Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 114 of 160
Found at i:21489871 original size:15 final size:15
Alignment explanation
Indices: 21489840--21489882 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
21489830 ACTTAATCTA
* *
21489840 ATAATAAAAATATAT
1 ATAAAAAAAAAATAT
21489855 ATAAAAAGAAAAAATAT
1 AT-AAAA-AAAAAATAT
21489872 ATAAAAAAAAA
1 ATAAAAAAAAA
21489883 GGAAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 7 0.29
16 7 0.29
17 10 0.42
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (15 bp):
ATAAAAAAAAAATAT
Found at i:21489881 original size:21 final size:20
Alignment explanation
Indices: 21489845--21489890 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 20
21489835 ATCTAATAAT
*
21489845 AAAAATATATATAAAAA-GA
1 AAAAATATATAAAAAAAGGA
21489864 AAAAATATATAAAAAAAAAGGA
1 AAAAATATAT--AAAAAAAGGA
21489886 AAAAA
1 AAAAA
21489891 AACCTGGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 10 0.43
21 6 0.26
22 7 0.30
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (20 bp):
AAAAATATATAAAAAAAGGA
Found at i:21490740 original size:4 final size:4
Alignment explanation
Indices: 21490728--21490905 Score: 70
Period size: 4 Copynumber: 44.2 Consensus size: 4
21490718 CCAAAAAAAA
* * *
21490728 AAAT CAAAT AAAT AAAAT AAAT AAAA AAAT ATTAAT AGAT AATT AGAA-
1 AAAT -AAAT AAAT -AAAT AAAT AAAT AAAT A--AAT AAAT AAAT A-AAT
* *
21490776 AAA- AAAT -AAT AAGAT AAAT AAA- AAAT ATTAC AAGAT AAAT AAA- AAAT
1 AAAT AAAT AAAT AA-AT AAAT AAAT AAAT A-AAT AA-AT AAAT AAAT AAAT
* * *
21490823 -AAT -AAT -AAT AGAT AAAT CATAAT ATAT AAAT GAAT AAAT -AAT -AAT
1 AAAT AAAT AAAT AAAT AAAT -A-AAT AAAT AAAT AAAT AAAT AAAT AAAT
* * * * *
21490868 AAAT ATAT AACT AGAT AAAT AAAAT ACAT ATAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT A
21490906 TTAACAGAAA
Statistics
Matches: 132, Mismatches: 25, Indels: 33
0.69 0.13 0.17
Matches are distributed among these distances:
3 29 0.22
4 72 0.55
5 24 0.18
6 7 0.05
ACGTcount: A:0.67, C:0.03, G:0.04, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:21490757 original size:21 final size:20
Alignment explanation
Indices: 21490733--21490838 Score: 72
Period size: 21 Copynumber: 5.0 Consensus size: 20
21490723 AAAAAAAATC
21490733 AAATAAATAAAATAAATAAAA
1 AAAT-AATAAAATAAATAAAA
* *
21490754 AAATATTAATAGATAATTAGAAAAA
1 AAATAATAA-A-ATAA--A-TAAAA
*
21490779 AAATAATAAGATAAAT-AAA
1 AAATAATAAAATAAATAAAA
*
21490798 AAATATTACAAGATAAAT-AAA
1 AAATAATA-AA-ATAAATAAAA
*
21490819 AAATAATAATAATAGATAAA
1 AAATAATAA-AATAAATAAA
21490839 TCATAATATA
Statistics
Matches: 67, Mismatches: 9, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
19 10 0.15
20 11 0.16
21 25 0.37
22 4 0.06
23 4 0.06
24 1 0.01
25 12 0.18
ACGTcount: A:0.71, C:0.01, G:0.05, T:0.24
Consensus pattern (20 bp):
AAATAATAAAATAAATAAAA
Found at i:21490794 original size:45 final size:43
Alignment explanation
Indices: 21490733--21490839 Score: 126
Period size: 44 Copynumber: 2.4 Consensus size: 43
21490723 AAAAAAAATC
* *
21490733 AAATAAATAAAATAAATAAAAAAATATTA-ATAGATAATTAGAAAAA
1 AAAT-AATAAGATAAAT-AAAAAATATTACA-AGATAAATA-AAAAA
21490779 AAATAATAAGATAAATAAAAAATATTACAAGATAAATAAAAAA
1 AAATAATAAGATAAATAAAAAATATTACAAGATAAATAAAAAA
*
21490822 TAATAATAATAGATAAAT
1 AAATAAT-A-AGATAAAT
21490840 CATAATATAT
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
43 11 0.20
44 20 0.36
45 20 0.36
46 4 0.07
ACGTcount: A:0.70, C:0.01, G:0.05, T:0.24
Consensus pattern (43 bp):
AAATAATAAGATAAATAAAAAATATTACAAGATAAATAAAAAA
Found at i:21490988 original size:7 final size:7
Alignment explanation
Indices: 21490967--21491033 Score: 50
Period size: 7 Copynumber: 9.3 Consensus size: 7
21490957 AATACATAGT
21490967 AATAATA
1 AATAATA
21490974 AATAAATA
1 AAT-AATA
21490982 AATAATA
1 AATAATA
21490989 AATACATA
1 AATA-ATA
21490997 AGATACA-A
1 A-ATA-ATA
* *
21491005 AAGAAAA
1 AATAATA
21491012 AAT-ATAA
1 AATAAT-A
21491019 AATAA-A
1 AATAATA
21491025 AATAATA
1 AATAATA
21491032 AA
1 AA
21491034 ATATATAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
6 8 0.16
7 23 0.46
8 14 0.28
9 5 0.10
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.21
Consensus pattern (7 bp):
AATAATA
Found at i:21491025 original size:14 final size:14
Alignment explanation
Indices: 21491003--21491055 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
21490993 CATAAGATAC
*
21491003 AAAAGAAAAAATAT
1 AAAATAAAAAATAT
21491017 AAAAT-AAAAATAAT
1 AAAATAAAAAAT-AT
*
21491031 AAAATATATAAAATAC
1 AAAATA-A-AAAATAT
21491047 AAAATAAAA
1 AAAATAAAA
21491056 GTAAAATTGG
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
13 6 0.18
14 13 0.39
15 1 0.03
16 8 0.24
17 5 0.15
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (14 bp):
AAAATAAAAAATAT
Found at i:21491054 original size:21 final size:21
Alignment explanation
Indices: 21490988--21491055 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 21
21490978 AATAAATAAT
* * *
21490988 AAATACATAAGATACAAAAGA
1 AAATATATAAAATACAAAATA
* *
21491009 AAAAATATAAAATAAAAATAATA
1 AAATATATAAAAT-ACAA-AATA
21491032 AAATATATAAAATACAAAATA
1 AAATATATAAAATACAAAATA
21491053 AAA
1 AAA
21491056 GTAAAATTGG
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
21 17 0.45
22 6 0.16
23 15 0.39
ACGTcount: A:0.74, C:0.04, G:0.03, T:0.19
Consensus pattern (21 bp):
AAATATATAAAATACAAAATA
Found at i:21491332 original size:46 final size:46
Alignment explanation
Indices: 21491236--21491340 Score: 133
Period size: 46 Copynumber: 2.3 Consensus size: 46
21491226 ATCAAAACTT
* * *
21491236 CTCTAAGCAGAGGCTCAACGACTTTGAGAAACATAAATAAATCCTT
1 CTCTAATCAGAGGCTCAACGACTTTGAGAAAAATAAATAAATCCTC
* *
21491282 CTCTAATCAGAGGCTCAACGACTTTGA-AAATGAATAAA-CAATGCTC
1 CTCTAATCAGAGGCTCAACGACTTTGAGAAA--AATAAATAAATCCTC
21491328 CTCTAATCAGAGG
1 CTCTAATCAGAGG
21491341 TAATTTTTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
45 3 0.06
46 44 0.85
47 5 0.10
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (46 bp):
CTCTAATCAGAGGCTCAACGACTTTGAGAAAAATAAATAAATCCTC
Found at i:21491350 original size:1 final size:1
Alignment explanation
Indices: 21491344--21491387 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
21491334 TCAGAGGTAA
* * * *
21491344 TTTTTTTGTTTTTTTATTTTTTTTTGTTTTTTTTATTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
21491388 AATTTGATCA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.05, C:0.00, G:0.05, T:0.91
Consensus pattern (1 bp):
T
Found at i:21491358 original size:9 final size:9
Alignment explanation
Indices: 21491344--21491386 Score: 61
Period size: 9 Copynumber: 4.8 Consensus size: 9
21491334 TCAGAGGTAA
21491344 TTTTTTTGT
1 TTTTTTTGT
21491353 TTTTTTAT-T
1 TTTTTT-TGT
21491362 TTTTTTTGT
1 TTTTTTTGT
*
21491371 TTTTTTTAT
1 TTTTTTTGT
21491380 TTTTTTT
1 TTTTTTT
21491387 TAATTTGATC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 1 0.03
9 29 0.94
10 1 0.03
ACGTcount: A:0.05, C:0.00, G:0.05, T:0.91
Consensus pattern (9 bp):
TTTTTTTGT
Found at i:21491368 original size:19 final size:19
Alignment explanation
Indices: 21491344--21491387 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
21491334 TCAGAGGTAA
21491344 TTTTTTTG-TTTTTTTATT
1 TTTTTTTGTTTTTTTTATT
21491362 TTTTTTTGTTTTTTTTATT
1 TTTTTTTGTTTTTTTTATT
21491381 TTTTTTT
1 TTTTTTT
21491388 AATTTGATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.05, C:0.00, G:0.05, T:0.91
Consensus pattern (19 bp):
TTTTTTTGTTTTTTTTATT
Found at i:21491388 original size:10 final size:10
Alignment explanation
Indices: 21491352--21491388 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
21491342 AATTTTTTTG
21491352 TTTTTTTATT
1 TTTTTTTATT
*
21491362 TTTTTTT-GT
1 TTTTTTTATT
21491371 TTTTTTTATT
1 TTTTTTTATT
21491381 TTTTTTTA
1 TTTTTTTA
21491389 ATTTGATCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.08, C:0.00, G:0.03, T:0.89
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:21491463 original size:43 final size:41
Alignment explanation
Indices: 21491400--21491542 Score: 180
Period size: 41 Copynumber: 3.4 Consensus size: 41
21491390 TTTGATCAAA
* *
21491400 GCTCCTCTAAGCAGAAGCTCAACGACTTTGAGAAACATAAA-T
1 GCTCCTCTAAACAGAGGCTCAACGACTTTGA-AAA-ATAAATT
* *
21491442 GTCTCCTCTAATCAGAGGCTCAACAACTTTGAAAAATAAATT
1 G-CTCCTCTAAACAGAGGCTCAACGACTTTGAAAAATAAATT
* * * *
21491484 GCTCCTCTAAACAGAGGCACCATGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAATAAATT
21491525 GCTCCTCTAAACAGAGGC
1 GCTCCTCTAAACAGAGGC
21491543 ACCACAACTT
Statistics
Matches: 90, Mismatches: 9, Indels: 5
0.87 0.09 0.05
Matches are distributed among these distances:
41 57 0.63
42 6 0.07
43 27 0.30
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCTCAACGACTTTGAAAAATAAATT
Found at i:21503200 original size:58 final size:57
Alignment explanation
Indices: 21503017--21503455 Score: 490
Period size: 57 Copynumber: 7.7 Consensus size: 57
21503007 TTGTGTAGGA
* * * * * ** *
21503017 AAAATTGATAATTTCAACTTTTCTCC-AAAATATTTTTTAGAAATTTTAATCTCGAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT-GAAAATTTATTTTTAAGG
* * * * * ** **
21503074 AAAATTAATACTTTCAACTTTTTCTC-AAAATATCTTTTGAAACTTTAAATTCGAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTTTAAGG
* * **
21503130 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAACCTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAA-TTTATTTTTAAGG
* **
21503188 AAAATTGATACTTTCAACTTTTCCTCAAAAATCA-TTTTAAAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAAT-ATTTTTTGAAAATTTATTTTTAAGG
* * * * *
21503245 AAAATTGATACTTACAACTTTTTCCCAAAAATATTTTTAGACAGTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTTTAAGG
* * *
21503302 AAAATTGATGCTTTCAACTTTTCCTCAAAAACT-TTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTGAAAATTTATTTTTAAGG
* *
21503359 AAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTGAAAATTTATTTTTAAGG
*
21503417 AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
21503456 TTGGATTTTA
Statistics
Matches: 333, Mismatches: 43, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
56 38 0.11
57 191 0.57
58 103 0.31
59 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTTTAAGG
Found at i:21503481 original size:5 final size:5
Alignment explanation
Indices: 21503473--21503629 Score: 60
Period size: 5 Copynumber: 30.8 Consensus size: 5
21503463 TTATTTAAAG
*
21503473 AAAAT AAAAT --AAT AAAAC AAAAT AAAAGT GAAAAT AAAAAAT AAAA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T -AAAAT --AAAAT AAAAT
* * * *
21503519 AAAGT AAAACA AAAAT AAAAAT AAAAT AAAGAT AAAAAT AAAAG AATAT
1 AAAAT AAAA-T AAAAT -AAAAT AAAAT AAA-AT -AAAAT AAAAT AAAAT
* * ** *
21503568 TAAAT AAACCT AATCT AATAAT -AAAT -AAAT -AAAT -AAAT AAAAT ATAAAA
1 AAAAT AAA-AT AAAAT AA-AAT AAAAT AAAAT AAAAT AAAAT AAAAT A-AAAT
*
21503617 AAAAG AAAA- AAAA
1 AAAAT AAAAT AAAA
21503630 ACCTGGAACG
Statistics
Matches: 119, Mismatches: 19, Indels: 29
0.71 0.11 0.17
Matches are distributed among these distances:
3 3 0.03
4 22 0.18
5 59 0.50
6 23 0.19
7 12 0.10
ACGTcount: A:0.75, C:0.03, G:0.04, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:21503511 original size:22 final size:21
Alignment explanation
Indices: 21503468--21503561 Score: 68
Period size: 22 Copynumber: 4.2 Consensus size: 21
21503458 GGATTTTATT
21503468 TAAAGAAAA-TAAAATAATAAAA
1 TAAA-AAAAGTAAAATAA-AAAA
*
21503490 CAAAATAAAAGTGAAAATAAAAAA
1 -TAAA-AAAAGT-AAAATAAAAAA
*
21503514 TAAAAAAAGTAAAA-CAAAAA
1 TAAAAAAAGTAAAATAAAAAA
*
21503534 TAAAAATAAAATAAAGAT-AAAAA
1 T-AAAA-AAAGTAAA-ATAAAAAA
21503557 TAAAA
1 TAAAA
21503562 GAATATTAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
20 6 0.10
21 8 0.13
22 17 0.28
23 17 0.28
24 5 0.08
25 7 0.12
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (21 bp):
TAAAAAAAGTAAAATAAAAAA
Found at i:21503518 original size:6 final size:6
Alignment explanation
Indices: 21503473--21503561 Score: 67
Period size: 6 Copynumber: 14.5 Consensus size: 6
21503463 TTATTTAAAG
* * *
21503473 AAAAT- AAAATA ATAAA-A CAAAATA AAAGTG AAAATAA AAAATA AAAAAA
1 AAAATA AAAATA A-AAATA -AAAATA AAAATA AAAAT-A AAAATA AAAATA
* *
21503522 GTAAAACA AAAATA AAAAT- AAAATA AAGATA AAAATA AAA
1 --AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
21503562 GAATATTAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 15
0.74 0.10 0.16
Matches are distributed among these distances:
5 10 0.15
6 42 0.63
7 10 0.15
8 5 0.07
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:21503531 original size:38 final size:36
Alignment explanation
Indices: 21503473--21503556 Score: 107
Period size: 37 Copynumber: 2.3 Consensus size: 36
21503463 TTATTTAAAG
* *
21503473 AAAATAAAATAATAAAAC-AAAATAAAAGTGAAAATAA
1 AAAATAAAAAAATAAAACAAAAATAAAAAT-AAAAT-A
21503510 AAAATAAAAAAAGTAAAACAAAAATAAAAATAAAATA
1 AAAATAAAAAAA-TAAAACAAAAATAAAAATAAAATA
*
21503547 AAGATAAAAA
1 AAAATAAAAA
21503557 TAAAAGAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
37 21 0.50
38 11 0.26
39 10 0.24
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (36 bp):
AAAATAAAAAAATAAAACAAAAATAAAAATAAAATA
Found at i:21503537 original size:11 final size:10
Alignment explanation
Indices: 21503508--21503561 Score: 56
Period size: 11 Copynumber: 5.1 Consensus size: 10
21503498 AAGTGAAAAT
21503508 AAAAAAT-AA
1 AAAAAATAAA
*
21503517 AAAAAGTAAA
1 AAAAAATAAA
21503527 ACAAAAATAAA
1 A-AAAAATAAA
21503538 AATAAAATAAA
1 AA-AAAATAAA
21503549 GATAAAAATAAA
1 -A-AAAAATAAA
21503561 A
1 A
21503562 GAATATTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
9 6 0.16
10 4 0.11
11 18 0.47
12 9 0.24
13 1 0.03
ACGTcount: A:0.81, C:0.02, G:0.04, T:0.13
Consensus pattern (10 bp):
AAAAAATAAA
Found at i:21503543 original size:17 final size:17
Alignment explanation
Indices: 21503473--21503561 Score: 72
Period size: 17 Copynumber: 4.9 Consensus size: 17
21503463 TTATTTAAAG
21503473 AAAATAAAATAATAAAAC-
1 AAAAT-AAA-AATAAAACA
* *
21503491 AAAATAAAAGTGAAAATAA
1 AAAATAAAAAT-AAAA-CA
21503510 AAAATAAAAAAAGTAAAACA
1 AAAAT--AAAAA-TAAAACA
*
21503530 AAAATAAAAATAAAATA
1 AAAATAAAAATAAAACA
*
21503547 AAGATAAAAATAAAA
1 AAAATAAAAATAAAA
21503562 GAATATTAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
16 2 0.03
17 27 0.46
18 10 0.17
19 5 0.08
20 6 0.10
21 8 0.14
22 1 0.02
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.15
Consensus pattern (17 bp):
AAAATAAAAATAAAACA
Found at i:21503549 original size:27 final size:28
Alignment explanation
Indices: 21503473--21503555 Score: 91
Period size: 28 Copynumber: 2.9 Consensus size: 28
21503463 TTATTTAAAG
**
21503473 AAAATAAAATAATAAAACAAA-ATAAAAGTG
1 AAAATAAAA-AATAAAA-AAAGATAAAA-CA
21503503 AAAATAAAAAATAAAAAAAG-TAAAACA
1 AAAATAAAAAATAAAAAAAGATAAAACA
21503530 AAAAT-AAAAATAAAATAAAGATAAAA
1 AAAATAAAAAATAAAA-AAAGATAAAA
21503556 ATAAAAGAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
26 10 0.21
27 9 0.19
28 13 0.27
29 7 0.15
30 9 0.19
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.14
Consensus pattern (28 bp):
AAAATAAAAAATAAAAAAAGATAAAACA
Found at i:21503571 original size:17 final size:16
Alignment explanation
Indices: 21503503--21503571 Score: 61
Period size: 17 Copynumber: 4.1 Consensus size: 16
21503493 AATAAAAGTG
21503503 AAAATAAAAAATAA-A
1 AAAATAAAAAATAATA
*
21503518 AAAAGTAAAACAAAAATA
1 AAAA-TAAAA-AATAATA
21503536 AAAATAAAATAA-AGATA
1 AAAATAAAA-AATA-ATA
*
21503553 AAAATAAAAGAATATTA
1 AAAATAAAA-AATAATA
21503570 AA
1 AA
21503572 TAAACCTAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
15 4 0.09
16 6 0.13
17 29 0.64
18 6 0.13
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.16
Consensus pattern (16 bp):
AAAATAAAAAATAATA
Found at i:21503611 original size:21 final size:21
Alignment explanation
Indices: 21503479--21503611 Score: 65
Period size: 22 Copynumber: 5.8 Consensus size: 21
21503469 AAAGAAAATA
*
21503479 AAATAATAAAACAAAATAAAAGT
1 AAATAA-AAAATAAAAT-AAAGT
21503502 GAAAATAAAAAATAAAA-AAAGT
1 --AAATAAAAAATAAAATAAAGT
*
21503524 AAA-ACAAAAATAAAAATAAAAT
1 AAATA-AAAAAT-AAAATAAAGT
* * *
21503546 AAAGATAAAAATAAAAGAATATT
1 AAATA-AAAAATAAAATAA-AGT
*
21503569 AAATAAACCTAATCTAATAATAAA-T
1 AAATAAA---AA-ATAA-AATAAAGT
21503594 AAATAAATAAATAAAATA
1 AAATAAA-AAATAAAATA
21503612 TAAAAAAAAG
Statistics
Matches: 89, Mismatches: 9, Indels: 24
0.73 0.07 0.20
Matches are distributed among these distances:
19 1 0.01
20 9 0.10
21 8 0.09
22 23 0.26
23 16 0.18
24 8 0.09
25 16 0.18
26 4 0.04
27 4 0.04
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.20
Consensus pattern (21 bp):
AAATAAAAAATAAAATAAAGT
Found at i:21503855 original size:10 final size:11
Alignment explanation
Indices: 21503841--21503869 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
21503831 AGCCTTCTCC
21503841 CTCTTTCTCTT
1 CTCTTTCTCTT
21503852 -TCTTTCTCTT
1 CTCTTTCTCTT
21503862 CTCTTTCT
1 CTCTTTCT
21503870 TCTCTCTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (11 bp):
CTCTTTCTCTT
Found at i:21503865 original size:15 final size:16
Alignment explanation
Indices: 21503841--21503876 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
21503831 AGCCTTCTCC
21503841 CTCT-TTCTCTTTCTT
1 CTCTCTTCTCTTTCTT
21503856 -TCTCTTCTCTTTCTT
1 CTCTCTTCTCTTTCTT
21503871 CTCTCT
1 CTCTCT
21503877 AAAATTTCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 3 0.16
15 11 0.58
16 5 0.26
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (16 bp):
CTCTCTTCTCTTTCTT
Found at i:21504496 original size:41 final size:43
Alignment explanation
Indices: 21504451--21504534 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 43
21504441 AATAAAAAAA
* *
21504451 ATAAA-AAAA-TATTA-ATAGATAATTAGAAAAATAATAATAAG
1 ATAAACAAAATTATTACA-AGATAAATAAAAAAATAATAATAAG
21504492 ATAAATCAAAATTATTACAAGATAAATAAAAAAATAATAATAA
1 ATAAA-CAAAATTATTACAAGATAAATAAAAAAATAATAATAA
21504535 CAGATAAATC
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
41 5 0.14
43 4 0.11
44 27 0.73
45 1 0.03
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (43 bp):
ATAAACAAAATTATTACAAGATAAATAAAAAAATAATAATAAG
Found at i:21504564 original size:47 final size:47
Alignment explanation
Indices: 21504477--21504596 Score: 130
Period size: 47 Copynumber: 2.6 Consensus size: 47
21504467 AGATAATTAG
21504477 AAAAATAATAAT-A-AGATAAATCAAAATTATTACAAGATAAATAA-
1 AAAAATAATAATAACAGATAAATCAAAATTATTACAAGATAAATAAT
*
21504521 AAAAATAATAATAACAGATAAATCATAA-TATATA-AATGAATAAATAAT
1 AAAAATAATAATAACAGATAAATCAAAATTAT-TACAA-G-ATAAATAAT
21504569 AATAAAT-AT-ATAACTAGATAAAT-AAAAT
1 AA-AAATAATAATAAC-AGATAAATCAAAAT
21504597 ACATATATAA
Statistics
Matches: 65, Mismatches: 2, Indels: 14
0.80 0.02 0.17
Matches are distributed among these distances:
44 12 0.18
45 6 0.09
46 15 0.23
47 16 0.25
48 12 0.18
49 4 0.06
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (47 bp):
AAAAATAATAATAACAGATAAATCAAAATTATTACAAGATAAATAAT
Found at i:21504576 original size:26 final size:25
Alignment explanation
Indices: 21504449--21504609 Score: 86
Period size: 22 Copynumber: 6.9 Consensus size: 25
21504439 TAAATAAAAA
21504449 AAATAAAA-AAATAT-T-AATAGAT
1 AAATAAAATAAATATATAAATAGAT
* *
21504471 AATTAGAA-AAATA-AT-AATAAGAT
1 AAATAAAATAAATATATAAAT-AGAT
*
21504494 AAATCAAAAT---TAT-TACA-AGAT
1 AAAT-AAAATAAATATATAAATAGAT
*
21504515 AAATAAAA-AAATA-AT-AATA-AC
1 AAATAAAATAAATATATAAATAGAT
*
21504536 AGAT-AAATCATAATATATAAAT-GAAT
1 AAATAAAAT-A-AATATATAAATAG-AT
*
21504562 AAATAATAATAAATATATAACTAGAT
1 AAATAA-AATAAATATATAAATAGAT
*
21504588 AAATAAAATACATATATAAATA
1 AAATAAAATAAATATATAAATA
21504610 TTAACAGAAA
Statistics
Matches: 105, Mismatches: 13, Indels: 39
0.67 0.08 0.25
Matches are distributed among these distances:
20 7 0.07
21 13 0.12
22 23 0.22
23 12 0.11
24 5 0.05
25 17 0.16
26 22 0.21
27 3 0.03
28 3 0.03
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (25 bp):
AAATAAAATAAATATATAAATAGAT
Found at i:21504597 original size:25 final size:25
Alignment explanation
Indices: 21504511--21504606 Score: 87
Period size: 25 Copynumber: 3.9 Consensus size: 25
21504501 AATTATTACA
21504511 AGATAAATAAAA-AAATAATAATAAC-
1 AGATAAATAAAATAAAT-AT-ATAACT
* *
21504536 AGATAAAT--CAT-AATATATAAAT
1 AGATAAATAAAATAAATATATAACT
21504558 -GAATAAATAATAATAAATATATAACT
1 AG-ATAAATAA-AATAAATATATAACT
*
21504584 AGATAAATAAAATACATATATAA
1 AGATAAATAAAATAAATATATAA
21504607 ATATTAACAG
Statistics
Matches: 58, Mismatches: 5, Indels: 16
0.73 0.06 0.20
Matches are distributed among these distances:
21 5 0.09
22 8 0.14
23 4 0.07
25 22 0.38
26 18 0.31
27 1 0.02
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (25 bp):
AGATAAATAAAATAAATATATAACT
Found at i:21504695 original size:15 final size:15
Alignment explanation
Indices: 21504675--21504705 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
21504665 AATACATAGT
21504675 AATAATAAATAAATA
1 AATAATAAATAAATA
*
21504690 AATAATAAATACATA
1 AATAATAAATAAATA
21504705 A
1 A
21504706 GATACAAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
AATAATAAATAAATA
Found at i:21504730 original size:7 final size:7
Alignment explanation
Indices: 21504718--21504766 Score: 55
Period size: 7 Copynumber: 6.9 Consensus size: 7
21504708 TACAAAGGAA
21504718 AAAATAT
1 AAAATAT
21504725 AAAATA-
1 AAAATAT
*
21504731 AAAATAAA
1 AAAAT-AT
21504739 AATAATAT
1 AA-AATAT
21504747 AAAATAT
1 AAAATAT
*
21504754 AAAATAC
1 AAAATAT
21504761 AAAATA
1 AAAATA
21504767 AAAGCAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
6 5 0.14
7 24 0.65
8 5 0.14
9 3 0.08
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (7 bp):
AAAATAT
Found at i:21504740 original size:12 final size:13
Alignment explanation
Indices: 21504717--21504769 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
21504707 ATACAAAGGA
*
21504717 AAAAATATAAAAT
1 AAAAATACAAAAT
21504730 AAAAATA-AAAAT
1 AAAAATACAAAAT
*
21504742 ---AATATAAAAT
1 AAAAATACAAAAT
21504752 ATAAAATACAAAAT
1 A-AAAATACAAAAT
21504766 AAAA
1 AAAA
21504770 GCAAAATTAG
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
9 4 0.12
10 5 0.15
12 5 0.15
13 10 0.29
14 10 0.29
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAAATACAAAAT
Found at i:21505863 original size:26 final size:26
Alignment explanation
Indices: 21505829--21505878 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
21505819 AGATATTGAT
21505829 TTCAATTTAAATAA-TTATCTAAAATA
1 TTCAATTTAAATAATTTAT-TAAAATA
21505855 TTCAATTTAAATAATTTATTAAAA
1 TTCAATTTAAATAATTTATTAAAA
21505879 AAATTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (26 bp):
TTCAATTTAAATAATTTATTAAAATA
Found at i:21506796 original size:17 final size:17
Alignment explanation
Indices: 21506770--21506816 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
21506760 CTTTTTATTT
*
21506770 TTTTTTATTTTGAT-AA
1 TTTTTAATTTTGATAAA
21506786 TTTTATAATTTTG-TAAA
1 TTTT-TAATTTTGATAAA
*
21506803 TTTTTAATTATGAT
1 TTTTTAATTTTGAT
21506817 CTATGTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 12 0.46
17 14 0.54
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (17 bp):
TTTTTAATTTTGATAAA
Found at i:21507802 original size:441 final size:433
Alignment explanation
Indices: 21507033--21507826 Score: 1039
Period size: 438 Copynumber: 1.8 Consensus size: 433
21507023 ACAATTCTAA
*
21507033 TTTGTTTATTAGCCAATTGATGTATTTTTTTAGTATATTTGTATATTTATATTTTATATTTTTTA
1 TTTGATTATTAGCCAATTGATGTATTTTTTTAGTATATTTGTATATTTATATTTTATATTTTTTA
* * * * *
21507098 TCGTGATCATTTTTGTAGCTTAAATTTGGCTATTAACATATTAGAATATACCACAACTGAGATTA
66 TCGTGATCATTTTTGTAGCTTAAACTTAGCTATTAACAAATTAGAATACACAACAACTGAGATTA
* * *
21507163 TCTCTTAAAAAATGATTAAATGATCAAATTTTACTTTTGTCAATCGAAAGATGTTTATAATTATA
131 TCTCGTAAAAAATGATTAAATGATCAAATTTTACTTTTATCAATCGAAAGATATTTATAATTATA
* * * *
21507228 AAACTAAATATAGTGTTAGTACAAAAATTATGTTGATTGATAAAAATGCATAAACATTTTTTCTC
196 AAACCAAATATAGTGTTAGTACAAAAATTATATTGATTAATAAAAATACATAAACATTTTTTCTC
* * *
21507293 TAATTTTTTGTGCTATTTTCTTATTTTTGATTTATTTTATTTTTTTGGTACAATCATAGACTTGA
261 TAATTTTTTATGCTATTTTCTTATCTTTGATTCATTTTATTTTTTTGGTACAATCATAGACTTGA
*
21507358 ATATT-GTTTTTGTATTATTTATTTATGACTTTTGATTTTTCTTTTTTTTGTATATTTTCATTTT
326 ATATTAGTTTTTATATTATTTATTTATGACTTTTGATTTTTCTTTTTTTTGTATATTTTCATTTT
21507422 TATAATTTTTAATCATGATATATTTTTTTTTTGGCATTTCAAG
391 TATAATTTTTAATCATGATATATTTTTTTTTTGGCATTTCAAG
* *
21507465 TTTGATTATTAGCCAATT-AGTGTATTTTTTTTAG-A-GTTTGTATATTTATAATTTTCTTATTT
1 TTTGATTATTAGCCAATTGA-TGTA-TTTTTTTAGTATATTTGTATATTTAT-ATTTT-ATA-TT
* * * * * *
21507527 TTTTATTGTGATCCTTTTTGTGGCAATTTAAGCTTAGCTATTAACAAATTATAATACACAACAAT
61 TTTTATCGTGATCATTTTTGTAGC---TTAAACTTAGCTATTAACAAATTAGAATACACAACAAC
** * *
21507592 TGAGATTATCTCGTAAAAAGATGATTTGATGATCAAATTTTA-TATTTATCAATTGTGAA-ATAT
123 TGAGATTATCTCGTAAAAA-ATGATTAAATGATCAAATTTTACT-TTTATCAATCG-AAAGATAT
* *
21507655 TTATAATTATAAAACCAAATA-ATGTGTTAGTGCAAAAATTATATTGATTAATGAAAAGATATAT
185 TTATAATTATAAAACCAAATATA-GTGTTAGTACAAAAATTATATTGATTAAT-AAAA-ATACAT
****
21507719 ATGTTTTTTTTTCTCT-ATCTTTTTATGCTATTTTCTTATCTTTGATTCATTTTATTTTTTTGGT
247 A-AACATTTTTTCTCTAAT-TTTTTATGCTATTTTCTTATCTTTGATTCATTTTATTTTTTTGGT
* *
21507783 ACAATCATAGA-TATGAATATTATTTTTTATATTGTTTATTTATG
310 ACAATCATAGACT-TGAATATTAGTTTTTATATTATTTATTTATG
21507827 CATTTTCACT
Statistics
Matches: 307, Mismatches: 37, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
431 14 0.05
432 27 0.09
433 11 0.04
434 23 0.07
437 50 0.16
438 78 0.25
439 6 0.02
440 8 0.03
441 71 0.23
442 19 0.06
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.51
Consensus pattern (433 bp):
TTTGATTATTAGCCAATTGATGTATTTTTTTAGTATATTTGTATATTTATATTTTATATTTTTTA
TCGTGATCATTTTTGTAGCTTAAACTTAGCTATTAACAAATTAGAATACACAACAACTGAGATTA
TCTCGTAAAAAATGATTAAATGATCAAATTTTACTTTTATCAATCGAAAGATATTTATAATTATA
AAACCAAATATAGTGTTAGTACAAAAATTATATTGATTAATAAAAATACATAAACATTTTTTCTC
TAATTTTTTATGCTATTTTCTTATCTTTGATTCATTTTATTTTTTTGGTACAATCATAGACTTGA
ATATTAGTTTTTATATTATTTATTTATGACTTTTGATTTTTCTTTTTTTTGTATATTTTCATTTT
TATAATTTTTAATCATGATATATTTTTTTTTTGGCATTTCAAG
Found at i:21507848 original size:441 final size:432
Alignment explanation
Indices: 21507033--21507848 Score: 1031
Period size: 441 Copynumber: 1.9 Consensus size: 432
21507023 ACAATTCTAA
*
21507033 TTTGTTTATTAGCCAATTGATGTATTTTTTTAGTATATTTGTATATTTATATTTTATATTTTTTA
1 TTTGATTATTAGCCAATTGATGTATTTTTTTAGTATATTTGTATATTTATATTTTATATTTTTTA
* * * * *
21507098 TCGTGATCATTTTTGTAGCTTAAATTTGGCTATTAACATATTAGAATATACCACAACTGAGATTA
66 TCGTGATCATTTTTGTAGCTTAAACTTAGCTATTAACAAATTAGAATACACAACAACTGAGATTA
* * *
21507163 TCTCTTAAAAAATGATTAAATGATCAAATTTTACTTTTGTCAATCGAAAGATGTTTATAATTATA
131 TCTCGTAAAAAATGATTAAATGATCAAATTTTACTTTTATCAATCGAAAGATATTTATAATTATA
* * * *
21507228 AAACTAAATATAGTGTTAGTACAAAAATTATGTTGATTGATAAAAATGCATAAACATTTTTTCTC
196 AAACCAAATATAGTGTTAGTACAAAAATTATATTGATTAATAAAAATACATAAACATTTTTTCTC
* * *
21507293 TAATTTTTTGTGCTATTTTCTTATTTTTGATTTATTTTATTTTTTTGGTACAATCATAGACTTGA
261 TAATTTTTTATGCTATTTTCTTATCTTTGATTCATTTTATTTTTTTGGTACAATCATAGACTTGA
* * * *
21507358 ATATTGTTTTTGTATTATTTATTTATGACTTTTGATTTTTCTTTTTTTTGTATATTTTCATTTTT
326 ATATTGTTTTTATATTATTTATTTATGACTTTTCACTTTTCTATTTTTTGTATATTTTCATTTTT
21507423 ATAATTTTTAATCATGATATATTTTTTTTTTGGCATTTCAAG
391 ATAATTTTTAATCATGATATATTTTTTTTTTGGCATTTCAAG
* *
21507465 TTTGATTATTAGCCAATT-AGTGTATTTTTTTTAG-A-GTTTGTATATTTATAATTTTCTTATTT
1 TTTGATTATTAGCCAATTGA-TGTA-TTTTTTTAGTATATTTGTATATTTAT-ATTTT-ATA-TT
* * * * * *
21507527 TTTTATTGTGATCCTTTTTGTGGCAATTTAAGCTTAGCTATTAACAAATTATAATACACAACAAT
61 TTTTATCGTGATCATTTTTGTAGC---TTAAACTTAGCTATTAACAAATTAGAATACACAACAAC
** * *
21507592 TGAGATTATCTCGTAAAAAGATGATTTGATGATCAAATTTTA-TATTTATCAATTGTGAA-ATAT
123 TGAGATTATCTCGTAAAAA-ATGATTAAATGATCAAATTTTACT-TTTATCAATCG-AAAGATAT
* *
21507655 TTATAATTATAAAACCAAATA-ATGTGTTAGTGCAAAAATTATATTGATTAATGAAAAGATATAT
185 TTATAATTATAAAACCAAATATA-GTGTTAGTACAAAAATTATATTGATTAAT-AAAA-ATACAT
****
21507719 ATGTTTTTTTTTCTCT-ATCTTTTTATGCTATTTTCTTATCTTTGATTCATTTTATTTTTTTGGT
247 A-AACATTTTTTCTCTAAT-TTTTTATGCTATTTTCTTATCTTTGATTCATTTTATTTTTTTGGT
* *
21507783 ACAATCATAGA-TATGAATATTATTTTTTATATTGTTTATTTATG-CATTTTCACTTTTC-ATTT
310 ACAATCATAGACT-TGAATATT-GTTTTTATATTATTTATTTATGAC-TTTTCACTTTTCTATTT
21507845 TTTG
372 TTTG
21507849 ATTATATAAA
Statistics
Matches: 325, Mismatches: 40, Indels: 29
0.82 0.10 0.07
Matches are distributed among these distances:
431 14 0.04
432 27 0.08
433 11 0.03
434 23 0.07
437 50 0.15
438 78 0.24
439 6 0.02
440 8 0.02
441 79 0.24
442 29 0.09
ACGTcount: A:0.30, C:0.08, G:0.10, T:0.51
Consensus pattern (432 bp):
TTTGATTATTAGCCAATTGATGTATTTTTTTAGTATATTTGTATATTTATATTTTATATTTTTTA
TCGTGATCATTTTTGTAGCTTAAACTTAGCTATTAACAAATTAGAATACACAACAACTGAGATTA
TCTCGTAAAAAATGATTAAATGATCAAATTTTACTTTTATCAATCGAAAGATATTTATAATTATA
AAACCAAATATAGTGTTAGTACAAAAATTATATTGATTAATAAAAATACATAAACATTTTTTCTC
TAATTTTTTATGCTATTTTCTTATCTTTGATTCATTTTATTTTTTTGGTACAATCATAGACTTGA
ATATTGTTTTTATATTATTTATTTATGACTTTTCACTTTTCTATTTTTTGTATATTTTCATTTTT
ATAATTTTTAATCATGATATATTTTTTTTTTGGCATTTCAAG
Found at i:21512873 original size:26 final size:26
Alignment explanation
Indices: 21512844--21512893 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
21512834 AACAAGATAT
* * *
21512844 TATCCTCTATTTAAATAAATAAAACA
1 TATCATCTATCTAAAAAAATAAAACA
*
21512870 TATCATTTATCTAAAAAAATAAAA
1 TATCATCTATCTAAAAAAATAAAA
21512894 TTCAAATATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (26 bp):
TATCATCTATCTAAAAAAATAAAACA
Found at i:21515572 original size:67 final size:67
Alignment explanation
Indices: 21515445--21515573 Score: 161
Period size: 67 Copynumber: 1.9 Consensus size: 67
21515435 AAATCCATAA
* * * * * **
21515445 AAAATCAATCAAAATTTGGTTGGAAAACATTTCCCTTTTTCCATTGATTTTCGTTGAAAATCTTT
1 AAAATCAATCAAAATTTGGCTAGAAAACATTGCCCTTTATCCATTGATTTTCATAAAAAATCTTT
21515510 CT
66 CT
* *
21515512 AAAATCAATCAAAATTTGGCTAGAAAACATTGCTCTTTATCTATTGATTCTT-ATAAAAAATC
1 AAAATCAATCAAAATTTGGCTAGAAAACATTGCCCTTTATCCATTGATT-TTCATAAAAAATC
21515574 ATGAATAGTG
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
67 50 0.96
68 2 0.04
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (67 bp):
AAAATCAATCAAAATTTGGCTAGAAAACATTGCCCTTTATCCATTGATTTTCATAAAAAATCTTT
CT
Found at i:21517311 original size:15 final size:15
Alignment explanation
Indices: 21517291--21517320 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21517281 GGATATAATA
*
21517291 TGAAAAAAGAATTAT
1 TGAAAAAAAAATTAT
21517306 TGAAAAAAAAATTAT
1 TGAAAAAAAAATTAT
21517321 CACAATTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (15 bp):
TGAAAAAAAAATTAT
Found at i:21518935 original size:30 final size:31
Alignment explanation
Indices: 21518893--21518951 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
21518883 CATCCAAGAA
*
21518893 AAATTAAAAAAAAAAATCCATACATTATTTT
1 AAATTAAAAAAAAAAATCCATACACTATTTT
* *
21518924 AAATT-AAAAAAATAATCTATACACTATT
1 AAATTAAAAAAAAAAATCCATACACTATT
21518952 AGGTTTGGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.32
Consensus pattern (31 bp):
AAATTAAAAAAAAAAATCCATACACTATTTT
Found at i:21522248 original size:78 final size:78
Alignment explanation
Indices: 21522159--21522318 Score: 266
Period size: 78 Copynumber: 2.1 Consensus size: 78
21522149 TTAGGTAAAT
*
21522159 CTAACACATTACTTAAGAAAGAATCTAATTCCAATATTATTTTCATTGGTATACAGTTAGACATG
1 CTAACACATTACTTAAGAAAGAATCTAATTCCAATATTATTTTCATTGGCATACAGTTAGACATG
*
21522224 TATATATGCCGGA
66 TATACATGCCGGA
* * * *
21522237 CTAACACATTACTTTATAAAGAGTCTAATTCCAATATTATTTTCATTGGCATACGGTTAGACATG
1 CTAACACATTACTTAAGAAAGAATCTAATTCCAATATTATTTTCATTGGCATACAGTTAGACATG
21522302 TATACATGCCGGA
66 TATACATGCCGGA
21522315 CTAA
1 CTAA
21522319 ACCTAATTGA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.34
Consensus pattern (78 bp):
CTAACACATTACTTAAGAAAGAATCTAATTCCAATATTATTTTCATTGGCATACAGTTAGACATG
TATACATGCCGGA
Found at i:21522928 original size:6 final size:6
Alignment explanation
Indices: 21522917--21522945 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
21522907 ATATGGTGAT
21522917 TGATTA TGATTA TGATTA TGATTA TGATT
1 TGATTA TGATTA TGATTA TGATTA TGATT
21522946 CTATTTATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.52
Consensus pattern (6 bp):
TGATTA
Found at i:21524464 original size:5 final size:5
Alignment explanation
Indices: 21524454--21524481 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
21524444 TTATTACCAT
21524454 AAAAG AAAAG AAAAG AAAAG AAAAG AAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAA
21524482 GAGGAAATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:21524639 original size:11 final size:11
Alignment explanation
Indices: 21524607--21524640 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
21524597 ATGAAACAAC
21524607 ATAAAAATAAT
1 ATAAAAATAAT
*
21524618 ATCAAAA-AAT
1 ATAAAAATAAT
21524628 ATAAAAATAAT
1 ATAAAAATAAT
21524639 AT
1 AT
21524641 GATTTAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (11 bp):
ATAAAAATAAT
Found at i:21532803 original size:28 final size:29
Alignment explanation
Indices: 21532771--21532853 Score: 87
Period size: 28 Copynumber: 2.8 Consensus size: 29
21532761 TTAAACTTTA
*
21532771 TTATTTTATTTAGATAAATTTTATAAT-T
1 TTATTTTATTTAAATAAATTTTATAATCT
* ** *
21532799 TTATTGTACGTAAATAAATTTTTTAATCT
1 TTATTTTATTTAAATAAATTTTATAATCT
21532828 TTAATTTGTATTTAAATAAAATTTTA
1 TT-ATTT-TATTTAAAT-AAATTTTA
21532854 ACTTTTAATA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
28 22 0.52
29 3 0.07
30 3 0.07
31 7 0.17
32 7 0.17
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.55
Consensus pattern (29 bp):
TTATTTTATTTAAATAAATTTTATAATCT
Found at i:21532844 original size:31 final size:31
Alignment explanation
Indices: 21532758--21532879 Score: 94
Period size: 30 Copynumber: 4.0 Consensus size: 31
21532748 AAAAATTAAG
* * *
21532758 TTTTTAAACTTTATTATTT-TATTTAGATAAAT
1 TTTTTAATCTTTA--ATTTGTACTTAAATAAAT
* *
21532790 TTTATAAT-TTT-A-TTGTACGTAAATAAAT
1 TTTTTAATCTTTAATTTGTACTTAAATAAAT
*
21532818 TTTTTAATCTTTAATTTGTATTTAAATAAA-
1 TTTTTAATCTTTAATTTGTACTTAAATAAAT
* *
21532848 ATTTTAA-CTTTTAATATGTACTTAAATTAAAT
1 TTTTTAATC-TTTAATTTGTACTTAAA-TAAAT
21532880 CAATCTTTCT
Statistics
Matches: 72, Mismatches: 11, Indels: 14
0.74 0.11 0.14
Matches are distributed among these distances:
27 2 0.03
28 18 0.25
29 4 0.06
30 22 0.31
31 20 0.28
32 6 0.08
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (31 bp):
TTTTTAATCTTTAATTTGTACTTAAATAAAT
Found at i:21537040 original size:23 final size:23
Alignment explanation
Indices: 21537004--21537069 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 23
21536994 GACTCCTCTT
* *
21537004 TTTTTAATTCTATAATATATATGA
1 TTTTAAATTATATAATATATAT-A
21537028 TTTTAAATT-TAT-ATATTATATA
1 TTTTAAATTATATAATA-TATATA
*
21537050 ATTTATAATTATATAATATA
1 TTTTA-AATTATATAATATA
21537070 AATTGAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
22 8 0.22
23 12 0.33
24 13 0.36
25 3 0.08
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (23 bp):
TTTTAAATTATATAATATATATA
Found at i:21537046 original size:7 final size:8
Alignment explanation
Indices: 21537008--21537066 Score: 52
Period size: 8 Copynumber: 7.5 Consensus size: 8
21536998 CCTCTTTTTT
*
21537008 TAATTCTA
1 TAATTATA
21537016 TAATATATA
1 TAAT-TATA
* *
21537025 TGATTTTA
1 TAATTATA
21537033 -AATT-TA
1 TAATTATA
21537039 TATATTATA
1 TA-ATTATA
21537048 TAATT-TA
1 TAATTATA
21537055 TAATTATA
1 TAATTATA
21537063 TAAT
1 TAAT
21537067 ATAAATTGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
6 2 0.05
7 11 0.26
8 19 0.45
9 10 0.24
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (8 bp):
TAATTATA
Found at i:21537062 original size:15 final size:16
Alignment explanation
Indices: 21537014--21537066 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
21537004 TTTTTAATTC
* *
21537014 TATAATATATATGATTT
1 TATAATTTATAT-ATTA
21537031 TA-AATTTATATATTA
1 TATAATTTATATATTA
21537046 TATAATTTATA-ATTA
1 TATAATTTATATATTA
21537061 TATAAT
1 TATAAT
21537067 ATAAATTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 15 0.45
16 16 0.48
17 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
TATAATTTATATATTA
Found at i:21542449 original size:17 final size:17
Alignment explanation
Indices: 21542410--21542457 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
21542400 GATTTTTGGG
21542410 GGAAATGAAAATGGAAA
1 GGAAATGAAAATGGAAA
*
21542427 GAGAAATGAACA-GGAAA
1 G-GAAATGAAAATGGAAA
21542444 TGGAAATGAAAATG
1 -GGAAATGAAAATG
21542458 AAAATAATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 15 0.58
18 11 0.42
ACGTcount: A:0.56, C:0.02, G:0.29, T:0.12
Consensus pattern (17 bp):
GGAAATGAAAATGGAAA
Found at i:21549024 original size:36 final size:36
Alignment explanation
Indices: 21548984--21549055 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
21548974 AGAGTTTAGA
21548984 TATGTCTAATTATATTTAAAATCCTGTGTTTATTTT
1 TATGTCTAATTATATTTAAAATCCTGTGTTTATTTT
21549020 TATGTCTAATTATATTTAAAATCCTGTGTTTATTTT
1 TATGTCTAATTATATTTAAAATCCTGTGTTTATTTT
21549056 ATCTTTATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (36 bp):
TATGTCTAATTATATTTAAAATCCTGTGTTTATTTT
Found at i:21549275 original size:19 final size:20
Alignment explanation
Indices: 21549220--21549312 Score: 74
Period size: 19 Copynumber: 5.0 Consensus size: 20
21549210 TTTAGGTAAA
21549220 TTTAAGGTTTT-ATC-TAGGG
1 TTTAAGGTTTTCA-CATAGGG
* *
21549239 TTTAAAGTTTT-ACCTAGGG
1 TTTAAGGTTTTCACATAGGG
21549258 TTT-AGGTTTTCACATAGGG
1 TTTAAGGTTTTCACATAGGG
* ** *
21549277 -TT-AGGGTTTCATTTAGGA
1 TTTAAGGTTTTCACATAGGG
21549295 TTTAAGG-TTTCACATAGG
1 TTTAAGGTTTTCACATAGG
21549313 ATTTCATTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
18 21 0.34
19 37 0.61
20 3 0.05
ACGTcount: A:0.24, C:0.09, G:0.25, T:0.43
Consensus pattern (20 bp):
TTTAAGGTTTTCACATAGGG
Found at i:21549319 original size:31 final size:32
Alignment explanation
Indices: 21549278--21549339 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
21549268 CACATAGGGT
*
21549278 TAGGGTTTCA-TTTAGGATTTAAGGTTTCACA
1 TAGGATTTCATTTTAGGATTTAAGGTTTCACA
* **
21549309 TAGGATTTCATTTTAGGGTTTCGGGTTTCAC
1 TAGGATTTCATTTTAGGATTTAAGGTTTCAC
21549340 TTAAGGTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 9 0.35
32 17 0.65
ACGTcount: A:0.21, C:0.11, G:0.24, T:0.44
Consensus pattern (32 bp):
TAGGATTTCATTTTAGGATTTAAGGTTTCACA
Found at i:21550731 original size:119 final size:118
Alignment explanation
Indices: 21550588--21551617 Score: 903
Period size: 119 Copynumber: 8.7 Consensus size: 118
21550578 AGATGAAGTG
* * * * * *
21550588 ACCAGGACTGAGTCGATGTCAAAAATAAGTGACCAGGATGAAACCACGAATCATAAGAAATGATC
1 ACCAGGACCGAGTCGAGGTCAAAAATAAATGATCGGGATGAAACCATGAATCATAAGAAATGATC
* * * * * *
21550653 TGGACTAAACCAAGATCAAGTGATCAGGATGAAACCATGAATCAAAGTAAAACT
66 TGGACTGAGCCAAGATCAAGTGA-CTGGATGAAACCATGAGTCAAAATAAAACA
* * * * *
21550707 ACCAGGACCGGGTTGAGGTAAAAAATAAATGATCGAGG-CGAAACCATGAATCATAAAAAATGAT
1 ACCAGGACCGAGTCGAGGTCAAAAATAAATGATCG-GGATGAAACCATGAATCATAAGAAATGAT
* * * **
21550771 TTGGACTAAGCCAAGATCAAGTGATTGTGATGAAACCATGAGTCAAAATAAAATG
65 CTGGACTGAGCCAAGATCAAGTGACTG-GATGAAACCATGAGTCAAAATAAAACA
* * * * *
21550826 ACTAGGACCAAGTCGAGGTTAAAAATAAATGATCGAGATGAAACCATGAATCATAAGAAATGATA
1 ACCAGGACCGAGTCGAGGTCAAAAATAAATGATCGGGATGAAACCATGAATCATAAGAAATGATC
* * * * * * **
21550891 TGAATTGAGTCAAGATTAAGTGACTGGGATGAAACTA-CAGTCAAAATAAAATG
66 TGGACTGAGCCAAGATCAAGTGACT-GGATGAAACCATGAGTCAAAATAAAACA
* * * * * * * *
21550944 ACTAAGATCGGGTCGAGGTCAAAAATAAATGATCGGGATAAAATCACGAATCATAAAAAATGATC
1 ACCAGGACCGAGTCGAGGTCAAAAATAAATGATCGGGATGAAACCATGAATCATAAGAAATGATC
* * * * *
21551009 TAGACTGAGCCAAGATCAAGTGACTGAGA-CAAGATCATGAGTAAAAATAAAGCA
66 TGGACTGAGCCAAGATCAAGTGACTG-GATGAA-ACCATGAGTCAAAATAAAACA
* * * ** * *
21551063 ACTAAGACC-A---AAGGTTGAAAATAAATGATTGGGGTGAAACCATGAATCATAA-AAATTGAT
1 ACCAGGACCGAGTCGAGGTCAAAAATAAATGATCGGGATGAAACCATGAATCATAAGAAA-TGAT
* * * * * *
21551123 TTGAACTGAGCCAAGATCAAGTGACTGGTACGAGACCACGAGTCAAAATAAAGCA
65 CTGGACTGAGCCAAGATCAAGTGACTGG-ATGAAACCATGAGTCAAAATAAAACA
* ** * *
21551178 ATCAGGATTGAGTCGAGGTCAAAAATAAATGATCGGGATGAAACCATAAATCATAAGAAGTGATC
1 ACCAGGACCGAGTCGAGGTCAAAAATAAATGATCGGGATGAAACCATGAATCATAAGAAATGATC
* * ** * * *
21551243 TGAATTGAGCCAAGATCAAGTGACTGTGACAAAATCATGAGTCAAAATAAAGCG
66 TGGACTGAGCCAAGATCAAGTGACTG-GATGAAACCATGAGTCAAAATAAAACA
* * * * * *
21551297 ATCAGGATCGAGTTGAGGTCGAAAATAAATAATCGGGATGAAACCACGAATCATAAGAAATGATC
1 ACCAGGACCGAGTCGAGGTCAAAAATAAATGATCGGGATGAAACCATGAATCATAAGAAATGATC
* *
21551362 TGGACTGAGCTAAGATCAAGTGATTGGGATGAAACCATGAGTCAAAATAAAAACA
66 TGGACTGAGCCAAGATCAAGTGACT-GGATGAAACCATGAGTCAAAAT-AAAACA
* * * * ** *
21551417 ACCAGGACTGAGTCAAAGTAAAAAATAAAT-ATCAAGATGAAACCATGAATCATAAAAAATGATC
1 ACCAGGACCGAGTCGAGGTCAAAAATAAATGATCGGGATGAAACCATGAATCATAAGAAATGATC
* * * * * ***
21551481 TGGATTGAGCCAAGATTAAGTGATTGGGATGAAATCATGAGTCAAAATATAGTG
66 TGGACTGAGCCAAGATCAAGTGACT-GGATGAAACCATGAGTCAAAATAAAACA
* ** * * * * *
21551535 ACCAGAACTAAGTTGAGGTCAAAAATAAATGATTGGGACGAAA--TTGCAAATCGTAAGAAATGA
1 ACCAGGACCGAGTCGAGGTCAAAAATAAATGATCGGGATGAAACCATG--AATCATAAGAAATGA
* *
21551598 TCTGAATTGAGCCAAGATCA
64 TCTGGACTGAGCCAAGATCA
21551618 GATGAGTGGA
Statistics
Matches: 742, Mismatches: 148, Indels: 42
0.80 0.16 0.05
Matches are distributed among these distances:
114 4 0.01
115 85 0.11
116 2 0.00
117 5 0.01
118 121 0.16
119 492 0.66
120 33 0.04
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.20
Consensus pattern (118 bp):
ACCAGGACCGAGTCGAGGTCAAAAATAAATGATCGGGATGAAACCATGAATCATAAGAAATGATC
TGGACTGAGCCAAGATCAAGTGACTGGATGAAACCATGAGTCAAAATAAAACA
Found at i:21551266 original size:352 final size:354
Alignment explanation
Indices: 21550597--21551617 Score: 1031
Period size: 352 Copynumber: 2.9 Consensus size: 354
21550587 GACCAGGACT
* * * * * * * * * *
21550597 GAGTCGATGTCAAAAATAAGTGACCAGGATGAAACCACGAATCATAAGAAATGATCTGGACTAAA
1 GAGTCGAGGTCAAAAATAAATAATCGGGATAAAACCACGAATCATAAAAAATGATCTAGACTGAG
* * * * * * * *** *
21550662 CCAAGATCAAGTGA-TCAGGATGAAACCATGAATCAAAGT-AAAACTACCAGGACCGGGTTGAGG
66 CCAAGATCAAGTGACTGA-GATCAAACCATGAGTAAAAATAAAAACAACCA-GA-CGAGCCAAAG
* *
21550725 TAAAAAATAAATGATCGAGGCGAAACCATGAATCATAAAAAATGATTTGGACTAAGCCAAGATCA
128 TAAAAAATAAATGATCGAGGTGAAACCATGAATCATAAAAAATGATTTGGACTGAGCCAAGATCA
* * * *
21550790 AGTGATTGTGATGAAACCATGAGTCAAAATAAAATGACT-AGGACCAAGTCGAGGTTAAAAATAA
193 AGTGATGGT-ATGAAACCATGAGTCAAAAT-AAA-GAATCAGGACTAAGTCGAGGTCAAAAATAA
* * * * *
21550854 ATGATCGAGATGAAACCATGAATCATAAGAAATGATATGAATTGAGTCAAGATTAAGTGACTGGG
255 ATGATCGGGATGAAACCATAAATCATAAGAAATGATCTGAATTGAGCCAAGATCAAGTGACTGGG
** *
21550919 ATGAAA-C-TACAGTCAAAATAAAATGA-CTAAGATC
320 ACAAAATCAT-CAGTCAAAATAAAACGATC-AAGATC
* * *
21550953 GGGTCGAGGTCAAAAATAAATGATCGGGATAAAATCACGAATCATAAAAAATGATCTAGACTGAG
1 GAGTCGAGGTCAAAAATAAATAATCGGGATAAAACCACGAATCATAAAAAATGATCTAGACTGAG
* * *
21551018 CCAAGATCAAGTGACTGAGA-CAAGATCATGAGTAAAAAT-AAAGCAACTA-A-GA-CCAAAGGT
66 CCAAGATCAAGTGACTGAGATCAA-ACCATGAGTAAAAATAAAAACAACCAGACGAGCCAAA-GT
** * * * *
21551078 TGAAAATAAATGATTGGGGTGAAACCATGAATCATAAAAATTGATTTGAACTGAGCCAAGATCAA
129 AAAAAATAAATGATCGAGGTGAAACCATGAATCATAAAAAATGATTTGGACTGAGCCAAGATCAA
* * * * *
21551143 GTGACTGGTACGAGACCACGAGTCAAAATAAAGCAATCAGGATTGAGTCGAGGTCAAAAATAAAT
194 GTGA-TGGTATGAAACCATGAGTCAAAATAAAG-AATCAGGACTAAGTCGAGGTCAAAAATAAAT
* *
21551208 GATCGGGATGAAACCATAAATCATAAGAAGTGATCTGAATTGAGCCAAGATCAAGTGACTGTGAC
257 GATCGGGATGAAACCATAAATCATAAGAAATGATCTGAATTGAGCCAAGATCAAGTGACTGGGAC
* * *
21551273 AAAATCATGAGTCAAAATAAAGCGATCAGGATC
322 AAAATCATCAGTCAAAATAAAACGATCAAGATC
* * * * *
21551306 GAGTTGAGGTCGAAAATAAATAATCGGGATGAAACCACGAATCATAAGAAATGATCTGGACTGAG
1 GAGTCGAGGTCAAAAATAAATAATCGGGATAAAACCACGAATCATAAAAAATGATCTAGACTGAG
* * * * * *
21551371 CTAAGATCAAGTGATTGGGATGAAACCATGAGTCAAAATAAAAACAACCAGGACTGAGTCAAAGT
66 CCAAGATCAAGTGACTGAGATCAAACCATGAGTAAAAATAAAAACAACCA-GAC-GAGCCAAAGT
* * * * *
21551436 AAAAAATAAAT-ATCAAGATGAAACCATGAATCATAAAAAATGATCTGGATTGAGCCAAGATTAA
129 AAAAAATAAATGATCGAGGTGAAACCATGAATCATAAAAAATGATTTGGACTGAGCCAAGATCAA
* * * * * * *
21551500 GTGATTGGGATGAAATCATGAGTCAAAATATAGTGACCAGAACTAAGTTGAGGTCAAAAATAAAT
194 GTGA-TGGTATGAAACCATGAGTCAAAATAAAG-AATCAGGACTAAGTCGAGGTCAAAAATAAAT
* * **** *
21551565 GATTGGGACGAAATTGCAAATCGTAAGAAATGATCTGAATTGAGCCAAGATCA
257 GATCGGGATGAAACCATAAATCATAAGAAATGATCTGAATTGAGCCAAGATCA
21551618 GATGAGTGGA
Statistics
Matches: 544, Mismatches: 105, Indels: 31
0.80 0.15 0.05
Matches are distributed among these distances:
350 1 0.00
351 6 0.01
352 164 0.30
353 110 0.20
354 13 0.02
355 2 0.00
356 89 0.16
357 142 0.26
358 13 0.02
359 4 0.01
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.20
Consensus pattern (354 bp):
GAGTCGAGGTCAAAAATAAATAATCGGGATAAAACCACGAATCATAAAAAATGATCTAGACTGAG
CCAAGATCAAGTGACTGAGATCAAACCATGAGTAAAAATAAAAACAACCAGACGAGCCAAAGTAA
AAAATAAATGATCGAGGTGAAACCATGAATCATAAAAAATGATTTGGACTGAGCCAAGATCAAGT
GATGGTATGAAACCATGAGTCAAAATAAAGAATCAGGACTAAGTCGAGGTCAAAAATAAATGATC
GGGATGAAACCATAAATCATAAGAAATGATCTGAATTGAGCCAAGATCAAGTGACTGGGACAAAA
TCATCAGTCAAAATAAAACGATCAAGATC
Found at i:21551458 original size:238 final size:237
Alignment explanation
Indices: 21550605--21551617 Score: 995
Period size: 238 Copynumber: 4.3 Consensus size: 237
21550595 CTGAGTCGAT
* * * * * *
21550605 GTCAAAAATAAGTGACCAGGATGAAACCACGAATCATAAGAAATGATCTGGACTAAACCAAGATC
1 GTCAAAAATAAATGATCGGGATGAAACCACGAATCATAAGAAATGATCTGAACTGAGCCAAGATC
* * * * * * *
21550670 AAGTGA-TCAGGATGAAACCATGAATCAAAGTAAAACTACCAGGACCGGGTTGAGGTAAAAAATA
66 AAGTGACT-GGGATGAAACCATGAGTCAAAATAAAACAACCAGGACTGAGTCGAGGTAAAAAATA
** * * * *
21550734 AATGATCGAGGCGAAACCATGAATCATAAAAAATGATTTGGACTAAGCCAAGATCAAGTGATTGT
130 AATGATCGAGATGAAACCATGAATCATAAAAAATGATCTGAACTGAGCCAAGATCAAGTGACTGT
** * ** *
21550799 GATGAAACCATGAGTCAAAATAAAATGACTAGGACCAAGTCGAG
195 GACAAAATCATGAGTCAAAATAAAGCGACTAGGA-CAAGTTGAG
* * * * * * *
21550843 GTTAAAAATAAATGATCGAGATGAAACCATGAATCATAAGAAATGATATGAATTGAGTCAAGATT
1 GTCAAAAATAAATGATCGGGATGAAACCACGAATCATAAGAAATGATCTGAACTGAGCCAAGATC
* * ** * * * *
21550908 AAGTGACTGGGATGAAACTA-CAGTCAAAATAAAATGACTAAGA-TCGGGTCGAGGTCAAAAATA
66 AAGTGACTGGGATGAAACCATGAGTCAAAATAAAACAACCAGGACT-GAGTCGAGGTAAAAAATA
* * * *
21550971 AATGATCGGGATAAAATCACGAATCATAAAAAATGATCT-AGACTGAGCCAAGATCAAGTGACTG
130 AATGATCGAGATGAAACCATGAATCATAAAAAATGATCTGA-ACTGAGCCAAGATCAAGTGACTG
* * * * *
21551035 AGACAAGATCATGAGTAAAAATAAAGCAACTAAGACCAA----AG
194 TGACAAAATCATGAGTCAAAATAAAGCGACTAGGA-CAAGTTGAG
** * * * *
21551076 GTTGAAAATAAATGATTGGGGTGAAACCATGAATCATAA-AAATTGATTTGAACTGAGCCAAGAT
1 GTCAAAAATAAATGATCGGGATGAAACCACGAATCATAAGAAA-TGATCTGAACTGAGCCAAGAT
* * * * * * * *
21551140 CAAGTGACTGGTACGAGACCACGAGTCAAAATAAAGCAATCAGGATTGAGTCGAGGTCAAAAATA
65 CAAGTGACTGGGATGAAACCATGAGTCAAAATAAAACAACCAGGACTGAGTCGAGGTAAAAAATA
* * * * *
21551205 AATGATCGGGATGAAACCATAAATCATAAGAAGTGATCTGAATTGAGCCAAGATCAAGTGACTGT
130 AATGATCGAGATGAAACCATGAATCATAAAAAATGATCTGAACTGAGCCAAGATCAAGTGACTGT
*
21551270 GACAAAATCATGAGTCAAAATAAAGCGA-TCAGGATCGAGTTGAG
195 GACAAAATCATGAGTCAAAATAAAGCGACT-AGGA-CAAGTTGAG
* * * *
21551314 GTCGAAAATAAATAATCGGGATGAAACCACGAATCATAAGAAATGATCTGGACTGAGCTAAGATC
1 GTCAAAAATAAATGATCGGGATGAAACCACGAATCATAAGAAATGATCTGAACTGAGCCAAGATC
* * *
21551379 AAGTGATTGGGATGAAACCATGAGTCAAAATAAAAACAACCAGGACTGAGTCAAAGTAAAAAATA
66 AAGTGACTGGGATGAAACCATGAGTCAAAAT-AAAACAACCAGGACTGAGTCGAGGTAAAAAATA
* * * * * *
21551444 AAT-ATCAAGATGAAACCATGAATCATAAAAAATGATCTGGATTGAGCCAAGATTAAGTGATTGG
130 AATGATCGAGATGAAACCATGAATCATAAAAAATGATCTGAACTGAGCCAAGATCAAGTGACTGT
** * * * *
21551508 GATGAAATCATGAGTCAAAATATAGTGACCAGAACTAAGTTGAG
195 GACAAAATCATGAGTCAAAATAAAGCGACTAGGAC-AAGTTGAG
* * *** * * *
21551552 GTCAAAAATAAATGATTGGGACGAAATTGCAAATCGTAAGAAATGATCTGAATTGAGCCAAGATC
1 GTCAAAAATAAATGATCGGGATGAAACCACGAATCATAAGAAATGATCTGAACTGAGCCAAGATC
21551617 A
66 A
21551618 GATGAGTGGA
Statistics
Matches: 633, Mismatches: 126, Indels: 32
0.80 0.16 0.04
Matches are distributed among these distances:
232 3 0.00
233 72 0.11
234 118 0.19
235 2 0.00
237 115 0.18
238 289 0.46
239 34 0.05
ACGTcount: A:0.45, C:0.13, G:0.22, T:0.20
Consensus pattern (237 bp):
GTCAAAAATAAATGATCGGGATGAAACCACGAATCATAAGAAATGATCTGAACTGAGCCAAGATC
AAGTGACTGGGATGAAACCATGAGTCAAAATAAAACAACCAGGACTGAGTCGAGGTAAAAAATAA
ATGATCGAGATGAAACCATGAATCATAAAAAATGATCTGAACTGAGCCAAGATCAAGTGACTGTG
ACAAAATCATGAGTCAAAATAAAGCGACTAGGACAAGTTGAG
Found at i:21562774 original size:25 final size:23
Alignment explanation
Indices: 21562746--21562793 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
21562736 ATTTTTGAAA
*
21562746 ATTTTTATTTGAGAAGGTATTTTTT
1 ATTTTTATTT-AGAAAG-ATTTTTT
*
21562771 ATTTTTGTTTAGAAAGATTTTTT
1 ATTTTTATTTAGAAAGATTTTTT
21562794 TTGAATCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
24 5 0.24
25 9 0.43
ACGTcount: A:0.25, C:0.00, G:0.15, T:0.60
Consensus pattern (23 bp):
ATTTTTATTTAGAAAGATTTTTT
Found at i:21562934 original size:18 final size:18
Alignment explanation
Indices: 21562890--21562928 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
21562880 AAATGGGTTT
21562890 AAAATAAAATAAAATCAA
1 AAAATAAAATAAAATCAA
*
21562908 AAAATAAAATAAAATGAA
1 AAAATAAAATAAAATCAA
21562926 AAA
1 AAA
21562929 GAAAAAACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (18 bp):
AAAATAAAATAAAATCAA
Found at i:21563751 original size:1 final size:1
Alignment explanation
Indices: 21563745--21563796 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
21563735 ATATTGGATC
* * * * **
21563745 AAAAAAAGAAAGAAAAAAGAAAAAAAAACAAAAAAAAAAAATTAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
21563797 TAATATTATG
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.88, C:0.02, G:0.06, T:0.04
Consensus pattern (1 bp):
A
Found at i:21563762 original size:11 final size:10
Alignment explanation
Indices: 21563745--21563782 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
21563735 ATATTGGATC
21563745 AAAAAAAGAA
1 AAAAAAAGAA
21563755 AGAAAAAAGAA
1 A-AAAAAAGAA
*
21563766 AAAAAAACAA
1 AAAAAAAGAA
21563776 AAAAAAA
1 AAAAAAA
21563783 AAATTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 16 0.62
11 10 0.38
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:21563951 original size:26 final size:25
Alignment explanation
Indices: 21563865--21563967 Score: 98
Period size: 26 Copynumber: 4.0 Consensus size: 25
21563855 AAAAAACTGT
*
21563865 CTAATTAGACCCTGACACAAATGGGC
1 CTAATTAG-GCCTGACACAAATGGGC
* **
21563891 CTAATTAGGCTCGGACACAAATAAGC
1 CTAATTAGGC-CTGACACAAATGGGC
*
21563917 CTAATTAGGCCTGAACATAAATGGGC
1 CTAATTAGGCCTG-ACACAAATGGGC
* * *
21563943 TTAATTAGGTCCAGACATAAATGGG
1 CTAATTAGG-CCTGACACAAATGGG
21563968 TGTCTACAGA
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
25 3 0.05
26 58 0.91
27 3 0.05
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.22
Consensus pattern (25 bp):
CTAATTAGGCCTGACACAAATGGGC
Found at i:21572755 original size:19 final size:17
Alignment explanation
Indices: 21572722--21572756 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
21572712 TTTCTTACCT
21572722 TTGGTTCTTTTCTGGTC
1 TTGGTTCTTTTCTGGTC
21572739 TTGGCTTCTTCTTCTGGT
1 TTGG-TTCTT-TTCTGGT
21572757 GCTTTTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 5 0.31
19 7 0.44
ACGTcount: A:0.00, C:0.20, G:0.23, T:0.57
Consensus pattern (17 bp):
TTGGTTCTTTTCTGGTC
Found at i:21573282 original size:2 final size:2
Alignment explanation
Indices: 21573275--21573313 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
21573265 TGTTTCGTGT
*
21573275 TA TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21573314 TTGGGCTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:21573679 original size:18 final size:18
Alignment explanation
Indices: 21573652--21573687 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
21573642 GATCGACGCC
21573652 TAATTATAAAAAAAAAAT
1 TAATTATAAAAAAAAAAT
* *
21573670 TAATTTTAAAAAATAAAT
1 TAATTATAAAAAAAAAAT
21573688 ATTCTGGACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
TAATTATAAAAAAAAAAT
Found at i:21576094 original size:109 final size:107
Alignment explanation
Indices: 21575885--21576078 Score: 243
Period size: 109 Copynumber: 1.8 Consensus size: 107
21575875 TAGTTTTTTT
* *
21575885 AAAAAAATTATAAGACTTTTCAATATGTTGGTAAAATCTTATTTTAGAAATAAAATATTGGCCTT
1 AAAAAAATTATAAGACTTTTCAATATGTTGATAAAATCTTATTTTAGAAATAAAATATTCGCCTT
**
21575950 CCAATTTGTTGGTAAGCTTTTTATTTTTATCTTTTTTGATAC
66 CCAATTTGTTGGTAAGCTTTTTATTAATATCTTTTTTGATAC
*
21575992 AAAAAAAGGTTATAAG-GTTTTGCAATATGTTGATAAAATCTTATTTTA-AAA-AAAATGA-TCG
1 AAAAAAA--TTATAAGACTTTT-CAATATGTTGATAAAATCTTATTTTAGAAATAAAAT-ATTCG
** *
21576053 TTTTCTAATTTGTTGGTAAGACTTTT
62 CCTTCCAATTTGTTGGTAAG-CTTTT
21576079 GTTTAAATAT
Statistics
Matches: 76, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
107 31 0.41
108 13 0.17
109 32 0.42
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.44
Consensus pattern (107 bp):
AAAAAAATTATAAGACTTTTCAATATGTTGATAAAATCTTATTTTAGAAATAAAATATTCGCCTT
CCAATTTGTTGGTAAGCTTTTTATTAATATCTTTTTTGATAC
Found at i:21577000 original size:43 final size:43
Alignment explanation
Indices: 21576910--21577201 Score: 268
Period size: 43 Copynumber: 6.7 Consensus size: 43
21576900 AACAAATTAA
* * * * *
21576910 ACTCCTATATAAAGAGG-TAAACAAATTTAAATTAAAAAATGG
1 ACTCCTCTATATAGAGGTTAAACAACTTTAAAATAAGAAATGG
* * * *
21576952 GCTCCTCTATATAGAGGTTAAATAATTTTAAAATAGGAAATGG
1 ACTCCTCTATATAGAGGTTAAACAACTTTAAAATAAGAAATGG
* *
21576995 ACTCCTCTATATAGAGGTTAAACAACCTTAAAATAGGAAATGG
1 ACTCCTCTATATAGAGGTTAAACAACTTTAAAATAAGAAATGG
* * * * * *
21577038 ACTCTTCTATACAAAGGATAAATAATTTTAAAATTAAGAAATTGG
1 ACTCCTCTATATAGAGGTTAAACAACTTTAAAA-TAAGAAA-TGG
* * * *
21577083 -CTTCTCTATATAAAGGCTAAACAACTTTAAAAT-AGAAAATGA
1 ACTCCTCTATATAGAGGTTAAACAACTTTAAAATAAG-AAATGG
* * * *
21577125 ACTCCTCTATACAAAGGCTAAATAACTTTAAAATTAAGAAATTGG
1 ACTCCTCTATATAGAGGTTAAACAACTTTAAAA-TAAGAAA-TGG
*
21577170 -CTCCTTTATATAGAGGTTAAAACAACTTTAAA
1 ACTCCTCTATATAGAGGTT-AAACAACTTTAAA
21577202 TTAAAAAAAA
Statistics
Matches: 205, Mismatches: 36, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
42 18 0.09
43 118 0.58
44 50 0.24
45 19 0.09
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.30
Consensus pattern (43 bp):
ACTCCTCTATATAGAGGTTAAACAACTTTAAAATAAGAAATGG
Found at i:21577114 original size:87 final size:87
Alignment explanation
Indices: 21576914--21577201 Score: 355
Period size: 87 Copynumber: 3.3 Consensus size: 87
21576904 AATTAAACTC
* * * * * * * *
21576914 CTATATAAAGAGGTAAACAAATTTAAATTAAAAAATGGGCTCCTCTATATAGAGGTTAAATAATT
1 CTATATAAAG-GTTAAACAACTTTAAAATAGAAAATGGACTCCTCTATACAAAGGATAAATAATT
*
21576979 TTAAAA-TAGGAAA-TGGACTCCT
65 TTAAAATTAAGAAATTGG-CTCCT
* * * *
21577001 CTATATAGAGGTTAAACAACCTTAAAATAGGAAATGGACTCTTCTATACAAAGGATAAATAATTT
1 CTATATAAAGGTTAAACAACTTTAAAATAGAAAATGGACTCCTCTATACAAAGGATAAATAATTT
*
21577066 TAAAATTAAGAAATTGGCTTCT
66 TAAAATTAAGAAATTGGCTCCT
* * * *
21577088 CTATATAAAGGCTAAACAACTTTAAAATAGAAAATGAACTCCTCTATACAAAGGCTAAATAACTT
1 CTATATAAAGGTTAAACAACTTTAAAATAGAAAATGGACTCCTCTATACAAAGGATAAATAATTT
21577153 TAAAATTAAGAAATTGGCTCCT
66 TAAAATTAAGAAATTGGCTCCT
* *
21577175 TTATATAGAGGTTAAAACAACTTTAAA
1 CTATATAAAGGTT-AAACAACTTTAAA
21577202 TTAAAAAAAA
Statistics
Matches: 172, Mismatches: 26, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
86 49 0.28
87 107 0.62
88 16 0.09
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (87 bp):
CTATATAAAGGTTAAACAACTTTAAAATAGAAAATGGACTCCTCTATACAAAGGATAAATAATTT
TAAAATTAAGAAATTGGCTCCT
Found at i:21577633 original size:17 final size:17
Alignment explanation
Indices: 21577613--21577664 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
21577603 AGATTTTCAG
*
21577613 AGGTTCCAGATTCGTAA
1 AGGTTCAAGATTCGTAA
* *
21577630 AGGTTTCAAGTTTCTTAA
1 AGG-TTCAAGATTCGTAA
* *
21577648 AAGTTCTAGATTCGTAA
1 AGGTTCAAGATTCGTAA
21577665 GAATTTCAGT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
17 14 0.52
18 13 0.48
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (17 bp):
AGGTTCAAGATTCGTAA
Found at i:21577804 original size:17 final size:17
Alignment explanation
Indices: 21577784--21577875 Score: 96
Period size: 17 Copynumber: 5.4 Consensus size: 17
21577774 TCAGGTTCTT
* *
21577784 AAGAATTTTAGGTTTGC
1 AAGAATTTAAGGTTCGC
*
21577801 AAGAACTTT-AGGTTCAC
1 AAGAA-TTTAAGGTTCGC
* *
21577818 ATGAATTTAAGGTTCAC
1 AAGAATTTAAGGTTCGC
*
21577835 AAAAATTTAAGGTTCGC
1 AAGAATTTAAGGTTCGC
* *
21577852 AAGAATCTAAGGTTTGC
1 AAGAATTTAAGGTTCGC
21577869 AAGAATT
1 AAGAATT
21577876 GTTAGATTCA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
16 3 0.05
17 57 0.90
18 3 0.05
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.33
Consensus pattern (17 bp):
AAGAATTTAAGGTTCGC
Found at i:21577824 original size:34 final size:34
Alignment explanation
Indices: 21577784--21577891 Score: 110
Period size: 34 Copynumber: 3.1 Consensus size: 34
21577774 TCAGGTTCTT
* *
21577784 AAGAATTTTAGGTTTGCAAGAACTTTAGGTTCAC
1 AAGAATTTAAGGTTTGCAAGAAATTTAGGTTCAC
* ** *
21577818 ATGAATTTAAGGTTCACAA-AAATTTAAGGTTCGC
1 AAGAATTTAAGGTTTGCAAGAAATTT-AGGTTCAC
* * *
21577852 AAGAATCTAAGGTTTGCAAGAATTGTTAGATTCAC
1 AAGAATTTAAGGTTTGCAAGAAAT-TTAGGTTCAC
21577887 AAGAA
1 AAGAA
21577892 ATTCAACTTT
Statistics
Matches: 58, Mismatches: 13, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
33 5 0.09
34 37 0.64
35 14 0.24
36 2 0.03
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.31
Consensus pattern (34 bp):
AAGAATTTAAGGTTTGCAAGAAATTTAGGTTCAC
Found at i:21578183 original size:46 final size:44
Alignment explanation
Indices: 21578039--21578183 Score: 139
Period size: 46 Copynumber: 3.2 Consensus size: 44
21578029 ACCTTTAGAA
**
21578039 TTCAAAGATTCTTATTTGAAAAATTTTTAGG-TTTCACATCCAAAAT
1 TTCAAAGATTCACATTTGAAAAA-TTTTAGGATTT-ACATCC-AAAT
* * ** *
21578085 TTCAAAAATTTACATTAAAAAAATTTTAGGAATTACTATCCATAAT
1 TTCAAAGATTCACATTTGAAAAATTTTAGGATTTAC-ATCCA-AAT
* *
21578131 TTCAAAGATTCACATTTGAAAAACTTTAGAGATTTACATCCAAGGT
1 TTCAAAGATTCACATTTGAAAAATTTTAG-GATTTACATCCAA-AT
21578177 TTCAAAG
1 TTCAAAG
21578184 GTCATTTTTC
Statistics
Matches: 80, Mismatches: 14, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
45 11 0.14
46 63 0.79
47 6 0.08
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (44 bp):
TTCAAAGATTCACATTTGAAAAATTTTAGGATTTACATCCAAAT
Found at i:21579503 original size:18 final size:18
Alignment explanation
Indices: 21579468--21579516 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
21579458 TGCAATTCAA
*
21579468 AGATTCACAAG-GTTTTC
1 AGATTCACAAGAATTTTC
* *
21579485 AGGTTCGCAAGAATTTTC
1 AGATTCACAAGAATTTTC
21579503 AGATTCACAAGAAT
1 AGATTCACAAGAAT
21579517 GAAAGATTTG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 9 0.35
18 17 0.65
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (18 bp):
AGATTCACAAGAATTTTC
Found at i:21579530 original size:35 final size:35
Alignment explanation
Indices: 21579488--21579573 Score: 111
Period size: 35 Copynumber: 2.5 Consensus size: 35
21579478 GGTTTTCAGG
21579488 TTCGCAAGAATTTTCAG-ATTCACAAGAATGAAAGA
1 TTCGCAAGAATTTTCAGTATT-ACAAGAATGAAAGA
* * * *
21579523 TTTGCAAGAATTTTTAGTATTGCAAGAATGAAATA
1 TTCGCAAGAATTTTCAGTATTACAAGAATGAAAGA
*
21579558 TTCACAAGAATTTTCA
1 TTCGCAAGAATTTTCA
21579574 ATTTCGCAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
35 40 0.93
36 3 0.07
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.33
Consensus pattern (35 bp):
TTCGCAAGAATTTTCAGTATTACAAGAATGAAAGA
Found at i:21580097 original size:22 final size:23
Alignment explanation
Indices: 21580053--21580097 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
21580043 CTTCACATCT
*
21580053 AAATTCAAAGGTTCACATTCAAA
1 AAATTCAAAGGTTCACATCCAAA
* *
21580076 AAATTC-AGGGTTCATATCCAAA
1 AAATTCAAAGGTTCACATCCAAA
21580098 GTTTAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.27
Consensus pattern (23 bp):
AAATTCAAAGGTTCACATCCAAA
Found at i:21580166 original size:21 final size:21
Alignment explanation
Indices: 21580142--21580187 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
21580132 TACATAAAAA
*
21580142 AAAACTTC-AAGATTCTCATTT
1 AAAAC-TCAAAGATTCTCATTC
*
21580163 AAAACTCAAAGATTCTTATTC
1 AAAACTCAAAGATTCTCATTC
21580184 AAAA
1 AAAA
21580188 TATCTTAGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (21 bp):
AAAACTCAAAGATTCTCATTC
Found at i:21585549 original size:54 final size:52
Alignment explanation
Indices: 21585451--21585557 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 52
21585441 TATTTTTTAT
**
21585451 TTTTACAAGTTTAATTTTTAATTTTTCATCATTTGGGCCTAATTTAAAAATA
1 TTTTACAAGTTTAATTTTTAATTTTTCATCATTTAAGCCTAATTTAAAAATA
* ** *
21585503 TTTTACAAGTTTCATTTTTAAAATTTTTCATTGTTTAAG-CTAAATTTAGAAATA
1 TTTTACAAGTTTAATTTTT--AATTTTTCATCATTTAAGCCT-AATTTAAAAATA
21585557 T
1 T
21585558 CTTTCTTAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
52 18 0.39
53 2 0.04
54 26 0.57
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.50
Consensus pattern (52 bp):
TTTTACAAGTTTAATTTTTAATTTTTCATCATTTAAGCCTAATTTAAAAATA
Found at i:21588320 original size:14 final size:15
Alignment explanation
Indices: 21588301--21588329 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21588291 TTAAGTATTC
21588301 TTTTTT-CTTTTTTT
1 TTTTTTGCTTTTTTT
21588315 TTTTTTGCTTTTTTT
1 TTTTTTGCTTTTTTT
21588330 ACTTCTTTTG
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:0.00, C:0.07, G:0.03, T:0.90
Consensus pattern (15 bp):
TTTTTTGCTTTTTTT
Found at i:21594196 original size:49 final size:49
Alignment explanation
Indices: 21594139--21594235 Score: 194
Period size: 49 Copynumber: 2.0 Consensus size: 49
21594129 AAAGTTAAAT
21594139 TTTGTCATATTAGTTGAGTATATCTCATCTATGATACCATTAAGGAATA
1 TTTGTCATATTAGTTGAGTATATCTCATCTATGATACCATTAAGGAATA
21594188 TTTGTCATATTAGTTGAGTATATCTCATCTATGATACCATTAAGGAAT
1 TTTGTCATATTAGTTGAGTATATCTCATCTATGATACCATTAAGGAAT
21594236 CTCGAAGATA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.41
Consensus pattern (49 bp):
TTTGTCATATTAGTTGAGTATATCTCATCTATGATACCATTAAGGAATA
Found at i:21596894 original size:29 final size:28
Alignment explanation
Indices: 21596838--21596908 Score: 76
Period size: 29 Copynumber: 2.6 Consensus size: 28
21596828 ATATATGATT
**
21596838 TATAAT-TATTTATTTTAAATTATTAAA
1 TATAATATATTTATTTTAAATTAAAAAA
*
21596865 TATAATATATTTTATTTTAATTTAAAAAA
1 TATAATATA-TTTATTTTAAATTAAAAAA
21596894 T-TAA-ATAATTTATTT
1 TATAATAT-ATTTATTT
21596909 ATCTCAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
27 15 0.39
28 6 0.16
29 17 0.45
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (28 bp):
TATAATATATTTATTTTAAATTAAAAAA
Found at i:21597535 original size:12 final size:12
Alignment explanation
Indices: 21597516--21597551 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
21597506 TTATTTAAAA
21597516 AATT-ATTTTTT
1 AATTAATTTTTT
21597527 AATTAATTTTTT
1 AATTAATTTTTT
*
21597539 AATTAATTATTT
1 AATTAATTTTTT
21597551 A
1 A
21597552 TATATATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 4 0.17
12 19 0.83
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
AATTAATTTTTT
Found at i:21600033 original size:15 final size:17
Alignment explanation
Indices: 21600015--21600053 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
21600005 ATTTTTTATG
21600015 TTATA-ATTATAAT-TA
1 TTATATATTATAATATA
*
21600030 TTATATTTTATAATATA
1 TTATATATTATAATATA
21600047 TTATATA
1 TTATATA
21600054 AAATTAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 5 0.25
16 7 0.35
17 8 0.40
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTATATATTATAATATA
Found at i:21604623 original size:21 final size:21
Alignment explanation
Indices: 21604597--21604636 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
21604587 TATATATATA
21604597 TTGTATCCCTAGAATTAAGAT
1 TTGTATCCCTAGAATTAAGAT
*
21604618 TTGTATTCCTAGAATTAAG
1 TTGTATCCCTAGAATTAAG
21604637 GACAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (21 bp):
TTGTATCCCTAGAATTAAGAT
Found at i:21610464 original size:49 final size:50
Alignment explanation
Indices: 21610411--21610515 Score: 167
Period size: 49 Copynumber: 2.1 Consensus size: 50
21610401 AAATCCCAAA
* * * *
21610411 AGTAAAACTTCGAGCATTAAACATATGATAATCAATTGTACTAAGTAAT-
1 AGTAAAACTTAGAGCATTAAACAAATAATAATCAATTGTACTAACTAATC
21610460 AGTAAAACTTAGAGCATTAAACAAATAATAATCAATTGTACTAACTAATC
1 AGTAAAACTTAGAGCATTAAACAAATAATAATCAATTGTACTAACTAATC
21610510 AGTAAA
1 AGTAAA
21610516 CACATTCACT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
49 45 0.88
50 6 0.12
ACGTcount: A:0.49, C:0.12, G:0.10, T:0.29
Consensus pattern (50 bp):
AGTAAAACTTAGAGCATTAAACAAATAATAATCAATTGTACTAACTAATC
Found at i:21619412 original size:37 final size:36
Alignment explanation
Indices: 21619371--21619459 Score: 85
Period size: 36 Copynumber: 2.4 Consensus size: 36
21619361 AAAAATCATA
*
21619371 TTTTTCCCTTTATTAA-TCTAGG-CTTAATTATATATT
1 TTTTTTCCTTTATTAAGTCTAGGTCTT-ATTATAT-TT
* *
21619407 TTTTTTACTTT-TTAAGTTTAGGTCTTATTATATTT
1 TTTTTTCCTTTATTAAGTCTAGGTCTTATTATATTT
21619442 TTTAATTTGCCTTTATTA
1 TTT--TTT-CCTTTATTA
21619460 TACTTTTTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
35 9 0.21
36 21 0.49
37 6 0.14
38 4 0.09
39 3 0.07
ACGTcount: A:0.22, C:0.10, G:0.07, T:0.61
Consensus pattern (36 bp):
TTTTTTCCTTTATTAAGTCTAGGTCTTATTATATTT
Found at i:21621773 original size:14 final size:14
Alignment explanation
Indices: 21621754--21621780 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21621744 TTGTTACAGT
21621754 TAATAAATGTATAG
1 TAATAAATGTATAG
21621768 TAATAAATGTATA
1 TAATAAATGTATA
21621781 TATATATATA
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:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (14 bp):
TAATAAATGTATAG
Found at i:21627433 original size:9 final size:9
Alignment explanation
Indices: 21627411--21627535 Score: 88
Period size: 9 Copynumber: 12.8 Consensus size: 9
21627401 ACATTAAAAG
*
21627411 AAAATTTTT
1 AAAAATTTT
21627420 AAAAAATTTT
1 -AAAAATTTT
21627430 AAAAATTTTT
1 AAAAA-TTTT
*
21627440 AAAAAATTCT
1 -AAAAATTTT
*
21627450 AAAAATTAT
1 AAAAATTTT
21627459 AAAAATTCTT
1 AAAAATT-TT
*
21627469 AAAAAAAATTCT
1 ---AAAAATTTT
*
21627481 AAAAGTTTT
1 AAAAATTTT
21627490 AAAAATTTCT
1 AAAAATTT-T
*
21627500 AAAAATTCT
1 AAAAATTTT
*
21627509 AAAAATATTCA
1 AAAAAT-TT-T
*
21627520 AAAAAATTT
1 AAAAATTTT
21627529 AAAAATT
1 AAAAATT
21627536 AAAAAAAATC
Statistics
Matches: 92, Mismatches: 14, Indels: 19
0.74 0.11 0.15
Matches are distributed among these distances:
9 47 0.51
10 27 0.29
11 10 0.11
12 1 0.01
13 7 0.08
ACGTcount: A:0.58, C:0.05, G:0.01, T:0.37
Consensus pattern (9 bp):
AAAAATTTT
Found at i:21627436 original size:20 final size:19
Alignment explanation
Indices: 21627411--21627535 Score: 99
Period size: 20 Copynumber: 6.3 Consensus size: 19
21627401 ACATTAAAAG
21627411 AAAATTTTTAAAAAATTTTA
1 AAAATTTTT-AAAAATTTTA
*
21627431 AAAATTTTTAAAAAATTCTA
1 AAAATTTTT-AAAAATTTTA
*
21627451 AAAA-TTATAAAAATTCTTAAA
1 AAAATTTTTAAAAATT-TT--A
* * *
21627472 AAAAATTCTAAAAGTTTTA
1 AAAATTTTTAAAAATTTTA
* *
21627491 AAAATTTCTAAAAATTCTA
1 AAAATTTTTAAAAATTTTA
** *
21627510 AAAATATTCAAAAAAATTTA
1 AAAAT-TTTTAAAAATTTTA
21627530 AAAATT
1 AAAATT
21627536 AAAAAAAATC
Statistics
Matches: 89, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
18 7 0.08
19 27 0.30
20 39 0.44
21 7 0.08
22 9 0.10
ACGTcount: A:0.58, C:0.05, G:0.01, T:0.37
Consensus pattern (19 bp):
AAAATTTTTAAAAATTTTA
Found at i:21627478 original size:22 final size:21
Alignment explanation
Indices: 21627450--21627494 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
21627440 AAAAAATTCT
21627450 AAAAATTATAAAAATTCTTAAA
1 AAAAATTATAAAAATT-TTAAA
* *
21627472 AAAAATTCTAAAAGTTTTAAA
1 AAAAATTATAAAAATTTTAAA
21627493 AA
1 AA
21627495 TTTCTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (21 bp):
AAAAATTATAAAAATTTTAAA
Found at i:21627493 original size:50 final size:48
Alignment explanation
Indices: 21627411--21627532 Score: 145
Period size: 50 Copynumber: 2.5 Consensus size: 48
21627401 ACATTAAAAG
* * * *
21627411 AAAATTTTTAAAAAATTTTAAAAATTTTTAAAAAATTCTAAAAATTATA
1 AAAATATTAAAAAAAATTT-AAAAGTTTTAAAAAATTCTAAAAATTATA
* * *
21627460 AAAATTCTTAAAAAAAATTCTAAAAGTTTTAAAAATTTCTAAAAATTCTA
1 AAAA-TATTAAAAAAAATT-TAAAAGTTTTAAAAAATTCTAAAAATTATA
*
21627510 AAAATATTCAAAAAAATTTAAAA
1 AAAATATTAAAAAAAATTTAAAA
21627533 ATTAAAAAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
48 5 0.08
49 16 0.25
50 41 0.65
51 1 0.02
ACGTcount: A:0.58, C:0.05, G:0.01, T:0.36
Consensus pattern (48 bp):
AAAATATTAAAAAAAATTTAAAAGTTTTAAAAAATTCTAAAAATTATA
Found at i:21629066 original size:31 final size:31
Alignment explanation
Indices: 21629028--21629092 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
21629018 TCAAATAAAA
21629028 TTTTTTTTAGCTTTTATAAGTTTTGATTTTT
1 TTTTTTTTAGCTTTTATAAGTTTTGATTTTT
*
21629059 TTTTTTTTAGCTTTTGTAAGTTTTGATTTTT
1 TTTTTTTTAGCTTTTATAAGTTTTGATTTTT
21629090 TTT
1 TTT
21629093 AGAATATTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.14, C:0.03, G:0.11, T:0.72
Consensus pattern (31 bp):
TTTTTTTTAGCTTTTATAAGTTTTGATTTTT
Found at i:21629121 original size:10 final size:10
Alignment explanation
Indices: 21629087--21629144 Score: 64
Period size: 10 Copynumber: 5.8 Consensus size: 10
21629077 AGTTTTGATT
*
21629087 TTTTTTAGAA
1 TTTTTTAAAA
*
21629097 TATTTATAAAA
1 T-TTTTTAAAA
*
21629108 TTTTTTAGAA
1 TTTTTTAAAA
*
21629118 TTTTTT-TAA
1 TTTTTTAAAA
21629127 TTTTTTAAAA
1 TTTTTTAAAA
21629137 TTTTTTAA
1 TTTTTTAA
21629145 GAAAAATTTG
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
9 8 0.20
10 24 0.60
11 8 0.20
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (10 bp):
TTTTTTAAAA
Found at i:21629132 original size:21 final size:21
Alignment explanation
Indices: 21629079--21629132 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
21629069 CTTTTGTAAG
*
21629079 TTTTGATTTTTTTTAGAATAT
1 TTTTAATTTTTTTTAGAATAT
* ** *
21629100 TTATAAAATTTTTTAGAATTT
1 TTTTAATTTTTTTTAGAATAT
21629121 TTTTAATTTTTT
1 TTTTAATTTTTT
21629133 AAAATTTTTT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (21 bp):
TTTTAATTTTTTTTAGAATAT
Found at i:21629140 original size:19 final size:19
Alignment explanation
Indices: 21629106--21629142 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
21629096 ATATTTATAA
*
21629106 AATTTTTTAGAATTTTTTT
1 AATTTTTTAAAATTTTTTT
21629125 AATTTTTTAAAATTTTTT
1 AATTTTTTAAAATTTTTT
21629143 AAGAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (19 bp):
AATTTTTTAAAATTTTTTT
Found at i:21635594 original size:23 final size:23
Alignment explanation
Indices: 21635568--21635614 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
21635558 AAATTATTCA
* * *
21635568 TTTTGAACAGACTTATCTCTCTG
1 TTTTGAACAAACTTAGCTATCTG
21635591 TTTTGAACAAACTTAGCTATCTG
1 TTTTGAACAAACTTAGCTATCTG
21635614 T
1 T
21635615 CTTTATTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.43
Consensus pattern (23 bp):
TTTTGAACAAACTTAGCTATCTG
Found at i:21636597 original size:60 final size:61
Alignment explanation
Indices: 21636507--21636750 Score: 341
Period size: 60 Copynumber: 3.9 Consensus size: 61
21636497 TTTTGTAGGA
* *
21636507 AAAATTAATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGGAAATTTCGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTTGATTTTCAAGG
21636567 AAAATTGATACTTTCAACTTTTCCCCAAAAA-ATATTTTTTT-GAAATTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATAT-TTTTTTTGGAAATTTTGATTTTCAAGG
** *
21636627 AAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTTTTTGGAAATTTATTTTTCTTTTA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA----TTTTTTTTGGAAA-TT-TTGAT-TTTCA
21636692 AGG
59 AGG
*
21636695 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAAATTTTGATTTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTTGATTTT
21636751 TCTTTAAAGA
Statistics
Matches: 165, Mismatches: 8, Indels: 21
0.85 0.04 0.11
Matches are distributed among these distances:
59 1 0.01
60 79 0.48
61 11 0.07
62 3 0.02
63 2 0.01
64 20 0.12
65 5 0.03
66 2 0.01
67 3 0.02
68 39 0.24
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (61 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTTGATTTTCAAGG
Found at i:21636735 original size:128 final size:120
Alignment explanation
Indices: 21636507--21636750 Score: 341
Period size: 128 Copynumber: 2.0 Consensus size: 120
21636497 TTTTGTAGGA
21636507 AAAATTAATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTCGATTTTCAAGGAAAAT
1 AAAATTAATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTC-ATTTTCAAGGAAAAT
21636572 TGATACTTTCAACTTTTCCCCAAAAAATATTTTTTT-GAAATTTTGATTTTCAAGG
65 TGATACTTTCAACTTTTCCCCAAAAAATATTTTTTTGGAAATTTTGATTTTCAAGG
*
21636627 AAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTTTTTGGAAATTT-ATTTTTCTTTT
1 AAAATTAATACTTTCAACTTTTCCCCAAAAATA-----TTTTTTTGGAAATTTCA-TTTTC----
*
21636691 AAGGAAAATTGATACTTTCAACTTTT-CCCTAAAAATATTTTTTTTGGAAATTTTGATTTT
56 AAGGAAAATTGATACTTTCAACTTTTCCCCAAAAAATA-TTTTTTTGGAAATTTTGATTTT
21636751 TCTTTAAAGA
Statistics
Matches: 110, Mismatches: 2, Indels: 15
0.87 0.02 0.12
Matches are distributed among these distances:
120 32 0.29
123 1 0.01
124 5 0.05
125 15 0.14
127 10 0.09
128 33 0.30
129 14 0.13
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (120 bp):
AAAATTAATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTCATTTTCAAGGAAAATT
GATACTTTCAACTTTTCCCCAAAAAATATTTTTTTGGAAATTTTGATTTTCAAGG
Found at i:21636770 original size:5 final size:5
Alignment explanation
Indices: 21636760--21636901 Score: 55
Period size: 5 Copynumber: 28.0 Consensus size: 5
21636750 TTCTTTAAAG
* *
21636760 AAAAT AAAAT AATAA- AAAA- AAAGT GAAAAT -AAAT AAAAAT TAAA-
1 AAAAT AAAAT AA-AAT AAAAT AAAAT -AAAAT AAAAT -AAAAT AAAAT
* * * * *
21636804 AAAAT TAAAG AAAAGT AAAAA AAAAT AAAAAT AAGAT AAAGAA AAAAT
1 AAAAT AAAAT AAAA-T AAAAT AAAAT -AAAAT AAAAT AAA-AT AAAAT
* ** *
21636852 ATTAAAT AAATCT AATCT AAAAT AAAA- AAAAT AAAA- AAAA- AAAAA
1 A--AAAT AAA-AT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
21636897 AAAAT
1 AAAAT
21636902 CTGGAGCGGC
Statistics
Matches: 104, Mismatches: 19, Indels: 28
0.69 0.13 0.19
Matches are distributed among these distances:
4 24 0.23
5 49 0.47
6 26 0.25
7 5 0.05
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:21636812 original size:20 final size:19
Alignment explanation
Indices: 21636766--21636901 Score: 62
Period size: 20 Copynumber: 6.7 Consensus size: 19
21636756 AAAGAAAATA
*
21636766 AAATAATAAAAAA-AAAGTGA
1 AAATAA-AAAAAATAAAG-AA
21636786 AAATAAATAAAAATTAAA-AA
1 AAATAAA-AAAAA-TAAAGAA
* * *
21636806 AATTAAAGAAAAGTAAAAAA
1 AAATAAA-AAAAATAAAGAA
21636826 AAATAAAAATAAGATAAAGAAA
1 AAATAAAAA-AA-ATAAAG-AA
* ***
21636848 AAATATTAAATAAATCTAATCTA
1 AAATA--AAA-AAA-ATAAAGAA
21636871 AAATAAAAAAAATAAA-AA
1 AAATAAAAAAAATAAAGAA
*
21636889 AAAAAAAAAAAAT
1 AAATAAAAAAAAT
21636902 CTGGAGCGGC
Statistics
Matches: 90, Mismatches: 16, Indels: 22
0.70 0.12 0.17
Matches are distributed among these distances:
18 13 0.14
19 10 0.11
20 35 0.39
21 7 0.08
22 10 0.11
23 6 0.07
24 8 0.09
25 1 0.01
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.18
Consensus pattern (19 bp):
AAATAAAAAAAATAAAGAA
Found at i:21636818 original size:36 final size:36
Alignment explanation
Indices: 21636760--21636835 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
21636750 TTCTTTAAAG
* * *
21636760 AAAA-TAAAATAATAAAAAAAAAGTGAAAATAAATA
1 AAAATTAAAAAAATAAAAAAAAAGTAAAAAAAAATA
* *
21636795 AAAATTAAAAAAATTAAAGAAAAGTAAAAAAAAATA
1 AAAATTAAAAAAATAAAAAAAAAGTAAAAAAAAATA
21636831 AAAAT
1 AAAAT
21636836 AAGATAAAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
35 4 0.11
36 31 0.89
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (36 bp):
AAAATTAAAAAAATAAAAAAAAAGTAAAAAAAAATA
Found at i:21636827 original size:21 final size:22
Alignment explanation
Indices: 21636801--21636851 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
21636791 AATAAAAATT
21636801 AAAAAAATTAAAGAA-AAG-TAA
1 AAAAAAATTAAA-AATAAGATAA
21636822 AAAAAAA-TAAAAATAAGATAA
1 AAAAAAATTAAAAATAAGATAA
21636843 AGAAAAAAT
1 A-AAAAAAT
21636852 ATTAAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 2 0.08
20 7 0.27
21 11 0.42
22 6 0.23
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (22 bp):
AAAAAAATTAAAAATAAGATAA
Found at i:21636842 original size:11 final size:10
Alignment explanation
Indices: 21636785--21636900 Score: 74
Period size: 10 Copynumber: 11.3 Consensus size: 10
21636775 AAAAAAAGTG
*
21636785 AAAATAAATA
1 AAAATAAAAA
*
21636795 AAAATTAAAA
1 AAAATAAAAA
* *
21636805 AAATTAAAGA
1 AAAATAAAAA
*
21636815 AAAGTAAAAA
1 AAAATAAAAA
21636825 AAAATAAAAA
1 AAAATAAAAA
*
21636835 TAAGATAAAGAA
1 -AAAATAAA-AA
21636847 AAAATATTAAATA
1 AAAATA--AAA-A
** ***
21636860 AATCTAATCT
1 AAAATAAAAA
21636870 AAAAT-AAAA
1 AAAATAAAAA
21636879 AAAATAAAAA
1 AAAATAAAAA
21636889 AAAA-AAAAA
1 AAAATAAAAA
21636898 AAA
1 AAA
21636901 TCTGGAGCGG
Statistics
Matches: 80, Mismatches: 20, Indels: 13
0.71 0.18 0.12
Matches are distributed among these distances:
9 14 0.17
10 43 0.54
11 13 0.16
12 3 0.04
13 7 0.09
ACGTcount: A:0.78, C:0.02, G:0.03, T:0.17
Consensus pattern (10 bp):
AAAATAAAAA
Found at i:21636884 original size:9 final size:9
Alignment explanation
Indices: 21636870--21636901 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
21636860 AATCTAATCT
21636870 AAAATAAAA
1 AAAATAAAA
21636879 AAAATAAAA
1 AAAATAAAA
*
21636888 AAAAAAAAA
1 AAAATAAAA
21636897 AAAAT
1 AAAAT
21636902 CTGGAGCGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.91, C:0.00, G:0.00, T:0.09
Consensus pattern (9 bp):
AAAATAAAA
Found at i:21637256 original size:19 final size:20
Alignment explanation
Indices: 21637216--21637261 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
21637206 GAACACCGGT
*
21637216 GCCGGATTCTGGAAATTTTC
1 GCCGGAATCTGGAAATTTTC
21637236 GCCGGAATCTGGAAA-TTTC
1 GCCGGAATCTGGAAATTTTC
21637255 GCCGGAA
1 GCCGGAA
21637262 GTTGGCCGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (20 bp):
GCCGGAATCTGGAAATTTTC
Found at i:21637845 original size:15 final size:17
Alignment explanation
Indices: 21637808--21637847 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
21637798 ATTAGATAAG
21637808 TAAAAATACAAAAATGA
1 TAAAAATACAAAAATGA
21637825 -ATAAAATA-AAAAA-GA
1 TA-AAAATACAAAAATGA
21637840 TAAAAATA
1 TAAAAATA
21637848 TATATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
15 8 0.38
16 7 0.33
17 6 0.29
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (17 bp):
TAAAAATACAAAAATGA
Found at i:21637875 original size:63 final size:64
Alignment explanation
Indices: 21637775--21637944 Score: 158
Period size: 63 Copynumber: 2.6 Consensus size: 64
21637765 GATAAATAAT
* *
21637775 AATAAAAATATAT-CAGATATATA-ATTAGATAAGTAAAAATACA-A-AAATGAATAA-AATAAA
1 AATAAAAATATATACATATATATACA-TAAATAA-TAAAAATACACATAAAT-AATAACAA-AAA
21637835 A-A
62 ATA
* *
21637837 AGATAAAAATATATATATATATATACATAAATAAT-AAAATACACATAAATATTAACAAAAAATA
1 A-ATAAAAATATATACATATATATACATAAATAATAAAAATACACATAAATAATAACAAAAAATA
*
21637901 AATAAATAAATATATACATATATTAATACAT-AATAATAATAATA
1 AAT-AA-AAATATATACATATA-T-ATACATAAATAATAAAAATA
21637945 AATAATACAA
Statistics
Matches: 90, Mismatches: 6, Indels: 19
0.78 0.05 0.17
Matches are distributed among these distances:
62 9 0.10
63 24 0.27
64 24 0.27
65 15 0.17
66 7 0.08
67 11 0.12
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (64 bp):
AATAAAAATATATACATATATATACATAAATAATAAAAATACACATAAATAATAACAAAAAATA
Found at i:21638156 original size:1 final size:1
Alignment explanation
Indices: 21638152--21638237 Score: 64
Period size: 1 Copynumber: 86.0 Consensus size: 1
21638142 TATTTTTTGG
* * * ** ** * *
21638152 TTTTTTTGTTTTTTTTGTTTTTTTGTTTTTTTGGTTTTTTTGGTTTTTTTGTTTTTTTTTGTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** *
21638217 TTTTGGTTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTT
21638238 ACCAAAGCTC
Statistics
Matches: 67, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 67 1.00
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (1 bp):
T
Found at i:21638157 original size:8 final size:8
Alignment explanation
Indices: 21638144--21638236 Score: 77
Period size: 8 Copynumber: 11.8 Consensus size: 8
21638134 CAACTCAATA
21638144 TTTTTTGG
1 TTTTTTGG
*
21638152 TTTTTTTGTT
1 -TTTTTTG-G
*
21638162 TTTTTTGT
1 TTTTTTGG
*
21638170 TTTTTTGT
1 TTTTTTGG
21638178 TTTTTTGG
1 TTTTTTGG
21638186 TTTTTTTGG
1 -TTTTTTGG
*
21638195 TTTTTTTG
1 TTTTTTGG
21638203 TTTTTT--
1 TTTTTTGG
*
21638209 TTTGTT--
1 TTTTTTGG
21638215 TTTTTTGG
1 TTTTTTGG
*
21638223 TTTTTTTG
1 TTTTTTGG
21638231 TTTTTT
1 TTTTTT
21638237 TACCAAAGCT
Statistics
Matches: 74, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
6 10 0.14
8 42 0.57
9 22 0.30
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (8 bp):
TTTTTTGG
Found at i:21638158 original size:9 final size:9
Alignment explanation
Indices: 21638144--21638237 Score: 131
Period size: 9 Copynumber: 10.7 Consensus size: 9
21638134 CAACTCAATA
21638144 TTTTTTGGT
1 TTTTTTGGT
21638153 TTTTTT-GT
1 TTTTTTGGT
*
21638161 TTTTTTTGT
1 TTTTTTGGT
21638170 TTTTTT-GT
1 TTTTTTGGT
21638178 TTTTTTGGT
1 TTTTTTGGT
21638187 TTTTTTGGT
1 TTTTTTGGT
*
21638196 TTTTTTGTTT
1 TTTTTTG-GT
*
21638206 TTTTTTGTT
1 TTTTTTGGT
21638215 TTTTTTGGT
1 TTTTTTGGT
21638224 TTTTTT-GT
1 TTTTTTGGT
21638232 TTTTTT
1 TTTTTT
21638238 ACCAAAGCTC
Statistics
Matches: 80, Mismatches: 2, Indels: 7
0.90 0.02 0.08
Matches are distributed among these distances:
8 24 0.30
9 48 0.60
10 8 0.10
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (9 bp):
TTTTTTGGT
Found at i:21638167 original size:18 final size:18
Alignment explanation
Indices: 21638144--21638237 Score: 147
Period size: 18 Copynumber: 5.3 Consensus size: 18
21638134 CAACTCAATA
21638144 TTTTTTGGTTTTTTTGTT
1 TTTTTTGGTTTTTTTGTT
21638162 TTTTTT-GTTTTTTTG-T
1 TTTTTTGGTTTTTTTGTT
*
21638178 TTTTTTGGTTTTTTTGGT
1 TTTTTTGGTTTTTTTGTT
*
21638196 TTTTTTGTTTTTTTTTGTT
1 TTTTTTG-GTTTTTTTGTT
21638215 TTTTTTGGTTTTTTTGTT
1 TTTTTTGGTTTTTTTGTT
21638233 TTTTT
1 TTTTT
21638238 ACCAAAGCTC
Statistics
Matches: 70, Mismatches: 3, Indels: 6
0.89 0.04 0.08
Matches are distributed among these distances:
16 7 0.10
17 18 0.26
18 29 0.41
19 16 0.23
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (18 bp):
TTTTTTGGTTTTTTTGTT
Found at i:21638333 original size:41 final size:40
Alignment explanation
Indices: 21638244--21639229 Score: 1368
Period size: 41 Copynumber: 24.0 Consensus size: 40
21638234 TTTTACCAAA
21638244 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGAC-TTTGAAAAGTAAATT
*
21638286 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGAAAAGTAAATT
*
21638327 GCTCCTCTAAACAGAGG-CAACGA-TCTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACGACT-TTG-AAAAGTAAATT
*
21638367 GCTCCTCTAAACAGAGG-CAACGAACTTTGAAAAGGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGAAAA-GTAAATT
*
21638408 GCTCCTCTAAACAGAGG-CAACGAACTTTGAAAAGGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGAAAA-GTAAATT
* *
21638449 GCTCCTCTAAACAGAGG-CAACGAAACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGACCACG--ACTTTGAAAAGTAAATT
21638490 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTT-GAAAAGTAAATT
21638532 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGAAAAGTAAATT
*
21638573 GCTCCTCTAAACAGAGG-CAACGAACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTG-AAAAGTAAATT
21638614 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTT-GAAAAGTAAATT
21638656 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGAAAAGTAAATT
* *
21638697 GCTTCTCTAAACAGAGG-CAACGAACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTG-AAAAGTAAATT
*
21638738 GCTCCTCTAAACAGAGG-CAACGAACTTTGAAAAGGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGAAAA-GTAAATT
21638779 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTT-GAAAAGTAAATT
*
21638821 GCTCCTCTAAACAGAGG-CAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGAAAAGTAAATT
21638861 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTT-GAAAAGTAAATT
* *
21638903 GCTCCTCTAAACCGAGG-CAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGAAAAGTAAATT
21638943 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTT-GAAAAGTAAATT
21638985 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGAAAAGTAAATT
* *
21639026 GCTCCTCTAAACAGAGG-CAACAAACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGACCAC-GACTTTG-AAAAGTAAATT
21639067 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTG-AAAAGTAAATT
21639109 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-ACCACGACTTTGAAAAGTAAATT
*
21639150 GCTCCTCTAAACAGAGG-CAACGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTGAAAAGTAAATT
*
21639190 GCTCCTCTAAACAGAGG-CAACGAACTTTGAAAAAGTAAAT
1 GCTCCTCTAAACAGAGGACCACG-ACTTTG-AAAAGTAAAT
21639230 ACTCCTAGAC
Statistics
Matches: 883, Mismatches: 27, Indels: 69
0.90 0.03 0.07
Matches are distributed among these distances:
38 1 0.00
39 23 0.03
40 169 0.19
41 396 0.45
42 273 0.31
43 21 0.02
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (40 bp):
GCTCCTCTAAACAGAGGACCACGACTTTGAAAAGTAAATT
Found at i:21638546 original size:124 final size:121
Alignment explanation
Indices: 21638244--21639229 Score: 1558
Period size: 124 Copynumber: 8.0 Consensus size: 121
21638234 TTTTACCAAA
*
21638244 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCAC
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAGTAAATTGCTCCTCTAAACAGAGG--CAAC
* *
21638309 GACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCAACGATC-TTGAAAAAGTAAATT
63 GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAAGTAAATT
21638367 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGGTAAATTGCTCCTCTAAACAGAGGCAACG
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAA-GTAAATTGCTCCTCTAAACAGAGGCAACG
21638430 AACTTTGAAAAGGTAAATTGCTCCTCTAAACAGAGGCAACGAAACTTTGAAAAA-TAAATT
64 -ACTTTGAAAA-GTAAATTGCTCCTCTAAACAGAGGCAACG-AACTTTGAAAAAGTAAATT
21638490 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCA--AC
21638555 GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAAGTAAATT
63 GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAAGTAAATT
*
21638614 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCA--AC
*
21638679 GACTTTGAAAAGTAAATTGCTTCTCTAAACAGAGGCAACGAACTTTGAAAAAGTAAATT
63 GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAAGTAAATT
21638738 GCTCCTCTAAACAGAGGCA--ACGAACTTTGAAAAGGTAAATTGCTCCTCTAAACAGAGGCACCA
1 GCTCCTCTAAACAGAGGCACCACG-ACTTTGAAAA-GTAAATTGCTCCTCTAAACAGAGGCA--A
21638801 CGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTG-AAAAGTAAATT
62 CGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAAGTAAATT
* *
21638861 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAAGTAAATTGCTCCTCTAAACCGAGGCAACGA
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG-
* *
21638926 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACG-ACTTTGGAAAAGTAAATT
64 ACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGG--CAACGAACTTTGAAAAAGTAAATT
*
21638985 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACAAA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAAC-GA
*
21639050 CTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACG-ACTTTGAAAAAGTAAATT
65 CTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGG--CAACGAACTTTGAAAAAGTAAATT
21639109 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAA
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACG-A
21639174 CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAAGTAAAT
65 CTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAAGTAAAT
21639230 ACTCCTAGAC
Statistics
Matches: 821, Mismatches: 16, Indels: 53
0.92 0.02 0.06
Matches are distributed among these distances:
120 4 0.00
121 24 0.03
122 112 0.14
123 205 0.25
124 447 0.54
125 26 0.03
126 3 0.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (121 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAC
TTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCAACGAACTTTGAAAAAGTAAATT
Found at i:21640442 original size:22 final size:20
Alignment explanation
Indices: 21640417--21640456 Score: 55
Period size: 19 Copynumber: 1.9 Consensus size: 20
21640407 CTTTTTTCAT
21640417 TTTTTCATTTTCTCATTTTTTC
1 TTTTTC-TTTT-TCATTTTTTC
21640439 TTTTTCTTTTTC-TTTTTT
1 TTTTTCTTTTTCATTTTTT
21640457 TTTCATCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 2 0.11
21 4 0.22
22 6 0.33
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTTCTTTTTCATTTTTTC
Found at i:21640457 original size:8 final size:8
Alignment explanation
Indices: 21640408--21640443 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
21640398 TTTGGATCTC
21640408 TTTTTTCA
1 TTTTTTCA
21640416 TTTTTTCA
1 TTTTTTCA
*
21640424 TTTTCTCA
1 TTTTTTCA
21640432 TTTTTTC-
1 TTTTTTCA
21640439 TTTTT
1 TTTTT
21640444 CTTTTTCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 5 0.19
8 21 0.81
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTTCA
Found at i:21640460 original size:16 final size:16
Alignment explanation
Indices: 21640406--21640445 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
21640396 AATTTGGATC
21640406 TCTTTTT-TCATTTTT
1 TCTTTTTCTCATTTTT
*
21640421 TCATTTTCTCATTTTT
1 TCTTTTTCTCATTTTT
21640437 TCTTTTTCT
1 TCTTTTTCT
21640446 TTTTCTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.75
Consensus pattern (16 bp):
TCTTTTTCTCATTTTT
Found at i:21644172 original size:11 final size:10
Alignment explanation
Indices: 21644156--21644197 Score: 50
Period size: 11 Copynumber: 4.0 Consensus size: 10
21644146 GAAGATCTTG
21644156 TTATATATTAA
1 TTATAT-TTAA
21644167 TTATATTTAA
1 TTATATTTAA
21644177 GTT-TATATTAA
1 -TTATAT-TTAA
21644188 TTATATTTAA
1 TTATATTTAA
21644198 GTGGTTTTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
10 13 0.46
11 15 0.54
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (10 bp):
TTATATTTAA
Found at i:21644184 original size:21 final size:21
Alignment explanation
Indices: 21644159--21644199 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
21644149 GATCTTGTTA
21644159 TATATTAATTATATTTAAGTT
1 TATATTAATTATATTTAAGTT
21644180 TATATTAATTATATTTAAGT
1 TATATTAATTATATTTAAGT
21644200 GGTTTTGCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (21 bp):
TATATTAATTATATTTAAGTT
Found at i:21645024 original size:23 final size:24
Alignment explanation
Indices: 21644998--21645042 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
21644988 ATAAGTTAAG
21644998 TATAT-TTA-AAAAATATAAAATTT
1 TATATCTTAGAAAAATA-AAAATTT
*
21645021 TATATCTTAGAATAATAAAAAT
1 TATATCTTAGAAAAATAAAAAT
21645043 AACTCCATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 8 0.42
25 6 0.32
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (24 bp):
TATATCTTAGAAAAATAAAAATTT
Found at i:21645478 original size:14 final size:14
Alignment explanation
Indices: 21645459--21645485 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21645449 TTGTTACAGT
21645459 TAATAAATGTATAG
1 TAATAAATGTATAG
21645473 TAATAAATGTATA
1 TAATAAATGTATA
21645486 TATATATATA
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:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (14 bp):
TAATAAATGTATAG
Found at i:21645489 original size:2 final size:2
Alignment explanation
Indices: 21645482--21645513 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
21645472 GTAATAAATG
21645482 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21645514 CACACACAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.