Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, 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: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 78 of 93
Found at i:11645240 original size:18 final size:19
Alignment explanation
Indices: 11645219--11645265 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
11645209 TCTGATTAGA
* *
11645219 TATTATTATAGAT-AAATT
1 TATTATTATAAATAAAATC
11645237 TATTATT-TAAATAAAATC
1 TATTATTATAAATAAAATC
11645255 TATCTATTATA
1 TAT-TATTATA
11645266 TAGCTTGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 4 0.17
18 14 0.58
19 4 0.17
20 2 0.08
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (19 bp):
TATTATTATAAATAAAATC
Found at i:11658645 original size:21 final size:22
Alignment explanation
Indices: 11658606--11658659 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
11658596 CTTCTTGTAT
*
11658606 GCTTATAACAATTGCTAT-AGGA
1 GCTTA-AACAATTGCTATAAAGA
* *
11658628 GCTTAAACATTTGGTATAAAGA
1 GCTTAAACAATTGCTATAAAGA
11658650 GCTTAAACAA
1 GCTTAAACAA
11658660 AAAGGAGAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.30
Consensus pattern (22 bp):
GCTTAAACAATTGCTATAAAGA
Found at i:11660333 original size:25 final size:26
Alignment explanation
Indices: 11660269--11660326 Score: 100
Period size: 26 Copynumber: 2.3 Consensus size: 26
11660259 TATCTTGTAA
11660269 GTAAGAGGTGAGGTATCCTCTTGATT
1 GTAAGAGGTGAGGTATCCTCTTGATT
*
11660295 GTAAGAGGTGAGGTATCTTCTTGA-T
1 GTAAGAGGTGAGGTATCCTCTTGATT
11660320 GTAAGAG
1 GTAAGAG
11660327 TAGAGGTTGC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 8 0.26
26 23 0.74
ACGTcount: A:0.26, C:0.09, G:0.33, T:0.33
Consensus pattern (26 bp):
GTAAGAGGTGAGGTATCCTCTTGATT
Found at i:11666179 original size:393 final size:394
Alignment explanation
Indices: 11665442--11666232 Score: 1431
Period size: 393 Copynumber: 2.0 Consensus size: 394
11665432 TTGAAATTTG
* * *
11665442 GAAACGTTGTCAAATATTTACTTTCTCTATTAATATGATATTGAGAAATCAATCATGCAGCTCAG
1 GAAACATTGTCAAATATTTACTCTCTCTATTAATATGAGATTGAGAAATCAATCATGCAGCTCAG
* *
11665507 TATTAAACTTTAGCCAATGATTATTAAACTTGAGTGATGGCAGCTTGCTTTTAGTTGGATCAAGT
66 TATTAAACTTTAGCCAATGATTATTAAACTTGAGTAATGGCAGCTTGCCTTTAGTTGGATCAAGT
* *
11665572 GAAAGTACAAATTCAATATGGGTTAATATTTCGGATGAGTTTTTAATTTTGCATGAGAATCATTC
131 GAAAGTACAAATTCAATATGGATTAATATTTCGAATGAGTTTTTAATTTTGCATGAGAATCATTC
11665637 AATAAGGCAAATTGTTAATTGTACATATCATAATTTGGAAAATACATTCAGTAATTTGTCTTATT
196 AATAAGGCAAATTGTTAATTGTACATATCATAATTTGGAAAATACATTCAGTAATTTGTCTTATT
*
11665702 TAAAGAATCGAGCTATATTAGCATCGACTAATGAAAAAGTTGAACAAGTTAATACTTATATACCT
261 TAAAGAATCGAGCTATATTAGCATCGACTAATGAAAAAGTTGAACAAGTTAACACTTATATACCT
*
11665767 TCAAAGCTTCCTGGTGAAGTAAAAAAA-ATCTCAGTGCTGATAAGATTTCACTTGCCTCGGCTAA
326 TCAAAGCTTCCTAGTGAAGTAAAAAAATATCTCAGTGCTGATAAGATTTCACTTGCCTCGGCTAA
11665831 TGTT
391 TGTT
11665835 GAAACATTGTCAAATATTTACTCTCTCTATTAATATGAGATTGAGAAATCAATCATGCAGCTCAG
1 GAAACATTGTCAAATATTTACTCTCTCTATTAATATGAGATTGAGAAATCAATCATGCAGCTCAG
* * *
11665900 TATTAGACTTTAGCCAATGATTATTAAACTTGAGTAATGGCAGGTTGCCTTTAGTTGGATTAAGT
66 TATTAAACTTTAGCCAATGATTATTAAACTTGAGTAATGGCAGCTTGCCTTTAGTTGGATCAAGT
*
11665965 GAAAGTACAAATTCAATATGGATTAATATTTCGAATGAGTTTTTAATTTTGCATGAGAATGATTC
131 GAAAGTACAAATTCAATATGGATTAATATTTCGAATGAGTTTTTAATTTTGCATGAGAATCATTC
11666030 AATAAGGCAAATTGTTAATTGTACATATCATAATTTGGAAAATACATTCAGTAATTTGTCTTATT
196 AATAAGGCAAATTGTTAATTGTACATATCATAATTTGGAAAATACATTCAGTAATTTGTCTTATT
* *
11666095 TAAAGGATCGAGCTATATTAGCATCGACTAATGAAAAAGTTGATCAAGTTAACACTTATATACCT
261 TAAAGAATCGAGCTATATTAGCATCGACTAATGAAAAAGTTGAACAAGTTAACACTTATATACCT
*
11666160 TCAAAGCTTTCTAGTGAAGTAAAAAAATATCTCAGTGCTGATAAGATTTCACTTGCCTCGGCTAA
326 TCAAAGCTTCCTAGTGAAGTAAAAAAATATCTCAGTGCTGATAAGATTTCACTTGCCTCGGCTAA
11666225 TGTT
391 TGTT
11666229 GAAA
1 GAAA
11666233 AACAATTTAT
Statistics
Matches: 381, Mismatches: 16, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
393 336 0.88
394 45 0.12
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (394 bp):
GAAACATTGTCAAATATTTACTCTCTCTATTAATATGAGATTGAGAAATCAATCATGCAGCTCAG
TATTAAACTTTAGCCAATGATTATTAAACTTGAGTAATGGCAGCTTGCCTTTAGTTGGATCAAGT
GAAAGTACAAATTCAATATGGATTAATATTTCGAATGAGTTTTTAATTTTGCATGAGAATCATTC
AATAAGGCAAATTGTTAATTGTACATATCATAATTTGGAAAATACATTCAGTAATTTGTCTTATT
TAAAGAATCGAGCTATATTAGCATCGACTAATGAAAAAGTTGAACAAGTTAACACTTATATACCT
TCAAAGCTTCCTAGTGAAGTAAAAAAATATCTCAGTGCTGATAAGATTTCACTTGCCTCGGCTAA
TGTT
Found at i:11668943 original size:20 final size:20
Alignment explanation
Indices: 11668918--11668960 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
11668908 TTCTTAAATA
* *
11668918 ATTGTTTATAATTTAATACT
1 ATTGTTTAAAATTTAAAACT
11668938 ATTGTTTAAAATTTAAAACT
1 ATTGTTTAAAATTTAAAACT
11668958 ATT
1 ATT
11668961 TCATTTCAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.51
Consensus pattern (20 bp):
ATTGTTTAAAATTTAAAACT
Found at i:11669093 original size:2 final size:2
Alignment explanation
Indices: 11669086--11669110 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11669076 ACTATTACAA
11669086 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
11669111 CACGAGAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11674564 original size:36 final size:36
Alignment explanation
Indices: 11674524--11674595 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
11674514 AATGGTATTA
*
11674524 ATAATCTAATTATTACAGAACAGATTACTGGATAGG
1 ATAATCTAATTATTACAGAACAGACTACTGGATAGG
11674560 ATAATCTAATTATTACAGAACAGACTACTGGATAGG
1 ATAATCTAATTATTACAGAACAGACTACTGGATAGG
11674596 GCTTGATAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (36 bp):
ATAATCTAATTATTACAGAACAGACTACTGGATAGG
Found at i:11680369 original size:29 final size:30
Alignment explanation
Indices: 11680337--11680404 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
11680327 ATTTTTATTA
*
11680337 ATTTTTTATAAA-AATATGAATTTAAAATT
1 ATTTTTTATAAATAAGATGAATTTAAAATT
* * *
11680366 ATTTATTA-AAATAAGATGATTTTATAATT
1 ATTTTTTATAAATAAGATGAATTTAAAATT
*
11680395 ATTTTATATA
1 ATTTTTTATA
11680405 TTATTTTTGT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
28 3 0.10
29 27 0.87
30 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (30 bp):
ATTTTTTATAAATAAGATGAATTTAAAATT
Found at i:11680409 original size:12 final size:11
Alignment explanation
Indices: 11680384--11680428 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
11680374 AAATAAGATG
11680384 ATTTTATAATT
1 ATTTTATAATT
11680395 ATTTTATATATT
1 ATTTTATA-ATT
*
11680407 ATTTTTGTAATT
1 A-TTTTATAATT
11680419 ATTTT-TAATT
1 ATTTTATAATT
11680429 GGTAATAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
10 5 0.16
11 12 0.39
12 8 0.26
13 6 0.19
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (11 bp):
ATTTTATAATT
Found at i:11680828 original size:159 final size:159
Alignment explanation
Indices: 11680539--11680839 Score: 512
Period size: 159 Copynumber: 1.9 Consensus size: 159
11680529 CATTGAAAAT
* * * **
11680539 TTTTCGTTAATTCATTTTTAAAATAGTTTATCAAATGGGTTAAAAATATAAAATTATTAGAAATT
1 TTTTCATTAATTCATTTTAAAAATAGTTTATCAAATGGGTTAAAAATATAAAATTATTAAAAAAA
* * *
11680604 TTTAATGATTTGTCAAACACACCCTAAAATTTCTTTGTGATAGAAAAGAATGATCCTTGGTCTAA
66 TTTAATGATTTGTCAAACACACCCTAAAATTTCTTTGTGATAGAAAAGAATAATCATCGGTCTAA
*
11680669 CTCGTTATAATTACTTATCATTTTTAATA
131 CTCATTATAATTACTTATCATTTTTAATA
*
11680698 TTTTCATTAATTCATTTTAAAAATAGTTTATCAAATGGGTTGAAAATATAAAATTATTAAAAAAA
1 TTTTCATTAATTCATTTTAAAAATAGTTTATCAAATGGGTTAAAAATATAAAATTATTAAAAAAA
11680763 TTTAATGATTTGTCAAACACACCCTAAAATTTCTTTGTGATAGAAAAGAATAATCATCGGTCTAA
66 TTTAATGATTTGTCAAACACACCCTAAAATTTCTTTGTGATAGAAAAGAATAATCATCGGTCTAA
11680828 CTCATTATAATT
131 CTCATTATAATT
11680840 GGTTTTAAGG
Statistics
Matches: 132, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
159 132 1.00
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.40
Consensus pattern (159 bp):
TTTTCATTAATTCATTTTAAAAATAGTTTATCAAATGGGTTAAAAATATAAAATTATTAAAAAAA
TTTAATGATTTGTCAAACACACCCTAAAATTTCTTTGTGATAGAAAAGAATAATCATCGGTCTAA
CTCATTATAATTACTTATCATTTTTAATA
Found at i:11681339 original size:33 final size:34
Alignment explanation
Indices: 11681289--11681366 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 34
11681279 TTTTATAAAA
* *
11681289 TAAAAATAAT-AA-TTTTATATCAAAAT-TTATT
1 TAAAAATATTAAATTTTTATATCAAAATAATATT
* *
11681320 TAAATATATTAAATTTTTATATTAAAATAATATT
1 TAAAAATATTAAATTTTTATATCAAAATAATATT
*
11681354 TAAAAATTTTAAA
1 TAAAAATATTAAA
11681367 AATTAAAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
31 8 0.21
32 2 0.05
33 13 0.34
34 15 0.39
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (34 bp):
TAAAAATATTAAATTTTTATATCAAAATAATATT
Found at i:11682463 original size:17 final size:16
Alignment explanation
Indices: 11682438--11682481 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
11682428 ATAAATTTTT
11682438 ATTTCAAATAAAAGATTA
1 ATTT-AAATAAAAG-TTA
*
11682456 ATTTAAATTAAAAGTTT
1 ATTTAAA-TAAAAGTTA
11682473 ATTTAAATA
1 ATTTAAATA
11682482 TAAATTAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 2 0.08
17 12 0.50
18 10 0.42
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (16 bp):
ATTTAAATAAAAGTTA
Found at i:11682467 original size:18 final size:18
Alignment explanation
Indices: 11682445--11682485 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
11682435 TTTATTTCAA
11682445 ATAAAAGATTAATTTAAAT
1 ATAAAAG-TTAATTTAAAT
*
11682464 -TAAAAGTTTATTTAAAT
1 ATAAAAGTTAATTTAAAT
11682481 ATAAA
1 ATAAA
11682486 TTAAAAGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (18 bp):
ATAAAAGTTAATTTAAAT
Found at i:11682535 original size:30 final size:29
Alignment explanation
Indices: 11682455--11682593 Score: 120
Period size: 30 Copynumber: 4.7 Consensus size: 29
11682445 ATAAAAGATT
* **
11682455 AATTTAAATTAAAAGTTTATTTAAATATA
1 AATTAAAATTAAAAGTTTATTTTGATATA
* * *
11682484 AATTAAAAGTAAAAGACTTATTTTGATACA
1 AATTAAAATTAAAAG-TTTATTTTGATATA
11682514 AATTAAAATTTAAAAGTTTA-TTTGAATATAA
1 AATTAAAA-TTAAAAGTTTATTTTG-ATAT-A
* * *
11682545 AATAAAAATTAAAAATTTATTTTGATGT-
1 AATTAAAATTAAAAGTTTATTTTGATATA
* *
11682573 AATAAAAATATAAAAATTTAT
1 AATTAAAAT-TAAAAGTTTAT
11682594 ACAAATAAAA
Statistics
Matches: 92, Mismatches: 12, Indels: 12
0.79 0.10 0.10
Matches are distributed among these distances:
28 9 0.10
29 28 0.30
30 37 0.40
31 18 0.20
ACGTcount: A:0.53, C:0.01, G:0.06, T:0.40
Consensus pattern (29 bp):
AATTAAAATTAAAAGTTTATTTTGATATA
Found at i:11682536 original size:60 final size:59
Alignment explanation
Indices: 11682455--11682570 Score: 162
Period size: 60 Copynumber: 1.9 Consensus size: 59
11682445 ATAAAAGATT
* *
11682455 AATTTAAATTAAAAGTTTATTTAAATAT-AAATTAAAAGTAAAAGACTTATTTTGATACA
1 AATTAAAATTAAAAGTTTATTTAAATATAAAATAAAAAGTAAAA-ACTTATTTTGATACA
* * *
11682514 AATTAAAATTTAAAAGTTTATTTGAATATAAAATAAAAATTAAAAATTTATTTTGAT
1 AATTAAAA-TTAAAAGTTTATTTAAATATAAAATAAAAAGTAAAAACTTATTTTGAT
11682571 GTAATAAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 7 0.14
60 30 0.60
61 13 0.26
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.41
Consensus pattern (59 bp):
AATTAAAATTAAAAGTTTATTTAAATATAAAATAAAAAGTAAAAACTTATTTTGATACA
Found at i:11682605 original size:29 final size:29
Alignment explanation
Indices: 11682541--11682625 Score: 75
Period size: 29 Copynumber: 2.9 Consensus size: 29
11682531 TTATTTGAAT
****
11682541 ATAAAATAAAAAT-TAAAAATTTATTTTG
1 ATAAAATAAAAATATAAAAATTTATACAA
**
11682569 ATGTAATAAAAATATAAAAATTTATACAA
1 ATAAAATAAAAATATAAAAATTTATACAA
11682598 ATAAAATAATAAA-ATTAAAAAATTTATA
1 ATAAAATAA-AAATA-T-AAAAATTTATA
11682626 GGAAAGAACA
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
28 11 0.24
29 19 0.42
30 4 0.09
31 11 0.24
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.34
Consensus pattern (29 bp):
ATAAAATAAAAATATAAAAATTTATACAA
Found at i:11683175 original size:2 final size:2
Alignment explanation
Indices: 11683168--11683209 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
11683158 AATCGAATTC
* * *
11683168 AT AT AT AT AT AT AT AT AT -T AT TT AT AT AT AA AA AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11683209 A
1 A
11683210 AATTAATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11686428 original size:161 final size:157
Alignment explanation
Indices: 11686019--11686609 Score: 553
Period size: 160 Copynumber: 3.7 Consensus size: 157
11686009 TTTCTCAAAT
* * * * *
11686019 ATATCAATTGTGAATACCAAGTTCAATC-TTCCAAAAAATTTAATATTATGTATTGAAGCTATCC
1 ATATCAACTATGAA-ACCAAGTTCAATCATT-CGAAAAGTTTAATATCATGTATTGAAGCTATCC
** * * * * **
11686083 AAACTGCTAAAACAAAACAATAATAGGAAATTTATATTTTTGCCTTTTAATGACCTGAAAAATCC
64 AAACTATTAAAACAAAACAATAATAGCAAATTTGTATTTTTACCTTTTAATG-GCAAAAAAATCC
* * * * *
11686148 TAAACAGAGGTAAATAGCAACTTTTTCACAT
128 TAAATAGACGTAAACA-TAACTTTTTCACAC
* * * * * *
11686179 TTATCAACTCTGAAACCAAGTTCAATCATTC-AAAATTATTTAATATCATGTAATGAAGCCATAC
1 ATATCAACTATGAAACCAAGTTCAATCATTCGAAAA--GTTTAATATCATGTATTGAAGCTATCC
* * * * *
11686243 AAACTATTAAAATAGAATAATAATAGCAAGTTTGTATTTTTACATTTTAATGGCAAAAATAATCC
64 AAACTATTAAAACAAAACAATAATAGCAAATTTGTATTTTTACCTTTTAATGGCAAAAA-AATCC
*
11686308 TAAATAGACGTAAACGATAACATTTTCACAC
128 TAAATAGACGTAAAC-ATAACTTTTTCACAC
* * * *
11686339 ATATCAACTATGGAAACCAAGTTTAATCATTCGGACAAGTTTAATATTATGTATTGGAGCTATCC
1 ATATCAACTAT-GAAACCAAGTTCAATCATTC-GAAAAGTTTAATATCATGTATTGAAGCTATCC
* * * * * * *
11686404 AAACTATTAAAATAGAACAATAATAGCAAGTTTGTATTATTACCTATTAACGGCACAAAAAGTCC
64 AAACTATTAAAACAAAACAATAATAGCAAATTTGTATTTTTACCTTTTAATGGCA-AAAAAATCC
* *
11686469 TAAATAGACATAAACATCAACTTTTTCATAC
128 TAAATAGACGTAAACAT-AACTTTTTCACAC
* * * * *
11686500 ATATCAACCGTA-AAAATCAA-TTCAATAATTTGAATAAGTTTAATATCATGTATTGAAACTATC
1 ATATCAA-C-TATGAAACCAAGTTCAATCATTCGAA-AAGTTTAATATCATGTATTGAAGCTATC
* *
11686563 AAAACTATTAAAACAAAACAATAACTA-TAAATTTGTATTTTTACCTT
63 CAAACTATTAAAACAAAACAATAA-TAGCAAATTTGTATTTTTACCTT
11686610 GTAACAGGCA
Statistics
Matches: 356, Mismatches: 61, Indels: 28
0.80 0.14 0.06
Matches are distributed among these distances:
158 4 0.01
159 20 0.06
160 187 0.53
161 135 0.38
162 5 0.01
163 5 0.01
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (157 bp):
ATATCAACTATGAAACCAAGTTCAATCATTCGAAAAGTTTAATATCATGTATTGAAGCTATCCAA
ACTATTAAAACAAAACAATAATAGCAAATTTGTATTTTTACCTTTTAATGGCAAAAAAATCCTAA
ATAGACGTAAACATAACTTTTTCACAC
Found at i:11690083 original size:21 final size:21
Alignment explanation
Indices: 11690057--11690103 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
11690047 CACTTTGAAC
11690057 ATCAAGATCACTAACTTAAGT
1 ATCAAGATCACTAACTTAAGT
*
11690078 ATCAAGATCACTAACTTGAGT
1 ATCAAGATCACTAACTTAAGT
11690099 ATCAA
1 ATCAA
11690104 TATCGCCAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.28
Consensus pattern (21 bp):
ATCAAGATCACTAACTTAAGT
Found at i:11690114 original size:21 final size:21
Alignment explanation
Indices: 11690057--11690120 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
11690047 CACTTTGAAC
* *
11690057 ATCAAGATCACTAACTTAAGT
1 ATCAAGATCACCAACTTGAGT
*
11690078 ATCAAGATCACTAACTTGAGT
1 ATCAAGATCACCAACTTGAGT
* *
11690099 ATCAATATCGCCAACTTGAGT
1 ATCAAGATCACCAACTTGAGT
11690120 A
1 A
11690121 ATAGGAAGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.28
Consensus pattern (21 bp):
ATCAAGATCACCAACTTGAGT
Found at i:11692664 original size:62 final size:62
Alignment explanation
Indices: 11692523--11693257 Score: 299
Period size: 63 Copynumber: 11.7 Consensus size: 62
11692513 AATATTTAAC
* * ** * ***
11692523 ATTATTGAAGGTATTTTT-TACTAAAAATGCATTCAATAATATACTATAATTTTTTAACAGGGG
1 ATTATTGAAGGTATTTTTACACTAAAAATGCCTTCAATAATCCACTAAAATTTTTTAA-A-AAA
* *
11692586 ATTATTGAAGGCATTTTTACACTAAAAATGCCTTTAATAATCC-CATAAAATTTTTTAAAAAA
1 ATTATTGAAGGTATTTTTACACTAAAAATGCCTTCAATAATCCAC-TAAAATTTTTTAAAAAA
* * * *
11692648 ATTATTGAAGGTATTTTTTATA-AAAAAATGCCTTCAATAATCCACTCAAATATTTTAAATAAA
1 ATTATTGAAGGTA-TTTTTACACTAAAAATGCCTTCAATAATCCACTAAAATTTTTTAAA-AAA
* * *** * * ** ***
11692711 ATTATTGAAGATGTTTTT-TTGTAGAAAATGCTTTCAATACTCCACTTCAATTTTTTATCAAGGG
1 ATTATTGAAGGTATTTTTACACTA-AAAATGCCTTCAATAATCCACTAAAATTTTTTA--AAAAA
** * * * * * *
11692775 ATTATTGAAGGCGTTTTAAGACTAAAAACGCCTTCAATAATCC-CATGAAAAATTGTAAAAAAA
1 ATTATTGAAGGTATTTTTACACTAAAAATGCCTTCAATAATCCAC-T-AAAATTTTTTAAAAAA
* * * * * ***
11692838 ATTATTGAATGTATTTTTTACA--AAAAATGTCC-TCAATAATCCACTATAATATTATCAGGGA
1 ATTATTGAAGGTA-TTTTTACACTAAAAATG-CCTTCAATAATCCACTAAAATTTTTTAAAAAA
* ** * *
11692899 ATTATTGAAGGCATTTTTAGTC-ACAAACGCCTTCAATAATCC-CTTTAAATATTTTTT-AAAAA
1 ATTATTGAAGGTATTTTTACACTAAAAATGCCTTCAATAATCCAC--TAAA-ATTTTTTAAAAAA
* * * ** *
11692961 ATTATTAAAGGTATTTTTTGCA-TAAAAA-GCCTTCAGA-AATTCACTCTAATTTTTTAACAGAG
1 ATTATTGAAGGTA-TTTTTACACTAAAAATGCCTTCA-ATAATCCACTAAAATTTTTTAA-A-AA
*
11693023 G
62 A
* ** * * ** *
11693024 ATTATTGAAGGCATTTTTACTTTAAAAATACCTTTAATAATCTCA-TAAAAAATTATAAAAGAA
1 ATTATTGAAGGTATTTTTACACTAAAAATGCCTTCAATAATC-CACTAAAATTTTTTAAAA-AA
* * * * * * * ** ** *
11693087 ATTGTTGAAAGTGTTTTTAGGA--GAAAATACCTT-AATAATCAACTCTAATTTTTTATCAGGAG
1 ATTATTGAAGGTATTTTTA-CACTAAAAATGCCTTCAATAATCCACTAAAATTTTTTA--AAAAA
* ** * * *
11693149 ATTATT-ACAGGCATTTTTAGTCT-AAAATGCGTTTAATAATCCCCTTAAATATTTTTTTAAAAA
1 ATTATTGA-AGGTATTTTTACACTAAAAATGCCTTCAATAATCCAC-TAAA-A-TTTTTTAAAAA
11693212 A
62 A
* * * *
11693213 ATTATTGAAGGCTTTTTTTATA-T-AAAATACCTTCAATAATTCACT
1 ATTATTGAAGG-TATTTTTACACTAAAAATGCCTTCAATAATCCACT
11693258 CTAAGTTTTT
Statistics
Matches: 490, Mismatches: 137, Indels: 90
0.68 0.19 0.13
Matches are distributed among these distances:
60 17 0.03
61 52 0.11
62 133 0.27
63 146 0.30
64 115 0.23
65 20 0.04
66 7 0.01
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (62 bp):
ATTATTGAAGGTATTTTTACACTAAAAATGCCTTCAATAATCCACTAAAATTTTTTAAAAAA
Found at i:11692728 original size:63 final size:64
Alignment explanation
Indices: 11692599--11692881 Score: 201
Period size: 62 Copynumber: 4.5 Consensus size: 64
11692589 ATTGAAGGCA
* * * * *
11692599 TTTTTACACTAAAAATGCCTTTAATAATCC-CATAAAATTTTTTAAA-AAAATTATTGAAGGTAT
1 TTTTTACA--AAAAATGCCTTCAATAATCCACATCAAATATTTTAAATAAAATTATTGAAGATGT
11692662 T
64 T
11692663 TTTTATA-AAAAAATGCCTTCAATAATCCAC-TCAAATATTTTAAATAAAATTATTGAAGATGTT
1 TTTT-TACAAAAAATGCCTTCAATAATCCACATCAAATATTTTAAATAAAATTATTGAAGATGTT
** * * * * * * **
11692726 TTTTTGTAGAAAATGCTTTCAATACTCCACTTC-AAT-TTTT-TATCAAGGGATTATTGAAGGCG
1 TTTTTACAAAAAATGCCTTCAATAATCCACATCAAATATTTTAAAT-AA--AATTATTGAAGATG
11692788 TT
63 TT
*** * * * * * *
11692790 TTAAGACTAAAAACGCCTTCAATAATCC-CATGAAAAATTGTAAAAAAAATTATTG-A-ATGTAT
1 TTTTTACAAAAAATGCCTTCAATAATCCACATCAAATATTTTAAATAAAATTATTGAAGATGT-T
11692852 TTTTTACAAAAAATGTCC-TCAATAATCCAC
1 TTTTTACAAAAAATG-CCTTCAATAATCCAC
11692882 TATAATATTA
Statistics
Matches: 168, Mismatches: 37, Indels: 29
0.72 0.16 0.12
Matches are distributed among these distances:
61 4 0.02
62 60 0.36
63 56 0.33
64 40 0.24
65 7 0.04
66 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (64 bp):
TTTTTACAAAAAATGCCTTCAATAATCCACATCAAATATTTTAAATAAAATTATTGAAGATGTT
Found at i:11692792 original size:125 final size:122
Alignment explanation
Indices: 11692648--11693523 Score: 462
Period size: 125 Copynumber: 7.0 Consensus size: 122
11692638 TTTTAAAAAA
* *
11692648 ATTATTGAAGGTATTTTTTATA-AAAAAATGCCTTCAATAATCCACTCAAATATTTTAAATAAAA
1 ATTATTGAAGGCA--TTTTATAGAAAAAATGCCTTCAATAATCC-CTTAAATATTTTAAA-AAAA
* * *
11692712 TTATTGAAGATGT-TTTTTTGTAGAAAATGCTTTCAATACTCCACT-TCAATTTTTTATCAAGGG
62 TTATTGAA-A-GTATTTTTTGCAGAAAATGCCTTCAATAATCCACTCT-AATTTTTTATC-AGGG
* * * * *
11692775 ATTATTGAAGGCGTTTTA-AGACTAAAAACGCCTTCAATAATCCCATGAAAAATTGTAAAAAAAA
1 ATTATTGAAGGCATTTTATAGA--AAAAATGCCTTCAATAATCCC-TTAAATATT-TTAAAAAAA
* * * * *
11692839 TTATTGAATGTATTTTTTACAAAAAATGTCC-TCAATAATCCACTATAA--TATTATCAGGG
62 TTATTGAAAGTATTTTTTGCAGAAAATG-CCTTCAATAATCCACTCTAATTTTTTATCAGGG
* * * *
11692898 AATTATTGAAGGCATTTT-TAGTCACAAACGCCTTCAATAATCCCTTTAAATATTTTTTAAAAAA
1 -ATTATTGAAGGCATTTTATAG-AAAAAATGCCTTCAATAATCCC-TTAAATA-TTTTAAAAAAA
* * * *
11692962 TTATT-AAAGGTATTTTTTGCATAAAAAGCCTTCAGA-AATTCACTCTAATTTTTTAACAGAGG
62 TTATTGAAA-GTATTTTTTGCAGAAAATGCCTTCA-ATAATCCACTCTAATTTTTTATCAG-GG
** * * * * * *
11693024 ATTATTGAAGGCATTTT-TACTTTAAAAATACCTTTAATAATCTCATAAAAAATTATAAAAGAAA
1 ATTATTGAAGGCATTTTATA--GAAAAAATGCCTTCAATAATC-CCTTAAATATTTTAAAA-AAA
* * * * * *
11693088 TTGTTGAAAGTGTTTTTAGGAGAAAATACCTT-AATAATCAACTCTAATTTTTTATCAGGAG
62 TTATTGAAAGTATTTTTTGCAGAAAATGCCTTCAATAATCCACTCTAATTTTTTATCAGG-G
** * *
11693149 ATTATT-ACAGGCATTTT-TAGTCTAAAATGCGTTTAATAATCCCCTTAAATATTTTTTTAAAAA
1 ATTATTGA-AGGCATTTTATAG-AAAAAATGCCTTCAATAAT-CCCTTAAATA---TTTTAAAAA
* ** * * * * *
11693212 AATTATTGAAGGCT-TTTTTTATATAAAATACCTTCAATAATTCACTCTAAGTTTTTATCAAGAG
60 AATTATTGAAAG-TATTTTTTGCAGAAAATGCCTTCAATAATCCACTCTAATTTTTTATC-AGGG
* * * *
11693276 ATTATTGAAGGC--GTT-T------AACGCCTTCAATAATCTCTTAAAAAATTTTAAAAGAAATT
1 ATTATTGAAGGCATTTTATAGAAAAAATGCCTTCAATAATCCCTT-AAATATTTTAAAA-AAATT
* * * * * * * **
11693332 ATT-AAAGACATTTTTTACAGAAAATACTTTCAATAATCCTCT-TCGATATTTTATCGAAAG
64 ATTGAAAG-TATTTTTTGCAGAAAATGCCTTCAATAATCCACTCT-AATTTTTTATC-AGGG
* ** * * **
11693392 ATTATTGAAGGCATTTT-TA-ATCACAAACACCTTCAATAAT-CATATAAAAAATTTTGAAGTAA
1 ATTATTGAAGGCATTTTATAGA--AAAAATGCCTTCAATAATCCCT-T-AAATATTTT-AAAAAA
* * * * *
11693454 TTTATTGAAGGTATTTTTTACTGAAAATGCCTTCAATAAT-CATCTCCAATTTTTTATTCAGGAG
61 ATTATTGAAAGTATTTTTTGCAGAAAATGCCTTCAATAATCCA-CTCTAATTTTTTA-TCAGG-G
11693518 ATTATT
1 ATTATT
11693524 AAATGTATTT
Statistics
Matches: 588, Mismatches: 106, Indels: 111
0.73 0.13 0.14
Matches are distributed among these distances:
115 12 0.02
116 58 0.10
117 4 0.01
118 19 0.03
122 4 0.01
123 70 0.12
124 54 0.09
125 150 0.26
126 115 0.20
127 95 0.16
128 7 0.01
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.38
Consensus pattern (122 bp):
ATTATTGAAGGCATTTTATAGAAAAAATGCCTTCAATAATCCCTTAAATATTTTAAAAAAATTAT
TGAAAGTATTTTTTGCAGAAAATGCCTTCAATAATCCACTCTAATTTTTTATCAGGG
Found at i:11692956 original size:189 final size:188
Alignment explanation
Indices: 11692523--11692954 Score: 434
Period size: 189 Copynumber: 2.3 Consensus size: 188
11692513 AATATTTAAC
* * * ** *
11692523 ATTATTGAAG-GTATTTTTTACTA-AAAATGCATTCAATAATATAC-TATAATTTTTTAACAGGG
1 ATTATTGAAGAG-A-TTTTTAGTAGAAAACGCCTTCAATAATCCACTTA-AATTTTTTAACAAGG
* * * * * *
11692585 GATTATTGAAGGCATTTTTACACTAAAAATGCCTTTAATAATCCCATAAAATTTTTTAAAAAAAT
63 GATTATTGAAGGCATTTTAACACTAAAAACGCCTTCAATAATCCCATAAAAATTGTAAAAAAAAT
* *
11692650 TATTGAAGGTATTTTTTATAAAAAAATGCCTTCAATAATCCACTCAAATATTTTAAATAAA
128 TATTGAAGGTATTTTTTATAAAAAAATGCCTTCAATAATCCACTCAAATATTATAAAGAAA
* * * * * * *
11692711 ATTATTGAAGATGTTTTTTTGTAGAAAATGCTTTCAATACTCCACTTCAATTTTTTATCAAGGGA
1 ATTATTGAAGA-GATTTTTAGTAGAAAACGCCTTCAATAATCCACTTAAATTTTTTAACAAGGGA
* *
11692776 TTATTGAAGGCGTTTTAAGACTAAAAACGCCTTCAATAATCCCATGAAAAATTGTAAAAAAAATT
65 TTATTGAAGGCATTTTAACACTAAAAACGCCTTCAATAATCCCAT-AAAAATTGTAAAAAAAATT
* * * **
11692841 ATTGAATGTATTTTTTA-CAAAAAATGTCC-TCAATAATCCACT-ATAATATTAT-CAGGGA
129 ATTGAAGGTATTTTTTATAAAAAAATG-CCTTCAATAATCCACTCA-AATATTATAAAGAAA
*
11692899 ATTATTGAAG-GCATTTTTAGTCA-CAAACGCCTTCAATAATCC-CTTTAAATATTTTT
1 ATTATTGAAGAG-ATTTTTAGT-AGAAAACGCCTTCAATAATCCAC-TTAAAT-TTTTT
11692955 TAAAAAATTA
Statistics
Matches: 201, Mismatches: 32, Indels: 22
0.79 0.13 0.09
Matches are distributed among these distances:
186 2 0.01
187 27 0.13
188 36 0.18
189 100 0.50
190 36 0.18
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.38
Consensus pattern (188 bp):
ATTATTGAAGAGATTTTTAGTAGAAAACGCCTTCAATAATCCACTTAAATTTTTTAACAAGGGAT
TATTGAAGGCATTTTAACACTAAAAACGCCTTCAATAATCCCATAAAAATTGTAAAAAAAATTAT
TGAAGGTATTTTTTATAAAAAAATGCCTTCAATAATCCACTCAAATATTATAAAGAAA
Found at i:11692960 original size:123 final size:125
Alignment explanation
Indices: 11692765--11693040 Score: 303
Period size: 123 Copynumber: 2.2 Consensus size: 125
11692755 CTTCAATTTT
*
11692765 TTATCAAGGGATTATTGAAGGCGTTTTAAGACTAAAAACGCCTTCAATAATCCCATGAAAAATTG
1 TTATCAAGGGATTATTGAAGGCATTTTAAGACTAAAAACGCCTTCAATAATCCCATGAAAAATTG
* *
11692830 TAAAAAAAATTATTGAATGTATTTTTTACA-AAAAATGTCCTCAATAATCCACTATAATA
66 TAAAAAAAATTATTAAAGGTATTTTTTACATAAAAATGTCCTCAATAATCCACTATAATA
* * * * * *
11692889 TTATC-AGGGAATTATTGAAGGCATTTTTAGTC-ACAAACGCCTTCAATAATCCCTTTAAATATT
1 TTATCAAGGG-ATTATTGAAGGCATTTTAAGACTAAAAACGCCTTCAATAATCCCATGAAAAATT
* ** * * * *
11692952 TTTTAAAAAATTATTAAAGGTATTTTTTGCATAAAAA-G-CCTTCAGA-AATTCACTCTAATT
65 GTAAAAAAAATTATTAAAGGTATTTTTTACATAAAAATGTCC-TCA-ATAATCCACTATAATA
* *
11693012 TTTTAACAGAGGATTATTGAAGGCATTTT
1 TTATCA-AG-GGATTATTGAAGGCATTTT
11693041 TACTTTAAAA
Statistics
Matches: 127, Mismatches: 18, Indels: 13
0.80 0.11 0.08
Matches are distributed among these distances:
122 2 0.02
123 74 0.58
124 30 0.24
125 19 0.15
126 2 0.02
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (125 bp):
TTATCAAGGGATTATTGAAGGCATTTTAAGACTAAAAACGCCTTCAATAATCCCATGAAAAATTG
TAAAAAAAATTATTAAAGGTATTTTTTACATAAAAATGTCCTCAATAATCCACTATAATA
Found at i:11692966 original size:250 final size:248
Alignment explanation
Indices: 11692672--11693291 Score: 641
Period size: 249 Copynumber: 2.5 Consensus size: 248
11692662 TTTTTATAAA
* * * *
11692672 AAAATGCCTTCAATAATCCACTCAAATA-TTTTAAATAAAATTATTGAAGATGTTTTTTTGTAGA
1 AAAACGCCTTCAATAATCC-CTTAAATATTTTTTAA-AAAATTATTGAAGA-GTTTTTTTGTATA
* * * *
11692736 AAATGCTTTCAATACTCCACT-TCAATTTTTTATCAAGGGATTATTGAAGGCGTTTTAAGACTAA
63 AAATGCCTTCAATAATTCACTCT-AATTTTTTATCAAGGGATTATTGAAGGCGTTTTAACACTAA
* * * * *
11692800 AAACGCCTTCAATAATCCCATGAAAAATTGTAAAAAAAATTATTGAATGTATTTTTTA-CAAAAA
127 AAACACCTTCAATAATCCCATAAAAAATTATAAAAAAAATTATTGAAAGT-GTTTTTAGCAAAAA
* *
11692864 ATGTCCTCAATAATCCACTATAA-TATTATCAGG-GAATTATTGA-AGGCATTTTTAGTC-
191 AT-ACCTCAATAATCAACTATAATTATTATCAGGAG-ATTATT-ACAGGCATTTTTAGTCT
* *
11692921 ACAAACGCCTTCAATAATCCCTTTAAATATTTTTTAAAAAATTATTAAAG-GTATTTTTTGCATA
1 A-AAACGCCTTCAATAATCCC-TTAAATATTTTTTAAAAAATTATTGAAGAGT-TTTTTTGTATA
* * * * **
11692985 AAAAGCCTTCAGA-AATTCACTCTAATTTTTTAAC-AGAGGATTATTGAAGGCATTTTTACTTTA
63 AAATGCCTTCA-ATAATTCACTCTAATTTTTTATCAAG-GGATTATTGAAGGCGTTTTAACACTA
* * * * * * *
11693048 AAAATACCTTTAATAATCTCATAAAAAATTATAAAAGAAATTGTTGAAAGTGTTTTTAGGAGAAA
126 AAAACACCTTCAATAATCCCATAAAAAATTATAAAAAAAATTATTGAAAGTGTTTTTAGCAAAAA
* * *
11693113 ATACCTTAATAATCAACTCTAATTTTTTATCAGGAGATTATTACAGGCATTTTTAGTCT
191 ATACCTCAATAATCAACTATAA-TTATTATCAGGAGATTATTACAGGCATTTTTAGTCT
* * * *
11693172 AAAATGCGTTTAATAATCCCCTTAAATATTTTTTTAAAAAAATTATTGAAG-GCTTTTTTTATAT
1 AAAACGCCTTCAATAAT-CCCTTAAATA-TTTTTT-AAAAAATTATTGAAGAG-TTTTTTTGTAT
* * *
11693236 AAAATACCTTCAATAATTCACTCTAAGTTTTTATCAAGAGATTATTGAAGGCGTTT
62 AAAATGCCTTCAATAATTCACTCTAATTTTTTATCAAGGGATTATTGAAGGCGTTT
11693292 AACGCCTTCA
Statistics
Matches: 307, Mismatches: 45, Indels: 35
0.79 0.12 0.09
Matches are distributed among these distances:
248 26 0.08
249 106 0.35
250 86 0.28
251 18 0.06
252 68 0.22
253 3 0.01
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.38
Consensus pattern (248 bp):
AAAACGCCTTCAATAATCCCTTAAATATTTTTTAAAAAATTATTGAAGAGTTTTTTTGTATAAAA
TGCCTTCAATAATTCACTCTAATTTTTTATCAAGGGATTATTGAAGGCGTTTTAACACTAAAAAC
ACCTTCAATAATCCCATAAAAAATTATAAAAAAAATTATTGAAAGTGTTTTTAGCAAAAAATACC
TCAATAATCAACTATAATTATTATCAGGAGATTATTACAGGCATTTTTAGTCT
Found at i:11704270 original size:48 final size:48
Alignment explanation
Indices: 11704191--11704282 Score: 116
Period size: 48 Copynumber: 1.9 Consensus size: 48
11704181 TATTTGTTTG
* *
11704191 TGAGTGGATTAAAAGAGACTAAAAGGGTCCACAT-AGATATGATGCATA
1 TGAGTAGATTAAAAGAGACTAAAAGGATCCACATAAG-TATGATGCATA
**
11704239 TGAGTAGATTATAAA-AGACTAAAATTATCCACATAAGTATGATG
1 TGAGTAGATTA-AAAGAGACTAAAAGGATCCACATAAGTATGATG
11704283 AATTAGTACA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
48 33 0.87
49 5 0.13
ACGTcount: A:0.43, C:0.10, G:0.21, T:0.26
Consensus pattern (48 bp):
TGAGTAGATTAAAAGAGACTAAAAGGATCCACATAAGTATGATGCATA
Found at i:11710043 original size:26 final size:24
Alignment explanation
Indices: 11710014--11710063 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
11710004 TAAATTAAGA
11710014 TAAAAAAGTGTGTAAAATTTTAAATT
1 TAAAAAAGTGTGT--AATTTTAAATT
* *
11710040 TAAATATGTGTGTAATTTTAAATT
1 TAAAAAAGTGTGTAATTTTAAATT
11710064 GAGATAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 11 0.50
26 11 0.50
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (24 bp):
TAAAAAAGTGTGTAATTTTAAATT
Found at i:11710803 original size:36 final size:36
Alignment explanation
Indices: 11710758--11710841 Score: 116
Period size: 36 Copynumber: 2.3 Consensus size: 36
11710748 ACTAAGATTT
*
11710758 TATATATTTT-TAATAAATTAATTTTTTATTTATTAA
1 TATAAATTTTATAATAAATTAA-TTTTTATTTATTAA
** *
11710794 TATAAATTTTATTTTAAATTTATTTTTATTTATTAA
1 TATAAATTTTATAATAAATTAATTTTTATTTATTAA
11710830 TATAAATTTTAT
1 TATAAATTTTAT
11710842 TTTAAATTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
36 35 0.81
37 8 0.19
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (36 bp):
TATAAATTTTATAATAAATTAATTTTTATTTATTAA
Found at i:11710805 original size:19 final size:19
Alignment explanation
Indices: 11710781--11710843 Score: 85
Period size: 19 Copynumber: 3.4 Consensus size: 19
11710771 TAAATTAATT
11710781 TTTTATTTATTAATATAAA
1 TTTTATTTATTAATATAAA
* * *
11710800 TTTTATTT-TAAAT-TTAT
1 TTTTATTTATTAATATAAA
11710817 TTTTATTTATTAATATAAA
1 TTTTATTTATTAATATAAA
11710836 TTTTATTT
1 TTTTATTT
11710844 TAAATTTATT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
17 10 0.28
18 8 0.22
19 18 0.50
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTATTTATTAATATAAA
Found at i:11710813 original size:12 final size:12
Alignment explanation
Indices: 11710796--11710850 Score: 58
Period size: 12 Copynumber: 4.6 Consensus size: 12
11710786 TTTATTAATA
11710796 TAAATTTTATTT
1 TAAATTTTATTT
11710808 TAAA-TTTATTT
1 TAAATTTTATTT
* * * *
11710819 TTATTTATTAATA
1 TAAATT-TTATTT
11710832 TAAATTTTATTT
1 TAAATTTTATTT
11710844 TAAATTT
1 TAAATTT
11710851 ATTAAAATTA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
11 9 0.27
12 16 0.48
13 8 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TAAATTTTATTT
Found at i:11710826 original size:10 final size:11
Alignment explanation
Indices: 11710796--11710853 Score: 55
Period size: 11 Copynumber: 4.9 Consensus size: 11
11710786 TTTATTAATA
11710796 TAAATTTTATTT
1 TAAA-TTTATTT
11710808 TAAATTTATTT
1 TAAATTTATTT
*
11710819 T-TATTTATTAAT
1 TAAATTTATT--T
11710831 ATAAATTTTATTT
1 -TAAA-TTTATTT
11710844 TAAATTTATT
1 TAAATTTATT
11710854 AAAATTAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
10 7 0.18
11 14 0.36
12 9 0.23
13 2 0.05
14 1 0.03
15 6 0.15
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TAAATTTATTT
Found at i:11710842 original size:36 final size:36
Alignment explanation
Indices: 11710771--11710853 Score: 148
Period size: 36 Copynumber: 2.3 Consensus size: 36
11710761 ATATTTTTAA
*
11710771 TAAATTAATTTTTTATTTATTAATATAAATTTTATTT
1 TAAATTTA-TTTTTATTTATTAATATAAATTTTATTT
11710808 TAAATTTATTTTTATTTATTAATATAAATTTTATTT
1 TAAATTTATTTTTATTTATTAATATAAATTTTATTT
11710844 TAAATTTATT
1 TAAATTTATT
11710854 AAAATTAATA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
36 38 0.84
37 7 0.16
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (36 bp):
TAAATTTATTTTTATTTATTAATATAAATTTTATTT
Found at i:11713233 original size:15 final size:15
Alignment explanation
Indices: 11713213--11713264 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
11713203 TTATGTATTT
11713213 ATAATTCAAAATAAA
1 ATAATTCAAAATAAA
11713228 ATAATTTTC-AAA-AAA
1 ATAA--TTCAAAATAAA
*
11713243 ATAATTAAAAATAAA
1 ATAATTCAAAATAAA
11713258 TATAATT
1 -ATAATT
11713265 TGATTAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
13 2 0.06
14 3 0.10
15 14 0.45
16 9 0.29
17 3 0.10
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAATTCAAAATAAA
Found at i:11714701 original size:6 final size:6
Alignment explanation
Indices: 11714692--11714789 Score: 88
Period size: 6 Copynumber: 15.8 Consensus size: 6
11714682 TACAAGTTCA
* * *
11714692 CCACCA CCACCA CCACCG CCACCT CCACCT CCACCT CCACCT CCACCT
1 CCACCT CCACCT CCACCT CCACCT CCACCT CCACCT CCACCT CCACCT
* * * * * *
11714740 CCACCT CCATCA CCATTCCCG CCTCCT CCTCCT CCACCT CCACCA CCACC
1 CCACCT CCACCT CCA---CCT CCACCT CCACCT CCACCT CCACCT CCACC
11714790 AACACCACCG
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
6 76 0.96
9 3 0.04
ACGTcount: A:0.18, C:0.65, G:0.02, T:0.14
Consensus pattern (6 bp):
CCACCT
Found at i:11714863 original size:18 final size:19
Alignment explanation
Indices: 11714827--11714864 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
11714817 TCTCTCAGCG
*
11714827 CTTTCTCGTCCGCCACCGC
1 CTTTCTCGTCCACCACCGC
*
11714846 CTTT-TCGTCCACCGCCGC
1 CTTTCTCGTCCACCACCGC
11714864 C
1 C
11714865 ACCAAAGCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.05, C:0.53, G:0.16, T:0.26
Consensus pattern (19 bp):
CTTTCTCGTCCACCACCGC
Found at i:11722024 original size:13 final size:13
Alignment explanation
Indices: 11722004--11722036 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
11721994 ATAATACATC
11722004 TATA-TATATATA
1 TATATTATATATA
11722016 TATATTATATATA
1 TATATTATATATA
*
11722029 TATTTTAT
1 TATATTAT
11722037 TATTATTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TATATTATATATA
Found at i:11731371 original size:26 final size:26
Alignment explanation
Indices: 11731318--11731374 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
11731308 ATTAAATAAG
* *
11731318 ATAATATTATTTAATCTAATTTTTTT
1 ATAATATTATTTAATCTAATTCTATT
*
11731344 ATAATATTATCTTATTCTAA-TCTATT
1 ATAATATTAT-TTAATCTAATTCTATT
11731370 ATAAT
1 ATAAT
11731375 CTTTATACCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 19 0.70
27 8 0.30
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (26 bp):
ATAATATTATTTAATCTAATTCTATT
Found at i:11731775 original size:14 final size:14
Alignment explanation
Indices: 11731752--11731785 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
11731742 ATTTAATATA
11731752 ATCATATTTATAAT
1 ATCATATTTATAAT
* *
11731766 ATCATTTTTATTAT
1 ATCATATTTATAAT
11731780 ATCATA
1 ATCATA
11731786 ACATAATCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (14 bp):
ATCATATTTATAAT
Found at i:11732141 original size:33 final size:34
Alignment explanation
Indices: 11732073--11732150 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 34
11732063 GAACAAAAGT
* * *
11732073 TATCGAAAATTTATTTTTGAAAACCTTTTTAATG
1 TATCAAAAATTTAATTTCGAAAACCTTTTTAATG
*
11732107 TATCAAAAATTTAATTTCGAAAA-CTTTTTCATG
1 TATCAAAAATTTAATTTCGAAAACCTTTTTAATG
*
11732140 TAACAGAAAAT
1 TATCA-AAAAT
11732151 GCATTTCTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
33 13 0.34
34 25 0.66
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (34 bp):
TATCAAAAATTTAATTTCGAAAACCTTTTTAATG
Found at i:11732923 original size:14 final size:15
Alignment explanation
Indices: 11732904--11732933 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
11732894 ACCTTCAATA
11732904 ATTTTTGAAA-ATTC
1 ATTTTTGAAATATTC
11732918 ATTTTTGAAATATTC
1 ATTTTTGAAATATTC
11732933 A
1 A
11732934 AATCACACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.50
Consensus pattern (15 bp):
ATTTTTGAAATATTC
Found at i:11733149 original size:27 final size:27
Alignment explanation
Indices: 11733111--11733164 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
11733101 TAAGGTTTTC
11733111 AATTGAAGGAGATGGGATGAGAGGAAA
1 AATTGAAGGAGATGGGATGAGAGGAAA
11733138 AATTGAAGGAGATGGGATGAGAGGAAA
1 AATTGAAGGAGATGGGATGAGAGGAAA
11733165 TGACGTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.41, T:0.15
Consensus pattern (27 bp):
AATTGAAGGAGATGGGATGAGAGGAAA
Found at i:11733759 original size:26 final size:26
Alignment explanation
Indices: 11733706--11733755 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
11733696 AATTGATTCG
11733706 ATCAATTTCATATTAAAAAATTAATA
1 ATCAATTTCATATTAAAAAATTAATA
* *
11733732 ATCAATTTTAT-TTAATAAATTAAT
1 ATCAATTTCATATTAAAAAATTAAT
11733756 TAATTAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (26 bp):
ATCAATTTCATATTAAAAAATTAATA
Found at i:11733862 original size:14 final size:16
Alignment explanation
Indices: 11733845--11733898 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 16
11733835 AAATTTTTTA
11733845 AAATTT-TTT-ATTAT
1 AAATTTATTTAATTAT
11733859 AAATAATTATTTAATTAT
1 AAAT--TTATTTAATTAT
11733877 AAATTTAATTTAA-TA-
1 AAATTT-ATTTAATTAT
11733892 AAATTTA
1 AAATTTA
11733899 AATTCAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 5 0.14
15 6 0.17
16 6 0.17
17 9 0.26
18 9 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AAATTTATTTAATTAT
Found at i:11733895 original size:15 final size:17
Alignment explanation
Indices: 11733854--11733899 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
11733844 AAAATTTTTT
11733854 ATTATAAATAATT-ATTTA
1 ATTATAAAT--TTAATTTA
11733872 ATTATAAATTTAATTTA
1 ATTATAAATTTAATTTA
11733889 A-TA-AAATTTAA
1 ATTATAAATTTAA
11733900 ATTCAAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 8 0.30
16 4 0.15
17 6 0.22
18 9 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATTATAAATTTAATTTA
Found at i:11733908 original size:17 final size:16
Alignment explanation
Indices: 11733877--11733923 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
11733867 ATTTAATTAT
*
11733877 AAATTT-AATTTAATA
1 AAATTTAAATTAAATA
11733892 AAATTTAAATTCAAATA
1 AAATTTAAATT-AAATA
**
11733909 TTATTTAAATTAAAT
1 AAATTTAAATTAAAT
11733924 TATTAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 6 0.22
16 8 0.30
17 13 0.48
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
AAATTTAAATTAAATA
Found at i:11733927 original size:17 final size:17
Alignment explanation
Indices: 11733894--11733928 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
11733884 ATTTAATAAA
11733894 ATTTAAATTCAAATATT
1 ATTTAAATTCAAATATT
11733911 ATTTAAATT-AAATTATT
1 ATTTAAATTCAAA-TATT
11733928 A
1 A
11733929 AAAATTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.18
17 14 0.82
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (17 bp):
ATTTAAATTCAAATATT
Found at i:11740743 original size:14 final size:15
Alignment explanation
Indices: 11740724--11740754 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
11740714 AAAATATTCA
11740724 TTAATATTTA-AATT
1 TTAATATTTATAATT
11740738 TTAATATTTATAATT
1 TTAATATTTATAATT
11740753 TT
1 TT
11740755 TTATCCTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TTAATATTTATAATT
Found at i:11743222 original size:17 final size:18
Alignment explanation
Indices: 11743195--11743228 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11743185 ATACGATAAG
11743195 ATAAGATAAAATAATATT
1 ATAAGATAAAATAATATT
*
11743213 ATAA-ATAAAATTATAT
1 ATAAGATAAAATAATAT
11743229 CAAATAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (18 bp):
ATAAGATAAAATAATATT
Found at i:11743317 original size:16 final size:17
Alignment explanation
Indices: 11743285--11743319 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
11743275 ATATGATAAT
*
11743285 TTATTTATTTTTTAAAA
1 TTATTTATTTCTTAAAA
11743302 TTATTT-TTTCTTAAAA
1 TTATTTATTTCTTAAAA
11743318 TT
1 TT
11743320 TATACAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (17 bp):
TTATTTATTTCTTAAAA
Found at i:11743322 original size:17 final size:18
Alignment explanation
Indices: 11743282--11743322 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
11743272 AGGATATGAT
*
11743282 AATTTATTTATTTTTTAA
1 AATTTATTTATTTCTTAA
11743300 AA-TTATTT-TTTCTTAA
1 AATTTATTTATTTCTTAA
11743316 AATTTAT
1 AATTTAT
11743323 ACAATTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 9 0.43
17 10 0.48
18 2 0.10
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
AATTTATTTATTTCTTAA
Found at i:11746855 original size:8 final size:8
Alignment explanation
Indices: 11746841--11746882 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
11746831 ATATTATTTT
11746841 TAAATATA
1 TAAATATA
* *
11746849 AAAATATT
1 TAAATATA
11746857 TAAATATA
1 TAAATATA
*
11746865 TAATTATA
1 TAAATATA
11746873 TAAATATA
1 TAAATATA
11746881 TA
1 TA
11746883 TAAACAAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
TAAATATA
Found at i:11746873 original size:26 final size:26
Alignment explanation
Indices: 11746844--11746896 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
11746834 TTATTTTTAA
* * *
11746844 ATATAAAAATATTTAAATATATAATT
1 ATATAAAAATATATAAACAAATAATT
*
11746870 ATATAAATATATATAAACAAATAATT
1 ATATAAAAATATATAAACAAATAATT
11746896 A
1 A
11746897 ATTTAAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (26 bp):
ATATAAAAATATATAAACAAATAATT
Found at i:11746881 original size:16 final size:16
Alignment explanation
Indices: 11746821--11746882 Score: 58
Period size: 16 Copynumber: 4.1 Consensus size: 16
11746811 CTTGATCCGA
11746821 AATTA-ATAAA-ATAT
1 AATTATATAAATATAT
* * *
11746835 TATT-TTTAAATATAA
1 AATTATATAAATATAT
* *
11746850 AAATATTTAAATATAT
1 AATTATATAAATATAT
11746866 AATTATATAAATATAT
1 AATTATATAAATATAT
11746882 A
1 A
11746883 TAAACAAATA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
14 7 0.19
15 5 0.14
16 25 0.68
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATTATATAAATATAT
Found at i:11749838 original size:48 final size:47
Alignment explanation
Indices: 11749774--11749928 Score: 148
Period size: 48 Copynumber: 3.2 Consensus size: 47
11749764 TTTACCAAAC
* * *
11749774 ATTACGTTTTTTAAATTAAAAACATAATCTTTAATTGATGCTTATAAA
1 ATTACATTTTTTAAATTAAAAATATAATCTTTAATTGATGATTA-AAA
* * ** * **
11749822 ATTACATTTTTTAAATTATAAATGTAAAATTTAATTAAAAAATTAAAA
1 ATTACATTTTTTAAATTAAAAATATAATCTTTAATT-GATGATTAAAA
* * *
11749870 ACTACATTTTTCAAATTAAAAATATAATCTTTAATTGATGTTTTAAAAA
1 ATTACATTTTTTAAATTAAAAATATAATCTTTAATTGATG-ATT-AAAA
*
11749919 ATTATATTTT
1 ATTACATTTT
11749929 ACAAAGATAA
Statistics
Matches: 82, Mismatches: 22, Indels: 5
0.75 0.20 0.05
Matches are distributed among these distances:
47 1 0.01
48 65 0.79
49 16 0.20
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.45
Consensus pattern (47 bp):
ATTACATTTTTTAAATTAAAAATATAATCTTTAATTGATGATTAAAA
Found at i:11752502 original size:18 final size:19
Alignment explanation
Indices: 11752479--11752514 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
11752469 AATAATATCT
*
11752479 TATTGACTTA-TATATAAC
1 TATTGAATTAGTATATAAC
11752497 TATTGAATTAGTATATAA
1 TATTGAATTAGTATATAA
11752515 AAGAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (19 bp):
TATTGAATTAGTATATAAC
Found at i:11760850 original size:7 final size:7
Alignment explanation
Indices: 11760834--11760864 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
11760824 ATTATTACCC
11760834 AAAAAA-
1 AAAAAAG
11760840 AAAAAAG
1 AAAAAAG
11760847 AAAAAAG
1 AAAAAAG
11760854 AAAAAAG
1 AAAAAAG
11760861 AAAA
1 AAAA
11760865 TGACCATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:11768795 original size:2 final size:2
Alignment explanation
Indices: 11768788--11768813 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11768778 AGATAAAATC
11768788 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
11768814 GATTCAACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11769003 original size:27 final size:27
Alignment explanation
Indices: 11768971--11769024 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
11768961 TAAATAAATT
11768971 TGTTAATGGTGTTGAATTGGTAAAAAC
1 TGTTAATGGTGTTGAATTGGTAAAAAC
*
11768998 TGTTAATGTTGTTGAATTGGTAAAAAC
1 TGTTAATGGTGTTGAATTGGTAAAAAC
11769025 CATTTGCTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.04, G:0.24, T:0.39
Consensus pattern (27 bp):
TGTTAATGGTGTTGAATTGGTAAAAAC
Found at i:11773572 original size:16 final size:16
Alignment explanation
Indices: 11773551--11773599 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
11773541 ATTATAAATA
11773551 TTATTAAATATTATAT
1 TTATTAAATATTATAT
* *
11773567 TTATTATATATTAAAT
1 TTATTAAATATTATAT
*
11773583 ATATTAAA-A-TATAT
1 TTATTAAATATTATAT
11773597 TTA
1 TTA
11773600 AAATAATGAT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
14 6 0.22
15 1 0.04
16 20 0.74
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTATTAAATATTATAT
Found at i:11773612 original size:12 final size:10
Alignment explanation
Indices: 11773572--11773604 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 10
11773562 TATATTTATT
11773572 ATATATT-AA
1 ATATATTAAA
11773581 ATATATTAAA
1 ATATATTAAA
11773591 ATATATTTAAA
1 ATATA-TTAAA
11773602 ATA
1 ATA
11773605 ATGATTAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 7 0.32
10 7 0.32
11 8 0.36
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
ATATATTAAA
Found at i:11774461 original size:24 final size:24
Alignment explanation
Indices: 11774434--11774491 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
11774424 ACTAATATTT
*
11774434 TTAAATTATTATCTTTAAATAAA-A
1 TTAAATTATTAAC-TTAAATAAATA
* *
11774458 TTAAAATCATTAACTTATATAAATA
1 TT-AAATTATTAACTTAAATAAATA
11774483 TTAAATTAT
1 TTAAATTAT
11774492 GCATGATTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 16 0.57
25 12 0.43
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (24 bp):
TTAAATTATTAACTTAAATAAATA
Found at i:11776119 original size:21 final size:21
Alignment explanation
Indices: 11776095--11776144 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
11776085 TATTATTAAC
*
11776095 TTTAATTTTATCATTATAATA
1 TTTAATCTTATCATTATAATA
*
11776116 TTTAATCTTGTCATTATAATA
1 TTTAATCTTATCATTATAATA
*
11776137 TATAATCT
1 TTTAATCT
11776145 CAGTATCATC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.36, C:0.08, G:0.02, T:0.54
Consensus pattern (21 bp):
TTTAATCTTATCATTATAATA
Found at i:11779753 original size:24 final size:24
Alignment explanation
Indices: 11779712--11779765 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
11779702 TAACATAAAA
*
11779712 TTTTTTTTGTTTTATTAAATTT-AT
1 TTTTTTTTGGTTTATT-AATTTAAT
11779736 TTTTTATTTGGTTT-TTAATTTAAT
1 TTTTT-TTTGGTTTATTAATTTAAT
11779760 TTTTTT
1 TTTTTT
11779766 ATTATAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 6 0.22
24 14 0.52
25 7 0.26
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.76
Consensus pattern (24 bp):
TTTTTTTTGGTTTATTAATTTAAT
Found at i:11780009 original size:17 final size:17
Alignment explanation
Indices: 11779965--11780014 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 17
11779955 TTCATGTGGC
* *
11779965 AACTCTTTATTTCTTTT
1 AACTTTTTATTTTTTTT
* *
11779982 CA-TTTTCATTTTTTTT
1 AACTTTTTATTTTTTTT
11779998 AACTTTTTATTTTTTTT
1 AACTTTTTATTTTTTTT
11780015 CATTTTCAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
16 12 0.46
17 14 0.54
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (17 bp):
AACTTTTTATTTTTTTT
Found at i:11780030 original size:33 final size:33
Alignment explanation
Indices: 11779965--11780032 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 33
11779955 TTCATGTGGC
***
11779965 AACTCTTTATTTCTTTTCATTTTCATTTTTTTT
1 AACTCTTTATTTCTTTTCATTTTCAAAATTTTT
* *
11779998 AACTTTTTATTTTTTTTCATTTTCAAAATTTTT
1 AACTCTTTATTTCTTTTCATTTTCAAAATTTTT
11780031 AA
1 AA
11780033 AATTTATTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.22, C:0.12, G:0.00, T:0.66
Consensus pattern (33 bp):
AACTCTTTATTTCTTTTCATTTTCAAAATTTTT
Found at i:11784076 original size:16 final size:15
Alignment explanation
Indices: 11784057--11784123 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 15
11784047 TTAACTCATT
11784057 TTTTTTTTATTTTTTC
1 TTTTTTTT-TTTTTTC
11784073 TTTTTTTTTTCATGTCTTC
1 TTTTTTTTTT--T-T-TTC
*
11784092 TTTTTTCTTTTTCTTC
1 TTTTTT-TTTTTTTTC
11784108 TTTTTTATATTTTTTT
1 TTTTTT-T-TTTTTTT
11784124 TGTTTCACTT
Statistics
Matches: 42, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
15 2 0.05
16 18 0.43
17 7 0.17
18 2 0.05
19 9 0.21
20 4 0.10
ACGTcount: A:0.06, C:0.10, G:0.01, T:0.82
Consensus pattern (15 bp):
TTTTTTTTTTTTTTC
Found at i:11784079 original size:19 final size:19
Alignment explanation
Indices: 11784055--11784103 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
11784045 CTTTAACTCA
* *
11784055 TTTTTTTTTTATTTTTTCT
1 TTTTTTTTTTATGTCTTCT
*
11784074 TTTTTTTTTCATGTCTTCT
1 TTTTTTTTTTATGTCTTCT
11784093 TTTTTCTTTTT
1 TTTTT-TTTTT
11784104 CTTCTTTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.04, C:0.10, G:0.02, T:0.84
Consensus pattern (19 bp):
TTTTTTTTTTATGTCTTCT
Found at i:11784620 original size:29 final size:26
Alignment explanation
Indices: 11784588--11784654 Score: 64
Period size: 29 Copynumber: 2.3 Consensus size: 26
11784578 TAGTTTAATT
11784588 TTATATTTATATATATT-ATATTAATAAAA
1 TTATATTTATAT-T-TTAAT-TTAAT-AAA
11784617 TTATTATTTGATATTTTAATTTAATAAA
1 TTA-TATTT-ATATTTTAATTTAATAAA
11784645 TTAATATTTA
1 TT-ATATTTA
11784655 AACGTAATGG
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
27 1 0.03
28 10 0.29
29 11 0.32
30 8 0.24
31 4 0.12
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (26 bp):
TTATATTTATATTTTAATTTAATAAA
Found at i:11784755 original size:29 final size:28
Alignment explanation
Indices: 11784701--11784755 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
11784691 CTCTTTTTAG
* *
11784701 TTTTAGTTTTTTTTTATTATTGTTTTGA
1 TTTTAGTTTTTTTATATTATTATTTTGA
11784729 TTTTCAGTTTTTTTGATATT-TTATTTT
1 TTTT-AGTTTTTTT-ATATTATTATTTT
11784756 AAAATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 4 0.17
29 15 0.65
30 4 0.17
ACGTcount: A:0.15, C:0.02, G:0.09, T:0.75
Consensus pattern (28 bp):
TTTTAGTTTTTTTATATTATTATTTTGA
Found at i:11786066 original size:2 final size:2
Alignment explanation
Indices: 11786059--11786084 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11786049 TTCTGTACTC
11786059 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
11786085 TTGTGTGTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11787977 original size:9 final size:9
Alignment explanation
Indices: 11787965--11788004 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
11787955 AGTATATCAT
11787965 TTATAATTA
1 TTATAATTA
11787974 TTATAATGTA
1 TTATAAT-TA
11787984 TT-TAATTAA
1 TTATAATT-A
11787993 TTATAATTA
1 TTATAATTA
11788002 TTA
1 TTA
11788005 AAAGATAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 1 0.04
9 18 0.64
10 9 0.32
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (9 bp):
TTATAATTA
Found at i:11789340 original size:3 final size:3
Alignment explanation
Indices: 11789332--11789359 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
11789322 AACATATAAC
11789332 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
11789360 ATAATTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:11789450 original size:29 final size:29
Alignment explanation
Indices: 11789403--11789461 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
11789393 ATTATACTTC
* **
11789403 TATAATCATTTAAGTTTTTAATATTTTAT
1 TATAATCAATTAAAATTTTAATATTTTAT
*
11789432 TATAATCAATTAAAATTTTAATCTTTTAT
1 TATAATCAATTAAAATTTTAATATTTTAT
11789461 T
1 T
11789462 TTGATTCATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (29 bp):
TATAATCAATTAAAATTTTAATATTTTAT
Found at i:11790101 original size:12 final size:12
Alignment explanation
Indices: 11790084--11790109 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11790074 TTTTAGTGGA
11790084 TGAAATAATTTG
1 TGAAATAATTTG
11790096 TGAAATAATTTG
1 TGAAATAATTTG
11790108 TG
1 TG
11790110 TATATATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.42
Consensus pattern (12 bp):
TGAAATAATTTG
Found at i:11792561 original size:22 final size:22
Alignment explanation
Indices: 11792533--11792585 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
11792523 TATTAAAAAA
*
11792533 ATATTTTTA-TATTAATATTAAT
1 ATATTTTTAGAATTAA-ATTAAT
*
11792555 ATATTTTTAGAATTAAATTTAT
1 ATATTTTTAGAATTAAATTAAT
11792577 ATAATTTTT
1 AT-ATTTTT
11792586 TTTAGTAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 16 0.59
23 11 0.41
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
ATATTTTTAGAATTAAATTAAT
Found at i:11796218 original size:22 final size:24
Alignment explanation
Indices: 11796172--11796214 Score: 65
Period size: 21 Copynumber: 1.9 Consensus size: 24
11796162 GTTAAAACAG
11796172 TATTATTTTATATTTAATATTTAA
1 TATTATTTTATATTTAATATTTAA
11796196 TATT-TTTTA-ATTT-ATATTT
1 TATTATTTTATATTTAATATTT
11796215 TAATTAGATC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 4 0.21
23 5 0.26
24 4 0.21
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
TATTATTTTATATTTAATATTTAA
Found at i:11799658 original size:19 final size:19
Alignment explanation
Indices: 11799634--11799671 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
11799624 GCTGTTAGAT
*
11799634 AACTTACTTT-TGGAACATC
1 AACTTA-TTTCTGCAACATC
11799653 AACTTATTTCTGCAACATC
1 AACTTATTTCTGCAACATC
11799672 TTAGCATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.32, C:0.24, G:0.08, T:0.37
Consensus pattern (19 bp):
AACTTATTTCTGCAACATC
Found at i:11805163 original size:5 final size:5
Alignment explanation
Indices: 11805153--11805253 Score: 60
Period size: 5 Copynumber: 18.8 Consensus size: 5
11805143 TTATTATTTT
* *
11805153 TTATA TTATA TTATAA TAATA TTATTA TCATA TTATA TTATCA -TATTA
1 TTATA TTATA TTAT-A TTATA TTA-TA TTATA TTATA TTAT-A TTA-TA
* * ** *
11805201 CTATTA TTATTA GTATA TTATA TGGTA TTATA TCATA TTACTA TTATTA
1 TTA-TA TTA-TA TTATA TTATA TTATA TTATA TTATA TTA-TA TTA-TA
11805250 TTAT
1 TTAT
11805254 TATTTTCTTT
Statistics
Matches: 76, Mismatches: 14, Indels: 12
0.75 0.14 0.12
Matches are distributed among these distances:
5 44 0.58
6 32 0.42
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (5 bp):
TTATA
Found at i:11805178 original size:3 final size:3
Alignment explanation
Indices: 11805143--11805257 Score: 56
Period size: 3 Copynumber: 41.7 Consensus size: 3
11805133 GGACCATGTT
* * *
11805143 TTA TTA TT- TT- TTA -TA TTA -TA TTA -TA ATA ATA TTA TTA TCA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
11805185 TTA -TA TTA TCA -TA TTA CTA TTA TTA TTA GTA -TA TTA -TA TGGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T--TA
* *
11805228 TTA -TA TCA -TA TTA CTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11805258 TTCTTTTTTC
Statistics
Matches: 87, Mismatches: 12, Indels: 26
0.70 0.10 0.21
Matches are distributed among these distances:
2 21 0.24
3 63 0.72
5 3 0.03
ACGTcount: A:0.36, C:0.04, G:0.03, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:11806106 original size:16 final size:15
Alignment explanation
Indices: 11806064--11806122 Score: 59
Period size: 15 Copynumber: 3.9 Consensus size: 15
11806054 TTTTCTATTT
*
11806064 TATTTTTATTTTTTG
1 TATTTTTATTTTTAG
*
11806079 -ATTTTATTTTTTTAG
1 TATTTT-TATTTTTAG
11806094 CTCA-TTTTATTTTTAG
1 -T-ATTTTTATTTTTAG
11806110 TATTTTTATTTTT
1 TATTTTTATTTTT
11806123 TTTATTTTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
14 6 0.17
15 18 0.50
16 8 0.22
17 3 0.08
18 1 0.03
ACGTcount: A:0.17, C:0.03, G:0.05, T:0.75
Consensus pattern (15 bp):
TATTTTTATTTTTAG
Found at i:11806128 original size:15 final size:14
Alignment explanation
Indices: 11806061--11806131 Score: 63
Period size: 13 Copynumber: 4.7 Consensus size: 14
11806051 TTTTTTTCTA
11806061 TTTTATTTTTATTT
1 TTTTATTTTTATTT
*
11806075 TTTGA-TTTTATTT
1 TTTTATTTTTATTT
11806088 TTTTAGCTCATTTTATTT
1 TTTTA--T--TTTTATTT
*
11806106 TTAGTATTTTTATTTT
1 TT-TTATTTTTA-TTT
11806122 TTTTATTTTT
1 TTTTATTTTT
11806132 GAGAAATTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
13 12 0.26
14 4 0.09
15 12 0.26
16 5 0.11
17 1 0.02
18 10 0.22
19 2 0.04
ACGTcount: A:0.15, C:0.03, G:0.04, T:0.77
Consensus pattern (14 bp):
TTTTATTTTTATTT
Found at i:11806131 original size:25 final size:25
Alignment explanation
Indices: 11806098--11806152 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
11806088 TTTTAGCTCA
* * *
11806098 TTTTATTTTTAGTATTTTTATT-TT
1 TTTTATTTTGAGAAATTTTATTATT
11806122 TTTTATTTTTGAGAAATTTTATTATT
1 TTTTA-TTTTGAGAAATTTTATTATT
11806148 TTTTA
1 TTTTA
11806153 AAAATATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 5 0.19
25 14 0.54
26 7 0.27
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (25 bp):
TTTTATTTTGAGAAATTTTATTATT
Found at i:11806157 original size:19 final size:19
Alignment explanation
Indices: 11806119--11806157 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
11806109 GTATTTTTAT
* *
11806119 TTTTTTTATTTTTGAGAAA
1 TTTTATTATTTTTGAAAAA
*
11806138 TTTTATTATTTTTTAAAAA
1 TTTTATTATTTTTGAAAAA
11806157 T
1 T
11806158 ATTTTTGCTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (19 bp):
TTTTATTATTTTTGAAAAA
Found at i:11806435 original size:19 final size:19
Alignment explanation
Indices: 11806390--11806439 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 19
11806380 AAAATGTATA
11806390 AAAATAAAAAAAATCCTTTC
1 AAAAT-AAAAAAATCCTTTC
*
11806410 AATAATAAAAAAATCTTTTTC
1 AA-AATAAAAAAATC-CTTTC
11806431 -AAATAAAAA
1 AAAATAAAAA
11806440 TCCTTACAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 8 0.30
20 12 0.44
21 7 0.26
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (19 bp):
AAAATAAAAAAATCCTTTC
Found at i:11807389 original size:11 final size:11
Alignment explanation
Indices: 11807359--11807392 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
11807349 AATTATTTAT
11807359 TTATTTATTT-
1 TTATTTATTTG
11807369 TTATTGTATTTG
1 TTATT-TATTTG
11807381 TTATTTATTTG
1 TTATTTATTTG
11807392 T
1 T
11807393 ATGTGCATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 5 0.23
11 12 0.55
12 5 0.23
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.74
Consensus pattern (11 bp):
TTATTTATTTG
Found at i:11810186 original size:11 final size:11
Alignment explanation
Indices: 11810170--11810199 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
11810160 CTTGACAATT
11810170 AAAAAAATGAA
1 AAAAAAATGAA
11810181 AAAAAAATGAA
1 AAAAAAATGAA
*
11810192 GAAAAAAT
1 AAAAAAAT
11810200 TGATGGAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (11 bp):
AAAAAAATGAA
Found at i:11810248 original size:13 final size:12
Alignment explanation
Indices: 11810229--11810262 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 12
11810219 TGTACTCTAT
11810229 AAAAAAAAAAGAG
1 AAAAAAAAAA-AG
11810242 CAAAAAAAAAAAG
1 -AAAAAAAAAAAG
11810255 AAAAAAAA
1 AAAAAAAA
11810263 TTGTTGGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 2 0.10
14 10 0.50
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:11810261 original size:15 final size:15
Alignment explanation
Indices: 11810229--11810262 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
11810219 TGTACTCTAT
**
11810229 AAAAAAAAAAGAGCA
1 AAAAAAAAAAGAAAA
11810244 AAAAAAAAAAGAAAA
1 AAAAAAAAAAGAAAA
11810259 AAAA
1 AAAA
11810263 TTGTTGGGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAGAAAA
Found at i:11810607 original size:14 final size:14
Alignment explanation
Indices: 11810534--11810609 Score: 55
Period size: 14 Copynumber: 5.3 Consensus size: 14
11810524 TGTGCAAAAT
11810534 AAAAAAACAA-AAA
1 AAAAAAACAAGAAA
**
11810547 AAGAAATTGCAAGAAAA
1 AA-AAA-AACAAG-AAA
*
11810564 AAAAAAACAACAAA
1 AAAAAAACAAGAAA
* * *
11810578 CAAAAAACATGGAA
1 AAAAAAACAAGAAA
*
11810592 AAAAAAAGAAGAAA
1 AAAAAAACAAGAAA
11810606 AAAA
1 AAAA
11810610 GAGACTTAGA
Statistics
Matches: 46, Mismatches: 13, Indels: 7
0.70 0.20 0.11
Matches are distributed among these distances:
13 2 0.04
14 30 0.65
15 6 0.13
16 3 0.07
17 5 0.11
ACGTcount: A:0.79, C:0.08, G:0.09, T:0.04
Consensus pattern (14 bp):
AAAAAAACAAGAAA
Found at i:11811906 original size:119 final size:119
Alignment explanation
Indices: 11811650--11811907 Score: 304
Period size: 119 Copynumber: 2.2 Consensus size: 119
11811640 CACCTCAGTC
* *
11811650 AGTCATCTTCAACCTCGATTCGATCCTAGTCAATTTACTTTTTGACTCACGATTTTGTCCCAATT
1 AGTCATCTTCAACCTTGACTCGATCCTAGTCAATTTACTTTTTGACTCACGATTTTGTCCCAATT
* * *
11811715 ATTCGATCTTGATTTCATCCAGAACATTTCTTGACTCGCAGTTCTATCCCGATT
66 ATTCAATCTTGATTTCATCAAGAACATTTCCTGACTCGCAGTTCTATCCCGATT
* * * * * ** * *
11811769 AATCGTCTTCGACCTTGACTCGATCCT-GATCATTTTATTTTTTGACTCGTGATTTTGTCTCAGT
1 AGTCATCTTCAACCTTGACTCGATCCTAG-TCAATTTACTTTTTGACTCACGATTTTGTCCCAAT
** * * *
11811833 TATTCAATCTTGATTTTGTTAAGATCATTTCCTGACTCGCGGATTC-ATCCCGATT
65 TATTCAATCTTGATTTCATCAAGAACATTTCCTGACTCGCAG-TTCTATCCCGATT
*
11811888 AGTCATCTTCAACTTTGACT
1 AGTCATCTTCAACCTTGACT
11811908 TAGTCTTGGT
Statistics
Matches: 114, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
118 1 0.01
119 110 0.96
120 3 0.03
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.41
Consensus pattern (119 bp):
AGTCATCTTCAACCTTGACTCGATCCTAGTCAATTTACTTTTTGACTCACGATTTTGTCCCAATT
ATTCAATCTTGATTTCATCAAGAACATTTCCTGACTCGCAGTTCTATCCCGATT
Found at i:11812315 original size:5 final size:5
Alignment explanation
Indices: 11812307--11812402 Score: 57
Period size: 5 Copynumber: 17.6 Consensus size: 5
11812297 ATTATTTTTG
* * *
11812307 TTATA TTATA TTAAA TTATA GTATTA TTATAA TAATA TTATA TTATCA
1 TTATA TTATA TTATA TTATA TTA-TA TTAT-A TTATA TTATA TTAT-A
* ** *
11812355 TTATCA TGTTATTA TTATTA GTATA TTATA CGATA TTATA TCATA TTA
1 TTAT-A --TTA-TA TTA-TA TTATA TTATA TTATA TTATA TTATA TTA
11812403 CTAATGCTAC
Statistics
Matches: 71, Mismatches: 14, Indels: 12
0.73 0.14 0.12
Matches are distributed among these distances:
5 43 0.61
6 23 0.32
8 4 0.06
9 1 0.01
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (5 bp):
TTATA
Found at i:11813603 original size:21 final size:20
Alignment explanation
Indices: 11813560--11813603 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
11813550 ACAAAAAAAT
11813560 AAAAAATCTTTTC-AATAATAA
1 AAAAAATCTTTTCAAAT-A-AA
11813581 AAAAAATCTTTTTCAAATAAA
1 AAAAAATC-TTTTCAAATAAA
11813602 AA
1 AA
11813604 TCCTTACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 12 0.57
22 6 0.29
23 3 0.14
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAAAATCTTTTCAAATAAA
Found at i:11831663 original size:1 final size:1
Alignment explanation
Indices: 11831657--11831682 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
11831647 ATTTATTCTG
11831657 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
11831683 CAACTTCCCC
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:11836704 original size:11 final size:11
Alignment explanation
Indices: 11836688--11836717 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
11836678 TTTATATTAA
11836688 GTCTACTTTAT
1 GTCTACTTTAT
11836699 GTCTACTTTAT
1 GTCTACTTTAT
11836710 GTC-ACTTT
1 GTCTACTTT
11836718 CAGATGTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.26
11 14 0.74
ACGTcount: A:0.17, C:0.20, G:0.10, T:0.53
Consensus pattern (11 bp):
GTCTACTTTAT
Found at i:11836762 original size:14 final size:14
Alignment explanation
Indices: 11836745--11836783 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
11836735 TTACTTTAAA
*
11836745 AAAGTTACTTTTTT
1 AAAGTAACTTTTTT
11836759 AAAGTAACTTTTTT
1 AAAGTAACTTTTTT
11836773 AAAGTAACTTT
1 AAAGTAACTTT
11836784 ATGTCAAGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.49
Consensus pattern (14 bp):
AAAGTAACTTTTTT
Found at i:11837501 original size:11 final size:11
Alignment explanation
Indices: 11837482--11837533 Score: 56
Period size: 10 Copynumber: 5.0 Consensus size: 11
11837472 GCCTAGGTGT
11837482 TTATTATTTTA
1 TTATTATTTTA
*
11837493 TTCTTATTTT-
1 TTATTATTTTA
* *
11837503 TTATTTTTTTT
1 TTATTATTTTA
11837514 TTATTA-TTTA
1 TTATTATTTTA
11837524 TT-TTATTTTA
1 TTATTATTTTA
11837534 GGATATTAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
9 3 0.09
10 17 0.50
11 14 0.41
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:11837507 original size:21 final size:21
Alignment explanation
Indices: 11837481--11837533 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
11837471 GGCCTAGGTG
*
11837481 TTTATTATTTTATTCTTATTT
1 TTTATTATTTTATTATTATTT
* *
11837502 TTTATTTTTTTTTTATTATTT
1 TTTATTATTTTATTATTATTT
*
11837523 ATT-TTATTTTA
1 TTTATTATTTTA
11837534 GGATATTAGC
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 6 0.23
21 20 0.77
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTATTATTTTATTATTATTT
Found at i:11837532 original size:18 final size:18
Alignment explanation
Indices: 11837485--11837532 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
11837475 TAGGTGTTTA
* *
11837485 TTATTTTATTCTTATTTT
1 TTATTTTATTTTTATTAT
*
11837503 TTATTTTTTTTTTATTAT
1 TTATTTTATTTTTATTAT
11837521 TTATTTTATTTT
1 TTATTTTATTTT
11837533 AGGATATTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (18 bp):
TTATTTTATTTTTATTAT
Found at i:11839243 original size:58 final size:59
Alignment explanation
Indices: 11839143--11839437 Score: 236
Period size: 58 Copynumber: 5.0 Consensus size: 59
11839133 CTCAATGATC
* * * *
11839143 TCTTT-AAAATAAAAT-TTGAAAAAAAATATTTCTGAAG-GAAAGTTGAATGTATCAATTT
1 TCTTTGAAAATAAAATATT-AAGAAAAATATTT-TTAAGAAAAAGTTGAAAGTATCAATTT
*
11839201 TCTTTGAACATAAAA-ATTAAGAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTT
1 TCTTTGAAAATAAAATATTAAGAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTT
* * * * * * *
11839259 T-TCTTGAAAATAAAATTTTAAAAAAAACAAGCATTTTTTAGGAAAAGTTGGAAGTATAAATTT
1 TCT-TTGAAAATAAAATATT--AAGAAA-AA-TATTTTTAAGAAAAAGTTGAAAGTATCAATTT
* * * * *
11839322 TCCTTAAAAATAAAATTATCAAGAAAAACATTTTTAAGGAAAAGTTGAAAGTATCAAATTT
1 TCTTTGAAAATAAAA-TATTAAGAAAAATATTTTTAAGAAAAAGTTGAAAGTATC-AATTT
* *
11839383 TC-TTGAAAATAAAA-ACCTT----CAAATA-CTTTAAGAAAAAGTTGAAAGTATCAATTT
1 TCTTTGAAAATAAAATA--TTAAGAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTT
11839437 T
1 T
11839438 TCTTGTATGA
Statistics
Matches: 196, Mismatches: 27, Indels: 32
0.77 0.11 0.13
Matches are distributed among these distances:
54 6 0.03
55 22 0.11
56 4 0.02
57 5 0.03
58 49 0.25
59 12 0.06
60 36 0.18
61 14 0.07
62 7 0.04
63 39 0.20
64 2 0.01
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.34
Consensus pattern (59 bp):
TCTTTGAAAATAAAATATTAAGAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTT
Found at i:11839321 original size:63 final size:60
Alignment explanation
Indices: 11839143--11839396 Score: 241
Period size: 63 Copynumber: 4.2 Consensus size: 60
11839133 CTCAATGATC
* * * * * *
11839143 TCTTTAAAATAAAATT-TGAAAAAAAATATTTCTGAAGG-AAAGTTGAATGTATCAA-TTT
1 TCTTGAAAATAAAATTATAAAAAAAAACATTT-TTAAGGAAAAGTTGAAAGTATAAATTTT
* * * * * *
11839201 TCTTTGAACATAAAA--ATTAAGAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTT
1 TC-TTGAAAATAAAATTATAAAAAAAAACATTTTTAAGGAAAAGTTGAAAGTATAAATTTT
* * *
11839260 TCTTGAAAATAAAATTTTAAAAAAAACAAGCATTTTTTAGGAAAAGTTGGAAGTATAAATTTT
1 TCTTGAAAATAAAATTAT-AAAAAAA-AA-CATTTTTAAGGAAAAGTTGAAAGTATAAATTTT
* * * *
11839323 CCTTAAAAATAAAATTATCAAGAAAAACATTTTTAAGGAAAAGTTGAAAGTATCAAA-TTT
1 TCTTGAAAATAAAATTATAAAAAAAAACATTTTTAAGGAAAAGTTGAAAGTAT-AAATTTT
11839383 TCTTGAAAATAAAA
1 TCTTGAAAATAAAA
11839397 ACCTTCAAAT
Statistics
Matches: 161, Mismatches: 25, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
57 4 0.02
58 42 0.26
59 15 0.09
60 40 0.25
61 10 0.06
62 7 0.04
63 43 0.27
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (60 bp):
TCTTGAAAATAAAATTATAAAAAAAAACATTTTTAAGGAAAAGTTGAAAGTATAAATTTT
Found at i:11839374 original size:60 final size:60
Alignment explanation
Indices: 11839148--11839396 Score: 247
Period size: 58 Copynumber: 4.2 Consensus size: 60
11839138 TGATCTCTTT
* * * * * *
11839148 AAAATAAAATT-TGAAAAAAAATATTTCTGAAGG-AAAGTTGAATGTATCAATTTTCTTTG
1 AAAATAAAATTATAAAAAAAAACATTT-TTAAGGAAAAGTTGAAAGTATAAATTTTCCTTG
* * * * * * *
11839207 AACATAAAA--ATTAAGAAAAATATTTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTG
1 AAAATAAAATTATAAAAAAAAACATTTTTAAGGAAAAGTTGAAAGTATAAATTTTCCTTG
* * * *
11839265 AAAATAAAATTTTAAAAAAAACAAGCATTTTTTAGGAAAAGTTGGAAGTATAAATTTTCCTTA
1 AAAATAAAATTAT-AAAAAAA-AA-CATTTTTAAGGAAAAGTTGAAAGTATAAATTTTCCTTG
* *
11839328 AAAATAAAATTATCAAGAAAAACATTTTTAAGGAAAAGTTGAAAGTATCAAATTTT-CTTG
1 AAAATAAAATTATAAAAAAAAACATTTTTAAGGAAAAGTTGAAAGTAT-AAATTTTCCTTG
11839388 AAAATAAAA
1 AAAATAAAA
11839397 ACCTTCAAAT
Statistics
Matches: 157, Mismatches: 25, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
57 4 0.03
58 44 0.28
59 8 0.05
60 37 0.24
61 14 0.09
62 7 0.04
63 43 0.27
ACGTcount: A:0.50, C:0.06, G:0.11, T:0.33
Consensus pattern (60 bp):
AAAATAAAATTATAAAAAAAAACATTTTTAAGGAAAAGTTGAAAGTATAAATTTTCCTTG
Found at i:11840477 original size:16 final size:16
Alignment explanation
Indices: 11840456--11840489 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11840446 TCACCAGTCT
*
11840456 TCAAATCAATTTTATG
1 TCAAATCAACTTTATG
*
11840472 TCAAATCTACTTTATG
1 TCAAATCAACTTTATG
11840488 TC
1 TC
11840490 TATTTTATGT
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:0.32, C:0.18, G:0.06, T:0.44
Consensus pattern (16 bp):
TCAAATCAACTTTATG
Found at i:11849683 original size:3 final size:3
Alignment explanation
Indices: 11849675--11849703 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
11849665 GTGGTAATAA
11849675 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
11849704 CCCTTGATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:11850637 original size:2 final size:2
Alignment explanation
Indices: 11850630--11850667 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
11850620 TATGTCTTTC
*
11850630 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11850668 GCAAAAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
TA
Found at i:11857342 original size:2 final size:2
Alignment explanation
Indices: 11857335--11857407 Score: 65
Period size: 2 Copynumber: 36.5 Consensus size: 2
11857325 TCAAGTTCAA
* * * * *
11857335 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AC AC AC AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
11857377 AT AT AT AT AC AC AC AT AC AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11857408 AAGTACGAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (2 bp):
AT
Found at i:11857406 original size:22 final size:22
Alignment explanation
Indices: 11857351--11857407 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
11857341 ATATATATAT
*
11857351 ATATATATATACACACACATAC
1 ATATATATATATACACACATAC
11857373 ATATATATATATACACACATAC
1 ATATATATATATACACACATAC
11857395 ATATATATATATA
1 ATATATATATATA
11857408 AAGTACGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (22 bp):
ATATATATATATACACACATAC
Found at i:11857546 original size:26 final size:26
Alignment explanation
Indices: 11857510--11857562 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
11857500 GAAAATCGCT
11857510 ATTCAAATCCTATTTCTAATAGTTTA
1 ATTCAAATCCTATTTCTAATAGTTTA
11857536 ATTCAAATCCTATTTCTAATAGTTTA
1 ATTCAAATCCTATTTCTAATAGTTTA
11857562 A
1 A
11857563 GTCCTTCATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.15, G:0.04, T:0.45
Consensus pattern (26 bp):
ATTCAAATCCTATTTCTAATAGTTTA
Found at i:11859698 original size:28 final size:27
Alignment explanation
Indices: 11859658--11859712 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 27
11859648 TTACCAAATA
11859658 TATTTTTAAAAAAATAAAAAATAAAAAC
1 TATTTTTAAAAAAAT-AAAAATAAAAAC
11859686 TATTTTCT-AAAAAATAAAAATAAAAAC
1 TATTTT-TAAAAAAATAAAAATAAAAAC
11859713 AAAAAATTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
27 12 0.46
28 13 0.50
29 1 0.04
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.29
Consensus pattern (27 bp):
TATTTTTAAAAAAATAAAAATAAAAAC
Found at i:11861294 original size:17 final size:17
Alignment explanation
Indices: 11861264--11861296 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11861254 CGGGCATAAA
11861264 TAGCATAAGAAATCAAG
1 TAGCATAAGAAATCAAG
11861281 TAGCAATAAG-AATCAA
1 TAGC-ATAAGAAATCAA
11861297 CAAACATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.55, C:0.12, G:0.15, T:0.18
Consensus pattern (17 bp):
TAGCATAAGAAATCAAG
Found at i:11861825 original size:2 final size:2
Alignment explanation
Indices: 11861784--11861809 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11861774 CAAAGAAATC
11861784 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
11861810 TACAACATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11862832 original size:20 final size:17
Alignment explanation
Indices: 11862806--11862852 Score: 60
Period size: 16 Copynumber: 2.6 Consensus size: 17
11862796 TTTTAGTTAA
11862806 TTTTATTTTCTAACATTGT
1 TTTTATTTTCTAAC-TT-T
11862825 TCTTTATTTT-TAACTTT
1 T-TTTATTTTCTAACTTT
11862842 TTTTATTTTCT
1 TTTTATTTTCT
11862853 TCATATTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 8 0.31
17 3 0.12
18 2 0.08
19 5 0.19
20 8 0.31
ACGTcount: A:0.17, C:0.11, G:0.02, T:0.70
Consensus pattern (17 bp):
TTTTATTTTCTAACTTT
Found at i:11864737 original size:22 final size:24
Alignment explanation
Indices: 11864701--11864778 Score: 70
Period size: 28 Copynumber: 3.2 Consensus size: 24
11864691 AATGAATGAT
*
11864701 AAAATTAATTTTAA-TAAAATTAA
1 AAAATTAATTATAATTAAAATTAA
*
11864724 AAAATT-ATTATAATTATAATTAA
1 AAAATTAATTATAATTAAAATTAA
* *
11864747 AAAATAAAATTATTATAATTATAATTAA
1 AAAAT----TAATTATAATTAAAATTAA
11864775 AAAA
1 AAAA
11864779 ATAAGTAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.13
23 19 0.40
27 1 0.02
28 21 0.45
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
AAAATTAATTATAATTAAAATTAA
Found at i:11864743 original size:28 final size:28
Alignment explanation
Indices: 11864724--11864778 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
11864714 ATAAAATTAA
11864724 AAAATTATTATAATTATAATTAAAAAAT
1 AAAATTATTATAATTATAATTAAAAAAT
11864752 AAAATTATTATAATTATAATTAAAAAA
1 AAAATTATTATAATTATAATTAAAAAA
11864779 ATAAGTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (28 bp):
AAAATTATTATAATTATAATTAAAAAAT
Found at i:11865290 original size:20 final size:18
Alignment explanation
Indices: 11865263--11865300 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
11865253 ATTAAGTGGT
11865263 TATAA-TTAA-TAA-TTA
1 TATAAGTTAATTAATTTA
11865278 TATAAGTTAATTAATTTA
1 TATAAGTTAATTAATTTA
11865296 TATAA
1 TATAA
11865301 ATCATATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 5 0.25
16 4 0.20
17 3 0.15
18 8 0.40
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
TATAAGTTAATTAATTTA
Found at i:11865367 original size:41 final size:41
Alignment explanation
Indices: 11865312--11865397 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 41
11865302 TCATATATTC
* * *
11865312 AAATGATTTCAATAAACACTCT-TTGATAAAATTTAAATTTA
1 AAATAATTTCAATAAACAAT-TATTAATAAAATTTAAATTTA
* *
11865353 AAATAATTTTAATAAATAATTATTAATAAAATTTAAATTTA
1 AAATAATTTCAATAAACAATTATTAATAAAATTTAAATTTA
11865394 AAAT
1 AAAT
11865398 TTTTTCGTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 1 0.03
41 38 0.97
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (41 bp):
AAATAATTTCAATAAACAATTATTAATAAAATTTAAATTTA
Found at i:11865369 original size:13 final size:14
Alignment explanation
Indices: 11865353--11865382 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
11865343 TTTAAATTTA
11865353 AAATAATT-TTAAT
1 AAATAATTATTAAT
11865366 AAATAATTATTAAT
1 AAATAATTATTAAT
11865380 AAA
1 AAA
11865383 ATTTAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AAATAATTATTAAT
Found at i:11873757 original size:21 final size:21
Alignment explanation
Indices: 11873715--11873759 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
11873705 TTATATTTAA
* *
11873715 AATTATTAAGACTTAAATTTT
1 AATTATTAAGAATTAAAGTTT
11873736 AATTATTAA-AATTAAGAGTTT
1 AATTATTAAGAATTAA-AGTTT
11873757 AAT
1 AAT
11873760 AATTTACTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (21 bp):
AATTATTAAGAATTAAAGTTT
Found at i:11889143 original size:21 final size:22
Alignment explanation
Indices: 11889119--11889166 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
11889109 TAATTAAAGG
11889119 AATTAAAATTAATGA-ACATAT
1 AATTAAAATTAATGATACATAT
* * * *
11889140 AATTTAATTTATTGATTCATAT
1 AATTAAAATTAATGATACATAT
11889162 AATTA
1 AATTA
11889167 TTTTTAAAGA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (22 bp):
AATTAAAATTAATGATACATAT
Found at i:11895185 original size:20 final size:20
Alignment explanation
Indices: 11895146--11895185 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
11895136 AAGAAATTTT
*
11895146 TAATAAAAAATAAAGATAAA
1 TAATAAAAAAAAAAGATAAA
11895166 TAATAAAAGAAAAAAG-TAAA
1 TAATAAAA-AAAAAAGATAAA
11895186 GAATCCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.17
Consensus pattern (20 bp):
TAATAAAAAAAAAAGATAAA
Done.