Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, whole genome shotgun sequence
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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 8 of 127
Found at i:1870009 original size:14 final size:12
Alignment explanation
Indices: 1869962--1869999 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
1869952 TATAATTAAA
1869962 AATAAAAATTATT
1 AATAAAAATT-TT
*
1869975 AAAAAAAATTTT
1 AATAAAAATTTT
1869987 AATAAAAATTTT
1 AATAAAAATTTT
1869999 A
1 A
1870000 TACTGAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 14 0.61
13 9 0.39
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AATAAAAATTTT
Found at i:1871881 original size:23 final size:20
Alignment explanation
Indices: 1871865--1871904 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
1871855 ATATACATAT
1871865 TATTTTTATAAAAATATTAAA
1 TATTTTTATAAAAATA-TAAA
*
1871886 TGTTTTTATAAAAATATAA
1 TATTTTTATAAAAATATAA
1871905 TGTGGATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
TATTTTTATAAAAATATAAA
Found at i:1873505 original size:19 final size:17
Alignment explanation
Indices: 1873481--1873529 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
1873471 ACTTTGAATT
1873481 TTAATAATATGAATTTATG
1 TTAATAAT-TGAATTT-TG
* *
1873500 TTAATAATTTAATTTTT
1 TTAATAATTGAATTTTG
1873517 TTAATAA-TGAATT
1 TTAATAATTGAATT
1873530 ATTATTCTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 5 0.19
17 8 0.30
18 6 0.22
19 8 0.30
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
TTAATAATTGAATTTTG
Found at i:1875404 original size:21 final size:20
Alignment explanation
Indices: 1875379--1875433 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
1875369 AGTGATTAAA
* *
1875379 ATTTGAATATCTTAATATTTT
1 ATTTGAATAT-TTAAGAGTTT
1875400 ATTTGAATAATTTAAGAGTTT
1 ATTTGAAT-ATTTAAGAGTTT
*
1875421 AATTGAATATTTA
1 ATTTGAATATTTA
1875434 TGTTTTAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.17
21 23 0.77
22 2 0.07
ACGTcount: A:0.38, C:0.02, G:0.09, T:0.51
Consensus pattern (20 bp):
ATTTGAATATTTAAGAGTTT
Found at i:1875725 original size:82 final size:79
Alignment explanation
Indices: 1875563--1875726 Score: 224
Period size: 80 Copynumber: 2.0 Consensus size: 79
1875553 AAGATTTTTT
1875563 TTAATTTCACACAAATTAAGCTTTTATAATATTAGAAAAGTATATGAGTATTATAAATTAACTAT
1 TTAATTTCACACAAATTAAGCTTTTATAATATTAGAAAAG-ATATGAGTATTATAAATTAACTAT
1875628 TAATTAAAAACTCAC
65 TAATTAAAAACTCAC
* * *
1875643 TTAATTTCACACAAATTAAGCTTTTTTAATATTA-AAAA-ATGTGAGACTTTATTATGGAATTAA
1 TTAATTTCACACAAATTAAGCTTTTATAATATTAGAAAAGATATGAG----TATTAT-AAATTAA
*
1875706 TTATTAATTAAAAACTCAC
61 CTATTAATTAAAAACTCAC
1875725 TT
1 TT
1875727 TTTTATATTT
Statistics
Matches: 75, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
77 6 0.08
79 4 0.05
80 33 0.44
81 6 0.08
82 26 0.35
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.40
Consensus pattern (79 bp):
TTAATTTCACACAAATTAAGCTTTTATAATATTAGAAAAGATATGAGTATTATAAATTAACTATT
AATTAAAAACTCAC
Found at i:1883429 original size:21 final size:22
Alignment explanation
Indices: 1883391--1883432 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
1883381 CATTTTTAAG
1883391 TTTAATTCTTATTGTATGTTAT
1 TTTAATTCTTATTGTATGTTAT
*
1883413 TTTAATT-TTATTTTATGTTA
1 TTTAATTCTTATTGTATGTTA
1883433 ATTATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (22 bp):
TTTAATTCTTATTGTATGTTAT
Found at i:1884351 original size:21 final size:23
Alignment explanation
Indices: 1884311--1884363 Score: 74
Period size: 21 Copynumber: 2.4 Consensus size: 23
1884301 AAAATTTATT
*
1884311 TTTTATATATTATTTTAATAAAA
1 TTTTATATATTATTTAAATAAAA
1884334 TTTTA-ATA-TATTTAAATAAAA
1 TTTTATATATTATTTAAATAAAA
*
1884355 TTATATATA
1 TTTTATATA
1884364 ATAATTATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 16 0.59
22 6 0.22
23 5 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTTATATATTATTTAAATAAAA
Found at i:1884393 original size:44 final size:45
Alignment explanation
Indices: 1884338--1884425 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 45
1884328 ATAAAATTTT
* * * * *
1884338 AATATATTTAAATAAAATTATATA-TAATAATTATTTTATTTTATA
1 AATATATTTAAA-AAAATAATAAATTAATAAATATATAATTTTATA
1884383 AATAT-TTTAAAAAAATAATAAATTAATAAATATATAATTTTAT
1 AATATATTTAAAAAAATAATAAATTAATAAATATATAATTTTAT
1884426 TTATTATTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
43 9 0.24
44 23 0.62
45 5 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (45 bp):
AATATATTTAAAAAAATAATAAATTAATAAATATATAATTTTATA
Found at i:1885306 original size:20 final size:20
Alignment explanation
Indices: 1885270--1885324 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
1885260 ATTATCTATT
*
1885270 ATTAAA-ATCATATATTTTAA
1 ATTAAATATAATA-ATTTTAA
*
1885290 ATTAAATATGATAA-TTTAA
1 ATTAAATATAATAATTTTAA
*
1885309 AATATAATATAATAAT
1 ATTA-AATATAATAAT
1885325 ATGATATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
19 8 0.28
20 16 0.55
21 5 0.17
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (20 bp):
ATTAAATATAATAATTTTAA
Found at i:1885331 original size:13 final size:13
Alignment explanation
Indices: 1885300--1885358 Score: 54
Period size: 13 Copynumber: 4.8 Consensus size: 13
1885290 ATTAAATATG
*
1885300 ATAATTTAA-AAT
1 ATAATATAATAAT
1885312 ATAATATAATAAT
1 ATAATATAATAAT
*
1885325 ATGATATAATTAA-
1 ATAATATAA-TAAT
*
1885338 AAAATATAA-AA-
1 ATAATATAATAAT
1885349 ATAATATAAT
1 ATAATATAAT
1885359 TTAAAATTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
11 10 0.26
12 8 0.21
13 18 0.46
14 3 0.08
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.36
Consensus pattern (13 bp):
ATAATATAATAAT
Found at i:1885338 original size:29 final size:27
Alignment explanation
Indices: 1885294--1885355 Score: 72
Period size: 31 Copynumber: 2.2 Consensus size: 27
1885284 TTTTAAATTA
*
1885294 AATATGAT-AATTTAAAATATAATATAAT
1 AATATGATAAATTAAAAATATAA-A-AAT
1885322 AATATGATATAATTAAAAAATATAAAAAT
1 AATATGATA-AATT-AAAAATATAAAAAT
1885351 AATAT
1 AATAT
1885356 AATTTAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 8 0.27
29 8 0.27
30 5 0.17
31 9 0.30
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (27 bp):
AATATGATAAATTAAAAATATAAAAAT
Found at i:1885351 original size:26 final size:24
Alignment explanation
Indices: 1885314--1885364 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
1885304 TTTAAAATAT
*
1885314 AATATAATAATATGATATAATTAAAA
1 AATATAA-AA-ATAATATAATTAAAA
*
1885340 AATATAAAAATAATATAATTTAAA
1 AATATAAAAATAATATAATTAAAA
1885364 A
1 A
1885365 TTTTAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 14 0.61
25 2 0.09
26 7 0.30
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
AATATAAAAATAATATAATTAAAA
Found at i:1885372 original size:29 final size:27
Alignment explanation
Indices: 1885300--1885383 Score: 77
Period size: 27 Copynumber: 3.1 Consensus size: 27
1885290 ATTAAATATG
*
1885300 ATAATTTAAAATATAATATAATAATATGAT
1 ATAATTTAAAAT-TAATATAA-AA-ATAAT
1885330 ATAA-TTAAAA--AATATAAAAATAAT
1 ATAATTTAAAATTAATATAAAAATAAT
* *
1885354 ATAATTTAAAATT-TTAATAAAAATTAT
1 ATAATTTAAAATTAAT-ATAAAAATAAT
1885381 ATA
1 ATA
1885384 TAAAATTATT
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
24 8 0.17
25 8 0.17
26 8 0.17
27 13 0.28
29 6 0.13
30 4 0.09
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (27 bp):
ATAATTTAAAATTAATATAAAAATAAT
Found at i:1888573 original size:21 final size:22
Alignment explanation
Indices: 1888542--1888595 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
1888532 ATGAGATTAA
*
1888542 AAATAATTATAAAAACAAAATT
1 AAATTATTATAAAAACAAAATT
* *
1888564 -AATTATTATAACAATAAAATT
1 AAATTATTATAAAAACAAAATT
1888585 AAATT-TTATAA
1 AAATTATTATAA
1888596 TGAAAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 24 0.86
22 4 0.14
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATTATTATAAAAACAAAATT
Found at i:1888604 original size:21 final size:21
Alignment explanation
Indices: 1888518--1888595 Score: 65
Period size: 21 Copynumber: 3.9 Consensus size: 21
1888508 AAATAGATGG
* * * *
1888518 TAAAATTAATTTTTATGAGAT
1 TAAAATTAATTATTATAACAA
*
1888539 TAAAAATAATTA-TA-AA-AA
1 TAAAATTAATTATTATAACAA
*
1888557 CAAAATTAATTATTATAACAA
1 TAAAATTAATTATTATAACAA
1888578 TAAAATTAAATT-TTATAA
1 TAAAATT-AATTATTATAA
1888596 TGAAAAAATA
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
18 11 0.24
19 3 0.07
20 4 0.09
21 24 0.52
22 4 0.09
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (21 bp):
TAAAATTAATTATTATAACAA
Found at i:1893059 original size:8 final size:8
Alignment explanation
Indices: 1893046--1893074 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
1893036 TGTATGCTTG
1893046 CCTCATTA
1 CCTCATTA
1893054 CCTCATTA
1 CCTCATTA
1893062 CCTCATTA
1 CCTCATTA
1893070 CCTCA
1 CCTCA
1893075 AAGCTTTGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.41, G:0.00, T:0.34
Consensus pattern (8 bp):
CCTCATTA
Found at i:1894648 original size:23 final size:23
Alignment explanation
Indices: 1894622--1894669 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
1894612 GATGATAATA
*
1894622 TTTTATAAATAAATAAATATTAAT
1 TTTTA-AAATAAATAAATATAAAT
*
1894646 TTTTAAAATAAATATATATAAAT
1 TTTTAAAATAAATAAATATAAAT
1894669 T
1 T
1894670 AATAGTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TTTTAAAATAAATAAATATAAAT
Found at i:1894687 original size:22 final size:23
Alignment explanation
Indices: 1894662--1894716 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
1894652 AATAAATATA
1894662 TATAAATTAATAGTA-TATTAAT
1 TATAAATTAATAGTATTATTAAT
* * *
1894684 TATAAATTATTATTATTATTATT
1 TATAAATTAATAGTATTATTAAT
1894707 TA-AAATTAAT
1 TATAAATTAAT
1894717 GGAGTGAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 20 0.71
23 8 0.29
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
TATAAATTAATAGTATTATTAAT
Found at i:1897388 original size:37 final size:38
Alignment explanation
Indices: 1897336--1897422 Score: 106
Period size: 38 Copynumber: 2.3 Consensus size: 38
1897326 TTGATTAAAC
*
1897336 AAAATCATTATATCTTAT-CTTATTCATAATATAAGAT
1 AAAATCATTATATCTTATCCTAATTCATAATATAAGAT
* *
1897373 AAAATCATT-TAATCTTATCCTAATTTATAATATAGGAT
1 AAAATCATTAT-ATCTTATCCTAATTCATAATATAAGAT
* *
1897411 GAAATTATTATA
1 AAAATCATTATA
1897423 GCTTCATGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
36 1 0.02
37 16 0.38
38 24 0.57
39 1 0.02
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.43
Consensus pattern (38 bp):
AAAATCATTATATCTTATCCTAATTCATAATATAAGAT
Found at i:1925995 original size:6 final size:6
Alignment explanation
Indices: 1925984--1926039 Score: 50
Period size: 6 Copynumber: 10.0 Consensus size: 6
1925974 TATTATTTTT
* *
1925984 TAAATA TAAATA TAAA-A TTAA-A TAAATA TAAATA T-ATTA -AAATA
1 TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA TAAATA
1926028 TATAAT- TAAATA
1 TA-AATA TAAATA
1926040 AATAATAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
5 17 0.41
6 21 0.51
7 3 0.07
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
TAAATA
Found at i:1926010 original size:16 final size:16
Alignment explanation
Indices: 1925989--1926049 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
1925979 TTTTTTAAAT
1925989 ATAAATATAAAATTAA
1 ATAAATATAAAATTAA
1926005 ATAAATAT-AAA-TATA
1 ATAAATATAAAATTA-A
* *
1926020 TTAAAATATATAATTAA
1 AT-AAATATAAAATTAA
1926037 ATAAATAATAAAA
1 ATAAAT-ATAAAA
1926050 AAATATATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
14 2 0.06
15 5 0.14
16 18 0.50
17 9 0.25
18 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAAATATAAAATTAA
Found at i:1928148 original size:29 final size:29
Alignment explanation
Indices: 1928119--1928191 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
1928109 ATTTTAGTTG
1928119 TGTTT-TT-GTATATAT-TCTTATTAGTCT
1 TGTTTATTCGTATATATCTC-TATTAGTCT
* *
1928146 TGTTTATTCGTGTATATCTCTATTAGTCG
1 TGTTTATTCGTATATATCTCTATTAGTCT
*
1928175 TGATTATTCGTATATAT
1 TGTTTATTCGTATATAT
1928192 TTGTATTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
27 5 0.13
28 2 0.05
29 30 0.77
30 2 0.05
ACGTcount: A:0.21, C:0.10, G:0.14, T:0.56
Consensus pattern (29 bp):
TGTTTATTCGTATATATCTCTATTAGTCT
Found at i:1928198 original size:29 final size:28
Alignment explanation
Indices: 1928126--1928199 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 28
1928116 TTGTGTTTTT
* *
1928126 GTATATATTCTTATTAGTCTTGTTTATTC
1 GTATATATT-TTATTAGTCGTGATTATTC
* *
1928155 GTGTATATCTCTATTAGTCGTGATTATTC
1 GTATATAT-TTTATTAGTCGTGATTATTC
1928184 GTATATATTTGTATTA
1 GTATATATTT-TATTA
1928200 TTCATATTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
28 1 0.03
29 35 0.95
30 1 0.03
ACGTcount: A:0.23, C:0.09, G:0.14, T:0.54
Consensus pattern (28 bp):
GTATATATTTTATTAGTCGTGATTATTC
Found at i:1942125 original size:28 final size:28
Alignment explanation
Indices: 1942077--1942131 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
1942067 TTAATTAAAA
* **
1942077 TTAATATATTTTTATGGAAAAATATATG
1 TTAATATATATTTATAAAAAAATATATG
*
1942105 TTAATATATATTTATAAAAAATTATAT
1 TTAATATATATTTATAAAAAAATATAT
1942132 AAATATACAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (28 bp):
TTAATATATATTTATAAAAAAATATATG
Found at i:1943386 original size:21 final size:20
Alignment explanation
Indices: 1943324--1943491 Score: 83
Period size: 21 Copynumber: 8.2 Consensus size: 20
1943314 GTTTTAAAAA
* *
1943324 AATTTTGATAACCTTGTAAGT
1 AATTTTGATAACTTTTTAA-T
* *
1943345 -TTTTTGATAA-TTTTCATAT
1 AATTTTGATAACTTTTTA-AT
*
1943364 AATTTTGATAATTTTTGTAAT
1 AATTTTGATAACTTTT-TAAT
*
1943385 AATCTTT-ATAAC-TTTTAAG
1 AAT-TTTGATAACTTTTTAAT
* * * *
1943404 CATTTTTATCACCTTTCTAAT
1 AATTTTGAT-AACTTTTTAAT
* * *
1943425 TATTTTAATAACTTTTAATAT
1 AATTTTGATAACTTTTTA-AT
**
1943446 AATTTTGATAACCTTTACAAT
1 AATTTTGATAA-CTTTTTAAT
* *
1943467 AACTTTGATAATTTTTGTAAT
1 AATTTTGATAACTTTT-TAAT
1943488 AATT
1 AATT
1943492 AAATCAAAAT
Statistics
Matches: 110, Mismatches: 26, Indels: 22
0.70 0.16 0.14
Matches are distributed among these distances:
18 3 0.03
19 11 0.10
20 33 0.30
21 54 0.49
22 9 0.08
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.52
Consensus pattern (20 bp):
AATTTTGATAACTTTTTAAT
Found at i:1943571 original size:21 final size:21
Alignment explanation
Indices: 1943536--1943650 Score: 103
Period size: 21 Copynumber: 5.6 Consensus size: 21
1943526 TCAAAAAATC
*
1943536 AAAGATTA-AAAAATTATATA
1 AAAGATTATCAAAATTATATA
* *
1943556 AAAGATTATTAAAATTAAATA
1 AAAGATTATCAAAATTATATA
1943577 AAA-A-TATCAAAATTATA-A
1 AAAGATTATCAAAATTATATA
* * * *
1943595 CAAAAATAATTAATATTATATA
1 -AAAGATTATCAAAATTATATA
* * *
1943617 AAAAATTATCGAAATTATATT
1 AAAGATTATCAAAATTATATA
1943638 AAAGATTATCAAA
1 AAAGATTATCAAA
1943651 GATCTTTAGG
Statistics
Matches: 76, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
18 1 0.01
19 14 0.18
20 10 0.13
21 50 0.66
22 1 0.01
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.32
Consensus pattern (21 bp):
AAAGATTATCAAAATTATATA
Found at i:1943589 original size:40 final size:42
Alignment explanation
Indices: 1943545--1943646 Score: 120
Period size: 40 Copynumber: 2.5 Consensus size: 42
1943535 CAAAGATTAA
1943545 AAAATTATATAAAAGATTATTAAAATTAAAT-AAAAA-TATC
1 AAAATTATATAAAAGATTATTAAAATTAAATAAAAAATTATC
* * * *
1943585 AAAATTATA-ACAAAAATAATTAATATTATATAAAAAATTATC
1 AAAATTATATA-AAAGATTATTAAAATTAAATAAAAAATTATC
* *
1943627 GAAATTATATTAAAGATTAT
1 AAAATTATATAAAAGATTAT
1943647 CAAAGATCTT
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
39 1 0.02
40 25 0.50
41 5 0.10
42 19 0.38
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (42 bp):
AAAATTATATAAAAGATTATTAAAATTAAATAAAAAATTATC
Found at i:1959232 original size:22 final size:24
Alignment explanation
Indices: 1959190--1959235 Score: 69
Period size: 22 Copynumber: 2.0 Consensus size: 24
1959180 AATATTTTTG
*
1959190 TTTTTATATATTATTTTAATATAA
1 TTTTTATATATTATTTAAATATAA
1959214 TTTTTA-ATA-TATTTAAATATAA
1 TTTTTATATATTATTTAAATATAA
1959236 AATAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.57
23 3 0.14
24 6 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (24 bp):
TTTTTATATATTATTTAAATATAA
Found at i:1959274 original size:19 final size:20
Alignment explanation
Indices: 1959252--1959294 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
1959242 TATTTTATGT
*
1959252 TATAAAAATTTA-AAAAATA
1 TATAAAAATTAATAAAAATA
1959271 TAT-AAAATTAATAAAAATA
1 TATAAAAATTAATAAAAATA
1959290 TATAA
1 TATAA
1959295 TTTAGTTCGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 7 0.33
19 13 0.62
20 1 0.05
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
TATAAAAATTAATAAAAATA
Found at i:1965147 original size:2 final size:2
Alignment explanation
Indices: 1965140--1965168 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1965130 TTTTCTTGAC
1965140 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1965169 AACAATTCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1965336 original size:2 final size:2
Alignment explanation
Indices: 1965324--1965358 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
1965314 AAGAAAGTGT
*
1965324 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1965359 TCTCTAAGGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1969353 original size:2 final size:2
Alignment explanation
Indices: 1969346--1969377 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1969336 ATTTTCCTTC
1969346 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1969378 GCACTTTCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1973736 original size:44 final size:42
Alignment explanation
Indices: 1973642--1973737 Score: 113
Period size: 44 Copynumber: 2.2 Consensus size: 42
1973632 AAATTACTAG
*
1973642 TAAAAAAAATTATAATTATTATCAAGTATTATAAAATTATAAA
1 TAAAAAAAATTATAATTATAATCAAGTATTAT-AAATTATAAA
* *
1973685 TACAAAAAAATTATAATAATAATAATCAAGTATTAT-ATTTATATA
1 TA-AAAAAAATTATAAT--T-ATAATCAAGTATTATAAATTATAAA
1973730 TAAAAAAA
1 TAAAAAAA
1973738 TCATTGAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
43 2 0.04
44 20 0.43
45 9 0.20
46 1 0.02
47 14 0.30
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.35
Consensus pattern (42 bp):
TAAAAAAAATTATAATTATAATCAAGTATTATAAATTATAAA
Found at i:1975001 original size:61 final size:58
Alignment explanation
Indices: 1974892--1975186 Score: 387
Period size: 61 Copynumber: 4.9 Consensus size: 58
1974882 TTTTGTAGGA
* *
1974892 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTTTCTTTTAA-G
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGGAAA--T-TTTAT-TTTTAAGG
*
1974954 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAA-TTTATTCTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTTATTTTTAAGG
* * *
1975011 AAAATTGATACTTTCAACTTTTCCCCAAAAATGTTTTTTTGAAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTTATTTTTAAGG
* * *
1975069 AAAATTGATACTTTCAACTTTTTCCTAAAAATCTTTTTTTTTTGAAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAA---TATTTTTTGGAAATTTTATTTTTAAGG
*
1975130 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAACTTTTGATTTTT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTGGAAATTTT-ATTTTT
1975187 TATTTAAAGA
Statistics
Matches: 211, Mismatches: 14, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
56 5 0.02
57 46 0.22
58 42 0.20
60 13 0.06
61 73 0.35
62 32 0.15
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.48
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTTATTTTTAAGG
Found at i:1975110 original size:119 final size:118
Alignment explanation
Indices: 1974892--1975174 Score: 405
Period size: 119 Copynumber: 2.4 Consensus size: 118
1974882 TTTTGTAGGA
*
1974892 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTATTTTTCTTTTAAGAAA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAA-TTATTTATCTTTTAAGAAA
1974957 ATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAA-TTTATTCTTAAGG
65 ATTGATACTTTCAACTTTTCCCTAAAAATATTTTTT-GAAATTTTATTCTTAAGG
*
1975011 AAAATTGATACTTTCAACTTTTCCCCAAAAATGTTTTTTT-GAAA-T-TTTAT-TTTTAAGGAAA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTATTTATCTTTTAA-GAAA
* * *
1975072 ATTGATACTTTCAACTTTTTCCTAAAAATCTTTTTTTTTTGAAATTTTATTTTTAAGG
65 ATTGATACTTTCAACTTTTCCCTAAAAA----TATTTTTTGAAATTTTATTCTTAAGG
*
1975130 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGGAA
1975175 CTTTTGATTT
Statistics
Matches: 149, Mismatches: 7, Indels: 14
0.88 0.04 0.08
Matches are distributed among these distances:
114 6 0.04
115 35 0.23
116 1 0.01
118 8 0.05
119 89 0.60
120 7 0.05
121 3 0.02
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.47
Consensus pattern (118 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTATTTATCTTTTAAGAAAA
TTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGAAATTTTATTCTTAAGG
Found at i:1975214 original size:13 final size:12
Alignment explanation
Indices: 1975196--1975259 Score: 60
Period size: 12 Copynumber: 5.2 Consensus size: 12
1975186 TTATTTAAAG
1975196 AAAAAATAGAATA
1 AAAAAATA-AATA
1975209 AAAAAATAAATA
1 AAAAAATAAATA
*
1975221 AAAAAAGAAAAGTA
1 AAAAAA-TAAA-TA
1975235 AAACAAA-AAATA
1 AAA-AAATAAATA
*
1975247 AAAATA-AAATA
1 AAAAAATAAATA
1975258 AA
1 AA
1975260 GATAAAAAGA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
11 9 0.20
12 15 0.33
13 14 0.30
14 5 0.11
15 3 0.07
ACGTcount: A:0.81, C:0.02, G:0.05, T:0.12
Consensus pattern (12 bp):
AAAAAATAAATA
Found at i:1975236 original size:18 final size:18
Alignment explanation
Indices: 1975210--1975259 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
1975200 AATAGAATAA
1975210 AAAAATAAATAAAAAAAG
1 AAAAATAAATAAAAAAAG
* *
1975228 AAAAGTAAA-ACAAAAAAT
1 AAAAATAAATA-AAAAAAG
1975246 AAAAATAAAATAAA
1 AAAAAT-AAATAAA
1975260 GATAAAAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 1 0.04
18 19 0.73
19 5 0.19
20 1 0.04
ACGTcount: A:0.82, C:0.02, G:0.04, T:0.12
Consensus pattern (18 bp):
AAAAATAAATAAAAAAAG
Found at i:1975237 original size:6 final size:6
Alignment explanation
Indices: 1975197--1975267 Score: 51
Period size: 6 Copynumber: 11.8 Consensus size: 6
1975187 TATTTAAAGA
* *
1975197 AAAAAT AGAATAA- AAAAAT AAATAA- AAAAAG AAAAGT AAAACA- AAAAAT
1 AAAAAT A-AA-AAT AAAAAT AAA-AAT AAAAAT AAAAAT AAAA-AT AAAAAT
*
1975246 AAAAAT -AAAAT AAAGAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAA
1975268 GAATATTAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
5 10 0.19
6 35 0.67
7 5 0.10
8 2 0.04
ACGTcount: A:0.80, C:0.01, G:0.06, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:1975310 original size:16 final size:16
Alignment explanation
Indices: 1975242--1975317 Score: 73
Period size: 16 Copynumber: 4.6 Consensus size: 16
1975232 GTAAAACAAA
1975242 AAATAAAAATAA-AAT
1 AAATAAAAATAATAAT
* *
1975257 AAAGATAAAAAGAATATT
1 -AA-ATAAAAATAATAAT
**
1975275 AAATAAACCTAATCTAAT
1 AAATAAAAATAA--TAAT
1975293 AAATAAAAATAATAAT
1 AAATAAAAATAATAAT
1975309 AAATAAAAA
1 AAATAAAAA
1975318 AACAAATAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
16 22 0.46
17 11 0.23
18 15 0.31
ACGTcount: A:0.71, C:0.04, G:0.03, T:0.22
Consensus pattern (16 bp):
AAATAAAAATAATAAT
Found at i:1975325 original size:16 final size:15
Alignment explanation
Indices: 1975306--1975349 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
1975296 TAAAAATAAT
1975306 AATAAATAAAAAAACA
1 AATAAA-AAAAAAACA
**
1975322 AATAAAAAAAATTCA
1 AATAAAAAAAAAACA
1975337 AA-AAAAAAAAAAC
1 AATAAAAAAAAAAC
1975350 TGGAGCCGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 9 0.38
15 9 0.38
16 6 0.25
ACGTcount: A:0.82, C:0.07, G:0.00, T:0.11
Consensus pattern (15 bp):
AATAAAAAAAAAACA
Found at i:1975808 original size:31 final size:31
Alignment explanation
Indices: 1975762--1975832 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
1975752 ACTGGGCTGG
* *
1975762 TCGCTGGAAACTTC-AATGTTCGCCGGAATTGT
1 TCGCCGGAAAATTCAAAT-TTCGCCGGAATT-T
1975794 T-GCCGGAAAATTCAAATTTCGCCGGAATTT
1 TCGCCGGAAAATTCAAATTTCGCCGGAATTT
1975824 TCGCCGGAA
1 TCGCCGGAA
1975833 TCTGGAAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 2 0.06
31 29 0.83
32 4 0.11
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.28
Consensus pattern (31 bp):
TCGCCGGAAAATTCAAATTTCGCCGGAATTT
Found at i:1975888 original size:26 final size:26
Alignment explanation
Indices: 1975841--1975896 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
1975831 AATCTGGAAA
1975841 TTTCCCAGAAATTTCCAGAAAAATTT
1 TTTCCCAGAAATTTCCAGAAAAATTT
*
1975867 TTTCGCCAGAAATTTCTA-AAAAATTT
1 TTTC-CCAGAAATTTCCAGAAAAATTT
1975893 TTTC
1 TTTC
1975897 TCACTCCCAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
26 16 0.57
27 12 0.43
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.39
Consensus pattern (26 bp):
TTTCCCAGAAATTTCCAGAAAAATTT
Found at i:1976296 original size:14 final size:17
Alignment explanation
Indices: 1976264--1976300 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
1976254 TAGATAAGTA
1976264 AAAATACAAAAATGAAT
1 AAAATACAAAAATGAAT
1976281 AAAATA-AAAAA-G-AT
1 AAAATACAAAAATGAAT
1976295 AAAATA
1 AAAATA
1976301 TATATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 8 0.40
15 1 0.05
16 5 0.25
17 6 0.30
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (17 bp):
AAAATACAAAAATGAAT
Found at i:1976411 original size:16 final size:15
Alignment explanation
Indices: 1976310--1976412 Score: 59
Period size: 16 Copynumber: 6.6 Consensus size: 15
1976300 ATATATATAT
1976310 ATACATAAATAATAAA
1 ATACATAAATAAT-AA
*
1976326 ATACACATAAATATTAA
1 AT--ACATAAATAATAA
* * *
1976343 CAAAAAAAAATAAATAA
1 -ATACATAAAT-AATAA
* * *
1976360 ATATATACATATATTA
1 ATACATAAATA-ATAA
1976376 ATACAT-AATAAT-A
1 ATACATAAATAATAA
1976389 ATA-ATAAATAATACA
1 ATACATAAATAATA-A
1976404 ATACATAAA
1 ATACATAAA
1976413 ATACAAAAGA
Statistics
Matches: 66, Mismatches: 12, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
12 2 0.03
13 10 0.15
14 2 0.03
15 8 0.12
16 27 0.41
17 6 0.09
18 11 0.17
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (15 bp):
ATACATAAATAATAA
Found at i:1977938 original size:52 final size:52
Alignment explanation
Indices: 1977861--1978005 Score: 195
Period size: 52 Copynumber: 2.8 Consensus size: 52
1977851 CTTGCAAAGG
* *
1977861 AAGAATTCTAAAA-G-AAAGATGATTCTTAATAGGTAAGTTTGACTTGCAAGAA
1 AAGAATTCTAAAAGGAAAAGA--ATTCTTAATAGGCAAGTTTGACTTACAAGAA
*
1977913 AAGAATTCTAAAAGGAAAAGAATTCTTAATAGGCAAGTTTGACTTACAAGAG
1 AAGAATTCTAAAAGGAAAAGAATTCTTAATAGGCAAGTTTGACTTACAAGAA
* * * *
1977965 AAGAATTCTAAGAGGAAAGGGATTCTTAATGGGCAAGTTTG
1 AAGAATTCTAAAAGGAAAAGAATTCTTAATAGGCAAGTTTG
1978006 TATGGTTATA
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
52 78 0.93
53 1 0.01
54 5 0.06
ACGTcount: A:0.43, C:0.08, G:0.22, T:0.27
Consensus pattern (52 bp):
AAGAATTCTAAAAGGAAAAGAATTCTTAATAGGCAAGTTTGACTTACAAGAA
Found at i:1979856 original size:3 final size:3
Alignment explanation
Indices: 1979848--1979918 Score: 142
Period size: 3 Copynumber: 23.7 Consensus size: 3
1979838 ATGAATCCTT
1979848 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1979896 TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TC
1979919 GATTTAGTTA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:1981935 original size:26 final size:24
Alignment explanation
Indices: 1981893--1981962 Score: 79
Period size: 26 Copynumber: 2.9 Consensus size: 24
1981883 TATTTTTTAA
* *
1981893 ATATAAATATTTAAATACATAATT
1 ATATAAATATTTAAATAAAAAATT
1981917 ATATAAATATATATAAATAAAAAATT
1 ATATAAATAT-T-TAAATAAAAAATT
* *
1981943 AAATAAATAATTAAA-AAAAA
1 ATATAAATATTTAAATAAAAA
1981963 TAATTTTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
23 5 0.12
24 14 0.35
25 2 0.05
26 19 0.47
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (24 bp):
ATATAAATATTTAAATAAAAAATT
Found at i:1983017 original size:15 final size:15
Alignment explanation
Indices: 1982994--1983023 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1982984 CCAAAACCCC
*
1982994 TGTATTGAGTACACA
1 TGTAATGAGTACACA
1983009 TGTAATGAGTACACA
1 TGTAATGAGTACACA
1983024 AGCATGCTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (15 bp):
TGTAATGAGTACACA
Found at i:1983590 original size:22 final size:23
Alignment explanation
Indices: 1983548--1983595 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
1983538 AATATTTTTG
*
1983548 TTTTTATATATTATTTTAATATGA
1 TTTTTATATATTATTTAAATA-GA
1983572 TTTTTA-ATA-TATTTAAATAGA
1 TTTTTATATATTATTTAAATAGA
1983593 TTT
1 TTT
1983596 AAATAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 5 0.22
22 9 0.39
23 3 0.13
24 6 0.26
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (23 bp):
TTTTTATATATTATTTAAATAGA
Found at i:1988285 original size:42 final size:43
Alignment explanation
Indices: 1988219--1988299 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 43
1988209 TTAAAATTTT
* * * *
1988219 TTATGAAATTATAAATAGAGAAAAA-TTATAATTATAATAGTA
1 TTATAAAATTATAAATAGAAAAAAAGTTACAATAATAATAGTA
*
1988261 TTATAAAATTATAAATATAAAAAAAGTTACAATAATAAT
1 TTATAAAATTATAAATAGAAAAAAAGTTACAATAATAAT
1988300 CAAATATTAC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
42 22 0.67
43 11 0.33
ACGTcount: A:0.58, C:0.01, G:0.06, T:0.35
Consensus pattern (43 bp):
TTATAAAATTATAAATAGAAAAAAAGTTACAATAATAATAGTA
Found at i:1988879 original size:21 final size:21
Alignment explanation
Indices: 1988855--1988900 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
1988845 TAAGGAGTGT
1988855 TTTTACG-TAATAAGTAAAATA
1 TTTTACGCTAATAAGT-AAATA
**
1988876 TTTTTGGCTAATAAGTAAATA
1 TTTTACGCTAATAAGTAAATA
1988897 TTTT
1 TTTT
1988901 TATTAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.39, C:0.04, G:0.11, T:0.46
Consensus pattern (21 bp):
TTTTACGCTAATAAGTAAATA
Found at i:1988879 original size:22 final size:22
Alignment explanation
Indices: 1988854--1988902 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
1988844 GTAAGGAGTG
1988854 TTTTTACG-TAATAAGTAAAATA
1 TTTTTACGCTAATAAGT-AAATA
*
1988876 TTTTT-GGCTAATAAGTAAATA
1 TTTTTACGCTAATAAGTAAATA
1988897 TTTTTA
1 TTTTTA
1988903 TTAAATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.47
Consensus pattern (22 bp):
TTTTTACGCTAATAAGTAAATA
Found at i:1991521 original size:28 final size:28
Alignment explanation
Indices: 1991500--1991565 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
1991490 ATATATATGT
*
1991500 AAATTAAAAATAAAAATTATATGCATAA
1 AAATTAAAAATAAAAATTATATACATAA
* *
1991528 AAATTTAAAATAAAAATTATATAAAAATAA
1 AAATTAAAAATAAAAATTATAT--ACATAA
1991558 AAATTAAA
1 AAATTAAA
1991566 TTTAATAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 21 0.66
30 11 0.34
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (28 bp):
AAATTAAAAATAAAAATTATATACATAA
Found at i:1991529 original size:15 final size:15
Alignment explanation
Indices: 1991507--1991563 Score: 64
Period size: 17 Copynumber: 3.8 Consensus size: 15
1991497 TGTAAATTAA
1991507 AAATAAAAATTATAT
1 AAATAAAAATTATAT
**
1991522 GCATAAAAATT-TA-
1 AAATAAAAATTATAT
1991535 AAATAAAAATTATAT
1 AAATAAAAATTATAT
1991550 AAAAATAAAAATTA
1 --AAATAAAAATTA
1991564 AATTTAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
13 9 0.26
14 4 0.12
15 9 0.26
17 12 0.35
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (15 bp):
AAATAAAAATTATAT
Found at i:1991566 original size:22 final size:22
Alignment explanation
Indices: 1991504--1991575 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
1991494 ATATGTAAAT
* *
1991504 TAAAAATAAAAATTATATGCATA
1 TAAAAATAAAAATTAAAT-TATA
* * *
1991527 -AAAATTTAAAATAAAAATTATA
1 TAAAAATAAAAAT-TAAATTATA
1991549 TAAAAATAAAAATTAAATT-TAA
1 TAAAAATAAAAATTAAATTAT-A
1991571 TAAAA
1 TAAAA
1991576 TATATATTAT
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
21 1 0.03
22 24 0.63
23 13 0.34
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (22 bp):
TAAAAATAAAAATTAAATTATA
Found at i:2001953 original size:3 final size:3
Alignment explanation
Indices: 2001945--2001974 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
2001935 AATCTTTGAA
2001945 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
2001975 AAAAAGGGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:2002165 original size:2 final size:2
Alignment explanation
Indices: 2002158--2002200 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
2002148 GAAAATGTGT
* * *
2002158 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TG TA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2002200 T
1 T
2002201 TCTAAGGACC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2006006 original size:26 final size:26
Alignment explanation
Indices: 2005970--2006020 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
2005960 CTTTGGCAGA
2005970 TACCAATGAAATTTGCACAATTTCTT
1 TACCAATGAAATTTGCACAATTTCTT
2005996 TACCAATGAAATTTGCACAATTTCT
1 TACCAATGAAATTTGCACAATTTCT
2006021 GTGCCTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.37
Consensus pattern (26 bp):
TACCAATGAAATTTGCACAATTTCTT
Found at i:2008094 original size:18 final size:17
Alignment explanation
Indices: 2008069--2008121 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 17
2008059 AAATATTTTT
2008069 TTAATAATTAATAAAAA
1 TTAATAATTAATAAAAA
2008086 TTAATTAATTAATAAAAA
1 TTAA-TAATTAATAAAAA
*
2008104 CTATAAAAATTAA-AAAAA
1 -T-TAATAATTAATAAAAA
2008122 ACAACAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
17 4 0.12
18 18 0.56
19 7 0.22
20 3 0.09
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (17 bp):
TTAATAATTAATAAAAA
Found at i:2008845 original size:17 final size:17
Alignment explanation
Indices: 2008814--2008863 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
2008804 CTATGTCAAA
* *
2008814 ATTTTTATTTTTTAAAT
1 ATTTTTAATTATTAAAT
*
2008831 A-TTTTAATTGATTAATT
1 ATTTTTAATT-ATTAAAT
2008848 ATTTTTAATTATTAAA
1 ATTTTTAATTATTAAA
2008864 AAGATATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
16 7 0.26
17 12 0.44
18 8 0.30
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (17 bp):
ATTTTTAATTATTAAAT
Found at i:2015810 original size:58 final size:59
Alignment explanation
Indices: 2015672--2016027 Score: 493
Period size: 58 Copynumber: 5.9 Consensus size: 59
2015662 TTTTGTAGGA
*
2015672 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTTTCTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGGAAA--T-TTTAT-TTTTAAGG
* * *
2015736 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAA-TTTATTCTTAAAG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTTATTTTTAAGG
*
2015794 AAAATTGATACTTTCAACTTTTCCCCAAAAATGTTTTTTT-GAAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTTATTTTTAAGG
* * * * *
2015852 AAAATTGATACTTTCAACTTTTTCCTAAAAATCTTTTTTTTTTGAAATTTTGTTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAA--TATTTTTTTGGAAATTTTATTTTTAAGG
*
2015913 AAAATTGATACTTTCAACTTTTCCCCAAAAATGTTTTTTT-GAAATTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTTATTTTTAAGG
* *
2015971 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAACTTTTGATTTTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGGAAATTTT-ATTTTT
2016028 TATTTAAAGA
Statistics
Matches: 266, Mismatches: 19, Indels: 17
0.88 0.06 0.06
Matches are distributed among these distances:
57 4 0.02
58 132 0.50
59 19 0.07
60 15 0.06
61 52 0.20
63 12 0.05
64 32 0.12
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGGAAATTTTATTTTTAAGG
Found at i:2015936 original size:177 final size:179
Alignment explanation
Indices: 2015672--2016010 Score: 524
Period size: 177 Copynumber: 1.9 Consensus size: 179
2015662 TTTTGTAGGA
*
2015672 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTTTCTTTTAAGGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAA-TTATTTGTCTTTTAAGGA
*
2015737 AAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGGAAA-TTTATTCTTAAAGAAAATTG
65 AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTT-GAAATTTTATTCTTAAAGAAAATTG
*
2015801 ATACTTTCAACTTTTCCCCAAAAATGTTTTTTTGAAATTTTATTTTTAAGG
129 ATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTATTTTTAAGG
* * * *
2015852 AAAATTGATACTTTCAACTTTTTCCTAAAAATCTTTTTTTTTTGAAA-T-TTTGT-TTTTAAGGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAAT-ATTTTTTTTGGAAATTATTTGTCTTTTAAGGA
* * *
2015914 AAATTGATACTTTCAACTTTTCCCCAAAAATGTTTTTTTGAAATTTTATTTTTAAGGAAAATTGA
65 AAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTATTCTTAAAGAAAATTGA
*
2015979 TACTTTCAACTTTTCCCTAAAAATATTTTTTT
130 TACTTTCAACTTTTCCCCAAAAATATTTTTTT
2016011 TGGAACTTTT
Statistics
Matches: 146, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
176 4 0.03
177 95 0.65
178 4 0.03
179 1 0.01
180 30 0.21
181 12 0.08
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.48
Consensus pattern (179 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTATTTGTCTTTTAAGGAA
AATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTATTCTTAAAGAAAATTGAT
ACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTTATTTTTAAGG
Found at i:2016027 original size:119 final size:118
Alignment explanation
Indices: 2015672--2016027 Score: 538
Period size: 119 Copynumber: 3.0 Consensus size: 118
2015662 TTTTGTAGGA
* *
2015672 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTTTCTTTTAAGGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAAT-GTTTTTTT-GAAA--T-TTTAT-TTTTAAGGA
* *
2015737 AAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTGGAAATTT-ATTCTTAAAG
60 AAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAATTTTGATTTTTAAAG
2015794 AAAATTGATACTTTCAACTTTTCCCCAAAAATGTTTTTTTGAAATTTTATTTTTAAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATGTTTTTTTGAAATTTTATTTTTAAGGAAAATTG
* * * *
2015859 ATACTTTCAACTTTTTCCTAAAAATCTTTTTTTTTTGAAATTTTG-TTTTTAAGG
66 ATACTTTCAACTTTTCCCTAAAAA--TATTTTTTTTGGAATTTTGATTTTTAAAG
2015913 AAAATTGATACTTTCAACTTTTCCCCAAAAATGTTTTTTTGAAATTTTATTTTTAAGGAAAATTG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATGTTTTTTTGAAATTTTATTTTTAAGGAAAATTG
2015978 ATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAACTTTTGATTTTT
66 ATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAA-TTTTGATTTTT
2016028 TATTTAAAGA
Statistics
Matches: 217, Mismatches: 11, Indels: 15
0.89 0.05 0.06
Matches are distributed among these distances:
116 38 0.18
117 16 0.07
118 7 0.03
119 113 0.52
120 4 0.02
121 7 0.03
122 32 0.15
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (118 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATGTTTTTTTGAAATTTTATTTTTAAGGAAAATTG
ATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGGAATTTTGATTTTTAAAG
Found at i:2016102 original size:11 final size:11
Alignment explanation
Indices: 2016037--2016167 Score: 54
Period size: 11 Copynumber: 11.5 Consensus size: 11
2016027 TTATTTAAAG
*
2016037 AAAAATAGAAT
1 AAAAATAAAAT
2016048 AATAAA-ATAAAT
1 AA-AAATA-AAAT
*
2016060 AAAAAAGAAAAGT
1 -AAAAATAAAA-T
2016073 AAAACA-AAAAT
1 AAAA-ATAAAAT
2016084 AAAAATAAAAT
1 AAAAATAAAAT
*
2016095 AAAGATAAAA-
1 AAAAATAAAAT
* *
2016105 AGAATATTAAAT
1 A-AAAATAAAAT
** **
2016117 AAACCTAATCT
1 AAAAATAAAAT
2016128 AATAAATAAAAAT
1 AA-AAAT-AAAAT
*
2016141 AATAAT-AAAT
1 AAAAATAAAAT
*
2016151 AAAAAAACAAAT
1 AAAAATA-AAAT
2016163 AAAAA
1 AAAAA
2016168 AATTCAAAAA
Statistics
Matches: 91, Mismatches: 16, Indels: 25
0.69 0.12 0.19
Matches are distributed among these distances:
10 10 0.11
11 36 0.40
12 35 0.38
13 10 0.11
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.18
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:2016102 original size:17 final size:17
Alignment explanation
Indices: 2016051--2016105 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
2016041 ATAGAATAAT
*
2016051 AAAATAAATA-AAAAAGA
1 AAAATAAA-ACAAAAATA
*
2016068 AAAGTAAAACAAAAATA
1 AAAATAAAACAAAAATA
* *
2016085 AAAATAAAATAAAGATA
1 AAAATAAAACAAAAATA
2016102 AAAA
1 AAAA
2016106 GAATATTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
16 1 0.03
17 31 0.97
ACGTcount: A:0.80, C:0.02, G:0.05, T:0.13
Consensus pattern (17 bp):
AAAATAAAACAAAAATA
Found at i:2016148 original size:16 final size:16
Alignment explanation
Indices: 2016080--2016155 Score: 73
Period size: 16 Copynumber: 4.6 Consensus size: 16
2016070 AGTAAAACAA
2016080 AAATAAAAATAA-AAT
1 AAATAAAAATAATAAT
* *
2016095 AAAGATAAAAAGAATATT
1 -AA-ATAAAAATAATAAT
**
2016113 AAATAAACCTAATCTAAT
1 AAATAAAAATAA--TAAT
2016131 AAATAAAAATAATAAT
1 AAATAAAAATAATAAT
2016147 AAATAAAAA
1 AAATAAAAA
2016156 AACAAATAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
16 22 0.46
17 11 0.23
18 15 0.31
ACGTcount: A:0.71, C:0.04, G:0.03, T:0.22
Consensus pattern (16 bp):
AAATAAAAATAATAAT
Found at i:2016163 original size:16 final size:16
Alignment explanation
Indices: 2016037--2016169 Score: 56
Period size: 16 Copynumber: 7.9 Consensus size: 16
2016027 TTATTTAAAG
2016037 AAAAATAGAATAATAAAAT
1 AAAAATA-AAT-A-AAAAT
* * *
2016056 AAATAAAAAAGAAAAGT
1 AAA-AATAAATAAAAAT
*
2016073 AAAACAAAAATAAAAAT
1 AAAA-ATAAATAAAAAT
*
2016090 -AAAATAAAGATAAAAAG
1 AAAAAT-AA-ATAAAAAT
* * **
2016107 AATATTAAATAAACCT
1 AAAAATAAATAAAAAT
*
2016123 AATCTAATAAATAAAAAT
1 AA--AAATAAATAAAAAT
*
2016141 AATAATAAATAAAAA-
1 AAAAATAAATAAAAAT
2016156 AACAAATAAA-AAAA
1 AA-AAATAAATAAAA
2016170 TTCAAAAAAA
Statistics
Matches: 90, Mismatches: 16, Indels: 20
0.71 0.13 0.16
Matches are distributed among these distances:
15 7 0.08
16 32 0.36
17 26 0.29
18 17 0.19
19 5 0.06
20 3 0.03
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.18
Consensus pattern (16 bp):
AAAAATAAATAAAAAT
Found at i:2016631 original size:31 final size:32
Alignment explanation
Indices: 2016585--2016655 Score: 96
Period size: 31 Copynumber: 2.3 Consensus size: 32
2016575 ACTGGGCTGG
2016585 TCGCC-GAAAACTTC-AATGTTCGCCGGAATTGT
1 TCGCCGGAAAACTTCAAAT-TTCGCCGGAATT-T
2016617 T-GCCGGAAAA-TTCAAATTTCGCCGGAATTT
1 TCGCCGGAAAACTTCAAATTTCGCCGGAATTT
2016647 TCGCCGGAA
1 TCGCCGGAA
2016656 TCTGGAAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
30 2 0.06
31 25 0.69
32 9 0.25
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.27
Consensus pattern (32 bp):
TCGCCGGAAAACTTCAAATTTCGCCGGAATTT
Found at i:2017142 original size:18 final size:19
Alignment explanation
Indices: 2017121--2017162 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
2017111 TAAAAAGATA
* *
2017121 AAATATAT-ATATATACAT
1 AAATATATAAAATACACAT
2017139 AAATA-ATAAAATACACAT
1 AAATATATAAAATACACAT
2017157 AAATAT
1 AAATAT
2017163 TAACAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (19 bp):
AAATATATAAAATACACAT
Found at i:2017234 original size:16 final size:15
Alignment explanation
Indices: 2017133--2017235 Score: 68
Period size: 16 Copynumber: 6.6 Consensus size: 15
2017123 ATATATATAT
2017133 ATACATAAATAATAAA
1 ATACATAAATAAT-AA
*
2017149 ATACACATAAATATTAA
1 AT--ACATAAATAATAA
* *
2017166 CAAAAATAAATAAATAA
1 -ATACATAAAT-AATAA
* * *
2017183 ATATATACATATATTA
1 ATACATAAATA-ATAA
2017199 ATACAT-AATAAT-A
1 ATACATAAATAATAA
2017212 ATA-ATAAATAATACA
1 ATACATAAATAATA-A
2017227 ATACATAAA
1 ATACATAAA
2017236 ATACAAAAGA
Statistics
Matches: 68, Mismatches: 10, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
12 2 0.03
13 10 0.15
14 2 0.03
15 8 0.12
16 29 0.43
17 6 0.09
18 11 0.16
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (15 bp):
ATACATAAATAATAA
Found at i:2018723 original size:52 final size:52
Alignment explanation
Indices: 2018646--2018790 Score: 186
Period size: 52 Copynumber: 2.8 Consensus size: 52
2018636 CTTGCAAAGG
* *
2018646 AAGAATTCTAAAA-G-AAAGATGATTCTTAATAGGTAAGTTTGACTTGCAAGAA
1 AAGAATTCTAAAAGGAAAAGA--ATTCTTAATAGGCAAGTTTGACTTACAAGAA
*
2018698 AAGAATTCTAAAAGGAAAAGAATTCTTAATAGGCAAGTTTGACTTACAAGAG
1 AAGAATTCTAAAAGGAAAAGAATTCTTAATAGGCAAGTTTGACTTACAAGAA
* * * * *
2018750 AAGAATTCTAAGAGGAAAGGGATTTTTAATGGGCAAGTTTG
1 AAGAATTCTAAAAGGAAAAGAATTCTTAATAGGCAAGTTTG
2018791 TATGGTTATA
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
52 77 0.93
53 1 0.01
54 5 0.06
ACGTcount: A:0.43, C:0.08, G:0.22, T:0.28
Consensus pattern (52 bp):
AAGAATTCTAAAAGGAAAAGAATTCTTAATAGGCAAGTTTGACTTACAAGAA
Found at i:2020650 original size:3 final size:3
Alignment explanation
Indices: 2020642--2020670 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2020632 ATGAATCCTT
2020642 TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
2020671 GATTTAGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:2022659 original size:20 final size:21
Alignment explanation
Indices: 2022623--2022673 Score: 79
Period size: 22 Copynumber: 2.5 Consensus size: 21
2022613 CCTGAAATTA
2022623 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA-TTTTTAAAAT
2022645 ATAAAATATTATTTTT-AAAT
1 ATAAAATATTATTTTTAAAAT
2022665 AT-AAATATT
1 ATAAAATATT
2022674 TAAATACATA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 7 0.24
20 6 0.21
21 5 0.17
22 11 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:2022670 original size:19 final size:21
Alignment explanation
Indices: 2022622--2022673 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
2022612 ACCTGAAATT
2022622 AATA-AAATATTATTTTTTAA
1 AATATAAATATTATTTTTTAA
2022642 AATATAAAATATTA-TTTTT-A
1 AATAT-AAATATTATTTTTTAA
2022662 AATATAAATATT
1 AATATAAATATT
2022674 TAAATACATA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.23
20 10 0.33
21 5 0.17
22 8 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
AATATAAATATTATTTTTTAA
Found at i:2022727 original size:12 final size:12
Alignment explanation
Indices: 2022665--2022737 Score: 74
Period size: 12 Copynumber: 5.8 Consensus size: 12
2022655 ATTTTTAAAT
*
2022665 ATAAATATTTAA
1 ATAAATAATTAA
* *
2022677 ATACATAATTAT
1 ATAAATAATTAA
2022689 ATAAATATATATAA
1 ATAAATA-AT-TAA
*
2022703 ATAAAAAAATTAA
1 AT-AAATAATTAA
2022716 ATAAATAATTAA
1 ATAAATAATTAA
*
2022728 AAAAATAATT
1 ATAAATAATT
2022738 TTTATATAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
12 33 0.66
13 7 0.14
14 6 0.12
15 4 0.08
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (12 bp):
ATAAATAATTAA
Found at i:2022728 original size:21 final size:23
Alignment explanation
Indices: 2022690--2022733 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
2022680 CATAATTATA
2022690 TAAATATATATAAATAAAAAAAT
1 TAAATATATATAAATAAAAAAAT
*
2022713 TAAATA-A-ATAATTAAAAAAAT
1 TAAATATATATAAATAAAAAAAT
2022734 AATTTTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 13 0.65
22 1 0.05
23 6 0.30
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (23 bp):
TAAATATATATAAATAAAAAAAT
Found at i:2023808 original size:15 final size:15
Alignment explanation
Indices: 2023788--2023817 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
2023778 CCAAAACCCC
2023788 TGTAATGAGTACACA
1 TGTAATGAGTACACA
2023803 TGTAATGAGTACACA
1 TGTAATGAGTACACA
2023818 AGCATGCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (15 bp):
TGTAATGAGTACACA
Found at i:2024384 original size:22 final size:23
Alignment explanation
Indices: 2024342--2024389 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
2024332 AATATTTTTG
*
2024342 TTTTTATATATTATTTTAATATGA
1 TTTTTATATATTATTTAAATA-GA
2024366 TTTTTA-ATA-TATTTAAATAGA
1 TTTTTATATATTATTTAAATAGA
2024387 TTT
1 TTT
2024390 AAATATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 5 0.22
22 9 0.39
23 3 0.13
24 6 0.26
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (23 bp):
TTTTTATATATTATTTAAATAGA
Found at i:2029087 original size:45 final size:46
Alignment explanation
Indices: 2029033--2029126 Score: 120
Period size: 45 Copynumber: 2.1 Consensus size: 46
2029023 TTAAAATTTT
* * * *
2029033 TTATGAAATTATAAATAGAAGAAAAA-TTATAATTATAAT-AAAGTA
1 TTATAAAATTATAAATAGAAAAAAAAGTTACAATAATAATCAAA-TA
*
2029078 TTATAAAATTATAAATATAAAAAAAAGTTACAATAATAATCAAATA
1 TTATAAAATTATAAATAGAAAAAAAAGTTACAATAATAATCAAATA
2029124 TTA
1 TTA
2029127 CATTTATATA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
45 23 0.55
46 16 0.38
47 3 0.07
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (46 bp):
TTATAAAATTATAAATAGAAAAAAAAGTTACAATAATAATCAAATA
Found at i:2029699 original size:21 final size:21
Alignment explanation
Indices: 2029675--2029720 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
2029665 TAAGGAGTGT
2029675 TTTTACG-TAATAAGTAAAATA
1 TTTTACGCTAATAAGT-AAATA
**
2029696 TTTTTGGCTAATAAGTAAATA
1 TTTTACGCTAATAAGTAAATA
2029717 TTTT
1 TTTT
2029721 TATTAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.39, C:0.04, G:0.11, T:0.46
Consensus pattern (21 bp):
TTTTACGCTAATAAGTAAATA
Found at i:2029699 original size:22 final size:22
Alignment explanation
Indices: 2029674--2029722 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
2029664 GTAAGGAGTG
2029674 TTTTTACG-TAATAAGTAAAATA
1 TTTTTACGCTAATAAGT-AAATA
*
2029696 TTTTT-GGCTAATAAGTAAATA
1 TTTTTACGCTAATAAGTAAATA
2029717 TTTTTA
1 TTTTTA
2029723 TTAAATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.47
Consensus pattern (22 bp):
TTTTTACGCTAATAAGTAAATA
Found at i:2032338 original size:28 final size:28
Alignment explanation
Indices: 2032317--2032382 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
2032307 ATATATATGT
*
2032317 AAATTAAAAATAAAAATTATATGCATAA
1 AAATTAAAAATAAAAATTATATACATAA
* *
2032345 AAATTTAAAATAAAAATTATATAAAAATAA
1 AAATTAAAAATAAAAATTATAT--ACATAA
2032375 AAATTAAA
1 AAATTAAA
2032383 TTTAATAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 21 0.66
30 11 0.34
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (28 bp):
AAATTAAAAATAAAAATTATATACATAA
Found at i:2032346 original size:15 final size:15
Alignment explanation
Indices: 2032324--2032380 Score: 64
Period size: 17 Copynumber: 3.8 Consensus size: 15
2032314 TGTAAATTAA
2032324 AAATAAAAATTATAT
1 AAATAAAAATTATAT
**
2032339 GCATAAAAATT-TA-
1 AAATAAAAATTATAT
2032352 AAATAAAAATTATAT
1 AAATAAAAATTATAT
2032367 AAAAATAAAAATTA
1 --AAATAAAAATTA
2032381 AATTTAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
13 9 0.26
14 4 0.12
15 9 0.26
17 12 0.35
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (15 bp):
AAATAAAAATTATAT
Found at i:2032383 original size:22 final size:22
Alignment explanation
Indices: 2032321--2032392 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
2032311 ATATGTAAAT
* *
2032321 TAAAAATAAAAATTATATGCATA
1 TAAAAATAAAAATTAAAT-TATA
* * *
2032344 -AAAATTTAAAATAAAAATTATA
1 TAAAAATAAAAAT-TAAATTATA
2032366 TAAAAATAAAAATTAAATT-TAA
1 TAAAAATAAAAATTAAATTAT-A
2032388 TAAAA
1 TAAAA
2032393 TATATATTAT
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
21 1 0.03
22 24 0.63
23 13 0.34
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (22 bp):
TAAAAATAAAAATTAAATTATA
Found at i:2033154 original size:2 final size:2
Alignment explanation
Indices: 2033147--2033176 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
2033137 AAATACCTTA
2033147 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
2033177 ATATATATAT
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:2035795 original size:2 final size:2
Alignment explanation
Indices: 2035790--2035815 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2035780 GATGTTGCAA
2035790 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2035816 GTTTTTATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2037006 original size:6 final size:6
Alignment explanation
Indices: 2036995--2037066 Score: 56
Period size: 6 Copynumber: 11.2 Consensus size: 6
2036985 AATGCCTAAA
*
2036995 TTATTT TTATTT TTA-TT TTATTT CTTGTTT TTAATTT TTAATTT ATTAATTAT
1 TTATTT TTATTT TTATTT TTATTT -TTATTT TT-ATTT TT-ATTT -TT-ATT-T
* *
2037048 TTATCT TTATTT TGATTT T
1 TTATTT TTATTT TTATTT T
2037067 GATATTTGTC
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
5 5 0.09
6 25 0.45
7 17 0.30
8 8 0.14
9 1 0.02
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (6 bp):
TTATTT
Found at i:2038375 original size:15 final size:15
Alignment explanation
Indices: 2038304--2038375 Score: 62
Period size: 15 Copynumber: 4.9 Consensus size: 15
2038294 TTTTTTGTAT
2038304 TTTATATTATTA-TTA
1 TTTAT-TTATTATTTA
* *
2038319 -TTA-TTATTTTTTCT
1 TTTATTTATTATTT-A
2038333 TTTATTT-TTATCTTA
1 TTTATTTATTAT-TTA
*
2038348 TGTATTTATTATTTA
1 TTTATTTATTATTTA
2038363 TTTATTTATTATT
1 TTTATTTATTATT
2038376 ACTCTTTATT
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
12 5 0.11
13 2 0.04
14 3 0.07
15 27 0.60
16 8 0.18
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (15 bp):
TTTATTTATTATTTA
Found at i:2038502 original size:21 final size:21
Alignment explanation
Indices: 2038464--2038565 Score: 80
Period size: 21 Copynumber: 4.8 Consensus size: 21
2038454 TTAATATTTA
2038464 TATATATTTATCTGATTATATAT
1 TATA-ATTTATCT-ATTATATAT
*
2038487 TATAATTTATCTATTATTTAT
1 TATAATTTATCTATTATATAT
* * * *
2038508 TTTTAGTTATCTGTTA-ATAT
1 TATAATTTATCTATTATATAT
* * *
2038528 TATTATTTATCTAATTATTTTT
1 TATAATTTATCT-ATTATATAT
* *
2038550 TTTAAATTATCTATTA
1 TATAATTTATCTATTA
2038566 ACATTTTTTA
Statistics
Matches: 63, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
20 13 0.21
21 27 0.43
22 19 0.30
23 4 0.06
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (21 bp):
TATAATTTATCTATTATATAT
Found at i:2038538 original size:41 final size:43
Alignment explanation
Indices: 2038471--2038553 Score: 127
Period size: 41 Copynumber: 2.0 Consensus size: 43
2038461 TTATATATAT
2038471 TTATCTGATTATATATTATAATTTATCT-ATTATTTATTTTTAG
1 TTATCTGATTATATATTATAATTTATCTAATTATTT-TTTTTAG
*
2038514 TTATCTG-TTA-ATATTATTATTTATCTAATTATTTTTTTTA
1 TTATCTGATTATATATTATAATTTATCTAATTATTTTTTTTA
2038554 AATTATCTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
41 21 0.55
42 10 0.26
43 7 0.18
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.63
Consensus pattern (43 bp):
TTATCTGATTATATATTATAATTTATCTAATTATTTTTTTTAG
Found at i:2038560 original size:42 final size:41
Alignment explanation
Indices: 2038471--2038566 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 41
2038461 TTATATATAT
*
2038471 TTATCTGATTATATATTATAATTTATCTATTATTTATTTTTAG
1 TTATCTG-TTA-ATATTATAATTTATCTATTATTTATTTTTAA
*
2038514 TTATCTGTTAATATTATTATTTATCTAATTATTT-TTTTTAAA
1 TTATCTGTTAATATTATAATTTATCT-ATTATTTATTTTT-AA
*
2038556 TTATCTATTAA
1 TTATCTGTTAA
2038567 CATTTTTTAT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
41 20 0.42
42 21 0.44
43 7 0.15
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.60
Consensus pattern (41 bp):
TTATCTGTTAATATTATAATTTATCTATTATTTATTTTTAA
Found at i:2039307 original size:10 final size:10
Alignment explanation
Indices: 2039292--2039403 Score: 62
Period size: 10 Copynumber: 10.7 Consensus size: 10
2039282 CGTTCCAGGT
2039292 TTTTTTTTTA
1 TTTTTTTTTA
2039302 TTTTTTATTTA
1 TTTTTT-TTTA
*
2039313 TTTATTTATTA
1 TTT-TTTTTTA
* *
2039324 TTATTATATTA
1 TT-TTTTTTTA
* * *
2039335 TGATTGTTTAA
1 T-TTTTTTTTA
** *
2039346 CATTTTTTTC
1 TTTTTTTTTA
*
2039356 TATTTTTTTA
1 TTTTTTTTTA
* *
2039366 TTTATTTTCA
1 TTTTTTTTTA
*
2039376 TTTATTTTTA
1 TTTTTTTTTA
2039386 TTTATTTTTTA
1 TTT-TTTTTTA
2039397 TTTTTTT
1 TTTTTTT
2039404 AAATAAAATT
Statistics
Matches: 80, Mismatches: 17, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
10 43 0.54
11 33 0.41
12 4 0.05
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.76
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:2039377 original size:28 final size:27
Alignment explanation
Indices: 2039346--2039400 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
2039336 GATTGTTTAA
*
2039346 CATTT-TTTTCTATTTTTTTATTTATTTT
1 CATTTATTTT-TATTTATTT-TTTATTTT
2039374 CATTTATTTTTATTTATTTTTTATTTT
1 CATTTATTTTTATTTATTTTTTATTTT
2039401 TTTAAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 8 0.32
28 13 0.52
29 4 0.16
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.78
Consensus pattern (27 bp):
CATTTATTTTTATTTATTTTTTATTTT
Found at i:2039497 original size:60 final size:57
Alignment explanation
Indices: 2039422--2039761 Score: 323
Period size: 60 Copynumber: 5.8 Consensus size: 57
2039412 TTCAAAAAAA
* * *
2039422 CAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATAAATTTTTCATAAGAATAAATTTT
1 CAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTC-TAA-ATTAAATTTT
* * * *
2039481 CAAAAAAAAGTGTTTTTTGAGGAAAAGTTGAAAGTATTAATTTTTCTCGAAATTAAAAATTT
1 CAAAAAAAA-T-ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCT--AAATT-AAATTTT
* * * *
2039543 C-AAAAAAATATTTTT-AGGGAAAAGTTAAAAGTATCAATTTTCCTTAAGAATAAATTTT
1 CAAAAAAAATATTTTTGA-GAAAAAGTTGAAAGTATCAATTTTTC-TAA-ATTAAATTTT
** * * *
2039601 CAAAAAAGGGTTTTTTTGCGAAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTC
1 CAAAAAA-AATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCT--AAATTAAA-TTTT
*
2039662 CAAAAAAAATATTTTTG-GAAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAATTTT
1 CAAAAAAAATATTTTTGAG-AAAAAGTTGAAAGTATCAATTTT--TCTAAATT-AAATTTT
2039722 C--AAAAAATA-TTTTGAGAAAAAGTTGAAAGTATCAATTTTT
1 CAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTT
2039762 TCTTGTACAA
Statistics
Matches: 238, Mismatches: 24, Indels: 42
0.78 0.08 0.14
Matches are distributed among these distances:
55 1 0.00
57 28 0.12
58 19 0.08
59 46 0.19
60 77 0.32
61 56 0.24
62 11 0.05
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.36
Consensus pattern (57 bp):
CAAAAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTAAATTAAATTTT
Found at i:2039548 original size:120 final size:120
Alignment explanation
Indices: 2039422--2039761 Score: 430
Period size: 120 Copynumber: 2.9 Consensus size: 120
2039412 TTCAAAAAAA
* *
2039422 CAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATAAATTTTTCATAAGAATAAATTTTCAAAAA
1 CAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCATAAGAATAAATTTTCAAAAA
* *
2039487 AAAGTGTTTTTTGAGGAAAAGTTGAAAGTATTAATTTTTCTCGAAATTAAAAATTT-
66 AAAGT-TTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTCGAAATT-AAAATTTC
* *
2039543 C-AAAAAAATATTTTT-AGGGAAAAGTTAAAAGTATCAATTTTCCTTAAGAATAAATTTTCAAAA
1 CAAAAAAAATATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCATAAGAATAAATTTTCAAAA
** * *
2039606 AAGGGTTTTTTTGCGAAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTC
65 AAAAGTTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAATTTC
* *
2039662 CAAAAAAAATATTTTTG-GAAAAAAGTTGAAAGTATCAATTTTCC-TCGAA-ATTAAAATTTTC-
1 CAAAAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCAT--AAGAAT-AAATTTTCA
*
2039723 -AAAAAA--TATTTTGAGAAAAAGTTGAAAGTATCAATTTTT
62 AAAAAAAGTTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTT
2039762 TCTTGTACAA
Statistics
Matches: 194, Mismatches: 17, Indels: 20
0.84 0.07 0.09
Matches are distributed among these distances:
117 31 0.16
118 6 0.03
119 47 0.24
120 99 0.51
121 11 0.06
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.36
Consensus pattern (120 bp):
CAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCATAAGAATAAATTTTCAAAAA
AAAGTTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAATTTC
Found at i:2044427 original size:2 final size:2
Alignment explanation
Indices: 2044420--2044458 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
2044410 GAAAATGTGT
2044420 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2044459 TCTAAGGACC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2044604 original size:10 final size:10
Alignment explanation
Indices: 2044585--2044618 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
2044575 GGAGAAAAAC
*
2044585 GAAAGGAAAG
1 GAAAGTAAAG
*
2044595 TAAAGTAAAG
1 GAAAGTAAAG
2044605 GAAAGTAAAG
1 GAAAGTAAAG
2044615 GAAA
1 GAAA
2044619 CAAAACCTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.29, T:0.09
Consensus pattern (10 bp):
GAAAGTAAAG
Found at i:2044606 original size:15 final size:15
Alignment explanation
Indices: 2044586--2044614 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2044576 GAGAAAAACG
2044586 AAAGGAAAGTAAAGT
1 AAAGGAAAGTAAAGT
2044601 AAAGGAAAGTAAAG
1 AAAGGAAAGTAAAG
2044615 GAAACAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.28, T:0.10
Consensus pattern (15 bp):
AAAGGAAAGTAAAGT
Found at i:2046910 original size:6 final size:7
Alignment explanation
Indices: 2046895--2046919 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2046885 AGAAAAGTAC
2046895 AAAATAA
1 AAAATAA
2046902 AAAATAA
1 AAAATAA
2046909 AAAATAA
1 AAAATAA
2046916 AAAA
1 AAAA
2046920 ACAATGGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAATAA
Found at i:2048260 original size:19 final size:19
Alignment explanation
Indices: 2048236--2048273 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
2048226 AAGTTGCATT
2048236 TCTACAATTGAAATAGAAA
1 TCTACAATTGAAATAGAAA
2048255 TCTACAATTGAAATAGAAA
1 TCTACAATTGAAATAGAAA
2048274 GGACAATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.11, G:0.11, T:0.26
Consensus pattern (19 bp):
TCTACAATTGAAATAGAAA
Found at i:2048281 original size:18 final size:19
Alignment explanation
Indices: 2048239--2048284 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
2048229 TTGCATTTCT
*
2048239 ACAATTGAAATAGAAATCT
1 ACAATTGAAATAGAAATCG
*
2048258 ACAATTGAAATAGAAA-GG
1 ACAATTGAAATAGAAATCG
2048276 ACAATTGAA
1 ACAATTGAA
2048285 TACAACAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.54, C:0.09, G:0.15, T:0.22
Consensus pattern (19 bp):
ACAATTGAAATAGAAATCG
Found at i:2051180 original size:18 final size:17
Alignment explanation
Indices: 2051155--2051207 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 17
2051145 AAATATTTTT
2051155 TTAATAATTAATAAAAA
1 TTAATAATTAATAAAAA
2051172 TTAATTAATTAATAAAAA
1 TTAA-TAATTAATAAAAA
*
2051190 CTATAAAAATTAA-AAAAA
1 -T-TAATAATTAATAAAAA
2051208 AACAACAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
17 4 0.12
18 18 0.56
19 7 0.22
20 3 0.09
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (17 bp):
TTAATAATTAATAAAAA
Found at i:2054115 original size:18 final size:17
Alignment explanation
Indices: 2054090--2054143 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
2054080 AAATATTTTT
2054090 TTAATAATTAATAAAAA
1 TTAATAATTAATAAAAA
*
2054107 TTAATTAATTAATAAAAC
1 TTAA-TAATTAATAAAAA
* *
2054125 TATAAAAATTAAAAAAAA
1 T-TAATAATTAATAAAAA
2054143 T
1 T
2054144 AACAATTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
17 4 0.13
18 24 0.77
19 3 0.10
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (17 bp):
TTAATAATTAATAAAAA
Found at i:2060216 original size:22 final size:25
Alignment explanation
Indices: 2060168--2060217 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
2060158 TTTTTTAAAA
* *
2060168 TTTTTTTCTCTTTGTCTTTGCTTTC
1 TTTTTTTCTATTTGTCTTTGCTATC
2060193 TTTTTTTC-ATTTGT-TTT-CTATC
1 TTTTTTTCTATTTGTCTTTGCTATC
2060215 TTT
1 TTT
2060218 CCTTTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 7 0.30
23 3 0.13
24 5 0.22
25 8 0.35
ACGTcount: A:0.04, C:0.16, G:0.06, T:0.74
Consensus pattern (25 bp):
TTTTTTTCTATTTGTCTTTGCTATC
Found at i:2063148 original size:71 final size:70
Alignment explanation
Indices: 2063027--2063167 Score: 264
Period size: 71 Copynumber: 2.0 Consensus size: 70
2063017 TATGTATTTA
2063027 TCCAAGTGTATAATTCTTGTTTTTTATTTCTTTTTGAGGGTTGGTAAATTTATGTTTTCATTTTA
1 TCCAAGTGTATAATTCTTGTTTTTTATTTCTTTTTGAGGGTTGGTAAATTTATGTTTTCATTTTA
2063092 TTTTG
66 TTTTG
*
2063097 TCCAAGTGTATAATTCTTGTTTTTTATTTTCTTTTTGTGGGTTGGTAAATTTATGTTTTCATTTT
1 TCCAAGTGTATAATTCTTGTTTTTTA-TTTCTTTTTGAGGGTTGGTAAATTTATGTTTTCATTTT
2063162 ATTTTG
65 ATTTTG
2063168 AATTCTAGTT
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
70 26 0.38
71 43 0.62
ACGTcount: A:0.18, C:0.07, G:0.16, T:0.60
Consensus pattern (70 bp):
TCCAAGTGTATAATTCTTGTTTTTTATTTCTTTTTGAGGGTTGGTAAATTTATGTTTTCATTTTA
TTTTG
Found at i:2063154 original size:36 final size:36
Alignment explanation
Indices: 2063044--2063155 Score: 101
Period size: 36 Copynumber: 3.2 Consensus size: 36
2063034 GTATAATTCT
*
2063044 TGTTTTTTA-TTTCTTTTTGAGGGTTGGTAAATTTA
1 TGTTTTTTATTTTCTTTTTGTGGGTTGGTAAATTTA
* * **
2063079 TG-TTTTCATTTT-ATTTTGTCCAAG-T-GTATAATTCT-
1 TGTTTTTTATTTTCTTTTTGT--GGGTTGGTA-AATT-TA
2063114 TGTTTTTTATTTTCTTTTTGTGGGTTGGTAAATTTA
1 TGTTTTTTATTTTCTTTTTGTGGGTTGGTAAATTTA
2063150 TGTTTT
1 TGTTTT
2063156 CATTTTATTT
Statistics
Matches: 58, Mismatches: 9, Indels: 19
0.67 0.10 0.22
Matches are distributed among these distances:
34 13 0.22
35 14 0.24
36 22 0.38
37 9 0.16
ACGTcount: A:0.16, C:0.05, G:0.17, T:0.62
Consensus pattern (36 bp):
TGTTTTTTATTTTCTTTTTGTGGGTTGGTAAATTTA
Found at i:2066415 original size:20 final size:21
Alignment explanation
Indices: 2066390--2066429 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
2066380 ACAAATCATA
2066390 TTCA-GGATTTCAACCTAAAC
1 TTCAGGGATTTCAACCTAAAC
2066410 TTCAGGGATTTCAACCTAAA
1 TTCAGGGATTTCAACCTAAA
2066430 GCTGCACCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.30
Consensus pattern (21 bp):
TTCAGGGATTTCAACCTAAAC
Found at i:2066558 original size:3 final size:3
Alignment explanation
Indices: 2066552--2066588 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
2066542 TAATAATAAT
2066552 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC A
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC A
2066589 TAATAATAAT
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:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:2066594 original size:3 final size:3
Alignment explanation
Indices: 2066588--2066619 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
2066578 CAACAACAAC
*
2066588 ATA ATA ATA ATA ATA ATA ATA ATA CTA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
2066620 TTATAGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2067203 original size:34 final size:34
Alignment explanation
Indices: 2067165--2067230 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
2067155 TTCGAAATGT
* * * *
2067165 CTCAAAATTTCTTGGATATTCATTTTTGAGAAAA
1 CTCAAAATTTCTCGAATATCCATTTCTGAGAAAA
*
2067199 CTCAAATTTTCTCGAATATCCATTTCTGAGAA
1 CTCAAAATTTCTCGAATATCCATTTCTGAGAA
2067231 GCCTTGAGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (34 bp):
CTCAAAATTTCTCGAATATCCATTTCTGAGAAAA
Found at i:2067526 original size:21 final size:21
Alignment explanation
Indices: 2067500--2067543 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
2067490 AATATTTTTA
*
2067500 TACCATGCATGCTTGAGAACT
1 TACCATGCATACTTGAGAACT
2067521 TACCATGCATACTTGAGAACT
1 TACCATGCATACTTGAGAACT
2067542 TA
1 TA
2067544 TCACTAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.30
Consensus pattern (21 bp):
TACCATGCATACTTGAGAACT
Found at i:2074430 original size:18 final size:17
Alignment explanation
Indices: 2074403--2074437 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
2074393 AAAATATTTT
2074403 TTAATAATTAATAAAAA
1 TTAATAATTAATAAAAA
2074420 TTAATTAATTAATAAAAA
1 TTAA-TAATTAATAAAAA
2074438 CTATAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
TTAATAATTAATAAAAA
Found at i:2078528 original size:24 final size:25
Alignment explanation
Indices: 2078486--2078545 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
2078476 TCACATATAA
**
2078486 TTTTTAATAAA-AAATATAATTTTAT
1 TTTTTAA-AAATAAATATAATAATAT
2078511 TTTTTAAAAATAAA-ATAATAATAT
1 TTTTTAAAAATAAATATAATAATAT
*
2078535 TTTTTTAAAAT
1 TTTTTAAAAAT
2078546 TTTTTTCTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 21 0.68
25 10 0.32
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
TTTTTAAAAATAAATATAATAATAT
Found at i:2084784 original size:12 final size:12
Alignment explanation
Indices: 2084767--2084792 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2084757 TGTAATAATT
2084767 AAAAATAATTTC
1 AAAAATAATTTC
2084779 AAAAATAATTTC
1 AAAAATAATTTC
2084791 AA
1 AA
2084793 TTAGTAGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAAATAATTTC
Found at i:2107445 original size:14 final size:13
Alignment explanation
Indices: 2107421--2107457 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
2107411 TATCAATGTT
2107421 TTTATTAAAAATA
1 TTTATTAAAAATA
2107434 TTTATCTAAAAATA
1 TTTAT-TAAAAATA
*
2107448 TATATTAAAA
1 TTTATTAAAA
2107458 TTTTTTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTATTAAAAATA
Found at i:2110279 original size:144 final size:144
Alignment explanation
Indices: 2110019--2110333 Score: 450
Period size: 144 Copynumber: 2.2 Consensus size: 144
2110009 CCTCAGTACG
* * * * **
2110019 AAGGTACCTCAAATTAATCAATTTCCCGATTCCAGCTGGCAGTTTCTCAAGACTATCGCAGCATA
1 AAGGTACCTCAAGTTAATCAATTTCCCCATTCCAACTGGCAGTTTCTCAAGACAAAAGCAGCATA
* *
2110084 GAAGATTCAAAGAATGTAGATTAGACAATTCGCACACTGCTTCAGGCAAATTTGTTATTCCAGAG
66 GAAGATTCAAAGAATGTAGATTAGACAATTCGCACAATGCTTCAGGCAAATTTGTTATTCCAAAG
* *
2110149 CAATATATCAAGCT
131 CAAGATATCAAACT
** * * *
2110163 AAGGTACCTCAAGTTAATCAATTTCCCCATTCCAACTGGCAGTTTCTTGAGGCAAAAGCAGCGTT
1 AAGGTACCTCAAGTTAATCAATTTCCCCATTCCAACTGGCAGTTTCTCAAGACAAAAGCAGCATA
* *
2110228 GAAGATTCAAAGATTGTAGATTAGGCAATTCGCACAATGCTTCAGGCAAATTTGTTATTCCAAAG
66 GAAGATTCAAAGAATGTAGATTAGACAATTCGCACAATGCTTCAGGCAAATTTGTTATTCCAAAG
*
2110293 CAAGATGTCAAACT
131 CAAGATATCAAACT
*
2110307 AAGGTACCTCAAGTGAATCAAATTTCC
1 AAGGTACCTCAAGTTAATC-AATTTCC
2110334 TATGTCACGA
Statistics
Matches: 151, Mismatches: 19, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
144 144 0.95
145 7 0.05
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (144 bp):
AAGGTACCTCAAGTTAATCAATTTCCCCATTCCAACTGGCAGTTTCTCAAGACAAAAGCAGCATA
GAAGATTCAAAGAATGTAGATTAGACAATTCGCACAATGCTTCAGGCAAATTTGTTATTCCAAAG
CAAGATATCAAACT
Found at i:2113750 original size:235 final size:235
Alignment explanation
Indices: 2113321--2113795 Score: 826
Period size: 235 Copynumber: 2.0 Consensus size: 235
2113311 TTCACAAAGA
*
2113321 TTTACAATATGATGTTTTCTTTGACACCAGCTTTTATAATCACACAGTTTTACAGGCGAGTTGGA
1 TTTACAATATGATG--TCCTTTGACACCAGCTTTTATAATCACACAGTTTTACAGGCGAGTTGGA
**
2113386 CGGTGGGTTTAAAGCTTGAACTAACTCCTCTTCCTTTATATGCAGAGAGTTGATCCAAATCTCCA
64 CGGTGGGTTTAAAGCTTGAACTAACTCCTCTTCCTTTATATGCAGAGAGCCGATCCAAATCTCCA
*
2113451 TTTGCTTGAGATATATTTTCTTGTGAAGCTTGGCCCTCTTAGCCTCATCCCAATCTATTGCATCC
129 TTTGCTTGAGATATATCTTCTTGTGAAGCTTGGCCCTCTTAGCCTCATCCCAATCTATTGCATCC
2113516 CCTGTCAGGTCAACACAAAACTTTCCACCAAGGAGGTCCAAGT
194 CCTGTCAGGTCAACACAAAACTTTCCACCAAGGA-GTCCAAGT
* *
2113559 TTTACAATATGATG-CCTTTGACGCCAGCTTTTATAATCACACAGTTTTACAGGCGAGTTGGATG
1 TTTACAATATGATGTCCTTTGACACCAGCTTTTATAATCACACAGTTTTACAGGCGAGTTGGACG
* *
2113623 GTGGGTTTAAAGCTTGAACTACCTCCTCTTCCTTTATATGCAGAGTGCCGATCCAAATCTCCATT
66 GTGGGTTTAAAGCTTGAACTAACTCCTCTTCCTTTATATGCAGAGAGCCGATCCAAATCTCCATT
*
2113688 TGCTTGAGATATATCTTCTTGTGAAGCTTGGCCTTCTTAGCCTCATCCCAATCTATTGCATCCCC
131 TGCTTGAGATATATCTTCTTGTGAAGCTTGGCCCTCTTAGCCTCATCCCAATCTATTGCATCCCC
*
2113753 TGTCAGGTCAACACAAAGCTTTCCACCAAGGAGTCCAAGT
196 TGTCAGGTCAACACAAAACTTTCCACCAAGGAGTCCAAGT
2113793 TTT
1 TTT
2113796 CTAGATCTCC
Statistics
Matches: 227, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
234 11 0.05
235 202 0.89
238 14 0.06
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.33
Consensus pattern (235 bp):
TTTACAATATGATGTCCTTTGACACCAGCTTTTATAATCACACAGTTTTACAGGCGAGTTGGACG
GTGGGTTTAAAGCTTGAACTAACTCCTCTTCCTTTATATGCAGAGAGCCGATCCAAATCTCCATT
TGCTTGAGATATATCTTCTTGTGAAGCTTGGCCCTCTTAGCCTCATCCCAATCTATTGCATCCCC
TGTCAGGTCAACACAAAACTTTCCACCAAGGAGTCCAAGT
Found at i:2116203 original size:24 final size:24
Alignment explanation
Indices: 2116157--2116217 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
2116147 TTTTTTAGCG
* *
2116157 AAATTATTTAATTATTTATTTT-AT
1 AAATT-TTTAAATATTCATTTTAAT
2116181 AAATTTTTAAATATTCATATTTAAT
1 AAATTTTTAAATATTCAT-TTTAAT
* *
2116206 AAAATTTAAAAT
1 AAATTTTTAAAT
2116218 TTATCAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
23 11 0.35
24 8 0.26
25 12 0.39
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (24 bp):
AAATTTTTAAATATTCATTTTAAT
Found at i:2116337 original size:24 final size:25
Alignment explanation
Indices: 2116286--2116342 Score: 66
Period size: 23 Copynumber: 2.4 Consensus size: 25
2116276 GATTTTATTA
*
2116286 AAAATTTTATTAATTAAAATAATTT
1 AAAATTTTATTAATTAAAATAATAT
*
2116311 AAAATTTTATT-ATTAGAA-AATCAT
1 AAAATTTTATTAATTAAAATAAT-AT
2116335 -AAATTTTA
1 AAAATTTTA
2116343 AAATTAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 11 0.38
24 7 0.24
25 11 0.38
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (25 bp):
AAAATTTTATTAATTAAAATAATAT
Found at i:2117384 original size:22 final size:22
Alignment explanation
Indices: 2117352--2117393 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2117342 TATCTCAATC
2117352 TAATTTCATATATATATATATA
1 TAATTTCATATATATATATATA
* *
2117374 TAATTTTATATTTATATATA
1 TAATTTCATATATATATATA
2117394 AAATATTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
TAATTTCATATATATATATATA
Done.