Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168492.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_9, 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: 25814696
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 122000 characters in sequence are not A, C, G, or T
File 85 of 126
Found at i:16896586 original size:10 final size:10
Alignment explanation
Indices: 16896571--16896609 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
16896561 ATGATCTGGA
*
16896571 ATATATATAT
1 ATATATATAC
*
16896581 ATATATACAC
1 ATATATATAC
16896591 ATATATATAC
1 ATATATATAC
16896601 ATATATATA
1 ATATATATA
16896610 ATTTGTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (10 bp):
ATATATATAC
Found at i:16898920 original size:32 final size:32
Alignment explanation
Indices: 16898879--16898942 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
16898869 TCACCTTGTT
16898879 ACTATTCAAGCAGGTAAAAGAAGGAAAAAAAG
1 ACTATTCAAGCAGGTAAAAGAAGGAAAAAAAG
16898911 ACTATTCAAGCAGGTAAAAGAAGGAAAAAAAG
1 ACTATTCAAGCAGGTAAAAGAAGGAAAAAAAG
16898943 TAAGGCAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.56, C:0.09, G:0.22, T:0.12
Consensus pattern (32 bp):
ACTATTCAAGCAGGTAAAAGAAGGAAAAAAAG
Found at i:16903640 original size:2 final size:2
Alignment explanation
Indices: 16903633--16903657 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16903623 AATGAGAGTA
16903633 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
16903658 AAAATTAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16908303 original size:10 final size:10
Alignment explanation
Indices: 16908290--16908391 Score: 63
Period size: 10 Copynumber: 10.7 Consensus size: 10
16908280 AATCTTTAAA
16908290 AAAAATTTTT
1 AAAAATTTTT
16908300 -AAAATTTTT
1 AAAAATTTTT
**
16908309 --AAATTTCA
1 AAAAATTTTT
16908317 AAATAATTTTT
1 AAA-AATTTTT
*
16908328 AAAAA-TTCT
1 AAAAATTTTT
* *
16908337 GAAAATTTCT
1 AAAAATTTTT
* **
16908347 AAAAAATTAG
1 AAAAATTTTT
*
16908357 AAAAATTTTG
1 AAAAATTTTT
16908367 AAAAA-TTTT
1 AAAAATTTTT
*
16908376 -AAAATCTTT
1 AAAAATTTTT
16908385 AAAAATT
1 AAAAATT
16908392 GAAATTTTTT
Statistics
Matches: 71, Mismatches: 15, Indels: 12
0.72 0.15 0.12
Matches are distributed among these distances:
8 10 0.14
9 22 0.31
10 31 0.44
11 8 0.11
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.41
Consensus pattern (10 bp):
AAAAATTTTT
Found at i:16908459 original size:21 final size:21
Alignment explanation
Indices: 16908434--16908476 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
16908424 AAAAATTCTG
*
16908434 AAATTTTTTGAAAT-TTCTAAA
1 AAATTGTTT-AAATATTCTAAA
16908455 AAATTGTTTAAATATTCTAAA
1 AAATTGTTTAAATATTCTAAA
16908476 A
1 A
16908477 TTTATAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (21 bp):
AAATTGTTTAAATATTCTAAA
Found at i:16908888 original size:20 final size:19
Alignment explanation
Indices: 16908853--16908902 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 19
16908843 AAAAAATATG
*
16908853 AAAAATTTTCAAAATTCTAA
1 AAAAATTTTTAAAATT-TAA
* **
16908873 AAAAATTTTTACAATTTTT
1 AAAAATTTTTAAAATTTAA
16908892 AAAAATTTTTA
1 AAAAATTTTTA
16908903 TTTTAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (19 bp):
AAAAATTTTTAAAATTTAA
Found at i:16909118 original size:28 final size:28
Alignment explanation
Indices: 16909087--16909153 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 28
16909077 TTTCCTTAAT
16909087 TTTTTGAAATTTTAAAAAAATTTTAAAA
1 TTTTTGAAATTTTAAAAAAATTTTAAAA
* *
16909115 TTTTT-ATAATTTTTAAAAAATTTTAGAA
1 TTTTTGA-AATTTTAAAAAAATTTTAAAA
16909143 TGTTTTAGAAA
1 T-TTTT-GAAA
16909154 ATTTCTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 1 0.03
28 25 0.76
29 4 0.12
30 2 0.06
31 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (28 bp):
TTTTTGAAATTTTAAAAAAATTTTAAAA
Found at i:16909134 original size:20 final size:21
Alignment explanation
Indices: 16909111--16909157 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
16909101 AAAAAATTTT
*
16909111 AAAATTTTTATAAT-TTTTAA
1 AAAATTTTTAGAATGTTTTAA
*
16909131 AAAA-TTTTAGAATGTTTTAG
1 AAAATTTTTAGAATGTTTTAA
16909151 AAAATTT
1 AAAATTT
16909158 CTTTTAATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 8 0.35
20 13 0.57
21 2 0.09
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (21 bp):
AAAATTTTTAGAATGTTTTAA
Found at i:16910326 original size:8 final size:8
Alignment explanation
Indices: 16910315--16910359 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
16910305 TTGACATAGC
16910315 TATTAAAA
1 TATTAAAA
16910323 TATTAAAA
1 TATTAAAA
* *
16910331 TATT-TAT
1 TATTAAAA
*
16910338 TATTGAAA
1 TATTAAAA
16910346 TATTAAAA
1 TATTAAAA
16910354 TATTAA
1 TATTAA
16910360 TTTTAGTTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
7 5 0.16
8 26 0.84
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (8 bp):
TATTAAAA
Found at i:16910572 original size:24 final size:27
Alignment explanation
Indices: 16910498--16910579 Score: 89
Period size: 27 Copynumber: 3.0 Consensus size: 27
16910488 TTTCATTAAA
*
16910498 ATTAAAAAATTAAAAA-AGCATATTTATT
1 ATTAAAATATTAAAAATA--ATATTTATT
16910526 ATTAAAATATTAAAAATAATATTTATT
1 ATTAAAATATTAAAAATAATATTTATT
*
16910553 ATT-AAATCA-TAAAAAGTATTATTTATT
1 ATTAAAAT-ATTAAAAA-TAATATTTATT
16910580 TTTATTATTA
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
26 10 0.20
27 23 0.47
28 15 0.31
29 1 0.02
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (27 bp):
ATTAAAATATTAAAAATAATATTTATT
Found at i:16913106 original size:13 final size:14
Alignment explanation
Indices: 16913082--16913111 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
16913072 TTTTTATTTT
16913082 TTTAATGTATTTAA
1 TTTAATGTATTTAA
16913096 TTTAATG-ATTTAA
1 TTTAATGTATTTAA
16913109 TTT
1 TTT
16913112 TATTATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (14 bp):
TTTAATGTATTTAA
Found at i:16913113 original size:14 final size:15
Alignment explanation
Indices: 16913081--16913113 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
16913071 ATTTTTATTT
16913081 TTTTAATGTATTTAA
1 TTTTAATGTATTTAA
16913096 -TTTAATG-ATTTAA
1 TTTTAATGTATTTAA
16913109 TTTTA
1 TTTTA
16913114 TTATTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (15 bp):
TTTTAATGTATTTAA
Found at i:16915581 original size:17 final size:19
Alignment explanation
Indices: 16915561--16915595 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
16915551 ATTTATCCTT
16915561 TTAA-TAAAATTT-TTAAA
1 TTAATTAAAATTTATTAAA
16915578 TTAATTAAAATTTATTAA
1 TTAATTAAAATTTATTAA
16915596 CAAGATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 8 0.50
19 4 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTAATTAAAATTTATTAAA
Found at i:16916520 original size:15 final size:15
Alignment explanation
Indices: 16916502--16916533 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16916492 CTTTAAATTA
*
16916502 TAATTTTTTATTAAT
1 TAATTTTTTATCAAT
16916517 TAATTTTTTATCAAT
1 TAATTTTTTATCAAT
16916532 TA
1 TA
16916534 TTGTATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TAATTTTTTATCAAT
Found at i:16917631 original size:6 final size:6
Alignment explanation
Indices: 16917610--16917654 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
16917600 AAGTTGCCAT
* * *
16917610 AAAAGA AAAAGC AAAAGA AAAATA AAAATA AAAAGA AAAAGA AAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAA
16917655 TAATAAAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.82, C:0.02, G:0.11, T:0.04
Consensus pattern (6 bp):
AAAAGA
Found at i:16917646 original size:30 final size:30
Alignment explanation
Indices: 16917610--16917672 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
16917600 AAGTTGCCAT
16917610 AAAAGAAAAAGCAAAAG-A-AAAATAAAAATA
1 AAAAGAAAAAG-AAAAGAATAAAAT-AAAATA
*
16917640 AAAAGAAAAAGAAAATAATAAAATAAAATA
1 AAAAGAAAAAGAAAAGAATAAAATAAAATA
16917670 AAA
1 AAA
16917673 CAAAATAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 4 0.13
30 21 0.70
31 5 0.17
ACGTcount: A:0.81, C:0.02, G:0.08, T:0.10
Consensus pattern (30 bp):
AAAAGAAAAAGAAAAGAATAAAATAAAATA
Found at i:16917655 original size:17 final size:18
Alignment explanation
Indices: 16917622--16917672 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
16917612 AAGAAAAAGC
16917622 AAAAGAAAAATAAAAATA
1 AAAAGAAAAATAAAAATA
*
16917640 AAAAGAAAAA-GAAAATA
1 AAAAGAAAAATAAAAATA
16917657 ATAAA-ATAAAATAAAA
1 A-AAAGA-AAAATAAAA
16917673 CAAAATAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 8 0.29
18 17 0.61
19 3 0.11
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (18 bp):
AAAAGAAAAATAAAAATA
Found at i:16917956 original size:3 final size:3
Alignment explanation
Indices: 16917948--16917988 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
16917938 TTAAAAATGC
*
16917948 TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
16917989 GAATAATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:16918116 original size:3 final size:3
Alignment explanation
Indices: 16918110--16918153 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
16918100 AAAATAATAA
*
16918110 AAC AAC AAC AAC AAC AAT AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
16918154 TAATAATAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.68, C:0.30, G:0.00, T:0.02
Consensus pattern (3 bp):
AAC
Found at i:16925768 original size:13 final size:14
Alignment explanation
Indices: 16925750--16925782 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
16925740 AATTTTCTAA
16925750 AATTTTAT-TTTTT
1 AATTTTATATTTTT
16925763 AATTTTATATTTTT
1 AATTTTATATTTTT
16925777 AATTTT
1 AATTTT
16925783 TTATGGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (14 bp):
AATTTTATATTTTT
Found at i:16927623 original size:24 final size:24
Alignment explanation
Indices: 16927571--16927626 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
16927561 TAAATAGTAT
*
16927571 AATAATAAGAATAAAATAAATAAG
1 AATAAAAAGAATAAAATAAATAAG
*
16927595 GATAAAAAGAATACAGAA-AAATAA-
1 AATAAAAAGAATA-A-AATAAATAAG
16927619 AATAAAAA
1 AATAAAAA
16927627 TCTAAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 18 0.67
25 7 0.26
26 2 0.07
ACGTcount: A:0.73, C:0.02, G:0.09, T:0.16
Consensus pattern (24 bp):
AATAAAAAGAATAAAATAAATAAG
Found at i:16930071 original size:16 final size:16
Alignment explanation
Indices: 16930046--16930076 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16930036 CCCAAATACC
16930046 AATTAAAAAAATAATT
1 AATTAAAAAAATAATT
*
16930062 AATTATAAAAATAAT
1 AATTAAAAAAATAAT
16930077 ATTGTAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AATTAAAAAAATAATT
Found at i:16935945 original size:1 final size:1
Alignment explanation
Indices: 16935939--16935969 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
16935929 CATGGAAGTG
16935939 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
16935970 GTTTCTGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:16943979 original size:2 final size:2
Alignment explanation
Indices: 16943972--16944002 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
16943962 AAAATTGTGA
16943972 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16944003 CATACACTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16946466 original size:83 final size:82
Alignment explanation
Indices: 16946355--16946607 Score: 204
Period size: 83 Copynumber: 3.0 Consensus size: 82
16946345 CAATCAATTT
* * *
16946355 ATCTTGGTTTCACACACATCAAGGCAGACTAAGAAATTTAGGTGAAGAATTAAAGCTATCAAATG
1 ATCTTGGTTTCACACACGTCAAAGCAGAC-AAGAAATTTAGGTAAAGAATTAAAGCTATCAAATG
16946420 CAAGGATCAATCAGTAGG
65 CAAGGATCAATCAGTAGG
* * * * * * * * *
16946438 GTCTTGGTTTCACACACGTCAAATCAGACAGAGAATTTTCAAGTCAGGAAAGCTAACAATCGTTT
1 ATCTTGGTTTCACACACGTCAAAGCAGACA-AGAAATTT-AGGTAAAG-AA--TTA-AA--GCTA
* * * * *
16946503 TCTAAACGCAA-GACCAATGA-AATG
58 TC-AAATGCAAGGATCAATCAGTAGG
* * *
16946527 ATCTTGATTTTACACACGTCAAAGCAGACCAAGAAATTTTAGGTAAAGAATTAAAGCTACCAAAT
1 ATCTTGGTTTCACACACGTCAAAGCAGA-CAAGAAA-TTTAGGTAAAGAATTAAAGCTATCAAAT
16946592 GCAAGGATCAATCAGT
64 GCAAGGATCAATCAGT
16946608 TCTCTTGCTT
Statistics
Matches: 125, Mismatches: 32, Indels: 25
0.69 0.18 0.14
Matches are distributed among these distances:
82 8 0.06
83 42 0.34
84 5 0.04
85 4 0.03
86 2 0.02
87 2 0.02
88 4 0.03
89 35 0.28
90 16 0.13
91 7 0.06
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.25
Consensus pattern (82 bp):
ATCTTGGTTTCACACACGTCAAAGCAGACAAGAAATTTAGGTAAAGAATTAAAGCTATCAAATGC
AAGGATCAATCAGTAGG
Found at i:16947256 original size:19 final size:18
Alignment explanation
Indices: 16947234--16947272 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
16947224 ATTTTATCAT
16947234 AATTAATATTTATTATAAA
1 AATTAATATTTATT-TAAA
* *
16947253 AATTATTTTTTATTTAAA
1 AATTAATATTTATTTAAA
16947271 AA
1 AA
16947273 ATAAAATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AATTAATATTTATTTAAA
Found at i:16948269 original size:2 final size:2
Alignment explanation
Indices: 16948262--16948306 Score: 56
Period size: 2 Copynumber: 23.0 Consensus size: 2
16948252 TTAGTAATAC
* * *
16948262 AT AT AT AT AT AT AT GT AT AT AT AT AT AT -T AT AT TT AT AT TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16948303 AT AT
1 AT AT
16948307 GTATGTGTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (2 bp):
AT
Found at i:16949402 original size:20 final size:20
Alignment explanation
Indices: 16949346--16949402 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 20
16949336 GGTTACTTTT
16949346 ATATATCAATTTAATTAAAA
1 ATATATCAATTTAATTAAAA
* **
16949366 A-AT-T-ATTTTTGTTAAAA
1 ATATATCAATTTAATTAAAA
16949383 ATATATCAATTTAATTAAAA
1 ATATATCAATTTAATTAAAA
16949403 TGATAACATT
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
17 11 0.39
18 3 0.11
19 3 0.11
20 11 0.39
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.44
Consensus pattern (20 bp):
ATATATCAATTTAATTAAAA
Found at i:16954619 original size:10 final size:10
Alignment explanation
Indices: 16954606--16954639 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
16954596 TTTAAAAGTG
16954606 AAAATTTTTC
1 AAAATTTTTC
* *
16954616 AAAATTTCTA
1 AAAATTTTTC
16954626 AAAATTTTTC
1 AAAATTTTTC
16954636 AAAA
1 AAAA
16954640 GTTCTAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (10 bp):
AAAATTTTTC
Found at i:16954631 original size:20 final size:20
Alignment explanation
Indices: 16954606--16954649 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
16954596 TTTAAAAGTG
*
16954606 AAAATTTTTCAAAATTTCTA
1 AAAATTTTTCAAAAGTTCTA
16954626 AAAATTTTTCAAAAGTTCTA
1 AAAATTTTTCAAAAGTTCTA
16954646 AAAA
1 AAAA
16954650 ACTCAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (20 bp):
AAAATTTTTCAAAAGTTCTA
Found at i:16954747 original size:19 final size:20
Alignment explanation
Indices: 16954606--16954746 Score: 73
Period size: 20 Copynumber: 7.2 Consensus size: 20
16954596 TTTAAAAGTG
*
16954606 AAAATTTTTCAAAATTTCTA
1 AAAATTTTTCAAAAATTCTA
*
16954626 AAAATTTTTCAAAAGTTCTA
1 AAAATTTTTCAAAAATTCTA
** **
16954646 AAAA--ACTCAAAAA-TAAA
1 AAAATTTTTCAAAAATTCTA
* * *
16954663 AAAATAAAATTTCAAATATTATA
1 AAAAT---TTTTCAAAAATTCTA
*
16954686 GGAAA---TTCAAACAATTCTA
1 -AAAATTTTTCAAA-AATTCTA
*
16954705 AAACATTTTT-AAAAA-TCTG
1 AAA-ATTTTTCAAAAATTCTA
16954724 AAAATTTTTCAAAAATTCTA
1 AAAATTTTTCAAAAATTCTA
16954744 AAA
1 AAA
16954747 TAATATCAAA
Statistics
Matches: 91, Mismatches: 16, Indels: 28
0.67 0.12 0.21
Matches are distributed among these distances:
17 6 0.07
18 20 0.22
19 17 0.19
20 31 0.34
21 3 0.03
22 8 0.09
23 3 0.03
24 3 0.03
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.33
Consensus pattern (20 bp):
AAAATTTTTCAAAAATTCTA
Found at i:16954791 original size:32 final size:32
Alignment explanation
Indices: 16954724--16954791 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 32
16954714 TAAAAATCTG
*
16954724 AAAATTTTTCAAAAATTCTAAAATAATATCAA
1 AAAATTTTTCAAAAATTCTAAAAAAATATCAA
*
16954756 AAAATTTTT-AGAAAATTCTAAAAAAATTTTCAA
1 AAAATTTTTCA-AAAATTCTAAAAAAA-TATCAA
16954789 AAA
1 AAA
16954792 GAATTTAAGG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
31 1 0.03
32 23 0.72
33 8 0.25
ACGTcount: A:0.57, C:0.07, G:0.01, T:0.34
Consensus pattern (32 bp):
AAAATTTTTCAAAAATTCTAAAAAAATATCAA
Found at i:16954796 original size:24 final size:23
Alignment explanation
Indices: 16954755--16954814 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
16954745 AATAATATCA
* *
16954755 AAAAATTTTTAGAA-AATTCTAA-
1 AAAAATTTTAAAAAGAATT-TAAG
16954777 AAAAATTTTCAAAAAGAATTTAAG
1 AAAAATTTT-AAAAAGAATTTAAG
*
16954801 GAAAATTTTAAAAA
1 AAAAATTTTAAAAA
16954815 TTAAATTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
22 9 0.28
23 11 0.34
24 12 0.38
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.32
Consensus pattern (23 bp):
AAAAATTTTAAAAAGAATTTAAG
Found at i:16955412 original size:24 final size:26
Alignment explanation
Indices: 16955371--16955422 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 26
16955361 TTTAAAAATT
16955371 TTATAAATTTTTACAATT-TTT-TAA
1 TTATAAATTTTTACAATTGTTTATAA
* **
16955395 TTATAATTTTTTTGAATTGTTTATAA
1 TTATAAATTTTTACAATTGTTTATAA
16955421 TT
1 TT
16955423 TTTTAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 15 0.65
25 3 0.13
26 5 0.22
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (26 bp):
TTATAAATTTTTACAATTGTTTATAA
Found at i:16955432 original size:20 final size:20
Alignment explanation
Indices: 16955395--16955432 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
16955385 AATTTTTTAA
**
16955395 TTATAATTTTTTTGAATTGT
1 TTATAATTTTTTAAAATTGT
16955415 TTATAATTTTTTAAAATT
1 TTATAATTTTTTAAAATT
16955433 TTTGAGAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (20 bp):
TTATAATTTTTTAAAATTGT
Found at i:16955642 original size:20 final size:20
Alignment explanation
Indices: 16955582--16955674 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
16955572 TTTATCAAAA
* *
16955582 TTTTTAAAAGTTTTTTGGAAC
1 TTTTTAAAA-TTTTTTTGAAG
* * *
16955603 TGTTTAGAATGTTTTT-AAG
1 TTTTTAAAATTTTTTTGAAG
16955622 TTTTTAAAATTTTTTTGAAG
1 TTTTTAAAATTTTTTTGAAG
* * *
16955642 TTTTTAAAATATTTTAGAAA
1 TTTTTAAAATTTTTTTGAAG
*
16955662 ATTTTAAAATTTT
1 TTTTTAAAATTTT
16955675 AATGATTTTT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
19 15 0.26
20 36 0.62
21 7 0.12
ACGTcount: A:0.33, C:0.01, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTTAAAATTTTTTTGAAG
Found at i:16955674 original size:28 final size:28
Alignment explanation
Indices: 16955643--16955718 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 28
16955633 TTTTTGAAGT
* *
16955643 TTTTAA-AATATTTTAGAAAATTTTAAAA
1 TTTTAATAAT-TTTTAAAAAATTATAAAA
*
16955671 TTTTAATGATTTTTAAAAAATTATAAAA
1 TTTTAATAATTTTTAAAAAATTATAAAA
** *
16955699 AATTATATATTTTTTAAAAA
1 TTTTA-ATAATTTTTAAAAA
16955719 TTAATATTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
28 25 0.64
29 14 0.36
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (28 bp):
TTTTAATAATTTTTAAAAAATTATAAAA
Found at i:16955719 original size:28 final size:28
Alignment explanation
Indices: 16955653--16955721 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
16955643 TTTTAAAATA
* **
16955653 TTTTAGAAAATTTTAAAATTTTAATGATT
1 TTTTA-AAAATTATAAAAAATTAATGATT
*
16955682 TTTAAAAAATTATAAAAAATTATAT-ATT
1 TTTTAAAAATTATAAAAAATTA-ATGATT
16955710 TTTTAAAAATTA
1 TTTTAAAAATTA
16955722 ATATTTTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
28 28 0.82
29 6 0.18
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (28 bp):
TTTTAAAAATTATAAAAAATTAATGATT
Found at i:16955731 original size:19 final size:18
Alignment explanation
Indices: 16955696--16955736 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
16955686 AAAAATTATA
*
16955696 AAAAATTATATATTTTTT
1 AAAAATTATATATTTTTG
*
16955714 AAAAATTAATATTTTTTTG
1 AAAAATT-ATATATTTTTG
16955733 AAAA
1 AAAA
16955737 TTTTTTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
AAAAATTATATATTTTTG
Found at i:16955738 original size:18 final size:18
Alignment explanation
Indices: 16955696--16955730 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
16955686 AAAAATTATA
16955696 AAAAATTATATATTTTTT
1 AAAAATTATATATTTTTT
16955714 AAAAATTA-ATATTTTTT
1 AAAAATTATATATTTTTT
16955731 TGAAAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
AAAAATTATATATTTTTT
Found at i:16955751 original size:21 final size:21
Alignment explanation
Indices: 16955725--16955765 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
16955715 AAAATTAATA
16955725 TTTTTTTGAAAATTTTTTTAT
1 TTTTTTTGAAAATTTTTTTAT
*
16955746 TTTTTTTGAAATTTTTTTTA
1 TTTTTTTGAAAATTTTTTTA
16955766 AAGATGATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (21 bp):
TTTTTTTGAAAATTTTTTTAT
Found at i:16962728 original size:2 final size:2
Alignment explanation
Indices: 16962721--16962751 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
16962711 TCATCAAAAG
16962721 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16962752 AAGTAGAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16964454 original size:17 final size:17
Alignment explanation
Indices: 16964432--16964466 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
16964422 ATTAATTATA
*
16964432 AATAAAATATCTAAGAT
1 AATAAAATATCAAAGAT
*
16964449 AATAAATTATCAAAGAT
1 AATAAAATATCAAAGAT
16964466 A
1 A
16964467 TATATGTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.29
Consensus pattern (17 bp):
AATAAAATATCAAAGAT
Found at i:16966049 original size:173 final size:174
Alignment explanation
Indices: 16965701--16966071 Score: 448
Period size: 173 Copynumber: 2.1 Consensus size: 174
16965691 GCTAGGCCTT
16965701 GGATCAATCCAAGTCATCTTGCTTTCCACAAACCTCAAAGCAGACTAAGAAATTTTAAATCAGGA
1 GGATCAAT-CAAGTCATCTTGCTTTCCACAAACCTCAAAGCAGACTAAGAAATTTTAAATCAGGA
*** * * * * * *
16965766 AAGCTAGTGATCATTTTCTAAACGCAGGGATCAATCAATTTATCTTGGTTTCACACACATCAAGG
65 AAGCTAACAATCATTTTCTAAACGCAAGGACCAATCAAATGATCTTGATTTCACACACATCAAAG
* *
16965831 CAGACTAAGAAATTTTAGGTGAAGAATTAAAGCTATCAAATGCAA
130 CAGACCAAGAAATTTTACGTGAAGAATTAAAGCTATCAAATGCAA
** * * * * *
16965876 GGATCAATCAAGTGGTCTTGGTTT-CACACACGTCAAATCAGAC--AGAGAATTTTCAAGTCAGG
1 GGATCAATCAAGTCATCTTGCTTTCCACAAACCTCAAAGCAGACTAAGA-AATTTT-AAATCAGG
* * * *
16965938 AAAGCTAACAATCGTTTTCTAAACGCAAGGACCAATGAAATGATCTTGATTTTACACACGTCAAA
64 AAAGCTAACAATCATTTTCTAAACGCAAGGACCAATCAAATGATCTTGATTTCACACACATCAAA
16966003 GCAGACCAAGAAATTTTACGT-AGAGAATTAAAGCTA-CAGAATGCAA
129 GCAGACCAAGAAATTTTACGTGA-AGAATTAAAGCTATCA-AATGCAA
*
16966049 GGATCAATC-AGTCTTCTTGCTTT
1 GGATCAATCAAGTCATCTTGCTTT
16966072 TCTCCTCCAT
Statistics
Matches: 167, Mismatches: 25, Indels: 11
0.82 0.12 0.05
Matches are distributed among these distances:
171 3 0.02
172 20 0.12
173 123 0.74
174 13 0.08
175 8 0.05
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (174 bp):
GGATCAATCAAGTCATCTTGCTTTCCACAAACCTCAAAGCAGACTAAGAAATTTTAAATCAGGAA
AGCTAACAATCATTTTCTAAACGCAAGGACCAATCAAATGATCTTGATTTCACACACATCAAAGC
AGACCAAGAAATTTTACGTGAAGAATTAAAGCTATCAAATGCAA
Found at i:16968854 original size:20 final size:20
Alignment explanation
Indices: 16968797--16968867 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
16968787 GGTTACTTTT
16968797 ATATATCAATTTAATTAAAA
1 ATATATCAATTTAATTAAAA
* **
16968817 A-AT-T-ATTTTTTGTTAAAA
1 ATATATCA-ATTTAATTAAAA
16968835 ATATATCAATTTAATTAAAA
1 ATATATCAATTTAATTAAAA
*
16968855 ATGATAACAATTT
1 AT-ATATCAATTT
16968868 TTGTTAAAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
17 1 0.03
18 11 0.28
19 4 0.10
20 13 0.33
21 10 0.26
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (20 bp):
ATATATCAATTTAATTAAAA
Found at i:16968865 original size:21 final size:20
Alignment explanation
Indices: 16968829--16968867 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
16968819 TTATTTTTTG
*
16968829 TTAAAAATATATCAATTTAA
1 TTAAAAATATAACAATTTAA
16968849 TTAAAAATGATAACAATTT
1 TTAAAAAT-ATAACAATTT
16968868 TTGTTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (20 bp):
TTAAAAATATAACAATTTAA
Found at i:16969925 original size:21 final size:21
Alignment explanation
Indices: 16969901--16969957 Score: 64
Period size: 24 Copynumber: 2.7 Consensus size: 21
16969891 TTTATTAAGT
16969901 ATAGAGAAAAAAAAAAGAAAA
1 ATAGAGAAAAAAAAAAGAAAA
*
16969922 ATAGAGAAACATAAAAAAAGAACA
1 ATAGAG-AA-A-AAAAAAAGAAAA
16969946 A-AGA-AAAAAAAA
1 ATAGAGAAAAAAAA
16969958 GCAAAGGTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
19 5 0.16
20 1 0.03
21 8 0.25
22 2 0.06
23 4 0.12
24 12 0.38
ACGTcount: A:0.79, C:0.04, G:0.12, T:0.05
Consensus pattern (21 bp):
ATAGAGAAAAAAAAAAGAAAA
Found at i:16974134 original size:20 final size:20
Alignment explanation
Indices: 16974095--16974134 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
16974085 AAGTTAAATT
* *
16974095 TTTTTAAAAATTTCTGAAAA
1 TTTTTAAAAAGTTCTAAAAA
*
16974115 TTTTTCAAAAGTTCTAAAAA
1 TTTTTAAAAAGTTCTAAAAA
16974135 ATTCAAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (20 bp):
TTTTTAAAAAGTTCTAAAAA
Found at i:16974234 original size:20 final size:20
Alignment explanation
Indices: 16974178--16974234 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
16974168 TTATACGAAA
*
16974178 TTCAAACAATTCTAAAACATT
1 TTCAAA-AATTCTAAAAAATT
*
16974199 TTTAAAAA-TCTGAAAAAATT
1 TTCAAAAATTCT-AAAAAATT
16974219 TTCAAAAATTCTAAAA
1 TTCAAAAATTCTAAAA
16974235 TAATATCAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 3 0.10
20 20 0.65
21 8 0.26
ACGTcount: A:0.53, C:0.12, G:0.02, T:0.33
Consensus pattern (20 bp):
TTCAAAAATTCTAAAAAATT
Found at i:16974281 original size:54 final size:54
Alignment explanation
Indices: 16974197--16974300 Score: 131
Period size: 54 Copynumber: 1.9 Consensus size: 54
16974187 TTCTAAAACA
* *
16974197 TTTTTAAAAATCTGAAAAAATTTTCAAAAA-TTCTAAAATAATATCAAAAACATT
1 TTTTTAAAAATCTCAAAAAATTCTCAAAAATTTCTAAAA-AATATCAAAAACATT
* * *
16974251 TTTTTAAAAATTTCAAAAAATTCT-AGAAAATTTTTAAAAAATTTCAAAAA
1 TTTTTAAAAATCTCAAAAAATTCTCA-AAAATTTCTAAAAAATATCAAAAA
16974301 GAATTAAGGA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
53 1 0.02
54 35 0.81
55 7 0.16
ACGTcount: A:0.54, C:0.08, G:0.02, T:0.37
Consensus pattern (54 bp):
TTTTTAAAAATCTCAAAAAATTCTCAAAAATTTCTAAAAAATATCAAAAACATT
Found at i:16974900 original size:24 final size:26
Alignment explanation
Indices: 16974859--16974910 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 26
16974849 TTTAAAAATT
16974859 TTATAAATTTTTACAATT-TTT-TAA
1 TTATAAATTTTTACAATTGTTTATAA
* **
16974883 TTATAATTTTTTTGAATTGTTTATAA
1 TTATAAATTTTTACAATTGTTTATAA
16974909 TT
1 TT
16974911 TTTTAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 15 0.65
25 3 0.13
26 5 0.22
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.62
Consensus pattern (26 bp):
TTATAAATTTTTACAATTGTTTATAA
Found at i:16974920 original size:20 final size:20
Alignment explanation
Indices: 16974883--16974920 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
16974873 AATTTTTTAA
**
16974883 TTATAATTTTTTTGAATTGT
1 TTATAATTTTTTAAAATTGT
16974903 TTATAATTTTTTAAAATT
1 TTATAATTTTTTAAAATT
16974921 TTTGAGAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (20 bp):
TTATAATTTTTTAAAATTGT
Found at i:16975125 original size:22 final size:22
Alignment explanation
Indices: 16975100--16975144 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
16975090 GTTTAGAATG
*
16975100 TTTTT-AAGTTTTTAAATTTTT
1 TTTTTGAAGTTTTTAAAATTTT
16975121 TTTTTGAAGTTTTTAAAATTTT
1 TTTTTGAAGTTTTTAAAATTTT
16975143 TT
1 TT
16975145 AGAAAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTTTTGAAGTTTTTAAAATTTT
Found at i:16975187 original size:29 final size:28
Alignment explanation
Indices: 16975140--16975206 Score: 73
Period size: 29 Copynumber: 2.4 Consensus size: 28
16975130 TTTTTAAAAT
* * **
16975140 TTTTTAGAAAATTTTAAAATTTTA-ATGA
1 TTTTTAAAAAATTTAAAAAAATTATAT-A
16975168 TTTTTAAAAAATTATAAAAAAATTATATA
1 TTTTTAAAAAATT-TAAAAAAATTATATA
16975197 TTTTTAAAAA
1 TTTTTAAAAA
16975207 TTAATATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 12 0.36
29 19 0.58
30 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (28 bp):
TTTTTAAAAAATTTAAAAAAATTATATA
Found at i:16975213 original size:18 final size:16
Alignment explanation
Indices: 16975185--16975225 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
16975175 AAAATTATAA
16975185 AAAAATTATATATTTTT
1 AAAAATTATAT-TTTTT
16975202 AAAAATTAATATTTTTT
1 AAAAATT-ATATTTTTT
*
16975219 GAAAATT
1 AAAAATT
16975226 TTTTATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
AAAAATTATATTTTTT
Found at i:16975225 original size:17 final size:17
Alignment explanation
Indices: 16975185--16975217 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
16975175 AAAATTATAA
16975185 AAAAATTATATATTTTT
1 AAAAATTATATATTTTT
16975202 AAAAATTA-ATATTTTT
1 AAAAATTATATATTTTT
16975218 TGAAAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
AAAAATTATATATTTTT
Found at i:16976959 original size:37 final size:37
Alignment explanation
Indices: 16976908--16976982 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
16976898 CACTTTTACA
**
16976908 AATAGATGTGGTTTTATTGTTTCCTTGTGTAGTATAG
1 AATAGATGTGGTTTTATTGTTTCCAAGTGTAGTATAG
*
16976945 AATAGATGTTGTTTTATTGTTTCCAAGTGTAGTATAG
1 AATAGATGTGGTTTTATTGTTTCCAAGTGTAGTATAG
16976982 A
1 A
16976983 TTAGGGATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.25, C:0.05, G:0.23, T:0.47
Consensus pattern (37 bp):
AATAGATGTGGTTTTATTGTTTCCAAGTGTAGTATAG
Found at i:16977408 original size:30 final size:29
Alignment explanation
Indices: 16977373--16977436 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
16977363 AAAGACTTTA
*
16977373 AAAATTAT-GATTAATT-TAGTTTTTATAATT
1 AAAATTATGGATT-ATTGTA-TTATT-TAATT
16977403 AAAATTATGGATTATTGTATTATTTAATT
1 AAAATTATGGATTATTGTATTATTTAATT
16977432 AAAAT
1 AAAAT
16977437 AATATATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
29 10 0.32
30 15 0.48
31 6 0.19
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (29 bp):
AAAATTATGGATTATTGTATTATTTAATT
Found at i:16978197 original size:19 final size:20
Alignment explanation
Indices: 16978148--16978205 Score: 73
Period size: 19 Copynumber: 3.0 Consensus size: 20
16978138 TTGCTTTTAT
16978148 ATATCAATTTAATTAAAAAA
1 ATATCAATTTAATTAAAAAA
** * *
16978168 ATAT-TTTTTTATTAAAAAC
1 ATATCAATTTAATTAAAAAA
16978187 ATATCAATTTAATTAAAAA
1 ATATCAATTTAATTAAAAA
16978206 TGATAACATT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCAATTTAATTAAAAAA
Found at i:16978264 original size:3 final size:3
Alignment explanation
Indices: 16978258--16978305 Score: 78
Period size: 3 Copynumber: 15.3 Consensus size: 3
16978248 ATAATAAAAA
16978258 TAT TAT TCAAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT T-A-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
16978305 T
1 T
16978306 TTAGCATTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
3 39 0.91
4 2 0.05
5 2 0.05
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:16979154 original size:80 final size:81
Alignment explanation
Indices: 16979064--16979226 Score: 301
Period size: 80 Copynumber: 2.0 Consensus size: 81
16979054 AGCTTTGGCG
16979064 TTTGATTCCTCCCTACAGGGAAGATTGTTTGTTTTTATATTTAC-TTTTTGTTTCTATTTCTATT
1 TTTGATTCCTCCCTACAGGGAAGATTGTTTGTTTTTATATTTACTTTTTTGTTTCTATTTCTATT
16979128 TGGGTGTTTGGGTTTC
66 TGGGTGTTTGGGTTTC
* *
16979144 TTTGGTTCCTCCCTACAGGGAAGGTTGTTTGTTTTTATATTTACTTTTTTGTTTCTATTTCTATT
1 TTTGATTCCTCCCTACAGGGAAGATTGTTTGTTTTTATATTTACTTTTTTGTTTCTATTTCTATT
16979209 TGGGTGTTTGGGTTTC
66 TGGGTGTTTGGGTTTC
16979225 TT
1 TT
16979227 GGGTGTGGGA
Statistics
Matches: 80, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
80 42 0.52
81 38 0.47
ACGTcount: A:0.12, C:0.12, G:0.20, T:0.56
Consensus pattern (81 bp):
TTTGATTCCTCCCTACAGGGAAGATTGTTTGTTTTTATATTTACTTTTTTGTTTCTATTTCTATT
TGGGTGTTTGGGTTTC
Found at i:16979392 original size:22 final size:22
Alignment explanation
Indices: 16979357--16979398 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
16979347 GGTTGTAGGG
* *
16979357 GGTGGCTGTCGGTGTTTGTAGC
1 GGTGGCTGTAGGTGTCTGTAGC
*
16979379 GGTGGTTGTAGGTGTCTGTA
1 GGTGGCTGTAGGTGTCTGTA
16979399 AGGATGACTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.07, C:0.10, G:0.45, T:0.38
Consensus pattern (22 bp):
GGTGGCTGTAGGTGTCTGTAGC
Found at i:16979604 original size:16 final size:16
Alignment explanation
Indices: 16979583--16979614 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
16979573 CAATATTATT
16979583 ATTATTATTATTAAAA
1 ATTATTATTATTAAAA
16979599 ATTATTATTATTAAAA
1 ATTATTATTATTAAAA
16979615 CTAAACAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTATTATTATTAAAA
Found at i:16979619 original size:22 final size:22
Alignment explanation
Indices: 16979577--16979619 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
16979567 TCAAACCAAT
** *
16979577 ATTATTATTATTATTATTAAAA
1 ATTATTATTATTAAAACTAAAA
16979599 ATTATTATTATTAAAACTAAA
1 ATTATTATTATTAAAACTAAA
16979620 CAAAATTGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTATTATTATTAAAACTAAAA
Found at i:16980229 original size:86 final size:87
Alignment explanation
Indices: 16980080--16980271 Score: 305
Period size: 86 Copynumber: 2.2 Consensus size: 87
16980070 ATCAAAGCAC
* *
16980080 ATTTTAAGTCAAGAAAGCTATCGAATGTGTTCTAAGTGCATGAATAATCTAGTCATCCTGCTTTT
1 ATTTTAAGTCAAGAAAGCTATC--A-GTGTTCTAAGTGCATGAATAATCAAATCATCCTGCTTTT
*
16980145 CACAAACGTCAAAGCAGACTAAGAA
63 CACAAACATCAAAGCAGACTAAGAA
*
16980170 ATTTTAAGTCAAGAAAGCTATC-GTGTTCTAAGTGCATGGATAATCAAATCATCCTGCTTTTCAC
1 ATTTTAAGTCAAGAAAGCTATCAGTGTTCTAAGTGCATGAATAATCAAATCATCCTGCTTTTCAC
*
16980234 AAACATCGAAGCAGACTAAGAA
66 AAACATCAAAGCAGACTAAGAA
16980256 ATTTTAAGTCAAGAAA
1 ATTTTAAGTCAAGAAA
16980272 ACTAATCACC
Statistics
Matches: 97, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
86 75 0.77
90 22 0.23
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (87 bp):
ATTTTAAGTCAAGAAAGCTATCAGTGTTCTAAGTGCATGAATAATCAAATCATCCTGCTTTTCAC
AAACATCAAAGCAGACTAAGAA
Found at i:16983402 original size:19 final size:19
Alignment explanation
Indices: 16983364--16983403 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
16983354 ATCTAGAAAT
*
16983364 TTTTAAATTTTTCAATGAA
1 TTTTAAATTTTTCAACGAA
*
16983383 TTTTAAATTTTTTAACGAA
1 TTTTAAATTTTTCAACGAA
16983402 TT
1 TT
16983404 CTTTTAGCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (19 bp):
TTTTAAATTTTTCAACGAA
Found at i:16988413 original size:12 final size:12
Alignment explanation
Indices: 16988389--16988423 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
16988379 GGCTCAATTT
16988389 CCTTTCGTTTCCC
1 CCTTTC-TTTCCC
*
16988402 CCTTTTTTTCCC
1 CCTTTCTTTCCC
16988414 CCTTTCTTTC
1 CCTTTCTTTC
16988424 TTTGCTTCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.00, C:0.43, G:0.03, T:0.54
Consensus pattern (12 bp):
CCTTTCTTTCCC
Found at i:16999711 original size:2 final size:2
Alignment explanation
Indices: 16999704--16999732 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
16999694 TCATCAAAAG
16999704 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16999733 AAGTAGAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17001436 original size:17 final size:17
Alignment explanation
Indices: 17001414--17001448 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
17001404 ATTAATTATA
*
17001414 AATAAAATATCTAAGAT
1 AATAAAATATCAAAGAT
*
17001431 AATAAATTATCAAAGAT
1 AATAAAATATCAAAGAT
17001448 A
1 A
17001449 TATATGTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.29
Consensus pattern (17 bp):
AATAAAATATCAAAGAT
Found at i:17004727 original size:2 final size:2
Alignment explanation
Indices: 17004720--17004785 Score: 71
Period size: 2 Copynumber: 33.0 Consensus size: 2
17004710 GTAATACATA
* *
17004720 AT AT AT AT AT A- AT AT GT AT AGT AT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
* * *
17004762 AT AT AT TT AT AT TT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
17004786 GTTTTTAAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
1 1 0.02
2 49 0.94
3 2 0.04
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (2 bp):
AT
Found at i:17004792 original size:16 final size:16
Alignment explanation
Indices: 17004741--17004792 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
17004731 ATATGTATAG
* *
17004741 TATATATATATGTATA
1 TATATATATATGTTTT
*
17004757 TATATATATATTTATATT
1 TATATATATATGT-T-TT
*
17004775 TATATGTATATGTTTT
1 TATATATATATGTTTT
17004791 TA
1 TA
17004793 AAATAGTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
16 16 0.55
17 1 0.03
18 12 0.41
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.58
Consensus pattern (16 bp):
TATATATATATGTTTT
Found at i:17005148 original size:20 final size:21
Alignment explanation
Indices: 17005109--17005152 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
17005099 AAAAGTATGG
* *
17005109 ATATTGTATTATTTAATTAAA
1 ATATTATATTATTAAATTAAA
17005130 ATATTATATT-TTAAATTAAA
1 ATATTATATTATTAAATTAAA
17005150 ATA
1 ATA
17005153 GATAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
ATATTATATTATTAAATTAAA
Found at i:17005186 original size:20 final size:21
Alignment explanation
Indices: 17005140--17005186 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
17005130 ATATTATATT
17005140 TTAAATTAAAATAGATAATAA
1 TTAAATTAAAATAGATAATAA
** **
17005161 AAAAATTAAAATCTA-AATAA
1 TTAAATTAAAATAGATAATAA
17005181 TTAAAT
1 TTAAAT
17005187 GGTGTTATCC
Statistics
Matches: 20, Mismatches: 6, Indels: 1
0.74 0.22 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (21 bp):
TTAAATTAAAATAGATAATAA
Found at i:17006963 original size:8 final size:7
Alignment explanation
Indices: 17006947--17006989 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
17006937 GTATAGAGAA
17006947 AAAAAAG
1 AAAAAAG
17006954 AAAAATAG
1 AAAAA-AG
*
17006962 AAAAACAT
1 AAAAA-AG
17006970 AAAAAAG
1 AAAAAAG
*
17006977 AACAAAG
1 AAAAAAG
17006984 AAAAAA
1 AAAAAA
17006990 AAGCAAGGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
7 17 0.57
8 13 0.43
ACGTcount: A:0.81, C:0.05, G:0.09, T:0.05
Consensus pattern (7 bp):
AAAAAAG
Found at i:17006988 original size:15 final size:14
Alignment explanation
Indices: 17006948--17006990 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
17006938 TATAGAGAAA
*
17006948 AAAAAGAAAAATAG
1 AAAAAGAAAAAAAG
*
17006962 AAAAACATAAAAAAG
1 AAAAAGA-AAAAAAG
17006977 AACAAAGAAAAAAA
1 AA-AAAGAAAAAAA
17006991 AGCAAGGTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 6 0.25
15 14 0.58
16 4 0.17
ACGTcount: A:0.81, C:0.05, G:0.09, T:0.05
Consensus pattern (14 bp):
AAAAAGAAAAAAAG
Found at i:17010477 original size:14 final size:14
Alignment explanation
Indices: 17010458--17010489 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
17010448 TTATTTAAAG
17010458 AAAAAATAAAAATA
1 AAAAAATAAAAATA
*
17010472 AAAAAATAAGAATA
1 AAAAAATAAAAATA
17010486 AAAA
1 AAAA
17010490 GGAAGAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.12
Consensus pattern (14 bp):
AAAAAATAAAAATA
Found at i:17010586 original size:59 final size:57
Alignment explanation
Indices: 17010521--17010707 Score: 268
Period size: 59 Copynumber: 3.2 Consensus size: 57
17010511 TTGTGCAGGA
17010521 AAAATTGATACTTTCAACTTTTCCTCAAAAATTGATTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-T-ATTTTTTGAAAATTTATTTTTAAGG
17010580 AAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTAGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAATA-TTTTTT-GAAAATTTATTTTTAAGG
* * * *
17010639 AAAATTAATACTTTCAACTTTTCTTCAAAAAAACTTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATA--TTTTTTGAAAATTTATTTTTAAGG
17010698 AAAATTGATA
1 AAAATTGATA
17010708 AGGAAAAATT
Statistics
Matches: 118, Mismatches: 5, Indels: 10
0.89 0.04 0.08
Matches are distributed among these distances:
57 1 0.01
58 8 0.07
59 101 0.86
60 8 0.07
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTATTTTTAAGG
Found at i:17010730 original size:73 final size:72
Alignment explanation
Indices: 17010634--17010780 Score: 199
Period size: 73 Copynumber: 2.0 Consensus size: 72
17010624 AATTTATTTT
**
17010634 TAAGGAAAATTAATACTTTCAACTTTTCTTCAAAAAAACTTTTTTTGAAAA-TTT-ATTTTTAAG
1 TAAGGAAAATTAATACTTTCAACTTTTCCCCAAAAAAA--TTTTTTGAAAACTTTGATTTTTAAG
17010697 AAAAATTGA
64 AAAAATTGA
* * * *
17010706 TAAGGAAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAACTTTGATTTTTGAGG
1 TAAGG-AAAATTAATACTTTCAACTTTTCCCCAAAAAAATTTTTTGAAAACTTTGATTTTTAAGA
17010771 AAAATTGA
65 AAAATTGA
17010779 TA
1 TA
17010781 CTTTCAACTT
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
71 11 0.17
72 8 0.12
73 47 0.71
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.40
Consensus pattern (72 bp):
TAAGGAAAATTAATACTTTCAACTTTTCCCCAAAAAAATTTTTTGAAAACTTTGATTTTTAAGAA
AAATTGA
Found at i:17010903 original size:120 final size:118
Alignment explanation
Indices: 17010706--17011050 Score: 403
Period size: 120 Copynumber: 2.9 Consensus size: 118
17010696 GAAAAATTGA
** *
17010706 TAAGGAAAAATTGATACTTTCAACTTTTCCCCAAAAA-TATTTTTTGAAAACTTTGATTTTTGAG
1 TAAGGAAAAATTGATACTTTCAACTTTTCCTTAAAAATTATTTTTTGAAAA-TTT-ATTTTTAAG
*
17010770 GAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAAAATTT-ATTTT
64 GAAAATTGATACTTTCAACTTTT-TTCAAAAATATTTTTTTG-AAAAATTTGATTTT
* *
17010826 TAAGG-AAAATTGATACTTTCAACTTTTCCTTAAAAATCCTTTTTTTTGAAAATTTATTTTTAAA
1 TAAGGAAAAATTGATACTTTCAACTTTTCCTTAAAAAT--TATTTTTTGAAAATTTATTTTTAAG
* * ***
17010890 GAAAATTGATACTTTCAACTTTTTTCCAAAAAAATTTTTTTGGATTCTTTGATTTT
64 GAAAATTGATACTTTCAACTTTTTT-CAAAAATATTTTTTTGAAAAATTTGATTTT
** * * * *
17010946 CGAGGAAAAAATTGATATTTTTAACTTTT--TTCCAAAAATAATTTTTAGAAAATTTATTTTTAA
1 TAAGG-AAAAATTGATACTTTCAACTTTTCCTT--AAAAATTATTTTTTGAAAATTTATTTTTAA
17011009 GGAAAATTGATACTTTCAACTTTTTTCAAAAAATATTTTTTT
63 GGAAAATTGATACTTTCAACTTTTTTC-AAAAATATTTTTTT
17011051 TAGGTTTTAT
Statistics
Matches: 195, Mismatches: 20, Indels: 20
0.83 0.09 0.09
Matches are distributed among these distances:
119 35 0.18
120 119 0.61
121 3 0.02
122 38 0.19
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.46
Consensus pattern (118 bp):
TAAGGAAAAATTGATACTTTCAACTTTTCCTTAAAAATTATTTTTTGAAAATTTATTTTTAAGGA
AAATTGATACTTTCAACTTTTTTCAAAAATATTTTTTTGAAAAATTTGATTTT
Found at i:17011053 original size:60 final size:58
Alignment explanation
Indices: 17010706--17011050 Score: 365
Period size: 60 Copynumber: 5.8 Consensus size: 58
17010696 GAAAAATTGA
**
17010706 TAAGGAAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTT-GAAAACTTTGATTTT
1 TAAGG-AAAATTGATACTTTCAACTTTT-TTCAAAAATATTTTTTTAGAAAA-TTT-ATTTT
* * *
17010766 TGAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAAAAATTTATTTT
1 TAAGGAAAATTGATACTTTCAACTTTT-TTCAAAAATATTTTTTT-AGAAAATTTATTTT
* *
17010826 TAAGGAAAATTGATACTTTCAACTTTTCCTT-AAAAATCCTTTTTTTTGAAAATTTATTTT
1 TAAGGAAAATTGATACTTTCAACTTTT--TTCAAAAAT-ATTTTTTTAGAAAATTTATTTT
* * * ***
17010886 TAAAGAAAATTGATACTTTCAACTTTTTTCCAAAAAAATTTTTTTGGATTCTTTGATTTT
1 TAAGGAAAATTGATACTTTCAACTTTTTT-CAAAAATATTTTTTTAGAAAATTT-ATTTT
** * * *
17010946 CGAGGAAAAAATTGATATTTTTAACTTTTTTCCAAAAATA-ATTTTTAGAAAATTTATTTT
1 TAAGG--AAAATTGATACTTTCAACTTTTTT-CAAAAATATTTTTTTAGAAAATTTATTTT
17011006 TAAGGAAAATTGATACTTTCAACTTTTTTCAAAAAATATTTTTTT
1 TAAGGAAAATTGATACTTTCAACTTTTTTC-AAAAATATTTTTTT
17011051 TAGGTTTTAT
Statistics
Matches: 242, Mismatches: 31, Indels: 25
0.81 0.10 0.08
Matches are distributed among these distances:
57 1 0.00
58 31 0.13
59 49 0.20
60 105 0.43
61 22 0.09
62 34 0.14
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.46
Consensus pattern (58 bp):
TAAGGAAAATTGATACTTTCAACTTTTTTCAAAAATATTTTTTTAGAAAATTTATTTT
Found at i:17011076 original size:5 final size:5
Alignment explanation
Indices: 17011068--17011143 Score: 50
Period size: 5 Copynumber: 14.6 Consensus size: 5
17011058 TATTTTAAAG
*
17011068 AAAAT AAAAT --AAT AAAAC AAAAT AAAAGT GAAAAT AAAA- AAAAGT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T -AAAAT AAAAT AAAA-T
* *
17011113 AAAACA AAAAT AAAAAT GAAAT AAAGAT AAA
1 AAAA-T AAAAT -AAAAT AAAAT AAA-AT AAA
17011144 GGAACATTAA
Statistics
Matches: 56, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
3 3 0.05
4 4 0.07
5 25 0.45
6 20 0.36
7 4 0.07
ACGTcount: A:0.76, C:0.03, G:0.07, T:0.14
Consensus pattern (5 bp):
AAAAT
Found at i:17011112 original size:16 final size:15
Alignment explanation
Indices: 17011080--17011122 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 15
17011070 AATAAAATAA
17011080 TAAAACAAAATAAAAG
1 TAAAACAAAA-AAAAG
*
17011096 TGAAAATAAAAAAAAG
1 T-AAAACAAAAAAAAG
17011112 TAAAACAAAAA
1 TAAAACAAAAA
17011123 TAAAAATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 9 0.38
16 7 0.29
17 8 0.33
ACGTcount: A:0.77, C:0.05, G:0.07, T:0.12
Consensus pattern (15 bp):
TAAAACAAAAAAAAG
Found at i:17011121 original size:32 final size:32
Alignment explanation
Indices: 17011067--17011137 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 32
17011057 TTATTTTAAA
* *
17011067 GAAAAT-AAAATAATAAAAC-AAAATAAAAGT
1 GAAAATAAAAAAAATAAAACAAAAATAAAAAT
17011097 GAAAATAAAAAAAAGTAAAACAAAAATAAAAAT
1 GAAAATAAAAAAAA-TAAAACAAAAATAAAAAT
17011130 G-AAATAAA
1 GAAAATAAA
17011138 GATAAAGGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
30 6 0.17
31 6 0.17
32 13 0.36
33 11 0.31
ACGTcount: A:0.76, C:0.03, G:0.07, T:0.14
Consensus pattern (32 bp):
GAAAATAAAAAAAATAAAACAAAAATAAAAAT
Found at i:17011175 original size:4 final size:4
Alignment explanation
Indices: 17011166--17011207 Score: 57
Period size: 4 Copynumber: 10.0 Consensus size: 4
17011156 ATCCTAATTT
*
17011166 AATA AATAA AATAA AATA AACA AATA AATA AATA AATA AATA
1 AATA AAT-A AAT-A AATA AATA AATA AATA AATA AATA AATA
17011208 TAAAAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
4 26 0.74
5 9 0.26
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.21
Consensus pattern (4 bp):
AATA
Found at i:17011196 original size:12 final size:11
Alignment explanation
Indices: 17011166--17011213 Score: 53
Period size: 12 Copynumber: 4.2 Consensus size: 11
17011156 ATCCTAATTT
17011166 AATAAATAAAA
1 AATAAATAAAA
*
17011177 TA-AAATAAACA
1 AATAAATAAA-A
17011188 AATAAATAAATA
1 AATAAATAAA-A
17011200 AATAAATATAAA
1 AATAAATA-AAA
17011212 AA
1 AA
17011214 AAAACCTGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
10 7 0.23
11 3 0.10
12 19 0.61
13 2 0.06
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (11 bp):
AATAAATAAAA
Found at i:17012077 original size:21 final size:21
Alignment explanation
Indices: 17012027--17012123 Score: 78
Period size: 21 Copynumber: 4.8 Consensus size: 21
17012017 AAAAAAAATC
* *
17012027 AGATAAAAAATAATAGATAATT
1 AGATAAATAATAATA-ATAATA
*
17012049 AGAGAAATAATAATAATAATA
1 AGATAAATAATAATAATAATA
* * *
17012070 AGATAAATCAACAAT-ATTACA
1 AGATAAAT-AATAATAATAATA
*
17012091 AGATAAATAA-AAAAATAAT-
1 AGATAAATAATAATAATAATA
17012110 AG-T-AATAATAATAA
1 AGATAAATAATAATAA
17012124 CAGATAAATG
Statistics
Matches: 61, Mismatches: 11, Indels: 10
0.74 0.13 0.12
Matches are distributed among these distances:
17 5 0.08
18 5 0.08
19 4 0.07
20 5 0.08
21 24 0.39
22 18 0.30
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (21 bp):
AGATAAATAATAATAATAATA
Found at i:17012150 original size:20 final size:18
Alignment explanation
Indices: 17012116--17012152 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
17012106 TAATAGTAAT
17012116 AATAATAACAGATAAATG
1 AATAATAACAGATAAATG
17012134 AATATATAACTAGATAAAT
1 AATA-ATAAC-AGATAAAT
17012153 AAAAATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.27
Consensus pattern (18 bp):
AATAATAACAGATAAATG
Found at i:17012190 original size:20 final size:18
Alignment explanation
Indices: 17012165--17012209 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 18
17012155 AAATACATGT
17012165 AAAATAAATGAAAAAGAGAA
1 AAAATAAAT-AAAAA-AGAA
*
17012185 AAAATAAAATAAAAAATAA
1 AAAAT-AAATAAAAAAGAA
17012204 AAAATA
1 AAAATA
17012210 TATATTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 1 0.04
19 8 0.35
20 10 0.43
21 4 0.17
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (18 bp):
AAAATAAATAAAAAAGAA
Found at i:17012193 original size:7 final size:7
Alignment explanation
Indices: 17012190--17012310 Score: 59
Period size: 7 Copynumber: 16.3 Consensus size: 7
17012180 GAGAAAAAAT
17012190 AAAATAA
1 AAAATAA
17012197 AAAATAA
1 AAAATAA
17012204 AAAATATA
1 AAAATA-A
*
17012212 TATTAATAA
1 -A-AAATAA
* *
17012221 ATAGTAA
1 AAAATAA
17012228 TAATAATAA
1 -AA-AATAA
17012237 ATAAATAA
1 A-AAATAA
*
17012245 TAAATACA
1 AAAATA-A
17012253 TAAAATACA
1 -AAAATA-A
*
17012262 AAGAT--
1 AAAATAA
*
17012267 AAAATAT
1 AAAATAA
17012274 AAAAT-A
1 AAAATAA
17012280 AAAATAA
1 AAAATAA
*
17012287 AATAATAT
1 AA-AATAA
*
17012295 AAAATAT
1 AAAATAA
17012302 AAAATAA
1 AAAATAA
17012309 AA
1 AA
17012311 GCTGAATTGG
Statistics
Matches: 91, Mismatches: 11, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
5 4 0.04
6 5 0.05
7 44 0.48
8 20 0.22
9 14 0.15
10 4 0.04
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (7 bp):
AAAATAA
Found at i:17012259 original size:27 final size:29
Alignment explanation
Indices: 17012191--17012291 Score: 77
Period size: 27 Copynumber: 3.5 Consensus size: 29
17012181 AGAAAAAATA
17012191 AAATAA-AAAATAAAAAATATATATTAAT
1 AAATAATAAAATAAAAAATATATATTAAT
* *
17012219 AAATAGTAATAATAATAAATA-A-A-TAAT
1 AAATAATAA-AATAAAAAATATATATTAAT
* * *
17012246 AAATACATAAAATACAAAGATAAAATATAAAAT
1 AAATA-ATAAAATA-AAAAAT-ATATAT-TAAT
17012279 AAA-AATAAAATAA
1 AAATAATAAAATAA
17012292 TATAAAATAT
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
27 13 0.22
28 13 0.22
29 4 0.07
30 12 0.21
31 9 0.16
32 1 0.02
33 6 0.10
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (29 bp):
AAATAATAAAATAAAAAATATATATTAAT
Found at i:17012276 original size:35 final size:35
Alignment explanation
Indices: 17012239--17012307 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 35
17012229 AATAATAAAT
*
17012239 AAATAATAAAT-ACATAAAATACAAAGATAAAATATA
1 AAATAA-AAATAAAATAAAATA-AAAGATAAAATATA
* *
17012275 AAATAAAAATAAAATAATATAAAATATAAAATA
1 AAATAAAAATAAAATAAAATAAAAGATAAAATA
17012308 AAAGCTGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
35 15 0.52
36 14 0.48
ACGTcount: A:0.72, C:0.03, G:0.01, T:0.23
Consensus pattern (35 bp):
AAATAAAAATAAAATAAAATAAAAGATAAAATATA
Found at i:17013430 original size:10 final size:10
Alignment explanation
Indices: 17013415--17013699 Score: 77
Period size: 10 Copynumber: 29.4 Consensus size: 10
17013405 TCTTTAAAAT
17013415 AAAAATTCTA
1 AAAAATTCTA
*
17013425 AAAAATT-TC
1 AAAAATTCTA
*
17013434 AAAAGTTCTA
1 AAAAATTCTA
*
17013444 AAAATTTC-A
1 AAAAATTCTA
17013453 AAAAA---TA
1 AAAAATTCTA
*
17013460 AAAAA--AT-
1 AAAAATTCTA
*
17013467 AAAAATT-TC
1 AAAAATTCTA
* *
17013476 AAATATTATA
1 AAAAATTCTA
**
17013486 GGAAATTC-A
1 AAAAATTCTA
*
17013495 AACAATTCTA
1 AAAAATTCTA
* * *
17013505 AAACATTTTT
1 AAAAATTCTA
17013515 AAAAA-TCTGA
1 AAAAATTCT-A
* * *
17013525 AAAATTTTTC
1 AAAAATTCTA
17013535 AAAAATTCTA
1 AAAAATTCTA
17013545 AAATAATATC-A
1 AAA-AAT-TCTA
*
17013556 AAAACATTTTTTA
1 AAAA-A--TTCTA
*
17013569 GAAAATTCTA
1 AAAAATTCTA
17013579 AAAAATTCTA
1 AAAAATTCTA
*
17013589 AAAAATTTTTAA
1 AAAAA-TTCT-A
17013601 AAAAATT-TA
1 AAAAATTCTA
* *
17013610 AAAACTTTTA
1 AAAAATTCTA
* *
17013620 AAAATTTTTAA
1 AAAAATTCT-A
17013631 AAAAATTC-A
1 AAAAATTCTA
*
17013640 AAAAA---TG
1 AAAAATTCTA
* *
17013647 AAAATTTCAA
1 AAAAATTCTA
17013657 AAAAATTC-A
1 AAAAATTCTA
*
17013666 AACAATTCTA
1 AAAAATTCTA
* * *
17013676 GAGAATTTTAA
1 AAAAATTCT-A
17013687 AAAAATTC-A
1 AAAAATTCTA
17013696 AAAA
1 AAAA
17013700 GAATTTAGGA
Statistics
Matches: 201, Mismatches: 48, Indels: 53
0.67 0.16 0.18
Matches are distributed among these distances:
7 15 0.07
8 2 0.01
9 52 0.26
10 89 0.44
11 28 0.14
12 10 0.05
13 5 0.02
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.32
Consensus pattern (10 bp):
AAAAATTCTA
Found at i:17013442 original size:19 final size:18
Alignment explanation
Indices: 17013415--17013456 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
17013405 TCTTTAAAAT
17013415 AAAAATTCTAAAAAATTTC
1 AAAAATTCT-AAAAATTTC
*
17013434 AAAAGTTCTAAAAATTTC
1 AAAAATTCTAAAAATTTC
17013452 AAAAA
1 AAAAA
17013457 ATAAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.60, C:0.10, G:0.02, T:0.29
Consensus pattern (18 bp):
AAAAATTCTAAAAATTTC
Found at i:17013689 original size:30 final size:30
Alignment explanation
Indices: 17013561--17013699 Score: 128
Period size: 30 Copynumber: 4.7 Consensus size: 30
17013551 TATCAAAAAC
* * *
17013561 ATTTTTTAGAAAATTCTAAAAAATTCTAAAAA
1 ATTTTTAAAAAAATTC--AAAAATTCTAGAAA
* *
17013593 ATTTTTAAAAAAATTTAAAAACTTTTA-AAA
1 ATTTTTAAAAAAATTCAAAAA-TTCTAGAAA
*
17013623 ATTTTTAAAAAAATTCAAAAA--AT-GAAA
1 ATTTTTAAAAAAATTCAAAAATTCTAGAAA
* *
17013650 A-TTTCAAAAAAATTCAAACAATTCTAGAGA
1 ATTTTTAAAAAAATTCAAA-AATTCTAGAAA
17013680 A-TTTTAAAAAAATTCAAAAA
1 ATTTTTAAAAAAATTCAAAAA
17013700 GAATTTAGGA
Statistics
Matches: 91, Mismatches: 10, Indels: 15
0.78 0.09 0.13
Matches are distributed among these distances:
26 16 0.18
27 7 0.08
29 3 0.03
30 48 0.53
31 4 0.04
32 13 0.14
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (30 bp):
ATTTTTAAAAAAATTCAAAAATTCTAGAAA
Found at i:17013946 original size:22 final size:21
Alignment explanation
Indices: 17013921--17013972 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
17013911 ATTTTTAAAT
17013921 ATTTTTTTATCTTACAATTTCA
1 ATTTTTTTATCTTACAATTT-A
* **
17013943 ATTTTTTATATTTTTTAATTTA
1 ATTTTTT-TATCTTACAATTTA
17013965 ATTTTTTT
1 ATTTTTTT
17013973 GAAAAATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 1 0.04
22 15 0.58
23 10 0.38
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (21 bp):
ATTTTTTTATCTTACAATTTA
Found at i:17014371 original size:10 final size:10
Alignment explanation
Indices: 17014356--17014398 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
17014346 ATTTTTAATA
17014356 TTTAAAATTT
1 TTTAAAATTT
17014366 TTTAAAATTTT
1 TTTAAAA-TTT
**
17014377 TTTTGAA-TT
1 TTTAAAATTT
17014386 TTTAAAATTT
1 TTTAAAATTT
17014396 TTT
1 TTT
17014399 TTAGTATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
9 7 0.26
10 12 0.44
11 8 0.30
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (10 bp):
TTTAAAATTT
Found at i:17014519 original size:42 final size:43
Alignment explanation
Indices: 17014430--17014519 Score: 103
Period size: 42 Copynumber: 2.1 Consensus size: 43
17014420 AAGTTAAATA
* * * * *
17014430 TTTTTTTATAAATTTTAAAAATTTTAAAATACTTTTTTGTATT
1 TTTTTTCATAAATTTTAAAAATTTTAAAATACTATTTAGAATG
*
17014473 TTTTTTCA-AAATTTTAAAAATTTTTAAAA-GCTATTTAGAATG
1 TTTTTTCATAAATTTTAAAAA-TTTTAAAATACTATTTAGAATG
17014515 TTTTT
1 TTTTT
17014520 AAGTTTTTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 25 0.62
43 15 0.38
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.57
Consensus pattern (43 bp):
TTTTTTCATAAATTTTAAAAATTTTAAAATACTATTTAGAATG
Found at i:17014535 original size:9 final size:9
Alignment explanation
Indices: 17014474--17014568 Score: 55
Period size: 9 Copynumber: 10.0 Consensus size: 9
17014464 TTTTGTATTT
17014474 TTTTTCAAAA
1 TTTTT-AAAA
*
17014484 TTTTAAAAA
1 TTTTTAAAA
17014493 TTTTTAAAA
1 TTTTTAAAA
* *
17014502 GCTATTTAGAA
1 --TTTTTAAAA
* *
17014513 TGTTTTTAAG
1 T-TTTTAAAA
17014523 TTTTTAAAA
1 TTTTTAAAA
**
17014532 TTTTTTTGAA
1 -TTTTTAAAA
*
17014542 GTTTTAAAA
1 TTTTTAAAA
**
17014551 TTTTTATGA
1 TTTTTAAAA
17014560 TTTTTAAAA
1 TTTTTAAAA
17014569 ATTATAAAAA
Statistics
Matches: 61, Mismatches: 20, Indels: 9
0.68 0.22 0.10
Matches are distributed among these distances:
9 38 0.62
10 16 0.26
11 7 0.11
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:17014537 original size:19 final size:19
Alignment explanation
Indices: 17014515--17014568 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
17014505 ATTTAGAATG
17014515 TTTTTAAGTTTTTAAAATT
1 TTTTTAAGTTTTTAAAATT
17014534 TTTTTGAAG-TTTTAAAATT
1 TTTTT-AAGTTTTTAAAATT
* *
17014553 TTTATGA-TTTTTAAAA
1 TTTTTAAGTTTTTAAAA
17014569 ATTATAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 9 0.29
19 19 0.61
20 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.59
Consensus pattern (19 bp):
TTTTTAAGTTTTTAAAATT
Found at i:17014597 original size:18 final size:19
Alignment explanation
Indices: 17014576--17014639 Score: 69
Period size: 20 Copynumber: 3.4 Consensus size: 19
17014566 AAAATTATAA
17014576 AAAATTTAGAT-TTTTTTT-
1 AAAATTTA-ATATTTTTTTG
*
17014594 AAAAATTAATATTTTTTTG
1 AAAATTTAATATTTTTTTG
**
17014613 AAAATTTTTTTATTTTTTTG
1 AAAA-TTTAATATTTTTTTG
17014633 AAAATTT
1 AAAATTT
17014640 TTTTTTAAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
17 2 0.05
18 14 0.36
19 7 0.18
20 16 0.41
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
AAAATTTAATATTTTTTTG
Found at i:17014599 original size:19 final size:19
Alignment explanation
Indices: 17014575--17014639 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
17014565 AAAAATTATA
17014575 AAAAATTTAGAT-TTTTTTT
1 AAAAATTTA-ATATTTTTTT
17014594 AAAAA-TTAATATTTTTTT
1 AAAAATTTAATATTTTTTT
* **
17014612 GAAAATTTTTTTATTTTTTT
1 -AAAAATTTAATATTTTTTT
*
17014632 GAAAATTT
1 AAAAATTT
17014640 TTTTTTAAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
17 2 0.05
18 10 0.26
19 15 0.39
20 11 0.29
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
AAAAATTTAATATTTTTTT
Found at i:17014621 original size:12 final size:12
Alignment explanation
Indices: 17014604--17014643 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
17014594 AAAAATTAAT
17014604 ATTTTTTTGAAA
1 ATTTTTTTGAAA
17014616 ATTTTTTT----
1 ATTTTTTTGAAA
17014624 ATTTTTTTGAAA
1 ATTTTTTTGAAA
17014636 ATTTTTTT
1 ATTTTTTT
17014644 TTAAAGATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
8 8 0.33
12 16 0.67
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (12 bp):
ATTTTTTTGAAA
Found at i:17014644 original size:21 final size:20
Alignment explanation
Indices: 17014603--17014643 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
17014593 TAAAAATTAA
17014603 TATTTTTTTGAAAATTTTTT
1 TATTTTTTTGAAAATTTTTT
17014623 TATTTTTTTGAAAATTTTTT
1 TATTTTTTTGAAAATTTTTT
17014643 T
1 T
17014644 TTAAAGATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (20 bp):
TATTTTTTTGAAAATTTTTT
Found at i:17016334 original size:37 final size:37
Alignment explanation
Indices: 17016282--17016356 Score: 109
Period size: 37 Copynumber: 2.0 Consensus size: 37
17016272 CACTTTTACA
*
17016282 AATAGATGTGATTTTATTGTTTCCT-TGTGTAGTATAG
1 AATAGATGTGATTTTATTGTTT-CTGAGTGTAGTATAG
17016319 AATAGATGTTG-TTTTATTGTTTCTGAGTGTAGTATAG
1 AATAGATG-TGATTTTATTGTTTCTGAGTGTAGTATAG
17016356 A
1 A
17016357 TTAGGGATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
36 2 0.06
37 31 0.89
38 2 0.06
ACGTcount: A:0.25, C:0.04, G:0.23, T:0.48
Consensus pattern (37 bp):
AATAGATGTGATTTTATTGTTTCTGAGTGTAGTATAG
Found at i:17016616 original size:27 final size:27
Alignment explanation
Indices: 17016573--17016664 Score: 70
Period size: 27 Copynumber: 3.6 Consensus size: 27
17016563 TTAGGTAATG
* *
17016573 TTTT-ATAAATATCTATTAATATATAT
1 TTTTAATAAAAATATATTAATATATAT
*
17016599 TTTTAATAAAAATATATT--TAT-TCT
1 TTTTAATAAAAATATATTAATATATAT
* * *
17016623 ATTTAATCTAAAATA-A-TAATTTATAT
1 TTTTAAT-AAAAATATATTAATATATAT
17016649 TATTTAATAAAAATAT
1 T-TTTAATAAAAATAT
17016665 TTTTTACTAA
Statistics
Matches: 50, Mismatches: 9, Indels: 13
0.69 0.12 0.18
Matches are distributed among these distances:
23 1 0.02
24 9 0.18
25 11 0.22
26 12 0.24
27 17 0.34
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (27 bp):
TTTTAATAAAAATATATTAATATATAT
Found at i:17016634 original size:26 final size:25
Alignment explanation
Indices: 17016589--17016664 Score: 86
Period size: 27 Copynumber: 3.0 Consensus size: 25
17016579 AAATATCTAT
*
17016589 TAATATATATT-TTTAATAAAAATA
1 TAATTTATATTATTTAATAAAAATA
*
17016613 T-ATTTAT-TCTATTTAATCTAAAATAA
1 TAATTTATAT-TATTTAAT-AAAAAT-A
17016639 TAATTTATATTATTTAATAAAAATA
1 TAATTTATATTATTTAATAAAAATA
17016664 T
1 T
17016665 TTTTTACTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
22 1 0.02
23 6 0.14
24 7 0.16
25 7 0.16
26 7 0.16
27 14 0.33
28 1 0.02
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (25 bp):
TAATTTATATTATTTAATAAAAATA
Found at i:17017965 original size:29 final size:29
Alignment explanation
Indices: 17017933--17017988 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
17017923 GTGATTCTAA
17017933 TTTTAATATTTA-AAATAATCTTTTTAATT
1 TTTTAATATTTATAAA-AATCTTTTTAATT
* *
17017962 TTTTATTTTTTATAAAAATCTTTTTAA
1 TTTTAATATTTATAAAAATCTTTTTAA
17017989 AACTTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 21 0.88
30 3 0.12
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.61
Consensus pattern (29 bp):
TTTTAATATTTATAAAAATCTTTTTAATT
Found at i:17017996 original size:31 final size:29
Alignment explanation
Indices: 17017941--17018000 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
17017931 AATTTTAATA
*
17017941 TTTAAAATAATCTTTTTAATTTTTTATTT
1 TTTAAAATAATCTTTTTAACTTTTTATTT
17017970 TTTATAAA-AATCTTTTTAAAACTTTTTATTT
1 TTTA-AAATAATCTTTTT--AACTTTTTATTT
17018001 AACAATAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 13 0.48
30 3 0.11
31 11 0.41
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (29 bp):
TTTAAAATAATCTTTTTAACTTTTTATTT
Found at i:17024100 original size:42 final size:44
Alignment explanation
Indices: 17024041--17024127 Score: 142
Period size: 42 Copynumber: 2.0 Consensus size: 44
17024031 AAATTGTTAT
17024041 GAAAGGTATAAAGAAATTTC-AACAGTA-ATGTAACAATAATAC
1 GAAAGGTATAAAGAAATTTCAAACAGTATATGTAACAATAATAC
17024083 GAAAGGTATAAAGAAATTTCAAACAGTATTCATGTAACAATAATA
1 GAAAGGTATAAAGAAATTTCAAACAGTA-T-ATGTAACAATAATA
17024128 GTTGTTATAA
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
42 20 0.49
43 7 0.17
46 14 0.34
ACGTcount: A:0.52, C:0.09, G:0.14, T:0.25
Consensus pattern (44 bp):
GAAAGGTATAAAGAAATTTCAAACAGTATATGTAACAATAATAC
Found at i:17029313 original size:5 final size:5
Alignment explanation
Indices: 17029275--17029352 Score: 58
Period size: 5 Copynumber: 15.8 Consensus size: 5
17029265 AACAAATCAC
17029275 AAAA- AAAA- AAAAT AAAA- AAAA- AATAAT AATAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA-AAT AA-AAT AAAAT AAAAT AAAAT
* * *
17029323 AAATT CAAAAT GAAAAT -TAAT AAATT AAAA
1 AAAAT -AAAAT -AAAAT AAAAT AAAAT AAAA
17029353 CCTACCTTAG
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
4 17 0.27
5 28 0.45
6 17 0.27
ACGTcount: A:0.77, C:0.01, G:0.01, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:17029332 original size:21 final size:20
Alignment explanation
Indices: 17029294--17029352 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
17029284 AAATAAAAAA
*
17029294 AAAAT-AATAATAATAAAAT-
1 AAAATAAATAA-ATTAAAATG
17029313 AAAATAAAATAAATTCAAAATG
1 AAAAT-AAATAAATT-AAAATG
*
17029335 AAAATTAATAAATTAAAA
1 AAAATAAATAAATTAAAA
17029353 CCTACCTTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
19 5 0.15
20 6 0.18
21 18 0.53
22 5 0.15
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (20 bp):
AAAATAAATAAATTAAAATG
Found at i:17038047 original size:28 final size:28
Alignment explanation
Indices: 17038001--17038067 Score: 91
Period size: 27 Copynumber: 2.4 Consensus size: 28
17037991 AACCTCGTTC
*
17038001 AAAAGAAAAAAAAAAACAAAAAAAACAG
1 AAAACAAAAAAAAAAACAAAAAAAACAG
* *
17038029 -AAACAAAAAAAAAACACAACAGAAACAG
1 AAAACAAAAAAAAAA-ACAAAAAAAACAG
17038057 AAAACAAAAAA
1 AAAACAAAAAA
17038068 CACAGTCCTC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
27 13 0.38
28 11 0.32
29 10 0.29
ACGTcount: A:0.82, C:0.12, G:0.06, T:0.00
Consensus pattern (28 bp):
AAAACAAAAAAAAAAACAAAAAAAACAG
Found at i:17038049 original size:22 final size:22
Alignment explanation
Indices: 17038004--17038071 Score: 73
Period size: 22 Copynumber: 2.9 Consensus size: 22
17037994 CTCGTTCAAA
* * *
17038004 AGAAAAAAAAAAACAAAAAAAAC
1 AGAAACAAAAAAA-AAACACAAC
17038027 AGAAACAAAAAAAAAACACAAC
1 AGAAACAAAAAAAAAACACAAC
17038049 AGAAACAGAAAACAAAAAACACA
1 AGAAAC--AAAA-AAAAAACACA
17038072 GTCCTCGCCT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
22 13 0.33
23 12 0.31
24 4 0.10
25 10 0.26
ACGTcount: A:0.79, C:0.15, G:0.06, T:0.00
Consensus pattern (22 bp):
AGAAACAAAAAAAAAACACAAC
Found at i:17038072 original size:22 final size:21
Alignment explanation
Indices: 17038012--17038072 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 21
17038002 AAAGAAAAAA
*
17038012 AAAAACAAAAAAAACAGAAAC
1 AAAAACAAAAAACACAGAAAC
17038033 AAAAA-AAAAACACAACAGAAAC
1 AAAAACAAAAA-AC-ACAGAAAC
17038055 AGAAAACAAAAAACACAG
1 A-AAAACAAAAAACACAG
17038073 TCCTCGCCTA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
20 5 0.14
21 6 0.17
22 13 0.37
23 6 0.17
24 5 0.14
ACGTcount: A:0.77, C:0.16, G:0.07, T:0.00
Consensus pattern (21 bp):
AAAAACAAAAAACACAGAAAC
Found at i:17044899 original size:1 final size:1
Alignment explanation
Indices: 17044893--17044938 Score: 65
Period size: 1 Copynumber: 46.0 Consensus size: 1
17044883 AGTAACTTTC
* **
17044893 AAAAAAAAAAAAAAAAAAAAAAAAGAAGGAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
17044939 GTTTTATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (1 bp):
A
Found at i:17045494 original size:12 final size:11
Alignment explanation
Indices: 17045477--17045502 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
17045467 TGGGCATAAT
17045477 AAAAAAAAAAC
1 AAAAAAAAAAC
17045488 AAAAAAAAAAC
1 AAAAAAAAAAC
17045499 AAAA
1 AAAA
17045503 GGGACATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:17047436 original size:121 final size:120
Alignment explanation
Indices: 17047302--17047746 Score: 699
Period size: 121 Copynumber: 3.7 Consensus size: 120
17047292 CGAAAGTCAT
17047302 AGATTAAAAAATTTTTAAATTTTAAAGTTTCATCGCCTCTGATTATGAGGAGCATTCAAAGATTT
1 AGATTAAAAAATTTTTAAATTTTAAAGTTTCATCGCCTCTGATTATGAGGAGCATTCAAAGATTT
* * * *
17047367 TGAGATTTATAAGACCTCCGGGCATAATCTCTAGAAGCCTCTGTGCACGACTTTCA
66 T-AGATTTATAAGACCTCCGGGCATAATCTCTAGAAGCCTTTGCGCAGGACTTTTA
17047423 AGATTAAAAAATTTTTAAATTTTAAAGTTTCATCGCCTCTGATTATGAGGAGCATTC--A-A---
1 AGATTAAAAAATTTTTAAATTTTAAAGTTTCATCGCCTCTGATTATGAGGAGCATTCAAAGATTT
* *
17047482 -AGA-TTATAAGACCTCCGGGCATAATCTTTAGAAGTCTTTGCGCAGGACTTTTA
66 TAGATTTATAAGACCTCCGGGCATAATCTCTAGAAGCCTTTGCGCAGGACTTTTA
*
17047535 AGATTAAAAAGTTTTTAAATTTTAAAGTTTCATCGCCTCTGATTATGAGGAGCATTCAAAGATTT
1 AGATTAAAAAATTTTTAAATTTTAAAGTTTCATCGCCTCTGATTATGAGGAGCATTCAAAGATTT
* *
17047600 TGAGATTTATAAGACCTCCGGGCATAATCTCTAAAAGCCTTTGCGTAGGACTTTTA
66 T-AGATTTATAAGACCTCCGGGCATAATCTCTAGAAGCCTTTGCGCAGGACTTTTA
*
17047656 AGATTAAAAAAATTTTTAAATTTTAAAGTTTCATCGCCTCTAATTATGAGGAGCATTCAAAGATT
1 AGATT-AAAAAATTTTTAAATTTTAAAGTTTCATCGCCTCTGATTATGAGGAGCATTCAAAGATT
*
17047721 TTATGATTTTTAAGACCTCCGGGCAT
65 TTA-GATTTATAAGACCTCCGGGCAT
17047747 GATTTGTAAG
Statistics
Matches: 299, Mismatches: 14, Indels: 21
0.90 0.04 0.06
Matches are distributed among these distances:
112 100 0.33
113 3 0.01
114 1 0.00
115 1 0.00
118 1 0.00
119 1 0.00
120 3 0.01
121 109 0.36
122 80 0.27
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.35
Consensus pattern (120 bp):
AGATTAAAAAATTTTTAAATTTTAAAGTTTCATCGCCTCTGATTATGAGGAGCATTCAAAGATTT
TAGATTTATAAGACCTCCGGGCATAATCTCTAGAAGCCTTTGCGCAGGACTTTTA
Found at i:17047499 original size:112 final size:112
Alignment explanation
Indices: 17047373--17047720 Score: 516
Period size: 112 Copynumber: 3.0 Consensus size: 112
17047363 ATTTTGAGAT
* * * *
17047373 TTATAAGACCTCCGGGCATAATCTCTAGAAGCCTCTGTGCACGACTTTCAAGATTAAAAAATTTT
1 TTATAAGACCTCCGGGCATAATCTCTAGAAGCCTTTGCGCAGGACTTTTAAGATTAAAAAATTTT
17047438 TAAATTTTAAAGTTTCATCGCCTCTGATTATGAGGAGCATTCAAAGA
66 TAAATTTTAAAGTTTCATCGCCTCTGATTATGAGGAGCATTCAAAGA
* * *
17047485 TTATAAGACCTCCGGGCATAATCTTTAGAAGTCTTTGCGCAGGACTTTTAAGATTAAAAAGTTTT
1 TTATAAGACCTCCGGGCATAATCTCTAGAAGCCTTTGCGCAGGACTTTTAAGATTAAAAAATTTT
17047550 TAAATTTTAAAGTTTCATCGCCTCTGATTATGAGGAGCATTCAAAGATTTTGAGA
66 TAAATTTTAAAGTTTCATCGCCTCTGATTATGAGGAGCATTC--A-A-----AGA
* *
17047605 TTTATAAGACCTCCGGGCATAATCTCTAAAAGCCTTTGCGTAGGACTTTTAAGATTAAAAAAATT
1 -TTATAAGACCTCCGGGCATAATCTCTAGAAGCCTTTGCGCAGGACTTTTAAGATT-AAAAAATT
*
17047670 TTTAAATTTTAAAGTTTCATCGCCTCTAATTATGAGGAGCATTCAAAGA
64 TTTAAATTTTAAAGTTTCATCGCCTCTGATTATGAGGAGCATTCAAAGA
17047719 TT
1 TT
17047721 TTATGATTTT
Statistics
Matches: 213, Mismatches: 13, Indels: 19
0.87 0.05 0.08
Matches are distributed among these distances:
112 100 0.47
113 2 0.01
114 4 0.02
115 1 0.00
119 1 0.00
120 4 0.02
121 51 0.24
122 50 0.23
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Consensus pattern (112 bp):
TTATAAGACCTCCGGGCATAATCTCTAGAAGCCTTTGCGCAGGACTTTTAAGATTAAAAAATTTT
TAAATTTTAAAGTTTCATCGCCTCTGATTATGAGGAGCATTCAAAGA
Found at i:17047751 original size:22 final size:22
Alignment explanation
Indices: 17047723--17047768 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
17047713 CAAAGATTTT
*
17047723 ATGATTTTTAAGACCTCCGGGC
1 ATGATTTGTAAGACCTCCGGGC
17047745 ATGATTTGTAAGACCTCCGGGC
1 ATGATTTGTAAGACCTCCGGGC
17047767 AT
1 AT
17047769 AAATTTGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (22 bp):
ATGATTTGTAAGACCTCCGGGC
Found at i:17047889 original size:21 final size:21
Alignment explanation
Indices: 17047832--17047891 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 21
17047822 TTATCCCAAT
17047832 CAATTCTGTAAGACCTCCGGG
1 CAATTCTGTAAGACCTCCGGG
*
17047853 CATGATT-TTTAAGACCTCCGGG
1 CA--ATTCTGTAAGACCTCCGGG
*
17047875 CAATTCTGAAAGACCTC
1 CAATTCTGTAAGACCTC
17047892 TGGGTATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 3 0.09
21 11 0.33
22 16 0.48
23 3 0.09
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (21 bp):
CAATTCTGTAAGACCTCCGGG
Done.