Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
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: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 188 of 214
Found at i:55173450 original size:34 final size:35
Alignment explanation
Indices: 55173384--55173450 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
55173374 CAAACACCAG
55173384 AAAATATTTTCCAGTAAACCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAACCATTTTACAGAAAAGT
* *
55173419 AAAATATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAACCATTTTACAGAAAA
55173451 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 16 0.53
35 14 0.47
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAACCATTTTACAGAAAAGT
Found at i:55180321 original size:23 final size:23
Alignment explanation
Indices: 55180295--55180392 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
55180285 ATAAGTGCCA
55180295 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
55180318 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
55180341 CACTGA-ATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
55180363 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
55180386 CACTGAT
1 CACTGAT
55180393 CAATAACACT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
22 21 0.30
23 50 0.70
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:55180360 original size:45 final size:46
Alignment explanation
Indices: 55180295--55180392 Score: 171
Period size: 45 Copynumber: 2.2 Consensus size: 46
55180285 ATAAGTGCCA
* *
55180295 CACTGATATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTAC
55180341 CACTGA-ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTAC
55180386 CACTGAT
1 CACTGAT
55180393 CAATAACACT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
45 43 0.88
46 6 0.12
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (46 bp):
CACTGATATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTAC
Found at i:55181594 original size:9 final size:9
Alignment explanation
Indices: 55181580--55181610 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
55181570 GTAGTGATTC
55181580 AATTCGGGT
1 AATTCGGGT
55181589 AATTCGGGT
1 AATTCGGGT
*
55181598 AATTCGGTT
1 AATTCGGGT
55181607 AATT
1 AATT
55181611 TTTAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.10, G:0.26, T:0.39
Consensus pattern (9 bp):
AATTCGGGT
Found at i:55182984 original size:3 final size:3
Alignment explanation
Indices: 55182976--55183014 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
55182966 ATTTCACAAT
55182976 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
55183015 TATTTTTACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:55184277 original size:24 final size:24
Alignment explanation
Indices: 55184235--55184285 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
55184225 AATCAAAGTC
** *
55184235 AAATATATTATGTTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
55184259 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
55184283 AAA
1 AAA
55184286 CATCCTAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:55184848 original size:24 final size:24
Alignment explanation
Indices: 55184806--55184856 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
55184796 AATCAAAGTC
** *
55184806 AAATATATTATGTTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
55184830 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
55184854 AAA
1 AAA
55184857 CATCCTAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.51, C:0.08, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:55186901 original size:8 final size:8
Alignment explanation
Indices: 55186849--55186903 Score: 58
Period size: 8 Copynumber: 6.8 Consensus size: 8
55186839 TTTTTTGAAG
55186849 TATATTAT
1 TATATTAT
*
55186857 TATTTTAT
1 TATATTAT
*
55186865 TATATT-G
1 TATATTAT
*
55186872 TAAATTATAT
1 TATA-T-TAT
55186882 TATATTAT
1 TATATTAT
55186890 TATATTAT
1 TATATTAT
55186898 TATATT
1 TATATT
55186904 TTAAATAAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
7 3 0.08
8 30 0.79
9 2 0.05
10 3 0.08
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:55187135 original size:13 final size:13
Alignment explanation
Indices: 55187104--55187144 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
55187094 GACGAAACAG
*
55187104 AGAAGGAAAG-AA
1 AGAAAGAAAGAAA
*
55187116 GGAAAGAAAGAAA
1 AGAAAGAAAGAAA
55187129 AGAAAGAAAGAAA
1 AGAAAGAAAGAAA
55187142 AGA
1 AGA
55187145 GAAAATTGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 8 0.32
13 17 0.68
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (13 bp):
AGAAAGAAAGAAA
Found at i:55187946 original size:45 final size:45
Alignment explanation
Indices: 55187874--55188023 Score: 210
Period size: 45 Copynumber: 3.3 Consensus size: 45
55187864 ATGTGCCAAC
* * * *
55187874 TACTGTTACTGTTACTGATTCGACACTTTGTGTATCGAATACTAT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
* * *
55187919 TACTATTACTGGTACCGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
* *
55187964 TACTGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
*
55188009 TACTGTTACTATTAC
1 TACTGTTACTGTTAC
55188024 TGCTACCGTT
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 93 1.00
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (45 bp):
TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
Found at i:55188034 original size:18 final size:19
Alignment explanation
Indices: 55188003--55188041 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
55187993 GTGTGTTGAA
* *
55188003 TACTGTTACTGTTACT-AT
1 TACTGCTACCGTTACTGAT
55188021 TACTGCTACCGTTACTGAT
1 TACTGCTACCGTTACTGAT
55188040 TA
1 TA
55188042 ATGTTTACTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.44
Consensus pattern (19 bp):
TACTGCTACCGTTACTGAT
Found at i:55199892 original size:5 final size:6
Alignment explanation
Indices: 55199870--55199899 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
55199860 CTATTTACAG
55199870 AAAAAT GAAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT -AAAAAT AAAAAT AAAAAT AAAAA
55199900 CAAATCGCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:55210448 original size:30 final size:29
Alignment explanation
Indices: 55210404--55210460 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
55210394 TCCGAGCCTT
* *
55210404 GGGGTAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATT-TGAAAAAGTTTA
*
55210434 GGGGCAAAATTGTAATTTGAAAAAGTT
1 GGGGCAAAAATGTAATTTGAAAAAGTT
55210461 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 9 0.38
30 15 0.62
ACGTcount: A:0.42, C:0.02, G:0.25, T:0.32
Consensus pattern (29 bp):
GGGGCAAAAATGTAATTTGAAAAAGTTTA
Found at i:55210691 original size:13 final size:13
Alignment explanation
Indices: 55210673--55210703 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
55210663 TTCCAGCAAC
55210673 TATGAATTTATTT
1 TATGAATTTATTT
55210686 TATGAATTTATTT
1 TATGAATTTATTT
*
55210699 GATGA
1 TATGA
55210704 TGATCTAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (13 bp):
TATGAATTTATTT
Found at i:55210875 original size:33 final size:33
Alignment explanation
Indices: 55210838--55210904 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
55210828 ATGGCATTGG
*
55210838 CACCGAGATGAGAGGTCCCATGTAAGACCATGT
1 CACCGAGATGAGAGGTCCCATATAAGACCATGT
*
55210871 CACCGAGATGAGAGGTCCCCTATAAGACCATGT
1 CACCGAGATGAGAGGTCCCATATAAGACCATGT
55210904 C
1 C
55210905 TGGGACATGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.30, C:0.27, G:0.25, T:0.18
Consensus pattern (33 bp):
CACCGAGATGAGAGGTCCCATATAAGACCATGT
Found at i:55216442 original size:50 final size:50
Alignment explanation
Indices: 55216327--55216519 Score: 296
Period size: 50 Copynumber: 3.8 Consensus size: 50
55216317 GATAATAACA
* ** * *
55216327 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * *
55216378 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
55216428 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
55216478 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
55216520 TTACCCAAAT
Statistics
Matches: 129, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 96 0.74
51 33 0.26
ACGTcount: A:0.20, C:0.30, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:55216635 original size:13 final size:13
Alignment explanation
Indices: 55216614--55216644 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
55216604 GCTTAGATCA
*
55216614 TCATCAAATAAAT
1 TCATAAAATAAAT
55216627 TCATAAAATAAAT
1 TCATAAAATAAAT
55216640 TCATA
1 TCATA
55216645 GTTGCTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:55216892 original size:30 final size:30
Alignment explanation
Indices: 55216857--55216914 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
55216847 CCTCGACTCT
*
55216857 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
55216887 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
55216915 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:55219806 original size:21 final size:22
Alignment explanation
Indices: 55219782--55219822 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
55219772 TGGTGCACTG
*
55219782 ATAA-TGTATTCTTTTTATTCC
1 ATAATTGTACTCTTTTTATTCC
55219803 ATAATTGTACTCTTTTTATT
1 ATAATTGTACTCTTTTTATT
55219823 TCGTAAGTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.24, C:0.12, G:0.05, T:0.59
Consensus pattern (22 bp):
ATAATTGTACTCTTTTTATTCC
Found at i:55219883 original size:14 final size:16
Alignment explanation
Indices: 55219859--55219890 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
55219849 GCGTCTCTCT
55219859 TTTTTTAAATATT-TA
1 TTTTTTAAATATTATA
55219874 TTTTTT-AATATTATA
1 TTTTTTAAATATTATA
55219889 TT
1 TT
55219891 ATACCTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTTAAATATTATA
Found at i:55220184 original size:2 final size:2
Alignment explanation
Indices: 55220177--55220206 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
55220167 TGGCTTAGTT
55220177 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
55220207 ATGATTTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:55224607 original size:3 final size:3
Alignment explanation
Indices: 55224599--55224633 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
55224589 AAACCAACCT
55224599 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
55224634 ATGAGATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:55225874 original size:27 final size:26
Alignment explanation
Indices: 55225823--55225874 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
55225813 CTGATCGATT
*
55225823 TTGATTTGATATATTCTTAATTTAAG
1 TTGATTTGATATATTCTTAAGTTAAG
*
55225849 TTGATATTGATATGATT-TTCAGTTAA
1 TTGAT-TTGATAT-ATTCTTAAGTTAA
55225875 ATGTTTCGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 5 0.23
27 14 0.64
28 3 0.14
ACGTcount: A:0.31, C:0.04, G:0.13, T:0.52
Consensus pattern (26 bp):
TTGATTTGATATATTCTTAAGTTAAG
Found at i:55237142 original size:30 final size:29
Alignment explanation
Indices: 55237108--55237176 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
55237098 AAAATAACAG
*
55237108 TTTAAAAATCTTATATAAGATATAAAATA-T
1 TTTAAAAAT-TTATATAA-ATATAAAAAAGT
* *
55237138 TTTAAAATATTTGTATAAATTTAAAAAAGT
1 TTTAAAA-ATTTATATAAATATAAAAAAGT
55237168 TTTAAAAAT
1 TTTAAAAAT
55237177 ATAAAAAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 10 0.29
30 22 0.65
31 2 0.06
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.42
Consensus pattern (29 bp):
TTTAAAAATTTATATAAATATAAAAAAGT
Found at i:55244642 original size:30 final size:30
Alignment explanation
Indices: 55244607--55244668 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
55244597 TCTCTTCTTG
55244607 ATGTAGTAAGGTATGTTTAAATTAAGATAC
1 ATGTAGTAAGGTATGTTTAAATTAAGATAC
55244637 ATGTAGTAAGGTATGTTTAAATTAAGATAC
1 ATGTAGTAAGGTATGTTTAAATTAAGATAC
55244667 AT
1 AT
55244669 AGTGTATGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.40, C:0.03, G:0.19, T:0.37
Consensus pattern (30 bp):
ATGTAGTAAGGTATGTTTAAATTAAGATAC
Found at i:55244675 original size:25 final size:27
Alignment explanation
Indices: 55244617--55244676 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 27
55244607 ATGTAGTAAG
55244617 GTATGTTTAAATTAAGATACATGTAGTAA
1 GTATGTTTAAATTAAGATACA-GTAGT-A
55244646 GGTATGTTTAAATTAAGATACA-TAGT-
1 -GTATGTTTAAATTAAGATACAGTAGTA
55244672 GTATG
1 GTATG
55244677 CTTTGACTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
25 5 0.17
28 4 0.13
30 21 0.70
ACGTcount: A:0.38, C:0.03, G:0.20, T:0.38
Consensus pattern (27 bp):
GTATGTTTAAATTAAGATACAGTAGTA
Found at i:55251502 original size:18 final size:18
Alignment explanation
Indices: 55251479--55251521 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
55251469 GTTCAATGTG
55251479 TAATTAATTTAAATTT-TT
1 TAATTAA-TTAAATTTATT
55251497 TAATTAATTAAATTTATT
1 TAATTAATTAAATTTATT
55251515 TAATTAA
1 TAATTAA
55251522 AAACCTATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TAATTAATTAAATTTATT
Found at i:55252500 original size:22 final size:22
Alignment explanation
Indices: 55252462--55252529 Score: 64
Period size: 22 Copynumber: 3.1 Consensus size: 22
55252452 CCTGAATCAA
* *
55252462 TTGTTTTGCTGCCATTTTGTTG
1 TTGTTTTGCTACTATTTTGTTG
*** *
55252484 TTGTTTTGCTACTATTTCACTA
1 TTGTTTTGCTACTATTTTGTTG
* *
55252506 TTATATTGCTACTATTTTGTTG
1 TTGTTTTGCTACTATTTTGTTG
55252528 TT
1 TT
55252530 ATTGTATAAC
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.13, C:0.13, G:0.15, T:0.59
Consensus pattern (22 bp):
TTGTTTTGCTACTATTTTGTTG
Found at i:55254274 original size:26 final size:28
Alignment explanation
Indices: 55254245--55254306 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
55254235 ATTTATAATT
55254245 TTTTTAAAA-T-AAAT-TAATTTATATCA
1 TTTTTAAAATTAAAATATAATTT-TATCA
55254271 TTTTTAAAAATTAAAATATAATTTTATCA
1 TTTTT-AAAATTAAAATATAATTTTATCA
*
55254300 TTATTAA
1 TTTTTAA
55254307 TCTAAAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
26 5 0.16
27 4 0.13
28 3 0.10
29 13 0.42
30 6 0.19
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (28 bp):
TTTTTAAAATTAAAATATAATTTTATCA
Found at i:55255630 original size:28 final size:29
Alignment explanation
Indices: 55255544--55255630 Score: 131
Period size: 28 Copynumber: 3.0 Consensus size: 29
55255534 CGGCCCATTT
*
55255544 TTATTTTAAAAATTAAAAAACTTTAAAAAA
1 TTATTTT-AAAATTAAAAAAATTTAAAAAA
*
55255574 TTATTTTAAAATTAAAAAATTTTAAAAAA
1 TTATTTTAAAATTAAAAAAATTTAAAAAA
*
55255603 -TATTTTAAAATTAAAAAAAATTAAAAAA
1 TTATTTTAAAATTAAAAAAATTTAAAAAA
55255631 GTATGTAAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 26 0.48
29 21 0.39
30 7 0.13
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (29 bp):
TTATTTTAAAATTAAAAAAATTTAAAAAA
Found at i:55255639 original size:12 final size:11
Alignment explanation
Indices: 55255614--55255656 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
55255604 ATTTTAAAAT
*
55255614 TAAAAAAAAT-
1 TAAAAAATATG
55255624 TAAAAAAGTATG
1 TAAAAAA-TATG
*
55255636 TAAAAAATATT
1 TAAAAAATATG
55255647 TAAAAAATAT
1 TAAAAAATAT
55255657 TTTAAAATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 7 0.24
11 15 0.52
12 7 0.24
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (11 bp):
TAAAAAATATG
Found at i:55255641 original size:29 final size:28
Alignment explanation
Indices: 55255548--55255641 Score: 116
Period size: 29 Copynumber: 3.3 Consensus size: 28
55255538 CCATTTTTAT
*
55255548 TTTAAAAATTAAAAAACTTTAAAAAATTA
1 TTTAAAAATTAAAAAAATTTAAAAAA-TA
* *
55255577 TTTTAAAATTAAAAAATTTTAAAAAATA
1 TTTAAAAATTAAAAAAATTTAAAAAATA
* *
55255605 TTTTAAAATTAAAAAAAATTAAAAAAGTA
1 TTTAAAAATTAAAAAAATTTAAAAAA-TA
*
55255634 TGTAAAAA
1 TTTAAAAA
55255642 ATATTTAAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
28 26 0.45
29 32 0.55
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (28 bp):
TTTAAAAATTAAAAAAATTTAAAAAATA
Found at i:55255654 original size:11 final size:11
Alignment explanation
Indices: 55255585--55255663 Score: 71
Period size: 10 Copynumber: 7.5 Consensus size: 11
55255575 TATTTTAAAA
55255585 TTAAAAAAT-T
1 TTAAAAAATAT
55255595 TTAAAAAATAT
1 TTAAAAAATAT
*
55255606 TT--TAAA-A-
1 TTAAAAAATAT
*
55255613 TTAAAAAA-AA
1 TTAAAAAATAT
55255623 TTAAAAAAGTAT
1 TTAAAAAA-TAT
*
55255635 GTAAAAAATAT
1 TTAAAAAATAT
55255646 TTAAAAAATATT
1 TTAAAAAATA-T
55255658 TTAAAA
1 TTAAAA
55255664 TTAAAAAAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
7 2 0.04
8 1 0.02
9 7 0.12
10 17 0.30
11 15 0.26
12 15 0.26
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (11 bp):
TTAAAAAATAT
Found at i:55256026 original size:16 final size:16
Alignment explanation
Indices: 55256005--55256039 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
55255995 ATAAAAAAGA
55256005 AAAATGTTATTATTTT
1 AAAATGTTATTATTTT
*
55256021 AAAATGTTGTTATTTT
1 AAAATGTTATTATTTT
55256037 AAA
1 AAA
55256040 CGATTGTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (16 bp):
AAAATGTTATTATTTT
Found at i:55258603 original size:11 final size:10
Alignment explanation
Indices: 55258569--55258601 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
55258559 ATGCGAAAGT
55258569 TTTGAAAAAC
1 TTTGAAAAAC
55258579 TTTGAAAAAC
1 TTTGAAAAAC
*
55258589 TTTGAGAAAC
1 TTTGAAAAAC
55258599 TTT
1 TTT
55258602 TGGGAGAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.36
Consensus pattern (10 bp):
TTTGAAAAAC
Found at i:55258876 original size:32 final size:32
Alignment explanation
Indices: 55258796--55259023 Score: 276
Period size: 32 Copynumber: 6.8 Consensus size: 32
55258786 TCACTTGTCT
* * *
55258796 TTTCTTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCA--CATCA
* *
55258830 TTCTGTTGCAGGGAATCTTTCCTGTTCACATCA
1 TT-TCTTGCAGGGAATCTCTCCTGTTCACATCA
*
55258863 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
1 TTTCTTGCAGGGAATCTCTCCTGTTCA--CATCA
* * *
55258897 TTTTGTTGCAGGGAACCTCTCCTGTTCACACATTA
1 -TTTCTTGCAGGGAATCTCTCCTGTT--CACATCA
* *
55258932 TTTTGTTGCAGGGAATCTTTCCTGTTCACATCA
1 -TTTCTTGCAGGGAATCTCTCCTGTTCACATCA
55258965 TTTCTTGCAGGGAATCTCTCCTGTTCACATCA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACATCA
55258997 TTTCTTGCAGGGAATCTCTCCTGTTCA
1 TTTCTTGCAGGGAATCTCTCCTGTTCA
55259024 TGTATTATTT
Statistics
Matches: 175, Mismatches: 13, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
32 80 0.46
33 12 0.07
34 6 0.03
35 75 0.43
37 2 0.01
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (32 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCACATCA
Found at i:55258904 original size:67 final size:67
Alignment explanation
Indices: 55258796--55259033 Score: 320
Period size: 67 Copynumber: 3.6 Consensus size: 67
55258786 TCACTTGTCT
* * * *
55258796 TTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACAT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
55258861 CA
66 CA
*
55258863 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAACCTCTCCTGTTCACAC
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTT--CAC
*
55258928 ATTA
64 ATCA
* * * *
55258932 TTTTGTTGCAGGGAATCTTTCCTGTTCA--CATCA-TTTCTTGCAGGGAATCTCTCCTGTTCACA
1 -TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA
55258994 TCA
65 TCA
* *
55258997 TTTCTTGCAGGGAATCTCTCCTGTTCATGTATTATTT
1 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTT
55259034 CTTTTTGGAC
Statistics
Matches: 149, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
64 25 0.17
65 6 0.04
66 3 0.02
67 80 0.54
68 4 0.03
69 6 0.04
70 25 0.17
ACGTcount: A:0.18, C:0.24, G:0.17, T:0.41
Consensus pattern (67 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACAT
CA
Found at i:55258976 original size:102 final size:100
Alignment explanation
Indices: 55258795--55259023 Score: 370
Period size: 102 Copynumber: 2.3 Consensus size: 100
55258785 TTCACTTGTC
* * *
55258795 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACACATTATTCTGTTGCAGGGAATCTTTCCTGTTCACA
*
55258860 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
66 TCATTTCTTGCAGGGAATCTCTCCTGTTCA--CATCA
* * *
55258897 TTTTGTTGCAGGGAACCTCTCCTGTTCACACATTATTTTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACACATTATTCTGTTGCAGGGAATCTTTCCTGTTCACA
55258962 TCATTTCTTGCAGGGAATCTCTCCTGTTCACATCA
66 TCATTTCTTGCAGGGAATCTCTCCTGTTCACATCA
55258997 -TTTCTTGCAGGGAATCTCTCCTGTTCA
1 TTTTCTTGCAGGGAATCTCTCCTGTTCA
55259024 TGTATTATTT
Statistics
Matches: 118, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
99 25 0.21
100 4 0.03
102 89 0.75
ACGTcount: A:0.18, C:0.24, G:0.17, T:0.40
Consensus pattern (100 bp):
TTTTCTTGCAGGGAATCTCTCCTGTTCACACATTATTCTGTTGCAGGGAATCTTTCCTGTTCACA
TCATTTCTTGCAGGGAATCTCTCCTGTTCACATCA
Found at i:55261863 original size:21 final size:22
Alignment explanation
Indices: 55261833--55261877 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
55261823 GAGCAAATTG
55261833 TTGATTCTATTTCCTTTTTG-AT
1 TTGATTCTA-TTCCTTTTTGTAT
*
55261855 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCCTTTTTGTAT
55261876 TT
1 TT
55261878 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGATTCTATTCCTTTTTGTAT
Found at i:55266483 original size:21 final size:21
Alignment explanation
Indices: 55266457--55266517 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
55266447 GGCTTTGCCA
55266457 ATCAGGCACTTTATGTGTCCT
1 ATCAGGCACTTTATGTGTCCT
* ** *
55266478 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCCT
* *
55266499 TTCAAGCACTTTATGTGTC
1 ATCAGGCACTTTATGTGTC
55266518 GTATACTGAC
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (21 bp):
ATCAGGCACTTTATGTGTCCT
Found at i:55267769 original size:23 final size:22
Alignment explanation
Indices: 55267727--55267769 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
55267717 CCCTTCTGTG
55267727 TTCTGTATTGTTTCAATTTGAT
1 TTCTGTATTGTTTCAATTTGAT
* *
55267749 TTCTGTCATTTTTTTAATTTG
1 TTCTGT-ATTGTTTCAATTTG
55267770 TACCGCATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.16, C:0.09, G:0.12, T:0.63
Consensus pattern (22 bp):
TTCTGTATTGTTTCAATTTGAT
Found at i:55273845 original size:19 final size:19
Alignment explanation
Indices: 55273823--55273859 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
55273813 TATTTCATAA
*
55273823 ATAATATAATATAATTATT
1 ATAATATAACATAATTATT
*
55273842 ATAATTTAACATAATTAT
1 ATAATATAACATAATTAT
55273860 ATTTATAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (19 bp):
ATAATATAACATAATTATT
Found at i:55276347 original size:12 final size:12
Alignment explanation
Indices: 55276329--55276357 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
55276319 ATTTTGATCC
55276329 TTATTTTTATT-
1 TTATTTTTATTA
55276340 TTATTTTTATTA
1 TTATTTTTATTA
55276352 TTATTT
1 TTATTT
55276358 ACAGTTTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
TTATTTTTATTA
Found at i:55276426 original size:3 final size:3
Alignment explanation
Indices: 55276418--55276454 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
55276408 TTTAACTTCA
55276418 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
55276455 AACTGTTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:55283506 original size:29 final size:30
Alignment explanation
Indices: 55283450--55283509 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
55283440 TTTTCTTTAT
*
55283450 ATCAGATCAAATTAGTTCCTCTACTATTAA
1 ATCAGATCAAATTAGTTCCTATACTATTAA
* *
55283480 ATCA-ATCAAATTAGTTCTTATATTATTAA
1 ATCAGATCAAATTAGTTCCTATACTATTAA
55283509 A
1 A
55283510 AAGAATCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 23 0.85
30 4 0.15
ACGTcount: A:0.40, C:0.15, G:0.05, T:0.40
Consensus pattern (30 bp):
ATCAGATCAAATTAGTTCCTATACTATTAA
Found at i:55283519 original size:30 final size:29
Alignment explanation
Indices: 55283455--55283520 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
55283445 TTTATATCAG
* *
55283455 ATCAAATTAGTTCCTCTACTATTAAATCA
1 ATCAAATTAGTTCCTATACTATTAAAACA
* * *
55283484 ATCAAATTAGTTCTTATATTATTAAAAAGA
1 ATCAAATTAGTTCCTATACTATT-AAAACA
55283514 ATCAAAT
1 ATCAAAT
55283521 AAGACCAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
29 20 0.65
30 11 0.35
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.38
Consensus pattern (29 bp):
ATCAAATTAGTTCCTATACTATTAAAACA
Found at i:55289424 original size:13 final size:13
Alignment explanation
Indices: 55289406--55289433 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
55289396 ACCCTTAGGG
55289406 TTTTTTTTATCTT
1 TTTTTTTTATCTT
55289419 TTTTTTTTATCTT
1 TTTTTTTTATCTT
55289432 TT
1 TT
55289434 CCTTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTTTTTATCTT
Found at i:55290703 original size:27 final size:26
Alignment explanation
Indices: 55290655--55290705 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
55290645 TAGAATTAAT
*
55290655 TTGTTATTCATCATTTGCTTTGTATA
1 TTGTTAATCATCATTTGCTTTGTATA
55290681 TTGTTAATCAATCATATTG-TTTGTA
1 TTGTTAATC-ATCAT-TTGCTTTGTA
55290706 AGAATTTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 8 0.36
27 11 0.50
28 3 0.14
ACGTcount: A:0.24, C:0.10, G:0.12, T:0.55
Consensus pattern (26 bp):
TTGTTAATCATCATTTGCTTTGTATA
Found at i:55291975 original size:9 final size:9
Alignment explanation
Indices: 55291896--55291975 Score: 51
Period size: 9 Copynumber: 9.0 Consensus size: 9
55291886 TGTTATTTCA
55291896 TTAT-TTAT
1 TTATATTAT
55291904 TTAT-TTAT
1 TTATATTAT
*
55291912 TTATATTTT
1 TTATATTAT
55291921 TTATA-TACT
1 TTATATTA-T
**
55291930 TTCA-AAAAT
1 TT-ATATTAT
55291939 TTATATTAT
1 TTATATTAT
*
55291948 TCATTATTAT
1 TTA-TATTAT
* *
55291958 TAATGTTAT
1 TTATATTAT
55291967 TTATATTAT
1 TTATATTAT
55291976 CATTATCATT
Statistics
Matches: 56, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
8 14 0.25
9 32 0.57
10 10 0.18
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (9 bp):
TTATATTAT
Found at i:55296790 original size:26 final size:26
Alignment explanation
Indices: 55296755--55296808 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
55296745 TTTAAAAAAT
* * **
55296755 ATGTACGTATGTATATATATGACAAA
1 ATGTAAGTATGTAAATATACAACAAA
55296781 ATGTAAGTATGTAAATATACAACAAA
1 ATGTAAGTATGTAAATATACAACAAA
55296807 AT
1 AT
55296809 TTGAAACTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.48, C:0.07, G:0.13, T:0.31
Consensus pattern (26 bp):
ATGTAAGTATGTAAATATACAACAAA
Found at i:55298445 original size:40 final size:41
Alignment explanation
Indices: 55298386--55298580 Score: 171
Period size: 40 Copynumber: 4.7 Consensus size: 41
55298376 TTTTTTTTCG
* *
55298386 TCTGCTCCACTACTACTTAGGGAGATTAGACTT-G-ATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-TTGGTATGCGA
* *
55298426 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA--T-TGGTATGCGA
* ** * * * *
55298470 TCCGCTCCACTACAACTTCAGGGAGATACGATTGGTTTCTTCTA
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGATTGG--TATGCGA
* *
55298514 TCTTCTCCACTACTGCTTAGGGAGATAAGATT-GAATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATTGGTATGCGA
* *
55298554 TCTGCTCCATTATTGCTTAGGGAGATA
1 TCTGCTCCACTACTGCTTAGGGAGATA
55298581 CGATCTATGG
Statistics
Matches: 126, Mismatches: 22, Indels: 14
0.78 0.14 0.09
Matches are distributed among these distances:
40 55 0.44
41 2 0.02
42 5 0.04
43 15 0.12
44 38 0.30
45 11 0.09
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (41 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGATTGGTATGCGA
Found at i:55298497 original size:131 final size:129
Alignment explanation
Indices: 55298247--55298624 Score: 487
Period size: 131 Copynumber: 2.9 Consensus size: 129
55298237 GATTTGTTGT
*
55298247 TTCTTTCATCTGCTCCACTACTGCTTAGGGAGATAAGAC-TGAATGCGATCTGCTCCTTTACTGC
1 TTCTTTC-TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAATGCGATCTGCTCCATTACTGC
* * * * * *
55298311 TTAGGGAGATAAGATTTGTGGTTTTTGATCCGCTTCACTGCCAGTATAGGAAGATAGGATTGGTT
65 TTAGGGAGATAAGATCTGTGG-TTTTGATCCGCTCCACTGCAACT-TAGGGAGATACGATTGGTT
*
55298376 TT
128 TC
* * * *
55298378 TTTTTTCGTCTGCTCCACTACTACTTAGGGAGATTAGACTTG-ATGCGATCTGCTCCACTACTGC
1 TTCTTTC-TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAATGCGATCTGCTCCATTACTGC
*
55298442 TTAGGGAGATAAGATCTGTGGTTTTCGATCCGCTCCACTACAACTTCAGGGAGATACGATTGGTT
65 TTAGGGAGATAAGATCTGTGGTTTT-GATCCGCTCCACTGCAACTT-AGGGAGATACGATTGGTT
55298507 TC
128 TC
* *
55298509 TTCTATCT-T-CTCCACTACTGCTTAGGGAGATAAGA-TTGAATGCGATCTGCTCCATTATTGCT
1 TTCTTTCTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAATGCGATCTGCTCCATTACTGCT
* * * *
55298571 TAGGGAGATACGATCTATGGTTTTAATCCGCTCCACTGTAACTTTAGGGAGATA
66 TAGGGAGATAAGATCTGTGGTTTTGATCCGCTCCACTGCAAC-TTAGGGAGATA
55298625 AGACTTGTAT
Statistics
Matches: 217, Mismatches: 25, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
127 27 0.12
128 69 0.32
129 1 0.00
130 6 0.03
131 112 0.52
132 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (129 bp):
TTCTTTCTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAATGCGATCTGCTCCATTACTGCT
TAGGGAGATAAGATCTGTGGTTTTGATCCGCTCCACTGCAACTTAGGGAGATACGATTGGTTTC
Found at i:55298667 original size:127 final size:128
Alignment explanation
Indices: 55298254--55298667 Score: 363
Period size: 131 Copynumber: 3.2 Consensus size: 128
55298244 TGTTTCTTTC
* ** **
55298254 ATCTGCTCCACTACTGCTTAGGGAGATAAGAC-TGAATGCGATCTGCTCCTTTACTGCTTAGGGA
1 ATCTTCTCCACTACTGCCCAGGGAGATAAGACTTG-ATGCGATCTGCTCCACTACTGCTTAGGGA
* * ** * * * * * * * * **
55298318 GATAAGATTTGTGGTTTTTGATCCGCTTCACTGCCAGTAT-AGGAAGATAGGATTGGTTTTTTTT
65 GATAAGATCTATGGTTTTCAATCCGCTCCACTACAACT-TCAGGGAGATAAGATTGGTATCTTCA
* * ** *
55298382 TTCGTCTGCTCCACTACTACTTAGGGAGATTAGACTTGATGCGATCTGCTCCACTACTGCTTAGG
1 ATC-T-T-CTCCACTACTGCCCAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGG
* * * *
55298447 GAGATAAGATCTGTGGTTTTCGATCCGCTCCACTACAACTTCAGGGAGATACGATTGGTTTCTTC
63 GAGATAAGATCTATGGTTTTCAATCCGCTCCACTACAACTTCAGGGAGATAAGATTGGTATCTTC
*
55298512 T
128 A
** * *
55298513 ATCTTCTCCACTACTGCTTAGGGAGATAAGA-TTGAATGCGATCTGCTCCATTATTGCTTAGGGA
1 ATCTTCTCCACTACTGCCCAGGGAGATAAGACTTG-ATGCGATCTGCTCCACTACTGCTTAGGGA
* ** *
55298577 GATACGATCTATGGTTTT-AATCCGCTCCACTGTAACTTTAGGGAGATAAGACTT-GTATCTTCA
65 GATAAGATCTATGGTTTTCAATCCGCTCCACTACAACTTCAGGGAGATAAGA-TTGGTATCTTCA
**
55298640 ATCTAT-TCCACTGTTGCCCAGGGAGATA
1 ATCT-TCTCCACTACTGCCCAGGGAGATA
55298668 GAACTACTGG
Statistics
Matches: 244, Mismatches: 34, Indels: 17
0.83 0.12 0.06
Matches are distributed among these distances:
127 60 0.25
128 72 0.30
129 2 0.01
130 2 0.01
131 106 0.43
132 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (128 bp):
ATCTTCTCCACTACTGCCCAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
ATAAGATCTATGGTTTTCAATCCGCTCCACTACAACTTCAGGGAGATAAGATTGGTATCTTCA
Found at i:55298778 original size:132 final size:132
Alignment explanation
Indices: 55298614--55299430 Score: 1377
Period size: 132 Copynumber: 6.2 Consensus size: 132
55298604 CACTGTAACT
*
55298614 TTAGGGAGATAAGA-CTTGT-ATCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAACTACTG
1 TTAGGGAGATAAGATC-TGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAACTACTG
*
55298677 GCTTCAATGTACTCCATTGTAATCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTAC
65 GCTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTAC
55298742 TGC
130 TGC
* *
55298745 TTAGGGAGATAAGATCTGTAACCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAACTACTGG
1 TTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAACTACTGG
* * *
55298810 CTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCAGCCATCTTCGACCTACTCCACTACT
66 CTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACT
55298875 GC
131 GC
* *
55298877 TTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCCGCCCAGGGAGATAGAACTAATGG
1 TTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAACTACTGG
* * *
55298942 CTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAACTCCGCCATCTTCGATCTACTCCACTATT
66 CTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACT
55299007 GC
131 GC
**
55299009 TTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAGTTACTGG
1 TTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAACTACTGG
* * * *
55299074 CTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCTGCAATATTCGATCTGCTCTACTACT
66 CTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACT
55299139 GC
131 GC
**
55299141 TTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAGTTACTGG
1 TTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAACTACTGG
* *
55299206 CTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCTACTACT
66 CTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACT
55299271 GC
131 GC
* *
55299273 TTAGGGAGATAAGATCTGTAATCTTCAATCTTTTCCACTGCTGCCCAGGGAGATAGAGCTACTGG
1 TTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAACTACTGG
*
55299338 CTTCAATGTACTCCACTGTAATCTCAGGGAGGTCAAATCCGCCATCTTCGATCTGCTCCACTACT
66 CTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACT
55299403 GC
131 GC
*
55299405 TTAGAGAGATAAGATCTGTAATCTTC
1 TTAGGGAGATAAGATCTGTAATCTTC
55299431 GATCCACTTC
Statistics
Matches: 652, Mismatches: 32, Indels: 3
0.95 0.05 0.00
Matches are distributed among these distances:
131 17 0.03
132 635 0.97
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (132 bp):
TTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAACTACTGG
CTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACT
GC
Found at i:55299434 original size:44 final size:44
Alignment explanation
Indices: 55298425--55299430 Score: 358
Period size: 44 Copynumber: 23.0 Consensus size: 44
55298415 ACTTGATGCG
* * ** * *
55298425 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTCG
1 ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTCA
** ** * * *
55298469 ATCCGCTCCACTACAACTTCAGGGAGATACGAT-TGGT-TTCTTCT
1 ATCTACTCCACTACTGC-TCAGGGAGATAAGATCT-GTAATCTTCA
* * * *
55298513 ATCTTCTCCACTACTGCTTAGGGAGATAAGAT-TG-AA--TGCG
1 ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTCA
* * * * * * ** *
55298553 ATCTGCTCCATTATTGCTTAGGGAGATACGATCTATGGT-TTTA
1 ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTCA
** *
55298596 ATCCGCTCCACTGTAACT--TTAGGGAGATAAGA-CTTGT-ATCTTCA
1 ATCTACTCCAC--T-ACTGCTCAGGGAGATAAGATC-TGTAATCTTCA
* ** * * *
55298640 ATCTATTCCACTGTTGCCCAGGGAGAT-AGAAC--TACTGGCTTCA
1 ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAAT--CTTCA
* * * * * * ** *
55298683 ATGTACTCCATTGTAAT-CTCAGGGAGGTAAAATCCGCCATCTTCG
1 ATCTACTCCA--CTACTGCTCAGGGAGATAAGATCTGTAATCTTCA
* * *
55298728 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAACCTTCA
1 ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTCA
* ** * * *
55298772 ATCTATTCCACTGTTGCCCAGGGAGAT-AGAAC--TACTGGCTTCA
1 ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAAT--CTTCA
* * * * * ** *
55298815 ATGTACTCCACTGTAAT-CTCAGGGAGGTAAAATCAGCCATCTTCG
1 ATCTACTCCAC--TACTGCTCAGGGAGATAAGATCTGTAATCTTCA
* *
55298860 ACCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCA
1 ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTCA
* * * * *
55298904 ATCTATTCCACTGCCGCCCAGGGAGAT-AGAAC--TAATGGCTTCA
1 ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAAT--CTTCA
* * * * ** *
55298947 ATGTACTCCACTGTAAT-CTCAGGGAGGTAA-ACTCCGCCATCTTCG
1 ATCTACTCCAC--TACTGCTCAGGGAGATAAGA-TCTGTAATCTTCA
* *
55298992 ATCTACTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCA
1 ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTCA
* * * * *
55299036 ATCTATTCCACTGCTGCCCAGGGAGATAGAGTTACTG---GCTTCA
1 ATCTACTCCACTACTGCTCAGGGAGATA-AGAT-CTGTAATCTTCA
* * * * * * *
55299079 ATGTACTCCACTGTAAT-CTCAGGGAGGTAAAATCTGCAATATTCG
1 ATCTACTCCAC--TACTGCTCAGGGAGATAAGATCTGTAATCTTCA
* * *
55299124 ATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGTAATCTTCA
1 ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTCA
* * * * *
55299168 ATCTATTCCACTGCTGCCCAGGGAGATAGAGTTACTG---GCTTCA
1 ATCTACTCCACTACTGCTCAGGGAGATA-AGAT-CTGTAATCTTCA
* * * * ** *
55299211 ATGTACTCCACTGTAAT-CTCAGGGAGGTAAAATCTGCCATCTTCG
1 ATCTACTCCAC--TACTGCTCAGGGAGATAAGATCTGTAATCTTCA
* * *
55299256 ATCTGCTCTACTACTGCTTAGGGAGATAAGATCTGTAATCTTCA
1 ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTCA
** * * * *
55299300 ATCTTTTCCACTGCTGCCCAGGGAGATAGAGCTACTG---GCTTCA
1 ATCTACTCCACTACTGCTCAGGGAGATA-AGAT-CTGTAATCTTCA
* * * * ** *
55299343 ATGTACTCCACTGTAAT-CTCAGGGAGGTCAA-ATCCGCCATCTTCG
1 ATCTACTCCAC--TACTGCTCAGGGAGAT-AAGATCTGTAATCTTCA
* * *
55299388 ATCTGCTCCACTACTGCTTAGAGAGATAAGATCTGTAATCTTC
1 ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTC
55299431 GATCCACTTC
Statistics
Matches: 687, Mismatches: 208, Indels: 134
0.67 0.20 0.13
Matches are distributed among these distances:
40 31 0.05
41 9 0.01
42 13 0.02
43 150 0.22
44 348 0.51
45 121 0.18
46 11 0.02
47 4 0.01
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (44 bp):
ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTCA
Found at i:55299473 original size:44 final size:44
Alignment explanation
Indices: 55299415--55300037 Score: 489
Period size: 44 Copynumber: 14.2 Consensus size: 44
55299405 TTAGAGAGAT
*
55299415 AAGATCTG-TAATCTTCGATCCACTTCCTACCAATATAGGAAGAC
1 AAGATCTGCT-ATCTTCGATCTACTTCCTACCAATATAGGAAGAC
* * * * *
55299459 AGGACCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTC-CTACCAATATAGGAAGAC
* * * * * *
55299503 AAGATCTTCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAT
1 AAGATCTGCTATCTTCGATCTACTTC-CTACCAATATAGGAAGAC
* *
55299548 AAGATCTGC-ATCTTCGATCAACTTCCTACCAATATAGAAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCCTACCAATATAGGAAGAC
* * * *
55299591 AGGACCTGCTATCTTCGATCTACTT--TACGCCAATACATGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCCTA--CCAATATAGGAAGAC
* * * * * *
55299635 AAGATCTGCTTTTTTCAATCTACTTCGCCACCAGTATGGGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTC-CTACCAATATAGGAAGAC
* *
55299680 AAGATCTGC-ATCTTCAATCCACTTCCTACCAATATAGGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCCTACCAATATAGGAAGAC
* * * * * * *
55299723 AGGA-CTTGCTATCTTCAATCTATTTCATGCCAATACATGAAGAC
1 AAGATC-TGCTATCTTCGATCTACTTCCTACCAATATAGGAAGAC
* * * * *
55299767 AAGATCTGCTTTCTTCGATCTAGTTCGCCACCAGTAT-GAGAAAAC
1 AAGATCTGCTATCTTCGATCTACTTC-CTACCAATATAG-GAAGAC
* * *
55299812 AAGATCTAC-ATCTTCGATCCACTTCCTACCAATATAGGAAGAG
1 AAGATCTGCTATCTTCGATCTACTTCCTACCAATATAGGAAGAC
* * * * * * *
55299855 AGGACCTGCTATCTTCGATCTACTTCATGCCAATACATGAAAAC
1 AAGATCTGCTATCTTCGATCTACTTCCTACCAATATAGGAAGAC
* * * * *
55299899 AATATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTC-CTACCAATATAGGAAGAC
* * **
55299944 AAGGTCTGC-ATCTTCGATCCACTTTCC-ACCAATATAGGGTGA-
1 AAGATCTGCTATCTTCGATCTAC-TTCCTACCAATATAGGAAGAC
* * * *
55299986 AAGGACCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGAC
1 AA-GATCTGCTATCTTCGATCTACTTC-CTACCAATATAGGAAGAC
55300031 AAGATCT
1 AAGATCT
55300038 ACTTTAATGT
Statistics
Matches: 445, Mismatches: 112, Indels: 44
0.74 0.19 0.07
Matches are distributed among these distances:
42 5 0.01
43 78 0.18
44 280 0.63
45 81 0.18
47 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (44 bp):
AAGATCTGCTATCTTCGATCTACTTCCTACCAATATAGGAAGAC
Found at i:55299518 original size:132 final size:132
Alignment explanation
Indices: 55299415--55300042 Score: 997
Period size: 132 Copynumber: 4.8 Consensus size: 132
55299405 TTAGAGAGAT
*
55299415 AAGATCTGTAATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCT
1 AAGATCTG-CATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCT
*
55299480 ACTTCACGCCAATACATGAAGACAAGATCTTCTTTCTTCGATCTACTTCGCCACCAGTATGGGAA
65 ACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAA
*
55299545 GAT
130 GAC
* *
55299548 AAGATCTGCATCTTCGATCAACTTCCTACCAATATAGAAAGACAGGACCTGCTATCTTCGATCTA
1 AAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTA
* * *
55299613 CTTTACGCCAATACATGAAGACAAGATCTGCTTTTTTCAATCTACTTCGCCACCAGTATGGGAAG
66 CTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
55299678 AC
131 AC
* * *
55299680 AAGATCTGCATCTTCAATCCACTTCCTACCAATATAGGAAGACAGGACTTGCTATCTTCAATCTA
1 AAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTA
* * * * *
55299745 TTTCATGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTAGTTCGCCACCAGTATGAGAAA
66 CTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
55299810 AC
131 AC
* *
55299812 AAGATCTACATCTTCGATCCACTTCCTACCAATATAGGAAGAGAGGACCTGCTATCTTCGATCTA
1 AAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTA
* * *
55299877 CTTCATGCCAATACATGAAAACAATATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
66 CTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
55299942 AC
131 AC
* ** *
55299944 AAGGTCTGCATCTTCGATCCACTTTCC-ACCAATATAGGGTGAAAGGACCTGCTATCTTCGATCT
1 AAGATCTGCATCTTCGATCCAC-TTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCT
*
55300008 ACTTCACGCCAATACATGAAGACAAGATCTACTTT
65 ACTTCACGCCAATACATGAAGACAAGATCTGCTTT
55300043 AATGTCTTCA
Statistics
Matches: 453, Mismatches: 41, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
132 441 0.97
133 12 0.03
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (132 bp):
AAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTA
CTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAG
AC
Found at i:55299522 original size:396 final size:395
Alignment explanation
Indices: 55298614--55299523 Score: 1139
Period size: 396 Copynumber: 2.3 Consensus size: 395
55298604 CACTGTAACT
* * *** * * * * *
55298614 TTAGGGAGATAAGA-CTTGT-ATCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAACTACTG
1 TTAGAGAGATAAGATC-TGTAATCTTCAATCCATTCCAC-GCAACACAGGAAGACAGACCTACTA
* * * * * ** * *
55298677 GCTTCAATGTACTCCATTGTAATCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTAC
64 GCTTCAATCTACTCCACTGCAATCACAGGAAGACAAAATCTGCAATCTTCGATCTGCTCCACTAC
*
55298742 TGCTTAGGGAGATAAGATCTGTAACCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAACTAC
129 TGCTTAGGGAGATAAGATCTGTAACCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAACTAC
55298807 TGGCTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCAGCCATCTTCGACCTACTCCACT
194 TGGCTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCAGCCATCTTCGACCTACTCCACT
55298872 ACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCCGCCCAGGGAGATAGAACT
259 ACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCCGCCCAGGGAGATAGAACT
55298937 AATGGCTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAACTCCGCCATCTTCGATCTACTCCA
324 AATGGCTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAACTCCGCCATCTTCGATCTACTCCA
*
55299002 CTATTGC
389 CTACTGC
* * ** * * * ** *
55299009 TTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAGTTACTGG
1 TTAGAGAGATAAGATCTGTAATCTTCAATCCATTCCAC-GCAACACAGGAAGACAGACCTACTAG
* * * * ** * *
55299074 CTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCTGCAATATTCGATCTGCTCTACTACT
65 CTTCAATCTACTCCACTGCAATCACAGGAAGACAAAATCTGCAATCTTCGATCTGCTCCACTACT
* **
55299139 GCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAGTTACT
130 GCTTAGGGAGATAAGATCTGTAACCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAACTACT
* * * *
55299204 GGCTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTCTACTA
195 GGCTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCAGCCATCTTCGACCTACTCCACTA
* * *
55299269 CTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTTTTCCACTGCTGCCCAGGGAGATAGAGCTA
260 CTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCCGCCCAGGGAGATAGAACTA
* *
55299334 CTGGCTTCAATGTACTCCACTGTAATCTCAGGGAGGTCAAA-TCCGCCATCTTCGATCTGCTCCA
325 ATGGCTTCAATGTACTCCACTGTAATCTCAGGGAGGT-AAACTCCGCCATCTTCGATCTACTCCA
55299398 CTACTGC
389 CTACTGC
* * * *
55299405 TTAGAGAGATAAGATCTGTAATCTTCGATCCACTTCCTAC-CAATATAGGAAGACAGGACCTGCT
1 TTAGAGAGATAAGATCTGTAATCTTCAATCCA-TTCC-ACGCAACACAGGAAGACA-GACCTACT
* * * * * * **
55299469 ATCTTCGATCTACTTCAC-GCCAAT-ACATGAAGACAAGATCTTCTTTCTTCGATCT
63 AGCTTCAATCTACTCCACTG-CAATCACAGGAAGACAAAATCTGCAATCTTCGATCT
55299524 ACTTCGCCAC
Statistics
Matches: 457, Mismatches: 51, Indels: 13
0.88 0.10 0.02
Matches are distributed among these distances:
395 17 0.04
396 410 0.90
397 28 0.06
398 2 0.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (395 bp):
TTAGAGAGATAAGATCTGTAATCTTCAATCCATTCCACGCAACACAGGAAGACAGACCTACTAGC
TTCAATCTACTCCACTGCAATCACAGGAAGACAAAATCTGCAATCTTCGATCTGCTCCACTACTG
CTTAGGGAGATAAGATCTGTAACCTTCAATCTATTCCACTGCTGCCCAGGGAGATAGAACTACTG
GCTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCAGCCATCTTCGACCTACTCCACTAC
TGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCCGCCCAGGGAGATAGAACTAA
TGGCTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAACTCCGCCATCTTCGATCTACTCCACT
ACTGC
Found at i:55301077 original size:18 final size:20
Alignment explanation
Indices: 55301051--55301087 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
55301041 TTCTTTTTCT
*
55301051 TTTCTGTTTTGTTT-TTTTG
1 TTTCTGTTTCGTTTCTTTTG
55301070 TTTC-GTTTCGTTTCTTTT
1 TTTCTGTTTCGTTTCTTTT
55301088 TCAAGTGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.00, C:0.11, G:0.14, T:0.76
Consensus pattern (20 bp):
TTTCTGTTTCGTTTCTTTTG
Found at i:55305024 original size:12 final size:12
Alignment explanation
Indices: 55305009--55305036 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
55304999 TGTAATGATG
55305009 TATATATATGTA
1 TATATATATGTA
55305021 TATATATATGTA
1 TATATATATGTA
55305033 TATA
1 TATA
55305037 AAAAATGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (12 bp):
TATATATATGTA
Found at i:55305369 original size:26 final size:26
Alignment explanation
Indices: 55305334--55305387 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
55305324 TTTAAAAAAT
* * **
55305334 ATGTACGTATGTATATATATGACAAA
1 ATGTAAGTATGTAAATATACAACAAA
55305360 ATGTAAGTATGTAAATATACAACAAA
1 ATGTAAGTATGTAAATATACAACAAA
55305386 AT
1 AT
55305388 TTGAAACTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.48, C:0.07, G:0.13, T:0.31
Consensus pattern (26 bp):
ATGTAAGTATGTAAATATACAACAAA
Found at i:55308568 original size:15 final size:16
Alignment explanation
Indices: 55308538--55308569 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
55308528 TTATATTATA
55308538 AAAATATTATTAAATT
1 AAAATATTATTAAATT
55308554 AAAATATTA-TAAATT
1 AAAATATTATTAAATT
55308569 A
1 A
55308570 TATTAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAAATATTATTAAATT
Found at i:55308573 original size:25 final size:26
Alignment explanation
Indices: 55308530--55308582 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
55308520 TTCTTGATTT
55308530 ATATTATAAAAATATTATTAAATTAAA
1 ATATTATAAAAATATTATT-AATTAAA
*
55308557 ATATTAT-AAATTA-TATTAATTAAA
1 ATATTATAAAAATATTATTAATTAAA
55308581 AT
1 AT
55308583 GAAGATAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 9 0.36
25 4 0.16
26 5 0.20
27 7 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (26 bp):
ATATTATAAAAATATTATTAATTAAA
Found at i:55308590 original size:25 final size:22
Alignment explanation
Indices: 55308540--55308597 Score: 53
Period size: 24 Copynumber: 2.4 Consensus size: 22
55308530 ATATTATAAA
**
55308540 AATATTATTAAATTAAAATATTAT
1 AATA-TATT-AATTAAAATAAGAT
55308564 AAATTATATTAATTAAAATGAAGAT
1 -AA-TATATTAATTAAAAT-AAGAT
55308589 AATATATTA
1 AATATATTA
55308598 TAGGAAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
23 7 0.24
24 11 0.38
25 9 0.31
26 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (22 bp):
AATATATTAATTAAAATAAGAT
Found at i:55308738 original size:3 final size:3
Alignment explanation
Indices: 55308730--55308761 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
55308720 AATAAAATAC
55308730 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
55308762 ACTAATGCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:55308816 original size:19 final size:19
Alignment explanation
Indices: 55308794--55308835 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
55308784 ATGAAATAAA
55308794 AGAATAG-AAAAAGAGAAAC
1 AGAATAGCAAAAAGA-AAAC
55308813 AGAATAGCTAAAAAGAAAAC
1 AGAATAGC-AAAAAGAAAAC
55308833 AGA
1 AGA
55308836 CGAAAAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.33
20 7 0.33
21 7 0.33
ACGTcount: A:0.67, C:0.07, G:0.19, T:0.07
Consensus pattern (19 bp):
AGAATAGCAAAAAGAAAAC
Found at i:55311652 original size:46 final size:46
Alignment explanation
Indices: 55311585--55311712 Score: 186
Period size: 46 Copynumber: 2.8 Consensus size: 46
55311575 ACTCAGTATA
55311585 GTTTTCTTCACTGAAATACCATACCTACTTTTCACAACTCAATAAG
1 GTTTTCTTCACTGAAATACCATACCTACTTTTCACAACTCAATAAG
* * * *
55311631 GTTTTCTTTA-TCGAAACACCATACCTACTTTTCACAACTCAGTATG
1 GTTTTCTTCACT-GAAATACCATACCTACTTTTCACAACTCAATAAG
* *
55311677 GTTTTCTTCACTGAAATACCATTCCTACGTTTCACA
1 GTTTTCTTCACTGAAATACCATACCTACTTTTCACA
55311713 TTTTGCCATG
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
45 1 0.01
46 70 0.97
47 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.08, T:0.37
Consensus pattern (46 bp):
GTTTTCTTCACTGAAATACCATACCTACTTTTCACAACTCAATAAG
Found at i:55316374 original size:103 final size:103
Alignment explanation
Indices: 55316055--55316407 Score: 548
Period size: 104 Copynumber: 3.4 Consensus size: 103
55316045 TGATGTGTGT
* *
55316055 TGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCTTTGAAATGTGAAAA-G
1 TGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCGTATCTTTGAAA--TGAAAAGG
*
55316118 GGGTTGCTATGTGCTGATTCCCCCGAAGGGTTGCTAAGTGC
63 GGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAAGTGC
* * * *
55316159 TGATTCCCTGGTTCATTGGTGGTGCTAAGTGCGATATCCACTGTATCTTTGAAATGTGAAAGGGG
1 TGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTTTGAAATG-AAAAGGGG
* *
55316224 GTTGCTATGTGCTGATTCCCCCAAGGGGTTGCTAAGTGT
65 GTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAAGTGC
*
55316263 TGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTTTGAAATGAAAAGGGGG
1 TGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTTTGAAATGAAAAGGGGG
55316328 TTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAAGTGC
66 TTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAAGTGC
* *
55316366 TGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACC
1 TGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
55316408 AATAACGGTT
Statistics
Matches: 229, Mismatches: 17, Indels: 7
0.91 0.07 0.03
Matches are distributed among these distances:
102 2 0.01
103 86 0.38
104 140 0.61
105 1 0.00
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (103 bp):
TGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCTTTGAAATGAAAAGGGGG
TTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAAGTGC
Found at i:55318157 original size:42 final size:42
Alignment explanation
Indices: 55318076--55318158 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
55318066 TCGTTTTCTC
* * * *
55318076 GATGCCATAGTCCAACTATAGTCTTATACATATTTACATATT
1 GATGCCATAGTCCAACTATAGTCTTACACAAAATCACATATT
*
55318118 GATGCCATAG-CCAAGCTATGGTCTTACACAAAATCACATAT
1 GATGCCATAGTCCAA-CTATAGTCTTACACAAAATCACATAT
55318159 CACTTACCGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 4 0.11
42 31 0.89
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (42 bp):
GATGCCATAGTCCAACTATAGTCTTACACAAAATCACATATT
Found at i:55318259 original size:49 final size:49
Alignment explanation
Indices: 55318118--55318245 Score: 204
Period size: 49 Copynumber: 2.6 Consensus size: 49
55318108 TTTACATATT
*
55318118 GATGCCATAGCCAAGCTATGGTCTTACACAAAATCACATATCACTTACC
1 GATGCCATAGCCAAGCTATGGTCTTACACGAAATCACATATCACTTACC
* * *
55318167 GATGCCACAGCCTAGCTATGGTCTTACACGAAATCGCATATCACTTACC
1 GATGCCATAGCCAAGCTATGGTCTTACACGAAATCACATATCACTTACC
55318216 GATGCCATAGCTC-AGCTATGGTCTTACACG
1 GATGCCATAGC-CAAGCTATGGTCTTACACG
55318246 GATACACACA
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
49 72 0.99
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (49 bp):
GATGCCATAGCCAAGCTATGGTCTTACACGAAATCACATATCACTTACC
Found at i:55323558 original size:22 final size:22
Alignment explanation
Indices: 55323530--55323577 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
55323520 GGCCTTAGCT
55323530 TGAAGGCTTTATAATTATTTTG
1 TGAAGGCTTTATAATTATTTTG
55323552 TGAAGGCTTTATAATTATTTTG
1 TGAAGGCTTTATAATTATTTTG
55323574 TGAA
1 TGAA
55323578 ATCATGACAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.29, C:0.04, G:0.19, T:0.48
Consensus pattern (22 bp):
TGAAGGCTTTATAATTATTTTG
Found at i:55323635 original size:22 final size:22
Alignment explanation
Indices: 55323607--55323662 Score: 76
Period size: 25 Copynumber: 2.4 Consensus size: 22
55323597 ATGTGGTCTA
55323607 GTGGCAAGGTGGCGACACAGGT
1 GTGGCAAGGTGGCGACACAGGT
*
55323629 GTGGCAAGGAGGTGGCGTCACAGGT
1 GTGGC-A--AGGTGGCGACACAGGT
55323654 GTGGCAAGG
1 GTGGCAAGG
55323663 AGGTCAGAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 8 0.27
23 1 0.03
24 1 0.03
25 20 0.67
ACGTcount: A:0.21, C:0.16, G:0.48, T:0.14
Consensus pattern (22 bp):
GTGGCAAGGTGGCGACACAGGT
Found at i:55323650 original size:25 final size:25
Alignment explanation
Indices: 55323613--55323666 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
55323603 TCTAGTGGCA
55323613 AGGTGGCGACACAGGTGTGGCAAGG
1 AGGTGGCGACACAGGTGTGGCAAGG
*
55323638 AGGTGGCGTCACAGGTGTGGCAAGG
1 AGGTGGCGACACAGGTGTGGCAAGG
55323663 AGGT
1 AGGT
55323667 CAGAAGTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.22, C:0.15, G:0.48, T:0.15
Consensus pattern (25 bp):
AGGTGGCGACACAGGTGTGGCAAGG
Found at i:55325179 original size:27 final size:27
Alignment explanation
Indices: 55325149--55325319 Score: 150
Period size: 27 Copynumber: 6.3 Consensus size: 27
55325139 TACCTCTTTA
* *
55325149 GGGTAAAATAACCAAAATACCCTCAAT
1 GGGTAAAATTATCAAAATACCCTCAAT
*
55325176 GGGTAAAATTATTAAAATACCC-CAAAT
1 GGGTAAAATTATCAAAATACCCTC-AAT
* * *
55325203 GGGTAAAATTTTTAAAATACCCTCGAT
1 GGGTAAAATTATCAAAATACCCTCAAT
* * * *
55325230 GGGTAAATTTATCGAAATACCCTTAAA
1 GGGTAAAATTATCAAAATACCCTCAAT
* * * *
55325257 AGATAAAATGA-CTGAAATACCCTCAAT
1 GGGTAAAATTATC-AAAATACCCTCAAT
* *
55325284 TGGTAAAATTATCGAAATACCCT-AAT
1 GGGTAAAATTATCAAAATACCCTCAAT
55325310 AGGGTAAAAT
1 -GGGTAAAAT
55325320 GATCGTCATA
Statistics
Matches: 117, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
26 5 0.04
27 110 0.94
28 2 0.02
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.26
Consensus pattern (27 bp):
GGGTAAAATTATCAAAATACCCTCAAT
Found at i:55325320 original size:54 final size:53
Alignment explanation
Indices: 55325125--55325321 Score: 205
Period size: 54 Copynumber: 3.6 Consensus size: 53
55325115 AAAAGGTTGT
* ** * *
55325125 TAAAATGATCGAAATACCTCTTTAGGGTAAAATAACCAAAATACCCTCAATGGG
1 TAAAATTATCGAAATACC-CTAAAGGGTAAAATGACTAAAATACCCTCAATGGG
** * *** *
55325179 TAAAATTATTAAAATACCCCAAATGGGTAAAATTTTTAAAATACCCTCGATGGG
1 TAAAATTATCGAAATACCCTAAA-GGGTAAAATGACTAAAATACCCTCAATGGG
* * * * *
55325233 TAAATTTATCGAAATACCCTTAAAAGATAAAATGACTGAAATACCCTCAATTGG
1 TAAAATTATCGAAATACCC-TAAAGGGTAAAATGACTAAAATACCCTCAATGGG
55325287 TAAAATTATCGAAATACCCTAATAGGGTAAAATGA
1 TAAAATTATCGAAATACCCTAA-AGGGTAAAATGA
55325322 TCGTCATACC
Statistics
Matches: 114, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
53 5 0.04
54 106 0.93
55 3 0.03
ACGTcount: A:0.44, C:0.16, G:0.13, T:0.27
Consensus pattern (53 bp):
TAAAATTATCGAAATACCCTAAAGGGTAAAATGACTAAAATACCCTCAATGGG
Found at i:55325324 original size:27 final size:27
Alignment explanation
Indices: 55325125--55325324 Score: 126
Period size: 27 Copynumber: 7.4 Consensus size: 27
55325115 AAAAGGTTGT
* *
55325125 TAAAATGATCGAAATACCTCT-TTAGGG
1 TAAAATTATCGAAATACC-CTAATAGGG
* * *
55325152 TAAAATAACCAAAATACCCTCAAT-GGG
1 TAAAATTATCGAAATACCCT-AATAGGG
** *
55325179 TAAAATTATTAAAATACCCCAA-ATGGG
1 TAAAATTATCGAAATACCCTAATA-GGG
* ** *
55325206 TAAAATTTTTAAAATACCCTCGAT-GGG
1 TAAAATTATCGAAATACCCT-AATAGGG
* * *
55325233 TAAATTTATCGAAATACCCTTAA-AAGA
1 TAAAATTATCGAAATACCC-TAATAGGG
* *
55325260 TAAAATGA-CTGAAATACCCTCAAT-TGG
1 TAAAATTATC-GAAATACCCT-AATAGGG
55325287 TAAAATTATCGAAATACCCTAATAGGG
1 TAAAATTATCGAAATACCCTAATAGGG
*
55325314 TAAAATGATCG
1 TAAAATTATCG
55325325 TCATACCCCT
Statistics
Matches: 135, Mismatches: 25, Indels: 26
0.73 0.13 0.14
Matches are distributed among these distances:
26 9 0.07
27 122 0.90
28 4 0.03
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (27 bp):
TAAAATTATCGAAATACCCTAATAGGG
Found at i:55326453 original size:25 final size:25
Alignment explanation
Indices: 55326419--55326470 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
55326409 AAAACACTTC
55326419 AATGTGACACGCCAGATTCGGGTCT
1 AATGTGACACGCCAGATTCGGGTCT
55326444 AATGTGACACGCCAGATTCGGGTCT
1 AATGTGACACGCCAGATTCGGGTCT
55326469 AA
1 AA
55326471 CTTCTAGGTC
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:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (25 bp):
AATGTGACACGCCAGATTCGGGTCT
Found at i:55351349 original size:20 final size:21
Alignment explanation
Indices: 55351290--55351349 Score: 52
Period size: 23 Copynumber: 2.8 Consensus size: 21
55351280 AAATGATAAT
*
55351290 AAATAATAATAA-AGTATATA
1 AAATAATAATAATAATATATA
* *
55351310 CAATAATAGTAATAGCA-ATATTA
1 AAATAATAATAATA--ATATA-TA
55351333 AAATAATAATAATAATA
1 AAATAATAATAATAATA
55351350 ATGATAATAC
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
20 10 0.33
21 2 0.07
22 4 0.13
23 14 0.47
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (21 bp):
AAATAATAATAATAATATATA
Found at i:55352754 original size:132 final size:132
Alignment explanation
Indices: 55352616--55352941 Score: 537
Period size: 132 Copynumber: 2.5 Consensus size: 132
55352606 GATTATTGGA
* * * ** *
55352616 TTAAATCTACTTCCCTACTACTTTGGGAAGATAAGAATCGTCGTCTTCGATCTGCTCCCCTACTG
1 TTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTG
* *
55352681 CTTAGGGAGACAGGATCTACAATCTTTAACCTACTCCACTGCTGCTCAGGGAGTTAGGACCAGCG
66 CTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACCAGCG
55352746 GC
131 GC
*
55352748 TTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCAATCTGCTCCACTACTG
1 TTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTG
* * *
55352813 CTTTGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTAGTG
66 CTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACCAGCG
55352878 GC
131 GC
55352880 TTAAATCTGCTT-CCTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTAC
1 TTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTAC
55352942 ACCGCTAGCG
Statistics
Matches: 181, Mismatches: 13, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
131 49 0.27
132 132 0.73
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.29
Consensus pattern (132 bp):
TTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTG
CTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACCAGCG
GC
Found at i:55353221 original size:89 final size:89
Alignment explanation
Indices: 55353011--55353576 Score: 729
Period size: 89 Copynumber: 6.4 Consensus size: 89
55353001 GGTAATAAGA
* * * * * ** *
55353011 CTGGCGTCTTCGATCTACTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATTTTCAACCTACTC
1 CTGGTGTCTTCGATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
* **** **
55353076 CACTGC-TGGTCAGGGAGATAAGG
66 CGCTGCAAACCCAGGGAGGCAAGG
* ** * * *
55353099 CTGGTGTCCTCGATCTGCTTCATTGTCAGTACAGGAAGGCAAGATCTGTTATTTTCAGTCTGCTC
1 CTGGTGTCTTCGATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
*
55353164 CGCTGCAAACCCAGTGAGGCAAGG
66 CGCTGCAAACCCAGGGAGGCAAGG
* * *
55353188 CTGGTGTCTTCGATCTGCTTTGTTGTCAATACAGGAAGGCAAGATCTGCTATCTTCAGTTTGCTC
1 CTGGTGTCTTCGATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
* *
55353253 CGCTGCAAACCTAGGGAGGCAAGA
66 CGCTGCAAACCCAGGGAGGCAAGG
* * * * *
55353277 CTAGTGTCTTTGATCTGCTTCGCTGTCAATACAAGAAGGCAAGATCTGCTATCTTCAGTCTGTTT
1 CTGGTGTCTTCGATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
55353342 CGCTGCAAACCCAGGGAGGCAAGG
66 CGCTGCAAACCCAGGGAGGCAAGG
* *
55353366 CTAGTGTCTTCGATCTCCTTCGCTGTCAATACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
1 CTGGTGTCTTCGATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
* * *
55353431 CACTACAAACCCAGAGAGGCAAGG
66 CGCTGCAAACCCAGGGAGGCAAGG
* * *
55353455 CCGGTGTCTTCGATCTGTTTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
1 CTGGTGTCTTCGATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
* *
55353520 CACTGCAAACCCAGTGAGGCAAGG
66 CGCTGCAAACCCAGGGAGGCAAGG
* *
55353544 CTGGTGTCTTCGATCTGTTTCGCTGTCAGTACA
1 CTGGTGTCTTCGATCTGCTTCGCTGTCAATACA
55353577 AAATTGAATC
Statistics
Matches: 423, Mismatches: 54, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
88 60 0.14
89 363 0.86
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.28
Consensus pattern (89 bp):
CTGGTGTCTTCGATCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTC
CGCTGCAAACCCAGGGAGGCAAGG
Found at i:55353228 original size:44 final size:44
Alignment explanation
Indices: 55353095--55353576 Score: 235
Period size: 45 Copynumber: 10.8 Consensus size: 44
55353085 TCAGGGAGAT
* ** *
55353095 AAGGCTGGTGTCCTCGATCTGCTTCATTGTCAGTACAGGAAGGC
1 AAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAATACAGGAAGGC
* * * * *
55353139 AAGATCTGTTATTTTC-AGTCTGCTCCGCTG-CAA-ACCCAGTG-AGGC
1 AAG-GCTGGTGTCTTCGA-TCTGCTTCGCTGTCAATA--CAG-GAAGGC
* *
55353184 AAGGCTGGTGTCTTCGATCTGCTTTGTTGTCAATACAGGAAGGC
1 AAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAATACAGGAAGGC
* * * * * *
55353228 AAGATCTGCTATCTTC-AGTTTGCTCCGCTG-CAA-ACCTAGGGAGGC
1 AAG-GCTGGTGTCTTCGA-TCTGCTTCGCTGTCAATA-C-AGGAAGGC
* * * *
55353273 AAGACTAGTGTCTTTGATCTGCTTCGCTGTCAATACAAGAAGGC
1 AAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAATACAGGAAGGC
* * * * *
55353317 AAGATCTGCTATCTTC-AGTCTGTTTCGCTG-CAA-ACCCAGGGAGGC
1 AAG-GCTGGTGTCTTCGA-TCTGCTTCGCTGTCAATA--CAGGAAGGC
* *
55353362 AAGGCTAGTGTCTTCGATCTCCTTCGCTGTCAATACAGGAAGGC
1 AAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAATACAGGAAGGC
* * * * * *
55353406 AAGATCTGCTATCTTC-AGTCTGCTCCACT-ACAA-ACCCA-GAGAGGC
1 AAG-GCTGGTGTCTTCGA-TCTGCTTCGCTGTCAATA--CAGGA-AGGC
* * *
55353451 AAGGCCGGTGTCTTCGATCTGTTTCGCTGTCAGTACAGGAAGGC
1 AAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAATACAGGAAGGC
* * * * *
55353495 AAGATCTGCTATCTTC-AGTCTGCTCCACTG-CAA-ACCCAGTG-AGGC
1 AAG-GCTGGTGTCTTCGA-TCTGCTTCGCTGTCAATA--CAG-GAAGGC
* *
55353540 AAGGCTGGTGTCTTCGATCTGTTTCGCTGTCAGTACA
1 AAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAATACA
55353577 AAATTGAATC
Statistics
Matches: 318, Mismatches: 80, Indels: 80
0.67 0.17 0.17
Matches are distributed among these distances:
43 6 0.02
44 151 0.47
45 154 0.48
46 7 0.02
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.28
Consensus pattern (44 bp):
AAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAATACAGGAAGGC
Found at i:55353762 original size:55 final size:55
Alignment explanation
Indices: 55353693--55353803 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
55353683 CTTAATCAAA
55353693 TTGGTAGGTTAATACCAATTTAACTGACTTATGCATTCGCTTATCTTTGGCGCTT
1 TTGGTAGGTTAATACCAATTTAACTGACTTATGCATTCGCTTATCTTTGGCGCTT
*
55353748 TTGGTAGGTTAATACCAATTTAACTGACTTATGCATTCGCTTATCTTTGGTGCTT
1 TTGGTAGGTTAATACCAATTTAACTGACTTATGCATTCGCTTATCTTTGGCGCTT
55353803 T
1 T
55353804 GTCATCTATG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.22, C:0.17, G:0.18, T:0.43
Consensus pattern (55 bp):
TTGGTAGGTTAATACCAATTTAACTGACTTATGCATTCGCTTATCTTTGGCGCTT
Found at i:55358086 original size:18 final size:18
Alignment explanation
Indices: 55358063--55358097 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
55358053 TTATATAATG
* *
55358063 TTTATATTCTTTTATGAT
1 TTTATATACTATTATGAT
55358081 TTTATATACTATTATGA
1 TTTATATACTATTATGA
55358098 GTCAGATTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.60
Consensus pattern (18 bp):
TTTATATACTATTATGAT
Found at i:55367213 original size:24 final size:23
Alignment explanation
Indices: 55367186--55367300 Score: 80
Period size: 16 Copynumber: 5.6 Consensus size: 23
55367176 AAATTAAAAT
55367186 AAAAATTATAAAAAGTATTTTTAA
1 AAAAATT-TAAAAAGTATTTTTAA
55367210 AAAAATTT--AAA--A---TTAA
1 AAAAATTTAAAAAGTATTTTTAA
*
55367226 AAAAATTAAAAAAAGTATTTTTAA
1 AAAAATT-TAAAAAGTATTTTTAA
55367250 AAAAATTT--AAA--A---TTAA
1 AAAAATTTAAAAAGTATTTTTAA
*
55367266 AAAAATTAAAAAAGTA-TTTTAA
1 AAAAATTTAAAAAGTATTTTTAA
*
55367288 AAAATTTTAAAAA
1 AAAAATTTAAAAA
55367301 AATTTTAAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 30
0.67 0.05 0.28
Matches are distributed among these distances:
16 22 0.31
18 3 0.04
19 5 0.07
20 1 0.01
21 7 0.10
22 15 0.21
23 1 0.01
24 18 0.25
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (23 bp):
AAAAATTTAAAAAGTATTTTTAA
Found at i:55367252 original size:39 final size:40
Alignment explanation
Indices: 55367186--55367299 Score: 196
Period size: 40 Copynumber: 2.9 Consensus size: 40
55367176 AAATTAAAAT
*
55367186 AAAAATTATAAAAAGTATTTTTAAAAAAATTTAAAATTAA
1 AAAAATTAAAAAAAGTATTTTTAAAAAAATTTAAAATTAA
55367226 AAAAATTAAAAAAAGTATTTTTAAAAAAATTTAAAATTAA
1 AAAAATTAAAAAAAGTATTTTTAAAAAAATTTAAAATTAA
*
55367266 AAAAATT-AAAAAAGTA-TTTTAAAAAATTTTAAAA
1 AAAAATTAAAAAAAGTATTTTTAAAAAAATTTAAAA
55367300 AAATTTTAAA
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
38 17 0.24
39 9 0.12
40 46 0.64
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (40 bp):
AAAAATTAAAAAAAGTATTTTTAAAAAAATTTAAAATTAA
Found at i:55367275 original size:49 final size:47
Alignment explanation
Indices: 55367218--55367329 Score: 145
Period size: 49 Copynumber: 2.3 Consensus size: 47
55367208 AAAAAAATTT
55367218 AAAATTAAAAAAATTAAAAAAAGTATTTTTAAAAAAA-TTTAAAATTAAA
1 AAAATTAAAAAAATTAAAAAAA--A-TTTTAAAAAAATTTTAAAATTAAA
**
55367267 AAAATTAAAAAAGTATTTTAAAAAATTTTAAAAAAATTTTAAAATTAAA
1 AAAATTAAAAAA--ATTAAAAAAAATTTTAAAAAAATTTTAAAATTAAA
55367316 AAAATTTAAAAAAA
1 AAAA-TTAAAAAAA
55367330 GTATTTTAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
48 12 0.21
49 29 0.51
50 8 0.14
51 8 0.14
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (47 bp):
AAAATTAAAAAAATTAAAAAAAATTTTAAAAAAATTTTAAAATTAAA
Found at i:55367289 original size:11 final size:10
Alignment explanation
Indices: 55367262--55367310 Score: 53
Period size: 10 Copynumber: 4.6 Consensus size: 10
55367252 AAATTTAAAA
*
55367262 TTAAAAAAAT
1 TTAAAAAATT
*
55367272 TAAAAAAGTATT
1 TTAAAAA--ATT
55367284 TTAAAAAATT
1 TTAAAAAATT
55367294 TTAAAAAAATT
1 TT-AAAAAATT
55367305 TTAAAA
1 TTAAAA
55367311 TTAAAAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
10 15 0.45
11 10 0.30
12 8 0.24
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (10 bp):
TTAAAAAATT
Found at i:55367316 original size:17 final size:16
Alignment explanation
Indices: 55367294--55367326 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
55367284 TTAAAAAATT
55367294 TTAAAAAAATTTTAAAA
1 TTAAAAAAA-TTTAAAA
55367311 TTAAAAAAATTTAAAA
1 TTAAAAAAATTTAAAA
55367327 AAAGTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TTAAAAAAATTTAAAA
Found at i:55369248 original size:13 final size:13
Alignment explanation
Indices: 55369230--55369254 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55369220 ATTGGACTTT
55369230 GAATTTATATTTG
1 GAATTTATATTTG
55369243 GAATTTATATTT
1 GAATTTATATTT
55369255 ATTTATGCGG
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:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
GAATTTATATTTG
Found at i:55372684 original size:12 final size:12
Alignment explanation
Indices: 55372667--55372691 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
55372657 AAGTATATCA
55372667 GCTTTAGTTTTT
1 GCTTTAGTTTTT
55372679 GCTTTAGTTTTT
1 GCTTTAGTTTTT
55372691 G
1 G
55372692 AGGTATAGAG
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:0.08, C:0.08, G:0.20, T:0.64
Consensus pattern (12 bp):
GCTTTAGTTTTT
Found at i:55373720 original size:22 final size:24
Alignment explanation
Indices: 55373659--55373727 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 24
55373649 CTCGACTTTC
55373659 ATTTTCATATGCTTATCAAATATA
1 ATTTTCATATGCTTATCAAATATA
* *
55373683 AGTATT-ATAT--TAATCAAAT-T-
1 A-TTTTCATATGCTTATCAAATATA
55373703 ATTTTCATATGCTTATCAAATATA
1 ATTTTCATATGCTTATCAAATATA
55373727 A
1 A
55373728 GTATGCTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
19 3 0.09
20 5 0.14
21 1 0.03
22 16 0.46
23 1 0.03
24 6 0.17
25 3 0.09
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.45
Consensus pattern (24 bp):
ATTTTCATATGCTTATCAAATATA
Found at i:55374375 original size:13 final size:13
Alignment explanation
Indices: 55374357--55374420 Score: 110
Period size: 13 Copynumber: 4.9 Consensus size: 13
55374347 ACACTCAAAT
55374357 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
55374370 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
* *
55374383 TTCTGAAAAGTAC
1 TTCTCAAAAGCAC
55374396 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
55374409 TTCTCAAAAGCA
1 TTCTCAAAAGCA
55374421 ATGAAGAACT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 47 1.00
ACGTcount: A:0.39, C:0.27, G:0.09, T:0.25
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:55381433 original size:24 final size:25
Alignment explanation
Indices: 55381396--55381448 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
55381386 TCTTTTTGCA
*
55381396 TTCATTCCATTCATCTGCATTACAT
1 TTCATTCCATTCATCTGCATTAAAT
* *
55381421 TTCATTGCA-TCATTTGCATTAAAT
1 TTCATTCCATTCATCTGCATTAAAT
55381445 TTCA
1 TTCA
55381449 CGAAAGAGCC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 17 0.68
25 8 0.32
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.45
Consensus pattern (25 bp):
TTCATTCCATTCATCTGCATTAAAT
Found at i:55384173 original size:1 final size:1
Alignment explanation
Indices: 55384167--55384218 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
55384157 CAGTGGAGGC
* * * * * *
55384167 AAAAAAAAAAACAAAAAAACAAATAAAAAAACAAACAAAAAAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
55384219 CCCTTTGCCT
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.88, C:0.08, G:0.02, T:0.02
Consensus pattern (1 bp):
A
Found at i:55384218 original size:12 final size:12
Alignment explanation
Indices: 55384166--55384210 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
55384156 ACAGTGGAGG
55384166 CAAAAAAAAAAA
1 CAAAAAAAAAAA
*
55384178 CAAAAAAACAAA
1 CAAAAAAAAAAA
* *
55384190 TAAAAAAACAAA
1 CAAAAAAAAAAA
55384202 CAAAAAAAA
1 CAAAAAAAA
55384211 GAAAAAAACC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.87, C:0.11, G:0.00, T:0.02
Consensus pattern (12 bp):
CAAAAAAAAAAA
Found at i:55384218 original size:24 final size:23
Alignment explanation
Indices: 55384167--55384218 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 23
55384157 CAGTGGAGGC
55384167 AAAAAAAAAAACAAAAAAACAAA
1 AAAAAAAAAAACAAAAAAACAAA
* *
55384190 TAAAAAAACAAACAAAAAAA-AGA
1 -AAAAAAAAAAACAAAAAAACAAA
55384213 AAAAAA
1 AAAAAA
55384219 CCCTTTGCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 6 0.23
23 2 0.08
24 18 0.69
ACGTcount: A:0.88, C:0.08, G:0.02, T:0.02
Consensus pattern (23 bp):
AAAAAAAAAAACAAAAAAACAAA
Found at i:55384666 original size:6 final size:6
Alignment explanation
Indices: 55384657--55384737 Score: 69
Period size: 6 Copynumber: 13.5 Consensus size: 6
55384647 AAAAAAATAA
* *
55384657 AAAAAG AAAAA- ATAAAAG AGAAAAT AAAAAG AAAAAGG AAAATG -AAAAG
1 AAAAAG AAAAAG A-AAAAG A-AAAAG AAAAAG AAAAA-G AAAAAG AAAAAG
* * *
55384706 AAAAAT AAAAAT AAGAA- AAAAAG AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
55384738 TTAAAGGAGA
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
5 9 0.15
6 42 0.68
7 11 0.18
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (6 bp):
AAAAAG
Found at i:55384668 original size:18 final size:18
Alignment explanation
Indices: 55384647--55384737 Score: 62
Period size: 17 Copynumber: 5.1 Consensus size: 18
55384637 AAAATATTCC
*
55384647 AAAAAAATA-AAAAAAGA
1 AAAAAAAAAGAAAAAAGA
* *
55384664 AAAAATAAAAGAGAAAATA
1 AAAAA-AAAAGAAAAAAGA
* *
55384683 AAAAGAAAAAGGAAAATGA
1 AAAA-AAAAAGAAAAAAGA
* * *
55384702 AAAGAAAAA-TAAAAATA
1 AAAAAAAAAGAAAAAAGA
*
55384719 AGAAAAAAAG-AAAAAGA
1 AAAAAAAAAGAAAAAAGA
55384736 AA
1 AA
55384738 TTAAAGGAGA
Statistics
Matches: 55, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
17 24 0.44
18 8 0.15
19 22 0.40
20 1 0.02
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.07
Consensus pattern (18 bp):
AAAAAAAAAGAAAAAAGA
Found at i:55384698 original size:12 final size:12
Alignment explanation
Indices: 55384650--55384733 Score: 60
Period size: 13 Copynumber: 6.4 Consensus size: 12
55384640 ATATTCCAAA
55384650 AAAATAAAAAAAG
1 AAAA-AAAAAAAG
*
55384663 AAAAAATAAAAG
1 AAAAAAAAAAAG
*
55384675 AGAAAATAAAAAG
1 A-AAAAAAAAAAG
* *
55384688 AAAAAGGAAAATG
1 AAAAA-AAAAAAG
*
55384701 AAAAGAAAAATAAA
1 AAAA-AAAAA-AAG
55384715 AATAAGAAAAAAAG
1 AA-AA-AAAAAAAG
55384729 AAAAA
1 AAAAA
55384734 GAAATTAAAG
Statistics
Matches: 57, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
12 13 0.23
13 28 0.49
14 8 0.14
15 8 0.14
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.07
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:55385491 original size:15 final size:15
Alignment explanation
Indices: 55385471--55385511 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 15
55385461 TGACATTCTG
55385471 CATTCATACAAATAT
1 CATTCATACAAATAT
*
55385486 CATTCAATGCAAATAT
1 CATTC-ATACAAATAT
55385502 CATTCATACA
1 CATTCATACA
55385512 CATCTAGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.44, C:0.22, G:0.02, T:0.32
Consensus pattern (15 bp):
CATTCATACAAATAT
Found at i:55385877 original size:50 final size:49
Alignment explanation
Indices: 55385815--55386478 Score: 236
Period size: 50 Copynumber: 13.4 Consensus size: 49
55385805 CTAAAACGGC
* *
55385815 GAATCTTGCTTCCTCCACATTTCAATTAAAAAGATTGAAGCCACAACAGA
1 GAATCTTACTTCC-CCACATTACAATTAAAAAGATTGAAGCCACAACAGA
* ** ** * ** * **
55385865 AAATCTTACTTCCCTGGCGGTACAGTGCAATAGATTGAAGTTACAACA-A
1 GAATCTTACTTCCC-CACATTACAATTAAAAAGATTGAAGCCACAACAGA
* *
55385914 CGAATCTTCCTTCCCCGACATTACAACTAAAAAGATTGAAGCCACAAC-GA
1 -GAATCTTACTTCCCC-ACATTACAATTAAAAAGATTGAAGCCACAACAGA
** ** * * ** * * *
55385964 CGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTACAGCAGCA
1 -GAATCTTACTTCCC-CACATTACAATTAAAAAGATTGAAGCCACAACAG-A
* * * *
55386016 -AATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGT
1 GAATCTTACTTCCCC-ACATTACAATTAAAAAGATTGAAGCCACAACAGA
* ** * ** * * * * *
55386065 GAATCTTACTTCCCTA-ATAGTGTAGTGGAACAGATTTAAGCTACAACGGT
1 GAATCTTACTTCCCCACAT--TACAATTAAAAAGATTGAAGCCACAACAGA
* * * * * *
55386115 GAATATTGCTTCCCCGTCATTGCAATTAAAAAGATTGAAGCCAAAACAGT
1 GAATCTTACTTCCCC-ACATTACAATTAAAAAGATTGAAGCCACAACAGA
* * * * ** ** * *
55386165 GAATCTTACTTCCCTAGCAGTGCAGTGGAGCAGATTGAAGCTATAAC-GA
1 GAATCTTACTTCCCCA-CATTACAATTAAAAAGATTGAAGCCACAACAGA
* * * * ** * *
55386214 CAAATCTTGCTTGTCCGACATTGTAATTAAAAAGATTGAAGCCACAACGGT
1 -GAATCTTACTT-CCCCACATTACAATTAAAAAGATTGAAGCCACAACAGA
* * *
55386265 GAATCTTA------GACATTACAATTAAAAAGATTGAAGCCACAACGGT
1 GAATCTTACTTCCCCACATTACAATTAAAAAGATTGAAGCCACAACAGA
** ** * ** ** * * * * *
55386308 GAATCTTACTTCCCTGGCGGTGCGGTGGAATAGATTGAAGCTATAACGGT
1 GAATCTTACTTCCC-CACATTACAATTAAAAAGATTGAAGCCACAACAGA
* *
55386358 GAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAAC-GA
1 GAATCTTACTTCCCC-ACATTACAATTAAAAAGATTGAAGCCACAACAGA
* * * * ** * * *
55386407 CGAATCTTACTTCCCTAGCAGTGCAGTGGAACAGATTGAAGCTACAACAGT
1 -GAATCTTACTTCCCCA-CATTACAATTAAAAAGATTGAAGCCACAACAGA
55386458 GAATCTTACTTCCCCGACATT
1 GAATCTTACTTCCCC-ACATT
55386479 GCAGTTAATT
Statistics
Matches: 445, Mismatches: 140, Indels: 58
0.69 0.22 0.09
Matches are distributed among these distances:
43 41 0.09
48 2 0.00
49 6 0.01
50 386 0.87
51 7 0.02
52 3 0.01
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (49 bp):
GAATCTTACTTCCCCACATTACAATTAAAAAGATTGAAGCCACAACAGA
Found at i:55385927 original size:100 final size:100
Alignment explanation
Indices: 55385787--55386272 Score: 562
Period size: 100 Copynumber: 4.9 Consensus size: 100
55385777 TTTGGCATTA
* * ** *
55385787 CAGTGGAACAGATTAAAGCTAAAACGGCGAATCTTGCTTCCTCC-ACATTTCAATTAAAAAGATT
1 CAGTGGAACAGATTGAAGCTACAACAACGAATCTTGCTTCC-CCGACATTGCAATTAAAAAGATT
* * * *
55385851 GAAGCCACAACAGAAAATCTTACTTCCCTGGCGGTA
65 GAAGCCACAACAGAGAATCTTACTTCCCTAGCAGTG
* * * * * *
55385887 CAGTGCAATAGATTGAAGTTACAACAACGAATCTTCCTTCCCCGACATTACAACTAAAAAGATTG
1 CAGTGGAACAGATTGAAGCTACAACAACGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTG
* *
55385952 AAGCCACAAC-GACGAATCTTACTTCCCTGGCGGTG
66 AAGCCACAACAGA-GAATCTTACTTCCCTAGCAGTG
* * *
55385987 CAGTGGAACAGATTGAAGCTACAGCAGCAAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTG
1 CAGTGGAACAGATTGAAGCTACAACAACGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTG
* * **
55386052 AAGCCACAACGGTGAATCTTACTTCCCTAATAGTG
66 AAGCCACAACAGAGAATCTTACTTCCCTAGCAGTG
* * *** * *
55386087 TAGTGGAACAGATTTAAGCTACAACGGTGAATATTGCTTCCCCGTCATTGCAATTAAAAAGATTG
1 CAGTGGAACAGATTGAAGCTACAACAACGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTG
* *
55386152 AAGCCAAAACAGTGAATCTTACTTCCCTAGCAGTG
66 AAGCCACAACAGAGAATCTTACTTCCCTAGCAGTG
* * * * ** *
55386187 CAGTGGAGCAGATTGAAGCTATAACGACAAATCTTGCTTGTCCGACATTGTAATTAAAAAGATTG
1 CAGTGGAACAGATTGAAGCTACAACAACGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTG
* *
55386252 AAGCCACAACGGTGAATCTTA
66 AAGCCACAACAGAGAATCTTA
55386273 GACATTACAA
Statistics
Matches: 331, Mismatches: 52, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
99 4 0.01
100 326 0.98
101 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.25
Consensus pattern (100 bp):
CAGTGGAACAGATTGAAGCTACAACAACGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTG
AAGCCACAACAGAGAATCTTACTTCCCTAGCAGTG
Found at i:55386336 original size:143 final size:143
Alignment explanation
Indices: 55386132--55386415 Score: 424
Period size: 143 Copynumber: 2.0 Consensus size: 143
55386122 GCTTCCCCGT
* *
55386132 CATTGCAATTAAAAAGATTGAAGCCAAAACAGTGAATCTTACTTCCCTAGCAGTGCAGTGGAGCA
1 CATTACAATTAAAAAGATTGAAGCCAAAACAGTGAATCTTACTTCCCTAGCAGTGCAGTGGAACA
** *
55386197 GATTGAAGCTATAACGACAAATCTTGCTTGTCCGACATTGTAATTAAAAAGATTGAAGCCACAAC
66 GATTGAAGCTATAACGACAAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAAC
**
55386262 GGTGAATCTTAGA
131 GACGAATCTTAGA
* * * * * *
55386275 CATTACAATTAAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGCGGTGGAATA
1 CATTACAATTAAAAAGATTGAAGCCAAAACAGTGAATCTTACTTCCCTAGCAGTGCAGTGGAACA
***
55386340 GATTGAAGCTATAACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAAC
66 GATTGAAGCTATAACGACAAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAAC
55386405 GACGAATCTTA
131 GACGAATCTTA
55386416 CTTCCCTAGC
Statistics
Matches: 125, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
143 125 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (143 bp):
CATTACAATTAAAAAGATTGAAGCCAAAACAGTGAATCTTACTTCCCTAGCAGTGCAGTGGAACA
GATTGAAGCTATAACGACAAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAAC
GACGAATCTTAGA
Found at i:55386402 original size:100 final size:100
Alignment explanation
Indices: 55386273--55386486 Score: 329
Period size: 100 Copynumber: 2.1 Consensus size: 100
55386263 GTGAATCTTA
* ** * * *
55386273 GACATTACAATTAAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGCGGTGGAA
1 GACATTGCAATTAAAAAGATTGAAGCCACAACGACGAATCTTACTTCCCTAGCAGTGCAGTGGAA
* * * *
55386338 TAGATTGAAGCTATAACGGTGAATCTTGCTTCCCC
66 CAGATTGAAGCTACAACAGTGAATCTTACTTCCCC
55386373 GACATTGCAATTAAAAAGATTGAAGCCACAACGACGAATCTTACTTCCCTAGCAGTGCAGTGGAA
1 GACATTGCAATTAAAAAGATTGAAGCCACAACGACGAATCTTACTTCCCTAGCAGTGCAGTGGAA
55386438 CAGATTGAAGCTACAACAGTGAATCTTACTTCCCC
66 CAGATTGAAGCTACAACAGTGAATCTTACTTCCCC
*
55386473 GACATTGCAGTTAA
1 GACATTGCAATTAA
55386487 TTAGACTGAA
Statistics
Matches: 103, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
100 103 1.00
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.25
Consensus pattern (100 bp):
GACATTGCAATTAAAAAGATTGAAGCCACAACGACGAATCTTACTTCCCTAGCAGTGCAGTGGAA
CAGATTGAAGCTACAACAGTGAATCTTACTTCCCC
Found at i:55386477 original size:243 final size:243
Alignment explanation
Indices: 55386030--55386479 Score: 679
Period size: 243 Copynumber: 1.9 Consensus size: 243
55386020 TTGCTTCCCC
* * *
55386030 GACATTGCAATTAAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTAATAGTGTAGTGGAA
1 GACATTACAATTAAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTAACAGTGCAGTGGAA
* *
55386095 CAGATTTAAGCTACAACGGTGAATATTGCTTCCCCGTCATTGCAATTAAAAAGATTGAAGCCAAA
66 CAGATTGAAGCTACAACGGTGAATATTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCAAA
* * * *
55386160 ACAGTGAATCTTACTTCCCTAGCAGTGCAGTGGAGCAGATTGAAGCTATAACGACAAATCTTGCT
131 ACAGCGAATCTTACTTCCCTAGCAGTGCAGTGGAACAGATTGAAGCTACAACGACAAATCTTACT
**
55386225 TGTCCGACATTGTAATTAAAAAGATTGAAGCCACAACGGTGAATCTTA
196 TCCCCGACATTGTAATTAAAAAGATTGAAGCCACAACGGTGAATCTTA
** * *
55386273 GACATTACAATTAAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGCGGTGGAA
1 GACATTACAATTAAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTAACAGTGCAGTGGAA
* * * *
55386338 TAGATTGAAGCTATAACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACA
66 CAGATTGAAGCTACAACGGTGAATATTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCAAA
**
55386403 AC-GACGAATCTTACTTCCCTAGCAGTGCAGTGGAACAGATTGAAGCTACAAC-AGTGAATCTTA
131 ACAG-CGAATCTTACTTCCCTAGCAGTGCAGTGGAACAGATTGAAGCTACAACGA-CAAATCTTA
55386466 CTTCCCCGACATTG
194 CTTCCCCGACATTG
55386480 CAGTTAATTA
Statistics
Matches: 184, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
242 2 0.01
243 182 0.99
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (243 bp):
GACATTACAATTAAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTAACAGTGCAGTGGAA
CAGATTGAAGCTACAACGGTGAATATTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCAAA
ACAGCGAATCTTACTTCCCTAGCAGTGCAGTGGAACAGATTGAAGCTACAACGACAAATCTTACT
TCCCCGACATTGTAATTAAAAAGATTGAAGCCACAACGGTGAATCTTA
Found at i:55386497 original size:100 final size:98
Alignment explanation
Indices: 55386273--55386538 Score: 315
Period size: 100 Copynumber: 2.7 Consensus size: 98
55386263 GTGAATCTTA
* * * * *
55386273 GACATTACAATTAAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGCGGTGGAA
1 GACATTGCAATTAAAAAGACTGAAGCCACAAC-GCGAATCTTACTTCCCT-GCAGTGCAGTGGAA
* * * *
55386338 TAGATTGAAGCTATAACGGTGAATCTTGCTTCCCC
64 CAGATTGAAGCTACAACAGTGAATCTTACTTCCCC
*
55386373 GACATTGCAATTAAAAAGATTGAAGCCACAACGACGAATCTTACTTCCCTAGCAGTGCAGTGGAA
1 GACATTGCAATTAAAAAGACTGAAGCCACAACG-CGAATCTTACTTCCCT-GCAGTGCAGTGGAA
55386438 CAGATTGAAGCTACAACAGTGAATCTTACTTCCCC
64 CAGATTGAAGCTACAACAGTGAATCTTACTTCCCC
* ** * * *
55386473 GACATTGCAGTTAATTAGACTGAAG--A-TA-GCGAATCTTATTTCCCTGAAGTTGCAGTGGAAC
1 GACATTGCAATTAAAAAGACTGAAGCCACAACGCGAATCTTACTTCCCTGCAG-TGCAGTGGAAC
55386534 AGATT
65 AGATT
55386539 AAATCTATAA
Statistics
Matches: 148, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
94 3 0.02
95 31 0.21
96 1 0.01
97 1 0.01
98 1 0.01
99 1 0.01
100 110 0.74
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (98 bp):
GACATTGCAATTAAAAAGACTGAAGCCACAACGCGAATCTTACTTCCCTGCAGTGCAGTGGAACA
GATTGAAGCTACAACAGTGAATCTTACTTCCCC
Found at i:55390401 original size:11 final size:11
Alignment explanation
Indices: 55390387--55390411 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
55390377 TTATTGTCTT
55390387 TTTATTTAATA
1 TTTATTTAATA
55390398 TTTATTTAATA
1 TTTATTTAATA
55390409 TTT
1 TTT
55390412 TACTATATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTATTTAATA
Found at i:55394499 original size:19 final size:19
Alignment explanation
Indices: 55394475--55394511 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
55394465 TAAATTTGAT
55394475 ATTATTATTGTTATTATTA
1 ATTATTATTGTTATTATTA
* *
55394494 ATTATTGTTGTTGTTATT
1 ATTATTATTGTTATTATT
55394512 TACTCATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.11, T:0.65
Consensus pattern (19 bp):
ATTATTATTGTTATTATTA
Found at i:55411882 original size:17 final size:15
Alignment explanation
Indices: 55411857--55411895 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
55411847 TGAGTCTAGT
55411857 TTTCATTTTTGTTTGTG
1 TTTC-TTTTTGTTT-TG
55411874 TTTCTTTTTGTTTTG
1 TTTCTTTTTGTTTTG
55411889 TTT-TTTT
1 TTTCTTTT
55411896 AGCCAACTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.18
15 5 0.23
16 9 0.41
17 4 0.18
ACGTcount: A:0.03, C:0.05, G:0.13, T:0.79
Consensus pattern (15 bp):
TTTCTTTTTGTTTTG
Found at i:55413351 original size:31 final size:30
Alignment explanation
Indices: 55413301--55413367 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
55413291 ATATAGATTT
*
55413301 TAATTTGGTGCAATTATATA-TGTAAAACTC
1 TAATTTGGTGCAAATATATACT-TAAAACTC
* *
55413331 TAATTATGGTTCAAATATATACTTAAAACTT
1 TAATT-TGGTGCAAATATATACTTAAAACTC
55413362 TAATTT
1 TAATTT
55413368 TGATTTAATC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 6 0.19
31 25 0.78
32 1 0.03
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (30 bp):
TAATTTGGTGCAAATATATACTTAAAACTC
Found at i:55440030 original size:34 final size:34
Alignment explanation
Indices: 55439987--55440057 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
55439977 ACTCACAAAA
55439987 GCATAAACTACTTTCTTAATTAATCTAAGGAAAT
1 GCATAAACTACTTTCTTAATTAATCTAAGGAAAT
*
55440021 GCATAAACTACTTTCTTAATTAATCTAAGGGAAT
1 GCATAAACTACTTTCTTAATTAATCTAAGGAAAT
55440055 GCA
1 GCA
55440058 AAGATATCAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.34
Consensus pattern (34 bp):
GCATAAACTACTTTCTTAATTAATCTAAGGAAAT
Found at i:55446038 original size:2 final size:2
Alignment explanation
Indices: 55446031--55446093 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
55446021 AGTGAGTATA
55446031 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
55446073 TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG T
55446094 CAGATACGTA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:55454601 original size:18 final size:17
Alignment explanation
Indices: 55454568--55454606 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
55454558 TTGTATAAAT
55454568 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
55454586 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
55454603 TGTG
1 TGTG
55454607 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:55454859 original size:23 final size:23
Alignment explanation
Indices: 55454832--55454929 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
55454822 AGTGTTATTG
55454832 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
55454855 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
55454878 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
55454900 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
55454923 ATCAGTG
1 ATCAGTG
55454930 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:55454898 original size:45 final size:45
Alignment explanation
Indices: 55454834--55454922 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
55454824 TGTTATTGAT
* *
55454834 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
55454879 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
55454923 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:55460970 original size:20 final size:21
Alignment explanation
Indices: 55460937--55460975 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
55460927 CAAGAAAGAA
*
55460937 GAAATAGAGCAAGTGATCGGG
1 GAAATAGAGAAAGTGATCGGG
*
55460958 GAAA-AGAGAAAGTTATCG
1 GAAATAGAGAAAGTGATCG
55460976 ACTAAATTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.44, C:0.08, G:0.33, T:0.15
Consensus pattern (21 bp):
GAAATAGAGAAAGTGATCGGG
Found at i:55461081 original size:18 final size:17
Alignment explanation
Indices: 55461048--55461086 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
55461038 TTGTATAAAT
55461048 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
55461066 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
55461083 TGTG
1 TGTG
55461087 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:55461339 original size:23 final size:23
Alignment explanation
Indices: 55461312--55461409 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
55461302 AGTGTTATTG
55461312 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
55461335 TTCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
55461358 -CCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
55461380 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
55461403 ATCAGTG
1 ATCAGTG
55461410 TGGCACTTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:55461378 original size:45 final size:45
Alignment explanation
Indices: 55461314--55461402 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
55461304 TGTTATTGAT
* *
55461314 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
55461359 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACAT
55461403 ATCAGTGTGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.31
Consensus pattern (45 bp):
CAGTGGTAGCTTCGGCTACATATCAGTGGTAGCTTCGGCTACATC
Found at i:55465238 original size:31 final size:32
Alignment explanation
Indices: 55465179--55465243 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
55465169 GGCAAATTAC
55465179 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
55465211 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
55465242 AA
1 AA
55465244 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Done.