Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 32 of 127
Found at i:6659643 original size:30 final size:31
Alignment explanation
Indices: 6659592--6659656 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 31
6659582 GAACTCTTAC
*
6659592 GAAGATAATTTTTATTGAAATGAGCTCCTAT
1 GAAGATAATTTTTACTGAAATGAGCTCCTAT
* *
6659623 GAAGATAA-TTTTGCTGAAATGAGCTCTTAT
1 GAAGATAATTTTTACTGAAATGAGCTCCTAT
6659653 GAAG
1 GAAG
6659657 GCAAATTGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
30 23 0.74
31 8 0.26
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.35
Consensus pattern (31 bp):
GAAGATAATTTTTACTGAAATGAGCTCCTAT
Found at i:6660129 original size:61 final size:61
Alignment explanation
Indices: 6660026--6660149 Score: 144
Period size: 61 Copynumber: 2.0 Consensus size: 61
6660016 AAGTACCTTG
* * * *
6660026 TTTATAATGTTGACATTTCTTAATAATGAGATCACTGTTTCTCATAG-GGTCTTCTATATCA
1 TTTATAAAGTTGACATTCCTTAAAAATGAGATCACTGCTTCTCA-AGAGGTCTTCTATATCA
* * * *
6660087 TTTATAAAGTTGGCATTCCTTAAAAATGTGATCACCT-CTTCTCACGAGGTCTTTTATATCA
1 TTTATAAAGTTGACATTCCTTAAAAATGAGATCA-CTGCTTCTCAAGAGGTCTTCTATATCA
6660148 TT
1 TT
6660150 CATGAGGTCA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
60 1 0.02
61 50 0.94
62 2 0.04
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (61 bp):
TTTATAAAGTTGACATTCCTTAAAAATGAGATCACTGCTTCTCAAGAGGTCTTCTATATCA
Found at i:6665570 original size:11 final size:11
Alignment explanation
Indices: 6665554--6665582 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
6665544 ATTCAATTTT
6665554 TATATTTTTAA
1 TATATTTTTAA
6665565 TATATTTTTAA
1 TATATTTTTAA
6665576 T-TATTTT
1 TATATTTT
6665583 AATTGCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TATATTTTTAA
Found at i:6666371 original size:44 final size:40
Alignment explanation
Indices: 6666281--6666379 Score: 108
Period size: 41 Copynumber: 2.4 Consensus size: 40
6666271 TTCAATCATA
* *
6666281 AATAATATTATATTATTCTTTTAATAATAAATAATAACAT
1 AATAATATTATTTTATTATTTTAATAATAAATAATAACAT
* * *
6666321 ATATAATAATATTTTATTATTTTAATAATTAATGTTATATAATAT
1 A-ATAATATTATTTTATTATTTTAATAA-TAA--ATA-ATAACAT
6666366 AATAATATTATTTT
1 AATAATATTATTTT
6666380 CTTAATATGT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
40 1 0.02
41 23 0.48
42 3 0.06
44 14 0.29
45 7 0.15
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (40 bp):
AATAATATTATTTTATTATTTTAATAATAAATAATAACAT
Found at i:6666549 original size:21 final size:21
Alignment explanation
Indices: 6666523--6666590 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
6666513 TAATAGATAC
6666523 TTTTAATATAAAATATAACTA
1 TTTTAATATAAAATATAACTA
*
6666544 TTTTAATAT----TATAAATA
1 TTTTAATATAAAATATAACTA
*
6666561 TTTTAATA-ATAAATATTACTA
1 TTTTAATATA-AAATATAACTA
*
6666582 TTTCAATAT
1 TTTTAATAT
6666591 TAATAAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 11
0.71 0.08 0.21
Matches are distributed among these distances:
17 15 0.41
21 22 0.59
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTTAATATAAAATATAACTA
Found at i:6666567 original size:38 final size:39
Alignment explanation
Indices: 6666513--6666597 Score: 111
Period size: 38 Copynumber: 2.2 Consensus size: 39
6666503 TAAGATTTAA
* *
6666513 TAATAGATACTTTTAAT-ATAAAATATAACTATTTTAATAT
1 TAATAAATA-TTTTAATAAT-AAATATAACTATTTCAATAT
*
6666553 T-ATAAATATTTTAATAATAAATATTACTATTTCAATAT
1 TAATAAATATTTTAATAATAAATATAACTATTTCAATAT
6666591 TAATAAA
1 TAATAAA
6666598 ATAGTATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
38 26 0.65
39 13 0.32
40 1 0.03
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.45
Consensus pattern (39 bp):
TAATAAATATTTTAATAATAAATATAACTATTTCAATAT
Found at i:6666574 original size:15 final size:16
Alignment explanation
Indices: 6666535--6666577 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 16
6666525 TTAATATAAA
*
6666535 ATATAACTATTTTAAT
1 ATATAAATATTTTAAT
6666551 ATTATAAATATTTTAAT
1 A-TATAAATATTTTAAT
6666568 A-ATAAATATT
1 ATATAAATATT
6666578 ACTATTTCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 9 0.36
16 1 0.04
17 15 0.60
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATAAATATTTTAAT
Found at i:6666633 original size:43 final size:42
Alignment explanation
Indices: 6666540--6666642 Score: 108
Period size: 43 Copynumber: 2.5 Consensus size: 42
6666530 ATAAAATATA
* * *
6666540 ACTATTTTAATATTAT--AA-A-TATTTTAATAATAAATATT
1 ACTATTTAAATATTATAAAATAGTATTTTAAGAATAAATAAT
*
6666578 ACTATTTCAATATTAATAAAATAGTATTTTAAGAAT-AATAAT
1 ACTATTTAAATATT-ATAAAATAGTATTTTAAGAATAAATAAT
*
6666620 ACTATTTTAAATATTTTAAAATA
1 ACTA-TTTAAATATTATAAAATA
6666643 TTAATATAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
38 13 0.24
39 2 0.04
41 2 0.04
42 17 0.31
43 20 0.37
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.46
Consensus pattern (42 bp):
ACTATTTAAATATTATAAAATAGTATTTTAAGAATAAATAAT
Found at i:6666640 original size:42 final size:43
Alignment explanation
Indices: 6666559--6666642 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
6666549 ATATTATAAA
* * *
6666559 TATTTTAATAATAAATATTACTATTTCAATATTAATAAAATAG
1 TATTTTAAGAATAAATAATACTATTTAAATATTAATAAAATAG
*
6666602 TATTTTAAGAAT-AATAATACTATTTTAAATATT-TTAAAATA
1 TATTTTAAGAATAAATAATACTA-TTTAAATATTAATAAAATA
6666643 TTAATATAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
42 16 0.44
43 20 0.56
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (43 bp):
TATTTTAAGAATAAATAATACTATTTAAATATTAATAAAATAG
Found at i:6666764 original size:25 final size:26
Alignment explanation
Indices: 6666736--6666799 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
6666726 CTTGAATATT
6666736 AATAATTTTAATAATAAATAA-TTTC
1 AATAATTTTAATAATAAATAATTTTC
* * *
6666761 AATATACTTTAATAATAAGTAATTTTT
1 AATA-ATTTTAATAATAAATAATTTTC
6666788 AAT-ATTTTAATA
1 AATAATTTTAATA
6666800 GTTATATTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 12 0.36
26 15 0.45
27 6 0.18
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (26 bp):
AATAATTTTAATAATAAATAATTTTC
Found at i:6666947 original size:13 final size:14
Alignment explanation
Indices: 6666911--6666938 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6666901 TAAAAAATAT
6666911 AAATATTTTCTAAA
1 AAATATTTTCTAAA
6666925 AAATATTTTCTAAA
1 AAATATTTTCTAAA
6666939 TCAATTTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
AAATATTTTCTAAA
Found at i:6667659 original size:14 final size:14
Alignment explanation
Indices: 6667640--6667668 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6667630 TATAGTTATG
6667640 TCATATAAATTAAA
1 TCATATAAATTAAA
6667654 TCATATAAATTAAA
1 TCATATAAATTAAA
6667668 T
1 T
6667669 TTTAAGTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (14 bp):
TCATATAAATTAAA
Found at i:6668046 original size:24 final size:23
Alignment explanation
Indices: 6668001--6668047 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
6667991 AAAATTTAAG
**
6668001 CATACTTTATAATTTATGTCATT
1 CATACTTTATAATTTACATCATT
*
6668024 CATATTTTAATAATTTACATCATT
1 CATACTTT-ATAATTTACATCATT
6668048 ACACGTCCGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.34, C:0.13, G:0.02, T:0.51
Consensus pattern (23 bp):
CATACTTTATAATTTACATCATT
Found at i:6668081 original size:12 final size:13
Alignment explanation
Indices: 6668061--6668093 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
6668051 CGTCCGTGTT
*
6668061 AAATGCAAC-TAA
1 AAATACAACGTAA
6668073 AAATACAACGTAA
1 AAATACAACGTAA
6668086 AAATACAA
1 AAATACAA
6668094 ATTATCAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.64, C:0.15, G:0.06, T:0.15
Consensus pattern (13 bp):
AAATACAACGTAA
Found at i:6672721 original size:30 final size:31
Alignment explanation
Indices: 6672670--6672734 Score: 105
Period size: 30 Copynumber: 2.1 Consensus size: 31
6672660 AAACTTTTAC
*
6672670 GAAGATAATTTTTATTGAAATGAGCTCTTGT
1 GAAGATAATTTTTACTGAAATGAGCTCTTGT
*
6672701 GAAGATAA-TTTTGCTGAAATGAGCTCTTGT
1 GAAGATAATTTTTACTGAAATGAGCTCTTGT
6672731 GAAG
1 GAAG
6672735 GCAATATGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 24 0.75
31 8 0.25
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.37
Consensus pattern (31 bp):
GAAGATAATTTTTACTGAAATGAGCTCTTGT
Found at i:6681400 original size:60 final size:59
Alignment explanation
Indices: 6681244--6681724 Score: 502
Period size: 60 Copynumber: 8.0 Consensus size: 59
6681234 TGGTTAATAA
*
6681244 TAAAAATAATAATTTCAAGAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCT
1 TAAAAATAA-ATTTTCAA-AAAAAAAT-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCT
* ** * * * * * *
6681306 TGAAAATAAGCTTTCTAAAAAATA-TTTTTAAGGAAAATTTGAAAGTATTAATTTTTTT
1 TAAAAATAAATTTTCAAAAAAAAATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCT
*** * *
6681364 TAAAAATAAAAAATAAAAAAAAAAGTTTTTTGAGGAAAAGTTGAAAATATCAATTTTTCT
1 TAAAAATAAATTTTCAAAAAAAAA-TTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCT
** *
6681424 TAAAAATAAATTTTCAAAAAAAGTTTTTTTTG-GAGAAAAGTTGAAAGTATCAATTGTTCT
1 TAAAAATAAATTTTCAAAAAAA-AATTTTTTGAG-GAAAAGTTGAAAGTATCAATTTTTCT
* * * * * *
6681484 TGAAAATAAAAGTTTCCAAAGAATA-TTTTTGGGGAAAAAGTTGAAAGTATCAATTTTTCT
1 TAAAAAT-AAATTTTCAAAAAAAAATTTTTTGAGG-AAAAGTTGAAAGTATCAATTTTTCT
*
6681544 TAAAAATAAATTTTCAAAAAATAAA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAATTTTCAAAAAA-AAATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCT
** * *
6681603 TAAAAATAAATTTTCAAAAAAGATTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATAAATTTTCAAAAAA-AAATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCT
*** * *
6681663 TAAAAATAAATTTTCAAAAAGATTTTTTTTTTTTGAGAAAAAGTTAAAAGTATCAATTTTTC
1 TAAAAATAAATTTTCAAAAA-A---AAATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC
6681725 CTGCACAAAA
Statistics
Matches: 354, Mismatches: 53, Indels: 23
0.82 0.12 0.05
Matches are distributed among these distances:
58 46 0.13
59 65 0.18
60 185 0.52
61 18 0.05
62 8 0.02
63 32 0.09
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (59 bp):
TAAAAATAAATTTTCAAAAAAAAATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCT
Found at i:6681573 original size:16 final size:17
Alignment explanation
Indices: 6681535--6681573 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
6681525 TGAAAGTATC
*
6681535 AATTTTTCTTAAAAATA
1 AATTTTTCTAAAAAATA
6681552 AA-TTTTC-AAAAAATA
1 AATTTTTCTAAAAAATA
6681567 AATTTTT
1 AATTTTT
6681574 GAGGAAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 9 0.45
16 9 0.45
17 2 0.10
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTTTTCTAAAAAATA
Found at i:6681597 original size:179 final size:177
Alignment explanation
Indices: 6681244--6681672 Score: 551
Period size: 179 Copynumber: 2.4 Consensus size: 177
6681234 TGGTTAATAA
* * *
6681244 TAAAAATAATAATTTCAAGAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGA
1 TAAAAATAA-ATTTTCAA-AAAAAATTTTTTTTGA-GAAAAGTTGAAAGTATCAA-TTTTCTTGA
* * * *
6681309 AAAT--AAGCTTTCTAAAAAATATTTTTAAGGAAAATTTGAAAGTATTAATTTTTTTTAAAAATA
62 AAATAAAAGCTTTCCAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATA
*
6681372 AAAAATAAAAAAAAAAGTTTTTTGAGGAAAAGTTGAAAATATCAATTTTTCT
127 AAAAATAAAAAAAAAAG-TTTTTGAGGAAAAGTTGAAAATATCAATTTTCCT
*
6681424 TAAAAATAAATTTTCAAAAAAAGTTTTTTTTGGAGAAAAGTTGAAAGTATCAATTGTTCTTGAAA
1 TAAAAATAAATTTTCAAAAAAAATTTTTTTT-GAGAAAAGTTGAAAGTATCAATT-TTCTTGAAA
* **
6681489 ATAAAAG-TTTCCAAAGAATATTTTTGGGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAA
64 ATAAAAGCTTTCCAAAAAATATTTTTAAGG-AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAA
*** * *
6681553 ATTTTCAAAAAATAAA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
128 AAAAT-AAAAAAAAAAGTTTTTGAGGAAAAGTTGAAAATATCAATTTTCCT
* * *
6681603 TAAAAATAAATTTTCAAAAAAGATTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAA
1 TAAAAATAAATTTTCAAAAAAAATTTTTTTTGA-GAAAAGTTGAAAGTATCAATTTT-CTTGAAA
6681668 ATAAA
64 ATAAA
6681673 TTTTCAAAAA
Statistics
Matches: 220, Mismatches: 21, Indels: 17
0.85 0.08 0.07
Matches are distributed among these distances:
177 2 0.01
178 44 0.20
179 120 0.55
180 45 0.20
181 9 0.04
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.37
Consensus pattern (177 bp):
TAAAAATAAATTTTCAAAAAAAATTTTTTTTGAGAAAAGTTGAAAGTATCAATTTTCTTGAAAAT
AAAAGCTTTCCAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAA
ATAAAAAAAAAAGTTTTTGAGGAAAAGTTGAAAATATCAATTTTCCT
Found at i:6681692 original size:119 final size:118
Alignment explanation
Indices: 6681244--6681722 Score: 531
Period size: 119 Copynumber: 4.0 Consensus size: 118
6681234 TGGTTAATAA
*
6681244 TAAAAATAATAATTTCAAGAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGA
1 TAAAAATAA-AATTTCAA-AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAA
** * * * *
6681309 AAATAAGCTTTCTAAAAAA--TATTTTTAAGGAAAATTTGAAAGTATTAATTTTTTT
64 AAATAAATTTTC-AAAAAATTTATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCT
** * *
6681364 TAAAAATAAAAAATAAAAAAAAAAGT-TTTTTGAGGAAAAGTTGAAAATATCAATTTTTCTTAAA
1 TAAAAATAAAATTTCAAAAAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAA
6681428 AATAAATTTTCAAAAAAAGTTT-TTTTTG-GAGAAAAGTTGAAAGTATCAATTGTTCT
65 AATAAATTTTC-AAAAAA-TTTATTTTTGAG-GAAAAGTTGAAAGTATCAATT-TTCT
* * * *
6681484 TGAAAATAAAAGTTTC--CAAAGAATATTTTTGGGGAAAAAGTTGAAAGTATCAATTTTTCTTAA
1 TAAAAATAAAA-TTTCAAAAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTTCTTAA
**
6681547 AAATAAATTTTCAAAAAATAAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
64 AAATAAATTTTCAAAAAATTTATTTTTGAGGAAAAGTTGAAAGTATCAATTTT-CT
* * * * * *
6681603 TAAAAATAAATTTTCAAAAAAGATTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAA
1 TAAAAATAAAATTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAA
* * *
6681668 ATAAATTTTCAAAAAGATTTTTTTTTTTTGAGAAAAAGTTAAAAGTATCAATTTT
66 ATAAATTTTCAAAAA-A---TTTATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
6681723 TCCTGCACAA
Statistics
Matches: 306, Mismatches: 35, Indels: 33
0.82 0.09 0.09
Matches are distributed among these distances:
118 66 0.22
119 110 0.36
120 98 0.32
121 2 0.01
123 30 0.10
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (118 bp):
TAAAAATAAAATTTCAAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAA
ATAAATTTTCAAAAAATTTATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCT
Found at i:6682810 original size:11 final size:11
Alignment explanation
Indices: 6682794--6682822 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
6682784 ATTCAATTTT
6682794 TATATTTTTAA
1 TATATTTTTAA
6682805 TATATTTTTAA
1 TATATTTTTAA
6682816 T-TATTTT
1 TATATTTT
6682823 AATTGTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TATATTTTTAA
Found at i:6683569 original size:41 final size:41
Alignment explanation
Indices: 6683508--6683604 Score: 124
Period size: 41 Copynumber: 2.4 Consensus size: 41
6683498 ATGTTTCAAT
* * *
6683508 CATAAATAATATTATATTATTATTTTAATAATAAATAATAA
1 CATATATAATAATATTTTATTATTTTAATAATAAATAATAA
* **
6683549 CATATATAATAATATTTTATTATTTTAATAATTAATGTTAA
1 CATATATAATAATATTTTATTATTTTAATAATAAATAATAA
*
6683590 TA-ATATAATAATATT
1 CATATATAATAATATT
6683605 ATTTTCTTAA
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 13 0.27
41 36 0.73
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.47
Consensus pattern (41 bp):
CATATATAATAATATTTTATTATTTTAATAATAAATAATAA
Found at i:6683607 original size:38 final size:38
Alignment explanation
Indices: 6683521--6683631 Score: 116
Period size: 38 Copynumber: 2.8 Consensus size: 38
6683511 AAATAATATT
* * *
6683521 ATATTATTATTTTAATAATAAATAATAACATATATAATA
1 ATATTATTATTTTAATAATTAATATTAATA-ATATAATA
*
6683560 ATATTTTATTATTTTAATAATTAATGTTAATAATATAATA
1 ATA--TTATTATTTTAATAATTAATATTAATAATATAATA
* * *
6683600 ATATTATT-TTCTTAATATTTATTTTTAATAAT
1 ATATTATTATT-TTAATAATTAATATTAATAAT
6683632 TTCTTATTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
37 2 0.03
38 23 0.37
39 3 0.05
40 11 0.18
41 23 0.37
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (38 bp):
ATATTATTATTTTAATAATTAATATTAATAATATAATA
Found at i:6683797 original size:38 final size:39
Alignment explanation
Indices: 6683743--6683826 Score: 100
Period size: 38 Copynumber: 2.2 Consensus size: 39
6683733 TAAGATTTAA
* * * *
6683743 TAATAGATACTTTAAT-ATAAAATATAACTATTTTAATAT
1 TAATAAATATTTTAATAAT-AAATATAACTATCTCAATAT
*
6683782 T-ATAAATATTTTAATAATAAATATCACTATCTCAATAT
1 TAATAAATATTTTAATAATAAATATAACTATCTCAATAT
6683820 TAATAAA
1 TAATAAA
6683827 ATAGTATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
38 30 0.79
39 8 0.21
ACGTcount: A:0.50, C:0.07, G:0.01, T:0.42
Consensus pattern (39 bp):
TAATAAATATTTTAATAATAAATATAACTATCTCAATAT
Found at i:6683803 original size:15 final size:16
Alignment explanation
Indices: 6683764--6683805 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
6683754 TTAATATAAA
*
6683764 ATATAACTATTTTAAT
1 ATATAAATATTTTAAT
6683780 ATTATAAATATTTTAAT
1 A-TATAAATATTTTAAT
6683797 A-ATAAATAT
1 ATATAAATAT
6683806 CACTATCTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 8 0.33
16 1 0.04
17 15 0.62
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATAAATATTTTAAT
Found at i:6683854 original size:20 final size:19
Alignment explanation
Indices: 6683821--6683858 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
6683811 TCTCAATATT
*
6683821 AATAAAATAGTATTTTAAG
1 AATAAAATACTATTTTAAG
6683840 AATAATAATACTATTTTAA
1 AATAA-AATACTATTTTAA
6683859 ATATTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (19 bp):
AATAAAATACTATTTTAAG
Found at i:6683952 original size:19 final size:20
Alignment explanation
Indices: 6683905--6683953 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
6683895 TTTTATTTTA
*
6683905 AATATTTTTTATATTAACAT
1 AATATTTTTAATATTAACAT
*
6683925 AATA-CTTTAATATTAA-AT
1 AATATTTTTAATATTAACAT
*
6683943 ATTATTTTTAA
1 AATATTTTTAA
6683954 AATATAATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.21
19 15 0.62
20 4 0.17
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (20 bp):
AATATTTTTAATATTAACAT
Found at i:6683997 original size:16 final size:16
Alignment explanation
Indices: 6683883--6684004 Score: 52
Period size: 16 Copynumber: 7.2 Consensus size: 16
6683873 TAATATAATA
*
6683883 AATAATAAATAGTTTT
1 AATAATAAATAATTTT
** *
6683899 -ATTTTAAATATTTTT
1 AATAATAAATAATTTT
* *
6683914 TATATTAACATAATACTTT
1 AATAATAA-ATAAT--TTT
*
6683933 AATATTAAATATTATTTTT
1 AATAATAAATA--A-TTTT
*
6683952 AA-AATATAATTATTCTT
1 AATAATA-AATAATT-TT
*
6683969 GAAT-ATTAATAATTTT
1 -AATAATAAATAATTTT
*
6683985 AATAATAAATAATTTC
1 AATAATAAATAATTTT
6684001 AATA
1 AATA
6684005 TACTTTAATA
Statistics
Matches: 82, Mismatches: 12, Indels: 24
0.69 0.10 0.20
Matches are distributed among these distances:
15 15 0.18
16 24 0.29
17 13 0.16
18 10 0.12
19 18 0.22
20 1 0.01
21 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (16 bp):
AATAATAAATAATTTT
Found at i:6684004 original size:25 final size:26
Alignment explanation
Indices: 6683976--6684039 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
6683966 CTTGAATATT
6683976 AATAATTTTAATAATAAATAA-TTTC
1 AATAATTTTAATAATAAATAATTTTC
* * *
6684001 AATATACTTTAATAATAAGTAATTTTT
1 AATA-ATTTTAATAATAAATAATTTTC
6684028 AAT-ATTTTAATA
1 AATAATTTTAATA
6684040 GTTATATTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 12 0.36
26 15 0.45
27 6 0.18
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (26 bp):
AATAATTTTAATAATAAATAATTTTC
Found at i:6684893 original size:14 final size:14
Alignment explanation
Indices: 6684874--6684902 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6684864 TATATTTATG
6684874 TCATATAAATTAAA
1 TCATATAAATTAAA
6684888 TCATATAAATTAAA
1 TCATATAAATTAAA
6684902 T
1 T
6684903 TTTAAGTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (14 bp):
TCATATAAATTAAA
Found at i:6685189 original size:15 final size:15
Alignment explanation
Indices: 6685169--6685199 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6685159 ATTTAAATAA
*
6685169 ATTAATTGTATATAT
1 ATTAATTATATATAT
6685184 ATTAATTATATATAT
1 ATTAATTATATATAT
6685199 A
1 A
6685200 ACAAATATAT
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:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (15 bp):
ATTAATTATATATAT
Found at i:6685322 original size:12 final size:13
Alignment explanation
Indices: 6685302--6685334 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
6685292 CGTACGTGTC
*
6685302 AAATGCAAC-TAA
1 AAATACAACATAA
6685314 AAATACAACATAA
1 AAATACAACATAA
6685327 AAATACAA
1 AAATACAA
6685335 ATTATCAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.67, C:0.15, G:0.03, T:0.15
Consensus pattern (13 bp):
AAATACAACATAA
Found at i:6690035 original size:30 final size:31
Alignment explanation
Indices: 6689984--6690048 Score: 105
Period size: 30 Copynumber: 2.1 Consensus size: 31
6689974 AAACTTTTAC
*
6689984 GAAGATAATTTTTATTGAAATGAGCTCTTGT
1 GAAGATAATTTTTACTGAAATGAGCTCTTGT
*
6690015 GAAGATAA-TTTTGCTGAAATGAGCTCTTGT
1 GAAGATAATTTTTACTGAAATGAGCTCTTGT
6690045 GAAG
1 GAAG
6690049 GCAATATGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 24 0.75
31 8 0.25
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.37
Consensus pattern (31 bp):
GAAGATAATTTTTACTGAAATGAGCTCTTGT
Found at i:6698930 original size:58 final size:60
Alignment explanation
Indices: 6698852--6698984 Score: 207
Period size: 58 Copynumber: 2.2 Consensus size: 60
6698842 GAGGAAAGGT
* *
6698852 AGTATCAATTCTTCCTTAAAAATAAATTTTCAAAAAGA-TTTTTTTT-AGGAAAAGTTGAA
1 AGTATCAATT-TTCCTTAAAAATAAATTTTCAAAAAGATTTTTTTTTGAGAAAAAGTTAAA
6698911 AGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAGATTTTTTTTTTTGAGAAAAAGTTAAA
1 AGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAGA--TTTTTTTTTGAGAAAAAGTTAAA
6698973 AGTATCAATTTT
1 AGTATCAATTTT
6698985 TCCTGCACAA
Statistics
Matches: 68, Mismatches: 2, Indels: 5
0.91 0.03 0.07
Matches are distributed among these distances:
58 27 0.40
59 10 0.15
61 8 0.12
62 23 0.34
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.41
Consensus pattern (60 bp):
AGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAGATTTTTTTTTGAGAAAAAGTTAAA
Found at i:6700080 original size:20 final size:22
Alignment explanation
Indices: 6700055--6700094 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
6700045 AAATAAATTC
6700055 AATTTTTT-A-TATTTTAATAT
1 AATTTTTTAATTATTTTAATAT
6700075 AATTTTTTAATTATTTTAAT
1 AATTTTTTAATTATTTTAAT
6700095 TGTAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 1 0.06
22 9 0.50
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
AATTTTTTAATTATTTTAATAT
Found at i:6700839 original size:41 final size:41
Alignment explanation
Indices: 6700778--6700874 Score: 124
Period size: 41 Copynumber: 2.4 Consensus size: 41
6700768 ATGTTTCAAT
* * *
6700778 CATAAATAATATTATATTATTATTTTAATAATAAATAATAA
1 CATATATAATAATATTTTATTATTTTAATAATAAATAATAA
* **
6700819 CATATATAATAATATTTTATTATTTTAATAATTAATGTTAA
1 CATATATAATAATATTTTATTATTTTAATAATAAATAATAA
*
6700860 TA-ATATAATAATATT
1 CATATATAATAATATT
6700875 ATTTTCTTAA
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 13 0.27
41 36 0.73
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.47
Consensus pattern (41 bp):
CATATATAATAATATTTTATTATTTTAATAATAAATAATAA
Found at i:6700877 original size:38 final size:38
Alignment explanation
Indices: 6700791--6700901 Score: 116
Period size: 38 Copynumber: 2.8 Consensus size: 38
6700781 AAATAATATT
* * *
6700791 ATATTATTATTTTAATAATAAATAATAACATATATAATA
1 ATATTATTATTTTAATAATTAATATTAATA-ATATAATA
*
6700830 ATATTTTATTATTTTAATAATTAATGTTAATAATATAATA
1 ATA--TTATTATTTTAATAATTAATATTAATAATATAATA
* * *
6700870 ATATTATT-TTCTTAATATTTATTTTTAATAAT
1 ATATTATTATT-TTAATAATTAATATTAATAAT
6700902 TTCTTATTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
37 2 0.03
38 23 0.37
39 3 0.05
40 11 0.18
41 23 0.37
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (38 bp):
ATATTATTATTTTAATAATTAATATTAATAATATAATA
Found at i:6701067 original size:38 final size:39
Alignment explanation
Indices: 6701013--6701097 Score: 102
Period size: 38 Copynumber: 2.2 Consensus size: 39
6701003 TAAGATTTAA
* * *
6701013 TAATAGATACTTTTAAT-ATAAAATATAACTATTTTAATAT
1 TAATAAATA-TTTTAATAAT-AAATATAACTATCTCAATAT
*
6701053 T-ATAAATATTTTAATAATAAATATCACTATCTCAATAT
1 TAATAAATATTTTAATAATAAATATAACTATCTCAATAT
6701091 TAATAAA
1 TAATAAA
6701098 ATAGTATTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
38 25 0.64
39 13 0.33
40 1 0.03
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.42
Consensus pattern (39 bp):
TAATAAATATTTTAATAATAAATATAACTATCTCAATAT
Found at i:6701074 original size:15 final size:16
Alignment explanation
Indices: 6701035--6701076 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
6701025 TTAATATAAA
*
6701035 ATATAACTATTTTAAT
1 ATATAAATATTTTAAT
6701051 ATTATAAATATTTTAAT
1 A-TATAAATATTTTAAT
6701068 A-ATAAATAT
1 ATATAAATAT
6701077 CACTATCTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 8 0.33
16 1 0.04
17 15 0.62
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATAAATATTTTAAT
Found at i:6701125 original size:20 final size:19
Alignment explanation
Indices: 6701092--6701129 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
6701082 TCTCAATATT
*
6701092 AATAAAATAGTATTTTAAG
1 AATAAAATACTATTTTAAG
6701111 AATAATAATACTATTTTAA
1 AATAA-AATACTATTTTAA
6701130 ATATTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (19 bp):
AATAAAATACTATTTTAAG
Found at i:6701223 original size:19 final size:20
Alignment explanation
Indices: 6701176--6701224 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
6701166 TTTTATTTTA
*
6701176 AATATTTTTTATATTAACAT
1 AATATTTTTAATATTAACAT
*
6701196 AATA-CTTTAATATTAA-AT
1 AATATTTTTAATATTAACAT
*
6701214 ATTATTTTTAA
1 AATATTTTTAA
6701225 AATATAATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.21
19 15 0.62
20 4 0.17
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (20 bp):
AATATTTTTAATATTAACAT
Found at i:6701268 original size:16 final size:16
Alignment explanation
Indices: 6701154--6701275 Score: 52
Period size: 16 Copynumber: 7.2 Consensus size: 16
6701144 TAATATAATA
*
6701154 AATAATAAATAGTTTT
1 AATAATAAATAATTTT
** *
6701170 -ATTTTAAATATTTTT
1 AATAATAAATAATTTT
* *
6701185 TATATTAACATAATACTTT
1 AATAATAA-ATAAT--TTT
*
6701204 AATATTAAATATTATTTTT
1 AATAATAAATA--A-TTTT
*
6701223 AA-AATATAATTATTCTT
1 AATAATA-AATAATT-TT
*
6701240 GAAT-ATTAATAATTTT
1 -AATAATAAATAATTTT
*
6701256 AATAATAAATAATTTC
1 AATAATAAATAATTTT
6701272 AATA
1 AATA
6701276 TACTTTAATA
Statistics
Matches: 82, Mismatches: 12, Indels: 24
0.69 0.10 0.20
Matches are distributed among these distances:
15 15 0.18
16 24 0.29
17 13 0.16
18 10 0.12
19 18 0.22
20 1 0.01
21 1 0.01
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (16 bp):
AATAATAAATAATTTT
Found at i:6701275 original size:25 final size:26
Alignment explanation
Indices: 6701247--6701310 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
6701237 CTTGAATATT
6701247 AATAATTTTAATAATAAATAA-TTTC
1 AATAATTTTAATAATAAATAATTTTC
* * *
6701272 AATATACTTTAATAATAAGTAATTTTT
1 AATA-ATTTTAATAATAAATAATTTTC
6701299 AAT-ATTTTAATA
1 AATAATTTTAATA
6701311 GTTATATTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 12 0.36
26 15 0.45
27 6 0.18
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (26 bp):
AATAATTTTAATAATAAATAATTTTC
Found at i:6702166 original size:14 final size:14
Alignment explanation
Indices: 6702147--6702175 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6702137 TATATTTATG
6702147 TCATATAAATTAAA
1 TCATATAAATTAAA
6702161 TCATATAAATTAAA
1 TCATATAAATTAAA
6702175 T
1 T
6702176 TTTAAGTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (14 bp):
TCATATAAATTAAA
Found at i:6702459 original size:15 final size:15
Alignment explanation
Indices: 6702439--6702469 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6702429 ATTTAAATAA
*
6702439 ATTAATTGTATATAT
1 ATTAATTATATATAT
6702454 ATTAATTATATATAT
1 ATTAATTATATATAT
6702469 A
1 A
6702470 ACAAATATAT
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:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (15 bp):
ATTAATTATATATAT
Found at i:6702592 original size:12 final size:13
Alignment explanation
Indices: 6702572--6702604 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
6702562 CGTACGTGTC
*
6702572 AAATGCAAC-TAA
1 AAATACAACATAA
6702584 AAATACAACATAA
1 AAATACAACATAA
6702597 AAATACAA
1 AAATACAA
6702605 ATTATCAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.67, C:0.15, G:0.03, T:0.15
Consensus pattern (13 bp):
AAATACAACATAA
Found at i:6706973 original size:2 final size:2
Alignment explanation
Indices: 6706966--6706996 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6706956 AATGCCAGAA
6706966 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
6706997 GATGTCTTCA
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:6709211 original size:21 final size:22
Alignment explanation
Indices: 6709175--6709218 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
6709165 TATAATTTAA
*
6709175 AATTTTAATAAAAATAATAAAT
1 AATTTTAATAAAAATAAAAAAT
*
6709197 AATTTTAA-CAAAATAAAAAAT
1 AATTTTAATAAAAATAAAAAAT
6709218 A
1 A
6709219 TAATTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (22 bp):
AATTTTAATAAAAATAAAAAAT
Found at i:6710672 original size:18 final size:21
Alignment explanation
Indices: 6710651--6710690 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
6710641 TATCTTCTTA
6710651 TAAAA-TT-TTAAAAT-TAAT
1 TAAAATTTATTAAAATATAAT
6710669 TAAAATTTATTAAAATATAAT
1 TAAAATTTATTAAAATATAAT
6710690 T
1 T
6710691 TTTGAGTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 2 0.11
20 7 0.37
21 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TAAAATTTATTAAAATATAAT
Found at i:6711627 original size:4 final size:4
Alignment explanation
Indices: 6711618--6711655 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
6711608 AATTGAGCAA
* *
6711618 AAAT AAAT AAAT AACT AAAT AACT AAAT AAAT -AAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
6711656 ATTACTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
3 3 0.10
4 26 0.90
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:6713455 original size:18 final size:18
Alignment explanation
Indices: 6713429--6713470 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
6713419 TTATTATTGT
*
6713429 TATTATTTATCAT-TATTA
1 TATTTTTTATCATATA-TA
*
6713447 TATTTTTTATTATATATA
1 TATTTTTTATCATATATA
6713465 TATTTT
1 TATTTT
6713471 AGATTAATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (18 bp):
TATTTTTTATCATATATA
Found at i:6714095 original size:163 final size:161
Alignment explanation
Indices: 6713805--6714258 Score: 484
Period size: 163 Copynumber: 2.8 Consensus size: 161
6713795 CTTGACTCGA
* * * * * * *
6713805 AAATAGATTCAACTTGGAAGACTTACGAATCTTGTTCGAAAGACTTAGAGATTATGTCCGAAA-G
1 AAATAGATTC-ACTTAGAAGACTTATGAATCTTGTTCGAAGGATTTAGAGACTAT-ACCCAAAGG
* * * * * *
6713869 TCTTATAAATCTTAACACTTAAATGCTCCTCTAAATAGAGGCTTCACAATTTTAAAGATTTAAAA
64 TCTTATAAATCTCAACACTTAAATGCTCTTCTAAATA-AAGCTTTACAACTTTAAAAATTTAAAA
*
6713934 TACTCTGCCCGAAAGACTTACAAATCTTAATATT
128 TACTCTGCCCGAAAGACTTACAAATCTTAACATT
*
6713968 AAATAGATTTAGCTTAGAAGACTTATGAATCTTGTTCGAAGGATTT-GAAGACTATACCCAAAGG
1 AAATAGATTCA-CTTAGAAGACTTATGAATCTTGTTCGAAGGATTTAG-AGACTATACCCAAAGG
* **
6714032 TATTATAAATCTCAACACTTAAATATTCTTCTAAATATAAGCTTTACAACTTTAAAAATTTAAAA
64 TCTTATAAATCTCAACACTTAAATGCTCTTCTAAATA-AAGCTTTACAACTTTAAAAATTTAAAA
* * * * * *
6714097 TATTCTGCTCGAAGGATTTACGAATTTTAACATT
128 TACTCTGCCCGAAAGACTTACAAATCTTAACATT
* * * * * * *
6714131 AAATAGATTCAATTTGAAAGAATTTTGAATCTTGCTTAG-AGGATTTAGAGACTATGCCCAAAGA
1 AAATAGATTCACTTAG-AAGACTTATGAATCTTG-TTCGAAGGATTTAGAGACTATACCCAAAGG
* * *
6714195 TCTTATAAAT-TGCAACACTTAAATGCTCTTCTAAATAAAGGCTCTATAACTTTAAAACTTTAAA
64 TCTTATAAATCT-CAACACTTAAATGCTCTTCTAAATAAA-GCTTTACAACTTTAAAAATTTAAA
6714259 TATTATGCCT
Statistics
Matches: 244, Mismatches: 39, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
162 13 0.05
163 227 0.93
164 4 0.02
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (161 bp):
AAATAGATTCACTTAGAAGACTTATGAATCTTGTTCGAAGGATTTAGAGACTATACCCAAAGGTC
TTATAAATCTCAACACTTAAATGCTCTTCTAAATAAAGCTTTACAACTTTAAAAATTTAAAATAC
TCTGCCCGAAAGACTTACAAATCTTAACATT
Found at i:6716153 original size:14 final size:15
Alignment explanation
Indices: 6716136--6716184 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 15
6716126 TTTTTTTCTC
6716136 CTTTTCTTTTCT-TT
1 CTTTTCTTTTCTATT
6716150 C-TTT-TTTTCTATT
1 CTTTTCTTTTCTATT
6716163 -TTTTCTTTT-TATT
1 CTTTTCTTTTCTATT
*
6716176 TTTTTCTTT
1 CTTTTCTTT
6716185 CATTTTTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 6 0.19
13 12 0.39
14 13 0.42
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (15 bp):
CTTTTCTTTTCTATT
Found at i:6716157 original size:17 final size:17
Alignment explanation
Indices: 6716137--6716213 Score: 70
Period size: 17 Copynumber: 4.5 Consensus size: 17
6716127 TTTTTTCTCC
6716137 TTTTCTTTTCTTTCTTT
1 TTTTCTTTTCTTTCTTT
6716154 TTTTCTATTT-TTTCTTT
1 TTTTCT-TTTCTTTCTTT
* *
6716171 TTATTTTTTTCTTTC-AT
1 TT-TTCTTTTCTTTCTTT
*
6716188 TTTTCTTTCCCTTT-TTT
1 TTTTCTTT-TCTTTCTTT
*
6716205 TTCTCTTTT
1 TTTTCTTTT
6716214 TTTTAAGAAG
Statistics
Matches: 48, Mismatches: 7, Indels: 11
0.73 0.11 0.17
Matches are distributed among these distances:
16 5 0.10
17 33 0.69
18 10 0.21
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTCTTTTCTTTCTTT
Found at i:6716165 original size:25 final size:24
Alignment explanation
Indices: 6716121--6716195 Score: 71
Period size: 26 Copynumber: 3.0 Consensus size: 24
6716111 CCATTCATTA
**
6716121 TTTCGTTTTTTTCTCCTTTTCTTTT
1 TTTC-TTTTTTTCTATTTTTCTTTT
6716146 CTTTCTTTTTTTCTATTTTTTCTTTT
1 -TTTCTTTTTTTCTA-TTTTTCTTTT
*
6716172 TATTTTTTTCTTTC-ATTTTTCTTT
1 T-TTCTTTT-TTTCTATTTTTCTTT
6716196 CCCTTTTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
25 19 0.44
26 20 0.47
27 4 0.09
ACGTcount: A:0.04, C:0.16, G:0.01, T:0.79
Consensus pattern (24 bp):
TTTCTTTTTTTCTATTTTTCTTTT
Found at i:6716166 original size:26 final size:25
Alignment explanation
Indices: 6716137--6716217 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 25
6716127 TTTTTTCTCC
6716137 TTTTCTTTTCTTTCTTTTTTTCTATT
1 TTTTCTTTTCTTT-TTTTTTTCTATT
*
6716163 TTTTCTTTTTATTTTTTTCTTTC-A-T
1 TTTTC-TTTTCTTTTTTT-TTTCTATT
* * *
6716188 TTTTCTTTCCCTTTTTTTTCTCTTTT
1 TTTTCTTT-TCTTTTTTTTTTCTATT
6716214 TTTT
1 TTTT
6716218 AAGAAGAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
24 6 0.13
25 13 0.29
26 15 0.33
27 11 0.24
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (25 bp):
TTTTCTTTTCTTTTTTTTTTCTATT
Found at i:6716215 original size:25 final size:22
Alignment explanation
Indices: 6716121--6716216 Score: 77
Period size: 25 Copynumber: 4.0 Consensus size: 22
6716111 CCATTCATTA
6716121 TTTCGTTTTTTTCTCCTTTTCTTTTC
1 TTTC-TTTTTTT-T-CTTTT-TTTTC
*
6716147 TTTC-TTTTTTTCTATTTTTTC
1 TTTCTTTTTTTTCTTTTTTTTC
*
6716168 TTTTTATTTTTTTCTTTCATTTTTC
1 TTTCT-TTTTTTTCTTT--TTTTTC
6716193 TTTCCCTTTTTTTTCTCTTTTTTT
1 TTT--CTTTTTTTTCT-TTTTTTT
6716217 TAAGAAGAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
21 8 0.14
22 4 0.07
23 11 0.19
24 6 0.10
25 14 0.24
26 13 0.22
27 3 0.05
ACGTcount: A:0.03, C:0.18, G:0.01, T:0.78
Consensus pattern (22 bp):
TTTCTTTTTTTTCTTTTTTTTC
Found at i:6716216 original size:11 final size:11
Alignment explanation
Indices: 6716126--6716217 Score: 60
Period size: 12 Copynumber: 7.6 Consensus size: 11
6716116 CATTATTTCG
6716126 TTTTTTTCTCCT
1 TTTTTTTCT-CT
*
6716138 TTTCTTTTCTTT
1 TTT-TTTTCTCT
*
6716150 CTTTTTTTCTAT
1 -TTTTTTTCTCT
*
6716162 TTTTTCTT-TTT
1 TTTTT-TTCTCT
6716173 ATTTTTTTCTTTCAT
1 -TTTTTTTC--TC-T
*
6716188 TTTTCTTTCCCT
1 TTTT-TTTCTCT
6716200 TTTTTTTCTCT
1 TTTTTTTCTCT
6716211 TTTTTTT
1 TTTTTTT
6716218 AAGAAGAATT
Statistics
Matches: 65, Mismatches: 6, Indels: 19
0.72 0.07 0.21
Matches are distributed among these distances:
11 22 0.34
12 23 0.35
13 10 0.15
14 5 0.08
15 5 0.08
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTTTCTCT
Found at i:6719533 original size:3 final size:3
Alignment explanation
Indices: 6719525--6719552 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
6719515 GCATGATCCC
6719525 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
6719553 ACCTTAGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:6725122 original size:30 final size:30
Alignment explanation
Indices: 6725081--6725166 Score: 99
Period size: 28 Copynumber: 2.9 Consensus size: 30
6725071 TTTATTAAAA
6725081 ATAAAAGTTTATTTGAATATAAATAAAATG-
1 ATAAAA-TTTATTTGAATATAAATAAAATGT
6725111 ATAAGAATTTATTTGAATAT-AATAAAA-GT
1 ATAA-AATTTATTTGAATATAAATAAAATGT
* * *
6725140 ATAAATTTTATTTTAA-AAAAATAAAAT
1 ATAAAATTTATTTGAATATAAATAAAAT
6725167 AATTTAATAT
Statistics
Matches: 49, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
27 1 0.02
28 18 0.37
29 11 0.22
30 17 0.35
31 2 0.04
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (30 bp):
ATAAAATTTATTTGAATATAAATAAAATGT
Found at i:6726084 original size:10 final size:10
Alignment explanation
Indices: 6726058--6726091 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
6726048 CGCGCGTAAA
6726058 TATATTTGATT
1 TATATTT-ATT
*
6726069 TTTATTTATT
1 TATATTTATT
6726079 TATATTTATT
1 TATATTTATT
6726089 TAT
1 TAT
6726092 TAAGTTTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 15 0.71
11 6 0.29
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (10 bp):
TATATTTATT
Found at i:6726136 original size:37 final size:37
Alignment explanation
Indices: 6726080--6726153 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
6726070 TTATTTATTT
*
6726080 ATATTTATTTATTAAGTTTA-ATAAATAATATTGAATA
1 ATATTTATATATTAAGTTTATATAAATAA-ATTGAATA
**
6726117 ATATTTATATATTTTGTTTATATAAATAAATTGAATA
1 ATATTTATATATTAAGTTTATATAAATAAATTGAATA
6726154 TGAATAGAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 25 0.76
38 8 0.24
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (37 bp):
ATATTTATATATTAAGTTTATATAAATAAATTGAATA
Found at i:6726321 original size:15 final size:16
Alignment explanation
Indices: 6726290--6726323 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
6726280 ATTTATAAAT
*
6726290 TATCATATAAAATTTA
1 TATCATATAAAAATTA
6726306 TATCAT-TAAAAATTA
1 TATCATATAAAAATTA
6726321 TAT
1 TAT
6726324 ATGACAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (16 bp):
TATCATATAAAAATTA
Found at i:6727712 original size:21 final size:20
Alignment explanation
Indices: 6727688--6727726 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6727678 TTATACTATT
6727688 TTATAATATTAAATTTTATCA
1 TTAT-ATATTAAATTTTATCA
* *
6727709 TTATATTTTTAATTTTAT
1 TTATATATTAAATTTTAT
6727727 TGATTTTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
TTATATATTAAATTTTATCA
Found at i:6728376 original size:17 final size:17
Alignment explanation
Indices: 6728356--6728411 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 17
6728346 ATAATATGAT
6728356 AAATTATTTATTAATTA
1 AAATTATTTATTAATTA
* *
6728373 AAATGATTTATT-CTTA
1 AAATTATTTATTAATTA
* *
6728389 AAATT-TATA-TAATTT
1 AAATTATTTATTAATTA
6728404 AAATTATT
1 AAATTATT
6728412 GATGTGATTT
Statistics
Matches: 30, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
14 1 0.03
15 10 0.33
16 8 0.27
17 11 0.37
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (17 bp):
AAATTATTTATTAATTA
Found at i:6738185 original size:15 final size:16
Alignment explanation
Indices: 6738154--6738186 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
6738144 ATAAAAAGCC
*
6738154 TTCATTTGTTTTTTGT
1 TTCATTTGTTCTTTGT
6738170 TTCATTT-TTCTTTGT
1 TTCATTTGTTCTTTGT
6738185 TT
1 TT
6738187 TTTCTCCCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.06, C:0.09, G:0.09, T:0.76
Consensus pattern (16 bp):
TTCATTTGTTCTTTGT
Found at i:6738460 original size:10 final size:10
Alignment explanation
Indices: 6738447--6738503 Score: 50
Period size: 10 Copynumber: 6.1 Consensus size: 10
6738437 ATGATTAGTT
6738447 ATTTATTAAA
1 ATTTATTAAA
*
6738457 ATTTATT--T
1 ATTTATTAAA
* *
6738465 TTTTAATAAA
1 ATTTATTAAA
6738475 A-TT-TTAAA
1 ATTTATTAAA
*
6738483 ATTAATTAAA
1 ATTTATTAAA
6738493 ATTTATTAAA
1 ATTTATTAAA
6738503 A
1 A
6738504 ATATAATTTT
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
8 10 0.29
9 3 0.09
10 22 0.63
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (10 bp):
ATTTATTAAA
Found at i:6740921 original size:83 final size:83
Alignment explanation
Indices: 6740779--6740986 Score: 287
Period size: 83 Copynumber: 2.5 Consensus size: 83
6740769 AGATTATACT
* *
6740779 CGAAGGTTATACAAATCTTGACATTTTTGAATGCTCATCCCAATCAGAAGCATTGAAACTTTGAA
1 CGAAGGTTTTACAAATCCTGACATTTTTGAATGCTCATCCCAATCAGAAGCATTGAAACTTTGAA
*
6740844 AATTTAAAATGTTTTGCC
66 AATTTAAAATATTTTGCC
* *
6740862 C-AGAGGTTTTACAAATCCTGACATTTTTGAATGCTCATCCTAATTAGATA-CATTGAAACTTTG
1 CGA-AGGTTTTACAAATCCTGACATTTTTGAATGCTCATCCCAATCAGA-AGCATTGAAACTTTG
*
6740925 AAATTTTAAAATATTTTGCC
64 AAAATTTAAAATATTTTGCC
* * *
6740945 CGAAGGTCTTACAAAT-CTCGACATCTTTGAATGCTCTTCCCA
1 CGAAGGTTTTACAAATCCT-GACATTTTTGAATGCTCATCCCA
6740987 TCAAAGGCAT
Statistics
Matches: 111, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
82 3 0.03
83 106 0.95
84 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (83 bp):
CGAAGGTTTTACAAATCCTGACATTTTTGAATGCTCATCCCAATCAGAAGCATTGAAACTTTGAA
AATTTAAAATATTTTGCC
Found at i:6741240 original size:22 final size:22
Alignment explanation
Indices: 6741215--6741295 Score: 63
Period size: 22 Copynumber: 3.6 Consensus size: 22
6741205 ATGCCAATTG
6741215 ATCTGAGCTTAGGTGTCAGCTA
1 ATCTGAGCTTAGGTGTCAGCTA
* ** *
6741237 ATCTAAGCTTAAAATGCCAGCTA
1 ATCTGAGCTT-AGGTGTCAGCTA
* * * * *
6741260 ATCTGGGCTAAGGTTTTAGCTG
1 ATCTGAGCTTAGGTGTCAGCTA
*
6741282 ATCTGGGCTTAGGT
1 ATCTGAGCTTAGGT
6741296 ACTAACTAAA
Statistics
Matches: 44, Mismatches: 14, Indels: 2
0.73 0.23 0.03
Matches are distributed among these distances:
22 28 0.64
23 16 0.36
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (22 bp):
ATCTGAGCTTAGGTGTCAGCTA
Found at i:6741568 original size:14 final size:15
Alignment explanation
Indices: 6741536--6741567 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6741526 TTTTTTGCCC
6741536 TTTTCTTTGCTATTT
1 TTTTCTTTGCTATTT
6741551 TTTTCTTT-CT-TTT
1 TTTTCTTTGCTATTT
6741564 TTTT
1 TTTT
6741568 TTCTAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 2 0.12
15 8 0.47
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.81
Consensus pattern (15 bp):
TTTTCTTTGCTATTT
Found at i:6754556 original size:24 final size:24
Alignment explanation
Indices: 6754524--6754578 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
6754514 AACTAATAAT
* *
6754524 AAAATTTATTATGATTATGATTAA
1 AAAAATTATTATAATTATGATTAA
*
6754548 AAAAATTATTGTAATTATGATTAA
1 AAAAATTATTATAATTATGATTAA
6754572 AAAAATT
1 AAAAATT
6754579 TTTAATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (24 bp):
AAAAATTATTATAATTATGATTAA
Found at i:6754578 original size:15 final size:15
Alignment explanation
Indices: 6754560--6754616 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 15
6754550 AAATTATTGT
*
6754560 AATTATGATTAAAAA
1 AATTATTATTAAAAA
* *
6754575 AATTTTTAATAAAAA
1 AATTATTATTAAAAA
* *
6754590 ATTTA-TATTAAATA
1 AATTATTATTAAAAA
6754604 AATT-TTATTAAAA
1 AATTATTATTAAAA
6754617 TTAATATTTA
Statistics
Matches: 32, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
14 17 0.53
15 15 0.47
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (15 bp):
AATTATTATTAAAAA
Found at i:6754612 original size:14 final size:13
Alignment explanation
Indices: 6754571--6754616 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 13
6754561 ATTATGATTA
*
6754571 AAAAAATTTTTAAT
1 AAAAAA-TTTTATT
6754585 AAAAAATTTATATT
1 AAAAAATTT-TATT
6754599 AAATAAATTTTATT
1 AAA-AAATTTTATT
6754613 AAAA
1 AAAA
6754617 TTAATATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 4 0.14
14 19 0.66
15 6 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AAAAAATTTTATT
Found at i:6754918 original size:13 final size:13
Alignment explanation
Indices: 6754900--6754924 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6754890 AATAAATATT
6754900 ATTTTTTTAATTA
1 ATTTTTTTAATTA
6754913 ATTTTTTTAATT
1 ATTTTTTTAATT
6754925 TTTAAATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTTTTTTAATTA
Found at i:6755926 original size:2 final size:2
Alignment explanation
Indices: 6755919--6755957 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
6755909 GTTTATTTCT
6755919 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6755958 TTCATAACAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6756207 original size:127 final size:127
Alignment explanation
Indices: 6756032--6756308 Score: 332
Period size: 127 Copynumber: 2.2 Consensus size: 127
6756022 ACTAAATCTA
* * *
6756032 AAAGGCTTGA-TTTTTGTGTAATTTTGTTTCATGTAGGACATTGGTTTTGTGCATGAACAAG-TA
1 AAAGGCTTGATTTTTTGTGTAATTTTGGTTCACGTAGGACATTGGTTTTGTGCATAAACAAGTTA
* * ** *
6756095 AGGATGGAGA-A-AAATGAAGTGGGTATTTCCTGGTTTTGAAG-AAAAAGGGGAAATTTTTGGTT
66 AGG-TGG-GATAGAAATGAAGTGGATATCTCCTGGTTTTGAAGAAAAAAAAGG-AA-TTTCGGTT
6756157 G
127 G
* *
6756158 AAAGGCCTGATTTTTTGTGTAATTTTGGTTCACGTAGGAGC-TTGTTTTTGTGCATAAACAAGTT
1 AAAGGCTTGATTTTTTGTGTAATTTTGGTTCACGTAGGA-CATTGGTTTTGTGCATAAACAAGTT
* * *
6756222 AAGGTGGGATAGAACTGCAGTGGATATCTCTTGGTTTTGAAGAAAAAAAAGGAATTTCGGTTG
65 AAGGTGGGATAGAAATGAAGTGGATATCTCCTGGTTTTGAAGAAAAAAAAGGAATTTCGGTTG
*
6756285 AAAGGCTTGATTTTTGTTTGTAAT
1 AAAGGCTTGATTTTT-TGTGTAAT
6756309 GGAAGGAGGG
Statistics
Matches: 129, Mismatches: 15, Indels: 12
0.83 0.10 0.08
Matches are distributed among these distances:
126 11 0.09
127 71 0.55
128 40 0.31
129 7 0.05
ACGTcount: A:0.29, C:0.07, G:0.27, T:0.37
Consensus pattern (127 bp):
AAAGGCTTGATTTTTTGTGTAATTTTGGTTCACGTAGGACATTGGTTTTGTGCATAAACAAGTTA
AGGTGGGATAGAAATGAAGTGGATATCTCCTGGTTTTGAAGAAAAAAAAGGAATTTCGGTTG
Found at i:6758812 original size:15 final size:15
Alignment explanation
Indices: 6758792--6758831 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
6758782 ATTAAAATTT
6758792 TTAAAAATTTTTTAA
1 TTAAAAATTTTTTAA
**
6758807 TTAAAAATGATTTAA
1 TTAAAAATTTTTTAA
6758822 -TAAAAATTTT
1 TTAAAAATTTT
6758832 AATAAAAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (15 bp):
TTAAAAATTTTTTAA
Found at i:6758830 original size:11 final size:12
Alignment explanation
Indices: 6758778--6758839 Score: 56
Period size: 12 Copynumber: 4.9 Consensus size: 12
6758768 TTGGGTGAAG
*
6758778 TTTAATTAAAAT
1 TTTAATAAAAAT
6758790 TTT--TAAAAATTT
1 TTTAATAAAAA--T
6758802 TTTAATTAAAAAT
1 TTTAA-TAAAAAT
6758815 GATTTAATAAAAAT
1 --TTTAATAAAAAT
6758829 TTTAATAAAAA
1 TTTAATAAAAA
6758840 ATCCAAATTG
Statistics
Matches: 42, Mismatches: 1, Indels: 14
0.74 0.02 0.25
Matches are distributed among these distances:
10 5 0.12
12 18 0.43
13 1 0.02
14 7 0.17
15 11 0.26
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (12 bp):
TTTAATAAAAAT
Found at i:6765193 original size:192 final size:192
Alignment explanation
Indices: 6764866--6765252 Score: 501
Period size: 192 Copynumber: 2.0 Consensus size: 192
6764856 CTGTATCATA
** * * *
6764866 CCTATGACGACCTTTCTTTGCTGTGTCCTTTCTACGATATCTTGCTCTCTCTGAATCAGAATCAG
1 CCTATGACGACCTTTCTTAACTGTGTCCCTTCTACGATATCTTGCTCTATATGAATCAGAATCAG
* * * *
6764931 ATTCACTACCCATGTTGTCCTTCCCTATTATCCGGCTCCCAGTCAGCTCAATCTTTCGACTTTGA
66 ATTCACTACCCATGTTGTCCTCCCCTATCATCCGGCTACCAGTCAACTCAATCTTTCGACTTTGA
*
6764996 ACTTCA-CCTCCATTCTTTTCCCTCCCACCATCAGTGTCAGAGTCATCCAT-ACTGGATTCACG
131 ACTTCATCCTCC-TTCTTTTCCCTCCCACCATCAGTGTCAGAGTCATCC-TCACTGGAGTCACG
* * * * * *
6765058 CCTATGACTACCTTTCTTAACTGTTTCCCTTCTACGATCTCTTTCTCTATATGCATCAGCATCAG
1 CCTATGACGACCTTTCTTAACTGTGTCCCTTCTACGATATCTTGCTCTATATGAATCAGAATCAG
* * * * *
6765123 ATTCACTACCCCTGTTGTACCTCCCCT-TCCTCTGGCTACGAGTCAACTCAATCTTTCGTCTTTG
66 ATTCACTACCCATGTTGT-CCTCCCCTATCATCCGGCTACCAGTCAACTCAATCTTTCGACTTTG
* * * *
6765187 AACTTCATCTTTCTTCTTTTCCTTCCCACCATCAGTGTCAGAGTCATCCTCACTGGAGTCATG
130 AACTTCATCCTCCTTCTTTTCCCTCCCACCATCAGTGTCAGAGTCATCCTCACTGGAGTCACG
6765250 CCT
1 CCT
6765253 CCTACGAGAT
Statistics
Matches: 167, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
191 1 0.01
192 156 0.93
193 10 0.06
ACGTcount: A:0.19, C:0.33, G:0.12, T:0.36
Consensus pattern (192 bp):
CCTATGACGACCTTTCTTAACTGTGTCCCTTCTACGATATCTTGCTCTATATGAATCAGAATCAG
ATTCACTACCCATGTTGTCCTCCCCTATCATCCGGCTACCAGTCAACTCAATCTTTCGACTTTGA
ACTTCATCCTCCTTCTTTTCCCTCCCACCATCAGTGTCAGAGTCATCCTCACTGGAGTCACG
Found at i:6767579 original size:18 final size:18
Alignment explanation
Indices: 6767540--6767598 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
6767530 CATTTTCAAT
*
6767540 AAATTTTATAATATTAAT-
1 AAATTTTATAAT-TTATTG
6767558 AAATTTTATAATTTATTG
1 AAATTTTATAATTTATTG
*
6767576 AAATATTATAAAATTTATTG
1 AAAT-TT-TATAATTTATTG
6767596 AAA
1 AAA
6767599 ATGTATATTC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.11
18 16 0.44
19 2 0.06
20 14 0.39
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
AAATTTTATAATTTATTG
Found at i:6773516 original size:123 final size:123
Alignment explanation
Indices: 6773293--6773533 Score: 403
Period size: 123 Copynumber: 2.0 Consensus size: 123
6773283 GCCCATCACC
*
6773293 AGAAGCACACCTCATAAAGGACATCCAATCTTAAAGAACCGAAAATTCCAACTTCCAAGCACTTA
1 AGAAGCACACCTCATAAAGGACATCCAATCTTAAAGAACCGAAAATTCCAACATCCAAGCACTTA
*
6773358 AGGCCCAAACTAACAAGCAGATTAGCTGATTGAGATCATTTAAGCTTTTCAATGCACA
66 AGGCCCAAACTAACAAGCAGATTAGCTGATGGAGATCATTTAAGCTTTTCAATGCACA
* * *
6773416 AGAAGCACACCTTC-TAAAGGACATCCAATCTTAAAGAACCGAAAGTTCCCACATCCAAGCATTT
1 AGAAGCACACC-TCATAAAGGACATCCAATCTTAAAGAACCGAAAATTCCAACATCCAAGCACTT
* *
6773480 AAGTCCCAAACTAACAAGCAGATTAGCTGATGGAGATCATTTCAGCTTTTCAAT
65 AAGGCCCAAACTAACAAGCAGATTAGCTGATGGAGATCATTTAAGCTTTTCAAT
6773534 AACTAATGCA
Statistics
Matches: 110, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
123 108 0.98
124 2 0.02
ACGTcount: A:0.39, C:0.24, G:0.14, T:0.23
Consensus pattern (123 bp):
AGAAGCACACCTCATAAAGGACATCCAATCTTAAAGAACCGAAAATTCCAACATCCAAGCACTTA
AGGCCCAAACTAACAAGCAGATTAGCTGATGGAGATCATTTAAGCTTTTCAATGCACA
Found at i:6775787 original size:50 final size:50
Alignment explanation
Indices: 6775705--6775840 Score: 130
Period size: 50 Copynumber: 2.7 Consensus size: 50
6775695 AAAAAAAAAG
* * * ** *
6775705 CATCAATGAATTAACATAACAAAGGGGGAAAAAAATCAAACAAGAAAACC
1 CATCAAAGAATTATCATAAAAAAGAAGCAAAAAAATCAAACAAGAAAACC
* * * *
6775755 CATCAAGGAATTATCATAAAAAAGAAGCAAAAACAGTCGAATAAGAAAACC
1 CATCAAAGAATTATCATAAAAAAGAAGCAAAAA-AATCAAACAAGAAAACC
* * *
6775806 CTATTAAAGAATTGTCATAAAAAA-TAGCAAAAAAA
1 C-ATCAAAGAATTATCATAAAAAAGAAGCAAAAAAA
6775841 AAAGTGAAAT
Statistics
Matches: 70, Mismatches: 14, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
50 28 0.40
51 23 0.33
52 19 0.27
ACGTcount: A:0.58, C:0.14, G:0.12, T:0.15
Consensus pattern (50 bp):
CATCAAAGAATTATCATAAAAAAGAAGCAAAAAAATCAAACAAGAAAACC
Found at i:6776658 original size:14 final size:14
Alignment explanation
Indices: 6776641--6776680 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
6776631 AAATATAATT
6776641 TAAAACATTTTTTA
1 TAAAACATTTTTTA
*
6776655 TAAAACATATTTTA
1 TAAAACATTTTTTA
*
6776669 TAAAATATTTTT
1 TAAAACATTTTT
6776681 AAAAAGGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (14 bp):
TAAAACATTTTTTA
Found at i:6776972 original size:18 final size:19
Alignment explanation
Indices: 6776951--6776991 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
6776941 TTTTTATAAT
6776951 TTAAATTTT-TAATATATA
1 TTAAATTTTATAATATATA
*
6776969 TT-AATTTTATATTATATA
1 TTAAATTTTATAATATATA
6776987 -TAAAT
1 TTAAAT
6776992 AAATAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTAAATTTTATAATATATA
Found at i:6778276 original size:34 final size:34
Alignment explanation
Indices: 6778233--6778305 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
6778223 CAATTTTCTG
* **
6778233 AAAATGAATTTTCAATATGTTATAAATCTTCCCA
1 AAAATGAATTTTCAAAAAATTATAAATCTTCCCA
**
6778267 AAAATGAATTTTCAAAAAATTATAAATCTTTTCA
1 AAAATGAATTTTCAAAAAATTATAAATCTTCCCA
6778301 AAAAT
1 AAAAT
6778306 TTTGCATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (34 bp):
AAAATGAATTTTCAAAAAATTATAAATCTTCCCA
Found at i:6778361 original size:34 final size:33
Alignment explanation
Indices: 6778295--6778405 Score: 103
Period size: 32 Copynumber: 3.5 Consensus size: 33
6778285 ATTATAAATC
*
6778295 TTTTC-AAAAATTT-T-GCATTTT-AGAAATTCA
1 TTTTCGAAAAATTTATAG-ATTTTGAAAAATTCA
*
6778325 TTTTCGGAAAAATTTATA-ATTTTCTAAAAATTCA
1 TTTTC-GAAAAATTTATAGATTTT-GAAAAATTCA
*
6778359 TTTTC-AAAAAATTATAGATTTTGAAAAATTCA
1 TTTTCGAAAAATTTATAGATTTTGAAAAATTCA
6778391 -TTTCTG-AAAATTTAT
1 TTTTC-GAAAAATTTAT
6778406 GTGAAAGAAA
Statistics
Matches: 68, Mismatches: 4, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
30 5 0.07
31 4 0.06
32 40 0.59
33 6 0.09
34 13 0.19
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (33 bp):
TTTTCGAAAAATTTATAGATTTTGAAAAATTCA
Found at i:6778612 original size:17 final size:18
Alignment explanation
Indices: 6778580--6778613 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6778570 CTACTAAAAA
6778580 AAATAAATTATATATTTT
1 AAATAAATTATATATTTT
6778598 AAATAAATT-TATATTT
1 AAATAAATTATATATTT
6778614 AATACACTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AAATAAATTATATATTTT
Found at i:6781208 original size:2 final size:2
Alignment explanation
Indices: 6781201--6781230 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6781191 ATTGTAAGCA
6781201 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6781231 TGGCAATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6788063 original size:2 final size:2
Alignment explanation
Indices: 6788051--6788087 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
6788041 ATGTCACTTA
*
6788051 GT GT TT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
6788088 AGAGAGAGAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
GT
Found at i:6792433 original size:73 final size:73
Alignment explanation
Indices: 6792344--6792494 Score: 223
Period size: 73 Copynumber: 2.1 Consensus size: 73
6792334 GAGAGAGAGA
* * *
6792344 ACCCTCCAACTGTGTAACGGCCTAAGTC-AACAGCCAGGCTGCTAAGAATTTGGTTATAGTCATT
1 ACCCTCCAACAGTGTAACAGCCTAAGTCGAA-AGCCAGGCTGCTAAGAAATTGGTTATAGTCATT
*
6792408 CCTAATCCC
65 CCAAATCCC
* * *
6792417 ACCCTCCAACAGTGTAACAGCCTAAGTCGAAGGCCAGGCTGCTAAGAAATTGTTTCTAGTCATTC
1 ACCCTCCAACAGTGTAACAGCCTAAGTCGAAAGCCAGGCTGCTAAGAAATTGGTTATAGTCATTC
6792482 CAAATCCC
66 CAAATCCC
6792490 ACCCT
1 ACCCT
6792495 TAATTTTCTA
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
73 68 0.97
74 2 0.03
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (73 bp):
ACCCTCCAACAGTGTAACAGCCTAAGTCGAAAGCCAGGCTGCTAAGAAATTGGTTATAGTCATTC
CAAATCCC
Found at i:6795080 original size:88 final size:88
Alignment explanation
Indices: 6794965--6795141 Score: 327
Period size: 88 Copynumber: 2.0 Consensus size: 88
6794955 TAGAAAATTA
* *
6794965 GTTTACAGGCAGTTGGAGCCCTCTTTAAGCCATATAAAATCATAAATTAATTTCTTGAATACTTA
1 GTTTACAGGCAGTTGGAGCCCTCTTTAAGCAATATAAAATCATAAATTAATTTCTCGAATACTTA
6795030 TAGTTATAAACATCAATCAACCT
66 TAGTTATAAACATCAATCAACCT
6795053 GTTTACAGGCAGTTGGAGCCCTCTTTAAGCAATATAAAATCATAAATTAATTTCTCGAATACTTA
1 GTTTACAGGCAGTTGGAGCCCTCTTTAAGCAATATAAAATCATAAATTAATTTCTCGAATACTTA
*
6795118 TAGTTATAAACGTCAATCAACCT
66 TAGTTATAAACATCAATCAACCT
6795141 G
1 G
6795142 CCAGGATTGC
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 86 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (88 bp):
GTTTACAGGCAGTTGGAGCCCTCTTTAAGCAATATAAAATCATAAATTAATTTCTCGAATACTTA
TAGTTATAAACATCAATCAACCT
Found at i:6809904 original size:14 final size:13
Alignment explanation
Indices: 6809885--6809914 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
6809875 ATTGGAATTA
6809885 GAAAAAACAAAAAG
1 GAAAAAA-AAAAAG
6809899 GAAAAAAAAAAAG
1 GAAAAAAAAAAAG
6809912 GAA
1 GAA
6809915 GAGGGAAACA
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:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (13 bp):
GAAAAAAAAAAAG
Found at i:6819052 original size:12 final size:11
Alignment explanation
Indices: 6819027--6819089 Score: 54
Period size: 12 Copynumber: 5.3 Consensus size: 11
6819017 TTTAGCCTCT
*
6819027 TTTTCCTTTTA
1 TTTTCATTTTA
6819038 TTTTCATTTTCA
1 TTTTCATTTT-A
6819050 TTTTCATTTTTTAA
1 TTTTCA--TTTT-A
*
6819064 TTTTCTTTTTA
1 TTTTCATTTTA
*
6819075 TGTTTTATTTTA
1 T-TTTCATTTTA
6819087 TTT
1 TTT
6819090 ATCAATTTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
11 13 0.30
12 20 0.47
14 10 0.23
ACGTcount: A:0.14, C:0.10, G:0.02, T:0.75
Consensus pattern (11 bp):
TTTTCATTTTA
Found at i:6819067 original size:6 final size:6
Alignment explanation
Indices: 6819027--6819059 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
6819017 TTTAGCCTCT
*
6819027 TTTTCC TTTT-A TTTTCA TTTTCA TTTTCA TTTT
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTT
6819060 TTAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (6 bp):
TTTTCA
Found at i:6819113 original size:16 final size:16
Alignment explanation
Indices: 6819084--6819128 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
6819074 ATGTTTTATT
**
6819084 TTATTTATCAATTTAA
1 TTATTTATTTATTTAA
*
6819100 TTATTTATTTATTTTA
1 TTATTTATTTATTTAA
*
6819116 TTATATATTTATT
1 TTATTTATTTATT
6819129 GTAGATGAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (16 bp):
TTATTTATTTATTTAA
Found at i:6819580 original size:14 final size:13
Alignment explanation
Indices: 6819563--6819587 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6819553 CTTAATGAAT
6819563 TTTTTTAAAAATA
1 TTTTTTAAAAATA
6819576 TTTTTTAAAAAT
1 TTTTTTAAAAAT
6819588 CCTACAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTTTTAAAAATA
Found at i:6824861 original size:2 final size:2
Alignment explanation
Indices: 6824854--6824878 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6824844 TAAAGCAATA
6824854 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
6824879 CACTAATGTC
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:6827945 original size:2 final size:2
Alignment explanation
Indices: 6827938--6827972 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6827928 TCTCCAAATT
6827938 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
6827973 TATAAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:6835058 original size:16 final size:16
Alignment explanation
Indices: 6835033--6835063 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6835023 GTTTTAATTA
6835033 TATATATATATTTATT
1 TATATATATATTTATT
*
6835049 TATATTTATATTTAT
1 TATATATATATTTAT
6835064 AATAAGAAGC
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TATATATATATTTATT
Found at i:6842629 original size:17 final size:19
Alignment explanation
Indices: 6842589--6842627 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
6842579 ATATTTATTT
*
6842589 AAATTAATTTTTATTTAAA
1 AAATTAATTTATATTTAAA
6842608 AAATTAATTTATA-TTAAA
1 AAATTAATTTATATTTAAA
6842626 AA
1 AA
6842628 TTTATTTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AAATTAATTTATATTTAAA
Found at i:6842662 original size:29 final size:28
Alignment explanation
Indices: 6842622--6842689 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 28
6842612 TAATTTATAT
*
6842622 TAAAAATTTATTTGTATGCA-AATAAAA-A
1 TAAAAATTTATTTGAAT--ATAATAAAATA
6842650 TAAAACATTTATTTGAATATAATAAAATA
1 TAAAA-ATTTATTTGAATATAATAAAATA
6842679 TAAAAATTTAT
1 TAAAAATTTAT
6842690 CGAAATAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
27 1 0.03
28 18 0.50
29 17 0.47
ACGTcount: A:0.54, C:0.03, G:0.04, T:0.38
Consensus pattern (28 bp):
TAAAAATTTATTTGAATATAATAAAATA
Found at i:6842696 original size:28 final size:28
Alignment explanation
Indices: 6842641--6842702 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
6842631 ATTTGTATGC
*
6842641 AAATAAAAATAAAACATTTATTTGAATA
1 AAATAAAAATAAAACATTTATTCGAATA
*
6842669 TAATAAAATATAAAA-ATTTA-TCGAAATA
1 AAATAAAA-ATAAAACATTTATTCG-AATA
6842697 AAATAA
1 AAATAA
6842703 TAAACAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 2 0.07
28 21 0.72
29 6 0.21
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (28 bp):
AAATAAAAATAAAACATTTATTCGAATA
Found at i:6842956 original size:24 final size:26
Alignment explanation
Indices: 6842907--6842963 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
6842897 TAATTTTTAG
*
6842907 AAAATGTTTATATTTTTTGAATTAAA
1 AAAATGTTTATATTATTTGAATTAAA
*
6842933 AAAAT-TTTATGTTATTTGAA-TAAA
1 AAAATGTTTATATTATTTGAATTAAA
6842957 ATAAATG
1 A-AAATG
6842964 AAATTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 5 0.19
25 17 0.63
26 5 0.19
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.46
Consensus pattern (26 bp):
AAAATGTTTATATTATTTGAATTAAA
Found at i:6843050 original size:26 final size:24
Alignment explanation
Indices: 6843030--6843101 Score: 99
Period size: 26 Copynumber: 2.9 Consensus size: 24
6843020 TATTAATATA
*
6843030 ATTATTATAATATTAAAATTATTT
1 ATTATTAAAATATTAAAATTATTT
6843054 ATTATTAAAATATATTAAAATTATTT
1 ATTATT-AAA-ATATTAAAATTATTT
*
6843080 ATTATTAAAACTATTAATATTA
1 ATTATTAAAA-TATTAAAATTA
6843102 AAAAATAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
24 7 0.16
25 15 0.35
26 21 0.49
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (24 bp):
ATTATTAAAATATTAAAATTATTT
Found at i:6843061 original size:16 final size:16
Alignment explanation
Indices: 6843029--6843161 Score: 73
Period size: 16 Copynumber: 8.2 Consensus size: 16
6843019 ATATTAATAT
6843029 AATTATTATAATATTAA
1 AATTATT-TAATATTAA
*
6843046 AATTATTTATTATT-A
1 AATTATTTAATATTAA
6843061 AA--A--T-ATATTAA
1 AATTATTTAATATTAA
*
6843072 AATTATTTATTATTAA
1 AATTATTTAATATTAA
*
6843088 AACTA-TTAATATTAAA
1 AATTATTTAATATT-AA
* * *
6843104 AAATAATTATATTTTAAAA
1 AATTATTTA-ATATT--AA
6843123 ATATTATTTAATATTAAA
1 A-ATTATTTAATATT-AA
*
6843141 ATATTATGTTAATATAAA
1 A-ATTAT-TTAATATTAA
6843159 AAT
1 AAT
6843162 ACTTAAAATA
Statistics
Matches: 93, Mismatches: 11, Indels: 24
0.73 0.09 0.19
Matches are distributed among these distances:
10 4 0.04
11 4 0.04
13 2 0.02
15 11 0.12
16 22 0.24
17 12 0.13
18 17 0.18
19 15 0.16
20 6 0.06
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.47
Consensus pattern (16 bp):
AATTATTTAATATTAA
Found at i:6843069 original size:10 final size:9
Alignment explanation
Indices: 6843029--6843101 Score: 57
Period size: 9 Copynumber: 8.6 Consensus size: 9
6843019 ATATTAATAT
*
6843029 AATTATTAT
1 AATTATTAA
6843038 AA-TATTAA
1 AATTATTAA
6843046 AATTATT--
1 AATTATTAA
*
6843053 TATTATTAA
1 AATTATTAA
6843062 AATATATTAA
1 AAT-TATTAA
6843072 AATTATT--
1 AATTATTAA
*
6843079 TATTATTAA
1 AATTATTAA
*
6843088 AACTATTAA
1 AATTATTAA
*
6843097 TATTA
1 AATTA
6843102 AAAAATAATT
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
7 12 0.24
8 7 0.14
9 22 0.44
10 9 0.18
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (9 bp):
AATTATTAA
Found at i:6843099 original size:33 final size:33
Alignment explanation
Indices: 6843062--6843147 Score: 79
Period size: 33 Copynumber: 2.6 Consensus size: 33
6843052 TTATTATTAA
* *
6843062 AATATATTAAAATTATT-TATTATTAAAACTATT
1 AATATATTAAAATAATTATATT-TTAAAAATATT
*
6843095 AATAT-TAAAAAATAATTATATTTTAAAAATATT
1 AATATAT-TAAAATAATTATATTTTAAAAATATT
*
6843128 ATTTAATATTAAAAT-ATTAT
1 A-AT-ATATTAAAATAATTAT
6843148 GTTAATATAA
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
32 1 0.02
33 24 0.56
34 10 0.23
35 7 0.16
36 1 0.02
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (33 bp):
AATATATTAAAATAATTATATTTTAAAAATATT
Found at i:6843102 original size:15 final size:16
Alignment explanation
Indices: 6843065--6843104 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
6843055 TTATTAAAAT
*
6843065 ATATTAAAATTATTTA
1 ATATTAAAACTATTTA
*
6843081 TTATTAAAACTA-TTA
1 ATATTAAAACTATTTA
6843096 ATATTAAAA
1 ATATTAAAA
6843105 AATAATTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
ATATTAAAACTATTTA
Found at i:6843152 original size:19 final size:18
Alignment explanation
Indices: 6843118--6843162 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 18
6843108 AATTATATTT
6843118 TAAAAATATTATTTAATA
1 TAAAAATATTATTTAATA
*
6843136 TTAAAATATTATGTTAATA
1 TAAAAATATTAT-TTAATA
6843155 TAAAAATA
1 TAAAAATA
6843163 CTTAAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (18 bp):
TAAAAATATTATTTAATA
Found at i:6843254 original size:18 final size:17
Alignment explanation
Indices: 6843230--6843376 Score: 104
Period size: 18 Copynumber: 8.5 Consensus size: 17
6843220 TTATTAATAA
6843230 TATTAATAATATATTAT
1 TATTAATAATATATTAT
*
6843247 TGATTAATAATAAATTA-
1 T-ATTAATAATATATTAT
*
6843264 T-TTAATAATATAATAT
1 TATTAATAATATATTAT
*
6843280 TATTTATTAATATATTA-
1 TA-TTAATAATATATTAT
* * * *
6843297 TACT-ATTATTTCTTATT
1 TATTAATAATATATTA-T
*
6843314 TATTACTAATATATTATT
1 TATTAATAATATATTA-T
* *
6843332 TATTGATATATTATAATAT
1 TATT-A-ATAATATATTAT
*
6843351 TATTATTAATATATTATT
1 TATTAATAATATATTA-T
6843369 TATTAATA
1 TATTAATA
6843377 TATTATAATA
Statistics
Matches: 98, Mismatches: 22, Indels: 19
0.71 0.16 0.14
Matches are distributed among these distances:
15 19 0.19
16 2 0.02
17 15 0.15
18 48 0.49
19 6 0.06
20 8 0.08
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.54
Consensus pattern (17 bp):
TATTAATAATATATTAT
Found at i:6843340 original size:15 final size:15
Alignment explanation
Indices: 6843213--6843382 Score: 105
Period size: 15 Copynumber: 10.5 Consensus size: 15
6843203 AAATATTATA
6843213 ATATTATTTATTAAT
1 ATATTATTTATTAAT
*
6843228 A-A-TA-TTAATAAT
1 ATATTATTTATTAAT
*
6843240 ATATTATTGATTAAT
1 ATATTATTTATTAAT
*
6843255 AATAAATTATTTAATAATAT
1 -AT--ATTATTT-ATTA-AT
6843275 AATATTATTTATTAAT
1 -ATATTATTTATTAAT
*
6843291 ATATTATACTATT-AT
1 ATATTAT-TTATTAAT
* *
6843306 TTCTTATTTATTACTAAT
1 ATATTATTTA-T--TAAT
6843324 ATATTATTTATTGATAT
1 ATATTATTTATT-A-AT
6843341 ATTATAATATTATTATTAAT
1 A-TAT--TA-T-TTATTAAT
6843361 ATATTATTTATTAAT
1 ATATTATTTATTAAT
6843376 ATATTAT
1 ATATTAT
6843383 AATATAATTT
Statistics
Matches: 123, Mismatches: 12, Indels: 40
0.70 0.07 0.23
Matches are distributed among these distances:
12 8 0.07
13 3 0.02
14 5 0.04
15 38 0.31
16 10 0.08
17 10 0.08
18 26 0.21
19 6 0.05
20 10 0.08
21 2 0.02
22 5 0.04
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (15 bp):
ATATTATTTATTAAT
Found at i:6843354 original size:37 final size:37
Alignment explanation
Indices: 6843213--6843401 Score: 176
Period size: 37 Copynumber: 5.1 Consensus size: 37
6843203 AAATATTATA
6843213 ATATTATTTATTAATAATATTAATAATATATTATTGATTAAT
1 ATATTATTTATTAAT-ATATT-AT-A-ATATTATT-ATTAAT
* *
6843255 A-ATAAATTATTTAATA-A-TATAATATTATTTATTAAT
1 ATATTATTTA-TTAATATATTATAATATTA-TTATTAAT
* * * * *
6843291 ATATTA--TACTATTAT-TTCTTAT-TTATTACTAAT
1 ATATTATTTATTAATATATTATAATATTATTATTAAT
*
6843324 ATATTATTTATTGATATATTATAATATTATTATTAAT
1 ATATTATTTATTAATATATTATAATATTATTATTAAT
*
6843361 ATATTATTTATTAATATATTATAATATAATTTATTAAT
1 ATATTATTTATTAATATATTATAATATTA-TTATTAAT
6843399 ATA
1 ATA
6843402 AAATTATTTA
Statistics
Matches: 121, Mismatches: 16, Indels: 24
0.75 0.10 0.15
Matches are distributed among these distances:
33 13 0.11
34 7 0.06
35 12 0.10
36 18 0.15
37 43 0.36
38 13 0.11
39 1 0.01
40 1 0.01
41 7 0.06
42 6 0.05
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (37 bp):
ATATTATTTATTAATATATTATAATATTATTATTAAT
Found at i:6843366 original size:48 final size:45
Alignment explanation
Indices: 6843192--6843367 Score: 163
Period size: 48 Copynumber: 3.9 Consensus size: 45
6843182 TTATTCTTTT
*
6843192 TATTATTTATTAAATATTATAATATTATTTATTAATAATATTAATAATA
1 TATTATTTATTATATATTATAATATTA-TT-TTAAT-ATATT-ATAATA
*
6843241 TATTATTGATTA-ATA--ATAA-ATTA-TTTAATA-A-TAT-A-A
1 TATTATTTATTATATATTATAATATTATTTTAATATATTATAATA
* * *
6843277 TATTATTTATTAATATATTATACTATTATTTCTTATTTATTACTAATA
1 TATTATTTATT-ATATATTATAATATTATTT-TAATATATTA-TAATA
6843325 TATTATTTATTGATATATTATAATATTATTATTAATATATTAT
1 TATTATTTATT-ATATATTATAATATTATT-TTAATATATTAT
6843368 TTATTAATAT
Statistics
Matches: 105, Mismatches: 9, Indels: 28
0.74 0.06 0.20
Matches are distributed among these distances:
36 11 0.10
37 2 0.02
38 5 0.05
39 1 0.01
40 4 0.04
41 5 0.05
42 7 0.07
43 4 0.04
44 1 0.01
45 6 0.06
46 5 0.05
47 2 0.02
48 40 0.38
49 12 0.11
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.55
Consensus pattern (45 bp):
TATTATTTATTATATATTATAATATTATTTTAATATATTATAATA
Found at i:6843390 original size:15 final size:15
Alignment explanation
Indices: 6843205--6843396 Score: 53
Period size: 15 Copynumber: 13.4 Consensus size: 15
6843195 TATTTATTAA
6843205 ATATTATAATAT--T
1 ATATTATAATATAAT
*
6843218 AT-TTATTA-ATAAT
1 ATATTATAATATAAT
* *
6843231 AT-TAATAATATATT
1 ATATTATAATATAAT
6843245 ATTGATTAATAATA-AAT
1 A-T-ATT-ATAATATAAT
6843262 -TATTTAATAATATAAT
1 ATA-TT-ATAATATAAT
6843278 ATTATT-T-AT-TAAT
1 A-TATTATAATATAAT
* *
6843291 ATATTATACTATTAT
1 ATATTATAATATAAT
* * *
6843306 TTCTTATTTATTACTAAT
1 ATATTA--TAATA-TAAT
* *
6843324 ATATTAT-TTATTGAT
1 ATATTATAATA-TAAT
*
6843339 ATATTATAATATTAT
1 ATATTATAATATAAT
6843354 -TA-T-TAATAT-AT
1 ATATTATAATATAAT
6843365 -TATT-T-AT-TAAT
1 ATATTATAATATAAT
6843376 ATATTATAATATAAT
1 ATATTATAATATAAT
*
6843391 TTATTA
1 ATATTA
6843397 ATATAAAATT
Statistics
Matches: 136, Mismatches: 19, Indels: 46
0.68 0.09 0.23
Matches are distributed among these distances:
10 1 0.01
11 10 0.07
12 21 0.15
13 17 0.12
14 13 0.10
15 44 0.32
16 6 0.04
17 9 0.07
18 15 0.11
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (15 bp):
ATATTATAATATAAT
Found at i:6843406 original size:15 final size:13
Alignment explanation
Indices: 6843324--6843402 Score: 64
Period size: 13 Copynumber: 6.5 Consensus size: 13
6843314 TATTACTAAT
* *
6843324 ATATTATTTATTG
1 ATATAATTTATTA
6843337 ATAT-A-TTA-TA
1 ATATAATTTATTA
*
6843347 ATATTA-TTATTA
1 ATATAATTTATTA
6843359 ATATATTATTTATTA
1 ATATA--ATTTATTA
6843374 ATAT-A-TTA-TA
1 ATATAATTTATTA
6843384 ATATAATTTATTA
1 ATATAATTTATTA
6843397 ATATAA
1 ATATAA
6843403 AATTATTTAT
Statistics
Matches: 56, Mismatches: 2, Indels: 16
0.76 0.03 0.22
Matches are distributed among these distances:
10 11 0.20
11 11 0.20
12 11 0.20
13 12 0.21
14 1 0.02
15 10 0.18
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (13 bp):
ATATAATTTATTA
Found at i:6843417 original size:22 final size:22
Alignment explanation
Indices: 6843364--6843434 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 22
6843354 TATTAATATA
** *
6843364 TTATTTATTAATATATTATAAT
1 TTATTTATTAATATAAAATTAT
*
6843386 ATAATTTATTAATATAAAATTAT
1 -TTATTTATTAATATAAAATTAT
*
6843409 TTATTTATTAATATAACATTAT
1 TTATTTATTAATATAAAATTAT
6843431 TTAT
1 TTAT
6843435 AAGTAAAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
22 24 0.57
23 18 0.43
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (22 bp):
TTATTTATTAATATAAAATTAT
Found at i:6843418 original size:37 final size:37
Alignment explanation
Indices: 6843220--6843424 Score: 128
Period size: 37 Copynumber: 5.6 Consensus size: 37
6843210 ATAATATTAT
6843220 TTATTAATAATATTAATAATATATTATTGATTAATA-ATAAA
1 TTATTAAT-ATATT-ATAATATA--ATT-ATTAATATATAAA
* *
6843261 TTATTTAATA-A-TATAATATTATTTATTAATATATTATA
1 TTA-TTAATATATTATAATA-TAATTATTAATATA-TAAA
* * * * * *
6843299 CTATT-ATTTCTTAT--T-T-ATTACTAATATATTAT
1 TTATTAATATATTATAATATAATTATTAATATATAAA
* * * *
6843331 TTATTGATATATTATAATATTATTATTAATATATTAT
1 TTATTAATATATTATAATATAATTATTAATATATAAA
6843368 TTATTAATATATTATAATATAATTTATTAATATA-AAA
1 TTATTAATATATTATAATATAA-TTATTAATATATAAA
6843405 TTATT--TAT-TTATTAATATAA
1 TTATTAATATATTA-TAATATAA
6843425 CATTATTTAT
Statistics
Matches: 133, Mismatches: 18, Indels: 32
0.73 0.10 0.17
Matches are distributed among these distances:
32 5 0.04
33 17 0.13
34 4 0.03
35 12 0.09
36 11 0.08
37 46 0.35
38 25 0.19
39 3 0.02
40 1 0.01
41 4 0.03
42 5 0.04
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (37 bp):
TTATTAATATATTATAATATAATTATTAATATATAAA
Found at i:6843591 original size:21 final size:19
Alignment explanation
Indices: 6843546--6843594 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
6843536 AATGACTTCA
*
6843546 TTTTTTATTGATTAATAAT
1 TTTTTTATTGAATAATAAT
*
6843565 TATTTTTCATTGAATAGTCAAT
1 T-TTTTT-ATTGAATAAT-AAT
6843587 TTTTTTAT
1 TTTTTTAT
6843595 CAAATAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 1 0.04
20 7 0.28
21 13 0.52
22 4 0.16
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.61
Consensus pattern (19 bp):
TTTTTTATTGAATAATAAT
Found at i:6844666 original size:28 final size:28
Alignment explanation
Indices: 6844630--6844702 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 28
6844620 CATTTTTAAA
6844630 AATAAATTTTTATATTTTTA-TTGTATTT
1 AATAAATTTTTAT-TTTTTATTTGTATTT
* *
6844658 AATACATTTTTGTTTTTTATTTGTATTT
1 AATAAATTTTTATTTTTTATTTGTATTT
*
6844686 AAATAAACTTTTATTTT
1 -AATAAATTTTTATTTT
6844703 AAATAAAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
27 6 0.16
28 19 0.50
29 13 0.34
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.63
Consensus pattern (28 bp):
AATAAATTTTTATTTTTTATTTGTATTT
Found at i:6844737 original size:28 final size:28
Alignment explanation
Indices: 6844706--6844791 Score: 86
Period size: 28 Copynumber: 3.0 Consensus size: 28
6844696 TTATTTTAAA
* *
6844706 TAAAATTAATTTATGTTAAAAATTTATT
1 TAAAATAAATTAATGTTAAAAATTTATT
*
6844734 TAAATATAAATTAAAGATT-AAAATTT-TT
1 TAAA-ATAAATTAATG-TTAAAAATTTATT
* *
6844762 TAATATAAATTAAATTTTAAAAATTTATT
1 TAAAATAAATT-AATGTTAAAAATTTATT
6844791 T
1 T
6844792 GTATGTAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
27 9 0.19
28 18 0.38
29 18 0.38
30 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (28 bp):
TAAAATAAATTAATGTTAAAAATTTATT
Found at i:6844738 original size:27 final size:27
Alignment explanation
Indices: 6844708--6844791 Score: 73
Period size: 29 Copynumber: 3.0 Consensus size: 27
6844698 ATTTTAAATA
*
6844708 AAATTAATTTATGTTAAAAATTTATTT
1 AAATTAATTAATGTTAAAAATTTATTT
*
6844735 AAATATAAATTAAAGATT-AAAATTT-TTT
1 AAAT-T-AATTAATG-TTAAAAATTTATTT
* *
6844763 AATATAAATTAAATTTTAAAAATTTATTT
1 AA-ATTAATT-AATGTTAAAAATTTATTT
6844792 GTATGTAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
27 10 0.22
28 15 0.33
29 18 0.40
30 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (27 bp):
AAATTAATTAATGTTAAAAATTTATTT
Done.