Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 286 of 318
Found at i:90504589 original size:18 final size:17
Alignment explanation
Indices: 90504566--90504628 Score: 60
Period size: 18 Copynumber: 3.7 Consensus size: 17
90504556 AAATTACATA
90504566 AAATTATGAAAATATAAT
1 AAATTAT-AAAATATAAT
*
90504584 AAATTATATAA-ATAA-
1 AAATTATAAAATATAAT
*
90504599 AAATTATCAAATATAAAAT
1 AAATTAT-AAA-ATATAAT
90504618 AAATTA-AAAAT
1 AAATTATAAAAT
90504629 TATATGAAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
15 7 0.18
16 8 0.21
17 7 0.18
18 10 0.26
19 6 0.16
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (17 bp):
AAATTATAAAATATAAT
Found at i:90505488 original size:22 final size:20
Alignment explanation
Indices: 90505463--90505503 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 20
90505453 TAGATTAAGG
90505463 GTAATTTTTTTAATAATTTTTT
1 GTAATTTTTTT-AT-ATTTTTT
90505485 GTAATTTTTTTATATTTTT
1 GTAATTTTTTTATATTTTT
90505504 ATAGTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.32
21 2 0.11
22 11 0.58
ACGTcount: A:0.24, C:0.00, G:0.05, T:0.71
Consensus pattern (20 bp):
GTAATTTTTTTATATTTTTT
Found at i:90505549 original size:10 final size:8
Alignment explanation
Indices: 90505526--90505636 Score: 62
Period size: 8 Copynumber: 12.4 Consensus size: 8
90505516 TAGGGGTTTT
90505526 TTTTATAA
1 TTTTATAA
90505534 TTTTATAA
1 TTTTATAA
*
90505542 TATGTTATAT
1 T-T-TTATAA
90505552 TTTTCATAA
1 TTTT-ATAA
90505561 TTTTATGTATA
1 TTTTA--TA-A
90505572 CTTTCTATAA
1 -TTT-TATAA
90505582 TTTTCTATTAA
1 -TTT-TA-TAA
*
90505593 TTTTA-ATT
1 TTTTATA-A
90505601 TTTATATAA
1 TTT-TATAA
**
90505610 TTTTGCAA
1 TTTTATAA
90505618 TTTTATAA
1 TTTTATAA
90505626 TTTTATAA
1 TTTTATAA
90505634 TTT
1 TTT
90505637 GTTTAAATAT
Statistics
Matches: 82, Mismatches: 9, Indels: 24
0.71 0.08 0.21
Matches are distributed among these distances:
7 1 0.01
8 35 0.43
9 16 0.20
10 19 0.23
11 6 0.07
12 3 0.04
13 2 0.02
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (8 bp):
TTTTATAA
Found at i:90505554 original size:26 final size:27
Alignment explanation
Indices: 90505494--90505566 Score: 80
Period size: 26 Copynumber: 2.7 Consensus size: 27
90505484 TGTAATTTTT
* *
90505494 TTATATTTTTATAGTTTTAAAATAGGGG
1 TTATATTTTTATAATTTTATAATA-GGG
*
90505522 TT-T-TTTTTATAATTTTATAATA-TG
1 TTATATTTTTATAATTTTATAATAGGG
90505546 TTATATTTTTCATAATTTTAT
1 TTATATTTTT-ATAATTTTAT
90505567 GTATACTTTC
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 3 0.08
25 1 0.03
26 22 0.56
27 11 0.28
28 2 0.05
ACGTcount: A:0.30, C:0.01, G:0.08, T:0.60
Consensus pattern (27 bp):
TTATATTTTTATAATTTTATAATAGGG
Found at i:90505601 original size:17 final size:17
Alignment explanation
Indices: 90505579--90505613 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
90505569 ATACTTTCTA
90505579 TAATTTTCTAT-TAATTT
1 TAATTTT-TATATAATTT
90505596 TAATTTTTATATAATTT
1 TAATTTTTATATAATTT
90505613 T
1 T
90505614 GCAATTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.18
17 14 0.82
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (17 bp):
TAATTTTTATATAATTT
Found at i:90514655 original size:25 final size:25
Alignment explanation
Indices: 90514618--90514676 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
90514608 TAAACTATTA
*
90514618 ATATATTAT-ATATTATA-TGATATG
1 ATATAATATAATATTATATTG-TATG
* *
90514642 ATATAATATAATATTGTATTGTATT
1 ATATAATATAATATTATATTGTATG
90514667 ATATAATATA
1 ATATAATATA
90514677 GTAGTAAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.27
25 20 0.67
26 2 0.07
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (25 bp):
ATATAATATAATATTATATTGTATG
Found at i:90518254 original size:26 final size:26
Alignment explanation
Indices: 90518218--90518301 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
90518208 CATGAAATTC
*
90518218 TTATCATGAAACATTTACCTAACCCG
1 TTATCATGAAACATTTACCTAACCCA
90518244 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
90518270 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
90518296 TTATCA
1 TTATCA
90518302 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:90520052 original size:27 final size:27
Alignment explanation
Indices: 90519955--90520059 Score: 135
Period size: 27 Copynumber: 3.9 Consensus size: 27
90519945 AGGAAGCGTC
*
90519955 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
90519982 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
90520009 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
90520036 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
90520060 GCAGCCTCGC
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
26 9 0.13
27 61 0.86
28 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:90524500 original size:25 final size:26
Alignment explanation
Indices: 90524463--90524514 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
90524453 TCAAACATGC
90524463 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
90524489 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
90524514 A
1 A
90524515 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:90526021 original size:26 final size:26
Alignment explanation
Indices: 90525990--90526097 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
90525980 TGAAATGCCC
*
90525990 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
90526016 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
90526042 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
90526068 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
90526094 ATCA
1 ATCA
90526098 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:90532789 original size:26 final size:26
Alignment explanation
Indices: 90532758--90532865 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
90532748 TGAAATGCCC
90532758 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
90532784 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
* *
90532810 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
90532836 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
90532862 ATCA
1 ATCA
90532866 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
25 4 0.05
26 69 0.91
27 3 0.04
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:90533627 original size:5 final size:5
Alignment explanation
Indices: 90533607--90533641 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
90533597 TTTTATTTAA
90533607 ATTAT A-TAT A-TAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
90533642 AATTGATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 8 0.28
5 21 0.72
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
ATTAT
Found at i:90533662 original size:3 final size:3
Alignment explanation
Indices: 90533619--90533709 Score: 77
Period size: 3 Copynumber: 31.7 Consensus size: 3
90533609 TATATATATA
* *
90533619 TAT TA- TAT TA- TAT TA- TAT TA- TAT AAT TGAT TAT TAT AAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
* **
90533661 TAAT TGT TAT GGT T-T TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
90533705 TAT TA
1 TAT TA
90533710 AATAAATTAA
Statistics
Matches: 71, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
2 12 0.17
3 53 0.75
4 6 0.08
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:90534039 original size:38 final size:37
Alignment explanation
Indices: 90533946--90534039 Score: 92
Period size: 33 Copynumber: 2.6 Consensus size: 37
90533936 TGTAATGATA
* *
90533946 ATATTTATACAATTATAATATT-TTATTTAAATTAGTAG
1 ATATTTAT-TAATTA-AATATTATTATTAAAATTAGTAG
90533984 ATATTTATT-ATT---TATTATTATTAAAATTAAG-AG
1 ATATTTATTAATTAAATATTATTATTAAAATT-AGTAG
90534017 ATATTTATTAATTAAATAATTAT
1 ATATTTATTAATTAAAT-ATTAT
90534040 AAAATAATAT
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
32 4 0.09
33 21 0.45
34 5 0.11
36 3 0.06
37 1 0.02
38 13 0.28
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (37 bp):
ATATTTATTAATTAAATATTATTATTAAAATTAGTAG
Found at i:90534179 original size:5 final size:5
Alignment explanation
Indices: 90534168--90534222 Score: 58
Period size: 5 Copynumber: 10.4 Consensus size: 5
90534158 TTTATTAATT
*
90534168 AAATA TAATA TAAATA AAATA AAATA AAATA AAA-A GAAATA AAGCATA
1 AAATA AAATA -AAATA AAATA AAATA AAATA AAATA -AAATA AA--ATA
90534216 AAATA AA
1 AAATA AA
90534223 TAGAAACAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
4 1 0.02
5 32 0.74
6 5 0.12
7 5 0.12
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:90534219 original size:22 final size:20
Alignment explanation
Indices: 90534184--90534233 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 20
90534174 AATATAAATA
90534184 AAATAAAATAAAATAAAAAG
1 AAATAAAATAAAATAAAAAG
*
90534204 AAATAAAGCATAAAATAAATAG
1 AAATAAA--ATAAAATAAAAAG
*
90534226 AAACAAAA
1 AAATAAAA
90534234 AAACATAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 8 0.31
22 18 0.69
ACGTcount: A:0.76, C:0.04, G:0.06, T:0.14
Consensus pattern (20 bp):
AAATAAAATAAAATAAAAAG
Found at i:90534285 original size:12 final size:12
Alignment explanation
Indices: 90534270--90534299 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
90534260 GAAAACAGGG
90534270 AAGAAAAAGAGA
1 AAGAAAAAGAGA
*
90534282 AAGAAAAAGGGA
1 AAGAAAAAGAGA
90534294 AAGAAA
1 AAGAAA
90534300 TTGAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (12 bp):
AAGAAAAAGAGA
Found at i:90534730 original size:45 final size:45
Alignment explanation
Indices: 90534627--90534730 Score: 133
Period size: 45 Copynumber: 2.3 Consensus size: 45
90534617 CTACTGTTAT
*
90534627 TGTTACCGTTACTGTTACCAATTCGACACTTTGTGTGTCGAATAC
1 TGTTACTGTTACTGTTACCAATTCGACACTTTGTGTGTCGAATAC
* *
90534672 TGTTA-TCGCTACTGTTA-CAGATTC-AGCACTTTGTGTGTTGAATAC
1 TGTTACT-GTTACTGTTACCA-ATTCGA-CACTTTGTGTGTCGAATAC
90534717 TGTTACTGTTACTG
1 TGTTACTGTTACTG
90534731 CTACTGCTAC
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
44 3 0.06
45 47 0.92
46 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.40
Consensus pattern (45 bp):
TGTTACTGTTACTGTTACCAATTCGACACTTTGTGTGTCGAATAC
Found at i:90534745 original size:18 final size:18
Alignment explanation
Indices: 90534714--90534748 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
90534704 GTGTGTTGAA
* *
90534714 TACTGTTACTGTTACTGC
1 TACTGCTACCGTTACTGC
90534732 TACTGCTACCGTTACTG
1 TACTGCTACCGTTACTG
90534749 ATTACTGATT
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:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (18 bp):
TACTGCTACCGTTACTGC
Found at i:90535983 original size:25 final size:26
Alignment explanation
Indices: 90535946--90535997 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
90535936 TCAAACATGC
90535946 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* * *
90535972 ATTTCGGT-AATTTATCTCTAGGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
90535997 A
1 A
90535998 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.38
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:90537517 original size:26 final size:26
Alignment explanation
Indices: 90537481--90537590 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
90537471 ACATGAATTC
90537481 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
90537507 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
90537533 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
90537559 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
90537585 TTATCA
1 TTATCA
90537591 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:90542829 original size:31 final size:31
Alignment explanation
Indices: 90542794--90542853 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
90542784 CTTTTTCATA
90542794 TTTCATATTTCATAACACTGGGCCGAAGCTT
1 TTTCATATTTCATAACACTGGGCCGAAGCTT
** *
90542825 TTTCATATTTCATATTACTGGGTCGAAGC
1 TTTCATATTTCATAACACTGGGCCGAAGC
90542854 CTTTACTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCTT
Found at i:90542940 original size:42 final size:42
Alignment explanation
Indices: 90542881--90542972 Score: 123
Period size: 42 Copynumber: 2.2 Consensus size: 42
90542871 TGGCCCATAG
**
90542881 GCCCATTTCAATATCACAT-ATAATGTCAATGAAAGAATGCAA
1 GCCCATTTCAATATCACATGA-AATACCAATGAAAGAATGCAA
* *
90542923 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAAAGAATGCAA
*
90542965 ACCCATTT
1 GCCCATTT
90542973 GGGGAGGCTA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 43 0.98
43 1 0.02
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAAAGAATGCAA
Found at i:90543172 original size:47 final size:47
Alignment explanation
Indices: 90543112--90543305 Score: 309
Period size: 47 Copynumber: 4.1 Consensus size: 47
90543102 GGCTTTGCCT
* * *
90543112 CTTTTAATAACTGGGGCAAAAGCCCTTTAATAACTGGGGCGTAAGCC
1 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
*
90543159 CTTTTGATCACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
* *
90543206 CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGAGGCATAAGCC
1 CTTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCC
*
90543254 C-TTTAATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
1 CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
90543300 CTTTTG
1 CTTTTG
90543306 CACTTCCTCC
Statistics
Matches: 134, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
46 21 0.16
47 92 0.69
48 21 0.16
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (47 bp):
CTTTTGATAACTGGGGCATAAGCCCTTTAATAACTGGGGCATAAGCC
Found at i:90543180 original size:24 final size:24
Alignment explanation
Indices: 90543112--90543304 Score: 295
Period size: 23 Copynumber: 8.2 Consensus size: 24
90543102 GGCTTTGCCT
*
90543112 CTTTTAATAACTGGGGCAAAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
90543136 C-TTTAATAACTGGGGCGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* *
90543159 CTTTTGATCACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
90543183 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
90543206 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* *
90543230 CTTTTGATAACTGAGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
90543254 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
90543277 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
90543300 CTTTT
1 CTTTT
90543305 GCACTTCCTC
Statistics
Matches: 155, Mismatches: 11, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
23 86 0.55
24 69 0.45
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:90543376 original size:9 final size:9
Alignment explanation
Indices: 90543362--90543418 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
90543352 ATCTCATGTG
90543362 CATATCATA
1 CATATCATA
*
90543371 CATATCATGTG
1 CATATCA--TA
90543382 CATATCATA
1 CATATCATA
* *
90543391 CATGTCATGTG
1 CATATCA--TA
90543402 CATATCATA
1 CATATCATA
90543411 CATATCAT
1 CATATCAT
90543419 GCTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:90543378 original size:20 final size:20
Alignment explanation
Indices: 90543350--90543419 Score: 122
Period size: 20 Copynumber: 3.5 Consensus size: 20
90543340 GCATTTATGA
*
90543350 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
90543370 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
90543390 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
90543410 ACATATCATG
1 ACATATCATG
90543420 CTTATCAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:90543385 original size:11 final size:11
Alignment explanation
Indices: 90543355--90543409 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
90543345 TATGAACATC
90543355 TCATGTGCATA
1 TCATGTGCATA
*
90543366 TCA--TACATA
1 TCATGTGCATA
90543375 TCATGTGCATA
1 TCATGTGCATA
* *
90543386 TCA--TACATG
1 TCATGTGCATA
90543395 TCATGTGCATA
1 TCATGTGCATA
90543406 TCAT
1 TCAT
90543410 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:90543668 original size:27 final size:27
Alignment explanation
Indices: 90543638--90543805 Score: 144
Period size: 27 Copynumber: 6.2 Consensus size: 27
90543628 GGCCCATTTT
* *
90543638 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
90543665 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
90543692 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
* * * * *
90543719 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
90543746 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* *
90543773 TACCC-CTGATTTACAAAGTTA-CAGAAA
1 TACCCTC-GATTTATAAAATTACCA-AAA
90543800 TACCCT
1 TACCCT
90543806 TGACTTTTTA
Statistics
Matches: 114, Mismatches: 22, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
26 3 0.03
27 111 0.97
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:90543720 original size:54 final size:54
Alignment explanation
Indices: 90543638--90543777 Score: 201
Period size: 54 Copynumber: 2.6 Consensus size: 54
90543628 GGCCCATTTT
* ** *
90543638 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * *
90543692 TACCC-CTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
90543746 TACCCTCAATTTGTAAAATTACCAAAATACCC
1 TACCCTCAATTTGTAAAATTACCAAAATACCC
90543778 CTGATTTACA
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
53 1 0.01
54 74 0.97
55 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.31
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAA
Found at i:90543800 original size:54 final size:53
Alignment explanation
Indices: 90543638--90543859 Score: 173
Period size: 54 Copynumber: 4.1 Consensus size: 53
90543628 GGCCCATTTT
* ** *
90543638 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTA-AAATTACCA-AAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGG-TT-TACAAATTA-CAGAAA
* ** *
90543692 TACCC-CTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCCTTGGTTT-ACAAATTACAGAAA
* *
90543746 TACCCTCAATTTGTAAAATTACCAAAATACCCCTGATTTACAAAGTTACAGAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTACAAA-TTACAGAAA
* * * * * * *
90543800 TACCCTTGACTTTTTAAAAATTA-TAGAAGTACCATTGGTTTACAAAATTACTGAAA
1 TACCC-TCAATTTGT-AAAATTACCA-AAATACCCTTGGTTTAC-AAATTACAGAAA
90543856 TACC
1 TACC
90543860 TTTGGTTTGT
Statistics
Matches: 136, Mismatches: 22, Indels: 18
0.77 0.12 0.10
Matches are distributed among these distances:
52 1 0.01
53 7 0.05
54 85 0.62
55 8 0.06
56 32 0.24
57 3 0.02
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (53 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTTGGTTTACAAATTACAGAAA
Found at i:90543985 original size:27 final size:27
Alignment explanation
Indices: 90543921--90543985 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
90543911 ACCCCTAAAA
* *
90543921 GGTAAAAAGACTGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
90543948 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
90543975 GGTAAAATGAC
1 GGTAAAATGAC
90543986 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:90548796 original size:19 final size:19
Alignment explanation
Indices: 90548772--90548809 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
90548762 AATTGATAGA
90548772 TAATTAATGT-AAATTAAAC
1 TAATTAAT-TAAAATTAAAC
90548791 TAATTAATTAAAATTAAAC
1 TAATTAATTAAAATTAAAC
90548810 AATACTAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (19 bp):
TAATTAATTAAAATTAAAC
Found at i:90557567 original size:23 final size:23
Alignment explanation
Indices: 90557528--90557616 Score: 83
Period size: 23 Copynumber: 3.9 Consensus size: 23
90557518 ATGATGAACA
*
90557528 GTAAGCTCTAATAAGCTGAAACG
1 GTAAGCTCTAATGAGCTGAAACG
*
90557551 GTAAGCTCT-ATCGAGCT-AAACA
1 GTAAGCTCTAAT-GAGCTGAAACG
* * * * *
90557573 GTAAGCTCAAACGAGTTAAAATG
1 GTAAGCTCTAATGAGCTGAAACG
*
90557596 GTAAGCTTTAATGAGCTGAAA
1 GTAAGCTCTAATGAGCTGAAA
90557617 ATCGTAAGCT
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
22 18 0.35
23 33 0.65
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (23 bp):
GTAAGCTCTAATGAGCTGAAACG
Found at i:90557587 original size:22 final size:22
Alignment explanation
Indices: 90557524--90557662 Score: 75
Period size: 23 Copynumber: 6.0 Consensus size: 22
90557514 TAAGATGATG
**
90557524 AACAGTAAGCTCTAATAAGCTGA
1 AACAGTAAGCTCTAACGAGCT-A
* *
90557547 AACGGTAAGCTCTATCGAGCTA
1 AACAGTAAGCTCTAACGAGCTA
* *
90557569 AACAGTAAGCTCAAACGAGTTA
1 AACAGTAAGCTCTAACGAGCTA
* *
90557591 AA-ATGGTAAGCTTTAATGAGCTGA
1 AACA--GTAAGCTCTAACGAGCT-A
* *
90557615 AA-ATCGTAAGCTCTTACGAACTGA
1 AACA--GTAAGCTCTAACGAGCT-A
*
90557639 TATATCAGTAAGCTCAAACGAGCT
1 -A-A-CAGTAAGCTCTAACGAGCT
90557663 GTAGTGAGTC
Statistics
Matches: 89, Mismatches: 20, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
21 1 0.01
22 21 0.24
23 30 0.34
24 20 0.22
25 1 0.01
26 15 0.17
28 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.24
Consensus pattern (22 bp):
AACAGTAAGCTCTAACGAGCTA
Found at i:90558800 original size:6 final size:6
Alignment explanation
Indices: 90558789--90558814 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
90558779 TAAAAAATTA
90558789 ATTTGC ATTTGC ATTTGC ATTTGC AT
1 ATTTGC ATTTGC ATTTGC ATTTGC AT
90558815 CATGAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.50
Consensus pattern (6 bp):
ATTTGC
Found at i:90558882 original size:18 final size:19
Alignment explanation
Indices: 90558859--90558894 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
90558849 ATGTCCCTTA
90558859 TATTATGCT-TAAATTTAC
1 TATTATGCTATAAATTTAC
90558877 TATTATGCTATAAATTTA
1 TATTATGCTATAAATTTA
90558895 TGCTTTACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (19 bp):
TATTATGCTATAAATTTAC
Found at i:90566352 original size:42 final size:42
Alignment explanation
Indices: 90566268--90566430 Score: 193
Period size: 42 Copynumber: 3.9 Consensus size: 42
90566258 TAGGGTTATT
* * * *
90566268 TGAGTTTACGTGTAAAACCATA-TCGGGATATGGAATTGATA
1 TGAGATTACGTGTAAGACCATATTTGGGATATGGCATTGATA
**
90566309 TGAGATTACGTGTAAGACCATATTTGGGATATGGCATCAATA
1 TGAGATTACGTGTAAGACCATATTTGGGATATGGCATTGATA
* ** * *
90566351 TGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGTATTGATA
1 TGAGATTACGTGTAAGACCATATTTGGGATA-TGGCATTGATA
* *
90566394 CGAGATTACATGTAAGACCATATTTGGGATATGGCAT
1 TGAGATTACGTGTAAGACCATATTTGGGATATGGCAT
90566431 GGGTATAGTA
Statistics
Matches: 100, Mismatches: 20, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
41 20 0.20
42 47 0.47
43 33 0.33
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATTTGGGATATGGCATTGATA
Found at i:90566400 original size:85 final size:83
Alignment explanation
Indices: 90566268--90566430 Score: 238
Period size: 85 Copynumber: 1.9 Consensus size: 83
90566258 TAGGGTTATT
* * *
90566268 TGAGTTTACGTGTAAAACCATATCGGGATATGGAATTGATATGAGATTACGTGTAAGACCATATT
1 TGAGTTTACGTGTAAAACCATAGCGGGATATGGAATTGATACGAGATTACATGTAAGACCATATT
90566333 TGGGATATGGCATCAATA
66 TGGGATATGGCATCAATA
* * *
90566351 TGAGATTT-CGTGTAAGACCATAGCTGGGCTATTGGTATTGATACGAGATTACATGTAAGACCAT
1 TGAG-TTTACGTGTAAAACCATAGC-GGGATA-TGGAATTGATACGAGATTACATGTAAGACCAT
90566415 ATTTGGGATATGGCAT
63 ATTTGGGATATGGCAT
90566431 GGGTATAGTA
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
83 18 0.25
84 8 0.11
85 45 0.63
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (83 bp):
TGAGTTTACGTGTAAAACCATAGCGGGATATGGAATTGATACGAGATTACATGTAAGACCATATT
TGGGATATGGCATCAATA
Found at i:90575294 original size:50 final size:49
Alignment explanation
Indices: 90575235--90575555 Score: 290
Period size: 48 Copynumber: 6.6 Consensus size: 49
90575225 TACCATTCTG
* * *
90575235 AGACATGGTCTTACACTGCCTCTCATACATCAGTGTTGATGCCACGTCCC
1 AGACATGGTCTTACACTGGCTCTCATA-ATCAGTGTCGATGCCATGTCCC
* * * * * * *
90575285 AGACATGGTCTTACACTGACACAT-ATAA-CAATGCCAACGCCATGTTCC
1 AGACATGGTCTTACACTGGCTC-TCATAATCAGTGTCGATGCCATGTCCC
* * * * * *
90575333 AAATATGGTCTTACACTGGCTCACATATTGAG-GCCGATGCCATGTCCC
1 AGACATGGTCTTACACTGGCTCTCATAATCAGTGTCGATGCCATGTCCC
* * * * * *
90575381 ATACATAGTCTTACACTAGCTCACATAA-CAATGTCGATGCCATGTTCC
1 AGACATGGTCTTACACTGGCTCTCATAATCAGTGTCGATGCCATGTCCC
* ** * *
90575429 AAACATGGTCTTACACTGGCTCTCATAAATTGGTATCGATGCCATGTCCT
1 AGACATGGTCTTACACTGGCTCTCAT-AATCAGTGTCGATGCCATGTCCC
* * * *
90575479 AGACATGGTCTTACACTGGCTCTTATAAACCAGTGTCAATGCCATGTCCT
1 AGACATGGTCTTACACTGGCTCTCAT-AATCAGTGTCGATGCCATGTCCC
*
90575529 AGACATGGTATTACACTGGCTCTCATA
1 AGACATGGTCTTACACTGGCTCTCATA
90575556 TCGCCATGGT
Statistics
Matches: 217, Mismatches: 48, Indels: 13
0.78 0.17 0.05
Matches are distributed among these distances:
47 1 0.00
48 106 0.49
49 5 0.02
50 104 0.48
51 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.28
Consensus pattern (49 bp):
AGACATGGTCTTACACTGGCTCTCATAATCAGTGTCGATGCCATGTCCC
Found at i:90575574 original size:50 final size:49
Alignment explanation
Indices: 90575371--90575555 Score: 160
Period size: 50 Copynumber: 3.8 Consensus size: 49
90575361 TGAGGCCGAT
* * * * * * * *
90575371 GCCATGTCCCATACATAGTCTTACACTAGCTCACAT-AA-CAATGTCGAT
1 GCCATGTCCTAGACATGGTATTACACTGGCTCTCATAAACCAGTGTC-AA
* * *** * *
90575419 GCCATGTTCC-AAACATGGTCTTACACTGGCTCTCATAAATTGGTATCGAT
1 GCCATG-TCCTAGACATGGTATTACACTGGCTCTCATAAACCAGTGTC-AA
* *
90575469 GCCATGTCCTAGACATGGTCTTACACTGGCTCTTATAAACCAGTGTCAA
1 GCCATGTCCTAGACATGGTATTACACTGGCTCTCATAAACCAGTGTCAA
90575518 TGCCATGTCCTAGACATGGTATTACACTGGCTCTCATA
1 -GCCATGTCCTAGACATGGTATTACACTGGCTCTCATA
90575556 TCGCCATGGT
Statistics
Matches: 115, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
48 28 0.24
49 9 0.08
50 78 0.68
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (49 bp):
GCCATGTCCTAGACATGGTATTACACTGGCTCTCATAAACCAGTGTCAA
Found at i:90576785 original size:10 final size:11
Alignment explanation
Indices: 90576766--90576798 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
90576756 TTGATATGTT
90576766 AATGAAGAGAA
1 AATGAAGAGAA
90576777 AAT-AAGAGAA
1 AATGAAGAGAA
*
90576787 AGTGAAGAGAA
1 AATGAAGAGAA
90576798 A
1 A
90576799 TAGTGTAGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.64, C:0.00, G:0.27, T:0.09
Consensus pattern (11 bp):
AATGAAGAGAA
Found at i:90578546 original size:46 final size:46
Alignment explanation
Indices: 90578494--90578767 Score: 435
Period size: 46 Copynumber: 6.0 Consensus size: 46
90578484 AGTGTGCTCT
90578494 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
90578540 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
90578586 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACGC-TGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACAC-CATGGCAAC
* *
90578632 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
* *
90578678 TTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
* * * * *
90578724 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGACACCATGGCA
90578768 TCATGTCAAA
Statistics
Matches: 215, Mismatches: 10, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
45 2 0.01
46 212 0.99
47 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAAC
Found at i:90582487 original size:15 final size:16
Alignment explanation
Indices: 90582467--90582499 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
90582457 TGGTGTTCTT
*
90582467 GAAAAAT-ACAATCGA
1 GAAAAATGACAATAGA
90582482 GAAAAATGACAATAGA
1 GAAAAATGACAATAGA
90582498 GA
1 GA
90582500 GTGAGAGCGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.61, C:0.09, G:0.18, T:0.12
Consensus pattern (16 bp):
GAAAAATGACAATAGA
Found at i:90586961 original size:55 final size:54
Alignment explanation
Indices: 90586874--90587128 Score: 251
Period size: 55 Copynumber: 4.8 Consensus size: 54
90586864 ATTAGGGTTT
* *
90586874 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTACGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTA-AGTTTCTAAGGC
* * ** *
90586929 AAGGATACCATGTAAGATCATGTCAAGACATGGC-ATTCATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
90586984 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
* * *
90587037 AAGGATACCATGTAAGATCATGTCGAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * *
90587086 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
90587129 GTACCTGTGT
Statistics
Matches: 167, Mismatches: 26, Indels: 20
0.78 0.12 0.09
Matches are distributed among these distances:
49 38 0.23
52 7 0.04
53 39 0.23
54 10 0.06
55 69 0.41
56 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:90587318 original size:16 final size:16
Alignment explanation
Indices: 90587297--90587327 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
90587287 CTAAATTTGA
90587297 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
90587313 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
90587328 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:90593746 original size:16 final size:16
Alignment explanation
Indices: 90593725--90593758 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
90593715 GAGTTACCGA
*
90593725 TTCATTTATCAGATAT
1 TTCATTAATCAGATAT
*
90593741 TTCATTAATCCGATAT
1 TTCATTAATCAGATAT
90593757 TT
1 TT
90593759 TTTCTTTTCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.15, G:0.06, T:0.50
Consensus pattern (16 bp):
TTCATTAATCAGATAT
Found at i:90596478 original size:3 final size:3
Alignment explanation
Indices: 90596470--90596509 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
90596460 AAGGGACTTA
90596470 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
90596510 TAGATGAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:90597036 original size:27 final size:26
Alignment explanation
Indices: 90597006--90597064 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
90596996 ATGGTGTCGA
90597006 AAAAATTGAAT-TTGAATAGTATTTAAT
1 AAAAATT-AATATTG-ATAGTATTTAAT
* * *
90597033 AAAAAATATTATTGATATTATTTAAT
1 AAAAATTAATATTGATAGTATTTAAT
90597059 AAAAAT
1 AAAAAT
90597065 ACATTAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 18 0.67
27 9 0.33
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.41
Consensus pattern (26 bp):
AAAAATTAATATTGATAGTATTTAAT
Found at i:90598983 original size:24 final size:24
Alignment explanation
Indices: 90598955--90599006 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
90598945 TTAGCAAGTC
* *
90598955 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
90598979 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
90599003 AAAT
1 AAAT
90599007 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:90599841 original size:7 final size:7
Alignment explanation
Indices: 90599829--90599856 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
90599819 AATGATACCA
90599829 TTTTTAT
1 TTTTTAT
90599836 TTTTTAT
1 TTTTTAT
90599843 TTTTTAT
1 TTTTTAT
90599850 TTTTTAT
1 TTTTTAT
90599857 AGCAATCATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTAT
Found at i:90603135 original size:29 final size:30
Alignment explanation
Indices: 90603093--90603151 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
90603083 GAATTAGATC
* * *
90603093 AAATCAAAATTTCATGTATAAAATTGCACA
1 AAATCAAAAGTTCATATATAAAATTACACA
*
90603123 AAATC-AAAGTTCATATATACAATTACACA
1 AAATCAAAAGTTCATATATAAAATTACACA
90603152 TTAAACTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.51, C:0.15, G:0.05, T:0.29
Consensus pattern (30 bp):
AAATCAAAAGTTCATATATAAAATTACACA
Found at i:90603525 original size:26 final size:26
Alignment explanation
Indices: 90603474--90603527 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
90603464 CTAGTTTGAC
*
90603474 AATGCTTTTGAAAAGTGCTGTGGAAA
1 AATGCTTTTGAAAAGTACTGTGGAAA
* *
90603500 AATGCTTTT-AAGAAGTACTTTTGAAA
1 AATGCTTTTGAA-AAGTACTGTGGAAA
90603526 AA
1 AA
90603528 ATTTGATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 2 0.08
26 22 0.92
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.33
Consensus pattern (26 bp):
AATGCTTTTGAAAAGTACTGTGGAAA
Found at i:90603807 original size:33 final size:35
Alignment explanation
Indices: 90603712--90603808 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
90603702 TTAATATTTT
*
90603712 AATATATAAAATATAAATTTTAAATATTT--TTAAGC
1 AATATAT-AAAT-TATATTTTAAATATTTAATTAAGC
* *
90603747 AATAAATATTAATTAT-TTATAAA-ATTTAATT-AG-
1 AAT--ATATAAATTATATTTTAAATATTTAATTAAGC
90603780 AATATATAAATTATATTTTAAATATTTAA
1 AATATATAAATTATATTTTAAATATTTAA
90603809 ATATAACTAT
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 10 0.20
32 6 0.12
33 13 0.25
34 8 0.16
35 7 0.14
36 3 0.06
37 4 0.08
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (35 bp):
AATATATAAATTATATTTTAAATATTTAATTAAGC
Found at i:90603823 original size:33 final size:30
Alignment explanation
Indices: 90603747--90603827 Score: 78
Period size: 33 Copynumber: 2.7 Consensus size: 30
90603737 ATTTTTAAGC
90603747 AATA-AATATT-AATTATTTATAAAATTTA
1 AATATAATATTAAATTATTTATAAAATTTA
* * *
90603775 ATTAGAATATATAAATTATATTTTAAATATTTA
1 AATATAATAT-TAAATTAT-TTATAAA-ATTTA
90603808 AATATAACTATTAAA-TATTT
1 AATATAA-TATTAAATTATTT
90603828 GCAATTAGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
28 3 0.07
29 5 0.12
30 1 0.02
31 8 0.19
32 9 0.21
33 14 0.33
34 3 0.07
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (30 bp):
AATATAATATTAAATTATTTATAAAATTTA
Found at i:90608555 original size:19 final size:19
Alignment explanation
Indices: 90608531--90608587 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
90608521 ATATGATAAT
90608531 TTTTATAATTTTTTATGAA
1 TTTTATAATTTTTTATGAA
* *
90608550 TTTTAT-ATTTCTTTA-CAT
1 TTTTATAATTT-TTTATGAA
90608568 TTATTATAATTTTCTTATGA
1 TT-TTATAATTTT-TTATGA
90608588 CTTTATAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
18 7 0.23
19 15 0.50
20 7 0.23
21 1 0.03
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.63
Consensus pattern (19 bp):
TTTTATAATTTTTTATGAA
Found at i:90613210 original size:12 final size:13
Alignment explanation
Indices: 90613187--90613215 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
90613177 GAAGCAAAAA
90613187 AAAGAGAGAAAGC
1 AAAGAGAGAAAGC
90613200 AAAGA-AGAAAGC
1 AAAGAGAGAAAGC
90613212 AAAG
1 AAAG
90613216 CAAAACAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.66, C:0.07, G:0.28, T:0.00
Consensus pattern (13 bp):
AAAGAGAGAAAGC
Found at i:90614252 original size:18 final size:17
Alignment explanation
Indices: 90614225--90614282 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
90614215 TATTATTTAT
90614225 ATTA-TATTATTGTTAGC
1 ATTATTATTATT-TTAGC
90614242 ATTATTATTATTCCTTAG-
1 ATTATTATTATT--TTAGC
* *
90614260 TTTATTATTATTTTATC
1 ATTATTATTATTTTAGC
90614277 ATTATT
1 ATTATT
90614283 TTCCATTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
16 3 0.09
17 9 0.26
18 18 0.53
19 4 0.12
ACGTcount: A:0.28, C:0.07, G:0.05, T:0.60
Consensus pattern (17 bp):
ATTATTATTATTTTAGC
Found at i:90614842 original size:23 final size:23
Alignment explanation
Indices: 90614810--90614861 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
90614800 TAGGTTTTCA
* * *
90614810 CTTATAATATTATTATTGTCATT
1 CTTATTATATGATTATTATCATT
*
90614833 CTTATTATATGGTTATTATCATT
1 CTTATTATATGATTATTATCATT
*
90614856 ATTATT
1 CTTATT
90614862 CTCACCATCC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.29, C:0.08, G:0.06, T:0.58
Consensus pattern (23 bp):
CTTATTATATGATTATTATCATT
Found at i:90621603 original size:3 final size:3
Alignment explanation
Indices: 90621597--90621675 Score: 149
Period size: 3 Copynumber: 26.3 Consensus size: 3
90621587 CATCATCATC
*
90621597 ATT ATT ATT ATT ATG ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
90621645 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
90621676 CTCCTCAATA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:90625109 original size:17 final size:17
Alignment explanation
Indices: 90625083--90625121 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
90625073 TTTGAAAAGG
90625083 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
*
90625100 AAAACGAATGAATCTTA
1 AAAACAAATGAATCTTA
90625117 AAAAC
1 AAAAC
90625122 TTAATAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.59, C:0.13, G:0.08, T:0.21
Consensus pattern (17 bp):
AAAACAAATGAATCTTA
Found at i:90637538 original size:2 final size:2
Alignment explanation
Indices: 90637531--90637568 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
90637521 TTATTGTTAT
90637531 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
90637569 AAGTAAAACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:90638868 original size:21 final size:21
Alignment explanation
Indices: 90638809--90638869 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
90638799 GATTATATGA
* * *
90638809 ATTGGATTGAATATTGATTAT
1 ATTGAATTGATTATTGAATAT
90638830 ATTGAATTGATT-TATGAATAT
1 ATTGAATTGATTAT-TGAATAT
90638851 ATGTGAATTG-TTATTGAAT
1 AT-TGAATTGATTATTGAAT
90638870 TGAAATTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.03
21 25 0.74
22 8 0.24
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.48
Consensus pattern (21 bp):
ATTGAATTGATTATTGAATAT
Found at i:90639825 original size:89 final size:89
Alignment explanation
Indices: 90639684--90639858 Score: 289
Period size: 89 Copynumber: 2.0 Consensus size: 89
90639674 TACTGCTACT
*
90639684 GTTACCAATTCGGCACTTGTGTGTCGAATATTGTTACTGCTACTGTTACCGATTCGGCACTTTGT
1 GTTACCAATTCGGCACTTGTGTGTCGAATATTGTTACTGCTACTGTTACCGATTCAGCACTTTGT
*
90639749 GTGTCGAATATTGTTACTGTTATC
66 GTGTCGAATACTGTTACTGTTATC
* *
90639773 GTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTA-TGTTACCGATTCAGCACTTTG
1 GTTACCAATTCGGCAC-TTGTGTGTCGAATATTGTTACTGCTACTGTTACCGATTCAGCACTTTG
*
90639837 TGTGTTGAATACTGTTACTGTT
65 TGTGTCGAATACTGTTACTGTT
90639859 CCGGATTTGT
Statistics
Matches: 80, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
89 55 0.69
90 25 0.31
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.42
Consensus pattern (89 bp):
GTTACCAATTCGGCACTTGTGTGTCGAATATTGTTACTGCTACTGTTACCGATTCAGCACTTTGT
GTGTCGAATACTGTTACTGTTATC
Found at i:90639857 original size:44 final size:45
Alignment explanation
Indices: 90639674--90639858 Score: 286
Period size: 45 Copynumber: 4.2 Consensus size: 45
90639664 CTGTTACCGC
* *
90639674 TACTGCTACTGTTACCAATTCGGCAC-TTGTGTGTCGAATATTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
*
90639718 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
90639763 TACTGTTA-TCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACT-GTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* * *
90639808 TACTGTTA-TGTTACCGATTCAGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
90639852 TACTGTT
1 TACTGTT
90639859 CCGGATTTGT
Statistics
Matches: 134, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
44 65 0.49
45 69 0.51
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.42
Consensus pattern (45 bp):
TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
Found at i:90640055 original size:18 final size:18
Alignment explanation
Indices: 90640034--90640304 Score: 167
Period size: 18 Copynumber: 14.6 Consensus size: 18
90640024 TAACTGATTA
90640034 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
90640052 TTACTGGATAATTGACTG
1 TTACTGAATAATTGACTG
*
90640070 TTACTGGAT-ATTAGACTG
1 TTACTGAATAATT-GACTG
* * *
90640088 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
90640106 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* *
90640124 TTACTGAATAACTGATTG
1 TTACTGAATAATTGACTG
*
90640142 TCACTGAATGAA-TGACTG
1 TTACTGAAT-AATTGACTG
* * *
90640160 CTACTGGATAACTT-AATAG
1 TTACTGAATAA-TTGACT-G
*
90640179 TTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
90640196 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
90640214 TTACTTGATAACCGATCAATTGATTG
1 TTAC-TG---A---AT-AATTGACTG
* * ** *
90640240 ATACTGAATAACTGGTTA
1 TTACTGAATAATTGACTG
* *
90640258 TTATTGAATAATTGATTG
1 TTACTGAATAATTGACTG
* *
90640276 TTACCGAATAACTGACTG
1 TTACTGAATAATTGACTG
90640294 TTACTGAATAA
1 TTACTGAATAA
90640305 ATAATTGTTC
Statistics
Matches: 200, Mismatches: 33, Indels: 40
0.73 0.12 0.15
Matches are distributed among these distances:
17 19 0.09
18 145 0.73
19 19 0.09
22 2 0.01
25 4 0.02
26 11 0.05
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:90640159 original size:72 final size:72
Alignment explanation
Indices: 90640022--90640304 Score: 214
Period size: 72 Copynumber: 3.8 Consensus size: 72
90640012 AAAGGTATGA
* * * * * * *
90640022 AATAACTGATTATTACTGAATAATTGA-CTGTTACTGGATAATTGACTGTTACTGGATATTAGAC
1 AATAACTGAATATTACTGAATAATTGATC-ATTACTGAATAACTGACTGTCACTGAATAATAGAC
*
90640086 TGTTACTG
65 TGCTACTG
*
90640094 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGATTGTCACTGAATGAAT-GAC
1 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGACTGTCACTGAAT-AATAGAC
90640158 TGCTACTG
65 TGCTACTG
* * * * *
90640166 GATAACTTAATAGTTACTGAAT-ATCTGAT-TTTACTGAATAATTGACTGTTACTTGATAACCGA
1 AATAACTGAATA-TTACTGAATAAT-TGATCATTACTGAATAACTGACTGTCAC-TG---A---A
* * *
90640229 TCAATTGATTGATACTG
57 T-AATAGACTGCTACTG
** * ** * *
90640246 AATAACTGGTTATTATTGAATAATTGATTGTTACCGAATAACTGACTGTTACTGAATAA
1 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGACTGTCACTGAATAA
90640305 ATAATTGTTC
Statistics
Matches: 171, Mismatches: 26, Indels: 28
0.76 0.12 0.12
Matches are distributed among these distances:
72 91 0.53
73 20 0.12
76 2 0.01
79 19 0.11
80 39 0.23
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (72 bp):
AATAACTGAATATTACTGAATAATTGATCATTACTGAATAACTGACTGTCACTGAATAATAGACT
GCTACTG
Found at i:90643869 original size:46 final size:46
Alignment explanation
Indices: 90643817--90644175 Score: 479
Period size: 46 Copynumber: 7.8 Consensus size: 46
90643807 CTCTCTAATG
* *
90643817 TGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATA
1 TGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACA
* *
90643863 TGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATA
1 TGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACA
* *
90643909 TGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATA
1 TGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACA
* * *
90643955 TGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACG
1 TGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACA
* * *
90644001 GGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA-CTGACG
1 TGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACA
* * * * *
90644046 GGAAATGAATAAGACCATGGTTGAAAGATACCATGGTAGCGTGACA
1 TGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACA
* * *
90644092 TGAAATGTGTAAGACCATGGTTGAAAAATACCATGGCAACATGACA
1 TGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACA
* * * *
90644138 -GAAAATGAGTAAGACTATAGTTGAAAGACACTATGGCA
1 TG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
90644176 TCATGTCAAA
Statistics
Matches: 287, Mismatches: 24, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
45 43 0.15
46 244 0.85
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.21
Consensus pattern (46 bp):
TGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACA
Found at i:90644163 original size:183 final size:184
Alignment explanation
Indices: 90643826--90644180 Score: 525
Period size: 183 Copynumber: 1.9 Consensus size: 184
90643816 GTGAAATGTG
* * **
90643826 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACAGGAAATGAATAAGACCATGGTTGAAAGA
* * * *
90643891 TACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATAT
66 TACCATGGCAACCTGACATGAAATGTGTAAGACCATGGTTGAAAAATACCATGGCAACATGACAT
* *
90643956 GAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAA
131 GAAATGAATAAGACCATAGTTGAAAGACACCATGGCAACATGACGGGAAATGAA
*
90644010 TAAGACCATGGTTGAAAGATACCATGGCAA-CTGACGGGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACAGGAAATGAATAAGACCATGGTTGAAAGA
* * *
90644074 TACCATGGTAGCGTGACATGAAATGTGTAAGACCATGGTTGAAAAATACCATGGCAACATGACA-
66 TACCATGGCAACCTGACATGAAATGTGTAAGACCATGGTTGAAAAATACCATGGCAACATGACAT
* * * *
90644138 GAAAATGAGTAAGACTATAGTTGAAAGACACTATGGCATCATG
131 G-AAATGAATAAGACCATAGTTGAAAGACACCATGGCAACATG
90644181 TCAAAGATAA
Statistics
Matches: 152, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
182 1 0.01
183 121 0.80
184 30 0.20
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.21
Consensus pattern (184 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTGACAGGAAATGAATAAGACCATGGTTGAAAGA
TACCATGGCAACCTGACATGAAATGTGTAAGACCATGGTTGAAAAATACCATGGCAACATGACAT
GAAATGAATAAGACCATAGTTGAAAGACACCATGGCAACATGACGGGAAATGAA
Found at i:90644194 original size:137 final size:134
Alignment explanation
Indices: 90643817--90644198 Score: 460
Period size: 137 Copynumber: 2.8 Consensus size: 134
90643807 CTCTCTAATG
* * *
90643817 TGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATG
1 TGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAATGAGTAAGACCATG
**
90643882 GTTGAAAGATACCATGGCAACCTGAT-ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGC
65 GTTGAAAGATACCATGGCAA-CTG-TCA--AAATGAATAAGACCATGGTTGAAAGATACCATGGC
*
90643946 AACCTGATA
126 AACCTGACA
** * *
90643955 TGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGACCATG
1 TGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC-AGAAATGAGTAAGACCATG
* * * *
90644020 GTTGAAAGATACCATGGCAACTGACGGGAAATGAATAAGACCATGGTTGAAAGATACCATGGTAG
65 GTTGAAAGATACCATGGCAACTGTC--AAAATGAATAAGACCATGGTTGAAAGATACCATGGCAA
*
90644085 CGTGACA
128 CCTGACA
* * *
90644092 TGAAATGTGTAAGACCATGGTTGAAAAATACCATGGCAACATGACAGAAAATGAGTAAGACTATA
1 TGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAG-AAATGAGTAAGACCATG
* * * *
90644157 GTTGAAAGACACTATGGCATCATGTCAAAGATAAATAAGACC
65 GTTGAAAGATACCATGGCAAC-TGTCAAA-ATGAATAAGACC
90644199 GTGGATGGGA
Statistics
Matches: 209, Mismatches: 28, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
136 3 0.01
137 126 0.60
138 80 0.38
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (134 bp):
TGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAATGAGTAAGACCATGG
TTGAAAGATACCATGGCAACTGTCAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCT
GACA
Found at i:90652288 original size:20 final size:20
Alignment explanation
Indices: 90652263--90652305 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
90652253 TGTCAAAATA
*
90652263 ACACGGGCGTGTGCCTGTAT
1 ACACGGGCGTGCGCCTGTAT
90652283 ACACGGGCGTGCGCCTGTAT
1 ACACGGGCGTGCGCCTGTAT
90652303 ACA
1 ACA
90652306 TAGGCGTGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.33, T:0.21
Consensus pattern (20 bp):
ACACGGGCGTGCGCCTGTAT
Found at i:90652311 original size:20 final size:20
Alignment explanation
Indices: 90652263--90652314 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
90652253 TGTCAAAATA
* *
90652263 ACACGGGCGTGTGCCTGTAT
1 ACACAGGCGTGCGCCTGTAT
*
90652283 ACACGGGCGTGCGCCTGTAT
1 ACACAGGCGTGCGCCTGTAT
*
90652303 ACATAGGCGTGC
1 ACACAGGCGTGC
90652315 AAGAAGCGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.17, C:0.27, G:0.35, T:0.21
Consensus pattern (20 bp):
ACACAGGCGTGCGCCTGTAT
Found at i:90655013 original size:46 final size:46
Alignment explanation
Indices: 90654838--90655016 Score: 195
Period size: 46 Copynumber: 3.9 Consensus size: 46
90654828 TGTAACCTGC
* *
90654838 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGA-GTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGATGCTCGCAT
* *
90654884 CCATAAGTGAACTCGGACTCAACTGAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-CTCG---CAT
* ** *
90654934 -C-TCA-TGAACTCAAACTCAACTCAACGAGTTCGGATGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCGCAT
* *
90654977 CCATAAGTGAACTCGGACTCAACTTAACGAGTTCGGATGC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC
90655017 CCAAATATCC
Statistics
Matches: 111, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 5 0.05
46 66 0.59
47 30 0.27
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCGCAT
Found at i:90657430 original size:15 final size:15
Alignment explanation
Indices: 90657406--90657483 Score: 88
Period size: 15 Copynumber: 5.2 Consensus size: 15
90657396 AGGAAACCGA
90657406 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
90657421 ATAGAGAAATCC-AG
1 ATAAAGAAATCCAAG
90657435 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
90657450 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
90657466 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
90657481 ATA
1 ATA
90657484 CGATACTATG
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
14 2 0.04
15 51 0.94
16 1 0.02
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:90657439 original size:30 final size:30
Alignment explanation
Indices: 90657404--90657483 Score: 108
Period size: 30 Copynumber: 2.7 Consensus size: 30
90657394 CAAGGAAACC
*
90657404 GAATAAAGAAATCCAAGATAGAGAAATCCA
1 GAATAAAGAAATCCAAGATAAAGAAATCCA
*
90657434 GAATAAAGAAATCC-AGAATAAAGAGATCCA
1 GAATAAAGAAATCCAAG-ATAAAGAAATCCA
* *
90657464 GGATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
90657484 CGATACTATG
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
29 2 0.05
30 40 0.91
31 2 0.05
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.12
Consensus pattern (30 bp):
GAATAAAGAAATCCAAGATAAAGAAATCCA
Found at i:90659213 original size:38 final size:35
Alignment explanation
Indices: 90659154--90659271 Score: 135
Period size: 31 Copynumber: 3.5 Consensus size: 35
90659144 TCAATCATGC
*
90659154 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTT-AT--T
90659193 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
90659224 ACTGGGCCGAAGCCTTTTCATATTTC--A--TATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
90659255 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
90659272 ACTGTAAACG
Statistics
Matches: 78, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
31 49 0.63
33 2 0.03
34 1 0.01
36 1 0.01
38 14 0.18
39 11 0.14
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (35 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTATT
Found at i:90659215 original size:31 final size:31
Alignment explanation
Indices: 90659177--90659271 Score: 181
Period size: 31 Copynumber: 3.1 Consensus size: 31
90659167 CCTTTTCATA
*
90659177 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
90659208 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
90659239 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
90659270 TT
1 TT
90659272 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 63 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:90659509 original size:24 final size:24
Alignment explanation
Indices: 90659463--90659605 Score: 202
Period size: 24 Copynumber: 6.0 Consensus size: 24
90659453 GCTTTATCAT
*
90659463 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
90659488 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
90659512 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
90659535 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
90659559 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
90659583 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
90659606 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 3, Indels: 9
0.90 0.02 0.07
Matches are distributed among these distances:
23 25 0.23
24 73 0.66
25 13 0.12
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:90659542 original size:47 final size:48
Alignment explanation
Indices: 90659463--90659604 Score: 200
Period size: 47 Copynumber: 3.0 Consensus size: 48
90659453 GCTTTATCAT
*
90659463 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGG-CATAAGCCCTTTCA
**
90659512 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
90659559 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
90659605 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
46 2 0.02
47 42 0.48
48 31 0.36
49 12 0.14
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:90659557 original size:71 final size:72
Alignment explanation
Indices: 90659462--90659605 Score: 213
Period size: 71 Copynumber: 2.0 Consensus size: 72
90659452 TGCTTTATCA
*
90659462 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCAATAACTGGGGCATA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGG-CATAAGCCCTTTCAATAACTGGGGCATA
90659526 AGCCCTTT
65 AGCCCTTT
* **
90659534 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATA
90659597 AGCCCTTT
65 AGCCCTTT
90659605 T
1 T
90659606 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
70 2 0.03
71 51 0.77
72 13 0.20
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:90659681 original size:20 final size:20
Alignment explanation
Indices: 90659656--90659715 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
90659646 TATGATTACC
90659656 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
90659676 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
90659696 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
90659716 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:90659790 original size:25 final size:25
Alignment explanation
Indices: 90659758--90659805 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
90659748 ATACATAAAC
* * *
90659758 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
90659783 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
90659806 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:90663555 original size:93 final size:93
Alignment explanation
Indices: 90663447--90663619 Score: 276
Period size: 93 Copynumber: 1.9 Consensus size: 93
90663437 TGCCCATAAG
* * *
90663447 CGAACTCGGACTCAACTCAACGAGCTCGGGA-GTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCAGACTCAACTCAACGAGCTC-AGATGCTCGCATCCATAAGTGAACTCGGACTCAACTC
90663511 AACGAGCTCGGATGCCTAGTTACATCTCA
65 AACGAGCTCGGATGCCTAGTTACATCTCA
* *
90663540 CGAACTCAGACTCAACTCAACGAGTTCAGATGCTCGCATCCATAAGTGAACTCGGACTCAACTTA
1 CGAACTCAGACTCAACTCAACGAGCTCAGATGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
90663605 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
90663620 CAAATATCCC
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCAGATGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:90663618 original size:46 final size:46
Alignment explanation
Indices: 90663440--90663618 Score: 195
Period size: 46 Copynumber: 3.9 Consensus size: 46
90663430 TGTAACTTGC
*
90663440 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGA-GTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-GGATGCTCGCAT
* *
90663486 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATG-CTCG---CAT
* * * *
90663536 -C-TCA-CGAACTCAGACTCAACTCAACGAGTTCAGATGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGCTCGCAT
* * *
90663579 CCATAAGTGAACTCGGACTCAACTTAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGC
90663619 CCAAATATCC
Statistics
Matches: 111, Mismatches: 14, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 5 0.05
46 66 0.59
47 30 0.27
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGATGCTCGCAT
Found at i:90666493 original size:20 final size:20
Alignment explanation
Indices: 90666466--90666512 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
90666456 TAAATATAAG
*
90666466 ATAATAAAC-AAATAAAAAC
1 ATAATAAACAAAAGAAAAAC
90666485 ATGAATAAACTAAAAGAAAAAC
1 AT-AATAAAC-AAAAGAAAAAC
90666507 ATAATA
1 ATAATA
90666513 CATGCAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 2 0.08
20 7 0.29
21 4 0.17
22 11 0.46
ACGTcount: A:0.70, C:0.09, G:0.04, T:0.17
Consensus pattern (20 bp):
ATAATAAACAAAAGAAAAAC
Found at i:90666571 original size:25 final size:25
Alignment explanation
Indices: 90666543--90666591 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
90666533 ATATATATCA
90666543 TAAA-ATAGCACATAAAAGAAATAAT
1 TAAACATAGCACATAAAA-AAATAAT
*
90666568 TAAACATAGCATATAAAAAAATAA
1 TAAACATAGCACATAAAAAAATAA
90666592 AACTATGCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.65, C:0.08, G:0.06, T:0.20
Consensus pattern (25 bp):
TAAACATAGCACATAAAAAAATAAT
Found at i:90667168 original size:19 final size:19
Alignment explanation
Indices: 90667126--90667186 Score: 108
Period size: 19 Copynumber: 3.3 Consensus size: 19
90667116 CATATCATAT
90667126 CATATCATATCTAAGATT-
1 CATATCATATCTAAGATTG
90667144 -ATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
90667162 CATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG
90667181 CATATC
1 CATATC
90667187 CTTAAAGATT
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.41
19 24 0.59
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (19 bp):
CATATCATATCTAAGATTG
Found at i:90669073 original size:30 final size:31
Alignment explanation
Indices: 90668961--90669074 Score: 187
Period size: 31 Copynumber: 3.7 Consensus size: 31
90668951 TTAGTCTTGA
*
90668961 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
90668991 CATATCACTGGGCTGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
90669022 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
90669053 CATATCACTGGG-CAAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
90669075 ACTGTAAACG
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
30 14 0.18
31 65 0.82
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:90669145 original size:42 final size:42
Alignment explanation
Indices: 90669098--90669189 Score: 166
Period size: 42 Copynumber: 2.2 Consensus size: 42
90669088 TGGCCCTTAG
* *
90669098 GCCCATTTCAATGTCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
90669140 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
90669182 GCCCATTT
1 GCCCATTT
90669190 GGGGAGACTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:90669365 original size:25 final size:25
Alignment explanation
Indices: 90669337--90669406 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
90669327 CTCTTTTAAT
90669337 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
*
90669362 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
90669387 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
90669407 AGCACTTCCT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
25 39 0.91
26 4 0.09
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:90670239 original size:27 final size:27
Alignment explanation
Indices: 90670209--90670273 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
90670199 GGGCATATTC
90670209 GTCATTTTACCATACAAGGG-TATTACA
1 GTCATTTTACCATACAAGGGCT-TTACA
* * * *
90670236 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACA
*
90670263 GTCTTTTTACC
1 GTCATTTTACC
90670274 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACA
Found at i:90670357 original size:27 final size:27
Alignment explanation
Indices: 90670324--90670520 Score: 137
Period size: 27 Copynumber: 7.2 Consensus size: 27
90670314 TTGGTAAATC
90670324 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
** *
90670351 TGTAAACCAATGGTATTTCTA-TAATTTT
1 TACAAACCAAGGGTATTTC-AGTAA-TTT
* * * *
90670379 TAGAAAGTCAAAGGTATTTCTGTAATTT
1 TACAAA-CCAAGGGTATTTCAGTAATTT
** ** * *
90670407 TGTAAATTAGGGGTATTTTAGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
*** *
90670434 TACAAATTGAGGGTATTTCGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
* *
90670461 CACAAACC-AGTGGTATTTCAATAATTT
1 TACAAACCAAG-GGTATTTCAGTAATTT
* * **
90670488 TACAAACTAGGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
90670515 TACAAA
1 TACAAA
90670521 TTAGGGGTAT
Statistics
Matches: 132, Mismatches: 32, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
26 2 0.02
27 100 0.76
28 16 0.12
29 14 0.11
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.40
Consensus pattern (27 bp):
TACAAACCAAGGGTATTTCAGTAATTT
Found at i:90670512 original size:81 final size:81
Alignment explanation
Indices: 90670391--90670540 Score: 221
Period size: 81 Copynumber: 1.9 Consensus size: 81
90670381 GAAAGTCAAA
** ** *
90670391 GGTATTTCTGTAATTTTGTAAATTAGGGGTATTTTAGTAATTTTACAAATT-GAGGGTATTTCGG
1 GGTATTTCAATAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATTAG-GGGTATTTCGG
90670455 TAATTTCACAAACCAGT
65 TAATTTCACAAACCAGT
* *
90670472 GGTATTTCAATAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTAGGGGTATTTTGGT
1 GGTATTTCAATAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATTAGGGGTATTTCGGT
90670537 AATT
66 AATT
90670541 CTATCCTACA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
81 60 0.98
82 1 0.02
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (81 bp):
GGTATTTCAATAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATTAGGGGTATTTCGGT
AATTTCACAAACCAGT
Found at i:90670525 original size:27 final size:27
Alignment explanation
Indices: 90670391--90670540 Score: 160
Period size: 27 Copynumber: 5.6 Consensus size: 27
90670381 GAAAGTCAAA
**
90670391 GGTATTTCT-GTAATTTTGTAAATTAGG
1 GGTATTT-TGGTAATTTTACAAATTAGG
*
90670418 GGTATTTTAGTAATTTTACAAATT-GAG
1 GGTATTTTGGTAATTTTACAAATTAG-G
* * ** *
90670445 GGTATTTCGGTAATTTCACAAACCAGT
1 GGTATTTTGGTAATTTTACAAATTAGG
*** *
90670472 GGTATTTCAATAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTACAAATTAGG
90670499 GGTATTTTGGTAATTTTACAAATTAGG
1 GGTATTTTGGTAATTTTACAAATTAGG
90670526 GGTATTTTGGTAATT
1 GGTATTTTGGTAATT
90670541 CTATCCTACA
Statistics
Matches: 103, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
26 2 0.02
27 100 0.97
28 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (27 bp):
GGTATTTTGGTAATTTTACAAATTAGG
Found at i:90670567 original size:81 final size:81
Alignment explanation
Indices: 90670390--90670573 Score: 205
Period size: 81 Copynumber: 2.3 Consensus size: 81
90670380 AGAAAGTCAA
** *
90670390 AGGTATTTCT-GTAATTTTGTAAATTAGGGGTATTTTAGTAATTTTACAAATTGAGGGTATTTCG
1 AGGTATTT-TAGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATTGAGGGTATTTCG
90670454 GTAATTTCACAAACCAG
65 GTAATTTCACAAACCAG
* * * * *
90670471 TGGTATTTCAATAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATT-AGGGGTATTTTG
1 AGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATTGA-GGGTATTTCG
**
90670535 GTAA-TTCTATCCTA-CAG
65 GTAATTTC-A-CAAACCAG
*
90670552 AGGTATTTTAGTAATTTCACAA
1 AGGTATTTTAGTAATTTTACAA
90670574 TCGAGGGTAA
Statistics
Matches: 85, Mismatches: 14, Indels: 8
0.79 0.13 0.07
Matches are distributed among these distances:
80 4 0.05
81 79 0.93
82 2 0.02
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.41
Consensus pattern (81 bp):
AGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATTGAGGGTATTTCGG
TAATTTCACAAACCAG
Found at i:90670609 original size:27 final size:27
Alignment explanation
Indices: 90670572--90670687 Score: 146
Period size: 27 Copynumber: 4.3 Consensus size: 27
90670562 GTAATTTCAC
90670572 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
90670599 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
* * *
90670626 AATCGAGGGTGAAACGGT-ATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* **
90670652 AATCGAGGGTAAAATGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTTTGTA
90670679 AATCGAGGG
1 AATCGAGGG
90670688 CATTTCAATA
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
26 23 0.30
27 53 0.69
28 1 0.01
ACGTcount: A:0.37, C:0.08, G:0.27, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:90670619 original size:53 final size:52
Alignment explanation
Indices: 90670562--90670687 Score: 157
Period size: 53 Copynumber: 2.4 Consensus size: 52
90670552 AGGTATTTTA
* * *
90670562 GTAATTTCACAATCGAGGGTAAAACGGTAATTTTGTAAA-CTGAGGGTAAAATG
1 GTAATTTTACAATCGAGGGTAAAACGGT-ATTCTATAAATC-GAGGGTAAAATG
*
90670615 GTAATTTTGTA-AATCGAGGGTGAAACGGTATTCTATAAATCGAGGGTAAAATG
1 GTAA-TTT-TACAATCGAGGGTAAAACGGTATTCTATAAATCGAGGGTAAAATG
90670668 GTAATTTTACAAATCGAGGG
1 GTAATTTTAC-AATCGAGGG
90670688 CATTTCAATA
Statistics
Matches: 64, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
51 2 0.03
52 3 0.05
53 37 0.58
54 21 0.33
55 1 0.02
ACGTcount: A:0.37, C:0.09, G:0.25, T:0.29
Consensus pattern (52 bp):
GTAATTTTACAATCGAGGGTAAAACGGTATTCTATAAATCGAGGGTAAAATG
Found at i:90672247 original size:12 final size:13
Alignment explanation
Indices: 90672215--90672248 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
90672205 AATCATAATC
*
90672215 ACCATATTAGCAA
1 ACCATATTTGCAA
90672228 ACCATATTTGCAA
1 ACCATATTTGCAA
90672241 A-CATATTT
1 ACCATATTT
90672249 ATAGGTTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 7 0.35
13 13 0.65
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.32
Consensus pattern (13 bp):
ACCATATTTGCAA
Found at i:90680814 original size:12 final size:12
Alignment explanation
Indices: 90680797--90680826 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
90680787 CCTACTTGAT
90680797 GATGAATTCGAC
1 GATGAATTCGAC
90680809 GATGAATTCGAC
1 GATGAATTCGAC
90680821 GATGAA
1 GATGAA
90680827 GAGTTGTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.23
Consensus pattern (12 bp):
GATGAATTCGAC
Found at i:90682905 original size:15 final size:15
Alignment explanation
Indices: 90682887--90682934 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
90682877 TTTAAAACAC
*
90682887 ATTAAAATGAAATAA
1 ATTAAAATGAAAAAA
*
90682902 ATTACAATGAGAGAAAA
1 ATTAAAATGA-A-AAAA
*
90682919 ATTAATATGAAAAAA
1 ATTAAAATGAAAAAA
90682934 A
1 A
90682935 CGTAAATTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
15 14 0.52
16 2 0.07
17 11 0.41
ACGTcount: A:0.65, C:0.02, G:0.10, T:0.23
Consensus pattern (15 bp):
ATTAAAATGAAAAAA
Found at i:90682968 original size:26 final size:25
Alignment explanation
Indices: 90682939--90683193 Score: 118
Period size: 26 Copynumber: 10.6 Consensus size: 25
90682929 AAAAAACGTA
90682939 AATTAAAATGGAAAGAAAGATAATTT
1 AATTAAAATGGAAAGAAA-ATAATTT
*
90682965 AATTGAAAA-GAGAAAAAAAATTAAATTT
1 AATT-AAAATG-GAAAGAAAA-T-AATTT
* * *
90682993 AAATGAAAT-GAGAA-AAAA-AATTA
1 AATTAAAATGGA-AAGAAAATAATTT
90683016 AATTAAAATGGAAAGAAAGATAATTT
1 AATTAAAATGGAAAGAAA-ATAATTT
* * *
90683042 AAATGAAAT-G--AGAAAA-AATTA
1 AATTAAAATGGAAAGAAAATAATTT
90683063 AATTAAAATAGG-AAGAAAGATAATTT
1 AATTAAAAT-GGAAAGAAA-ATAATTT
* * * * *
90683089 AAATGAACT-G--AGAAAAAAATTA
1 AATTAAAATGGAAAGAAAATAATTT
*
90683111 AATTTAAATGGAAA-AAGAATAATTT
1 AATTAAAATGGAAAGAA-AATAATTT
*
90683136 AAATAAAATGAGAAA-AAAAT-A---
1 AATTAAAATG-GAAAGAAAATAATTT
* *
90683157 AATTTAAAT-GAAA-AAGATAATTT
1 AATTAAAATGGAAAGAAAATAATTT
*
90683180 AAATAAAATGGAAA
1 AATTAAAATGGAAA
90683194 TGGAAATGAA
Statistics
Matches: 174, Mismatches: 30, Indels: 52
0.68 0.12 0.20
Matches are distributed among these distances:
19 8 0.05
20 1 0.01
21 18 0.10
22 12 0.07
23 32 0.18
24 18 0.10
25 21 0.12
26 39 0.22
27 17 0.10
28 8 0.05
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.24
Consensus pattern (25 bp):
AATTAAAATGGAAAGAAAATAATTT
Found at i:90683018 original size:77 final size:75
Alignment explanation
Indices: 90682927--90683071 Score: 227
Period size: 77 Copynumber: 1.9 Consensus size: 75
90682917 AAATTAATAT
* *
90682927 GAAAAAAACGTAAATTAAAATGGAAAGAAAGATAATTTAATTGAAAAGAGAAAAAAAATTAAATT
1 GAAAAAAAAGTAAATTAAAATGGAAAGAAAGATAATTTAAATGAAAAGAG--AAAAAATTAAATT
*
90682992 TAAATGAAATGA
64 AAAATGAAATGA
* *
90683004 GAAAAAAAATTAAATTAAAATGGAAAGAAAGATAATTTAAATGAAATGAGAAAAAATTAAATTAA
1 GAAAAAAAAGTAAATTAAAATGGAAAGAAAGATAATTTAAATGAAAAGAGAAAAAATTAAATTAA
90683069 AAT
66 AAT
90683072 AGGAAGAAAG
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
75 17 0.27
77 46 0.73
ACGTcount: A:0.63, C:0.01, G:0.13, T:0.23
Consensus pattern (75 bp):
GAAAAAAAAGTAAATTAAAATGGAAAGAAAGATAATTTAAATGAAAAGAGAAAAAATTAAATTAA
AATGAAATGA
Found at i:90683045 original size:21 final size:21
Alignment explanation
Indices: 90683016--90683093 Score: 59
Period size: 21 Copynumber: 3.5 Consensus size: 21
90683006 AAAAAAATTA
90683016 AATTAAAATGGAAAGAAAGAT
1 AATTAAAATGGAAAGAAAGAT
* * *
90683037 AATTTAAATGAAATGAGAAAAAATT
1 AATTAAAATGGAA--AG-AAAGA-T
90683062 AAATTAAAATAGG-AAGAAAGAT
1 -AATTAAAAT-GGAAAGAAAGAT
*
90683084 AATTTAAATG
1 AATTAAAATG
90683094 AACTGAGAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 13
0.69 0.11 0.20
Matches are distributed among these distances:
20 1 0.02
21 19 0.43
22 1 0.02
23 6 0.14
24 6 0.14
25 1 0.02
26 9 0.20
27 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.15, T:0.24
Consensus pattern (21 bp):
AATTAAAATGGAAAGAAAGAT
Found at i:90683079 original size:47 final size:45
Alignment explanation
Indices: 90682988--90683193 Score: 272
Period size: 47 Copynumber: 4.4 Consensus size: 45
90682978 AAAAAAATTA
90682988 AATTTAAATGAAATGAGAAAAAAAATTAAATTAAAATGGAAAGAAAGAT
1 AATTTAAATGAAATGAG--AAAAAATTAAATTAAAATGG-AA-AAAGAT
90683037 AATTTAAATGAAATGAGAAAAAATTAAATTAAAATAGGAAGAAAGAT
1 AATTTAAATGAAATGAGAAAAAATTAAATTAAAAT-GGAA-AAAGAT
* *
90683084 AATTTAAATGAACTGAGAAAAAAATTAAATTTAAATGGAAAAAGAAT
1 AATTTAAATGAAATGAG-AAAAAATTAAATTAAAATGGAAAAAG-AT
* * *
90683131 AATTTAAATAAAATGAGAAAAAAATAAATTTAAAT-GAAAAAGAT
1 AATTTAAATGAAATGAGAAAAAATTAAATTAAAATGGAAAAAGAT
*
90683175 AATTTAAATAAAATG-GAAA
1 AATTTAAATGAAATGAGAAA
90683194 TGGAAATGAA
Statistics
Matches: 149, Mismatches: 5, Indels: 12
0.90 0.03 0.07
Matches are distributed among these distances:
43 4 0.03
44 17 0.11
45 7 0.05
46 21 0.14
47 64 0.43
48 19 0.13
49 17 0.11
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.24
Consensus pattern (45 bp):
AATTTAAATGAAATGAGAAAAAATTAAATTAAAATGGAAAAAGAT
Found at i:90683170 original size:27 final size:27
Alignment explanation
Indices: 90682937--90683170 Score: 135
Period size: 27 Copynumber: 9.4 Consensus size: 27
90682927 GAAAAAAACG
*
90682937 TAAATTAAAATG-GAAAGAAAGAT-AATT
1 TAAATGAAAATGAGAAA-AAA-ATAAATT
*
90682964 TAATTGAAAA-GAGAAAAAAAATTAAATT
1 TAAATGAAAATGAG-AAAAAAA-TAAATT
90682992 TAAATG-AAATGAG--AAAAA-AAA-T
1 TAAATGAAAATGAGAAAAAAATAAATT
*
90683014 TAAATTAAAATG-GAAAGAAAGAT-AATT
1 TAAATGAAAATGAGAAA-AAA-ATAAATT
*
90683041 TAAATG-AAATGAGAAAAAATTAAA-T
1 TAAATGAAAATGAGAAAAAAATAAATT
* *
90683066 T-AA--AATA-G-GAAGAAAGAT-AATT
1 TAAATGAAAATGAGAA-AAAAATAAATT
*
90683088 TAAATG-AACTGAGAAAAAAATTAAATT
1 TAAATGAAAATGAGAAAAAAA-TAAATT
*
90683115 TAAATG-----GA-AAAAGAAT-AATT
1 TAAATGAAAATGAGAAAAAAATAAATT
90683135 TAAAT-AAAATGAGAAAAAAATAAATT
1 TAAATGAAAATGAGAAAAAAATAAATT
90683161 TAAATGAAAA
1 TAAATGAAAA
90683171 AGATAATTTA
Statistics
Matches: 161, Mismatches: 14, Indels: 64
0.67 0.06 0.27
Matches are distributed among these distances:
20 9 0.06
21 6 0.04
22 20 0.12
23 14 0.09
24 6 0.04
25 23 0.14
26 28 0.17
27 40 0.25
28 15 0.09
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.24
Consensus pattern (27 bp):
TAAATGAAAATGAGAAAAAAATAAATT
Found at i:90683178 original size:18 final size:19
Alignment explanation
Indices: 90683100--90683187 Score: 63
Period size: 21 Copynumber: 4.3 Consensus size: 19
90683090 AATGAACTGA
90683100 GAAAAAAATTAAATTTAAAT
1 GAAAAAAA-TAAATTTAAAT
*
90683120 GGAAAAAGAATAATTTAAATAAAAT
1 -GAAAAA-AATAAATT---T-AAAT
90683145 GAGAAAAAAATAAATTTAAAT
1 --GAAAAAAATAAATTTAAAT
*
90683166 GAAAAAGAT-AATTTAAAT
1 GAAAAAAATAAATTTAAAT
90683184 -AAAA
1 GAAAA
90683188 TGGAAATGGA
Statistics
Matches: 57, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
17 4 0.07
18 9 0.16
19 8 0.14
21 15 0.26
22 3 0.05
24 1 0.02
25 11 0.19
26 6 0.11
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.25
Consensus pattern (19 bp):
GAAAAAAATAAATTTAAAT
Found at i:90683561 original size:18 final size:19
Alignment explanation
Indices: 90683525--90683565 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
90683515 CGTATATTAG
*
90683525 GAAAAAAATAAATTTAAAT
1 GAAAAAAATAAATTGAAAT
*
90683544 GAAAAAAATTAA-TGAAAT
1 GAAAAAAATAAATTGAAAT
90683562 GAAA
1 GAAA
90683566 TGTTAAATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.22
Consensus pattern (19 bp):
GAAAAAAATAAATTGAAAT
Found at i:90683572 original size:30 final size:30
Alignment explanation
Indices: 90683530--90683598 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
90683520 ATTAGGAAAA
90683530 AAAT-AAAT-TTAAATGAAA-A-AAATTAATG
1 AAATGAAATGTTAAATGAAATATAAA-T-ATG
*
90683558 AAATGAAATGTTAAATGAAATATGAATATG
1 AAATGAAATGTTAAATGAAATATAAATATG
90683588 AAATGAAATGT
1 AAATGAAATGT
90683599 AATTTGTAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
28 4 0.11
29 4 0.11
30 24 0.67
31 2 0.06
32 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (30 bp):
AAATGAAATGTTAAATGAAATATAAATATG
Found at i:90683608 original size:7 final size:7
Alignment explanation
Indices: 90683596--90683622 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
90683586 TGAAATGAAA
90683596 TGTAATT
1 TGTAATT
90683603 TGTAATT
1 TGTAATT
90683610 TGTAATT
1 TGTAATT
90683617 TGTAAT
1 TGTAAT
90683623 GAATAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (7 bp):
TGTAATT
Found at i:90683772 original size:25 final size:25
Alignment explanation
Indices: 90683744--90683791 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
90683734 TTGAAATAAG
*
90683744 AAATAA-TTAAATTTAAATGGAAAAA
1 AAATAATTTAAA-TGAAATGGAAAAA
90683769 AAATAATTTAAATGAAATGGAAA
1 AAATAATTTAAATGAAATGGAAA
90683792 TGTAAATGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.27
Consensus pattern (25 bp):
AAATAATTTAAATGAAATGGAAAAA
Found at i:90683814 original size:11 final size:11
Alignment explanation
Indices: 90683778--90683865 Score: 63
Period size: 11 Copynumber: 7.7 Consensus size: 11
90683768 AAAATAATTT
*
90683778 AAATGAAATGG
1 AAATGAAATGA
90683789 AAATGTAAATG-
1 AAATG-AAATGA
90683800 AAATGAAATGA
1 AAATGAAATGA
* *
90683811 AAATACAAATAA
1 AAAT-GAAATGA
90683823 AAATGAAATGGA
1 AAATGAAAT-GA
*
90683835 AATATAAATATG-
1 AA-ATGAA-ATGA
**
90683847 AAATGAAAAAA
1 AAATGAAATGA
90683858 AAATGAAA
1 AAATGAAA
90683866 GGACTTGTTA
Statistics
Matches: 62, Mismatches: 8, Indels: 14
0.74 0.10 0.17
Matches are distributed among these distances:
10 6 0.10
11 30 0.48
12 19 0.31
13 5 0.08
14 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.15, T:0.19
Consensus pattern (11 bp):
AAATGAAATGA
Found at i:90683854 original size:5 final size:5
Alignment explanation
Indices: 90683778--90683812 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
90683768 AAAATAATTT
90683778 AAATG AAATGG AAATG TAAATG AAATG AAATG AAA
1 AAATG AAAT-G AAATG -AAATG AAATG AAATG AAA
90683813 ATACAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 18 0.64
6 10 0.36
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (5 bp):
AAATG
Found at i:90684215 original size:17 final size:18
Alignment explanation
Indices: 90684181--90684219 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
90684171 TGTATATTAG
*
90684181 GAAAAAATAAATTTAAAT
1 GAAAAAATAAATTCAAAT
*
90684199 GAAAAAATTAA-TCAAAT
1 GAAAAAATAAATTCAAAT
90684216 GAAA
1 GAAA
90684220 TGTTAAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.23
Consensus pattern (18 bp):
GAAAAAATAAATTCAAAT
Found at i:90684241 original size:6 final size:5
Alignment explanation
Indices: 90684212--90684306 Score: 50
Period size: 5 Copynumber: 17.6 Consensus size: 5
90684202 AAAATTAATC
* * *
90684212 AAATG AAATG TTAAATG AAATATG AATATG AAATG AAATCT AATTTG TAATG
1 AAATG AAATG --AAATG -AA-ATG AA-ATG AAATG AAAT-G AA-ATG AAATG
* *
90684264 AATATG AAATG AAATG AAATG ATAAT- -TATG AAATG GAATG AAA
1 AA-ATG AAATG AAATG AAATG A-AATG AAATG AAATG AAATG AAA
90684307 GTTTAAATGA
Statistics
Matches: 70, Mismatches: 11, Indels: 18
0.71 0.11 0.18
Matches are distributed among these distances:
3 2 0.03
5 38 0.54
6 21 0.30
7 9 0.13
ACGTcount: A:0.53, C:0.01, G:0.17, T:0.29
Consensus pattern (5 bp):
AAATG
Found at i:90684276 original size:11 final size:11
Alignment explanation
Indices: 90684224--90684285 Score: 56
Period size: 11 Copynumber: 5.5 Consensus size: 11
90684214 ATGAAATGTT
90684224 AAATGAAATATG
1 AAATG-AATATG
90684236 AATATGAA-ATG
1 AA-ATGAATATG
* *
90684247 AAATCTAATTTG
1 AAAT-GAATATG
*
90684259 TAATGAATATG
1 AAATGAATATG
90684270 AAATGAA-ATG
1 AAATGAATATG
90684280 AAATGA
1 AAATGA
90684286 TAATTATGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
10 11 0.27
11 18 0.44
12 9 0.22
13 3 0.07
ACGTcount: A:0.53, C:0.02, G:0.16, T:0.29
Consensus pattern (11 bp):
AAATGAATATG
Found at i:90684370 original size:17 final size:17
Alignment explanation
Indices: 90684344--90684383 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
90684334 AAATGAAAAC
*
90684344 AAAAACTGAAATCAGAA
1 AAAAATTGAAATCAGAA
*
90684361 AAAAATTGAAATGAGAA
1 AAAAATTGAAATCAGAA
*
90684378 ATAAAT
1 AAAAAT
90684384 AAATTTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.65, C:0.05, G:0.12, T:0.17
Consensus pattern (17 bp):
AAAAATTGAAATCAGAA
Found at i:90684415 original size:5 final size:5
Alignment explanation
Indices: 90684405--90684466 Score: 52
Period size: 5 Copynumber: 11.4 Consensus size: 5
90684395 GAAATTTTTT
** *
90684405 AATGA AATGA AGATGAA AATGA AATGA AATGAGA AAAAA AAGGGA AATGA
1 AATGA AATGA A-ATG-A AATGA AATGA AAT--GA AATGA AA-TGA AATGA
90684455 AATGA AATGA AA
1 AATGA AATGA AA
90684467 AAACAAAATG
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
5 32 0.68
6 9 0.19
7 6 0.13
ACGTcount: A:0.63, C:0.00, G:0.23, T:0.15
Consensus pattern (5 bp):
AATGA
Found at i:90684426 original size:12 final size:11
Alignment explanation
Indices: 90684405--90684467 Score: 51
Period size: 11 Copynumber: 5.7 Consensus size: 11
90684395 GAAATTTTTT
90684405 AATG-AAATGA
1 AATGAAAATGA
90684415 AGATGAAAATGA
1 A-ATGAAAATGA
90684427 AATG-AAATGA
1 AATGAAAATGA
** *
90684437 GAAAAAAAAGGGA
1 -AATGAAAA-TGA
90684450 AATG-AAATGA
1 AATGAAAATGA
90684460 AATGAAAA
1 AATGAAAA
90684468 AACAAAATGT
Statistics
Matches: 41, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
10 13 0.32
11 14 0.34
12 12 0.29
13 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.22, T:0.14
Consensus pattern (11 bp):
AATGAAAATGA
Found at i:90684427 original size:17 final size:16
Alignment explanation
Indices: 90684405--90684466 Score: 63
Period size: 17 Copynumber: 3.8 Consensus size: 16
90684395 GAAATTTTTT
90684405 AATGAAATGAAGATGAA
1 AATGAAATGAA-ATGAA
90684422 AATGAAATGAAATGAGA
1 AATGAAATGAAATGA-A
** *
90684439 AAAAAAAGGGAAATG-A
1 AATGAAA-TGAAATGAA
90684455 AATGAAATGAAA
1 AATGAAATGAAA
90684467 AAACAAAATG
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
15 4 0.11
16 10 0.27
17 17 0.46
18 6 0.16
ACGTcount: A:0.63, C:0.00, G:0.23, T:0.15
Consensus pattern (16 bp):
AATGAAATGAAATGAA
Found at i:90684475 original size:23 final size:24
Alignment explanation
Indices: 90684420--90684476 Score: 62
Period size: 28 Copynumber: 2.2 Consensus size: 24
90684410 AATGAAGATG
90684420 AAAATGAAATGAAATGAGAAAAAAA
1 AAAATGAAATGAAAT-AGAAAAAAA
*
90684445 AGGGAAATGAAATGAAAT-GAAAAAAC
1 A---AAATGAAATGAAATAGAAAAAAA
90684471 AAAATG
1 AAAATG
90684477 TTGAAAGGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
23 5 0.18
25 1 0.04
26 8 0.29
28 14 0.50
ACGTcount: A:0.67, C:0.02, G:0.19, T:0.12
Consensus pattern (24 bp):
AAAATGAAATGAAATAGAAAAAAA
Done.