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 57 of 127
Found at i:11176474 original size:18 final size:18
Alignment explanation
Indices: 11176450--11176488 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
11176440 ATTATTATTA
*
11176450 TTATTTTTATA-CTTTAT
1 TTATTTTTGTATCTTTAT
*
11176467 TTATTTTTGTATTTTTAT
1 TTATTTTTGTATCTTTAT
11176485 TTAT
1 TTAT
11176489 CTAATTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (18 bp):
TTATTTTTGTATCTTTAT
Found at i:11176539 original size:29 final size:32
Alignment explanation
Indices: 11176478--11176574 Score: 87
Period size: 31 Copynumber: 3.2 Consensus size: 32
11176468 TATTTTTGTA
* *
11176478 TTTTTATTTAT-CTAATTATATATCTGTTATT
1 TTTTTATTTATCCTAATAATATATCTATTATT
11176509 TTTTTATTTATCCT-ATAATAT-TCTATT-TT
1 TTTTTATTTATCCTAATAATATATCTATTATT
** * **
11176538 TTTCGATTTATCTGTTCTAAT-TATCTATTATT
1 TTTTTATTTATC-CTAATAATATATCTATTATT
11176570 TTTTT
1 TTTTT
11176575 TATATTTATT
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
29 12 0.23
30 7 0.13
31 27 0.51
32 7 0.13
ACGTcount: A:0.23, C:0.09, G:0.03, T:0.65
Consensus pattern (32 bp):
TTTTTATTTATCCTAATAATATATCTATTATT
Found at i:11177456 original size:11 final size:10
Alignment explanation
Indices: 11177440--11177514 Score: 50
Period size: 9 Copynumber: 7.5 Consensus size: 10
11177430 TTAATATTCT
11177440 TTTTATCTTTA
1 TTTT-TCTTTA
*
11177451 TTTTATTTTTTA
1 -TTT-TTCTTTA
*
11177463 TTTTTGTTTTA
1 TTTTT-CTTTA
*
11177474 CTTTTCTTTA
1 TTTTTCTTTA
11177484 -TTTT-TTTA
1 TTTTTCTTTA
11177492 TTTTT-TTTA
1 TTTTTCTTTA
*
11177501 ATTTT-TTTA
1 TTTTTCTTTA
11177510 TTTTT
1 TTTTT
11177515 TTATTATTCT
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
8 4 0.07
9 24 0.44
10 6 0.11
11 12 0.22
12 8 0.15
13 1 0.02
ACGTcount: A:0.13, C:0.04, G:0.01, T:0.81
Consensus pattern (10 bp):
TTTTTCTTTA
Found at i:11177460 original size:18 final size:17
Alignment explanation
Indices: 11177439--11177529 Score: 78
Period size: 18 Copynumber: 5.2 Consensus size: 17
11177429 TTTAATATTC
*
11177439 TTTTTATCTTTATTTTAT
1 TTTTTATATTT-TTTTAT
*
11177457 TTTTTATTTTTGTTTTACT
1 TTTTTATATTT-TTTTA-T
11177476 TTTCTT-TATTTTTTTAT
1 TTT-TTATATTTTTTTAT
*
11177493 TTTTTTTAATTTTTTTAT
1 TTTTTAT-ATTTTTTTAT
* *
11177511 TTTTT-TATTATTCTAT
1 TTTTTATATTTTTTTAT
11177527 TTT
1 TTT
11177530 CTTTAAATAA
Statistics
Matches: 64, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
16 13 0.20
17 6 0.09
18 35 0.55
19 8 0.12
20 2 0.03
ACGTcount: A:0.14, C:0.04, G:0.01, T:0.80
Consensus pattern (17 bp):
TTTTTATATTTTTTTAT
Found at i:11177521 original size:29 final size:28
Alignment explanation
Indices: 11177451--11177522 Score: 87
Period size: 27 Copynumber: 2.6 Consensus size: 28
11177441 TTTATCTTTA
*
11177451 TTTTATTTTTTATT-TTTGTTTTACTTT
1 TTTTATTTTTTATTATTTGTTTTAATTT
*
11177478 TCTTTA-TTTTT-TTATTTTTTTTAATTT
1 T-TTTATTTTTTATTATTTGTTTTAATTT
11177505 TTTTATTTTTTTATTATT
1 TTTTA-TTTTTTATTATT
11177523 CTATTTTCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
26 6 0.16
27 18 0.47
28 9 0.24
29 5 0.13
ACGTcount: A:0.14, C:0.03, G:0.01, T:0.82
Consensus pattern (28 bp):
TTTTATTTTTTATTATTTGTTTTAATTT
Found at i:11177635 original size:57 final size:58
Alignment explanation
Indices: 11177537--11177712 Score: 185
Period size: 59 Copynumber: 3.0 Consensus size: 58
11177527 TTTCTTTAAA
* * * *
11177537 TAAAAATTAAAATTTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCT
1 TAAAAA-TAAAATTTTCAAAAAAGAT-TTTTGAGGG-AAAGTTGAAAGTATCAATTTTCCT
* * *
11177598 TAAAAA-ATAAA-TTTCAAAAAGGGTTTTTGAGGGAAAGTTGAAAGTATCAATTTCCCT
1 TAAAAATA-AAATTTTCAAAAAAGATTTTTGAGGGAAAGTTGAAAGTATCAATTTTCCT
* * ***
11177655 TAAAAATCAAAATTTTTAAAAAATATTTTTGAAAAAAAGTTGAAAGTATCAATTTTCC
1 TAAAAAT-AAAATTTTCAAAAAAGATTTTTGAGGGAAAGTTGAAAGTATCAATTTTCC
11177713 CTACACAAGA
Statistics
Matches: 96, Mismatches: 15, Indels: 10
0.79 0.12 0.08
Matches are distributed among these distances:
57 28 0.29
58 11 0.11
59 48 0.50
60 3 0.03
61 6 0.06
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (58 bp):
TAAAAATAAAATTTTCAAAAAAGATTTTTGAGGGAAAGTTGAAAGTATCAATTTTCCT
Found at i:11181615 original size:7 final size:7
Alignment explanation
Indices: 11181606--11181678 Score: 51
Period size: 7 Copynumber: 10.1 Consensus size: 7
11181596 ATGAAAAATG
*
11181606 AGAAAAG
1 AGAAAAA
11181613 AGAAAAA
1 AGAAAAA
*
11181620 AAAAAAA
1 AGAAAAA
11181627 AGAAAAAA
1 AG-AAAAA
11181635 AGAAAAA
1 AGAAAAA
11181642 A-AAAGAA
1 AGAAA-AA
11181649 A-AAAAA
1 AGAAAAA
*
11181655 GGGAAAAA
1 -AGAAAAA
*
11181663 ATGAGAAA
1 A-GAAAAA
*
11181671 ATAAAAA
1 AGAAAAA
11181678 A
1 A
11181679 AGAGATTCAA
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
6 5 0.09
7 30 0.57
8 18 0.34
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (7 bp):
AGAAAAA
Found at i:11181620 original size:9 final size:9
Alignment explanation
Indices: 11181608--11181671 Score: 62
Period size: 9 Copynumber: 7.2 Consensus size: 9
11181598 GAAAAATGAG
11181608 AAAAGAGAA
1 AAAAGAGAA
11181617 AAAA-A-AA
1 AAAAGAGAA
11181624 AAAAGA-AA
1 AAAAGAGAA
*
11181632 AAAAGAAAAA
1 AAAAG-AGAA
*
11181642 AAAAGAAAA
1 AAAAGAGAA
*
11181651 AAAAGGGAA
1 AAAAGAGAA
11181660 AAAATGAGAA
1 AAAA-GAGAA
11181670 AA
1 AA
11181672 TAAAAAAAGA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
7 6 0.12
8 9 0.19
9 20 0.42
10 13 0.27
ACGTcount: A:0.83, C:0.00, G:0.16, T:0.02
Consensus pattern (9 bp):
AAAAGAGAA
Found at i:11181627 original size:24 final size:22
Alignment explanation
Indices: 11181599--11181681 Score: 69
Period size: 22 Copynumber: 3.7 Consensus size: 22
11181589 ACAATGGATG
* *
11181599 AAAAATGAGAAAAGAGAAAAAAA
1 AAAAAAGA-AAAAAAGAAAAAAA
11181622 AAAAAAGAAAAAAAGAAAAAAA
1 AAAAAAGAAAAAAAGAAAAAAA
* ** *
11181644 AAGAAA-AAAAAGGGAAAAAATG
1 AAAAAAGAAAAAAAGAAAAAA-A
* *
11181666 AGAAAATAAAAAAAGA
1 AAAAAAGAAAAAAAGA
11181682 GATTCAAATT
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
21 12 0.25
22 22 0.46
23 14 0.29
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.04
Consensus pattern (22 bp):
AAAAAAGAAAAAAAGAAAAAAA
Found at i:11181652 original size:8 final size:8
Alignment explanation
Indices: 11181608--11181653 Score: 58
Period size: 8 Copynumber: 5.5 Consensus size: 8
11181598 GAAAAATGAG
11181608 AAAAGAGAA
1 AAAAGA-AA
11181617 AAAA-AAA
1 AAAAGAAA
11181624 AAAAGAAA
1 AAAAGAAA
11181632 AAAAGAAAAA
1 AAAAG--AAA
11181642 AAAAGAAA
1 AAAAGAAA
11181650 AAAA
1 AAAA
11181654 AGGGAAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
7 6 0.18
8 16 0.47
9 4 0.12
10 8 0.24
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAGAAA
Found at i:11181663 original size:1 final size:1
Alignment explanation
Indices: 11181615--11181654 Score: 53
Period size: 1 Copynumber: 40.0 Consensus size: 1
11181605 GAGAAAAGAG
* * *
11181615 AAAAAAAAAAAAAGAAAAAAAGAAAAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
11181655 GGGAAAAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (1 bp):
A
Found at i:11181663 original size:18 final size:18
Alignment explanation
Indices: 11181615--11181653 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
11181605 GAGAAAAGAG
11181615 AAAA-AAAAAAAAAGAAA
1 AAAAGAAAAAAAAAGAAA
11181632 AAAAGAAAAAAAAAGAAA
1 AAAAGAAAAAAAAAGAAA
11181650 AAAA
1 AAAA
11181654 AGGGAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (18 bp):
AAAAGAAAAAAAAAGAAA
Found at i:11183112 original size:41 final size:41
Alignment explanation
Indices: 11182888--11183113 Score: 359
Period size: 41 Copynumber: 5.5 Consensus size: 41
11182878 CATGATTGTC
11182888 GAGGAGCAATTTAACTTTTTCCAAAGTCGTGGTGCCTCTGTTTA
1 GAGGAGCAATTT-AC-TTTT-CAAAGTCGTGGTGCCTCTGTTTA
*
11182932 GAGGAGC-ATTTAACTTTCCAAA-TCGT-GTGCCTCTGTTTA
1 GAGGAGCAATTT-ACTTTTCAAAGTCGTGGTGCCTCTGTTTA
*
11182971 GAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTA
1 GAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTA
*
11183012 GAGGAGCAATTTATTTTTCAAAGTCGTGGTGCCTCTGTTTA
1 GAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTA
11183053 GAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTA
1 GAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTA
*
11183094 GAGGAGCAATTTATTTTTCA
1 GAGGAGCAATTTACTTTTCA
11183114 NNNNNNNNNN
Statistics
Matches: 174, Mismatches: 5, Indels: 9
0.93 0.03 0.05
Matches are distributed among these distances:
39 30 0.17
40 12 0.07
41 115 0.66
42 3 0.02
43 7 0.04
44 7 0.04
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (41 bp):
GAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTA
Found at i:11187684 original size:42 final size:42
Alignment explanation
Indices: 11187633--11187805 Score: 269
Period size: 41 Copynumber: 4.2 Consensus size: 42
11187623 ACATGATTTC
*
11187633 GAGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTA
1 GAGGAGCAATTTACTTTTTCAAAGTCGTGGTACCTCTGTTTA
*
11187675 GAGGAGCAATTTAC-TTTCCAAAGTCGTGGTACCTCTGTTTA
1 GAGGAGCAATTTACTTTTTCAAAGTCGTGGTACCTCTGTTTA
* *
11187716 GAGGAGCAATTTACTTTCT-AAAGTCGTGGTGCCTCTGTTTA
1 GAGGAGCAATTTACTTTTTCAAAGTCGTGGTACCTCTGTTTA
* * *
11187757 GAGGAGCAATTTATTTTTTCAAAGTCATGGAACCTCTGTTTA
1 GAGGAGCAATTTACTTTTTCAAAGTCGTGGTACCTCTGTTTA
11187799 GAGGAGC
1 GAGGAGC
11187806 TTTGGTAAAA
Statistics
Matches: 119, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
41 77 0.65
42 42 0.35
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (42 bp):
GAGGAGCAATTTACTTTTTCAAAGTCGTGGTACCTCTGTTTA
Found at i:11187732 original size:83 final size:83
Alignment explanation
Indices: 11187633--11187805 Score: 285
Period size: 83 Copynumber: 2.1 Consensus size: 83
11187623 ACATGATTTC
*
11187633 GAGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-CTTTCCAAA
1 GAGGAGCAATTTACTTTCT-AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATCTTTCCAAA
* *
11187697 GTCGTGGTACCTCTGTTTA
65 GTCATGGAACCTCTGTTTA
* *
11187716 GAGGAGCAATTTACTTTCTAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAG
1 GAGGAGCAATTTACTTTCTAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATCTTTCCAAAG
11187781 TCATGGAACCTCTGTTTA
66 TCATGGAACCTCTGTTTA
11187799 GAGGAGC
1 GAGGAGC
11187806 TTTGGTAAAA
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
82 35 0.42
83 49 0.58
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (83 bp):
GAGGAGCAATTTACTTTCTAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATCTTTCCAAAG
TCATGGAACCTCTGTTTA
Found at i:11187834 original size:17 final size:16
Alignment explanation
Indices: 11187812--11187848 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
11187802 GAGCTTTGGT
11187812 AAAAAAACAAAAACAAA
1 AAAAAAAC-AAAACAAA
*
11187829 AAAAAAACAACACAAA
1 AAAAAAACAAAACAAA
11187845 AAAA
1 AAAA
11187849 TAAAAAATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAACAAAACAAA
Found at i:11188136 original size:15 final size:16
Alignment explanation
Indices: 11188118--11188166 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 16
11188108 TTTAGAATAG
11188118 ATTTATAT-G-TATATT
1 ATTTATATAGTTATA-T
11188133 ATTTATATAGTTATAT
1 ATTTATATAGTTATAT
11188149 ATTTAT-TA-TTATTAT
1 ATTTATATAGTTA-TAT
11188164 ATT
1 ATT
11188167 ATTATTATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
14 3 0.10
15 16 0.52
16 8 0.26
17 4 0.13
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (16 bp):
ATTTATATAGTTATAT
Found at i:11188147 original size:17 final size:17
Alignment explanation
Indices: 11188118--11188169 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
11188108 TTTAGAATAG
11188118 ATTTATAT-G-TATATT
1 ATTTATATAGTTATATT
11188133 ATTTATATAGTTATA-T
1 ATTTATATAGTTATATT
11188149 ATTTATTATTA-TTATATT
1 ATTTA-TA-TAGTTATATT
11188167 ATT
1 ATT
11188170 ATTATTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
15 8 0.25
16 7 0.22
17 11 0.34
18 6 0.19
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (17 bp):
ATTTATATAGTTATATT
Found at i:11188159 original size:3 final size:3
Alignment explanation
Indices: 11188151--11188183 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
11188141 AGTTATATAT
*
11188151 TTA TTA TTA TTA -TA TTA TTA TTA TTA TTT TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
11188184 ACTTTATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:11188164 original size:23 final size:21
Alignment explanation
Indices: 11188120--11188180 Score: 63
Period size: 23 Copynumber: 2.9 Consensus size: 21
11188110 TAGAATAGAT
* *
11188120 TTATATGTATATTATTTATATA
1 TTATATATTTATTATTT-TATA
11188142 GTTATATATTTATTATTATTATA
1 -TTATATATTTATTATT-TTATA
11188165 TTAT-TA-TTATTATTTT
1 TTATATATTTATTATTTT
11188181 TATACTTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 2 0.06
20 8 0.23
21 2 0.06
22 4 0.11
23 18 0.51
24 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (21 bp):
TTATATATTTATTATTTTATA
Found at i:11188168 original size:14 final size:14
Alignment explanation
Indices: 11188129--11188177 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 14
11188119 TTTATATGTA
11188129 TATTAT-TTATATAGT
1 TATTATATTAT-TA-T
11188144 TA-TATATTTATTAT
1 TATTATA-TTATTAT
11188158 TATTATATTATTAT
1 TATTATATTATTAT
11188172 TATTAT
1 TATTAT
11188178 TTTTATACTT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
14 19 0.61
15 8 0.26
16 4 0.13
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (14 bp):
TATTATATTATTAT
Found at i:11188171 original size:17 final size:16
Alignment explanation
Indices: 11188127--11188178 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 16
11188117 GATTTATATG
11188127 TATATTATTTATATAGTTA
1 TATATTA-TTAT-TA-TTA
11188146 TATATTTATTATTATTA
1 TATA-TTATTATTATTA
11188163 TATTATTATTATTATT
1 TA-TATTATTATTATT
11188179 TTTATACTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
17 16 0.52
18 4 0.13
19 8 0.26
20 3 0.10
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (16 bp):
TATATTATTATTATTA
Found at i:11188194 original size:17 final size:18
Alignment explanation
Indices: 11188143--11188212 Score: 56
Period size: 17 Copynumber: 3.9 Consensus size: 18
11188133 ATTTATATAG
* *
11188143 TTATATATTTA-TTATTA
1 TTATATCTTTATTTATTT
11188160 TTATAT-TATTATTATTATTT
1 TTATATCT-TTA-T-TTATTT
11188180 TTATA-CTTTATTTATTT
1 TTATATCTTTATTTATTT
* *
11188197 TTGTATTTTTATTTAT
1 TTATATCTTTATTTAT
11188213 CTAATTATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
16 1 0.02
17 19 0.43
18 10 0.23
19 3 0.07
20 11 0.25
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.70
Consensus pattern (18 bp):
TTATATCTTTATTTATTT
Found at i:11188194 original size:23 final size:21
Alignment explanation
Indices: 11188129--11188212 Score: 64
Period size: 23 Copynumber: 3.8 Consensus size: 21
11188119 TTTATATGTA
* *
11188129 TATTATTTATATAGTTATATATT
1 TATTATTTTTATA-TTATTTA-T
*
11188152 TATTATTATTATATTA-TTAT
1 TATTATTTTTATATTATTTAT
11188172 TATTATTTTTATACTTTATTTATT
1 TATTATTTTTATA--TTATTTA-T
*
11188196 TTTGTATTTTTAT-TTAT
1 TAT-TATTTTTATATTAT
11188213 CTAATTATAT
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
20 13 0.25
21 2 0.04
22 10 0.20
23 14 0.27
24 3 0.06
25 9 0.18
ACGTcount: A:0.29, C:0.01, G:0.02, T:0.68
Consensus pattern (21 bp):
TATTATTTTTATATTATTTAT
Found at i:11188253 original size:29 final size:31
Alignment explanation
Indices: 11188202--11188297 Score: 80
Period size: 29 Copynumber: 3.2 Consensus size: 31
11188192 TATTTTTGTA
*
11188202 TTTTTATTTAT-CTAATTATATATATGTTATT
1 TTTTTATTTATCCTAATTATATATAT-CTATT
11188233 TTTTTATTTATCCT-A-TA-ATATATCTATT
1 TTTTTATTTATCCTAATTATATATATCTATT
* * *
11188261 TTTTCGATTTAT-CT-GTTCTA-ATTATCTATT
1 TTTT-TATTTATCCTAATTATATA-TATCTATT
11188291 TTTTTAT
1 TTTTTAT
11188298 ATTTATTTGA
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
28 10 0.18
29 16 0.29
30 15 0.27
31 12 0.22
32 2 0.04
ACGTcount: A:0.25, C:0.08, G:0.03, T:0.64
Consensus pattern (31 bp):
TTTTTATTTATCCTAATTATATATATCTATT
Found at i:11188604 original size:25 final size:26
Alignment explanation
Indices: 11188574--11188622 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
11188564 CTGGCAGTGA
11188574 GAAAAAA-TTTTTAGAAATTTTTGAC
1 GAAAAAATTTTTTAGAAATTTTTGAC
*
11188599 GAAAAAATTTTTTGGAAATTTTTG
1 GAAAAAATTTTTTAGAAATTTTTG
11188623 GGAAATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.41, C:0.02, G:0.14, T:0.43
Consensus pattern (26 bp):
GAAAAAATTTTTTAGAAATTTTTGAC
Found at i:11189257 original size:18 final size:16
Alignment explanation
Indices: 11189234--11189322 Score: 70
Period size: 17 Copynumber: 5.0 Consensus size: 16
11189224 TATTTAATAT
11189234 TTTTTTATCTTTATTTTA
1 TTTTTTAT-TTT-TTTTA
11189252 TTTTTTATTTTTGTTTTA
1 TTTTTTA-TTTT-TTTTA
11189270 CTTTTCTTTATTTTTTTTA
1 --TTT-TTTATTTTTTTTA
*
11189289 TTTTTTTTATTTTTTTA
1 TTTTTTAT-TTTTTTTA
* *
11189306 TTATTCTATTTTCTTTA
1 TT-TTTTATTTTTTTTA
11189323 AATAAAAATA
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
16 4 0.07
17 20 0.33
18 19 0.32
19 6 0.10
20 7 0.12
21 4 0.07
ACGTcount: A:0.13, C:0.06, G:0.01, T:0.80
Consensus pattern (16 bp):
TTTTTTATTTTTTTTA
Found at i:11189288 original size:30 final size:26
Alignment explanation
Indices: 11189144--11189307 Score: 89
Period size: 28 Copynumber: 5.7 Consensus size: 26
11189134 CCGCTCCAGG
*
11189144 TTTTTTTATTTTTTGAATTTTTTTTTAT
1 TTTTTTTATTTTTT-TA-TTTTTTTTAT
* * *
11189172 TTTCATTTCTTTGTTTATTTGTTTTT-T
1 TTT-TTTTATTTTTTTATTT-TTTTTAT
*
11189199 TATTTTTTATTTATTAGATTAGGTTTATTTAATAT
1 T-TTTTTTATTT-TT---TTA--TTT-TTT-TTAT
*
11189234 TTTTTTATCTTTATTTTATTTTTTATT-T
1 TTTTTT-TATTT-TTTTATTTTTT-TTAT
*
11189262 TTGTTTTACTTTTCTTTATTTTTTTTAT
1 TTTTTTTA-TTTT-TTTATTTTTTTTAT
11189290 TTTTTTTATTTTTTTATT
1 TTTTTTTATTTTTTTATT
11189308 ATTCTATTTT
Statistics
Matches: 107, Mismatches: 14, Indels: 32
0.70 0.09 0.21
Matches are distributed among these distances:
26 6 0.06
27 19 0.18
28 39 0.36
29 13 0.12
30 3 0.03
31 3 0.03
32 3 0.03
33 6 0.06
34 6 0.06
35 9 0.08
ACGTcount: A:0.15, C:0.03, G:0.04, T:0.77
Consensus pattern (26 bp):
TTTTTTTATTTTTTTATTTTTTTTAT
Found at i:11189434 original size:58 final size:60
Alignment explanation
Indices: 11189325--11189440 Score: 166
Period size: 58 Copynumber: 1.9 Consensus size: 60
11189315 TTTCTTTAAA
11189325 TAAAAATAAAAAATTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCTT
1 TAAAAATAAAAAATTCC-AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCTT
* * *
11189386 TAAAAATCAAAATTTCC-AAAAAATA-TTTT-GGAGAAAGGTTGAAAGTATCAATTTT
1 TAAAAATAAAAAATTCCAAAAAAATATTTTTAGG-GAAAAGTTGAAAGTATCAATTTT
11189441 TCCTACACAA
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
57 2 0.04
58 26 0.51
59 8 0.16
61 15 0.29
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (60 bp):
TAAAAATAAAAAATTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCTT
Found at i:11192093 original size:21 final size:19
Alignment explanation
Indices: 11192057--11192103 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
11192047 TTAGCATAGA
11192057 TAAAAAATTTTGAAAATTC
1 TAAAAAATTTTGAAAATTC
*
11192076 TTAAAAAATTGTTTAAAATTC
1 -TAAAAAATT-TTGAAAATTC
11192097 -AAAAAAT
1 TAAAAAAT
11192104 AAAAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 7 0.28
20 9 0.36
21 9 0.36
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.36
Consensus pattern (19 bp):
TAAAAAATTTTGAAAATTC
Found at i:11192303 original size:17 final size:18
Alignment explanation
Indices: 11192273--11192321 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 18
11192263 TCAAAAATTT
*
11192273 AAAATTTAATAAAAAACC
1 AAAATATAATAAAAAACC
11192291 AAAATATAA-AAAAAACC
1 AAAATATAATAAAAAACC
11192308 ATAAA-ATATATAAA
1 A-AAATATA-ATAAA
11192322 TGTTAAAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 12 0.44
18 12 0.44
19 3 0.11
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAATATAATAAAAAACC
Found at i:11192313 original size:19 final size:19
Alignment explanation
Indices: 11192272--11192321 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
11192262 CTCAAAAATT
*
11192272 TAAAATTTAATAAAAAACC
1 TAAAATATAATAAAAAACC
11192291 -AAAATATAA-AAAAAACC
1 TAAAATATAATAAAAAACC
11192308 ATAAAATAT-ATAAA
1 -TAAAATATAATAAA
11192322 TGTTAAAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 8 0.30
18 9 0.33
19 10 0.37
ACGTcount: A:0.70, C:0.08, G:0.00, T:0.22
Consensus pattern (19 bp):
TAAAATATAATAAAAAACC
Found at i:11192512 original size:8 final size:8
Alignment explanation
Indices: 11192501--11192619 Score: 78
Period size: 8 Copynumber: 14.0 Consensus size: 8
11192491 TTTGAAATTT
*
11192501 TTTTTGAA
1 TTTTTAAA
11192509 TTTTTAAA
1 TTTTTAAA
11192517 TTTTTAATAA
1 TTTTT-A-AA
11192527 TTTTTTAAGA
1 -TTTTTAA-A
*
11192537 TTTTTAAT
1 TTTTTAAA
11192545 TTTTTAAA
1 TTTTTAAA
*
11192553 TATTTT-AG
1 T-TTTTAAA
* *
11192561 TTATTAAT
1 TTTTTAAA
*
11192569 TTTTTATAT
1 TTTTTA-AA
11192578 TTTTTAAA
1 TTTTTAAA
* *
11192586 TATTTAGA
1 TTTTTAAA
11192594 TTTTTAAAA
1 TTTTT-AAA
*
11192603 TTTTAAAAA
1 TTTT-TAAA
11192612 TTTTTAAA
1 TTTTTAAA
11192620 AAAAATTTTT
Statistics
Matches: 88, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
7 3 0.03
8 42 0.48
9 34 0.39
10 4 0.05
11 5 0.06
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (8 bp):
TTTTTAAA
Found at i:11192521 original size:9 final size:9
Alignment explanation
Indices: 11192500--11192616 Score: 68
Period size: 9 Copynumber: 13.6 Consensus size: 9
11192490 TTTTGAAATT
*
11192500 TTTTTTGAA
1 TTTTTTAAA
11192509 -TTTTTAAA
1 TTTTTTAAA
*
11192517 TTTTTAATAA
1 TTTTTTA-AA
11192527 TTTTTTAAGA
1 TTTTTTAA-A
11192537 -TTTTT-AA
1 TTTTTTAAA
11192544 TTTTTTAAA
1 TTTTTTAAA
*
11192553 TATTTT--A
1 TTTTTTAAA
* *
11192560 GTTATT-AA
1 TTTTTTAAA
*
11192568 TTTTTTATA
1 TTTTTTAAA
11192577 TTTTTTAAA
1 TTTTTTAAA
* *
11192586 -TATTTAGA
1 TTTTTTAAA
*
11192594 TTTTTAAAA
1 TTTTTTAAA
**
11192603 TTTTAAAAA
1 TTTTTTAAA
11192612 TTTTT
1 TTTTT
11192617 AAAAAAAATT
Statistics
Matches: 82, Mismatches: 18, Indels: 16
0.71 0.16 0.14
Matches are distributed among these distances:
7 5 0.06
8 24 0.29
9 44 0.54
10 9 0.11
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (9 bp):
TTTTTTAAA
Found at i:11192530 original size:17 final size:17
Alignment explanation
Indices: 11192508--11192619 Score: 72
Period size: 17 Copynumber: 6.5 Consensus size: 17
11192498 TTTTTTTTGA
11192508 ATTTTTAAATTTTTAAT
1 ATTTTTAAATTTTTAAT
11192525 AATTTTTTAAGATTTTTAAT
1 -A-TTTTTAA-ATTTTTAAT
11192545 -TTTTTAAATATTTT-A-
1 ATTTTTAAAT-TTTTAAT
* * *
11192560 GTTATT-AATTTTTTAT
1 ATTTTTAAATTTTTAAT
*
11192576 ATTTTTTAAATATTTAGAT
1 A-TTTTTAAATTTTTA-AT
* * *
11192595 -TTTTAAAATTTTAAAA
1 ATTTTTAAATTTTTAAT
11192611 ATTTTTAAA
1 ATTTTTAAA
11192620 AAAAATTTTT
Statistics
Matches: 74, Mismatches: 10, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
14 4 0.05
15 4 0.05
16 8 0.11
17 33 0.45
18 7 0.09
19 9 0.12
20 9 0.12
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
ATTTTTAAATTTTTAAT
Found at i:11192607 original size:33 final size:34
Alignment explanation
Indices: 11192528--11192619 Score: 100
Period size: 33 Copynumber: 2.8 Consensus size: 34
11192518 TTTTAATAAT
*
11192528 TTTTTAAGATTTT-TAATTTTTTAAATATTTTAG
1 TTTTTAAAATTTTATAATTTTTTAAATATTTTAG
* **
11192561 TTATTAATTTTTTAT-ATTTTTTAAATA-TTTAG
1 TTTTTAAAATTTTATAATTTTTTAAATATTTTAG
* *
11192593 ATTTTTAAAATTTTAAAAATTTTTAAA
1 -TTTTTAAAATTTTATAATTTTTTAAA
11192620 AAAAATTTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
32 5 0.10
33 33 0.69
34 10 0.21
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (34 bp):
TTTTTAAAATTTTATAATTTTTTAAATATTTTAG
Found at i:11192620 original size:9 final size:9
Alignment explanation
Indices: 11192484--11192620 Score: 64
Period size: 9 Copynumber: 14.7 Consensus size: 9
11192474 TTTATTTTTA
11192484 TTAAAATTT
1 TTAAAATTT
* *
11192493 TGAAATTTTT
1 TTAAA-ATTT
**
11192503 TTTGAATTT
1 TTAAAATTT
11192512 TT-AAATTT
1 TTAAAATTT
11192520 TTAATAATTTT
1 TTAA-AA-TTT
*
11192531 TTAAGATTT
1 TTAAAATTT
*
11192540 TT-AATTTT
1 TTAAAATTT
11192548 TTAAATATTTT
1 TTAAA-A-TTT
*
11192559 AGTTATTAATTT
1 --TTA-AAATTT
* *
11192571 TTTATATTT
1 TTAAAATTT
* *
11192580 TTTAAATAT
1 TTAAAATTT
*
11192589 TT-AGATTT
1 TTAAAATTT
11192597 TTAAAATTT
1 TTAAAATTT
*
11192606 TAAAAATTT
1 TTAAAATTT
11192615 TTAAAA
1 TTAAAA
11192621 AAAATTTTTA
Statistics
Matches: 95, Mismatches: 22, Indels: 22
0.68 0.16 0.16
Matches are distributed among these distances:
8 19 0.20
9 48 0.51
10 10 0.11
11 10 0.11
12 3 0.03
13 4 0.04
14 1 0.01
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (9 bp):
TTAAAATTT
Found at i:11192625 original size:13 final size:13
Alignment explanation
Indices: 11192607--11192631 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11192597 TTAAAATTTT
11192607 AAAAATTTTTAAA
1 AAAAATTTTTAAA
11192620 AAAAATTTTTAA
1 AAAAATTTTTAA
11192632 TACTGATGAG
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAAATTTTTAAA
Found at i:11203639 original size:22 final size:22
Alignment explanation
Indices: 11203611--11203663 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
11203601 GTGAAAAGAT
11203611 AAAAAAAAACCAAAAAAATTAA
1 AAAAAAAAACCAAAAAAATTAA
** *
11203633 AGGAAAAAA-CAAAGAAATTAA
1 AAAAAAAAACCAAAAAAATTAA
11203654 AAAAAAAAAC
1 AAAAAAAAAC
11203664 TCATAAAAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.79, C:0.08, G:0.06, T:0.08
Consensus pattern (22 bp):
AAAAAAAAACCAAAAAAATTAA
Found at i:11203758 original size:29 final size:28
Alignment explanation
Indices: 11203701--11203758 Score: 64
Period size: 29 Copynumber: 2.0 Consensus size: 28
11203691 CATTAAACTA
* *
11203701 AAAATATTAATTTCTTCAATTAAGGTAT
1 AAAATATTAATTTATTCAATTAAGATAT
*
11203729 AAAATAATTAATTTATT-AATATAATATAT
1 AAAAT-ATTAATTTATTCAAT-TAAGATAT
11203758 A
1 A
11203759 TTATTTTTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
28 8 0.32
29 17 0.68
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (28 bp):
AAAATATTAATTTATTCAATTAAGATAT
Found at i:11205025 original size:26 final size:27
Alignment explanation
Indices: 11204986--11205041 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
11204976 TATTATAGTA
* *
11204986 ATTTTGATCAATTATAATATGAGAGAT
1 ATTTTCATCAATTATAATAGGAGAGAT
*
11205013 ATTTTCAT-AATTATGATAGGAGAGAT
1 ATTTTCATCAATTATAATAGGAGAGAT
11205039 ATT
1 ATT
11205042 ATATAAAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.39, C:0.04, G:0.16, T:0.41
Consensus pattern (27 bp):
ATTTTCATCAATTATAATAGGAGAGAT
Found at i:11205451 original size:14 final size:14
Alignment explanation
Indices: 11205432--11205459 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11205422 ATGTAATTCA
11205432 ATTATCAAGTAATT
1 ATTATCAAGTAATT
11205446 ATTATCAAGTAATT
1 ATTATCAAGTAATT
11205460 TCATATTATT
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:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (14 bp):
ATTATCAAGTAATT
Found at i:11205778 original size:95 final size:95
Alignment explanation
Indices: 11205661--11205856 Score: 374
Period size: 95 Copynumber: 2.1 Consensus size: 95
11205651 GAGGGTATTA
11205661 TAGCAATTTTAGCCAATTATAATAATATAGGCATTTTCTTAATTATGGTAAGAAGGTATTTTCGT
1 TAGCAATTTTAGCCAATTATAATAATATAGGCATTTTCTTAATTATGGTAAGAAGGTATTTTCGT
11205726 AATTATGATTAAAAGGTGTTATAGCAATTT
66 AATTATGATTAAAAGGTGTTATAGCAATTT
* *
11205756 TAGCAATTTTAGCCAATTATAATAATATAGGCATTTTCTTAATTATGGTAAGAGGGTATTTTTGT
1 TAGCAATTTTAGCCAATTATAATAATATAGGCATTTTCTTAATTATGGTAAGAAGGTATTTTCGT
11205821 AATTATGATTAAAAGGTGTTATAGCAATTT
66 AATTATGATTAAAAGGTGTTATAGCAATTT
11205851 TAGCAA
1 TAGCAA
11205857 ATTATAATAT
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
95 99 1.00
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (95 bp):
TAGCAATTTTAGCCAATTATAATAATATAGGCATTTTCTTAATTATGGTAAGAAGGTATTTTCGT
AATTATGATTAAAAGGTGTTATAGCAATTT
Found at i:11206604 original size:26 final size:26
Alignment explanation
Indices: 11206549--11206605 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
11206539 TAGTAACTTC
* * *
11206549 TAATTATATTAAGAAAGGTATTTTAG
1 TAATTATATTAAGAAAGGAATTATAA
11206575 TAATTATATTAAGAGAA-GAATTATAA
1 TAATTATATTAAGA-AAGGAATTATAA
11206601 TAATT
1 TAATT
11206606 TTAGTTAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 25 0.93
27 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.40
Consensus pattern (26 bp):
TAATTATATTAAGAAAGGAATTATAA
Found at i:11206891 original size:16 final size:15
Alignment explanation
Indices: 11206872--11206905 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
11206862 AAAGAATAGT
11206872 AAAGAAAAAACTAAAA
1 AAAG-AAAAACTAAAA
*
11206888 AAAGTAAAACTAAAA
1 AAAGAAAAACTAAAA
11206903 AAA
1 AAA
11206906 TGATGCGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.79, C:0.06, G:0.06, T:0.09
Consensus pattern (15 bp):
AAAGAAAAACTAAAA
Found at i:11207467 original size:28 final size:28
Alignment explanation
Indices: 11207435--11207506 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
11207425 TTGATACTCA
**
11207435 ATTTCAATTCAATTGGACTTCAAG-CTTG
1 ATTTCAATTCAATTGGACTT-AAGACCCG
* *
11207463 ATTTCAATTTAATTGGACTTTAGACCCG
1 ATTTCAATTCAATTGGACTTAAGACCCG
11207491 ATTTCAATTCAATTGG
1 ATTTCAATTCAATTGG
11207507 GCCCAAAGCT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
27 2 0.05
28 36 0.95
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (28 bp):
ATTTCAATTCAATTGGACTTAAGACCCG
Found at i:11207614 original size:26 final size:25
Alignment explanation
Indices: 11207579--11207642 Score: 103
Period size: 26 Copynumber: 2.6 Consensus size: 25
11207569 TAAAAAATAT
11207579 AAAATATAAAAATACAAAATATCAAA
1 AAAATATAAAAATACAAAATA-CAAA
11207605 AAAATATAAAAATACAAAATACAAA
1 AAAATATAAAAATACAAAATACAAA
*
11207630 AAAA-AAAAAAATA
1 AAAATATAAAAATA
11207643 GGGGATGATG
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
24 8 0.22
25 8 0.22
26 21 0.57
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.16
Consensus pattern (25 bp):
AAAATATAAAAATACAAAATACAAA
Found at i:11207617 original size:8 final size:8
Alignment explanation
Indices: 11207571--11207623 Score: 54
Period size: 8 Copynumber: 6.5 Consensus size: 8
11207561 TATTAAATTA
11207571 AAAAATAT
1 AAAAATAT
11207579 -AAAATAT
1 AAAAATAT
*
11207586 AAAAATAC
1 AAAAATAT
*
11207594 AAAATATCAA
1 AAAA-AT-AT
11207604 AAAAATAT
1 AAAAATAT
*
11207612 AAAAATAC
1 AAAAATAT
11207620 AAAA
1 AAAA
11207624 TACAAAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
7 7 0.18
8 22 0.58
9 4 0.11
10 5 0.13
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (8 bp):
AAAAATAT
Found at i:11207631 original size:8 final size:8
Alignment explanation
Indices: 11207579--11207631 Score: 54
Period size: 8 Copynumber: 6.5 Consensus size: 8
11207569 TAAAAAATAT
*
11207579 AAAATATA
1 AAAATACA
11207587 AAAATACA
1 AAAATACA
*
11207595 AAATATCAAA
1 AAA-AT-ACA
*
11207605 AAAATATA
1 AAAATACA
11207613 AAAATAC-
1 AAAATACA
11207620 AAAATACA
1 AAAATACA
11207628 AAAA
1 AAAA
11207632 AAAAAAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
7 7 0.18
8 22 0.58
9 4 0.11
10 5 0.13
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.17
Consensus pattern (8 bp):
AAAATACA
Found at i:11207634 original size:18 final size:19
Alignment explanation
Indices: 11207570--11207623 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 19
11207560 TTATTAAATT
11207570 AAAAAATAT-AAAATAT--
1 AAAAAATATAAAAATATCA
*
11207586 -AAAAATA-CAAAATATCA
1 AAAAAATATAAAAATATCA
11207603 AAAAAATATAAAAATA-CA
1 AAAAAATATAAAAATATCA
11207621 AAA
1 AAA
11207624 TACAAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
15 14 0.44
18 12 0.38
19 6 0.19
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.19
Consensus pattern (19 bp):
AAAAAATATAAAAATATCA
Found at i:11207639 original size:33 final size:33
Alignment explanation
Indices: 11207570--11207640 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
11207560 TTATTAAATT
* **
11207570 AAAAAATATAAAATATAAAAATACAAAATATCA
1 AAAAAATATAAAATATAAAAATACAAAAAAAAA
11207603 AAAAAATATAAAA-ATACAAAATACAAAAAAAAA
1 AAAAAATATAAAATATA-AAAATACAAAAAAAAA
11207636 AAAAA
1 AAAAA
11207641 TAGGGGATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 3 0.09
33 31 0.91
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (33 bp):
AAAAAATATAAAATATAAAAATACAAAAAAAAA
Found at i:11208790 original size:12 final size:12
Alignment explanation
Indices: 11208773--11208800 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
11208763 TGTTAATTTT
11208773 TAAAATAAAAAA
1 TAAAATAAAAAA
11208785 TAAAATAAAAAA
1 TAAAATAAAAAA
11208797 TAAA
1 TAAA
11208801 CTTAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (12 bp):
TAAAATAAAAAA
Found at i:11209034 original size:21 final size:22
Alignment explanation
Indices: 11208987--11209036 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
11208977 ATATTTTTGT
11208987 TAATA-AAAAAATAAAAATTAA
1 TAATATAAAAAATAAAAATTAA
*
11209008 T-TTATAAAAAATAAAAA-TAA
1 TAATATAAAAAATAAAAATTAA
11209028 TAATATAAA
1 TAATATAAA
11209037 TGAGAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (22 bp):
TAATATAAAAAATAAAAATTAA
Found at i:11220875 original size:50 final size:50
Alignment explanation
Indices: 11220815--11221095 Score: 239
Period size: 50 Copynumber: 5.9 Consensus size: 50
11220805 GAGAACAGAT
*
11220815 GAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGA
1 GAATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCTTTTTCAAGATGA
* * *
11220865 GAATTTTTAAAGTTGTTGAGCTTCTGTTGAGATGAGCCTTTTC--GA-GA
1 GAATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCTTTTTCAAGATGA
* * * * *
11220912 -AA-----AAA-TT-TTAAGCCTCTACTAAGATGACCTTTTTAAAGATGA
1 GAATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCTTTTTCAAGATGA
* * *
11220954 GAATTTTTAAAGTTGTTGAGCTTCTACTGAGATGAGCTTTTTCTAGATGA
1 GAATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCTTTTTCAAGATGA
* * * * * * **
11221004 G-ACTTTTAAAGTTATTGAGCATCTTCTTAGAAGAATTTTTTCAAGAT-A
1 GAATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCTTTTTCAAGATGA
* * * *
11221052 -AAATTTTAAAGTTATTGAGCCTCTGCTGAAAAGAGTCTTTTTCA
1 GAATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAG-CTTTTTCA
11221096 GATTTTAAAT
Statistics
Matches: 184, Mismatches: 34, Indels: 27
0.75 0.14 0.11
Matches are distributed among these distances:
39 20 0.11
40 2 0.01
41 5 0.03
42 2 0.01
43 2 0.01
46 2 0.01
47 2 0.01
48 34 0.18
49 46 0.25
50 69 0.38
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.39
Consensus pattern (50 bp):
GAATTTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCTTTTTCAAGATGA
Found at i:11220951 original size:89 final size:89
Alignment explanation
Indices: 11220833--11220996 Score: 256
Period size: 89 Copynumber: 1.8 Consensus size: 89
11220823 AAAGTTGTTG
* * * * **
11220833 AGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAGAATTTTTAAAGTTGTTGAGCTTCTGTTGAGAT
1 AGCCTCTACTAAGAGGACCTTTTTAAAGATGAGAATTTTTAAAGTTGTTGAGCTTCTACTGAGAT
11220898 GAGCCTTTTCGAGAAAAAATTTTA
66 GAGCCTTTTCGAGAAAAAATTTTA
*
11220922 AGCCTCTACTAAGATGACCTTTTTAAAGATGAGAATTTTTAAAGTTGTTGAGCTTCTACTGAGAT
1 AGCCTCTACTAAGAGGACCTTTTTAAAGATGAGAATTTTTAAAGTTGTTGAGCTTCTACTGAGAT
*
11220987 GAGCTTTTTC
66 GAGCCTTTTC
11220997 TAGATGAGAC
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 67 1.00
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.37
Consensus pattern (89 bp):
AGCCTCTACTAAGAGGACCTTTTTAAAGATGAGAATTTTTAAAGTTGTTGAGCTTCTACTGAGAT
GAGCCTTTTCGAGAAAAAATTTTA
Found at i:11221044 original size:49 final size:49
Alignment explanation
Indices: 11220926--11221095 Score: 153
Period size: 49 Copynumber: 3.4 Consensus size: 49
11220916 ATTTTAAGCC
* * * * * *
11220926 TCTACTAAGATGACCTTTTTAAAGATGAGAATTTTTAAAGTTGTTGAGCT
1 TCTACTGAGAAGAACTTTTTCAAGATGAGAA-TTTTAAAGTTATTGAGCA
* * * *
11220976 TCTACTGAGATGAGCTTTTTCTAGATGAGACTTTTAAAGTTATTGAGCA
1 TCTACTGAGAAGAACTTTTTCAAGATGAGAATTTTAAAGTTATTGAGCA
* * * * *
11221025 TCTTCTTAGAAGAATTTTTTCAAGAT-AAAATTTTAAAGTTATTGAGCC
1 TCTACTGAGAAGAACTTTTTCAAGATGAGAATTTTAAAGTTATTGAGCA
* * *
11221073 TCTGCTGAAAAGAGTCTTTTTCA
1 TCTACTGAGAAGA-ACTTTTTCA
11221096 GATTTTAAAT
Statistics
Matches: 98, Mismatches: 21, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
48 29 0.30
49 43 0.44
50 26 0.27
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (49 bp):
TCTACTGAGAAGAACTTTTTCAAGATGAGAATTTTAAAGTTATTGAGCA
Found at i:11221392 original size:28 final size:28
Alignment explanation
Indices: 11221350--11221419 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
11221340 CAGGTCGATA
* *
11221350 CCCGATTTTAATTCAACTGGGCTTCAGG
1 CCCGATTTTAATTCAACTAGCCTTCAGG
* * *
11221378 CTCGATTTCAATTCAATTAGCCTTCAGG
1 CCCGATTTTAATTCAACTAGCCTTCAGG
11221406 CCCGATTTTAATTC
1 CCCGATTTTAATTC
11221420 GACTTGGCCT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.36
Consensus pattern (28 bp):
CCCGATTTTAATTCAACTAGCCTTCAGG
Found at i:11221614 original size:103 final size:102
Alignment explanation
Indices: 11221430--11221636 Score: 360
Period size: 103 Copynumber: 2.0 Consensus size: 102
11221420 GACTTGGCCT
** *
11221430 AAAATTTGATTTTTATTGGGCTCGAAGCCCATTTTGTTCTTTAAGCCCAGCATGCCTTTTATTTT
1 AAAATTTGATTTCGATTGGGCTCGAAGCCCATTTTGTTCTTTAAGCCCAACATGCCTTTTATTTT
11221495 CTTTGTTTTATTAAATTAAAAAATACAAAATGCAAAA
66 CTTTGTTTTATTAAATTAAAAAATACAAAATGCAAAA
* *
11221532 AAAATATTGATTTCGATTGGGCTCGAAGTCCATTTTGTTCTTTAAGCCCAACCTGCCTTTTATTT
1 AAAAT-TTGATTTCGATTGGGCTCGAAGCCCATTTTGTTCTTTAAGCCCAACATGCCTTTTATTT
11221597 TCTTTGTTTTATTAAATTAAAAAATACAAAATGCAAAA
65 TCTTTGTTTTATTAAATTAAAAAATACAAAATGCAAAA
11221635 AA
1 AA
11221637 TACAAAAAAA
Statistics
Matches: 99, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
102 5 0.05
103 94 0.95
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (102 bp):
AAAATTTGATTTCGATTGGGCTCGAAGCCCATTTTGTTCTTTAAGCCCAACATGCCTTTTATTTT
CTTTGTTTTATTAAATTAAAAAATACAAAATGCAAAA
Found at i:11221636 original size:16 final size:13
Alignment explanation
Indices: 11221615--11221673 Score: 77
Period size: 13 Copynumber: 4.5 Consensus size: 13
11221605 TTATTAAATT
11221615 AAAAAATACAAAA
1 AAAAAATACAAAA
11221628 TGCAAAAAATACAAAA
1 ---AAAAAATACAAAA
11221644 AAAAAATACAAAA
1 AAAAAATACAAAA
11221657 AAAAAA-A-AAAA
1 AAAAAATACAAAA
11221668 AAAAAA
1 AAAAAA
11221674 AGGGGGGAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
11 10 0.23
12 1 0.02
13 19 0.44
16 13 0.30
ACGTcount: A:0.85, C:0.07, G:0.02, T:0.07
Consensus pattern (13 bp):
AAAAAATACAAAA
Found at i:11221644 original size:1 final size:1
Alignment explanation
Indices: 11221640--11221674 Score: 52
Period size: 1 Copynumber: 35.0 Consensus size: 1
11221630 CAAAAAATAC
* *
11221640 AAAAAAAAAATACAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
11221675 GGGGGGAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.94, C:0.03, G:0.00, T:0.03
Consensus pattern (1 bp):
A
Found at i:11221655 original size:22 final size:22
Alignment explanation
Indices: 11221615--11221671 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
11221605 TTATTAAATT
* * *
11221615 AAAAAATACAAAATGCAAAAAA
1 AAAAAAAAAAAAATACAAAAAA
* *
11221637 TACAAAAAAAAAATACAAAAAA
1 AAAAAAAAAAAAATACAAAAAA
11221659 AAAAAAAAAAAAA
1 AAAAAAAAAAAAA
11221672 AAAGGGGGGA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.84, C:0.07, G:0.02, T:0.07
Consensus pattern (22 bp):
AAAAAAAAAAAAATACAAAAAA
Found at i:11224185 original size:18 final size:18
Alignment explanation
Indices: 11224155--11224193 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
11224145 AAGTAAAATT
11224155 AATATAATCTCATATGTA
1 AATATAATCTCATATGTA
11224173 AATACTAAT-TCATATGTA
1 AATA-TAATCTCATATGTA
11224191 AAT
1 AAT
11224194 TAAAATGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.38
Consensus pattern (18 bp):
AATATAATCTCATATGTA
Found at i:11224348 original size:2 final size:2
Alignment explanation
Indices: 11224341--11224372 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
11224331 CTTCTTTTTA
11224341 AT 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 AT
11224373 GATCTAAACG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11225233 original size:10 final size:11
Alignment explanation
Indices: 11225218--11225268 Score: 52
Period size: 10 Copynumber: 4.6 Consensus size: 11
11225208 ATAATTCACA
11225218 AATAAAAAT-T
1 AATAAAAATAT
11225228 AATAAACAATAT
1 AATAAA-AATAT
**
11225240 AATAATCA-AT
1 AATAAAAATAT
11225250 AATAAAAAATAT
1 AAT-AAAAATAT
11225262 AATAAAA
1 AATAAAA
11225269 GATTTAGAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
10 11 0.33
11 11 0.33
12 11 0.33
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (11 bp):
AATAAAAATAT
Found at i:11225243 original size:22 final size:21
Alignment explanation
Indices: 11225218--11225268 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
11225208 ATAATTCACA
*
11225218 AATAAAAATTAATAAACAATAT
1 AATAAAAA-TAATAAAAAATAT
*
11225240 AATAATCAATAATAAAAAATAT
1 AATAA-AAATAATAAAAAATAT
11225262 AATAAAA
1 AATAAAA
11225269 GATTTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 22 0.88
23 2 0.08
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (21 bp):
AATAAAAATAATAAAAAATAT
Found at i:11225244 original size:12 final size:12
Alignment explanation
Indices: 11225218--11225267 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 12
11225208 ATAATTCACA
11225218 AATAAA-AAT-T
1 AATAAACAATAT
11225228 AATAAACAATAT
1 AATAAACAATAT
*
11225240 AATAATC-A-AT
1 AATAAACAATAT
*
11225250 AATAAAAAATAT
1 AATAAACAATAT
11225262 AATAAA
1 AATAAA
11225268 AGATTTAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
10 13 0.39
11 5 0.15
12 15 0.45
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (12 bp):
AATAAACAATAT
Found at i:11228850 original size:19 final size:19
Alignment explanation
Indices: 11228826--11228877 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
11228816 AATTAATTTT
11228826 ATATTTATATTAAAAAATA
1 ATATTTATATTAAAAAATA
11228845 ATATTTTATATTAAAAAAATA
1 ATA-TTTATATT-AAAAAATA
*
11228866 AAATTT-TATTAA
1 ATATTTATATTAA
11228878 TTTCGGATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 2 0.07
19 7 0.23
20 11 0.37
21 10 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATATTTATATTAAAAAATA
Found at i:11228854 original size:20 final size:21
Alignment explanation
Indices: 11228829--11228874 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
11228819 TAATTTTATA
*
11228829 TTTATATT-AAAAAATAATAT
1 TTTATATTAAAAAAATAAAAT
11228849 TTTATATTAAAAAAATAAAAT
1 TTTATATTAAAAAAATAAAAT
11228870 TTTAT
1 TTTAT
11228875 TAATTTCGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TTTATATTAAAAAAATAAAAT
Found at i:11228875 original size:26 final size:23
Alignment explanation
Indices: 11228819--11228862 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 23
11228809 TTTAATTAAT
11228819 TAATTTTATATTTATATTAAAAAA
1 TAATTTTAT-TTTATATTAAAAAA
11228843 TAA---TATTTTATATTAAAAAA
1 TAATTTTATTTTATATTAAAAAA
11228863 ATAAAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 14 0.70
21 3 0.15
24 3 0.15
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TAATTTTATTTTATATTAAAAAA
Found at i:11229051 original size:2 final size:2
Alignment explanation
Indices: 11229044--11229084 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
11229034 TTATCATCCC
*
11229044 TA TA TA TA TA TA TA TG 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 TA T
11229085 GAGATAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11230387 original size:13 final size:12
Alignment explanation
Indices: 11230359--11230409 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
11230349 AATATAATTT
*
11230359 TTAAAAATATAA
1 TTAAATATATAA
11230371 TTAAATATATAAA
1 TTAAATATAT-AA
*
11230384 TTAAATTTATGAA
1 TTAAATATAT-AA
11230397 TTAAA-A-ATAA
1 TTAAATATATAA
11230407 TTA
1 TTA
11230410 TTTTTATTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
10 5 0.15
11 2 0.06
12 9 0.26
13 18 0.53
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (12 bp):
TTAAATATATAA
Found at i:11234884 original size:2 final size:2
Alignment explanation
Indices: 11234877--11234908 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
11234867 TGTATGTATG
11234877 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11234909 GAGAGAGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11234913 original size:2 final size:2
Alignment explanation
Indices: 11234908--11234945 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
11234898 ATATATATAT
11234908 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
11234946 GATAATCTAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11240516 original size:19 final size:19
Alignment explanation
Indices: 11240476--11240516 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
11240466 AAATTTTAAA
* *
11240476 AAATTATATAAATATAAGT
1 AAATTAAATAAATACAAGT
*
11240495 AAATTAAATAAATACAATT
1 AAATTAAATAAATACAAGT
11240514 AAA
1 AAA
11240517 AATAAACAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (19 bp):
AAATTAAATAAATACAAGT
Found at i:11240982 original size:34 final size:34
Alignment explanation
Indices: 11240931--11241018 Score: 106
Period size: 34 Copynumber: 2.6 Consensus size: 34
11240921 GGTTTTAGTC
* * **
11240931 GAAGTC-AAAAAACAAAATAACTTGGTTTTAACT
1 GAAGTCAAAAAAATAAAATAACTTGATCATAACT
* *
11240964 GAAGTCAAAAAAATAAAATGACTTGATCATAGCT
1 GAAGTCAAAAAAATAAAATAACTTGATCATAACT
*
11240998 GAAGTCAAAAAAATAATATAA
1 GAAGTCAAAAAAATAAAATAA
11241019 TTTAGATTGA
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
33 6 0.13
34 40 0.87
ACGTcount: A:0.53, C:0.10, G:0.12, T:0.24
Consensus pattern (34 bp):
GAAGTCAAAAAAATAAAATAACTTGATCATAACT
Found at i:11241158 original size:33 final size:33
Alignment explanation
Indices: 11241121--11241231 Score: 100
Period size: 32 Copynumber: 3.4 Consensus size: 33
11241111 CAGACTGAGT
*
11241121 CAAGGTTGAAAAATAAAAATAATTGGACTAAGC
1 CAAGGTTGAAAAATAAAAATGATTGGACTAAGC
* * * *
11241154 CAAGGTCG-AAAATGAAAGTGATTGGACTAAAC
1 CAAGGTTGAAAAATAAAAATGATTGGACTAAGC
* ** * * *
11241186 CAAAGTAAAAAAATAAAAATGATAGGATTGAGC
1 CAAGGTTGAAAAATAAAAATGATTGGACTAAGC
*
11241219 CAA-GTTCAAAAAT
1 CAAGGTTGAAAAAT
11241232 GGAAGTAACC
Statistics
Matches: 61, Mismatches: 16, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
32 33 0.54
33 28 0.46
ACGTcount: A:0.51, C:0.10, G:0.19, T:0.20
Consensus pattern (33 bp):
CAAGGTTGAAAAATAAAAATGATTGGACTAAGC
Found at i:11241283 original size:98 final size:98
Alignment explanation
Indices: 11241162--11241354 Score: 232
Period size: 98 Copynumber: 2.0 Consensus size: 98
11241152 GCCAAGGTCG
** * *
11241162 AAAATGAAAGTGATTGGACTAAACCA-AAGTAAAAAAATAAAAATGA-TAGGATTGAGCCAA-GT
1 AAAATGAAAGTGACCGAACTAAACCAGGA-T-AAAAAATAAAAATGACT-GGATTGAGCCAATG-
* * *
11241224 TC-AAAAATGGAAGTAACCATATTGAACCAAGATTGA
62 TCAAAAAATGAAAATAACCAGATTGAACCAAGATTGA
* *
11241260 AAAATGAAAGTGACCGAACTAAACCAGGATAAAAATTAAAAGTGACTGGATTGAGCCAATGTCAA
1 AAAATGAAAGTGACCGAACTAAACCAGGATAAAAAATAAAAATGACTGGATTGAGCCAATGTCAA
*
11241325 AAAATGAAAATAACTAGATTGAACCAAGAT
66 AAAATGAAAATAACCAGATTGAACCAAGAT
11241355 AAAAAAAATG
Statistics
Matches: 81, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
97 27 0.33
98 53 0.65
99 1 0.01
ACGTcount: A:0.51, C:0.11, G:0.18, T:0.20
Consensus pattern (98 bp):
AAAATGAAAGTGACCGAACTAAACCAGGATAAAAAATAAAAATGACTGGATTGAGCCAATGTCAA
AAAATGAAAATAACCAGATTGAACCAAGATTGA
Found at i:11241578 original size:59 final size:58
Alignment explanation
Indices: 11241515--11241734 Score: 235
Period size: 59 Copynumber: 3.7 Consensus size: 58
11241505 CCTGAACCAG
* * * *
11241515 AGTAAAAAATGACTAGGTCTAAGCCTATGTCAAAAATGAAAATGATCAAACTGAGCTAA
1 AGTAAAAAATGACTAGGTCTGAGCCTAAGTCAAAAATAAAAATGATCAGACTGAGC-AA
* * ** * *
11241574 AGTAAAAAATGACTAGGTTTGAGCGTAAGTTGAAAATAAAAATGACCAGACTGAGCCA
1 AGTAAAAAATGACTAGGTCTGAGCCTAAGTCAAAAATAAAAATGATCAGACTGAGCAA
* ** * * *
11241632 AGATAAAAAATGACTAAGTCTGAGCCTAAGTTGAAAATGACAATGAAT-GGACTGAGCCAA
1 AG-TAAAAAATGACTAGGTCTGAGCCTAAGTCAAAAATAAAAATG-ATCAGACTGAG-CAA
* *
11241692 GGTAAAAAATGACTAGGTTTGAGCCTAAGTCAAAAATAAAAAT
1 AGTAAAAAATGACTAGGTCTGAGCCTAAGTCAAAAATAAAAAT
11241735 CAAATCAGGC
Statistics
Matches: 133, Mismatches: 25, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
58 3 0.02
59 126 0.95
60 4 0.03
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.21
Consensus pattern (58 bp):
AGTAAAAAATGACTAGGTCTGAGCCTAAGTCAAAAATAAAAATGATCAGACTGAGCAA
Found at i:11241614 original size:118 final size:118
Alignment explanation
Indices: 11241506--11241734 Score: 300
Period size: 118 Copynumber: 1.9 Consensus size: 118
11241496 AGTGATTGGC
* *
11241506 CTGAACC-AGAGTAAAAAATGACTAGGTCTAAGCCTATGTCAAAAATGAAAATG-ATCAAACTGA
1 CTGAACCAAGA-TAAAAAATGACTAAGTCTAAGCCTAAGTCAAAAATGAAAATGAAT-AAACTGA
* * **
11241569 GCTAAAGTAAAAAATGACTAGGTTTGAGCGTAAGTTGAAAATAAAAATGACCAGA
64 GCCAAAGTAAAAAATGACTAGGTTTGAGCCTAAGTCAAAAATAAAAATGACCAGA
* * ** * **
11241624 CTGAGCCAAGATAAAAAATGACTAAGTCTGAGCCTAAGTTGAAAATGACAATGAATGGACTGAGC
1 CTGAACCAAGATAAAAAATGACTAAGTCTAAGCCTAAGTCAAAAATGAAAATGAATAAACTGAGC
*
11241689 CAAGGTAAAAAATGACTAGGTTTGAGCCTAAGTCAAAAATAAAAAT
66 CAAAGTAAAAAATGACTAGGTTTGAGCCTAAGTCAAAAATAAAAAT
11241735 CAAATCAGGC
Statistics
Matches: 95, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
118 90 0.95
119 5 0.05
ACGTcount: A:0.46, C:0.13, G:0.20, T:0.21
Consensus pattern (118 bp):
CTGAACCAAGATAAAAAATGACTAAGTCTAAGCCTAAGTCAAAAATGAAAATGAATAAACTGAGC
CAAAGTAAAAAATGACTAGGTTTGAGCCTAAGTCAAAAATAAAAATGACCAGA
Found at i:11241654 original size:27 final size:26
Alignment explanation
Indices: 11241611--11241706 Score: 77
Period size: 27 Copynumber: 3.4 Consensus size: 26
11241601 AGTTGAAAAT
*
11241611 AAAAATGAC-CAGACTGAGCCAAGATA
1 AAAAATGACTAAGACTGAGCCAAG-TA
* *
11241637 AAAAATGACTAAGTCTGAGCCTAAGTT
1 AAAAATGACTAAGACTGAGCC-AAGTA
*
11241664 GAAAATGACAATGAATGGACTGAGCCAAGGTA
1 AAAAATGAC--T-AA--GACTGAGCCAA-GTA
11241696 AAAAATGACTA
1 AAAAATGACTA
11241707 GGTTTGAGCC
Statistics
Matches: 55, Mismatches: 7, Indels: 13
0.73 0.09 0.17
Matches are distributed among these distances:
26 9 0.16
27 18 0.33
28 3 0.05
29 2 0.04
30 3 0.05
31 2 0.04
32 18 0.33
ACGTcount: A:0.47, C:0.15, G:0.21, T:0.18
Consensus pattern (26 bp):
AAAAATGACTAAGACTGAGCCAAGTA
Found at i:11243163 original size:28 final size:29
Alignment explanation
Indices: 11243132--11243195 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
11243122 TTCAATATAC
* *
11243132 CAATATCATACAATACCATTCAGCAAA-A
1 CAATATCACACAATACCATTCAACAAACA
*
11243160 CAATATCACACAATAGCATTCAACAAACTA
1 CAATATCACACAATACCATTCAACAAAC-A
11243190 CAATAT
1 CAATAT
11243196 TTAAAGAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 24 0.77
30 7 0.23
ACGTcount: A:0.50, C:0.25, G:0.03, T:0.22
Consensus pattern (29 bp):
CAATATCACACAATACCATTCAACAAACA
Found at i:11244223 original size:188 final size:188
Alignment explanation
Indices: 11243918--11244365 Score: 528
Period size: 188 Copynumber: 2.4 Consensus size: 188
11243908 CTAAAAGATG
** * * * * ** *
11243918 CCTTTAATAATCCCAAACAAATTT-TCAAAGAAAATTATTGAAGGCATATAATGC-AAAAAATGC
1 CCTTTAATAATTTCAAA-TAATTTCTAAAAGGAAATTATTGAAGGCATTTGTTCCAAAAAAATGC
* * * * *
11243981 CTTCAATAAATTCTTTCAAAAATTAGAACCAATTAGTGAAGGCGTTTCTCTGGAATAAATGCCTT
65 CTTCAATAAATTCTTTCAAAAATTAGAACCAACTAATAAAGGCATTTCTCTGGAATAAACGCCTT
* * * * * * *
11244046 TAATAACC-CCTTTAAAATTTTAGTAATAAAATATTGAAGA-CGTTTTTTACTGGAAGACG
130 CAATAACCATC-TTAAAATTTTAGTAATAAAATATT-AAAATCGTTTTTCACTAGAAAACA
* *
11244105 CCTTTAATAA-TTCTAAATAATTTCTAAAAGGAAATTATTGAAGGCGTTTGTTCTAAAAAAATGC
1 CCTTTAATAATTTC-AAATAATTTCTAAAAGGAAATTATTGAAGGCATTTGTTCCAAAAAAATGC
* * ** *
11244169 CTTTAATAAATTCTTTCATAAATTAGAATGAACTAATAAAGGCATTTTTCTGGAATAAACGCCTT
65 CTTCAATAAATTCTTTCAAAAATTAGAACCAACTAATAAAGGCATTTCTCTGGAATAAACGCCTT
* * *
11244234 CACTAACCATCTTAAAATTTTAGTAGTGAAATATTAAAATCGTTTTTCACTAGAAAACA
130 CAATAACCATCTTAAAATTTTAGTAATAAAATATTAAAATCGTTTTTCACTAGAAAACA
* *
11244293 TCTTTAATAATTTCAAATAATTTTTAAAAGGAAATTATTGAAGGCATTTGTTCCAAAAAAATGCC
1 CCTTTAATAATTTCAAATAATTTCTAAAAGGAAATTATTGAAGGCATTTGTTCCAAAAAAATGCC
11244358 TTCAATAA
66 TTCAATAA
11244366 TTATATACAA
Statistics
Matches: 219, Mismatches: 36, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
186 6 0.03
187 38 0.17
188 171 0.78
189 4 0.02
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (188 bp):
CCTTTAATAATTTCAAATAATTTCTAAAAGGAAATTATTGAAGGCATTTGTTCCAAAAAAATGCC
TTCAATAAATTCTTTCAAAAATTAGAACCAACTAATAAAGGCATTTCTCTGGAATAAACGCCTTC
AATAACCATCTTAAAATTTTAGTAATAAAATATTAAAATCGTTTTTCACTAGAAAACA
Found at i:11244543 original size:123 final size:124
Alignment explanation
Indices: 11244383--11244639 Score: 356
Period size: 124 Copynumber: 2.1 Consensus size: 124
11244373 CAAAATGACT
* * *
11244383 TTGAAGGCGTATAATGCAAAAAATACCTTAAATAAATTT-TTTAAAAATTAGAATGAAATAGTGA
1 TTGAAGGTGTATAATGCAAAAAATACATTAAATAAATTTCTTCAAAAATTAGAATGAAATAGTGA
* * * *
11244447 AGGTATTTTTCTGGAATAAACGCTTTCAATAACCGTC-TTAAAATTTTAGTAGTGAAATA
66 AAGCATTTTTCTGAAATAAACGCCTTCAATAA-CGTCTTTAAAATTTTAGTAGTGAAATA
* * *
11244506 TTGAAGGTGTATAATGCAAAAAATGCATTCAATAAATTTCTTCAAAAATTAGAATGAATTAGTGA
1 TTGAAGGTGTATAATGCAAAAAATACATTAAATAAATTTCTTCAAAAATTAGAATGAAATAGTGA
* * * * *
11244571 AAGCATTTTTTTGAAATAAATGCCTTCAATAACTTCTTTAAAATTTTATTATTGAAATA
66 AAGCATTTTTCTGAAATAAACGCCTTCAATAACGTCTTTAAAATTTTAGTAGTGAAATA
11244630 TTGAAGGTGT
1 TTGAAGGTGT
11244640 GTTCTACTAA
Statistics
Matches: 117, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
123 38 0.32
124 79 0.68
ACGTcount: A:0.41, C:0.09, G:0.14, T:0.36
Consensus pattern (124 bp):
TTGAAGGTGTATAATGCAAAAAATACATTAAATAAATTTCTTCAAAAATTAGAATGAAATAGTGA
AAGCATTTTTCTGAAATAAACGCCTTCAATAACGTCTTTAAAATTTTAGTAGTGAAATA
Found at i:11244751 original size:187 final size:186
Alignment explanation
Indices: 11243890--11244823 Score: 693
Period size: 187 Copynumber: 5.0 Consensus size: 186
11243880 TCCTTAAAGT
** * * * * * *
11243890 TATTGAAGGCATTTTATACTAAAAGATGCCTTTAATAATCCCAAACAAATTTTCAAAGAAAATTA
1 TATTGAAGGTGTTTT-TACTAAAAGACGCCTTTAATAATCTCAAATAATTTTTAAAAGGAAATTA
* * **
11243955 TTGAAGGCATATAATGC-AAAAAATGCCTTCAATAAATTCTTTCAAAAATTAGAACCAATTAGTG
65 TTGAAGGCGTATAATGCAAAAAAATG-CTTCAATAAATTTTTTCAAAAATTAGAATGAATTAGTG
* * * ** *
11244019 AAGGCGTTTCTCTGGAATAAATGCCTTTAATAACCCCTTTAAAATTTTAGTAATAAAA
129 AAGGCATTTTTCTGGAATAAATGCCTTCAATAACTTCTTTAAAATTTTAGTAATGAAA
** *
11244077 TATTGAAGACGT-TTTTTACTGGAAGACGCCTTTAATAAT-TCTAAATAATTTCTAAAAGGAAAT
1 TATTGAAG--GTGTTTTTACTAAAAGACGCCTTTAATAATCTC-AAATAATTTTTAAAAGGAAAT
** * * * * *
11244140 TATTGAAGGCGT-TTGTTCTAAAAAAATGCCTTTAATAAATTCTTTCATAAATTAGAATGAACTA
63 TATTGAAGGCGTATAATGC-AAAAAAATG-CTTCAATAAATTTTTTCAAAAATTAGAATGAATTA
* * * * * *
11244204 ATAAAGGCATTTTTCTGGAATAAACGCCTTCACTAACCATC-TTAAAATTTTAGTAGTGAAA
126 GTGAAGGCATTTTTCTGGAATAAATGCCTTCAATAA-CTTCTTTAAAATTTTAGTAATGAAA
** ** *
11244265 TATT-AAAATCGTTTTTCACTAGAAA-ACATCTTTAATAATTTCAAATAATTTTTAAAAGGAAAT
1 TATTGAAGGT-GTTTTT-ACTA-AAAGACGCCTTTAATAATCTCAAATAATTTTTAAAAGGAAAT
* * ** * * * * *
11244328 TATTGAAGGCATTTGTTCCAAAAAAATGCCTTCAAT-AA--TTAT-ATACA--A-AATGACTT--
63 TATTGAAGGCGTATAATGCAAAAAAATG-CTTCAATAAATTTTTTCAAAAATTAGAATGAATTAG
* * ** * * * * * * *
11244384 TGAAGGC-GTATAATGCAAAAAATACCTTAAATAAATTTTTTAAAA-ATTAG-AATGAAA
127 TGAAGGCATTTTTCTGGAATAAATGCCTTCAATAACTTCTTTAAAATTTTAGTAATGAAA
* * * * **
11244441 TAGTGAAGGTATTTTT-CTGGAATAA-ACG-CTTTCAATAACCGTCTTAA-AA-TTTTAGTAGTG
1 TATTGAAGGTGTTTTTACT--AA-AAGACGCCTTT-AATAATC-TC-AAATAATTTTTAAAAG-G
* *
11244501 AAA-TATTGAAGGTGTATAATGC-AAAAAATGCATTCAATAAATTTCTTCAAAAATTAGAATGAA
59 AAATTATTGAAGGCGTATAATGCAAAAAAATGC-TTCAATAAATTTTTTCAAAAATTAGAATGAA
* * * * *
11244564 TTAGTGAAAGCATTTTTTTGAAATAAATGCCTTCAATAACTTCTTTAAAATTTTATTATTGAAA
123 TTAGTGAAGGCATTTTTCTGGAATAAATGCCTTCAATAACTTCTTTAAAATTTTAGTAATGAAA
* **
11244628 TATTGAAGGTGTGTTCTACTAAAAGACGCCTTTAATAATCTCAAATAATTTTTAAAATAAAATTA
1 TATTGAAGGTGT-TTTTACTAAAAGACGCCTTTAATAATCTCAAATAATTTTTAAAAGGAAATTA
* * *
11244693 TTGAAGGCGTATAATGCAAAAAACCT-CTTTAATAAATTTTTTAAAAAATTAGAATGAATTAGTG
65 TTGAAGGCGTATAATGCAAAAAA-ATGCTTCAATAAATTTTTTCAAAAATTAGAATGAATTAGTG
** * * * *
11244757 AAGGCATTTTGT-TGGAATAAACACCTTTAATAACTGTC-TTAAAATTTTAATAGTGGAA
129 AAGGCATTTT-TCTGGAATAAATGCCTTCAATAACT-TCTTTAAAATTTTAGTAATGAAA
11244815 TATTGAAGG
1 TATTGAAGG
11244824 CGTATAATGC
Statistics
Matches: 582, Mismatches: 120, Indels: 90
0.73 0.15 0.11
Matches are distributed among these distances:
174 3 0.01
175 19 0.03
176 46 0.08
177 16 0.03
178 27 0.05
179 9 0.02
181 7 0.01
182 8 0.01
184 10 0.02
185 33 0.06
186 16 0.03
187 203 0.35
188 172 0.30
189 13 0.02
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.35
Consensus pattern (186 bp):
TATTGAAGGTGTTTTTACTAAAAGACGCCTTTAATAATCTCAAATAATTTTTAAAAGGAAATTAT
TGAAGGCGTATAATGCAAAAAAATGCTTCAATAAATTTTTTCAAAAATTAGAATGAATTAGTGAA
GGCATTTTTCTGGAATAAATGCCTTCAATAACTTCTTTAAAATTTTAGTAATGAAA
Found at i:11244759 original size:61 final size:60
Alignment explanation
Indices: 11244688--11244885 Score: 166
Period size: 62 Copynumber: 3.2 Consensus size: 60
11244678 TTTAAAATAA
* *
11244688 AATTATTGAAGGCGTATAATGCAAAAAACCTCTTTAATAAATTTTTTAAAAAATTAGAATG
1 AATTAGTGAAGGCGTATAATGCAAAAAACC-CTTTAATAAATTTCTTAAAAAATTAGAATG
* * ** * * * * **
11244749 AATTAGTGAAGGCATTTTGTTGGAATAAACACCTTTAATAACTGTCTTAAAATTTTA-ATAGTGG
1 AATTAGTGAAGGC-GTATAATGCAAAAAAC-CCTTTAATAAATTTCTTAAAAAATTAGA-A-T-G
* * * * *
11244813 AA-TATTGAAGGCGTATAATGCAAAAAATACCTTTAATAAATTACTTCAAAAATTAGAACG
1 AATTAGTGAAGGCGTATAATGCAAAAAA-CCCTTTAATAAATTTCTTAAAAAATTAGAATG
11244873 AATTAGTGAAGGC
1 AATTAGTGAAGGC
11244886 ATTTTTCTGG
Statistics
Matches: 101, Mismatches: 28, Indels: 16
0.70 0.19 0.11
Matches are distributed among these distances:
60 3 0.03
61 22 0.22
62 61 0.60
63 12 0.12
64 3 0.03
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.33
Consensus pattern (60 bp):
AATTAGTGAAGGCGTATAATGCAAAAAACCCTTTAATAAATTTCTTAAAAAATTAGAATG
Found at i:11244759 original size:124 final size:124
Alignment explanation
Indices: 11244639--11244929 Score: 288
Period size: 124 Copynumber: 2.3 Consensus size: 124
11244629 ATTGAAGGTG
* *
11244639 TGTTCTACTAA-AAGACGCCTTTAATAA-TCTC-AAATAATTTTTAA-AATAAAATTATTGAAGG
1 TGTTCTACGAATAA-ACACCTTTAATAACTCTCTAAA-AA-TTTTAATAATAAAA-TATTGAAGG
* ** *
11244700 CGTATAATGCAAAAAA-CCTCTTTAATAAATTTTTTAAAAAATTAGAATGAATTAGTGAAGGCA
62 CGTATAATGCAAAAAATAC-CTTTAATAAATTACTTAAAAAATTAGAACGAATTAGTGAAGGCA
* * ** * * * **
11244763 TTTTGTTGGAATAAACACCTTTAATAACTGTCTTAAAATTTTAATAGTGGAATATTGAAGGCGTA
1 TGTTCTACGAATAAACACCTTTAATAACTCTCTAAAAATTTTAATAATAAAATATTGAAGGCGTA
*
11244828 TAATGCAAAAAATACCTTTAATAAATTACTTCAAAAATTAGAACGAATTAGTGAAGGCA
66 TAATGCAAAAAATACCTTTAATAAATTACTTAAAAAATTAGAACGAATTAGTGAAGGCA
* * ** * *
11244887 TTTTTCT-GGAATAAATGCCTTCAATAACTCTCTTAAAATTTTA
1 -TGTTCTACGAATAAACACCTTTAATAACTCTCTAAAAATTTTA
11244930 TTACTGAAAT
Statistics
Matches: 140, Mismatches: 21, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
124 121 0.86
125 17 0.12
126 2 0.01
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (124 bp):
TGTTCTACGAATAAACACCTTTAATAACTCTCTAAAAATTTTAATAATAAAATATTGAAGGCGTA
TAATGCAAAAAATACCTTTAATAAATTACTTAAAAAATTAGAACGAATTAGTGAAGGCA
Found at i:11244785 original size:62 final size:61
Alignment explanation
Indices: 11244719--11244924 Score: 164
Period size: 62 Copynumber: 3.3 Consensus size: 61
11244709 CAAAAAACCT
*
11244719 CTTTAATAAATTTTTTAAAAAATTAGAATGAATTAGTGAAGGCATTTTGTTGGAATAAACAC
1 CTTTAATAAATTTCTTAAAAAATTAGAATGAATTAGTGAAGGCATTTT-TTGGAATAAACAC
* * ** * * * ** * * *
11244781 CTTTAATAACTGTCTTAAAATTTTA-ATAGTGGAA-TATTGAAGGCGTATAATGCAAAAAATAC
1 CTTTAATAAATTTCTTAAAAAATTAGA-A-T-GAATTAGTGAAGGCATTTTTTGGAATAAACAC
* * * **
11244843 CTTTAATAAATTACTTCAAAAATTAGAACGAATTAGTGAAGGCATTTTTCTGGAATAAATGC
1 CTTTAATAAATTTCTTAAAAAATTAGAATGAATTAGTGAAGGCATTTTT-TGGAATAAACAC
* * *
11244905 CTTCAATAACTCTCTTAAAA
1 CTTTAATAAATTTCTTAAAA
11244925 TTTTATTACT
Statistics
Matches: 105, Mismatches: 33, Indels: 12
0.70 0.22 0.08
Matches are distributed among these distances:
60 3 0.03
61 12 0.11
62 74 0.70
63 13 0.12
64 3 0.03
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (61 bp):
CTTTAATAAATTTCTTAAAAAATTAGAATGAATTAGTGAAGGCATTTTTTGGAATAAACAC
Found at i:11244925 original size:311 final size:310
Alignment explanation
Indices: 11244383--11245011 Score: 901
Period size: 311 Copynumber: 2.0 Consensus size: 310
11244373 CAAAATGACT
11244383 TTGAAGGCGTATAATGCAAAAAATACCTTAAATAAATTTTTTAAAAATTAGAATGAAATAGTGAA
1 TTGAAGGCGTATAATGCAAAAAATACCTTAAATAAATTTTTTAAAAATTAGAATGAAATAGTGAA
* * *
11244448 GGTATTTTTCTGGAATAAACGCTTTCAATAACCGTCTTAAAATTTTAGTAGTGAAATATTGAAGG
66 GGCATTTTTCTGGAATAAACCCTTTCAATAACCGTCTTAAAATTTTAATAGTGAAATATTGAAGG
* * * *
11244513 TGTATAATGCAAAAAATGCATTCAATAAATTTCTTCAAAAATTAGAATGAATTAGTGAAAGCATT
131 CGTATAATGCAAAAAATACATTCAATAAATTACTTCAAAAATTAGAACGAATTAGTGAAAGCATT
* * * * **
11244578 TTTTTGAAATAAATGCCTTCAATAACTTCTTTAAAATTTTATTATTGAAATATTGAAGGTGTGTT
196 TTTCTGAAATAAATGCCTTCAATAACTTCTTTAAAATTTTATTACTGAAATATTAAAAGCATGTT
* * *
11244643 CTACT-AAAAGACGCCTTTAATAATCTCAAATAATTTTTAAAATAAAA-TTA
261 CTA-TGAAAAGACACCTCTAATAATCTCAAACAATTTTTAAAA-AAAATTTA
* * *
11244693 TTGAAGGCGTATAATGCAAAAAA-CCTCTTTAATAAATTTTTTAAAAAATTAGAATGAATTAGTG
1 TTGAAGGCGTATAATGCAAAAAATAC-CTTAAATAAATTTTTT-AAAAATTAGAATGAAATAGTG
* *
11244757 AAGGCATTTTGT-TGGAATAAACACCTTT-AATAACTGTCTTAAAATTTTAATAGTGGAATATTG
64 AAGGCATTTT-TCTGGAATAAAC-CCTTTCAATAACCGTCTTAAAATTTTAATAGTGAAATATTG
* * *
11244820 AAGGCGTATAATGCAAAAAATACCTTTAATAAATTACTTCAAAAATTAGAACGAATTAGTGAAGG
127 AAGGCGTATAATGCAAAAAATACATTCAATAAATTACTTCAAAAATTAGAACGAATTAGTGAAAG
*
11244885 CATTTTTCTGGAATAAATGCCTTCAATAAC-TCTCTTAAAATTTTATTACTGAAATATTAAAAGC
192 CATTTTTCTGAAATAAATGCCTTCAATAACTTCT-TTAAAATTTTATTACTGAAATATTAAAAGC
* * *
11244949 ATTTTCTATGAGAAGATACCTCTAATAATCTCAAACAATTTTTAAAAAAAATTTA
256 ATGTTCTATGAAAAGACACCTCTAATAATCTCAAACAATTTTTAAAAAAAATTTA
11245004 TTGAAGGC
1 TTGAAGGC
11245012 ATTTTTTTCT
Statistics
Matches: 284, Mismatches: 28, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
309 1 0.00
310 46 0.16
311 232 0.82
312 5 0.02
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (310 bp):
TTGAAGGCGTATAATGCAAAAAATACCTTAAATAAATTTTTTAAAAATTAGAATGAAATAGTGAA
GGCATTTTTCTGGAATAAACCCTTTCAATAACCGTCTTAAAATTTTAATAGTGAAATATTGAAGG
CGTATAATGCAAAAAATACATTCAATAAATTACTTCAAAAATTAGAACGAATTAGTGAAAGCATT
TTTCTGAAATAAATGCCTTCAATAACTTCTTTAAAATTTTATTACTGAAATATTAAAAGCATGTT
CTATGAAAAGACACCTCTAATAATCTCAAACAATTTTTAAAAAAAATTTA
Found at i:11244941 original size:124 final size:124
Alignment explanation
Indices: 11244691--11244942 Score: 364
Period size: 124 Copynumber: 2.0 Consensus size: 124
11244681 AAAATAAAAT
* ** *
11244691 TATTGAAGGCGTATAATGCAAAAAACCTCTTTAATAAATTTTTTAAAAAATTAGAATGAATTAGT
1 TATTGAAGGCGTATAATGCAAAAAAACTCTTTAATAAATTACTTAAAAAATTAGAACGAATTAGT
* * * *
11244756 GAAGGCATTTTGTTGGAATAAACACCTTTAATAACTGTCTTAAAATTTTAATAGTGGAA
66 GAAGGCATTTTGTTGGAATAAACACCTTCAATAACTCTCTTAAAATTTTAATACTGAAA
*
11244815 TATTGAAGGCGTATAATGCAAAAAATAC-CTTTAATAAATTACTTCAAAAATTAGAACGAATTAG
1 TATTGAAGGCGTATAATGCAAAAAA-ACTCTTTAATAAATTACTTAAAAAATTAGAACGAATTAG
** *
11244879 TGAAGGCATTTT-TCTGGAATAAATGCCTTCAATAACTCTCTTAAAATTTTATTACTGAAA
65 TGAAGGCATTTTGT-TGGAATAAACACCTTCAATAACTCTCTTAAAATTTTAATACTGAAA
11244939 TATT
1 TATT
11244943 AAAAGCATTT
Statistics
Matches: 114, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
123 1 0.01
124 112 0.98
125 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (124 bp):
TATTGAAGGCGTATAATGCAAAAAAACTCTTTAATAAATTACTTAAAAAATTAGAACGAATTAGT
GAAGGCATTTTGTTGGAATAAACACCTTCAATAACTCTCTTAAAATTTTAATACTGAAA
Found at i:11245136 original size:125 final size:129
Alignment explanation
Indices: 11244906--11245145 Score: 371
Period size: 125 Copynumber: 1.9 Consensus size: 129
11244896 AATAAATGCC
* *
11244906 TTCAATAACTCTCTTAAAATTTTATTACTGAAATATTAAAAGCATTTTCTATGAGAAGATACCTC
1 TTCAATAACTCCCTTAAAATTTTAGTACTGAAATATTAAAAGCATTTTCTATGAGAAGATACCTC
*
11244971 TAATAATCTCAAACAATTTTTAAAAAAAATTTATTGAAGGC-ATTTTTTTCTTAGATAAACACA
66 TAATAATCTCAAACAATTTTTAAAAAAAAATTATTGAAGGCGATTTTTTTCTTAGATAAACACA
* * * * * *
11245034 TTCAATAAC-CCCTT-AAATTTTAGTAGTGGAATATTAAAGGCATTTTTTAT-AGAAGATGCCTT
1 TTCAATAACTCCCTTAAAATTTTAGTACTGAAATATTAAAAGCATTTTCTATGAGAAGATACCTC
11245096 TAATAATCTCAAACAATTTTTAAAAAAAAATTATTGAAGGCGATTTTTTT
66 TAATAATCTCAAACAATTTTTAAAAAAAAATTATTGAAGGCGATTTTTTT
11245146 TAGAAAACAC
Statistics
Matches: 102, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
125 50 0.49
126 39 0.38
127 4 0.04
128 9 0.09
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (129 bp):
TTCAATAACTCCCTTAAAATTTTAGTACTGAAATATTAAAAGCATTTTCTATGAGAAGATACCTC
TAATAATCTCAAACAATTTTTAAAAAAAAATTATTGAAGGCGATTTTTTTCTTAGATAAACACA
Found at i:11253019 original size:34 final size:34
Alignment explanation
Indices: 11252968--11253055 Score: 122
Period size: 34 Copynumber: 2.6 Consensus size: 34
11252958 TAGTTTCCAA
* * *
11252968 ATACAAATGCCGTTAATATAGAGGCATTTTTTAG
1 ATACAAACGCCGCTAATATAGAGGCATTTTTCAG
* *
11253002 ATACAAACGCTGCTAATATAGTGGCATTTTTCAG
1 ATACAAACGCCGCTAATATAGAGGCATTTTTCAG
*
11253036 ATACAAATGCCGCTAATATA
1 ATACAAACGCCGCTAATATA
11253056 ACGATATTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (34 bp):
ATACAAACGCCGCTAATATAGAGGCATTTTTCAG
Found at i:11253065 original size:34 final size:33
Alignment explanation
Indices: 11252968--11253070 Score: 91
Period size: 34 Copynumber: 3.0 Consensus size: 33
11252958 TAGTTTCCAA
* *
11252968 ATACAAATGCCGTTAATATAGAGGCAT-TTTTTAG
1 ATACAAATGCCGCTAATATA-ACG-ATATTTTTAG
* * ** **
11253002 ATACAAACGCTGCTAATATAGTGGCATTTTTCAG
1 ATACAAATGCCGCTAATATAACGATATTTTT-AG
11253036 ATACAAATGCCGCTAATATAACGATATTTTGTAG
1 ATACAAATGCCGCTAATATAACGATATTTT-TAG
11253070 A
1 A
11253071 AAATGCCATT
Statistics
Matches: 53, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
33 6 0.11
34 46 0.87
35 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.33
Consensus pattern (33 bp):
ATACAAATGCCGCTAATATAACGATATTTTTAG
Found at i:11267619 original size:8 final size:8
Alignment explanation
Indices: 11267606--11267639 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
11267596 CTCTCTTCTC
11267606 TTACTCAA
1 TTACTCAA
11267614 TTACTCAA
1 TTACTCAA
11267622 TTACTCAA
1 TTACTCAA
11267630 TTACTCAA
1 TTACTCAA
11267638 TT
1 TT
11267640 TTTATCACGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (8 bp):
TTACTCAA
Found at i:11270888 original size:234 final size:232
Alignment explanation
Indices: 11270291--11271210 Score: 1279
Period size: 234 Copynumber: 4.0 Consensus size: 232
11270281 TTCTTCCATT
* *
11270291 TATTCTCTCCTTGGTTCCTCCAATGATCATTAATGACAAAAATTCTCTTTATTAATTAGTTATAA
1 TATTCTCTCCTTGGTTCCTTCAATTATCATTAATGAC-AAAATTCTCTTTATTAATTAGTTATAA
* * * *
11270356 AAAAAAATTGTTCATTTGATTTGGAATATAAAAATCTCACAACATAAAATAAATATAACTCTGAG
65 AAGAAAATTGTTCATTTAATTTGGAATATAAAAATCTCACAACATAAAAAAAATATAACTTTGAG
*
11270421 AGATCACCATATATATGTATATATATTATATCATCAC------AA-------AGTTGTTTTTTTT
130 AGATCACCATATATATATATATATATTATATCATCACAATAAAAAGTTTGTTAGTTGTTTTTTTT
*
11270473 TTTTCTTTTAC--A-AATGACTTCATCTAAAGATAAGA
195 TTTTCTTTTACAAAGAAGGACTTCATCTAAAGATAAGA
* * * *
11270508 TATTCTTTCCTCGCTTCCTTCAATTATCATTAATGACAGAAATTATCTTTATTAATTAGTTATAA
1 TATTCTCTCCTTGGTTCCTTCAATTATCATTAATGACA-AAATTCTCTTTATTAATTAGTTATAA
*
11270573 AAGAAATTTGTTCATTTAATTTGGAATATAAAAATATCTCACAACATAAAAAAAATATAACTTTG
65 AAGAAAATTGTTCATTTAATTTGGAATAT-AAAA-ATCTCACAACATAAAAAAAATATAACTTTG
*
11270638 AGAGATCACCATATATATATATATATATTATATCATCACAATAAAAAGCTTGTTAGTTGTTTTTT
128 AGAGATCACCATATATATATATATATATTATATCATCACAATAAAAAGTTTGTTAGTTG-TTTTT
*
11270703 TTTTTTTCTTTTACAAAGAAAGACTTCATCTAAAGATAAGA
192 TTTTTTTCTTTTACAAAGAAGGACTTCATCTAAAGATAAGA
* *
11270744 TATTCTCTCCTTGGTTCCTTCAATCATCATTAATAACAAAA-TCTCTTTATTAATTAGTTATAAA
1 TATTCTCTCCTTGGTTCCTTCAATTATCATTAATGACAAAATTCTCTTTATTAATTAGTTATAAA
*
11270808 AGAAAATTATTCATTTAATTTGGAATATAAAAATCTCACAACATAAAAAAAATATAACTTTGAGA
66 AGAAAATTGTTCATTTAATTTGGAATATAAAAATCTCACAACATAAAAAAAATATAACTTTGAGA
*
11270873 GATCACCATATATATATATATATATATGTATTATATCATCACAATAAAAAGTTTGTTAGTTG--A
131 GATCACC----ATATATATATATATA--TATTATATCATCACAATAAAAAGTTTGTTAGTTGTTT
11270936 TTTTTTTTT-TTTTACAAAGAAGGACTTCATCTAAAGAT-AGAA
190 TTTTTTTTTCTTTTACAAAGAAGGACTTCATCTAAAGATAAG-A
* * *
11270978 TATTTTCTCCTAGGTTCCTTCAATTATCATTAATGACAAAATTCTCTTTATTAGTTAGTTATAAA
1 TATTCTCTCCTTGGTTCCTTCAATTATCATTAATGACAAAATTCTCTTTATTAATTAGTTATAAA
* * **
11271043 AGAAAATTGTTCATTTACTTTGGAATATAAAAATCTCACAACATGAAAAAGTTATAACTTTGAGA
66 AGAAAATTGTTCATTTAATTTGGAATATAAAAATCTCACAACATAAAAAAAATATAACTTTGAGA
*
11271108 GATCACCATATATATATATATATATATATTATCATCACAATAAAAAGTTTGTTAGCTGTTTTTTT
131 GATCACCATATATATATATATATAT-TA-TATCATCACAATAAAAAGTTTGTTA---GTTGTTTT
* *
11271173 TTTTTTTTCTTTTACAAAGAAGGACTTTATCTATAGAT
191 TTTTTTTTCTTTTACAAAGAAGGACTTCATCTAAAGAT
11271211 TAAAAAGTAA
Statistics
Matches: 629, Mismatches: 38, Indels: 52
0.87 0.05 0.07
Matches are distributed among these distances:
216 1 0.00
217 83 0.13
218 4 0.01
219 66 0.10
225 2 0.00
229 3 0.00
230 2 0.00
231 40 0.06
232 45 0.07
233 25 0.04
234 117 0.19
235 102 0.16
236 79 0.13
237 27 0.04
238 33 0.05
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.40
Consensus pattern (232 bp):
TATTCTCTCCTTGGTTCCTTCAATTATCATTAATGACAAAATTCTCTTTATTAATTAGTTATAAA
AGAAAATTGTTCATTTAATTTGGAATATAAAAATCTCACAACATAAAAAAAATATAACTTTGAGA
GATCACCATATATATATATATATATTATATCATCACAATAAAAAGTTTGTTAGTTGTTTTTTTTT
TTTCTTTTACAAAGAAGGACTTCATCTAAAGATAAGA
Found at i:11271104 original size:235 final size:234
Alignment explanation
Indices: 11270291--11271180 Score: 1224
Period size: 235 Copynumber: 3.9 Consensus size: 234
11270281 TTCTTCCATT
* * * *
11270291 TATTCTCTCCTTGGTTCCTCCAATGATCATTAATGACAAAAATTCTCTTTATTAATTAGTTATAA
1 TATTTTCTCCTAGGTTCCTTCAATTATCATTAATGAC-AAAATTCTCTTTATTAATTAGTTATAA
* * * *
11270356 AAAAAAATTGTTCATTTGATTTGGAATATAAAAATCTCACAACATAAAATAAATATAACTCTGAG
65 AAGAAAATTGTTCATTTAATTTGGAATATAAAAATCTCACAACATAAAAAAAATATAACTTTGAG
*
11270421 AGATCACC----ATATATATGTATATATATTATATCATCAC-----AAA----GTT-GTT-TTTT
130 AGATCACCATATATATATATATATATATATTATATCATCACAATAAAAAGTTTGTTAGTTGTTTT
*
11270471 TTTTTTCTTTTAC--A-AATGACTTCATCTAAAGATAAGA
195 TTTTTTCTTTTACAAAGAAAGACTTCATCTAAAGATAAGA
* * *
11270508 TATTCTT-TCCTCGCTTCCTTCAATTATCATTAATGACAGAAATTATCTTTATTAATTAGTTATA
1 TATT-TTCTCCTAGGTTCCTTCAATTATCATTAATGACA-AAATTCTCTTTATTAATTAGTTATA
*
11270572 AAAGAAATTTGTTCATTTAATTTGGAATATAAAAATATCTCACAACATAAAAAAAATATAACTTT
64 AAAGAAAATTGTTCATTTAATTTGGAATAT-AAAA-ATCTCACAACATAAAAAAAATATAACTTT
*
11270637 GAGAGATCACC----ATATATATATATATATATTATATCATCACAATAAAAAGCTTGTTAGTTGT
127 GAGAGATCACCATATATATATATATATATATATTATATCATCACAATAAAAAGTTTGTTAGTTG-
11270698 TTTTTTTTTTTTCTTTTACAAAGAAAGACTTCATCTAAAGATAAGA
191 --TTTTTTTTTTCTTTTACAAAGAAAGACTTCATCTAAAGATAAGA
* * * *
11270744 TATTCTCTCCTTGGTTCCTTCAATCATCATTAATAACAAAA-TCTCTTTATTAATTAGTTATAAA
1 TATTTTCTCCTAGGTTCCTTCAATTATCATTAATGACAAAATTCTCTTTATTAATTAGTTATAAA
*
11270808 AGAAAATTATTCATTTAATTTGGAATATAAAAATCTCACAACATAAAAAAAATATAACTTTGAGA
66 AGAAAATTGTTCATTTAATTTGGAATATAAAAATCTCACAACATAAAAAAAATATAACTTTGAGA
*
11270873 GATCACCATATATATATATATATATATGTATTATATCATCACAATAAAAAGTTTGTTAGTTGATT
131 GATCACCATATATATATATATATATA--TATTATATCATCACAATAAAAAGTTTGTTAGTTGTTT
*
11270938 TTTTTTT-TTTTACAAAGAAGGACTTCATCTAAAGAT-AGAA
194 TTTTTTTCTTTTACAAAGAAAGACTTCATCTAAAGATAAG-A
*
11270978 TATTTTCTCCTAGGTTCCTTCAATTATCATTAATGACAAAATTCTCTTTATTAGTTAGTTATAAA
1 TATTTTCTCCTAGGTTCCTTCAATTATCATTAATGACAAAATTCTCTTTATTAATTAGTTATAAA
* * **
11271043 AGAAAATTGTTCATTTACTTTGGAATATAAAAATCTCACAACATGAAAAAGTTATAACTTTGAGA
66 AGAAAATTGTTCATTTAATTTGGAATATAAAAATCTCACAACATAAAAAAAATATAACTTTGAGA
*
11271108 GATCACCATATATATATATATATATATA-T-TATCATCACAATAAAAAGTTTGTTAGCTGTTTTT
131 GATCACCATATATATATATATATATATATTATATCATCACAATAAAAAGTTTGTTAGTTGTTTTT
*
11271171 TTTTTTTTTT
196 TTTTTCTTTT
11271181 CTTTTACAAA
Statistics
Matches: 606, Mismatches: 36, Indels: 47
0.88 0.05 0.07
Matches are distributed among these distances:
216 1 0.00
217 81 0.13
218 5 0.01
219 66 0.11
224 3 0.00
228 3 0.00
229 3 0.00
231 37 0.06
232 45 0.07
233 25 0.04
234 114 0.19
235 122 0.20
236 68 0.11
238 33 0.05
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.40
Consensus pattern (234 bp):
TATTTTCTCCTAGGTTCCTTCAATTATCATTAATGACAAAATTCTCTTTATTAATTAGTTATAAA
AGAAAATTGTTCATTTAATTTGGAATATAAAAATCTCACAACATAAAAAAAATATAACTTTGAGA
GATCACCATATATATATATATATATATATTATATCATCACAATAAAAAGTTTGTTAGTTGTTTTT
TTTTTCTTTTACAAAGAAAGACTTCATCTAAAGATAAGA
Found at i:11276370 original size:19 final size:20
Alignment explanation
Indices: 11276335--11276373 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 20
11276325 TTTTTTATAA
11276335 TTAAAATTATCAAAATTTAAT
1 TTAAAATTA-CAAAATTTAAT
11276356 TTAAAATTA-AAAATTTAA
1 TTAAAATTACAAAATTTAA
11276374 CACTTTATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
21 9 0.50
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAAAATTACAAAATTTAAT
Found at i:11277486 original size:19 final size:19
Alignment explanation
Indices: 11277454--11277525 Score: 67
Period size: 19 Copynumber: 3.7 Consensus size: 19
11277444 AGGACAATTG
* *
11277454 AAAAAATCTTAAAAGTTTCT
1 AAAAAATCTAAAAAATTT-T
*
11277474 AAAAAA-CTAAAAACTTTT
1 AAAAAATCTAAAAAATTTT
11277492 AAGAAAATTCTAAAAAAATTTT
1 AA-AAAA-TCT-AAAAAATTTT
11277514 -AAAAATCTAAAA
1 AAAAAATCTAAAA
11277526 TTTTTCTGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
18 7 0.16
19 16 0.36
20 10 0.22
21 3 0.07
22 9 0.20
ACGTcount: A:0.60, C:0.08, G:0.03, T:0.29
Consensus pattern (19 bp):
AAAAAATCTAAAAAATTTT
Found at i:11277600 original size:17 final size:18
Alignment explanation
Indices: 11277564--11277605 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
11277554 AAAAGTATGA
*
11277564 AAAATTAAAAAAAACCAG
1 AAAATTAAAAAAAAACAG
*
11277582 AAAA-TAAAAAAAAATAG
1 AAAATTAAAAAAAAACAG
11277599 AATAATT
1 AA-AATT
11277606 CCAAAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 13 0.65
18 6 0.30
19 1 0.05
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.17
Consensus pattern (18 bp):
AAAATTAAAAAAAAACAG
Found at i:11277612 original size:38 final size:37
Alignment explanation
Indices: 11277570--11277662 Score: 98
Period size: 37 Copynumber: 2.5 Consensus size: 37
11277560 ATGAAAAATT
*
11277570 AAAAAAAACCAGAAAA-TAAAAAAAAATAGAATAATTCC
1 AAAAAAAACCAAAAAAGTAAAAAAAAATA-AAT-ATTCC
* * * **
11277608 AAAAAAATCTAAAAAAGTTAAAAATCATAAATATTCC
1 AAAAAAAACCAAAAAAGTAAAAAAAAATAAATATTCC
*
11277645 AAAAAAAACTAAAAAAGT
1 AAAAAAAACCAAAAAAGT
11277663 TTTCCAACAA
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
37 22 0.47
38 16 0.34
39 9 0.19
ACGTcount: A:0.69, C:0.10, G:0.04, T:0.17
Consensus pattern (37 bp):
AAAAAAAACCAAAAAAGTAAAAAAAAATAAATATTCC
Found at i:11277631 original size:37 final size:36
Alignment explanation
Indices: 11277589--11277663 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 36
11277579 CAGAAAATAA
* *
11277589 AAAAAAATAGAATAATTCCAAAAAAATCTAAAAAAGTT
1 AAAAACATA-AAT-ATTCCAAAAAAAACTAAAAAAGTT
11277627 AAAAATCATAAATATTCCAAAAAAAACTAAAAAAGTT
1 AAAAA-CATAAATATTCCAAAAAAAACTAAAAAAGTT
11277664 TTCCAACAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
37 23 0.68
38 8 0.24
39 3 0.09
ACGTcount: A:0.65, C:0.09, G:0.04, T:0.21
Consensus pattern (36 bp):
AAAAACATAAATATTCCAAAAAAAACTAAAAAAGTT
Found at i:11277817 original size:18 final size:19
Alignment explanation
Indices: 11277796--11277850 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 19
11277786 TTAAAATTTC
11277796 CAAAATCTAAACAA-TTAA
1 CAAAATCTAAACAATTTAA
* * *
11277814 CAAATTCAAAAAAATTTAA
1 CAAAATCTAAACAATTTAA
*
11277833 -AAAATCTAAACATTTTAA
1 CAAAATCTAAACAATTTAA
11277851 AAACAAGTTG
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
18 25 0.86
19 4 0.14
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (19 bp):
CAAAATCTAAACAATTTAA
Found at i:11277948 original size:18 final size:19
Alignment explanation
Indices: 11277915--11277951 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
11277905 TAGAAAACAT
*
11277915 ATTTTGAAAAATTAAAAAG
1 ATTTTGAAAAAATAAAAAG
11277934 ATTTT-AAAAAATAAAAAG
1 ATTTTGAAAAAATAAAAAG
11277952 TACCAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (19 bp):
ATTTTGAAAAAATAAAAAG
Found at i:11277949 original size:25 final size:25
Alignment explanation
Indices: 11277921--11277976 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
11277911 ACATATTTTG
*
11277921 AAAAATTA-AAAAGATTTTAAAAAAT
1 AAAAATTACAAAA-ATTTAAAAAAAT
* *
11277946 AAAAAGTACCAAAATTTAAAAAAAT
1 AAAAATTACAAAAATTTAAAAAAAT
*
11277971 TAAAAT
1 AAAAAT
11277977 GTTAAAATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
25 22 0.88
26 3 0.12
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.25
Consensus pattern (25 bp):
AAAAATTACAAAAATTTAAAAAAAT
Found at i:11278104 original size:18 final size:18
Alignment explanation
Indices: 11278083--11278129 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
11278073 TTCTTTTCTA
*
11278083 TTTTTTATTTATTTTAAT
1 TTTTTTATTTATTTCAAT
**
11278101 TTTTTTAAATATTTCAAT
1 TTTTTTATTTATTTCAAT
11278119 TTTTATTATTT
1 TTTT-TTATTT
11278130 TCTTTTTTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTTTATTTATTTCAAT
Found at i:11278352 original size:37 final size:37
Alignment explanation
Indices: 11278311--11278391 Score: 112
Period size: 36 Copynumber: 2.2 Consensus size: 37
11278301 TTTTTTTAGC
* *
11278311 TTTTTCTTATTTTTT-AGAATATTTTAAAA-TTTTTAA
1 TTTTTTTTATTTTTTAAGAA-ATGTTAAAAGTTTTTAA
*
11278347 TTTTTTTTATTTTTTAAGAAATGTTAAAAGTTTTTCA
1 TTTTTTTTATTTTTTAAGAAATGTTAAAAGTTTTTAA
11278384 TTTTTTTT
1 TTTTTTTT
11278392 GAATTTTTGG
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
36 22 0.55
37 18 0.45
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.65
Consensus pattern (37 bp):
TTTTTTTTATTTTTTAAGAAATGTTAAAAGTTTTTAA
Found at i:11278600 original size:17 final size:18
Alignment explanation
Indices: 11278570--11278607 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
11278560 CATATTTATA
*
11278570 AATTTCTTAGATTTTTTG
1 AATTTCTTAGATTTTTAG
*
11278588 AATTTTTTA-ATTTTTAG
1 AATTTCTTAGATTTTTAG
11278605 AAT
1 AAT
11278608 AATGGTTGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.29, C:0.03, G:0.08, T:0.61
Consensus pattern (18 bp):
AATTTCTTAGATTTTTAG
Found at i:11279122 original size:11 final size:10
Alignment explanation
Indices: 11279094--11279142 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
11279084 TATAATATAG
*
11279094 TAAAATTTGA
1 TAAATTTTGA
11279104 TAAATTTTGA
1 TAAATTTTGA
11279114 TATAATTTTGA
1 TA-AATTTTGA
11279125 T---TTTTGA
1 TAAATTTTGA
*
11279132 TAACTTTTGA
1 TAAATTTTGA
11279142 T
1 T
11279143 TTGTTTTGGC
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
7 7 0.21
10 18 0.53
11 9 0.26
ACGTcount: A:0.35, C:0.02, G:0.10, T:0.53
Consensus pattern (10 bp):
TAAATTTTGA
Found at i:11279139 original size:17 final size:18
Alignment explanation
Indices: 11279108--11279144 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
11279098 ATTTGATAAA
11279108 TTTTGATATAATTTTGAT
1 TTTTGATATAATTTTGAT
*
11279126 TTTTGATA-ACTTTTGAT
1 TTTTGATATAATTTTGAT
11279143 TT
1 TT
11279145 GTTTTGGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.24, C:0.03, G:0.11, T:0.62
Consensus pattern (18 bp):
TTTTGATATAATTTTGAT
Found at i:11279618 original size:22 final size:22
Alignment explanation
Indices: 11279593--11279646 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
11279583 GTTATCATTG
* * *
11279593 ATTTACTACTATATTATTAATA
1 ATTTATTACTAAACTATTAATA
*
11279615 ATTTATTACTAAACTATTAATG
1 ATTTATTACTAAACTATTAATA
11279637 ATTTATTACT
1 ATTTATTACT
11279647 TTGTTTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (22 bp):
ATTTATTACTAAACTATTAATA
Found at i:11279759 original size:22 final size:22
Alignment explanation
Indices: 11279708--11279760 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
11279698 CTAATTTATA
*
11279708 AATGATTTATCACTAGATTCTT
1 AATGATTTATCACTAAATTCTT
* * *
11279730 AATTATTTATTACTAAATTGTT
1 AATGATTTATCACTAAATTCTT
*
11279752 GATGATTTA
1 AATGATTTA
11279761 AGACTAAGTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.34, C:0.08, G:0.09, T:0.49
Consensus pattern (22 bp):
AATGATTTATCACTAAATTCTT
Found at i:11279867 original size:22 final size:22
Alignment explanation
Indices: 11279842--11279894 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
11279832 AAGTTAACTC
11279842 TTAAATTATCACTAATTTACAA
1 TTAAATTATCACTAATTTACAA
* * *
11279864 TTAAATTATCATTGATTTATAA
1 TTAAATTATCACTAATTTACAA
*
11279886 TTAAGTTAT
1 TTAAATTAT
11279895 TAGTGATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.47
Consensus pattern (22 bp):
TTAAATTATCACTAATTTACAA
Found at i:11279901 original size:22 final size:22
Alignment explanation
Indices: 11279856--11279919 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
11279846 ATTATCACTA
* * * *
11279856 ATTTACAATTAAATTATCATTG
1 ATTTATAATTAAGTTATTAGTG
11279878 ATTTATAATTAAGTTATTAGTG
1 ATTTATAATTAAGTTATTAGTG
* * *
11279900 ATTTATTACTATGTTATTAG
1 ATTTATAATTAAGTTATTAG
11279920 CAATTGACTA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.50
Consensus pattern (22 bp):
ATTTATAATTAAGTTATTAGTG
Found at i:11280057 original size:22 final size:22
Alignment explanation
Indices: 11280032--11280136 Score: 92
Period size: 22 Copynumber: 4.8 Consensus size: 22
11280022 ATTATCAAAT
*
11280032 ATTTATTATTAAATTATCCATG
1 ATTTACTATTAAATTATCCATG
* * *
11280054 ATTTACTATCAAGTTAT-TACTG
1 ATTTACTATTAAATTATCCA-TG
*
11280076 ATTTA-TATTAAATTATCCATA
1 ATTTACTATTAAATTATCCATG
*
11280097 ATTTACTA-TAAAGTTAT-CATTC
1 ATTTACTATTAAA-TTATCCA-TG
*
11280119 ATTAACTATTAAATTATC
1 ATTTACTATTAAATTATC
11280137 GATTATTAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
21 22 0.33
22 40 0.61
23 4 0.06
ACGTcount: A:0.38, C:0.11, G:0.04, T:0.47
Consensus pattern (22 bp):
ATTTACTATTAAATTATCCATG
Found at i:11280091 original size:43 final size:44
Alignment explanation
Indices: 11280032--11280136 Score: 140
Period size: 43 Copynumber: 2.4 Consensus size: 44
11280022 ATTATCAAAT
* * * * *
11280032 ATTTATTATTAAATTATCCATGATTTACTATCAAGTTATTACTG
1 ATTTACTATTAAATTATCCATAATTTACTATAAAGTTATCACTC
*
11280076 ATTTA-TATTAAATTATCCATAATTTACTATAAAGTTATCATTC
1 ATTTACTATTAAATTATCCATAATTTACTATAAAGTTATCACTC
*
11280119 ATTAACTATTAAATTATC
1 ATTTACTATTAAATTATC
11280137 GATTATTAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 37 0.69
44 17 0.31
ACGTcount: A:0.38, C:0.11, G:0.04, T:0.47
Consensus pattern (44 bp):
ATTTACTATTAAATTATCCATAATTTACTATAAAGTTATCACTC
Found at i:11280144 original size:22 final size:21
Alignment explanation
Indices: 11280081--11280145 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
11280071 TACTGATTTA
* *
11280081 TATTAAATTATCCATAATTTAC
1 TATTAAATTAT-CATTATTAAC
11280103 TA-TAAAGTTATCATTCATTAAC
1 TATTAAA-TTATCATT-ATTAAC
11280125 TATTAAATTATCGATTATTAA
1 TATTAAATTATC-ATTATTAA
11280146 AAAGCTATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
21 7 0.19
22 23 0.62
23 7 0.19
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.45
Consensus pattern (21 bp):
TATTAAATTATCATTATTAAC
Found at i:11280330 original size:22 final size:21
Alignment explanation
Indices: 11280305--11280385 Score: 72
Period size: 22 Copynumber: 3.7 Consensus size: 21
11280295 ATTGATTTAT
*
11280305 TATTAAGTTATCACTAACTTAC
1 TATTAAGTTATCACT-ACTTAA
* * *
11280327 TATTAAGTTATCATTGATTTAT
1 TATTAAGTTATCACT-ACTTAA
* * *
11280349 TACTAAGTTATCAATGCTTAAA
1 TATTAAGTTATCACTACTT-AA
11280371 TATTAAGTTATCACT
1 TATTAAGTTATCACT
11280386 TATTTTTGTT
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
21 2 0.04
22 45 0.96
ACGTcount: A:0.36, C:0.12, G:0.07, T:0.44
Consensus pattern (21 bp):
TATTAAGTTATCACTACTTAA
Found at i:11280375 original size:44 final size:44
Alignment explanation
Indices: 11280252--11280383 Score: 126
Period size: 44 Copynumber: 3.0 Consensus size: 44
11280242 AAGTTATTTA
* * * * *
11280252 TGATTTATTATTAAGTTTATCAATTAA-TTATTATTAAACTGA-AAT
1 TGATTTATTACTAAG-TTATCAA-TAACTTAATATT-AAGTTATCAT
* * *
11280297 TGATTTATTATTAAGTTATCACTAACTTACTATTAAGTTATCAT
1 TGATTTATTACTAAGTTATCAATAACTTAATATTAAGTTATCAT
*
11280341 TGATTTATTACTAAGTTATCAAT-GCTTAAATATTAAGTTATCA
1 TGATTTATTACTAAGTTATCAATAACTT-AATATTAAGTTATCA
11280384 CTTATTTTTG
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
43 10 0.13
44 50 0.67
45 15 0.20
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.47
Consensus pattern (44 bp):
TGATTTATTACTAAGTTATCAATAACTTAATATTAAGTTATCAT
Found at i:11280605 original size:22 final size:22
Alignment explanation
Indices: 11280580--11280712 Score: 81
Period size: 22 Copynumber: 6.0 Consensus size: 22
11280570 GTTTAGTAAC
*
11280580 TTACTATTAATTTATGAATGAT
1 TTACTATTAATTTATCAATGAT
* * *** *
11280602 TTACTATTAAATTGTTGGTAAT
1 TTACTATTAATTTATCAATGAT
**
11280624 TTACTATTAAGTTT-TTTATGAT
1 TTACTATTAA-TTTATCAATGAT
* * *
11280646 TTATTATAAAATTA-CAACTGAT
1 TTACTATTAATTTATCAA-TGAT
* *
11280668 TTACTACTAATTTATCATTGAT
1 TTACTATTAATTTATCAATGAT
* * *
11280690 TTATTATAAAATTATCAATGAT
1 TTACTATTAATTTATCAATGAT
11280712 T
1 T
11280713 AATAAATTTA
Statistics
Matches: 82, Mismatches: 25, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
21 3 0.04
22 75 0.91
23 4 0.05
ACGTcount: A:0.36, C:0.07, G:0.08, T:0.50
Consensus pattern (22 bp):
TTACTATTAATTTATCAATGAT
Found at i:11280645 original size:44 final size:44
Alignment explanation
Indices: 11280575--11280658 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
11280565 GGTAGGTTTA
*
11280575 GTAACTTACTATTAATTTATGAATGATTTACTATTAAATTGTTG
1 GTAACTTACTATTAATTTATGAATGATTTACTATAAAATTGTTG
* ** *
11280619 GTAATTTACTATTAAGTTT-TTTATGATTTATTATAAAATT
1 GTAACTTACTATTAA-TTTATGAATGATTTACTATAAAATT
11280659 ACAACTGATT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 31 0.91
45 3 0.09
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.51
Consensus pattern (44 bp):
GTAACTTACTATTAATTTATGAATGATTTACTATAAAATTGTTG
Found at i:11280764 original size:22 final size:21
Alignment explanation
Indices: 11280717--11280765 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
11280707 ATGATTAATA
* *
11280717 AATTTACTACTAATTATCATT
1 AATTTACAACTAATTATCAGT
* *
11280738 GATTTACAACTAAGTTATGAGT
1 AATTTACAACTAA-TTATCAGT
11280760 AATTTA
1 AATTTA
11280766 TTACTACATT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (21 bp):
AATTTACAACTAATTATCAGT
Done.