Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 174 of 190
Found at i:50598248 original size:9 final size:9
Alignment explanation
Indices: 50598230--50598364 Score: 91
Period size: 9 Copynumber: 15.2 Consensus size: 9
50598220 CTTATATTTA
*
50598230 AACTTTCAT
1 AACTTACAT
50598239 AACTTACAT
1 AACTTACAT
*
50598248 AA-TAACAT
1 AACTTACAT
50598256 ATTGACTTACAT
1 A---ACTTACAT
*
50598268 TA--TACAT
1 AACTTACAT
* *
50598275 AGCATACAT
1 AACTTACAT
50598284 AACTTACAT
1 AACTTACAT
*
50598293 AA--TACAA
1 AACTTACAT
50598300 AACTTACAT
1 AACTTACAT
*
50598309 AACTTAAAT
1 AACTTACAT
* *
50598318 ATCTTACAC
1 AACTTACAT
*
50598327 AACTTACAC
1 AACTTACAT
*
50598336 AACTTAAAT
1 AACTTACAT
* *
50598345 AATTTAAAT
1 AACTTACAT
50598354 AACTTACAT
1 AACTTACAT
50598363 AA
1 AA
50598365 TACATAATAT
Statistics
Matches: 98, Mismatches: 20, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
7 11 0.11
8 6 0.06
9 75 0.77
11 1 0.01
12 5 0.05
ACGTcount: A:0.47, C:0.19, G:0.01, T:0.33
Consensus pattern (9 bp):
AACTTACAT
Found at i:50598290 original size:25 final size:25
Alignment explanation
Indices: 50598260--50598314 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
50598250 TAACATATTG
* * *
50598260 ACTTACATTATACATAGCATACATA
1 ACTTACATAATACAAAACATACATA
*
50598285 ACTTACATAATACAAAACTTACATA
1 ACTTACATAATACAAAACATACATA
50598310 ACTTA
1 ACTTA
50598315 AATATCTTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.31
Consensus pattern (25 bp):
ACTTACATAATACAAAACATACATA
Found at i:50598413 original size:9 final size:9
Alignment explanation
Indices: 50598279--50598556 Score: 50
Period size: 9 Copynumber: 30.4 Consensus size: 9
50598269 ATACATAGCA
*
50598279 TACATAACT
1 TACATAAAT
50598288 TACAT-AA-
1 TACATAAAT
50598295 TACA-AAACT
1 TACATAAA-T
*
50598304 TACATAACT
1 TACATAAAT
* **
50598313 TAAATATCT
1 TACATAAAT
* *
50598322 TACACAACT
1 TACATAAAT
* *
50598331 TACACAACT
1 TACATAAAT
* *
50598340 TAAATAATT
1 TACATAAAT
* *
50598349 TAAATAACT
1 TACATAAAT
50598358 TACAT-AA-
1 TACATAAAT
50598365 TACATAATAT
1 TACATAA-AT
50598375 GATACATAAAT
1 --TACATAAAT
50598386 TACATTAATAT
1 TACA-TAA-AT
50598397 GATACATAAAT
1 --TACATAAAT
*
50598408 TACATAACT
1 TACATAAAT
*
50598417 TA-ATTAAT
1 TACATAAAT
50598425 TA-AT--A-
1 TACATAAAT
*
50598430 TACATAAGT
1 TACATAAAT
50598439 TACATAACTTAGT
1 TACATAA---A-T
*
50598452 TA-ATTAAT
1 TACATAAAT
*
50598460 ATACATAAGT
1 -TACATAAAT
*
50598470 TACATAACT
1 TACATAAAT
*
50598479 TA-ATTAAT
1 TACATAAAT
*
50598487 T--A-ACA-
1 TACATAAAT
50598492 TACATAAAT
1 TACATAAAT
50598501 TACATTAATATT
1 TACA-TAA-A-T
50598513 ATACATAAAT
1 -TACATAAAT
*
50598523 TACATAACT
1 TACATAAAT
50598532 TA-ATTAATAT
1 TACA-TAA-AT
50598542 GATACATAAAT
1 --TACATAAAT
50598553 TACA
1 TACA
50598557 AAAAATTGCA
Statistics
Matches: 204, Mismatches: 29, Indels: 72
0.67 0.10 0.24
Matches are distributed among these distances:
5 3 0.01
6 4 0.02
7 13 0.06
8 20 0.10
9 106 0.52
10 14 0.07
11 10 0.05
12 22 0.11
13 12 0.06
ACGTcount: A:0.50, C:0.13, G:0.02, T:0.35
Consensus pattern (9 bp):
TACATAAAT
Found at i:50598433 original size:31 final size:31
Alignment explanation
Indices: 50598377--50598668 Score: 197
Period size: 31 Copynumber: 9.5 Consensus size: 31
50598367 CATAATATGA
*
50598377 TACATAAATTACATTAA-T-ATGATACATAAAT
1 TACATAACTTA-ATTAATTAAT-ATACATAAAT
*
50598408 TACATAACTTAATTAATTAATATACATAAGT
1 TACATAACTTAATTAATTAATATACATAAAT
* *
50598439 TACATAACTTAGTTAATTAATATACATAAGT
1 TACATAACTTAATTAATTAATATACATAAAT
*
50598470 TACATAACTTAATTAATTAACATACATAAAT
1 TACATAACTTAATTAATTAATATACATAAAT
50598501 TAC---A-TTAA-T-A-T--TATACATAAAT
1 TACATAACTTAATTAATTAATATACATAAAT
50598523 TACATAACTTAATTAA-T-ATGATACATAAAT
1 TACATAACTTAATTAATTAAT-ATACATAAAT
* * *
50598553 TACAAAAAATTGCAATTAA-TATTATACATATAACT
1 TAC-ATAACTT--AATTAATTAATATACATA-AA-T
* *
50598588 TAC--AACTTACA-TAACTTACA-ACTTAAATAACT
1 TACATAACTTA-ATTAA-TTA-ATA--TACATAAAT
** *
50598620 TACATAACTTACATTTTTTTAATTATTCATAAAT
1 TACATAACTTA-A-TTAATTAA-TATACATAAAT
50598654 TACATAACTTAATTA
1 TACATAACTTAATTA
50598669 CATTTTTTTT
Statistics
Matches: 213, Mismatches: 20, Indels: 55
0.74 0.07 0.19
Matches are distributed among these distances:
22 13 0.06
24 1 0.00
25 2 0.01
26 5 0.02
27 5 0.02
28 3 0.01
29 1 0.00
30 22 0.10
31 87 0.41
32 15 0.07
33 16 0.08
34 34 0.16
35 7 0.03
36 2 0.01
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (31 bp):
TACATAACTTAATTAATTAATATACATAAAT
Found at i:50598540 original size:30 final size:30
Alignment explanation
Indices: 50598492--50598591 Score: 119
Period size: 30 Copynumber: 3.1 Consensus size: 30
50598482 TTAATTAACA
50598492 TACATAAATTACATTAATATTATACATAAAT
1 TACATAAATTA-ATTAATATTATACATAAAT
* *
50598523 TACATAACTTAATTAATATGATACATAAAT
1 TACATAAATTAATTAATATTATACATAAAT
*
50598553 TACAAAAAATTGCAATTAATATTATACATATAACT
1 TAC-ATAAATT--AATTAATATTATACATA-AA-T
50598588 TACA
1 TACA
50598592 ACTTACATAA
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
30 21 0.36
31 15 0.25
33 16 0.27
34 3 0.05
35 4 0.07
ACGTcount: A:0.51, C:0.11, G:0.02, T:0.36
Consensus pattern (30 bp):
TACATAAATTAATTAATATTATACATAAAT
Found at i:50598603 original size:16 final size:16
Alignment explanation
Indices: 50598582--50598633 Score: 77
Period size: 16 Copynumber: 3.1 Consensus size: 16
50598572 TATTATACAT
50598582 ATAACTTACAACTTAC
1 ATAACTTACAACTTAC
*
50598598 ATAACTTACAACTTAA
1 ATAACTTACAACTTAC
50598614 ATAACTTACATAACTTAC
1 ATAACTTAC--AACTTAC
50598632 AT
1 AT
50598634 TTTTTTAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
16 24 0.75
18 8 0.25
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAACTTACAACTTAC
Found at i:50598605 original size:9 final size:9
Alignment explanation
Indices: 50598582--50598633 Score: 67
Period size: 9 Copynumber: 6.2 Consensus size: 9
50598572 TATTATACAT
50598582 ATAACTTAC
1 ATAACTTAC
50598591 --AACTTAC
1 ATAACTTAC
50598598 ATAACTTAC
1 ATAACTTAC
*
50598607 --AACTTAA
1 ATAACTTAC
50598614 ATAACTTAC
1 ATAACTTAC
50598623 ATAACTTAC
1 ATAACTTAC
50598632 AT
1 AT
50598634 TTTTTTAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
7 13 0.35
9 24 0.65
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (9 bp):
ATAACTTAC
Found at i:50598657 original size:34 final size:36
Alignment explanation
Indices: 50598614--50598690 Score: 104
Period size: 39 Copynumber: 2.1 Consensus size: 36
50598604 TACAACTTAA
*
50598614 ATAACTTACATAAC-TTACA-TTTTTTTAATTATTC
1 ATAAATTACATAACATTACATTTTTTTTAATTATTC
50598648 ATAAATTACATAACTTAATTACATTTTTTTTAATTATTC
1 ATAAATTACATAAC---ATTACATTTTTTTTAATTATTC
50598687 ATAA
1 ATAA
50598691 CTTAATTAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
34 13 0.35
38 5 0.14
39 19 0.51
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (36 bp):
ATAAATTACATAACATTACATTTTTTTTAATTATTC
Found at i:50598875 original size:9 final size:9
Alignment explanation
Indices: 50598834--50598917 Score: 68
Period size: 9 Copynumber: 9.8 Consensus size: 9
50598824 TATTCGTAAA
50598834 TTACATAAC
1 TTACATAAC
* *
50598843 TTACTTAAT
1 TTACATAAC
*
50598852 TTTCATAA-
1 TTACATAAC
*
50598860 -TAAATAAC
1 TTACATAAC
50598868 TTACATAAC
1 TTACATAAC
50598877 TTAC--AAC
1 TTACATAAC
50598884 TTACATAAC
1 TTACATAAC
* **
50598893 TTATACGAC
1 TTACATAAC
*
50598902 ATACATAAC
1 TTACATAAC
50598911 TTACATA
1 TTACATA
50598918 GCATAATTTG
Statistics
Matches: 56, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
7 12 0.21
9 44 0.79
ACGTcount: A:0.44, C:0.19, G:0.01, T:0.36
Consensus pattern (9 bp):
TTACATAAC
Found at i:50598884 original size:16 final size:16
Alignment explanation
Indices: 50598865--50598915 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
50598855 CATAATAAAT
50598865 AACTTACATAACTTAC
1 AACTTACATAACTTAC
50598881 AACTTACATAACTTATAC
1 AACTTACATAAC-T-TAC
* *
50598899 GACATACATAACTTAC
1 AACTTACATAACTTAC
50598915 A
1 A
50598916 TAGCATAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 15 0.50
17 2 0.07
18 13 0.43
ACGTcount: A:0.45, C:0.24, G:0.02, T:0.29
Consensus pattern (16 bp):
AACTTACATAACTTAC
Found at i:50604690 original size:66 final size:65
Alignment explanation
Indices: 50604582--50604752 Score: 209
Period size: 66 Copynumber: 2.6 Consensus size: 65
50604572 GAGCAAATTA
* * * *
50604582 CACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGATGTTCAAAG-AAGATATGAAGAACTCCA
1 CACAACTTAAAGCGGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAGAAAG-TATGAAGAACTCCA
50604646 G
65 G
*
50604647 CTACAACTTAAAGCGGATGCAGCAGCGAGAGAAGCTGAGGTTCAACGAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCGGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAGAAAGTATGAAGAACTCCA
50604712 G
65 G
* * * * * *
50604713 CAGCAGCTTAGAGCAGATGCGGCAGCAAGAGAAGCAGAGG
1 CA-CAACTTAAAGCGGATGCAGCAGCGAGAGAAGCTGAGG
50604753 CGGCAGCGAG
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
65 2 0.02
66 87 0.95
67 3 0.03
ACGTcount: A:0.39, C:0.19, G:0.29, T:0.13
Consensus pattern (65 bp):
CACAACTTAAAGCGGATGCAGCAGCGAGAGAAGCTGAGGTTCAAAGAAAGTATGAAGAACTCCAG
Found at i:50604750 original size:21 final size:21
Alignment explanation
Indices: 50604724--50604795 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
50604714 AGCAGCTTAG
*
50604724 AGCAGATGCGGCAGCAAGAGA
1 AGCAGAGGCGGCAGCAAGAGA
*
50604745 AGCAGAGGCGGCAGCGAGAGA
1 AGCAGAGGCGGCAGCAAGAGA
* * ** * *
50604766 AGTACAGGCTACAGCGAGGGA
1 AGCAGAGGCGGCAGCAAGAGA
50604787 AGCAGAGGC
1 AGCAGAGGC
50604796 TAAAGCGAGG
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.35, C:0.19, G:0.42, T:0.04
Consensus pattern (21 bp):
AGCAGAGGCGGCAGCAAGAGA
Found at i:50604789 original size:42 final size:42
Alignment explanation
Indices: 50604743--50604835 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
50604733 GGCAGCAAGA
**
50604743 GAAGCAGAGGCGGCAGCGAGAGAAGTACAGGCTACAGCGAGG
1 GAAGCAGAGGCGAAAGCGAGAGAAGTACAGGCTACAGCGAGG
* * * *
50604785 GAAGCAGAGGCTAAAGCGAGGGAAGTAGAGGCTGCAGCGAGG
1 GAAGCAGAGGCGAAAGCGAGAGAAGTACAGGCTACAGCGAGG
50604827 GAAGCAGAG
1 GAAGCAGAG
50604836 CAGCGTCAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.34, C:0.16, G:0.44, T:0.05
Consensus pattern (42 bp):
GAAGCAGAGGCGAAAGCGAGAGAAGTACAGGCTACAGCGAGG
Found at i:50604796 original size:21 final size:21
Alignment explanation
Indices: 50604743--50604835 Score: 114
Period size: 21 Copynumber: 4.4 Consensus size: 21
50604733 GGCAGCAAGA
** *
50604743 GAAGCAGAGGCGGCAGCGAGA
1 GAAGCAGAGGCTACAGCGAGG
* *
50604764 GAAGTACAGGCTACAGCGAGG
1 GAAGCAGAGGCTACAGCGAGG
*
50604785 GAAGCAGAGGCTAAAGCGAGG
1 GAAGCAGAGGCTACAGCGAGG
* *
50604806 GAAGTAGAGGCTGCAGCGAGG
1 GAAGCAGAGGCTACAGCGAGG
50604827 GAAGCAGAG
1 GAAGCAGAG
50604836 CAGCGTCAAA
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 60 1.00
ACGTcount: A:0.34, C:0.16, G:0.44, T:0.05
Consensus pattern (21 bp):
GAAGCAGAGGCTACAGCGAGG
Found at i:50605018 original size:10 final size:9
Alignment explanation
Indices: 50604999--50605028 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
50604989 TAATACGAAT
50604999 TTTATTATA
1 TTTATTATA
50605008 TTTATTGATA
1 TTTATT-ATA
50605018 TTTATTATA
1 TTTATTATA
50605027 TT
1 TT
50605029 ATTTGTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (9 bp):
TTTATTATA
Found at i:50605420 original size:43 final size:43
Alignment explanation
Indices: 50605343--50605592 Score: 325
Period size: 43 Copynumber: 5.9 Consensus size: 43
50605333 NNNNNNNNNN
*
50605343 GATCTATAGCGGCGC--TTGCGC-AAAACGCCACTAAAGACCCT
1 GATCTATAGCGGCGCTTTTAC-CAAAAACGCCACTAAAGACCCT
* * *
50605384 GATCTATAGCAGCACTTTTACCAAAAACGCCGCTAAAGACCCT
1 GATCTATAGCGGCGCTTTTACCAAAAACGCCACTAAAGACCCT
*
50605427 GATCTATAGCGGCGC--TTAGCGCAAAAACGCCACTAAAGACCTT
1 GATCTATAGCGGCGCTTTTA-C-CAAAAACGCCACTAAAGACCCT
*
50605470 GATCTATAGCGGCGCTTTTACCAAAAACGCCGCTAAAGACCCT
1 GATCTATAGCGGCGCTTTTACCAAAAACGCCACTAAAGACCCT
* *
50605513 GATCTATAGCGGCGC--TTAGCGCAAAAATGCCACTAAAGACCTT
1 GATCTATAGCGGCGCTTTTA-C-CAAAAACGCCACTAAAGACCCT
*
50605556 GATCTATAGCGGCGCTTTTACCAAAAACGCCGCTAAA
1 GATCTATAGCGGCGCTTTTACCAAAAACGCCACTAAA
50605593 TGTATTAGTC
Statistics
Matches: 183, Mismatches: 15, Indels: 20
0.84 0.07 0.09
Matches are distributed among these distances:
41 19 0.10
42 3 0.02
43 153 0.84
44 2 0.01
45 6 0.03
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (43 bp):
GATCTATAGCGGCGCTTTTACCAAAAACGCCACTAAAGACCCT
Found at i:50605488 original size:86 final size:86
Alignment explanation
Indices: 50605343--50605592 Score: 450
Period size: 86 Copynumber: 2.9 Consensus size: 86
50605333 NNNNNNNNNN
* * *
50605343 GATCTATAGCGGCGCTT-GCGC-AAAACGCCACTAAAGACCCTGATCTATAGCAGCACTTTTACC
1 GATCTATAGCGGCGCTTAGCGCAAAAACGCCACTAAAGACCTTGATCTATAGCGGCGCTTTTACC
50605406 AAAAACGCCGCTAAAGACCCT
66 AAAAACGCCGCTAAAGACCCT
50605427 GATCTATAGCGGCGCTTAGCGCAAAAACGCCACTAAAGACCTTGATCTATAGCGGCGCTTTTACC
1 GATCTATAGCGGCGCTTAGCGCAAAAACGCCACTAAAGACCTTGATCTATAGCGGCGCTTTTACC
50605492 AAAAACGCCGCTAAAGACCCT
66 AAAAACGCCGCTAAAGACCCT
*
50605513 GATCTATAGCGGCGCTTAGCGCAAAAATGCCACTAAAGACCTTGATCTATAGCGGCGCTTTTACC
1 GATCTATAGCGGCGCTTAGCGCAAAAACGCCACTAAAGACCTTGATCTATAGCGGCGCTTTTACC
50605578 AAAAACGCCGCTAAA
66 AAAAACGCCGCTAAA
50605593 TGTATTAGTC
Statistics
Matches: 160, Mismatches: 4, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
84 17 0.11
85 4 0.03
86 139 0.87
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (86 bp):
GATCTATAGCGGCGCTTAGCGCAAAAACGCCACTAAAGACCTTGATCTATAGCGGCGCTTTTACC
AAAAACGCCGCTAAAGACCCT
Found at i:50605773 original size:22 final size:22
Alignment explanation
Indices: 50605745--50605787 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
50605735 CTGCGGCGCT
*
50605745 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
50605767 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
50605788 GTTTTGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.28, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:50611297 original size:20 final size:20
Alignment explanation
Indices: 50611269--50611307 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
50611259 AAAATGGGGA
50611269 TTTCATTTTATTTTTCTCTT
1 TTTCATTTTATTTTTCTCTT
* *
50611289 TTTCTTTTTCTTTTTCTCT
1 TTTCATTTTATTTTTCTCT
50611308 GTTCAACTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTCATTTTATTTTTCTCTT
Found at i:50619510 original size:2 final size:2
Alignment explanation
Indices: 50619503--50619529 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
50619493 TCTAGTTGTC
50619503 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
50619530 TATCCTTTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:50621078 original size:19 final size:19
Alignment explanation
Indices: 50621056--50621116 Score: 54
Period size: 19 Copynumber: 3.1 Consensus size: 19
50621046 CTCTAACTTA
50621056 AATATTTTATTCTATATAT
1 AATATTTTATTCTATATAT
**
50621075 AATAATTTTA-AGTA-ATACT
1 AAT-ATTTTATTCTATATA-T
50621094 ATATATTTTATTCTATATGAT
1 A-ATATTTTATTCTATAT-AT
50621115 AA
1 AA
50621117 AATAATTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 11
0.68 0.09 0.23
Matches are distributed among these distances:
18 3 0.09
19 13 0.41
20 11 0.34
21 4 0.12
22 1 0.03
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (19 bp):
AATATTTTATTCTATATAT
Found at i:50624827 original size:24 final size:26
Alignment explanation
Indices: 50624780--50624830 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
50624770 AAAATTTTAA
50624780 TAAATAAAAAAATAATTTATTAAATAT
1 TAAATAAAAAAATAA-TTATTAAATAT
*
50624807 TAAATTAAAAAATAA-TA-TAAATAT
1 TAAATAAAAAAATAATTATTAAATAT
50624831 ATTTTTAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 7 0.30
25 2 0.09
27 14 0.61
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (26 bp):
TAAATAAAAAAATAATTATTAAATAT
Found at i:50630735 original size:12 final size:13
Alignment explanation
Indices: 50630718--50630748 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
50630708 CATCAACTAA
50630718 TTATATATA-TTT
1 TTATATATACTTT
50630730 TTATATATACTTT
1 TTATATATACTTT
50630743 TTATAT
1 TTATAT
50630749 GTCAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.50
13 9 0.50
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (13 bp):
TTATATATACTTT
Found at i:50630804 original size:48 final size:49
Alignment explanation
Indices: 50630752--50630849 Score: 137
Period size: 50 Copynumber: 2.0 Consensus size: 49
50630742 TTTATATGTC
*
50630752 AAATAT-TTACTT-TTTGACCTATATTGTGGGTATCATAAATTCTAATAT
1 AAATATATT-CTTCTTTCACCTATATTGTGGGTATCATAAATTCTAATAT
* *
50630800 AAATATAATTGTTCTTTCACCTATATTGTGGGTATGATAAATTCTAATAT
1 AAATAT-ATTCTTCTTTCACCTATATTGTGGGTATCATAAATTCTAATAT
50630850 TATAAATTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
48 6 0.14
49 2 0.05
50 36 0.82
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.45
Consensus pattern (49 bp):
AAATATATTCTTCTTTCACCTATATTGTGGGTATCATAAATTCTAATAT
Found at i:50632595 original size:30 final size:31
Alignment explanation
Indices: 50632538--50632605 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 31
50632528 ACTTCCGAGC
* *
50632538 TTGGGGACAAAAGTGTAAATATGC-AAAAGT
1 TTGGGGGCAAAAGTGAAAATATGCAAAAAGT
* * *
50632568 TTGGGGGCAAAATTGAAAATTTTCAAAAAGT
1 TTGGGGGCAAAAGTGAAAATATGCAAAAAGT
*
50632599 TGGGGGG
1 TTGGGGG
50632606 AGGACTATTT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
30 19 0.61
31 12 0.39
ACGTcount: A:0.38, C:0.06, G:0.31, T:0.25
Consensus pattern (31 bp):
TTGGGGGCAAAAGTGAAAATATGCAAAAAGT
Found at i:50634046 original size:85 final size:85
Alignment explanation
Indices: 50633903--50634073 Score: 324
Period size: 85 Copynumber: 2.0 Consensus size: 85
50633893 ATATGTTTAC
* *
50633903 TTACTAAGCTATATGCTTACTCGTTTGTATTTTCCCTTGATTATAGTGATATCAGCCAGTTCGAA
1 TTACTAAGCTATATGCTTACTCATTTGTATTTTCCCTTGATTATAGTGACATCAGCCAGTTCGAA
50633968 ACTTGGACAAAGTCAGGAAA
66 ACTTGGACAAAGTCAGGAAA
50633988 TTACTAAGCTATATGCTTACTCATTTGTATTTTCCCTTGATTATAGTGACATCAGCCAGTTCGAA
1 TTACTAAGCTATATGCTTACTCATTTGTATTTTCCCTTGATTATAGTGACATCAGCCAGTTCGAA
50634053 ACTTGGACAAAGTCAGGAAA
66 ACTTGGACAAAGTCAGGAAA
50634073 T
1 T
50634074 CATTCACACT
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 84 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (85 bp):
TTACTAAGCTATATGCTTACTCATTTGTATTTTCCCTTGATTATAGTGACATCAGCCAGTTCGAA
ACTTGGACAAAGTCAGGAAA
Found at i:50635952 original size:101 final size:101
Alignment explanation
Indices: 50635812--50636063 Score: 310
Period size: 101 Copynumber: 2.5 Consensus size: 101
50635802 ATTATCATTC
* * * * *
50635812 GATACACGTAGTAGCATTCATATAGTACTACACACGTGATCAAACTTTCCGGTTCACGTAGTAGC
1 GATACACGTAGTAGCCTACACATAGTACTACACACGTGATCAAACTTTCCGGTACACATAGTAGC
50635877 CTGCACATAGTACTACACACGTGACCATTAATAT-CA
66 CTGCACATAGTACTACACACGTGACCATTAAT-TCCA
* * * * *
50635913 GATACACGTAGCAGCCTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTACGCATAGTAG
1 GATACACGTAGTAGCCTACACATAGTACTACACACGTGATC-AAACTTTCCGGTACACATAGTAG
* * * * *
50635978 CCTGCACATAGTACTGCATATGTGACCTTTCATTCCA
65 CCTGCACATAGTACTACACACGTGACCATTAATTCCA
* *
50636015 G-TACACGTAGTAACCTACACATAGTACTACACACGTGACCAACACTTTC
1 GATACACGTAGTAGCCTACACATAGTACTACACACGTGATCAA-ACTTTC
50636064 ACTTACACGT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
100 2 0.02
101 77 0.60
102 49 0.38
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (101 bp):
GATACACGTAGTAGCCTACACATAGTACTACACACGTGATCAAACTTTCCGGTACACATAGTAGC
CTGCACATAGTACTACACACGTGACCATTAATTCCA
Found at i:50636086 original size:51 final size:50
Alignment explanation
Indices: 50635814--50636076 Score: 221
Period size: 51 Copynumber: 5.2 Consensus size: 50
50635804 TATCATTCGA
* * * *
50635814 TACACGTAGTAGCATTCATATAGTACTACACACGTGATCAAACTTTC-CGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACTTTCAC-G
* *
50635864 TTCACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTAA-TATCA-G
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA--AACTTTCACG
* * * *
50635914 ATACACGTAGCAGCCTGCACATAGTACTACACACGTGATCGAAGCTATC-CGG
1 -TACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCAAACTTTCAC-G
* * * * * *** *
50635966 TACGCATAGTAGCCTGCACATAGTACTGCATATGTGACCTTTCATTC-CAG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACTTTCAC-G
* * *
50636016 TACACGTAGTAACCTACACATAGTACTACACACGTGACCAACACTTTCACT
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAA-ACTTTCACG
50636067 TACACGTAGT
1 TACACGTAGT
50636077 GACCTACACA
Statistics
Matches: 168, Mismatches: 35, Indels: 19
0.76 0.16 0.09
Matches are distributed among these distances:
50 75 0.45
51 87 0.52
52 6 0.04
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.25
Consensus pattern (50 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAACTTTCACG
Found at i:50637259 original size:9 final size:9
Alignment explanation
Indices: 50637245--50637275 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
50637235 GTTAAACGAA
50637245 TCGAGTTAT
1 TCGAGTTAT
*
50637254 TCGAGTTAA
1 TCGAGTTAT
50637263 TCGAGTTAT
1 TCGAGTTAT
50637272 TCGA
1 TCGA
50637276 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:50637358 original size:9 final size:9
Alignment explanation
Indices: 50637329--50637365 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
50637319 TGAGTTTTCG
50637329 AATTCGAAT
1 AATTCGAAT
*
50637338 AACTCGAAT
1 AATTCGAAT
50637347 AATTCGAAT
1 AATTCGAAT
*
50637356 AATTCAAAT
1 AATTCGAAT
50637365 A
1 A
50637366 TCAAACCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:50637448 original size:30 final size:31
Alignment explanation
Indices: 50637414--50637474 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
50637404 AAACTTTTTT
* *
50637414 ACTTTTCCCTCAAAAATTTTACTC-CTTCCC
1 ACTTTCCCCCCAAAAATTTTACTCTCTTCCC
*
50637444 ACTTTCCCCCCAAAACTTTTACTCTCTTCCC
1 ACTTTCCCCCCAAAAATTTTACTCTCTTCCC
50637475 CTCCCAACCC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.21, C:0.41, G:0.00, T:0.38
Consensus pattern (31 bp):
ACTTTCCCCCCAAAAATTTTACTCTCTTCCC
Found at i:50638383 original size:5 final size:5
Alignment explanation
Indices: 50638366--50638396 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
50638356 CTCGAAAATT
*
50638366 TTCGA TTCAA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
50638397 CGAATGCTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.23, C:0.19, G:0.16, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:50638621 original size:25 final size:25
Alignment explanation
Indices: 50638589--50638643 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
50638579 AATATATAAT
50638589 AAATATTTTTTATTTTTT-TATTTTA
1 AAATATTTTTTATTTTTTAT-TTTTA
50638614 AAATATTTTTTATTTTTTATTTTTA
1 AAATATTTTTTATTTTTTATTTTTA
50638639 AAATA
1 AAATA
50638644 AATTTTTGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 28 0.97
26 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (25 bp):
AAATATTTTTTATTTTTTATTTTTA
Found at i:50638649 original size:25 final size:25
Alignment explanation
Indices: 50638596--50638649 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
50638586 AATAAATATT
**
50638596 TTTTATTTTTTTATTTTAAAATATT
1 TTTTATTTTTTTATTTTAAAATAAA
50638621 TTTTA-TTTTTTATTTTTAAAATAAA
1 TTTTATTTTTTTA-TTTTAAAATAAA
50638646 TTTT
1 TTTT
50638650 TGGTGTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (25 bp):
TTTTATTTTTTTATTTTAAAATAAA
Found at i:50640092 original size:26 final size:26
Alignment explanation
Indices: 50640053--50640102 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
50640043 TTTAAAATAC
*
50640053 TTTAAAATTATTTTTATTTTTATTTT
1 TTTAAAATTATTTTTATGTTTATTTT
*
50640079 TTTAAATATT-TTTTTGTGTTTATT
1 TTTAAA-ATTATTTTTATGTTTATT
50640103 AAAAACCNNN
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 18 0.86
27 3 0.14
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (26 bp):
TTTAAAATTATTTTTATGTTTATTTT
Found at i:50640360 original size:27 final size:28
Alignment explanation
Indices: 50640311--50640378 Score: 104
Period size: 27 Copynumber: 2.5 Consensus size: 28
50640301 NNNNNNNNNN
50640311 TACCAAAATAT-TATAACTTTTTTTTATT
1 TACCAAAATATATATAAC-TTTTTTTATT
*
50640339 TACCAATATATATATAA-TTTTTTTATT
1 TACCAAAATATATATAACTTTTTTTATT
50640366 TACCAAAATATAT
1 TACCAAAATATAT
50640379 CAAAAAAAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 22 0.59
28 10 0.27
29 5 0.14
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (28 bp):
TACCAAAATATATATAACTTTTTTTATT
Found at i:50640401 original size:17 final size:17
Alignment explanation
Indices: 50640379--50640412 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
50640369 CAAAATATAT
50640379 CAAAAA-AAGTAAAAAAA
1 CAAAAAGAA-TAAAAAAA
50640396 CAAAAAGAATAAAAAAA
1 CAAAAAGAATAAAAAAA
50640413 GGAAAAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 14 0.88
18 2 0.12
ACGTcount: A:0.82, C:0.06, G:0.06, T:0.06
Consensus pattern (17 bp):
CAAAAAGAATAAAAAAA
Found at i:50643180 original size:3 final size:3
Alignment explanation
Indices: 50643172--50643212 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
50643162 AGTAACATCT
* *
50643172 TAA TAA TAA TAA TAA TAC TAA TAC TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
50643213 CTATAAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:50643631 original size:28 final size:29
Alignment explanation
Indices: 50643599--50643669 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 29
50643589 TTTGTTTTTT
*
50643599 TATATATTTTGGTAAATAAAAAAAGT-TA
1 TATATATTTTGGTAAATAAAAAAAATGTA
*
50643627 TATATATTTTGATAAATAAAAAAAATGTA
1 TATATATTTTGGTAAATAAAAAAAATGTA
*
50643656 TA-ACATTTTGGTAA
1 TATATATTTTGGTAA
50643670 TTTTTTTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 34 0.89
29 4 0.11
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.39
Consensus pattern (29 bp):
TATATATTTTGGTAAATAAAAAAAATGTA
Found at i:50654197 original size:17 final size:17
Alignment explanation
Indices: 50654168--50654218 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
50654158 TCTAAATCTT
*
50654168 ATATATATATTTTTTATA
1 ATATTTATATTTTTTA-A
50654186 ATATTT-TATTTTATTAA
1 ATATTTATATTTT-TTAA
50654203 ATATTTATAATTTTTT
1 ATATTTAT-ATTTTTT
50654219 TACAATTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
17 13 0.45
18 11 0.38
19 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATATTTATATTTTTTAA
Found at i:50659226 original size:18 final size:18
Alignment explanation
Indices: 50659194--50659228 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
50659184 TACTTTGATT
**
50659194 TTTTTTTTATTTTCATAA
1 TTTTTTTTACATTCATAA
50659212 TTTTTTTTACATTCATA
1 TTTTTTTTACATTCATA
50659229 TATATATATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTTTTTTACATTCATAA
Found at i:50659231 original size:2 final size:2
Alignment explanation
Indices: 50659226--50659285 Score: 52
Period size: 2 Copynumber: 31.0 Consensus size: 2
50659216 TTTTACATTC
* * * *
50659226 AT AT AT AT AT AT AT AT AT AT AT TT AT AC AT AC AT AT AT -T TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
50659267 A- AT TT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT
50659286 TTTTATTTTC
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
1 2 0.04
2 43 0.96
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50659271 original size:22 final size:22
Alignment explanation
Indices: 50659246--50659293 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
50659236 ATATATATAT
*
50659246 ATTTATACATACATATATTTTA
1 ATTTATACATACACATATTTTA
* * *
50659268 ATTTATATATATACATATTTTT
1 ATTTATACATACACATATTTTA
50659290 ATTT
1 ATTT
50659294 TCTTTTCTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (22 bp):
ATTTATACATACACATATTTTA
Found at i:50667769 original size:52 final size:52
Alignment explanation
Indices: 50667684--50667787 Score: 154
Period size: 52 Copynumber: 2.0 Consensus size: 52
50667674 GATCATAGAC
*
50667684 ATGTAATCTACTCTAATATTATGTTAACGAATTTTAAAAATATTGGATAATT
1 ATGTAATCTACTCTAATATTATGTTAACGAATTTTAAAAATAGTGGATAATT
* * * * *
50667736 ATGTAATCTATTTTAATATTATGTTGACTAATTTTAAAACTAGTGGATAATT
1 ATGTAATCTACTCTAATATTATGTTAACGAATTTTAAAAATAGTGGATAATT
50667788 CAAAATCTTA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.38, C:0.07, G:0.11, T:0.44
Consensus pattern (52 bp):
ATGTAATCTACTCTAATATTATGTTAACGAATTTTAAAAATAGTGGATAATT
Found at i:50668125 original size:6 final size:6
Alignment explanation
Indices: 50668115--50668149 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
50668105 CCTCATCTTC
*
50668115 ATCTCC ATCTCA ATCTCA ATCTCA ATCTCA ATCTC
1 ATCTCA ATCTCA ATCTCA ATCTCA ATCTCA ATCTC
50668150 CATATTCATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.29, C:0.37, G:0.00, T:0.34
Consensus pattern (6 bp):
ATCTCA
Found at i:50668130 original size:18 final size:19
Alignment explanation
Indices: 50668109--50668148 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
50668099 CATTATCCTC
*
50668109 ATCTTC-ATCTCCATCTCA
1 ATCTTCAATCTCAATCTCA
50668127 ATC-TCAATCTCAATCTCA
1 ATCTTCAATCTCAATCTCA
50668145 ATCT
1 ATCT
50668149 CCATATTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
17 2 0.11
18 17 0.89
ACGTcount: A:0.28, C:0.35, G:0.00, T:0.38
Consensus pattern (19 bp):
ATCTTCAATCTCAATCTCA
Found at i:50682353 original size:5 final size:5
Alignment explanation
Indices: 50682343--50682368 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
50682333 CTACAGCAAG
50682343 AGAAA AGAAA AGAAA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA A
50682369 AGGTAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:50682908 original size:3 final size:3
Alignment explanation
Indices: 50682900--50682927 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
50682890 GTCACTCTTA
50682900 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
50682928 TTTTATTTAT
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:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:50691476 original size:36 final size:36
Alignment explanation
Indices: 50691429--50691500 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
50691419 TAAGCTCAAA
* *
50691429 ACTTGACTATCATATTCGTAAGTTATTCCGAATAAT
1 ACTTGACTATCATATCCATAAGTTATTCCGAATAAT
50691465 ACTTGACTATCATATCCATAAGTTATTCCGAATAAT
1 ACTTGACTATCATATCCATAAGTTATTCCGAATAAT
50691501 TTCATCTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.38
Consensus pattern (36 bp):
ACTTGACTATCATATCCATAAGTTATTCCGAATAAT
Found at i:50692412 original size:19 final size:20
Alignment explanation
Indices: 50692345--50692415 Score: 58
Period size: 19 Copynumber: 3.5 Consensus size: 20
50692335 TATACTACTC
*
50692345 AAATCATTAAAAAATTTATAGA
1 AAATCATTAAAAAA--TATAAA
* *
50692367 AAATCA-T-AAAAATACATCA
1 AAATCATTAAAAAATATA-AA
*
50692386 AAATTATTAAAAAATATAAA
1 AAATCATTAAAAAATATAAA
50692406 AAAT-ATTAAA
1 AAATCATTAAA
50692416 GTGCAAAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
18 3 0.07
19 12 0.29
20 11 0.27
21 9 0.22
22 6 0.15
ACGTcount: A:0.65, C:0.06, G:0.01, T:0.28
Consensus pattern (20 bp):
AAATCATTAAAAAATATAAA
Found at i:50692528 original size:17 final size:18
Alignment explanation
Indices: 50692508--50692549 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
50692498 CATTAAAAAT
*
50692508 AAAATATAATTTA-CAAA
1 AAAATATAAATTATCAAA
*
50692525 AAAATATAAATTATGAAA
1 AAAATATAAATTATCAAA
50692543 AAAATAT
1 AAAATAT
50692550 TAAAAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (18 bp):
AAAATATAAATTATCAAA
Found at i:50692633 original size:13 final size:13
Alignment explanation
Indices: 50692599--50692648 Score: 50
Period size: 12 Copynumber: 3.9 Consensus size: 13
50692589 TAAAGAGTAT
50692599 TAAAAATAATAAAA
1 TAAAAATAA-AAAA
** *
50692613 T-ATTATAAGAAA
1 TAAAAATAAAAAA
50692625 TAAAAATAAAAAA
1 TAAAAATAAAAAA
50692638 T-AAAATAAAAA
1 TAAAAATAAAAA
50692649 TTAACTTGTT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
12 14 0.48
13 14 0.48
14 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:50694078 original size:9 final size:9
Alignment explanation
Indices: 50694055--50694114 Score: 52
Period size: 9 Copynumber: 6.6 Consensus size: 9
50694045 TTGTAAATAT
50694055 TTTTTTATA
1 TTTTTTATA
*
50694064 TATTTTTGTA
1 T-TTTTTATA
50694074 TTTTTTATA
1 TTTTTTATA
*
50694083 ATTTTTAT-
1 TTTTTTATA
50694091 TTTTTGTA-A
1 TTTTT-TATA
*
50694100 TTTTATATTA
1 TTTTTTA-TA
50694110 TTTTT
1 TTTTT
50694115 GAAACATTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
8 6 0.15
9 21 0.52
10 13 0.32
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (9 bp):
TTTTTTATA
Found at i:50694102 original size:26 final size:26
Alignment explanation
Indices: 50694057--50694114 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
50694047 GTAAATATTT
*
50694057 TTTTATATATTTTTGTATTTTTTATAA
1 TTTT-TATATTTTTGTATTTTATATAA
*
50694084 TTTTTAT-TTTTTGTAATTTTATATTA
1 TTTTTATATTTTTGT-ATTTTATATAA
50694110 TTTTT
1 TTTTT
50694115 GAAACATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 7 0.25
26 17 0.61
27 4 0.14
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.74
Consensus pattern (26 bp):
TTTTTATATTTTTGTATTTTATATAA
Found at i:50694103 original size:15 final size:16
Alignment explanation
Indices: 50694055--50694113 Score: 64
Period size: 16 Copynumber: 3.4 Consensus size: 16
50694045 TTGTAAATAT
50694055 TTTTTTATATATTTTTGTA
1 TTTTTTATA-A-TTTT-TA
50694074 TTTTTTATAATTTTTA
1 TTTTTTATAATTTTTA
*
50694090 TTTTTTGTAATTTTATA
1 TTTTTTATAATTTT-TA
50694107 TTATTTT
1 TT-TTTT
50694114 TGAAACATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
16 15 0.41
17 8 0.22
18 5 0.14
19 9 0.24
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (16 bp):
TTTTTTATAATTTTTA
Found at i:50694274 original size:19 final size:20
Alignment explanation
Indices: 50694223--50694274 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 20
50694213 AACTTTATAC
* *
50694223 TTTTCTATATTTTTATAAAT
1 TTTTTTATAATTTTATAAAT
* *
50694243 TTTTTGA-ACTTTTA-AAAT
1 TTTTTTATAATTTTATAAAT
50694261 TTTTTTATAATTTT
1 TTTTTTATAATTTT
50694275 TATGATTTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 10 0.38
19 11 0.42
20 5 0.19
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTTTTATAATTTTATAAAT
Found at i:50701961 original size:25 final size:25
Alignment explanation
Indices: 50701926--50702014 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 25
50701916 ACACACCACA
*
50701926 GCTCTCTTGAGCTTCCCGATACTTG
1 GCTCTCATGAGCTTCCCGATACTTG
*
50701951 GCTCTCATGAGCTTCCCGATA-TACG
1 GCTCTCATGAGCTTCCCGATACT-TG
* * *
50701976 GCTCGT-ATGAGTTTCCCGTTACTTA
1 GCTC-TCATGAGCTTCCCGATACTTG
* *
50702001 GCTCACACGAGCTT
1 GCTCTCATGAGCTT
50702015 TCCGTTATTC
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
24 1 0.02
25 48 0.94
26 2 0.04
ACGTcount: A:0.17, C:0.30, G:0.20, T:0.33
Consensus pattern (25 bp):
GCTCTCATGAGCTTCCCGATACTTG
Found at i:50702030 original size:50 final size:50
Alignment explanation
Indices: 50701933--50702045 Score: 127
Period size: 50 Copynumber: 2.3 Consensus size: 50
50701923 ACAGCTCTCT
* * * * * *
50701933 TGAGCTTCCCGATACTTGGCTCTCATGAGCTTCCCGATATACGGCTCGTA
1 TGAGCTTCCCGTTACTTAGCTCACACGAGCTTCCCGATATACAGCTCGAA
* * * *
50701983 TGAGTTTCCCGTTACTTAGCTCACACGAGCTTTCCGTTATTCAGCTCGAA
1 TGAGCTTCCCGTTACTTAGCTCACACGAGCTTCCCGATATACAGCTCGAA
*
50702033 AGAGCTTCCCGTT
1 TGAGCTTCCCGTT
50702046 TACATGCTTG
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.19, C:0.29, G:0.20, T:0.32
Consensus pattern (50 bp):
TGAGCTTCCCGTTACTTAGCTCACACGAGCTTCCCGATATACAGCTCGAA
Found at i:50705192 original size:59 final size:61
Alignment explanation
Indices: 50705129--50705254 Score: 161
Period size: 59 Copynumber: 2.1 Consensus size: 61
50705119 TTTTTTTTAA
* * * *
50705129 TTTTTAGAGTTAAAACT-AAATTGA-TATATTTTTTAAATATTGAG-GCCAAATTTATT-ATT
1 TTTTTAGAATTAAAACTGAAA-TGATTA-ATTTTGTAAACATTGAGAGCCAAATTTATTGAAT
*
50705188 TTTTTAGAATTAAAACTGAAATGATTAATTTTGTAAACATTGAGAGCTAAATTTATTGAAT
1 TTTTTAGAATTAAAACTGAAATGATTAATTTTGTAAACATTGAGAGCCAAATTTATTGAAT
50705249 TTTTTA
1 TTTTTA
50705255 TATTTAGGAT
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
59 34 0.59
60 16 0.28
61 8 0.14
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.46
Consensus pattern (61 bp):
TTTTTAGAATTAAAACTGAAATGATTAATTTTGTAAACATTGAGAGCCAAATTTATTGAAT
Found at i:50715970 original size:14 final size:14
Alignment explanation
Indices: 50715951--50715986 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
50715941 TGGTTCAAGA
50715951 GCTGAAAGGCAGCG
1 GCTGAAAGGCAGCG
*
50715965 GCTGAAA-GCAGTG
1 GCTGAAAGGCAGCG
50715978 GCTGAAAGG
1 GCTGAAAGG
50715987 GAGAAGGTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.31, C:0.17, G:0.42, T:0.11
Consensus pattern (14 bp):
GCTGAAAGGCAGCG
Found at i:50727831 original size:17 final size:15
Alignment explanation
Indices: 50727789--50727836 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
50727779 AGATCTGACA
*
50727789 CCTTCTCTTCTTTTT
1 CCTTCTTTTCTTTTT
50727804 CCTTCTTTTCTTTTT
1 CCTTCTTTTCTTTTT
*
50727819 CTCTCTTTTTTCTTTTT
1 C-CT-TCTTTTCTTTTT
50727836 C
1 C
50727837 ATGTTTAGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 15 0.52
16 2 0.07
17 12 0.41
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (15 bp):
CCTTCTTTTCTTTTT
Found at i:50736577 original size:1 final size:1
Alignment explanation
Indices: 50736568--50736610 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
50736558 AAAAGGTGGT
* * * *
50736568 CCCCGCCCCCCCCCACCCCCCCCCACCCCCCCCCACCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
50736611 GAAGGCTAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.07, C:0.91, G:0.02, T:0.00
Consensus pattern (1 bp):
C
Found at i:50736586 original size:10 final size:10
Alignment explanation
Indices: 50736568--50736610 Score: 77
Period size: 10 Copynumber: 4.3 Consensus size: 10
50736558 AAAAGGTGGT
*
50736568 CCCCGCCCCC
1 CCCCACCCCC
50736578 CCCCACCCCC
1 CCCCACCCCC
50736588 CCCCACCCCC
1 CCCCACCCCC
50736598 CCCCACCCCC
1 CCCCACCCCC
50736608 CCC
1 CCC
50736611 GAAGGCTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
10 32 1.00
ACGTcount: A:0.07, C:0.91, G:0.02, T:0.00
Consensus pattern (10 bp):
CCCCACCCCC
Found at i:50748238 original size:24 final size:24
Alignment explanation
Indices: 50748193--50748239 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
50748183 TATATATACC
50748193 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
50748217 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
50748240 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:50754448 original size:16 final size:16
Alignment explanation
Indices: 50754427--50754459 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
50754417 CCGTGCCTTT
50754427 AATTTA-ATATATATTA
1 AATTTACATATAT-TTA
50754443 AATTTACATATATTTA
1 AATTTACATATATTTA
50754459 A
1 A
50754460 CTTATGTCGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTTACATATATTTA
Found at i:50755694 original size:16 final size:16
Alignment explanation
Indices: 50755673--50755706 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
50755663 AAATATTAAA
*
50755673 TATTAAAATCAAACAT
1 TATTAAAATCAAAAAT
*
50755689 TATTAATATCAAAAAT
1 TATTAAAATCAAAAAT
50755705 TA
1 TA
50755707 ATTAGTATTA
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:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (16 bp):
TATTAAAATCAAAAAT
Found at i:50755938 original size:15 final size:15
Alignment explanation
Indices: 50755918--50755947 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
50755908 TGGATCATCT
50755918 TCATCTTCATCTTCA
1 TCATCTTCATCTTCA
*
50755933 TCATCTTCTTCTTCA
1 TCATCTTCATCTTCA
50755948 CTTTCAACTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.33, G:0.00, T:0.50
Consensus pattern (15 bp):
TCATCTTCATCTTCA
Found at i:50757130 original size:14 final size:14
Alignment explanation
Indices: 50757111--50757140 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
50757101 CAGATTAGGT
50757111 GTGGGAAAAGGTTA
1 GTGGGAAAAGGTTA
50757125 GTGGGAAAAGGTTA
1 GTGGGAAAAGGTTA
50757139 GT
1 GT
50757141 TGCTTTATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.43, T:0.23
Consensus pattern (14 bp):
GTGGGAAAAGGTTA
Found at i:50759911 original size:47 final size:47
Alignment explanation
Indices: 50759799--50759899 Score: 168
Period size: 47 Copynumber: 2.1 Consensus size: 47
50759789 ATACATAGGT
* *
50759799 TTTTTTAAGTTATATTTATAAAAATTAGATAAAATTAAAAATTTTAG
1 TTTTTTAAGTAATATTTATAAAAATTAGATAAAATTAAAAAGTTTAG
50759846 TTTTTTAAGTAATATTTATAAAAATTAGATAAAATT-AAAAGTTTAG
1 TTTTTTAAGTAATATTTATAAAAATTAGATAAAATTAAAAAGTTTAG
50759892 TGTTTTTA
1 T-TTTTTA
50759900 TTTCATTTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
46 10 0.20
47 41 0.80
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.48
Consensus pattern (47 bp):
TTTTTTAAGTAATATTTATAAAAATTAGATAAAATTAAAAAGTTTAG
Found at i:50760408 original size:14 final size:15
Alignment explanation
Indices: 50760389--50760420 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
50760379 TAATTAAACT
50760389 ATAATCCCT-AATCC
1 ATAATCCCTAAATCC
50760403 ATAATCCCTAAATCC
1 ATAATCCCTAAATCC
50760418 ATA
1 ATA
50760421 TATATAGTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.41, C:0.31, G:0.00, T:0.28
Consensus pattern (15 bp):
ATAATCCCTAAATCC
Found at i:50760727 original size:17 final size:17
Alignment explanation
Indices: 50760701--50760744 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
50760691 CCAACCCTTA
* *
50760701 ATTAAACCATAATCCCT
1 ATTAATCCATAATCACT
50760718 ATTAATCCATAATCACT
1 ATTAATCCATAATCACT
50760735 A--AATCCATAA
1 ATTAATCCATAA
50760745 ATACTCCCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 9 0.36
17 16 0.64
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (17 bp):
ATTAATCCATAATCACT
Found at i:50761334 original size:73 final size:73
Alignment explanation
Indices: 50761170--50761403 Score: 317
Period size: 73 Copynumber: 3.2 Consensus size: 73
50761160 TAAATCAATT
* * * * *
50761170 AAACACCGCTAAATCCCCGAAAGCGCAAAAAAAGGTGTAGTTTTGGCTTAGGTTTTTTTGCGGCG
1 AAACGCCGCTAAATCCCCGAAAGCGCACAAAACGGAGTCGTTTTGGCTTAGG-TTTTTTGCGGCG
* *
50761235 CTTCCTTAA
65 CTTTCTAAA
* *
50761244 AAACGCCGCTAAATCCCCGAAAGCGCACAAAACGGAGTCGTTTTGCCTTATGTTTTTTGCGGCGC
1 AAACGCCGCTAAATCCCCGAAAGCGCACAAAACGGAGTCGTTTTGGCTTAGGTTTTTTGCGGCGC
50761309 TTTCTAAA
66 TTTCTAAA
* * *
50761317 AAACGCCGCTAAATCCCCGAAAGCTCACAAAACAGCA-TCGTTTTGGATTAGGTTTTTTGCGGCG
1 AAACGCCGCTAAATCCCCGAAAGCGCACAAAAC-GGAGTCGTTTTGGCTTAGGTTTTTTGCGGCG
*
50761381 CTTTCCCAAA
65 CTTT-CTAAA
50761391 AAACGCCGCTAAA
1 AAACGCCGCTAAA
50761404 GCCCTGAGCA
Statistics
Matches: 143, Mismatches: 15, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
73 79 0.55
74 64 0.45
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (73 bp):
AAACGCCGCTAAATCCCCGAAAGCGCACAAAACGGAGTCGTTTTGGCTTAGGTTTTTTGCGGCGC
TTTCTAAA
Found at i:50761713 original size:113 final size:113
Alignment explanation
Indices: 50761302--50761855 Score: 858
Period size: 113 Copynumber: 4.9 Consensus size: 113
50761292 TATGTTTTTT
* * * * *
50761302 GCGGCGCTTTCTAAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAACAGCATCGTTTTGGATTA
1 GCGGCGCTTCCTTAAAAACGCCGCTAAATCCAC-AAAGCTCACAAAACTGCGTCGTTTTGGATTA
*
50761367 GGTTTTTTGCGGCGCTTTCCCAAAAAACGCCGCTAAAGCCCTGAGCATTA
65 GGTTTTTTGCGGCGCTTTCTC-AAAAACGCCGCTAAAGCCCTGAGCATTA
* * **
50761417 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCACAAAAACTGCGTCGTTTTACATT
1 GCGGCGCTTCCTTAAAAACGCCGCTAAATCCAC-AAAGCTCAC-AAAACTGCGTCGTTTTGGATT
* * *
50761482 AGGTTTTTTGCGGTGCTATCTCAAAAACGCCGCTAAAGCCATGAGCATTA
64 AGGTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * *
50761532 GCGACACTTCCTTAAAAACGCCGCTAAATCCACAAAGCTCACAAAACTGCATCGTTTTGGATTAG
1 GCGGCGCTTCCTTAAAAACGCCGCTAAATCCACAAAGCTCACAAAACTGCGTCGTTTTGGATTAG
50761597 GTTTTTCTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
66 GTTTTT-TGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
*
50761646 GCGGCGCTTCCTTAAAAACGCCACTAAATCCAC-AAGCTCACAAAACTGCGTCGTTTTGGATTAG
1 GCGGCGCTTCCTTAAAAACGCCGCTAAATCCACAAAGCTCACAAAACTGCGTCGTTTTGGATTAG
50761710 GTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
66 GTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* *
50761758 GCGGCGCTTCCTTAAAAACGCTGCTAAATCCACAAAGCTCACAAATCTGCGTCGTTTTGGATTAG
1 GCGGCGCTTCCTTAAAAACGCCGCTAAATCCACAAAGCTCACAAAACTGCGTCGTTTTGGATTAG
* * *
50761823 GTTTTTTGCAGCGCTTTTTAAAAAACGCCGCTA
66 GTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTA
50761856 TTGCTTATTG
Statistics
Matches: 407, Mismatches: 29, Indels: 8
0.92 0.07 0.02
Matches are distributed among these distances:
112 73 0.18
113 122 0.30
114 78 0.19
115 98 0.24
116 36 0.09
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (113 bp):
GCGGCGCTTCCTTAAAAACGCCGCTAAATCCACAAAGCTCACAAAACTGCGTCGTTTTGGATTAG
GTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:50762308 original size:30 final size:29
Alignment explanation
Indices: 50762274--50762367 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 29
50762264 TTATTTTTTG
*
50762274 CATTTTAACCCATGTACTTTTC-AAAATTTA
1 CATTTTAACCCA--AACTTTTCTAAAATTTA
*
50762304 CATTTTGACCCCAAACTTTTCTAAAATTTA
1 CATTTT-AACCCAAACTTTTCTAAAATTTA
*
50762334 CATTTTGACCCCAAAAC-TTTCTAAAA-TTA
1 CATTTT-AACCC-AAACTTTTCTAAAATTTA
50762363 CATTT
1 CATTT
50762368 CGACCCTTAG
Statistics
Matches: 59, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
29 15 0.25
30 35 0.59
31 9 0.15
ACGTcount: A:0.34, C:0.22, G:0.03, T:0.40
Consensus pattern (29 bp):
CATTTTAACCCAAACTTTTCTAAAATTTA
Found at i:50762321 original size:29 final size:31
Alignment explanation
Indices: 50762289--50762373 Score: 133
Period size: 30 Copynumber: 2.9 Consensus size: 31
50762279 TAACCCATGT
50762289 ACTTTTC-AAAATTTACATTTTGACCCC-AA
1 ACTTTTCTAAAATTTACATTTTGACCCCAAA
50762318 ACTTTTCTAAAATTTACATTTTGACCCCAAA
1 ACTTTTCTAAAATTTACATTTTGACCCCAAA
*
50762349 AC-TTTCTAAAA-TTACATTTCGACCC
1 ACTTTTCTAAAATTTACATTTTGACCC
50762374 TTAGACTTTC
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
29 20 0.38
30 29 0.55
31 4 0.08
ACGTcount: A:0.34, C:0.25, G:0.04, T:0.38
Consensus pattern (31 bp):
ACTTTTCTAAAATTTACATTTTGACCCCAAA
Found at i:50763029 original size:11 final size:11
Alignment explanation
Indices: 50763007--50763073 Score: 59
Period size: 11 Copynumber: 6.1 Consensus size: 11
50762997 AGCCCCGAAG
50763007 AGGAAGGAAAAA
1 AGGAA-GAAAAA
50763019 AGGAAGAAAAA
1 AGGAAGAAAAA
*
50763030 AAGAAG-AAAA
1 AGGAAGAAAAA
*
50763040 A-GAGAGAACAA
1 AGGA-AGAAAAA
50763051 AGGAAGGAAAAA
1 AGGAA-GAAAAA
*
50763063 A-AAAGAAAAA
1 AGGAAGAAAAA
50763073 A
1 A
50763074 AAATATATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
9 2 0.04
10 14 0.30
11 18 0.38
12 13 0.28
ACGTcount: A:0.73, C:0.01, G:0.25, T:0.00
Consensus pattern (11 bp):
AGGAAGAAAAA
Found at i:50763191 original size:13 final size:13
Alignment explanation
Indices: 50763175--50763199 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50763165 AAACGCCCAA
50763175 AAAAAAAAACAGC
1 AAAAAAAAACAGC
50763188 AAAAAAAAACAG
1 AAAAAAAAACAG
50763200 GATAGCAAAA
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:0.80, C:0.12, G:0.08, T:0.00
Consensus pattern (13 bp):
AAAAAAAAACAGC
Found at i:50763192 original size:16 final size:16
Alignment explanation
Indices: 50763155--50763196 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
50763145 GCAGCCCCAA
50763155 AAAAAAAACAAAACGCC
1 AAAAAAAA-AAAACGCC
*
50763172 CAAAAAAAAAAACAG-C
1 AAAAAAAAAAAAC-GCC
50763188 AAAAAAAAA
1 AAAAAAAAA
50763197 CAGGATAGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.79, C:0.17, G:0.05, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAACGCC
Found at i:50763955 original size:20 final size:21
Alignment explanation
Indices: 50763919--50763968 Score: 77
Period size: 19 Copynumber: 2.4 Consensus size: 21
50763909 GTTTTCGTGA
50763919 AAAAAAAATTCTACGTGTTTTT
1 AAAAAAAATTCTACGTG-TTTT
50763941 AAAAAAAATT-T-CGTGTTTT
1 AAAAAAAATTCTACGTGTTTT
50763960 AAAAAAAAT
1 AAAAAAAAT
50763969 ACATGTTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 13 0.46
20 4 0.14
21 1 0.04
22 10 0.36
ACGTcount: A:0.50, C:0.06, G:0.08, T:0.36
Consensus pattern (21 bp):
AAAAAAAATTCTACGTGTTTT
Found at i:50763975 original size:18 final size:19
Alignment explanation
Indices: 50763937--50763977 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
50763927 TTCTACGTGT
* *
50763937 TTTTAAAAAAAATTTCGTG
1 TTTTAAAAAAAATTACATG
50763956 TTTTAAAAAAAA-TACATG
1 TTTTAAAAAAAATTACATG
50763974 TTTT
1 TTTT
50763978 CGAAATTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.44, C:0.05, G:0.07, T:0.44
Consensus pattern (19 bp):
TTTTAAAAAAAATTACATG
Found at i:50764009 original size:18 final size:18
Alignment explanation
Indices: 50763943--50764134 Score: 122
Period size: 17 Copynumber: 10.4 Consensus size: 18
50763933 GTGTTTTTAA
* *
50763943 AAAAAATTTCGTGTTTTA
1 AAAAATTTTCGTGTTTTC
** * *
50763961 AAAAAAATACATGTTTTC
1 AAAAATTTTCGTGTTTTC
*
50763979 -GAAATTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
* * ***
50763996 AAAATTTTTTGTG-TCAG
1 AAAAATTTTCGTGTTTTC
*
50764013 AAAAATTCTCGTG-TTTC
1 AAAAATTTTCGTGTTTTC
50764030 AAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
*
50764048 AAAATTTTCATGTTTTCGGGTTTTC
1 AAAA-----A--TTTTCGTGTTTTC
*
50764073 AAAAAATTCTCGTGTTTTC
1 -AAAAATTTTCGTGTTTTC
*
50764092 AAAAAATTTTTGTG-TTTC
1 -AAAAATTTTCGTGTTTTC
*
50764110 AAAAATCTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
50764128 AAAAATT
1 AAAAATT
50764135 ATTATTTTGT
Statistics
Matches: 133, Mismatches: 30, Indels: 22
0.72 0.16 0.12
Matches are distributed among these distances:
17 47 0.35
18 45 0.34
19 23 0.17
21 1 0.01
23 1 0.01
25 12 0.09
26 4 0.03
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.45
Consensus pattern (18 bp):
AAAAATTTTCGTGTTTTC
Found at i:50764078 original size:27 final size:25
Alignment explanation
Indices: 50764035--50764091 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 25
50764025 GTTTCAAAAA
* *
50764035 TTTTCGTGTTTTCAAAATTTTCATG
1 TTTTCGGGTTTTCAAAATTCTCATG
*
50764060 TTTTCGGGTTTTCAAAAAATTCTCGTG
1 TTTTCGGGTTTTC--AAAATTCTCATG
50764087 TTTTC
1 TTTTC
50764092 AAAAAATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 12 0.44
27 15 0.56
ACGTcount: A:0.19, C:0.14, G:0.14, T:0.53
Consensus pattern (25 bp):
TTTTCGGGTTTTCAAAATTCTCATG
Found at i:50764091 original size:19 final size:19
Alignment explanation
Indices: 50764067--50764132 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
50764057 ATGTTTTCGG
50764067 GTTTTCAAAAAATTCTCGT
1 GTTTTCAAAAAATTCTCGT
* *
50764086 GTTTTCAAAAAATTTTTGT
1 GTTTTCAAAAAATTCTCGT
50764105 G-TTTC-AAAAA-TCTTCGT
1 GTTTTCAAAAAATTC-TCGT
50764122 GTTTTCAAAAA
1 GTTTTCAAAAA
50764133 TTATTATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
16 1 0.03
17 9 0.22
18 8 0.20
19 22 0.55
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (19 bp):
GTTTTCAAAAAATTCTCGT
Found at i:50777606 original size:1 final size:1
Alignment explanation
Indices: 50777600--50777662 Score: 54
Period size: 1 Copynumber: 63.0 Consensus size: 1
50777590 TATTATGCTT
* * * * * * * *
50777600 AAAAAAAACAAAAAAACAAAAAAAAACAAAAAAAACAGAAAAACAAAAAAAAAGAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
50777663 TCAAGATGAA
Statistics
Matches: 46, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.87, C:0.08, G:0.05, T:0.00
Consensus pattern (1 bp):
A
Found at i:50777623 original size:18 final size:17
Alignment explanation
Indices: 50777600--50777652 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
50777590 TATTATGCTT
50777600 AAAAAAAACAAAAAAACA
1 AAAAAAAACAAAAAAA-A
50777618 AAAAAAAACAAAAAAAA
1 AAAAAAAACAAAAAAAA
* *
50777635 CAGAAAAACAAAAAAAA
1 AAAAAAAACAAAAAAAA
50777652 A
1 A
50777653 GAAGAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
17 16 0.50
18 16 0.50
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (17 bp):
AAAAAAAACAAAAAAAA
Found at i:50777624 original size:19 final size:19
Alignment explanation
Indices: 50777600--50777662 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 19
50777590 TATTATGCTT
50777600 AAAAAAAACAAAAAAAC-A
1 AAAAAAAACAAAAAAACAA
*
50777618 AAAAAAAACAAAAAAAACAG
1 AAAAAAAAC-AAAAAAACAA
* *
50777638 AAAAACAA-AAAAAAAGAA
1 AAAAAAAACAAAAAAACAA
*
50777656 GAAAAAA
1 AAAAAAA
50777663 TCAAGATGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
18 22 0.59
19 8 0.22
20 7 0.19
ACGTcount: A:0.87, C:0.08, G:0.05, T:0.00
Consensus pattern (19 bp):
AAAAAAAACAAAAAAACAA
Found at i:50777641 original size:27 final size:27
Alignment explanation
Indices: 50777600--50777662 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
50777590 TATTATGCTT
50777600 AAAAAAAACAAAAAAACAAAAAAAAAC
1 AAAAAAAACAAAAAAACAAAAAAAAAC
* *
50777627 AAAAAAAACAGAAAAACAAAAAAAAAG
1 AAAAAAAACAAAAAAACAAAAAAAAAC
50777654 AAGAAAAAA
1 AA-AAAAAA
50777663 TCAAGATGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
27 27 0.82
28 6 0.18
ACGTcount: A:0.87, C:0.08, G:0.05, T:0.00
Consensus pattern (27 bp):
AAAAAAAACAAAAAAACAAAAAAAAAC
Found at i:50777652 original size:10 final size:9
Alignment explanation
Indices: 50777600--50777651 Score: 72
Period size: 8 Copynumber: 5.9 Consensus size: 9
50777590 TATTATGCTT
50777600 AAAAAAAAC
1 AAAAAAAAC
50777609 -AAAAAAAC
1 AAAAAAAAC
50777617 AAAAAAAAAC
1 -AAAAAAAAC
50777627 AAAAAAAAC
1 AAAAAAAAC
*
50777636 -AGAAAAAC
1 AAAAAAAAC
50777644 AAAAAAAA
1 AAAAAAAA
50777652 AGAAGAAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
8 15 0.39
9 15 0.39
10 8 0.21
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:50778359 original size:77 final size:76
Alignment explanation
Indices: 50777934--50778612 Score: 892
Period size: 76 Copynumber: 8.8 Consensus size: 76
50777924 AATTTCTGCT
* * *
50777934 TTTTTCAAAAAATCAACTCATAATACAGAGGAGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
1 TTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTTT
* **
50777999 TTAATTTCTGTTTT
66 TTAA-AT-T-TTCG
* * *
50778013 TTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAAGTATTTTT
1 TTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTTT
*
50778078 TTAAATTTATGCT
66 TTAAATTT-T-CG
* *
50778091 TTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA--TTT
1 TTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTTT
*
50778154 TTAAATTTCTGCT
66 TTAAATTT-T-CG
* *
50778167 TTTTTAAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCTGAGGTA--TTT
1 TTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTTT
50778230 TT-AA-TTTCTG
66 TTAAATTTTC-G
**
50778240 TCTTTT-TTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTC
1 T-TTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTT-
50778304 TTTTAAATTTTCG
64 TTTTAAATTTTCG
50778317 TTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
1 TTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTT-T
*
50778382 TTTAAAATTTCG
65 TTTAAATTTTCG
*
50778394 TGTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
1 TTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTT-T
50778458 TTTAAATTTTCG
65 TTTAAATTTTCG
**
50778470 TTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGACCATGCCGAGGTATTTCT
1 TTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTT-T
50778534 TTTAAATTTAT-G
65 TTTAAATTT-TCG
** * * * *
50778546 TTTTTTGAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACATGTCGAGGTATT
1 TTTTTCAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTC-GGG-TCATGCCGAGGTATT
50778611 TT
63 TT
50778613 CGATTTTTGT
Statistics
Matches: 559, Mismatches: 26, Indels: 30
0.91 0.04 0.05
Matches are distributed among these distances:
72 1 0.00
73 53 0.09
74 6 0.01
75 3 0.01
76 232 0.42
77 97 0.17
78 83 0.15
79 70 0.13
80 14 0.03
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (76 bp):
TTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTTT
TTAAATTTTCG
Found at i:50778455 original size:153 final size:151
Alignment explanation
Indices: 50777934--50778612 Score: 888
Period size: 153 Copynumber: 4.4 Consensus size: 151
50777924 AATTTCTGCT
* * *
50777934 TTTTTCAAAAAATCAACTCATAATACAGAGGAGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTT
1 TTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTTT
* ** *
50777999 TTAATTTCTGTTTTTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCAC
65 TTAA-AT-T-TTCGTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCAT
* * *
50778064 GCTGAAGTATTTTTTTAAATTTATGCT
127 GCCGAGGTATTTTTTTAAATTTA--CG
* *
50778091 TTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA--TTT
1 TTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTTT
* *
50778154 TTAAATTTCTGCTTTTTTAAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATG
65 TTAAATTT-T-CGTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATG
*
50778219 CTGAGGTA--TTTTT-AATTT-CTG
128 CCGAGGTATTTTTTTAAATTTAC-G
**
50778240 TCTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
1 T-TTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTT-T
50778305 TTTAAATTTTCGTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGC
64 TTTAAATTTTCGTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGC
50778370 CGAGGTATTTCTTTTAAAATTT-CG
129 CGAGGTATTT-TTTT-AAATTTACG
*
50778394 TGTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTT-TT
**
50778459 TTAAATTTTCGTTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGACCATGCC
65 TTAAATTTTCGTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCC
*
50778523 GAGGTATTTCTTTTAAATTTATG
130 GAGGTATTT-TTTTAAATTTACG
* * * * *
50778546 TTTTTTGAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACATGTCGAGGTATT
1 -TTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTC-GGG-TCATGCCGAGGTATT
50778611 TT
62 TT
50778613 CGATTTTTGT
Statistics
Matches: 479, Mismatches: 26, Indels: 36
0.89 0.05 0.07
Matches are distributed among these distances:
148 1 0.00
149 51 0.11
150 63 0.13
151 13 0.03
152 77 0.16
153 105 0.22
154 79 0.16
155 17 0.04
156 14 0.03
157 59 0.12
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (151 bp):
TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTTTT
TAAATTTTCGTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCG
AGGTATTTTTTTAAATTTACG
Found at i:50778915 original size:29 final size:29
Alignment explanation
Indices: 50778882--50779022 Score: 135
Period size: 30 Copynumber: 4.7 Consensus size: 29
50778872 TAACCCCTGT
50778882 ACTTTTCAAAATATACATTTTGACCCC-AA
1 ACTTTTCAAAAT-TACATTTTGACCCCAAA
50778911 ACTTTTCTAAAATTTACATTTTGACCCCAAA
1 ACTTTTC-AAAA-TTACATTTTGACCCCAAA
** *
50778942 ACTTCTT-AAAATTACATTTTGACCCTTAG
1 ACTT-TTCAAAATTACATTTTGACCCCAAA
* * *
50778971 ATTTTCTCAAAATTACACTTTGACCCCTAA
1 ACTTT-TCAAAATTACATTTTGACCCCAAA
*
50779001 AC-TCTCAAGAAATTACATTTTG
1 ACTTTTC-A-AAATTACATTTTG
50779023 GCCCATATTT
Statistics
Matches: 94, Mismatches: 10, Indels: 15
0.79 0.08 0.13
Matches are distributed among these distances:
28 3 0.03
29 28 0.30
30 54 0.57
31 7 0.07
32 2 0.02
ACGTcount: A:0.35, C:0.23, G:0.05, T:0.38
Consensus pattern (29 bp):
ACTTTTCAAAATTACATTTTGACCCCAAA
Found at i:50778976 original size:59 final size:57
Alignment explanation
Indices: 50778889--50779063 Score: 167
Period size: 59 Copynumber: 2.9 Consensus size: 57
50778879 TGTACTTTTC
*
50778889 AAAATATACATTTTGACCCCAAACTTTTCTAAAATTTACATTTTGACCCCAAAACTTCT-T
1 AAAAT-TACATTTTGA-CCCAAA-TTTTCTAAAA-TTACATTTTGACCCCAAAACTTCTCA
* * *
50778949 AAAATTACATTTTGACCCTTAGATTTTCTCAAAATTACACTTTGACCCCTAAAC-TCTCA
1 AAAATTACATTTTGACCC--AAATTTTCT-AAAATTACATTTTGACCCCAAAACTTCTCA
* * *
50779008 AGAAATTACATTTTGGCCCATATTTTGCTAAAATTACGCTTTTG-CCCCAGAAACTT
1 A-AAATTACATTTTGACCCAAATTTT-CTAAAATTAC-ATTTTGACCCCA-AAACTT
50779064 TGCATCCCAT
Statistics
Matches: 97, Mismatches: 9, Indels: 18
0.78 0.07 0.15
Matches are distributed among these distances:
58 24 0.25
59 45 0.46
60 28 0.29
ACGTcount: A:0.34, C:0.23, G:0.07, T:0.36
Consensus pattern (57 bp):
AAAATTACATTTTGACCCAAATTTTCTAAAATTACATTTTGACCCCAAAACTTCTCA
Found at i:50779630 original size:11 final size:11
Alignment explanation
Indices: 50779608--50779668 Score: 59
Period size: 11 Copynumber: 5.2 Consensus size: 11
50779598 AGCCCCGAAG
50779608 AGGAAGGAAAAA
1 AGGAA-GAAAAA
50779620 AGGAAGAAAAA
1 AGGAAGAAAAA
*
50779631 AAGAAGAAAAA
1 AGGAAGAAAAA
*
50779642 GAGAGAAGAAAGGA
1 -AG-GAAGAAA-AA
*
50779656 AGGAAAAAAAA
1 AGGAAGAAAAA
50779667 AG
1 AG
50779669 AAAAAATATA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
11 19 0.46
12 12 0.29
13 9 0.22
14 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (11 bp):
AGGAAGAAAAA
Found at i:50779773 original size:18 final size:19
Alignment explanation
Indices: 50779752--50779832 Score: 78
Period size: 18 Copynumber: 4.3 Consensus size: 19
50779742 CCAGCAGCCC
50779752 CCCAAAAAAAACAAAAC-G
1 CCCAAAAAAAACAAAACAG
50779770 CCCAAAAAAAACAAAACAG
1 CCCAAAAAAAACAAAACAG
** * *
50779789 CAAAAAAAAAACAGAATAG
1 CCCAAAAAAAACAAAACAG
*
50779808 --CAAAAAAGAACAAAGCAGG
1 CCCAAAAAA-AACAAAACA-G
50779827 CCCAAA
1 CCCAAA
50779833 CCAAGCCCAG
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
17 6 0.12
18 23 0.46
19 17 0.34
21 4 0.08
ACGTcount: A:0.67, C:0.22, G:0.10, T:0.01
Consensus pattern (19 bp):
CCCAAAAAAAACAAAACAG
Found at i:50780623 original size:80 final size:80
Alignment explanation
Indices: 50780528--50780790 Score: 294
Period size: 80 Copynumber: 3.4 Consensus size: 80
50780518 TTAGTGTTTT
* *
50780528 AAAATTTTTGTGTTTCAAAAATTTTCGTGTTTTCAAAATTTTAATGTTTTCGTGTTTTCAAAAAA
1 AAAATTTTCGTGTTTCAAAAATTTTCGTGTTTTCAAAATTTTCATGTTTTCGTGTTTTCAAAAAA
50780593 TTCTCGTGTTTTCAA
66 TTCTCGTGTTTTCAA
*
50780608 AAAATTTTCGTGTTTCAAATATTTTCGTGTTTTCAAAATTTTCATGTTTTCGTGTTTTCAAAAAA
1 AAAATTTTCGTGTTTCAAAAATTTTCGTGTTTTCAAAATTTTCATGTTTTCGTGTTTTC--AAAA
50780673 AATTCTCGTGTTTT-AA
64 AATTCTCGTGTTTTCAA
** * * * * * * *
50780689 AAAAAATTCATGTTTTAAAAA-ATTCATGTTTTCGAAATTTTCGTGTTTTC---ATTT-AAAAAA
1 AAAATTTTCGTGTTTCAAAAATTTTCGTGTTTTCAAAATTTTCATGTTTTCGTGTTTTCAAAAAA
*
50780749 -T-TCATGTTTTC--
66 TTCTCGTGTTTTCAA
* *
50780760 GAAATTTTCGTGTTTTCAAAATTTTTCGTGT
1 AAAATTTTCGTG-TTTCAAAAATTTTCGTGT
50780791 CATAAAAATT
Statistics
Matches: 156, Mismatches: 22, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
71 8 0.05
72 15 0.10
73 7 0.04
74 6 0.04
77 3 0.02
80 81 0.52
81 18 0.12
82 18 0.12
ACGTcount: A:0.30, C:0.10, G:0.11, T:0.49
Consensus pattern (80 bp):
AAAATTTTCGTGTTTCAAAAATTTTCGTGTTTTCAAAATTTTCATGTTTTCGTGTTTTCAAAAAA
TTCTCGTGTTTTCAA
Found at i:50780633 original size:17 final size:16
Alignment explanation
Indices: 50780574--50780656 Score: 76
Period size: 19 Copynumber: 4.7 Consensus size: 16
50780564 AATTTTAATG
50780574 TTTTCGTGTTTTCAAAAAA
1 TTTTCGTG-TTTC--AAAA
*
50780593 TTCTCGTGTTTTCAAAAAA
1 TTTTCGTG-TTTC--AAAA
50780612 TTTTCGTGTTTCAAATA
1 TTTTCGTGTTTCAAA-A
50780629 TTTTCGTGTTTTCAAAA
1 TTTTCGTG-TTTCAAAA
*
50780646 TTTTCATGTTT
1 TTTTCGTGTTT
50780657 TCGTGTTTTC
Statistics
Matches: 59, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
16 6 0.10
17 17 0.29
18 11 0.19
19 25 0.42
ACGTcount: A:0.25, C:0.12, G:0.11, T:0.52
Consensus pattern (16 bp):
TTTTCGTGTTTCAAAA
Found at i:50780657 original size:17 final size:17
Alignment explanation
Indices: 50780489--50780999 Score: 156
Period size: 17 Copynumber: 29.3 Consensus size: 17
50780479 ACTTTTAACA
*
50780489 TTTTCAAGAGTTTTCGTG
1 TTTTCAA-AATTTTCGTG
* *
50780507 -TTTCACAAATATTAGTG
1 TTTTCA-AAATTTTCGTG
*
50780524 TTTT-AAAATTTTTGTG
1 TTTTCAAAATTTTCGTG
50780540 -TTTCAAAAATTTTCGTG
1 TTTTC-AAAATTTTCGTG
50780557 TTTTCAAAATTTTAATGTTTTCGTG
1 TTTTC--AA----AA--TTTTCGTG
*
50780582 TTTTCAAAAAATTCTCGTG
1 TTTTC--AAAATTTTCGTG
50780601 TTTTCAAAAAATTTTCGTG
1 TTTTC--AAAATTTTCGTG
50780620 -TTTCAAATATTTTCGTG
1 TTTTCAAA-ATTTTCGTG
*
50780637 TTTTCAAAATTTTCATG
1 TTTTCAAAATTTTCGTG
***
50780654 TTTTC-GTGTTTTC---
1 TTTTCAAAATTTTCGTG
**** *
50780667 -AAAAAAAATTCTCGTG
1 TTTTCAAAATTTTCGTG
* ** *
50780683 TTTTAAAAAAAATTCATG
1 TTTT-CAAAATTTTCGTG
** *
50780701 TTTT-AAAAAATTCATG
1 TTTTCAAAATTTTCGTG
*
50780717 TTTTCGAAATTTTCGTG
1 TTTTCAAAATTTTCGTG
** *
50780734 TTTTCATTTAAAAAATTCATG
1 TTTTC----AAAATTTTCGTG
*
50780755 TTTTCGAAATTTTCGTG
1 TTTTCAAAATTTTCGTG
50780772 TTTTCAAAATTTTTCGTG
1 TTTTCAAAA-TTTTCGTG
** * *
50780790 TCATAAAAATTCTCGTG
1 TTTTCAAAATTTTCGTG
50780807 -TTTCAAAAATTTTCGTG
1 TTTTC-AAAATTTTCGTG
*
50780824 TTTTCAAAATTTTCATG
1 TTTTCAAAATTTTCGTG
***
50780841 TTTTC-GTGTTTTC---
1 TTTTCAAAATTTTCGTG
**** *
50780854 -AAAAAAAATTCTCGTG
1 TTTTCAAAATTTTCGTG
* *
50780870 TTTTTAAAAAAATTTCGTG
1 -TTTT-CAAAATTTTCGTG
* ** * *
50780889 TTTTTAAAAAAAAATACATG
1 -TTTT--CAAAATTTTCGTG
*
50780909 TTTTCGAAATTTTCGTG
1 TTTTCAAAATTTTCGTG
50780926 TTTTCAAAATTTTTCGTG
1 TTTTCAAAA-TTTTCGTG
** * **
50780944 TCATAAAAATACTCGTG
1 TTTTCAAAATTTTCGTG
50780961 -TTTCAAAAATTTTCGTG
1 TTTTC-AAAATTTTCGTG
*
50780978 TTTTCAAAATTTTCATG
1 TTTTCAAAATTTTCGTG
50780995 TTTTC
1 TTTTC
50781000 GGGTTTTCAA
Statistics
Matches: 368, Mismatches: 86, Indels: 79
0.69 0.16 0.15
Matches are distributed among these distances:
13 8 0.02
15 3 0.01
16 40 0.11
17 156 0.42
18 68 0.18
19 48 0.13
20 11 0.03
21 15 0.04
23 2 0.01
25 17 0.05
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (17 bp):
TTTTCAAAATTTTCGTG
Found at i:50780692 original size:20 final size:18
Alignment explanation
Indices: 50780656--50780710 Score: 74
Period size: 18 Copynumber: 2.9 Consensus size: 18
50780646 TTTTCATGTT
50780656 TTCGTGTTTTCAAAAAAAA
1 TTCGTGTTTT-AAAAAAAA
50780675 TTCTCGTGTTTTAAAAAAAA
1 -T-TCGTGTTTTAAAAAAAA
*
50780695 TTCATGTTTTAAAAAA
1 TTCGTGTTTTAAAAAA
50780711 TTCATGTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
18 14 0.42
19 1 0.03
20 9 0.27
21 9 0.27
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (18 bp):
TTCGTGTTTTAAAAAAAA
Found at i:50780727 original size:15 final size:16
Alignment explanation
Indices: 50780689--50780720 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
50780679 CGTGTTTTAA
50780689 AAAAAATTCATGTTTT
1 AAAAAATTCATGTTTT
50780705 AAAAAATTCATGTTTT
1 AAAAAATTCATGTTTT
50780721 CGAAATTTTC
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:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (16 bp):
AAAAAATTCATGTTTT
Found at i:50780811 original size:187 final size:191
Alignment explanation
Indices: 50780574--50780931 Score: 573
Period size: 187 Copynumber: 1.9 Consensus size: 191
50780564 AATTTTAATG
* *
50780574 TTTTCGTGTTTTCAAAAAATTCTCGTGTTTTCAAAAAATTTTCGTGTTTCAAATATTTTCGTGTT
1 TTTTCGTGTTTTCAAAAAATTCTCGTG--TTCAAAAAATTCTCGTGTTTCAAAAATTTTCGTGTT
50780639 TTCAAAATTTTCATGTTTTCGTGTTTTCAAAAAAAATTCTCGTG-TTTTAAAAAAAATTCATG-T
64 TTCAAAATTTTCATGTTTTCGTGTTTTCAAAAAAAATTCTCGTGTTTTTAAAAAAAATTCATGTT
*
50780702 TTT-AAAAAATTCATGTTTTCGAAATTTTCGTGTTTTCATTTAAAAAATTCATGTTTTCGAAA
129 TTTAAAAAAATACATGTTTTCGAAATTTTCGTGTTTTCATTTAAAAAATTCATGTTTTCGAAA
* *
50780764 TTTTCGTGTTTTC-AAAATTTTTCGTG-TCATAAAAATTCTCGTGTTTCAAAAATTTTCGTGTTT
1 TTTTCGTGTTTTCAAAAAATTCTCGTGTTCA-AAAAATTCTCGTGTTTCAAAAATTTTCGTGTTT
* *
50780827 TCAAAATTTTCATGTTTTCGTGTTTTCAAAAAAAATTCTCGTGTTTTTAAAAAAATTTCGTGTTT
65 TCAAAATTTTCATGTTTTCGTGTTTTCAAAAAAAATTCTCGTGTTTTTAAAAAAAATTCATGTTT
50780892 TTAAAAAAAAATACATGTTTTCGAAATTTTCGTGTTTTCA
130 TT--AAAAAAATACATGTTTTCGAAATTTTCGTGTTTTCA
50780932 AAATTTTTCG
Statistics
Matches: 155, Mismatches: 7, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
186 3 0.02
187 74 0.48
188 16 0.10
189 15 0.10
190 13 0.08
192 34 0.22
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.47
Consensus pattern (191 bp):
TTTTCGTGTTTTCAAAAAATTCTCGTGTTCAAAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTT
CAAAATTTTCATGTTTTCGTGTTTTCAAAAAAAATTCTCGTGTTTTTAAAAAAAATTCATGTTTT
TAAAAAAATACATGTTTTCGAAATTTTCGTGTTTTCATTTAAAAAATTCATGTTTTCGAAA
Found at i:50780903 original size:21 final size:20
Alignment explanation
Indices: 50780842--50780901 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
50780832 ATTTTCATGT
*
50780842 TTTCGTGTTTTCAAAAAAAA
1 TTTCGTGTTTTTAAAAAAAA
50780862 TTCTCGTGTTTTT-AAAAAAA
1 TT-TCGTGTTTTTAAAAAAAA
50780882 TTTCGTGTTTTTAAAAAAAA
1 TTTCGTGTTTTTAAAAAAAA
50780902 ATACATGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
19 10 0.27
20 18 0.49
21 9 0.24
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.43
Consensus pattern (20 bp):
TTTCGTGTTTTTAAAAAAAA
Found at i:50780910 original size:20 final size:19
Alignment explanation
Indices: 50780868--50780912 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
50780858 AAAATTCTCG
* * *
50780868 TGTTTTTAAAAAAATTTCG
1 TGTTTTTAAAAAAAATACA
50780887 TGTTTTTAAAAAAAAATACA
1 TGTTTTT-AAAAAAAATACA
50780907 TGTTTT
1 TGTTTT
50780913 CGAAATTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (19 bp):
TGTTTTTAAAAAAAATACA
Found at i:50780931 original size:154 final size:152
Alignment explanation
Indices: 50780743--50781043 Score: 532
Period size: 154 Copynumber: 2.0 Consensus size: 152
50780733 GTTTTCATTT
* *
50780743 AAAAAATTCATGTTTTCGAAATTTTCGTGTTTTCAAAATTTTTCGTGTCATAAAAATTCTCGTGT
1 AAAAAATACATGTTTTCGAAATTTTCGTGTTTTCAAAATTTTTCGTGTCATAAAAATACTCGTGT
*
50780808 TTCAAAAATTTTCGTGTTTTCAAAATTTTCATGTTTTCGTGTTTTCAAAAAAAATTCTCGTGTTT
66 TTCAAAAATTTTCGTGTTTTCAAAATTTTCATGTTTTCGGGTTTTC--AAAAAATTCTCGTG-TT
50780873 TTAAAAAAATT-TCGTGTTTTTAAA
128 TTAAAAAAATTCTCGTGTTTTTAAA
50780897 AAAAAATACATGTTTTCGAAATTTTCGTGTTTTCAAAATTTTTCGTGTCATAAAAATACTCGTGT
1 AAAAAATACATGTTTTCGAAATTTTCGTGTTTTCAAAATTTTTCGTGTCATAAAAATACTCGTGT
*
50780962 TTCAAAAATTTTCGTGTTTTCAAAATTTTCATGTTTTCGGGTTTTCAAAAAATTCTCGTGTTTTC
66 TTCAAAAATTTTCGTGTTTTCAAAATTTTCATGTTTTCGGGTTTTCAAAAAATTCTCGTGTTTTA
50781027 AAAAAATTCTCGTGTTT
131 AAAAAATTCTCGTGTTT
50781044 CAAAAATCTT
Statistics
Matches: 142, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
151 12 0.08
152 22 0.15
154 108 0.76
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.46
Consensus pattern (152 bp):
AAAAAATACATGTTTTCGAAATTTTCGTGTTTTCAAAATTTTTCGTGTCATAAAAATACTCGTGT
TTCAAAAATTTTCGTGTTTTCAAAATTTTCATGTTTTCGGGTTTTCAAAAAATTCTCGTGTTTTA
AAAAAATTCTCGTGTTTTTAAA
Found at i:50781013 original size:27 final size:25
Alignment explanation
Indices: 50780970--50781026 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 25
50780960 GTTTCAAAAA
* *
50780970 TTTTCGTGTTTTCAAAATTTTCATG
1 TTTTCGGGTTTTCAAAATTCTCATG
*
50780995 TTTTCGGGTTTTCAAAAAATTCTCGTG
1 TTTTCGGGTTTTC--AAAATTCTCATG
50781022 TTTTC
1 TTTTC
50781027 AAAAAATTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 12 0.44
27 15 0.56
ACGTcount: A:0.19, C:0.14, G:0.14, T:0.53
Consensus pattern (25 bp):
TTTTCGGGTTTTCAAAATTCTCATG
Found at i:50781430 original size:8 final size:8
Alignment explanation
Indices: 50781417--50781441 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
50781407 GTCGAGATTC
50781417 AATTTTCA
1 AATTTTCA
50781425 AATTTTCA
1 AATTTTCA
50781433 AATTTTCA
1 AATTTTCA
50781441 A
1 A
50781442 TAATCACTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.48
Consensus pattern (8 bp):
AATTTTCA
Found at i:50790995 original size:21 final size:21
Alignment explanation
Indices: 50790971--50791032 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
50790961 CTTGTGGTAT
*
50790971 GAGGCAGAGGAAACTGAGGAG
1 GAGGTAGAGGAAACTGAGGAG
50790992 GAGGTAGAGGAAACTGAGGAG
1 GAGGTAGAGGAAACTGAGGAG
** *
50791013 GTTGTAGAGGAAATTGAGGA
1 GAGGTAGAGGAAACTGAGGA
50791033 TACACTTCCA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.37, C:0.05, G:0.45, T:0.13
Consensus pattern (21 bp):
GAGGTAGAGGAAACTGAGGAG
Found at i:50792454 original size:30 final size:31
Alignment explanation
Indices: 50792408--50792470 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 31
50792398 TATTCTAGAA
* * *
50792408 ATTTTTAATCTTTTTAACTTTATATATATAT
1 ATTTATAATCTTTTTAAATATATATATATAT
50792439 ATTTATAAT-TTTTTAAATATATATATATAT
1 ATTTATAATCTTTTTAAATATATATATATAT
50792469 AT
1 AT
50792471 AATTTGAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 21 0.72
31 8 0.28
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (31 bp):
ATTTATAATCTTTTTAAATATATATATATAT
Found at i:50792496 original size:20 final size:21
Alignment explanation
Indices: 50792473--50792525 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 21
50792463 ATATATATAA
50792473 TTTGAAATTTTTATAAA-TAT
1 TTTGAAATTTTTATAAACTAT
*
50792493 TTTG-AATTTTGA-AAACTAT
1 TTTGAAATTTTTATAAACTAT
50792512 TTT-ATAATTTTTAT
1 TTTGA-AATTTTTAT
50792526 TGAGAGAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
18 3 0.11
19 13 0.48
20 11 0.41
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.57
Consensus pattern (21 bp):
TTTGAAATTTTTATAAACTAT
Found at i:50794180 original size:17 final size:17
Alignment explanation
Indices: 50794158--50794218 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
50794148 AACTAAAGTC
50794158 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* ***
50794175 TTATGTAGTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
50794194 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
50794212 TTATGTA
1 TTATGTA
50794219 GTAATTCAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
17 16 0.48
18 4 0.12
19 4 0.12
20 9 0.27
ACGTcount: A:0.31, C:0.03, G:0.15, T:0.51
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:50794207 original size:37 final size:37
Alignment explanation
Indices: 50794152--50794227 Score: 134
Period size: 37 Copynumber: 2.1 Consensus size: 37
50794142 AACTAAAACT
* *
50794152 AAAGTCTTATGTAATGTTTTTAATTATGTAGTGATTC
1 AAAGACTTATGTAATGTTTTTAATTATGTAGTAATTC
50794189 AAAGACTTATGTAATGTTTTTAATTATGTAGTAATTC
1 AAAGACTTATGTAATGTTTTTAATTATGTAGTAATTC
50794226 AA
1 AA
50794228 TTCGGTTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.46
Consensus pattern (37 bp):
AAAGACTTATGTAATGTTTTTAATTATGTAGTAATTC
Found at i:50794342 original size:13 final size:14
Alignment explanation
Indices: 50794324--50794352 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
50794314 AAAATTTTGG
50794324 TTCGGTT-AATTTT
1 TTCGGTTAAATTTT
50794337 TTCGGTTAAATTTT
1 TTCGGTTAAATTTT
50794351 TT
1 TT
50794353 TAAAATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.17, C:0.07, G:0.14, T:0.62
Consensus pattern (14 bp):
TTCGGTTAAATTTT
Found at i:50794468 original size:3 final size:3
Alignment explanation
Indices: 50794460--50794514 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
50794450 TTATGATGGT
50794460 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
50794508 TTA TTA T
1 TTA TTA T
50794515 ATATAATGCA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:50797938 original size:15 final size:16
Alignment explanation
Indices: 50797913--50797946 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
50797903 TTACTAGATC
50797913 TGCAGATAGCTTTCCT
1 TGCAGATAGCTTTCCT
50797929 TGCA-ATAGCTTTCCT
1 TGCAGATAGCTTTCCT
50797944 TGC
1 TGC
50797947 TCCTGATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.18, C:0.26, G:0.18, T:0.38
Consensus pattern (16 bp):
TGCAGATAGCTTTCCT
Found at i:50798054 original size:60 final size:60
Alignment explanation
Indices: 50797982--50798102 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
50797972 GCTTTTCTGA
50797982 ATTGCCATCCTTGTCATTGCCTTTAAGATAATCAGCGAACCAGGAAGCAGTAGCTCTTTC
1 ATTGCCATCCTTGTCATTGCCTTTAAGATAATCAGCGAACCAGGAAGCAGTAGCTCTTTC
50798042 ATTGCCATCCTTGTCATTGCCTTTAAGATAATCAGCGAACCAGGAAGCAGTAGCTCTTTC
1 ATTGCCATCCTTGTCATTGCCTTTAAGATAATCAGCGAACCAGGAAGCAGTAGCTCTTTC
50798102 A
1 A
50798103 GACTTCACCA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (60 bp):
ATTGCCATCCTTGTCATTGCCTTTAAGATAATCAGCGAACCAGGAAGCAGTAGCTCTTTC
Found at i:50804206 original size:15 final size:15
Alignment explanation
Indices: 50804181--50804213 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
50804171 AATTGTTTCA
50804181 ATTTTATTTTAT-TT
1 ATTTTATTTTATATT
50804195 ATTTTAATTTTATATT
1 ATTTT-ATTTTATATT
50804211 ATT
1 ATT
50804214 CTATAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 7 0.41
16 5 0.29
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
ATTTTATTTTATATT
Found at i:50805843 original size:40 final size:40
Alignment explanation
Indices: 50805796--50805901 Score: 149
Period size: 40 Copynumber: 2.6 Consensus size: 40
50805786 GCTCTCCCAT
* *
50805796 CCCTCTCCCTCTTCCCCACCATCCCTCCCCCCTACTCCGA
1 CCCTCTCCCTCTCCCCCACCGTCCCTCCCCCCTACTCCGA
** ** *
50805836 TTCTCTCCCTCTCCCCCACCGTCCCTGTCCCCTACTCTGA
1 CCCTCTCCCTCTCCCCCACCGTCCCTCCCCCCTACTCCGA
50805876 CCCTCTCCCTCTCCCCCACCGTCCCT
1 CCCTCTCCCTCTCCCCCACCGTCCCT
50805902 TTCCCTCTGC
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 57 1.00
ACGTcount: A:0.08, C:0.62, G:0.05, T:0.25
Consensus pattern (40 bp):
CCCTCTCCCTCTCCCCCACCGTCCCTCCCCCCTACTCCGA
Found at i:50816090 original size:20 final size:20
Alignment explanation
Indices: 50816056--50816097 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
50816046 AACTATTTAA
** *
50816056 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
50816076 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
50816096 AT
1 AT
50816098 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:50817830 original size:21 final size:21
Alignment explanation
Indices: 50817806--50817845 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
50817796 AATTTCACCG
* *
50817806 CTACAGTATCCAATCTCACTA
1 CTACAATAACCAATCTCACTA
*
50817827 CTACAATAACTAATCTCAC
1 CTACAATAACCAATCTCAC
50817846 CGCCACTACT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.33, G:0.03, T:0.28
Consensus pattern (21 bp):
CTACAATAACCAATCTCACTA
Found at i:50818851 original size:726 final size:728
Alignment explanation
Indices: 50817702--50819162 Score: 2656
Period size: 726 Copynumber: 2.0 Consensus size: 728
50817692 GATATATATC
* * *
50817702 AATTCTAATTTGATGTCCTTAAAAGTCATTTTCTATTCTCACTTCACCGTCACAGTTGTATTTGA
1 AATTTTAATTTGATGTCCTTAAAAGTCATTTTCTATTCTCACTTCACCGTCACAGCTGCATTTGA
* *
50817767 ATCCAAACACATACTCCACCGTTGTTTCTAATTTCACCGCTACAGTATCCAATCTCACTACTACA
66 ATCCAAACACATACTCCACCGCTGTTTCTAATCTCACCGCTACAGTATCCAATCTCACTACTACA
* *
50817832 ATAACTAATCTCACCGCCACTACTGTTTTTAACCTCACCGGAGCTAAATACATCGCCCATCCAAA
131 ATAACTAATCTCACCGCCACTACTGTTTTTAACCTCACCGGAACTAAATACACCGCCCATCCAAA
*
50817897 CTAAACCTTTATATAATTTTCTATTACGATTGAAGAGTTAAAGTCAATATATATAAACAACACCA
196 CTAAACATTTATATAATTTTCTATTACGATTGAAGAGTTAAAGTCAATATATATAAACAACACCA
* * *
50817962 ACCATTAAAGTAACAATTTTTTTCTCTCCCTTGTTGGTTTCCTAATTTATTATTTTTATTTCAAA
261 ACCATTAAAGTAACAACTTTTTTCTCTCCCTTGTTGGTTTCCTAAATTATTATCTTTATTTCAAA
50818027 TACTAAATTTTTGTTGAAACTCTACATATACTGTTAATATATTTTGTTGATTTTTTTATAGAAGA
326 TACTAAATTTTTGTTGAAACTCTACATATACTGTTAATATATTTTGTTGATTTTTTTATAGAAGA
*
50818092 AAAGAAAATCAGAATTAGTTAGCGCTCATATTACAACTTTCTCTATTATAAATATATTATAAACA
391 AAAGAAAATCAGAATTAGTTAGCCCTCATATTACAACTTTCTCTATTATAAATATATTATAAACA
*
50818157 ATAACCGGAGGAACATCATATTCACTATGATAAATGATGGAACGCAAGGCCAATTTAACTAGCTC
456 ATAACCGGAGGAACATCATATTCACTATGATAAATGATGGAACGCAAGGCCAATCTAACTAGCTC
50818222 ATCTGTCACTTTGTTAAGCTCTCATGGCACGTGATTAATCAGAACCAACCAATATTGTGATATAA
521 ATCTGTCACTTTGTTAAGCTCTCATGGCACGTGATTAATCAGAACCAACCAATATTGTGATATAA
50818287 GTCCTTTAATTCTTCTGGAAATTGGCAAACTCTCCTGTTCACTTTCTTTAAGAATGTCGATTGCT
586 GTCCTTTAATTCTTCTGGAAATTGGCAAACTCTCCTGTTCACTTTCTTTAAGAATGTCGATTGCT
* *
50818352 TCCTTGCAGTCCAGTTCCAACACAACTTTTGTAGCACACCTCTCCTATGTGATCGAAAGTCCCTC
651 TCCTTGCAGTCCACTTCCAACACAACTTTCGTAGCACACCTCTCCTATGTGATCGAAAGTCCCTC
* *
50818417 ATAGGCTCCTTAT
716 ATAGGCCCCTCAT
50818430 AATTTTAATTTGATGTCCTTAAAAGTCATTTTCTATTCTCACTTCACCGTCACAGCTGCATTTGA
1 AATTTTAATTTGATGTCCTTAAAAGTCATTTTCTATTCTCACTTCACCGTCACAGCTGCATTTGA
*
50818495 ATCCAAACACATACTCCACCGCTGTTTCTAATCTCACCTCTACAGTATCCAATCTCACTACTA-A
66 ATCCAAACACATACTCCACCGCTGTTTCTAATCTCACCGCTACAGTATCCAATCTCACTACTACA
*
50818559 ATAACTAATCTCACCGCCACTGCTGTTTTTAACCTCACCGGAACTAAATACACCGCCCATCCAAA
131 ATAACTAATCTCACCGCCACTACTGTTTTTAACCTCACCGGAACTAAATACACCGCCCATCCAAA
* *
50818624 CTAAGCATTTATATAATTTTCTATTACGATTGAAGAGTT-AAGTCAATATATATAAACAACATCA
196 CTAAACATTTATATAATTTTCTATTACGATTGAAGAGTTAAAGTCAATATATATAAACAACACCA
50818688 ACCATTAAAGTAACAACTTTTTTCTCTCCCTTGTTGGTTTCCTAAATTATTATCTTTATTTCAAA
261 ACCATTAAAGTAACAACTTTTTTCTCTCCCTTGTTGGTTTCCTAAATTATTATCTTTATTTCAAA
*
50818753 TGCTAAATTTTTGTTGAAACTCTACATATACTGTTAATATATTTTGTTGATTTTTTTATAGAAGA
326 TACTAAATTTTTGTTGAAACTCTACATATACTGTTAATATATTTTGTTGATTTTTTTATAGAAGA
50818818 AAAGAAAATCAGAATTAGTTAGCCCTCATATTACAACTTTCTCTATTATAAATATATTATAAACA
391 AAAGAAAATCAGAATTAGTTAGCCCTCATATTACAACTTTCTCTATTATAAATATATTATAAACA
* * *
50818883 ATAATCGGAGGAACATCATATTCCCTATGATAAATGGTGGAACGCAAGGCCAATCTAACTAGCTC
456 ATAACCGGAGGAACATCATATTCACTATGATAAATGATGGAACGCAAGGCCAATCTAACTAGCTC
50818948 ATCTGTCACTTTGTTAAGCTCTCATGGCACGTGATTAATCAGAACCAACCAATATTGTGATATAA
521 ATCTGTCACTTTGTTAAGCTCTCATGGCACGTGATTAATCAGAACCAACCAATATTGTGATATAA
*
50819013 GTCCTTTAATTCTTCTGGAAATTGGCAAACTCTCCTGTTCATTTTCTTTAAGAATGTCGATTGCT
586 GTCCTTTAATTCTTCTGGAAATTGGCAAACTCTCCTGTTCACTTTCTTTAAGAATGTCGATTGCT
* *
50819078 TCCTTGCAGTCCACTTCCAACACAACTTTCGTAGCACCCCTCTCCTATGTGATCGAAAGTCTCTC
651 TCCTTGCAGTCCACTTCCAACACAACTTTCGTAGCACACCTCTCCTATGTGATCGAAAGTCCCTC
50819143 ATAGGCCCCTCAT
716 ATAGGCCCCTCAT
50819156 AATTTTA
1 AATTTTA
50819163 CCTCCGATAT
Statistics
Matches: 705, Mismatches: 28, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
726 483 0.69
727 100 0.14
728 122 0.17
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (728 bp):
AATTTTAATTTGATGTCCTTAAAAGTCATTTTCTATTCTCACTTCACCGTCACAGCTGCATTTGA
ATCCAAACACATACTCCACCGCTGTTTCTAATCTCACCGCTACAGTATCCAATCTCACTACTACA
ATAACTAATCTCACCGCCACTACTGTTTTTAACCTCACCGGAACTAAATACACCGCCCATCCAAA
CTAAACATTTATATAATTTTCTATTACGATTGAAGAGTTAAAGTCAATATATATAAACAACACCA
ACCATTAAAGTAACAACTTTTTTCTCTCCCTTGTTGGTTTCCTAAATTATTATCTTTATTTCAAA
TACTAAATTTTTGTTGAAACTCTACATATACTGTTAATATATTTTGTTGATTTTTTTATAGAAGA
AAAGAAAATCAGAATTAGTTAGCCCTCATATTACAACTTTCTCTATTATAAATATATTATAAACA
ATAACCGGAGGAACATCATATTCACTATGATAAATGATGGAACGCAAGGCCAATCTAACTAGCTC
ATCTGTCACTTTGTTAAGCTCTCATGGCACGTGATTAATCAGAACCAACCAATATTGTGATATAA
GTCCTTTAATTCTTCTGGAAATTGGCAAACTCTCCTGTTCACTTTCTTTAAGAATGTCGATTGCT
TCCTTGCAGTCCACTTCCAACACAACTTTCGTAGCACACCTCTCCTATGTGATCGAAAGTCCCTC
ATAGGCCCCTCAT
Found at i:50830478 original size:57 final size:57
Alignment explanation
Indices: 50830390--50830508 Score: 238
Period size: 57 Copynumber: 2.1 Consensus size: 57
50830380 TTGGAACCAG
50830390 GTTGGTTCCCTAAGAACTGAGGTGGGCCAGGTGGTGGACCTGGTCGGCCCGACCCAT
1 GTTGGTTCCCTAAGAACTGAGGTGGGCCAGGTGGTGGACCTGGTCGGCCCGACCCAT
50830447 GTTGGTTCCCTAAGAACTGAGGTGGGCCAGGTGGTGGACCTGGTCGGCCCGACCCAT
1 GTTGGTTCCCTAAGAACTGAGGTGGGCCAGGTGGTGGACCTGGTCGGCCCGACCCAT
50830504 GTTGG
1 GTTGG
50830509 ATCACCCAAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 62 1.00
ACGTcount: A:0.15, C:0.25, G:0.38, T:0.22
Consensus pattern (57 bp):
GTTGGTTCCCTAAGAACTGAGGTGGGCCAGGTGGTGGACCTGGTCGGCCCGACCCAT
Done.