Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 27 of 325
Found at i:6257537 original size:21 final size:22
Alignment explanation
Indices: 6257502--6257543 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
6257492 TTTCCCTCAA
6257502 ATTTTTACTCCCTAAAACTTTTT
1 ATTTTTACTCCCT-AAACTTTTT
6257525 ATTTTT-C-CCCTAAACTTTT
1 ATTTTTACTCCCTAAACTTTT
6257544 ACTTACCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.42
21 4 0.21
22 1 0.05
23 6 0.32
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTTTACTCCCTAAACTTTTT
Found at i:6257682 original size:17 final size:17
Alignment explanation
Indices: 6257628--6257708 Score: 71
Period size: 17 Copynumber: 4.6 Consensus size: 17
6257618 TTGTATCTAC
6257628 TATTTATATTATTGAAT
1 TATTTATATTATTGAAT
*
6257645 TAAATTTTACATT-TT-ATAT
1 T--A-TTTATATTATTGA-AT
6257664 TATTTATATTATTGAAT
1 TATTTATATTATTGAAT
6257681 TATTTAGTCA-TATTGAA-
1 TATTTA-T-ATTATTGAAT
6257698 TATTTATATTA
1 TATTTATATTA
6257709 AAATTGAATT
Statistics
Matches: 53, Mismatches: 2, Indels: 19
0.72 0.03 0.26
Matches are distributed among these distances:
15 1 0.02
16 10 0.19
17 18 0.34
18 10 0.19
19 7 0.13
20 7 0.13
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (17 bp):
TATTTATATTATTGAAT
Found at i:6259891 original size:6 final size:6
Alignment explanation
Indices: 6259880--6259904 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6259870 ATTGAATTAC
6259880 TTAGAA TTAGAA TTAGAA TTAGAA T
1 TTAGAA TTAGAA TTAGAA TTAGAA T
6259905 CAAATTGGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (6 bp):
TTAGAA
Found at i:6261452 original size:15 final size:16
Alignment explanation
Indices: 6261425--6261454 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6261415 TAAATTTTTT
6261425 TATAAATTTTAAAATA
1 TATAAATTTTAAAATA
6261441 TATAAA-TTTAAAAT
1 TATAAATTTTAAAAT
6261455 TTTTATAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TATAAATTTTAAAATA
Found at i:6261583 original size:9 final size:9
Alignment explanation
Indices: 6261569--6261607 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
6261559 ACTCCAATCT
6261569 ATTATTCGA
1 ATTATTCGA
*
6261578 ATTATTCAA
1 ATTATTCGA
6261587 ATTATTC-A
1 ATTATTCGA
6261595 AGTTATTCGA
1 A-TTATTCGA
6261605 ATT
1 ATT
6261608 GTACAATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
8 2 0.07
9 23 0.85
10 2 0.07
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.46
Consensus pattern (9 bp):
ATTATTCGA
Found at i:6265157 original size:21 final size:21
Alignment explanation
Indices: 6265131--6265184 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
6265121 AACAGGGCAC
6265131 ACACGCCCGTGTGAATC-TGGG
1 ACACGCCCGTGTG-ATCTTGGG
* *
6265152 ACACGCCCTTGTGGTCTTGGG
1 ACACGCCCGTGTGATCTTGGG
*
6265173 ACACACCCGTGT
1 ACACGCCCGTGT
6265185 CTCAAACCGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 2 0.07
21 26 0.93
ACGTcount: A:0.17, C:0.31, G:0.30, T:0.22
Consensus pattern (21 bp):
ACACGCCCGTGTGATCTTGGG
Found at i:6266613 original size:37 final size:37
Alignment explanation
Indices: 6266565--6266645 Score: 126
Period size: 37 Copynumber: 2.2 Consensus size: 37
6266555 ATAATCACAT
* **
6266565 ATTTACATGTCATTTTTCAATATATCAAGTAAATATC
1 ATTTCCATGTCACGTTTCAATATATCAAGTAAATATC
*
6266602 ATTTCCATGTCACGTTTCAATATATCAAGTATATATC
1 ATTTCCATGTCACGTTTCAATATATCAAGTAAATATC
6266639 ATTTCCA
1 ATTTCCA
6266646 AATATTTCAG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.35, C:0.17, G:0.06, T:0.42
Consensus pattern (37 bp):
ATTTCCATGTCACGTTTCAATATATCAAGTAAATATC
Found at i:6267569 original size:45 final size:45
Alignment explanation
Indices: 6267520--6267605 Score: 118
Period size: 45 Copynumber: 1.9 Consensus size: 45
6267510 TTTCAATTCT
* * *
6267520 TAATTTAACAATATTCCATTTCTCAACAATATATTAAATACATAA
1 TAATTTAACAACATACCATTTCTCAACAATATACTAAATACATAA
* * *
6267565 TAATTTAACAACATACTATTTTTCAACAATGTACTAAATAC
1 TAATTTAACAACATACCATTTCTCAACAATATACTAAATAC
6267606 GTATTAACAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.45, C:0.16, G:0.01, T:0.37
Consensus pattern (45 bp):
TAATTTAACAACATACCATTTCTCAACAATATACTAAATACATAA
Found at i:6275140 original size:23 final size:20
Alignment explanation
Indices: 6275113--6275173 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
6275103 GCTTTGCCGA
6275113 TCAGGCACTTTATGTGTCATATT
1 TCAGGCAC-TTATGTGTC--ATT
** *
6275136 TCAGGCACCTCGTGTGTCGTT
1 TCAGGCA-CTTATGTGTCATT
6275157 TCAGGCACTTATGTGTC
1 TCAGGCACTTATGTGTC
6275174 GTATACTGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 8 0.25
21 9 0.28
23 14 0.44
24 1 0.03
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (20 bp):
TCAGGCACTTATGTGTCATT
Found at i:6277557 original size:26 final size:26
Alignment explanation
Indices: 6277520--6277653 Score: 232
Period size: 26 Copynumber: 5.2 Consensus size: 26
6277510 TGATACAAAT
* *
6277520 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6277546 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* *
6277572 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6277598 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6277624 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
6277650 TGAT
1 TGAT
6277654 TAGAATATCA
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 102 1.00
ACGTcount: A:0.32, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:6279727 original size:137 final size:137
Alignment explanation
Indices: 6279440--6279714 Score: 541
Period size: 137 Copynumber: 2.0 Consensus size: 137
6279430 GAGTAGTCTC
*
6279440 CCCAAATGGGCTTGCATATGTTTACTGATGTTGTATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
6279505 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
6279570 ACTGTTA
131 ACTGTTA
6279577 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
6279642 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
6279707 ACTGTTA
131 ACTGTTA
6279714 C
1 C
6279715 TTGAATGGGC
Statistics
Matches: 137, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 137 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:6284088 original size:19 final size:21
Alignment explanation
Indices: 6284064--6284104 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
6284054 AGAGTATTTA
6284064 AAAG-AATGAATAAAAA-AAT
1 AAAGAAATGAATAAAAATAAT
*
6284083 AAAGAAATGAGTAAAAATAAT
1 AAAGAAATGAATAAAAATAAT
6284104 A
1 A
6284105 TACATAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 11 0.58
21 4 0.21
ACGTcount: A:0.71, C:0.00, G:0.12, T:0.17
Consensus pattern (21 bp):
AAAGAAATGAATAAAAATAAT
Found at i:6286505 original size:54 final size:54
Alignment explanation
Indices: 6286388--6286566 Score: 288
Period size: 54 Copynumber: 3.3 Consensus size: 54
6286378 GAAAAGTAGA
* *
6286388 TTTTGAAAAACAAAAATTAAAGGGCTCAACTCACCTCTCGCAATATGAGTTGA-
1 TTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
*
6286441 TTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATTAGTTGAT
1 TTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* *
6286495 TTTTGAAAAACAGAAATTAAAATGCTCAACTCACCTCTCGCAATATGAGTCGAT
1 TTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
**
6286549 TTTTGGCAAACAGAAATT
1 TTTTGAAAAACAGAAATT
6286567 GAAATTACCT
Statistics
Matches: 117, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
53 50 0.43
54 67 0.57
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.28
Consensus pattern (54 bp):
TTTTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
Found at i:6286658 original size:76 final size:74
Alignment explanation
Indices: 6286518--6286787 Score: 352
Period size: 73 Copynumber: 3.7 Consensus size: 74
6286508 AAATTAAAAT
* ** * *
6286518 GCTCAACTCACCTCTCGCAATATGAGTCGA-TTTTTGGCAAACAGAAATTGAAATTACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTGAAAATACCTCAGCG
*
6286582 TGTCCTGAG
66 TGACCTGAG
* *
6286591 GCTCAACTCACCTCTTGCAATATGAGTTGACTTTTTTTGAAAAGCAAAAATTGAAAATACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAAAACAAAAATTGAAAATACCTCAG
*
6286656 CGTGCCCTGAG
64 CGTGACCTGAG
* *
6286667 GCTCAACTCA-CTCCTCGCAATATAAGTTGA-TTTTTGAAAAACAGAAATTGAAAATACCTCAGC
1 GCTCAACTCACCT-CTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTGAAAATACCTCAGC
6286730 GT-ACCTTGAG
65 GTGACC-TGAG
* *
6286740 GCTCAGCTCACCTCTTGCAATATGAGTTGATTTTTT-AAAAACAAAAAT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAAT
6286788 AAAAACATCA
Statistics
Matches: 173, Mismatches: 17, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
72 2 0.01
73 100 0.58
74 7 0.04
75 2 0.01
76 62 0.36
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (74 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAAAAATTGAAAATACCTCAGCG
TGACCTGAG
Found at i:6287656 original size:7 final size:7
Alignment explanation
Indices: 6287639--6287679 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
6287629 CTTGATCCCT
6287639 TTTTTTC
1 TTTTTTC
6287646 -TTTTTC
1 TTTTTTC
6287652 TTTTTTC
1 TTTTTTC
*
6287659 TTTTATC
1 TTTTTTC
6287666 TTTTTTC
1 TTTTTTC
6287673 ATTTTTT
1 -TTTTTT
6287680 TAGATGCCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
6 6 0.20
7 18 0.60
8 6 0.20
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTTC
Found at i:6287672 original size:14 final size:13
Alignment explanation
Indices: 6287639--6287678 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 13
6287629 CTTGATCCCT
6287639 TTTTTTCTTTTTC
1 TTTTTTCTTTTTC
6287652 TTTTTTCTTTTATC
1 TTTTTTCTTTT-TC
6287666 TTTTTTCATTTTT
1 TTTTTTC-TTTTT
6287679 TTAGATGCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 11 0.44
14 10 0.40
15 4 0.16
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTTCTTTTTC
Found at i:6305227 original size:5 final size:5
Alignment explanation
Indices: 6305217--6305270 Score: 54
Period size: 5 Copynumber: 10.2 Consensus size: 5
6305207 GCTTAATCCT
* * *
6305217 AAATA AAATA AAATAA AAATAA ATAATA TAACA AAATA AAACA AAATA
1 AAATA AAATA AAAT-A AAAT-A A-AATA AAATA AAATA AAATA AAATA
6305265 AAATA A
1 AAATA A
6305271 TATCTTCTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
5 29 0.71
6 9 0.22
7 3 0.07
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:6305252 original size:23 final size:23
Alignment explanation
Indices: 6305226--6305270 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
6305216 TAAATAAAAT
*
6305226 AAAATAAAA-ATAAATAATATAAC
1 AAAATAAAACA-AAATAAAATAAC
6305249 AAAATAAAACAAAATAAAATAA
1 AAAATAAAACAAAATAAAATAA
6305271 TATCTTCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 19 0.95
24 1 0.05
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (23 bp):
AAAATAAAACAAAATAAAATAAC
Found at i:6308892 original size:13 final size:13
Alignment explanation
Indices: 6308874--6308901 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6308864 GCTCGACAGG
6308874 GACACGCCCGTGT
1 GACACGCCCGTGT
6308887 GACACGCCCGTGT
1 GACACGCCCGTGT
6308900 GA
1 GA
6308902 GGTGGCTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.18, C:0.36, G:0.32, T:0.14
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:6313376 original size:14 final size:14
Alignment explanation
Indices: 6313359--6313389 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6313349 AAAATCACAA
6313359 AAAAAAAACAGAGG
1 AAAAAAAACAGAGG
*
6313373 AAAAAATACAGAGG
1 AAAAAAAACAGAGG
6313387 AAA
1 AAA
6313390 TTTAAAGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.71, C:0.06, G:0.19, T:0.03
Consensus pattern (14 bp):
AAAAAAAACAGAGG
Found at i:6314025 original size:115 final size:112
Alignment explanation
Indices: 6313890--6314110 Score: 320
Period size: 115 Copynumber: 1.9 Consensus size: 112
6313880 GATACTAAAC
*
6313890 TATTTAACACATTTTATATAAATTAATTTAATATTTTATAATAAATTATGTTAAGATATCTTATT
1 TATTTAACACATTTTATATAAATTAATTTAATATTTTATAATAAAATAT-TTAAGATATCTTATT
* *
6313955 T-TATATTTTCTTAAAATTGAAAATAATAT-TTTATATTAATATTATTAACA
65 TGTATA-TTTATGAAAATTGAAAAT-AT-TGTTTATATTAA-ATTATTAACA
* * *
6314005 TATTTAACATATTTTATATAAATTAATTTCATATTTTATAATAAAATATTTAAGATATTTTATTT
1 TATTTAACACATTTTATATAAATTAATTTAATATTTTATAATAAAATATTTAAGATATCTTATTT
*
6314070 GTATATTTATGAAATTTGAAAATATTGTTTATATTAAATTA
66 GTATATTTATGAAAATTGAAAATATTGTTTATATTAAATTA
6314111 CATTAAAATA
Statistics
Matches: 97, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
112 5 0.05
113 12 0.12
114 30 0.31
115 50 0.52
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (112 bp):
TATTTAACACATTTTATATAAATTAATTTAATATTTTATAATAAAATATTTAAGATATCTTATTT
GTATATTTATGAAAATTGAAAATATTGTTTATATTAAATTATTAACA
Found at i:6314062 original size:24 final size:23
Alignment explanation
Indices: 6313996--6314067 Score: 78
Period size: 22 Copynumber: 3.2 Consensus size: 23
6313986 TATATTAATA
*
6313996 TTAT-TAACATATTTAACATATT
1 TTATATAAAATATTTAACATATT
*
6314018 TTATATAAATTAATTT--CATATT
1 TTATATAAAAT-ATTTAACATATT
*
6314040 TTATAATAAAATATTTAAGATATT
1 TTAT-ATAAAATATTTAACATATT
6314064 TTAT
1 TTAT
6314068 TTGTATATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
22 18 0.44
23 10 0.24
24 13 0.32
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.51
Consensus pattern (23 bp):
TTATATAAAATATTTAACATATT
Found at i:6314207 original size:6 final size:6
Alignment explanation
Indices: 6314196--6314221 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
6314186 CATATGTTGG
6314196 ATTGCT ATTGCT ATTGCT ATTGCT AT
1 ATTGCT ATTGCT ATTGCT ATTGCT AT
6314222 GATGTGTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.50
Consensus pattern (6 bp):
ATTGCT
Found at i:6318409 original size:13 final size:14
Alignment explanation
Indices: 6318393--6318434 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
6318383 TTTTAATTTT
6318393 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
6318406 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
6318421 ATTTTAAATAATAT
1 ATTTT-AATAATAT
6318435 TCTTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:6318419 original size:16 final size:16
Alignment explanation
Indices: 6318397--6318433 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
6318387 AATTTTATTT
6318397 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
6318414 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
6318429 TAATA
1 TAATA
6318434 TTCTTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:6318510 original size:15 final size:17
Alignment explanation
Indices: 6318462--6318514 Score: 56
Period size: 19 Copynumber: 3.1 Consensus size: 17
6318452 AAATACTCTA
*
6318462 ATATTCTAATAATAAAT
1 ATATTATAATAATAAAT
*
6318479 ATTTATTATAATTATAAAT
1 A--TATTATAATAATAAAT
6318498 ATA-T-TAATAATAAAT
1 ATATTATAATAATAAAT
6318513 AT
1 AT
6318515 TTTTTAGTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 12 0.39
16 1 0.03
17 3 0.10
19 15 0.48
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
ATATTATAATAATAAAT
Found at i:6319081 original size:37 final size:36
Alignment explanation
Indices: 6319035--6319127 Score: 105
Period size: 37 Copynumber: 2.5 Consensus size: 36
6319025 TTTTAATTTC
* * *
6319035 AAATATAGTTTTACTTTTACCTTTACTTTTATATATT
1 AAATGTAGTTTTAATTTTA-CTTTAATTTTATATATT
* *
6319072 AAATGTAGTTTATAATTTTATTTTAATTTTATATCTT
1 AAATGTAGTTT-TAATTTTACTTTAATTTTATATATT
* *
6319109 ATATGTAATTTTAATTTTA
1 AAATGTAGTTTTAATTTTA
6319128 ATGCCTAAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
36 8 0.17
37 33 0.69
38 7 0.15
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.58
Consensus pattern (36 bp):
AAATGTAGTTTTAATTTTACTTTAATTTTATATATT
Found at i:6319258 original size:21 final size:20
Alignment explanation
Indices: 6319233--6319291 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
6319223 TCCTTTTACC
6319233 TATTTATC-ATTATATTTAATA
1 TATTTATCTATT-TATTT-ATA
*
6319254 TATTTACCTATTTATTTATA
1 TATTTATCTATTTATTTATA
* * *
6319274 TAATTATTTATGTATTTA
1 TATTTATCTATTTATTTA
6319292 ATTGTAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 17 0.53
21 12 0.38
22 3 0.09
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (20 bp):
TATTTATCTATTTATTTATA
Found at i:6322926 original size:46 final size:46
Alignment explanation
Indices: 6322850--6323164 Score: 461
Period size: 46 Copynumber: 6.8 Consensus size: 46
6322840 TGATGTCATA
* * * * *
6322850 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATATCAGGTTGCCATG
* *** *
6322896 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGTTGCCATG
*
6322943 GTATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *
6322989 GTATCTTTCAACCATGGTCTTATTCATTTCATATCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
*
6323035 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
*
6323081 GTATCTTTCAACCATGGTCTTACGCATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
*
6323127 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGG
6323165 GAGCACACTC
Statistics
Matches: 250, Mismatches: 17, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
46 211 0.84
47 39 0.16
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.41
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
Found at i:6326629 original size:15 final size:15
Alignment explanation
Indices: 6326609--6326649 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
6326599 TTTTTTTTAT
6326609 TATTTTAATATTAAA
1 TATTTTAATATTAAA
*
6326624 TATTTTAAAATTAAA
1 TATTTTAATATTAAA
*
6326639 TATATTAATAT
1 TATTTTAATAT
6326650 AACTGAGTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TATTTTAATATTAAA
Found at i:6327896 original size:19 final size:19
Alignment explanation
Indices: 6327872--6327911 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
6327862 TGTGAAAACG
6327872 ACGTCAAAGAATTATTAAA
1 ACGTCAAAGAATTATTAAA
* *
6327891 ACGTCACAGAGTTATTAAA
1 ACGTCAAAGAATTATTAAA
6327910 AC
1 AC
6327912 TTTCACTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.25
Consensus pattern (19 bp):
ACGTCAAAGAATTATTAAA
Found at i:6332161 original size:7 final size:7
Alignment explanation
Indices: 6332149--6332191 Score: 59
Period size: 7 Copynumber: 5.7 Consensus size: 7
6332139 TCAATTAATC
6332149 TTTTATA
1 TTTTATA
6332156 TTTTATA
1 TTTTATA
6332163 TTTTATATA
1 -TTT-TATA
6332172 TTTTTATA
1 -TTTTATA
6332180 TTTTATA
1 TTTTATA
6332187 TTTTA
1 TTTTA
6332192 AATTATTTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 19 0.56
8 7 0.21
9 8 0.24
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTTATA
Found at i:6332178 original size:10 final size:9
Alignment explanation
Indices: 6332159--6332187 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
6332149 TTTTATATTT
6332159 TATATTTTA
1 TATATTTTA
6332168 TATATTTT-
1 TATATTTTA
6332176 TATATTTTA
1 TATATTTTA
6332185 TAT
1 TAT
6332188 TTTAAATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TATATTTTA
Found at i:6332178 original size:17 final size:16
Alignment explanation
Indices: 6332152--6332187 Score: 63
Period size: 17 Copynumber: 2.2 Consensus size: 16
6332142 ATTAATCTTT
6332152 TATATTTTATATTTTA
1 TATATTTTATATTTTA
6332168 TATATTTTTATATTTTA
1 TATA-TTTTATATTTTA
6332185 TAT
1 TAT
6332188 TTTAAATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TATATTTTATATTTTA
Found at i:6332198 original size:17 final size:17
Alignment explanation
Indices: 6332149--6332199 Score: 63
Period size: 15 Copynumber: 3.2 Consensus size: 17
6332139 TCAATTAATC
6332149 TTTTATATTTTATATT-
1 TTTTATATTTTATATTA
*
6332165 TTATATATTTT-TA-TA
1 TTTTATATTTTATATTA
*
6332180 TTTTATATTTTAAATTA
1 TTTTATATTTTATATTA
6332197 TTT
1 TTT
6332200 AGTAATGAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 1 0.03
15 12 0.41
16 11 0.38
17 5 0.17
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTATATTTTATATTA
Found at i:6335945 original size:24 final size:24
Alignment explanation
Indices: 6335913--6335981 Score: 120
Period size: 24 Copynumber: 2.9 Consensus size: 24
6335903 GGTAACTTGT
*
6335913 TGTCAATTCATCCTTTACATTTTC
1 TGTCAATTCATCATTTACATTTTC
6335937 TGTCAATTCATCATTTACATTTTC
1 TGTCAATTCATCATTTACATTTTC
*
6335961 CGTCAATTCATCATTTACATT
1 TGTCAATTCATCATTTACATT
6335982 CATAGTGCCA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.25, C:0.23, G:0.04, T:0.48
Consensus pattern (24 bp):
TGTCAATTCATCATTTACATTTTC
Found at i:6336038 original size:33 final size:32
Alignment explanation
Indices: 6336001--6336147 Score: 116
Period size: 33 Copynumber: 4.4 Consensus size: 32
6335991 ATAACCTAGT
6336001 TATGGTCTTATCATCAGAATGCCATAGCTCAGC
1 TATGGTCTTA-CATCAGAATGCCATAGCTCAGC
* * * *
6336034 TATGGTCTTACATATAAACACTGCCAT-GGTCCAAC
1 TATGGTCTTACAT-CAGA-A-TGCCATAGCT-CAGC
* * * * * *
6336069 CATGGTCTTACGTTCATAGTGCCATAACTCAGT
1 TATGGTCTTAC-ATCAGAATGCCATAGCTCAGC
* *
6336102 TATGGTCTTATCACCAGAATGCCATAGCCCAGC
1 TATGGTCTTA-CATCAGAATGCCATAGCTCAGC
6336135 TATGGTCTTACAT
1 TATGGTCTTACAT
6336148 ATAAACACTG
Statistics
Matches: 85, Mismatches: 22, Indels: 15
0.70 0.18 0.12
Matches are distributed among these distances:
32 5 0.06
33 53 0.62
34 5 0.06
35 21 0.25
36 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (32 bp):
TATGGTCTTACATCAGAATGCCATAGCTCAGC
Found at i:6336155 original size:101 final size:100
Alignment explanation
Indices: 6335975--6336214 Score: 408
Period size: 101 Copynumber: 2.4 Consensus size: 100
6335965 AATTCATCAT
* *
6335975 TTACATTCATAGTGCCATAACCTAGTTATGGTCTTATCATCAGAATGCCATAGCTCAGCTATGGT
1 TTACATTCATAGTGCCATAACC-AGTTATGGTCTTATCACCAGAATGCCATAGCCCAGCTATGGT
6336040 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
65 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
*
6336076 TTACGTTCATAGTGCCATAACTCAGTTATGGTCTTATCACCAGAATGCCATAGCCCAGCTATGGT
1 TTACATTCATAGTGCCATAAC-CAGTTATGGTCTTATCACCAGAATGCCATAGCCCAGCTATGGT
*
6336141 CTTACATATAAACACTGTCATGGTCCAACCATGGTC
65 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
*
6336177 TTACATTCATAGTGCCATAACCCAATTATGGTCTTATC
1 TTACATTCATAGTGCCATAA-CCAGTTATGGTCTTATC
6336215 CGTCAATTCA
Statistics
Matches: 131, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
101 129 0.98
102 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.31
Consensus pattern (100 bp):
TTACATTCATAGTGCCATAACCAGTTATGGTCTTATCACCAGAATGCCATAGCCCAGCTATGGTC
TTACATATAAACACTGCCATGGTCCAACCATGGTC
Found at i:6341634 original size:18 final size:19
Alignment explanation
Indices: 6341611--6341649 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
6341601 TCATTTTCTA
*
6341611 AACAAATA-ATTTAATTCG
1 AACAAATATATTCAATTCG
6341629 AACAAATATATTCAATTCG
1 AACAAATATATTCAATTCG
6341648 AA
1 AA
6341650 TTCAATTTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.51, C:0.13, G:0.05, T:0.31
Consensus pattern (19 bp):
AACAAATATATTCAATTCG
Found at i:6342283 original size:28 final size:27
Alignment explanation
Indices: 6342252--6342310 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 27
6342242 TTAATTTAGT
6342252 AAATAATAAAATTATACTTTAA-TTCTTA
1 AAATAATAAAATTA-A-TTTAAGTTCTTA
** *
6342280 AAATGCTAAAATTAATTTAAGTTTTTA
1 AAATAATAAAATTAATTTAAGTTCTTA
6342307 AAAT
1 AAAT
6342311 TTATAAAGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 5 0.19
27 10 0.37
28 12 0.44
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.42
Consensus pattern (27 bp):
AAATAATAAAATTAATTTAAGTTCTTA
Found at i:6342909 original size:46 final size:46
Alignment explanation
Indices: 6342804--6342937 Score: 137
Period size: 46 Copynumber: 2.9 Consensus size: 46
6342794 TTTTTAATTT
* * ** *
6342804 TGGCCTTCTAATAGCCGGCACCAGACT-TAAAAGAAAAAAATTGTTC
1 TGGCCTTATAATGGCCAACACCAGACTGTAAAA-AAAAAAATGGTTC
*
6342850 TGGCCTTATAATGGCCAACATCAGACTGTAAAAAAAAAAATGGTTC
1 TGGCCTTATAATGGCCAACACCAGACTGTAAAAAAAAAAATGGTTC
* * * *
6342896 TGGCCTT-TGAATGGTCAGCACCACATTGTAAAAAACAAAAAT
1 TGGCCTTAT-AATGGCCAACACCAGACTGTAAAAAA-AAAAAT
6342938 TGGGTGCTGG
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
45 1 0.01
46 62 0.84
47 11 0.15
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.24
Consensus pattern (46 bp):
TGGCCTTATAATGGCCAACACCAGACTGTAAAAAAAAAAATGGTTC
Found at i:6343204 original size:207 final size:198
Alignment explanation
Indices: 6342680--6343249 Score: 667
Period size: 207 Copynumber: 2.8 Consensus size: 198
6342670 ACCAGTATTT
* * *
6342680 AAAAAAAAATTGGTTCTGACCTTTGAATGGCCGTCACCACATTGTAAAAAAAAAATTT-GGTGTT
1 AAAAAAAAATTGGTTCTGGCCTTTGAATGGCCGGCACCACATTGTAAAAAAAAAATTTGGGTGCT
* ** * *
6342744 GGCATGTAGATGGCCGACACTAGTACAATTTTCGTGTCCCGATGCAAAATTTTTTAATTTTGGCC
66 GGCCTGTAGAT-GCCGACACTAGTACTTTTTTCGTGTCCCGATGCAAATTTTTTTACTTTTGGCC
* * * *
6342809 TTCTAATAGCCGGCACCAGACTTAAAAGAAAAAAATTGTTCTGGCCTTATAATGGCCAACATCAG
130 TTCTAATAGCCGACACCAGACTT-AAA-AAAAAAATTGTTCTGGCATTATAAAGGCCAACACCAG
*
6342874 ACTGTA
193 ACTATA
* * * *
6342880 AAAAAAAAAATGGTTCTGGCCTTTGAATGGTCAGCACCACATTGTAAAAAACAAAAATTGGGTGC
1 AAAAAAAAATTGGTTCTGGCCTTTGAATGGCCGGCACCACATTGTAAAAAA-AAAATTTGGGTGC
* *
6342945 TGGCCTGTAGATGGCTGGCACTAGTACTTTTTTCGTGTCCCGATGCAAATTTTTTTACTTTTGGC
65 TGGCCTGTAGAT-GCCGACACTAGTACTTTTTTCGTGTCCCGATGCAAATTTTTTTACTTTTGGC
* * * * **
6343010 CTTCTAATGGCCGACATCAGACTTAAAAAAAAAATTGTTTTGGCATTGTAAAGGCCGGCACCAGA
129 CTTCTAATAGCCGACACCAGACTTAAAAAAAAAATTGTTCTGGCATTATAAAGGCCAACACCAGA
6343075 CTATA
194 CTATA
* * * *
6343080 AAAAATATATATATTTTTGGTTTTGGCCTTTAAATGGCCGGCACCATACTAT-TAAAAAAAAATT
1 AAAAA-A-A-A-A---TTGGTTCTGGCCTTTGAATGGCCGGCACCACA-T-TGTAAAAAAAAAAT
* * * * *
6343144 TTGGGTGCTGGCCTGTAGATAGTCGACGCTAGTACTTTTTTCATGTCCCAATGTAAATTTTTTTA
57 TTGGGTGCTGGCCTGTAGAT-GCCGACACTAGTACTTTTTTCGTGTCCCGATGCAAATTTTTTTA
**
6343209 CTTTTGGTGTTCTAATAGCCGACACCAGACTTAAAAAAAAA
121 CTTTTGGCCTTCTAATAGCCGACACCAGACTTAAAAAAAAA
6343250 TTTGGGTGCT
Statistics
Matches: 314, Mismatches: 45, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
200 86 0.27
201 10 0.03
202 84 0.27
203 1 0.00
204 1 0.00
207 123 0.39
208 8 0.03
209 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
Consensus pattern (198 bp):
AAAAAAAAATTGGTTCTGGCCTTTGAATGGCCGGCACCACATTGTAAAAAAAAAATTTGGGTGCT
GGCCTGTAGATGCCGACACTAGTACTTTTTTCGTGTCCCGATGCAAATTTTTTTACTTTTGGCCT
TCTAATAGCCGACACCAGACTTAAAAAAAAAATTGTTCTGGCATTATAAAGGCCAACACCAGACT
ATA
Found at i:6343451 original size:27 final size:27
Alignment explanation
Indices: 6343393--6343457 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
6343383 ATCATCAAAT
*
6343393 GAGTTCTTTT-TAGTGGATTGTATAAGG
1 GAGTT-TTTTGTACTGGATTGTATAAGG
* *
6343420 AAGTTTTTTGTACTGGATTGTATATGG
1 GAGTTTTTTGTACTGGATTGTATAAGG
6343447 GAGTTTTTTGT
1 GAGTTTTTTGT
6343458 GGTGTACAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 4 0.12
27 29 0.88
ACGTcount: A:0.20, C:0.03, G:0.28, T:0.49
Consensus pattern (27 bp):
GAGTTTTTTGTACTGGATTGTATAAGG
Found at i:6346713 original size:18 final size:16
Alignment explanation
Indices: 6346677--6346718 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
6346667 AATCTTTCCA
6346677 TTAAAA-TTTAATTAT
1 TTAAAATTTTAATTAT
6346692 TTAAAATTTTATATTCAT
1 TTAAAATTTTA-ATT-AT
*
6346710 TTAACATTT
1 TTAAAATTT
6346719 CATTCTATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 6 0.26
16 4 0.17
17 3 0.13
18 10 0.43
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (16 bp):
TTAAAATTTTAATTAT
Found at i:6347114 original size:22 final size:22
Alignment explanation
Indices: 6347089--6347191 Score: 104
Period size: 22 Copynumber: 4.7 Consensus size: 22
6347079 TTTAATTCCA
* *
6347089 ATTTCAATCTCAATTTCATTTC
1 ATTTCAATTTAAATTTCATTTC
* **
6347111 ATTTAAATTTCCATTTCATTTC
1 ATTTCAATTTAAATTTCATTTC
*
6347133 ATATTC-ATTATAAATTACATTTC
1 AT-TTCAATT-TAAATTTCATTTC
6347156 ATTTC-ATTTAAATTTACATTTC
1 ATTTCAATTTAAATTT-CATTTC
6347178 ATTTC-ATTTAAATT
1 ATTTCAATTTAAATT
6347192 ATCTTTCTCT
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
21 6 0.09
22 50 0.71
23 14 0.20
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTCAATTTAAATTTCATTTC
Found at i:6347119 original size:28 final size:27
Alignment explanation
Indices: 6347074--6347186 Score: 104
Period size: 28 Copynumber: 4.1 Consensus size: 27
6347064 TCACTTTTTT
** *
6347074 TTTCATTTAATTCCAATTTCAATCTCAA
1 TTTCATTTAATTTAAATTTCAATTTC-A
* *
6347102 TTTCATTTCATTTAAATTTCCATTTCA
1 TTTCATTTAATTTAAATTTCAATTTCA
* *
6347129 TTTCATATTCATTATAAATTAC-ATTTCA
1 TTTCAT-TTAATT-TAAATTTCAATTTCA
*
6347157 TTTCATTTAAATTTACATTTC-ATTTCA
1 TTTCATTT-AATTTAAATTTCAATTTCA
6347184 TTT
1 TTT
6347187 AAATTATCTT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
27 24 0.33
28 42 0.58
29 7 0.10
ACGTcount: A:0.30, C:0.17, G:0.00, T:0.53
Consensus pattern (27 bp):
TTTCATTTAATTTAAATTTCAATTTCA
Found at i:6347139 original size:6 final size:5
Alignment explanation
Indices: 6347101--6347186 Score: 73
Period size: 5 Copynumber: 15.8 Consensus size: 5
6347091 TTCAATCTCA
* * *
6347101 ATTTC ATTTC ATTTAA ATTTCC ATTTC ATTTC ATATTC ATTATAA ATTAC
1 ATTTC ATTTC ATTT-C ATTT-C ATTTC ATTTC AT-TTC ATT-T-C ATTTC
*
6347151 ATTTC ATTTC ATTTAA ATTTAC ATTTC ATTTC ATTT
1 ATTTC ATTTC ATTT-C ATTT-C ATTTC ATTTC ATTT
6347187 AAATTATCTT
Statistics
Matches: 67, Mismatches: 9, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
5 41 0.61
6 23 0.34
7 3 0.04
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.55
Consensus pattern (5 bp):
ATTTC
Found at i:6347204 original size:21 final size:22
Alignment explanation
Indices: 6347101--6347212 Score: 106
Period size: 22 Copynumber: 4.9 Consensus size: 22
6347091 TTCAATCTCA
6347101 ATTTCATTTCATTTAAATTTCCATTTC
1 ATTTCATTTCATTTAAA-TT--A--TC
6347128 ATTTCATATTCATTATAAATTA-C
1 ATTTCAT-TTCATT-TAAATTATC
6347151 ATTTCATTTCATTTAAATT-TAC
1 ATTTCATTTCATTTAAATTAT-C
6347173 ATTTCATTTCATTTAAATTATC
1 ATTTCATTTCATTTAAATTATC
*
6347195 -TTTC-TCTTCATTTTAATT
1 ATTTCAT-TTCATTTAAATT
6347213 TAATTTTTTC
Statistics
Matches: 78, Mismatches: 1, Indels: 18
0.80 0.01 0.19
Matches are distributed among these distances:
20 1 0.01
21 21 0.27
22 27 0.35
23 9 0.12
26 1 0.01
27 7 0.09
28 8 0.10
29 4 0.05
ACGTcount: A:0.29, C:0.15, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTCATTTCATTTAAATTATC
Found at i:6347230 original size:26 final size:27
Alignment explanation
Indices: 6347175--6347258 Score: 76
Period size: 26 Copynumber: 3.4 Consensus size: 27
6347165 AAATTTACAT
*
6347175 TTCATTTCATTTAAA-TTA--TCTTTC
1 TTCATTTCATTTAAATTTATTTATTTC
*
6347199 -TC--TTCATTTTAATTTAATTT-TTTC
1 TTCATTTCATTTAAATTT-ATTTATTTC
*
6347223 TT-ATTTCATTTAAATTTATTTATTTT
1 TTCATTTCATTTAAATTTATTTATTTC
6347249 TTCATTTCAT
1 TTCATTTCAT
6347259 CTAATCAAGT
Statistics
Matches: 48, Mismatches: 3, Indels: 15
0.73 0.05 0.23
Matches are distributed among these distances:
21 9 0.19
22 2 0.04
23 3 0.06
24 4 0.08
25 6 0.12
26 17 0.35
27 7 0.15
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (27 bp):
TTCATTTCATTTAAATTTATTTATTTC
Found at i:6347254 original size:22 final size:23
Alignment explanation
Indices: 6347101--6347255 Score: 76
Period size: 22 Copynumber: 6.6 Consensus size: 23
6347091 TTCAATCTCA
6347101 ATTTCATTTCATTTAAATTTCCATTT
1 ATTT-ATTTCATTTAAATTT--ATTT
*
6347127 CATTTCATATTCATTATAAA-TTA--C
1 -ATTT-AT-TTCATT-TAAATTTATTT
*
6347151 ATTTCATTTCATTTAAATTTA--C
1 ATTT-ATTTCATTTAAATTTATTT
*
6347173 ATTTCATTTCATTTAAATTATCTTT
1 ATTT-ATTTCATTTAAATT-TATTT
* *
6347198 CTCTTCATTTTAATTT-AATTT-TTT
1 AT-TT-A-TTTCATTTAAATTTATTT
*
6347222 -CTTATTTCATTTAAATTTATTT
1 ATTTATTTCATTTAAATTTATTT
6347244 ATTT-TTTCATTT
1 ATTTATTTCATTT
6347256 CATCTAATCA
Statistics
Matches: 109, Mismatches: 8, Indels: 27
0.76 0.06 0.19
Matches are distributed among these distances:
20 7 0.06
21 10 0.09
22 42 0.39
23 10 0.09
24 3 0.03
25 2 0.02
26 9 0.08
27 14 0.13
28 8 0.07
29 4 0.04
ACGTcount: A:0.28, C:0.13, G:0.00, T:0.59
Consensus pattern (23 bp):
ATTTATTTCATTTAAATTTATTT
Found at i:6350922 original size:107 final size:108
Alignment explanation
Indices: 6350699--6350940 Score: 337
Period size: 107 Copynumber: 2.2 Consensus size: 108
6350689 GCCAGAACTA
* *
6350699 AATTTTTTTTTTTGAAGTCTGGTGTCGGCCATTAGAAGGCCAAAAGTAAAAAATTTGCATTGGGA
1 AATTTTTTTTTTTTAAGTCTGGTGTCGGCCATTAGAAGGCCAAAAGTAAAAAATTTGCATAGGGA
* * *
6350764 CACGAAAAAAGTACTGGTGTCGGCCATTTACAGACCAGCACCC
66 CACGAAAAAAGTAATAGTGTCGGCCATCTACAGACCAGCACCC
** *
6350807 AA-AATTTTTTTTTAAGTCTGGTGTCGGCCATTAGAAGG-CAAAATTAAAAAATTTTGCATAGGG
1 AATTTTTTTTTTTTAAGTCTGGTGTCGGCCATTAGAAGGCCAAAAGTAAAAAA-TTTGCATAGGG
** *
6350870 ACACGAAAATTGTAATAGTGTCGGCCATCTACAGGCCAGCA-CC
65 ACACGAAAAAAGTAATAGTGTCGGCCATCTACAGACCAGCACCC
*
6350913 AATTTTTTTTTTTTATAGTGTGGTGTCG
1 AATTTTTTTTTTTTA-AGTCTGGTGTCG
6350941 ACTATTCAAA
Statistics
Matches: 117, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
106 16 0.14
107 88 0.75
108 13 0.11
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (108 bp):
AATTTTTTTTTTTTAAGTCTGGTGTCGGCCATTAGAAGGCCAAAAGTAAAAAATTTGCATAGGGA
CACGAAAAAAGTAATAGTGTCGGCCATCTACAGACCAGCACCC
Found at i:6351346 original size:37 final size:37
Alignment explanation
Indices: 6351278--6351350 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 37
6351268 TATACCTTGT
* * * *
6351278 AGTGAGTTGTTAAAAGGACACTATCATCACTCTTTGA
1 AGTGAGCTGTTAAAAGGACACCACCACCACTCTTTGA
*
6351315 AGTGAGCTGTTAAAAGGACACCCCCACCACTCTTTG
1 AGTGAGCTGTTAAAAGGACACCACCACCACTCTTTG
6351351 TGAAGTCCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.27
Consensus pattern (37 bp):
AGTGAGCTGTTAAAAGGACACCACCACCACTCTTTGA
Found at i:6354311 original size:11 final size:11
Alignment explanation
Indices: 6354291--6354344 Score: 65
Period size: 11 Copynumber: 5.0 Consensus size: 11
6354281 TTAGAATATA
*
6354291 CCCATTCCTTG
1 CCCATACCTTG
6354302 CCCATACCTTG
1 CCCATACCTTG
* *
6354313 CCCATACATTT
1 CCCATACCTTG
*
6354324 CCCATACC-TA
1 CCCATACCTTG
6354334 CCCATACCTTG
1 CCCATACCTTG
6354345 GAAAGGTCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
10 9 0.25
11 27 0.75
ACGTcount: A:0.20, C:0.44, G:0.06, T:0.30
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:6354903 original size:18 final size:18
Alignment explanation
Indices: 6354880--6354951 Score: 99
Period size: 18 Copynumber: 4.0 Consensus size: 18
6354870 GACCATTTAT
*
6354880 GATACTATTTACATATAC
1 GATACTATTTACGTATAC
* *
6354898 GATACTATTTATGTATAT
1 GATACTATTTACGTATAC
6354916 GATACTATTTACGTATAC
1 GATACTATTTACGTATAC
* *
6354934 GGTACTATTCACGTATAC
1 GATACTATTTACGTATAC
6354952 AGTAGTTGAG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.33, C:0.15, G:0.11, T:0.40
Consensus pattern (18 bp):
GATACTATTTACGTATAC
Found at i:6354950 original size:36 final size:36
Alignment explanation
Indices: 6354877--6354950 Score: 112
Period size: 36 Copynumber: 2.1 Consensus size: 36
6354867 TACGACCATT
* *
6354877 TATGATACTATTTACATATACGATACTATTTATGTA
1 TATGATACTATTTACATATACGATACTATTCACGTA
* *
6354913 TATGATACTATTTACGTATACGGTACTATTCACGTA
1 TATGATACTATTTACATATACGATACTATTCACGTA
6354949 TA
1 TA
6354951 CAGTAGTTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.42
Consensus pattern (36 bp):
TATGATACTATTTACATATACGATACTATTCACGTA
Found at i:6358996 original size:11 final size:11
Alignment explanation
Indices: 6358980--6359022 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
6358970 TTAGAATATA
6358980 CCCATACCTTG
1 CCCATACCTTG
*
6358991 CCCATACCTTT
1 CCCATACCTTG
*
6359002 CCCATACC-TA
1 CCCATACCTTG
6359012 CCCATACCTTG
1 CCCATACCTTG
6359023 GAAAGGTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.21, C:0.47, G:0.05, T:0.28
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:6359017 original size:21 final size:22
Alignment explanation
Indices: 6358980--6359021 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
6358970 TTAGAATATA
*
6358980 CCCATACCTTGCCCATACCTTT
1 CCCATACCTTACCCATACCTTT
6359002 CCCATACC-TACCCATACCTT
1 CCCATACCTTACCCATACCTT
6359022 GGAAAGGTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.21, C:0.48, G:0.02, T:0.29
Consensus pattern (22 bp):
CCCATACCTTACCCATACCTTT
Found at i:6362479 original size:16 final size:16
Alignment explanation
Indices: 6362443--6362481 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
6362433 AATAAAAGTG
6362443 TAATTTTATTATTTTA
1 TAATTTTATTATTTTA
*
6362459 AAATTTTA-TATTTTTA
1 TAATTTTATTA-TTTTA
6362475 TAATTTT
1 TAATTTT
6362482 TAAAATAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 2 0.10
16 18 0.90
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TAATTTTATTATTTTA
Found at i:6362873 original size:28 final size:28
Alignment explanation
Indices: 6362833--6362886 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
6362823 CAGCTAGGTG
6362833 AGCTTTCTGCACAATTGGCAAGAAAGTA
1 AGCTTTCTGCACAATTGGCAAGAAAGTA
*
6362861 AGCTTTCTGCACAATTGGTAAGAAAG
1 AGCTTTCTGCACAATTGGCAAGAAAG
6362887 CACGTCCAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (28 bp):
AGCTTTCTGCACAATTGGCAAGAAAGTA
Found at i:6363840 original size:8 final size:8
Alignment explanation
Indices: 6363827--6363855 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
6363817 ATCCATGTGC
6363827 AATTATAA
1 AATTATAA
6363835 AATTATAA
1 AATTATAA
6363843 AATTATAA
1 AATTATAA
6363851 AATTA
1 AATTA
6363856 AATTATTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
AATTATAA
Found at i:6365119 original size:3 final size:3
Alignment explanation
Indices: 6365111--6365149 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
6365101 CAATTTTTAA
6365111 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6365150 GTTGTCCTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6371915 original size:2 final size:2
Alignment explanation
Indices: 6371908--6371947 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
6371898 AAACAGGATT
6371908 TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA
6371948 AAGAAGTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6375688 original size:36 final size:37
Alignment explanation
Indices: 6375634--6375703 Score: 99
Period size: 36 Copynumber: 1.9 Consensus size: 37
6375624 TGGCTTAACG
*
6375634 ATTCAACGCTTGTTACGTGGC-CTCCGATGCACTATTT
1 ATTCAACGCTTCTTACGTGGCAC-CCGATGCACTATTT
*
6375671 ATTCAAC-CTTCTTACGTGGCACCCTATGCACTA
1 ATTCAACGCTTCTTACGTGGCACCCGATGCACTA
6375704 CTCACTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
36 22 0.73
37 8 0.27
ACGTcount: A:0.21, C:0.30, G:0.16, T:0.33
Consensus pattern (37 bp):
ATTCAACGCTTCTTACGTGGCACCCGATGCACTATTT
Found at i:6377009 original size:20 final size:20
Alignment explanation
Indices: 6376969--6377009 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
6376959 TGAATTTTTT
* *
6376969 TCGAATTAAATTAAGTTAAA
1 TCGAATCAAATTAAGTGAAA
*
6376989 TCGAATCAAATTGAGTGAAA
1 TCGAATCAAATTAAGTGAAA
6377009 T
1 T
6377010 TGTTTGAGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.07, G:0.15, T:0.32
Consensus pattern (20 bp):
TCGAATCAAATTAAGTGAAA
Found at i:6382703 original size:19 final size:20
Alignment explanation
Indices: 6382679--6382722 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
6382669 TCAAATTTTG
*
6382679 AAAATAATTTTTA-AAATTC-
1 AAAAT-ATTTATAGAAATTCT
6382698 AAAATATTTATAGAAATTCT
1 AAAATATTTATAGAAATTCT
6382718 AAAAT
1 AAAAT
6382723 TTAAAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 6 0.27
19 11 0.50
20 5 0.23
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (20 bp):
AAAATATTTATAGAAATTCT
Found at i:6388020 original size:194 final size:194
Alignment explanation
Indices: 6387688--6388070 Score: 561
Period size: 194 Copynumber: 2.0 Consensus size: 194
6387678 CTAAACTACT
* * * * * *
6387688 ACTACAATTGGCGGCAGATCATAATGGTTCTATATAATATATTAAAATCTTGAGAAATGCTCCTC
1 ACTACAATTGGCGGCAAATCATAATGGTTCCATACAAGACATTAAAATCTCGAGAAATGCTCCTC
* * *
6387753 ACATTAATCACCTACTTTTTGTTTATGGTTGCTACATTTTCTTTAATATTTTTGTTGAAGCATGT
66 ACATTAATCACCTACTTTTTGTTTATGGTTACTACATTTTCTTTAATACTTTTGTTGAAGCATGC
* * * *
6387818 AGGTCTCTTAAATCATTTCTTCTAACTTTTTTCTCTCTCACAAGACTTCAAATCAATTTCAATC
131 AAGTCTCTTAAATCATTTCTTCTAAATGTCTTCTCTCTCACAAGACTTCAAATCAATTTCAATC
*
6387882 ACTACAATTGGCGGCAAATCATAATGGTTCCATACAAGGCATTAAAATCTCGAGAAATGCT-CTA
1 ACTACAATTGGCGGCAAATCATAATGGTTCCATACAAGACATTAAAATCTCGAGAAATGCTCCT-
* * * *
6387946 CCCATTAATCACCTACTTTTTGTTTATGGTTACTACATTTTCTTTAATGCTTTTGTTTAAGTATG
65 CACATTAATCACCTACTTTTTGTTTATGGTTACTACATTTTCTTTAATACTTTTGTTGAAGCATG
* * *
6388011 CAAGTCTCTTAAATCATTTCTTCTAAATGTCTTCTCTTTCTCAGGACTTCAAATCAATTT
130 CAAGTCTCTTAAATCATTTCTTCTAAATGTCTTCTCTCTCACAAGACTTCAAATCAATTT
6388071 TGATAAATCG
Statistics
Matches: 167, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
193 2 0.01
194 165 0.99
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.41
Consensus pattern (194 bp):
ACTACAATTGGCGGCAAATCATAATGGTTCCATACAAGACATTAAAATCTCGAGAAATGCTCCTC
ACATTAATCACCTACTTTTTGTTTATGGTTACTACATTTTCTTTAATACTTTTGTTGAAGCATGC
AAGTCTCTTAAATCATTTCTTCTAAATGTCTTCTCTCTCACAAGACTTCAAATCAATTTCAATC
Found at i:6390039 original size:26 final size:26
Alignment explanation
Indices: 6389990--6390068 Score: 81
Period size: 26 Copynumber: 3.0 Consensus size: 26
6389980 AAGAAATGAG
*
6389990 AATAGAAAATGAAATAGAAAAGAACAA
1 AATAGAAAACGAAATAGAAAAGAA-AA
* *
6390017 AATAGAAAACG-AATAGGAGAGAAAA
1 AATAGAAAACGAAATAGAAAAGAAAA
*
6390042 AATGAGAAAA-GAAAAAGAGAAAGAAAA
1 AAT-AGAAAACGAAATAGA-AAAGAAAA
6390069 GAAGGAGAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
25 6 0.14
26 20 0.47
27 17 0.40
ACGTcount: A:0.70, C:0.03, G:0.20, T:0.08
Consensus pattern (26 bp):
AATAGAAAACGAAATAGAAAAGAAAA
Found at i:6390061 original size:25 final size:26
Alignment explanation
Indices: 6389990--6390061 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 26
6389980 AAGAAATGAG
* * *
6389990 AATAGAAAATGAAATAGAAAAGAACAA
1 AATAGAAAACGAAAAAG-AGAGAACAA
* *
6390017 AATAGAAAACGAATAGGAGAGAA-AA
1 AATAGAAAACGAAAAAGAGAGAACAA
6390042 AATGAGAAAA-GAAAAAGAGA
1 AAT-AGAAAACGAAAAAGAGA
6390062 AAGAAAAGAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
25 13 0.35
26 11 0.30
27 13 0.35
ACGTcount: A:0.68, C:0.03, G:0.21, T:0.08
Consensus pattern (26 bp):
AATAGAAAACGAAAAAGAGAGAACAA
Found at i:6394695 original size:2 final size:2
Alignment explanation
Indices: 6394688--6394715 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6394678 TTTTCCCTTC
6394688 AT 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 AT
6394716 TCCTCCTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6397881 original size:18 final size:18
Alignment explanation
Indices: 6397846--6397913 Score: 52
Period size: 18 Copynumber: 3.8 Consensus size: 18
6397836 TAGTCATTTT
6397846 AAAATTTAAAAATTAATTA
1 AAAATTTAAAAA-TAATTA
6397865 AAAATTATAAAAA-AATT-
1 AAAATT-TAAAAATAATTA
** * * *
6397882 -ATTTTTAAAAGTTATAA
1 AAAATTTAAAAATAATTA
6397899 AAAATTTAAAAATAA
1 AAAATTTAAAAATAA
6397914 ATTTTTCCCC
Statistics
Matches: 36, Mismatches: 9, Indels: 9
0.67 0.17 0.17
Matches are distributed among these distances:
15 5 0.14
16 5 0.14
18 14 0.39
19 6 0.17
20 6 0.17
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.35
Consensus pattern (18 bp):
AAAATTTAAAAATAATTA
Found at i:6400699 original size:20 final size:20
Alignment explanation
Indices: 6400639--6400700 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
6400629 TTTAGCCCAC
* * *
6400639 TAATGTTTAATTTTTTTTA-
1 TAATTTTTAATATATTTTAT
* *
6400658 TAATTTTTAATATATATAAT
1 TAATTTTTAATATATTTTAT
6400678 TAATATTTT-ATATATTTTAT
1 TAAT-TTTTAATATATTTTAT
6400698 TAA
1 TAA
6400701 ATTACGAAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
19 14 0.41
20 16 0.47
21 4 0.12
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (20 bp):
TAATTTTTAATATATTTTAT
Found at i:6402131 original size:29 final size:28
Alignment explanation
Indices: 6402089--6402149 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 28
6402079 AATATTAAAA
* *
6402089 TAAATATTTTTTAATAAATTAAAAAATAT
1 TAAATATTTCTTAACAAATTAAAAAAT-T
6402118 TAAATATTTCTTAACAAATTAAAAAATT
1 TAAATATTTCTTAACAAATTAAAAAATT
6402146 TAAA
1 TAAA
6402150 AAAATTATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 5 0.17
29 25 0.83
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (28 bp):
TAAATATTTCTTAACAAATTAAAAAATT
Found at i:6404660 original size:5 final size:5
Alignment explanation
Indices: 6404650--6404705 Score: 112
Period size: 5 Copynumber: 11.2 Consensus size: 5
6404640 TTTGACAATA
6404650 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
6404700 ATTAT A
1 ATTAT A
6404706 CTTTGTTTAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 51 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:6404797 original size:15 final size:15
Alignment explanation
Indices: 6404760--6404810 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
6404750 TATTTGATAA
6404760 ATTAAAAAATT-AGAT
1 ATTAAAAAATTAAG-T
* *
6404775 GTTGAAAAATTAAGT
1 ATTAAAAAATTAAGT
* *
6404790 ATTAAAAATTTAAAT
1 ATTAAAAAATTAAGT
6404805 ATTAAA
1 ATTAAA
6404811 TTTAAGTTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
15 27 0.93
16 2 0.07
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.35
Consensus pattern (15 bp):
ATTAAAAAATTAAGT
Found at i:6404853 original size:25 final size:22
Alignment explanation
Indices: 6404823--6404869 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
6404813 TAAGTTATAA
*
6404823 AATTATCTGATATATTATTTAAATT
1 AATTAT-TGA-ATA-TAATTAAATT
6404848 AATTATTGAATATAATTAAATT
1 AATTATTGAATATAATTAAATT
6404870 TTTTGATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 9 0.43
23 3 0.14
24 3 0.14
25 6 0.29
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (22 bp):
AATTATTGAATATAATTAAATT
Found at i:6411345 original size:31 final size:31
Alignment explanation
Indices: 6411293--6411354 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
6411283 AAAATGGTCG
* *
6411293 TTGAACTATTCAAAAGTTTTCATTTAAGTCA
1 TTGAACCATTCAAAAGATTTCATTTAAGTCA
*
6411324 TTGAACCATTCGAAAGATTTCATTTAAGTCA
1 TTGAACCATTCAAAAGATTTCATTTAAGTCA
6411355 CTGGGCTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (31 bp):
TTGAACCATTCAAAAGATTTCATTTAAGTCA
Found at i:6413951 original size:3 final size:3
Alignment explanation
Indices: 6413943--6413989 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
6413933 CCAATGCCAC
6413943 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
6413990 GAGTAAACTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:6416891 original size:3 final size:3
Alignment explanation
Indices: 6416883--6416917 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
6416873 GCTGAAAGAA
6416883 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
6416918 AAGAGTAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:6417228 original size:20 final size:21
Alignment explanation
Indices: 6417194--6417233 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
6417184 TTTAAATGTT
*
6417194 TTAAAAAAATCTAGTGAAATAA
1 TTAAAAAAA-CTAGTAAAATAA
6417216 TTAAAAAAA-TAGTAAAAT
1 TTAAAAAAACTAGTAAAAT
6417234 TACTAATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
22 9 0.53
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (21 bp):
TTAAAAAAACTAGTAAAATAA
Found at i:6417490 original size:18 final size:19
Alignment explanation
Indices: 6417469--6417504 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
6417459 TTAGAAACTG
*
6417469 TTATAATATTATA-AAAAT
1 TTATAAAATTATAGAAAAT
6417487 TTATAAAATTATAGAAAA
1 TTATAAAATTATAGAAAA
6417505 ATATAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (19 bp):
TTATAAAATTATAGAAAAT
Found at i:6417509 original size:18 final size:17
Alignment explanation
Indices: 6417470--6417527 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 17
6417460 TAGAAACTGT
* *
6417470 TATAATATTATAAAAATT
1 TATAAAATTATAAAAA-A
6417488 TATAAAATTATAGAAAAA
1 TATAAAATTATA-AAAAA
*
6417506 TATAAAAAATATAAAAAA
1 TAT-AAAATTATAAAAAA
6417524 -ATAA
1 TATAA
6417528 TACTACTGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
16 2 0.06
17 2 0.06
18 19 0.54
19 12 0.34
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (17 bp):
TATAAAATTATAAAAAA
Found at i:6417796 original size:9 final size:9
Alignment explanation
Indices: 6417782--6417857 Score: 53
Period size: 9 Copynumber: 8.1 Consensus size: 9
6417772 TTTAAGAAAA
6417782 TTTATATTT
1 TTTATATTT
*
6417791 TTTATAGTT
1 TTTATATTT
* *
6417800 TTAATAATAT
1 TTTAT-ATTT
*
6417810 TTTATACTT
1 TTTATATTT
6417819 TTTATAATTT
1 TTTAT-ATTT
* *
6417829 TTTCTATAAT
1 TTTATAT-TT
* *
6417839 TTCATATAT
1 TTTATATTT
6417848 TTTATATTT
1 TTTATATTT
6417857 T
1 T
6417858 CTAAGTTTAT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
9 31 0.62
10 19 0.38
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (9 bp):
TTTATATTT
Found at i:6417796 original size:28 final size:29
Alignment explanation
Indices: 6417765--6417830 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
6417755 AACAAATATC
*
6417765 TATAATTTTTAAGAA-AATTTATATTTTT
1 TATAATTTTTAAGAATAATTTATACTTTT
* * *
6417793 TAT-AGTTTTAATAATATTTTATACTTTT
1 TATAATTTTTAAGAATAATTTATACTTTT
6417821 TATAATTTTT
1 TATAATTTTT
6417831 TCTATAATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 9 0.29
28 17 0.55
29 5 0.16
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.61
Consensus pattern (29 bp):
TATAATTTTTAAGAATAATTTATACTTTT
Found at i:6417831 original size:19 final size:19
Alignment explanation
Indices: 6417782--6417831 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
6417772 TTTAAGAAAA
*
6417782 TTTAT-ATTTTTTATAGTT
1 TTTATAATTTTTTATACTT
* *
6417800 TTAATAATATTTTATACTT
1 TTTATAATTTTTTATACTT
6417819 TTTATAATTTTTT
1 TTTATAATTTTTT
6417832 CTATAATTTC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTATAATTTTTTATACTT
Found at i:6417891 original size:21 final size:20
Alignment explanation
Indices: 6417863--6417917 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
6417853 ATTTTCTAAG
6417863 TTTATAATATTTTAACAAAT
1 TTTATAATATTTTAACAAAT
6417883 TTCTAT-A-ATTTTATACAAAT
1 TT-TATAATATTTTA-ACAAAT
6417903 TTTATAATATTTTAA
1 TTTATAATATTTTAA
6417918 TAGTTTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
19 9 0.29
20 13 0.42
21 9 0.29
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTATAATATTTTAACAAAT
Found at i:6417895 original size:19 final size:19
Alignment explanation
Indices: 6417871--6417910 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
6417861 AGTTTATAAT
6417871 ATTTTA-ACAAATTTCTATA
1 ATTTTATACAAATTT-TATA
6417890 ATTTTATACAAATTTTATA
1 ATTTTATACAAATTTTATA
6417909 AT
1 AT
6417911 ATTTTAATAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTTATACAAATTTTATA
Found at i:6420118 original size:46 final size:46
Alignment explanation
Indices: 6420051--6420144 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
6420041 CTTCAAACTA
6420051 AGAGGTAATGTCTCCCGATCTCCTTTCTCAATCGTCTGATTGCCTC
1 AGAGGTAATGTCTCCCGATCTCCTTTCTCAATCGTCTGATTGCCTC
*
6420097 AGAGGTAATGTCTCCCTATCTCCTTTCTCAATCGTCTGATTGCCTC
1 AGAGGTAATGTCTCCCGATCTCCTTTCTCAATCGTCTGATTGCCTC
6420143 AG
1 AG
6420145 TCTAAGTGTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.18, C:0.30, G:0.17, T:0.35
Consensus pattern (46 bp):
AGAGGTAATGTCTCCCGATCTCCTTTCTCAATCGTCTGATTGCCTC
Found at i:6421778 original size:16 final size:16
Alignment explanation
Indices: 6421759--6421792 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
6421749 TATAAAATTG
6421759 ATTATTTAT-TATGATT
1 ATTA-TTATGTATGATT
6421775 ATTATTATGTATGATT
1 ATTATTATGTATGATT
6421791 AT
1 AT
6421793 GTATATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (16 bp):
ATTATTATGTATGATT
Found at i:6426342 original size:31 final size:31
Alignment explanation
Indices: 6426307--6426369 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
6426297 TTAAGTTCCT
6426307 ACATGAAAATAATTGCCTAAATT-AAGACTTA
1 ACATGAAAATAATTGCC-AAATTCAAGACTTA
* *
6426338 ACATGAAAATAATTGTCAAATTCAAGCCTTA
1 ACATGAAAATAATTGCCAAATTCAAGACTTA
6426369 A
1 A
6426370 ATAGTGATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 5 0.17
31 24 0.83
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.29
Consensus pattern (31 bp):
ACATGAAAATAATTGCCAAATTCAAGACTTA
Found at i:6428837 original size:2 final size:2
Alignment explanation
Indices: 6428830--6428856 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6428820 TGTCTCAATA
6428830 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
6428857 CATGAAATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6434853 original size:42 final size:42
Alignment explanation
Indices: 6434794--6434878 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
6434784 AGCGAACCAC
6434794 GAACGTTTCTGGCAAAAACAGTCTCGCACAACATGTTGGACT
1 GAACGTTTCTGGCAAAAACAGTCTCGCACAACATGTTGGACT
6434836 GAACGTTTCTGGCAAAAACAGTCTCGCACAACATGTTGGACT
1 GAACGTTTCTGGCAAAAACAGTCTCGCACAACATGTTGGACT
6434878 G
1 G
6434879 TCTCAACATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.24
Consensus pattern (42 bp):
GAACGTTTCTGGCAAAAACAGTCTCGCACAACATGTTGGACT
Found at i:6453610 original size:30 final size:30
Alignment explanation
Indices: 6453575--6453634 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
6453565 TAGAAACTTC
* *
6453575 CACACGGGTAATCCACACGCCTGTGTGTCA
1 CACACGGGTAAGCCACACGCCCGTGTGTCA
* *
6453605 CACACGGGTAGGCCACATGCCCGTGTGTCA
1 CACACGGGTAAGCCACACGCCCGTGTGTCA
6453635 TGGCCGTGTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.22, C:0.33, G:0.27, T:0.18
Consensus pattern (30 bp):
CACACGGGTAAGCCACACGCCCGTGTGTCA
Found at i:6467149 original size:2 final size:2
Alignment explanation
Indices: 6467142--6467210 Score: 75
Period size: 2 Copynumber: 34.5 Consensus size: 2
6467132 ACCTACCTAA
* * * *
6467142 TC TC TC TC TC TC TC TC TC TC TA TC TC GC TC GC TC TC CC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* * *
6467184 TC TC TT TC TC TC CC CC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
6467211 TCCTCCTTCC
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.01, C:0.51, G:0.03, T:0.45
Consensus pattern (2 bp):
TC
Found at i:6467222 original size:22 final size:23
Alignment explanation
Indices: 6467153--6467232 Score: 69
Period size: 20 Copynumber: 3.5 Consensus size: 23
6467143 CTCTCTCTCT
*
6467153 CTCTCTCTCTATCTCGCTCGCTCTCC
1 CTCTCTCTCTCT-TCGCTC-CT-TCC
*
6467179 CTCTCTCTCT-TTCTCTCC--CC
1 CTCTCTCTCTCTTCGCTCCTTCC
6467199 CTCTCTCTCTCTTC-CTCCTTCC
1 CTCTCTCTCTCTTCGCTCCTTCC
* *
6467221 CTCCCTCCCTCT
1 CTCTCTCTCTCT
6467233 ATTTCCTTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
20 16 0.33
21 3 0.06
22 12 0.25
23 1 0.02
24 5 0.10
25 1 0.02
26 10 0.21
ACGTcount: A:0.01, C:0.55, G:0.03, T:0.41
Consensus pattern (23 bp):
CTCTCTCTCTCTTCGCTCCTTCC
Found at i:6467476 original size:30 final size:30
Alignment explanation
Indices: 6467442--6467521 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 30
6467432 AATATTAAAG
* *
6467442 ATAAAATTACACTTTAATTTTTAAAAAATA
1 ATAAAATTAAAATTTAATTTTTAAAAAATA
** **
6467472 ATAAAATTTTAATTTAATTATTTAACCAATA
1 ATAAAATTAAAATTTAATT-TTTAAAAAATA
6467503 A-AAAATTAAAATTTAATTT
1 ATAAAATTAAAATTTAATTT
6467522 CGACACCTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 1 0.02
30 31 0.74
31 10 0.24
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (30 bp):
ATAAAATTAAAATTTAATTTTTAAAAAATA
Found at i:6484219 original size:55 final size:55
Alignment explanation
Indices: 6484078--6484205 Score: 247
Period size: 55 Copynumber: 2.3 Consensus size: 55
6484068 ACAACACCGA
*
6484078 CGTGCGACACGCCCGTGTGGAAGACCCATGGTTGAAACTGAGAAACTAGCACGGG
1 CGTGTGACACGCCCGTGTGGAAGACCCATGGTTGAAACTGAGAAACTAGCACGGG
6484133 CGTGTGACACGCCCGTGTGGAAGACCCATGGTTGAAACTGAGAAACTAGCACGGG
1 CGTGTGACACGCCCGTGTGGAAGACCCATGGTTGAAACTGAGAAACTAGCACGGG
6484188 CGTGTGACACGCCCGTGT
1 CGTGTGACACGCCCGTGT
6484206 CTAACACCTA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
55 72 1.00
ACGTcount: A:0.25, C:0.26, G:0.33, T:0.16
Consensus pattern (55 bp):
CGTGTGACACGCCCGTGTGGAAGACCCATGGTTGAAACTGAGAAACTAGCACGGG
Found at i:6484241 original size:55 final size:55
Alignment explanation
Indices: 6484078--6484243 Score: 197
Period size: 55 Copynumber: 3.0 Consensus size: 55
6484068 ACAACACCGA
* * * * *
6484078 CGTGCGACACGCCCGTGTGGAAGACCCATGGTTGAAACTGAGAAACTAGCACGGG
1 CGTGTGACACGCCCGTGTCGAACACCCATGGTCGAAACTGAGAAACTAACACGGG
* * * *
6484133 CGTGTGACACGCCCGTGTGGAAGACCCATGGTTGAAACTGAGAAACTAGCACGGG
1 CGTGTGACACGCCCGTGTCGAACACCCATGGTCGAAACTGAGAAACTAACACGGG
* * * ** *
6484188 CGTGTGACACGCCCGTGTCTAACACCTATGGTCGAACCTGTTAAATTAACACGGG
1 CGTGTGACACGCCCGTGTCGAACACCCATGGTCGAAACTGAGAAACTAACACGGG
6484243 C
1 C
6484244 ATGGAGTTTG
Statistics
Matches: 100, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 100 1.00
ACGTcount: A:0.27, C:0.26, G:0.30, T:0.18
Consensus pattern (55 bp):
CGTGTGACACGCCCGTGTCGAACACCCATGGTCGAAACTGAGAAACTAACACGGG
Found at i:6484306 original size:13 final size:13
Alignment explanation
Indices: 6484288--6484314 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6484278 ACGAAGCTAG
6484288 ACACGGCCGTGTA
1 ACACGGCCGTGTA
6484301 ACACGGCCGTGTA
1 ACACGGCCGTGTA
6484314 A
1 A
6484315 ACCTACACGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.30, G:0.30, T:0.15
Consensus pattern (13 bp):
ACACGGCCGTGTA
Found at i:6488133 original size:20 final size:19
Alignment explanation
Indices: 6488088--6488125 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
6488078 AGCGAAAAGG
6488088 AACGAG-AAACGGGCCAAA
1 AACGAGAAAACGGGCCAAA
*
6488106 AACAGAGAAAATGGGCCAAA
1 AAC-GAGAAAACGGGCCAAA
6488126 GTACGAGACC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 3 0.18
20 11 0.65
ACGTcount: A:0.53, C:0.18, G:0.26, T:0.03
Consensus pattern (19 bp):
AACGAGAAAACGGGCCAAA
Found at i:6497964 original size:18 final size:17
Alignment explanation
Indices: 6497941--6497974 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
6497931 TAGCTGTGCC
6497941 GTTTTCTCTTCTGTATTA
1 GTTTTCTCTTCT-TATTA
6497959 GTTTTCTCTTCTTATT
1 GTTTTCTCTTCTTATT
6497975 TTCTTCCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.09, C:0.18, G:0.09, T:0.65
Consensus pattern (17 bp):
GTTTTCTCTTCTTATTA
Found at i:6499204 original size:20 final size:20
Alignment explanation
Indices: 6499179--6499221 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
6499169 ATTTTGATAA
6499179 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
6499199 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
6499219 ACA
1 ACA
6499222 CGAGATGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:6499229 original size:20 final size:20
Alignment explanation
Indices: 6499186--6499229 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
6499176 TAAACATGAT
* *
6499186 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACACGAG
6499206 ATGTATGATATGCACACGAG
1 ATGTATGATATGCACACGAG
6499226 ATGT
1 ATGT
6499230 TCATAAATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACACGAG
Found at i:6499342 original size:24 final size:25
Alignment explanation
Indices: 6499275--6499349 Score: 102
Period size: 23 Copynumber: 3.1 Consensus size: 25
6499265 GAGGAAGTGC
* *
6499275 AAAAGAGCTTATGCCCCAGTTACT-
1 AAAAGGGCTTATGCCCCAGTTATTA
*
6499299 -AAAGGGCTTATGCCCTAGTTATTA
1 AAAAGGGCTTATGCCCCAGTTATTA
6499323 AAAAGGGCTT-TGCCCCAGTTATTA
1 AAAAGGGCTTATGCCCCAGTTATTA
6499347 AAA
1 AAA
6499350 GAGGCTAGGC
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
23 20 0.44
24 16 0.36
25 9 0.20
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTATGCCCCAGTTATTA
Found at i:6499355 original size:24 final size:25
Alignment explanation
Indices: 6499275--6499369 Score: 103
Period size: 24 Copynumber: 4.0 Consensus size: 25
6499265 GAGGAAGTGC
*
6499275 AAAAGA-GCTTATGCCCCAGTTACT
1 AAAAGAGGCTTATGCCCCAGTTATT
*
6499299 -AAAG-GGCTTATGCCCTAGTTATT
1 AAAAGAGGCTTATGCCCCAGTTATT
6499322 AAAA-AGGGCTT-TGCCCCAGTTATT
1 AAAAGA-GGCTTATGCCCCAGTTATT
*
6499346 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGAGGCTTATGCC-CCAGTTAT
6499370 ATGATAAAGC
Statistics
Matches: 60, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
23 21 0.35
24 25 0.42
25 14 0.23
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (25 bp):
AAAAGAGGCTTATGCCCCAGTTATT
Found at i:6499626 original size:31 final size:31
Alignment explanation
Indices: 6499563--6499626 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
6499553 CGTCTACCGT
*
6499563 AAAGGCTTCGGCCCAGTAATATAAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATAAAATATGA
** *
6499594 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATAAAATATGA
6499625 AA
1 AA
6499627 TATGAAAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATAAAATATGA
Found at i:6509081 original size:53 final size:53
Alignment explanation
Indices: 6508971--6509081 Score: 118
Period size: 53 Copynumber: 2.1 Consensus size: 53
6508961 GGGCCAAGGC
* **** *
6508971 GAAAACCCGCAAAGGGCGCTTTGAGACCTAATAAAAATGAAAAGGGCTAAAGT
1 GAAAACCCGCAAAGGGCGCTTTGAGACCTAATAAAAATAAAAAGAAAAAAAGA
* *
6509024 GAAAACCCGCAAAGGGTGCTTTGAGA-CTCAAT-AAAATAAAAAATAAAAAAAGA
1 GAAAACCCGCAAAGGGCGCTTTGAGACCT-AATAAAAAT-AAAAAGAAAAAAAGA
6509077 GAAAA
1 GAAAA
6509082 AAGAGAGGCC
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
52 7 0.15
53 41 0.85
ACGTcount: A:0.50, C:0.14, G:0.21, T:0.14
Consensus pattern (53 bp):
GAAAACCCGCAAAGGGCGCTTTGAGACCTAATAAAAATAAAAAGAAAAAAAGA
Found at i:6510722 original size:125 final size:125
Alignment explanation
Indices: 6510534--6510776 Score: 423
Period size: 125 Copynumber: 1.9 Consensus size: 125
6510524 CGGCAATGGA
* *
6510534 GCAGATTTAAGTCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGAGTCTT
1 GCAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATAAGTCTT
*
6510599 ATCTTCCTAAGGTAGCAAGGAAGCAGACTAGGAATTGAAGATTCTTGAAGTTGCAGCGGG
66 ATCTTCCTAAGGTAGCAAGGAAGCAGACTAGGAATTAAAGATTCTTGAAGTTGCAGCGGG
*
6510659 GCAGATTTAAGCCATCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATAAGTCTT
1 GCAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATAAGTCTT
* * *
6510724 ATCTTCCTGAGGTAGCAAGGAAGCAGACTGGGAATTAAAGATTTTTGAAGTTG
66 ATCTTCCTAAGGTAGCAAGGAAGCAGACTAGGAATTAAAGATTCTTGAAGTTG
6510777 TAGGTATGCA
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
125 111 1.00
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (125 bp):
GCAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATAAGTCTT
ATCTTCCTAAGGTAGCAAGGAAGCAGACTAGGAATTAAAGATTCTTGAAGTTGCAGCGGG
Found at i:6511068 original size:43 final size:45
Alignment explanation
Indices: 6511020--6511114 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 45
6511010 AGCCACCAGC
* * **
6511020 CTTATCTCTCTGAGGTAGCAGGAGAGCAGGTTGAAGAATG-A-AT
1 CTTATCTCTCTGAGGTAGCAAGAAAGCAGACTGAAGAATGAAGAT
* * *
6511063 CTTATCTTTCTGAGGTGGCAAGAAAGCAGACTGAAGATTGAAGAT
1 CTTATCTCTCTGAGGTAGCAAGAAAGCAGACTGAAGAATGAAGAT
6511108 CTTATCT
1 CTTATCT
6511115 TCCTGAAGTT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 33 0.77
44 1 0.02
45 9 0.21
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (45 bp):
CTTATCTCTCTGAGGTAGCAAGAAAGCAGACTGAAGAATGAAGAT
Found at i:6511068 original size:173 final size:169
Alignment explanation
Indices: 6510659--6511284 Score: 700
Period size: 173 Copynumber: 3.6 Consensus size: 169
6510649 TTGCAGCGGG
*
6510659 GCAGATTTAAGCCATCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAAT-AAGTCT
1 GCAGATTTAA-CCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGAA-TCT
* *
6510723 TATCTTCCTGAGGTAGCAAGGAAGCAGACTG-GGAATTAAAGA--TT-T-T--TGAAGTTGTAGG
64 TATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAG-ATTGAAGATTTTATCTCCTGAAGTTGTAGG
* * * *
6510781 TATGCAGATCAAAAATGGTGAATCTTATCTCCATATATCGGCAATAGA
128 GA-GCAGATCAAAGATGATGAATCTTATCTCCATGTAT-GG----AGA
* * *
6510829 GCAGATTTTACCACCAGCCTTATCTCTCTGAGATAGCAAGAGAGCAGGTTGAAGAATGAGTCTTA
1 GCAGATTTAACCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGAATCTTA
* *
6510894 TCTTCCTAAGGTAGCAAGGAAGCAGACTGAGGATTGAAGATTTTATCTCCCTGAAGTTGTAGTGG
66 TCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATTTTATCT-CCTGAAGTTGTAG-GG
* *
6510959 AGCAGATCTTCATAGATGATTAATCTTATCTCCATGTAT-G-GA
129 AGCAGA---TCAAAGATGATGAATCTTATCTCCATGTATGGAGA
*
6511001 GCAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAGCAGGAGAGCAGGTTGAAGAATGAATCTT
1 GCAGATTTAA-CCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGAATCTT
* * * * *
6511066 ATCTTTCTGAGGTGGCAAGAAAGCAGACTGAAGATTGAAGATCTTATCTTCCTGAAGTTGCAGCG
65 ATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATTTTATC-TCCTGAAGTTGTAG-G
*
6511131 GAGCAGATCAAAGAT-AGTGAATTTTATC-CCTATGTATTGGAAATGAA
128 GAGCAGATCAAAGATGA-TGAATCTTATCTCC-ATGTA-TGG--A-G-A
* ** * * *
6511178 GCAGATTTTACCTTCAGCCTTATCTCTCTGAGGTAGCAAGAAAGCAGGTTGAAGAATGAGTCTTG
1 GCAGATTTAACCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGAATCTTA
*
6511243 TCTTCCTGAGGTAGCAAGGAAGTAGACTGAAGATTGAAGATT
66 TCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATT
6511285 AATTTTCCAA
Statistics
Matches: 393, Mismatches: 39, Indels: 42
0.83 0.08 0.09
Matches are distributed among these distances:
169 88 0.22
170 33 0.08
171 3 0.01
172 13 0.03
173 114 0.29
174 1 0.00
176 103 0.26
177 13 0.03
179 25 0.06
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.28
Consensus pattern (169 bp):
GCAGATTTAACCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGAATGAATCTTA
TCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATTTTATCTCCTGAAGTTGTAGGGAG
CAGATCAAAGATGATGAATCTTATCTCCATGTATGGAGA
Found at i:6530310 original size:21 final size:21
Alignment explanation
Indices: 6530286--6530354 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
6530276 CATGAGCTTC
6530286 AGTTTAACCCTTCTGGGTTTT
1 AGTTTAACCCTTCTGGGTTTT
* * * * *
6530307 AGTTTAGCTCTT-TCGAGCTTC
1 AGTTTAACCCTTCT-GGGTTTT
6530328 AGTTTAACCCTTCTGGGTTTT
1 AGTTTAACCCTTCTGGGTTTT
6530349 AGTTTA
1 AGTTTA
6530355 GCTCTTTCGA
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.16, C:0.19, G:0.19, T:0.46
Consensus pattern (21 bp):
AGTTTAACCCTTCTGGGTTTT
Found at i:6530326 original size:42 final size:42
Alignment explanation
Indices: 6530279--6530440 Score: 231
Period size: 42 Copynumber: 3.9 Consensus size: 42
6530269 TAGCTCTCAT
*
6530279 GAGCTTCAGTTTAACCCTTCTGGGTTTTAGTTTAGCTCTTTC
1 GAGCTTCAGTTTAACCCTTATGGGTTTTAGTTTAGCTCTTTC
*
6530321 GAGCTTCAGTTTAACCCTTCTGGGTTTTAGTTTAGCTCTTTC
1 GAGCTTCAGTTTAACCCTTATGGGTTTTAGTTTAGCTCTTTC
*
6530363 GAGCTTCAGTTTAACCCTTATAGGTTTTCA-TTTAGCTCTTAT-
1 GAGCTTCAGTTTAACCCTTATGGGTTTT-AGTTTAGCTCTT-TC
* *
6530405 GAGCTTCCA-TTCAACCCTTATGGGTTTCAGTTTAGC
1 GAGCTT-CAGTTTAACCCTTATGGGTTTTAGTTTAGC
6530441 ATATGTGCTT
Statistics
Matches: 111, Mismatches: 5, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
41 1 0.01
42 106 0.95
43 4 0.04
ACGTcount: A:0.17, C:0.22, G:0.18, T:0.43
Consensus pattern (42 bp):
GAGCTTCAGTTTAACCCTTATGGGTTTTAGTTTAGCTCTTTC
Found at i:6530373 original size:21 final size:21
Alignment explanation
Indices: 6530307--6530375 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
6530297 TCTGGGTTTT
6530307 AGTTTAGCTCTTTCGAGCTTC
1 AGTTTAGCTCTTTCGAGCTTC
* * * * *
6530328 AGTTTAAC-CCTTCTGGGTTTT
1 AGTTTAGCTCTTTC-GAGCTTC
6530349 AGTTTAGCTCTTTCGAGCTTC
1 AGTTTAGCTCTTTCGAGCTTC
6530370 AGTTTA
1 AGTTTA
6530376 ACCCTTATAG
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
20 4 0.11
21 28 0.78
22 4 0.11
ACGTcount: A:0.16, C:0.20, G:0.19, T:0.45
Consensus pattern (21 bp):
AGTTTAGCTCTTTCGAGCTTC
Found at i:6530396 original size:21 final size:20
Alignment explanation
Indices: 6530367--6530438 Score: 54
Period size: 21 Copynumber: 3.4 Consensus size: 20
6530357 TCTTTCGAGC
6530367 TTCAGTTTAACCCTTATAGGTT
1 TTCA-TTTAACCCTTAT-GGTT
* * *
6530389 TTCATTTAGCTCTTATGAGCT
1 TTCATTTAACCCTTATG-GTT
* * *
6530410 TCCATTCAACCCTTATGGGT
1 TTCATTTAACCCTTATGGTT
6530430 TTCAGTTTA
1 TTCA-TTTA
6530439 GCATATGTGC
Statistics
Matches: 38, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
20 6 0.16
21 28 0.74
22 4 0.11
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.44
Consensus pattern (20 bp):
TTCATTTAACCCTTATGGTT
Found at i:6534367 original size:25 final size:25
Alignment explanation
Indices: 6534339--6534386 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
6534329 TTATACCATG
* * *
6534339 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
6534364 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
6534387 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:6534489 original size:20 final size:20
Alignment explanation
Indices: 6534429--6534489 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
6534419 ATAAATATGG
*
6534429 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
6534449 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
6534469 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
6534489 T
1 T
6534490 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:6534566 original size:24 final size:24
Alignment explanation
Indices: 6534539--6534681 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
6534529 GAGGAAGTGA
6534539 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
6534563 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
6534587 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
6534610 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * * *
6534634 GAAAGGGCTTTTGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
6534658 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
6534682 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.70
25 10 0.09
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:6534632 original size:47 final size:47
Alignment explanation
Indices: 6534539--6534681 Score: 198
Period size: 47 Copynumber: 3.0 Consensus size: 47
6534529 GAGGAAGTGA
6534539 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
6534587 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * * *
6534634 GAAAGGGCTTTTGCCCTAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
6534682 ATGATAAAGC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
47 42 0.48
48 34 0.39
49 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:6534655 original size:71 final size:72
Alignment explanation
Indices: 6534539--6534682 Score: 211
Period size: 71 Copynumber: 2.0 Consensus size: 72
6534529 GAGGAAGTGA
*
6534539 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
6534602 CCAGTTAT
65 CCAGTTAT
** * * *
6534610 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCTAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
6534675 CAGTTAT
66 CAGTTAT
6534682 A
1 A
6534683 TGATAAAGCA
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
71 53 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:6534908 original size:31 final size:31
Alignment explanation
Indices: 6534873--6534936 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
6534863 CGTTTACAGT
*
6534873 AAAGGCTTTGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
6534904 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
6534935 AA
1 AA
6534937 TATGAAAAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.14, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:6539137 original size:50 final size:49
Alignment explanation
Indices: 6539014--6539189 Score: 228
Period size: 50 Copynumber: 3.5 Consensus size: 49
6539004 CTGGTATGCA
* * * *
6539014 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCGAGTACACG
**
6539063 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGA-TACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATC-GAGTACACG
* * *
6539113 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCGAGTACACG
6539164 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
6539190 TGCGACCTCA
Statistics
Matches: 111, Mismatches: 11, Indels: 8
0.85 0.08 0.06
Matches are distributed among these distances:
49 31 0.28
50 45 0.41
51 35 0.32
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCGAGTACACG
Done.