Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 136 of 145
Found at i:45317784 original size:16 final size:15
Alignment explanation
Indices: 45317750--45317799 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
45317740 ATGTTTTTTA
* *
45317750 TTTTGTTATCTGTAA
1 TTTTGTTATTTGTAT
45317765 TTTTGTGTATTTGTAT
1 TTTTGT-TATTTGTAT
*
45317781 TTTTGTTATATTATAT
1 TTTTGTTAT-TTGTAT
45317797 TTT
1 TTT
45317800 AATGATTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
15 9 0.30
16 21 0.70
ACGTcount: A:0.18, C:0.02, G:0.12, T:0.68
Consensus pattern (15 bp):
TTTTGTTATTTGTAT
Found at i:45325627 original size:15 final size:15
Alignment explanation
Indices: 45325607--45325657 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
45325597 TAAAAAATAA
45325607 AATAAAAGTAAACAT
1 AATAAAAGTAAACAT
*
45325622 AATAAAAATATATA-AT
1 AATAAAAGTA-A-ACAT
45325638 ACAATAAAAGTAAACAT
1 --AATAAAAGTAAACAT
45325655 AAT
1 AAT
45325658 CATTTTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
15 12 0.41
16 4 0.14
17 4 0.14
18 9 0.31
ACGTcount: A:0.67, C:0.06, G:0.04, T:0.24
Consensus pattern (15 bp):
AATAAAAGTAAACAT
Found at i:45325694 original size:2 final size:2
Alignment explanation
Indices: 45325683--45325711 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
45325673 AAATAGGAAA
45325683 AT AT -T 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 AT
45325712 GAGTTTTGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:45327149 original size:27 final size:28
Alignment explanation
Indices: 45327115--45327179 Score: 123
Period size: 28 Copynumber: 2.4 Consensus size: 28
45327105 AAAAAAAATA
45327115 ACCAAAATATTATAA-TTTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTTATTT
45327142 ACCAAAATATTATAACTTTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTTATTT
45327170 ACCAAAATAT
1 ACCAAAATAT
45327180 ACGAAAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 15 0.41
28 22 0.59
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (28 bp):
ACCAAAATATTATAACTTTTTTTTATTT
Found at i:45329040 original size:14 final size:15
Alignment explanation
Indices: 45329021--45329051 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
45329011 ATAAAGGAAT
45329021 ATTATAATAATG-TA
1 ATTATAATAATGATA
45329035 ATTATAATAATGATA
1 ATTATAATAATGATA
45329050 AT
1 AT
45329052 AATATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (15 bp):
ATTATAATAATGATA
Found at i:45329088 original size:35 final size:34
Alignment explanation
Indices: 45328984--45329088 Score: 88
Period size: 35 Copynumber: 3.1 Consensus size: 34
45328974 ATGTGGGTAG
* * * *
45328984 AATATTAGAATGATA-AATAATAAAAAAATAAAGG
1 AATATTATAATAATATAATAATAATAAAATAAA-T
* * *
45329018 AATATTATAATAATGTAATTATAATAATGAT-AAT
1 AATATTATAATAATATAATAATAATAA-AATAAAT
* *
45329052 AATATTAATAATCATATCATAATAATAAAATAAAT
1 AATATT-ATAATAATATAATAATAATAAAATAAAT
45329087 AA
1 AA
45329089 GGTAACTTAA
Statistics
Matches: 55, Mismatches: 12, Indels: 7
0.74 0.16 0.09
Matches are distributed among these distances:
34 20 0.36
35 33 0.60
36 2 0.04
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (34 bp):
AATATTATAATAATATAATAATAATAAAATAAAT
Found at i:45329218 original size:21 final size:21
Alignment explanation
Indices: 45329179--45329218 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
45329169 TAAAAGAAAT
*
45329179 AATAAAATAACAAGAACAAAA
1 AATAAAATAACAACAACAAAA
* *
45329200 AATAAAATAATAACCACAA
1 AATAAAATAACAACAACAA
45329219 TAATAAATGA
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:0.72, C:0.12, G:0.03, T:0.12
Consensus pattern (21 bp):
AATAAAATAACAACAACAAAA
Found at i:45329305 original size:4 final size:4
Alignment explanation
Indices: 45329278--45329329 Score: 70
Period size: 4 Copynumber: 13.2 Consensus size: 4
45329268 TCTTAAGCAT
* * *
45329278 ATAA AAAA ATAA AGAA GT-A ATAA ATAA ATAA ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
45329325 ATAA A
1 ATAA A
45329330 ATAATTTGTA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 2 0.05
4 39 0.95
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (4 bp):
ATAA
Found at i:45330045 original size:14 final size:15
Alignment explanation
Indices: 45330026--45330056 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
45330016 ATAAAGGAAT
45330026 ATTATAATAATG-TA
1 ATTATAATAATGATA
45330040 ATTATAATAATGATA
1 ATTATAATAATGATA
45330055 AT
1 AT
45330057 AATATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (15 bp):
ATTATAATAATGATA
Found at i:45330093 original size:35 final size:34
Alignment explanation
Indices: 45329989--45330093 Score: 88
Period size: 35 Copynumber: 3.1 Consensus size: 34
45329979 ATGTGGGTAG
* * * *
45329989 AATATTAGAATGATA-AATAATAAAAAAATAAAGG
1 AATATTATAATAATATAATAATAATAAAATAAA-T
* * *
45330023 AATATTATAATAATGTAATTATAATAATGAT-AAT
1 AATATTATAATAATATAATAATAATAA-AATAAAT
* *
45330057 AATATTAATAATCATATCATAATAATAAAATAAAT
1 AATATT-ATAATAATATAATAATAATAAAATAAAT
45330092 AA
1 AA
45330094 GGTAACTTAA
Statistics
Matches: 55, Mismatches: 12, Indels: 7
0.74 0.16 0.09
Matches are distributed among these distances:
34 20 0.36
35 33 0.60
36 2 0.04
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (34 bp):
AATATTATAATAATATAATAATAATAAAATAAAT
Found at i:45330223 original size:21 final size:21
Alignment explanation
Indices: 45330184--45330223 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
45330174 TAAAAGAAAT
*
45330184 AATAAAATAACAAGAACAAAA
1 AATAAAATAACAACAACAAAA
* *
45330205 AATAAAATAATAACCACAA
1 AATAAAATAACAACAACAA
45330224 TAATAAATGA
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:0.72, C:0.12, G:0.03, T:0.12
Consensus pattern (21 bp):
AATAAAATAACAACAACAAAA
Found at i:45330310 original size:4 final size:4
Alignment explanation
Indices: 45330283--45330330 Score: 62
Period size: 4 Copynumber: 12.2 Consensus size: 4
45330273 TCTTAAGCAT
* * *
45330283 ATAA AAAA ATAA AGAA GT-A ATAA ATAA ATAA ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
45330330 A
1 A
45330331 ATAATTTGTA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
3 2 0.05
4 35 0.95
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (4 bp):
ATAA
Found at i:45332039 original size:11 final size:11
Alignment explanation
Indices: 45332025--45332078 Score: 63
Period size: 11 Copynumber: 4.8 Consensus size: 11
45332015 TAAAATAGTG
45332025 AGAAAACAACA
1 AGAAAACAACA
* *
45332036 AGAAAATAGCA
1 AGAAAACAACA
*
45332047 ACAAAACAACA
1 AGAAAACAACA
45332058 AGAAAACAAACA
1 AGAAAAC-AACA
*
45332070 AAAAAACAA
1 AGAAAACAA
45332079 GATTTTTTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
11 25 0.71
12 10 0.29
ACGTcount: A:0.74, C:0.17, G:0.07, T:0.02
Consensus pattern (11 bp):
AGAAAACAACA
Found at i:45332044 original size:22 final size:22
Alignment explanation
Indices: 45332027--45332080 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
45332017 AAATAGTGAG
45332027 AAAACAACAAGAAAATAGCAAC
1 AAAACAACAAGAAAATAGCAAC
*
45332049 AAAACAACAAGAAAACA--AAC
1 AAAACAACAAGAAAATAGCAAC
*
45332069 AAAAAAACAAGA
1 AAAACAACAAGA
45332081 TTTTTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 14 0.47
22 16 0.53
ACGTcount: A:0.74, C:0.17, G:0.07, T:0.02
Consensus pattern (22 bp):
AAAACAACAAGAAAATAGCAAC
Found at i:45335613 original size:110 final size:111
Alignment explanation
Indices: 45335478--45335701 Score: 441
Period size: 110 Copynumber: 2.0 Consensus size: 111
45335468 TAAATCATCT
45335478 AATATTTTAAGATAAAATTATAAAAATATATATAATTAAAAATGAGACAAGAAGAATTAATGTAA
1 AATATTTTAAGATAAAATTATAAAAATATATATAATTAAAAATGAGACAAGAAGAATTAATGTAA
45335543 CATTCCCAAAACATAAAGGAATAAATAAAATAATCTTGATTACAAA
66 CATTCCCAAAACATAAAGGAATAAATAAAATAATCTTGATTACAAA
45335589 AATATTTTAAGAT-AAATTATAAAAATATATATAATTAAAAATGAGACAAGAAGAATTAATGTAA
1 AATATTTTAAGATAAAATTATAAAAATATATATAATTAAAAATGAGACAAGAAGAATTAATGTAA
45335653 CATTCCCAAAACATAAAGGAATAAATAAAATAATCTTGATTACAAA
66 CATTCCCAAAACATAAAGGAATAAATAAAATAATCTTGATTACAAA
45335699 AAT
1 AAT
45335702 GCAAGCATAC
Statistics
Matches: 113, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
110 100 0.88
111 13 0.12
ACGTcount: A:0.57, C:0.07, G:0.08, T:0.28
Consensus pattern (111 bp):
AATATTTTAAGATAAAATTATAAAAATATATATAATTAAAAATGAGACAAGAAGAATTAATGTAA
CATTCCCAAAACATAAAGGAATAAATAAAATAATCTTGATTACAAA
Found at i:45337555 original size:2 final size:2
Alignment explanation
Indices: 45337548--45337574 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
45337538 TAAGGATTTT
45337548 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
45337575 AGGAGTTGAT
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:45352295 original size:38 final size:38
Alignment explanation
Indices: 45352253--45352326 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
45352243 AACATTTGCT
*
45352253 GGTTGTTGGTCCTTTGTGCTTGGTTGTGGTTGTATACC
1 GGTTGTTGGTCCATTGTGCTTGGTTGTGGTTGTATACC
*
45352291 GGTTGTTGGTCCATTGTGCTTTGTTGTGGTTGTATA
1 GGTTGTTGGTCCATTGTGCTTGGTTGTGGTTGTATA
45352327 AAAGACTAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.07, C:0.11, G:0.34, T:0.49
Consensus pattern (38 bp):
GGTTGTTGGTCCATTGTGCTTGGTTGTGGTTGTATACC
Found at i:45359968 original size:20 final size:20
Alignment explanation
Indices: 45359943--45359983 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
45359933 CCAAGTTTTT
45359943 TAAATTTATAAAAAAAAATA
1 TAAATTTATAAAAAAAAATA
* * *
45359963 TAAATTTTTCAAAAATAATA
1 TAAATTTATAAAAAAAAATA
45359983 T
1 T
45359984 TTATTCTTTT
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:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAATTTATAAAAAAAAATA
Found at i:45360380 original size:31 final size:30
Alignment explanation
Indices: 45360323--45360382 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
45360313 AATAAAAAAA
*
45360323 TAAATAATAAAATAAGAGTTATACAATATC
1 TAAATAATAAAATAAAAGTTATACAATATC
45360353 TAAATAATAACAATAAAAGATTA-ACAATAT
1 TAAATAATAA-AATAAAAG-TTATACAATAT
45360383 AATAGCGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 10 0.37
31 14 0.52
32 3 0.11
ACGTcount: A:0.60, C:0.07, G:0.05, T:0.28
Consensus pattern (30 bp):
TAAATAATAAAATAAAAGTTATACAATATC
Found at i:45361562 original size:22 final size:22
Alignment explanation
Indices: 45361520--45361562 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
45361510 TTTTATTGTT
45361520 TTGTTACAATTTCACTATTATA
1 TTGTTACAATTTCACTATTATA
* * *
45361542 TTGTTACTATTTTACTGTTAT
1 TTGTTACAATTTCACTATTAT
45361563 TATTTATATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.12, G:0.07, T:0.56
Consensus pattern (22 bp):
TTGTTACAATTTCACTATTATA
Found at i:45362704 original size:14 final size:13
Alignment explanation
Indices: 45362671--45362722 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
45362661 CCCAAAATCC
*
45362671 TAAATCTTGAACT
1 TAAACCTTGAACT
*
45362684 CAAACCTTGAACTT
1 TAAACCTTGAAC-T
45362698 TAAACCTTGAAACT
1 TAAACCTTG-AACT
* *
45362712 TGAACATTGAA
1 TAAACCTTGAA
45362723 GTTTAGGGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
13 12 0.38
14 17 0.53
15 3 0.09
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (13 bp):
TAAACCTTGAACT
Found at i:45362788 original size:20 final size:20
Alignment explanation
Indices: 45362765--45362804 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
45362755 ATGTTCGTGT
*
45362765 TTTATGTTCAAGGTTCAAGG
1 TTTAAGTTCAAGGTTCAAGG
*
45362785 TTTAAGTTTAAGGTTCAAGG
1 TTTAAGTTCAAGGTTCAAGG
45362805 GTCCGGGGTT
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:0.28, C:0.07, G:0.25, T:0.40
Consensus pattern (20 bp):
TTTAAGTTCAAGGTTCAAGG
Found at i:45362849 original size:13 final size:13
Alignment explanation
Indices: 45362831--45362855 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45362821 TACAAGCTTG
45362831 GAGTTTAAGGTTT
1 GAGTTTAAGGTTT
45362844 GAGTTTAAGGTT
1 GAGTTTAAGGTT
45362856 ATGGGTTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.32, T:0.44
Consensus pattern (13 bp):
GAGTTTAAGGTTT
Found at i:45362948 original size:21 final size:22
Alignment explanation
Indices: 45362906--45362953 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
45362896 TTTAAATTTA
**
45362906 GGGTTTAGGGTTCATTGCTATG
1 GGGTTTAGGGTTCAAGGCTATG
*
45362928 GGGTTT-GGGTTCAAGGTTATG
1 GGGTTTAGGGTTCAAGGCTATG
*
45362949 AGGTT
1 GGGTT
45362954 GAGTTTAGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.15, C:0.06, G:0.40, T:0.40
Consensus pattern (22 bp):
GGGTTTAGGGTTCAAGGCTATG
Found at i:45363302 original size:13 final size:14
Alignment explanation
Indices: 45363273--45363308 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
45363263 GGTTTAAGGA
*
45363273 TTCAAGGTTATTGG
1 TTCAAGATTATTGG
45363287 TTCAAGATTA-TGG
1 TTCAAGATTATTGG
45363300 TTCAAGATT
1 TTCAAGATT
45363309 TTAGATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (14 bp):
TTCAAGATTATTGG
Found at i:45364002 original size:29 final size:29
Alignment explanation
Indices: 45363954--45364011 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
45363944 TTCCTTCCAC
* * *
45363954 CATATTATACTTTCATTATAATTTATTTTA
1 CATATTATAATTTAATTATAAATT-TTTTA
45363984 CATATT-TAATTTAATTATAAATTTTTTA
1 CATATTATAATTTAATTATAAATTTTTTA
45364012 TAATATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 5 0.20
29 14 0.56
30 6 0.24
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (29 bp):
CATATTATAATTTAATTATAAATTTTTTA
Found at i:45365375 original size:20 final size:21
Alignment explanation
Indices: 45365336--45365377 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
45365326 TGGTGATATT
* *
45365336 TATAAATATTAATTAATTAAA
1 TATAAATATAAATAAATTAAA
45365357 TATAAA-ATAAATAAATTAAA
1 TATAAATATAAATAAATTAAA
45365377 T
1 T
45365378 GGTGCCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TATAAATATAAATAAATTAAA
Found at i:45371865 original size:5 final size:5
Alignment explanation
Indices: 45371855--45371879 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
45371845 CAATATATAT
45371855 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
45371880 GAAAAATGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:45380045 original size:17 final size:17
Alignment explanation
Indices: 45380009--45380057 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
45379999 ATTCTTTTTC
45380009 TTTTTAATTTATTT-TGA
1 TTTTT-ATTTATTTATGA
*
45380026 TTTTTATTTATTTATTA
1 TTTTTATTTATTTATGA
*
45380043 TTTATATTT-TTTATG
1 TTTTTATTTATTTATG
45380058 CTTTAGGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 13 0.46
17 15 0.54
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.73
Consensus pattern (17 bp):
TTTTTATTTATTTATGA
Found at i:45381077 original size:5 final size:5
Alignment explanation
Indices: 45381067--45381144 Score: 59
Period size: 6 Copynumber: 14.4 Consensus size: 5
45381057 AGTAATAAAT
* * *
45381067 AATAA AATAA AATAA AGTAATA AATAA AGT-A AAGAA AATAA AATAAA
1 AATAA AATAA AATAA AAT-A-A AATAA AATAA AATAA AATAA AAT-AA
45381114 AATAAA AATAAA AATAAA AATAAA AATAA AA
1 AAT-AA AAT-AA AAT-AA AAT-AA AATAA AA
45381145 ATTGGGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
4 2 0.03
5 27 0.43
6 31 0.49
7 3 0.05
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:45381077 original size:12 final size:11
Alignment explanation
Indices: 45381060--45381144 Score: 82
Period size: 12 Copynumber: 7.2 Consensus size: 11
45381050 CCAAATAAGT
45381060 AATAAATAATAA
1 AATAAA-AATAA
45381072 AAT-AAAATAA
1 AATAAAAATAA
*
45381082 AGTAATAAATAA
1 AATAA-AAATAA
*
45381094 AGTAAAGAAAATAA
1 A--ATA-AAAATAA
45381108 AATAAAAATAAA
1 AATAAAAAT-AA
45381120 AATAAAAATAAA
1 AATAAAAAT-AA
45381132 AATAAAAATAA
1 AATAAAAATAA
45381143 AA
1 AA
45381145 ATTGGGTTGC
Statistics
Matches: 63, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
10 7 0.11
11 12 0.19
12 35 0.56
14 8 0.13
15 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.19
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:45381117 original size:6 final size:6
Alignment explanation
Indices: 45381101--45381146 Score: 85
Period size: 6 Copynumber: 7.8 Consensus size: 6
45381091 TAAAGTAAAG
45381101 AAAAT- AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAAT
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAAT
45381147 TGGGTTGCCT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 5 0.12
6 35 0.88
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:45383849 original size:46 final size:46
Alignment explanation
Indices: 45383796--45383980 Score: 325
Period size: 46 Copynumber: 4.0 Consensus size: 46
45383786 ACATTGCTAT
* * *
45383796 AACTCAGTATGGTTTTCTTCATTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACTGAAACACCATACCTACTTTTCAC
45383842 AACTCAGTATGGTTTTCTTTACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACTGAAACACCATACCTACTTTTCAC
*
45383888 AACTCGGTATGGTTTTCTTTACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACTGAAACACCATACCTACTTTTCAC
*
45383934 AACTCGGTATGGTTTTCTTTACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACTGAAACACCATACCTACTTTTCAC
45383980 A
1 A
45383981 TTTTTCCATG
Statistics
Matches: 135, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 135 1.00
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.37
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTTACTGAAACACCATACCTACTTTTCAC
Found at i:45385231 original size:17 final size:16
Alignment explanation
Indices: 45385207--45385248 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
45385197 ATTTAAATCG
45385207 CAAAAATTCACTAAAT
1 CAAAAATTCACTAAAT
* *
45385223 CACAAAATTCACTCATT
1 CA-AAAATTCACTAAAT
45385240 CAAAAATTC
1 CAAAAATTC
45385249 TTCTAAATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (16 bp):
CAAAAATTCACTAAAT
Found at i:45387996 original size:29 final size:29
Alignment explanation
Indices: 45387956--45388014 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
45387946 ATAAAATAAA
* *
45387956 ATCTTAAAATTAGATAATCCTTA-ATAATT
1 ATCTTAAAATTAAAT-ATCCTAATATAATT
*
45387985 ATCTTAATATTAAATATCCTAATATAATT
1 ATCTTAAAATTAAATATCCTAATATAATT
45388014 A
1 A
45388015 AAATAGAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 6 0.23
29 20 0.77
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (29 bp):
ATCTTAAAATTAAATATCCTAATATAATT
Found at i:45390615 original size:20 final size:22
Alignment explanation
Indices: 45390563--45390617 Score: 89
Period size: 21 Copynumber: 2.6 Consensus size: 22
45390553 GGTGGATCAA
45390563 CTCTTACGAGCTT-CTGTTCAG
1 CTCTTACGAGCTTCCTGTTCAG
45390584 CTCTTACGAGCTTCCTGTTCAG
1 CTCTTACGAGCTTCCTGTTCAG
45390606 CT-TT-CGAGCTTC
1 CTCTTACGAGCTTC
45390618 TATTGCCGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
20 8 0.24
21 15 0.45
22 10 0.30
ACGTcount: A:0.13, C:0.31, G:0.18, T:0.38
Consensus pattern (22 bp):
CTCTTACGAGCTTCCTGTTCAG
Found at i:45391159 original size:2 final size:2
Alignment explanation
Indices: 45391152--45391204 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
45391142 GTATGAGTGA
45391152 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
45391194 TG TG TG TG TG T
1 TG TG TG TG TG T
45391205 TCCTAATATA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:45402011 original size:12 final size:12
Alignment explanation
Indices: 45401994--45402018 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45401984 TCCCTGAAGT
45401994 ATCAAGAGGCTC
1 ATCAAGAGGCTC
45402006 ATCAAGAGGCTC
1 ATCAAGAGGCTC
45402018 A
1 A
45402019 CCAGAATGAA
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:0.36, C:0.24, G:0.24, T:0.16
Consensus pattern (12 bp):
ATCAAGAGGCTC
Found at i:45404326 original size:7 final size:6
Alignment explanation
Indices: 45404305--45404334 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
45404295 TACATATTAC
45404305 TCAAAA TCAAAA TCAGAAA TCAAAA TCAAA
1 TCAAAA TCAAAA TCA-AAA TCAAAA TCAAA
45404335 TGCATTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.63, C:0.17, G:0.03, T:0.17
Consensus pattern (6 bp):
TCAAAA
Found at i:45404326 original size:13 final size:13
Alignment explanation
Indices: 45404308--45404332 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45404298 ATATTACTCA
45404308 AAATCAAAATCAG
1 AAATCAAAATCAG
45404321 AAATCAAAATCA
1 AAATCAAAATCA
45404333 AATGCATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAATCAAAATCAG
Found at i:45410462 original size:15 final size:16
Alignment explanation
Indices: 45410442--45410478 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
45410432 ACAAAATCAA
45410442 ATAAAA-TTACATAAT
1 ATAAAAGTTACATAAT
*
45410457 ATAAAAGTTACATTAT
1 ATAAAAGTTACATAAT
45410473 ATAAAA
1 ATAAAA
45410479 ATTAAATGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (16 bp):
ATAAAAGTTACATAAT
Found at i:45412732 original size:30 final size:30
Alignment explanation
Indices: 45412693--45412761 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
45412683 TTAAATTAGT
* *
45412693 AATGGTAAAATTGTACTTT-ATCCCCCTAAA
1 AATGATAAAATTGTAATTTAAT-CCCCTAAA
* *
45412723 AATGATAAAATTTTAATTTAATCCTCTAAA
1 AATGATAAAATTGTAATTTAATCCCCTAAA
*
45412753 AATTATAAA
1 AATGATAAA
45412762 TATAGAGGCT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
30 31 0.94
31 2 0.06
ACGTcount: A:0.45, C:0.13, G:0.06, T:0.36
Consensus pattern (30 bp):
AATGATAAAATTGTAATTTAATCCCCTAAA
Found at i:45417675 original size:29 final size:29
Alignment explanation
Indices: 45417619--45417679 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
45417609 TTTAATAAAT
*
45417619 TTAATATTAAATTTAATTTAATCCTTATC
1 TTAATATTAAATTTAATTTAATACTTATC
* *
45417648 TTAATATTAAATTTAATTTTATATTTATC
1 TTAATATTAAATTTAATTTAATACTTATC
45417677 TTA
1 TTA
45417680 TAGATAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.56
Consensus pattern (29 bp):
TTAATATTAAATTTAATTTAATACTTATC
Found at i:45417687 original size:29 final size:29
Alignment explanation
Indices: 45417619--45417688 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
45417609 TTTAATAAAT
* *
45417619 TTAATATTAAATTTAATTTAATCCTTATC
1 TTAATAATAAATTTAATTTAATACTTATC
* * *
45417648 TTAATATTAAATTTAATTTTATATTTATC
1 TTAATAATAAATTTAATTTAATACTTATC
45417677 TT-ATAGATAAAT
1 TTAATA-ATAAAT
45417689 ATTCTATTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
28 3 0.08
29 33 0.92
ACGTcount: A:0.40, C:0.06, G:0.01, T:0.53
Consensus pattern (29 bp):
TTAATAATAAATTTAATTTAATACTTATC
Found at i:45429375 original size:45 final size:41
Alignment explanation
Indices: 45429302--45429391 Score: 94
Period size: 45 Copynumber: 2.1 Consensus size: 41
45429292 AAAGAAATGG
*
45429302 GAAACATTTAGAAATGATTATGGTTTTCTCTGAAATGGAGAAAT
1 GAAACATTTAGAAATGATTATGGTTTTCTC-AAAAT-G-GAAAT
*
45429346 GAAATCATTTGGAAATGAATGTA-GG-TTTCTCAAAATGGAAAT
1 GAAA-CATTTAGAAATG-AT-TATGGTTTTCTCAAAATGGAAAT
45429388 GAAA
1 GAAA
45429392 ATGGAAATGA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
42 9 0.22
43 1 0.02
44 8 0.20
45 17 0.41
46 4 0.10
47 2 0.05
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (41 bp):
GAAACATTTAGAAATGATTATGGTTTTCTCAAAATGGAAAT
Found at i:45429394 original size:12 final size:12
Alignment explanation
Indices: 45429377--45429407 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
45429367 TAGGTTTCTC
45429377 AAAATGGAAATG
1 AAAATGGAAATG
45429389 AAAATGGAAATG
1 AAAATGGAAATG
45429401 AGAAATG
1 A-AAATG
45429408 ATTCATTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.58, C:0.00, G:0.26, T:0.16
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:45439833 original size:16 final size:16
Alignment explanation
Indices: 45439812--45439842 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45439802 AAAAATCAAG
45439812 ATATTTATAAAAATTT
1 ATATTTATAAAAATTT
*
45439828 ATATTTTTAAAAATT
1 ATATTTATAAAAATT
45439843 ATAAAAATTA
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:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATTTATAAAAATTT
Found at i:45443877 original size:39 final size:39
Alignment explanation
Indices: 45443820--45443898 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 39
45443810 CACATCTAAC
45443820 TTTCAATAGTACCAAAAAATATTACTACCAGATCATAAG
1 TTTCAATAGTACCAAAAAATATTACTACCAGATCATAAG
*
45443859 TTTCAATAGGTACCAAAAAATATTACTACTAGATCATAAG
1 TTTCAATA-GTACCAAAAAATATTACTACCAGATCATAAG
45443899 CCCCGTTCAG
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
39 8 0.21
40 30 0.79
ACGTcount: A:0.46, C:0.16, G:0.09, T:0.29
Consensus pattern (39 bp):
TTTCAATAGTACCAAAAAATATTACTACCAGATCATAAG
Found at i:45461137 original size:5 final size:5
Alignment explanation
Indices: 45461127--45461152 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
45461117 CCTCCATTAT
45461127 TCTTC TCTTC TCTTC TCTTC TCTTC T
1 TCTTC TCTTC TCTTC TCTTC TCTTC T
45461153 GCTCACTCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (5 bp):
TCTTC
Found at i:45462444 original size:18 final size:18
Alignment explanation
Indices: 45462423--45462458 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
45462413 AACTAGAAAT
45462423 AAATATATAAAAAATTTA
1 AAATATATAAAAAATTTA
45462441 AAATATATAAAAAATTTA
1 AAATATATAAAAAATTTA
45462459 GAAAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATATATAAAAAATTTA
Found at i:45462822 original size:46 final size:46
Alignment explanation
Indices: 45462755--45462844 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
45462745 ATGAATGATG
* * * *
45462755 TTATGTATTTAATATATTGTTGAAAAATGGAGTGTTGTTAAATTTA
1 TTATGTATTTAACATATTGTTGAAAAATGAAATATTGTTAAATTTA
*
45462801 TTATGTATTTAGCATATTGTTGAAAAATGAAATATTGTTAAATT
1 TTATGTATTTAACATATTGTTGAAAAATGAAATATTGTTAAATT
45462845 ATGAATTGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.37, C:0.01, G:0.16, T:0.47
Consensus pattern (46 bp):
TTATGTATTTAACATATTGTTGAAAAATGAAATATTGTTAAATTTA
Found at i:45463070 original size:21 final size:21
Alignment explanation
Indices: 45463046--45463096 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
45463036 CCTAATGGGT
45463046 TTCCATTCAGCTCCTATGAGC
1 TTCCATTCAGCTCCTATGAGC
* *
45463067 TTCCGTTCAGCTCTTATGAGC
1 TTCCATTCAGCTCCTATGAGC
*
45463088 TTCCTTTCA
1 TTCCATTCA
45463097 ACCCTTACGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.16, C:0.31, G:0.14, T:0.39
Consensus pattern (21 bp):
TTCCATTCAGCTCCTATGAGC
Found at i:45463103 original size:21 final size:21
Alignment explanation
Indices: 45463025--45463103 Score: 70
Period size: 21 Copynumber: 3.8 Consensus size: 21
45463015 ACTCATAAGT
* * *
45463025 TTCCATTCAACCCTAATGGGT
1 TTCCATTCAACCCTTATGAGC
*
45463046 TTCCATTCAGCTCC-TATGAGC
1 TTCCATTCAAC-CCTTATGAGC
* * *
45463067 TTCCGTTCAGCTCTTATGAGC
1 TTCCATTCAACCCTTATGAGC
*
45463088 TTCCTTTCAACCCTTA
1 TTCCATTCAACCCTTA
45463104 CGGGTTTCTA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.19, C:0.32, G:0.13, T:0.37
Consensus pattern (21 bp):
TTCCATTCAACCCTTATGAGC
Found at i:45467015 original size:390 final size:390
Alignment explanation
Indices: 45466296--45467076 Score: 1562
Period size: 390 Copynumber: 2.0 Consensus size: 390
45466286 TTTAATAATC
45466296 ACTATATTTATTACAAGTATAACATTATTTATATTTATTCATGTACTATATCATCATCATACATT
1 ACTATATTTATTACAAGTATAACATTATTTATATTTATTCATGTACTATATCATCATCATACATT
45466361 TGTCATGTTTTAATTTATTTATCACATAAAGATTTTATAATATAATTATTTAATTAATAAATATC
66 TGTCATGTTTTAATTTATTTATCACATAAAGATTTTATAATATAATTATTTAATTAATAAATATC
45466426 TTTTACTTAATAAATAATAAATATCTATTTACTTAAATCATAAGTAATTTAAATCTATGAATTAC
131 TTTTACTTAATAAATAATAAATATCTATTTACTTAAATCATAAGTAATTTAAATCTATGAATTAC
45466491 AATTGTATGCTCATTTTTATTACACATGTATATTTTATTGCCATATATTTGACTTTAATTTATAT
196 AATTGTATGCTCATTTTTATTACACATGTATATTTTATTGCCATATATTTGACTTTAATTTATAT
45466556 ATATTTCATTAATTTAATAAGATAATATCAATTAAATAATAATTTATACTATTGTATTCTAAAAT
261 ATATTTCATTAATTTAATAAGATAATATCAATTAAATAATAATTTATACTATTGTATTCTAAAAT
45466621 TAATTAATAATAACTTAAATCATTAAAAATCTTTAGATTTTTCTCATTGTTTTGCCGCCTCAACT
326 TAATTAATAATAACTTAAATCATTAAAAATCTTTAGATTTTTCTCATTGTTTTGCCGCCTCAACT
45466686 ACTATATTTATTACAAGTATAACATTATTTATATTTATTCATGTACTATATCATCATCATACATT
1 ACTATATTTATTACAAGTATAACATTATTTATATTTATTCATGTACTATATCATCATCATACATT
45466751 TGTCATGTTTTAATTTATTTATCACATAAAGATTTTATAATATAATTATTTAATTAATAAATATC
66 TGTCATGTTTTAATTTATTTATCACATAAAGATTTTATAATATAATTATTTAATTAATAAATATC
45466816 TTTTACTTAATAAATAATAAATATCTATTTACTTAAATCATAAGTAATTTAAATCTATGAATTAC
131 TTTTACTTAATAAATAATAAATATCTATTTACTTAAATCATAAGTAATTTAAATCTATGAATTAC
45466881 AATTGTATGCTCATTTTTATTACACATGTATATTTTATTGCCATATATTTGACTTTAATTTATAT
196 AATTGTATGCTCATTTTTATTACACATGTATATTTTATTGCCATATATTTGACTTTAATTTATAT
45466946 ATATTTCATTAATTTAATAAGATAATATCAATTAAATAATAATTTATACTATTGTATTCTAAAAT
261 ATATTTCATTAATTTAATAAGATAATATCAATTAAATAATAATTTATACTATTGTATTCTAAAAT
45467011 TAATTAATAATAACTTAAATCATTAAAAATCTTTAGATTTTTCTCATTGTTTTGCCGCCTCAACT
326 TAATTAATAATAACTTAAATCATTAAAAATCTTTAGATTTTTCTCATTGTTTTGCCGCCTCAACT
45467076 A
1 A
45467077 TGACTTAATG
Statistics
Matches: 391, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
390 391 1.00
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (390 bp):
ACTATATTTATTACAAGTATAACATTATTTATATTTATTCATGTACTATATCATCATCATACATT
TGTCATGTTTTAATTTATTTATCACATAAAGATTTTATAATATAATTATTTAATTAATAAATATC
TTTTACTTAATAAATAATAAATATCTATTTACTTAAATCATAAGTAATTTAAATCTATGAATTAC
AATTGTATGCTCATTTTTATTACACATGTATATTTTATTGCCATATATTTGACTTTAATTTATAT
ATATTTCATTAATTTAATAAGATAATATCAATTAAATAATAATTTATACTATTGTATTCTAAAAT
TAATTAATAATAACTTAAATCATTAAAAATCTTTAGATTTTTCTCATTGTTTTGCCGCCTCAACT
Found at i:45475497 original size:18 final size:18
Alignment explanation
Indices: 45475460--45475498 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
45475450 TAGATTATAA
*
45475460 TATGTTTTTCTAAATTTT
1 TATGTTTTTCTAAATGTT
45475478 TATGTATTTTCT-AATGTT
1 TATGT-TTTTCTAAATGTT
45475496 TAT
1 TAT
45475499 ATACATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.23, C:0.05, G:0.08, T:0.64
Consensus pattern (18 bp):
TATGTTTTTCTAAATGTT
Found at i:45485377 original size:16 final size:16
Alignment explanation
Indices: 45485358--45485394 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
45485348 CAAACAAATT
45485358 TTAAA-CAAAACAGCAC
1 TTAAATCAAAACA-CAC
45485374 TTAAATCAAAACACAC
1 TTAAATCAAAACACAC
45485390 TTAAA
1 TTAAA
45485395 ACTTGAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.57, C:0.22, G:0.03, T:0.19
Consensus pattern (16 bp):
TTAAATCAAAACACAC
Found at i:45493900 original size:6 final size:6
Alignment explanation
Indices: 45493889--45494051 Score: 89
Period size: 6 Copynumber: 26.8 Consensus size: 6
45493879 TTGTCGTGAC
** * * * *
45493889 TCTCAT TCTCAT TCTCAT TCTCGC TCACAC TCTCAT TCTCGCT T-TCAC
1 TCTCAT TCTCAT TCTCAT TCTCAT TCTCAT TCTCAT TCTC-AT TCTCAT
* * * * * *
45493937 TCTCTT TCTCACAC TCTCAT TCTCACT T-TCAC TCTCAC TCACAC TCTCAT
1 TCTCAT TCT--CAT TCTCAT TCTCA-T TCTCAT TCTCAT TCTCAT TCTCAT
* * * * * * *
45493987 TCTCAA TCTCAT TCTCAC TCTCGT TCTTAT TCTCAC TCACACT T-TCAC
1 TCTCAT TCTCAT TCTCAT TCTCAT TCTCAT TCTCAT TCTCA-T TCTCAT
45494035 TCTCAT TCTCAT TCTCA
1 TCTCAT TCTCAT TCTCA
45494052 CTCACACTTG
Statistics
Matches: 117, Mismatches: 32, Indels: 16
0.71 0.19 0.10
Matches are distributed among these distances:
5 3 0.03
6 105 0.90
7 5 0.04
8 4 0.03
ACGTcount: A:0.17, C:0.39, G:0.02, T:0.42
Consensus pattern (6 bp):
TCTCAT
Found at i:45494003 original size:30 final size:30
Alignment explanation
Indices: 45493887--45494054 Score: 158
Period size: 30 Copynumber: 5.5 Consensus size: 30
45493877 ACTTGTCGTG
* *
45493887 ACTCTCATTCTCATTCTCATTCTCGCTCAC
1 ACTCTCATTCTCACTCTCATTCTCACTCAC
* * **
45493917 ACTCTCATTCTCGCTTTCACTCTCTTTCTCAC
1 ACTCTCATTCTCACTCTCA-T-TCTCACTCAC
* *
45493949 ACTCTCATTCTCACTTTCACTCTCACTCAC
1 ACTCTCATTCTCACTCTCATTCTCACTCAC
* *
45493979 ACTCTCATTCTCAATCTCATTCTCACTCTC
1 ACTCTCATTCTCACTCTCATTCTCACTCAC
** * * *
45494009 GTTCTTATTCTCACTCACACTT-TCACTCTC
1 ACTCTCATTCTCACTCTCA-TTCTCACTCAC
*
45494039 ATTCTCATTCTCACTC
1 ACTCTCATTCTCACTC
45494055 ACACTTGCAC
Statistics
Matches: 115, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
30 86 0.75
31 3 0.03
32 26 0.23
ACGTcount: A:0.17, C:0.40, G:0.02, T:0.41
Consensus pattern (30 bp):
ACTCTCATTCTCACTCTCATTCTCACTCAC
Found at i:45494054 original size:18 final size:18
Alignment explanation
Indices: 45493889--45494074 Score: 117
Period size: 18 Copynumber: 10.2 Consensus size: 18
45493879 TTGTCGTGAC
*
45493889 TCTCATTCTCATTCTCAT
1 TCTCACTCTCATTCTCAT
* * *
45493907 TCTCGCTCACACTCTCAT
1 TCTCACTCTCATTCTCAT
* * * *
45493925 TCTCGCTTTCACTCTCTT
1 TCTCACTCTCATTCTCAT
45493943 TCTCACACTCTCATTCTCACT
1 TCT--CACTCTCATTCTCA-T
* * *
45493964 T-TCACTCTCACTCACAC
1 TCTCACTCTCATTCTCAT
* *
45493981 TCTCATTCTCAATCTCAT
1 TCTCACTCTCATTCTCAT
* *
45493999 TCTCACTCTCGTTCTTAT
1 TCTCACTCTCATTCTCAT
* *
45494017 TCTCACTCACACTT-TCAC
1 TCTCACTCTCA-TTCTCAT
* *
45494035 TCTCATTCTCATTCTCAC
1 TCTCACTCTCATTCTCAT
* *
45494053 TCACACT-TGCACTCTCAT
1 TCTCACTCT-CATTCTCAT
45494071 TCTC
1 TCTC
45494075 GTTCTTCATC
Statistics
Matches: 128, Mismatches: 33, Indels: 14
0.73 0.19 0.08
Matches are distributed among these distances:
17 4 0.03
18 109 0.85
19 2 0.02
20 11 0.09
21 2 0.02
ACGTcount: A:0.17, C:0.40, G:0.02, T:0.41
Consensus pattern (18 bp):
TCTCACTCTCATTCTCAT
Found at i:45494066 original size:30 final size:30
Alignment explanation
Indices: 45494020--45494079 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
45494010 TTCTTATTCT
*
45494020 CACTCACACTTTCACTCTCATTCTCATTCT
1 CACTCACACTTGCACTCTCATTCTCATTCT
*
45494050 CACTCACACTTGCACTCTCATTCTCGTTCT
1 CACTCACACTTGCACTCTCATTCTCATTCT
45494080 TCATCTCGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.18, C:0.40, G:0.03, T:0.38
Consensus pattern (30 bp):
CACTCACACTTGCACTCTCATTCTCATTCT
Found at i:45494579 original size:32 final size:32
Alignment explanation
Indices: 45494543--45494606 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
45494533 GCACGTCTAG
* *
45494543 AATGAACTTA-AACAAATTGTTGTCTAGATTCA
1 AATGAA-TTAGAACAAATAGATGTCTAGATTCA
*
45494575 AATGAATTAGAAGAAATAGATGTCTAGATTCA
1 AATGAATTAGAACAAATAGATGTCTAGATTCA
45494607 TTTTGAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 3 0.11
32 25 0.89
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.31
Consensus pattern (32 bp):
AATGAATTAGAACAAATAGATGTCTAGATTCA
Found at i:45497083 original size:24 final size:23
Alignment explanation
Indices: 45497047--45497096 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
45497037 AATTATTTTA
*
45497047 AAATCATTCTATACTATTTACTTT
1 AAATCATTCTATACTAGTTA-TTT
*
45497071 AAATCAATT-TATATTAGTTATTT
1 AAATC-ATTCTATACTAGTTATTT
45497094 AAA
1 AAA
45497097 GCTCATTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 6 0.26
24 14 0.61
25 3 0.13
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (23 bp):
AAATCATTCTATACTAGTTATTT
Found at i:45499935 original size:38 final size:38
Alignment explanation
Indices: 45499863--45499935 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
45499853 ACTATTTACT
* * *
45499863 ATTACTGTTATTATCATTATTTCTATCTTCATACACGC
1 ATTACTATTATTATCATTATTTCTATATTAATACACGC
*
45499901 ATTACTATTATTATTATTATTT-TATATATAATACA
1 ATTACTATTATTATCATTATTTCTATAT-TAATACA
45499936 TATATGCATG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 4 0.13
38 26 0.87
ACGTcount: A:0.33, C:0.14, G:0.03, T:0.51
Consensus pattern (38 bp):
ATTACTATTATTATCATTATTTCTATATTAATACACGC
Found at i:45503341 original size:12 final size:12
Alignment explanation
Indices: 45503324--45503350 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
45503314 GAAGGGGGAG
45503324 CTGTTGGCCTTC
1 CTGTTGGCCTTC
45503336 CTGTTGGCCTTC
1 CTGTTGGCCTTC
45503348 CTG
1 CTG
45503351 GTGCGGCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.33, G:0.26, T:0.41
Consensus pattern (12 bp):
CTGTTGGCCTTC
Found at i:45505584 original size:12 final size:12
Alignment explanation
Indices: 45505567--45505591 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45505557 TTCCACATCT
45505567 GAATGCACCTTC
1 GAATGCACCTTC
45505579 GAATGCACCTTC
1 GAATGCACCTTC
45505591 G
1 G
45505592 TCGATATCAG
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:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (12 bp):
GAATGCACCTTC
Found at i:45508067 original size:13 final size:13
Alignment explanation
Indices: 45508049--45508073 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45508039 ATTAAAGAAG
45508049 AAAATATTTAATA
1 AAAATATTTAATA
45508062 AAAATATTTAAT
1 AAAATATTTAAT
45508074 TGATTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATATTTAATA
Found at i:45508313 original size:20 final size:21
Alignment explanation
Indices: 45508290--45508338 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
45508280 ATTTTGTATA
*
45508290 TTTTTTTAT-ATTTTTAAATT
1 TTTTTTTATAATTTTAAAATT
*
45508310 TTTTTTCATAATTTTAAAATT
1 TTTTTTTATAATTTTAAAATT
45508331 TTATTTTT
1 TT-TTTTT
45508339 TGTAATTTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 8 0.33
21 12 0.50
22 4 0.17
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (21 bp):
TTTTTTTATAATTTTAAAATT
Found at i:45509981 original size:9 final size:9
Alignment explanation
Indices: 45509967--45510112 Score: 265
Period size: 9 Copynumber: 16.2 Consensus size: 9
45509957 TTTGCTTAAA
45509967 AATTACCCG
1 AATTACCCG
45509976 AATTACCCG
1 AATTACCCG
*
45509985 AATTAACCG
1 AATTACCCG
**
45509994 AATTAGTCG
1 AATTACCCG
45510003 AATTACCCG
1 AATTACCCG
45510012 AATTACCCG
1 AATTACCCG
45510021 AATTACCCG
1 AATTACCCG
45510030 AATTACCCG
1 AATTACCCG
45510039 AATTACCCG
1 AATTACCCG
45510048 AATTACCCG
1 AATTACCCG
45510057 AATTACCCG
1 AATTACCCG
45510066 AATTACCCG
1 AATTACCCG
45510075 AATTACCCG
1 AATTACCCG
45510084 AATTACCCG
1 AATTACCCG
45510093 AATTACCCG
1 AATTACCCG
45510102 AATTACCCG
1 AATTACCCG
45510111 AA
1 AA
45510113 CTTTAGTTTT
Statistics
Matches: 132, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 132 1.00
ACGTcount: A:0.35, C:0.31, G:0.12, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:45515698 original size:20 final size:20
Alignment explanation
Indices: 45515673--45515712 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
45515663 AATATTTTCC
*
45515673 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
45515693 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
45515713 TTATTTTACG
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:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:45515727 original size:34 final size:35
Alignment explanation
Indices: 45515661--45515727 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
45515651 CAAACACCAG
*
45515661 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
45515696 AAAACATTTTCCAG-AAATTATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
45515728 CAATTTACTG
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:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:45517499 original size:10 final size:10
Alignment explanation
Indices: 45517468--45517501 Score: 52
Period size: 9 Copynumber: 3.4 Consensus size: 10
45517458 TTTATACTAA
45517468 AAATAATATAC
1 AAAT-ATATAC
45517479 AAATA-ATAC
1 AAATATATAC
45517488 AAATATATAC
1 AAATATATAC
45517498 AAAT
1 AAAT
45517502 TTAAAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.41
10 9 0.41
11 4 0.18
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (10 bp):
AAATATATAC
Found at i:45517519 original size:16 final size:17
Alignment explanation
Indices: 45517467--45517520 Score: 56
Period size: 19 Copynumber: 3.1 Consensus size: 17
45517457 TTTTATACTA
*
45517467 AAAATAATATACAAATAAT
1 AAAAT-ATATACAAAT-TT
45517486 ACAAATATATACAAATTT
1 A-AAATATATACAAATTT
*
45517504 AAAATAT-TATAAATTT
1 AAAATATATACAAATTT
45517520 A
1 A
45517521 TAAAAACGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 9 0.28
17 6 0.19
18 2 0.06
19 11 0.34
20 4 0.12
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAATATATACAAATTT
Found at i:45517686 original size:29 final size:27
Alignment explanation
Indices: 45517647--45517705 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
45517637 TTAAAATTAC
*
45517647 AAAAAAATAAAA-ATTGTAAAATTATGA
1 AAAAAAATAAAATATAG-AAAATTATGA
*
45517674 AAAAAAATTTAAAATATAGAAAATTATTA
1 AAAAAAA--TAAAATATAGAAAATTATGA
45517703 AAA
1 AAA
45517706 TTGTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 7 0.26
29 17 0.63
30 3 0.11
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (27 bp):
AAAAAAATAAAATATAGAAAATTATGA
Found at i:45517695 original size:20 final size:21
Alignment explanation
Indices: 45517655--45517696 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
45517645 ACAAAAAAAT
45517655 AAAAATTGTAAAATTATGAAA
1 AAAAATTGTAAAATTATGAAA
45517676 AAAAATT-TAAAA-TATAGAAA
1 AAAAATTGTAAAATTAT-GAAA
45517696 A
1 A
45517697 TTATTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 3 0.15
20 10 0.50
21 7 0.35
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (21 bp):
AAAAATTGTAAAATTATGAAA
Found at i:45519622 original size:342 final size:341
Alignment explanation
Indices: 45519256--45519949 Score: 1071
Period size: 342 Copynumber: 2.0 Consensus size: 341
45519246 ACACAGTACA
45519256 AATTTTTTTT-GTGTCAGAATCAGATATAAAAATACGAAAAAAATAAAAAAAATTTT-GGTGCTG
1 AATTTTTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAATAAAAAAAATTTTAGGTGCTG
* * ******
45519319 GTCTGTCAATGGCC-GCACCCAGTACACAGTACAAA-ATTTTTTTTATTTTT-ATTTTTTTTCGT
66 GCCTATCAATGGCCGGCACCCAGTACACAGTACAAAGA--AAAAAAATTTTTAATTTTTTTTCGT
* *
45519381 GTCAGAATCAGATATAAAAATACGAAAAAAATAAAAAAAAATTTTTGGGTGCTGGCCTGTCAATG
129 GTCAGAATCAGATATAAAAATACGAAAAAAAT-AAAAAAAA-TTTTAGGTGCTGGCCTATCAATG
*
45519446 GCCGGCACCCAGTACATAGTATAAAATTTTTTTTTAATTTTTTTCGTGTCAGAATCAAATATAAA
192 GCCGGCACCCAGTACACAGTA-AAAA-TTTTTTTTAATTTTTTTCGTGTCAGAATCAAATATAAA
* *
45519511 AATACGAAAAAAA-ATAA-AAA-AAAATTTTGGGTGCTGGCCTGTCAATGGCAGGTACCCAGTAC
255 AATACGAAAAAAATA-AATAAATAAAAATTTGGGTGCTGGCCTGTCAATGGCAGGCACCCAGTAC
*
45519573 ACAGTACAAAGAAAAAAAATTTTT
319 ACAGTACAAAGAAAAAAAA-ATTT
* *
45519597 AATTTTTTTTCGTGTCAGAATCAGATTTAAAAATACGAAAAAAATAAAAAAGATTTTAGGTGCTG
1 AATTTTTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAATAAAAAAAATTTTAGGTGCTG
45519662 GCCTATCAATGGCCGGCACCCAGTACACAGTACAAAGAAAAAAAATTTTTAATTTTTTTTCGTGT
66 GCCTATCAATGGCCGGCACCCAGTACACAGTACAAAGAAAAAAAATTTTTAATTTTTTTTCGTGT
*
45519727 CAGAATCAGATTTAAAAATACGAAAAAAATAAAAAAAATTTTAGGTGCTGGCCTATCAATGGCCG
131 CAGAATCAGATATAAAAATACGAAAAAAATAAAAAAAATTTTAGGTGCTGGCCTATCAATGGCCG
* * *
45519792 GCACCCAGTACACAGTACAAATTTTTTTTAATTTTTTTCGTGTCAGAATTAGATATAAAAATACG
196 GCACCCAGTACACAGTAAAAATTTTTTTTAATTTTTTTCGTGTCAGAATCAAATATAAAAATACG
*
45519857 AAAAAAATAAATAAATAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTAC
261 AAAAAAATAAATAAATAAAAATTTGGGTGCTGGCCTGTCAATGGCAGGCACCCAGTACACAGTAC
45519922 AAAGAAAAAAAAATTT
326 AAAGAAAAAAAAATTT
45519938 AATTTTTTTTCG
1 AATTTTTTTTCG
45519950 GAGCGCTGGC
Statistics
Matches: 324, Mismatches: 21, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
340 51 0.16
341 32 0.10
342 143 0.44
343 33 0.10
344 64 0.20
345 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (341 bp):
AATTTTTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAATAAAAAAAATTTTAGGTGCTG
GCCTATCAATGGCCGGCACCCAGTACACAGTACAAAGAAAAAAAATTTTTAATTTTTTTTCGTGT
CAGAATCAGATATAAAAATACGAAAAAAATAAAAAAAATTTTAGGTGCTGGCCTATCAATGGCCG
GCACCCAGTACACAGTAAAAATTTTTTTTAATTTTTTTCGTGTCAGAATCAAATATAAAAATACG
AAAAAAATAAATAAATAAAAATTTGGGTGCTGGCCTGTCAATGGCAGGCACCCAGTACACAGTAC
AAAGAAAAAAAAATTT
Found at i:45519683 original size:115 final size:116
Alignment explanation
Indices: 45519256--45519949 Score: 917
Period size: 115 Copynumber: 6.1 Consensus size: 116
45519246 ACACAGTACA
45519256 AATTTTTTTT-GTGTCAGAATCAGATATAAAAATACGAAAAAAAT-AAAAAAAATTTT-GGTGCT
1 AATTTTTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAATAAAAAAAAATTTTGGGTGCT
* ******
45519318 GGTCTGTCAATGGCC-GCACCCAGTACACAGTACAAA-ATTTTTTTTATTTTT
66 GGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGA--AAAAAAATTTTT
45519369 -ATTTTTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAATAAAAAAAAATTTTTGGGTGC
1 AATTTTTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAATAAAAAAAAA-TTTTGGGTGC
* * ****
45519433 TGGCCTGTCAATGGCCGGCACCCAGTACATAGT----ATAAAATTTTTTTTT
65 TGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGAAAAAAAATTTTT
*
45519481 AA-TTTTTTTCGTGTCAGAATCAAATATAAAAATACGAAAAAAAATAAAAAAAAATTTTGGGTGC
1 AATTTTTTTTCGTGTCAGAATCAGATATAAAAATACG-AAAAAAATAAAAAAAAATTTTGGGTGC
* *
45519545 TGGCCTGTCAATGGCAGGTACCCAGTACACAGTACAAAGAAAAAAAATTTTT
65 TGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGAAAAAAAATTTTT
* * *
45519597 AATTTTTTTTCGTGTCAGAATCAGATTTAAAAATACGAAAAAAAT-AAAAAAGATTTTAGGTGCT
1 AATTTTTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAATAAAAAAAAATTTTGGGTGCT
*
45519661 GGCCTATCAATGGCCGGCACCCAGTACACAGTACAAAGAAAAAAAATTTTT
66 GGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGAAAAAAAATTTTT
* *
45519712 AATTTTTTTTCGTGTCAGAATCAGATTTAAAAATACGAAAAAAAT-AAAAAAAATTTTAGGTGCT
1 AATTTTTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAATAAAAAAAAATTTTGGGTGCT
* ***
45519776 GGCCTATCAATGGCCGGCACCCAGTACACAGTAC------AAATTTTTTTT
66 GGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGAAAAAAAATTTTT
* *
45519821 AA-TTTTTTTCGTGTCAGAATTAGATATAAAAATACGAAAAAAATAAATAAATAAAAATTTGGGT
1 AATTTTTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAAT-AA-AAA-AAAATTTTGGGT
*
45519885 GCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGAAAAAAAA-ATTT
63 GCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGAAAAAAAATTTTT
45519938 AATTTTTTTTCG
1 AATTTTTTTTCG
45519950 GAGCGCTGGC
Statistics
Matches: 522, Mismatches: 35, Indels: 43
0.87 0.06 0.07
Matches are distributed among these distances:
108 40 0.08
109 10 0.02
110 1 0.00
111 3 0.01
112 136 0.26
113 53 0.10
114 9 0.02
115 166 0.32
116 40 0.08
117 52 0.10
118 12 0.02
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (116 bp):
AATTTTTTTTCGTGTCAGAATCAGATATAAAAATACGAAAAAAATAAAAAAAAATTTTGGGTGCT
GGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGAAAAAAAATTTTT
Found at i:45521120 original size:113 final size:113
Alignment explanation
Indices: 45520424--45521480 Score: 1475
Period size: 113 Copynumber: 9.3 Consensus size: 113
45520414 TATATATGAT
* * * * * *
45520424 TGTACTAGGTGCCGGCCATTGGCAGGCCAGTAACTCAAAAATTTTTTTATTTTTTTTCGTATTTT
1 TGTACTGGGTGCCGGCCATTGACAGGCCAG-CAC-CCAAATTTTTTTTAATTTTTTTCGTATTTT
45520489 TAAATCTGATTCTGACAC-AAAAAAATTAAAAATTTTTCTTTTCTTTGTACTG
64 TAAATCTGATTCTGACACAAAAAAAATT-AAAA-TTTT-TTTTCTTTGTACTG
* *
45520541 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTATTTTTTATTTTTAGTAT
1 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAA-TTTTTTTTA---ATT-TTTTTCGTAT
* *
45520606 TTTTAAATCTAATTCTGACATTAAAAAAAAATT-AAATTTTTTTTCTTTGTACTG
61 TTTTAAATCTGATTCTGACA--CAAAAAAAATTAAAATTTTTTTTCTTTGTACTG
*
45520660 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAAATTTTTTTTTAAATTTTTTTTGTA
1 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC----AAA-TTTTTTTT-AATTTTTTTCGTA
* * *
45520725 TTTTTATATCTGATTTTGACACGAAAAAAATTAAAA---TTTTT-TTTGTACTG
60 TTTTTAAATCTGATTCTGACACAAAAAAAATTAAAATTTTTTTTCTTTGTACTG
* * * *
45520775 TGTACTGGGTGCCGGCCATTGACACGACAGCACCAAAATTTTTTTTTATTTTTTTCGTATTTTTA
1 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTAATTTTTTTCGTATTTTTA
* *
45520840 TATCTGATTCTGACACGAAAAAAATTAAAA----TTTT-TTTGTACTG
66 AATCTGATTCTGACACAAAAAAAATTAAAATTTTTTTTCTTTGTACTG
* * * *
45520883 TGTACTGGGTGCCGGCCATTGACACGACAGCACCAAAATTTTTTTTTATTTTTTTCGTATTTTTA
1 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTAATTTTTTTCGTATTTTTA
* *
45520948 TATCTGATTCTGACACGAAAAAAAATTTAAATTTTTTTTCTTTGTACTG
66 AATCTGATTCTGACAC-AAAAAAAATTAAAATTTTTTTTCTTTGTACTG
*
45520997 TGTACTGGGTGCCGGCCATTGACAGGCCAGTACCCAAATTTTTTTTAATTTTTTTCGTATTTTTA
1 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTAATTTTTTTCGTATTTTTA
*
45521062 AATCTGATTCTGACACAAAAAAAAGTAAAATTTTTTTTCTTTGTACTG
66 AATCTGATTCTGACACAAAAAAAATTAAAATTTTTTTTCTTTGTACTG
*
45521110 TGTACTGGGTGCCGGCCATTGACAGGCCAGTACCCAAATTTTTTTTAATTTTTTTCGTATTTTTA
1 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTAATTTTTTTCGTATTTTTA
*
45521175 AATCTGATTCTGACACAAAAAAAAGTAAAATTTTTTTTCTTTGTACTG
66 AATCTGATTCTGACACAAAAAAAATTAAAATTTTTTTTCTTTGTACTG
*
45521223 TGTACTGGGTGCCGGCCATTGACAGGCCAGTACCCAAATTTTTTTTAATTTTTTTCGTATTTTTA
1 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTAATTTTTTTCGTATTTTTA
*
45521288 AATCTGATTCTGACACAAAAAAAAGTAAAATTTTTTTTCTTTGTACTG
66 AATCTGATTCTGACACAAAAAAAATTAAAATTTTTTTTCTTTGTACTG
45521336 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTT-ATTTTTTTCGTATTTTT
1 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCC-AAATTTTTTTTAATTTTTTTCGTATTTTT
* * *
45521400 ATATCTAATTCTGACACGAAAAAAA-T--AA--TTTTTT-TTTGTACTG
65 AAATCTGATTCTGACACAAAAAAAATTAAAATTTTTTTTCTTTGTACTG
* *
45521443 TGTACTAGGTGCCGGCCATTGACAGGCCGGCACCCAAA
1 TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAA
45521481 AAATTTTTTT
Statistics
Matches: 882, Mismatches: 37, Indels: 53
0.91 0.04 0.05
Matches are distributed among these distances:
106 3 0.00
107 42 0.05
108 100 0.11
109 58 0.07
110 10 0.01
111 3 0.00
112 1 0.00
113 333 0.38
114 95 0.11
115 45 0.05
116 15 0.02
117 28 0.03
118 9 0.01
119 55 0.06
120 58 0.07
121 5 0.01
123 21 0.02
124 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (113 bp):
TGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTAATTTTTTTCGTATTTTTA
AATCTGATTCTGACACAAAAAAAATTAAAATTTTTTTTCTTTGTACTG
Found at i:45526233 original size:14 final size:14
Alignment explanation
Indices: 45526176--45526247 Score: 60
Period size: 14 Copynumber: 5.3 Consensus size: 14
45526166 GATTCAATGC
45526176 AAAAAA-AAAAACA
1 AAAAAAGAAAAACA
45526189 CAAAAAAG-AAAA-A
1 -AAAAAAGAAAAACA
** **
45526202 AAATTAGAAAAAGG
1 AAAAAAGAAAAACA
*
45526216 AAAAAAGAAGAACA
1 AAAAAAGAAAAACA
*
45526230 AAAAAATAAAAACA
1 AAAAAAGAAAAACA
45526244 AAAA
1 AAAA
45526248 GAAACAAAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
12 5 0.11
13 5 0.11
14 35 0.78
ACGTcount: A:0.82, C:0.06, G:0.08, T:0.04
Consensus pattern (14 bp):
AAAAAAGAAAAACA
Found at i:45526251 original size:40 final size:40
Alignment explanation
Indices: 45526176--45526251 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
45526166 GATTCAATGC
*
45526176 AAAAAAAAAAACACAAAAAAGAAAAAAAATTAGAAAAAGG
1 AAAAAAAAAAACACAAAAAAGAAAAAAAATAAGAAAAAGG
* *
45526216 AAAAAAGAAGAACA-AAAAAATAAAAACAAA-AAGAAA
1 AAAAAA-AAAAACACAAAAAAGAAAAA-AAATAAGAAA
45526252 CAAAAAACTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
40 22 0.71
41 9 0.29
ACGTcount: A:0.82, C:0.05, G:0.09, T:0.04
Consensus pattern (40 bp):
AAAAAAAAAAACACAAAAAAGAAAAAAAATAAGAAAAAGG
Found at i:45528555 original size:50 final size:49
Alignment explanation
Indices: 45528385--45528555 Score: 148
Period size: 50 Copynumber: 3.4 Consensus size: 49
45528375 GCAGCGAAAC
* * *
45528385 AGATTGAAGCCACGACGGCAGATCTGGTTTCCCCGACATTGCAATTGGAT
1 AGATTGAAGCCACAACGGCGGATCTGGTTTCCCCGACATT-CAATTGAAT
* * *** * * *
45528435 AGATTGAAGCCGCAACGGCGAATCTTACTT-CCCTAGCGATGT-AGTGGAAT
1 AGATTGAAGCCACAACGGCGGATCTGGTTTCCCCGA-C-AT-TCAATTGAAT
* * * *
45528485 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTACAATTAAAA
1 AGATTGAAGCCACAACGGCGGATCTGGTTTCCCCGACATT-CAATTGAAT
45528535 AGATTGAAGCCACAACGGCGG
1 AGATTGAAGCCACAACGGCGG
45528556 GTCTTATTTT
Statistics
Matches: 90, Mismatches: 25, Indels: 12
0.71 0.20 0.09
Matches are distributed among these distances:
48 1 0.01
49 6 0.07
50 76 0.84
51 6 0.07
52 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (49 bp):
AGATTGAAGCCACAACGGCGGATCTGGTTTCCCCGACATTCAATTGAAT
Found at i:45528604 original size:100 final size:100
Alignment explanation
Indices: 45528227--45528609 Score: 421
Period size: 100 Copynumber: 3.8 Consensus size: 100
45528217 TTGGCATTGT
* * ** * *
45528227 AATTTAAAAGATTGAAGTCACAACGGTAGATCTTA-TCTCCCTGGCGGTGCAGAGGAACAGATTG
1 AATTAAAAAGATTGAAGCCACAACGGCGGATCTTACT-TCCCTGGCGATGCAGTGGAACAGATTG
* *
45528291 AAGCTACGACGGCTGATCTGG-TTCTCCCGACATTAC
65 AAGCCACGACGGCGGATCTGGTTTC-CCCGACATTAC
* * * * * * * *
45528327 GATTTAAAAGATTAAAGCCACAATGGCAGATCTTACCTCCCTGGCGATGCAGCGAAACAGATTGA
1 AATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGATGCAGTGGAACAGATTGA
* *
45528392 AGCCACGACGGCAGATCTGGTTTCCCCGACATTGC
66 AGCCACGACGGCGGATCTGGTTTCCCCGACATTAC
** * * * * * *
45528427 AATTGGATAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTAGCGATGTAGTGGAATAGATTGA
1 AATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGATGCAGTGGAACAGATTGA
*
45528492 AGCTACGACGGCGGATCTGGTTTCCCCGACATTAC
66 AGCCACGACGGCGGATCTGGTTTCCCCGACATTAC
* * ** *
45528527 AATTAAAAAGATTGAAGCCACAACGGCGGGTCTTATTTTTCTGGC-ATCGCAGTGGAGCAGATTG
1 AATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGAT-GCAGTGGAACAGATTG
*
45528591 AAGCCACGACGGCGAATCT
65 AAGCCACGACGGCGGATCT
45528610 TATCTCTCTA
Statistics
Matches: 235, Mismatches: 45, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
99 2 0.01
100 230 0.98
101 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (100 bp):
AATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGATGCAGTGGAACAGATTGA
AGCCACGACGGCGGATCTGGTTTCCCCGACATTAC
Found at i:45528758 original size:50 final size:50
Alignment explanation
Indices: 45528704--45528976 Score: 133
Period size: 50 Copynumber: 5.5 Consensus size: 50
45528694 AATTTAAAAG
*
45528704 ATTGAAGTCACAACGGCGGATCTTATCTCCCTGGCGGTACAGAGGAACAA
1 ATTGAAGCCACAACGGCGGATCTTATCTCCCTGGCGGTACAGAGGAACAA
* * * * ** **
45528754 ATTGAAGCTACGACGGCAGATCTGGT-TCTCCC-GACATTAC-GATTTAA-AA
1 ATTGAAGCCACAACGGCGGATCT--TATCTCCCTGGCGGTACAGA-GGAACAA
* * * * * *
45528803 GATTAAAGCCACAACGGCGGATCTTACCTCCCTGGCGGTGCAGCGGAATAG
1 -ATTGAAGCCACAACGGCGGATCTTATCTCCCTGGCGGTACAGAGGAACAA
* * * * ** * * * ** * ** *
45528854 ATTGAAGTCACGACAGCAGATCTGGTTTCCCCGACATTGCA-ATTAAAAA
1 ATTGAAGCCACAACGGCGGATCTTATCTCCCTGGCGGTACAGAGGAACAA
* * * *
45528903 GATTGAAGCCACAACGGCGGATCTTACCTCCTTGGCGGTACAGCGGAACAG
1 -ATTGAAGCCACAACGGCGGATCTTATCTCCCTGGCGGTACAGAGGAACAA
* * *
45528954 ATTGAAGCTACGACAGCGGATCT
1 ATTGAAGCCACAACGGCGGATCT
45528977 GGTTTCCCCG
Statistics
Matches: 151, Mismatches: 62, Indels: 20
0.65 0.27 0.09
Matches are distributed among these distances:
48 1 0.01
49 12 0.08
50 126 0.83
51 11 0.07
52 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.21
Consensus pattern (50 bp):
ATTGAAGCCACAACGGCGGATCTTATCTCCCTGGCGGTACAGAGGAACAA
Found at i:45528986 original size:467 final size:468
Alignment explanation
Indices: 45528113--45529021 Score: 1541
Period size: 467 Copynumber: 1.9 Consensus size: 468
45528103 GCATTGTAGC
* *
45528113 GGAGCAGATTGAAGCCACGATGGCGAATTTTATCTCCCTAGCGTTAAGGCTTGGATTAGTTGAAG
1 GGAGCAGATTGAAGCCACGACGGCGAATCTTATCTCCCTAGCGTTAAGGCTTGGATTAGTTGAAG
45528178 TGGAGCGGATTGAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTGTAATTTAAAAGATTGAA
66 TGGAGCGGATTGAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTGTAATTTAAAAGATTGAA
* * * *
45528243 GTCACAACGGTAGATCTTATCTCCCTGGCGGTGCAGAGGAACAGATTGAAGCTACGACGGCTGAT
131 GTCACAACGGCAGATCTTATCTCCCTGGCGGTACAGAGGAACAAATTGAAGCTACGACGGCAGAT
*
45528308 CTGGTTCTCCCGACATTACGATTTAAAAGATTAAAGCCACAATGGCAGATCTTACCTCCCTGGCG
196 CTGGTTCTCCCGACATTACGATTTAAAAGATTAAAGCCACAACGGCAGATCTTACCTCCCTGGCG
* ** *
45528373 ATGCAGCGAAACAGATTGAAGCCACGACGGCAGATCTGGTTTCCCCGACATTGCAATTGGATAGA
261 ATGCAGCGAAACAGATTGAAGCCACGACAGCAGATCTGGTTTCCCCGACATTGCAATTAAAAAGA
* * ** * * *
45528438 TTGAAGCCGCAACGGCGAATCTTACTTCCCTAGCGATGTAGTGGAATAGATTGAAGCTACGACGG
326 TTGAAGCCACAACGGCGAATCTTACCTCCCTAGCGATACAGCGGAACAGATTGAAGCTACGACAG
45528503 CGGATCTGGTTTCCCCGACATTACAATT-AAAAAGATTGAAGCCACAACGGCGGGTCTTATTTTT
391 CGGATCTGGTTTCCCCGACATTACAATTAAAAAAGATTGAAGCCACAACGGCGGGTCTTATTTTT
45528567 CTGGCATCGCAGT
456 CTGGCATCGCAGT
*
45528580 GGAGCAGATTGAAGCCACGACGGCGAATCTTATCTCTCTAGCGTTAAGGCTTGGATTAGTTGAAG
1 GGAGCAGATTGAAGCCACGACGGCGAATCTTATCTCCCTAGCGTTAAGGCTTGGATTAGTTGAAG
45528645 TGGAGCGGATTGAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTGTAATTTAAAAGATTGAA
66 TGGAGCGGATTGAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTGTAATTTAAAAGATTGAA
*
45528710 GTCACAACGGCGGATCTTATCTCCCTGGCGGTACAGAGGAACAAATTGAAGCTACGACGGCAGAT
131 GTCACAACGGCAGATCTTATCTCCCTGGCGGTACAGAGGAACAAATTGAAGCTACGACGGCAGAT
*
45528775 CTGGTTCTCCCGACATTACGATTTAAAAGATTAAAGCCACAACGGCGGATCTTACCTCCCTGGCG
196 CTGGTTCTCCCGACATTACGATTTAAAAGATTAAAGCCACAACGGCAGATCTTACCTCCCTGGCG
* * * *
45528840 GTGCAGCGGAATAGATTGAAGTCACGACAGCAGATCTGGTTTCCCCGACATTGCAATTAAAAAGA
261 ATGCAGCGAAACAGATTGAAGCCACGACAGCAGATCTGGTTTCCCCGACATTGCAATTAAAAAGA
* * * *
45528905 TTGAAGCCACAACGGCGGATCTTACCTCCTTGGCGGTACAGCGGAACAGATTGAAGCTACGACAG
326 TTGAAGCCACAACGGCGAATCTTACCTCCCTAGCGATACAGCGGAACAGATTGAAGCTACGACAG
*
45528970 CGGATCTGGTTTCCCCGACATTGCAATTAAAAAAGATTGAAGCCACAACGGC
391 CGGATCTGGTTTCCCCGACATTACAATTAAAAAAGATTGAAGCCACAACGGC
45529022 CGATCTTACT
Statistics
Matches: 411, Mismatches: 30, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
467 388 0.94
468 23 0.06
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (468 bp):
GGAGCAGATTGAAGCCACGACGGCGAATCTTATCTCCCTAGCGTTAAGGCTTGGATTAGTTGAAG
TGGAGCGGATTGAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTGTAATTTAAAAGATTGAA
GTCACAACGGCAGATCTTATCTCCCTGGCGGTACAGAGGAACAAATTGAAGCTACGACGGCAGAT
CTGGTTCTCCCGACATTACGATTTAAAAGATTAAAGCCACAACGGCAGATCTTACCTCCCTGGCG
ATGCAGCGAAACAGATTGAAGCCACGACAGCAGATCTGGTTTCCCCGACATTGCAATTAAAAAGA
TTGAAGCCACAACGGCGAATCTTACCTCCCTAGCGATACAGCGGAACAGATTGAAGCTACGACAG
CGGATCTGGTTTCCCCGACATTACAATTAAAAAAGATTGAAGCCACAACGGCGGGTCTTATTTTT
CTGGCATCGCAGT
Found at i:45529059 original size:101 final size:100
Alignment explanation
Indices: 45528688--45529596 Score: 1203
Period size: 101 Copynumber: 9.0 Consensus size: 100
45528678 ATCTCTTTGG
* * * * ** *
45528688 CATTGTAATTTAAAAGATTGAAGTCACAACGGCGGATCTTA-TCTCCCTGGCGGTACAGAGGAAC
1 CATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACT-TCCTTGGCGGTGTAGTGGAAC
* *
45528752 AAATTGAAGCTACGACGGCAGATCTGG-TTCTCCCGA
65 AGATTGAAGCTACGACGGCGGATCTGGTTTC-CCCGA
* * * * * * * * *
45528788 CATTACGATTTAAAAGATTAAAGCCACAACGGCGGATCTTACCTCCCTGGCGGTGCAGCGGAATA
1 CATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTGGCGGTGTAGTGGAACA
* *
45528853 GATTGAAG-TCACGACAGCAGATCTGGTTTCCCCGA
66 GATTGAAGCT-ACGACGGCGGATCTGGTTTCCCCGA
* ** *
45528888 CATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACCTCCTTGGCGGTACAGCGGAACA
1 CATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTGGCGGTGTAGTGGAACA
*
45528953 GATTGAAGCTACGACAGCGGATCTGGTTTCCCCGA
66 GATTGAAGCTACGACGGCGGATCTGGTTTCCCCGA
* * *
45528988 CATTGCAATTAAAAAAGATTGAAGCCACAACGGCCGATCTTACTTCTTTGGCGATGTAGTGGAAC
1 CATTGCAATT-AAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTGGCGGTGTAGTGGAAC
* * *
45529053 AAATTGAAGCTACGACAGTGGATCTGGTTTCCCCGA
65 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCCGA
* * **
45529089 CATTACAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCGGTGTAGTGGATTA
1 CATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTGGCGGTGTAGTGGAACA
* *
45529154 GATTGAAGCTACGACGGTGAATCTGGTTTCCCCGA
66 GATTGAAGCTACGACGGCGGATCTGGTTTCCCCGA
* * *
45529189 AATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTGGCAGTGTAGTAGGAAA
1 CATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTGGCGGTGTAGT-GGAAC
*
45529254 AGATTGAAGCTATGACGGCGGATCTGGTTTCCCCGA
65 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCCGA
*
45529290 CATTGCAATTAAAGAGATTGAAGCCACAACGGCGGATCTTACTTCCTTGGCGGTGTAGTAGGAAC
1 CATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTGGCGGTGTAGT-GGAAC
* *
45529355 AGATTAAAGCTACGACGACGGATCTGGTTTCCCCGA
65 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCCGA
* *
45529391 CATTGCAATTAAAAAGATTGAAGCCATAACGGCGGATCTTACTTCCTTGGCGGTGTAGTAGGAAT
1 CATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTGGCGGTGTAGT-GGAAC
* * * *
45529456 AGATTGAAGCTACGACGGCAGATTTGGTTTTCCTGA
65 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCCGA
* * * * *
45529492 CATTGCAATTAAAAAGATTGAAGTCACAACGGTGAATCTTACTTTCTTGGCGGTGTAGTAAGAAC
1 CATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTGGCGGTGTAGT-GGAAC
* * *
45529557 AGATTAAAGCCACGACGGCGGATCTTGTTTCCCCGA
65 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCCGA
45529593 CATT
1 CATT
45529597 ACAGCTAAAC
Statistics
Matches: 726, Mismatches: 77, Indels: 11
0.89 0.09 0.01
Matches are distributed among these distances:
99 1 0.00
100 318 0.44
101 407 0.56
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (100 bp):
CATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTGGCGGTGTAGTGGAACA
GATTGAAGCTACGACGGCGGATCTGGTTTCCCCGA
Found at i:45529102 original size:201 final size:201
Alignment explanation
Indices: 45528688--45529596 Score: 1184
Period size: 201 Copynumber: 4.5 Consensus size: 201
45528678 ATCTCTTTGG
* * * * **
45528688 CATTGTAATTTAAAAGATTGAAGTCACAACGGCGGATCTTA-TCTCCCTGGCGGTACAGAGGAAC
1 CATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACT-TCCTTGGCGGTGTAGAGGAAC
* * * * * *
45528752 AAATTGAAGCTACGACGGCAGATCTGG-TTCTCCCGACATTACGATTTAAAAGATTAAAGCCACA
65 AGATTGAAGCTACGACGGCGGATCTGGTTTC-CCCGACATTGCAATTAAAAAGATTGAAGCCACA
* * * * * *
45528816 ACGGCGGATCTTACCTCCCTGGCGGTGCAG-CGGAATAGATTGAAG-TCACGACAGCAGATCTGG
129 ACGGCGGATCTTACTTCCTTGGCGATGTAGTAGGAATAAATTGAAGCT-ACGACAGCAGATCTGG
45528879 TTTCCCCGA
193 TTTCCCCGA
* ** *
45528888 CATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACCTCCTTGGCGGTACAGCGGAACA
1 CATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTGGCGGTGTAGAGGAACA
*
45528953 GATTGAAGCTACGACAGCGGATCTGGTTTCCCCGACATTGCAATTAAAAAAGATTGAAGCCACAA
66 GATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTGCAATT-AAAAAGATTGAAGCCACAA
* * * **
45529018 CGGCCGATCTTACTTCTTTGGCGATGTAGT-GGAACAAATTGAAGCTACGACAGTGGATCTGGTT
130 CGGCGGATCTTACTTCCTTGGCGATGTAGTAGGAATAAATTGAAGCTACGACAGCAGATCTGGTT
45529082 TCCCCGA
195 TCCCCGA
* * * **
45529089 CATTACAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCGGTGTAGTGGATTA
1 CATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTGGCGGTGTAGAGGAACA
* * *
45529154 GATTGAAGCTACGACGGTGAATCTGGTTTCCCCGAAATTGCAATTAAAAAGATTGAAGCCACAAC
66 GATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAAC
* * *
45529219 GGCGGATCTTACTTCCTTGGC-AGTGTAGTAGGAA-AAGATTGAAGCTATGACGGCGGATCTGGT
131 GGCGGATCTTACTTCCTTGGCGA-TGTAGTAGGAATAA-ATTGAAGCTACGACAGCAGATCTGGT
45529282 TTCCCCGA
194 TTCCCCGA
*
45529290 CATTGCAATTAAAGAGATTGAAGCCACAACGGCGGATCTTACTTCCTTGGCGGTGTAGTAGGAAC
1 CATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTGGCGGTGTAG-AGGAAC
* * *
45529355 AGATTAAAGCTACGACGACGGATCTGGTTTCCCCGACATTGCAATTAAAAAGATTGAAGCCATAA
65 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAA
* * * *
45529420 CGGCGGATCTTACTTCCTTGGCGGTGTAGTAGGAATAGATTGAAGCTACGACGGCAGATTTGGTT
130 CGGCGGATCTTACTTCCTTGGCGATGTAGTAGGAATAAATTGAAGCTACGACAGCAGATCTGGTT
* *
45529485 TTCCTGA
195 TCCCCGA
* * * * *
45529492 CATTGCAATTAAAAAGATTGAAGTCACAACGGTGAATCTTACTTTCTTGGCGGTGTAGTAAGAAC
1 CATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTGGCGGTGTAG-AGGAAC
* * *
45529557 AGATTAAAGCCACGACGGCGGATCTTGTTTCCCCGACATT
65 AGATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATT
45529597 ACAGCTAAAC
Statistics
Matches: 630, Mismatches: 68, Indels: 20
0.88 0.09 0.03
Matches are distributed among these distances:
199 1 0.00
200 141 0.22
201 266 0.42
202 221 0.35
203 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (201 bp):
CATTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTGGCGGTGTAGAGGAACA
GATTGAAGCTACGACGGCGGATCTGGTTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAAC
GGCGGATCTTACTTCCTTGGCGATGTAGTAGGAATAAATTGAAGCTACGACAGCAGATCTGGTTT
CCCCGA
Found at i:45532582 original size:14 final size:14
Alignment explanation
Indices: 45532563--45532599 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
45532553 AAAATTATCC
45532563 CTCCTTTTATTCAT
1 CTCCTTTTATTCAT
45532577 CTCC-TTTATTCAT
1 CTCCTTTTATTCAT
*
45532590 -TCCTATTATT
1 CTCCTTTTATT
45532600 TCCTTCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 3 0.14
13 14 0.67
14 4 0.19
ACGTcount: A:0.16, C:0.27, G:0.00, T:0.57
Consensus pattern (14 bp):
CTCCTTTTATTCAT
Found at i:45537877 original size:188 final size:186
Alignment explanation
Indices: 45537449--45538000 Score: 698
Period size: 188 Copynumber: 2.9 Consensus size: 186
45537439 GTTTGAGGGT
* * * *
45537449 AGTGAATCTGATTCTGATGCTGATAGAGCAAGAAGG-CATAAAAAGGAATTGATTAATG-AAGGT
1 AGTGAATCTGATTCTGATGCTGACAGAGC-A-AAGGTCATAAGAAGGAAATGGTTAA-GAAAGGT
* * * *
45537512 CGTCAAATGCATGACTCCAGTGAGGGTGACTCTGATTCTGATGGTGGGAGGCAAAAGAAGAGAGG
63 CGTCATAGGCATGACTCCAGTGAGGATGACTCTGATTCTGATGGTGAGAGGCAAAAGAAGAGAGG
* * ** * *
45537577 TGAAGTTTAAAAACTGAAGATTGAGTCAACTAGGAGCCAGAGGAGAGAGAGGGACATGTGT
128 TGAAG-TTCAAAA-GGAAGATTGAGTTGACTGGGAGCCAGAGGAGAGAGAGGGACATGTGA
*
45537638 AGTGAATCTGATTCTGATGCTGACAGAGCAAGAGGTCAT-AGAAAAGAAATGGTTAAGAAAGGTC
1 AGTGAATCTGATTCTGATGCTGACAGAGCAA-AGGTCATAAG-AAGGAAATGGTTAAGAAAGGTC
** ** *
45537702 GTCATAGGCACAACTCCAGTGAGGACAACTTTGATTCTGATGGTGAGAGGCAAAAGAAGAGAGGT
64 GTCATAGGCATGACTCCAGTGAGGATGACTCTGATTCTGATGGTGAGAGGCAAAAGAAGAGAGGT
45537767 GAAGTTCAAAAGGAAAGATTGAGTTGACTGGGAGCCAGAGGAGAGAGAGGGACATGCT-A
129 GAAGTTCAAAAGG-AAGATTGAGTTGACTGGGAGCCAGAGGAGAGAGAGGGACATG-TGA
* *
45537826 AGTGAATCTGATTCTGATACTGACAGAGCGAAAGGTCGTAAGAAGGAAATGGTTAAGAAAGGTCG
1 AGTGAATCTGATTCTGATGCTGACAGAGC-AAAGGTCATAAGAAGGAAATGGTTAAGAAAGGTCG
* * * * * *
45537891 TCGTAGGAATGACTCCAGTGAAGATGACTCTGATTCTAATGTTGAGAGGAAAAAGAAGAGAGGTG
65 TCATAGGCATGACTCCAGTGAGGATGACTCTGATTCTGATGGTGAGAGGCAAAAGAAGAGAGGTG
* *
45537956 AAGTTCAGAAAGGGAAGATCGAGTTGAATGGGAGCCAGAGGAGAG
130 AAGTTCA-AAA-GGAAGATTGAGTTGACTGGGAGCCAGAGGAGAG
45538001 GTAGTGATAG
Statistics
Matches: 317, Mismatches: 36, Indels: 20
0.85 0.10 0.05
Matches are distributed among these distances:
187 2 0.01
188 168 0.53
189 145 0.46
190 2 0.01
ACGTcount: A:0.36, C:0.11, G:0.32, T:0.20
Consensus pattern (186 bp):
AGTGAATCTGATTCTGATGCTGACAGAGCAAAGGTCATAAGAAGGAAATGGTTAAGAAAGGTCGT
CATAGGCATGACTCCAGTGAGGATGACTCTGATTCTGATGGTGAGAGGCAAAAGAAGAGAGGTGA
AGTTCAAAAGGAAGATTGAGTTGACTGGGAGCCAGAGGAGAGAGAGGGACATGTGA
Found at i:45538730 original size:39 final size:39
Alignment explanation
Indices: 45538671--45538789 Score: 148
Period size: 39 Copynumber: 3.0 Consensus size: 39
45538661 CCAAAGCTTA
* *
45538671 TGGGGAGAATGATGATCGGAATAGGGGTGAATATTCTAGG
1 TGGGGGGAA-GATGATCGGAATAGGGATGAATATTCTAGG
* *
45538711 TGGGGGGAAGATGACCGGAATAAGGATGAATATTCTAGG
1 TGGGGGGAAGATGATCGGAATAGGGATGAATATTCTAGG
* * * * *
45538750 TGGGAGAAAGATGATCTGAAAAGGGATGATTATTCTAGG
1 TGGGGGGAAGATGATCGGAATAGGGATGAATATTCTAGG
45538789 T
1 T
45538790 CAGTTAGGTC
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 60 0.88
40 8 0.12
ACGTcount: A:0.33, C:0.06, G:0.37, T:0.24
Consensus pattern (39 bp):
TGGGGGGAAGATGATCGGAATAGGGATGAATATTCTAGG
Found at i:45553883 original size:46 final size:46
Alignment explanation
Indices: 45553810--45553902 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
45553800 ACATTGCTAT
*
45553810 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACGTTTCAC
*
45553856 AACTCAGTATGGTTTTCTTTATC-GAAATACCATACCTACGTTTCAC
1 AACTCAGTATGGTTTTCTTCA-CGGAAATACCATACCTACGTTTCAC
45553902 A
1 A
45553903 CTTTTCCATG
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
46 43 0.98
47 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACGTTTCAC
Found at i:45555151 original size:17 final size:17
Alignment explanation
Indices: 45555125--45555157 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
45555115 AAATTCTTTT
*
45555125 TAAATTACAAAATTCAA
1 TAAATCACAAAATTCAA
45555142 TAAATCACAAAATTCA
1 TAAATCACAAAATTCA
45555158 CAAATTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAATCACAAAATTCAA
Found at i:45556852 original size:22 final size:21
Alignment explanation
Indices: 45556826--45556866 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
45556816 TATTTTAAAA
45556826 ATTTTAAAAAATTAAAAAAAGT
1 ATTTT-AAAAATTAAAAAAAGT
*
45556848 ATTTTTAAAATTAAAAAAA
1 ATTTTAAAAATTAAAAAAA
45556867 ATTAAAGAAA
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:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
ATTTTAAAAATTAAAAAAAGT
Found at i:45556858 original size:31 final size:31
Alignment explanation
Indices: 45556816--45556889 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
45556806 GGCCCATTTT
**
45556816 TATTTTAAAAATTTTAAAAAATTAAA-AAAA
1 TATTTTAAAAATTAAAAAAAATTAAAGAAAA
*
45556846 GTATTTTTAAAATTAAAAAAAATTAAAGAAAA
1 -TATTTTAAAAATTAAAAAAAATTAAAGAAAA
45556878 TATTTTAAAAAT
1 TATTTTAAAAAT
45556890 NNNNNNNNNN
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
31 34 0.89
32 4 0.11
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (31 bp):
TATTTTAAAAATTAAAAAAAATTAAAGAAAA
Found at i:45561516 original size:10 final size:10
Alignment explanation
Indices: 45561490--45561518 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
45561480 TTATTAAAAA
45561490 ATATACAAAT
1 ATATACAAAT
45561500 A-ATACAAAT
1 ATATACAAAT
45561509 ATATACAAAT
1 ATATACAAAT
45561519 TTAAAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (10 bp):
ATATACAAAT
Found at i:45561536 original size:16 final size:17
Alignment explanation
Indices: 45561466--45561537 Score: 60
Period size: 19 Copynumber: 4.2 Consensus size: 17
45561456 AACAAAATTA
45561466 TTAAAATATA-A-AAATT
1 TTAAAATATATACAAA-T
*
45561482 ATTAAAAAATATACAAAT
1 -TTAAAATATATACAAAT
*
45561500 AATACAAATATATACAAAT
1 -TTA-AAATATATACAAAT
*
45561519 TTAAAATAT-TATAAAT
1 TTAAAATATATACAAAT
45561535 TTA
1 TTA
45561538 TAAAAACGTA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
16 9 0.19
17 15 0.32
18 7 0.15
19 16 0.34
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAAAATATATACAAAT
Found at i:45561705 original size:20 final size:20
Alignment explanation
Indices: 45561680--45561718 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
45561670 ATAAAAATTG
45561680 TAAAAT-TATGAAAAATATTT
1 TAAAATATA-GAAAAATATTT
*
45561700 TAAAATATAGAAAATTATT
1 TAAAATATAGAAAAATATT
45561719 AAAATTGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
TAAAATATAGAAAAATATTT
Found at i:45564868 original size:13 final size:14
Alignment explanation
Indices: 45564844--45564877 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
45564834 ATGGGGGTAG
*
45564844 GATTCTGTATATTT
1 GATTCTGCATATTT
45564858 G-TTCTGCATATTT
1 GATTCTGCATATTT
45564871 GATTCTG
1 GATTCTG
45564878 TTATCTGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.53
Consensus pattern (14 bp):
GATTCTGCATATTT
Found at i:45570069 original size:50 final size:50
Alignment explanation
Indices: 45569997--45570186 Score: 175
Period size: 50 Copynumber: 3.7 Consensus size: 50
45569987 CCTGTACTAT
* * * *
45569997 CAATGCCATATCTCAGATATGGTCTTACATGAGAGTTCTCATATCAGTGC
1 CAATGCCATATCCCAGACATGGTCTTACATGGGAGCTCTCATATCAGTGC
* * * * * * *
45570047 CTATGCCATGTCCCAGACATGGTCTTAC-CGGGGGCCTCTCATCTCGGCGC
1 CAATGCCATATCCCAGACATGGTCTTACATGGGAG-CTCTCATATCAGTGC
* *
45570097 CAATGCCATATCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATAATGC
1 CAATGCCATATCCCAGACATGGTCTTACATGGGAGCTCTCAT-A--TC---AGTGC
* *
45570153 CAATTCCATGTCCCAGACATGGTCTTACATGGGA
1 CAATGCCATATCCCAGACATGGTCTTACATGGGA
45570187 TCTCATCCCC
Statistics
Matches: 110, Mismatches: 22, Indels: 10
0.77 0.15 0.07
Matches are distributed among these distances:
49 3 0.03
50 68 0.62
51 3 0.03
53 2 0.02
56 34 0.31
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (50 bp):
CAATGCCATATCCCAGACATGGTCTTACATGGGAGCTCTCATATCAGTGC
Found at i:45572910 original size:24 final size:24
Alignment explanation
Indices: 45572875--45572933 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
45572865 ATGAAGAACG
* * * *
45572875 AGAATGAAAGTGTGAGTGTGAGTA
1 AGAATGAGAGTGTGAGCGAGAATA
*
45572899 AGAATGAGAGTGTGAGCGAGAATG
1 AGAATGAGAGTGTGAGCGAGAATA
45572923 AGAATGAGAGT
1 AGAATGAGAGT
45572934 CATGACAAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.39, C:0.02, G:0.39, T:0.20
Consensus pattern (24 bp):
AGAATGAGAGTGTGAGCGAGAATA
Found at i:45572911 original size:18 final size:18
Alignment explanation
Indices: 45572888--45572925 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
45572878 ATGAAAGTGT
*
45572888 GAGTGTGAGTAAGAATGA
1 GAGTGTGAGCAAGAATGA
*
45572906 GAGTGTGAGCGAGAATGA
1 GAGTGTGAGCAAGAATGA
45572924 GA
1 GA
45572926 ATGAGAGTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.37, C:0.03, G:0.42, T:0.18
Consensus pattern (18 bp):
GAGTGTGAGCAAGAATGA
Found at i:45585366 original size:94 final size:94
Alignment explanation
Indices: 45585249--45585436 Score: 376
Period size: 94 Copynumber: 2.0 Consensus size: 94
45585239 TTCTAAAAAA
45585249 AAAAAATAAAGACATTTTTTATTGAAATTAGAGAATATATTTTCTTTCTCAATTTTAAGCTGAAA
1 AAAAAATAAAGACATTTTTTATTGAAATTAGAGAATATATTTTCTTTCTCAATTTTAAGCTGAAA
45585314 ATGGCTCAAAAGTGTACATAAAAAGAGAT
66 ATGGCTCAAAAGTGTACATAAAAAGAGAT
45585343 AAAAAATAAAGACATTTTTTATTGAAATTAGAGAATATATTTTCTTTCTCAATTTTAAGCTGAAA
1 AAAAAATAAAGACATTTTTTATTGAAATTAGAGAATATATTTTCTTTCTCAATTTTAAGCTGAAA
45585408 ATGGCTCAAAAGTGTACATAAAAAGAGAT
66 ATGGCTCAAAAGTGTACATAAAAAGAGAT
45585437 GAGAAGAATC
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 94 1.00
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.34
Consensus pattern (94 bp):
AAAAAATAAAGACATTTTTTATTGAAATTAGAGAATATATTTTCTTTCTCAATTTTAAGCTGAAA
ATGGCTCAAAAGTGTACATAAAAAGAGAT
Found at i:45597597 original size:2 final size:2
Alignment explanation
Indices: 45597590--45597616 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
45597580 AATACAATTC
45597590 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
45597617 AAGCATGTCT
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:45610734 original size:21 final size:18
Alignment explanation
Indices: 45610696--45610735 Score: 53
Period size: 21 Copynumber: 2.1 Consensus size: 18
45610686 ATTTCAAAAC
45610696 TTAAGTATTTTAAAACAA
1 TTAAGTATTTTAAAACAA
45610714 TTAAGGTATTATTATAAACAA
1 TTAA-GTATT-TTA-AAACAA
45610735 T
1 T
45610736 GACATTCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 5 0.26
20 3 0.16
21 7 0.37
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (18 bp):
TTAAGTATTTTAAAACAA
Found at i:45615052 original size:51 final size:51
Alignment explanation
Indices: 45614746--45615181 Score: 230
Period size: 51 Copynumber: 8.6 Consensus size: 51
45614736 GATACCGGTT
* * * * * *
45614746 CACATAGTAGCATGCACATAGTACTACACAGGTGACCATCA-TTATCCAATA
1 CACATAGTAGCCTTCACTTAGTACTACACATGTGACCATAATTTAT-CGATA
* * * * * * * ** *
45614797 CACGTAATAGCCTGCACATAGTACTACACACGTGATC-GAAGCTATCCGGTA
1 CACATAGTAGCCTTCACTTAGTACTACACATGTGACCATAATTTAT-CGATA
* * * * * * * * *
45614848 CGCATAGTAGCCTGCACATATTACTACATATGCGACCTATCA-TTCT-GGTA
1 CACATAGTAGCCTTCACTTAGTACTACACATGTGACC-ATAATTTATCGATA
* * * * * * * *
45614898 CACGTAGTAGCCTACACATAGTACTACACACGTGATCA-ACTTT-TACGGTT
1 CACATAGTAGCCTTCACTTAGTACTACACATGTGACCATAATTTAT-CGATA
** * * *
45614948 CACGA-AGTAGCCTTCACACAGTACTACACACGTGATCA-AAGCTTT-TCGGTA
1 CAC-ATAGTAGCCTTCACTTAGTACTACACATGTGACCATAA--TTTATCGATA
* * *
45614999 CACATAGTATCCTTCACTTAGTACCACACATGTGACCATCATTTATCGATA
1 CACATAGTAGCCTTCACTTAGTACTACACATGTGACCATAATTTATCGATA
* * * * *
45615050 CACGTAGTAGCCTTAACAC-T-GTACTACACACGTGACCA-AAGCTTCTCGGTA
1 CACATAGTAGCCTT--CACTTAGTACTACACATGTGACCATAA-TTTATCGATA
* *
45615101 CACATTGTAGCCTTCACTTAGTACTACACATGTGACCATTATTTATCGATA
1 CACATAGTAGCCTTCACTTAGTACTACACATGTGACCATAATTTATCGATA
* * **
45615152 CACGTAGTAGTCTTCACACAGTACTACACA
1 CACATAGTAGCCTTCACTTAGTACTACACA
45615182 CGTGTTCATC
Statistics
Matches: 301, Mismatches: 66, Indels: 36
0.75 0.16 0.09
Matches are distributed among these distances:
48 1 0.00
49 6 0.02
50 78 0.26
51 203 0.67
52 9 0.03
53 4 0.01
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (51 bp):
CACATAGTAGCCTTCACTTAGTACTACACATGTGACCATAATTTATCGATA
Found at i:45615083 original size:102 final size:102
Alignment explanation
Indices: 45614890--45615185 Score: 407
Period size: 102 Copynumber: 2.9 Consensus size: 102
45614880 CGACCTATCA
* * * * * * * * * *
45614890 TTCT-GGTACACGTAGTAGCCTACACATAGTACTACACACGTGATCAACTTTTA-CGGTTCACGA
1 TTCTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATACACGT
*
45614953 AGTAGCCTTCACACAGTACTACACACGTGATCAAAGC
66 AGTAGCCTTCACACAGTACTACACACGTGACCAAAGC
* * *
45614990 TTTTCGGTACACATAGTATCCTTCACTTAGTACCACACATGTGACCATCATTTATCGATACACGT
1 TTCTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATACACGT
* *
45615055 AGTAGCCTTAACACTGTACTACACACGTGACCAAAGC
66 AGTAGCCTTCACACAGTACTACACACGTGACCAAAGC
* *
45615092 TTCTCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGACCATTATTTATCGATACACGT
1 TTCTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATACACGT
*
45615157 AGTAGTCTTCACACAGTACTACACACGTG
66 AGTAGCCTTCACACAGTACTACACACGTG
45615186 TTCATCGATA
Statistics
Matches: 170, Mismatches: 24, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
100 3 0.02
101 40 0.24
102 127 0.75
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (102 bp):
TTCTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATACACGT
AGTAGCCTTCACACAGTACTACACACGTGACCAAAGC
Found at i:45615175 original size:153 final size:151
Alignment explanation
Indices: 45614750--45615181 Score: 333
Period size: 151 Copynumber: 2.8 Consensus size: 151
45614740 CCGGTTCACA
* * * * * * ** *
45614750 TAGTAGCATGCACATAGTACTACACAGGTGACCATCATTATCCAATACACGTAA-TAGCCTGCAC
1 TAGTAGCCTACACATAGTACTACACACGTGACCAAC-TTCTACGGTACACG-AAGTAGCCTTCAC
* * * * * * * * * * * * *
45614814 ATAGTACTACACACGTGATCGAAGCTATCCGGTACGCATAGTAGCCTGCACATATTACTACATAT
64 ACAGTACTACACACGTGA-CCAAACTTTTCGATACACATAGTATCCTTCACACAGTACCACACAT
* * *
45614879 GCGACCTATCA-TTCT-GGTACACG
128 GTGACC-ATCATTTATCGATACACG
* * *
45614902 TAGTAGCCTACACATAGTACTACACACGTGATCAACTTTTACGGTTCACGAAGTAGCCTTCACAC
1 TAGTAGCCTACACATAGTACTACACACGTGACCAACTTCTACGGTACACGAAGTAGCCTTCACAC
* * **
45614967 AGTACTACACACGTGATCAAAGCTTTTCGGTACACATAGTATCCTTCACTTAGTACCACACATGT
66 AGTACTACACACGTGACCAAA-CTTTTCGATACACATAGTATCCTTCACACAGTACCACACATGT
45615032 GACCATCATTTATCGATACACG
130 GACCATCATTTATCGATACACG
*
45615054 TAGTAGCCTTA-ACACT-GTACTACACACGTGACCAAAGCTTCT-CGGTACAC-ATTGTAGCCTT
1 TAGTAGCC-TACACA-TAGTACTACACACGTGACC-AA-CTTCTACGGTACACGA-AGTAGCCTT
** * * * *
45615115 CACTTAGTACTACACATGTGACCATTA-TTTATCGATACACGTAGTAGT-CTTCACACAGTACTA
61 CACACAGTACTACACACGTGACCA-AACTTT-TCGATACACATAGTA-TCCTTCACACAGTACCA
45615178 CACA
123 CACA
45615182 CGTGTTCATC
Statistics
Matches: 227, Mismatches: 41, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
150 8 0.04
151 75 0.33
152 69 0.30
153 69 0.30
154 6 0.03
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (151 bp):
TAGTAGCCTACACATAGTACTACACACGTGACCAACTTCTACGGTACACGAAGTAGCCTTCACAC
AGTACTACACACGTGACCAAACTTTTCGATACACATAGTATCCTTCACACAGTACCACACATGTG
ACCATCATTTATCGATACACG
Found at i:45628996 original size:30 final size:31
Alignment explanation
Indices: 45628957--45629016 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
45628947 GGAGGTGTGA
*
45628957 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
*
45628988 TGGG-AGGGAATAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
45629017 TAAAAGGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:45633933 original size:2 final size:2
Alignment explanation
Indices: 45633926--45633950 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
45633916 CCTTGTTTGA
45633926 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
45633951 ATACAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:45635885 original size:14 final size:14
Alignment explanation
Indices: 45635866--45635896 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
45635856 GTAAGGAATC
45635866 ATCTTGGTGGTCAA
1 ATCTTGGTGGTCAA
*
45635880 ATCTTGGTGGTCTA
1 ATCTTGGTGGTCAA
45635894 ATC
1 ATC
45635897 ATTTTGGACT
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:0.19, C:0.16, G:0.26, T:0.39
Consensus pattern (14 bp):
ATCTTGGTGGTCAA
Found at i:45635903 original size:17 final size:16
Alignment explanation
Indices: 45635862--45635903 Score: 52
Period size: 14 Copynumber: 2.7 Consensus size: 16
45635852 ATTTGTAAGG
45635862 AATCATCTTGGTGGTC
1 AATCATCTTGGTGGTC
45635878 AA--ATCTTGGTGGTC
1 AATCATCTTGGTGGTC
*
45635892 TAATCATTTTGG
1 -AATCATCTTGG
45635904 ACTGCCTCGG
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
14 12 0.55
15 2 0.09
16 2 0.09
17 6 0.27
ACGTcount: A:0.21, C:0.14, G:0.24, T:0.40
Consensus pattern (16 bp):
AATCATCTTGGTGGTC
Found at i:45639626 original size:12 final size:12
Alignment explanation
Indices: 45639607--45639636 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
45639597 GGAAGGGAAT
45639607 TAGGGATTGGGA
1 TAGGGATTGGGA
*
45639619 TTGGGATTGGGA
1 TAGGGATTGGGA
45639631 TAGGGA
1 TAGGGA
45639637 AGGGGAAGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.50, T:0.27
Consensus pattern (12 bp):
TAGGGATTGGGA
Found at i:45640568 original size:10 final size:10
Alignment explanation
Indices: 45640537--45640607 Score: 53
Period size: 10 Copynumber: 7.5 Consensus size: 10
45640527 TTTATATTAA
45640537 AAATAATATAC
1 AAAT-ATATAC
45640548 AAATA-ATAC
1 AAATATATAC
45640557 AAATATATAC
1 AAATATATAC
45640567 AAAT-T-TA-
1 AAATATATAC
*
45640574 AAATAT-TAT
1 AAATATATAC
* *
45640583 AAATTTATAA
1 AAATATATAC
* *
45640593 AAACATATAA
1 AAATATATAC
45640603 AAATA
1 AAATA
45640608 CAAAAACATA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
7 4 0.08
8 5 0.10
9 15 0.29
10 23 0.45
11 4 0.08
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (10 bp):
AAATATATAC
Found at i:45640588 original size:16 final size:17
Alignment explanation
Indices: 45640536--45640589 Score: 56
Period size: 19 Copynumber: 3.1 Consensus size: 17
45640526 TTTTATATTA
*
45640536 AAAATAATATACAAATAAT
1 AAAAT-ATATACAAAT-TT
45640555 ACAAATATATACAAATTT
1 A-AAATATATACAAATTT
*
45640573 AAAATAT-TATAAATTT
1 AAAATATATACAAATTT
45640589 A
1 A
45640590 TAAAAACATA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 9 0.28
17 6 0.19
18 2 0.06
19 11 0.34
20 4 0.12
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (17 bp):
AAAATATATACAAATTT
Found at i:45640622 original size:10 final size:10
Alignment explanation
Indices: 45640588--45640628 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
45640578 ATTATAAATT
45640588 TATAAAAACA
1 TATAAAAACA
45640598 TAT-AAAA-A
1 TATAAAAACA
*
45640606 TACAAAAACA
1 TATAAAAACA
45640616 TATAAAAACA
1 TATAAAAACA
45640626 TAT
1 TAT
45640629 TATAAATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 3 0.11
9 8 0.30
10 16 0.59
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.22
Consensus pattern (10 bp):
TATAAAAACA
Found at i:45640775 original size:20 final size:20
Alignment explanation
Indices: 45640750--45640788 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
45640740 ATAAAAATTG
45640750 TAAAAT-TATGAAAAATATTT
1 TAAAATATA-GAAAAATATTT
*
45640770 TAAAATATAGAAAATTATT
1 TAAAATATAGAAAAATATT
45640789 AAAATTGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (20 bp):
TAAAATATAGAAAAATATTT
Found at i:45641480 original size:14 final size:14
Alignment explanation
Indices: 45641461--45641497 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
45641451 AAAATTATCC
45641461 CTCCTTTTATTCAT
1 CTCCTTTTATTCAT
45641475 CTCC-TTTATTCAT
1 CTCCTTTTATTCAT
*
45641488 -TCCTATTATT
1 CTCCTTTTATT
45641498 TCCTTCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 3 0.14
13 14 0.67
14 4 0.19
ACGTcount: A:0.16, C:0.27, G:0.00, T:0.57
Consensus pattern (14 bp):
CTCCTTTTATTCAT
Found at i:45652925 original size:188 final size:187
Alignment explanation
Indices: 45652486--45653041 Score: 801
Period size: 188 Copynumber: 2.9 Consensus size: 187
45652476 AAAAGTTTGA
* * * *
45652486 GGGTAGTGAATCTGATTCTGATGCTGACAGAGCAAGAGGGCGTAAAAAGGAATTGATTAAGGAAG
1 GGGTAGTGAATCTGATTCTGATGCTGACAGAGCAAGAGGTCGTAAGAAGGAAATGATTAAGAAAG
* * *
45652551 GTCGTCAAAGGCATGACTCCAGTGAGGGTGACTCTGATTCTGATGGTGGGAGGCAAAAGAAGAGA
66 GTCGTCATAGGCATGACTCCAGTGAGGATGACTCTGATTCTGATGGTGAGAGGCAAAAGAAGAGA
** *
45652616 GGTGAAGTTCAAAAACGGAAGATTGAGTCAACTAGGAGCCAGAGGAGAGAGAGGGACAT
131 GGTGAAGTTC-AAAA-GGAAGATTGAGTTGACTGGGAGCCAGAGGAGAGAGAGGGACAT
* *
45652675 GGGTAGTGAATCTGATTCTGATGCTGACAGAGCAAGAGGTCAT-AGAAAAGAAATGATTAAGAAA
1 GGGTAGTGAATCTGATTCTGATGCTGACAGAGCAAGAGGTCGTAAG-AAGGAAATGATTAAGAAA
** ** *
45652739 GGTCGTCATAGGCACAACTCCAGTGAGGACAACTTTGATTCTGATGGTGAGAGGCAAAAGAAGAG
65 GGTCGTCATAGGCATGACTCCAGTGAGGATGACTCTGATTCTGATGGTGAGAGGCAAAAGAAGAG
45652804 AGGTGAAGTTCAAAAGGAAAGATTGAGTTGACTGGGAGCCAGAGGAGAGAGAGGGACAT
130 AGGTGAAGTTCAAAAGG-AAGATTGAGTTGACTGGGAGCCAGAGGAGAGAGAGGGACAT
* * *
45652863 -GGTAAGTGAATCTGATTCTGATACTGACAGAGCGAGAGGTCGTAAGAAGGAAATGGTTAAGAAA
1 GGGT-AGTGAATCTGATTCTGATGCTGACAGAGCAAGAGGTCGTAAGAAGGAAATGATTAAGAAA
* * * *
45652927 GGTCGTCGTAGGAATGACTCCAGTGAGGATGACTCTGATTCTGATGTTGAGAGGAAAAAGAAGAG
65 GGTCGTCATAGGCATGACTCCAGTGAGGATGACTCTGATTCTGATGGTGAGAGGCAAAAGAAGAG
* *
45652992 AGGTGAAGTTCAGAAAGGGAAGATCGAGTTGAATGGGAGCCAGAGGAGAG
130 AGGTGAAGTTCA-AAA-GGAAGATTGAGTTGACTGGGAGCCAGAGGAGAG
45653042 GCAGTGATAG
Statistics
Matches: 328, Mismatches: 33, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
187 5 0.02
188 163 0.50
189 158 0.48
190 2 0.01
ACGTcount: A:0.35, C:0.11, G:0.34, T:0.19
Consensus pattern (187 bp):
GGGTAGTGAATCTGATTCTGATGCTGACAGAGCAAGAGGTCGTAAGAAGGAAATGATTAAGAAAG
GTCGTCATAGGCATGACTCCAGTGAGGATGACTCTGATTCTGATGGTGAGAGGCAAAAGAAGAGA
GGTGAAGTTCAAAAGGAAGATTGAGTTGACTGGGAGCCAGAGGAGAGAGAGGGACAT
Found at i:45653773 original size:39 final size:39
Alignment explanation
Indices: 45653712--45653908 Score: 223
Period size: 39 Copynumber: 5.0 Consensus size: 39
45653702 CCAAAGCTTA
*
45653712 TGGGGAGAATGATGATCAGAATAGGGATGAATATTCTAGG
1 TGGGG-GAAAGATGATCAGAATAGGGATGAATATTCTAGG
* * *
45653752 TGGGGGAAAGATGACCGGAATAAGGATGAATATTCTAGG
1 TGGGGGAAAGATGATCAGAATAGGGATGAATATTCTAGG
** * * * * * *
45653791 TGGGGGATGGGTGACCGGAATAAGGATGAATACTCTAGA
1 TGGGGGAAAGATGATCAGAATAGGGATGAATATTCTAGG
* *
45653830 TGGGGAAAAGATGATCAGAAGAGGGATGAATATTCTAGG
1 TGGGGGAAAGATGATCAGAATAGGGATGAATATTCTAGG
* * * *
45653869 TGGGAGAAAGATGATCTGAAAAGGGATGATTATTCTAGG
1 TGGGGGAAAGATGATCAGAATAGGGATGAATATTCTAGG
45653908 T
1 T
45653909 CAGTTAGGTC
Statistics
Matches: 133, Mismatches: 24, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
39 128 0.96
40 5 0.04
ACGTcount: A:0.35, C:0.07, G:0.36, T:0.23
Consensus pattern (39 bp):
TGGGGGAAAGATGATCAGAATAGGGATGAATATTCTAGG
Found at i:45655444 original size:457 final size:455
Alignment explanation
Indices: 45654559--45655467 Score: 1682
Period size: 457 Copynumber: 2.0 Consensus size: 455
45654549 ATTCTTTTTT
45654559 TTTGTTCACTTATTGAGATTAGACATGGGTCTTTTTTGGTGCCTTTTGCTTAAAAAGAAGTGCGC
1 TTTGTTCACTTATTGAGATTAGACATGGGTCTTTTTTGGTGCCTTTTGCTTAAAAAGAAGTGCGC
45654624 TGAAGAACCTAAAGCCTGTGAAAAGGCCTCCCTAAGGGGTTGGGTGGTTCGACTGATGATTAAGG
66 TGAAGAACCTAAAGCCTGTGAAAAGGCCTCCCTAAGGGGTTGGGTGGTTCGACTGATGATTAAGG
*
45654689 GCTCTGCTGTAGCATGCCTTAACAAAACTTGTCTTGATTCTTTGTTTTCATTTTCGTTTTTGCCT
131 GCTCTGCTGTAGCATGCCTTAACAAAACTTGACTTGATTCTTTGTTTTCATTTTCGTTTTTGCCT
*
45654754 TCCTGATGATACATATTGGGAGCTGACTTTGTTTTATTTTTGCTTTCTTCTTCATCTGTGAAGGC
196 TCCTGATGATACATATTGGGAGCTGACTTTGTTTTATTTTTCCTTTCTTCTTCATCTGTGAAGGC
45654819 TGCAAGTACGAAATGGAACCACTTCAAAATTGTCTCCAGGCTTTTCGAAGGCGGGTGTCCTTTTT
261 TGCAAGTACGAAATGGAACCACTTCAAAATTGTCTCCAGGCTTTTCGAAGGCGGGTGTCCTTTTT
45654884 TCTGAATGTTGTGGAAATTGAATGTTCTTTTTGTGCGTGTGTTTTGTTTCCCCATCTTCCTTCTC
326 TCTGAATGTTGTGGAAATTGAATGTTCTTTTTGTGCGTGTGTTTTGTTTCCCCATCTTCCTTCTC
45654949 TCATTTCCGTTGGTACTTGGTAAGGGAGTTTTTCATATTCTGACTAATGAATAAGTCATGTGTTC
391 TCATTTCCGTTGGTACTTGGTAAGGGAGTTTTTCATATTCTGACTAATGAATAAGTCATGTGTTC
* *
45655014 TTTGTTCTCTTATTGAGATTAGACATGGGACAATCTTTTTTGGTGCCTTTTGCTTAAAAGGAAGT
1 TTTGTTCACTTATTGAGATTAGACATGGG----TCTTTTTTGGTGCCTTTTGCTTAAAAAGAAGT
*
45655079 GCGCTTG-AGAACCTAAAGCCTGTGCAAAGGCCTCCCTAAGGGGTTGGGTGGTTCGACTGATGAT
62 GCGC-TGAAGAACCTAAAGCCTGTGAAAAGGCCTCCCTAAGGGGTTGGGTGGTTCGACTGATGAT
45655143 TAAGGGCTCTGCTGTAGCATGCCTTAACAAAACTTGAC-TGATTCTTTGTTTTCA-TTTCTGTTT
126 TAAGGGCTCTGCTGTAGCATGCCTTAACAAAACTTGACTTGATTCTTTGTTTTCATTTTC-GTTT
*
45655206 TTGCCTTCCTGATGATACATATTGGGAGCTGATTTTGTTTTATTTTTCCTTTCTTCTTCATCTGT
190 TTGCCTTCCTGATGATACATATTGGGAGCTGACTTTGTTTTATTTTTCCTTTCTTCTTCATCTGT
45655271 GAAGGCTGCAAGTACGAAATGGAACCACTTC-AAATTGTCTCCAGGCTTTTCGAAGGCGGGTGTC
255 GAAGGCTGCAAGTACGAAATGGAACCACTTCAAAATTGTCTCCAGGCTTTTCGAAGGCGGGTGTC
45655335 CTTTTTTCTGAATGTTGTGGAAATTGAATGTTCTTTTTGTGCGTGTGTTTTGTTTCCCCATCTTC
320 CTTTTTTCTGAATGTTGTGGAAATTGAATGTTCTTTTTGTGCGTGTGTTTTGTTTCCCCATCTTC
45655400 CTTCTCTCATTTCCGTTGGTACTTGGTAAGGGAGTTTTTCATATTCTGACTAATGAATAAGTCAT
385 CTTCTCTCATTTCCGTTGGTACTTGGTAAGGGAGTTTTTCATATTCTGACTAATGAATAAGTCAT
45655465 GTG
450 GTG
45655468 GATGTTTGGA
Statistics
Matches: 442, Mismatches: 6, Indels: 10
0.97 0.01 0.02
Matches are distributed among these distances:
455 28 0.06
457 170 0.38
458 114 0.26
459 128 0.29
460 2 0.00
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (455 bp):
TTTGTTCACTTATTGAGATTAGACATGGGTCTTTTTTGGTGCCTTTTGCTTAAAAAGAAGTGCGC
TGAAGAACCTAAAGCCTGTGAAAAGGCCTCCCTAAGGGGTTGGGTGGTTCGACTGATGATTAAGG
GCTCTGCTGTAGCATGCCTTAACAAAACTTGACTTGATTCTTTGTTTTCATTTTCGTTTTTGCCT
TCCTGATGATACATATTGGGAGCTGACTTTGTTTTATTTTTCCTTTCTTCTTCATCTGTGAAGGC
TGCAAGTACGAAATGGAACCACTTCAAAATTGTCTCCAGGCTTTTCGAAGGCGGGTGTCCTTTTT
TCTGAATGTTGTGGAAATTGAATGTTCTTTTTGTGCGTGTGTTTTGTTTCCCCATCTTCCTTCTC
TCATTTCCGTTGGTACTTGGTAAGGGAGTTTTTCATATTCTGACTAATGAATAAGTCATGTGTTC
Found at i:45657975 original size:26 final size:26
Alignment explanation
Indices: 45657946--45657997 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
45657936 ATATTTTATA
*
45657946 TTAAAATAATACAAATATATACAAAT
1 TTAAAATAATACAAATATATAAAAAT
* * *
45657972 TTAAAATATTATAAATTTATAAAAAT
1 TTAAAATAATACAAATATATAAAAAT
45657998 ATATAAAAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (26 bp):
TTAAAATAATACAAATATATAAAAAT
Found at i:45658003 original size:10 final size:10
Alignment explanation
Indices: 45657942--45658052 Score: 51
Period size: 10 Copynumber: 11.8 Consensus size: 10
45657932 TATGATATTT
*
45657942 TATATTAAAA
1 TATATAAAAA
*
45657952 TA-ATACAAA
1 TATATAAAAA
*
45657961 TATATACAAA
1 TATATAAAAA
45657971 T-T-T-AAAA
1 TATATAAAAA
*
45657978 TAT-TATAAA
1 TATATAAAAA
*
45657987 TTTATAAAAA
1 TATATAAAAA
*
45657997 TATATAAAAG
1 TATATAAAAA
*
45658007 TACA-AAAAA
1 TATATAAAAA
45658016 -A-ATAAAAA
1 TATATAAAAA
* *
45658024 CATATTATAAA
1 TATA-TAAAAA
*
45658035 TGAAAT-AAAA
1 T-ATATAAAAA
45658045 TATATAAA
1 TATATAAA
45658053 TTATTAAAAA
Statistics
Matches: 76, Mismatches: 15, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
7 5 0.07
8 9 0.12
9 21 0.28
10 33 0.43
11 6 0.08
12 2 0.03
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.31
Consensus pattern (10 bp):
TATATAAAAA
Done.