGCGGGGATTCTGGTTCC
1 TCCGGCGCGGATTCTGGTTCC
7004221 TCC
1 TCC
7004224 AGTAGGGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.04, C:0.31, G:0.36, T:0.29
Consensus pattern (21 bp):
TCCGGCGCGGATTCTGGTTCC
Found at i:7005352 original size:20 final size:20
Alignment explanation
Indices: 7005315--7005352 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
7005305 ATTATTTTTA
*
7005315 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
7005335 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
7005353 TACTTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:7006283 original size:14 final size:14
Alignment explanation
Indices: 7006250--7006276 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7006240 TACGATTTAA
7006250 AAATTTTTTTAAAT
1 AAATTTTTTTAAAT
7006264 AAATTTTTTTAAA
1 AAATTTTTTTAAA
7006277 ATTATTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
AAATTTTTTTAAAT
Found at i:7006330 original size:51 final size:51
Alignment explanation
Indices: 7006286--7006385 Score: 148
Period size: 51 Copynumber: 2.0 Consensus size: 51
7006276 AATTATTTAA
*
7006286 AAATAGGGATTTAAGAGAAATTTA-AGAGGAAATTGAGAGCAAATTGAGATT
1 AAATAGGGATTTAAGAGAAATTTAGA-AAGAAATTGAGAGCAAATTGAGATT
* * *
7006337 AAATATGGATTTAAGAGAGATTTAGAAAGAATTTGAGAGCAAATTGAGA
1 AAATAGGGATTTAAGAGAAATTTAGAAAGAAATTGAGAGCAAATTGAGA
7006386 GGAAATTGAG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
51 43 0.98
52 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.25, T:0.26
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAAGAAATTGAGAGCAAATTGAGATT
Found at i:7007161 original size:65 final size:66
Alignment explanation
Indices: 7007036--7007163 Score: 186
Period size: 65 Copynumber: 2.0 Consensus size: 66
7007026 TAAAAAACGG
* ** *
7007036 TTTTTACATGAAAAAAAGTAATTACTAAAATAAAATAAAAACAAATTATTTCCAATAATGTATCG
1 TTTTTACATGAAAAAAAGTAATTACGAAAATAAAATAAAAACAAATTATTTAAAAGAATGTATCG
7007101 T
66 T
* * *
7007102 TTTTTACATG-AAAAAATTAATTACGAAAATAAAATAAAAATAAATTGTTTAAAAGAATGTAT
1 TTTTTACATGAAAAAAAGTAATTACGAAAATAAAATAAAAACAAATTATTTAAAAGAATGTAT
7007164 TATTTTAAAG
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
65 45 0.82
66 10 0.18
ACGTcount: A:0.53, C:0.06, G:0.07, T:0.34
Consensus pattern (66 bp):
TTTTTACATGAAAAAAAGTAATTACGAAAATAAAATAAAAACAAATTATTTAAAAGAATGTATCG
T
Found at i:7007199 original size:17 final size:17
Alignment explanation
Indices: 7007164--7007196 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
7007154 AAGAATGTAT
*
7007164 TATTTTAAAGACAATAA
1 TATTTTAAAGAAAATAA
7007181 TATTTT-AAGAAAATAA
1 TATTTTAAAGAAAATAA
7007197 ATAAAAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (17 bp):
TATTTTAAAGAAAATAA
Found at i:7007305 original size:8 final size:8
Alignment explanation
Indices: 7007290--7007364 Score: 53
Period size: 8 Copynumber: 10.4 Consensus size: 8
7007280 TTATTATTTA
7007290 TATA-TTT
1 TATAGTTT
7007297 TATAGTTT
1 TATAGTTT
7007305 TAT-GATTT
1 TATAG-TTT
7007313 TATA-TTT
1 TATAGTTT
7007320 TATTAG---
1 TA-TAGTTT
7007326 T-TAGTTT
1 TATAGTTT
7007333 TATA--TT
1 TATAGTTT
7007339 TATA-TTT
1 TATAGTTT
7007346 TATAGTTT
1 TATAGTTT
*
7007354 TATAATTT
1 TATAGTTT
7007362 TAT
1 TAT
7007365 TTTATTTAAT
Statistics
Matches: 56, Mismatches: 1, Indels: 21
0.72 0.01 0.27
Matches are distributed among these distances:
4 3 0.05
6 7 0.12
7 17 0.30
8 29 0.52
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (8 bp):
TATAGTTT
Done.