Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, 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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 71 of 129
Found at i:11177634 original size:23 final size:23
Alignment explanation
Indices: 11177607--11177656 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
11177597 AGGTCTTAGA
11177607 AATCATGCCCAGAGATCTTACAG
1 AATCATGCCCAGAGATCTTACAG
* * *
11177630 AATCATGCCCGGAGGTCTTATAG
1 AATCATGCCCAGAGATCTTACAG
11177653 AATC
1 AATC
11177657 GATTGGAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (23 bp):
AATCATGCCCAGAGATCTTACAG
Found at i:11177706 original size:241 final size:243
Alignment explanation
Indices: 11177388--11177876 Score: 592
Period size: 241 Copynumber: 2.0 Consensus size: 243
11177378 CTGTGAATTA
* * * * * ** **
11177388 AAATTATGCCTGGAGGTCTTACAGAATCGATTGGGATAACATCTTAAGTTGAAAGATAAGGAATC
1 AAATCATGCCCGGAGGTCTTACAGAATCGATTGGAATAACACCATAAGTCAAAAGATAAAAAATC
* * * *
11177453 GATCGGGATAACACCATGAATCGAAATTATGCCCGGAGGTCTTA-GAAATCATG-CTCGGAGGTC
66 GATCGGGATAACACCATGAATCGAAATTATGCACGGACGTCTTACAAAATCATGTC-CGGAGATC
* *** * *
11177516 TTACAGAATTGACTGAAATAACATTGCAAGTTAGAA-ATAAAGAATCGATCGGGACAACATCGCG
130 TTACAGAATCGACTGAAATAACACCACAAGTTAAAAGATAAAGAATCGATCGGGACAACACCGCG
*
11177580 AATCGAAA-TTATCCT-GAAGGTCTTAGAAATCATGCCCAGAGATCTTAC
195 AATC-AAATTTATCCTCGAAGATCTTAGAAATCATGCCCAGAGATCTTAC
*
11177628 AGAATCATGCCCGGAGGTCTTATAGAATCGATTGGAATAACACCATAAGTCAAAAGATAAAAAAT
1 A-AATCATGCCCGGAGGTCTTACAGAATCGATTGGAATAACACCATAAGTCAAAAGATAAAAAAT
* * * * *
11177693 TGATCGGGATAACATCGTGAATTGAATTTATGCACGGACGTCTTACAAAATCATGTCCGGAGATC
65 CGATCGGGATAACACCATGAATCGAAATTATGCACGGACGTCTTACAAAATCATGTCCGGAGATC
* ** *
11177758 TTACAGAATCGATTGGGATAACACCACAAGTTAAAAGATAAAGAATCGATCGGGATAACACCGCG
130 TTACAGAATCGACTGAAATAACACCACAAGTTAAAAGATAAAGAATCGATCGGGACAACACCGCG
** * * * *
11177823 AATCAAATTTATGTTCGGAGATCTTAGAAATCATGCTCGGAGGTCTTAC
195 AATCAAATTTATCCTCGAAGATCTTAGAAATCATGCCCAGAGATCTTAC
11177872 AAATC
1 AAATC
11177877 TCAAAATCTT
Statistics
Matches: 207, Mismatches: 36, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
240 1 0.00
241 91 0.44
242 46 0.22
243 40 0.19
244 29 0.14
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (243 bp):
AAATCATGCCCGGAGGTCTTACAGAATCGATTGGAATAACACCATAAGTCAAAAGATAAAAAATC
GATCGGGATAACACCATGAATCGAAATTATGCACGGACGTCTTACAAAATCATGTCCGGAGATCT
TACAGAATCGACTGAAATAACACCACAAGTTAAAAGATAAAGAATCGATCGGGACAACACCGCGA
ATCAAATTTATCCTCGAAGATCTTAGAAATCATGCCCAGAGATCTTAC
Found at i:11177816 original size:111 final size:110
Alignment explanation
Indices: 11177618--11177876 Score: 326
Period size: 111 Copynumber: 2.3 Consensus size: 110
11177608 ATCATGCCCA
* * *
11177618 GAGATCTTACAGAATCATGCCCGGAGGTCTTATAGAATCGATTGGAATAACACCATAAGTCAAAA
1 GAGATCTTACAAAATCATG-CCGGAGGTCTTACAGAATCGATTGGAATAACACCACAAGTCAAAA
* * * **
11177683 GATAAAAAATTGATCGGGATAACATCGTGAATTGAATTTATGCACG
65 GATAAAAAATCGATCGGGATAACACCGCGAATCAAATTTATGCACG
* * *
11177729 GACG-TCTTACAAAATCATGTCCGGAGATCTTACAGAATCGATTGGGATAACACCACAAGTTAAA
1 GA-GATCTTACAAAATCATG-CCGGAGGTCTTACAGAATCGATTGGAATAACACCACAAGTCAAA
* **
11177793 AGATAAAGAATCGATCGGGATAACACCGCGAATCAAATTTATGTTCG
64 AGATAAAAAATCGATCGGGATAACACCGCGAATCAAATTTATGCACG
*
11177840 GAGATCTTA-GAAATCATGCTCGGAGGTCTTACA-AATC
1 GAGATCTTACAAAATCATGC-CGGAGGTCTTACAGAATC
11177877 TCAAAATCTT
Statistics
Matches: 128, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
109 5 0.04
110 21 0.16
111 101 0.79
112 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.25
Consensus pattern (110 bp):
GAGATCTTACAAAATCATGCCGGAGGTCTTACAGAATCGATTGGAATAACACCACAAGTCAAAAG
ATAAAAAATCGATCGGGATAACACCGCGAATCAAATTTATGCACG
Found at i:11178801 original size:33 final size:33
Alignment explanation
Indices: 11178457--11178801 Score: 294
Period size: 33 Copynumber: 10.5 Consensus size: 33
11178447 TTGGGGTAAA
* * * * *
11178457 ATAAATTGGGCTTAAA-TTTTATTGAAGGTCAG
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
* * *
11178489 CTAAATTGGGCTTAAA-ATCTCATTTGA-GGCCAG
1 ATAAACTGGGCTTAAAGCT-TCA-TTGATGGCCAG
* *
11178522 ATAAACTGGGCTTAAATCTTCATTTGA-GGCTAG
1 ATAAACTGGGCTTAAAGCTTCA-TTGATGGCCAG
* * *
11178555 ATAAATTGGGCTTAAAGCCTCATTTGA-GGTCAG
1 ATAAACTGGGCTTAAAGCTTCA-TTGATGGCCAG
* ** *
11178588 ATAAACTGGGTTTAAAGCCTT-ATTGATAACTAG
1 ATAAACTGGGCTTAAAG-CTTCATTGATGGCCAG
* *
11178621 ATAAACTGGACTTAAAGCTTCATTAATGGCCAG
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
* ** *
11178654 ATAAATTAAGCTTAAAACTTCATTTGA-GGCCAG
1 ATAAACTGGGCTTAAAGCTTCA-TTGATGGCCAG
* *
11178687 ATAAACTAGGCTTAAAGCTTCATTAATGGCCAG
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
*
11178720 ATAAACTGGGCTTAAA--TGTCATTGTTGGCCAG
1 ATAAACTGGGCTTAAAGCT-TCATTGATGGCCAG
* * * *
11178752 ATAAACTAGGTTTAAAGCTTCATTGATGGTCAA
1 ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
11178785 ATAAACTGGGCTTAAAG
1 ATAAACTGGGCTTAAAG
11178802 GTTTTTTTTT
Statistics
Matches: 256, Mismatches: 46, Indels: 21
0.79 0.14 0.07
Matches are distributed among these distances:
31 1 0.00
32 52 0.20
33 192 0.75
34 11 0.04
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.31
Consensus pattern (33 bp):
ATAAACTGGGCTTAAAGCTTCATTGATGGCCAG
Found at i:11179651 original size:24 final size:26
Alignment explanation
Indices: 11179624--11179673 Score: 77
Period size: 24 Copynumber: 2.0 Consensus size: 26
11179614 ACCCATTCAT
11179624 TTCTTCCTTT-TTTCTT-TTTTTTTA
1 TTCTTCCTTTCTTTCTTGTTTTTTTA
11179648 TTCTTCCTTTCCTTTCTTGTTTTTTT
1 TTCTTCCTTT-CTTTCTTGTTTTTTT
11179674 TTTTTGCATC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 10 0.43
26 6 0.26
27 7 0.30
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (26 bp):
TTCTTCCTTTCTTTCTTGTTTTTTTA
Found at i:11179686 original size:30 final size:29
Alignment explanation
Indices: 11179627--11179688 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
11179617 CATTCATTTC
* *
11179627 TTCCTTTTTTCTTTTTTTTTATTCTTCCT
1 TTCCTTTCTTCTTTTTTTTTATTCATCCT
* *
11179656 TTCCTTTCTTGTTTTTTTTTTTTGCATCCT
1 TTCCTTTCTTCTTTTTTTTTATT-CATCCT
11179686 TTC
1 TTC
11179689 ATTGAATGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 20 0.71
30 8 0.29
ACGTcount: A:0.03, C:0.21, G:0.03, T:0.73
Consensus pattern (29 bp):
TTCCTTTCTTCTTTTTTTTTATTCATCCT
Found at i:11186068 original size:25 final size:24
Alignment explanation
Indices: 11186022--11186068 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
11186012 AATATCATAA
* *
11186022 TTTTTTTTTAAAAATGTATTATTC
1 TTTTTTATTAAAAATATATTATTC
*
11186046 TTTTTTATTATAAAATATTTTAT
1 TTTTTTATTA-AAAATATATTAT
11186069 CACCAAGTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 9 0.47
25 10 0.53
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (24 bp):
TTTTTTATTAAAAATATATTATTC
Found at i:11187835 original size:14 final size:14
Alignment explanation
Indices: 11187816--11187849 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
11187806 TCTGTTTCTT
*
11187816 TTTTCTTTTTCCTA
1 TTTTCTCTTTCCTA
*
11187830 TTTTCTCTTTCCTT
1 TTTTCTCTTTCCTA
11187844 TTTTCT
1 TTTTCT
11187850 AATAATAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTCTCTTTCCTA
Found at i:11187882 original size:26 final size:26
Alignment explanation
Indices: 11187853--11187905 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
11187843 TTTTTCTAAT
11187853 AATAAATAATAATTATATATT-TTAAA
1 AATAAATAATAATTAT-TATTATTAAA
* * *
11187879 AATATATTATTATTATTATTATTAAA
1 AATAAATAATAATTATTATTATTAAA
11187905 A
1 A
11187906 TTATTAATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
AATAAATAATAATTATTATTATTAAA
Found at i:11187887 original size:20 final size:19
Alignment explanation
Indices: 11187855--11187892 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
11187845 TTTCTAATAA
11187855 TAAATAATAATTATATATTT
1 TAAATAATAATTAT-TATTT
11187875 TAAA-AATATATTATTATT
1 TAAATAATA-ATTATTATT
11187893 ATTATTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TAAATAATAATTATTATTT
Found at i:11189720 original size:5 final size:5
Alignment explanation
Indices: 11189710--11189744 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
11189700 AATTAGCTGT
11189710 ATATA ATATA ATATA ATATA ATAT- ATATA TATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA -ATATA
11189745 TTTCCATCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.14
5 19 0.68
6 5 0.18
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
ATATA
Found at i:11190431 original size:14 final size:14
Alignment explanation
Indices: 11190414--11190440 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11190404 ATTTTTAATT
11190414 TAAAATATTATTTA
1 TAAAATATTATTTA
11190428 TAAAATATTATTT
1 TAAAATATTATTT
11190441 TTAATATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TAAAATATTATTTA
Found at i:11190466 original size:18 final size:16
Alignment explanation
Indices: 11190403--11190462 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 16
11190393 ATTAATTTAA
* *
11190403 TATTTTTAATTTAAAA
1 TATTTTTAATATAAAT
*
11190419 TATTATTT-ATAAAATAT
1 TATT-TTTAATATAA-AT
11190436 TATTTTTAATATAAAT
1 TATTTTTAATATAAAT
11190452 TATATTTTAAT
1 TAT-TTTTAAT
11190463 TATATATAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
16 16 0.44
17 20 0.56
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTTTTAATATAAAT
Found at i:11190488 original size:24 final size:22
Alignment explanation
Indices: 11190431--11190489 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 22
11190421 TTATTTATAA
11190431 AATATTATTT-TTAATATAAATT
1 AATATT-TTTATTAATATAAATT
*
11190453 -ATATTTTAATTATATATAAATAT
1 AATATTTTTATTA-ATATAAAT-T
11190476 AATATTTTTATTAA
1 AATATTTTTATTAA
11190490 GTTAATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
20 2 0.06
21 8 0.26
22 8 0.26
23 2 0.06
24 11 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
AATATTTTTATTAATATAAATT
Found at i:11191329 original size:20 final size:21
Alignment explanation
Indices: 11191291--11191329 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
11191281 TATAATTTTT
**
11191291 TGATTTTATTAAACCTATTTA
1 TGATTTTATTAAAAATATTTA
11191312 TGATTTT-TTAAAAATATT
1 TGATTTTATTAAAAATATT
11191330 AAATCATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (21 bp):
TGATTTTATTAAAAATATTTA
Found at i:11192318 original size:36 final size:36
Alignment explanation
Indices: 11192249--11192319 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 36
11192239 AATCCCTACC
** **
11192249 TTTTTAAGTTTAGTTAGTAACCTCTAACTTTTTACA
1 TTTTTAAGTTTAAATAGTAACCTCTAAAGTTTTACA
* *
11192285 TTTTTAGGTTTAAATAGTAACTTCTAAAGTTTTAC
1 TTTTTAAGTTTAAATAGTAACCTCTAAAGTTTTAC
11192320 GATGAAATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.30, C:0.11, G:0.10, T:0.49
Consensus pattern (36 bp):
TTTTTAAGTTTAAATAGTAACCTCTAAAGTTTTACA
Found at i:11194156 original size:32 final size:32
Alignment explanation
Indices: 11194119--11194189 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
11194109 AAATAAAGCT
11194119 CAAGAAA-TTAAAACTGCATAAAGAGTAAATAA
1 CAAGAAATTTAAAACTGCATAAA-AGTAAATAA
** *
11194151 CAAGAAATTTAAAGTTGCATAAATGTAAATAA
1 CAAGAAATTTAAAACTGCATAAAAGTAAATAA
*
11194183 CATGAAA
1 CAAGAAA
11194190 GCAAATTGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 21 0.62
33 13 0.38
ACGTcount: A:0.56, C:0.08, G:0.13, T:0.23
Consensus pattern (32 bp):
CAAGAAATTTAAAACTGCATAAAAGTAAATAA
Found at i:11200309 original size:17 final size:17
Alignment explanation
Indices: 11200266--11200317 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
11200256 ACTAGAGACT
* *
11200266 AAACGTTCTAAAAATAG
1 AAACTTTCTAAAAATAA
*
11200283 AAA-TTGCTAAAAATAA
1 AAACTTTCTAAAAATAA
*
11200299 AAACTTTCTAAAAACAA
1 AAACTTTCTAAAAATAA
11200316 AA
1 AA
11200318 TTTAAACAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
16 13 0.45
17 16 0.55
ACGTcount: A:0.60, C:0.12, G:0.06, T:0.23
Consensus pattern (17 bp):
AAACTTTCTAAAAATAA
Found at i:11205234 original size:19 final size:20
Alignment explanation
Indices: 11205206--11205254 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
11205196 TATAAAAGTT
*
11205206 TAATTTAAATCAGATTTA-C
1 TAATTAAAATCAGATTTATC
*
11205225 TAATTAAAATCATATTTATC
1 TAATTAAAATCAGATTTATC
*
11205245 TAACTAAAAT
1 TAATTAAAAT
11205255 ATTTAAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.41
Consensus pattern (20 bp):
TAATTAAAATCAGATTTATC
Found at i:11211347 original size:21 final size:21
Alignment explanation
Indices: 11211318--11211362 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
11211308 CTCAAACACA
* *
11211318 TTTTCAATGTACTTT-TAGAT
1 TTTTCAATGAAATTTCTAGAT
11211338 TTTTACAATGAAATTTCTAGAT
1 TTTT-CAATGAAATTTCTAGAT
11211360 TTT
1 TTT
11211363 CGCATTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 9 0.43
22 8 0.38
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (21 bp):
TTTTCAATGAAATTTCTAGAT
Found at i:11215133 original size:15 final size:15
Alignment explanation
Indices: 11215113--11215143 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11215103 AACTTTTACT
11215113 ACTATTATCTTAGCA
1 ACTATTATCTTAGCA
11215128 ACTATTATCTTAGCA
1 ACTATTATCTTAGCA
11215143 A
1 A
11215144 TTCACTTGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.06, T:0.39
Consensus pattern (15 bp):
ACTATTATCTTAGCA
Found at i:11216561 original size:13 final size:13
Alignment explanation
Indices: 11216543--11216567 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11216533 AAAATTATTT
11216543 AAATATTTTTTTA
1 AAATATTTTTTTA
11216556 AAATATTTTTTT
1 AAATATTTTTTT
11216568 TTATGTATGA
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
AAATATTTTTTTA
Found at i:11216839 original size:333 final size:326
Alignment explanation
Indices: 11216210--11216874 Score: 982
Period size: 333 Copynumber: 2.0 Consensus size: 326
11216200 ATAAAATAAT
11216210 AATATTTTCTAAAAATATTTTATTTTTTATGTATAAGATCAACTTATATTAAACTTTCTATTTTT
1 AATATTTTCTAAAAATATTTTATTTTTTATGTATAAGATCAACTTATATTAAACTTTC-ATTTTT
*
11216275 GCTTTTCCTTTTTACTATTTAAAAAAATTTAAATAAATATTTTCCACATTTAATTTTTTTTATGT
65 GCTTTTACTTTTTACTATTTAAAAAAATTTAAATAAATATTTTCCAC---T-ATTTTTTTTATGT
11216340 GGAACCTAGTTGCAATCAATGGTATATTTTGTGCTTTTTTTTTTCTTACTATTTCTTTTTTTATA
126 GGAACCTAGTTGCAATCAATGGTATATTTTGTGCTTTTTTTTTTCTTACTATTTCTTTTTTTATA
*
11216405 TATATTTAATAAATAATTTTTTGAATTTTAAATTTTTGTGAGAACAATTTAATATCGGAAGTATG
191 TATATTTAATAAATAATTTTTTGAATTTTAAATTTTTGTGAGAACAATTTAATATCGAAAGTATG
* * * * *
11216470 TCATGTGTGAAGCTATTTGGCTTATTTTTTACTTTTTATTTTTTTCTATTTACTTTTTTCTTAAA
256 TCATGTGTGAAGCTAATTGACTCATTTTTCACTTTTTA-TTTATT-TATTTA-TTTTTTCTTAAA
*
11216535 AATTATTTA
318 AAATATTTA
* * *
11216544 AATATTTTTTTAAAATA-TTT-TTTTTTATGTATGAGATCAACTTATATTAAACTTTC-TTTTTG
1 AATATTTTCTAAAAATATTTTATTTTTTATGTATAAGATCAACTTATATTAAACTTTCATTTTTG
*
11216606 CTTTTACTTTTTACCATTTTTTTAAAAAATATTTAAATAAATATTTTCCAC-A-TTTTTTTATGT
66 CTTTTACTTTTTA-C---TATTTAAAAAA-ATTTAAATAAATATTTTCCACTATTTTTTTTATGT
*
11216669 GGAACCTAGTTGCTATCAATGGTATATTTTGTGC-TTTTTTTTTCTTACTATTTCTTTTGTTTTT
126 GGAACCTAGTTGCAATCAATGGTATATTTTGTGCTTTTTTTTTTCTTACTATTTC-----TTTTT
* *
11216733 TTATATATATTTAATGAATAATTTTTTGAATTTTAATTTTTTGTGAGAACAATTTAATATCGAAA
186 TTATATATATTTAATAAATAATTTTTTGAATTTTAAATTTTTGTGAGAACAATTTAATATCGAAA
*
11216798 GTATGTCATGTGTGAAGTTAATTGACTCATTTTTCACTTTTTATTTATTTATTTATTTTTTCTTA
251 GTATGTCATGTGTGAAGCTAATTGACTCATTTTTCACTTTTTATTTATTTATTTATTTTTTCTTA
11216863 AAAAATATTTA
316 AAAAATATTTA
11216874 A
1 A
11216875 TTTTTTAATA
Statistics
Matches: 305, Mismatches: 16, Indels: 24
0.88 0.05 0.07
Matches are distributed among these distances:
328 20 0.07
329 44 0.14
330 40 0.13
331 7 0.02
332 40 0.13
333 108 0.35
334 25 0.08
335 21 0.07
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.54
Consensus pattern (326 bp):
AATATTTTCTAAAAATATTTTATTTTTTATGTATAAGATCAACTTATATTAAACTTTCATTTTTG
CTTTTACTTTTTACTATTTAAAAAAATTTAAATAAATATTTTCCACTATTTTTTTTATGTGGAAC
CTAGTTGCAATCAATGGTATATTTTGTGCTTTTTTTTTTCTTACTATTTCTTTTTTTATATATAT
TTAATAAATAATTTTTTGAATTTTAAATTTTTGTGAGAACAATTTAATATCGAAAGTATGTCATG
TGTGAAGCTAATTGACTCATTTTTCACTTTTTATTTATTTATTTATTTTTTCTTAAAAAATATTT
A
Found at i:11217316 original size:27 final size:27
Alignment explanation
Indices: 11217261--11217317 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
11217251 TTTATTATTT
* *
11217261 TTTAATTTTTAATTAAATAAATTATTA
1 TTTAATTTTTAATTAAATAAAGTAATA
*
11217288 TTTAATATTTTAATTTAA-AAAGTAATA
1 TTTAAT-TTTTAATTAAATAAAGTAATA
11217315 TTT
1 TTT
11217318 TAAACTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 16 0.62
28 10 0.38
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (27 bp):
TTTAATTTTTAATTAAATAAAGTAATA
Found at i:11217319 original size:28 final size:28
Alignment explanation
Indices: 11217260--11217320 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
11217250 TTTTATTATT
* *
11217260 TTTTAATTTTTAATTAAATAAATTATTA
1 TTTTAATTTTTAATTAAATAAAGTAATA
*
11217288 -TTTAATATTTTAATTTAA-AAAGTAATA
1 TTTTAAT-TTTTAATTAAATAAAGTAATA
11217315 TTTTAA
1 TTTTAA
11217321 ACTTAATTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
27 13 0.46
28 15 0.54
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (28 bp):
TTTTAATTTTTAATTAAATAAAGTAATA
Found at i:11217866 original size:15 final size:16
Alignment explanation
Indices: 11217833--11217869 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
11217823 TCTAAGAACT
11217833 TTTTTTGTATTTTTCC
1 TTTTTTGTATTTTTCC
11217849 TTTTTTGT-TTTGTT-C
1 TTTTTTGTATTT-TTCC
11217864 TTTTTT
1 TTTTTT
11217870 CACTTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.03, C:0.08, G:0.08, T:0.81
Consensus pattern (16 bp):
TTTTTTGTATTTTTCC
Found at i:11218331 original size:15 final size:14
Alignment explanation
Indices: 11218308--11218350 Score: 52
Period size: 13 Copynumber: 2.9 Consensus size: 14
11218298 CTCTATGAAC
11218308 TTTTTTATTTTTTA
1 TTTTTTATTTTTTA
11218322 -TTTTTATATTTTTA
1 TTTTTTAT-TTTTTA
11218336 TCCTTTTTATTTTTT
1 T--TTTTTATTTTTT
11218351 TCAATTTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 7 0.28
14 6 0.24
16 5 0.20
17 7 0.28
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTTATTTTTTA
Found at i:11218334 original size:9 final size:7
Alignment explanation
Indices: 11218308--11218350 Score: 52
Period size: 7 Copynumber: 5.9 Consensus size: 7
11218298 CTCTATGAAC
11218308 TTTTTTA
1 TTTTTTA
11218315 TTTTTTA
1 TTTTTTA
11218322 -TTTTTA
1 TTTTTTA
11218328 TATTTTTA
1 T-TTTTTA
11218336 TCCTTTTTA
1 T--TTTTTA
11218345 TTTTTT
1 TTTTTT
11218351 TCAATTTTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
6 6 0.19
7 12 0.38
8 7 0.22
9 7 0.22
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTTTA
Found at i:11218358 original size:15 final size:15
Alignment explanation
Indices: 11218309--11218364 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
11218299 TCTATGAACT
11218309 TTTTTA-TTTTTT-A
1 TTTTTATTTTTTTCA
*
11218322 TTTTTATATTTTTATCC
1 TTTTTAT-TTTTT-TCA
11218339 TTTTTATTTTTTTCA
1 TTTTTATTTTTTTCA
*
11218354 ATTTTAGTTTT
1 TTTTTA-TTTT
11218365 ATTTATTAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
13 6 0.17
15 12 0.34
16 10 0.29
17 7 0.20
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (15 bp):
TTTTTATTTTTTTCA
Found at i:11219120 original size:1 final size:1
Alignment explanation
Indices: 11219114--11219139 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
11219104 TTTCTTGCAT
11219114 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
11219140 CAGCTTGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:11229340 original size:4 final size:4
Alignment explanation
Indices: 11229331--11229396 Score: 69
Period size: 4 Copynumber: 15.8 Consensus size: 4
11229321 TTTTTGGTAT
**
11229331 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TGGGTTA TTCG TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T---TTA TTTA TTTA TTTA
* *
11229382 TTTG TTTG TTTA TTT
1 TTTA TTTA TTTA TTT
11229397 GCTAATTTTA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
4 49 0.92
7 4 0.08
ACGTcount: A:0.18, C:0.02, G:0.09, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:11232103 original size:21 final size:20
Alignment explanation
Indices: 11232078--11232138 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
11232068 AGAGTTTTGA
*
11232078 TTTAGGGTTTAGGCTTAAGGT
1 TTTA-GGTTTAGGATTAAGGT
11232099 TTTAGGTTT-GGATTTAAGGT
1 TTTAGGTTTAGGA-TTAAGGT
* *
11232119 CTTATGGTTTAAGATTAAGG
1 TTTA-GGTTTAGGATTAAGG
11232139 CTTGGGGTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 2 0.06
20 15 0.44
21 15 0.44
22 2 0.06
ACGTcount: A:0.23, C:0.03, G:0.30, T:0.44
Consensus pattern (20 bp):
TTTAGGTTTAGGATTAAGGT
Found at i:11242870 original size:4 final size:4
Alignment explanation
Indices: 11242861--11242910 Score: 64
Period size: 4 Copynumber: 11.8 Consensus size: 4
11242851 CAAATATATG
*
11242861 TAAA TAAA TAAA TAAA TAAAA CTAAA CAAA TAAAA TAAA TAAA TAAA TAA
1 TAAA TAAA TAAA TAAA T-AAA -TAAA TAAA T-AAA TAAA TAAA TAAA TAA
11242911 CCTAGTCAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
4 30 0.73
5 10 0.24
6 1 0.02
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (4 bp):
TAAA
Found at i:11244830 original size:39 final size:40
Alignment explanation
Indices: 11244758--11245069 Score: 221
Period size: 40 Copynumber: 7.8 Consensus size: 40
11244748 TTACTTGAAA
* *
11244758 ATCTT-AAAATTATTCACAAAATTTAAAATTTTACATAGAG
1 ATCTTGAAAATCATTCA-AAAATTTAAGATTTTACATAGAG
*
11244798 ATCTTGAAAATCATTCAAAAATTTAAGA-TTTACCT-GAAG
1 ATCTTGAAAATCATTCAAAAATTTAAGATTTTACATAG-AG
* * * * *
11244837 GTCTTGATAATCATTCACAAATTTAAAATTCTACCA-AGAG
1 ATCTTGAAAATCATTCAAAAATTTAAGATTTTA-CATAGAG
* * * *
11244877 GTCTTGAAAGTCATTCAAAATTTTATA-ATTTTGTCCA-A-AG
1 ATCTTGAAAATCATTCAAAAATTTA-AGA-TTT-TACATAGAG
* * * * *
11244917 ATCTT-ATAATCATTCAAAATTTTAAGATTCTACTTGGAG
1 ATCTTGAAAATCATTCAAAAATTTAAGATTTTACATAGAG
* ** * *
11244956 GTCTTGAAAATCATTCAAAGAATTTAAGATTTT-GTTCGAA
1 ATCTTGAAAATCATTCAAA-AATTTAAGATTTTACATAGAG
* *
11244996 AGTCTTGGAAATCATTCAAAAATTTAAGATTTTACCTAGAG
1 A-TCTTGAAAATCATTCAAAAATTTAAGATTTTACATAGAG
* * * *
11245037 GT-TTAGGAAATCATTCAAAAATGTAAGACTTTA
1 ATCTT-GAAAATCATTCAAAAATTTAAGATTTTA
11245070 TCTAAAGGTC
Statistics
Matches: 218, Mismatches: 38, Indels: 32
0.76 0.13 0.11
Matches are distributed among these distances:
37 2 0.01
38 4 0.02
39 58 0.27
40 104 0.48
41 49 0.22
42 1 0.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (40 bp):
ATCTTGAAAATCATTCAAAAATTTAAGATTTTACATAGAG
Found at i:11244882 original size:79 final size:80
Alignment explanation
Indices: 11244769--11245081 Score: 275
Period size: 79 Copynumber: 3.9 Consensus size: 80
11244759 TCTTAAAATT
* *
11244769 ATTCACAAAATTTAAAATTTTA-CATAGAGATCTTGAAAATCATTCAAAAATTTAAGA-TTTACC
1 ATTCAC-AAATTTAAAATTCTACCA-AGAGGTCTTGAAAATCATTCAAAAATTTAAGACTTTACC
*
11244832 TGAAGGTCTTGATAATC
64 TAAAGGTCTTGATAATC
* * * *
11244849 ATTCACAAATTTAAAATTCTACCAAGAGGTCTTGAAAGTCATTCAAAATTTTATA-ATTTTGTCC
1 ATTCACAAATTTAAAATTCTACCAAGAGGTCTTGAAAATCATTCAAAAATTTA-AGACTTT-ACC
*
11244913 -AAAGATCTT-ATAATC
64 TAAAGGTCTTGATAATC
* *** * **
11244928 ATTCA-AAATTTTAAGATTCTACTTGGAGGTCTTGAAAATCATTCAAAGAATTTAAGATTTTGTT
1 ATTCACAAA-TTTAAAATTCTACCAAGAGGTCTTGAAAATCATTCAAA-AATTTAAGACTTT-AC
*
11244992 CGAAA-GTCTTGGA-AATC
63 CTAAAGGTCTT-GATAATC
* * * * * * *
11245009 ATTCAAAAATTTAAGATTTTACCTAGAGGT-TTAGGAAATCATTCAAAAATGTAAGACTTTATCT
1 ATTCACAAATTTAAAATTCTACCAAGAGGTCTT-GAAAATCATTCAAAAATTTAAGACTTTACCT
11245073 AAAGGTCTT
65 AAAGGTCTT
11245082 ACAAATCTTT
Statistics
Matches: 197, Mismatches: 23, Indels: 26
0.80 0.09 0.11
Matches are distributed among these distances:
78 3 0.02
79 91 0.46
80 54 0.27
81 45 0.23
82 4 0.02
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (80 bp):
ATTCACAAATTTAAAATTCTACCAAGAGGTCTTGAAAATCATTCAAAAATTTAAGACTTTACCTA
AAGGTCTTGATAATC
Found at i:11248845 original size:147 final size:147
Alignment explanation
Indices: 11248685--11248964 Score: 490
Period size: 147 Copynumber: 1.9 Consensus size: 147
11248675 AAAAGATTAA
* *
11248685 AAAATTAATTAAAAGAAATAAATATTCTCTCTTCCTTCATTTTTAATTTTTATTTTAGAAAAATG
1 AAAATTAATTAAAAGAAAGAAAAATTCTCTCTTCCTTCATTTTTAATTTTTATTTTAGAAAAATG
11248750 ATAATAAATAAATAAGATTAAATATACAGAAGATGGATTAAATTGGTAGTTTCATTTATTTTTT-
66 ATAATAAATAAATAAGATTAAATATACAGAAGATGGATTAAATTGGTAGTTTCATTT-TTTTTTC
11248814 TTTTGTTCGTATTTGCAT
130 TTTTGTTCGTATTTGCAT
*
11248832 AAAATTAATTAAAAGAAAGAAAAATTCTCTCTTCCTTTATTTTTAATTTTTATTTTAGAAAAATG
1 AAAATTAATTAAAAGAAAGAAAAATTCTCTCTTCCTTCATTTTTAATTTTTATTTTAGAAAAATG
* * *
11248897 ATAATGAATAAATAAGATTAAATATACATAAGATGGATTAAATTGGTGGTTTCATTTTTTTTTCT
66 ATAATAAATAAATAAGATTAAATATACAGAAGATGGATTAAATTGGTAGTTTCATTTTTTTTTCT
11248962 TTT
131 TTT
11248965 AACATTTGCA
Statistics
Matches: 126, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
146 6 0.05
147 120 0.95
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.45
Consensus pattern (147 bp):
AAAATTAATTAAAAGAAAGAAAAATTCTCTCTTCCTTCATTTTTAATTTTTATTTTAGAAAAATG
ATAATAAATAAATAAGATTAAATATACAGAAGATGGATTAAATTGGTAGTTTCATTTTTTTTTCT
TTTGTTCGTATTTGCAT
Found at i:11249167 original size:8 final size:8
Alignment explanation
Indices: 11249154--11249284 Score: 63
Period size: 8 Copynumber: 16.6 Consensus size: 8
11249144 TCGAATCCTA
11249154 AAACCTTG
1 AAACCTTG
*
11249162 AAACCTTA
1 AAACCTTG
**
11249170 AAATATT-
1 AAACCTTG
*
11249177 ACAACCCTG
1 A-AACCTTG
* *
11249186 AAACCCTA
1 AAACCTTG
*
11249194 AAACTTTG
1 AAACCTTG
*
11249202 AAACCTTA
1 AAACCTTG
* ***
11249210 AAATCACA
1 AAACCTTG
11249218 AAACTCT-G
1 AAAC-CTTG
*
11249226 AAATCTTG
1 AAACCTTG
11249234 AAACCTTG
1 AAACCTTG
*
11249242 AAACCTTA
1 AAACCTTG
*
11249250 AAATCTTG
1 AAACCTTG
11249258 AAACC-TG
1 AAACCTTG
*
11249265 AAACCCTG
1 AAACCTTG
*
11249273 -AACCTTA
1 AAACCTTG
11249280 AAACC
1 AAACC
11249285 CTAAAATCTC
Statistics
Matches: 91, Mismatches: 26, Indels: 12
0.71 0.20 0.09
Matches are distributed among these distances:
7 15 0.16
8 74 0.81
9 2 0.02
ACGTcount: A:0.44, C:0.25, G:0.07, T:0.24
Consensus pattern (8 bp):
AAACCTTG
Found at i:11249183 original size:40 final size:41
Alignment explanation
Indices: 11249139--11249253 Score: 130
Period size: 40 Copynumber: 2.9 Consensus size: 41
11249129 GAAACCCTAT
*
11249139 AACCCTCG-AATCCTAAAACCTTGAAACCTTAAAATATTAC
1 AACCCTCGAAATCCTAAAACCTTGAAACCTTAAAATATCAC
* *
11249179 AACCCT-GAAACCCTAAAACTTTGAAACCTT-AAA-ATCAC
1 AACCCTCGAAATCCTAAAACCTTGAAACCTTAAAATATCAC
** * *
11249217 AAAACTCTGAAATCTTGAAACCTTGAAACCTTAAAAT
1 AACCCTC-GAAATCCTAAAACCTTGAAACCTTAAAAT
11249254 CTTGAAACCT
Statistics
Matches: 61, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
38 8 0.13
39 4 0.07
40 46 0.75
41 3 0.05
ACGTcount: A:0.44, C:0.25, G:0.06, T:0.24
Consensus pattern (41 bp):
AACCCTCGAAATCCTAAAACCTTGAAACCTTAAAATATCAC
Found at i:11249283 original size:15 final size:16
Alignment explanation
Indices: 11249217--11249308 Score: 71
Period size: 16 Copynumber: 5.9 Consensus size: 16
11249207 TTAAAATCAC
* *
11249217 AAAACTCTGAAATCTT
1 AAAACCCTGAAACCTT
* *
11249233 GAAACCTTGAAACCTT
1 AAAACCCTGAAACCTT
* *
11249249 AAAATCTTGAAACC-T
1 AAAACCCTGAAACCTT
*
11249264 GAAACCCTG-AACCTT
1 AAAACCCTGAAACCTT
* * *
11249279 AAAACCCTAAAATCTC
1 AAAACCCTGAAACCTT
*
11249295 AAAACCCTAAAACC
1 AAAACCCTGAAACC
11249309 CTAAGTGAAG
Statistics
Matches: 60, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
14 4 0.07
15 15 0.25
16 41 0.68
ACGTcount: A:0.45, C:0.27, G:0.07, T:0.22
Consensus pattern (16 bp):
AAAACCCTGAAACCTT
Found at i:11249351 original size:20 final size:20
Alignment explanation
Indices: 11249296--11249351 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 20
11249286 TAAAATCTCA
* *
11249296 AAACCCTAAAACCCTAAGTG
1 AAACCCTAAAACCCTAGGAG
** * *
11249316 AAGTCGT-AAACACTAGGAG
1 AAACCCTAAAACCCTAGGAG
11249335 AAACCCTAAAACCCTAG
1 AAACCCTAAAACCCTAG
11249352 ATAAAACCTT
Statistics
Matches: 25, Mismatches: 10, Indels: 2
0.68 0.27 0.05
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.45, C:0.27, G:0.14, T:0.14
Consensus pattern (20 bp):
AAACCCTAAAACCCTAGGAG
Found at i:11255169 original size:17 final size:17
Alignment explanation
Indices: 11255119--11255169 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
11255109 TTAAAATGGC
11255119 AAAAAAAG-TAAAAAAA
1 AAAAAAAGATAAAAAAA
* *
11255135 AAAAAAAGGTAAAGAAA
1 AAAAAAAGATAAAAAAA
* *
11255152 AGAAGAAGATAAAAAAA
1 AAAAAAAGATAAAAAAA
11255169 A
1 A
11255170 TGTGAAAGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 8 0.28
17 21 0.72
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (17 bp):
AAAAAAAGATAAAAAAA
Found at i:11255856 original size:104 final size:104
Alignment explanation
Indices: 11255676--11255881 Score: 358
Period size: 104 Copynumber: 2.0 Consensus size: 104
11255666 TAAAATAAGT
* *
11255676 GATTGGTGATATATAGATTTCATTATAAATTGGTCTGTATACCTTCAACATCCTATTCTATGTAA
1 GATTGGTGATATATAGATTTCATTATAAATTGGTCTGTATACCTTCAACATCCTATTCCAGGTAA
* *
11255741 TGGATATAGCTCTTTTATATAGTTATTTATTTAGAAGAC
66 TGGATATAGCTCTTTCATATAGTTATTTACTTAGAAGAC
* *
11255780 GATTGGTGATATATAGATTTCATTATAAATTGGTCTGTGTACTTTCAACATCCTATTCCAGGTAA
1 GATTGGTGATATATAGATTTCATTATAAATTGGTCTGTATACCTTCAACATCCTATTCCAGGTAA
11255845 TGGATATAGCTCTTTCATATAGTTATTTACTTAGAAG
66 TGGATATAGCTCTTTCATATAGTTATTTACTTAGAAG
11255882 GCTGTGGATT
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
104 96 1.00
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (104 bp):
GATTGGTGATATATAGATTTCATTATAAATTGGTCTGTATACCTTCAACATCCTATTCCAGGTAA
TGGATATAGCTCTTTCATATAGTTATTTACTTAGAAGAC
Found at i:11256718 original size:20 final size:21
Alignment explanation
Indices: 11256686--11256726 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
11256676 TCACATATAT
11256686 CATTTTCTCTATTTTT-TTGC
1 CATTTTCTCTATTTTTCTTGC
11256706 CATTATTCT-TATTTTTCTTGC
1 CATT-TTCTCTATTTTTCTTGC
11256727 TTTTGCCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.12, C:0.20, G:0.05, T:0.63
Consensus pattern (21 bp):
CATTTTCTCTATTTTTCTTGC
Found at i:11258059 original size:15 final size:15
Alignment explanation
Indices: 11258039--11258069 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11258029 ATCGTTGATT
11258039 TTGTATCTAATGCTA
1 TTGTATCTAATGCTA
11258054 TTGTATCTAATGCTA
1 TTGTATCTAATGCTA
11258069 T
1 T
11258070 AGGAGATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (15 bp):
TTGTATCTAATGCTA
Found at i:11260209 original size:27 final size:27
Alignment explanation
Indices: 11260158--11260209 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
11260148 ATATTTTGCT
*
11260158 TAAAAAAACAAAAAAAAAATGAAGATA
1 TAAAAAAACAAAAAAAAAATAAAGATA
*
11260185 TAAAAAAGATAAAAAAAAAA-AAAGA
1 TAAAAAA-ACAAAAAAAAAATAAAGA
11260210 AGAATGATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 11 0.50
28 11 0.50
ACGTcount: A:0.81, C:0.02, G:0.08, T:0.10
Consensus pattern (27 bp):
TAAAAAAACAAAAAAAAAATAAAGATA
Found at i:11261390 original size:70 final size:70
Alignment explanation
Indices: 11261311--11261469 Score: 187
Period size: 70 Copynumber: 2.3 Consensus size: 70
11261301 TCAATCTCGA
* * * *
11261311 TCATCTTTATTCTTCGACTCACAGTTCAATCCCAGT-ATTTTTTATTTTTTGACTTGTAGCTTAG
1 TCATTTTTATTCTTCGACTCACAGTTCAATCCCAATCA-TTTTTATTTTTTGACTTGCAACTTAG
11261375 CCCCAG
65 CCCCAG
* *** *
11261381 TCATTTTTATT-TCCTGACTCGTGGTTCAATCCCAATCATTTTTATTTTTTGACTTGCAATTTAG
1 TCATTTTTATTCTTC-GACTCACAGTTCAATCCCAATCATTTTTATTTTTTGACTTGCAACTTAG
* *
11261445 TCCTAG
65 CCCCAG
11261451 TCATTTTTATTCTTCGACT
1 TCATTTTTATTCTTCGACT
11261470 TGTTGTTTAG
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
69 2 0.03
70 69 0.93
71 3 0.04
ACGTcount: A:0.19, C:0.22, G:0.11, T:0.48
Consensus pattern (70 bp):
TCATTTTTATTCTTCGACTCACAGTTCAATCCCAATCATTTTTATTTTTTGACTTGCAACTTAGC
CCCAG
Found at i:11261399 original size:35 final size:35
Alignment explanation
Indices: 11261340--11261575 Score: 126
Period size: 35 Copynumber: 6.8 Consensus size: 35
11261330 CACAGTTCAA
11261340 TCCCAGT-ATTTTTTATTTTTTGACTTGTAGCTTAG
1 TCCCAGTCA-TTTTTATTTTTTGACTTGTAGCTTAG
* ** * * *
11261375 CCCCAGTCATTTTTATTTCCTGACTCGT-GGTTCAA
1 TCCCAGTCATTTTTATTTTTTGACTTGTAGCTT-AG
* * **
11261410 TCCCAATCATTTTTATTTTTTGACTTGCAATTTAG
1 TCCCAGTCATTTTTATTTTTTGACTTGTAGCTTAG
* * * * *
11261445 TCCTAGTCATTTTTATTCTTCGACTTGTTGTTTAG
1 TCCCAGTCATTTTTATTTTTTGACTTGTAGCTTAG
* * * * * * *
11261480 TCCTAGTTATCTTTATTCTTCGA-TTG-ATGGTTCAA
1 TCCCAGTCATTTTTATTTTTTGACTTGTA-GCTT-AG
* * *
11261515 TCCC-GATCATCTTTATTCTTCT-ATTTGTA-CTTAG
1 TCCCAG-TCATTTTTATT-TTTTGACTTGTAGCTTAG
* *
11261549 TCCTAGTCACTTTTATTTTTTGACTTG
1 TCCCAGTCATTTTTATTTTTTGACTTG
11261576 GTGTTCAGTC
Statistics
Matches: 151, Mismatches: 39, Indels: 23
0.71 0.18 0.11
Matches are distributed among these distances:
33 3 0.02
34 27 0.18
35 113 0.75
36 7 0.05
37 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.12, T:0.50
Consensus pattern (35 bp):
TCCCAGTCATTTTTATTTTTTGACTTGTAGCTTAG
Found at i:11261458 original size:105 final size:104
Alignment explanation
Indices: 11261349--11261575 Score: 244
Period size: 105 Copynumber: 2.2 Consensus size: 104
11261339 ATCCCAGTAT
*
11261349 TTTTTATTTTTTGACTTGTAGCTTAGCCCCAGTCATTTTTATTTCCT-GACTCG-TGGTTCAATC
1 TTTTTATTTTTTGACTTGTAGCTTAGCCCCAGTCATCTTTA-TTCCTCGA-TCGATGGTTCAATC
* * *
11261412 CCAATCATTTTTATT-TTTTGACTTGCAATTTAGTCCTAGTCA
64 CCAATCATCTTTATTCTTCT-ACTTG-AACTTAGTCCTAGTCA
* * * * * * * * *
11261454 TTTTTATTCTTCGACTTGTTGTTTAGTCCTAGTTATCTTTATTCTTCGATTGATGGTTCAATCCC
1 TTTTTATTTTTTGACTTGTAGCTTAGCCCCAGTCATCTTTATTCCTCGATCGATGGTTCAATCCC
* * *
11261519 GATCATCTTTATTCTTCTATTTGTACTTAGTCCTAGTCA
66 AATCATCTTTATTCTTCTACTTGAACTTAGTCCTAGTCA
*
11261558 CTTTTATTTTTTGACTTG
1 TTTTTATTTTTTGACTTG
11261576 GTGTTCAGTC
Statistics
Matches: 100, Mismatches: 19, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
104 35 0.35
105 62 0.62
106 3 0.03
ACGTcount: A:0.18, C:0.19, G:0.12, T:0.51
Consensus pattern (104 bp):
TTTTTATTTTTTGACTTGTAGCTTAGCCCCAGTCATCTTTATTCCTCGATCGATGGTTCAATCCC
AATCATCTTTATTCTTCTACTTGAACTTAGTCCTAGTCA
Found at i:11264707 original size:13 final size:14
Alignment explanation
Indices: 11264682--11264733 Score: 52
Period size: 15 Copynumber: 3.7 Consensus size: 14
11264672 TTATTTTGTT
*
11264682 ATATTAATATAGTA
1 ATATTATTATAGTA
11264696 ATA-TATTATAGTA
1 ATATTATTATAGTA
* *
11264709 TTATTATTATTATTA
1 ATATTATTA-TAGTA
*
11264724 CTATTATTAT
1 ATATTATTAT
11264734 TATTATTGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
13 11 0.34
14 9 0.28
15 12 0.38
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (14 bp):
ATATTATTATAGTA
Found at i:11264715 original size:3 final size:3
Alignment explanation
Indices: 11264707--11264740 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
11264697 TATATTATAG
*
11264707 TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
11264741 GTTGTTGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:11264745 original size:3 final size:3
Alignment explanation
Indices: 11264739--11264764 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
11264729 ATTATTATTA
11264739 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
11264765 TTCCTTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:11265098 original size:20 final size:20
Alignment explanation
Indices: 11265073--11265110 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
11265063 TTCTAAAATA
* *
11265073 GATTTGAGGTTTTTGGGTGT
1 GATTTGAAGATTTTGGGTGT
11265093 GATTTGAAGATTTTGGGT
1 GATTTGAAGATTTTGGGT
11265111 TTAATTTTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.37, T:0.47
Consensus pattern (20 bp):
GATTTGAAGATTTTGGGTGT
Found at i:11265736 original size:21 final size:22
Alignment explanation
Indices: 11265703--11265754 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
11265693 AAAATCTTTG
*
11265703 TAAATAAAGC-TTTCAAAATAA
1 TAAAAAAAGCTTTTCAAAATAA
* *
11265724 TAAAAAAATCTTTTCAATATAA
1 TAAAAAAAGCTTTTCAAAATAA
*
11265746 AAAAAAAAG
1 TAAAAAAAG
11265755 GGTTTTTTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.62, C:0.08, G:0.04, T:0.27
Consensus pattern (22 bp):
TAAAAAAAGCTTTTCAAAATAA
Found at i:11269655 original size:15 final size:15
Alignment explanation
Indices: 11269637--11269724 Score: 67
Period size: 15 Copynumber: 5.7 Consensus size: 15
11269627 AGGTGTACAA
11269637 AAAAAAAAAGAAAAG
1 AAAAAAAAAGAAAAG
11269652 AAAAAAAAAGCAAAGAG
1 AAAAAAAAAG-AAA-AG
* *
11269669 CAAAAAAAA-AAAAT
1 AAAAAAAAAGAAAAG
11269683 AAACAAAAAA-AATAA-
1 AAA-AAAAAAGAA-AAG
11269698 AAATAAACAAAG-AAAG
1 AAA-AAA-AAAGAAAAG
*
11269714 AAAAAAGAAGA
1 AAAAAAAAAGA
11269725 CTTTAACTGA
Statistics
Matches: 60, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
14 6 0.10
15 32 0.53
16 12 0.20
17 10 0.17
ACGTcount: A:0.82, C:0.05, G:0.10, T:0.03
Consensus pattern (15 bp):
AAAAAAAAAGAAAAG
Found at i:11269657 original size:19 final size:19
Alignment explanation
Indices: 11269635--11269719 Score: 64
Period size: 21 Copynumber: 4.2 Consensus size: 19
11269625 AAAGGTGTAC
11269635 AAAAAAAAAAAGAAAAGAA
1 AAAAAAAAAAAGAAAAGAA
*
11269654 AAAAAAAGCAAAGAGCAAAAAAA
1 AAAAAAA--AAA-AG-AAAAGAA
* *
11269677 AAAAATAAACAAAAAAAATAA
1 AAAAA-AAA-AAAGAAAAGAA
* *
11269698 AAATAAACAAAG-AAAGAA
1 AAAAAAAAAAAGAAAAGAA
11269716 AAAA
1 AAAA
11269720 GAAGACTTTA
Statistics
Matches: 52, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
18 8 0.15
19 10 0.19
20 2 0.04
21 13 0.25
22 4 0.08
23 13 0.25
24 2 0.04
ACGTcount: A:0.84, C:0.05, G:0.08, T:0.04
Consensus pattern (19 bp):
AAAAAAAAAAAGAAAAGAA
Found at i:11269690 original size:13 final size:13
Alignment explanation
Indices: 11269674--11269698 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11269664 AAGAGCAAAA
11269674 AAAAAAAATAAAC
1 AAAAAAAATAAAC
11269687 AAAAAAAATAAA
1 AAAAAAAATAAA
11269699 AATAAACAAA
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:0.88, C:0.04, G:0.00, T:0.08
Consensus pattern (13 bp):
AAAAAAAATAAAC
Found at i:11270643 original size:121 final size:121
Alignment explanation
Indices: 11270432--11270678 Score: 293
Period size: 121 Copynumber: 2.0 Consensus size: 121
11270422 CTCAGCTTAG
* * * * * * *
11270432 ATCATTGCTTATGACTCATGATTTTATCCCGATCATTTATTTTCAACTTTAATTCGGTCCTGGTC
1 ATCATTGCTTATGACTCATGATTTCATCCCAATCATTTATTTTCAACCTCAACTCAGTCCTAGTC
* * * * *
11270497 GCTTCATTTTTTGACTCGTGGTTTTATCCTGGTCA-CTTGATCTTGGCTC-AGTCCAA
66 ACTTCATTTTTTGACTCATGATTTTATCCTAGTCATC-CGATCTTGGCTCGA-TCCAA
* ** * *
11270553 ATCATTTCTTATGACTTGTGATTTCGTCCCAATCATTTATTTT-GACCTCAACTCAGTCCTAGTC
1 ATCATTGCTTATGACTCATGATTTCATCCCAATCATTTATTTTCAACCTCAACTCAGTCCTAGTC
11270617 ACTTCATTTTTTTGACTCATGATTTTATCCTAGTCATCCGATCTTGGCTCGATCCAA
66 ACTTCA-TTTTTTGACTCATGATTTTATCCTAGTCATCCGATCTTGGCTCGATCCAA
11270674 ATCAT
1 ATCAT
11270679 CTTTTTGACT
Statistics
Matches: 106, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
120 20 0.19
121 84 0.79
122 2 0.02
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.43
Consensus pattern (121 bp):
ATCATTGCTTATGACTCATGATTTCATCCCAATCATTTATTTTCAACCTCAACTCAGTCCTAGTC
ACTTCATTTTTTGACTCATGATTTTATCCTAGTCATCCGATCTTGGCTCGATCCAA
Found at i:11271095 original size:18 final size:18
Alignment explanation
Indices: 11271072--11271120 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
11271062 AAATATTTCA
* *
11271072 TTCTTACGAATTTGAATG
1 TTCTTACGAATCTGAAAG
11271090 TTCTTACGAATCTGAAAG
1 TTCTTACGAATCTGAAAG
*
11271108 TCCTTACGAATCT
1 TTCTTACGAATCT
11271121 TGCATCTCTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (18 bp):
TTCTTACGAATCTGAAAG
Found at i:11271959 original size:3 final size:3
Alignment explanation
Indices: 11271951--11271993 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
11271941 TATAGTTTTA
11271951 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
11271994 TTCCTTAATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:11272292 original size:15 final size:16
Alignment explanation
Indices: 11272264--11272293 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
11272254 TAGGCAGTAC
11272264 TAGGTTTATGAGATTT
1 TAGGTTTATGAGATTT
11272280 TAGGTTT-TGAGATT
1 TAGGTTTATGAGATT
11272294 CTAAAATCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (16 bp):
TAGGTTTATGAGATTT
Found at i:11272764 original size:24 final size:24
Alignment explanation
Indices: 11272737--11272808 Score: 90
Period size: 27 Copynumber: 2.9 Consensus size: 24
11272727 TTTTTCTTTT
11272737 TTCATTTTATTTTTATTTTTTTAA
1 TTCATTTTATTTTTATTTTTTTAA
*
11272761 TTCATTTTGATTTTATTTTATTTTTAA
1 TTCATTTT-ATTTT-TATT-TTTTTAA
* *
11272788 TCCATTTTATTATTATTTTTT
1 TTCATTTTATTTTTATTTTTT
11272809 ATATGATTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
24 12 0.29
25 8 0.20
26 7 0.17
27 14 0.34
ACGTcount: A:0.21, C:0.06, G:0.01, T:0.72
Consensus pattern (24 bp):
TTCATTTTATTTTTATTTTTTTAA
Found at i:11272937 original size:22 final size:21
Alignment explanation
Indices: 11272912--11272952 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
11272902 TAAATAAAGT
11272912 TTTCAAAAGAATAAAAAAAATC
1 TTTCAAAAGAA-AAAAAAAATC
* *
11272934 TTTCAATATAAAAAAAAAA
1 TTTCAAAAGAAAAAAAAAA
11272953 GGGTCTTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.24
Consensus pattern (21 bp):
TTTCAAAAGAAAAAAAAAATC
Found at i:11274102 original size:14 final size:13
Alignment explanation
Indices: 11274075--11274105 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
11274065 TCAAATTTCC
*
11274075 AAAACTTACCAAA
1 AAAAATTACCAAA
11274088 AAAAATTACCAAA
1 AAAAATTACCAAA
11274101 AAAAA
1 AAAAA
11274106 CAGTTCCTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.71, C:0.16, G:0.00, T:0.13
Consensus pattern (13 bp):
AAAAATTACCAAA
Found at i:11274916 original size:11 final size:11
Alignment explanation
Indices: 11274902--11274935 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
11274892 ATTATTAAAA
*
11274902 AATTATTTTTT
1 AATTATTATTT
*
11274913 AATTATTAATT
1 AATTATTATTT
11274924 AATTATTATTT
1 AATTATTATTT
11274935 A
1 A
11274936 TATATATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
AATTATTATTT
Found at i:11274920 original size:22 final size:22
Alignment explanation
Indices: 11274892--11274935 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11274882 CCGACCCGAC
*
11274892 ATTATTAAAAAATTATTTTTTA
1 ATTATTAAAAAATTATTATTTA
**
11274914 ATTATTAATTAATTATTATTTA
1 ATTATTAAAAAATTATTATTTA
11274936 TATATATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTATTAAAAAATTATTATTTA
Found at i:11274952 original size:15 final size:15
Alignment explanation
Indices: 11274932--11274998 Score: 57
Period size: 15 Copynumber: 4.5 Consensus size: 15
11274922 TTAATTATTA
11274932 TTTATATATATATAT
1 TTTATATATATATAT
11274947 TTTATATA-ATAATATT
1 TTTATATATAT-ATA-T
* *
11274963 TTTAAATATTTATAT
1 TTTATATATATATAT
* * *
11274978 TTAAAAAATA-ATAT
1 TTTATATATATATAT
11274992 TTTATAT
1 TTTATAT
11274999 TTTAAAAAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
14 10 0.24
15 19 0.46
16 11 0.27
17 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTATATATATATAT
Found at i:11274997 original size:21 final size:22
Alignment explanation
Indices: 11274967--11275018 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
11274957 AATATTTTTA
11274967 AATA-TTTATA-TTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
11274987 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
11275009 AATATTTTAT
1 AATATTTTAT
11275019 TAATTTCAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 20 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:11276018 original size:33 final size:35
Alignment explanation
Indices: 11275976--11276071 Score: 103
Period size: 33 Copynumber: 2.8 Consensus size: 35
11275966 ATTAGGGTAG
* *
11275976 AAAGCAATTAT-TTCTTTATTAATTTAAAAA-T-AA
1 AAAGTAATTATATT-TTTATTAATTAAAAAAGTAAA
11276009 AAAGTAATTATATTTTTATTAATTAAAAAAGGTAAA
1 AAAGTAATTATATTTTTATTAATTAAAAAA-GTAAA
* *
11276045 AAAGTAATTACA-CTTT-TTAATTAAAAA
1 AAAGTAATTATATTTTTATTAATTAAAAA
11276072 CGTCATTTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
33 25 0.45
34 13 0.24
35 4 0.07
36 13 0.24
ACGTcount: A:0.51, C:0.04, G:0.05, T:0.40
Consensus pattern (35 bp):
AAAGTAATTATATTTTTATTAATTAAAAAAGTAAA
Found at i:11276491 original size:28 final size:28
Alignment explanation
Indices: 11276443--11276496 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
11276433 TATCATTATA
11276443 TTTTAATTTTATTAACTTTTTACAATACT
1 TTTTAATTTTATTAACTTTTTA-AATACT
* *
11276472 TTTTAATTTTGTTGA-TTTTTAAATA
1 TTTTAATTTTATTAACTTTTTAAATA
11276497 AAAATATCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 6 0.26
29 13 0.57
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.61
Consensus pattern (28 bp):
TTTTAATTTTATTAACTTTTTAAATACT
Found at i:11289025 original size:35 final size:36
Alignment explanation
Indices: 11288979--11289099 Score: 109
Period size: 35 Copynumber: 3.2 Consensus size: 36
11288969 AGATTATTAA
*
11288979 TTTAAAGTTTCATTGCCTCTGGTCAGAGGAG-TTTT
1 TTTAAAATTTCATTGCCTCTGGTCAGAGGAGCTTTT
* *
11289014 TTTAAAATTTCATTGCTTTTTGGTCAGAGGAGCCTTTT
1 TTTAAAATTTCATTGC-CTCTGGTCAGAGGAG-CTTTT
* * * *
11289052 AAATTCAAAGTTTCATAGCCTCTGGTTAGAGGAGCTTTAAT
1 ---TTTAAAATTTCATTGCCTCTGGTCAGAGGAGCTTT--T
11289093 TTTAAAA
1 TTTAAAA
11289100 GGCTTTGGTT
Statistics
Matches: 67, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
35 15 0.22
36 13 0.19
38 9 0.13
39 4 0.06
40 12 0.18
41 14 0.21
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.41
Consensus pattern (36 bp):
TTTAAAATTTCATTGCCTCTGGTCAGAGGAGCTTTT
Found at i:11289233 original size:41 final size:42
Alignment explanation
Indices: 11289208--11289504 Score: 120
Period size: 41 Copynumber: 7.6 Consensus size: 42
11289198 GCTTTCGGTT
11289208 AAAGGAGCCTTTT-AAATTTTAAAGTTTCATTGCCTCTAGTC
1 AAAGGAGCCTTTTAAAATTTTAAAGTTTCATTGCCTCTAGTC
* * * * *
11289249 AGAGGAGCCTTTTAAAATTTT-AAGCTTTCAGTACTTCTGGTC
1 AAAGGAGCCTTTTAAAATTTTAAAG-TTTCATTGCCTCTAGTC
* * *
11289291 AGATGAG-C---T---A-TTTAAAGTTTCATAGCCT-TAGGTC
1 AAAGGAGCCTTTTAAAATTTTAAAGTTTCATTGCCTCTA-GTC
** * * *
11289325 AAAAAAG-CTTTTTAAATTTTAAAAGGTT-AGTGCCTCTAGTC
1 AAAGGAGCCTTTTAAAATTTT-AAAGTTTCATTGCCTCTAGTC
* * * * * *
11289366 AGAGGAGCC-------A-TTTAAAGTTTTATAGCCTTTGGTT
1 AAAGGAGCCTTTTAAAATTTTAAAGTTTCATTGCCTCTAGTC
* * * * *
11289400 AGATGAG-CTTTTTAAATTTTAAAGTTTCATTACCTCTAATC
1 AAAGGAGCCTTTTAAAATTTTAAAGTTTCATTGCCTCTAGTC
* * *
11289441 AAAGGAACCTTTT-AAA-TTTAAAGTTTCATTGCCTTTGGTC
1 AAAGGAGCCTTTTAAAATTTTAAAGTTTCATTGCCTCTAGTC
** * *
11289481 AAAATAGTCTTTTAAATTTTTAAA
1 AAAGGAGCCTTTTAAAATTTTAAA
11289505 AATTGTTGAG
Statistics
Matches: 184, Mismatches: 46, Indels: 51
0.65 0.16 0.18
Matches are distributed among these distances:
33 8 0.04
34 35 0.19
35 5 0.03
37 1 0.01
38 1 0.01
40 31 0.17
41 57 0.31
42 46 0.25
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.39
Consensus pattern (42 bp):
AAAGGAGCCTTTTAAAATTTTAAAGTTTCATTGCCTCTAGTC
Found at i:11289292 original size:42 final size:42
Alignment explanation
Indices: 11289210--11289306 Score: 110
Period size: 42 Copynumber: 2.3 Consensus size: 42
11289200 TTTCGGTTAA
* *
11289210 AGGAGCCTTTT-AAATTTTAAAGTTTCATTGCCTCTAGTCAG
1 AGGAGCCTTTTAAAATTTTAAAGTTTCAGTACCTCTAGTCAG
* *
11289251 AGGAGCCTTTTAAAATTTT-AAGCTTTCAGTACTTCTGGTCAG
1 AGGAGCCTTTTAAAATTTTAAAG-TTTCAGTACCTCTAGTCAG
*
11289293 ATGAG-CTATTTAAA
1 AGGAGCCT-TTTAAA
11289307 GTTTCATAGC
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
41 16 0.33
42 32 0.67
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (42 bp):
AGGAGCCTTTTAAAATTTTAAAGTTTCAGTACCTCTAGTCAG
Found at i:11289436 original size:75 final size:75
Alignment explanation
Indices: 11289225--11289500 Score: 225
Period size: 75 Copynumber: 3.6 Consensus size: 75
11289215 CCTTTTAAAT
* * * * * * *
11289225 TTTAAAGTTTCATTGCCTCTAGTCAGAGGAGCCTTTTAAAATTTT-AAGCTTTCAGTACTTCTGG
1 TTTAAAGTTTCATAGCCTTTGGTCAGAAGAG-CTTTTTAAATTTTAAAG-TTTCAGTACCTCTAG
* *
11289289 TCAGATGAGCTA
64 TCAGAGGAGCCA
* * * * *
11289301 TTTAAAGTTTCATAGCCTTAGGTCAAAAAAGCTTTTTAAATTTTAAAAGGTT-AGTGCCTCTAGT
1 TTTAAAGTTTCATAGCCTTTGGTCAGAAGAGCTTTTTAAATTTT-AAAGTTTCAGTACCTCTAGT
11289365 CAGAGGAGCCA
65 CAGAGGAGCCA
* * * * *
11289376 TTTAAAGTTTTATAGCCTTTGGTTAGATGAGCTTTTTAAATTTTAAAGTTTCATTACCTCTAATC
1 TTTAAAGTTTCATAGCCTTTGGTCAGAAGAGCTTTTTAAATTTTAAAGTTTCAGTACCTCTAGTC
* *
11289441 AAAGGAACCTTTTAAA
66 AGAGGAGCC------A
* * *
11289457 TTTAAAGTTTCATTGCCTTTGGTCAAAATAG-TCTTTTAAATTTT
1 TTTAAAGTTTCATAGCCTTTGGTCAGAAGAGCT-TTTTAAATTTT
11289501 TAAAAATTGT
Statistics
Matches: 158, Mismatches: 32, Indels: 15
0.77 0.16 0.07
Matches are distributed among these distances:
74 6 0.04
75 85 0.54
76 26 0.16
77 3 0.02
80 1 0.01
81 37 0.23
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (75 bp):
TTTAAAGTTTCATAGCCTTTGGTCAGAAGAGCTTTTTAAATTTTAAAGTTTCAGTACCTCTAGTC
AGAGGAGCCA
Found at i:11290348 original size:23 final size:21
Alignment explanation
Indices: 11290317--11290358 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
11290307 AAATCAAAAT
11290317 GATTGTTTAAAAAATTTTTTGAA
1 GATTGTTT--AAAATTTTTTGAA
*
11290340 GATTTTTTAAAATTTTTTG
1 GATTGTTTAAAATTTTTTG
11290359 GGTCACCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
23 7 0.39
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (21 bp):
GATTGTTTAAAATTTTTTGAA
Found at i:11290756 original size:28 final size:26
Alignment explanation
Indices: 11290716--11290774 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 26
11290706 TTTTTTCTTT
*
11290716 TTTTTATTTTTTCTTTTTTGTT-TTGA
1 TTTTTATTTTTTCTTTTATGTTGTT-A
11290742 TTTTTATTTTATTTCTTTTATGTTGTTA
1 TTTTTA-TTT-TTTCTTTTATGTTGTTA
11290770 TTTTT
1 TTTTT
11290775 TATGATATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 6 0.21
27 3 0.10
28 18 0.62
29 2 0.07
ACGTcount: A:0.10, C:0.03, G:0.07, T:0.80
Consensus pattern (26 bp):
TTTTTATTTTTTCTTTTATGTTGTTA
Found at i:11290786 original size:3 final size:3
Alignment explanation
Indices: 11290780--11290814 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
11290770 TTTTTTATGA
*
11290780 TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11290815 GTTATTACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:11291341 original size:3 final size:3
Alignment explanation
Indices: 11291333--11291371 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
11291323 AATTTATTTA
11291333 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11291372 CAATTATTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11293714 original size:132 final size:130
Alignment explanation
Indices: 11293389--11293866 Score: 396
Period size: 132 Copynumber: 3.6 Consensus size: 130
11293379 TTGTAATGAT
* * * ** * * **
11293389 TTTTCAATGTCATTACTTAAGTTATTTTTAAATCTTTTATGCAATGACAAAAAAGTTGTTATGAA
1 TTTTCAATGTCATTGCTTAAGTTATTTTTTAATATTTTACACAATGACAAAATAGTAGTTACAAA
* * * * *
11293454 AAATTGTATTATATTTGTAATGAAC-ATAAGAAGTTGTTG--TAAATACTTTTTTGATTTGCAAC
66 AAATTTTATTATATTTGTAA-CAACAAAAAAAAGTTGTTGCATAAA-AC-TTTTTAATTTGCAAC
11293516 AAA
128 AAA
* * * **
11293519 TTTTCAAAGTCATTGCTTAAATTATGTTTTAATATTTTACACAGCGACAAACGA-AGTTA-TTAC
1 TTTTCAATGTCATTGCTTAAGTTATTTTTTAATATTTTACACAATGACAAA--ATAG-TAGTTAC
* *
11293582 AAAAAATTTTATAATATTTGTAACAACAAAAAAAAGTTGTTGCATAAAACTTGTTTAATTTACAA
63 AAAAAATTTTATTATATTTGTAACAACAAAAAAAAGTTGTTGCATAAAACTT-TTTAATTTGCAA
* *
11293647 CCAT
127 CAAA
* * *
11293651 TTTTCAATGTCATTGCTTAAGTTATTTTTTAATATTTTATACAATGATAAATATTGTAGTTACAA
1 TTTTCAATGTCATTGCTTAAGTTATTTTTTAATATTTTACACAATGACAAA-ATAGTAGTTACAA
** * * ** * * *
11293716 AAGCTTTTATTATATTTGTAACGATAAAAACTTA-TTGTTGCA-AAAACTTATTATATTTGTAAT
65 AAAATTTTATTATATTTGTAACAACAAAAA-AAAGTTGTTGCATAAAACTTTTTA-ATTTGCAAC
*
11293779 GAA
128 AAA
* * * * *
11293782 TTTTCAATGTCGTTGCTTAA-TTATTTTTTTTAATATTTTACACAATGATAAAAAATTTGTTACA
1 TTTTCAATGTCATTGCTTAAGTTA--TTTTTTAATATTTTACACAATGACAAAATAGTAGTTACA
** *
11293846 AAACTTTTTATCATATTTGTA
64 AAAAATTTTATTATATTTGTA
11293867 TTGATAAAAA
Statistics
Matches: 282, Mismatches: 53, Indels: 25
0.78 0.15 0.07
Matches are distributed among these distances:
130 50 0.18
131 101 0.36
132 126 0.45
133 5 0.02
ACGTcount: A:0.37, C:0.09, G:0.10, T:0.44
Consensus pattern (130 bp):
TTTTCAATGTCATTGCTTAAGTTATTTTTTAATATTTTACACAATGACAAAATAGTAGTTACAAA
AAATTTTATTATATTTGTAACAACAAAAAAAAGTTGTTGCATAAAACTTTTTAATTTGCAACAAA
Found at i:11293847 original size:263 final size:262
Alignment explanation
Indices: 11293387--11293866 Score: 558
Period size: 263 Copynumber: 1.8 Consensus size: 262
11293377 ATTTGTAATG
* * * *
11293387 ATTTTTCAATGTCATTACTTAAGTTATTTTTAAATCTTTTATGCAATGACAAAAAAGTTGTTATG
1 ATTTTTCAATGTCATTACTTAAGTTATTTTTAAATATTTTATACAATGACAAAAAAGTAGTTATC
* * * * *
11293452 AAAAATTGTATTATATTTGTAATGAACATAAGAAGTTGTTGTAAATACTTTTTTGATTTGCAACA
66 AAAAATTGTATTATATTTGTAACGAACAAAAGAAGTTGTTGCAAAAACTTTTATGATTTGCAACA
* *
11293517 AATTTTCAAAGTCATTGCTTAAATTATGTTTTAATATTTTACACAGCGACAAACGAAGTTATTAC
131 AATTTTCAAAGTCATTGCTTAAATTATGTTTTAATATTTTACACAACGACAAACAAAGTTATTAC
11293582 AAAAAATTTTATAATATTTGTAACAACAAAAAAAAGTTGTTGCATAAAACTTGTTTAATTTACAA
196 AAAAAATTTTATAATATTTGTAACAACAAAAAAAAGTTGTTGCATAAAACTTGTTTAATTTACAA
11293647 CC
261 CC
* * * **
11293649 ATTTTTCAATGTCATTGCTTAAGTTATTTTTTAATATTTTATACAATGATAAATATTGTAGTTA-
1 ATTTTTCAATGTCATTACTTAAGTTATTTTTAAATATTTTATACAATGACAAA-AAAGTAGTTAT
* * **
11293713 CAAAAGCTTTTATTATATTTGTAACGATA-AAAACTTA-TTGTTGCAAAAACTTATTAT-ATTTG
65 CAAAA-ATTGTATTATATTTGTAACGA-ACAAAA-GAAGTTGTTGCAAAAACTT-TTATGATTTG
* ** * * * * * *
11293775 TAATGAATTTTCAATGTCGTTGCTT-AATTATTTTTTTTAATATTTTACACAATGATAAA-AAAT
126 CAACAAATTTTCAAAGTCATTGCTTAAATTA--TGTTTTAATATTTTACACAACGACAAACAAAG
* ** *
11293838 TTGTTACAAAACTTTTTATCATATTTGTA
189 TTATTACAAAAAATTTTATAATATTTGTA
11293867 TTGATAAAAA
Statistics
Matches: 178, Mismatches: 33, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
262 57 0.32
263 93 0.52
264 28 0.16
ACGTcount: A:0.38, C:0.09, G:0.10, T:0.44
Consensus pattern (262 bp):
ATTTTTCAATGTCATTACTTAAGTTATTTTTAAATATTTTATACAATGACAAAAAAGTAGTTATC
AAAAATTGTATTATATTTGTAACGAACAAAAGAAGTTGTTGCAAAAACTTTTATGATTTGCAACA
AATTTTCAAAGTCATTGCTTAAATTATGTTTTAATATTTTACACAACGACAAACAAAGTTATTAC
AAAAAATTTTATAATATTTGTAACAACAAAAAAAAGTTGTTGCATAAAACTTGTTTAATTTACAA
CC
Found at i:11293862 original size:131 final size:129
Alignment explanation
Indices: 11293376--11294007 Score: 386
Period size: 131 Copynumber: 4.8 Consensus size: 129
11293366 AACCTTGTTT
* * * * * ** *
11293376 TATTTGTAATGATTTTTCAATGTCATTACTTAAGTTA-TTTTTAAATCTTTTATGCAATGACAAA
1 TATTTGTAATAATTTTTCAATGTCGTTGCTTAA-TTATTTTTTTAATATTTTACACAATGATAAA
* * * * * * ** * * *
11293440 AAAGTTGTTATGAAAA-ATTGTATTATATTTGTAATGA-ACATAAGAAGTTGTTGTAAATACT-T
65 AAATTTGTTA-CAAAACTTTTTATCATATTTGTAATGATA-AAAATTA-TTGTTGCAAAAACTCA
*
11293502 TTT
127 TTA
* * * * * * ** *
11293505 TGATTTGCAACAAATTTTCAAAGTCATTGCTTAAATTA-TGTTTTAATATTTTACACAGCGACAA
1 T-ATTTGTAATAATTTTTCAATGTCGTTGCTT-AATTATTTTTTTAATATTTTACACAATGATAA
* * * ** * ** * ** *
11293569 ACGAAGTTATTACAAAAAATTTTATAATATTTGTAACAACAAAAAAAAGTTGTTGCATAAAACTT
64 A-AAATTTGTTACAAAACTTTTTATCATATTTGTAATGATAAAAATTA-TTGTTGCA-AAAACTC
*
11293634 GTT-
126 ATTA
** ** * *
11293637 TAATTTACAACCATTTTTCAATGTCATTGCTTAAGTTA-TTTTTTAATATTTTATACAATGAT-A
1 T-ATTTGTAATAATTTTTCAATGTCGTTGCTTAA-TTATTTTTTTAATATTTTACACAATGATAA
* * *
11293700 AATATTGTAGTTACAAAAGC-TTTTATTATATTTGTAACGATAAAAACTTATTGTTGCAAAAACT
64 AAAATT-T-GTTACAAAA-CTTTTTATCATATTTGTAATGATAAAAA-TTATTGTTGCAAAAACT
*
11293764 TATTA
125 CATTA
11293769 TATTTGTAATGAA-TTTTCAATGTCGTTGCTTAATTATTTTTTTTAATATTTTACACAATGATAA
1 TATTTGTAAT-AATTTTTCAATGTCGTTGCTTAATTA-TTTTTTTAATATTTTACACAATGATAA
* *** *
11293833 AAAATTTGTTACAAAACTTTTTATCATATTTGTATTGATAAAAATTATTGTTGTTCAAACTCGTT
64 AAAATTTGTTACAAAACTTTTTATCATATTTGTAATGATAAAAATTATTGTTGCAAAAACTCATT
*
11293898 T
129 A
* * * ** * * *
11293899 TATTTGTAATAATTTTTTATTGTTGTTGCTTAATTTAAATTTTTAATATTTTAGACAAGGACAAA
1 TATTTGTAATAATTTTTCAATGTCGTTGCTTAA-TTATTTTTTTAATATTTTACACAATGA-TAA
* * *
11293964 AAAAATTGTTACGAAAA-TATTTATCATATTTATAATGATAAAAA
64 AAAATTTGTTAC-AAAACTTTTTATCATATTTGTAATGATAAAAA
11294008 GAATTACAAA
Statistics
Matches: 407, Mismatches: 74, Indels: 42
0.78 0.14 0.08
Matches are distributed among these distances:
129 3 0.01
130 120 0.29
131 151 0.37
132 124 0.30
133 9 0.02
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (129 bp):
TATTTGTAATAATTTTTCAATGTCGTTGCTTAATTATTTTTTTAATATTTTACACAATGATAAAA
AATTTGTTACAAAACTTTTTATCATATTTGTAATGATAAAAATTATTGTTGCAAAAACTCATTA
Found at i:11297831 original size:16 final size:17
Alignment explanation
Indices: 11297804--11297842 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
11297794 CAAACTATGT
11297804 AACTTGTGAGAAATCCA
1 AACTTGTGAGAAATCCA
*
11297821 AACTT-TGAGAAATTCA
1 AACTTGTGAGAAATCCA
11297837 AACTTG
1 AACTTG
11297843 AATAAATGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.28
Consensus pattern (17 bp):
AACTTGTGAGAAATCCA
Found at i:11298870 original size:10 final size:9
Alignment explanation
Indices: 11298850--11298964 Score: 56
Period size: 9 Copynumber: 12.1 Consensus size: 9
11298840 ATTGTTAGCC
11298850 ATAAAAATA
1 ATAAAAATA
11298859 ATAAAAAGTA
1 ATAAAAA-TA
*
11298869 ATATAACAATG
1 ATA-AA-AATA
*
11298880 ATAACATAAAA
1 ATAA-A-AATA
11298891 ATAAAAA-A
1 ATAAAAATA
*
11298899 TATTAAAATA
1 -ATAAAAATA
11298909 ATAATAATAGTA
1 ATAA-AA-A-TA
11298921 AT-AAAAT-
1 ATAAAAATA
*
11298928 ATAAAAATT
1 ATAAAAATA
*
11298937 ATTAAAATA
1 ATAAAAATA
* *
11298946 ATAATAACA
1 ATAAAAATA
*
11298955 AAAAAAATA
1 ATAAAAATA
11298964 A
1 A
11298965 AAATTAATTA
Statistics
Matches: 81, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
7 2 0.02
8 7 0.09
9 39 0.48
10 12 0.15
11 15 0.19
12 6 0.07
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.25
Consensus pattern (9 bp):
ATAAAAATA
Found at i:11298934 original size:28 final size:27
Alignment explanation
Indices: 11298853--11298972 Score: 75
Period size: 29 Copynumber: 4.3 Consensus size: 27
11298843 GTTAGCCATA
* * *
11298853 AAAATAATAAAAAGTAATATAACAATGAT
1 AAAATAATAATAA--AATATAAAAATAAT
* * *
11298882 AACATAAAAATAAAAAATATTAAAATAAT
1 AAAATAATAAT--AAAATATAAAAATAAT
* *
11298911 AATAATAGTAATAAAATATAAAAATTATT
1 AA-AATAATAATAAAATATAAAAA-TAAT
11298940 AAAATAATAATAACAA-A-AAAAATAA-
1 AAAATAATAATAA-AATATAAAAATAAT
*
11298965 AAATTAAT
1 AAAATAAT
11298973 TATTTAAAAA
Statistics
Matches: 72, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
25 7 0.10
26 2 0.03
27 5 0.07
28 22 0.31
29 28 0.39
30 6 0.08
31 2 0.03
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (27 bp):
AAAATAATAATAAAATATAAAAATAAT
Found at i:11298962 original size:35 final size:33
Alignment explanation
Indices: 11298852--11298967 Score: 108
Period size: 37 Copynumber: 3.4 Consensus size: 33
11298842 TGTTAGCCAT
* * * * * *
11298852 AAAAATAATAAAAAGTAATATAACAATGATAAC
1 AAAAAAAATAAAAAATATTAAAATAATAATAAC
* *
11298885 -ATAAAAATAAAAAATATTAAAATAATAATAAT
1 AAAAAAAATAAAAAATATTAAAATAATAATAAC
*
11298917 AGTAATAAAATATAAAAATTATTAAAATAATAATAAC
1 A--AA-AAAA-ATAAAAAATATTAAAATAATAATAAC
11298954 AAAAAAAATAAAAA
1 AAAAAAAATAAAAA
11298968 TTAATTATTT
Statistics
Matches: 67, Mismatches: 11, Indels: 10
0.76 0.12 0.11
Matches are distributed among these distances:
32 24 0.36
33 7 0.10
34 4 0.06
35 3 0.04
36 4 0.06
37 25 0.37
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (33 bp):
AAAAAAAATAAAAAATATTAAAATAATAATAAC
Found at i:11298974 original size:37 final size:36
Alignment explanation
Indices: 11298887--11298981 Score: 106
Period size: 37 Copynumber: 2.6 Consensus size: 36
11298877 ATGATAACAT
*
11298887 AAAAAT-AAAAAA-TATTAAAATAATAATAATAGTAA
1 AAAAATAAAAAAATTATTAAAATAATAATAACAG-AA
* *
11298922 TAAAATATAAAAATTATTAAAATAATAATAACA-AA
1 AAAAATAAAAAAATTATTAAAATAATAATAACAGAA
11298957 AAAAATAAAAATTAATTATTTAAAA
1 AAAAATAAAAA--AATTA-TTAAAA
11298982 AATGGGTTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
35 16 0.32
36 5 0.10
37 23 0.46
38 6 0.12
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.28
Consensus pattern (36 bp):
AAAAATAAAAAAATTATTAAAATAATAATAACAGAA
Found at i:11299400 original size:359 final size:358
Alignment explanation
Indices: 11298723--11299440 Score: 1115
Period size: 359 Copynumber: 2.0 Consensus size: 358
11298713 ATGCTTGAAG
*
11298723 ATAAGGCCCAATATGAACCCCATAGTAAAGCTCATTGCATTGGCTCAAATAATACCTCAAATGGC
1 ATAAGGCCCAATATGAACCCCATAGTAAAGCCCATTGCATTGGCTCAAATAATACCTCAAATGGC
*
11298788 CCAATAAAAGGCCCGATAAAAAAATTTTCTTTTTAAAACTCATTAATGGCCTATTGTTAGCCATA
66 CCAATAAAAGGCCCGATAAAAAAATTTTCTTTTTAAAACTCATTAATGACCTATTGTTAGCCATA
*
11298853 AAAATAATAAAAAGTAATATAACAATGATAACATAAAAATAAAAAATATTAAAATAATAATAATA
131 AAAATAATAAAAAATAATATAACAATGATAACATAAAAATAAAAAATATTAAAATAATAATAATA
11298918 GTAATAAAATATAAAAATTATTAAAATAATAATAACAAAAAAAATAAAAATTAATTATTTAAAAA
196 GTAATAAAATATAAAAATTATTAAAATAATAATAAC-AAAAAAATAAAAATTAATTATTTAAAAA
11298983 ATGGGTTTAGCCCAAAATGAAATTGTGAGGGCCTAATTGAAGCTAAAGTAAAAAAAAAAAAAAAA
260 ATGGGTTTAGCCCAAAATGAAATTGTGAGGGCCTAATTGAAGCTAAAGTAAAAAAAAAAAAAAAA
11299048 AAGGAAAACCCATAATCAAGATAAAGCCCAAAAA
325 AAGGAAAACCCATAATCAAGATAAAGCCCAAAAA
* * * * * * *
11299082 ATAAGGCCCAATATGGACTCTATAGTGAAA-CCCATTGCATTGGCTCGAGTAATACTTGAAATGG
1 ATAAGGCCCAATATGAACCCCATAGT-AAAGCCCATTGCATTGGCTCAAATAATACCTCAAATGG
* ** * *
11299146 TCCAATAAAAGGCTTGAT-AAAAAATTTTCTTTTTAAAGCTCATTAATGATCTATTGTTAGCCAT
65 CCCAATAAAAGGCCCGATAAAAAAATTTTCTTTTTAAAACTCATTAATGACCTATTGTTAGCCA-
* * * *
11299210 TAAAAATAGTAAAAAATAATATAATAATGATAACATAAAAATAAAAATTATTAAGATAATAATAA
129 TAAAAATAATAAAAAATAATATAACAATGATAACATAAAAATAAAAAATATTAAAATAATAATAA
11299275 TAGTAATAAAATATAAAAATTATTAAAATAATAATAAC-AAAAAATAAAAATTAATTATTTAAAA
194 TAGTAATAAAATATAAAAATTATTAAAATAATAATAACAAAAAAATAAAAATTAATTATTTAAAA
* **
11299339 AATGGGTTTGGCCCAAAATGAAATTGTGA-GGCCTAATTGAAGCTAAAGT--AAAACGAAAAAAA
259 AATGGGTTTAGCCCAAAATGAAATTGTGAGGGCCTAATTGAAGCTAAAGTAAAAAAAAAAAAAAA
** * * *
11299401 AATTGAAAACCCATAGTCATGACAAAGCCCAAAATA
324 AAAGGAAAACCCATAATCAAGATAAAGCCCAAAA-A
11299437 ATAA
1 ATAA
11299441 AAATAATAAT
Statistics
Matches: 329, Mismatches: 27, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
354 40 0.12
355 5 0.02
356 20 0.06
357 54 0.16
358 42 0.13
359 165 0.50
360 3 0.01
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.26
Consensus pattern (358 bp):
ATAAGGCCCAATATGAACCCCATAGTAAAGCCCATTGCATTGGCTCAAATAATACCTCAAATGGC
CCAATAAAAGGCCCGATAAAAAAATTTTCTTTTTAAAACTCATTAATGACCTATTGTTAGCCATA
AAAATAATAAAAAATAATATAACAATGATAACATAAAAATAAAAAATATTAAAATAATAATAATA
GTAATAAAATATAAAAATTATTAAAATAATAATAACAAAAAAATAAAAATTAATTATTTAAAAAA
TGGGTTTAGCCCAAAATGAAATTGTGAGGGCCTAATTGAAGCTAAAGTAAAAAAAAAAAAAAAAA
AGGAAAACCCATAATCAAGATAAAGCCCAAAAA
Found at i:11301097 original size:7 final size:7
Alignment explanation
Indices: 11301085--11301111 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
11301075 AGATCAATTA
11301085 TTTCAAG
1 TTTCAAG
11301092 TTTCAAG
1 TTTCAAG
11301099 TTTCAAG
1 TTTCAAG
11301106 TTTCAA
1 TTTCAA
11301112 CCATTCAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (7 bp):
TTTCAAG
Found at i:11301527 original size:19 final size:20
Alignment explanation
Indices: 11301498--11301538 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
11301488 TTAGGCACGT
11301498 GGAGAGATTGGATGGGGTGG
1 GGAGAGATTGGATGGGGTGG
* *
11301518 GGAG-GATTGGGTGTGGTGG
1 GGAGAGATTGGATGGGGTGG
11301537 GG
1 GG
11301539 TGTTGGGGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.15, C:0.00, G:0.63, T:0.22
Consensus pattern (20 bp):
GGAGAGATTGGATGGGGTGG
Found at i:11307769 original size:3 final size:3
Alignment explanation
Indices: 11307744--11307785 Score: 50
Period size: 3 Copynumber: 13.7 Consensus size: 3
11307734 CATAAAAATA
*
11307744 AAT AAT AGT AA- AAGT AAT GAAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA-T AAT -AAT AAT AAT AAT AAT AAT AAT AA
11307786 AAGTTTTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 2 0.06
3 27 0.79
4 5 0.15
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:11308115 original size:19 final size:19
Alignment explanation
Indices: 11308074--11308130 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
11308064 ATGAAATTCA
* *
11308074 AAACCCTATGTGAAACCCT
1 AAACCCTAAGTGAAACCCG
*
11308093 AAACCCTAAGTGAAGCCCG
1 AAACCCTAAGTGAAACCCG
* *
11308112 AAACACTTAGATGAAACCC
1 AAACCCTAAG-TGAAACCC
11308131 TTAGATGAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 24 0.77
20 7 0.23
ACGTcount: A:0.40, C:0.30, G:0.14, T:0.16
Consensus pattern (19 bp):
AAACCCTAAGTGAAACCCG
Found at i:11308133 original size:13 final size:13
Alignment explanation
Indices: 11308111--11308142 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
11308101 AGTGAAGCCC
*
11308111 GAAACACTTAGAT
1 GAAACCCTTAGAT
11308124 GAAACCCTTAGAT
1 GAAACCCTTAGAT
11308137 GAAACC
1 GAAACC
11308143 ATAAATCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.44, C:0.22, G:0.16, T:0.19
Consensus pattern (13 bp):
GAAACCCTTAGAT
Found at i:11308158 original size:19 final size:19
Alignment explanation
Indices: 11308129--11308177 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
11308119 TAGATGAAAC
*
11308129 CCTTAGATGAAACCATAAA
1 CCTTAGGTGAAACCATAAA
* *
11308148 TCTTAGGTGAAACCTTAAA
1 CCTTAGGTGAAACCATAAA
11308167 CCTTAGGTGAA
1 CCTTAGGTGAA
11308178 GTCCAAGTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (19 bp):
CCTTAGGTGAAACCATAAA
Found at i:11308362 original size:17 final size:18
Alignment explanation
Indices: 11308334--11308368 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
11308324 TTTCATATTT
*
11308334 TAAAATAATAAAATTAAA
1 TAAAATAATAAAAATAAA
11308352 TAAAA-AATAAAAATAAA
1 TAAAATAATAAAAATAAA
11308369 ATAAGATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (18 bp):
TAAAATAATAAAAATAAA
Found at i:11308370 original size:18 final size:18
Alignment explanation
Indices: 11308334--11308372 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
11308324 TTTCATATTT
*
11308334 TAAAATAATAAAATTAAA
1 TAAAATAATAAAATAAAA
11308352 TAAAA-AATAAAAATAAAA
1 TAAAATAAT-AAAATAAAA
11308370 TAA
1 TAA
11308373 GATTTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (18 bp):
TAAAATAATAAAATAAAA
Found at i:11312797 original size:17 final size:17
Alignment explanation
Indices: 11312775--11312809 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
11312765 AGGGTTTGAA
11312775 TAATTTA-AGGTTTAAGG
1 TAATTTAGA-GTTTAAGG
11312792 TAATTTAGAGTTTAAGG
1 TAATTTAGAGTTTAAGG
11312809 T
1 T
11312810 TGACTTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.94
18 1 0.06
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.43
Consensus pattern (17 bp):
TAATTTAGAGTTTAAGG
Found at i:11321585 original size:16 final size:16
Alignment explanation
Indices: 11321566--11321599 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11321556 AAAAAAAATT
*
11321566 TTTTGTTTTCTTCAAA
1 TTTTATTTTCTTCAAA
*
11321582 TTTTATTTTCTTGAAA
1 TTTTATTTTCTTCAAA
11321598 TT
1 TT
11321600 ATTTTAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.09, G:0.06, T:0.65
Consensus pattern (16 bp):
TTTTATTTTCTTCAAA
Found at i:11325073 original size:23 final size:23
Alignment explanation
Indices: 11325044--11325098 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
11325034 CATGAGGCGA
11325044 AAAGGAAAAAAAAAAGAAAGAAG
1 AAAGGAAAAAAAAAAGAAAGAAG
* *
11325067 AAAGGAAAAAAAAGAGAAATAAG
1 AAAGGAAAAAAAAAAGAAAGAAG
*
11325090 AAATGAAAA
1 AAAGGAAAA
11325099 GGAAAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (23 bp):
AAAGGAAAAAAAAAAGAAAGAAG
Found at i:11326908 original size:30 final size:30
Alignment explanation
Indices: 11326873--11326933 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
11326863 TATATTTGAG
*
11326873 ATTAATTATCTAAATATCGTTTATAATTGT
1 ATTAATTATCTAAATATCATTTATAATTGT
*
11326903 ATTAATTATCTAAATATCATTTGTAATTGT
1 ATTAATTATCTAAATATCATTTATAATTGT
11326933 A
1 A
11326934 CTATATTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.49
Consensus pattern (30 bp):
ATTAATTATCTAAATATCATTTATAATTGT
Found at i:11328615 original size:30 final size:31
Alignment explanation
Indices: 11328556--11328615 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
11328546 ATTAAAACTC
* * **
11328556 TTTTGTTTTAATTACATTTATTAGGCAAAAG
1 TTTTGTTTAAATTACATTAATTAAACAAAAG
11328587 TTTTGTTTAAATT-CATTAATTAAACAAAA
1 TTTTGTTTAAATTACATTAATTAAACAAAA
11328616 CCATTGTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.47
Consensus pattern (31 bp):
TTTTGTTTAAATTACATTAATTAAACAAAAG
Found at i:11334574 original size:31 final size:30
Alignment explanation
Indices: 11334538--11334611 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 30
11334528 ATTAAAAATC
* *
11334538 TTTTGTTTTAATTACATTTATTAAGCAAAAA
1 TTTTGTTTTAATTACATTAATTAAAC-AAAA
* *
11334569 TTTTG-TTAACATTTCATTAATTAAACAAAA
1 TTTTGTTTTA-ATTACATTAATTAAACAAAA
*
11334599 TTTTATTTTAATT
1 TTTTGTTTTAATT
11334612 GATCATATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
30 14 0.40
31 21 0.60
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.51
Consensus pattern (30 bp):
TTTTGTTTTAATTACATTAATTAAACAAAA
Found at i:11337037 original size:27 final size:29
Alignment explanation
Indices: 11336992--11337059 Score: 79
Period size: 27 Copynumber: 2.4 Consensus size: 29
11336982 CCTCTCAAAT
*
11336992 AATTTATATATATAAATTATT-ATATTATA
1 AATTTATAT-TATAAATTATTAAAATTATA
* *
11337021 AATTTATATTA-ATATTATTAAAATTTTA
1 AATTTATATTATAAATTATTAAAATTATA
11337049 AA-TTATATTAT
1 AATTTATATTAT
11337060 TTTTATATCA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 15 0.44
28 10 0.29
29 9 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (29 bp):
AATTTATATTATAAATTATTAAAATTATA
Found at i:11337060 original size:21 final size:21
Alignment explanation
Indices: 11336995--11337060 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
11336985 CTCAAATAAT
* *
11336995 TTATATATATAAATTAT-TATA
1 TTATAAATTTAAATTATAT-TA
*
11337016 TTATAAATTTATATTAATATTA
1 TTATAAATTTAAATT-ATATTA
11337038 TTA-AAATTTTAAATTATATTA
1 TTATAAA-TTTAAATTATATTA
11337059 TT
1 TT
11337061 TTTATATCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
21 23 0.61
22 14 0.37
23 1 0.03
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTATAAATTTAAATTATATTA
Found at i:11339678 original size:21 final size:20
Alignment explanation
Indices: 11339640--11339677 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11339630 TTAAATATAT
*
11339640 GATAATTTATGTACTTTTAA
1 GATAATTTATATACTTTTAA
11339660 GATAATTTTATATA-TTTT
1 GATAA-TTTATATACTTTT
11339678 TCATTAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.34, C:0.03, G:0.08, T:0.55
Consensus pattern (20 bp):
GATAATTTATATACTTTTAA
Found at i:11340218 original size:20 final size:20
Alignment explanation
Indices: 11340202--11340240 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
11340192 GATAAAATTT
11340202 ACTTAATTAAAATAAAAACC
1 ACTTAATTAAAATAAAAACC
11340222 ACTTAATTAAAATAAAAAC
1 ACTTAATTAAAATAAAAAC
11340241 TAGCATTCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.26
Consensus pattern (20 bp):
ACTTAATTAAAATAAAAACC
Found at i:11342733 original size:23 final size:21
Alignment explanation
Indices: 11342672--11342733 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 21
11342662 AATCATAATC
*
11342672 TTTTATTTTT-AAAA-TTAGA
1 TTTTATTTTTAAAAATTTACA
11342691 TTTTATTTTTGGAAAAATTTAACA
1 TTTTATTTTT--AAAAATTT-ACA
11342715 TTTTTATTTTTAAAAATTT
1 -TTTTATTTTTAAAAATTT
11342734 TCTAGATTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
19 10 0.28
22 4 0.11
23 10 0.28
24 2 0.06
25 10 0.28
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (21 bp):
TTTTATTTTTAAAAATTTACA
Found at i:11343378 original size:21 final size:21
Alignment explanation
Indices: 11343319--11343397 Score: 61
Period size: 25 Copynumber: 3.6 Consensus size: 21
11343309 TTCAAAATAT
*
11343319 TGAATTTTAAAAAAAAAATTAAAA
1 TGAATTTT-AAAAATAAA--AAAA
*
11343343 TTAGATTTTATAAAATAAAAAAA
1 TGA-ATTTTA-AAAATAAAAAAA
**
11343366 TGAATTTTAAAAATTTAAAAA
1 TGAATTTTAAAAATAAAAAAA
*
11343387 T-ATTTTTAAAA
1 TGAATTTTAAAA
11343398 TGTTAAATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
20 9 0.19
21 11 0.23
22 6 0.13
23 6 0.13
24 3 0.06
25 12 0.26
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (21 bp):
TGAATTTTAAAAATAAAAAAA
Found at i:11345414 original size:8 final size:8
Alignment explanation
Indices: 11345390--11345428 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
11345380 AAAGATGAAC
11345390 AATAATAT
1 AATAATAT
*
11345398 TATAA-AT
1 AATAATAT
*
11345405 AAAAATAT
1 AATAATAT
11345413 AATAATAT
1 AATAATAT
11345421 AATAATAT
1 AATAATAT
11345429 GGATATTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
7 5 0.19
8 21 0.81
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
AATAATAT
Found at i:11345931 original size:13 final size:13
Alignment explanation
Indices: 11345907--11345931 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11345897 TATATTTAAT
11345907 ATTATTTTTTATA
1 ATTATTTTTTATA
11345920 ATTATTTTTTAT
1 ATTATTTTTTAT
11345932 TTCATCAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
ATTATTTTTTATA
Found at i:11346029 original size:15 final size:15
Alignment explanation
Indices: 11346011--11346049 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
11346001 ATAATATATT
11346011 TTTTAAATACTTTCA
1 TTTTAAATACTTTCA
* *
11346026 TTTTAAAAATTTTCA
1 TTTTAAATACTTTCA
11346041 -TTTAAATAC
1 TTTTAAATAC
11346050 AGTCTTGCAC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.51
Consensus pattern (15 bp):
TTTTAAATACTTTCA
Found at i:11346623 original size:27 final size:27
Alignment explanation
Indices: 11346593--11346645 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
11346583 ACAAAATAAT
11346593 AATAAGATAAAATAAAATAATATTATA
1 AATAAGATAAAATAAAATAATATTATA
* *
11346620 AATAAGATTAAATTAAATAATATTAT
1 AATAAGATAAAATAAAATAATATTAT
11346646 TTTATTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (27 bp):
AATAAGATAAAATAAAATAATATTATA
Found at i:11347863 original size:63 final size:62
Alignment explanation
Indices: 11347689--11347934 Score: 189
Period size: 63 Copynumber: 3.9 Consensus size: 62
11347679 TAATAAAAAA
* * *
11347689 TATT-AAAAATTATTTAAGATATTTTTTA-TCCAAACATGCCTTAAATAATCTTTTTTAAAATG
1 TATTAAAAAATTATTTAAGATA-TTTTTAGTCCAAAAATGTCTTAAATAAT-TTTTTTAAAATT
* * * ** *
11347751 TATTAAGAGATTATTTAAGGTATTTTTAGTTTAAAAATATCTTAAATAATTTATTTTAAAATT
1 TATTAAAAAATTATTTAAGATATTTTTAGTCCAAAAATGTCTTAAATAATTT-TTTTAAAATT
* * * * * * * *
11347814 TATTAAAAAATTATTTAAGGTGTTTTTGGTCCAAAAACGTTTTAGATAATTCTTTT-CAATT
1 TATTAAAAAATTATTTAAGATATTTTTAGTCCAAAAATGTCTTAAATAATTTTTTTAAAATT
* * * *
11347875 TTTTGAAAAATATTATTTAATATGTTTTTTA-T-AAAAAATG-CTTTAAATAATATTTTTTAA
1 TATT-AAAAA-ATTATTTAAGAT-ATTTTTAGTCCAAAAATGTC-TTAAATAAT-TTTTTTAA
11347935 TTTTTTATCA
Statistics
Matches: 143, Mismatches: 32, Indels: 16
0.75 0.17 0.08
Matches are distributed among these distances:
61 7 0.05
62 35 0.24
63 96 0.67
64 5 0.03
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.48
Consensus pattern (62 bp):
TATTAAAAAATTATTTAAGATATTTTTAGTCCAAAAATGTCTTAAATAATTTTTTTAAAATT
Found at i:11350940 original size:16 final size:16
Alignment explanation
Indices: 11350908--11350939 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11350898 ATATAACACG
11350908 ATAATATAATATAAAA
1 ATAATATAATATAAAA
11350924 ATAATATAA-ATAAAA
1 ATAATATAATATAAAA
11350939 A
1 A
11350940 AATGACATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
ATAATATAATATAAAA
Found at i:11352615 original size:11 final size:11
Alignment explanation
Indices: 11352601--11352626 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
11352591 ATTTAATTTT
11352601 GGCCCAATTAA
1 GGCCCAATTAA
11352612 GGCCCAATTAA
1 GGCCCAATTAA
11352623 GGCC
1 GGCC
11352627 TAATAGGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.31, G:0.23, T:0.15
Consensus pattern (11 bp):
GGCCCAATTAA
Found at i:11353850 original size:10 final size:10
Alignment explanation
Indices: 11353831--11353864 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
11353821 AGGTTCAACT
*
11353831 TTTTGCTTTA
1 TTTTGTTTTA
11353841 TTTTGTTTTA
1 TTTTGTTTTA
*
11353851 TTTTGTTTAA
1 TTTTGTTTTA
11353861 TTTT
1 TTTT
11353865 TTGTTGTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.12, C:0.03, G:0.09, T:0.76
Consensus pattern (10 bp):
TTTTGTTTTA
Found at i:11354406 original size:2 final size:2
Alignment explanation
Indices: 11354401--11354436 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
11354391 TCTTTTTTAA
* *
11354401 AT AT AT AT AA AT AT AT GT 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 AT AT
11354437 GATAATAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:11354413 original size:10 final size:10
Alignment explanation
Indices: 11354398--11354441 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
11354388 GGTTCTTTTT
11354398 TAAATATATA
1 TAAATATATA
*
11354408 TAAATATATG
1 TAAATATATA
*
11354418 TATATATATA
1 TAAATATATA
*
11354428 TATATATATGA
1 TAAATATAT-A
11354439 TAA
1 TAA
11354442 TAAAATCATG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
10 26 0.90
11 3 0.10
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (10 bp):
TAAATATATA
Found at i:11357452 original size:131 final size:131
Alignment explanation
Indices: 11357091--11357456 Score: 418
Period size: 132 Copynumber: 2.8 Consensus size: 131
11357081 GATAAAATTC
* * * * *
11357091 ATAGAATTCAAGAAGAAGAATGATAAAGTTGAATAAAAGAGCAAAAAAAGAAAAATATGCACCTC
1 ATAGAATTCAGGAAGAAGAATGTTAAAGTTGAAAAAAAGAGCAAAGAAAGAAAAATATGCACCTT
* ** *
11357156 GGAGATAAGAGTCCAA-GCAAAAAGTGAATAAAAGCTCAAGTTAGAATCTCAAGTAAAAAAAAAA
66 AGAGATAAGAGTCCAAGGCAAAAAGTGAAT-AAAGCTTTAGTTAGAATCCCAAGTAAAAAAAAAA
11357220 AG
130 AG
* * * * * *
11357222 ATAGAATTCATGAAAGAAGAATGTTAGAGTTGAAGAAACGAGCAAAGAAAGAAAGACATGCACCT
1 ATAGAATTCA-GGAAGAAGAATGTTAAAGTTGAAAAAAAGAGCAAAGAAAGAAAAATATGCACCT
* * * * * *
11357287 TAGAGATAAGAGTTC-GGGTTAAAAAGTTATTAAAGCTTTAGTTAGAATCCCAAGTTAAAAAAAA
65 TAGAGATAAGAGTCCAAGG-CAAAAAGTGAATAAAGCTTTAGTTAGAATCCCAAGTAAAAAAAAA
11357351 AAG
129 AAG
* * * *
11357354 ATAGAATTCAGGAA-AA-AATGTTAAAGTTGAAAAAAAAAAAGCAAAGAAAGAAATATGTGCACT
1 ATAGAATTCAGGAAGAAGAATGTTAAAGTTG--AAAAAAAGAGCAAAGAAAGAAAAATATGCACC
*
11357417 TTAGAGATAAGAGTCCAAGGCAAAAAATGAATAAAG-TTTA
64 TTAGAGATAAGAGTCCAAGGCAAAAAGTGAATAAAGCTTTA
11357457 AGTACAAAAA
Statistics
Matches: 194, Mismatches: 35, Indels: 13
0.80 0.14 0.05
Matches are distributed among these distances:
129 12 0.06
130 6 0.03
131 65 0.34
132 102 0.53
133 9 0.05
ACGTcount: A:0.52, C:0.09, G:0.19, T:0.19
Consensus pattern (131 bp):
ATAGAATTCAGGAAGAAGAATGTTAAAGTTGAAAAAAAGAGCAAAGAAAGAAAAATATGCACCTT
AGAGATAAGAGTCCAAGGCAAAAAGTGAATAAAGCTTTAGTTAGAATCCCAAGTAAAAAAAAAAA
G
Found at i:11358247 original size:16 final size:16
Alignment explanation
Indices: 11358226--11358257 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11358216 TATCGATCAC
11358226 CCCATCCACAAGCATT
1 CCCATCCACAAGCATT
11358242 CCCATCCACAAGCATT
1 CCCATCCACAAGCATT
11358258 TCAAATACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.44, G:0.06, T:0.19
Consensus pattern (16 bp):
CCCATCCACAAGCATT
Found at i:11360783 original size:22 final size:22
Alignment explanation
Indices: 11360751--11360856 Score: 83
Period size: 22 Copynumber: 4.8 Consensus size: 22
11360741 CAAAACCCCG
*
11360751 AGGCATGATCTTCAAGACCTTC
1 AGGCATAATCTTCAAGACCTTC
*
11360773 AGGCATAATCTCTAAAG-CC-TC
1 AGGCATAATCT-TCAAGACCTTC
* * *
11360794 CGAGCATAATC-TCTAAGACTTTT
1 AG-GCATAATCTTC-AAGACCTTC
* *
11360817 AGGTATAATCTTCAAGACCTTT
1 AGGCATAATCTTCAAGACCTTC
* *
11360839 AGGTATAATCTTTAAGAC
1 AGGCATAATCTTCAAGAC
11360857 ATCTGGGTAT
Statistics
Matches: 68, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
20 1 0.01
21 6 0.09
22 53 0.78
23 8 0.12
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (22 bp):
AGGCATAATCTTCAAGACCTTC
Found at i:11360865 original size:22 final size:22
Alignment explanation
Indices: 11360799--11360875 Score: 100
Period size: 22 Copynumber: 3.5 Consensus size: 22
11360789 GCCTCCGAGC
* *
11360799 ATAATCTCTAAGACTTTTAGGT
1 ATAATCTTTAAGACATTTAGGT
* *
11360821 ATAATCTTCAAGACCTTTAGGT
1 ATAATCTTTAAGACATTTAGGT
* *
11360843 ATAATCTTTAAGACATCTGGGT
1 ATAATCTTTAAGACATTTAGGT
11360865 ATAATCTTTAA
1 ATAATCTTTAA
11360876 AATCTCTAGG
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (22 bp):
ATAATCTTTAAGACATTTAGGT
Done.