Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 179 of 328
Found at i:53149986 original size:24 final size:24
Alignment explanation
Indices: 53149920--53149992 Score: 78
Period size: 23 Copynumber: 3.0 Consensus size: 24
53149910 TACCTCGTTA
53149920 ACAAATTTATTCA-TTTTTTATAC
1 ACAAATTTATTCATTTTTTTATAC
* * *
53149943 ACAAATTTATTCGGTTTTTTTTTAT
1 ACAAATTTATTC-ATTTTTTTATAC
53149968 A-AAATTTATTCATTCTTTTGTATAC
1 ACAAATTTATTCATT-TTTT-TATAC
53149993 CTCACAGTCA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
23 14 0.35
24 14 0.35
25 12 0.30
ACGTcount: A:0.30, C:0.11, G:0.04, T:0.55
Consensus pattern (24 bp):
ACAAATTTATTCATTTTTTTATAC
Found at i:53151730 original size:20 final size:20
Alignment explanation
Indices: 53151705--53151744 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
53151695 AATAATCAAG
53151705 AATCAACAAAGTATGCTTAA
1 AATCAACAAAGTATGCTTAA
*
53151725 AATCAACAAATTATGCTTAA
1 AATCAACAAAGTATGCTTAA
53151745 GATACAGAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.15, G:0.07, T:0.28
Consensus pattern (20 bp):
AATCAACAAAGTATGCTTAA
Found at i:53156805 original size:45 final size:47
Alignment explanation
Indices: 53156747--53156837 Score: 105
Period size: 49 Copynumber: 1.9 Consensus size: 47
53156737 TATAGAACTA
* * * * *
53156747 CACTTCTTTTATTT-TATT-TTAGAATAAGGTTTTTTAACCTTATTT
1 CACTTCATCTATTTATATTATTAGAATAAAGTGTTTCAACCTTATTT
53156792 CACTTCATCTATTTGATATTAATTAGAATAAAGTGTTTCAACCTTA
1 CACTTCATCTATTT-ATATT-ATTAGAATAAAGTGTTTCAACCTTA
53156838 CTACACTCCT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
45 12 0.32
47 4 0.11
49 21 0.57
ACGTcount: A:0.30, C:0.13, G:0.08, T:0.49
Consensus pattern (47 bp):
CACTTCATCTATTTATATTATTAGAATAAAGTGTTTCAACCTTATTT
Found at i:53158771 original size:2 final size:2
Alignment explanation
Indices: 53158764--53158794 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
53158754 TTTTATTACC
53158764 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
53158795 TAATAGTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:53162417 original size:26 final size:26
Alignment explanation
Indices: 53162388--53162495 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
53162378 TGATACAAAT
53162388 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
53162414 TGATAATGGGTTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
53162440 TGATAATGTGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
53162466 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
53162492 TGAT
1 TGAT
53162496 GGGAATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:53168459 original size:16 final size:16
Alignment explanation
Indices: 53168438--53168468 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
53168428 AATTTATTTT
*
53168438 AATTAATTAATTTTCC
1 AATTAAATAATTTTCC
53168454 AATTAAATAATTTTC
1 AATTAAATAATTTTC
53168469 TCAACCTAAT
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:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTAAATAATTTTCC
Found at i:53173671 original size:2 final size:2
Alignment explanation
Indices: 53173658--53173699 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
53173648 TAGTGTTATA
*
53173658 TG TG TA 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
53173700 AGTGAAATTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.02, C:0.00, G:0.48, T:0.50
Consensus pattern (2 bp):
TG
Found at i:53176937 original size:36 final size:36
Alignment explanation
Indices: 53176890--53176963 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
53176880 TAGCATAAGG
53176890 ATTGCTAATAATGGATTGGTGAAAAAATTTGATTTA
1 ATTGCTAATAATGGATTGGTGAAAAAATTTGATTTA
**
53176926 ATTGCTAATAATGGATTGGTGAAAATTTTTGATTTA
1 ATTGCTAATAATGGATTGGTGAAAAAATTTGATTTA
53176962 AT
1 AT
53176964 GAATAGATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.03, G:0.19, T:0.42
Consensus pattern (36 bp):
ATTGCTAATAATGGATTGGTGAAAAAATTTGATTTA
Found at i:53179755 original size:42 final size:41
Alignment explanation
Indices: 53179676--53179815 Score: 113
Period size: 43 Copynumber: 3.3 Consensus size: 41
53179666 TCCCGGACGT
* * * * * *
53179676 GGTCTTACATGTAACTCAATATCGATGCCTCTATCCCAGACAG
1 GGTCTTACACGAAACTC-A-ATCGAGGCCTGTGTCCCAGACAC
* *
53179719 GGTCTTACACGAAA-TCAGATACGATG-CTGATGTCCCAGACAT
1 GGTCTTACACGAAACTCA-AT-CGAGGCCTG-TGTCCCAGACAC
* *
53179761 GGTCTTATACATAAATCTCAATCGAGGCCTGTGTCCCAGACAC
1 GGTCTTACAC-GAAA-CTCAATCGAGGCCTGTGTCCCAGACAC
53179804 GGTCTTACACGA
1 GGTCTTACACGA
53179816 TGTCCCAGAC
Statistics
Matches: 79, Mismatches: 12, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
41 5 0.06
42 27 0.34
43 39 0.49
44 5 0.06
45 3 0.04
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (41 bp):
GGTCTTACACGAAACTCAATCGAGGCCTGTGTCCCAGACAC
Found at i:53180409 original size:15 final size:15
Alignment explanation
Indices: 53180389--53180420 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
53180379 AGCCTTCATA
53180389 ATTCATTCCAAAAAC
1 ATTCATTCCAAAAAC
53180404 ATTCATTCCAAAAAC
1 ATTCATTCCAAAAAC
53180419 AT
1 AT
53180421 CACAAAATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (15 bp):
ATTCATTCCAAAAAC
Found at i:53185999 original size:15 final size:15
Alignment explanation
Indices: 53185979--53186007 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
53185969 AGCCTTCATA
53185979 ATTCATTCCAAAAAT
1 ATTCATTCCAAAAAT
53185994 ATTCATTCCAAAAA
1 ATTCATTCCAAAAA
53186008 CATCACAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (15 bp):
ATTCATTCCAAAAAT
Found at i:53190255 original size:13 final size:14
Alignment explanation
Indices: 53190220--53190256 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
53190210 TACACCTATT
53190220 TCACGAGATAGATC
1 TCACGAGATAGATC
53190234 TCACGAGATAGATC
1 TCACGAGATAGATC
53190248 TC-CGAGATA
1 TCACGAGATA
53190257 TCCTAGAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 7 0.30
14 16 0.70
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (14 bp):
TCACGAGATAGATC
Found at i:53194379 original size:29 final size:29
Alignment explanation
Indices: 53194340--53194418 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
53194330 CTTAATAATC
*
53194340 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
53194370 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
53194399 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
53194419 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:53195078 original size:2 final size:2
Alignment explanation
Indices: 53195060--53195093 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
53195050 TGATGGCCGA
* *
53195060 AT AT GT AT AT CT 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 AT AT
53195094 CAACTATACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53199869 original size:40 final size:40
Alignment explanation
Indices: 53199805--53199956 Score: 164
Period size: 39 Copynumber: 3.9 Consensus size: 40
53199795 GCTACTCGTT
* * * ***
53199805 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* *
53199845 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * * *
53199885 CAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* *
53199924 CCATTGCCTTCGGG-CTTAGCCCGGATATCACAA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAA
53199957 TTCGCACATT
Statistics
Matches: 97, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 52 0.54
40 45 0.46
ACGTcount: A:0.24, C:0.32, G:0.22, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
Found at i:53199922 original size:39 final size:39
Alignment explanation
Indices: 53199841--53199964 Score: 185
Period size: 39 Copynumber: 3.2 Consensus size: 39
53199831 TATGGTAACC
* *
53199841 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
53199881 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
53199920 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
53199959 CGCACA
1 CGCACA
53199965 TTCATACACA
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 58 0.77
40 17 0.23
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:53207756 original size:40 final size:40
Alignment explanation
Indices: 53207692--53207843 Score: 164
Period size: 39 Copynumber: 3.9 Consensus size: 40
53207682 GCTACTCGTT
* * * ***
53207692 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* *
53207732 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* * * *
53207772 CAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
* *
53207811 CCATTGCCTTCGGG-CTTAGCCCGGATATCACAA
1 CAAATGCCTTCGGGACTTAGCCCGGATATCACAA
53207844 TTCGCACATT
Statistics
Matches: 97, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 52 0.54
40 45 0.46
ACGTcount: A:0.24, C:0.32, G:0.22, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATCACAACCCGCA
Found at i:53207809 original size:39 final size:39
Alignment explanation
Indices: 53207728--53207851 Score: 185
Period size: 39 Copynumber: 3.2 Consensus size: 39
53207718 TATGGTAACC
* *
53207728 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
53207768 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
53207807 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
53207846 CGCACA
1 CGCACA
53207852 TTCATACACA
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 58 0.77
40 17 0.23
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:53217838 original size:2 final size:2
Alignment explanation
Indices: 53217831--53217862 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
53217821 ATTTTCCTCC
53217831 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
53217863 TGCGCGCAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:53221608 original size:23 final size:23
Alignment explanation
Indices: 53221581--53221626 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
53221571 TTCGAGCTCA
* *
53221581 ATTCATTTAGCGATCGCGAACAT
1 ATTCATTTAACGATCGCAAACAT
53221604 ATTCATTTAACGATCGCAAACAT
1 ATTCATTTAACGATCGCAAACAT
53221627 GTTTGTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (23 bp):
ATTCATTTAACGATCGCAAACAT
Found at i:53221635 original size:23 final size:23
Alignment explanation
Indices: 53221586--53221659 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
53221576 GCTCAATTCA
* * * *
53221586 TTTAGCGATCGCGAACATATTCA
1 TTTAACGATCGCAAACATGTTCG
*
53221609 TTTAACGATCGCAAACATGTTTG
1 TTTAACGATCGCAAACATGTTCG
* *
53221632 TTTATATGTTCGCAAACATGTTCG
1 TTTA-ACGATCGCAAACATGTTCG
53221656 TTTA
1 TTTA
53221660 TATATATATT
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 22 0.52
24 20 0.48
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (23 bp):
TTTAACGATCGCAAACATGTTCG
Found at i:53221649 original size:24 final size:24
Alignment explanation
Indices: 53221617--53221662 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
53221607 CATTTAACGA
*
53221617 TCGCAAACATGTTTGTTTATATGT
1 TCGCAAACATGTTCGTTTATATGT
53221641 TCGCAAACATGTTCGTTTATAT
1 TCGCAAACATGTTCGTTTATAT
53221663 ATATATTTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.43
Consensus pattern (24 bp):
TCGCAAACATGTTCGTTTATATGT
Found at i:53233102 original size:27 final size:27
Alignment explanation
Indices: 53233083--53233428 Score: 494
Period size: 27 Copynumber: 12.8 Consensus size: 27
53233073 ATTACCAAAG
*
53233083 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
53233110 TACCCTCGATTGACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
53233137 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
53233164 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* **
53233191 TACCCTCGATTTAAAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
53233218 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
53233245 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
53233272 TACCCTCAATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
53233299 TACCCTTGATTTATAGAATTATCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
53233326 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
53233353 TACCCTCAATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
53233380 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
53233407 TACCCTCAATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
53233429 TAAAATACCA
Statistics
Matches: 292, Mismatches: 27, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 292 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:53233437 original size:27 final size:27
Alignment explanation
Indices: 53233272--53233574 Score: 146
Period size: 27 Copynumber: 11.2 Consensus size: 27
53233262 ATTACCGTTT
* ***
53233272 TACCCTCAATTTACAGAATTACCATTT
1 TACCCTCAATTTACAAAATTACCAAAA
** * * * ***
53233299 TACCCTTGATTTATAGAATTATCATTT
1 TACCCTCAATTTACAAAATTACCAAAA
* * * ***
53233326 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCAATTTACAAAATTACCAAAA
****
53233353 TACCCTCAATTTACAAAATTACCGTTT
1 TACCCTCAATTTACAAAATTACCAAAA
* * ****
53233380 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCAATTTACAAAATTACCAAAA
*
53233407 TACCCTCAATTTACAAAATTACTAAAA
1 TACCCTCAATTTACAAAATTACCAAAA
* ***
53233434 TACCATTGGTTTACAAAATTACCAAAA
1 TACCCTCAATTTACAAAATTACCAAAA
* **
53233461 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTC-AATTTACAAAATTACCAAAA
** ***
53233488 TACCACT-GGTTTGTGAAATTACCAAAA
1 TACC-CTCAATTTACAAAATTACCAAAA
**
53233515 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCAATTTACAAAATTACCAAAA
*
53233542 TACCC-CTGATTTACAAAATTA-CAGAAA
1 TACCCTC-AATTTACAAAATTACCA-AAA
53233569 TACCCT
1 TACCCT
53233575 TAACTTTCTA
Statistics
Matches: 232, Mismatches: 37, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
26 5 0.02
27 226 0.97
28 1 0.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (27 bp):
TACCCTCAATTTACAAAATTACCAAAA
Found at i:53233454 original size:54 final size:54
Alignment explanation
Indices: 53233353--53233630 Score: 222
Period size: 54 Copynumber: 5.1 Consensus size: 54
53233343 ATTACCATTT
**** * * * * ****
53233353 TACCCTCAATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCAATTTACAAAATTACCAAAATACCATTGGTTTACAAAATTACCAAAA
*
53233407 TACCCTCAATTTACAAAATTACTAAAATACCATTGGTTTACAAAATTACCAAAA
1 TACCCTCAATTTACAAAATTACCAAAATACCATTGGTTTACAAAATTACCAAAA
* ** * ***
53233461 TACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCAAAA
1 TACCCTC-AATTTACAAAATTACCAAAATACCATTGGTTTACAAAATTACCAAAA
** ** *
53233515 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTA-CAGAAA
1 TACCCTCAATTTACAAAATTACCAAAATACCATTGGTTTACAAAATTACCA-AAA
* * *
53233569 TACCCTTAACTTT-CTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTAAAA
1 TACCCTCAA-TTTAC--AAAATTACCA-AAATACCATTGGTTTACAAAATTACCAAAA
53233625 TACCCT
1 TACCCT
53233631 TGGCTTGTAG
Statistics
Matches: 182, Mismatches: 34, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
53 3 0.02
54 136 0.75
55 5 0.03
56 37 0.20
57 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.06, T:0.32
Consensus pattern (54 bp):
TACCCTCAATTTACAAAATTACCAAAATACCATTGGTTTACAAAATTACCAAAA
Found at i:53233507 original size:81 final size:83
Alignment explanation
Indices: 53233421--53233629 Score: 214
Period size: 81 Copynumber: 2.5 Consensus size: 83
53233411 CTCAATTTAC
**
53233421 AAAATTACTAAAATACCATTGGTTTACAAAATTACCAAAATACCCCT-AGTTTGTAAAATTACCA
1 AAAATTACTAAAATACCATTGGTTTACAAAATTACCAAAATACCCCTGA-TTTACAAAATTA-CA
** *
53233485 -AAATACCAC-T-GGTTTGT-
64 GAAATACC-CTTAACTTTCTA
* * * *** **
53233502 GAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAATTACAGA
1 AAAATTACTAAAATACCATTGGTTTACAAAATTACCAAAATACCCCTGATTTACAAAATTACAGA
53233567 AATACCCTTAACTTTCTA
66 AATACCCTTAACTTTCTA
*
53233585 AAAATTA-TAGAAATACCATTGGTTTACAAAATTACTAAAATACCC
1 AAAATTACTA-AAATACCATTGGTTTACAAAATTACCAAAATACCC
53233630 TTGGCTTGTA
Statistics
Matches: 100, Mismatches: 22, Indels: 10
0.76 0.17 0.08
Matches are distributed among these distances:
80 3 0.03
81 57 0.57
82 6 0.06
83 34 0.34
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.30
Consensus pattern (83 bp):
AAAATTACTAAAATACCATTGGTTTACAAAATTACCAAAATACCCCTGATTTACAAAATTACAGA
AATACCCTTAACTTTCTA
Found at i:53233625 original size:27 final size:27
Alignment explanation
Indices: 53233416--53233633 Score: 165
Period size: 27 Copynumber: 8.0 Consensus size: 27
53233406 TTACCCTCAA
* *
53233416 TTTACAAAATTACTAAAATACCATTGG
1 TTTACAAAATTACCAAAATACCCTTGG
* *
53233443 TTTACAAAATTACCAAAATACCCCTAG
1 TTTACAAAATTACCAAAATACCCTTGG
**
53233470 TTTGTAAAATTACCAAAATACCAC-TGG
1 TTTACAAAATTACCAAAATACC-CTTGG
*** ***
53233497 TTTGTGAAATTACCAAAATACCCTCAA
1 TTTACAAAATTACCAAAATACCCTTGG
** * *
53233524 TTTGTAAAATTACCAAAATACCCCTGA
1 TTTACAAAATTACCAAAATACCCTTGG
**
53233551 TTTACAAAATTA-CAGAAATACCCTTAAC
1 TTTACAAAATTACCA-AAATACCCTT-GG
* *
53233579 TTT-CTAAAAATTA-TAGAAATACCATTGG
1 TTTAC--AAAATTACCA-AAATACCCTTGG
*
53233607 TTTACAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTACCAAAATACCCTTGG
53233634 CTTGTAGATT
Statistics
Matches: 158, Mismatches: 25, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
26 3 0.02
27 127 0.80
28 9 0.06
29 19 0.12
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTTGG
Found at i:53233711 original size:27 final size:27
Alignment explanation
Indices: 53233681--53233732 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
53233671 GACTAAAATA
53233681 CCCCTA-ATAGGTAAAGAGACCGTAAAG
1 CCCCTATA-AGGTAAAGAGACCGTAAAG
* *
53233708 CCCCTGTAAGGTAAAGTGACCGTAA
1 CCCCTATAAGGTAAAGAGACCGTAA
53233733 TACCCTTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (27 bp):
CCCCTATAAGGTAAAGAGACCGTAAAG
Found at i:53233742 original size:27 final size:27
Alignment explanation
Indices: 53233689--53233749 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
53233679 TACCCCTAAT
53233689 AGGTAAAGAGACCGTAAAGCCCCTGTA
1 AGGTAAAGAGACCGTAAAGCCCCTGTA
* *
53233716 AGGTAAAGTGACCGTAATA-CCCTTGTA
1 AGGTAAAGAGACCGTAA-AGCCCCTGTA
*
53233743 TGGTAAA
1 AGGTAAA
53233750 ATGATGAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (27 bp):
AGGTAAAGAGACCGTAAAGCCCCTGTA
Found at i:53234601 original size:25 final size:24
Alignment explanation
Indices: 53234565--53234634 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 24
53234555 AGGAAGTGCT
53234565 AAAAGGGCTCTGCCCCAGTTTACC
1 AAAAGGGCTCTGCCCCAGTTTACC
* *
53234589 GAAAAGGGGTCTGCCCCAGTTTATC
1 -AAAAGGGCTCTGCCCCAGTTTACC
* *
53234614 AGAAAGGGTTTTGCCCCAGTT
1 A-AAAGGGCTCTGCCCCAGTT
53234635 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
24 1 0.03
25 39 0.98
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTCTGCCCCAGTTTACC
Found at i:53234846 original size:42 final size:42
Alignment explanation
Indices: 53234783--53234872 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 42
53234773 GTCTCCCCAG
* ** * **
53234783 ATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTGAA
1 ATGGGCTTGCATACATCCATTGACATTACATACGATATTGAA
53234825 ATGGGCTTGCATACATCCATTGACATTACATACGATATTGAA
1 ATGGGCTTGCATACATCCATTGACATTACATACGATATTGAA
53234867 ATGGGC
1 ATGGGC
53234873 CTAAGTGCCA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (42 bp):
ATGGGCTTGCATACATCCATTGACATTACATACGATATTGAA
Found at i:53237906 original size:40 final size:39
Alignment explanation
Indices: 53237862--53237986 Score: 123
Period size: 40 Copynumber: 3.2 Consensus size: 39
53237852 GGGACTCAAC
*
53237862 CCGGATTTAGTAGCTTGCTCGAAAGCCTTCGGATCTTAGT
1 CCGGATTTAGTA-CTTGCACGAAAGCCTTCGGATCTTAGT
* * *
53237902 CCGGATTTAGTAACTCGCACGTATGCCGTT-GGATCTTAGT
1 CCGGATTTAGT-ACTTGCACGAAAGCC-TTCGGATCTTAGT
*
53237942 CCGGA-TTAGTCACTTAGCAC-AAAGCCTTCGGGA-CTTAGC
1 CCGGATTTAGT-ACTT-GCACGAAAGCCTTC-GGATCTTAGT
53237981 CCGGAT
1 CCGGAT
53237987 ATCATTCGAA
Statistics
Matches: 70, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
38 2 0.03
39 22 0.31
40 43 0.61
41 3 0.04
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.29
Consensus pattern (39 bp):
CCGGATTTAGTACTTGCACGAAAGCCTTCGGATCTTAGT
Found at i:53237985 original size:79 final size:79
Alignment explanation
Indices: 53237801--53237986 Score: 186
Period size: 80 Copynumber: 2.3 Consensus size: 79
53237791 GCTACACATT
*
53237801 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTCAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGATTACAGTAACTCGCACGAATGCCTTC-GGACTCAACCCG
*
53237865 GATTTAGTAGCTTGCT
64 GATTTAGTAGCTTGCA
* * * * **
53237881 CGAAAGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCACGTATGCCGTT-GGATCTTAGTC
1 C-AAAGCCTTCGGGA-CTTAGCCCGGATTACAGTAACTCGCACGAATGCC-TTCGGA-CTCAACC
53237943 CGGA-TTAGTCA-CTTAGCA
62 CGGATTTAGT-AGCTT-GCA
53237961 CAAAGCCTTCGGGACTTAGCCCGGAT
1 CAAAGCCTTCGGGACTTAGCCCGGAT
53237987 ATCATTCGAA
Statistics
Matches: 89, Mismatches: 9, Indels: 17
0.77 0.08 0.15
Matches are distributed among these distances:
79 34 0.38
80 48 0.54
81 7 0.08
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (79 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTACAGTAACTCGCACGAATGCCTTCGGACTCAACCCGGA
TTTAGTAGCTTGCA
Found at i:53241309 original size:15 final size:15
Alignment explanation
Indices: 53241289--53241322 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
53241279 AAAATTAAAA
*
53241289 TATATTATTTTATTT
1 TATATTATTTTATAT
53241304 TATATTATTTTATAT
1 TATATTATTTTATAT
53241319 TATA
1 TATA
53241323 AATAAATAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TATATTATTTTATAT
Found at i:53246857 original size:25 final size:25
Alignment explanation
Indices: 53246829--53246880 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
53246819 AACGAGGTGT
53246829 TTGCTAAGAGTATTATTGACCCAGA
1 TTGCTAAGAGTATTATTGACCCAGA
53246854 TTGCTAAGAGTATTATTGACCCAGA
1 TTGCTAAGAGTATTATTGACCCAGA
53246879 TT
1 TT
53246881 TGAATAATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (25 bp):
TTGCTAAGAGTATTATTGACCCAGA
Found at i:53250922 original size:85 final size:85
Alignment explanation
Indices: 53250753--53250911 Score: 187
Period size: 85 Copynumber: 1.9 Consensus size: 85
53250743 GTCTGAGATA
* * * * * *
53250753 TCGTGTAAGACCGTGTCTGGGACACAAGCCTCGATTGAGATTTACGTATAAGACCATGTCTAGGA
1 TCGTGTAAAACCCTGTCTGGGACACAAGCATCGATTGAGATTTACATATAAGACCACGTCCAGGA
53250818 CATCGACATCGTATCTGATT
66 CATCGACATCGTATCTGATT
* * * *
53250838 TCGTGTAAAACCCTGTCTGGGACAGAGGCATCGATATTGA-A-TTACATGTAAGACCACGTCCGG
1 TCGTGTAAAACCCTGTCTGGGACACAAGCATCG--ATTGAGATTTACATATAAGACCACGTCCAG
*
53250901 GACGTCGACAT
64 GACATCGACAT
53250912 TGTACTTGAT
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
85 55 0.90
86 1 0.02
87 5 0.08
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.26
Consensus pattern (85 bp):
TCGTGTAAAACCCTGTCTGGGACACAAGCATCGATTGAGATTTACATATAAGACCACGTCCAGGA
CATCGACATCGTATCTGATT
Found at i:53266141 original size:50 final size:50
Alignment explanation
Indices: 53266023--53266265 Score: 315
Period size: 50 Copynumber: 4.8 Consensus size: 50
53266013 TTGTGAGAAT
* *** *
53266023 ACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATAGTTTTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAT--TGTTAGGTC
* *
53266075 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTC
* * * *
53266125 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCTGATAGCTTCGATC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTG-TTAGGTC
** *
53266176 ACATGTGTAGTACTAAGTGCAGGCTACTGCGTGCACCAGATTGTTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTC
* *
53266226 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
53266266 GAGCTTCAGT
Statistics
Matches: 165, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
50 87 0.53
51 43 0.26
52 35 0.21
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (50 bp):
ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGTTAGGTC
Found at i:53266157 original size:26 final size:26
Alignment explanation
Indices: 53266078--53266159 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
53266068 TTAGGTCACG
53266078 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
* * * *
53266104 --CGT-GTACCAGATTGTTAGG-TCAC-A
1 TGTGTAGTACTA-AGTG-CAGGCT-ACTA
53266128 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
53266154 TGTGTA
1 TGTGTA
53266160 CCTGATAGCT
Statistics
Matches: 40, Mismatches: 8, Indels: 16
0.62 0.12 0.25
Matches are distributed among these distances:
23 5 0.12
24 7 0.17
25 10 0.25
26 13 0.32
27 5 0.12
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (26 bp):
TGTGTAGTACTAAGTGCAGGCTACTA
Found at i:53266222 original size:101 final size:101
Alignment explanation
Indices: 53266023--53266272 Score: 365
Period size: 101 Copynumber: 2.5 Consensus size: 101
53266013 TTGTGAGAAT
* *** * * * *
53266023 ACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATAGTTTTAGGTCACGTGTGTAGTAC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG-CTTCGATCACATGTGTAGTAC
*
53266088 TAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTC
65 TAAGTGCAGGCTACTACGTGCACCAGATTGTTAGGTC
*
53266125 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCTGATAGCTTCGATCACATGTGTAGTACT
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGCTTCGATCACATGTGTAGTACT
*
53266190 AAGTGCAGGCTACTGCGTGCACCAGATTGTTAGGTC
66 AAGTGCAGGCTACTACGTGCACCAGATTGTTAGGTC
* * *
53266226 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAGAGCTTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGCTTC
53266273 AGTTATAAGG
Statistics
Matches: 133, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
101 95 0.71
102 38 0.29
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (101 bp):
ACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGCTTCGATCACATGTGTAGTACT
AAGTGCAGGCTACTACGTGCACCAGATTGTTAGGTC
Found at i:53266300 original size:101 final size:101
Alignment explanation
Indices: 53266081--53266300 Score: 280
Period size: 101 Copynumber: 2.2 Consensus size: 101
53266071 GGTCACGTGT
* * *
53266081 GTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACATGTGTAGTACTAAGTGCA
1 GTAGTAATAAGTACAGGCTACTACGTGCACCAGATTGTTAGGTCACATGTGTAGTACTAAGTGCA
* * * * *
53266146 GGCTACTATGTGTACCTGATAGCTTCGATCACATGT
66 GGCTACTATGCGTACCAGAGAGCTTCGATCACAAGG
* * * *
53266182 GTAGTACTAAGTGCAGGCTACTGCGTGCACCAGATTGTTAGGTCGCATGTGTAGTACTAAGTGCA
1 GTAGTAATAAGTACAGGCTACTACGTGCACCAGATTGTTAGGTCACATGTGTAGTACTAAGTGCA
* *
53266247 GGCTACTATGCGTACCAGAGAGCTTC-AGTTATAAGG
66 GGCTACTATGCGTACCAGAGAGCTTCGA-TCACAAGG
* *
53266283 GTGGTAATATGTACAGGC
1 GTAGTAATAAGTACAGGC
53266301 CACCTTCCAA
Statistics
Matches: 104, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
100 1 0.01
101 103 0.99
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (101 bp):
GTAGTAATAAGTACAGGCTACTACGTGCACCAGATTGTTAGGTCACATGTGTAGTACTAAGTGCA
GGCTACTATGCGTACCAGAGAGCTTCGATCACAAGG
Found at i:53269080 original size:40 final size:40
Alignment explanation
Indices: 53268954--53269082 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
53268944 ATGCTGGAAA
* *
53268954 TTATATCCGGGTTAAGA-CCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
53268993 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
53269033 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
53269073 TTATATCCGG
1 TTATATCCGG
53269083 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 18 0.23
40 59 0.77
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:53274517 original size:40 final size:40
Alignment explanation
Indices: 53274390--53274519 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
53274380 ATGCTGGAAA
* *
53274390 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
53274430 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
53274470 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
53274510 TTATATCCGG
1 TTATATCCGG
53274520 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:53277483 original size:47 final size:47
Alignment explanation
Indices: 53277420--53277995 Score: 938
Period size: 47 Copynumber: 12.3 Consensus size: 47
53277410 CCCTTCGGGA
* * *
53277420 CTTATCATATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * * *
53277467 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
53277514 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
53277561 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
53277608 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCAGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
53277655 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
53277702 CTTATCACATATACACACTTTCACATTCATCACGTTGGCCA-CCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
53277748 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
53277795 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
53277842 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
53277889 CTTATCACATATACACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
53277936 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
53277983 CTTATCACATATA
1 CTTATCACATATA
53277996 CATATCTTGT
Statistics
Matches: 487, Mismatches: 41, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
46 42 0.09
47 445 0.91
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:53288458 original size:17 final size:18
Alignment explanation
Indices: 53288424--53288471 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 18
53288414 AAATTTGTAC
* *
53288424 ATTATAATATTATTTTTT
1 ATTATAATAATATCTTTT
53288442 ATTA-AATAATATCTTTT
1 ATTATAATAATATCTTTT
*
53288459 ATTTTAA-AATATC
1 ATTATAATAATATC
53288472 ATACCCAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 20 0.77
18 6 0.23
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTATAATAATATCTTTT
Found at i:53294620 original size:13 final size:13
Alignment explanation
Indices: 53294598--53294634 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
53294588 AGAAGACTAC
53294598 TCGGTTGAAGCAT
1 TCGGTTGAAGCAT
*
53294611 TCGGTCGAAGCAT
1 TCGGTTGAAGCAT
53294624 TCGGTTGAAGC
1 TCGGTTGAAGC
53294635 GTTCATCCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.27
Consensus pattern (13 bp):
TCGGTTGAAGCAT
Found at i:53295075 original size:13 final size:13
Alignment explanation
Indices: 53295057--53295082 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
53295047 GACAATCGCA
53295057 TATATATTTAAAT
1 TATATATTTAAAT
53295070 TATATATTTAAAT
1 TATATATTTAAAT
53295083 AATAAATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATATATTTAAAT
Found at i:53297639 original size:12 final size:12
Alignment explanation
Indices: 53297622--53297651 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
53297612 TTAGAAAAAC
53297622 AAATTATTGAAG
1 AAATTATTGAAG
53297634 AAATTATTGAAG
1 AAATTATTGAAG
53297646 AAATTA
1 AAATTA
53297652 GGTAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.13, T:0.33
Consensus pattern (12 bp):
AAATTATTGAAG
Found at i:53297749 original size:21 final size:21
Alignment explanation
Indices: 53297720--53297768 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
53297710 AATATTTATG
53297720 AAATGTTAGTAATGTCGTATTA
1 AAAT-TTAGTAATGTCGTATTA
*
53297742 AAATTTAGTAATGTGGTATTA
1 AAATTTAGTAATGTCGTATTA
53297763 AAATTT
1 AAATTT
53297769 CGTTAGGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.39, C:0.02, G:0.16, T:0.43
Consensus pattern (21 bp):
AAATTTAGTAATGTCGTATTA
Found at i:53300228 original size:23 final size:23
Alignment explanation
Indices: 53300202--53300246 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
53300192 TGGGTATGTG
*
53300202 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
53300225 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
53300247 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:53302960 original size:27 final size:27
Alignment explanation
Indices: 53302912--53303012 Score: 118
Period size: 27 Copynumber: 3.7 Consensus size: 27
53302902 GCGAGGCTGC
* *
53302912 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
53302939 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
53302965 CAGATATATGTGGCAGAGCCACTAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
53302992 CAGATAATTGTGGCATAGCCA
1 CAGAT-ATTGTGGCAGAGCCA
53303013 TCAGGACGCT
Statistics
Matches: 66, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
26 8 0.12
27 55 0.83
28 3 0.05
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:53304665 original size:26 final size:26
Alignment explanation
Indices: 53304634--53304741 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
53304624 TGAAATGCCC
*
53304634 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
53304660 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
53304686 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
53304712 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
53304738 ATCA
1 ATCA
53304742 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:53309225 original size:17 final size:17
Alignment explanation
Indices: 53309199--53309231 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
53309189 TTATTATAAT
*
53309199 TGTGTGTATATATTATG
1 TGTGTATATATATTATG
53309216 TGTGTATATATATTAT
1 TGTGTATATATATTAT
53309232 ATGCATATCA
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:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (17 bp):
TGTGTATATATATTATG
Found at i:53316037 original size:39 final size:39
Alignment explanation
Indices: 53316001--53316403 Score: 178
Period size: 40 Copynumber: 10.2 Consensus size: 39
53315991 ACTTTAAGCT
* *
53316001 CGGATATAGGACCAGTACGAAGCCTGCGGACCTTAAGTC
1 CGGATATAGGACCAGCACGAAGCCTACGGACCTTAAGTC
* * *
53316040 CGAATATAGTACCAGCACGAAGCCTACGGATCTTAAGTC
1 CGGATATAGGACCAGCACGAAGCCTACGGACCTTAAGTC
* *** * * *
53316079 CGGATACAATTCCAGCACGAAGCCTACGGGTCTTTAAGCC
1 CGGATATAGGACCAGCACGAAGCCTAC-GGACCTTAAGTC
* * *** ** * * *
53316119 CAGATACAATTCCAGCACGAAGCCTGTGGGTCTTTAAGCC
1 CGGATATAGGACCAGCACGAAGCCT-ACGGACCTTAAGTC
* ***
53316159 CGGATACAATTCCAGCACGAAGCCTGA-GGACCTTAAGTC
1 CGGATATAGGACCAGCACGAAGCCT-ACGGACCTTAAGTC
* *** * * * * *
53316198 CGGATACAATTCCAGCACAAAGCCTGCGGGTCTTTAAGCC
1 CGGATATAGGACCAGCACGAAGCCTAC-GGACCTTAAGTC
*** ** * * * *
53316238 CGGATATAATTCCAGCATAAAGCCTGCGGGTCTTTAAGCC
1 CGGATATAGGACCAGCACGAAGCCTAC-GGACCTTAAGTC
*** ** * * *
53316278 CGGATATAATTCCAGCATAAAGCCTACTGGTCTTTAAGCC
1 CGGATATAGGACCAGCACGAAGCCTAC-GGACCTTAAGTC
* *** * *
53316318 CGGATACAATTCCAGCACGAAGCTTGCGGACCTTAAGTC
1 CGGATATAGGACCAGCACGAAGCCTACGGACCTTAAGTC
* *** *
53316357 CGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTC
1 CGGATATAGGACCAGCACGAAGCCTACGGACCTTAAGTC
53316396 CGGATATA
1 CGGATATA
53316404 CATCAAATAT
Statistics
Matches: 320, Mismatches: 40, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
39 144 0.45
40 176 0.55
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (39 bp):
CGGATATAGGACCAGCACGAAGCCTACGGACCTTAAGTC
Found at i:53316127 original size:40 final size:40
Alignment explanation
Indices: 53316051--53316385 Score: 442
Period size: 40 Copynumber: 8.4 Consensus size: 40
53316041 GAATATAGTA
* * *
53316051 CCAGCACGAAGCCTACGGATC-TTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
* *
53316090 CCAGCACGAAGCCTACGGGTCTTTAAGCCCAGATACAATT
1 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
*
53316130 CCAGCACGAAGCCTGTGGGTCTTTAAGCCCGGATACAATT
1 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
* * * *
53316170 CCAGCACGAAGCCTG-AGGACCTTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
* *
53316209 CCAGCACAAAGCCTGCGGGTCTTTAAGCCCGGATATAATT
1 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
** *
53316249 CCAGCATAAAGCCTGCGGGTCTTTAAGCCCGGATATAATT
1 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
** * *
53316289 CCAGCATAAAGCCTACTGGTCTTTAAGCCCGGATACAATT
1 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
* * * *
53316329 CCAGCACGAAGCTTGC-GGACCTTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
53316368 CCAGCACGAAGCCTGCGG
1 CCAGCACGAAGCCTGCGG
53316386 ACCTTAAGTC
Statistics
Matches: 265, Mismatches: 28, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
39 89 0.34
40 176 0.66
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.21
Consensus pattern (40 bp):
CCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
Found at i:53316182 original size:119 final size:119
Alignment explanation
Indices: 53316051--53316385 Score: 478
Period size: 119 Copynumber: 2.8 Consensus size: 119
53316041 GAATATAGTA
*
53316051 CCAGCACGAAGCCTACGGATCTTAAGTCCGGATACAATTCCAGCACGAAGCCTACGGGTCTTTAA
1 CCAGCACGAAGCCTACGGATCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAA
* *
53316116 GCCCAGATACAATTCCAGCACGAAGCCTGTGGGTCTTTAAGCCCGGATACAATT
66 GCCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
* *
53316170 CCAGCACGAAGCCTGA-GGACCTTAAGTCCGGATACAATTCCAGCACAAAGCCTGCGGGTCTTTA
1 CCAGCACGAAGCCT-ACGGATCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTA
* ** *
53316234 AGCCCGGATATAATTCCAGCATAAAGCCTGCGGGTCTTTAAGCCCGGATATAATT
65 AGCCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
** * * * *
53316289 CCAGCATAAAGCCTACTGG-TCTTTAAGCCCGGATACAATTCCAGCACGAAGCTTGC-GGACCTT
1 CCAGCACGAAGCCTAC-GGATC-TTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTT
*
53316352 AAGTCCGGATACAATTCCAGCACGAAGCCTGCGG
64 AAGCCCGGATACAATTCCAGCACGAAGCCTGCGG
53316386 ACCTTAAGTC
Statistics
Matches: 191, Mismatches: 21, Indels: 8
0.87 0.10 0.04
Matches are distributed among these distances:
118 1 0.01
119 156 0.82
120 34 0.18
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.21
Consensus pattern (119 bp):
CCAGCACGAAGCCTACGGATCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAA
GCCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
Found at i:53316292 original size:159 final size:158
Alignment explanation
Indices: 53316012--53316403 Score: 561
Period size: 159 Copynumber: 2.5 Consensus size: 158
53316002 GGATATAGGA
* * * * * * *
53316012 CCAGTACGAAGCCTGCGGACCTTAAGTCCGAATATAGTACCAGCACGAAGCCTACGGATCTTAAG
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTAAG
* * *
53316077 TCCGGATACAATTCCAGCACGAAGCCTACGGGTCTTTAAGCCCAGATACAATTCCAGCACGAAGC
66 TCCGGATATAATTCCAGCACAAAGCCTACGGGTCTTTAAGCCCAGATACAATTCCAGCACAAAGC
*
53316142 CT-GTGGGTCTTTAAGCCCGGATACAATT
131 CTACT-GGTCTTTAAGCCCGGATACAATT
* *
53316170 CCAGCACGAAGCCTGAGGACCTTAAGTCCGGATACAATTCCAGCACAAAGCCTGCGGGTCTTTAA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGTC-TTAA
* * * * * *
53316235 GCCCGGATATAATTCCAGCATAAAGCCTGCGGGTCTTTAAGCCCGGATATAATTCCAGCATAAAG
65 GTCCGGATATAATTCCAGCACAAAGCCTACGGGTCTTTAAGCCCAGATACAATTCCAGCACAAAG
53316300 CCTACTGGTCTTTAAGCCCGGATACAATT
130 CCTACTGGTCTTTAAGCCCGGATACAATT
* **
53316329 CCAGCACGAAGCTTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAG
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTAAG
53316394 TCCGGATATA
66 TCCGGATATA
53316404 CATCAAATAT
Statistics
Matches: 207, Mismatches: 25, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
158 65 0.31
159 141 0.68
160 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (158 bp):
CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTTAAG
TCCGGATATAATTCCAGCACAAAGCCTACGGGTCTTTAAGCCCAGATACAATTCCAGCACAAAGC
CTACTGGTCTTTAAGCCCGGATACAATT
Found at i:53326004 original size:3 final size:3
Alignment explanation
Indices: 53325998--53326049 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
53325988 GAGTTTGTTG
53325998 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
53326046 TAT T
1 TAT T
53326050 GTTTATCTAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:53328115 original size:1 final size:1
Alignment explanation
Indices: 53328109--53328133 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
53328099 GACTTGCCAC
53328109 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
53328134 GCGTATTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:53328436 original size:22 final size:22
Alignment explanation
Indices: 53328408--53328451 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
53328398 AGAGTAAATT
*
53328408 TTTTTGCATCAAGTGAATCAAG
1 TTTTTGCATAAAGTGAATCAAG
53328430 TTTTTGCATAAAGTGAATCAAG
1 TTTTTGCATAAAGTGAATCAAG
53328452 AGTATGACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.36
Consensus pattern (22 bp):
TTTTTGCATAAAGTGAATCAAG
Found at i:53334359 original size:16 final size:18
Alignment explanation
Indices: 53334340--53334372 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
53334330 CATATGAATT
53334340 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
53334356 CCAAAACGATAGATAGT
1 CCAAAACGATAGATAGT
53334373 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:53335007 original size:43 final size:43
Alignment explanation
Indices: 53334940--53335046 Score: 180
Period size: 43 Copynumber: 2.5 Consensus size: 43
53334930 TTGAACTCAT
* *
53334940 TCACCGGCATTA-CGCCTGCTAGGCTCGAAGCTCAATATTAAC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCAATATTAAC
53334982 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCAATATTAAC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCAATATTAAC
*
53335025 TCACTGGCATTATAGCCTGCTA
1 TCACCGGCATTATAGCCTGCTA
53335047 ATCAACAAGT
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
42 12 0.20
43 49 0.80
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (43 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGCCCAATATTAAC
Found at i:53341425 original size:16 final size:18
Alignment explanation
Indices: 53341406--53341438 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
53341396 CATACGAATT
53341406 CCAAAAC-ATA-ATAGTA
1 CCAAAACGATAGATAGTA
53341422 CCAAAACGATAGATAGT
1 CCAAAACGATAGATAGT
53341439 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.52, C:0.18, G:0.12, T:0.18
Consensus pattern (18 bp):
CCAAAACGATAGATAGTA
Found at i:53345101 original size:46 final size:46
Alignment explanation
Indices: 53345051--53345226 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
53345041 TGGTTGAGCA
*
53345051 TCCGAACTCGTTGTGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
53345097 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
53345142 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
53345190 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
53345227 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:53345207 original size:93 final size:93
Alignment explanation
Indices: 53345048--53345219 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
53345038 GGATGGTTGA
* * *
53345048 GCATCCGAACTCGTTGTGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53345113 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
53345141 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
53345206 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
53345220 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:53356610 original size:2 final size:2
Alignment explanation
Indices: 53356603--53356636 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
53356593 TCAATCAAAC
53356603 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
53356637 GAATGTTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53356931 original size:13 final size:13
Alignment explanation
Indices: 53356913--53356937 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53356903 TGCTGTTGTT
53356913 TTTTTTATTTTTA
1 TTTTTTATTTTTA
53356926 TTTTTTATTTTT
1 TTTTTTATTTTT
53356938 GAAATTTTCT
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:53357185 original size:15 final size:15
Alignment explanation
Indices: 53357161--53357193 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
53357151 TAATAATAAT
53357161 AATTATAAAAAT-TA
1 AATTATAAAAATATA
53357175 AATTGATAAAAATATA
1 AATT-ATAAAAATATA
53357191 AAT
1 AAT
53357194 ATTAAAGGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 8 0.47
16 5 0.29
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
AATTATAAAAATATA
Found at i:53360451 original size:6 final size:6
Alignment explanation
Indices: 53360442--53360481 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
53360432 ATTCAAATAC
*
53360442 AGATTG AGATTG AGATTG AGATTG AGTTTG AGATTG AGAT
1 AGATTG AGATTG AGATTG AGATTG AGATTG AGATTG AGAT
53360482 CAAATGAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.35
Consensus pattern (6 bp):
AGATTG
Found at i:53363769 original size:13 final size:13
Alignment explanation
Indices: 53363751--53363776 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
53363741 ATAAAGTGTT
53363751 GAAGATCAAGCTG
1 GAAGATCAAGCTG
53363764 GAAGATCAAGCTG
1 GAAGATCAAGCTG
53363777 CTATATTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.31, T:0.15
Consensus pattern (13 bp):
GAAGATCAAGCTG
Found at i:53368507 original size:12 final size:12
Alignment explanation
Indices: 53368490--53368551 Score: 56
Period size: 12 Copynumber: 5.0 Consensus size: 12
53368480 ATATAGTAAT
53368490 ATAAATCATATA
1 ATAAATCATATA
*
53368502 ATAAATAATATA
1 ATAAATCATATA
*
53368514 A-AAATATATATA
1 ATAAAT-CATATA
53368526 ATAAAATCTATATA
1 AT-AAATC-ATATA
53368540 ATATAAT-ATATA
1 ATA-AATCATATA
53368552 TAAGAAAGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
11 4 0.10
12 23 0.55
13 1 0.02
14 14 0.33
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (12 bp):
ATAAATCATATA
Found at i:53368521 original size:8 final size:9
Alignment explanation
Indices: 53368486--53368554 Score: 52
Period size: 9 Copynumber: 7.3 Consensus size: 9
53368476 AAATATATAG
53368486 TAATATAAA
1 TAATATAAA
53368495 TCATATAATAAA
1 T-A-AT-ATAAA
53368507 TAATATAAA
1 TAATATAAA
*
53368516 -AATATATA
1 TAATATAAA
53368524 TAATA-AAA
1 TAATATAAA
*
53368532 TCTATATAATA
1 T-AATATAA-A
*
53368543 TAATATATA
1 TAATATAAA
53368552 TAA
1 TAA
53368555 GAAAGATACA
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
8 10 0.21
9 17 0.35
10 10 0.21
11 5 0.10
12 6 0.12
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (9 bp):
TAATATAAA
Found at i:53368537 original size:14 final size:14
Alignment explanation
Indices: 53368472--53368675 Score: 88
Period size: 14 Copynumber: 14.4 Consensus size: 14
53368462 ATAATTTACA
53368472 AATAAAATATATAGT
1 AATAAAATATATA-T
*
53368487 AATATAAAT-CATAT
1 AATA-AAATATATAT
53368501 AAT-AAATA-ATAT
1 AATAAAATATATAT
53368513 -A-AAAATATATAT
1 AATAAAATATATAT
*
53368525 AATAAAATCTATAT
1 AATAAAATATATAT
*
53368539 AATATAATATATAT
1 AATAAAATATATAT
* *
53368553 AAGAAAGATACAT-T
1 AATAAA-ATATATAT
*
53368567 -ATAAGGAATAATAGAT
1 AATAA--AAT-ATATAT
53368583 AATAAAATATAGTATGT
1 AATAAAATATA-TA--T
** *
53368600 GGTAAAA-ATACAT
1 AATAAAATATATAT
*
53368613 AA-ATAA-A-ATAT
1 AATAAAATATATAT
*
53368624 AATGAAATATGATAT
1 AATAAAATAT-ATAT
* *
53368639 AATAAAAATATAAAA
1 AAT-AAAATATATAT
53368654 AATAATAATAATAATAT
1 AATAA-AAT-AT-ATAT
53368671 AATAA
1 AATAA
53368676 GTACTTTTTT
Statistics
Matches: 141, Mismatches: 25, Indels: 44
0.67 0.12 0.21
Matches are distributed among these distances:
11 11 0.08
12 18 0.13
13 6 0.04
14 38 0.27
15 35 0.25
16 16 0.11
17 17 0.12
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (14 bp):
AATAAAATATATAT
Found at i:53377999 original size:40 final size:39
Alignment explanation
Indices: 53377954--53378083 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
53377944 CGGAATACAA
53377954 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
53377994 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
53378034 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
53378074 CCGGATATAA
1 CCGGATATAA
53378084 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:53382225 original size:15 final size:16
Alignment explanation
Indices: 53382184--53382226 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
53382174 AAAAACATTA
*
53382184 TATAATAACAAATCAAC
1 TATAA-AACAAAACAAC
53382201 TATAAAACAAAACAA-
1 TATAAAACAAAACAAC
*
53382216 TATAACACAAA
1 TATAAAACAAA
53382227 TATATCATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 9 0.38
17 5 0.21
ACGTcount: A:0.65, C:0.16, G:0.00, T:0.19
Consensus pattern (16 bp):
TATAAAACAAAACAAC
Found at i:53385725 original size:9 final size:9
Alignment explanation
Indices: 53385711--53385764 Score: 56
Period size: 9 Copynumber: 5.8 Consensus size: 9
53385701 ACAAATGTTT
53385711 TTTTTTTAA
1 TTTTTTTAA
53385720 TTTTTTTAA
1 TTTTTTTAA
*
53385729 TTTTTTTTTAC
1 --TTTTTTTAA
53385740 TTTTCTTT-A
1 TTTT-TTTAA
*
53385749 TTTTTTCAA
1 TTTTTTTAA
53385758 TTTTTTT
1 TTTTTTT
53385765 GTGGGAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 2 0.05
9 24 0.65
10 3 0.08
11 8 0.22
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:53385725 original size:10 final size:10
Alignment explanation
Indices: 53385710--53385764 Score: 53
Period size: 10 Copynumber: 5.7 Consensus size: 10
53385700 CACAAATGTT
53385710 TTTTTTTTAA
1 TTTTTTTTAA
53385720 -TTTTTTTAA
1 TTTTTTTTAA
*
53385729 TTTTTTTTTAC
1 -TTTTTTTTAA
*
53385740 TTTTCTTT-A
1 TTTTTTTTAA
*
53385749 -TTTTTTCAA
1 TTTTTTTTAA
53385758 TTTTTTT
1 TTTTTTT
53385765 GTGGGAAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
8 5 0.14
9 10 0.28
10 13 0.36
11 8 0.22
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTTTTTAA
Found at i:53385734 original size:21 final size:21
Alignment explanation
Indices: 53385708--53385754 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
53385698 CCCACAAATG
53385708 TTTTTTTTTTAATTTT-TTTA
1 TTTTTTTTTTAATTTTCTTTA
* *
53385728 ATTTTTTTTTACTTTTCTTTA
1 TTTTTTTTTTAATTTTCTTTA
53385749 TTTTTT
1 TTTTTT
53385755 CAATTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.13, C:0.04, G:0.00, T:0.83
Consensus pattern (21 bp):
TTTTTTTTTTAATTTTCTTTA
Found at i:53385755 original size:11 final size:10
Alignment explanation
Indices: 53385709--53385754 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
53385699 CCACAAATGT
53385709 TTTTTTTTTA
1 TTTTTTTTTA
* *
53385719 ATTTTTTTAA
1 TTTTTTTTTA
53385729 TTTTTTTTTA
1 TTTTTTTTTA
* *
53385739 CTTTTCTTTA
1 TTTTTTTTTA
53385749 TTTTTT
1 TTTTTT
53385755 CAATTTTTTT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.13, C:0.04, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:53394534 original size:20 final size:20
Alignment explanation
Indices: 53394506--53394544 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
53394496 TGTGAAACTT
*
53394506 ATTGGTGAATATTTTATATA
1 ATTGATGAATATTTTATATA
53394526 ATTGATGAATATTTTATAT
1 ATTGATGAATATTTTATAT
53394545 TGCAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (20 bp):
ATTGATGAATATTTTATATA
Found at i:53398158 original size:19 final size:19
Alignment explanation
Indices: 53398134--53398170 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
53398124 ATTTGTAAGA
53398134 TTAAGGACAGAAAACTTAT
1 TTAAGGACAGAAAACTTAT
53398153 TTAAGGACAGAAAACTTA
1 TTAAGGACAGAAAACTTA
53398171 CCTTATTACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.11, G:0.16, T:0.24
Consensus pattern (19 bp):
TTAAGGACAGAAAACTTAT
Found at i:53398958 original size:50 final size:50
Alignment explanation
Indices: 53398883--53398982 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
53398873 CCACATCCAC
53398883 CAAGAAGAAAGCTAAAGAAGTTCTATGTTCTCCATAGCACCAATTGAAAA
1 CAAGAAGAAAGCTAAAGAAGTTCTATGTTCTCCATAGCACCAATTGAAAA
53398933 CAAGAAGAAAGCTAAAGAAGTTCTATGTTCTCCATAGCACCAATTGAAAA
1 CAAGAAGAAAGCTAAAGAAGTTCTATGTTCTCCATAGCACCAATTGAAAA
53398983 GGATGGGTTG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.22
Consensus pattern (50 bp):
CAAGAAGAAAGCTAAAGAAGTTCTATGTTCTCCATAGCACCAATTGAAAA
Found at i:53400068 original size:15 final size:15
Alignment explanation
Indices: 53400045--53400085 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
53400035 CTTTTGTTCA
53400045 AATCTTGTTGTAGAT
1 AATCTTGTTGTAGAT
* *
53400060 AATCGTGTTGTGGAT
1 AATCTTGTTGTAGAT
53400075 AATCTTGTTGT
1 AATCTTGTTGT
53400086 TTATTGTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.22, C:0.07, G:0.24, T:0.46
Consensus pattern (15 bp):
AATCTTGTTGTAGAT
Found at i:53401904 original size:22 final size:22
Alignment explanation
Indices: 53401878--53401922 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
53401868 ATGCATTTTG
53401878 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
53401900 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
53401922 T
1 T
53401923 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:53406473 original size:22 final size:22
Alignment explanation
Indices: 53406445--53406489 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
53406435 AGGGGGAGTG
53406445 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
53406467 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
53406489 T
1 T
53406490 TTTTATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:53417277 original size:38 final size:38
Alignment explanation
Indices: 53417226--53417304 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
53417216 TTCACCTCCG
*
53417226 TATAGGATAGTGGATCGCTTCCTGGATACATCTATACC
1 TATAGGATAGTGGATCGCTTCCGGGATACATCTATACC
53417264 TATAGGATAGTGGATCGCTTCCGGGATACATCTATACC
1 TATAGGATAGTGGATCGCTTCCGGGATACATCTATACC
53417302 TAT
1 TAT
53417305 GTCTTTGTGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (38 bp):
TATAGGATAGTGGATCGCTTCCGGGATACATCTATACC
Found at i:53419848 original size:19 final size:18
Alignment explanation
Indices: 53419824--53419867 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
53419814 GCCTTTTTTC
*
53419824 TGCATTCATCCCATGCATT
1 TGCATTCATCCCAT-CATA
*
53419843 TGCATTTCATCGCATCATA
1 TGCA-TTCATCCCATCATA
53419862 TGCATT
1 TGCATT
53419868 AAGTCTCACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 11 0.50
20 9 0.41
ACGTcount: A:0.23, C:0.27, G:0.11, T:0.39
Consensus pattern (18 bp):
TGCATTCATCCCATCATA
Found at i:53428430 original size:87 final size:86
Alignment explanation
Indices: 53428183--53428431 Score: 246
Period size: 87 Copynumber: 2.9 Consensus size: 86
53428173 CATGACGAGC
* * * * * *
53428183 CTTATCTCCTTAAAGTTGCAGTGGAGCAGGTCAAAAGTTACAAATCTCAACTCCCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAAGTTACAAATCTTATCTCCCTGAAGTTGCA
** * * *
53428248 GTAGAGCAGATTGAAGTTAGAT
65 GTAGAGCAGATACAAATTAAAA
** * ** * * * * *
53428270 CTTATCTCCCTGAAGTTGCAGTGGAATAGATCAGGGATAGAAAACCTTATCTCTCTGATGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTA-CAAATCTTATCTCCCTGAAGTTGCA
*
53428335 GTAAAGCAGATACAAATTACAAA
65 GTAGAGCAGATACAAATTA-AAA
* *
53428358 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATCTCCCTGAAGTTGCAG
*
53428423 TGGAGCAGA
66 TAGAGCAGA
53428432 CTGAAGATAG
Statistics
Matches: 125, Mismatches: 35, Indels: 4
0.76 0.21 0.02
Matches are distributed among these distances:
86 4 0.03
87 88 0.70
88 33 0.26
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (86 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATCTCCCTGAAGTTGCAG
TAGAGCAGATACAAATTAAAA
Found at i:53428451 original size:132 final size:130
Alignment explanation
Indices: 53428182--53428477 Score: 330
Period size: 132 Copynumber: 2.2 Consensus size: 130
53428172 ACATGACGAG
* * * * * * *
53428182 CCTTATCTCCTTAAAGTTGCAGTGGAGCAGGT-CAAAAGTTACAAATCTCAACTCCCTGAAGTTG
1 CCTTATCTACTTGAAGTTGCAGTAGAACAGATAC-AAA-TTACAAA-CTTATCTCCCTGAAGTTG
* * *
53428246 CAGTAGAGCAGATTGAAGTTAGATCTTATCTCCCTGAAGTTGCAGTGGAATAGATCAGGGATAGA
63 CAGTAGAGCAGATTGAAGTTAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCAGAGATAGA
53428311 AAA
128 AAA
*
53428314 CCTTATCT-CTCTGATGTTGCAGTA-AAGCAGATACAAATTACAAACTTATCTCCCTGAAGTTGC
1 CCTTATCTACT-TGAAGTTGCAGTAGAA-CAGATACAAATTACAAACTTATCTCCCTGAAGTTGC
* * *
53428377 AGTGGAGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTGAAGATA
64 AGTAGAGCAGATTGAAGTTA-AA-TCTTATCTCCCTGAAGTTGCAGTGGAACAGATCAG-AGATA
**
53428441 GCGAA
126 GAAAA
* *
53428446 TCTTATTTACTTGAAGTTGCAGTAGAACAGAT
1 CCTTATCTACTTGAAGTTGCAGTAGAACAGAT
53428478 TAAAGCTATA
Statistics
Matches: 138, Mismatches: 18, Indels: 16
0.80 0.10 0.09
Matches are distributed among these distances:
130 36 0.26
131 13 0.09
132 84 0.61
133 5 0.04
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (130 bp):
CCTTATCTACTTGAAGTTGCAGTAGAACAGATACAAATTACAAACTTATCTCCCTGAAGTTGCAG
TAGAGCAGATTGAAGTTAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCAGAGATAGAAAA
Found at i:53428465 original size:45 final size:44
Alignment explanation
Indices: 53428358--53428468 Score: 143
Period size: 44 Copynumber: 2.5 Consensus size: 44
53428348 AAATTACAAA
* * *
53428358 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAGT
1 CTTATCTACCTGAAGTTGCAGTGGAGCAGACTGAAGATACAAGT
*
53428402 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAA-T
1 CTTATCTACCTGAAGTTGCAGTGGAGCAGACTGAAGATA-C-AAGT
* *
53428447 CTTATTTACTTGAAGTTGCAGT
1 CTTATCTACCTGAAGTTGCAGT
53428469 AGAACAGATT
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
44 37 0.62
45 21 0.35
46 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (44 bp):
CTTATCTACCTGAAGTTGCAGTGGAGCAGACTGAAGATACAAGT
Found at i:53429441 original size:3 final size:3
Alignment explanation
Indices: 53429429--53429472 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
53429419 GTGGTTTTTA
53429429 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
53429473 CCCTATATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:53440798 original size:39 final size:40
Alignment explanation
Indices: 53440701--53440801 Score: 141
Period size: 40 Copynumber: 2.5 Consensus size: 40
53440691 GAACACACTG
* * *
53440701 AACAAAAACTCATAAGAGTTTATCCAACCGAAATACGCCA
1 AACAAAAGCTCATAAGAGCTGATCCAACCGAAATACGCCA
* *
53440741 AACAAAAGCTCATAAGAGCTGGTCCACCCGAAATACGCC-
1 AACAAAAGCTCATAAGAGCTGATCCAACCGAAATACGCCA
*
53440780 AACAGAAGCTCATAAGAGCTGA
1 AACAAAAGCTCATAAGAGCTGA
53440802 ATAGAAGCTC
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 20 0.37
40 34 0.63
ACGTcount: A:0.44, C:0.26, G:0.16, T:0.15
Consensus pattern (40 bp):
AACAAAAGCTCATAAGAGCTGATCCAACCGAAATACGCCA
Found at i:53441046 original size:2 final size:2
Alignment explanation
Indices: 53441039--53441073 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
53441029 ACAATGGAAC
53441039 AT AT AT AT 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 AT AT AT AT A
53441074 AAATATCATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:53444031 original size:57 final size:57
Alignment explanation
Indices: 53443938--53444070 Score: 223
Period size: 57 Copynumber: 2.3 Consensus size: 57
53443928 TCAATAGTTG
*
53443938 AAAGATGTTATGGCATCAAGTGATGATTTGAAAGTAGAATGAGTAAGTCTATAGCTA
1 AAAGATGTTATGGCATCAAGTGATGATTTGAAAGTAGAATGAGTAAGTCCATAGCTA
*
53443995 AAAGATGTTATGGCATCAAGTGATGATTTGACAGTAGAATGAGTAAGTCCATAGCTA
1 AAAGATGTTATGGCATCAAGTGATGATTTGAAAGTAGAATGAGTAAGTCCATAGCTA
*
53444052 AAAGA-GACTATGGCATCAA
1 AAAGATG-TTATGGCATCAA
53444071 AGATTGTCCG
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
56 1 0.01
57 71 0.99
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.27
Consensus pattern (57 bp):
AAAGATGTTATGGCATCAAGTGATGATTTGAAAGTAGAATGAGTAAGTCCATAGCTA
Found at i:53448568 original size:16 final size:16
Alignment explanation
Indices: 53448547--53448611 Score: 68
Period size: 16 Copynumber: 4.2 Consensus size: 16
53448537 AGATACTTAA
53448547 AATAATAATAAATAAT
1 AATAATAATAAATAAT
53448563 AATAATAAT-AATAAT
1 AATAATAATAAATAAT
53448578 -A-AATAAATAAATAAAT
1 AATAAT-AATAAAT-AAT
53448594 CAA-AAT-ATAAATAAT
1 -AATAATAATAAATAAT
53448609 AAT
1 AAT
53448612 TTTGTCTATA
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 3 0.07
14 6 0.14
15 12 0.28
16 18 0.42
18 4 0.09
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (16 bp):
AATAATAATAAATAAT
Found at i:53448611 original size:3 final size:3
Alignment explanation
Indices: 53448547--53448579 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
53448537 AGATACTTAA
53448547 AAT AAT AAT AAAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AA
53448580 ATAAATAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:53455481 original size:5 final size:5
Alignment explanation
Indices: 53455471--53455497 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
53455461 GGAAAACATT
53455471 TAAAA TAAAA TAAAA TAAAA TAAAA TA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TA
53455498 TTACAACAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:53456361 original size:21 final size:23
Alignment explanation
Indices: 53456337--53456385 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
53456327 AACCAAATTC
53456337 TTAA-TAATTAAAAA-TATTGCA
1 TTAATTAATTAAAAATTATTGCA
**
53456358 TTAATTTCTTTAAAAATTATTGCA
1 TTAA-TTAATTAAAAATTATTGCA
53456382 TTAA
1 TTAA
53456386 AATGGACTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 4 0.17
23 8 0.35
24 11 0.48
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (23 bp):
TTAATTAATTAAAAATTATTGCA
Found at i:53459124 original size:3 final size:3
Alignment explanation
Indices: 53459118--53459151 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
53459108 CCTATTATTT
53459118 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
53459152 GTTCTCTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:53460448 original size:18 final size:19
Alignment explanation
Indices: 53460425--53460460 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
53460415 GATATGATAC
*
53460425 TAAAAT-TATTTAAAAAAT
1 TAAAATATATATAAAAAAT
53460443 TAAAATATATATAAAAAA
1 TAAAATATATATAAAAAA
53460461 AATTAGGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAATATATATAAAAAAT
Found at i:53460751 original size:22 final size:21
Alignment explanation
Indices: 53460716--53460791 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
53460706 AAAAGGTATC
* *
53460716 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
53460737 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
53460760 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
53460779 TGC-AATCATATCT
1 TACAAATCATATCT
53460792 AAGATTGCAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:53460788 original size:18 final size:19
Alignment explanation
Indices: 53460752--53460824 Score: 123
Period size: 18 Copynumber: 3.9 Consensus size: 19
53460742 AATCATATCT
53460752 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
53460771 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
53460789 TCTAAGATTGCATAT-ATA
1 TCTAAGATTGCATATCATA
*
53460807 TCTAAGATTGCATGTCAT
1 TCTAAGATTGCATATCAT
53460825 TAAAGATTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 35 0.69
19 16 0.31
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:53460982 original size:21 final size:20
Alignment explanation
Indices: 53460945--53460983 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
53460935 TTGGACTTCG
**
53460945 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
53460965 TTTTGTTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
53460984 TCTGGGCCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Found at i:53461291 original size:44 final size:45
Alignment explanation
Indices: 53461186--53461356 Score: 229
Period size: 45 Copynumber: 3.8 Consensus size: 45
53461176 GCTATTTTTG
*
53461186 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCG
1 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCA
*
53461231 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCT-TCT-TCTTCA
1 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT-TATCTTCA
* * * *
53461275 ATCTGCTCCCCATCTAATACAGAAATGCCAAATCTGTTATCTCCA
1 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCA
* * * *
53461320 ATTTGCTCCACGTCTAATATAGAGACACCAAATCTGT
1 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGT
53461357 CATTTTGGAT
Statistics
Matches: 111, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
44 40 0.36
45 71 0.64
ACGTcount: A:0.28, C:0.30, G:0.12, T:0.30
Consensus pattern (45 bp):
ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCA
Found at i:53461337 original size:89 final size:89
Alignment explanation
Indices: 53461186--53461354 Score: 248
Period size: 89 Copynumber: 1.9 Consensus size: 89
53461176 GCTATTTTTG
* * * * *
53461186 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATAC
1 ATCTGCTCCCCATCTAATACAGAAACGCCAAATCTGTTATCTCCAATCTGCTCCACGTCTAATAC
**
53461251 AGAGATGCCAAATCTTCTTCTTCA
66 AGAGACACCAAATCTTCTTCTTCA
* * *
53461275 ATCTGCTCCCCATCTAATACAGAAATGCCAAATCTGTTATCTCCAATTTGCTCCACGTCTAATAT
1 ATCTGCTCCCCATCTAATACAGAAACGCCAAATCTGTTATCTCCAATCTGCTCCACGTCTAATAC
53461340 AGAGACACCAAATCT
66 AGAGACACCAAATCT
53461355 GTCATTTTGG
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
89 70 1.00
ACGTcount: A:0.28, C:0.30, G:0.12, T:0.30
Consensus pattern (89 bp):
ATCTGCTCCCCATCTAATACAGAAACGCCAAATCTGTTATCTCCAATCTGCTCCACGTCTAATAC
AGAGACACCAAATCTTCTTCTTCA
Found at i:53461517 original size:78 final size:77
Alignment explanation
Indices: 53461388--53461671 Score: 368
Period size: 78 Copynumber: 3.7 Consensus size: 77
53461378 TAAACACATG
* * * *
53461388 AAGGTCAGATCTGCTATGTCTTCGGTCTACTCCTCGTCTAATACAGAGATGCCAAATCATCTTGA
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
53461453 ATCTGCTTCAAT
66 ATCTGCTTCAAT
* *
53461465 AAAGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATTTT
1 -AAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTT
53461529 GGATCTGCTTC---
64 GGATCTGCTTCAAT
* *
53461540 AA--TCAGATCTGCTGTGTCTTCGATCTGCT-CCCATCTAATACAGAGATGCCAAATCATCTTGG
1 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
53461602 ATCTGCTTCAAT
66 ATCTGCTTCAAT
* * * *
53461614 GAAGGTCAGATCTGCTATGTCTTCGATATGCTCTCCGTCGAATA-TGAAGATGCCAAAT
1 -AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAG-AGATGCCAAAT
53461672 TTATTTTTTC
Statistics
Matches: 180, Mismatches: 16, Indels: 20
0.83 0.07 0.09
Matches are distributed among these distances:
71 42 0.23
72 22 0.12
74 2 0.01
75 2 0.01
77 26 0.14
78 84 0.47
79 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (77 bp):
AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGG
ATCTGCTTCAAT
Found at i:53470642 original size:17 final size:18
Alignment explanation
Indices: 53470577--53470640 Score: 103
Period size: 17 Copynumber: 3.6 Consensus size: 18
53470567 AATCGTATCT
53470577 TCTAAGATTGCATATCATA
1 TCTAAGATTGC-TATCATA
*
53470596 TCTAAGATTGCAATCATA
1 TCTAAGATTGCTATCATA
53470614 TCTAAGATTG-TATCATA
1 TCTAAGATTGCTATCATA
53470631 TCTAAGATTG
1 TCTAAGATTG
53470641 TAATTCTGGG
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
17 16 0.37
18 16 0.37
19 11 0.26
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (18 bp):
TCTAAGATTGCTATCATA
Found at i:53476143 original size:41 final size:41
Alignment explanation
Indices: 53476086--53476168 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
53476076 ATACCATTTC
53476086 ATATAACATCATGTGATTATTTAAATAATAATAATTTTATA
1 ATATAACATCATGTGATTATTTAAATAATAATAATTTTATA
53476127 ATATAACATCATGTGATTATTTAAATAATAATAATTTTATA
1 ATATAACATCATGTGATTATTTAAATAATAATAATTTTATA
53476168 A
1 A
53476169 AATACATGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (41 bp):
ATATAACATCATGTGATTATTTAAATAATAATAATTTTATA
Found at i:53476916 original size:29 final size:29
Alignment explanation
Indices: 53476883--53476942 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
53476873 CGACATGTGA
53476883 GTTTAGATATTAGTAAGTAAAAGTTAAGT
1 GTTTAGATATTAGTAAGTAAAAGTTAAGT
53476912 GTTTAGATATTAGTAAGTAAAAGTTAAGT
1 GTTTAGATATTAGTAAGTAAAAGTTAAGT
53476941 GT
1 GT
53476943 GGTTTTAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.40, C:0.00, G:0.22, T:0.38
Consensus pattern (29 bp):
GTTTAGATATTAGTAAGTAAAAGTTAAGT
Found at i:53478267 original size:52 final size:53
Alignment explanation
Indices: 53478177--53478313 Score: 149
Period size: 52 Copynumber: 2.6 Consensus size: 53
53478167 TGTGCTTACA
* *
53478177 TATAAGACCATAG-CTAGGCTATGGCATCGGTACAATGTGAT-TCG-AGTTCCCG
1 TATAAGACCATAGTCTGGGCTATGGCATCGGTACAATGTGATAT-GTAATT-CCG
*** *
53478229 TATAAGACCATAGTC-GGGCTATGGCATCGGTGTGATGTGATAATGTAATTCCT
1 TATAAGACCATAGTCTGGGCTATGGCATCGGTACAATGTGAT-ATGTAATTCCG
*
53478282 TATAAGACCATA-TCTGGGATATGGCATCGGTA
1 TATAAGACCATAGTCTGGGCTATGGCATCGGTA
53478314 TGTTATGTGA
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
52 37 0.51
53 31 0.43
54 4 0.06
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (53 bp):
TATAAGACCATAGTCTGGGCTATGGCATCGGTACAATGTGATATGTAATTCCG
Found at i:53479480 original size:51 final size:52
Alignment explanation
Indices: 53479333--53479482 Score: 140
Period size: 51 Copynumber: 2.9 Consensus size: 52
53479323 ATAACATACT
* * * * * * * ***
53479333 GATGCCATATCCCAGATTTGGTCTTATACGGAATCACATTATCACGTCACACC
1 GATGCCATAGCCCAGCTATGGTCTTATACGAAAACACA-AATCACATTGTACC
** *
53479386 GATGCCATAGCCCAGCTATGGTCTTATACGGGAACTCAAATCACATTGTACC
1 GATGCCATAGCCCAGCTATGGTCTTATACGAAAACACAAATCACATTGTACC
* * *
53479438 GATGCTAT-GCCCAGCTATGGTCTTATATGAAAACACATATCACAT
1 GATGCCATAGCCCAGCTATGGTCTTATACGAAAACACAAATCACAT
53479483 CTTTTCCGTC
Statistics
Matches: 80, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
51 32 0.40
52 16 0.20
53 32 0.40
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (52 bp):
GATGCCATAGCCCAGCTATGGTCTTATACGAAAACACAAATCACATTGTACC
Found at i:53485914 original size:20 final size:20
Alignment explanation
Indices: 53485889--53485940 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
53485879 GGGCACACGT
*
53485889 CCGTGTGGCCTGGGGCATGC
1 CCGTGTGGCCTGGGACATGC
53485909 CCGTGTGGCCTGGGACATGC
1 CCGTGTGGCCTGGGACATGC
* *
53485929 TCATGTGGCCTG
1 CCGTGTGGCCTG
53485941 CCTATGGGCG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.08, C:0.29, G:0.40, T:0.23
Consensus pattern (20 bp):
CCGTGTGGCCTGGGACATGC
Found at i:53486796 original size:53 final size:53
Alignment explanation
Indices: 53486733--53486886 Score: 174
Period size: 52 Copynumber: 2.9 Consensus size: 53
53486723 CACATAACAT
* * *
53486733 ACCGATGCCATATCCTAGATATGGTCTTATACGGAATTACATTATCACATTAC
1 ACCGATGCCATAGCCTAGCTATGGTCTTATACGGAACTACATTATCACATTAC
* **
53486786 ACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAACT-CGA--ATCACATTGT
1 ACCGATGCCATAGCCTAGCTATGGTCTTATAC-GGAACTAC-ATTATCACATTAC
* *
53486838 ACCAATGCCATAGCCTAGCTATGGTCTTATAAGGAAGC-ACATT-TCACAT
1 ACCGATGCCATAGCCTAGCTATGGTCTTATACGGAA-CTACATTATCACAT
53486887 CTTTTCTGTC
Statistics
Matches: 86, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
51 5 0.06
52 45 0.52
53 30 0.35
54 6 0.07
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (53 bp):
ACCGATGCCATAGCCTAGCTATGGTCTTATACGGAACTACATTATCACATTAC
Found at i:53489875 original size:12 final size:12
Alignment explanation
Indices: 53489858--53489882 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
53489848 ATGTAAGTGA
53489858 TCTTGATGATTT
1 TCTTGATGATTT
53489870 TCTTGATGATTT
1 TCTTGATGATTT
53489882 T
1 T
53489883 TACATTTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:53490236 original size:30 final size:30
Alignment explanation
Indices: 53490202--53490259 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
53490192 TTTTTGGGTC
*
53490202 TAGGGGCAAAATGGTCATTTTGCCAAGGTA
1 TAGGGGCAAAATGGTCATTTTCCCAAGGTA
53490232 TAGGGGCAAAATGGTCATTTTCCCAAGG
1 TAGGGGCAAAATGGTCATTTTCCCAAGG
53490260 CTATGAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTCCCAAGGTA
Found at i:53490742 original size:46 final size:46
Alignment explanation
Indices: 53490641--53490860 Score: 209
Period size: 47 Copynumber: 4.7 Consensus size: 46
53490631 TATGGAAGCT
* * *
53490641 AGTGTAAGACCATGTTTGGGACATGGCATCGGCACT-GAGACGAGT-GCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G-ACTCGAGA-TA-TAGCC
* * *
53490689 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCAATATATAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTCGAGATAT-AGCC
* * *
53490735 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACT-CGAGAT-ATAGCC
* *
53490781 AGTGTAAGACCATGTCTGGGGCATGGCATCGACTTGAGATATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGATAT-AGCC
*
53490828 AGTGTAAGATCATGTCTGGGACATGGCATCGAC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC
53490861 ACCTTACCCA
Statistics
Matches: 145, Mismatches: 19, Indels: 17
0.80 0.10 0.09
Matches are distributed among these distances:
44 1 0.01
45 6 0.04
46 55 0.38
47 66 0.46
48 17 0.12
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGATATAGCC
Found at i:53490831 original size:47 final size:46
Alignment explanation
Indices: 53490599--53490860 Score: 207
Period size: 47 Copynumber: 5.6 Consensus size: 46
53490589 TGTGCTAGTA
* * * *
53490599 TAAGACATGTCAGGGACAT-GCATCGGC-C-ACATTATGGAAGCTAGTG
1 TAAGACATGTCTGGGACATGGCATCGACTCGAGA-TAT-G-AGCCAGTG
* * * *
53490645 TAAGACCATGTTTGGGACATGGCATCGGCACT-GAGACGA-GTGCTAGTG
1 TAAGA-CATGTCTGGGACATGGCATC-G-ACTCGAGA-TATGAGCCAGTG
* * * *
53490693 TAAGACATGTCTGGGACAT-GCATCAGCCTCAATATATAAGCCAGTG
1 TAAGACATGTCTGGGACATGGCATC-GACTCGAGATATGAGCCAGTG
* * *
53490739 TAAGACATGTTTGGGACAT-GCATCGGCTACGAGATGAT-AGTCAGTG
1 TAAGACATGTCTGGGACATGGCATCGACT-CGAGAT-ATGAGCCAGTG
* *
53490785 TAAGACCATGTCTGGGGCATGGCATCGACTTGAGATATGAGCCAGTG
1 TAAGA-CATGTCTGGGACATGGCATCGACTCGAGATATGAGCCAGTG
53490832 TAAGATCATGTCTGGGACATGGCATCGAC
1 TAAGA-CATGTCTGGGACATGGCATCGAC
53490861 ACCTTACCCA
Statistics
Matches: 175, Mismatches: 28, Indels: 25
0.77 0.12 0.11
Matches are distributed among these distances:
45 6 0.03
46 60 0.34
47 78 0.45
48 25 0.14
49 2 0.01
50 1 0.01
51 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
TAAGACATGTCTGGGACATGGCATCGACTCGAGATATGAGCCAGTG
Found at i:53490851 original size:140 final size:141
Alignment explanation
Indices: 53490599--53490857 Score: 334
Period size: 140 Copynumber: 1.8 Consensus size: 141
53490589 TGTGCTAGTA
* *
53490599 TAAGACATGTCAGGGACATGCATCGGCCACATTATGGAAGCTAGTGTAAGACCATGTTTGGGACA
1 TAAGACATGTCAGGGACATGCATCGGCCACATGATGGAAGCTAGTGTAAGACCATGTCTGGGACA
* *
53490664 TGGCATCGGCACTGAGACGAGTGCTAGTGTAAGACATGTCTGGGACAT-GCATCAGCCTCAATAT
66 TGGCATCGGCACTGAGACGAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCAGCCTCAATAT
53490728 ATAAGCCAGTG
131 ATAAGCCAGTG
** *
53490739 TAAGACATGTTTGGGACATGCATCGGCTACGA-GAT-GATAG-TCAGTGTAAGACCATGTCTGGG
1 TAAGACATGTCAGGGACATGCATCGGCCAC-ATGATGGA-AGCT-AGTGTAAGACCATGTCTGGG
* *
53490801 GCATGGCATC-G-ACTTGAGA-TATGAGCCAGTGTAAGATCATGTCTGGGACATGGCATC
63 ACATGGCATCGGCAC-TGAGACGA-GAGCCAGTGTAAGA-CATGTCTGGGACATGGCATC
53490858 GACACCTTAC
Statistics
Matches: 103, Mismatches: 9, Indels: 13
0.82 0.07 0.10
Matches are distributed among these distances:
138 3 0.03
139 21 0.20
140 73 0.71
141 6 0.06
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (141 bp):
TAAGACATGTCAGGGACATGCATCGGCCACATGATGGAAGCTAGTGTAAGACCATGTCTGGGACA
TGGCATCGGCACTGAGACGAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCAGCCTCAATAT
ATAAGCCAGTG
Found at i:53496505 original size:19 final size:19
Alignment explanation
Indices: 53496476--53496526 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
53496466 CCTTTTACTA
*
53496476 AAAAAACTAAAATTAACTTT
1 AAAAAACTAAAA-AAACTTT
*
53496496 AAAAAA-TAAAAAAAGTTT
1 AAAAAACTAAAAAAACTTT
*
53496514 AAAAAATTAAAAA
1 AAAAAACTAAAAA
53496527 GATAAATGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 11 0.39
19 11 0.39
20 6 0.21
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.24
Consensus pattern (19 bp):
AAAAAACTAAAAAAACTTT
Found at i:53496561 original size:119 final size:122
Alignment explanation
Indices: 53496397--53496627 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 122
53496387 TTTTAGAAGG
* * * * **
53496397 AAATTAAAATGATAAAATAGTTTTTCCTATAAAAACCCAAGTAATTTTCTATAAAACCTTGATTT
1 AAATTAAAAAGATAAAATAGTTCTTCCTATAAAAACCCAAGTAATTCTCTATAAAACC-TCATGC
53496462 TTTTC-CTTTTACTA-AAAAAACTAAAATTAACTTTAAAAA-ATAAAAAAAGTTTAAA
65 TTTTCACTTTTACTAGAAAAAACTAAAATTAACTTTAAAAAGATAAAAAAAGTTTAAA
* * * *
53496517 AAATTAAAAAGAT-AAATGGTTCTTCCTATAAAAA-CCTAGTTAATTCTCTATAAAATCTCCTGC
1 AAATTAAAAAGATAAAATAGTTCTTCCTATAAAAACCCAAG-TAATTCTCTATAAAACCTCATGC
* * *
53496580 TTTTCACTTTTATTAGAAAATACTAAAATTAATTTTAAAAAGATAAAA
65 TTTTCACTTTTACTAGAAAAAACTAAAATTAACTTTAAAAAGATAAAA
53496628 TAAAATAAAT
Statistics
Matches: 94, Mismatches: 13, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
118 11 0.12
119 42 0.45
120 35 0.37
121 6 0.06
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.36
Consensus pattern (122 bp):
AAATTAAAAAGATAAAATAGTTCTTCCTATAAAAACCCAAGTAATTCTCTATAAAACCTCATGCT
TTTCACTTTTACTAGAAAAAACTAAAATTAACTTTAAAAAGATAAAAAAAGTTTAAA
Found at i:53496755 original size:25 final size:26
Alignment explanation
Indices: 53496716--53496773 Score: 86
Period size: 25 Copynumber: 2.3 Consensus size: 26
53496706 TCACTTGAAG
53496716 AAAACT-AAATTAATTATAAAAAC-T
1 AAAACTAAAATTAATTATAAAAACAT
*
53496740 AAAACTAAAATTAATTTTAAAAACAT
1 AAAACTAAAATTAATTATAAAAACAT
53496766 AAAA-TAAA
1 AAAACTAAA
53496774 TGATTAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
24 6 0.19
25 20 0.65
26 5 0.16
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (26 bp):
AAAACTAAAATTAATTATAAAAACAT
Done.