Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 211 of 226
Found at i:62900941 original size:20 final size:20
Alignment explanation
Indices: 62900918--62900959 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
62900908 GTTATAAGTA
*
62900918 AAAAAT-TATTATAAATAATT
1 AAAAATCTAATATAAA-AATT
62900938 -AAAATCTAATATAAAAATT
1 AAAAATCTAATATAAAAATT
62900957 AAA
1 AAA
62900960 TTTATTTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAATCTAATATAAAAATT
Found at i:62902846 original size:13 final size:13
Alignment explanation
Indices: 62902830--62902895 Score: 89
Period size: 13 Copynumber: 5.1 Consensus size: 13
62902820 TTTAAACTAA
62902830 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
62902843 ACTTCTCAAAAAC
1 ACTTTTCAAAAGC
*
62902856 ACTTTTCCACAA-C
1 ACTTTT-CAAAAGC
62902869 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
62902882 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
62902895 A
1 A
62902896 ATAAATAACT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
12 4 0.09
13 38 0.83
14 4 0.09
ACGTcount: A:0.39, C:0.27, G:0.05, T:0.29
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:62903802 original size:19 final size:19
Alignment explanation
Indices: 62903759--62903805 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
62903749 GAAATGTAAG
* *
62903759 CAATTAATTAACTTTGCAT
1 CAATTAATTAACTATACAT
*
62903778 CAATTAATTAACTATATAT
1 CAATTAATTAACTATACAT
*
62903797 CTATTAATT
1 CAATTAATT
62903806 TATTGTTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.40, C:0.13, G:0.02, T:0.45
Consensus pattern (19 bp):
CAATTAATTAACTATACAT
Found at i:62906014 original size:42 final size:41
Alignment explanation
Indices: 62905962--62906170 Score: 287
Period size: 42 Copynumber: 5.0 Consensus size: 41
62905952 CGCTTACAGA
62905962 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
1 AAAAAACGCCGCTAAA-ATCATGTTCTTTAGCGGCGCTTAGG
*
62906004 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGG
1 AAAAAACGCCGCTAAA-ATCATGTTCTTTAGCGGCGCTTAGG
*
62906046 AAAAAATGCCGCTAAAAATCATGTTCTTTAGCGGCGCTTAGG
1 AAAAAACGCCGCT-AAAATCATGTTCTTTAGCGGCGCTTAGG
* *
62906088 AAGAAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTT-GG
1 AA-AAAACGCCGCTAAAA-TCATGTTCTTTAGCGGCGCTTAGG
*
62906130 TCAAAAACGCCGCTAAAAGT-AGTGTTCTTTAGCGGCGCTTA
1 -AAAAAACGCCGCTAAAA-TCA-TGTTCTTTAGCGGCGCTTA
62906171 TTTCACAAAC
Statistics
Matches: 153, Mismatches: 8, Indels: 11
0.89 0.05 0.06
Matches are distributed among these distances:
41 1 0.01
42 119 0.78
43 33 0.22
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (41 bp):
AAAAAACGCCGCTAAAATCATGTTCTTTAGCGGCGCTTAGG
Found at i:62906121 original size:85 final size:84
Alignment explanation
Indices: 62905962--62906170 Score: 314
Period size: 85 Copynumber: 2.5 Consensus size: 84
62905952 CGCTTACAGA
* *
62905962 AAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATG
1 AAAAAACGCCGCTAAAAATCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATAATG
*
62906027 TTCTTTAGCGGCGCTTGGG
66 TTCTATAGCGGCGCTTGGG
*
62906046 AAAAAATGCCGCTAAAAATCATGTTCTTTAGCGGCGCTTAGGAAGAAAACGCCGCTAAA-AGTAA
1 AAAAAACGCCGCTAAAAATCATGTTCTTTAGCGGCGCTTAGGAA-AAAACGCCGCTAAAGA-TAA
*
62906110 TGTTCTATAGCGGCGCTTGGT
64 TGTTCTATAGCGGCGCTTGGG
* *
62906131 CAAAAACGCCGCTAAAAGT-AGTGTTCTTTAGCGGCGCTTA
1 AAAAAACGCCGCTAAAAATCA-TGTTCTTTAGCGGCGCTTA
62906171 TTTCACAAAC
Statistics
Matches: 114, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
84 44 0.39
85 70 0.61
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (84 bp):
AAAAAACGCCGCTAAAAATCATGTTCTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATAATG
TTCTATAGCGGCGCTTGGG
Found at i:62906694 original size:21 final size:21
Alignment explanation
Indices: 62906630--62906686 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
62906620 GCTTCTCTCC
*
62906630 CTGCTTCTCTCGCTGTGGCCT
1 CTGCTTCTCTCGCTGTAGCCT
62906651 CTGCTTCTCTCGCTGTAGCCT
1 CTGCTTCTCTCGCTGTAGCCT
*
62906672 CTGCTTCCCTCGCTG
1 CTGCTTCTCTCGCTG
62906687 CCGCCTCTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.02, C:0.40, G:0.21, T:0.37
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGTAGCCT
Found at i:62909264 original size:26 final size:26
Alignment explanation
Indices: 62909228--62909281 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
62909218 TCAATATTTT
62909228 TTTGTACTCACTGTGTTAAAAAAATG
1 TTTGTACTCACTGTGTTAAAAAAATG
62909254 TTTGTACTCACTGTGTTAAAAAAATG
1 TTTGTACTCACTGTGTTAAAAAAATG
62909280 TT
1 TT
62909282 CACTTTGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (26 bp):
TTTGTACTCACTGTGTTAAAAAAATG
Found at i:62912242 original size:9 final size:9
Alignment explanation
Indices: 62912225--62912479 Score: 187
Period size: 9 Copynumber: 29.4 Consensus size: 9
62912215 TATGTATTAA
*
62912225 GTAAATTAT
1 GTAAGTTAT
62912234 GTAAGTTAT
1 GTAAGTTAT
*
62912243 GTACGTGTA-
1 GTAAGT-TAT
62912252 -TAAGTTAT
1 GTAAGTTAT
62912260 GTAAGTTAT
1 GTAAGTTAT
*
62912269 GT-A-TTAA
1 GTAAGTTAT
*
62912276 GTAAGCTAT
1 GTAAGTTAT
* *
62912285 TTAAGTTGT
1 GTAAGTTAT
62912294 GT-A-TTAT
1 GTAAGTTAT
62912301 GTAAGTTAT
1 GTAAGTTAT
62912310 GTAAGTTAT
1 GTAAGTTAT
** *
62912319 CAAAGTAAT
1 GTAAGTTAT
*
62912328 GTATGTTAT
1 GTAAGTTAT
*
62912337 GTAA-AT-T
1 GTAAGTTAT
62912344 GTAAGTTAT
1 GTAAGTTAT
*
62912353 -TATGTATTAT
1 GTAAG--TTAT
*
62912363 GTAGGTTAT
1 GTAAGTTAT
62912372 GTAAGTTAT
1 GTAAGTTAT
62912381 GTAAGTTAT
1 GTAAGTTAT
*
62912390 GTAAGTTTT
1 GTAAGTTAT
*
62912399 GT-A-TTAC
1 GTAAGTTAT
*
62912406 GTAAGTTGT
1 GTAAGTTAT
62912415 GTAAGTTAT
1 GTAAGTTAT
* *
62912424 GTATGCTAT
1 GTAAGTTAT
62912433 GTAAGTTAT
1 GTAAGTTAT
62912442 GT-A-TTAT
1 GTAAGTTAT
62912449 GTAAGTT-T
1 GTAAGTTAT
**
62912457 AACAAGTTAT
1 -GTAAGTTAT
*
62912467 GTAAGTAAT
1 GTAAGTTAT
62912476 GTAA
1 GTAA
62912480 TATATACTTA
Statistics
Matches: 189, Mismatches: 39, Indels: 36
0.72 0.15 0.14
Matches are distributed among these distances:
7 27 0.14
8 18 0.10
9 134 0.71
10 7 0.04
11 3 0.02
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.44
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:62912245 original size:25 final size:25
Alignment explanation
Indices: 62912214--62912478 Score: 166
Period size: 25 Copynumber: 10.3 Consensus size: 25
62912204 TGATATATAT
*
62912214 TTATGTATTAAGTAAATTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
62912239 TTATGTACGTGT-A-TAAGTTATGTAAG
1 TTATGTA--T-TAAGTAAGTTATGTAAG
* *
62912265 TTATGTATTAAGTAAGCTATTTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
* *
62912290 TTGTGTATTATGTAAGTTATGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
** * * *
62912315 TTATCAAAGTAATGTATGTTATGTAAAT
1 TTAT-GTATTAA-GTAAGTTATGT-AAG
* * *
62912343 TGTAAGTTATTATGT-A-TTATGTAGG
1 T-TATG-TATTAAGTAAGTTATGTAAG
*
62912368 TTATGTAAGTTATGTAAGTTATGTAAG
1 TTATGT-A-TTAAGTAAGTTATGTAAG
* * *
62912395 TTTTGTATTACGTAAGTTGTGTAAG
1 TTATGTATTAAGTAAGTTATGTAAG
*
62912420 TTATGTATGCTATGTAAGTTATGT-A-
1 TTATGTAT--TAAGTAAGTTATGTAAG
*
62912445 TTATGTAAGTTTAA-CAAGTTATGTAAG
1 TTATGT-A--TTAAGTAAGTTATGTAAG
*
62912472 TAATGTA
1 TTATGTA
62912479 ATATATACTT
Statistics
Matches: 186, Mismatches: 33, Indels: 41
0.72 0.13 0.16
Matches are distributed among these distances:
23 2 0.01
24 6 0.03
25 88 0.47
26 36 0.19
27 42 0.23
28 7 0.04
29 5 0.03
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (25 bp):
TTATGTATTAAGTAAGTTATGTAAG
Found at i:62912314 original size:34 final size:34
Alignment explanation
Indices: 62912229--62912455 Score: 148
Period size: 34 Copynumber: 6.6 Consensus size: 34
62912219 TATTAAGTAA
*
62912229 ATTATGTAAGTTATGTACGTGTA--TAAGTTATGT
1 ATTATGTAAGTTATGTAAGT-TATTTAAGTTATGT
* * *
62912262 AAGTTATGT-A-TTAAGTAAGCTATTTAAGTTGTGT
1 -A-TTATGTAAGTTATGTAAGTTATTTAAGTTATGT
** *
62912296 ATTATGTAAGTTATGTAAGTTATCAAAGTAATGT
1 ATTATGTAAGTTATGTAAGTTATTTAAGTTATGT
* *
62912330 ATGTTATGTAA-AT-TGTAAGTTA-TTATGTATTATGT
1 A--TTATGTAAGTTATGTAAGTTATTTAAG--TTATGT
* *
62912365 AGGTTATGTAAGTTATGTAAGTTATGTAAGTTTTGT
1 A--TTATGTAAGTTATGTAAGTTATTTAAGTTATGT
* * * * *
62912401 ATTACGTAAGTTGTGTAAGTTATGTATGCTATGT
1 ATTATGTAAGTTATGTAAGTTATTTAAGTTATGT
62912435 AAGTTATGT-A-TTATGTAAGTT
1 -A-TTATGTAAGTTATGTAAGTT
62912456 TAACAAGTTA
Statistics
Matches: 152, Mismatches: 27, Indels: 28
0.73 0.13 0.14
Matches are distributed among these distances:
32 8 0.05
33 11 0.07
34 77 0.51
35 24 0.16
36 20 0.13
37 9 0.06
38 3 0.02
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.46
Consensus pattern (34 bp):
ATTATGTAAGTTATGTAAGTTATTTAAGTTATGT
Found at i:62912418 original size:43 final size:43
Alignment explanation
Indices: 62912229--62912479 Score: 194
Period size: 43 Copynumber: 5.8 Consensus size: 43
62912219 TATTAAGTAA
* *
62912229 ATTATGTAAGTTATGTACGTGTA--TAAGTTATGTAAGTTATGT
1 ATTACGTAAGTTATGTAAGT-TATGTAAGTTATGTAAGTTATGT
* * * *
62912271 ATTAAGTAAGCTATTTAAGTTGTGT-A-TTATGTAAGTTATGT
1 ATTACGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGT
* * * *
62912312 AAGTTATC-AAAGTAATGTATGTTATGTAA-AT-TGTAAGTTATTATGT
1 -A-TTA-CGTAAGTTATGTAAGTTATGTAAGTTATGTAAG---TTATGT
* * *
62912358 ATTATGTAGGTTATGTAAGTTATGTAAGTTATGTAAGTTTTGT
1 ATTACGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGT
* * *
62912401 ATTACGTAAGTTGTGTAAGTTATGTATGCTATGTAAGTTATGT
1 ATTACGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGT
* ** *
62912444 ATTATGTAAGTT-TAACAAGTTATGTAAGTAATGTAA
1 ATTACGTAAGTTAT-GTAAGTTATGTAAGTTATGTAA
62912480 TATATACTTA
Statistics
Matches: 164, Mismatches: 32, Indels: 25
0.74 0.14 0.11
Matches are distributed among these distances:
41 16 0.10
42 19 0.12
43 93 0.57
44 22 0.13
45 2 0.01
46 12 0.07
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (43 bp):
ATTACGTAAGTTATGTAAGTTATGTAAGTTATGTAAGTTATGT
Found at i:62912527 original size:13 final size:13
Alignment explanation
Indices: 62912506--62912571 Score: 89
Period size: 13 Copynumber: 5.1 Consensus size: 13
62912496 AGTAAGTAAT
62912506 ATATATTTAAGTA
1 ATATATTTAAGTA
*
62912519 ATGTATTTAAGTA
1 ATATATTTAAGTA
62912532 A-ATTATTTAAGTA
1 ATA-TATTTAAGTA
*
62912545 ATATATTCAAGTA
1 ATATATTTAAGTA
*
62912558 ATATATTAAAGTA
1 ATATATTTAAGTA
62912571 A
1 A
62912572 ATTTTAGTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
13 46 0.98
14 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (13 bp):
ATATATTTAAGTA
Found at i:62912541 original size:26 final size:27
Alignment explanation
Indices: 62912498--62912582 Score: 99
Period size: 26 Copynumber: 3.3 Consensus size: 27
62912488 TAAATTTTAG
*
62912498 TAAGTAATATATATTTAAGTAATGTATT
1 TAAGTAA-ATATATTTAAGTAATATATT
62912526 TAAGTAAAT-TATTTAAGTAATATATT
1 TAAGTAAATATATTTAAGTAATATATT
* *
62912552 CAAGT-AATATATTAAAGTAA-AT-TT
1 TAAGTAAATATATTTAAGTAATATATT
62912576 T-AGTAAA
1 TAAGTAAA
62912583 AAATATGTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
23 3 0.06
24 4 0.08
25 5 0.10
26 30 0.59
27 2 0.04
28 7 0.14
ACGTcount: A:0.47, C:0.01, G:0.09, T:0.42
Consensus pattern (27 bp):
TAAGTAAATATATTTAAGTAATATATT
Found at i:62912870 original size:13 final size:13
Alignment explanation
Indices: 62912852--62912910 Score: 75
Period size: 13 Copynumber: 4.5 Consensus size: 13
62912842 CAAATTTTAA
*
62912852 TAAGTAATGTATT
1 TAAGTAATATATT
62912865 TAAGTAA-ATTATT
1 TAAGTAATA-TATT
62912878 TAAGTAATATATT
1 TAAGTAATATATT
*
62912891 CAAGTAATATATT
1 TAAGTAATATATT
*
62912904 AAAGTAA
1 TAAGTAA
62912911 ATTTTAGTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
13 40 0.98
14 1 0.02
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (13 bp):
TAAGTAATATATT
Found at i:62912890 original size:26 final size:27
Alignment explanation
Indices: 62912852--62912921 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 27
62912842 CAAATTTTAA
*
62912852 TAAGTAATGTATTTAAGTAAAT-TATT
1 TAAGTAATATATTTAAGTAAATATATT
*
62912878 TAAGTAATATATTCAAGT-AATATATT
1 TAAGTAATATATTTAAGTAAATATATT
*
62912904 AAAGTAA-AT-TTT-AGTAAA
1 TAAGTAATATATTTAAGTAAA
62912922 AAATATGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
23 3 0.08
24 4 0.11
25 5 0.13
26 26 0.68
ACGTcount: A:0.47, C:0.01, G:0.10, T:0.41
Consensus pattern (27 bp):
TAAGTAATATATTTAAGTAAATATATT
Found at i:62913316 original size:16 final size:16
Alignment explanation
Indices: 62913295--62913330 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
62913285 ATTAATTGAA
*
62913295 ATAAAATTGAAAATTG
1 ATAAAATTGAAAATCG
62913311 ATAAAATTGAAAATCG
1 ATAAAATTGAAAATCG
62913327 ATAA
1 ATAA
62913331 TTATAAATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.58, C:0.03, G:0.11, T:0.28
Consensus pattern (16 bp):
ATAAAATTGAAAATCG
Found at i:62914838 original size:44 final size:44
Alignment explanation
Indices: 62914780--62914867 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
62914770 TTAAAACATT
* *
62914780 TTTGCGGCGTTTTAAGCAAAGCGCCACAAACTATAAGTCAAAAC
1 TTTGCGGCATTTTAAACAAAGCGCCACAAACTATAAGTCAAAAC
* *
62914824 TTTGCGGCATTTTAAACTAAGCGCCACTAACTATAAGTCAAAAC
1 TTTGCGGCATTTTAAACAAAGCGCCACAAACTATAAGTCAAAAC
62914868 GCAGTCGCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (44 bp):
TTTGCGGCATTTTAAACAAAGCGCCACAAACTATAAGTCAAAAC
Found at i:62915618 original size:21 final size:21
Alignment explanation
Indices: 62915594--62915639 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
62915584 TCTAAACCTT
62915594 AAACCTCAAAAACC-AAACCCC
1 AAACC-CAAAAACCAAAACCCC
**
62915615 AAACCCAAACCCCAAAACCCC
1 AAACCCAAAAACCAAAACCCC
62915636 AAAC
1 AAAC
62915640 ACTAAAAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.52, C:0.46, G:0.00, T:0.02
Consensus pattern (21 bp):
AAACCCAAAAACCAAAACCCC
Found at i:62915632 original size:14 final size:14
Alignment explanation
Indices: 62915594--62915639 Score: 58
Period size: 13 Copynumber: 3.3 Consensus size: 14
62915584 TCTAAACCTT
* *
62915594 AAACCTCAAAAACC
1 AAACCCCAAAACCC
62915608 AAACCCC-AAACCC
1 AAACCCCAAAACCC
62915621 AAACCCCAAAACCCC
1 AAACCCCAAAA-CCC
62915636 AAAC
1 AAAC
62915640 ACTAAAAGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 12 0.43
14 9 0.32
15 7 0.25
ACGTcount: A:0.52, C:0.46, G:0.00, T:0.02
Consensus pattern (14 bp):
AAACCCCAAAACCC
Found at i:62915634 original size:8 final size:7
Alignment explanation
Indices: 62915606--62915639 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
62915596 ACCTCAAAAA
62915606 CCAAACC
1 CCAAACC
62915613 CCAAA-C
1 CCAAACC
62915619 CCAAACC
1 CCAAACC
62915626 CCAAAACC
1 CC-AAACC
62915634 CCAAAC
1 CCAAAC
62915640 ACTAAAAGTC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.24
7 12 0.48
8 7 0.28
ACGTcount: A:0.47, C:0.53, G:0.00, T:0.00
Consensus pattern (7 bp):
CCAAACC
Found at i:62916065 original size:19 final size:19
Alignment explanation
Indices: 62916033--62916069 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
62916023 TCTAACCCAT
62916033 AACCCAAACCACTAACCCC
1 AACCCAAACCACTAACCCC
* *
62916052 AACCCTAACTACTAACCC
1 AACCCAAACCACTAACCC
62916070 TAAACCTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.49, G:0.00, T:0.11
Consensus pattern (19 bp):
AACCCAAACCACTAACCCC
Found at i:62916129 original size:81 final size:81
Alignment explanation
Indices: 62916044--62916211 Score: 198
Period size: 81 Copynumber: 2.1 Consensus size: 81
62916034 ACCCAAACCA
* * *
62916044 CTAACCCCAA-CCCTAACTAC-TAACC-CTAAACCTTATTTAATACATAAATTAAAAAATATTAA
1 CTAACCCCAATCCCTAAC-ACTTAACCTCTAAACCATATTTAATA-A-AAATTAAAAAACACTAA
*
62916106 TTAATCAAAACCCTAAATC
63 TTAATCAAAACCCTAAAGC
* * * * *
62916125 CTAACCCGAATCCCTAACCCTTAACCTTTAAACCATATTTTATAAAAATTAAAACACACTAATTA
1 CTAACCCCAATCCCTAACACTTAACCTCTAAACCATATTTAATAAAAATTAAAAAACACTAATTA
*
62916190 ATCTAAACCCTAAAGC
66 ATCAAAACCCTAAAGC
62916206 CTAACC
1 CTAACC
62916212 TAACACTGAA
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
81 47 0.64
82 13 0.18
83 14 0.19
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.27
Consensus pattern (81 bp):
CTAACCCCAATCCCTAACACTTAACCTCTAAACCATATTTAATAAAAATTAAAAAACACTAATTA
ATCAAAACCCTAAAGC
Found at i:62916923 original size:113 final size:113
Alignment explanation
Indices: 62916655--62917311 Score: 596
Period size: 113 Copynumber: 5.7 Consensus size: 113
62916645 TCGGGAAAAG
* * * ** * *
62916655 CGCCGCTAATACTATGC-TTCAGCGGCATTTTCCTGTGTGCGCCACTAATTCCAGTATACATCAA
1 CGCCGCTAATACTATACATT-AGCGGCGTTTTCC-ATAAGCGCCACTAATTCTAATATACATCAA
* * * * * * *
62916719 GAACTAAACGCTGTGTTTTCGTTAATAT-CTTTTGGCGGCGCTTAC-CAAAAA
64 G-ACCAAACTCTGCGTTTTGGTTAAGATAC-TTT-GCGGCGCTTTCGCACAAA
* * * ** * *
62916770 GCGTCGCAAATAGTA-AGCATTAGCGGCGTTTTGAAATAAGCGCCACTAACTCTAATATACGTCA
1 -CGCCGCTAATACTATA-CATTAGCGGCGTTTT-CCATAAGCGCCACTAATTCTAATATACATCA
*
62916834 AGGCCAAACTCTGCGTTTTGGTTAAGATACTTTGCGGCGCTTTC-CACAAA
63 AGACCAAACTCTGCGTTTTGGTTAAGATACTTTGCGGCGCTTTCGCACAAA
* * *
62916884 CGCCGCTACTACTATACTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACCTCAAG
1 CGCCGCTAATACTATACATTAGCGGCGTTTTCC-ATAAGCGCCACTAATTCTAATATACATCAAG
* * * *
62916949 ACCAAACTCCGCGTTTTGGTTAAGATATTTTGAGGCGCTTAC-CACCAAA
65 ACCAAACTCTGCGTTTTGGTTAAGATACTTTGCGGCGCTTTCGCA-CAAA
* * * * * * * * *
62916998 CGCTGCTATTACTATGCTTTAGTGGCGTTTTCCTTAAACGCCACTAATTATAGTATACATCAAGA
1 CGCCGCTAATACTATACATTAGCGGCGTTTTCCATAAGCGCCACTAATTCTAATATACATCAAGA
* ** * *
62917063 CCAAAACGCTGCGTTTTGGTTAAGATTTTTTGCGGCG-TTTAGCGCTC-AG
66 CC-AAACTCTGCGTTTTGGTTAAGATACTTTGCGGCGCTTT--CGCACAAA
* *
62917112 CGCCGCTAATACTATACATTAGCGGCGTTTTCTTTATAAGCGCCACTAATTGTAATATACATCAA
1 CGCCGCTAATACTATACATTAGCGGCGTTTTC--CATAAGCGCCACTAATTCTAATATACATCAA
* * *
62917177 GACCAAACTCTGCGTTTTGGTTAACAT-CTTTTGCGGCGCTTTCGC-TAAG
64 GACCAAACTCTGCGTTTTGGTTAAGATAC-TTTGCGGCGCTTTCGCACAAA
* * * *
62917226 CGCCGCTAATACTATGCATTACCGGCGTTTGTTCGTAAGCGCCACTAATTCTAATATACATCAAG
1 CGCCGCTAATACTATACATTAGCGGCGTTT-TCCATAAGCGCCACTAATTCTAATATACATCAAG
* *
62917291 ACCAGAACGCTGCGTGTTGGT
65 ACCA-AACTCTGCGTTTTGGT
62917312 CTTGAGATTT
Statistics
Matches: 449, Mismatches: 74, Indels: 38
0.80 0.13 0.07
Matches are distributed among these distances:
113 156 0.35
114 154 0.34
115 56 0.12
116 81 0.18
117 2 0.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (113 bp):
CGCCGCTAATACTATACATTAGCGGCGTTTTCCATAAGCGCCACTAATTCTAATATACATCAAGA
CCAAACTCTGCGTTTTGGTTAAGATACTTTGCGGCGCTTTCGCACAAA
Found at i:62917088 original size:114 final size:113
Alignment explanation
Indices: 62916655--62917311 Score: 640
Period size: 114 Copynumber: 5.7 Consensus size: 113
62916645 TCGGGAAAAG
* * ** * *
62916655 CGCCGCTAATACTATGC-TTCAGCGGCATTTTCCTGTGTGCGCCACTAATTCCAGTATACATCAA
1 CGCCGCTAATACTATGCATT-AGCGGCGTTTTCC-ATAAGCGCCACTAATTCTAATATACATCAA
* * * * * *
62916719 GAACTAAACGCTGTGTTTTCGTTAATATCTTTTGGCGGCGCTTACCA-AAAA
64 G-ACCAAACGCTGCGTTTTGGTTAAGATATTTT-GCGGCGCTTACCACCAAA
* * * * ** * *
62916770 GCGTCGCAAATAGTAAGCATTAGCGGCGTTTTGAAATAAGCGCCACTAACTCTAATATACGTCAA
1 -CGCCGCTAATACTATGCATTAGCGGCGTTTT-CCATAAGCGCCACTAATTCTAATATACATCAA
* * * *
62916835 GGCCAAACTCTGCGTTTTGGTTAAGATACTTTGCGGCGCTTTCCA-CAAA
64 GACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTACCACCAAA
* * * *
62916884 CGCCGCTACTACTATACTTTAGCGGCGTTTTCCAATAAGCGCCACTAATTCTAATATACCTCAAG
1 CGCCGCTAATACTATGCATTAGCGGCGTTTTCC-ATAAGCGCCACTAATTCTAATATACATCAAG
* * *
62916949 ACCAAACTCCGCGTTTTGGTTAAGATATTTTGAGGCGCTTACCACCAAA
65 ACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTACCACCAAA
* * * * * * * *
62916998 CGCTGCTATTACTATGCTTTAGTGGCGTTTTCCTTAAACGCCACTAATTATAGTATACATCAAGA
1 CGCCGCTAATACTATGCATTAGCGGCGTTTTCCATAAGCGCCACTAATTCTAATATACATCAAGA
* * * * *
62917063 CCAAAACGCTGCGTTTTGGTTAAGATTTTTTGCGGCGTTTAGCGCTC-AG
66 CC-AAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTACCAC-CAAA
* * *
62917112 CGCCGCTAATACTATACATTAGCGGCGTTTTCTTTATAAGCGCCACTAATTGTAATATACATCAA
1 CGCCGCTAATACTATGCATTAGCGGCGTTTTC--CATAAGCGCCACTAATTCTAATATACATCAA
* * * * * * *
62917177 GACCAAACTCTGCGTTTTGGTTAACATCTTTTGCGGCGCTT-TCGCTAAG
64 GACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTACCACCAAA
* * *
62917226 CGCCGCTAATACTATGCATTACCGGCGTTTGTTCGTAAGCGCCACTAATTCTAATATACATCAAG
1 CGCCGCTAATACTATGCATTAGCGGCGTTT-TCCATAAGCGCCACTAATTCTAATATACATCAAG
*
62917291 ACCAGAACGCTGCGTGTTGGT
65 ACCA-AACGCTGCGTTTTGGT
62917312 CTTGAGATTT
Statistics
Matches: 449, Mismatches: 81, Indels: 24
0.81 0.15 0.04
Matches are distributed among these distances:
113 154 0.34
114 158 0.35
115 58 0.13
116 77 0.17
117 2 0.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (113 bp):
CGCCGCTAATACTATGCATTAGCGGCGTTTTCCATAAGCGCCACTAATTCTAATATACATCAAGA
CCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTACCACCAAA
Found at i:62917347 original size:229 final size:221
Alignment explanation
Indices: 62916655--62917350 Score: 660
Period size: 229 Copynumber: 3.0 Consensus size: 221
62916645 TCGGGAAAAG
* * * ** * *
62916655 CGCCGCTAATACTATGCTTCAGCGGCATTTTC-CTGTGTGCGCCACTAATTCCAGTATACATCAA
1 CGCCGCTAATACTATACTT-AGCGGCGTTTTCTCTATAAGCGCCACTAATTCTAATATACATCAA
* * * * * * * *
62916719 GAACTAAACGCTGTGTTTTCGTTAATATCTTTTGGCGGCGCTTACCAAAAAGCGTCGCAAATAGT
65 G-ACCAAACTCTGCGTTTTGGTTAACATCTTTT-GCGGCGCTTACC--AAAGCGCCGCTAATACT
* * * * * *
62916784 AAGCATTAGCGGCGTTTTGAAATAAGCGCCACTAACTCTAATATACGTCAAGGCCAAACTCTGCG
126 ATGCATTAGCGGCGTTTT-ACATAAGCGCCACTAATTCTAATATACATCAAGACCAAACGCTGCG
* *
62916849 TTTTGGTTAAGATACTTTGCGGCGCTTTCCA-CAAA
190 TTTTGGTTAAGAT--TTTGCGGCG-TTT-GAGTAAA
* * *
62916884 CGCCGCTACTACTATACTTTAGCGGCGTTTTC-CAATAAGCGCCACTAATTCTAATATACCTCAA
1 CGCCGCTAATACTATAC-TTAGCGGCGTTTTCTCTATAAGCGCCACTAATTCTAATATACATCAA
* * * * * * *
62916948 GACCAAACTCCGCGTTTTGGTTAAGATATTTTGAGGCGCTTACCACCAAACGCTGCTATTACTAT
65 GACCAAACTCTGCGTTTTGGTTAACATCTTTTGCGGCGCTTACCA--AAGCGCCGCTAATACTAT
* * * * * * *
62917013 GCTTTAGTGGCGTTTTCCTTAAACGCCACTAATTATAGTATACATCAAGACCAAAACGCTGCGTT
128 GCATTAGCGGCGTTTTACATAAGCGCCACTAATTCTAATATACATCAAGACC-AAACGCTGCGTT
* * *
62917078 TTGGTTAAGATTTTTTGCGGCGTTTAGCGCTCAG
192 TTGGTTAAGA--TTTTGCGGCGTTT-GAG-TAAA
* *
62917112 CGCCGCTAATACTATACATTAGCGGCGTTTTCTTTATAAGCGCCACTAATTGTAATATACATCAA
1 CGCCGCTAATACTATAC-TTAGCGGCGTTTTCTCTATAAGCGCCACTAATTCTAATATACATCAA
* *
62917177 GACCAAACTCTGCGTTTTGGTTAACATCTTTTGCGGCGCTTTCGCTAAGCGCCGCTAATACTATG
65 GACCAAACTCTGCGTTTTGGTTAACATCTTTTGCGGCGCTTAC-CAAAGCGCCGCTAATACTATG
* * * *
62917242 CATTACCGGCGTTTGTTCGTAAGCGCCACTAATTCTAATATACATCAAGACCAGAACGCTGCGTG
129 CATTAGCGGCGTTT-TACATAAGCGCCACTAATTCTAATATACATCAAGACCA-AACGCTGCGTT
* *
62917307 TTGGTCTTGAGATTTTGTGGCGTTGTGTAGTAAA
192 TTGG--TTAAGATTTTGCGGCGTT-TG-AGTAAA
62917341 CGCCGCTAAT
1 CGCCGCTAAT
62917351 GATGTTCTTT
Statistics
Matches: 379, Mismatches: 72, Indels: 32
0.78 0.15 0.07
Matches are distributed among these distances:
225 1 0.00
226 30 0.08
227 66 0.17
228 83 0.22
229 189 0.50
230 5 0.01
231 5 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (221 bp):
CGCCGCTAATACTATACTTAGCGGCGTTTTCTCTATAAGCGCCACTAATTCTAATATACATCAAG
ACCAAACTCTGCGTTTTGGTTAACATCTTTTGCGGCGCTTACCAAAGCGCCGCTAATACTATGCA
TTAGCGGCGTTTTACATAAGCGCCACTAATTCTAATATACATCAAGACCAAACGCTGCGTTTTGG
TTAAGATTTTGCGGCGTTTGAGTAAA
Found at i:62917452 original size:40 final size:40
Alignment explanation
Indices: 62917407--62917532 Score: 117
Period size: 40 Copynumber: 3.1 Consensus size: 40
62917397 ACTTTTTGCT
*
62917407 GCGTTTTAAAAGAAGTGCCGCTAATGCTAGATCTTTAGCG
1 GCGTTTTAAAAGAAGCGCCGCTAATGCTAGATCTTTAGCG
******
62917447 GCGTTTTATTCTTTGCGCCGCTAATGCTAGATCTTTAGCG
1 GCGTTTTAAAAGAAGCGCCGCTAATGCTAGATCTTTAGCG
****** * *
62917487 GCGTTTTATTCTTTGCGCCGCTAATGCTCGATTTTTAGCG
1 GCGTTTTAAAAGAAGCGCCGCTAATGCTAGATCTTTAGCG
62917527 GCGTTT
1 GCGTTT
62917533 GTAATCCAAA
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 77 1.00
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (40 bp):
GCGTTTTAAAAGAAGCGCCGCTAATGCTAGATCTTTAGCG
Found at i:62919191 original size:6 final size:6
Alignment explanation
Indices: 62919180--62919207 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
62919170 TTCGGTGTGA
62919180 ATGTAT ATGTAT ATGTAT ATGTAT ATGT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGT
62919208 GTCTTTCGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (6 bp):
ATGTAT
Found at i:62921976 original size:42 final size:42
Alignment explanation
Indices: 62921917--62921997 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
62921907 TGAAAAGTTA
*
62921917 GAAGAGTGAATAGACTTGAAGATGAAAAGTTACACACATTAT
1 GAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACATTAT
*
62921959 GAAGAGTGAAGAGACTTGAATATGAAAAGTTACACACAT
1 GAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
62921998 GCATGAATAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.46, C:0.10, G:0.22, T:0.22
Consensus pattern (42 bp):
GAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACATTAT
Found at i:62926435 original size:23 final size:23
Alignment explanation
Indices: 62926409--62926499 Score: 91
Period size: 23 Copynumber: 4.1 Consensus size: 23
62926399 TGAAAAGTTA
62926409 GAAGAGTGAAGAGACTTGAATAT
1 GAAGAGTGAAGAGACTTGAATAT
* *
62926432 GAAGAGTGAATAGACTTGAAGAT
1 GAAGAGTGAAGAGACTTGAATAT
* * * * *
62926455 GAAAAGT-TACACAC---ATTAT
1 GAAGAGTGAAGAGACTTGAATAT
62926474 GAAGAGTGAAGAGACTTGAATAT
1 GAAGAGTGAAGAGACTTGAATAT
62926497 GAA
1 GAA
62926500 AAGTTACACA
Statistics
Matches: 51, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
19 9 0.18
20 4 0.08
22 4 0.08
23 34 0.67
ACGTcount: A:0.45, C:0.07, G:0.26, T:0.22
Consensus pattern (23 bp):
GAAGAGTGAAGAGACTTGAATAT
Found at i:62926476 original size:42 final size:42
Alignment explanation
Indices: 62926429--62926512 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
62926419 GAGACTTGAA
*
62926429 TATGAAGAGTGAATAGACTTGAAGATGAAAAGTTACACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
*
62926471 TATGAAGAGTGAAGAGACTTGAATATGAAAAGTTACACACAT
1 TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
62926513 GCATGAATAG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.45, C:0.10, G:0.21, T:0.24
Consensus pattern (42 bp):
TATGAAGAGTGAAGAGACTTGAAGATGAAAAGTTACACACAT
Found at i:62936725 original size:61 final size:61
Alignment explanation
Indices: 62936630--62936752 Score: 246
Period size: 61 Copynumber: 2.0 Consensus size: 61
62936620 TCTTAGAGGG
62936630 TAAGTTTTCTAGTTTGAGTACAACGGTGAAGTGGTTACTTGGTCAATGATTATGACTTAAA
1 TAAGTTTTCTAGTTTGAGTACAACGGTGAAGTGGTTACTTGGTCAATGATTATGACTTAAA
62936691 TAAGTTTTCTAGTTTGAGTACAACGGTGAAGTGGTTACTTGGTCAATGATTATGACTTAAA
1 TAAGTTTTCTAGTTTGAGTACAACGGTGAAGTGGTTACTTGGTCAATGATTATGACTTAAA
62936752 T
1 T
62936753 CACAACTTGT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (61 bp):
TAAGTTTTCTAGTTTGAGTACAACGGTGAAGTGGTTACTTGGTCAATGATTATGACTTAAA
Found at i:62938729 original size:14 final size:13
Alignment explanation
Indices: 62938697--62938738 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
62938687 GATTTACTCC
*
62938697 TTTTATTTATCAT
1 TTTTCTTTATCAT
62938710 TTTTCTTTATCAT
1 TTTTCTTTATCAT
62938723 GTTTTC-TTA-CAT
1 -TTTTCTTTATCAT
62938735 TTTT
1 TTTT
62938739 TTAACTATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 4 0.15
12 3 0.11
13 15 0.56
14 5 0.19
ACGTcount: A:0.17, C:0.12, G:0.02, T:0.69
Consensus pattern (13 bp):
TTTTCTTTATCAT
Found at i:62942200 original size:24 final size:26
Alignment explanation
Indices: 62942173--62942222 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
62942163 AAATGTATGT
62942173 ACATAACAT-ATATG-AAAAATATAA
1 ACATAACATAATATGTAAAAATATAA
* *
62942197 ACATGATATAATATGTAAAAATATAA
1 ACATAACATAATATGTAAAAATATAA
62942223 TATAGTATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 5 0.23
26 10 0.45
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (26 bp):
ACATAACATAATATGTAAAAATATAA
Found at i:62942598 original size:28 final size:28
Alignment explanation
Indices: 62942567--62942623 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
62942557 TACAAAAACA
*
62942567 AATAAAGTAATTAAAAG-TCATACTATAT
1 AATAAAGTAA-TAAAAGATAATACTATAT
62942595 AATAAAGTAATAAAAGATAATACTATAT
1 AATAAAGTAATAAAAGATAATACTATAT
62942623 A
1 A
62942624 TACATGTACG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 6 0.22
28 21 0.78
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.30
Consensus pattern (28 bp):
AATAAAGTAATAAAAGATAATACTATAT
Found at i:62944367 original size:42 final size:40
Alignment explanation
Indices: 62944264--62944545 Score: 284
Period size: 40 Copynumber: 6.9 Consensus size: 40
62944254 GGTTTTTTTT
*
62944264 TGTCTGCTCCACTGA-TGCTTAGGGAGATAAGAC-TGGATG
1 TGTCTGCTCCACT-ACTGCTTAGGGAGATAAGACTTGGTTG
* *
62944303 TGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTT
1 TG-TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTG
* * *
62944346 TGTCTGCTCCGCTACTACTTAGGGAGATAAGACTT-GATG
1 TGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGGTTG
* *
62944385 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTT
1 TG-TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTG
** * *
62944428 TGTCCACTCCGCTACTGCTTAGGGAGATAAGACTT-GATG
1 TGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGGTTG
* * * *
62944467 CGATCTGCTCCATTATTGCTTAGGGAGATAAGATCTGTGGTTC
1 TG-TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGGTTG
* *
62944510 TGTCTGCTCCACTATTGCTTACGGAGATAAGACTTG
1 TGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTG
62944546 CAACTTTTGA
Statistics
Matches: 200, Mismatches: 30, Indels: 25
0.78 0.12 0.10
Matches are distributed among these distances:
39 9 0.05
40 84 0.42
41 11 0.05
42 84 0.42
43 12 0.06
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.32
Consensus pattern (40 bp):
TGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGGTTG
Found at i:62944367 original size:82 final size:82
Alignment explanation
Indices: 62944261--62944545 Score: 437
Period size: 82 Copynumber: 3.5 Consensus size: 82
62944251 ATTGGTTTTT
* * *
62944261 TTTTGTCTGCTCCACTGA-TGCTTAGGGAGATAAGACTGGATGTGATTTGCTCCACTACTGCTTA
1 TTTTGTCTGCTCCACT-ACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTA
62944325 GGGAGATAAGATCTGTGG
65 GGGAGATAAGATCTGTGG
* *
62944343 TTTTGTCTGCTCCGCTACTACTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAG
1 TTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAG
62944408 GGAGATAAGATCTGTGG
66 GGAGATAAGATCTGTGG
** * * *
62944425 TTTTGTCCACTCCGCTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCATTATTGCTTAG
1 TTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAG
62944490 GGAGATAAGATCTGTGG
66 GGAGATAAGATCTGTGG
* * *
62944507 TTCTGTCTGCTCCACTATTGCTTACGGAGATAAGACTTG
1 TTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTG
62944546 CAACTTTTGA
Statistics
Matches: 186, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
81 1 0.01
82 185 0.99
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.33
Consensus pattern (82 bp):
TTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAG
GGAGATAAGATCTGTGG
Found at i:62944960 original size:72 final size:72
Alignment explanation
Indices: 62944725--62944976 Score: 416
Period size: 73 Copynumber: 3.5 Consensus size: 72
62944715 ACATGTGAAC
* *
62944725 TGAGGCTCAACTCACTTT-TCGCAATATGAGTTGATTTTTTGACAACAGAAATTGAAATTACCTC
1 TGAGGCTCAACTCA-TTTCTCGCAATATGAGTTGA-ATTTTGAAAACAGAAATTGAAATTACCTC
* *
62944789 AGCGTGTCC
64 AACGTGTCT
*
62944798 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAGAAATTGAAATTACCTCA
62944863 ACGTGTCT
65 ACGTGTCT
62944871 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
*
62944936 TGTGTCT
66 CGTGTCT
62944943 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
1 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
62944977 TTCTTTCAAA
Statistics
Matches: 170, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
72 71 0.42
73 99 0.58
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (72 bp):
TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
CGTGTCT
Found at i:62945142 original size:89 final size:88
Alignment explanation
Indices: 62944911--62945153 Score: 267
Period size: 88 Copynumber: 2.8 Consensus size: 88
62944901 TTGAATTTTG
* * ** * **
62944911 AAAACAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAACAGAAATGGAAAATACCTCGGTGTGTCATGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
62944976 ATTCTTTCAAAAACATAATAATG
66 ATTCTTTCAAAAACATAATAATC
* * * *
62944999 AAAACAGAAATGGATAATACCTCGGTGTGACCTGAGGCTCAACTCACCTTTCGCAATATGAGTTG
1 AAAACAGAAATGGAAAATACCTCGGTGTGTCATGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* * *
62945064 ATTTTTTGAAAAACA-GA-AATC
66 ATTCTTTCAAAAACATAATAATC
** *
62945085 AAAAGGC-TTAATTGAAAATACCTCGGCGTGTGTCATGAGGCTCAACTCACCTCTCGCAATATGA
1 AAAA--CAGAAATGGAAAATACCTC-G-GTGTGTCATGAGGCTCAACTCACCTCTCGCAATATGA
62945149 GTTGA
62 GTTGA
62945154 AATTAAAACA
Statistics
Matches: 130, Mismatches: 21, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
86 7 0.05
87 14 0.11
88 70 0.54
89 39 0.30
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (88 bp):
AAAACAGAAATGGAAAATACCTCGGTGTGTCATGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTCTTTCAAAAACATAATAATC
Found at i:62945522 original size:76 final size:76
Alignment explanation
Indices: 62945380--62945586 Score: 364
Period size: 76 Copynumber: 2.7 Consensus size: 76
62945370 GTAATCTGAA
62945380 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAACAGAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAACAGAAATTGAAAATACCTCAGC
62945445 ATGTGAACCGAG
65 ATGTGAACCGAG
*
62945457 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCA
62945522 TGTGAACCGAG
66 TGTGAACCGAG
*
62945533 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGGAATT-AAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAAATTGAAAA
62945587 GGCTCAACTC
Statistics
Matches: 126, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
75 11 0.09
76 86 0.68
77 29 0.23
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (76 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCA
TGTGAACCGAG
Found at i:62945853 original size:54 final size:54
Alignment explanation
Indices: 62945744--62945942 Score: 310
Period size: 54 Copynumber: 3.7 Consensus size: 54
62945734 GCCCCGAGGC
* *
62945744 TCAACTCACTTCTCACAATATGAGTTGA-TTTTGAAAAACAGAAATTAAAAGGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGT
* *
62945797 TCAACCCACCTCTCGCAATATGAGTTGATTTTTGAAAACCAGAAATTAAAAGGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGT
* *
62945851 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGGAATTAAAAGGC
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTAAAAGGT
* *
62945906 TCAACTCACCTCTCGTAAGATGAGTTGATTTTTGAAA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
62945943 CTTAATTTGA
Statistics
Matches: 134, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
53 25 0.19
54 60 0.45
55 49 0.37
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (54 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAGGT
Found at i:62945933 original size:109 final size:107
Alignment explanation
Indices: 62945744--62945942 Score: 317
Period size: 109 Copynumber: 1.8 Consensus size: 107
62945734 GCCCCGAGGC
* *
62945744 TCAACTCACTTCTCACAATATGAGTTGATTTTGAAAAACAGAAATTAAAAGGTTCAACCCACCTC
1 TCAACTCACCTCTCACAATATGAGTTGATTTTGAAAAACAGAAATTAAAAGGCTCAACCCACCTC
*
62945809 TCGCAATATGAGTTGATTTTTGAAAACCAGAAATTAAAAGGT
66 TCGCAAGATGAGTTGATTTTTGAAAACCAGAAATTAAAAGGT
* * *
62945851 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGGAATTAAAAGGCTCAACTCACC
1 TCAACTCACCTCTCACAATATGAGTTGA--TTTTGAAAAACAGAAATTAAAAGGCTCAACCCACC
*
62945916 TCTCGTAAGATGAGTTGATTTTTGAAA
64 TCTCGCAAGATGAGTTGATTTTTGAAA
62945943 CTTAATTTGA
Statistics
Matches: 83, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
107 26 0.31
109 57 0.69
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (107 bp):
TCAACTCACCTCTCACAATATGAGTTGATTTTGAAAAACAGAAATTAAAAGGCTCAACCCACCTC
TCGCAAGATGAGTTGATTTTTGAAAACCAGAAATTAAAAGGT
Found at i:62946063 original size:72 final size:73
Alignment explanation
Indices: 62945963--62946100 Score: 242
Period size: 72 Copynumber: 1.9 Consensus size: 73
62945953 AAAGTAGATT
*
62945963 TTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-TTTTGAA
1 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTGAA
62946027 AACAAAAA
66 AACAAAAA
* *
62946035 TTGAAATTACTTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTGAA
1 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTGAA
62946100 A
66 A
62946101 CAGAAATAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
72 54 0.87
73 8 0.13
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.35
Consensus pattern (73 bp):
TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTTGAA
AACAAAAA
Found at i:62948305 original size:13 final size:13
Alignment explanation
Indices: 62948287--62948353 Score: 80
Period size: 13 Copynumber: 4.8 Consensus size: 13
62948277 TGGCATTTGA
62948287 TTTTTTTTTTGTT
1 TTTTTTTTTTGTT
*
62948300 TTTTTTTCTTGTCCT
1 TTTTTTTTTTGT--T
62948315 TTTTTCTTTTTGTT
1 TTTTT-TTTTTGTT
62948329 TTTTTTTTTTGTT
1 TTTTTTTTTTGTT
62948342 TTCTTTTCTTTT
1 TT-TTTT-TTTT
62948354 TCTTTTCATG
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
13 21 0.45
14 10 0.21
15 10 0.21
16 6 0.13
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.85
Consensus pattern (13 bp):
TTTTTTTTTTGTT
Found at i:62948325 original size:29 final size:28
Alignment explanation
Indices: 62948287--62948359 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 28
62948277 TGGCATTTGA
62948287 TTTTT-TTTTTGTTTTTTTTTCTTGTCCT
1 TTTTTCTTTTTGTTTTTTTTTCTTGT-CT
* *
62948315 TTTTTCTTTTTGTTTTTTTTTTTTGTTT
1 TTTTTCTTTTTGTTTTTTTTTCTTGTCT
*
62948343 TCTTTTCTTTTTCTTTT
1 T-TTTTCTTTTTGTTTT
62948360 CATGACTGTC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
28 7 0.17
29 33 0.82
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.85
Consensus pattern (28 bp):
TTTTTCTTTTTGTTTTTTTTTCTTGTCT
Found at i:62952497 original size:24 final size:26
Alignment explanation
Indices: 62952470--62952519 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
62952460 AAATGTATGT
62952470 ACATAACAT-ATATG-AAAAATATAA
1 ACATAACATAATATGTAAAAATATAA
* *
62952494 ACATGATATAATATGTAAAAATATAA
1 ACATAACATAATATGTAAAAATATAA
62952520 TATAGTATTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 5 0.23
26 10 0.45
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (26 bp):
ACATAACATAATATGTAAAAATATAA
Found at i:62952895 original size:28 final size:28
Alignment explanation
Indices: 62952864--62952920 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
62952854 TACAAAAACA
*
62952864 AATAAAGTAATTAAAAG-TCATACTATAT
1 AATAAAGTAA-TAAAAGATAATACTATAT
62952892 AATAAAGTAATAAAAGATAATACTATAT
1 AATAAAGTAATAAAAGATAATACTATAT
62952920 A
1 A
62952921 TACATGTACG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 6 0.22
28 21 0.78
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.30
Consensus pattern (28 bp):
AATAAAGTAATAAAAGATAATACTATAT
Found at i:62969465 original size:6 final size:6
Alignment explanation
Indices: 62969454--62969484 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
62969444 TTTATTTATT
62969454 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA T
1 TTTTAA TTTTAA TTTTAA TTTTAA TTTTAA T
62969485 AATATAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTTAA
Found at i:62978095 original size:31 final size:30
Alignment explanation
Indices: 62978046--62978103 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 30
62978036 TTACTCAAAA
* *
62978046 AATGAGTAAATTAATCCTTGTACGTTAAATC
1 AATGAGCAAACTAATCCTTGTA-GTTAAATC
* *
62978077 AATGAGCAAACTAGTCCTTTTAGTTAA
1 AATGAGCAAACTAATCCTTGTAGTTAA
62978104 CATTTTCATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 5 0.22
31 18 0.78
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (30 bp):
AATGAGCAAACTAATCCTTGTAGTTAAATC
Found at i:62980995 original size:4 final size:4
Alignment explanation
Indices: 62980986--62981014 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
62980976 GCAAAAAATG
62980986 ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
62981015 ACTTGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:62981727 original size:26 final size:26
Alignment explanation
Indices: 62981694--62981746 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 26
62981684 TGAAAACTCG
62981694 TATTGTTTAAAATATTTC-TAATATAT
1 TATTGTTTAAAATATTTCATAA-ATAT
62981720 TATTGTTTAAAATATTTCATAAATAT
1 TATTGTTTAAAATATTTCATAAATAT
62981746 T
1 T
62981747 TTCAAAATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 23 0.88
27 3 0.12
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (26 bp):
TATTGTTTAAAATATTTCATAAATAT
Found at i:63003197 original size:16 final size:18
Alignment explanation
Indices: 63003176--63003211 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
63003166 TTTTATGTGT
63003176 TATAAAT-TAA-ATAATA
1 TATAAATATAACATAATA
63003192 TATAAATATAACATAATA
1 TATAAATATAACATAATA
63003210 TA
1 TA
63003212 AAACATTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 3 0.17
18 8 0.44
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (18 bp):
TATAAATATAACATAATA
Found at i:63005897 original size:16 final size:16
Alignment explanation
Indices: 63005876--63005909 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
63005866 AAGGTATAAT
63005876 AAAATATTAAAAAATA
1 AAAATATTAAAAAATA
63005892 AAAATATTAAAAAATA
1 AAAATATTAAAAAATA
63005908 AA
1 AA
63005910 GACATATATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAATATTAAAAAATA
Found at i:63009446 original size:21 final size:21
Alignment explanation
Indices: 63009405--63009447 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
63009395 AATTTTATTT
*
63009405 TTTATTTTATTTATAATTTAA
1 TTTATTTTATTTAGAATTTAA
*
63009426 TTTATTTT-TTTAGCATATTAA
1 TTTATTTTATTTAGAAT-TTAA
63009447 T
1 T
63009448 ATATATATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTATTTTATTTAGAATTTAA
Found at i:63014350 original size:19 final size:18
Alignment explanation
Indices: 63014328--63014370 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
63014318 GCTTATTCTG
63014328 TTTTTGTAATTTTATAAT-A
1 TTTTTGT-ATTTT-TAATAA
*
63014347 TTTTTCTATTTTTAATAA
1 TTTTTGTATTTTTAATAA
63014365 TTTTTG
1 TTTTTG
63014371 AAAAATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 4 0.19
18 11 0.52
19 6 0.29
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (18 bp):
TTTTTGTATTTTTAATAA
Found at i:63018091 original size:16 final size:16
Alignment explanation
Indices: 63018070--63018102 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
63018060 TTCATAAATT
63018070 TTTATTTTTAATAATA
1 TTTATTTTTAATAATA
*
63018086 TTTATTTTTTATAATA
1 TTTATTTTTAATAATA
63018102 T
1 T
63018103 GAATATTCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTATTTTTAATAATA
Found at i:63019821 original size:22 final size:22
Alignment explanation
Indices: 63019776--63019821 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
63019766 CTCTTTCTAA
* *
63019776 AAAAATTATAATTTAATCTCTT
1 AAAAATTATAATTTAATATATT
63019798 AAAAATTATAAATTT-ATATATT
1 AAAAATTAT-AATTTAATATATT
63019820 AA
1 AA
63019822 TATAATGACG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAAATTATAATTTAATATATT
Found at i:63021096 original size:12 final size:12
Alignment explanation
Indices: 63021076--63021105 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
63021066 ATTTAAAAAT
63021076 TTAAAATTTTTA
1 TTAAAATTTTTA
*
63021088 TTAATATTTTTA
1 TTAAAATTTTTA
63021100 TTAAAA
1 TTAAAA
63021106 AAATAACAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
TTAAAATTTTTA
Found at i:63023449 original size:23 final size:23
Alignment explanation
Indices: 63023423--63023466 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
63023413 AAAAAGTATA
63023423 AAAATTATAAAAAAAATATTTTT
1 AAAATTATAAAAAAAATATTTTT
* * *
63023446 AAAATTTTTAAAAAATTATTT
1 AAAATTATAAAAAAAATATTT
63023467 AATTGCTAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AAAATTATAAAAAAAATATTTTT
Found at i:63028276 original size:26 final size:26
Alignment explanation
Indices: 63028221--63028277 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
63028211 TTTTTTTGTT
**
63028221 AATTTGGTAATTATATTTTAAAGTTA
1 AATTTGGTAATTATATTTTAAAGAAA
*
63028247 AATTTGGTAATTATTTTTTAAA-AAA
1 AATTTGGTAATTATATTTTAAAGAAA
63028272 GAATTT
1 -AATTT
63028278 TTTAAAAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 1 0.04
26 26 0.96
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (26 bp):
AATTTGGTAATTATATTTTAAAGAAA
Found at i:63028279 original size:15 final size:15
Alignment explanation
Indices: 63028259--63028288 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
63028249 TTTGGTAATT
63028259 ATTTTTTAAAAAAGA
1 ATTTTTTAAAAAAGA
63028274 ATTTTTTAAAAAAGA
1 ATTTTTTAAAAAAGA
63028289 GTTGAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (15 bp):
ATTTTTTAAAAAAGA
Found at i:63030839 original size:5 final size:5
Alignment explanation
Indices: 63030829--63030853 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
63030819 ATTTAGAGCA
63030829 TTTTC TTTTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC
63030854 CCTTTACGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:63049377 original size:31 final size:31
Alignment explanation
Indices: 63049342--63049403 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
63049332 CATGGATTTT
*
63049342 CTATTTTTCCAATTTTCTTTTT-TTATCGAAA
1 CTATTTTTCCAATTTTATTTTTGTT-TCGAAA
* *
63049373 CTATTTTTCGATTTTTATTTTTGTTTCGAAA
1 CTATTTTTCCAATTTTATTTTTGTTTCGAAA
63049404 TACTAGGGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 25 0.93
32 2 0.07
ACGTcount: A:0.21, C:0.13, G:0.06, T:0.60
Consensus pattern (31 bp):
CTATTTTTCCAATTTTATTTTTGTTTCGAAA
Found at i:63050138 original size:21 final size:20
Alignment explanation
Indices: 63050112--63050155 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 20
63050102 AAAAATCAAT
*
63050112 AAAAATTATTAAATTTTAATA
1 AAAAATTATAAAATTTT-ATA
63050133 AAAAATTATAAAATTTTATA
1 AAAAATTATAAAATTTTATA
63050153 AAA
1 AAA
63050156 GACCCTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAAATTATAAAATTTTATA
Found at i:63050699 original size:89 final size:86
Alignment explanation
Indices: 63050533--63050701 Score: 232
Period size: 89 Copynumber: 1.9 Consensus size: 86
63050523 ACTAGGGATG
* * * * *
63050533 GTTCAAGTACCCAATTGAGTGTAAAAAAAGTAAGGGCTTAATTTTTTTTTGAAAAAATTTGAGGG
1 GTTCAAATACCCAATTGAGTGTAAAAAAAGTAAGAGCTTAATTTTTTCTTGAAAAAAATTGAGAG
63050598 TCTTTTTGATGCATTTTGAAA
66 TCTTTTTGATGCATTTTGAAA
*
63050619 GTTCAAATACCCAATTGAGTGTAAAACAAAAGTAA-AGTTTAATTGCTTTTCTTGAAAAAAATTG
1 GTTCAAATACCCAATTGAGTGT-AAA-AAAAGTAAGAGCTTAATT--TTTTCTTGAAAAAAATTG
*
63050683 AGAGTCTTTTTTATGCATT
62 AGAGTCTTTTTGATGCATT
63050702 GTAAAAATTG
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
86 21 0.29
87 10 0.14
88 8 0.11
89 33 0.46
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (86 bp):
GTTCAAATACCCAATTGAGTGTAAAAAAAGTAAGAGCTTAATTTTTTCTTGAAAAAAATTGAGAG
TCTTTTTGATGCATTTTGAAA
Found at i:63052098 original size:15 final size:16
Alignment explanation
Indices: 63052078--63052110 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
63052068 AATTAATTTT
63052078 TAAATAAATTT-TTAA
1 TAAATAAATTTGTTAA
63052093 TAAATAAATTTGTTAA
1 TAAATAAATTTGTTAA
63052109 TA
1 TA
63052111 TTAAACCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
TAAATAAATTTGTTAA
Found at i:63061678 original size:29 final size:31
Alignment explanation
Indices: 63061627--63061693 Score: 86
Period size: 29 Copynumber: 2.2 Consensus size: 31
63061617 AGTCTAATTA
63061627 AAAATTTTAAAAATTTTATGAG-AT-TAATG
1 AAAATTTTAAAAATTTTATGAGAATCTAATG
* *
63061656 AAAATTTTCAAAATTTTGA-GAGAATCTAATT
1 AAAATTTTAAAAATTTT-ATGAGAATCTAATG
63061687 AAAATTT
1 AAAATTT
63061694 AAAGAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 19 0.58
30 3 0.09
31 11 0.33
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.40
Consensus pattern (31 bp):
AAAATTTTAAAAATTTTATGAGAATCTAATG
Found at i:63063212 original size:42 final size:40
Alignment explanation
Indices: 63063117--63063235 Score: 125
Period size: 41 Copynumber: 2.9 Consensus size: 40
63063107 GGCCCGGCCA
* * *
63063117 ATATTTGATTAAAAATAAAAAAATAAATATTT--TTAATAT
1 ATATTTGATTAAAAAT-AAAAAATATATATTTAATAAAAAT
* *
63063156 ATAATTTGAATTAAAAGTCCAAAAATATATATTTAATAAAAAGT
1 AT-ATTTG-ATTAAAAAT-AAAAAATATATATTTAATAAAAA-T
63063200 ATATTTGATTAAAAATAAAAATATATATATTTAATA
1 ATATTTGATTAAAAATAAAAA-ATATATATTTAATA
63063236 TATAATCTGG
Statistics
Matches: 66, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
39 2 0.03
40 5 0.08
41 25 0.38
42 22 0.33
43 9 0.14
44 3 0.05
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (40 bp):
ATATTTGATTAAAAATAAAAAATATATATTTAATAAAAAT
Found at i:63064793 original size:72 final size:72
Alignment explanation
Indices: 63064676--63064824 Score: 298
Period size: 72 Copynumber: 2.1 Consensus size: 72
63064666 AGCTTCATAT
63064676 GTTGCTTTAACATCTTGCCATAGTTTTGGGAATGAGTGAACTAAATGGACTTGTATTTATTTGGT
1 GTTGCTTTAACATCTTGCCATAGTTTTGGGAATGAGTGAACTAAATGGACTTGTATTTATTTGGT
63064741 CTGTTTA
66 CTGTTTA
63064748 GTTGCTTTAACATCTTGCCATAGTTTTGGGAATGAGTGAACTAAATGGACTTGTATTTATTTGGT
1 GTTGCTTTAACATCTTGCCATAGTTTTGGGAATGAGTGAACTAAATGGACTTGTATTTATTTGGT
63064813 CTGTTTA
66 CTGTTTA
63064820 GTTGC
1 GTTGC
63064825 CTTGGTTTCT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 77 1.00
ACGTcount: A:0.23, C:0.11, G:0.23, T:0.43
Consensus pattern (72 bp):
GTTGCTTTAACATCTTGCCATAGTTTTGGGAATGAGTGAACTAAATGGACTTGTATTTATTTGGT
CTGTTTA
Found at i:63077034 original size:55 final size:55
Alignment explanation
Indices: 63076969--63077075 Score: 205
Period size: 55 Copynumber: 1.9 Consensus size: 55
63076959 ATATGAGAGG
63076969 TCTGTAATCATCGGACCAAATCCTTAATTCTTTCTATGATTTTCTCTATCTTAAT
1 TCTGTAATCATCGGACCAAATCCTTAATTCTTTCTATGATTTTCTCTATCTTAAT
*
63077024 TCTGTAATCATCGGACCAAATCCTTAATTTTTTCTATGATTTTCTCTATCTT
1 TCTGTAATCATCGGACCAAATCCTTAATTCTTTCTATGATTTTCTCTATCTT
63077076 TAACCTGGTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.24, C:0.21, G:0.07, T:0.47
Consensus pattern (55 bp):
TCTGTAATCATCGGACCAAATCCTTAATTCTTTCTATGATTTTCTCTATCTTAAT
Found at i:63081774 original size:3 final size:3
Alignment explanation
Indices: 63081768--63081804 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
63081758 TACTACGCGG
63081768 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATGT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
63081805 TCTTATATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:63100138 original size:31 final size:30
Alignment explanation
Indices: 63100103--63100170 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 30
63100093 TATTTTATTG
63100103 TTCAAATTAATCCCTAT-ATATTAAA-TAAAAA
1 TTCAAATTAAT-CCT-TGA-ATTAAACTAAAAA
*
63100134 TTCAATTTAATCCTTGAATTAAACTAAAAA
1 TTCAAATTAATCCTTGAATTAAACTAAAAA
63100164 TTCAAAT
1 TTCAAAT
63100171 AAACTCATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
29 7 0.21
30 16 0.48
31 10 0.30
ACGTcount: A:0.49, C:0.13, G:0.01, T:0.37
Consensus pattern (30 bp):
TTCAAATTAATCCTTGAATTAAACTAAAAA
Found at i:63100563 original size:16 final size:15
Alignment explanation
Indices: 63100528--63100563 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
63100518 CTCATTTTAC
*
63100528 TTTTAAATAAAAAAA
1 TTTTAAACAAAAAAA
63100543 TTTTAAACAAAAAAA
1 TTTTAAACAAAAAAA
63100558 TCTTTA
1 T-TTTA
63100564 CTTTTGTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (15 bp):
TTTTAAACAAAAAAA
Found at i:63121633 original size:21 final size:20
Alignment explanation
Indices: 63121580--63121633 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 20
63121570 AATTTTCTTA
*
63121580 ATTTAACTCAA-ATAAATTT
1 ATTTAACTCAACTTAAATTT
**
63121599 ATTTAACTTGACTTAAATTTT
1 ATTTAACTCAACTTAAA-TTT
*
63121620 ATTTCACTCAACTT
1 ATTTAACTCAACTT
63121634 GATTAAAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
19 9 0.33
20 4 0.15
21 14 0.52
ACGTcount: A:0.37, C:0.15, G:0.02, T:0.46
Consensus pattern (20 bp):
ATTTAACTCAACTTAAATTT
Found at i:63124315 original size:166 final size:159
Alignment explanation
Indices: 63123733--63124429 Score: 846
Period size: 159 Copynumber: 4.5 Consensus size: 159
63123723 TCACATACGT
* * * * * *
63123733 TGTTTATATTCACTTTTTTTGCTCCACAAGCAATCCGAAACCATAAACAAAGGAATACTTTTTTT
1 TGTTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATAC-CTTTTT
* * *
63123798 TTTCTTTTTATAAATGGTTTTCTTGTTTCTTT-TCCGCTTTTT-AAATTCTTCATTCAATTCAAG
65 TTCCTTTTT-TAAATGGTTTTCTTGATTCTTTGT-TG-TTTTTAAAATTCTTCATTCAATTCAAG
*
63123861 TTCAAGAAACCATGCT--ATATATATATATATG
127 TTCAAGAAACCATACTAAATATATATATATATG
*
63123892 TGTTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATGCCTTTTTT
1 TGTTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACCTTTTTT
* * *
63123957 TCCTTTTTTTAATGGTTTTCTTGATTCTTTGTTGTTTTTAACATTCTTCGTTCAATTCAAGTTCA
66 TCCTTTTTTAAATGGTTTTCTTGATTCTTTGTTGTTTTTAAAATTCTTCATTCAATTCAAGTTCA
*
63124022 AGAAACCATGCTAAATATATATATATATG
131 AGAAACCATACTAAATATATATATATATG
*
63124051 TGTTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATGCCTTTTTT
1 TGTTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACCTTTTTT
*
63124116 TCCTGTTTTT-AATGGTTTTCTTGATTCTTTGTTGTTTTTAAAATTCTTCGTTCAATTCAAGTTC
66 TCCT-TTTTTAAATGGTTTTCTTGATTCTTTGTTGTTTTTAAAATTCTTCATTCAATTCAAGTTC
**
63124180 AAGAAACCATACTAAATATACATACATACATATACA
130 AAGAAACCATACTAAATAT--AT--AT--ATATATG
* * ** **
63124216 TATATTATATTCACTTTTTTTGCTACACAAGCAAGCTGAAACCATAAACAAAGGCATATATTTTT
1 TGT-TTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACCTTTTT
* * * * *
63124281 CTCCTTTTTTAAATGGCTTTCTTGTTTCTTTGTTGTTTTTTAGATTCTTCATTCAATTCAAGTTC
65 TTCCTTTTTTAAATGGTTTTCTTGATTCTTTGTTGTTTTTAAAATTCTTCATTCAATTCAAGTTC
63124346 AAG-AA--AT-C-------------ATATG
130 AAGAAACCATACTAAATATATATATATATG
*
63124359 TGTTTATA-TCACTTTTCTTGCTACATAAGCAAGCCAAAACCATAAACAAAGGCATACCTTTTTT
1 TGTTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACCTTTTTT
63124423 TCCTTTT
66 TCCTTTT
63124430 CTACTGTTGC
Statistics
Matches: 485, Mismatches: 40, Indels: 44
0.85 0.07 0.08
Matches are distributed among these distances:
141 56 0.12
142 5 0.01
143 5 0.01
156 5 0.01
157 56 0.12
158 14 0.03
159 207 0.43
160 5 0.01
161 2 0.00
162 1 0.00
163 4 0.01
165 14 0.03
166 111 0.23
ACGTcount: A:0.30, C:0.18, G:0.10, T:0.43
Consensus pattern (159 bp):
TGTTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACCTTTTTT
TCCTTTTTTAAATGGTTTTCTTGATTCTTTGTTGTTTTTAAAATTCTTCATTCAATTCAAGTTCA
AGAAACCATACTAAATATATATATATATG
Found at i:63124316 original size:325 final size:300
Alignment explanation
Indices: 63123733--63124578 Score: 842
Period size: 325 Copynumber: 2.8 Consensus size: 300
63123723 TCACATACGT
* * * * * *
63123733 TGTTTATATTCACTTTTTTTGCTCCACAAGCAATCCGAAACCATAAACAAAGGAATACTTTTTTT
1 TGTTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATAC-CTTTTT
* *
63123798 TTTCTTTTTATAAATGGTTTTCTTGTTTCTTTTCCGCTTTTTAAATTCTTCATTCAATTCAAGTT
65 TTCCTTTTTATAAATGGTTTTCTTGATTCTTTTCCGCTTTTTAAATTCTTCATTCAATTCAAGTT
* ** *
63123863 CAAGAAACCATGCTATATATATATATATGTGTTTATATTCACTTTTCTTGCTACACAAGCAAGCC
130 CAAGAAACCATACTATATATATATATACATATTTATATTCACTTTTCTTGCTACACAAGCAAGCC
* * * * *
63123928 AAAACCATAAACAAAGGCATGCCTTTTTTTCCTTTTTTTAATGGTTTTCTTGATTCTTTGTTGTT
195 AAAACCATAAACAAAGGCATACATTTTTCTCCTTTTTTAAATGGCTTTCTTGATTCTTTGTTGTT
*
63123993 TTTAACATTCTTCGTTCAATTCAAGTTCAAGAAACCATGCTAAATATATATATATATG
260 TTTAACATTCTTCATTCAATTCAAGTTCAAG-AA--AT-C-------------ATATG
*
63124051 TGTTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATGCCTTTTTT
1 TGTTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACCTTTTTT
* *
63124116 TCCTGTTTT-T-AATGGTTTTCTTGATTCTTTGT-TG-TTTTTAAAATTCTTCGTTCAATTCAAG
66 TCCT-TTTTATAAATGGTTTTCTTGATTCTTT-TCCGCTTTTT-AAATTCTTCATTCAATTCAAG
*
63124177 TTCAAGAAACCATACTAAATATACATACATACATATACATATATTATATTCACTTTTTTTGCTAC
128 TTCAAGAAACCATACT--ATAT--AT--AT--ATATACATAT-TTATATTCACTTTTCTTGCTAC
** * *
63124242 ACAAGCAAGCTGAAACCATAAACAAAGGCATATATTTTTCTCCTTTTTTAAATGGCTTTCTTGTT
184 ACAAGCAAGCCAAAACCATAAACAAAGGCATACATTTTTCTCCTTTTTTAAATGGCTTTCTTGAT
* *
63124307 TCTTTGTTGTTTTTTAGATTCTTCATTCAATTCAAGTTCAAGAAATCATATG
249 TCTTTGTTGTTTTTAACATTCTTCATTCAATTCAAGTTCAAGAAATCATATG
*
63124359 TGTTTATA-TCACTTTTCTTGCTACATAAGCAAGCCAAAACCATAAACAAAGGCATACCTTTTTT
1 TGTTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACCTTTTTT
* * * *
63124423 TCC-TTTTCT-ACT-G-----TTG---C---T--GCTTTTTAGATTCTTCATTCAATTCATGTTC
66 TCCTTTTTATAAATGGTTTTCTTGATTCTTTTCCGCTTTTTAAATTCTTCATTCAATTCAAGTTC
* *
63124472 AAAAAACCATACTATATATATATAT--ATGTTTATATTCACTTTAATTTCTTGCTACACAAGTCA
131 AAGAAACCATACTATATATATATATACATATTTATATTCAC--T--TTTCTTGCTACACAAG-CA
* * * *
63124535 A-TCAAAACCATAAACAAAGGAATTAC-TTTTTCGCTTTTTTTAAA
191 AGCCAAAACCATAAACAAAGGCA-TACATTTTTCTCCTTTTTTAAA
63124579 ATGATTTTTT
Statistics
Matches: 464, Mismatches: 44, Indels: 73
0.80 0.08 0.13
Matches are distributed among these distances:
281 10 0.02
282 3 0.01
283 1 0.00
284 4 0.01
285 48 0.10
286 7 0.02
288 2 0.00
290 4 0.01
292 34 0.07
293 6 0.01
297 1 0.00
300 3 0.01
305 5 0.01
306 3 0.01
307 57 0.12
308 13 0.03
315 5 0.01
316 55 0.12
317 11 0.02
318 60 0.13
320 2 0.00
321 1 0.00
322 4 0.01
324 9 0.02
325 116 0.25
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.42
Consensus pattern (300 bp):
TGTTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACCTTTTTT
TCCTTTTTATAAATGGTTTTCTTGATTCTTTTCCGCTTTTTAAATTCTTCATTCAATTCAAGTTC
AAGAAACCATACTATATATATATATACATATTTATATTCACTTTTCTTGCTACACAAGCAAGCCA
AAACCATAAACAAAGGCATACATTTTTCTCCTTTTTTAAATGGCTTTCTTGATTCTTTGTTGTTT
TTAACATTCTTCATTCAATTCAAGTTCAAGAAATCATATG
Found at i:63124870 original size:26 final size:25
Alignment explanation
Indices: 63124821--63124870 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
63124811 GAGGTTGAGA
*
63124821 GTTTAATGAAACGATACGTTTTGAT
1 GTTTAATGAAACGATACGTATTGAT
* *
63124846 GTTTAATGAAAACGGTGCGTATTGA
1 GTTTAATG-AAACGATACGTATTGA
63124871 AAGTTTGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (25 bp):
GTTTAATGAAACGATACGTATTGAT
Found at i:63127341 original size:37 final size:36
Alignment explanation
Indices: 63127299--63127449 Score: 214
Period size: 37 Copynumber: 4.1 Consensus size: 36
63127289 TAATTCATAG
*
63127299 GAATATAGCTTTCTTGTTAGTATTCTCATTCTAATT-T
1 GAATATACCTTTCTTGTT-GTATTCTCATTCT-ATTAT
63127336 GAATATACCTTTCTTGCTTGTATTCTCATTCTATTAT
1 GAATATACCTTTCTTG-TTGTATTCTCATTCTATTAT
*
63127373 GAATATACCTTTCTTCCTTGTATTCTCATTCTATTAT
1 GAATATACCTTTCTT-GTTGTATTCTCATTCTATTAT
*
63127410 GAATATACCTTTCTTGTTCGTATTCTCGTTCTATTGAT
1 GAATATACCTTTCTTGTT-GTATTCTCATTCTATT-AT
63127448 GA
1 GA
63127450 TTAATGTTGC
Statistics
Matches: 105, Mismatches: 4, Indels: 9
0.89 0.03 0.08
Matches are distributed among these distances:
36 5 0.05
37 94 0.90
38 6 0.06
ACGTcount: A:0.22, C:0.18, G:0.10, T:0.50
Consensus pattern (36 bp):
GAATATACCTTTCTTGTTGTATTCTCATTCTATTAT
Found at i:63129154 original size:17 final size:18
Alignment explanation
Indices: 63129123--63129156 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
63129113 TATTTAACCT
63129123 TAATTAAATTATTTAAAA
1 TAATTAAATTATTTAAAA
*
63129141 TAATT-AATTTTTTAAA
1 TAATTAAATTATTTAAA
63129157 TTATAAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTAAATTATTTAAAA
Found at i:63133896 original size:50 final size:50
Alignment explanation
Indices: 63133778--63134070 Score: 406
Period size: 50 Copynumber: 5.8 Consensus size: 50
63133768 GATCATAACA
* * ** * * *
63133778 TGCCAAAGCCATGTCCCAGACATGATCTTACATGGGATGTTCTCATGTAGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * ** *
63133829 TACCCATGCGATGTCCCAGACATGGTCTTACGGGGGACTTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
63133879 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
63133929 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACGTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
63133979 TGCCAATGCCATGTCCCAGACATGGCCTTACATGGGACCTCTCATCTCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
63134029 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
63134071 TTACCCAAAT
Statistics
Matches: 214, Mismatches: 28, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
50 184 0.86
51 30 0.14
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:63152071 original size:17 final size:18
Alignment explanation
Indices: 63152040--63152073 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
63152030 AATTTAATTT
63152040 TAATTAAATTATTTAAAA
1 TAATTAAATTATTTAAAA
*
63152058 TAATT-AATTTTTTAAA
1 TAATTAAATTATTTAAA
63152074 TTATAAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTAAATTATTTAAAA
Found at i:63152145 original size:27 final size:25
Alignment explanation
Indices: 63152108--63152181 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 25
63152098 TTTACAAATT
* * *
63152108 TTAATCATTTTGTTTTTTTT-CATAAG
1 TTAAT-ATTTT-TTTTTTTTGTACAAC
*
63152134 TTAATATTTTTTATTTTTGTACAAC
1 TTAATATTTTTTTTTTTTGTACAAC
*
63152159 TTAATATTTTTTATTTTTGTACA
1 TTAATATTTTTTTTTTTTGTACA
63152182 TCCAATTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
24 7 0.16
25 31 0.72
26 5 0.12
ACGTcount: A:0.26, C:0.07, G:0.05, T:0.62
Consensus pattern (25 bp):
TTAATATTTTTTTTTTTTGTACAAC
Found at i:63155905 original size:32 final size:30
Alignment explanation
Indices: 63155845--63155910 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 30
63155835 TCAAAATTAA
* * *
63155845 AAAAAATATAGAAATTGAAGTTGACAAATT
1 AAAAAATATACAAATTAAAATTGACAAATT
*
63155875 CAAAAAATATACATATTAAAATTGATCAAATT
1 -AAAAAATATACAAATTAAAATTGA-CAAATT
63155907 AAAA
1 AAAA
63155911 GTGCACTGAC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 24 0.80
32 6 0.20
ACGTcount: A:0.59, C:0.06, G:0.08, T:0.27
Consensus pattern (30 bp):
AAAAAATATACAAATTAAAATTGACAAATT
Found at i:63157206 original size:159 final size:153
Alignment explanation
Indices: 63156908--63157436 Score: 622
Period size: 159 Copynumber: 3.5 Consensus size: 153
63156898 CACATACGCG
* * * * *
63156908 GTTTATATTCACTTTTTTTGCTCCACAAGCAATCCAAAACCATAAACAAAGGAATAGTTTTTTTT
1 GTTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACTTTTTTTT
* * *
63156973 TGCCTTTTTTAAATGGTTTTCTTGTTTCTTT-TCCGCTTTTTAAATTATTCATTCAATTCAAGTT
66 TTCCTTTTTTAAATGGTTTTCTTGTTTCTTTGT-TGCTTTTTAAATTCTTCATTCAATTCAAGTT
63157037 CAAAAAACCATACTAAATATATATATAT
130 C-AAAAACCATACT-AA-ATATATAT-T
* *
63157065 GTTTATATTTACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATGCTTTTTTTT
1 GTTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATAC--TTTTTT
* *
63157130 TTTTCCTTTTTCT-AATGATTTTCTTGATTCTTTGTTG-TTTTTAAATCTCTTCATTCAATTCAA
64 TTTTCCTTTTT-TAAATGGTTTTCTTGTTTCTTTGTTGCTTTTTAAAT-TCTTCATTCAATTCAA
63157193 GTTCAAGAAACCATACTAAATATATATT
127 GTTCAA-AAACCATACTAAATATATATT
* ** *
63157221 -TTTATATTCACTTTTTTTTGCTACACAAGCAAGCTGAAACCATAAACAAAGGCATAC--ATTTT
1 GTTTATATTCAC-TTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACTTTTTTT
* * * * * *
63157283 TATCCTTTTTTAAATGGCTTTCTTGTTTCTTTGTTGTTTTTTAGATTCTTCGTTCAATTTAAGTT
65 TTTCCTTTTTTAAATGGTTTTCTTGTTTCTTTGTTGCTTTTTAAATTCTTCATTCAATTCAAGTT
*
63157348 C-AAAA--A-AC----TATAT-GT
130 CAAAAACCATACTAAATATATATT
* *
63157363 GTTTATATTCACTTTTCTTGCTACATAAGCAAGCCCAAACCATAAACAAAGGCATAC-TTTTTTT
1 GTTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACTTTTTTTT
63157427 TTCCTTTTTT
66 TTCCTTTTTT
63157437 TACCGTTGCT
Statistics
Matches: 329, Mismatches: 32, Indels: 36
0.83 0.08 0.09
Matches are distributed among these distances:
142 42 0.13
143 30 0.09
147 2 0.01
148 1 0.00
150 3 0.01
151 2 0.01
152 52 0.16
153 8 0.02
155 10 0.03
156 42 0.13
157 58 0.18
158 13 0.04
159 64 0.19
160 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.44
Consensus pattern (153 bp):
GTTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACTTTTTTTT
TTCCTTTTTTAAATGGTTTTCTTGTTTCTTTGTTGCTTTTTAAATTCTTCATTCAATTCAAGTTC
AAAAACCATACTAAATATATATT
Found at i:63157340 original size:152 final size:150
Alignment explanation
Indices: 63156909--63157436 Score: 619
Period size: 157 Copynumber: 3.5 Consensus size: 150
63156899 ACATACGCGG
* * * * *
63156909 TTTATATTCACTTTTTTTGCTCCACAAGCAATCCAAAACCATAAACAAAGGAATAGTTTTTTTTT
1 TTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACTTTTTTTTT
* *
63156974 GCCTTTTTTAAATGGTTTTCTTGTTTCTTT-TCCGCTTTTTAAATTATTCATTCAATTCAAGTTC
66 -CCTTTTTTAAATGGTTTTCTTGTTTCTTTGT-TG-TTTTTAAATTCTTCATTCAATTCAAGTTC
63157038 AAAAAACCATACTAAATATATATATAT
128 -AAAAACCATACT-AA-ATATATAT-T
* *
63157065 GTTTATATTTACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATGCTTTTTTTT
1 -TTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATAC---TTTTT
* *
63157130 TTTTCCTTTTTCT-AATGATTTTCTTGATTCTTTGTTGTTTTTAAATCTCTTCATTCAATTCAAG
62 TTTTCCTTTTT-TAAATGGTTTTCTTGTTTCTTTGTTGTTTTTAAAT-TCTTCATTCAATTCAAG
63157194 TTCAAGAAACCATACTAAATATATATT
125 TTCAA-AAACCATACTAAATATATATT
* ** * *
63157221 TTTATATTCACTTTTTTTTGCTACACAAGCAAGCTGAAACCATAAACAAAGGCATAC-ATTTTTA
1 TTTATATTCAC-TTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACTTTTTTTT
* * * *
63157285 TCCTTTTTTAAATGGCTTTCTTGTTTCTTTGTTGTTTTTTAGATTCTTCGTTCAATTTAAGTTC-
65 TCCTTTTTTAAATGGTTTTCTTGTTTCTTTGTTG-TTTTTAAATTCTTCATTCAATTCAAGTTCA
* *
63157349 AAAA--A-AC----TATATGTG
129 AAAACCATACTAAATATATATT
* *
63157364 TTTATATTCACTTTTCTTGCTACATAAGCAAGCCCAAACCATAAACAAAGGCATACTTTTTTTTT
1 TTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACTTTTTTTTT
63157429 CCTTTTTT
66 CCTTTTTT
63157437 TACCGTTGCT
Statistics
Matches: 328, Mismatches: 32, Indels: 36
0.83 0.08 0.09
Matches are distributed among these distances:
142 41 0.12
143 31 0.09
147 2 0.01
148 1 0.00
150 3 0.01
151 2 0.01
152 52 0.16
153 8 0.02
155 10 0.03
156 42 0.13
157 57 0.17
158 13 0.04
159 55 0.17
160 11 0.03
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.45
Consensus pattern (150 bp):
TTTATATTCACTTTTCTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACTTTTTTTTT
CCTTTTTTAAATGGTTTTCTTGTTTCTTTGTTGTTTTTAAATTCTTCATTCAATTCAAGTTCAAA
AACCATACTAAATATATATT
Found at i:63158141 original size:15 final size:16
Alignment explanation
Indices: 63158123--63158152 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
63158113 TTAATCACTA
63158123 AATTATT-AATTTTTT
1 AATTATTAAATTTTTT
63158138 AATTATTAAATTTTT
1 AATTATTAAATTTTT
63158153 CGAAATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
AATTATTAAATTTTTT
Found at i:63158535 original size:12 final size:12
Alignment explanation
Indices: 63158532--63158578 Score: 58
Period size: 12 Copynumber: 3.6 Consensus size: 12
63158522 AATTTAAAAC
63158532 TTAAAACTTAAA
1 TTAAAACTTAAA
63158544 TTAAAACTTAATTTAA
1 TTAAAACTT-A---AA
63158560 TTAAAACTTAAA
1 TTAAAACTTAAA
63158572 TTAAAAC
1 TTAAAAC
63158579 AAAAGTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 18 0.58
13 1 0.03
15 1 0.03
16 11 0.35
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (12 bp):
TTAAAACTTAAA
Found at i:63158587 original size:28 final size:28
Alignment explanation
Indices: 63158532--63158587 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
63158522 AATTTAAAAC
** *
63158532 TTAAAACTTAAATTAAAACTTAATTTAA
1 TTAAAACTTAAATTAAAACAAAAGTTAA
63158560 TTAAAACTTAAATTAAAACAAAAGTTAA
1 TTAAAACTTAAATTAAAACAAAAGTTAA
63158588 ATTTTTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.34
Consensus pattern (28 bp):
TTAAAACTTAAATTAAAACAAAAGTTAA
Found at i:63158869 original size:15 final size:15
Alignment explanation
Indices: 63158851--63158889 Score: 55
Period size: 13 Copynumber: 2.7 Consensus size: 15
63158841 TAAAATGTAG
63158851 TATATTAAAAATATA
1 TATATTAAAAATATA
*
63158866 TATATT--TAATATA
1 TATATTAAAAATATA
63158879 TATATTAAAAA
1 TATATTAAAAA
63158890 AATTACCCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
13 12 0.60
15 8 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TATATTAAAAATATA
Found at i:63160672 original size:37 final size:36
Alignment explanation
Indices: 63160612--63160725 Score: 138
Period size: 37 Copynumber: 3.1 Consensus size: 36
63160602 TAATTCATAG
* * *
63160612 GAATATAGCTTTCGTGTTTGTATTCTCATTCGATTAT
1 GAATATACCTTTCTTG-TTGTATTCTCATTCTATTAT
*
63160649 GAATATACCTTTCTTGTTAGTATTCTCATTCTATTTT
1 GAATATACCTTTCTTGTT-GTATTCTCATTCTATTAT
* *
63160686 GAACATACCTTTCTTGCGTGTATTCTCATTCTATTGAT
1 GAATATACCTTTCTTG-TTGTATTCTCATTCTATT-AT
63160724 GA
1 GA
63160726 TTAATGCTGC
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
36 2 0.03
37 61 0.91
38 4 0.06
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.48
Consensus pattern (36 bp):
GAATATACCTTTCTTGTTGTATTCTCATTCTATTAT
Found at i:63162199 original size:17 final size:18
Alignment explanation
Indices: 63162168--63162201 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
63162158 ATTTTAACTT
63162168 TAATTAAATTATTTAAAA
1 TAATTAAATTATTTAAAA
*
63162186 TAATT-AATTTTTTAAA
1 TAATTAAATTATTTAAA
63162202 TTATAAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTAAATTATTTAAAA
Found at i:63163346 original size:9 final size:9
Alignment explanation
Indices: 63163328--63163357 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
63163318 ACTGTTCAAT
*
63163328 AAAGTATTC
1 AAAGTTTTC
63163337 AAAGTTTTC
1 AAAGTTTTC
63163346 AAAGTTTTC
1 AAAGTTTTC
63163355 AAA
1 AAA
63163358 TAGATTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (9 bp):
AAAGTTTTC
Found at i:63163753 original size:4 final size:4
Alignment explanation
Indices: 63163744--63163771 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
63163734 TATTTTTATT
63163744 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
63163772 CTTAGTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:63166700 original size:23 final size:24
Alignment explanation
Indices: 63166649--63166700 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
63166639 TTGTTTTCAA
63166649 TTTATATTCGTGCCTTATAATCAG
1 TTTATATTCGTGCCTTATAATCAG
63166673 TTTATATTCGTGCCTGTA-AA-CAG
1 TTTATATTCGTGCCT-TATAATCAG
63166696 TTTAT
1 TTTAT
63166701 GTGGTTGTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 8 0.30
24 17 0.63
25 2 0.07
ACGTcount: A:0.25, C:0.15, G:0.13, T:0.46
Consensus pattern (24 bp):
TTTATATTCGTGCCTTATAATCAG
Found at i:63172226 original size:20 final size:20
Alignment explanation
Indices: 63172197--63172248 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
63172187 TCTGCTTTTT
63172197 ATTATTTTATTTTAAAA-TA
1 ATTATTTTATTTTAAAATTA
*
63172216 ATTATTTTTATCTTAAAATTA
1 ATTA-TTTTATTTTAAAATTA
63172237 ATTAGTTTTATT
1 ATTA-TTTTATT
63172249 ATCATTATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 4 0.14
20 12 0.43
21 12 0.43
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (20 bp):
ATTATTTTATTTTAAAATTA
Found at i:63172858 original size:16 final size:17
Alignment explanation
Indices: 63172837--63172870 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
63172827 CATACATATT
*
63172837 TACATATATTTTT-ACA
1 TACATAGATTTTTCACA
63172853 TACATAGATTTTTCACA
1 TACATAGATTTTTCACA
63172870 T
1 T
63172871 TTTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.35, C:0.15, G:0.03, T:0.47
Consensus pattern (17 bp):
TACATAGATTTTTCACA
Found at i:63178457 original size:31 final size:31
Alignment explanation
Indices: 63178416--63178492 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
63178406 TTAATACTTG
*
63178416 TTTTGTCCCCTGTAATATAG-GAAAAATCTCA
1 TTTTGACCCCTGTAATATAGTG-AAAATCTCA
*
63178447 TTTTGACCCCTGTAATATAGTGAAAATCTTA
1 TTTTGACCCCTGTAATATAGTGAAAATCTCA
*
63178478 TTTTGATCCCTGTAA
1 TTTTGACCCCTGTAA
63178493 ATTGCCTGCT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
31 41 0.98
32 1 0.02
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (31 bp):
TTTTGACCCCTGTAATATAGTGAAAATCTCA
Found at i:63185167 original size:18 final size:19
Alignment explanation
Indices: 63185144--63185181 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
63185134 GGAAGCAAGC
*
63185144 AATGATTGAAGA-AATCAG
1 AATGATTGAAAAGAATCAG
63185162 AATGATTGAAAAGAATCAG
1 AATGATTGAAAAGAATCAG
63185181 A
1 A
63185182 CCTGGAGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.21
Consensus pattern (19 bp):
AATGATTGAAAAGAATCAG
Found at i:63191803 original size:159 final size:154
Alignment explanation
Indices: 63191539--63192187 Score: 620
Period size: 150 Copynumber: 4.3 Consensus size: 154
63191529 TTTTTTGCAC
* * * *
63191539 CACAAGCAATCCGAAACCATAAACAAAGG-A-ATACTTTTTTGCCTTTTTTAAATGGTTTTCTTC
1 CACAAGCAAGCCGAAACCATAAACAAAGGCATACACTTTTTTTCCTTTTTTAAATGGTTTTCTTG
* *
63191602 TTTCTTT-TCCGCCTTTTAAATTCTTCATTCAATTCAAGTTCAAGAAACCATACTAAATATATAT
66 TTTCTTTGT-TG-TTTTTAAATTCTTCATTCAATTCAAGTTCAAGAAACCATACT---TATA-A-
*
63191666 ATATATATGTTTATATTCGCTTTTCTTGCTA
124 ATATATATGTTTATATTCACTTTTCTTGCTA
* * * *
63191697 CACAAGCAAGCCAAAACCATAAACAAA-GCATGCATTTTTTTTCCTTTTTTTAATGGTTTTCTTG
1 CACAAGCAAGCCGAAACCATAAACAAAGGCATACACTTTTTTTCCTTTTTTAAATGGTTTTCTTG
*
63191761 ATTCTTTGTTGTTTTTAAAATTCTTCATTCAATTCAAGTTCAAGAAACCATA-TTA-AAA-A-AT
66 TTTCTTTGTTGTTTTT-AAATTCTTCATTCAATTCAAGTTCAAGAAACCATACTTATAAATATAT
* * *
63191822 ATATTTATATTCGCTTTTTTTGCTA
130 ATGTTTATATTCACTTTTCTTGCTA
* *
63191847 CACAAGCAAGCTGAAACCATAAACAAAGGCATAC-CTTTTTCTCCTTTTTTAAATGGCTTTTTTT
1 CACAAGCAAGCCGAAACCATAAACAAAGGCATACACTTTTTTTCCTTTTTTAAATGG----TTTT
* * * *
63191911 TTTGTTTCTTTGTTGTTTTTTAGATTCTTCGTTCAGTTCAAGTTCAAGAAACCATAC---TAAAT
62 CTTGTTTCTTTGTTG-TTTTTAAATTCTTCATTCAATTCAAGTTCAAGAAACCATACTTATAAAT
*
63191973 ATATGTGTTTATATTCACTTTTCTTGCTA
126 ATATATGTTTATATTCACTTTTCTTGCTA
* * *
63192002 CATAAGCAAGCCGAAACCATAAACAAAGGCAAAC-CTTTTTTTTCCCTTTTT--A------TCTT
1 CACAAGCAAGCCGAAACCATAAACAAAGGCATACAC-TTTTTTTCCTTTTTTAAATGGTTTTCTT
* * * * *
63192058 G---C--TG--CTTTTTAGATTTTTTATTCAATTCCTAAGTTTAAGAAACCATACTATATATATA
65 GTTTCTTTGTTGTTTTTAAATTCTTCATTCAATT-C-AAGTTCAAGAAACCATACT-TATA-A-A
63192116 TATATATGTGTTTATATTCACTTTTCTTGCTA
125 TATATA--TGTTTATATTCACTTTTCTTGCTA
63192148 CACAAGTCAA-CCGAAACCATAAACAAAGGCATA-ACTTTTT
1 CACAAG-CAAGCCGAAACCATAAACAAAGGCATACACTTTTT
63192188 CGTTTTTTTT
Statistics
Matches: 421, Mismatches: 43, Indels: 67
0.79 0.08 0.13
Matches are distributed among these distances:
136 18 0.04
137 1 0.00
138 17 0.04
139 2 0.00
141 1 0.00
142 2 0.00
143 1 0.00
144 10 0.02
145 5 0.01
146 52 0.12
147 3 0.01
150 69 0.16
151 6 0.01
152 1 0.00
153 4 0.01
154 52 0.12
155 62 0.15
156 13 0.03
157 1 0.00
158 31 0.07
159 69 0.16
160 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.42
Consensus pattern (154 bp):
CACAAGCAAGCCGAAACCATAAACAAAGGCATACACTTTTTTTCCTTTTTTAAATGGTTTTCTTG
TTTCTTTGTTGTTTTTAAATTCTTCATTCAATTCAAGTTCAAGAAACCATACTTATAAATATATA
TGTTTATATTCACTTTTCTTGCTA
Found at i:63192068 original size:136 final size:141
Alignment explanation
Indices: 63191927--63192187 Score: 356
Period size: 146 Copynumber: 1.9 Consensus size: 141
63191917 TCTTTGTTGT
* *
63191927 TTTTTAGATTCTTCGTTCAGTT-C-AAGTTCAAGAAACCATAC-TA-A-ATATATGTGTTTATAT
1 TTTTTAGATTCTTCATTCAATTCCTAAGTTCAAGAAACCATACATATATATATATGTGTTTATAT
*
63191987 TCACTTTTCTTGCTACATAAG-CAAGCCGAAACCATAAACAAAGGCA-AACCTTTTTTTTCCCTT
66 TCACTTTTCTTGCTACACAAGTCAA-CCGAAACCATAAACAAAGGCATAA-CTTTTTTTTCCCTT
63192050 TTTATCTTGCTGC
129 TTTATCTTGCTGC
* * *
63192063 TTTTTAGATTTTTTATTCAATTCCTAAGTTTAAGAAACCATACTATATATATATATATATGTGTT
1 TTTTTAGATTCTTCATTCAATTCCTAAGTTCAAGAAACCATAC-----ATATATATATATGTGTT
63192128 TATATTCACTTTTCTTGCTACACAAGTCAACCGAAACCATAAACAAAGGCATAACTTTTT
61 TATATTCACTTTTCTTGCTACACAAGTCAACCGAAACCATAAACAAAGGCATAACTTTTT
63192188 CGTTTTTTTT
Statistics
Matches: 107, Mismatches: 6, Indels: 14
0.84 0.05 0.11
Matches are distributed among these distances:
136 18 0.17
137 1 0.01
138 17 0.16
144 2 0.02
145 1 0.01
146 63 0.59
147 5 0.05
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (141 bp):
TTTTTAGATTCTTCATTCAATTCCTAAGTTCAAGAAACCATACATATATATATATGTGTTTATAT
TCACTTTTCTTGCTACACAAGTCAACCGAAACCATAAACAAAGGCATAACTTTTTTTTCCCTTTT
TATCTTGCTGC
Found at i:63193017 original size:22 final size:23
Alignment explanation
Indices: 63192973--63193021 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
63192963 TTATAGTTCA
63192973 AATCCTAAAAATTTCAATAAATTT
1 AATCCTAAAAATTT-AATAAATTT
*
63192997 AATCCTCAAAATTT-ATAAATTT
1 AATCCTAAAAATTTAATAAATTT
63193019 AAT
1 AAT
63193022 TTTAATTCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 11 0.46
24 13 0.54
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (23 bp):
AATCCTAAAAATTTAATAAATTT
Found at i:63194257 original size:32 final size:32
Alignment explanation
Indices: 63194221--63194285 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
63194211 GTTAAGGGTC
63194221 AGTTTGTTTACACGTAAAAAGTTAAAAATAAA
1 AGTTTGTTTACACGTAAAAAGTTAAAAATAAA
63194253 AGTTTGTTTACACGTAAAAAGTTAAAAATAAA
1 AGTTTGTTTACACGTAAAAAGTTAAAAATAAA
63194285 A
1 A
63194286 ATATTGAGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.51, C:0.06, G:0.12, T:0.31
Consensus pattern (32 bp):
AGTTTGTTTACACGTAAAAAGTTAAAAATAAA
Found at i:63194916 original size:37 final size:36
Alignment explanation
Indices: 63194864--63194996 Score: 176
Period size: 37 Copynumber: 3.6 Consensus size: 36
63194854 AGGAACATGG
*
63194864 CTTTCTTGTTTGTATTCTCATTCGATTATGAATATAC
1 CTTTCTTG-TTGTATTCTCATTCTATTATGAATATAC
* * * * *
63194901 CTTTCTTGTTAGTATTCTCATTATTTTTTTAACATAC
1 CTTTCTTGTT-GTATTCTCATTCTATTATGAATATAC
63194938 CTTTCTTGCTTGTATTCTCATTCTATTATGAATATAC
1 CTTTCTTG-TTGTATTCTCATTCTATTATGAATATAC
63194975 CTTTCTTGTTCGTATTCTCATT
1 CTTTCTTGTT-GTATTCTCATT
63194997 ATTTTTTTGC
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
36 4 0.05
37 76 0.93
38 2 0.02
ACGTcount: A:0.20, C:0.18, G:0.08, T:0.54
Consensus pattern (36 bp):
CTTTCTTGTTGTATTCTCATTCTATTATGAATATAC
Found at i:63194942 original size:74 final size:74
Alignment explanation
Indices: 63194864--63195004 Score: 255
Period size: 74 Copynumber: 1.9 Consensus size: 74
63194854 AGGAACATGG
*
63194864 CTTTCTTGTTTGTATTCTCATTCGATTATGAATATACCTTTCTTGTTAGTATTCTCATTATTTTT
1 CTTTCTTGCTTGTATTCTCATTCGATTATGAATATACCTTTCTTGTTAGTATTCTCATTATTTTT
63194929 TTAACATAC
66 TTAACATAC
* *
63194938 CTTTCTTGCTTGTATTCTCATTCTATTATGAATATACCTTTCTTGTTCGTATTCTCATTATTTTT
1 CTTTCTTGCTTGTATTCTCATTCGATTATGAATATACCTTTCTTGTTAGTATTCTCATTATTTTT
63195003 TT
66 TT
63195005 GCTTGCAATT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 64 1.00
ACGTcount: A:0.19, C:0.17, G:0.08, T:0.56
Consensus pattern (74 bp):
CTTTCTTGCTTGTATTCTCATTCGATTATGAATATACCTTTCTTGTTAGTATTCTCATTATTTTT
TTAACATAC
Found at i:63196640 original size:17 final size:18
Alignment explanation
Indices: 63196609--63196642 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
63196599 AATTTAATTT
63196609 TAATTAAATTATTTAAAA
1 TAATTAAATTATTTAAAA
*
63196627 TAATT-AATTTTTTAAA
1 TAATTAAATTATTTAAA
63196643 TTATAAACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTAAATTATTTAAAA
Found at i:63196714 original size:27 final size:25
Alignment explanation
Indices: 63196677--63196750 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 25
63196667 TTTACAAATT
* * *
63196677 TTAATCATTTTGTTTTTTTT-CATAAG
1 TTAAT-ATTTT-TTTTTTTTGTACAAC
*
63196703 TTAATATTTTTTATTTTTGTACAAC
1 TTAATATTTTTTTTTTTTGTACAAC
*
63196728 TTAATATTTTTTATTTTTGTACA
1 TTAATATTTTTTTTTTTTGTACA
63196751 TCCAATTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
24 7 0.16
25 31 0.72
26 5 0.12
ACGTcount: A:0.26, C:0.07, G:0.05, T:0.62
Consensus pattern (25 bp):
TTAATATTTTTTTTTTTTGTACAAC
Found at i:63197384 original size:36 final size:36
Alignment explanation
Indices: 63197337--63197430 Score: 118
Period size: 36 Copynumber: 2.6 Consensus size: 36
63197327 TACGATCGTT
* *
63197337 TACGATACTATTCACGTATACAACACTATTTACGTA
1 TACGATACTATTCACGTATACAACACTATTCACATA
* **
63197373 TACGATACTATTCACATATACGGCACTATTCACATA
1 TACGATACTATTCACGTATACAACACTATTCACATA
*
63197409 TAC-AGTACTGTTCACGTATACA
1 TACGA-TACTATTCACGTATACA
63197431 GTAGTTGGGA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
35 1 0.02
36 48 0.98
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.32
Consensus pattern (36 bp):
TACGATACTATTCACGTATACAACACTATTCACATA
Found at i:63197431 original size:18 final size:18
Alignment explanation
Indices: 63197342--63197433 Score: 96
Period size: 18 Copynumber: 5.1 Consensus size: 18
63197332 TCGTTTACGA
*
63197342 TACTATTCACGTATACAA
1 TACTATTCACGTATACAG
* *
63197360 CACTATTTACGTATAC-G
1 TACTATTCACGTATACAG
* *
63197377 ATACTATTCACATATACGG
1 -TACTATTCACGTATACAG
* *
63197396 CACTATTCACATATACAG
1 TACTATTCACGTATACAG
*
63197414 TACTGTTCACGTATACAG
1 TACTATTCACGTATACAG
63197432 TA
1 TA
63197434 GTTGGGATTG
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
18 60 0.98
19 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.33
Consensus pattern (18 bp):
TACTATTCACGTATACAG
Found at i:63207412 original size:18 final size:18
Alignment explanation
Indices: 63207389--63207478 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
63207379 CCCAACTACT
*
63207389 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
63207407 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
63207425 --ATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
*
63207441 -TATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
63207458 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
63207476 GTA
1 GTA
63207479 AACGGTCGTA
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
16 15 0.23
17 15 0.23
18 35 0.54
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:63207450 original size:33 final size:35
Alignment explanation
Indices: 63207391--63207478 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 35
63207381 CAACTACTGT
*
63207391 ATACGTGAACAGTACCGTATACGTGAATAGTGCC-
1 ATACGTGAATAGTACCGTATACGTGAATAGTGCCG
63207425 ATACGTGAATAGTACC-TATACGTGAATAGTGCCG
1 ATACGTGAATAGTACCGTATACGTGAATAGTGCCG
63207459 TATACGTGAATAGTACCGTA
1 -ATACGTGAATAGTACCGTA
63207479 AACGGTCGTA
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
33 17 0.34
34 15 0.30
35 16 0.32
36 2 0.04
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (35 bp):
ATACGTGAATAGTACCGTATACGTGAATAGTGCCG
Found at i:63208665 original size:2 final size:2
Alignment explanation
Indices: 63208658--63208683 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
63208648 CAGTCCAAGT
63208658 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
63208684 CACACACACA
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:63211341 original size:19 final size:21
Alignment explanation
Indices: 63211312--63211360 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
63211302 TGTTTAATTT
63211312 TTTTAATTTAAATCGA-ATAAA
1 TTTT-ATTTAAATCGACATAAA
* *
63211333 -TTTATTTAACTCGACTTAAA
1 TTTTATTTAAATCGACATAAA
63211353 TTTTATTT
1 TTTTATTT
63211361 TACTCAACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 10 0.42
20 7 0.29
21 7 0.29
ACGTcount: A:0.37, C:0.08, G:0.04, T:0.51
Consensus pattern (21 bp):
TTTTATTTAAATCGACATAAA
Found at i:63211359 original size:21 final size:21
Alignment explanation
Indices: 63211312--63211370 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
63211302 TGTTTAATTT
* *
63211312 TTTTAATTTAAATCGA-ATAAA
1 TTTT-ATTTAACTCGACTTAAA
63211333 -TTTATTTAACTCGACTTAAA
1 TTTTATTTAACTCGACTTAAA
* *
63211353 TTTTATTTTACTCAACTT
1 TTTTATTTAACTCGACTT
63211371 GATTAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 10 0.31
20 7 0.22
21 15 0.47
ACGTcount: A:0.36, C:0.12, G:0.03, T:0.49
Consensus pattern (21 bp):
TTTTATTTAACTCGACTTAAA
Found at i:63213722 original size:158 final size:153
Alignment explanation
Indices: 63213428--63213958 Score: 608
Period size: 158 Copynumber: 3.4 Consensus size: 153
63213418 ACGTTCATTG
* * * *
63213428 TTTATATTCATTTTTTTTTTGCTCCACAAGCAATCCAAAACCATAAACAAAGGAATACTTTTTTT
1 TTTATATTCACTTTTTTTTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACTTTTTTT
63213493 CGCC-TTTTTAAATGGTTTTCTTGTTTCTTT-TTCGCTTTTTAAATTCTTCATTCAATTCAAGTT
66 C-CCTTTTTTAAATGGTTTTCTTGTTTCTTTGTT-GCTTTTTAAATTCTTCATTCAATTCAAGTT
63213556 CAAGAAACCATACTAAATATATATA
129 CAAGAAACCATACTAAATATATATA
* * * **
63213581 TTTATATTTA-TATTCACTTTTCTTGCTACACAAGCAAGCCAAAATCATAAATAAAGGCACGCTT
1 TTTATATTCACT-TT---TTTT-TTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATAC-T
* * * *
63213645 TTTTTTCCCTTTTTTTAATGATTTTCTTGATTCTTTGTTG-TTTTTAAAATTCTTCATTCAATTT
60 TTTTTTCCCTTTTTTAAATGGTTTTCTTGTTTCTTTGTTGCTTTTT-AAATTCTTCATTCAATTC
* *
63213709 AAGTTCAATAAACCATATTAAATATATATA
124 AAGTTCAAGAAACCATACTAAATATATATA
** *
63213739 TTTATATTCACTTTTTTTTTGCTACACAAGCAAGCTGAAACCATAAACAAAGGCATAC-ATTTTT
1 TTTATATTCACTTTTTTTTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACTTTTTTT
* * * ***
63213803 CTCCTTTTTTAAATGGCTTTCTTGTTTCTTTGTTGTTGTTTTTTAATTCTTTGCTCAATTCAAGT
66 C-CCTTTTTTAAATGGTTTTCTTGTTTCTTTGTTG--CTTTTTAAATTCTTCATTCAATTCAAGT
* * *
63213868 TCAAGAACCCATACTAAATATATGTG
128 TCAAGAAACCATACTAAATATATATA
* * * ** *
63213894 TTTATATTCAC--TTTTCTTGCTACATAAGTAAGCTGAAACCATAAACAAAGGCATACTTGTTTT
1 TTTATATTCACTTTTTTTTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACTTTTTTT
63213957 CC
66 CC
63213959 TTTCTTACCG
Statistics
Matches: 322, Mismatches: 41, Indels: 30
0.82 0.10 0.08
Matches are distributed among these distances:
152 7 0.02
153 83 0.26
154 39 0.12
155 53 0.16
156 9 0.03
157 40 0.12
158 88 0.27
159 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.44
Consensus pattern (153 bp):
TTTATATTCACTTTTTTTTTGCTACACAAGCAAGCCAAAACCATAAACAAAGGCATACTTTTTTT
CCCTTTTTTAAATGGTTTTCTTGTTTCTTTGTTGCTTTTTAAATTCTTCATTCAATTCAAGTTCA
AGAAACCATACTAAATATATATA
Found at i:63213931 original size:153 final size:150
Alignment explanation
Indices: 63213441--63213961 Score: 594
Period size: 153 Copynumber: 3.4 Consensus size: 150
63213431 ATATTCATTT
* * * ** * *
63213441 TTTTTTTGCTCCACAAGCAATCCAAAACCATAAACAAAGGAATACTTTTTTTCGCCTTTTTAAAT
1 TTTTCTTGCTACACAAGCAAGCTGAAACCATAAACAAAGGCATACTTTTTTTC-CTTTTTTAAAT
*
63213506 GGTTTTCTTGTTTCTTT-TTCGCTTTTTAAATTCTTCATTCAATTCAAGTTCAAGAAACCATACT
65 GGTTTTCTTGTTTCTTTGTT-GTTTTTTAAATTCTTCATTCAATTCAAGTTCAAGAAACCATACT
63213570 AAATATATATATTTATATTTATATTCAC
129 --A-A-ATATA--TATATTTATATTCAC
** * * ** *
63213598 TTTTCTTGCTACACAAGCAAGCCAAAATCATAAATAAAGGCACGCTTTTTTTTCCCTTTTTTTAA
1 TTTTCTTGCTACACAAGCAAGCTGAAACCATAAACAAAGGCATAC-TTTTTTT-CCTTTTTTAAA
* * * * * *
63213663 TGATTTTCTTGATTCTTTGTTGTTTTTAAAATTCTTCATTCAATTTAAGTTCAATAAACCATATT
64 TGGTTTTCTTGTTTCTTTGTTGTTTTTTAAATTCTTCATTCAATTCAAGTTCAAGAAACCATACT
63213728 AAATATATATATTTATATTCAC
129 AAATATATATATTTATATTCAC
* *
63213750 TTTTTTTTTGCTACACAAGCAAGCTGAAACCATAAACAAAGGCATACATTTTTCTCCTTTTTTAA
1 --TTTTCTTGCTACACAAGCAAGCTGAAACCATAAACAAAGGCATAC-TTTTTTTCCTTTTTTAA
* * *** *
63213815 ATGGCTTTCTTGTTTCTTTGTTGTTGTTTTTTAATTCTTTGCTCAATTCAAGTTCAAGAACCCAT
63 ATGGTTTTCTTGTTTCTTTGTTG-T-TTTTTAAATTCTTCATTCAATTCAAGTTCAAGAAACCAT
* *
63213880 ACTAAATATATGTGTTTATATTCAC
126 ACTAAATATATATATTTATATTCAC
* * *
63213905 TTTTCTTGCTACATAAGTAAGCTGAAACCATAAACAAAGGCATACTTGTTTTCCTTT
1 TTTTCTTGCTACACAAGCAAGCTGAAACCATAAACAAAGGCATACTTTTTTTCCTTT
63213962 CTTACCGTGG
Statistics
Matches: 311, Mismatches: 46, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
152 25 0.08
153 71 0.23
154 50 0.16
155 54 0.17
156 1 0.00
157 37 0.12
158 70 0.23
159 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.44
Consensus pattern (150 bp):
TTTTCTTGCTACACAAGCAAGCTGAAACCATAAACAAAGGCATACTTTTTTTCCTTTTTTAAATG
GTTTTCTTGTTTCTTTGTTGTTTTTTAAATTCTTCATTCAATTCAAGTTCAAGAAACCATACTAA
ATATATATATTTATATTCAC
Found at i:63214362 original size:26 final size:25
Alignment explanation
Indices: 63214313--63214362 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
63214303 TTAGTTGAGA
*
63214313 GTTTAATGAAACGATACGTTTTGAT
1 GTTTAATGAAACGATACGTATTGAT
* *
63214338 GTTTAATGAAAACGGTGCGTATTGA
1 GTTTAATG-AAACGATACGTATTGA
63214363 AAGTTTGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (25 bp):
GTTTAATGAAACGATACGTATTGAT
Found at i:63216754 original size:37 final size:37
Alignment explanation
Indices: 63216704--63216817 Score: 156
Period size: 37 Copynumber: 3.1 Consensus size: 37
63216694 TAATTCATAG
* * *
63216704 GAATATAGCTTTCTTGTTTCTATTCTCATTCGATTAT
1 GAATATACCTTTCTTGTTTGTATTCTCATTCTATTAT
* *
63216741 GAATATACCTTTCTTGTTAGTATTCTCATTCTATTTT
1 GAATATACCTTTCTTGTTTGTATTCTCATTCTATTAT
* *
63216778 GAACATACCTTTCTTGCTTGTATTCTCATTCTATTGAT
1 GAATATACCTTTCTTGTTTGTATTCTCATTCTATT-AT
63216816 GA
1 GA
63216818 TTAATGCTGC
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
37 64 0.96
38 3 0.04
ACGTcount: A:0.22, C:0.18, G:0.11, T:0.50
Consensus pattern (37 bp):
GAATATACCTTTCTTGTTTGTATTCTCATTCTATTAT
Found at i:63227340 original size:37 final size:37
Alignment explanation
Indices: 63227290--63227440 Score: 212
Period size: 37 Copynumber: 4.1 Consensus size: 37
63227280 TAATTCATAG
* * *
63227290 GAATATAGCTTTCTTGTTTCTATTCTCATTCGATTAT
1 GAATATACCTTTCTTGTTTGTATTCTCATTCTATTAT
* *
63227327 GAATATACCTTTCTTGTTAGTATTCTCATTCTATTTT
1 GAATATACCTTTCTTGTTTGTATTCTCATTCTATTAT
* * *
63227364 GAACATACCTTTCTTGCTTGTTTTCTCATTCTATTAT
1 GAATATACCTTTCTTGTTTGTATTCTCATTCTATTAT
*
63227401 GAATATACCTTTCTTGTTTGTAGTCTCATTCTATTGAT
1 GAATATACCTTTCTTGTTTGTATTCTCATTCTATT-AT
63227439 GA
1 GA
63227441 TTAATTCATG
Statistics
Matches: 99, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
37 95 0.96
38 4 0.04
ACGTcount: A:0.21, C:0.17, G:0.11, T:0.51
Consensus pattern (37 bp):
GAATATACCTTTCTTGTTTGTATTCTCATTCTATTAT
Found at i:63229234 original size:31 final size:29
Alignment explanation
Indices: 63229164--63229235 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
63229154 GGCTCAGGTT
*
63229164 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTATGTTTGAAATGTG
* * *
63229193 ACGTTTTAGTCACTTATGTTATCGCATTGTG
1 ACATTTTAGTCACTTATGTT-T-GAAATGTG
63229224 ACATTTTAGTCA
1 ACATTTTAGTCA
63229236 TTGAGCCGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
29 19 0.53
30 1 0.03
31 16 0.44
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.46
Consensus pattern (29 bp):
ACATTTTAGTCACTTATGTTTGAAATGTG
Found at i:63230594 original size:13 final size:13
Alignment explanation
Indices: 63230551--63230595 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
63230541 GCTATCTGCT
* *
63230551 TTTCTTTTTTGTG
1 TTTCTTTTTTTTC
*
63230564 TTTCTTTTTTATTT
1 TTTCTTTTTT-TTC
63230578 TTTCTTTTTTTTC
1 TTTCTTTTTTTTC
63230591 TTTCT
1 TTTCT
63230596 CGTTTAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.02, C:0.11, G:0.04, T:0.82
Consensus pattern (13 bp):
TTTCTTTTTTTTC
Found at i:63230601 original size:27 final size:27
Alignment explanation
Indices: 63230550--63230601 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
63230540 AGCTATCTGC
* **
63230550 TTTTCTTTTTTGTGTTTCTTTTTTATT
1 TTTTCTTTTTTGTCTTTCTCGTTTATT
*
63230577 TTTTCTTTTTTTTCTTTCTCGTTTA
1 TTTTCTTTTTTGTCTTTCTCGTTTA
63230602 AAAATGAAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.04, C:0.12, G:0.06, T:0.79
Consensus pattern (27 bp):
TTTTCTTTTTTGTCTTTCTCGTTTATT
Done.