Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 158 of 173
Found at i:47504401 original size:18 final size:19
Alignment explanation
Indices: 47504378--47504413 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
47504368 AAACCAATGT
47504378 ATAAAAAATGAA-TAATAA
1 ATAAAAAATGAACTAATAA
*
47504396 ATAAAATATGAACTAATA
1 ATAAAAAATGAACTAATA
47504414 TAAGTTGACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.25
Consensus pattern (19 bp):
ATAAAAAATGAACTAATAA
Found at i:47512552 original size:16 final size:16
Alignment explanation
Indices: 47512507--47512559 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
47512497 TTGGTTCGCT
* *
47512507 GTAATGGAATAGAGGT
1 GTAATGGAATAGATGC
47512523 GTAATGGAATAGATGC
1 GTAATGGAATAGATGC
47512539 GTAATGGAATAGATGC
1 GTAATGGAATAGATGC
47512555 GTAAT
1 GTAAT
47512560 AGATAATTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.38, C:0.04, G:0.32, T:0.26
Consensus pattern (16 bp):
GTAATGGAATAGATGC
Found at i:47512628 original size:44 final size:46
Alignment explanation
Indices: 47512541--47512633 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 46
47512531 ATAGATGCGT
* *
47512541 AATGGAATAGATGCGTAATAGATAATTCTTTTATTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGATAATTCTTGTATTTGGTTGAATGG
* *
47512587 AATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGATAATTCTTGTATTTGGTTGAATGG
47512631 AAT
1 AAT
47512634 AGAAGTGTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 23 0.53
45 2 0.05
46 18 0.42
ACGTcount: A:0.30, C:0.04, G:0.28, T:0.38
Consensus pattern (46 bp):
AATGGAATAGAGGCGTAATAGATAATTCTTGTATTTGGTTGAATGG
Found at i:47512844 original size:18 final size:17
Alignment explanation
Indices: 47512792--47512837 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 17
47512782 TTATTATTAA
47512792 ATATAATTTAATAAAAAT
1 ATATAATTTAAT-AAAAT
47512810 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
47512827 ATATGAATTTA
1 ATAT-AATTTA
47512838 CTTAAATCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 9 0.33
18 18 0.67
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:47512865 original size:41 final size:41
Alignment explanation
Indices: 47512807--47512990 Score: 95
Period size: 41 Copynumber: 4.6 Consensus size: 41
47512797 ATTTAATAAA
* *
47512807 AATATATAAT-TTAATAAAATATATGAATTT-ACTTAAATCAT
1 AATATATAATACT-ATAAAATATAT-AATTTAACTAAAATCAT
* * *
47512848 AATATATAATACTATAAAA-A-ATAATTTAAAATAATTATTATT
1 AATATATAATACTATAAAATATATAATTT-AACTAA-AATCA-T
* * *
47512890 AA-ATATAAT-TTAATAAAAATATATAATTTGA-TAAAATTCTT
1 AATATATAATACT-AT-AAAATATATAATTTAACTAAAA-TCAT
* ***
47512931 AGTAT-TAA-A-TAT-TCTTATATGAATTT-ACTAAAATCAT
1 AATATATAATACTATAAAATATAT-AATTTAACTAAAATCAT
47512968 AATATATAATACTATAAAATATA
1 AATATATAATACTATAAAATATA
47512991 ATTTAAAATA
Statistics
Matches: 106, Mismatches: 19, Indels: 36
0.66 0.12 0.22
Matches are distributed among these distances:
37 13 0.12
38 18 0.17
39 5 0.05
40 9 0.08
41 38 0.36
42 14 0.13
43 2 0.02
44 7 0.07
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (41 bp):
AATATATAATACTATAAAATATATAATTTAACTAAAATCAT
Found at i:47512985 original size:61 final size:61
Alignment explanation
Indices: 47512826--47513008 Score: 189
Period size: 59 Copynumber: 3.0 Consensus size: 61
47512816 TTTAATAAAA
47512826 TATATGAATTTACTTAAATCATAATATATAATACTATAAAA-AATAATTTAAAATAATTAT
1 TATATGAATTTACTTAAATCATAATATATAATACTATAAAATAATAATTTAAAATAATTAT
* * * * * * * ** * *
47512886 TAT-TAAATATAATTTAATAAAAATATATAAT-TTGATAAAATTCTTAGTATT-AAAT-ATTCT
1 TATATGAATTTACTTAAATCATAATATATAATACT-ATAAAA-TAATAAT-TTAAAATAATTAT
*
47512946 TATATGAATTTACTAAAATCATAATATATAATACTATAAAAT-ATAATTTAAAATAATTAT
1 TATATGAATTTACTTAAATCATAATATATAATACTATAAAATAATAATTTAAAATAATTAT
47513006 TAT
1 TAT
47513009 TAAATATAAT
Statistics
Matches: 93, Mismatches: 22, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
58 3 0.03
59 35 0.38
60 18 0.19
61 34 0.37
62 3 0.03
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.42
Consensus pattern (61 bp):
TATATGAATTTACTTAAATCATAATATATAATACTATAAAATAATAATTTAAAATAATTAT
Found at i:47520023 original size:17 final size:17
Alignment explanation
Indices: 47520002--47520038 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
47519992 ATTTGATAAG
47520002 TAAAAATATTTT--AAAA
1 TAAAAA-ATTTTAAAAAA
47520018 TAAAAAATTTTAAAAAA
1 TAAAAAATTTTAAAAAA
47520035 TAAA
1 TAAA
47520039 GTAAATTTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.26
16 6 0.32
17 8 0.42
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAAAAATTTTAAAAAA
Found at i:47520027 original size:15 final size:16
Alignment explanation
Indices: 47520002--47520032 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
47519992 ATTTGATAAG
47520002 TAAAAATATTTTAAAA
1 TAAAAATATTTTAAAA
47520018 TAAAAA-ATTTTAAAA
1 TAAAAATATTTTAAAA
47520033 AATAAAGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TAAAAATATTTTAAAA
Found at i:47520152 original size:23 final size:24
Alignment explanation
Indices: 47520121--47520170 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
47520111 ATTAATTTTT
*
47520121 TTTATAAATCTATTATA-ATTAATA
1 TTTATAAATATA-TATAGATTAATA
47520145 TTTA-AAATATATATAGATTAATA
1 TTTATAAATATATATAGATTAATA
47520168 TTT
1 TTT
47520171 GAAACTGCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 4 0.17
23 16 0.67
24 4 0.17
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (24 bp):
TTTATAAATATATATAGATTAATA
Found at i:47535112 original size:68 final size:69
Alignment explanation
Indices: 47535012--47535236 Score: 254
Period size: 84 Copynumber: 3.0 Consensus size: 69
47535002 TTTTTTAATT
*
47535012 TTTAAATATTAATTAGAATATTTGTCAGGTTTTAAATTCCT-CGAAAAAAATGAGATGTGTTTTT
1 TTTAAATATTAATTAGAATATTTGTCAGGTTTTAAATTCCTCCAAAAAAAATGAGATGTGTTTTT
47535076 TTTA
66 TTTA
47535080 TTTAAATATTAATTAGAATATTTGTCAGGTTTTAAATTCCTCCAAAAAAAAATGAGATGTGTTTT
1 TTTAAATATTAATTAGAATATTTGTCAGGTTTTAAATTCCTCC-AAAAAAAATGAGATGTG----
47535145 AATTTTATTTTTTTTA
61 -------TTTTTTTTA
* * *
47535161 TTTTTTAAATATTAATTAGAATATTTGTCGGGTTTTAAATTCCTCCCAAAAAACTGAGATGTGTT
1 ---TTTAAATATTAATTAGAATATTTGTCAGGTTTTAAATTCCTCCAAAAAAAATGAGATGTGTT
*
47535226 TAATTTTA
63 T-TTTTTA
47535234 TTT
1 TTT
47535237 TTTAAAAATT
Statistics
Matches: 135, Mismatches: 5, Indels: 32
0.78 0.03 0.19
Matches are distributed among these distances:
68 41 0.30
69 1 0.01
70 19 0.14
72 3 0.02
73 5 0.04
81 9 0.07
83 15 0.11
84 42 0.31
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.47
Consensus pattern (69 bp):
TTTAAATATTAATTAGAATATTTGTCAGGTTTTAAATTCCTCCAAAAAAAATGAGATGTGTTTTT
TTTA
Found at i:47535263 original size:82 final size:84
Alignment explanation
Indices: 47535080--47535271 Score: 307
Period size: 82 Copynumber: 2.3 Consensus size: 84
47535070 GTTTTTTTTA
47535080 TTTAAATATTAATTAGAATATTTGTCAGGTTTTAAATTCCTCCAAAAAAAAATGAGATGTGTTTT
1 TTTAAATATTAATTAGAATATTTGTCAGGTTTTAAATTCCTCCAAAAAAAAATGAGATGTGTTTT
** **
47535145 AATTTTATTTTTTTTATTT
66 AATTTTATTTTTTAAAAAT
* * *
47535164 TTTAAATATTAATTAGAATATTTGTCGGGTTTTAAATTCCTCC-CAAAAAACTGAGATGTG-TTT
1 TTTAAATATTAATTAGAATATTTGTCAGGTTTTAAATTCCTCCAAAAAAAAATGAGATGTGTTTT
47535227 AATTTTATTTTTTAAAAAT
66 AATTTTATTTTTTAAAAAT
47535246 TTTAAATATTAATTAGAATATTTGTC
1 TTTAAATATTAATTAGAATATTTGTC
47535272 CGATCTAAAA
Statistics
Matches: 101, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
82 44 0.44
83 15 0.15
84 42 0.42
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.48
Consensus pattern (84 bp):
TTTAAATATTAATTAGAATATTTGTCAGGTTTTAAATTCCTCCAAAAAAAAATGAGATGTGTTTT
AATTTTATTTTTTAAAAAT
Found at i:47543642 original size:7 final size:7
Alignment explanation
Indices: 47543630--47543711 Score: 119
Period size: 7 Copynumber: 11.6 Consensus size: 7
47543620 ATAAACATAT
47543630 TTTTTTA
1 TTTTTTA
47543637 TTTTTTA
1 TTTTTTA
47543644 TTTTTTA
1 TTTTTTA
47543651 TTTTTTA
1 TTTTTTA
47543658 TTTTTTA
1 TTTTTTA
47543665 TTTTTTA
1 TTTTTTA
47543672 TTTTTTAA
1 TTTTTT-A
*
47543680 TTTTTAA
1 TTTTTTA
*
47543687 TTTTTAA
1 TTTTTTA
*
47543694 TTTTTAA
1 TTTTTTA
*
47543701 TTTTTAA
1 TTTTTTA
47543708 TTTT
1 TTTT
47543712 AAAATACTTT
Statistics
Matches: 73, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
7 67 0.92
8 6 0.08
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTTTA
Found at i:47543747 original size:20 final size:20
Alignment explanation
Indices: 47543719--47543756 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
47543709 TTTAAAATAC
*
47543719 TTTTAAAATAATTTTTTATT
1 TTTTAAAATAAATTTTTATT
*
47543739 TTTTTAAATAAATTTTTA
1 TTTTAAAATAAATTTTTA
47543757 ATGTTTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTAAAATAAATTTTTATT
Found at i:47544337 original size:24 final size:24
Alignment explanation
Indices: 47544309--47544356 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
47544299 AAGATTGAGT
*
47544309 ATTTATTTGTATAATATATTTAAC
1 ATTTATTAGTATAATATATTTAAC
*
47544333 ATTTATTAGTATAATTTATTTAAC
1 ATTTATTAGTATAATATATTTAAC
47544357 TTACTAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (24 bp):
ATTTATTAGTATAATATATTTAAC
Found at i:47544623 original size:19 final size:19
Alignment explanation
Indices: 47544599--47544649 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
47544589 ATTTAATGAA
47544599 ATTTATAATATATTAAATT
1 ATTTATAATATATTAAATT
* *
47544618 ATTTATTAA-ATTTTATATT
1 ATTTA-TAATATATTAAATT
*
47544637 TTTTA-AATATATT
1 ATTTATAATATATT
47544650 TTTAATATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 2 0.08
18 4 0.15
19 17 0.65
20 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTATAATATATTAAATT
Found at i:47544632 original size:29 final size:30
Alignment explanation
Indices: 47544600--47544663 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
47544590 TTTAATGAAA
47544600 TTTATAATATATTAAAT-TATTTATTAA-AT
1 TTTATAATATATTAAATATATTT-TTAATAT
* *
47544629 TTTAT-ATTTTTTAAATATATTTTTAATAT
1 TTTATAATATATTAAATATATTTTTAATAT
47544658 TTTATA
1 TTTATA
47544664 TAATGTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
28 13 0.43
29 17 0.57
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (30 bp):
TTTATAATATATTAAATATATTTTTAATAT
Found at i:47545623 original size:3 final size:3
Alignment explanation
Indices: 47545612--47545642 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
47545602 TTTTTTTTTC
47545612 TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA
47545643 ACTACGGCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:47546063 original size:20 final size:20
Alignment explanation
Indices: 47546038--47546077 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
47546028 CGTAAAATAA
*
47546038 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATGATTTACT
*
47546058 TTTCTGTAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
47546078 GAAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:47546067 original size:34 final size:35
Alignment explanation
Indices: 47546023--47546089 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
47546013 CAGTAAAATA
*
47546023 TTTTCCGTAAAATAATTT-CTGAAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACTGAAAAATATTTTAC
* *
47546057 TTTTCTGTAAAATGATTTACTGAAAAATATTTT
1 TTTTCCGTAAAATAATTTACTGAAAAATATTTT
47546090 CTGATATTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTGAAAAATATTTTAC
Found at i:47555365 original size:10 final size:9
Alignment explanation
Indices: 47555351--47555460 Score: 62
Period size: 9 Copynumber: 11.7 Consensus size: 9
47555341 TTTTTACGAA
47555351 TTTTATATT
1 TTTTATATT
47555360 TCTTTATATT
1 T-TTTATATT
47555370 TTTTATAATT
1 TTTTAT-ATT
* *
47555380 TTATAAAATT
1 TT-TTATATT
47555390 TTTCTATA-T
1 TTT-TATATT
* *
47555399 TTCTATATA
1 TTTTATATT
47555408 TTTTATATTT
1 TTTTATA-TT
*
47555418 TTTTCTAATT
1 TTTTAT-ATT
* * **
47555428 CTTAATAAA
1 TTTTATATT
47555437 TTTTA-ATTT
1 TTTTATA-TT
47555446 TTTTATATT
1 TTTTATATT
47555455 TTTTAT
1 TTTTAT
47555461 TGAAAATTAA
Statistics
Matches: 74, Mismatches: 18, Indels: 18
0.67 0.16 0.16
Matches are distributed among these distances:
8 5 0.07
9 33 0.45
10 33 0.45
11 3 0.04
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTTATATT
Found at i:47555384 original size:47 final size:48
Alignment explanation
Indices: 47555326--47555420 Score: 115
Period size: 47 Copynumber: 2.0 Consensus size: 48
47555316 TTTTGGTACG
** *
47555326 ATAACTTTTATAATTTTTTTACGA-ATTT-TATATTTCTTTATATTTTTT
1 ATAACTTTTATAAAATTTTT-CGATATTTCTATATAT-TTTATATTTTTT
*
47555374 ATAA-TTTTATAAAATTTTTCTATATTTCTATATATTTTATATTTTTT
1 ATAACTTTTATAAAATTTTTCGATATTTCTATATATTTTATATTTTTT
47555421 TCTAATTCTT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
46 2 0.05
47 29 0.71
48 10 0.24
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.64
Consensus pattern (48 bp):
ATAACTTTTATAAAATTTTTCGATATTTCTATATATTTTATATTTTTT
Found at i:47555397 original size:21 final size:20
Alignment explanation
Indices: 47555351--47555405 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
47555341 TTTTTACGAA
* *
47555351 TTTTATATTTCT-TTATATT
1 TTTTATATTTCTATAAAATT
47555370 TTTTATAATTT-TATAAAATT
1 TTTTAT-ATTTCTATAAAATT
47555390 TTTCTATATTTCTATA
1 TTT-TATATTTCTATA
47555406 TATTTTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 7 0.23
20 16 0.53
21 7 0.23
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTATATTTCTATAAAATT
Found at i:47555421 original size:29 final size:28
Alignment explanation
Indices: 47555349--47555449 Score: 84
Period size: 29 Copynumber: 3.6 Consensus size: 28
47555339 TTTTTTTACG
* * *
47555349 AATTTTATATTTCTTTATAT-TTTTTAT
1 AATTTTATATTTTTTTCTATATTTCTAT
**
47555376 AATTTTATAAAATTTTTCTATATTTCTAT
1 AATTTTAT-ATTTTTTTCTATATTTCTAT
47555405 ATATTTTATATTTTTTTCTA-A-TTCTTAAT
1 A-ATTTTATATTTTTTTCTATATTTC-T-AT
47555434 AAATTTTA-ATTTTTTT
1 -AATTTTATATTTTTTT
47555450 ATATTTTTTA
Statistics
Matches: 61, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
27 11 0.18
28 18 0.30
29 24 0.39
30 8 0.13
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (28 bp):
AATTTTATATTTTTTTCTATATTTCTAT
Found at i:47556125 original size:16 final size:16
Alignment explanation
Indices: 47556104--47556143 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
47556094 GCCTACTCCT
47556104 CCCAATTTAAACCCAG
1 CCCAATTTAAACCCAG
* *
47556120 CCCAATTTAAATCTAG
1 CCCAATTTAAACCCAG
47556136 CCCAATTT
1 CCCAATTT
47556144 TCACAACACC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.35, C:0.33, G:0.05, T:0.28
Consensus pattern (16 bp):
CCCAATTTAAACCCAG
Found at i:47556854 original size:9 final size:9
Alignment explanation
Indices: 47556840--47556879 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
47556830 CTTAAATATT
47556840 TTCGGGTAA
1 TTCGGGTAA
*
47556849 TTCGGGTCATT
1 TTCGGGT-A-A
47556860 TTCGGGTAA
1 TTCGGGTAA
47556869 TTCGGGTAA
1 TTCGGGTAA
47556878 TT
1 TT
47556880 TTTAACCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 18 0.67
10 2 0.07
11 7 0.26
ACGTcount: A:0.17, C:0.12, G:0.30, T:0.40
Consensus pattern (9 bp):
TTCGGGTAA
Found at i:47556862 original size:20 final size:20
Alignment explanation
Indices: 47556837--47556881 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
47556827 AGGCTTAAAT
*
47556837 ATTTTCGGGTAATTCGGGTC
1 ATTTTCGGGTAATTCGGGTA
47556857 ATTTTCGGGTAATTCGGGTA
1 ATTTTCGGGTAATTCGGGTA
47556877 ATTTT
1 ATTTT
47556882 TAACCAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.18, C:0.11, G:0.27, T:0.44
Consensus pattern (20 bp):
ATTTTCGGGTAATTCGGGTA
Found at i:47556953 original size:12 final size:12
Alignment explanation
Indices: 47556936--47556960 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47556926 AAGAATTTCG
47556936 GGTCGGTTAACC
1 GGTCGGTTAACC
47556948 GGTCGGTTAACC
1 GGTCGGTTAACC
47556960 G
1 G
47556961 ACTGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:47557165 original size:85 final size:84
Alignment explanation
Indices: 47557013--47557305 Score: 319
Period size: 85 Copynumber: 3.4 Consensus size: 84
47557003 CCGCCTCTGG
* * *
47557013 CTTTTTTGATGCATTTTGACAATTCAAGTACCCAATTGAGTGAAAAAAAAAACATAGGCTTAA--
1 CTTTTTTGATACATTTTGACAGTTCAAGTACCCAATT-A-AGAAAAAAAAAACATAGGCTTAATT
*
47557076 TTTTTTTTTAAGTTTGAGGGT
64 TTTTTTTTTAAGTTTGAAGGT
* * *
47557097 CTTTTTTTTATACATTTTGACAGTTCAAGTGCCCAATTAA-ATAAAAAAAACATAGGCTTAATTG
1 C-TTTTTTGATACATTTTGACAGTTCAAGTACCCAATTAAGAAAAAAAAAACATAGGCTTAATT-
* *
47557161 TTTTTTTTTTAGTTTGAAGGC
64 TTTTTTTTTAAGTTTGAAGGT
* * * *
47557182 CTTTTTTTATACATTTTTG-CAGTTAAAGTGCCCAATTAAGTGAAAAAAAAAAACA-AGGGTTTA
1 CTTTTTTGATACA-TTTTGACAGTTCAAGTACCCAATTAA--G-AAAAAAAAAACATA-GGCTTA
47557245 ATTTTTTTTTTTTAAGTTTGAAGGT
61 A-TTTTTTTTTTTAAGTTTGAAGGT
* *
47557270 C-TTTTTGATACATTTTGAAAGTTCAAATACCCAATT
1 CTTTTTTGATACATTTTGACAGTTCAAGTACCCAATT
47557306 GAGTGCAAAA
Statistics
Matches: 178, Mismatches: 19, Indels: 21
0.82 0.09 0.10
Matches are distributed among these distances:
82 20 0.11
84 33 0.19
85 56 0.31
86 5 0.03
87 25 0.14
88 37 0.21
89 2 0.01
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (84 bp):
CTTTTTTGATACATTTTGACAGTTCAAGTACCCAATTAAGAAAAAAAAAACATAGGCTTAATTTT
TTTTTTTAAGTTTGAAGGT
Found at i:47558075 original size:30 final size:29
Alignment explanation
Indices: 47558034--47558097 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 29
47558024 CGAATATAAT
47558034 AAATATTTTTTT-TCATTTTTTAATTTTTA
1 AAATATTTTTTTAT-ATTTTTTAATTTTTA
*
47558063 AAATACTTTTTTTATATTTTTTTATTTTTA
1 AAATA-TTTTTTTATATTTTTTAATTTTTA
47558093 AAATA
1 AAATA
47558098 AATTTTTGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
29 5 0.16
30 26 0.81
31 1 0.03
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (29 bp):
AAATATTTTTTTATATTTTTTAATTTTTA
Found at i:47558104 original size:30 final size:31
Alignment explanation
Indices: 47558038--47558104 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 31
47558028 TATAATAAAT
* *
47558038 ATTTTTTTTCATTTTTTAATTTTTAAAATAC
1 ATTTTTTATCATTTTTTAATTTTTAAAATAA
* *
47558069 TTTTTTTAT-ATTTTTTTATTTTTAAAATAA
1 ATTTTTTATCATTTTTTAATTTTTAAAATAA
47558099 ATTTTT
1 ATTTTT
47558105 GGTGTTTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
30 24 0.77
31 7 0.23
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (31 bp):
ATTTTTTATCATTTTTTAATTTTTAAAATAA
Found at i:47558646 original size:23 final size:22
Alignment explanation
Indices: 47558608--47558667 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 22
47558598 TAATTTTAAA
47558608 AATATATTTTAT-ATT-AATATT
1 AATATATTTTATAATTAAAT-TT
47558629 AATATATTTTTATAATTAAATTT
1 AATATA-TTTTATAATTAAATTT
47558652 AA-ATAATTTT-TAATTA
1 AATAT-ATTTTATAATTA
47558668 TTTAATTTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
21 12 0.34
22 12 0.34
23 8 0.23
24 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
AATATATTTTATAATTAAATTT
Found at i:47558674 original size:24 final size:23
Alignment explanation
Indices: 47558608--47558675 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 23
47558598 TAATTTTAAA
47558608 AATATA-TTTTA-TA-TTAATATT
1 AATATATTTTTATTATTTAAT-TT
* *
47558629 AATATATTTTTATAATTAAATTT
1 AATATATTTTTATTATTTAATTT
47558652 AA-ATAATTTTTAATTATTTAATTT
1 AATAT-ATTTTT-ATTATTTAATTT
47558676 GAATTGAGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
21 6 0.16
22 7 0.18
23 11 0.29
24 14 0.37
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
AATATATTTTTATTATTTAATTT
Found at i:47560932 original size:27 final size:27
Alignment explanation
Indices: 47560886--47560937 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
47560876 CTTAAAAATT
* * *
47560886 ATTATAACCTATTAAGATAACACGAGG
1 ATTATAACATATAAAAATAACACGAGG
*
47560913 ATTATAACATATAAAAATAATACGA
1 ATTATAACATATAAAAATAACACGA
47560938 ATACGATATG
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:0.52, C:0.12, G:0.10, T:0.27
Consensus pattern (27 bp):
ATTATAACATATAAAAATAACACGAGG
Found at i:47567405 original size:52 final size:51
Alignment explanation
Indices: 47567295--47567398 Score: 136
Period size: 52 Copynumber: 2.0 Consensus size: 51
47567285 TTTTTAAAAA
* ***
47567295 AATTTATTCAATAAGAATATAGGTAGAGTGGTGATAAACTTTTTTTTTTTT
1 AATTTATTCAATAAGAATATAGGTAGAGTGGTGATAAACTTTATTTTAAGT
* *
47567346 AAATTATTCAATAATGAATATAGGTAGATTGGTGATAAACTTGTATTTTAAGT
1 AATTTATTCAATAA-GAATATAGGTAGAGTGGTGATAAACTT-TATTTTAAGT
47567399 CTTTATTTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
51 13 0.29
52 26 0.58
53 6 0.13
ACGTcount: A:0.37, C:0.04, G:0.16, T:0.43
Consensus pattern (51 bp):
AATTTATTCAATAAGAATATAGGTAGAGTGGTGATAAACTTTATTTTAAGT
Found at i:47568365 original size:37 final size:37
Alignment explanation
Indices: 47568313--47568386 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
47568303 CTTTCATAGC
*
47568313 CATGTTGACAGCACAAGAAGTAGAATAAGCAGTGCGA
1 CATGTTGACACCACAAGAAGTAGAATAAGCAGTGCGA
*
47568350 CATGTTGACTCCACAAGAAGTAGAATAAGCAGTGCGA
1 CATGTTGACACCACAAGAAGTAGAATAAGCAGTGCGA
47568387 ATGGAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.39, C:0.18, G:0.26, T:0.18
Consensus pattern (37 bp):
CATGTTGACACCACAAGAAGTAGAATAAGCAGTGCGA
Found at i:47573506 original size:7 final size:7
Alignment explanation
Indices: 47573494--47573519 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
47573484 AACCCTTCAA
47573494 AAAATTT
1 AAAATTT
47573501 AAAATTT
1 AAAATTT
47573508 AAAATTT
1 AAAATTT
47573515 AAAAT
1 AAAAT
47573520 AGTAAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (7 bp):
AAAATTT
Found at i:47580678 original size:16 final size:16
Alignment explanation
Indices: 47580654--47580686 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
47580644 ATTAATATTT
47580654 TTATAATATTTTTATA
1 TTATAATATTTTTATA
*
47580670 TTATCATATTTTTATA
1 TTATAATATTTTTATA
47580686 T
1 T
47580687 AATCTTTCAA
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:0.03, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATAATATTTTTATA
Found at i:47581479 original size:44 final size:44
Alignment explanation
Indices: 47581429--47581515 Score: 156
Period size: 44 Copynumber: 2.0 Consensus size: 44
47581419 TAGAAATGGC
*
47581429 ATCTTAATTTTGCATTTAATCAAATTTTGGCAGGACAGTTTGGT
1 ATCTTAATTTTGCATTTAATCAAATTTTAGCAGGACAGTTTGGT
*
47581473 ATCTTAATTTTGCATTTAATCAAATTTTAGCAGGGCAGTTTGG
1 ATCTTAATTTTGCATTTAATCAAATTTTAGCAGGACAGTTTGG
47581516 CATGACAATC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.28, C:0.11, G:0.18, T:0.43
Consensus pattern (44 bp):
ATCTTAATTTTGCATTTAATCAAATTTTAGCAGGACAGTTTGGT
Found at i:47586148 original size:44 final size:44
Alignment explanation
Indices: 47586080--47586253 Score: 159
Period size: 44 Copynumber: 3.7 Consensus size: 44
47586070 AGAAATGTTT
*
47586080 TCTTAATTTTGCATTCAATCAAATTTTGGCAAGATAATTTAGCA
1 TCTTAATTTTACATTCAATCAAATTTTGGCAAGATAATTTAGCA
* * ** *
47586124 TCTTAATTTTACATTCAATTAAATTTTGGCAGGGTAGTTTTCTTATAGAAA
1 TCTTAATTTTACATTCAATCAAATTTTGGCA----AG-ATAATT-TAG-CA
* * *
47586175 TGTCTTTTAATTTTACATTCAATCAAATTTTGACAAGATAGTTTGGCA
1 --TC--TTAATTTTACATTCAATCAAATTTTGGCAAGATAATTTAGCA
*
47586223 TCTTAATTTTACATTCAATCAAAATTTGGCA
1 TCTTAATTTTACATTCAATCAAATTTTGGCA
47586254 GGGCAATTTG
Statistics
Matches: 104, Mismatches: 15, Indels: 22
0.74 0.11 0.16
Matches are distributed among these distances:
44 56 0.54
46 2 0.02
48 3 0.03
49 5 0.05
50 6 0.06
51 3 0.03
53 2 0.02
55 27 0.26
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (44 bp):
TCTTAATTTTACATTCAATCAAATTTTGGCAAGATAATTTAGCA
Found at i:47586228 original size:99 final size:100
Alignment explanation
Indices: 47586026--47586258 Score: 344
Period size: 99 Copynumber: 2.3 Consensus size: 100
47586016 AAATGTCATT
* * * * *
47586026 TTAATTTTGCATTCAATCAAATTTTGACAGGACAGTTTATTTATAGAAATGTTTTCTTAATTTTG
1 TTAATTTTACATTCAATCAAATTTTGGCAGGGCAGTTTATTTATAGAAATGTCTTCTTAATTTTA
*
47586091 CATTCAATCAAATTTTGGCAAGATAATTTAGCATC
66 CATTCAATCAAATTTTGACAAGATAATTTAGCATC
* *
47586126 TTAATTTTACATTCAATTAAATTTTGGCAGGGTAGTTT-TCTTATAGAAATGTCTT-TTAATTTT
1 TTAATTTTACATTCAATCAAATTTTGGCAGGGCAGTTTAT-TTATAGAAATGTCTTCTTAATTTT
* *
47586189 ACATTCAATCAAATTTTGACAAGATAGTTTGGCATC
65 ACATTCAATCAAATTTTGACAAGATAATTTAGCATC
*
47586225 TTAATTTTACATTCAATCAAAATTTGGCAGGGCA
1 TTAATTTTACATTCAATCAAATTTTGGCAGGGCA
47586259 ATTTGGCATG
Statistics
Matches: 119, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
99 72 0.61
100 47 0.39
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (100 bp):
TTAATTTTACATTCAATCAAATTTTGGCAGGGCAGTTTATTTATAGAAATGTCTTCTTAATTTTA
CATTCAATCAAATTTTGACAAGATAATTTAGCATC
Found at i:47586264 original size:44 final size:44
Alignment explanation
Indices: 47586181--47586267 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
47586171 GAAATGTCTT
* * *
47586181 TTAATTTTACATTCAATCAAATTTTGACAAGATAGTTTGGCATC
1 TTAATTTTACATTCAATCAAAATTTGACAAGACAATTTGGCATC
* * *
47586225 TTAATTTTACATTCAATCAAAATTTGGCAGGGCAATTTGGCAT
1 TTAATTTTACATTCAATCAAAATTTGACAAGACAATTTGGCAT
47586268 GACAATCTCC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (44 bp):
TTAATTTTACATTCAATCAAAATTTGACAAGACAATTTGGCATC
Found at i:47594277 original size:186 final size:186
Alignment explanation
Indices: 47593963--47594338 Score: 716
Period size: 186 Copynumber: 2.0 Consensus size: 186
47593953 TGTTCTTATT
47593963 TTGGATTTCTCTTCCTCTTACAGTATCAACCCCTCAAATGAATAAGTACATACTACATTTTCACT
1 TTGGATTTCTCTTCCTCTTACAGTATCAACCCCTCAAATGAATAAGTACATACTACATTTTCACT
47594028 TAGGTGAACCCACATTGATTGTTTCTCTGTATCTGATGGTTGTGTGTTTTTACCTATTATTTCCT
66 TAGGTGAACCCACATTGATTGTTTCTCTGTATCTGATGGTTGTGTGTTTTTACCTATTATTTCCT
*
47594093 GCTTTCGGATCCAAAGCTGCCAGCCTGAACTTCCCTTTGTTTGCATCTAGATCATC
131 GCTTTCGGATCCAAAGCTACCAGCCTGAACTTCCCTTTGTTTGCATCTAGATCATC
* *
47594149 TTGGATTTCTCTTCCTCTTACCGTATCAACCCCTCAAATGAATAAGTACATGCTACATTTTCACT
1 TTGGATTTCTCTTCCTCTTACAGTATCAACCCCTCAAATGAATAAGTACATACTACATTTTCACT
*
47594214 TAGGTGAACCCACATTGATTGTTTCTCTGTATCTGATGGTTGTGTGTTTTTAGCTATTATTTCCT
66 TAGGTGAACCCACATTGATTGTTTCTCTGTATCTGATGGTTGTGTGTTTTTACCTATTATTTCCT
47594279 GCTTTCGGATCCAAAGCTACCAGCCTGAACTTCCCTTTGTTTGCATCTAGATCATC
131 GCTTTCGGATCCAAAGCTACCAGCCTGAACTTCCCTTTGTTTGCATCTAGATCATC
47594335 TTGG
1 TTGG
47594339 CCTTGCTTCA
Statistics
Matches: 186, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
186 186 1.00
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (186 bp):
TTGGATTTCTCTTCCTCTTACAGTATCAACCCCTCAAATGAATAAGTACATACTACATTTTCACT
TAGGTGAACCCACATTGATTGTTTCTCTGTATCTGATGGTTGTGTGTTTTTACCTATTATTTCCT
GCTTTCGGATCCAAAGCTACCAGCCTGAACTTCCCTTTGTTTGCATCTAGATCATC
Found at i:47597825 original size:26 final size:28
Alignment explanation
Indices: 47597787--47597842 Score: 80
Period size: 26 Copynumber: 2.0 Consensus size: 28
47597777 ACATAAGGAC
47597787 TGGATCAAATTAGT-CC-TACTATTAAA
1 TGGATCAAATTAGTCCCGTACTATTAAA
*
47597813 TGGATCAATTTAGTCCCTGTACTATTAAA
1 TGGATCAAATTAGTCCC-GTACTATTAAA
47597842 T
1 T
47597843 TCAATGGAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 13 0.50
27 2 0.08
29 11 0.42
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (28 bp):
TGGATCAAATTAGTCCCGTACTATTAAA
Found at i:47611735 original size:31 final size:31
Alignment explanation
Indices: 47611700--47611772 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 31
47611690 AAAACTTAAC
47611700 AGTTTAGTGACTTAAATAAAAACTTTT-AAAT
1 AGTTTAGTGACTTAAATAAAAA-TTTTCAAAT
* *
47611731 AGTTTAGTGA-TTTAATGAAAATTTTCAAAT
1 AGTTTAGTGACTTAAATAAAAATTTTCAAAT
* *
47611761 AATTTAATGACT
1 AGTTTAGTGACT
47611773 ATTTTGTCAC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 4 0.11
30 21 0.58
31 11 0.31
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.41
Consensus pattern (31 bp):
AGTTTAGTGACTTAAATAAAAATTTTCAAAT
Found at i:47621010 original size:2 final size:2
Alignment explanation
Indices: 47621003--47621027 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
47620993 TCTAACTGAA
47621003 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
47621028 GCTGTTGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:47622908 original size:25 final size:24
Alignment explanation
Indices: 47622872--47622938 Score: 89
Period size: 25 Copynumber: 2.8 Consensus size: 24
47622862 GGGCCTAGAT
*
47622872 TATATATTAAATATATATTTTTTA
1 TATATATCAAATATATATTTTTTA
* *
47622896 TTTTTAATCAAATATATATTTTTTA
1 TATAT-ATCAAATATATATTTTTTA
*
47622921 TATATATTAAATATATAT
1 TATATATCAAATATATAT
47622939 AAAATATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
24 15 0.42
25 21 0.58
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (24 bp):
TATATATCAAATATATATTTTTTA
Found at i:47622956 original size:11 final size:11
Alignment explanation
Indices: 47622920--47622950 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
47622910 TATATTTTTT
*
47622920 ATATATATTAA
1 ATATATATAAA
47622931 ATATATATAAA
1 ATATATATAAA
47622942 ATATATATA
1 ATATATATA
47622951 TGATATGGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
ATATATATAAA
Found at i:47628627 original size:13 final size:12
Alignment explanation
Indices: 47628593--47628632 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 12
47628583 ATTTTATTTT
47628593 TATT-TTTAAAA
1 TATTATTTAAAA
47628604 -A-TATTTAAAA
1 TATTATTTAAAA
47628614 TATTATTATAAAA
1 TATTATT-TAAAA
47628627 TATTAT
1 TATTAT
47628633 ATTTTTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
9 1 0.04
10 8 0.32
11 1 0.04
12 4 0.16
13 11 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TATTATTTAAAA
Found at i:47631169 original size:2 final size:2
Alignment explanation
Indices: 47631162--47631187 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
47631152 TAGTTGTTGG
47631162 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
47631188 TACAAAGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47631694 original size:27 final size:27
Alignment explanation
Indices: 47631648--47631718 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
47631638 TAATATATAT
*
47631648 TAATA-AATA-AAAAATGTAAAAAAATA
1 TAATATAATATAAATAT-TAAAAAAATA
* *
47631674 TATTA-AATATTAAATATTAAAATAATA
1 TAATATAATA-TAAATATTAAAAAAATA
47631701 TAATATAATATAAATATT
1 TAATATAATATAAATATT
47631719 TTTAAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
26 8 0.21
27 21 0.55
28 9 0.24
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.35
Consensus pattern (27 bp):
TAATATAATATAAATATTAAAAAAATA
Found at i:47634963 original size:16 final size:16
Alignment explanation
Indices: 47634942--47634977 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
47634932 TATCACATTC
47634942 AACCTATATTTATTTA
1 AACCTATATTTATTTA
47634958 AACCTATATTTATTTA
1 AACCTATATTTATTTA
47634974 AACC
1 AACC
47634978 CCTTCTCCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.17, G:0.00, T:0.44
Consensus pattern (16 bp):
AACCTATATTTATTTA
Found at i:47635733 original size:21 final size:22
Alignment explanation
Indices: 47635702--47635742 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
47635692 GCTTGGTTTT
47635702 TTAAGTGTTTAATGATAGATTA
1 TTAAGTGTTTAATGATAGATTA
*
47635724 TTAAG-GTTTAATGTTAGAT
1 TTAAGTGTTTAATGATAGAT
47635743 ATACAAGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (22 bp):
TTAAGTGTTTAATGATAGATTA
Found at i:47636434 original size:25 final size:25
Alignment explanation
Indices: 47636405--47636476 Score: 117
Period size: 25 Copynumber: 2.8 Consensus size: 25
47636395 AGTTTACCGT
47636405 TTCAGCTCGATAGAGCTTACCATTC
1 TTCAGCTCGATAGAGCTTACCATTC
*
47636430 TTCAGCTCGATAGAGCTTACCGTTC
1 TTCAGCTCGATAGAGCTTACCATTC
*
47636455 TTCAGCTCGAAATGAGCTTACC
1 TTCAGCTCGATA-GAGCTTACC
47636477 GATCATGGCT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
25 35 0.80
26 9 0.20
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.31
Consensus pattern (25 bp):
TTCAGCTCGATAGAGCTTACCATTC
Found at i:47641611 original size:25 final size:25
Alignment explanation
Indices: 47641583--47641659 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
47641573 CCTTAGAGCA
* *
47641583 CTCTCTGATTATTAACACGTTAGTG
1 CTCTCCGATTATTAACACATTAGTG
*
47641608 CTCTCCGATTATTAGCACATTAGTG
1 CTCTCCGATTATTAACACATTAGTG
* * *
47641633 CCCTCCG--T-TTAGCACATTTGTG
1 CTCTCCGATTATTAACACATTAGTG
47641655 CTCTC
1 CTCTC
47641660 TGTATATTAC
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
22 17 0.37
23 1 0.02
25 28 0.61
ACGTcount: A:0.19, C:0.27, G:0.16, T:0.38
Consensus pattern (25 bp):
CTCTCCGATTATTAACACATTAGTG
Found at i:47643282 original size:18 final size:18
Alignment explanation
Indices: 47643259--47643293 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
47643249 CCGAAACTTC
47643259 ATTTTAAT-TTTTATACAA
1 ATTTTAATATTTT-TACAA
47643277 ATTTTAATATTTTTACA
1 ATTTTAATATTTTTACA
47643294 CAAAAAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTTAATATTTTTACAA
Found at i:47643675 original size:27 final size:28
Alignment explanation
Indices: 47643635--47643707 Score: 71
Period size: 27 Copynumber: 2.6 Consensus size: 28
47643625 AACCATGCAA
* *
47643635 AATTAAAAAAAAATAAAAAA-C-TAAAAT
1 AATT-AAAATAAATAAAAAATCATAAAAG
47643662 AATTAATAATAAATAGAAAAAATCATAAAAG
1 AATTAA-AATAAAT--AAAAAATCATAAAAG
47643693 AA-TAAAATAAATAAA
1 AATTAAAATAAATAAA
47643708 TTATAACAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
26 2 0.05
27 13 0.33
29 13 0.33
30 4 0.10
31 7 0.18
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (28 bp):
AATTAAAATAAATAAAAAATCATAAAAG
Found at i:47643704 original size:20 final size:19
Alignment explanation
Indices: 47643633--47643706 Score: 64
Period size: 20 Copynumber: 3.9 Consensus size: 19
47643623 TCAACCATGC
*
47643633 AAAATTAAAA-AAA-AATA
1 AAAAATAAAATAAATAATA
*
47643650 AAAAACTAAAATAATTAATA
1 AAAAA-TAAAATAAATAATA
* *
47643670 ATAAATAGAAA-AAATCATA
1 AAAAATA-AAATAAATAATA
47643689 AAAGAATAAAATAAATAA
1 AAA-AATAAAATAAATAA
47643707 ATTATAACAA
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
17 4 0.09
18 5 0.11
19 15 0.34
20 20 0.45
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.20
Consensus pattern (19 bp):
AAAAATAAAATAAATAATA
Found at i:47648426 original size:21 final size:21
Alignment explanation
Indices: 47648392--47648432 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
47648382 ACATTCATTC
*
47648392 AATTTAATCTCTATTTTTTTT
1 AATTTAATCGCTATTTTTTTT
*
47648413 AATTTGATCGCTATTTTTTT
1 AATTTAATCGCTATTTTTTT
47648433 ATTTGAAGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.10, G:0.05, T:0.63
Consensus pattern (21 bp):
AATTTAATCGCTATTTTTTTT
Found at i:47649349 original size:14 final size:15
Alignment explanation
Indices: 47649321--47649351 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
47649311 CACATATCAA
47649321 ATTTCTATGTATTTC
1 ATTTCTATGTATTTC
47649336 ATTTCTAT-TATTTC
1 ATTTCTATGTATTTC
47649350 AT
1 AT
47649352 CAACATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.23, C:0.13, G:0.03, T:0.61
Consensus pattern (15 bp):
ATTTCTATGTATTTC
Found at i:47652013 original size:15 final size:15
Alignment explanation
Indices: 47651995--47652025 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
47651985 ATATTATTAT
*
47651995 TTTTTGTTAAATAAA
1 TTTTTATTAAATAAA
47652010 TTTTTATTAAATAAA
1 TTTTTATTAAATAAA
47652025 T
1 T
47652026 AAGATAATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TTTTTATTAAATAAA
Found at i:47652299 original size:29 final size:28
Alignment explanation
Indices: 47652217--47652300 Score: 80
Period size: 29 Copynumber: 2.9 Consensus size: 28
47652207 ATAAAAAGAA
47652217 AAAAGAAAAA-AGAAATAAAAGAAGAACAG
1 AAAAGAAAAAGAGAAA-AAAAGAA-AACAG
* *
47652246 AAAAGAAACAGAGAACAAAAGGAAAACAG
1 AAAAGAAAAAGAGAA-AAAAAGAAAACAG
** *
47652275 GGAAGAAAAAGGGAAAGAAAAGAAAA
1 AAAAGAAAAAGAGAAA-AAAAGAAAA
47652301 GGGGAAAATT
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
28 1 0.02
29 33 0.73
30 10 0.22
31 1 0.02
ACGTcount: A:0.71, C:0.05, G:0.23, T:0.01
Consensus pattern (28 bp):
AAAAGAAAAAGAGAAAAAAAGAAAACAG
Found at i:47652661 original size:23 final size:24
Alignment explanation
Indices: 47652626--47652670 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
47652616 AATATGGCAA
47652626 GAAATTAAGTAGAAAAG-AAGTAT
1 GAAATTAAGTAGAAAAGTAAGTAT
47652649 GAAA-TAAGCTAGAAAAGTAAGT
1 GAAATTAAG-TAGAAAAGTAAGT
47652671 GAGCTTAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 4 0.20
23 12 0.60
24 4 0.20
ACGTcount: A:0.56, C:0.02, G:0.22, T:0.20
Consensus pattern (24 bp):
GAAATTAAGTAGAAAAGTAAGTAT
Found at i:47652948 original size:24 final size:23
Alignment explanation
Indices: 47652921--47652965 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
47652911 ATCATGGGAC
47652921 ATTT-AAAGTAAGGTAAGTAATAAT
1 ATTTGAAAGTAA-GTAAG-AATAAT
*
47652945 ATTTGAAATTAAGTAAGAATA
1 ATTTGAAAGTAAGTAAGAATA
47652966 TGTGTGAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 4 0.21
24 9 0.47
25 6 0.32
ACGTcount: A:0.51, C:0.00, G:0.16, T:0.33
Consensus pattern (23 bp):
ATTTGAAAGTAAGTAAGAATAAT
Found at i:47655572 original size:50 final size:50
Alignment explanation
Indices: 47655448--47655696 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
47655438 GATAATAACA
* * ** * *
47655448 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
47655499 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
47655549 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
47655599 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
47655654 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
47655697 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:47655626 original size:100 final size:104
Alignment explanation
Indices: 47655447--47655696 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
47655437 TGATAATAAC
**
47655447 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
47655512 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
47655549 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
47655612 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
47655654 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
47655697 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:47655812 original size:13 final size:13
Alignment explanation
Indices: 47655791--47655822 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
47655781 GCTTGGATCA
*
47655791 TCATCAAATAAAT
1 TCATAAAATAAAT
47655804 TCATAAAATAAAT
1 TCATAAAATAAAT
47655817 TCATAA
1 TCATAA
47655823 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:47656069 original size:30 final size:30
Alignment explanation
Indices: 47656034--47656091 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
47656024 CCTCGACTCT
*
47656034 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
47656064 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
47656092 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:47663163 original size:50 final size:50
Alignment explanation
Indices: 47663039--47663287 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
47663029 GATAATAACA
* * ** * *
47663039 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
47663090 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
47663140 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
47663190 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
47663245 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
47663288 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:47663217 original size:100 final size:104
Alignment explanation
Indices: 47663038--47663287 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
47663028 TGATAATAAC
**
47663038 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
47663103 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
47663140 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
47663203 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
47663245 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
47663288 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:47663403 original size:13 final size:13
Alignment explanation
Indices: 47663382--47663413 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
47663372 GCTTGGATCA
*
47663382 TCATCAAATAAAT
1 TCATAAAATAAAT
47663395 TCATAAAATAAAT
1 TCATAAAATAAAT
47663408 TCATAA
1 TCATAA
47663414 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:47663660 original size:30 final size:30
Alignment explanation
Indices: 47663625--47663682 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
47663615 CCTCGACTCT
*
47663625 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
47663655 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
47663683 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:47667238 original size:21 final size:23
Alignment explanation
Indices: 47667197--47667239 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
47667187 GAGATAAAAA
47667197 GGAAAATAGAAACAGAAATGAAG
1 GGAAAATAGAAACAGAAATGAAG
47667220 GGAAAATA-AAACA-AAATGAA
1 GGAAAATAGAAACAGAAATGAA
47667240 ATAATGGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 7 0.35
22 5 0.25
23 8 0.40
ACGTcount: A:0.65, C:0.05, G:0.21, T:0.09
Consensus pattern (23 bp):
GGAAAATAGAAACAGAAATGAAG
Found at i:47667602 original size:30 final size:29
Alignment explanation
Indices: 47667568--47667631 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 29
47667558 AATTTACAAG
47667568 AATTAGATC-AAATTAAAATTTCATGTATAA
1 AATTAGA-CAAAATTAAAATTT-ATGTATAA
*
47667598 AATTATACAAAATTAAAATTTATGTATAA
1 AATTAGACAAAATTAAAATTTATGTATAA
47667627 AATTA
1 AATTA
47667632 TACATTAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
29 14 0.44
30 18 0.56
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.38
Consensus pattern (29 bp):
AATTAGACAAAATTAAAATTTATGTATAA
Found at i:47667623 original size:29 final size:30
Alignment explanation
Indices: 47667577--47667635 Score: 111
Period size: 29 Copynumber: 2.0 Consensus size: 30
47667567 GAATTAGATC
47667577 AAATTAAAATTTCATGTATAAAATTATACA
1 AAATTAAAATTTCATGTATAAAATTATACA
47667607 AAATTAAAATTT-ATGTATAAAATTATACA
1 AAATTAAAATTTCATGTATAAAATTATACA
47667636 TTAAACTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.37
Consensus pattern (30 bp):
AAATTAAAATTTCATGTATAAAATTATACA
Found at i:47673699 original size:19 final size:19
Alignment explanation
Indices: 47673675--47673718 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
47673665 TCTTTCACAG
*
47673675 TAAAAA-ATATTAATTATTA
1 TAAAAAGATATTAA-TATGA
*
47673694 TAAAAAGTTATTAATATGA
1 TAAAAAGATATTAATATGA
47673713 TAAAAA
1 TAAAAA
47673719 TAAACAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (19 bp):
TAAAAAGATATTAATATGA
Found at i:47674538 original size:18 final size:20
Alignment explanation
Indices: 47674502--47674539 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
47674492 AAACTATGTA
47674502 TATTTTTATGAATAAGTATAT
1 TATTTTTATGAAT-AGTATAT
47674523 TATTTTTAT-AAT-GTATA
1 TATTTTTATGAATAGTATA
47674540 GCATGGACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
20 3 0.18
21 9 0.53
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (20 bp):
TATTTTTATGAATAGTATAT
Found at i:47676589 original size:31 final size:32
Alignment explanation
Indices: 47676551--47676620 Score: 108
Period size: 31 Copynumber: 2.2 Consensus size: 32
47676541 ATTTTTTATG
47676551 AAAAAAATGAATCTTTTTATC-AGAGGATCA-A
1 AAAAAAATGAATCTTTTTATCGA-AGGATCAGA
*
47676582 AAGAAAATGAATCTTTTTATCGAAGGATCAGA
1 AAAAAAATGAATCTTTTTATCGAAGGATCAGA
47676614 AAAAAAA
1 AAAAAAA
47676621 GGGTCCTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
31 27 0.77
32 8 0.23
ACGTcount: A:0.51, C:0.09, G:0.14, T:0.26
Consensus pattern (32 bp):
AAAAAAATGAATCTTTTTATCGAAGGATCAGA
Found at i:47687716 original size:31 final size:32
Alignment explanation
Indices: 47687681--47687755 Score: 125
Period size: 31 Copynumber: 2.4 Consensus size: 32
47687671 GGAGGAAAAC
**
47687681 TTATTGACTTAAATGCTAAATGTTGCTGTTG-
1 TTATTGACTTAAATGCTAAATGTTGCTACTGT
47687712 TTATTGACTTAAATGCTAAATGTTGCTACTGT
1 TTATTGACTTAAATGCTAAATGTTGCTACTGT
47687744 TTATTGACTTAA
1 TTATTGACTTAA
47687756 CTGTGAAATG
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
31 29 0.71
32 12 0.29
ACGTcount: A:0.28, C:0.11, G:0.16, T:0.45
Consensus pattern (32 bp):
TTATTGACTTAAATGCTAAATGTTGCTACTGT
Found at i:47701318 original size:26 final size:26
Alignment explanation
Indices: 47701283--47701333 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
47701273 AATGTGAAAG
*
47701283 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
47701309 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
47701334 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:47701467 original size:104 final size:103
Alignment explanation
Indices: 47701205--47701470 Score: 451
Period size: 103 Copynumber: 2.6 Consensus size: 103
47701195 TTGTATATAA
** * *
47701205 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAGATCCACCATATCTT
47701270 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
* *
47701308 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAGATCCACCATATCTT
47701373 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
**
47701412 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAGATCCACCA
47701471 ATAACGGTTA
Statistics
Matches: 152, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
103 92 0.61
104 60 0.39
ACGTcount: A:0.18, C:0.21, G:0.31, T:0.30
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:47708823 original size:104 final size:104
Alignment explanation
Indices: 47708688--47708954 Score: 455
Period size: 104 Copynumber: 2.6 Consensus size: 104
47708678 TTGTATATAA
** *
47708688 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
47708753 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
47708792 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TGATCCACCATATCT
47708856 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
** *
47708896 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCA
47708955 ATAACGGTTA
Statistics
Matches: 153, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
104 152 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.21, G:0.31, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:47710410 original size:19 final size:19
Alignment explanation
Indices: 47710365--47710410 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
47710355 GCCTTTTATT
*
47710365 TATTATT-TATTTTATATT
1 TATTATTATATTTTATATA
47710383 TACTT-TTATATTTTATATA
1 TA-TTATTATATTTTATATA
47710402 TATTATTAT
1 TATTATTAT
47710411 CGACCAAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 6 0.25
19 18 0.75
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
TATTATTATATTTTATATA
Found at i:47711809 original size:6 final size:6
Alignment explanation
Indices: 47711791--47711825 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
47711781 ACCTGTTTTT
47711791 AAAGGG AAAAGGG AAAGGG AAAGGG AAAGGG AAAG
1 AAAGGG -AAAGGG AAAGGG AAAGGG AAAGGG AAAG
47711826 CTTTGCATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 22 0.79
7 6 0.21
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (6 bp):
AAAGGG
Found at i:47715038 original size:21 final size:21
Alignment explanation
Indices: 47714986--47715039 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
47714976 ATATAAAAAA
*
47714986 TAAAAAATTATAATTAAATTAT
1 TAAAAAA-TATAATTAAAATAT
* *
47715008 TAATATATATAATTAAAATAT
1 TAAAAAATATAATTAAAATAT
47715029 TAAAAAATATA
1 TAAAAAATATA
47715040 GAAATTATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 22 0.81
22 5 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
TAAAAAATATAATTAAAATAT
Found at i:47715929 original size:3 final size:3
Alignment explanation
Indices: 47715921--47715946 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
47715911 ATACTAAACT
47715921 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
47715947 TCAAATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:47722323 original size:16 final size:16
Alignment explanation
Indices: 47722298--47722328 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47722288 AAGAATAATA
47722298 ATTATATAATAATATC
1 ATTATATAATAATATC
*
47722314 ATTATTTAATAATAT
1 ATTATATAATAATAT
47722329 TAAATATATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTATATAATAATATC
Found at i:47731537 original size:17 final size:17
Alignment explanation
Indices: 47731517--47731550 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
47731507 AATTTTTTAA
47731517 ATGTCTATGTTTTGTCC
1 ATGTCTATGTTTTGTCC
47731534 ATGTCTATGTTTTGTCC
1 ATGTCTATGTTTTGTCC
47731551 CCCAACCTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.18, G:0.18, T:0.53
Consensus pattern (17 bp):
ATGTCTATGTTTTGTCC
Found at i:47733819 original size:4 final size:4
Alignment explanation
Indices: 47733810--47733838 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
47733800 TTACTTGATG
47733810 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
47733839 ATGTCCATTA
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:47736840 original size:3 final size:3
Alignment explanation
Indices: 47736832--47736881 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
47736822 CAAATAAGCT
47736832 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
47736880 TT
1 TT
47736882 TCGAAATGTC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:47737004 original size:15 final size:17
Alignment explanation
Indices: 47736986--47737019 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
47736976 TTTTTCTCTT
47736986 AAATTATT-TTTT-ATA
1 AAATTATTATTTTAATA
47737001 AAATTATTATTTTAATA
1 AAATTATTATTTTAATA
47737018 AA
1 AA
47737020 TAAACCTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 4 0.24
17 5 0.29
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AAATTATTATTTTAATA
Found at i:47737918 original size:16 final size:18
Alignment explanation
Indices: 47737868--47737919 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
47737858 TATCAAATTT
47737868 AAAAT-TTAAAATTAATAA
1 AAAATCTTAAAATT-ATAA
*
47737886 AAAATCTTAAAAATATAA
1 AAAATCTTAAAATTATAA
*
47737904 AAATTC-T-AAATTATAA
1 AAAATCTTAAAATTATAA
47737920 TTTAAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 8 0.27
17 1 0.03
18 14 0.47
19 7 0.23
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATCTTAAAATTATAA
Found at i:47742460 original size:19 final size:18
Alignment explanation
Indices: 47742419--47742460 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
47742409 TGTTAAGATG
* *
47742419 ATTATATAAAAAATTTCA
1 ATTAAATAAAAAATTTAA
47742437 A-TAAATAAAAAATATTAA
1 ATTAAATAAAAAAT-TTAA
47742455 ATTAAA
1 ATTAAA
47742461 ATATTATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 11 0.55
18 5 0.25
19 4 0.20
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
ATTAAATAAAAAATTTAA
Found at i:47745920 original size:32 final size:32
Alignment explanation
Indices: 47745883--47745965 Score: 112
Period size: 32 Copynumber: 2.6 Consensus size: 32
47745873 TGGGCCAGAC
* *
47745883 CGTGTGGGCTACACGGGCAAGGCCAATCTGAG
1 CGTGTGAGCCACACGGGCAAGGCCAATCTGAG
* * **
47745915 TGTGTGAGCCACAAGGAAAAGGCCAATCTGAG
1 CGTGTGAGCCACACGGGCAAGGCCAATCTGAG
47745947 CGTGTGAGCCACACGGGCA
1 CGTGTGAGCCACACGGGCA
47745966 TGTGAGCCCA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.35, T:0.14
Consensus pattern (32 bp):
CGTGTGAGCCACACGGGCAAGGCCAATCTGAG
Found at i:47745976 original size:18 final size:18
Alignment explanation
Indices: 47745949--47745993 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
47745939 AATCTGAGCG
47745949 TGTGAG-CCACACGGGCA
1 TGTGAGCCCACACGGGCA
47745966 TGTGAGCCCACACGGGCA
1 TGTGAGCCCACACGGGCA
*
47745984 TGTGGGCCCA
1 TGTGAGCCCA
47745994 TAATTCTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 6 0.23
18 20 0.77
ACGTcount: A:0.20, C:0.31, G:0.36, T:0.13
Consensus pattern (18 bp):
TGTGAGCCCACACGGGCA
Found at i:47749592 original size:21 final size:21
Alignment explanation
Indices: 47749567--47749634 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
47749557 ACAGAAGTAT
*
47749567 ATAAGTGCTAAATGGAAACTC
1 ATAAGAGCTAAATGGAAACTC
* * * *
47749588 GTAAGGGTTAAATGGAAGCTC
1 ATAAGAGCTAAATGGAAACTC
* * *
47749609 ATAAGAGCTGAACGGAAACCC
1 ATAAGAGCTAAATGGAAACTC
47749630 ATAAG
1 ATAAG
47749635 GGTTAAACTG
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.41, C:0.15, G:0.25, T:0.19
Consensus pattern (21 bp):
ATAAGAGCTAAATGGAAACTC
Found at i:47749627 original size:42 final size:42
Alignment explanation
Indices: 47749574--47749685 Score: 120
Period size: 42 Copynumber: 2.7 Consensus size: 42
47749564 TATATAAGTG
* * *
47749574 CTAAATGGAAACTCGTAAGGGTTAAA-TGGAAGCTCATAAGAG
1 CTAAACGGAAACTCGTAAGGGTTAAACT-GAAGCTCAAAAGAA
* * *
47749616 CTGAACGGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAA
1 CTAAACGGAAACTCGTAAGGGTTAAACTGAAGCTCAAAAGAA
* *
47749658 CTAAACTGAAACCTAG-AAGGGTTAAACT
1 CTAAACGGAAA-CTCGTAAGGGTTAAACT
47749686 AAAACTCATA
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
42 55 0.96
43 2 0.04
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (42 bp):
CTAAACGGAAACTCGTAAGGGTTAAACTGAAGCTCAAAAGAA
Found at i:47758673 original size:22 final size:21
Alignment explanation
Indices: 47758650--47758731 Score: 65
Period size: 22 Copynumber: 3.8 Consensus size: 21
47758640 TCCAAACAAT
*
47758650 AACAACAAAATAGCAGCAATAT
1 AACAACAAAATAGCAGCAA-AC
* * * **
47758672 AATATCAAAATGGTTGCAAAAC
1 AACAACAAAATAGCAGC-AAAC
* * *
47758694 AACATCAAAATGGCAACAAAC
1 AACAACAAAATAGCAGCAAAC
47758715 AACAACAAAATAGCAGC
1 AACAACAAAATAGCAGC
47758732 GAAAAAAATT
Statistics
Matches: 46, Mismatches: 13, Indels: 3
0.74 0.21 0.05
Matches are distributed among these distances:
21 18 0.39
22 26 0.57
23 2 0.04
ACGTcount: A:0.56, C:0.20, G:0.11, T:0.13
Consensus pattern (21 bp):
AACAACAAAATAGCAGCAAAC
Found at i:47760082 original size:67 final size:67
Alignment explanation
Indices: 47760004--47760138 Score: 270
Period size: 67 Copynumber: 2.0 Consensus size: 67
47759994 TTAATATCCG
47760004 CTAAATTCATATGAAACTAAACTCACATATATTCTTACCATAATATTTTCAGAATTTTTGGTTTA
1 CTAAATTCATATGAAACTAAACTCACATATATTCTTACCATAATATTTTCAGAATTTTTGGTTTA
47760069 GC
66 GC
47760071 CTAAATTCATATGAAACTAAACTCACATATATTCTTACCATAATATTTTCAGAATTTTTGGTTTA
1 CTAAATTCATATGAAACTAAACTCACATATATTCTTACCATAATATTTTCAGAATTTTTGGTTTA
47760136 GC
66 GC
47760138 C
1 C
47760139 AATAAGTACA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.36, C:0.17, G:0.07, T:0.40
Consensus pattern (67 bp):
CTAAATTCATATGAAACTAAACTCACATATATTCTTACCATAATATTTTCAGAATTTTTGGTTTA
GC
Found at i:47763065 original size:18 final size:17
Alignment explanation
Indices: 47763038--47763071 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
47763028 ATGTATTTTA
47763038 AAATTATAAAATATAAC
1 AAATTATAAAATATAAC
*
47763055 AAATATATAAATTATAA
1 AAAT-TATAAAATATAA
47763072 GATATAGGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (17 bp):
AAATTATAAAATATAAC
Found at i:47763193 original size:39 final size:43
Alignment explanation
Indices: 47763108--47763196 Score: 123
Period size: 41 Copynumber: 2.2 Consensus size: 43
47763098 AATCGTATAG
* *
47763108 ATGTATGTATAATTTAAGATTATAAAATATATATAAAGAATCT
1 ATGTATGTATAATATAAGATTATAAAATATATATAAAGAATAT
*
47763151 ATGTATGTAT-ATAT-ATATTATAAAATATATATAAA-AA-AT
1 ATGTATGTATAATATAAGATTATAAAATATATATAAAGAATAT
47763190 ATGTATG
1 ATGTATG
47763197 AAAATAAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
39 8 0.19
40 2 0.05
41 20 0.47
42 3 0.07
43 10 0.23
ACGTcount: A:0.49, C:0.01, G:0.09, T:0.40
Consensus pattern (43 bp):
ATGTATGTATAATATAAGATTATAAAATATATATAAAGAATAT
Found at i:47764336 original size:40 final size:42
Alignment explanation
Indices: 47764262--47764344 Score: 125
Period size: 40 Copynumber: 2.0 Consensus size: 42
47764252 TGAGATTGAT
*
47764262 TCTTAAGAAATAAAAAAGGAATGAATAAGTAAATAAATGGAGA
1 TCTTAAGAAATAAAAAA-GAATAAATAAGTAAATAAATGGAGA
*
47764305 TCTTGAGAAAT-AAAAA-AATAAATAAGTAAATAAATGGAGA
1 TCTTAAGAAATAAAAAAGAATAAATAAGTAAATAAATGGAGA
47764345 GCAAGCAGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
40 23 0.61
42 5 0.13
43 10 0.26
ACGTcount: A:0.59, C:0.02, G:0.17, T:0.22
Consensus pattern (42 bp):
TCTTAAGAAATAAAAAAGAATAAATAAGTAAATAAATGGAGA
Found at i:47765333 original size:22 final size:22
Alignment explanation
Indices: 47765308--47765388 Score: 90
Period size: 22 Copynumber: 3.7 Consensus size: 22
47765298 ACCACACCAG
* *
47765308 TAGGCACCAAAGTGCTGAGCAG
1 TAGGCACCAAAGTGCTGAACAA
**
47765330 TAGGCACTGAAGTGCTGAACAA
1 TAGGCACCAAAGTGCTGAACAA
** *
47765352 TAGGCACTGAAGTGCTAAACAA
1 TAGGCACCAAAGTGCTGAACAA
*
47765374 TAGGCACCATAGTGC
1 TAGGCACCAAAGTGC
47765389 AAACAGTGGC
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (22 bp):
TAGGCACCAAAGTGCTGAACAA
Found at i:47769402 original size:28 final size:28
Alignment explanation
Indices: 47769362--47769418 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
47769352 GCCAGCCCCC
47769362 TAGAATCGCCTCTGGATAAAATGATAAT
1 TAGAATCGCCTCTGGATAAAATGATAAT
47769390 TAGAATCGCCTCTGGATAAAATGATAAT
1 TAGAATCGCCTCTGGATAAAATGATAAT
47769418 T
1 T
47769419 TTATATAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (28 bp):
TAGAATCGCCTCTGGATAAAATGATAAT
Found at i:47770219 original size:31 final size:29
Alignment explanation
Indices: 47770149--47770222 Score: 85
Period size: 31 Copynumber: 2.5 Consensus size: 29
47770139 CTCTCGGGTT
* *
47770149 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTACGTTTGAAATGTA
* * *
47770178 ACGTTTTAGTCACTTACGTTAATGTAGTGTA
1 ACATTTTAGTCACTTACGTT--TGAAATGTA
47770209 ACATTTTAGTCACT
1 ACATTTTAGTCACT
47770223 GAGCTGTTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 18 0.49
31 19 0.51
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.45
Consensus pattern (29 bp):
ACATTTTAGTCACTTACGTTTGAAATGTA
Found at i:47781329 original size:13 final size:13
Alignment explanation
Indices: 47781295--47781332 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
47781285 AAAAAAGTGC
* *
47781295 TTTTAAAAAATAT
1 TTTTAAAAATTTT
47781308 TTTT-AAAATTTT
1 TTTTAAAAATTTT
47781320 TTTTAAAAATTTT
1 TTTTAAAAATTTT
47781333 AGTTTAAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TTTTAAAAATTTT
Found at i:47781544 original size:30 final size:30
Alignment explanation
Indices: 47781483--47781575 Score: 77
Period size: 30 Copynumber: 3.1 Consensus size: 30
47781473 ATTATAAATT
* *
47781483 ATTTTTAATATTTTAATATATTAAATATAA
1 ATTTTAAATATTTTAATATATAAAATATAA
47781513 ATTTTAAATATTTTAAGTA-ATAAACAT-TAA
1 ATTTTAAATATTTTAA-TATATAAA-ATATAA
* * *
47781543 ATATTTATAA-AATTTAAT-TAGAATATATAA
1 AT-TTTA-AATATTTTAATATATAAAATATAA
47781573 ATT
1 ATT
47781576 ATATTTTAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
29 3 0.06
30 33 0.63
31 14 0.27
32 2 0.04
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.47
Consensus pattern (30 bp):
ATTTTAAATATTTTAATATATAAAATATAA
Found at i:47788296 original size:17 final size:15
Alignment explanation
Indices: 47788284--47788314 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
47788274 AAAAAGAATT
47788284 TATTTAAAAAAAGTA
1 TATTTAAAAAAAGTA
47788299 TATTTAAAAAAAGTA
1 TATTTAAAAAAAGTA
47788314 T
1 T
47788315 TGTAAAATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (15 bp):
TATTTAAAAAAAGTA
Found at i:47788315 original size:13 final size:14
Alignment explanation
Indices: 47788284--47788321 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
47788274 AAAAAGAATT
47788284 TATTTAAAAAAAGTA
1 TATTTAAAAAAAG-A
47788299 TATTTAAAAAAAG-
1 TATTTAAAAAAAGA
47788312 TATTGTAAAA
1 TATT-TAAAA
47788322 TGGTTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.18
14 5 0.23
15 13 0.59
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (14 bp):
TATTTAAAAAAAGA
Found at i:47789760 original size:9 final size:9
Alignment explanation
Indices: 47789748--47789789 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
47789738 AAATTGTAAA
47789748 AAAATATAT
1 AAAATATAT
47789757 AAAATATAT
1 AAAATATAT
47789766 AAAATAT-T
1 AAAATATAT
*
47789774 AGAAA-ATGT
1 A-AAATATAT
47789783 AAAATAT
1 AAAATAT
47789790 TGTAAAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 7 0.23
9 23 0.77
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (9 bp):
AAAATATAT
Found at i:47790060 original size:11 final size:11
Alignment explanation
Indices: 47790044--47790075 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
47790034 CTCTAAAATT
47790044 CTCTCAATTTC
1 CTCTCAATTTC
*
47790055 CTCTCAATTTT
1 CTCTCAATTTC
47790066 CTCTCAATTT
1 CTCTCAATTT
47790076 GCCCTGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.19, C:0.31, G:0.00, T:0.50
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:47790070 original size:22 final size:22
Alignment explanation
Indices: 47790042--47790094 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
47790032 TTCTCTAAAA
*
47790042 TTCTCTCAATTT-CCTCTCAATT
1 TTCTCTCAATTTGCC-CTCAAAT
*
47790064 TTCTCTCAATTTGCCCTGAAAT
1 TTCTCTCAATTTGCCCTCAAAT
47790086 TTCTCTCAA
1 TTCTCTCAA
47790095 ATCCCTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 26 0.93
23 2 0.07
ACGTcount: A:0.21, C:0.30, G:0.04, T:0.45
Consensus pattern (22 bp):
TTCTCTCAATTTGCCCTCAAAT
Found at i:47791282 original size:7 final size:7
Alignment explanation
Indices: 47791270--47791295 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
47791260 TAGTCGATTG
47791270 GTATTTA
1 GTATTTA
47791277 GTATTTA
1 GTATTTA
47791284 GTATTTA
1 GTATTTA
47791291 GTATT
1 GTATT
47791296 ATGTATTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:47791857 original size:30 final size:30
Alignment explanation
Indices: 47791804--47791870 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
47791794 ACGCAAACCT
* * *
47791804 ATCAACAAGGCCCAGACATTCACCCGGCCC
1 ATCAACAACGCCCAGACAATCACCAGGCCC
* *
47791834 ATCATCAACGCCCATACAATCACCAGGCCC
1 ATCAACAACGCCCAGACAATCACCAGGCCC
*
47791864 AGCAACA
1 ATCAACA
47791871 GCACCGACAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.34, C:0.42, G:0.13, T:0.10
Consensus pattern (30 bp):
ATCAACAACGCCCAGACAATCACCAGGCCC
Found at i:47791972 original size:18 final size:18
Alignment explanation
Indices: 47791949--47791990 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
47791939 GCGAGATGCA
* *
47791949 TATCCTAGCCCTTTTATG
1 TATCCTAACCCTTATATG
47791967 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
*
47791985 TTTCCT
1 TATCCT
47791991 TTTTCGAGTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.19, C:0.29, G:0.07, T:0.45
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:47792277 original size:21 final size:21
Alignment explanation
Indices: 47792253--47792292 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
47792243 ATACCAGAGG
* * *
47792253 AACCAGAATCCCTGCTGGAGC
1 AACCACAACCCCTACTGGAGC
47792274 AACCACAACCCCTACTGGA
1 AACCACAACCCCTACTGGA
47792293 AGCTGGACAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.38, G:0.17, T:0.12
Consensus pattern (21 bp):
AACCACAACCCCTACTGGAGC
Found at i:47797324 original size:24 final size:22
Alignment explanation
Indices: 47797271--47797325 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 22
47797261 TTTTCCTGAC
*
47797271 TCTTTTATTTGTTTGTCATTTT
1 TCTTTTTTTTGTTTGTCATTTT
*
47797293 TCGTTTTTTTTTGTTTTTCATTATT
1 TC--TTTTTTTTGTTTGTCATT-TT
47797318 TACTTTTT
1 T-CTTTTT
47797326 CAGTTATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
22 2 0.07
24 21 0.78
25 3 0.11
26 1 0.04
ACGTcount: A:0.09, C:0.09, G:0.07, T:0.75
Consensus pattern (22 bp):
TCTTTTTTTTGTTTGTCATTTT
Found at i:47797326 original size:15 final size:16
Alignment explanation
Indices: 47797306--47797335 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
47797296 TTTTTTTTTG
47797306 TTTTTCA-TTATTTAC
1 TTTTTCAGTTATTTAC
47797321 TTTTTCAGTTATTTA
1 TTTTTCAGTTATTTA
47797336 TTTATTTGTC
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:0.20, C:0.10, G:0.03, T:0.67
Consensus pattern (16 bp):
TTTTTCAGTTATTTAC
Found at i:47797432 original size:23 final size:22
Alignment explanation
Indices: 47797368--47797436 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 22
47797358 TTATTGGTTT
*
47797368 TATAATATTTTAAATGTTTTATAA
1 TATAA-ATTTTAAATATTTTA-AA
**
47797392 TATTATTTTTTAAA-ATTTTAAA
1 TA-TAAATTTTAAATATTTTAAA
47797414 TATAAATTTTAAATTATTTTAAA
1 TATAAATTTTAAA-TATTTTAAA
47797437 AAAAATTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
21 9 0.24
22 4 0.11
23 13 0.35
24 9 0.24
25 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (22 bp):
TATAAATTTTAAATATTTTAAA
Found at i:47797442 original size:22 final size:21
Alignment explanation
Indices: 47797399--47797443 Score: 56
Period size: 23 Copynumber: 2.1 Consensus size: 21
47797389 TAATATTATT
*
47797399 TTTTAAAATTTTAAATATAAA
1 TTTTAAAATTTTAAATAAAAA
47797420 TTTTAAATTATTTTAAA-AAAAA
1 TTTTAAA--ATTTTAAATAAAAA
47797442 TT
1 TT
47797444 AAATATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
22 6 0.29
23 8 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTTAAAATTTTAAATAAAAA
Found at i:47797613 original size:23 final size:22
Alignment explanation
Indices: 47797587--47797636 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
47797577 ACTTTTAAAG
* *
47797587 ATATTCAAACTTTTTAAAAAATT
1 ATATTCAAA-ATTTTAAAAAATA
*
47797610 ATATTTAAAATTTTAAAAAATA
1 ATATTCAAAATTTTAAAAAATA
47797632 ATATT
1 ATATT
47797637 TTATTTGGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (22 bp):
ATATTCAAAATTTTAAAAAATA
Done.