Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr4
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: 30015117
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1306243 characters in sequence are not A, C, G, or T
File 28 of 85
Found at i:9311489 original size:28 final size:28
Alignment explanation
Indices: 9311458--9311520 Score: 101
Period size: 28 Copynumber: 2.2 Consensus size: 28
9311448 TTTGGTGTAA
*
9311458 AAACTCAAA-AATTTGGATGGTGATGGTT
1 AAACT-AAATAATTTGGATGGTGATGATT
9311486 AAACTAAATAATTTGGATGGTGATGATT
1 AAACTAAATAATTTGGATGGTGATGATT
9311514 AAACTAA
1 AAACTAA
9311521 GTAAAATTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
27 3 0.09
28 30 0.91
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (28 bp):
AAACTAAATAATTTGGATGGTGATGATT
Found at i:9314403 original size:25 final size:25
Alignment explanation
Indices: 9314375--9314424 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
9314365 GAAGCCTAGT
* *
9314375 TTAAAAATTCATGTGAAATGCCTTA
1 TTAAAAACTCATGCGAAATGCCTTA
9314400 TTAAAAACTCATGCGAAATGCCTTA
1 TTAAAAACTCATGCGAAATGCCTTA
9314425 CCCCCTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (25 bp):
TTAAAAACTCATGCGAAATGCCTTA
Found at i:9314709 original size:17 final size:17
Alignment explanation
Indices: 9314669--9314710 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
9314659 AGCGAAATTC
9314669 GAACTAAAAAAAATAAA
1 GAACTAAAAAAAATAAA
*
9314686 GACCTAAAAAGAAATAAA
1 GAACTAAAAA-AAATAAA
9314704 -AACTAAA
1 GAACTAAA
9314711 GACAAGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.71, C:0.10, G:0.07, T:0.12
Consensus pattern (17 bp):
GAACTAAAAAAAATAAA
Found at i:9320213 original size:6 final size:6
Alignment explanation
Indices: 9320202--9320230 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
9320192 CGTGTCCCAA
9320202 CCCGTG CCCGTG CCCGTG CCCGTG CCCGT
1 CCCGTG CCCGTG CCCGTG CCCGTG CCCGT
9320231 ATGAGTATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.52, G:0.31, T:0.17
Consensus pattern (6 bp):
CCCGTG
Found at i:9324104 original size:27 final size:27
Alignment explanation
Indices: 9324074--9324126 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
9324064 GTATAGATAA
* *
9324074 CCTTTATTGCAAACTCTGACTGGATTG
1 CCTTTATGGCAAACTCTGAATGGATTG
* *
9324101 CCTTTGTGGCATACTCTGAATGGATT
1 CCTTTATGGCAAACTCTGAATGGATT
9324127 ATTTTGGTGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (27 bp):
CCTTTATGGCAAACTCTGAATGGATTG
Found at i:9325209 original size:28 final size:28
Alignment explanation
Indices: 9325173--9325239 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
9325163 AGAGTGCACT
* * *
9325173 ACAAGGGCTTTTATTTCAAATTATTTCC
1 ACAAAGGCTATTACTTCAAATTATTTCC
* * * *
9325201 ATAAAGGCTATTCCTTCAGATTTTTTCC
1 ACAAAGGCTATTACTTCAAATTATTTCC
9325229 ACAAAGGCTAT
1 ACAAAGGCTAT
9325240 CATGTCAAAA
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (28 bp):
ACAAAGGCTATTACTTCAAATTATTTCC
Found at i:9329740 original size:42 final size:42
Alignment explanation
Indices: 9329692--9329772 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
9329682 ACGGCCTGGA
*
9329692 GACATGACCATGTGACCTTATTTCGAATCACACACGGTCTAC
1 GACATGACCATGTGACCCTATTTCGAATCACACACGGTCTAC
* *
9329734 GACATGACCATGTGACCCTATTTCGAATTACACATGGTC
1 GACATGACCATGTGACCCTATTTCGAATCACACACGGTC
9329773 GGGCACATGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.27
Consensus pattern (42 bp):
GACATGACCATGTGACCCTATTTCGAATCACACACGGTCTAC
Found at i:9342657 original size:111 final size:111
Alignment explanation
Indices: 9342538--9342760 Score: 369
Period size: 111 Copynumber: 2.0 Consensus size: 111
9342528 CACCTATTTA
*
9342538 TAGCTAAAATTTTCTGAA-CTAATTAAGTTAATTACAGCCTAAAAAATGATAAATGTTTATTGTG
1 TAGCTAAAATTTTCT-AATCTAATTAAGTTAATTACAACCTAAAAAATGATAAATGTTTATTGTG
* *
9342602 CTGACAGAAACACTCCTAACTTAATTATTTATGTTT-GTCGTTTGGTG
65 CTGACAGAAACACCCCTAACTTAATTATTTAT-TTTCGTCGTTCGGTG
* *
9342649 TAGCTAAAATTTTCTAATCTAATTAAGTTAATTACAACTTAAAAATTGATAAATGTTTATTGTGC
1 TAGCTAAAATTTTCTAATCTAATTAAGTTAATTACAACCTAAAAAATGATAAATGTTTATTGTGC
9342714 TGACAGAAACACCCCTAACTTAATTATTTATTTTCGTCGTTCGGTG
66 TGACAGAAACACCCCTAACTTAATTATTTATTTTCGTCGTTCGGTG
9342760 T
1 T
9342761 CACGGCATCA
Statistics
Matches: 105, Mismatches: 5, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
110 5 0.05
111 100 0.95
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.39
Consensus pattern (111 bp):
TAGCTAAAATTTTCTAATCTAATTAAGTTAATTACAACCTAAAAAATGATAAATGTTTATTGTGC
TGACAGAAACACCCCTAACTTAATTATTTATTTTCGTCGTTCGGTG
Found at i:9344539 original size:16 final size:17
Alignment explanation
Indices: 9344518--9344550 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9344508 AATTGGATTG
*
9344518 AGAAAA-TAATTTAATT
1 AGAAAATTAATTAAATT
9344534 AGAAAATTAATTAAATT
1 AGAAAATTAATTAAATT
9344551 TATTTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
AGAAAATTAATTAAATT
Found at i:9351799 original size:18 final size:17
Alignment explanation
Indices: 9351766--9351804 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
9351756 TTTTATAAAT
9351766 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
9351784 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
9351801 TGTG
1 TGTG
9351805 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:9352065 original size:23 final size:23
Alignment explanation
Indices: 9352034--9352109 Score: 107
Period size: 23 Copynumber: 3.3 Consensus size: 23
9352024 AGTGTTATTG
9352034 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * * * *
9352057 TTCAGTGGTAGGTACGACTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
9352080 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
9352103 ATCAGTG
1 ATCAGTG
9352110 TGACACTTAT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:9358370 original size:31 final size:31
Alignment explanation
Indices: 9358327--9358422 Score: 104
Period size: 31 Copynumber: 3.1 Consensus size: 31
9358317 TATATAAAAC
* *
9358327 TTAAATTAATTTAAATTTTATGT-ATTATTATA
1 TTAAATT-ATTTAAATATAAT-TAATTATTATA
* * * *
9358359 TTAGATTATTTAAATAGAATTGATCATTATA
1 TTAAATTATTTAAATATAATTAATTATTATA
*
9358390 TTAAATTATTTAAATGTAATTAATTATTATA
1 TTAAATTATTTAAATATAATTAATTATTATA
9358421 TT
1 TT
9358423 TAAAAATTTT
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
30 1 0.02
31 46 0.87
32 6 0.11
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (31 bp):
TTAAATTATTTAAATATAATTAATTATTATA
Found at i:9361544 original size:18 final size:20
Alignment explanation
Indices: 9361523--9361568 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
9361513 TTTTTTCTAT
9361523 AATTATAATTTT-AAAA-AA
1 AATTATAATTTTGAAAATAA
* *
9361541 AATTAGAATTTTGAAAATTA
1 AATTATAATTTTGAAAATAA
9361561 AATTATAA
1 AATTATAA
9361569 ATTTCAATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 11 0.48
19 4 0.17
20 8 0.35
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (20 bp):
AATTATAATTTTGAAAATAA
Found at i:9363166 original size:18 final size:20
Alignment explanation
Indices: 9363145--9363190 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
9363135 TTTTTTCTAT
9363145 AATTATAATTTT-AAAA-AA
1 AATTATAATTTTGAAAATAA
* *
9363163 AATTAGAATTTTGAAAATTA
1 AATTATAATTTTGAAAATAA
9363183 AATTATAA
1 AATTATAA
9363191 ATTTCAATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 11 0.48
19 4 0.17
20 8 0.35
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (20 bp):
AATTATAATTTTGAAAATAA
Found at i:9364417 original size:22 final size:20
Alignment explanation
Indices: 9364365--9364418 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 20
9364355 TTAAAATTTT
*
9364365 AAAATTATAAAAAATATATA
1 AAAATTATAAAAAATAAATA
*
9364385 CAAATTATAAAAATATGAAATA
1 AAAATTATAAAAA-AT-AAATA
*
9364407 AAAATTTTAAAA
1 AAAATTATAAAA
9364419 TTAAAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 12 0.43
21 2 0.07
22 14 0.50
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (20 bp):
AAAATTATAAAAAATAAATA
Found at i:9368166 original size:29 final size:28
Alignment explanation
Indices: 9368087--9368184 Score: 164
Period size: 28 Copynumber: 3.5 Consensus size: 28
9368077 AAAAATAAAA
9368087 ATTTACCAAAATATTACAAC-TTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTTT
9368114 ATTTACCAAAATATTACAACTTTTTTTT
1 ATTTACCAAAATATTACAACTTTTTTTT
9368142 ATTTACCAAAATATTTA-AACTTTTTTATT
1 ATTTACCAAAATA-TTACAACTTTTTT-TT
9368171 ATTTACCAAAATAT
1 ATTTACCAAAATAT
9368185 ATTTAAAAAA
Statistics
Matches: 68, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
27 20 0.29
28 30 0.44
29 18 0.26
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (28 bp):
ATTTACCAAAATATTACAACTTTTTTTT
Found at i:9368324 original size:27 final size:27
Alignment explanation
Indices: 9368256--9368326 Score: 124
Period size: 27 Copynumber: 2.6 Consensus size: 27
9368246 CCCCAATAGT
*
9368256 ATTGGCGGCACCAAAGGTGCCAAAACC
1 ATTGGCGGCACCAATGGTGCCAAAACC
*
9368283 ATTGGCGGCACCAATGGTGCCAATACC
1 ATTGGCGGCACCAATGGTGCCAAAACC
9368310 ATTGGCGGCACCAATGG
1 ATTGGCGGCACCAATGG
9368327 GTTTTATGGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.15
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAAAACC
Found at i:9368392 original size:18 final size:19
Alignment explanation
Indices: 9368365--9368513 Score: 112
Period size: 20 Copynumber: 7.6 Consensus size: 19
9368355 AGAAGAGAAA
9368365 AAAGGA-AAGAAAGAAAGG
1 AAAGGAGAAGAAAGAAAGG
*
9368383 AGAGGGAAGAAAGAAAGAAAGG
1 A-AAGG-AG-AAGAAAGAAAGG
*
9368405 AGAGGA-AAGAAAGAAAAGG
1 AAAGGAGAAGAAAG-AAAGG
*
9368424 AAAGGAGAAGAGAAAAAAGG
1 AAAGGAGAAGA-AAGAAAGG
*
9368444 AAAGAAAGAAG-AAGAAAAGG
1 AAAG-GAGAAGAAAG-AAAGG
9368464 AGAA-GAGAAGAAA-AAA-G
1 A-AAGGAGAAGAAAGAAAGG
*
9368481 AAAGAAAGAAGGAAAGAAAGGG
1 AAAG-GAGAA-GAAAGAAA-GG
9368503 AAAGGAGAAGA
1 AAAGGAGAAGA
9368514 GAAAAAAAAA
Statistics
Matches: 104, Mismatches: 10, Indels: 32
0.71 0.07 0.22
Matches are distributed among these distances:
16 2 0.02
17 2 0.02
18 15 0.14
19 24 0.23
20 28 0.27
21 15 0.14
22 18 0.17
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (19 bp):
AAAGGAGAAGAAAGAAAGG
Found at i:9368394 original size:22 final size:22
Alignment explanation
Indices: 9368369--9368451 Score: 103
Period size: 22 Copynumber: 3.6 Consensus size: 22
9368359 GAGAAAAAAG
9368369 GAAAGAAAGAAAGGAGAGGGAA
1 GAAAGAAAGAAAGGAGAGGGAA
*
9368391 GAAAGAAAGAAAGGAGAGGAAA
1 GAAAGAAAGAAAGGAGAGGGAA
*
9368413 GAAAGAAAAGGAAAGGAGAAGAGAA
1 GAAAG-AAA-GAAAGGAG-AGGGAA
*
9368438 AAAAGGAAAGAAAG
1 GAAA-GAAAGAAAG
9368452 AAGAAGAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
22 26 0.49
23 3 0.06
24 13 0.25
25 10 0.19
26 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (22 bp):
GAAAGAAAGAAAGGAGAGGGAA
Found at i:9368412 original size:14 final size:14
Alignment explanation
Indices: 9368364--9368548 Score: 86
Period size: 14 Copynumber: 13.3 Consensus size: 14
9368354 CAGAAGAGAA
9368364 AAAAGGAAAGAAAG
1 AAAAGGAAAGAAAG
* *
9368378 -AAAGGAGAGGGAAG
1 AAAAGGA-AAGAAAG
9368392 -AAA-GAAAGAAAG
1 AAAAGGAAAGAAAG
* *
9368404 GAGAGGAAAGAAAG
1 AAAAGGAAAGAAAG
*
9368418 AAAAGGAAAG-GAG
1 AAAAGGAAAGAAAG
*
9368431 AAGA-GAAA-AAAG
1 AAAAGGAAAGAAAG
*
9368443 GAAA-GAAAGAAGAAG
1 AAAAGGAAAG-A-AAG
9368458 AAAAGGAGAAGAGAAG
1 AAAAGGA-AAGA-AAG
*
9368474 AAAAAAGAAAGAAAG
1 -AAAAGGAAAGAAAG
9368489 --AAGGAAAGAAAGG
1 AAAAGGAAAGAAA-G
*
9368502 GAAAGGAGAAGAGAA-
1 AAAAGGA-AAGA-AAG
**
9368517 AAAAAAAAAG-AAG
1 AAAAGGAAAGAAAG
* *
9368530 AAGAGGGAAGAAAGG
1 AAAAGGAAAGAAA-G
9368545 AAAA
1 AAAA
9368549 AAAAAGGAAA
Statistics
Matches: 130, Mismatches: 23, Indels: 35
0.69 0.12 0.19
Matches are distributed among these distances:
12 29 0.22
13 22 0.17
14 31 0.24
15 22 0.17
16 15 0.12
17 11 0.08
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (14 bp):
AAAAGGAAAGAAAG
Found at i:9368456 original size:41 final size:40
Alignment explanation
Indices: 9368371--9368533 Score: 162
Period size: 40 Copynumber: 4.1 Consensus size: 40
9368361 GAAAAAAGGA
* * *
9368371 AAGAAAG-AAAGGAGAGG-GAAGA-AAGAAAGAAAGGAGAGG
1 AAGAAAGAAAAGGAAAGGAGAAGAGAAAAAAGAAA-GA-AAG
9368410 AAAGAAAGAAAAGGAAAGGAGAAGAGAAAAAAGGAAAGAAAG
1 -AAGAAAGAAAAGGAAAGGAGAAGAGAAAAAA-GAAAGAAAG
9368452 AAG-AAGAAAAGGAGAA-GAG-A-AGAAAAAAGAAAGAAAG
1 AAGAAAGAAAAGGA-AAGGAGAAGAGAAAAAAGAAAGAAAG
* *
9368489 AAGGAAAGAAAGGGAAAGGAGAAGAGAAAAAA-AAAAAGAAG
1 AA-GAAAGAAAAGGAAAGGAGAAGAGAAAAAAGAAAGA-AAG
9368530 AAGA
1 AAGA
9368534 GGGAAGAAAG
Statistics
Matches: 107, Mismatches: 5, Indels: 22
0.80 0.04 0.16
Matches are distributed among these distances:
37 11 0.10
38 11 0.10
39 13 0.12
40 27 0.25
41 27 0.25
42 7 0.07
43 7 0.07
44 4 0.04
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (40 bp):
AAGAAAGAAAAGGAAAGGAGAAGAGAAAAAAGAAAGAAAG
Found at i:9368494 original size:49 final size:43
Alignment explanation
Indices: 9368355--9368532 Score: 157
Period size: 44 Copynumber: 4.3 Consensus size: 43
9368345 GTGGTGGGGC
* *
9368355 AGAAGAGAAAAAAGGAAAGAAA--GAAAGGAG-AGGGAAGAAAGAA
1 AGAA-AGAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAA-AAA-AA
* * *
9368398 AGAAAGGAGAGGAAAGAAAGAAAAGGAAAGGAGAAGAG-AAAAAA
1 AGAAA-GA-AAGAAGGAAAGAAAGGGAAAGGAGAAGAGAAAAAAA
*
9368442 GGAAAGAAAGAA-G-AAG--A---AAAGGAGAAGAGAAGAAAAA
1 AGAAAGAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAA-AAAAA
9368479 AGAAAGAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAAAAAAA
1 AGAAAGAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAAAAAAA
9368522 A-AAAG-AAGAAG
1 AGAAAGAAAGAAG
9368533 AGGGAAGAAA
Statistics
Matches: 114, Mismatches: 7, Indels: 30
0.75 0.05 0.20
Matches are distributed among these distances:
35 12 0.11
36 1 0.01
37 16 0.14
38 2 0.02
39 3 0.03
40 3 0.03
41 8 0.07
42 9 0.08
43 14 0.12
44 31 0.27
45 3 0.03
46 9 0.08
47 3 0.03
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (43 bp):
AGAAAGAAAGAAGGAAAGAAAGGGAAAGGAGAAGAGAAAAAAA
Found at i:9368527 original size:79 final size:80
Alignment explanation
Indices: 9368362--9368533 Score: 221
Period size: 79 Copynumber: 2.2 Consensus size: 80
9368352 GGCAGAAGAG
* * *
9368362 AAAAAAGGAAAG-A-AAGAAAGGAGAGGGAAGAAAGAAAGAAAGGAGAGGAAAGAAAGAAAAGGA
1 AAAAAAAGAAAGAAGAAGAAAGGAGAGAGAAGAAAGAAAGAAAGGAGAAGAAAGAAAGAAAAGGA
9368425 AAGGAGAAGAGAAAA
66 AAGGAGAAGAGAAAA
** * *
9368440 AAGGAAAGAAAGAAGAAGAAAAGGAGAAGAGAAGAAA-AAAGAAA-GA-AAGAAGGAAAGAAAGG
1 AAAAAAAGAAAGAAGAAG-AAAGGAG-AGAGAAGAAAGAAAGAAAGGAGAAGAAAGAAAGAAAAG
9368502 GAAAGGAGAAGAGAAAA
64 GAAAGGAGAAGAGAAAA
9368519 AAAAAAAG-AAGAAGA
1 AAAAAAAGAAAGAAGA
9368534 GGGAAGAAAG
Statistics
Matches: 81, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
78 16 0.20
79 37 0.46
80 5 0.06
81 14 0.17
82 9 0.11
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (80 bp):
AAAAAAAGAAAGAAGAAGAAAGGAGAGAGAAGAAAGAAAGAAAGGAGAAGAAAGAAAGAAAAGGA
AAGGAGAAGAGAAAA
Found at i:9368590 original size:19 final size:19
Alignment explanation
Indices: 9368566--9368603 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
9368556 AAAAAAAGGT
9368566 AATTTTATTTATAA-ATTTG
1 AATTTT-TTTATAATATTTG
*
9368585 AATTTTTTTGTAATATTTG
1 AATTTTTTTATAATATTTG
9368604 TGTGTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.61
Consensus pattern (19 bp):
AATTTTTTTATAATATTTG
Found at i:9369119 original size:16 final size:17
Alignment explanation
Indices: 9369095--9369131 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
9369085 GAAATAATAT
*
9369095 AAAATAATAAAATAC-A
1 AAAAGAATAAAATACGA
9369111 AAAAGAATAAAATACGA
1 AAAAGAATAAAATACGA
9369128 AAAA
1 AAAA
9369132 TGTACATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.14
Consensus pattern (17 bp):
AAAAGAATAAAATACGA
Found at i:9369193 original size:40 final size:41
Alignment explanation
Indices: 9369084--9369193 Score: 95
Period size: 40 Copynumber: 2.7 Consensus size: 41
9369074 AAAAATGTAG
* * *
9369084 TGAAATAATATAAAATAATAAAATACAAAAAGAATAAAATA
1 TGAAATAATGTAAAATTATAAAATATAAAAAGAATAAAATA
* * * *
9369125 CGAAA-AATGT-ACATGTA-ATAAATGTAAAACATAAT-AAAT-
1 TGAAATAATGTAAAAT-TATA-AAATATAAAA-AGAATAAAATA
9369164 TGAAATAATGTAAAATTATAAAATATAAAA
1 TGAAATAATGTAAAATTATAAAATATAAAA
9369194 TAACGATTAT
Statistics
Matches: 53, Mismatches: 10, Indels: 13
0.70 0.13 0.17
Matches are distributed among these distances:
39 8 0.15
40 33 0.62
41 12 0.23
ACGTcount: A:0.64, C:0.04, G:0.07, T:0.25
Consensus pattern (41 bp):
TGAAATAATGTAAAATTATAAAATATAAAAAGAATAAAATA
Found at i:9369305 original size:239 final size:238
Alignment explanation
Indices: 9368880--9369357 Score: 857
Period size: 239 Copynumber: 2.0 Consensus size: 238
9368870 AATGCGGAAA
*
9368880 AAAATGCGAAAAATGTACATGTAATAAATGTAAAACATAATAAATTGAAATAATGTAAAATTATA
1 AAAATACGAAAAATGTACATGTAATAAATGTAAAACATAATAAATTGAAATAATGTAAAATTATA
* * **
9368945 AAATAAAAAATTACGATTTTTTTAAAATAATAATATGTGGATAAAAAAATACGAATAAATGGCCG
66 AAATAAAAAATAACGATTATTTTAAAATAATAATATACGGATAAAAAAATACGAATAAATGGCCG
* *
9369010 AAGTAAGACTGTATTAGTAAATGTTTTTAAAAAATTTAGAAATAATTTATACAAATAATTGGAAA
131 AAGTAAGACTGTATTAGTAAATGTTTTTAAAAAATTCAGAAATAATTTAAACAAATAATTGG-AA
9369075 AAAATGTAGTGAAATAATATAAAATAATAAAATACAAAAAGAAT
195 AAAATGTAGTGAAATAATATAAAATAATAAAATACAAAAAGAAT
9369119 AAAATACGAAAAATGTACATGTAATAAATGTAAAACATAATAAATTGAAATAATGTAAAATTATA
1 AAAATACGAAAAATGTACATGTAATAAATGTAAAACATAATAAATTGAAATAATGTAAAATTATA
* *
9369184 AAATATAAAATAACGATTATTTTAAAATAATAATATACGGATAAAAAAATACGAATAAATGGCTG
66 AAATAAAAAATAACGATTATTTTAAAATAATAATATACGGATAAAAAAATACGAATAAATGGCCG
*
9369249 AAGTAAGACTGTATTAGTAAATGTTTTTAAAAAATTCAGAAATAATTTAAACAAATAATTGGGAA
131 AAGTAAGACTGTATTAGTAAATGTTTTTAAAAAATTCAGAAATAATTTAAACAAATAATTGGAAA
9369314 AAATGTAGTGAAATAATATAAAATAATAAAATACAAAAAGAAT
196 AAATGTAGTGAAATAATATAAAATAATAAAATACAAAAAGAAT
9369357 A
1 A
9369358 TAGTTTTATC
Statistics
Matches: 229, Mismatches: 10, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
238 46 0.20
239 183 0.80
ACGTcount: A:0.56, C:0.04, G:0.11, T:0.29
Consensus pattern (238 bp):
AAAATACGAAAAATGTACATGTAATAAATGTAAAACATAATAAATTGAAATAATGTAAAATTATA
AAATAAAAAATAACGATTATTTTAAAATAATAATATACGGATAAAAAAATACGAATAAATGGCCG
AAGTAAGACTGTATTAGTAAATGTTTTTAAAAAATTCAGAAATAATTTAAACAAATAATTGGAAA
AAATGTAGTGAAATAATATAAAATAATAAAATACAAAAAGAAT
Found at i:9371225 original size:26 final size:26
Alignment explanation
Indices: 9371095--9371216 Score: 244
Period size: 26 Copynumber: 4.7 Consensus size: 26
9371085 TGGTATTTCC
9371095 ATATGTTACTCACATGTTTCTATTCT
1 ATATGTTACTCACATGTTTCTATTCT
9371121 ATATGTTACTCACATGTTTCTATTCT
1 ATATGTTACTCACATGTTTCTATTCT
9371147 ATATGTTACTCACATGTTTCTATTCT
1 ATATGTTACTCACATGTTTCTATTCT
9371173 ATATGTTACTCACATGTTTCTATTCT
1 ATATGTTACTCACATGTTTCTATTCT
9371199 ATATGTTACTCACATGTT
1 ATATGTTACTCACATGTT
9371217 ATCGGTCTAA
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 96 1.00
ACGTcount: A:0.24, C:0.19, G:0.08, T:0.49
Consensus pattern (26 bp):
ATATGTTACTCACATGTTTCTATTCT
Found at i:9375102 original size:3 final size:3
Alignment explanation
Indices: 9375094--9375141 Score: 78
Period size: 3 Copynumber: 15.7 Consensus size: 3
9375084 NNNNNNNNNN
*
9375094 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAC TAA CTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
9375140 TA
1 TA
9375142 CTTTTATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:9375226 original size:12 final size:12
Alignment explanation
Indices: 9375183--9375212 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
9375173 CTAAACTACA
9375183 ACAAAAAATATT
1 ACAAAAAATATT
9375195 ACAAAAAATATT
1 ACAAAAAATATT
9375207 ACAAAA
1 ACAAAA
9375213 TATACAAAAT
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:0.70, C:0.10, G:0.00, T:0.20
Consensus pattern (12 bp):
ACAAAAAATATT
Found at i:9375235 original size:21 final size:20
Alignment explanation
Indices: 9375187--9375237 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 20
9375177 ACTACAACAA
9375187 AAAATATTACAAAAAATATTAC
1 AAAATA-TACAAAAAATA-TAC
9375209 AAAATATACAAAATAATA-AC
1 AAAATATACAAAA-AATATAC
9375229 AATAATATA
1 AA-AATATA
9375238 ATCAATTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 4 0.15
21 13 0.48
22 10 0.37
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (20 bp):
AAAATATACAAAAAATATAC
Found at i:9375483 original size:27 final size:27
Alignment explanation
Indices: 9375377--9375475 Score: 162
Period size: 27 Copynumber: 3.7 Consensus size: 27
9375367 TATAAATAAT
*
9375377 ACCAGTGGTGCCGCCAATGGTATTGGC
1 ACCATTGGTGCCGCCAATGGTATTGGC
*
9375404 ACAATTGGTGCCGCCAATGGTATTGGC
1 ACCATTGGTGCCGCCAATGGTATTGGC
*
9375431 ACCATTGGTGCCGCCAATGGTTTTGGC
1 ACCATTGGTGCCGCCAATGGTATTGGC
*
9375458 ACCTTTGGTGCCGCCAAT
1 ACCATTGGTGCCGCCAAT
9375476 ACCATTGGGG
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 67 1.00
ACGTcount: A:0.18, C:0.26, G:0.29, T:0.26
Consensus pattern (27 bp):
ACCATTGGTGCCGCCAATGGTATTGGC
Found at i:9375581 original size:29 final size:29
Alignment explanation
Indices: 9375549--9375649 Score: 152
Period size: 29 Copynumber: 3.5 Consensus size: 29
9375539 TTTTTTTGAT
9375549 ATATTTTGGTAAATAATAAAAAAGTTTAA
1 ATATTTTGGTAAATAATAAAAAAGTTTAA
*
9375578 ATATTTTGGTAAATAAAAAAAAAG-TTATA
1 ATATTTTGGTAAATAATAAAAAAGTTTA-A
*
9375607 ATATTTTGATAAATAATAAAAAAGTTGT-A
1 ATATTTTGGTAAATAATAAAAAAGTT-TAA
9375636 ATATTTTGGTAAAT
1 ATATTTTGGTAAAT
9375650 TTTTATTTTT
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
28 3 0.05
29 60 0.92
30 1 0.02
31 1 0.02
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (29 bp):
ATATTTTGGTAAATAATAAAAAAGTTTAA
Found at i:9376706 original size:37 final size:36
Alignment explanation
Indices: 9376665--9376734 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
9376655 AAAATGCGAG
* * * *
9376665 AAATGCATATTATCTGTTTGGTGATATGAAATGTTAT
1 AAATGCATACTATC-GTTGGGCGATATAAAATGTTAT
*
9376702 AAATGTATACTATCGTTGGGCGATATAAAATGT
1 AAATGCATACTATCGTTGGGCGATATAAAATGT
9376735 AAGAAAGTCG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
36 16 0.57
37 12 0.43
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (36 bp):
AAATGCATACTATCGTTGGGCGATATAAAATGTTAT
Found at i:9379994 original size:114 final size:114
Alignment explanation
Indices: 9379795--9380046 Score: 353
Period size: 114 Copynumber: 2.2 Consensus size: 114
9379785 AAAATAAACA
** * ** * *
9379795 TTAGCGGCGTTTCCAGAAAAGCGCGTC-AAAATACCTAAGCCCAACGATGCCGTTTTCGGAGCTT
1 TTAGCGGCGTTTTTAGGAAAGCGCCACAAAAATACCTAAGCCCAACGACGCCGTTTTCGGAGCTG
* *
9379859 TCAGGGATTTAGTGGCGTTTCTAAGAAAGTGCAGCTAATGCTCAGTGAT
66 TCAGGGATTTAGTGGCGTTTCTAAGAAAGCGCAGCTAATGCTCAGGGAT
* * *
9379908 TTAGCGGCGTTTTTGGGAAAGCGCCACAAAAATACCTAAGGCCAACGACGCCGTTTTCTGAGCTG
1 TTAGCGGCGTTTTTAGGAAAGCGCCACAAAAATACCTAAGCCCAACGACGCCGTTTTCGGAGCTG
* * * *
9379973 TCGGGGATTTAGTGGCGTTTCTAGGTAAGCGCCGCTAATGCTCAGGGAT
66 TCAGGGATTTAGTGGCGTTTCTAAGAAAGCGCAGCTAATGCTCAGGGAT
9380022 TTAGCGGCGTTTTTAGGAAAGCGCC
1 TTAGCGGCGTTTTTAGGAAAGCGCC
9380047 GCTAATGCTC
Statistics
Matches: 121, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
113 21 0.17
114 100 0.83
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (114 bp):
TTAGCGGCGTTTTTAGGAAAGCGCCACAAAAATACCTAAGCCCAACGACGCCGTTTTCGGAGCTG
TCAGGGATTTAGTGGCGTTTCTAAGAAAGCGCAGCTAATGCTCAGGGAT
Found at i:9380033 original size:41 final size:41
Alignment explanation
Indices: 9379976--9380065 Score: 144
Period size: 41 Copynumber: 2.2 Consensus size: 41
9379966 TGAGCTGTCG
* *
9379976 GGGATTTAGTGGCGTTTCTAGGTAAGCGCCGCTAATGCTCA
1 GGGATTTAGCGGCGTTTCTAGGAAAGCGCCGCTAATGCTCA
*
9380017 GGGATTTAGCGGCGTTTTTAGGAAAGCGCCGCTAATGCTCA
1 GGGATTTAGCGGCGTTTCTAGGAAAGCGCCGCTAATGCTCA
*
9380058 AGGATTTA
1 GGGATTTA
9380066 AAATAAATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (41 bp):
GGGATTTAGCGGCGTTTCTAGGAAAGCGCCGCTAATGCTCA
Found at i:9380362 original size:38 final size:39
Alignment explanation
Indices: 9380253--9380360 Score: 114
Period size: 38 Copynumber: 2.8 Consensus size: 39
9380243 GCCGGGGTAT
** *
9380253 GAATTTA-GGGTTTGGGATTTAATGTTTAGGGGTTAGGG
1 GAATTTAGGGGTTAAGGATTTAAGGTTTAGGGGTTAGGG
* * *
9380291 GAATTTAGGGGTTAAGG-GTTATGCTTTAGGGGTTAGGG
1 GAATTTAGGGGTTAAGGATTTAAGGTTTAGGGGTTAGGG
* *
9380329 G-ATTTAGGGGGTTATGGATTTAGGGTTTAGGG
1 GAATTTA-GGGGTTAAGGATTTAAGGTTTAGGG
9380361 TTTCAACGGT
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
37 5 0.09
38 34 0.60
39 18 0.32
ACGTcount: A:0.20, C:0.01, G:0.42, T:0.37
Consensus pattern (39 bp):
GAATTTAGGGGTTAAGGATTTAAGGTTTAGGGGTTAGGG
Found at i:9393765 original size:21 final size:21
Alignment explanation
Indices: 9393739--9393810 Score: 92
Period size: 21 Copynumber: 3.4 Consensus size: 21
9393729 CAACAACTTA
*
9393739 AAGCAGAGGCGACAGCGAGGG
1 AAGCAGAGGCGACAGCGAGAG
*
9393760 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGCGACAGCGAGAG
**
9393781 AAGCGAGAGAAG-CAGCGAGAG
1 AAGC-AGAGGCGACAGCGAGAG
9393802 AAGCAGAGG
1 AAGCAGAGG
9393811 TTCAAAAGAA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
20 4 0.09
21 36 0.82
22 4 0.09
ACGTcount: A:0.39, C:0.17, G:0.43, T:0.01
Consensus pattern (21 bp):
AAGCAGAGGCGACAGCGAGAG
Found at i:9393799 original size:12 final size:12
Alignment explanation
Indices: 9393782--9393807 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9393772 CAGCGAGAGA
9393782 AGCGAGAGAAGC
1 AGCGAGAGAAGC
9393794 AGCGAGAGAAGC
1 AGCGAGAGAAGC
9393806 AG
1 AG
9393808 AGGTTCAAAA
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:0.42, C:0.15, G:0.42, T:0.00
Consensus pattern (12 bp):
AGCGAGAGAAGC
Found at i:9394279 original size:42 final size:42
Alignment explanation
Indices: 9394225--9394307 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
9394215 GCGTTTGTGA
*
9394225 AACAAGCGCCGCTAAAGAACACTACTTTTAGCGGCATTTTCG
1 AACAAGCGCCGCTAAAGAACACTACTTTTAGAGGCATTTTCG
* * *
9394267 AACAAGCGCCGCTATAGAACATTACTTTTAGAGGCGTTTTC
1 AACAAGCGCCGCTAAAGAACACTACTTTTAGAGGCATTTTC
9394308 TTCTTGATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (42 bp):
AACAAGCGCCGCTAAAGAACACTACTTTTAGAGGCATTTTCG
Found at i:9394484 original size:42 final size:42
Alignment explanation
Indices: 9394435--9394686 Score: 341
Period size: 42 Copynumber: 6.0 Consensus size: 42
9394425 ATTTGTGAAA
*
9394435 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGACC
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTT-TCC
* *
9394478 -AAGCGCCGCTATAGAACATTA-CTTTTAGCGGCGTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTTTTCC
* *
9394519 CAAGCGCCGCTAAAGAACATGATCGTTAGCGGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT-TTCC
*
9394562 TAAGCGACGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
* *
9394604 AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
* *
9394646 TAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCTTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC
9394687 TATAAGCACC
Statistics
Matches: 191, Mismatches: 14, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
41 3 0.02
42 148 0.77
43 40 0.21
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.31
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
Found at i:9394496 original size:208 final size:209
Alignment explanation
Indices: 9394102--9394514 Score: 693
Period size: 209 Copynumber: 2.0 Consensus size: 209
9394092 TTGGTTGCTT
**
9394102 TTGATTTGCTATTGCAGGAGGGCTGAAAAAATTAAAAAAATTTATTTTAAAAAAATCCCAAAATT
1 TTGATTTGCTATTGCAGGAGGGCTGAAAAAAACAAAAAAATTTATTTTAAAAAAATCCCAAAATT
* *
9394167 AGTGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTCATATCAAAACAGTGGCGTTTGTGAAACAAGC
66 AGTGGCGTTTTTTAAAAAAGCGCAGCTAAAAGTCATATCAAAACAGTGGCATTTGTGAAACAAGC
9394232 GCCGCTAAAGAACACTACTTTTAGCGGCATTTTCGAACAAGCGCCGCTATAGAACATTACTTTTA
131 GCCGCTAAAGAACACTACTTTTAGCGGCATTTTCGAACAAGCGCCGCTATAGAACATTACTTTTA
9394297 GAGGCGTTTTCTTC
196 GAGGCGTTTTCTTC
* * * *
9394311 TTGATTTGTTGTTGCAGGAGGGCTGAAAAAAACATAAAATTTTATTTTAAAAAAATCCCAAAATT
1 TTGATTTGCTATTGCAGGAGGGCTGAAAAAAACAAAAAAATTTATTTTAAAAAAATCCCAAAATT
* *
9394376 AGTGGCGTTTTTTAAAAAAGCGCAGCTAAAAGTCATATC-AAATAGTGGCATTTGTGAAATAAGC
66 AGTGGCGTTTTTTAAAAAAGCGCAGCTAAAAGTCATATCAAAACAGTGGCATTTGTGAAACAAGC
* * *
9394440 GCCGCTAAAGAACACTACTTTTAGCGGCGTTTTTGACCAAGCGCCGCTATAGAACATTACTTTTA
131 GCCGCTAAAGAACACTACTTTTAGCGGCATTTTCGAACAAGCGCCGCTATAGAACATTACTTTTA
*
9394505 GCGGCGTTTT
196 GAGGCGTTTT
9394515 TTCCCAAGCG
Statistics
Matches: 190, Mismatches: 14, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
208 93 0.49
209 97 0.51
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.30
Consensus pattern (209 bp):
TTGATTTGCTATTGCAGGAGGGCTGAAAAAAACAAAAAAATTTATTTTAAAAAAATCCCAAAATT
AGTGGCGTTTTTTAAAAAAGCGCAGCTAAAAGTCATATCAAAACAGTGGCATTTGTGAAACAAGC
GCCGCTAAAGAACACTACTTTTAGCGGCATTTTCGAACAAGCGCCGCTATAGAACATTACTTTTA
GAGGCGTTTTCTTC
Found at i:9394610 original size:127 final size:127
Alignment explanation
Indices: 9394435--9394683 Score: 353
Period size: 127 Copynumber: 2.0 Consensus size: 127
9394425 ATTTGTGAAA
* * *
9394435 TAAGCGCCGCTAAAGAACACTACTTTTAGCGGCGTTTTTGACCAAGCGCCGCTATAGAACATTA-
1 TAAGCGACGCTAAAGAACACTACTTTTAGCGGCGTTTTTGACCAAGCGCCGCTAAAGAACATGAT
*
9394499 CTTTTAGCGGCGTTTTTTCCCAAGCGCCGCTAAAGAACATGATCGTTAGCGGCGTTTTCTTCC
66 C-TTTAGCGGCATTTTTTCCCAAGCGCCGCTAAAGAACATGATCGTTAGCGGCGTTTTCTTCC
*
9394562 TAAGCGACGCTAAAGAACA-TGA-TCTTTAGCGGCGTTTTT-TCCAAAGCGCCGCTAAAGAACAT
1 TAAGCGACGCTAAAGAACACT-ACT-TTTAGCGGCGTTTTTGACC-AAGCGCCGCTAAAGAACAT
* * * *
9394624 GATCTTTAGCGGCATTTTTTCCTAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCTTTTT
63 GATCTTTAGCGGCATTTTTTCCCAAGCGCCGCTAAAGAACATGATCGTTAGCGGCGTTTT
9394684 TTCTATAAGC
Statistics
Matches: 109, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
126 4 0.04
127 104 0.95
128 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (127 bp):
TAAGCGACGCTAAAGAACACTACTTTTAGCGGCGTTTTTGACCAAGCGCCGCTAAAGAACATGAT
CTTTAGCGGCATTTTTTCCCAAGCGCCGCTAAAGAACATGATCGTTAGCGGCGTTTTCTTCC
Found at i:9405328 original size:31 final size:31
Alignment explanation
Indices: 9405268--9405328 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
9405258 TGTGTTGAAA
* *
9405268 TTTAAACTTGACAATTGTTCTCACGTTGGGG
1 TTTAAACTAGACAATTGTTCTCACATTGGGG
*
9405299 TTTAAACTAGACAATTGTTCTCATATTGGG
1 TTTAAACTAGACAATTGTTCTCACATTGGG
9405329 ACCTTAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (31 bp):
TTTAAACTAGACAATTGTTCTCACATTGGGG
Found at i:9406585 original size:37 final size:37
Alignment explanation
Indices: 9406513--9406600 Score: 104
Period size: 37 Copynumber: 2.4 Consensus size: 37
9406503 TGGGAGAATT
* * *
9406513 TTTGTAGAGAATCGTTATTGTTCATCTTCATCTTTTC
1 TTTGTAGAGAATCATCATTGTTCATCTTCACCTTTTC
** *
9406550 TTTGTAGAGAATCATCATTGTTCATCTTTGCCTTTTG
1 TTTGTAGAGAATCATCATTGTTCATCTTCACCTTTTC
*
9406587 TCTTCTAGAGAATC
1 T-TTGTAGAGAATC
9406601 TTTACTATTT
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
37 32 0.74
38 11 0.26
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (37 bp):
TTTGTAGAGAATCATCATTGTTCATCTTCACCTTTTC
Found at i:9416826 original size:23 final size:21
Alignment explanation
Indices: 9416760--9416827 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 21
9416750 TGTGGAAGAT
* *
9416760 CACATGCCTGTGTGA-GAGGA
1 CACACGCCTGTGTGACGATGA
*
9416780 GGCACACGCCTGTGTGACTATGA
1 --CACACGCCTGTGTGACGATGA
9416803 CACACGCCTGTGTGACCGAGTGA
1 CACACGCCTGTGTGA-CGA-TGA
9416826 CA
1 CA
9416828 TGGCCGTGTG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
21 15 0.38
22 16 0.41
23 8 0.21
ACGTcount: A:0.24, C:0.26, G:0.31, T:0.19
Consensus pattern (21 bp):
CACACGCCTGTGTGACGATGA
Found at i:9421067 original size:15 final size:16
Alignment explanation
Indices: 9421047--9421083 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
9421037 AAGTATAATA
*
9421047 AAATATTTTTA-AAAT
1 AAATATTTTTAGAAAG
9421062 AAATATTTTTAGAAAG
1 AAATATTTTTAGAAAG
9421078 AAATAT
1 AAATAT
9421084 GTGATAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (16 bp):
AAATATTTTTAGAAAG
Found at i:9434790 original size:44 final size:44
Alignment explanation
Indices: 9434727--9434813 Score: 165
Period size: 44 Copynumber: 2.0 Consensus size: 44
9434717 CATCAAACTG
9434727 GCAAGTAAGCTCTTGTACCCTCTATTATTCTTTTAATATACCTA
1 GCAAGTAAGCTCTTGTACCCTCTATTATTCTTTTAATATACCTA
*
9434771 GCAAGTAAGCTCTTGTACCCTCTATTCTTCTTTTAATATACCT
1 GCAAGTAAGCTCTTGTACCCTCTATTATTCTTTTAATATACCT
9434814 TGTTAGAGTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.25, C:0.24, G:0.09, T:0.41
Consensus pattern (44 bp):
GCAAGTAAGCTCTTGTACCCTCTATTATTCTTTTAATATACCTA
Found at i:9436219 original size:11 final size:11
Alignment explanation
Indices: 9436203--9436229 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
9436193 TAAATAAGTT
9436203 AAGAACACTTC
1 AAGAACACTTC
9436214 AAGAACACTTC
1 AAGAACACTTC
9436225 AAGAA
1 AAGAA
9436230 TAATAATAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.22, G:0.11, T:0.15
Consensus pattern (11 bp):
AAGAACACTTC
Found at i:9436253 original size:2 final size:2
Alignment explanation
Indices: 9436246--9436274 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9436236 TAAGAAATAA
9436246 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
9436275 TGAAAGATTG
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9441425 original size:12 final size:12
Alignment explanation
Indices: 9441398--9441430 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
9441388 AACTAAATGA
*
9441398 TTTTTTTTTCTC
1 TTTTTGTTTCTC
9441410 -TTTTGTTTCTC
1 TTTTTGTTTCTC
9441421 TTTTTGTTTC
1 TTTTTGTTTC
9441431 GTTTGTCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (12 bp):
TTTTTGTTTCTC
Found at i:9442580 original size:27 final size:28
Alignment explanation
Indices: 9442544--9442597 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
9442534 GTAACAGTAC
* *
9442544 AGTGTGGGC-TTATCCCAATATAGTAAT
1 AGTGTAGGCTTTAGCCCAATATAGTAAT
9442571 AGTGTAGGCTTTAGCCCAATATAGTAA
1 AGTGTAGGCTTTAGCCCAATATAGTAA
9442598 CAGTACTGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.31
Consensus pattern (28 bp):
AGTGTAGGCTTTAGCCCAATATAGTAAT
Found at i:9442733 original size:26 final size:26
Alignment explanation
Indices: 9442704--9442810 Score: 180
Period size: 26 Copynumber: 4.1 Consensus size: 26
9442694 AACACTCTAA
9442704 TATCGCTA-CAAAGCTGCCAGTAACAG
1 TATCGC-AGCAAAGCTGCCAGTAACAG
9442730 TATCGCAGCAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
*
9442756 TATTGCAGCAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
*
9442782 TATCGCAGCAAAGCTTCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
9442808 TAT
1 TAT
9442811 ACTTCCTCCA
Statistics
Matches: 77, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
25 1 0.01
26 76 0.99
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.20
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAG
Found at i:9443007 original size:27 final size:27
Alignment explanation
Indices: 9442976--9443115 Score: 172
Period size: 27 Copynumber: 5.2 Consensus size: 27
9442966 GTATAACAAA
9442976 CATTTTACCCTATAGGGGTATTTCGGT
1 CATTTTACCCTATAGGGGTATTTCGGT
* * * *
9443003 TATTTTACCATGTAGGGGTATTCCGGT
1 CATTTTACCCTATAGGGGTATTTCGGT
*
9443030 CATTTTACCCTATAGAGGTATTTCGGT
1 CATTTTACCCTATAGGGGTATTTCGGT
* * * **
9443057 TATTTTATCATATAGGATTATTTCGGT
1 CATTTTACCCTATAGGGGTATTTCGGT
* *
9443084 CATTGTACCCTATAGGGGTATTTCAGT
1 CATTTTACCCTATAGGGGTATTTCGGT
9443111 CATTT
1 CATTT
9443116 ATTAACCTCT
Statistics
Matches: 90, Mismatches: 23, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 90 1.00
ACGTcount: A:0.21, C:0.16, G:0.20, T:0.43
Consensus pattern (27 bp):
CATTTTACCCTATAGGGGTATTTCGGT
Found at i:9443034 original size:54 final size:54
Alignment explanation
Indices: 9442976--9443107 Score: 201
Period size: 54 Copynumber: 2.4 Consensus size: 54
9442966 GTATAACAAA
* *
9442976 CATTTTACCCTATAGGGGTATTTCGGTTATTTTACCATGTAGGGGTATTCCGGT
1 CATTTTACCCTATAGGGGTATTTCGGTTATTTTACCATATAGGAGTATTCCGGT
* * * *
9443030 CATTTTACCCTATAGAGGTATTTCGGTTATTTTATCATATAGGATTATTTCGGT
1 CATTTTACCCTATAGGGGTATTTCGGTTATTTTACCATATAGGAGTATTCCGGT
*
9443084 CATTGTACCCTATAGGGGTATTTC
1 CATTTTACCCTATAGGGGTATTTC
9443108 AGTCATTTAT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 70 1.00
ACGTcount: A:0.21, C:0.16, G:0.20, T:0.42
Consensus pattern (54 bp):
CATTTTACCCTATAGGGGTATTTCGGTTATTTTACCATATAGGAGTATTCCGGT
Found at i:9444862 original size:50 final size:50
Alignment explanation
Indices: 9444800--9444895 Score: 149
Period size: 50 Copynumber: 1.9 Consensus size: 50
9444790 ACCTTATTCT
*
9444800 AATCAATGTCAAATAAAAGGAA-AGAAGTTTTATACGGATTCTACTTGTAC
1 AATCAATATCAAATAAAA-GAAGAGAAGTTTTATACGGATTCTACTTGTAC
* *
9444850 AATCAATATCAAATAGAAGAAGAGTAGTTTTATACGGATTCTACTT
1 AATCAATATCAAATAAAAGAAGAGAAGTTTTATACGGATTCTACTT
9444896 ATGCCACTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
49 3 0.07
50 39 0.93
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.31
Consensus pattern (50 bp):
AATCAATATCAAATAAAAGAAGAGAAGTTTTATACGGATTCTACTTGTAC
Found at i:9446430 original size:13 final size:13
Alignment explanation
Indices: 9446412--9446451 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
9446402 TTAATTTATA
9446412 TGTGTGAAAATTT
1 TGTGTGAAAATTT
9446425 TGTGTGAAAATTT
1 TGTGTGAAAATTT
9446438 TGTGTGAAAATTT
1 TGTGTGAAAATTT
9446451 T
1 T
9446452 ATCGTTTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:9447690 original size:43 final size:42
Alignment explanation
Indices: 9447586--9447698 Score: 106
Period size: 43 Copynumber: 2.7 Consensus size: 42
9447576 GAGATTTACG
* ** * *
9447586 TGTAAGACCATGTCTGGGACA-TAGGCATCGTATATGTTTTCG
1 TGTAAGACCACGTCTGGGACAGT-GGCATCGTATATGGATACA
* *
9447628 TGTAAGACC-CTGTCCGGGACAGTGGCATCGTTATTTGGATACA
1 TGTAAGACCAC-GTCTGGGACAGTGGCATCG-TATATGGATACA
9447671 TGTAAGACCACGTCTGGGAC-GTTGGCAT
1 TGTAAGACCACGTCTGGGACAG-TGGCAT
9447699 TGTACGAGCT
Statistics
Matches: 58, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
42 26 0.45
43 31 0.53
44 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.29
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACAGTGGCATCGTATATGGATACA
Found at i:9448646 original size:2 final size:2
Alignment explanation
Indices: 9448639--9448663 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9448629 ATTGGTCGTG
9448639 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 T
9448664 GGAGCTTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9450508 original size:32 final size:33
Alignment explanation
Indices: 9450472--9450545 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 33
9450462 TCATAAACTT
9450472 ATAAATTGATT-ACTTGAATTT-AGTAACTCA-TG
1 ATAAATTGATTCA-TTGAATTTGA-TAACTCATTG
* *
9450504 ATAAATTAATTCATTTAATTTGATAACTCATTG
1 ATAAATTGATTCATTGAATTTGATAACTCATTG
*
9450537 ATTAATTGA
1 ATAAATTGA
9450546 ACTTGTTAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
32 24 0.69
33 11 0.31
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.43
Consensus pattern (33 bp):
ATAAATTGATTCATTGAATTTGATAACTCATTG
Found at i:9453814 original size:19 final size:19
Alignment explanation
Indices: 9453790--9453828 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
9453780 CAACATACAT
9453790 AGAATTATTATTAGGAATC
1 AGAATTATTATTAGGAATC
9453809 AGAATTATTATTAGGAATC
1 AGAATTATTATTAGGAATC
9453828 A
1 A
9453829 AAATCTAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.36
Consensus pattern (19 bp):
AGAATTATTATTAGGAATC
Found at i:9464860 original size:25 final size:25
Alignment explanation
Indices: 9464831--9464881 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
9464821 TGTTTGGGTG
9464831 ATCTGAAGAGGGGGAACAAGAAGCT
1 ATCTGAAGAGGGGGAACAAGAAGCT
9464856 ATCTGAAGAGGGGGAACAAGAAGCT
1 ATCTGAAGAGGGGGAACAAGAAGCT
9464881 A
1 A
9464882 ACTAACCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.41, C:0.12, G:0.35, T:0.12
Consensus pattern (25 bp):
ATCTGAAGAGGGGGAACAAGAAGCT
Found at i:9478061 original size:3 final size:3
Alignment explanation
Indices: 9478055--9478107 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
9478045 GATATAAAAA
* ** * * *
9478055 AAT AAT AAT AAT ACT AAT AAT AAT AGC AGT AGT AGT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
9478103 AAT AA
1 AAT AA
9478108 GAGTATTAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:9481614 original size:43 final size:44
Alignment explanation
Indices: 9481549--9481639 Score: 107
Period size: 43 Copynumber: 2.1 Consensus size: 44
9481539 TACATGTAAT
* *
9481549 CACATATCGATGCCACTATCCCAGACAG-GATCTTACAC-ATAAA
1 CACAAATCGATGCCACTATCCCAGAC-GTGATCTTACACTAAAAA
* *
9481592 CACAAATCGATGCCAAC-GTCCCAGACGTGGTCTTACACTAAAAA
1 CACAAATCGATGCC-ACTATCCCAGACGTGATCTTACACTAAAAA
9481636 CACA
1 CACA
9481640 TATTAGAGGT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
42 1 0.02
43 30 0.73
44 10 0.24
ACGTcount: A:0.37, C:0.31, G:0.13, T:0.19
Consensus pattern (44 bp):
CACAAATCGATGCCACTATCCCAGACGTGATCTTACACTAAAAA
Found at i:9483421 original size:41 final size:41
Alignment explanation
Indices: 9483363--9483453 Score: 146
Period size: 41 Copynumber: 2.2 Consensus size: 41
9483353 GCATGTAGTC
*
9483363 ACCACTACTAAAGATTCTTTGAAATTCTTTGGTATGTAATT
1 ACCACTATTAAAGATTCTTTGAAATTCTTTGGTATGTAATT
* *
9483404 ACTACTATTAAATATTCTTTGAAATTCTTTGGTATGTAATT
1 ACCACTATTAAAGATTCTTTGAAATTCTTTGGTATGTAATT
*
9483445 GCCACTATT
1 ACCACTATT
9483454 CACTTCTTTC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (41 bp):
ACCACTATTAAAGATTCTTTGAAATTCTTTGGTATGTAATT
Found at i:9486767 original size:20 final size:20
Alignment explanation
Indices: 9486745--9486781 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
9486735 TAGTTCCAAA
*
9486745 AAAATA-ATTTTATAATTTT
1 AAAATATATTTTAAAATTTT
9486764 AAAATATATTTTAAAATT
1 AAAATATATTTTAAAATT
9486782 AAATTAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AAAATATATTTTAAAATTTT
Found at i:9487298 original size:18 final size:18
Alignment explanation
Indices: 9487270--9487307 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
9487260 AAAAGTGTTT
9487270 AATATATTATT-ATAAAA
1 AATATATTATTCATAAAA
9487287 AATATAATTATTCATAAAA
1 AATAT-ATTATTCATAAAA
9487306 AA
1 AA
9487308 ATGTTATAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.26
18 6 0.32
19 8 0.42
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
AATATATTATTCATAAAA
Found at i:9488149 original size:18 final size:17
Alignment explanation
Indices: 9488109--9488152 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
9488099 ATTTAGAAAT
9488109 TATTTTTATAATACTAA
1 TATTTTTATAATACTAA
* *
9488126 TAATTTTTATAGTAATTAA
1 T-ATTTTTATAAT-ACTAA
9488145 TATTTTTA
1 TATTTTTA
9488153 AAAATATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 17 0.74
19 5 0.22
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (17 bp):
TATTTTTATAATACTAA
Found at i:9488552 original size:19 final size:18
Alignment explanation
Indices: 9488521--9488558 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
9488511 TTTTTATGAG
9488521 TATTTTATATTTGAGATT
1 TATTTTATATTTGAGATT
*
9488539 TATTTTATTATTTGATATT
1 TATTTTA-TATTTGAGATT
9488558 T
1 T
9488559 GTAAATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (18 bp):
TATTTTATATTTGAGATT
Found at i:9489275 original size:16 final size:17
Alignment explanation
Indices: 9489247--9489278 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
9489237 GAAATAAATT
9489247 TATAAATATATTTTTAA
1 TATAAATATATTTTTAA
9489264 TATAAA-ATATTTTTA
1 TATAAATATATTTTTA
9489279 TTCACTCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATAAATATATTTTTAA
Found at i:9489327 original size:15 final size:16
Alignment explanation
Indices: 9489300--9489329 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
9489290 CGTGGGTGTG
9489300 ATAAAATCTAGTATTA
1 ATAAAATCTAGTATTA
9489316 ATAAAA-CTAGTATT
1 ATAAAATCTAGTATT
9489330 CGTCCAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.37
Consensus pattern (16 bp):
ATAAAATCTAGTATTA
Found at i:9492565 original size:24 final size:25
Alignment explanation
Indices: 9492538--9492585 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
9492528 TCCGGTAATT
9492538 GCTCTTTG-GAACTACCCGTTATAG
1 GCTCTTTGTGAACTACCCGTTATAG
* *
9492562 GCTCTTTGTGAGCTTCCCGTTATA
1 GCTCTTTGTGAACTACCCGTTATA
9492586 TTGCCCGGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.38
Consensus pattern (25 bp):
GCTCTTTGTGAACTACCCGTTATAG
Found at i:9496873 original size:109 final size:109
Alignment explanation
Indices: 9496680--9497121 Score: 762
Period size: 109 Copynumber: 4.1 Consensus size: 109
9496670 TACGCATACT
*
9496680 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCTTTTGGAAATTCGAGAAAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
* *
9496745 CTAATGTGTTGGGTATCGATTTTTCTCGTTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
9496789 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
*
9496854 CTAATGTGCTGGGTTTCGATTTTTCTCGTTTGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
*
9496898 AATATCTTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
* * *
9496963 CTAATGTGTTGGGTTTCAATTTTTCTCGTTCGACCAAATAGCAA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
* *
9497007 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGCTTGAAAATTCGAGAAAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
* *
9497072 CTAATGTGCTAGGTTTCGA--TTTCTCGTTCGATCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
9497114 AATATCCT
1 AATATCCT
9497122 CCTAAATCTT
Statistics
Matches: 316, Mismatches: 17, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
107 29 0.09
109 287 0.91
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.35
Consensus pattern (109 bp):
AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
Found at i:9498059 original size:16 final size:16
Alignment explanation
Indices: 9498038--9498073 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
9498028 TTGTTGTTTT
*
9498038 ATTTTGACTGCATGGC
1 ATTTTGACTACATGGC
9498054 ATTTTGACTACATGGC
1 ATTTTGACTACATGGC
9498070 ATTT
1 ATTT
9498074 CATTAAAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (16 bp):
ATTTTGACTACATGGC
Found at i:9505414 original size:21 final size:21
Alignment explanation
Indices: 9505390--9505433 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
9505380 GCGAGACGAG
9505390 ATATTCGCCAATTGAGAAACT
1 ATATTCGCCAATTGAGAAACT
9505411 ATATTCGCCAATTGAGAAACT
1 ATATTCGCCAATTGAGAAACT
9505432 AT
1 AT
9505434 GTTGTGCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.30
Consensus pattern (21 bp):
ATATTCGCCAATTGAGAAACT
Found at i:9507950 original size:108 final size:108
Alignment explanation
Indices: 9507747--9507943 Score: 254
Period size: 108 Copynumber: 1.8 Consensus size: 108
9507737 GGGGCACCTG
* * * *
9507747 TATTCATCTTTGTATCTTAGCAAAATTTGCTATCTTGATTAATTTGTTCATTAGAGCTTTGCTCT
1 TATTCATCTTCGTATCTCAGCAAAATTTGCTATCTTGATTAATTTGTTCATTAGAGATCTGCTCT
* *
9507812 CAATAAATTCTCATCTTATCCATTGCGATAACCTTGTTTATCT
66 CAATAAATTCTCATCGTATCAATTGCGATAACCTTGTTTATCT
* * * **
9507855 TATTCAT-TTCGTATGTCAGCAAAATTTGCTATCTTGATTGATTTATTTGTTTAGAGATCTGCTC
1 TATTCATCTTCGTATCTCAGCAAAATTTGCTATCTTGATTAATTT-GTTCATTAGAGATCTGCTC
*
9507919 TCAATAAAATT-TCATCGTGTCAATT
65 TCAAT-AAATTCTCATCGTATCAATT
9507944 TTGATAATCT
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
107 33 0.44
108 37 0.49
109 5 0.07
ACGTcount: A:0.26, C:0.17, G:0.12, T:0.46
Consensus pattern (108 bp):
TATTCATCTTCGTATCTCAGCAAAATTTGCTATCTTGATTAATTTGTTCATTAGAGATCTGCTCT
CAATAAATTCTCATCGTATCAATTGCGATAACCTTGTTTATCT
Found at i:9508575 original size:45 final size:43
Alignment explanation
Indices: 9508395--9508741 Score: 254
Period size: 40 Copynumber: 8.2 Consensus size: 43
9508385 GAAGTTACCC
*
9508395 ATCTCCCTAAAGTTGCAGT-GGAGCAGATTAAAAACACAGATCTT
1 ATCTCCCTGAAGTTGCAGTAGGAGCAGA-TAAAAAC-CAGATCTT
* * *** *
9508439 ATCTCTCTGAAGTTACAGTA-GAGCAGATCGCATCCAG-TCTT
1 ATCTCCCTGAAGTTGCAGTAGGAGCAGATAAAAACCAGATCTT
* ** * *
9508480 ACCTCCCT-AAGCAGTAGT-GGAGCAGA-AAAAAGCCA-ATCCT
1 ATCTCCCTGAAGTTGCAGTAGGAGCAGATAAAAA-CCAGATCTT
9508520 ATCTCCCTGAAGTTGCAGTAGGAGCAGATTAAAAACACAGATCTT
1 ATCTCCCTGAAGTTGCAGTAGGAGCAGA-TAAAAAC-CAGATCTT
* *** *
9508565 ATCTCTCTGAAGTTGCAGTA-GAGCAGATCGCATCCAG-TCTT
1 ATCTCCCTGAAGTTGCAGTAGGAGCAGATAAAAACCAGATCTT
* ** * * * *
9508606 ACCTCCCT-AAGCAGTAGT-GGAGCAGACAAAAGCCA-ATCCT
1 ATCTCCCTGAAGTTGCAGTAGGAGCAGATAAAAACCAGATCTT
*
9508646 ATCTCCCTGAAGTTGCAGTAGGAGCGGATTAAAAACACAGATCTT
1 ATCTCCCTGAAGTTGCAGTAGGAGCAGA-TAAAAAC-CAGATCTT
* * *** *
9508691 ATCTCTCTGAAGTTGTAGTA-GAGCAGATCGCATCCAG-TCTT
1 ATCTCCCTGAAGTTGCAGTAGGAGCAGATAAAAACCAGATCTT
9508732 ATCTCCCTGA
1 ATCTCCCTGA
9508742 CGACACAGTG
Statistics
Matches: 231, Mismatches: 55, Indels: 37
0.72 0.17 0.11
Matches are distributed among these distances:
39 1 0.00
40 54 0.23
41 47 0.20
42 24 0.10
43 15 0.06
44 45 0.19
45 45 0.19
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (43 bp):
ATCTCCCTGAAGTTGCAGTAGGAGCAGATAAAAACCAGATCTT
Found at i:9508619 original size:126 final size:126
Alignment explanation
Indices: 9508395--9508739 Score: 629
Period size: 126 Copynumber: 2.7 Consensus size: 126
9508385 GAAGTTACCC
* *
9508395 ATCTCCCTAAAGTTGCAGT-GGAGCAGATTAAAAACACAGATCTTATCTCTCTGAAGTTACAGTA
1 ATCTCCCTGAAGTTGCAGTAGGAGCAGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGTA
9508459 GAGCAGATCGCATCCAGTCTTACCTCCCTAAGCAGTAGTGGAGCAGAAAAAAGCCAATCCT
66 GAGCAGATCGCATCCAGTCTTACCTCCCTAAGCAGTAGTGGAGCAGAAAAAAGCCAATCCT
9508520 ATCTCCCTGAAGTTGCAGTAGGAGCAGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGTA
1 ATCTCCCTGAAGTTGCAGTAGGAGCAGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGTA
*
9508585 GAGCAGATCGCATCCAGTCTTACCTCCCTAAGCAGTAGTGGAGCAGACAAAAGCCAATCCT
66 GAGCAGATCGCATCCAGTCTTACCTCCCTAAGCAGTAGTGGAGCAGAAAAAAGCCAATCCT
* *
9508646 ATCTCCCTGAAGTTGCAGTAGGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGTAGTA
1 ATCTCCCTGAAGTTGCAGTAGGAGCAGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGTA
*
9508711 GAGCAGATCGCATCCAGTCTTATCTCCCT
66 GAGCAGATCGCATCCAGTCTTACCTCCCT
9508740 GACGACACAG
Statistics
Matches: 213, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
125 18 0.08
126 195 0.92
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (126 bp):
ATCTCCCTGAAGTTGCAGTAGGAGCAGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGTA
GAGCAGATCGCATCCAGTCTTACCTCCCTAAGCAGTAGTGGAGCAGAAAAAAGCCAATCCT
Found at i:9511375 original size:109 final size:107
Alignment explanation
Indices: 9511018--9511449 Score: 642
Period size: 109 Copynumber: 4.0 Consensus size: 107
9511008 TACGCATACT
* * *
9511018 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTACC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACGTGCC
* *
9511083 CTAATGTGCTGGGTATC-ATTTTTCTCGTTCGACCAAATAGCGA
66 CTAATGTGCTGGGTTTCGA--TTTCTCGTTCGACCAAATAGCCA
*
9511126 AATATCCTTTTAAAAATTTCAAAATAGGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACGTGCC
*
9511191 CTAATGTGCTGGGTTTCGA----TCGTTTGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTCTCGTTCGACCAAATAGCCA
* * *
9511229 AATATCCTTTTAAAAATTTCAAAACAAGACAATGTTTTGCGTTTTG-AAATTTGAGAAAACGTGC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCG-TTTGAAAATTCGAGAAAACGTGC
* *
9511293 CTTAATGTGCTGGGTTTCGATTTTTCTCATTCGACCAAATAGCCA
65 CCTAATGTGCTGGGTTTCGA--TTTCTCGTTCGACCAAATAGCCA
* *
9511338 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGTGCTTGAAAATTCGAGAAAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACGTGCC
*
9511403 CTAATGTGCTGGGTTTCGATTTCTCGTTCGGCCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTCTCGTTCGACCAAATAGCCA
9511445 AATAT
1 AATAT
9511450 GCTCCTAAAT
Statistics
Matches: 293, Mismatches: 22, Indels: 19
0.88 0.07 0.06
Matches are distributed among these distances:
103 91 0.31
104 4 0.01
107 26 0.09
108 80 0.27
109 92 0.31
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (107 bp):
AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACGTGCC
CTAATGTGCTGGGTTTCGATTTCTCGTTCGACCAAATAGCCA
Found at i:9511386 original size:212 final size:212
Alignment explanation
Indices: 9511018--9511449 Score: 704
Period size: 212 Copynumber: 2.0 Consensus size: 212
9511008 TACGCATACT
* *
9511018 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTACC
1 AATATCCTTTTAAAAATTTCAAAACAAGACAATGTTTTGCGTTTGGAAATTTGAGAAAACGTACC
* *
9511083 CTAATGTGCTGGGTATCATTTTTCTCGTTCGACCAAATAGCGAAATATCCTTTTAAAAATTTCAA
66 CTAATGTGCTGGGTATCATTTTTCTCATTCGACCAAATAGCCAAATATCCTTTTAAAAATTTCAA
* *
9511148 AATAGGGCAATGTTTTGCGTTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGA-TC
131 AATAAGGCAATGTTTTGCGCTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTC
*
9511212 GTTTGACCAAATAGCCA
196 GTTCGACCAAATAGCCA
* *
9511229 AATATCCTTTTAAAAATTTCAAAACAAGACAATGTTTTGCGTTTTGAAATTTGAGAAAACGTGCC
1 AATATCCTTTTAAAAATTTCAAAACAAGACAATGTTTTGCGTTTGGAAATTTGAGAAAACGTACC
* *
9511294 TTAATGTGCTGGGTTTCGATTTTTCTCATTCGACCAAATAGCCAAATATCCTTTTAAAAATTTCA
66 CTAATGTGCTGGGTATC-ATTTTTCTCATTCGACCAAATAGCCAAATATCCTTTTAAAAATTTCA
*
9511359 AAATAAGGCAATGTTTTGTGCTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATT
130 AAATAAGGCAATGTTTTGCGCTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGA--
*
9511424 TCTCGTTCGGCCAAATAGCCA
193 T-TCGTTCGACCAAATAGCCA
9511445 AATAT
1 AATAT
9511450 GCTCCTAAAT
Statistics
Matches: 203, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
211 76 0.37
212 105 0.52
216 22 0.11
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (212 bp):
AATATCCTTTTAAAAATTTCAAAACAAGACAATGTTTTGCGTTTGGAAATTTGAGAAAACGTACC
CTAATGTGCTGGGTATCATTTTTCTCATTCGACCAAATAGCCAAATATCCTTTTAAAAATTTCAA
AATAAGGCAATGTTTTGCGCTTGAAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTC
GTTCGACCAAATAGCCA
Found at i:9516045 original size:12 final size:12
Alignment explanation
Indices: 9516028--9516062 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
9516018 TAGCCCGCTC
9516028 ATATTAATTTTT
1 ATATTAATTTTT
9516040 ATATT-ATTTTT
1 ATATTAATTTTT
9516051 ATA-TAATTTTT
1 ATATTAATTTTT
9516062 A
1 A
9516063 AATATATGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 16 0.73
12 5 0.23
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:9518815 original size:17 final size:17
Alignment explanation
Indices: 9518771--9518816 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 17
9518761 GAAATACATG
*
9518771 GAAATG-ATGGTAT-AT
1 GAAATGAATGATATAAT
*
9518786 GAAAT-ATTGATATAAT
1 GAAATGAATGATATAAT
9518802 GAAATGAATGATATA
1 GAAATGAATGATATA
9518817 TGTTTATGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 10 0.40
16 7 0.28
17 8 0.32
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.33
Consensus pattern (17 bp):
GAAATGAATGATATAAT
Found at i:9532221 original size:24 final size:23
Alignment explanation
Indices: 9532194--9532240 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
9532184 AGTTTAGTTG
9532194 TCGAC-TTAAAAATGAAAATTGGGA
1 TCGACTTTAAAAAT-AAAA-TGGGA
*
9532218 TCGACTTTGAAAATAAAATGGGA
1 TCGACTTTAAAAATAAAATGGGA
9532241 GTCGCCACCG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 5 0.24
24 9 0.43
25 7 0.33
ACGTcount: A:0.45, C:0.09, G:0.21, T:0.26
Consensus pattern (23 bp):
TCGACTTTAAAAATAAAATGGGA
Found at i:9538843 original size:24 final size:24
Alignment explanation
Indices: 9538811--9538870 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
9538801 GTCGTGATCA
* *
9538811 TCATCTTCATCTTCACCTCGACTC
1 TCATATTCATCTTCACCTCGACCC
* *
9538835 TCGTATTCATCTTCATCTCGACCC
1 TCATATTCATCTTCACCTCGACCC
*
9538859 TCATCTTCATCT
1 TCATATTCATCT
9538871 CTACCTCTGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.17, C:0.38, G:0.05, T:0.40
Consensus pattern (24 bp):
TCATATTCATCTTCACCTCGACCC
Found at i:9547136 original size:38 final size:38
Alignment explanation
Indices: 9547085--9547161 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
9547075 GTGCAAAAGA
9547085 TAGTTTATAATCTAAAGAAAATGATACAGAACATACAG
1 TAGTTTATAATCTAAAGAAAATGATACAGAACATACAG
9547123 TAGTTTATAATCTAAAGAAAATGATACAGAACATACAG
1 TAGTTTATAATCTAAAGAAAATGATACAGAACATACAG
9547161 T
1 T
9547162 TTGAGAGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.49, C:0.10, G:0.13, T:0.27
Consensus pattern (38 bp):
TAGTTTATAATCTAAAGAAAATGATACAGAACATACAG
Found at i:9552463 original size:32 final size:32
Alignment explanation
Indices: 9552427--9552492 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
9552417 CCATATCTGA
9552427 ATATGAAAGAGAATTCGTCCGATTAAGTAAGT
1 ATATGAAAGAGAATTCGTCCGATTAAGTAAGT
9552459 ATATGAAAGAGAATTCGTCCGATTAAGTAAGT
1 ATATGAAAGAGAATTCGTCCGATTAAGTAAGT
9552491 AT
1 AT
9552493 GCCCGAGAGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (32 bp):
ATATGAAAGAGAATTCGTCCGATTAAGTAAGT
Found at i:9557751 original size:25 final size:25
Alignment explanation
Indices: 9557690--9557753 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
9557680 ACCACAGCTT
9557690 GTATGAGCTTACCGATTTACAACTC
1 GTATGAGCTTACCGATTTACAACTC
*
9557715 GTGA-GAGTTTACCGATTCT-CAACTC
1 GT-ATGAGCTTACCGATT-TACAACTC
9557740 GTATGAGCTTACCG
1 GTATGAGCTTACCG
9557754 TTGTTTAGCT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
24 1 0.03
25 31 0.91
26 2 0.06
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (25 bp):
GTATGAGCTTACCGATTTACAACTC
Found at i:9573286 original size:26 final size:27
Alignment explanation
Indices: 9573250--9573323 Score: 114
Period size: 26 Copynumber: 2.7 Consensus size: 27
9573240 TTTTTGGTTT
9573250 TTTTATATATTTTGGTAAAT-AAAAAA
1 TTTTATATATTTTGGTAAATAAAAAAA
9573276 TTTTATATATTTTGGTAAATAAAAAAA
1 TTTTATATATTTTGGTAAATAAAAAAA
**
9573303 AGTTATAATATTTTGGTAAAT
1 TTTTAT-ATATTTTGGTAAAT
9573324 TTTTATTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
26 20 0.45
27 10 0.23
28 14 0.32
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.46
Consensus pattern (27 bp):
TTTTATATATTTTGGTAAATAAAAAAA
Found at i:9573693 original size:21 final size:20
Alignment explanation
Indices: 9573667--9573719 Score: 61
Period size: 23 Copynumber: 2.5 Consensus size: 20
9573657 CACTAAAAAA
9573667 ATTTTATAACTTAATTTATT
1 ATTTTATAACTTAATTTATT
*
9573687 ATCTTTATAAAACTTATTTTATT
1 AT-TTTAT--AACTTAATTTATT
9573710 ATTATTATAA
1 ATT-TTATAA
9573720 TATTTTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
20 2 0.07
21 7 0.25
22 1 0.04
23 18 0.64
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTTATAACTTAATTTATT
Found at i:9573707 original size:23 final size:23
Alignment explanation
Indices: 9573674--9573719 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
9573664 AAAATTTTAT
9573674 AACTTAATTTATTATCT-TTATAA
1 AACTTAATTTATTAT-TATTATAA
*
9573697 AACTTATTTTATTATTATTATAA
1 AACTTAATTTATTATTATTATAA
9573720 TATTTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (23 bp):
AACTTAATTTATTATTATTATAA
Found at i:9574073 original size:16 final size:17
Alignment explanation
Indices: 9574052--9574098 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 17
9574042 TTCAAAATTA
9574052 TTTTAAA-ATTTTTAAT
1 TTTTAAACATTTTTAAT
*
9574068 TTTTAAAGA-TTTT-A-
1 TTTTAAACATTTTTAAT
9574082 TTTTAAACATTTTTAAT
1 TTTTAAACATTTTTAAT
9574099 ACATTTTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
14 8 0.31
15 5 0.19
16 12 0.46
17 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (17 bp):
TTTTAAACATTTTTAAT
Found at i:9582686 original size:32 final size:33
Alignment explanation
Indices: 9582619--9582690 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 33
9582609 TGTAAACATT
*
9582619 AATATTTTTTGGTGTTTGGATAAATCTGTGTAA
1 AATATTTTTTGGTGTTTGGATAAATCTCTGTAA
* * *
9582652 AATATTTTTTGTTGTTT-GATAGATTTCT-TAAA
1 AATATTTTTTGGTGTTTGGATAAATCTCTGT-AA
9582684 AATATTT
1 AATATTT
9582691 CATAAAAGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 1 0.03
32 17 0.50
33 16 0.47
ACGTcount: A:0.29, C:0.03, G:0.15, T:0.53
Consensus pattern (33 bp):
AATATTTTTTGGTGTTTGGATAAATCTCTGTAA
Found at i:9585818 original size:25 final size:25
Alignment explanation
Indices: 9585780--9585828 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
9585770 ATGTTTCTGT
9585780 ATTTTTGGACTTTTAATTTATTTTTA
1 ATTTTTGGACTTTT-ATTTATTTTTA
* *
9585806 ATTTTTTGA-TTTTATTTGTTTTT
1 ATTTTTGGACTTTTATTTATTTTT
9585829 GTAAGGGCCG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.43
25 4 0.19
26 8 0.38
ACGTcount: A:0.18, C:0.02, G:0.08, T:0.71
Consensus pattern (25 bp):
ATTTTTGGACTTTTATTTATTTTTA
Found at i:9586196 original size:100 final size:100
Alignment explanation
Indices: 9586091--9586738 Score: 798
Period size: 100 Copynumber: 6.5 Consensus size: 100
9586081 TCGGAGAAAT
* * * * * * *
9586091 AAGATTCGTAGTTGTAGCTTCAATCGGTTCCACTACACCGCTTGGGAAGTAAGATTCGCTATTGT
1 AAGATTCGCAGTTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGGAAGTAAGATTCGCTGTTGT
* * *
9586156 AGGTTTAATCTTTTTAACTACAATGTCAGGGAAGC
66 AGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
* * * *
9586191 AAGATTCGTC-GTTGTGGCGTTAATCTGTTCCACTGCACCGCTTGAGAAGTAAGATTTGCTGTTG
1 AAGATTCG-CAGTTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGGAAGTAAGATTCGCTGTTG
*
9586255 TAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGA
65 TAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
* * * * *
9586291 AAGATTCGCCGTTGTGGCGTTAATCTGTTCCACTGCACCACTTGAGAAGTAAGATTCGCTGTTGT
1 AAGATTCGCAGTTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGGAAGTAAGATTCGCTGTTGT
*
9586356 AGCTTTAATCTTTTTAACTGCAATGTCGGGGAACC
66 AGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
* * * * *
9586391 AAGGTTCGCCA-TTGTGGCTTTAATCTGTTCCACTGCACTGCCAGGGAAATAAGATTCGTTGTTG
1 AAGATTCG-CAGTTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGGAAGTAAGATTCGCTGTTG
* *
9586455 TATCTTTAATCTTTTTAACTGCAATGTCGGGAAAGC
65 TAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
* * * * * ** * * *
9586491 AAGATTCACCGATGTGACTTTAATCTGTTCCACTCCGTCGCCTGGGGAGTAAGATTTGTTGTTGT
1 AAGATTCGCAGTTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGGAAGTAAGATTCGCTGTTGT
* *
9586556 AGCTTTAATCTTTTTAATTGCAATGTCGGGGAAGT
66 AGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
* * * *
9586591 AAGATTCAACA-ATGTGGCTTTAATCTGTTCCACTGCACCGCCTGGGGAGTAAGATTTGCTGTTG
1 AAGATTC-GCAGTTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGGAAGTAAGATTCGCTGTTG
9586655 TAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
65 TAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
* * * * * *
9586691 AAGATTCACCGATGTGGCTTTAATCTGTTCCACAGCATCACCTGGGAA
1 AAGATTCGCAGTTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGGAA
9586739 TTAAAATTGG
Statistics
Matches: 482, Mismatches: 60, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
99 4 0.01
100 475 0.99
101 3 0.01
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (100 bp):
AAGATTCGCAGTTGTGGCTTTAATCTGTTCCACTGCACCGCCTGGGAAGTAAGATTCGCTGTTGT
AGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGC
Found at i:9586676 original size:50 final size:50
Alignment explanation
Indices: 9586133--9586716 Score: 368
Period size: 50 Copynumber: 11.7 Consensus size: 50
9586123 CTACACCGCT
* * * *
9586133 TGGGAAGTAAGATTCGCTATTGTAGGTTTAATCTTTTTAACTACAATGTC
1 TGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGCC
* * * * * ** ** *
9586183 AGGGAAGCAAGATTCG-TCGTTGTGGCGTTAATCTGTTCCACTGCACCGCT
1 TGGGAAGTAAGATTCGCT-GTTGTAGCTTTAATCTTTTTAACTGCAATGCC
* * *
9586233 TGAGAAGTAAGATTTGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTC
1 TGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGCC
* * * * * * ** *** *
9586283 GGGGAAGAAAGATTCGCCGTTGTGGCGTTAATCTGTTCCACTGCACCACT
1 TGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGCC
* *
9586333 TGAGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTC
1 TGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGCC
* ** * ** * * ** *
9586383 GGGGAACCAAGGTTCGCCATTGTGGCTTTAATCTGTTCCACTGCACTGCC
1 TGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGCC
* * * * *
9586433 AGGGAAATAAGATTCGTTGTTGTATCTTTAATCTTTTTAACTGCAATGTC
1 TGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGCC
* * * * * ** **
9586483 -GGGAAAGCAAGATTCACCGATGT-GACTTTAATCTGTTCCACT-CCGTCGCC
1 TGGG-AAGTAAGATTCGCTGTTGTAG-CTTTAATCTTTTTAACTGCAAT-GCC
* * * * *
9586533 TGGGGAGTAAGATTTGTTGTTGTAGCTTTAATCTTTTTAATTGCAATGTC
1 TGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGCC
* * ** * * ** **
9586583 GGGGAAGTAAGATTCAAC-AATGTGGCTTTAATCTGTTCCACTGCACCGCC
1 TGGGAAGTAAGATTC-GCTGTTGTAGCTTTAATCTTTTTAACTGCAATGCC
* * *
9586633 TGGGGAGTAAGATTTGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTC
1 TGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGCC
* * * * * *
9586683 GGGGAAGCAAGATTCACCGATGTGGCTTTAATCT
1 TGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCT
9586717 GTTCCACAGC
Statistics
Matches: 378, Mismatches: 146, Indels: 20
0.69 0.27 0.04
Matches are distributed among these distances:
49 7 0.02
50 364 0.96
51 7 0.02
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (50 bp):
TGGGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGCC
Found at i:9588036 original size:7 final size:7
Alignment explanation
Indices: 9588017--9588066 Score: 50
Period size: 7 Copynumber: 7.0 Consensus size: 7
9588007 TTAGCCTCTC
9588017 CATTTTT
1 CATTTTT
9588024 -ACTTTTT
1 CA-TTTTT
9588031 CATTTTT
1 CATTTTT
*
9588038 TA-TTTT
1 CATTTTT
9588044 CATTTTTT
1 CA-TTTTT
9588052 CATTTTT
1 CATTTTT
9588059 CATATTTT
1 CAT-TTTT
9588067 TTTTCTGACT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
6 6 0.17
7 19 0.53
8 11 0.31
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (7 bp):
CATTTTT
Found at i:9588039 original size:15 final size:15
Alignment explanation
Indices: 9588019--9588067 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
9588009 AGCCTCTCCA
9588019 TTTTTACTTTTTCAT
1 TTTTTACTTTTTCAT
9588034 TTTTTA--TTTTCAT
1 TTTTTACTTTTTCAT
9588047 TTTTT-CATTTTTCAT
1 TTTTTAC-TTTTTCAT
9588062 ATTTTT
1 -TTTTT
9588068 TTTCTGACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
13 12 0.40
15 13 0.43
16 5 0.17
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTACTTTTTCAT
Found at i:9588042 original size:21 final size:22
Alignment explanation
Indices: 9588018--9588067 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
9588008 TAGCCTCTCC
9588018 ATTTTTACTTTTTCATTTTT-T
1 ATTTTTACTTTTTCATTTTTAT
* *
9588039 ATTTTCATTTTTTCATTTTTCAT
1 ATTTTTACTTTTTCATTTTT-AT
9588062 ATTTTT
1 ATTTTT
9588068 TTTCTGACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 18 0.75
23 6 0.25
ACGTcount: A:0.16, C:0.10, G:0.00, T:0.74
Consensus pattern (22 bp):
ATTTTTACTTTTTCATTTTTAT
Found at i:9588043 original size:13 final size:13
Alignment explanation
Indices: 9588027--9588071 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
9588017 CATTTTTACT
9588027 TTTTCATTTTTTA
1 TTTTCATTTTTTA
9588040 TTTTCATTTTTTCA
1 TTTTCATTTTTT-A
*
9588054 TTTTTCATATTTT-
1 -TTTTCATTTTTTA
9588067 TTTTC
1 TTTTC
9588072 TGACTTAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 5 0.17
13 12 0.41
14 1 0.03
15 11 0.38
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTCATTTTTTA
Found at i:9588050 original size:28 final size:27
Alignment explanation
Indices: 9588017--9588071 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
9588007 TTAGCCTCTC
* *
9588017 CATTTTTAC-TTTTTCATTTTTTATTTT
1 CATTTTTTCATTTTTCATATTTT-TTTT
9588044 CATTTTTTCATTTTTCATATTTTTTTT
1 CATTTTTTCATTTTTCATATTTTTTTT
9588071 C
1 C
9588072 TGACTTAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 13 0.52
28 12 0.48
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.73
Consensus pattern (27 bp):
CATTTTTTCATTTTTCATATTTTTTTT
Found at i:9591176 original size:109 final size:109
Alignment explanation
Indices: 9590994--9591386 Score: 520
Period size: 109 Copynumber: 3.6 Consensus size: 109
9590984 TGATACAAAA
* * * * * *
9590994 CGTAGTGACGGCTGAGATCCAGCATATGTTGTAGATTCTCTACAAG-TTGTATGAGCAGCATCAT
1 CGTAGCGATGGCTGAGATCCTGCATATGTTGCAGATTCTCTAC-AGCTTGTGTGAGCAGCATCGT
* * *
9591058 GAGATGGTGATTATTTAGCAGGTACTATGTACCGATGATATAGGC
65 GAGACGGTGATTATTTAGCAGGTACTATGTACCGGTGATATAGAC
* * *
9591103 CGTAGCAATGGCTGAGATCCTGCATATATTGCGGATTCTCTACAGCTTGTGTGAGCAGCATCGTG
1 CGTAGCGATGGCTGAGATCCTGCATATGTTGCAGATTCTCTACAGCTTGTGTGAGCAGCATCGTG
*
9591168 AGACGGTGATTATTTAGCAGGTACTATGTACAGGTGATATAGAC
66 AGACGGTGATTATTTAGCAGGTACTATGTACCGGTGATATAGAC
* ** * * * * * *
9591212 TGTATTGATGGTTGAGATCTTGTATATGTTGCGGGTTCTCTACAGCTTGTGTAAGCAGCATCGTG
1 CGTAGCGATGGCTGAGATCCTGCATATGTTGCAGATTCTCTACAGCTTGTGTGAGCAGCATCGTG
* * *
9591277 AGACAGTGATTATTTAGTAGGTACTATGTA-CGGTGATACAGAC
66 AGACGGTGATTATTTAGCAGGTACTATGTACCGGTGATATAGAC
* *
9591320 CGTAGCGATGGCTGAGATACTGCATATGTTGCAGATTCTCTGCAGCTTGTGTGAGCAGCATCGTG
1 CGTAGCGATGGCTGAGATCCTGCATATGTTGCAGATTCTCTACAGCTTGTGTGAGCAGCATCGTG
9591385 AG
66 AG
9591387 CTGGTCAAAA
Statistics
Matches: 245, Mismatches: 38, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
108 69 0.28
109 176 0.72
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (109 bp):
CGTAGCGATGGCTGAGATCCTGCATATGTTGCAGATTCTCTACAGCTTGTGTGAGCAGCATCGTG
AGACGGTGATTATTTAGCAGGTACTATGTACCGGTGATATAGAC
Found at i:9592901 original size:22 final size:20
Alignment explanation
Indices: 9592834--9592910 Score: 91
Period size: 20 Copynumber: 3.7 Consensus size: 20
9592824 TGGGGGGTAT
*
9592834 ACACGCCCATGTGAATGAGGC
1 ACACGCCCGTGTGAA-GAGGC
* *
9592855 ACACGCCCGTGCGAAGAAGC
1 ACACGCCCGTGTGAAGAGGC
9592875 ACACGCCCGTGTGAAAGGAGGC
1 ACACGCCCGTGTG-AA-GAGGC
*
9592897 ACACGGCCGTGTGA
1 ACACGCCCGTGTGA
9592911 CTCTGACACA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
20 16 0.33
21 16 0.33
22 16 0.33
ACGTcount: A:0.27, C:0.30, G:0.32, T:0.10
Consensus pattern (20 bp):
ACACGCCCGTGTGAAGAGGC
Found at i:9612427 original size:24 final size:24
Alignment explanation
Indices: 9612397--9612458 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
9612387 AGTAGAAGAC
9612397 GCTCCAAAAGCTGGAGTGCTAGAT
1 GCTCCAAAAGCTGGAGTGCTAGAT
* * *
9612421 G-TGCCAAAAGCAGGTGTGCTTGAT
1 GCT-CCAAAAGCTGGAGTGCTAGAT
*
9612445 GCTCCAAATGCTGG
1 GCTCCAAAAGCTGG
9612459 GGCATTAGAC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
23 1 0.03
24 29 0.94
25 1 0.03
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.23
Consensus pattern (24 bp):
GCTCCAAAAGCTGGAGTGCTAGAT
Found at i:9612543 original size:24 final size:24
Alignment explanation
Indices: 9612513--9612715 Score: 266
Period size: 24 Copynumber: 8.5 Consensus size: 24
9612503 TTCCAGTTGA
* *
9612513 ACCAAAGGCAGGGCTGCTTGTGGA
1 ACCAAAGGCAGGGGTGCTTGTGGC
* * *
9612537 ACCAAAGGCTGGGGTACTAGTGGC
1 ACCAAAGGCAGGGGTGCTTGTGGC
9612561 ACCGAAA-GCAGGGGTGCTTGTGGC
1 ACC-AAAGGCAGGGGTGCTTGTGGC
9612585 ACCGAAA-GCAGGGGTGCTTGTGGC
1 ACC-AAAGGCAGGGGTGCTTGTGGC
* * *
9612609 ACCGAAGGCAGGGGTACTGGTGGC
1 ACCAAAGGCAGGGGTGCTTGTGGC
*
9612633 ACCGAAGGCAGGGGTGCTTGTGGC
1 ACCAAAGGCAGGGGTGCTTGTGGC
9612657 ACCAAAGGCAGGGGTGCTTGTGGC
1 ACCAAAGGCAGGGGTGCTTGTGGC
* *
9612681 ACCAAACGCAGCGGTGCTTGTGGC
1 ACCAAAGGCAGGGGTGCTTGTGGC
*
9612705 ACCAAATGCAG
1 ACCAAAGGCAG
9612716 ACTGTGTTGA
Statistics
Matches: 160, Mismatches: 17, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
23 2 0.01
24 155 0.97
25 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.39, T:0.16
Consensus pattern (24 bp):
ACCAAAGGCAGGGGTGCTTGTGGC
Found at i:9619548 original size:91 final size:92
Alignment explanation
Indices: 9619427--9619639 Score: 229
Period size: 91 Copynumber: 2.3 Consensus size: 92
9619417 ATGGTTGAAG
* * * * * *
9619427 GATGCCAT-GGTGTCTTTCAACCATGGTCTTAATCA-TACCCGACTTGATT-CGATAGTTTCTTT
1 GATGCCATAGCTGTCTTTCAGCTATGGTCTTAATCATTACCCGACGTG-TTGCCATAGTGTCTTT
*
9619489 CAACCATGGTCTTATTCATTTTACGTCGT
65 CAACCATGGTCTTATTCATTTGA-GTCGT
* * * ** *
9619518 GTTGCCATA-CTGTCTTTCAGCTATGGTCTTATTTATTTTCCGTCGTGTTGCCATAGTGTCTTTC
1 GATGCCATAGCTGTCTTTCAGCTATGGTCTTAATCATTACCCGACGTGTTGCCATAGTGTCTTTC
* *
9619582 AACTATGGTCTTATTCGTTTGAGTCGT
66 AACCATGGTCTTATTCATTTGAGTCGT
*
9619609 GATGCCGTAGC-GTCTTTCAGCTATGGTCTTA
1 GATGCCATAGCTGTCTTTCAGCTATGGTCTTA
9619640 TTTGATAGAA
Statistics
Matches: 101, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
91 62 0.61
92 39 0.39
ACGTcount: A:0.17, C:0.22, G:0.19, T:0.42
Consensus pattern (92 bp):
GATGCCATAGCTGTCTTTCAGCTATGGTCTTAATCATTACCCGACGTGTTGCCATAGTGTCTTTC
AACCATGGTCTTATTCATTTGAGTCGT
Found at i:9619556 original size:46 final size:46
Alignment explanation
Indices: 9619484--9619641 Score: 203
Period size: 46 Copynumber: 3.5 Consensus size: 46
9619474 TTCGATAGTT
*
9619484 TCTTTCAACCATGGTCTTATTCATTTTACGTCGTGTTGCCATACTG
1 TCTTTCAACTATGGTCTTATTCATTTTACGTCGTGTTGCCATACTG
* * * *
9619530 TCTTTCAGCTATGGTCTTATTTATTTTCCGTCGTGTTGCCATAGTG
1 TCTTTCAACTATGGTCTTATTCATTTTACGTCGTGTTGCCATACTG
* * * *
9619576 TCTTTCAACTATGGTCTTATTCGTTTGA-GTCGTGATGCCGTAGC-G
1 TCTTTCAACTATGGTCTTATTCATTTTACGTCGTGTTGCCATA-CTG
*
9619621 TCTTTCAGCTATGGTCTTATT
1 TCTTTCAACTATGGTCTTATT
9619642 TGATAGAATC
Statistics
Matches: 97, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
45 33 0.34
46 64 0.66
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.45
Consensus pattern (46 bp):
TCTTTCAACTATGGTCTTATTCATTTTACGTCGTGTTGCCATACTG
Found at i:9619625 original size:45 final size:45
Alignment explanation
Indices: 9619484--9619684 Score: 170
Period size: 45 Copynumber: 4.4 Consensus size: 45
9619474 TTCGATAGTT
* * * *
9619484 TCTTTCAACCATGGTCTTATTCATTTTACGTCGTGTTGCCATA-CTG
1 TCTTTCAACTATGGTCTTATTCGTTTGA-GTCGTGATGCCATAGC-G
* ** ** * *
9619530 TCTTTCAGCTATGGTCTTATTTATTTTCCGTCGTGTTGCCATAGTG
1 TCTTTCAACTATGGTCTTA-TTCGTTTGAGTCGTGATGCCATAGCG
*
9619576 TCTTTCAACTATGGTCTTATTCGTTTGAGTCGTGATGCCGTAGCG
1 TCTTTCAACTATGGTCTTATTCGTTTGAGTCGTGATGCCATAGCG
* * * * * * * *
9619621 TCTTTCAGCTATGGTCTTATTTGATAGAATCGTGATGCCACAACA
1 TCTTTCAACTATGGTCTTATTCGTTTGAGTCGTGATGCCATAGCG
* *
9619666 TCTTTCAGCTATTGTCTTA
1 TCTTTCAACTATGGTCTTA
9619685 CTCGCTTCTA
Statistics
Matches: 128, Mismatches: 25, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
45 73 0.57
46 50 0.39
47 5 0.04
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.43
Consensus pattern (45 bp):
TCTTTCAACTATGGTCTTATTCGTTTGAGTCGTGATGCCATAGCG
Found at i:9632555 original size:16 final size:17
Alignment explanation
Indices: 9632490--9632633 Score: 62
Period size: 17 Copynumber: 7.7 Consensus size: 17
9632480 TTAAATGTTA
9632490 TGTGATTATATGAGTAT
1 TGTGATTATATGAGTAT
9632507 TGTGA-TATAGCTTGAATGT-T
1 TGTGATTATA---TG-A-GTAT
9632527 ATGTGATTATATGAGTAT
1 -TGTGATTATATGAGTAT
*
9632545 TGTGATATATGCTTGAATGT-T
1 TGTGAT-TAT--ATG-A-GTAT
9632566 ATGTGATTATATGAGTAT
1 -TGTGATTATATGAGTAT
* * *
9632584 AGTGATATATGCTTGAGCATT
1 TGTGAT-TAT--ATGAGTA-T
9632605 ATGTGATTATATGAGTAT
1 -TGTGATTATATGAGTAT
*
9632623 TATGA-TATATG
1 TGTGATTATATG
9632634 CTTAAATGTT
Statistics
Matches: 98, Mismatches: 9, Indels: 41
0.66 0.06 0.28
Matches are distributed among these distances:
16 10 0.10
17 24 0.24
18 11 0.11
19 11 0.11
20 9 0.09
21 16 0.16
22 17 0.17
ACGTcount: A:0.30, C:0.03, G:0.23, T:0.44
Consensus pattern (17 bp):
TGTGATTATATGAGTAT
Found at i:9632570 original size:39 final size:39
Alignment explanation
Indices: 9632461--9632675 Score: 333
Period size: 39 Copynumber: 5.5 Consensus size: 39
9632451 AACATGTTTT
* *
9632461 TGAGTATTGTGGTATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
9632500 TGAGTATTGTGATATA-GCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
9632538 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* ***
9632577 TGAGTATAGTGATATATGCTTGAGCATTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* *
9632616 TGAGTATTATGATATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* *
9632655 TGTGTAATGTGATATATGCTT
1 TGAGTATTGTGATATATGCTT
9632676 AAAAGTGAAT
Statistics
Matches: 160, Mismatches: 15, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
38 37 0.23
39 123 0.77
ACGTcount: A:0.29, C:0.03, G:0.22, T:0.45
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
Found at i:9642570 original size:15 final size:16
Alignment explanation
Indices: 9642550--9642584 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
9642540 AGATAAATAC
*
9642550 AAATACTTAA-AAAAT
1 AAATACTTAAGAAAAG
9642565 AAATACTTAAGAAAAG
1 AAATACTTAAGAAAAG
9642581 AAAT
1 AAAT
9642585 TTCCCCCCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.66, C:0.06, G:0.06, T:0.23
Consensus pattern (16 bp):
AAATACTTAAGAAAAG
Found at i:9642831 original size:19 final size:18
Alignment explanation
Indices: 9642802--9642850 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
9642792 ATTGAACATA
9642802 AAAATAAAAAT-AAAATTG
1 AAAATAAAAATGAAAA-TG
*
9642820 GAAATAAAAAATGAAAATG
1 AAAAT-AAAAATGAAAATG
9642839 AAAATGAAAAAT
1 AAAAT-AAAAAT
9642851 TTCTTTTGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 4 0.15
19 18 0.69
20 4 0.15
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.18
Consensus pattern (18 bp):
AAAATAAAAATGAAAATG
Found at i:9646170 original size:11 final size:11
Alignment explanation
Indices: 9646154--9646179 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9646144 ATTATAAATT
9646154 AAATAAAAACC
1 AAATAAAAACC
9646165 AAATAAAAACC
1 AAATAAAAACC
9646176 AAAT
1 AAAT
9646180 TACAAAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.73, C:0.15, G:0.00, T:0.12
Consensus pattern (11 bp):
AAATAAAAACC
Found at i:9652731 original size:22 final size:22
Alignment explanation
Indices: 9652705--9652748 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
9652695 AAAAACCCAA
9652705 AAACA-AAGAACTCTCAAAATGT
1 AAACACAA-AACTCTCAAAATGT
* *
9652727 AAACACAAAATTCTCTAAATGT
1 AAACACAAAACTCTCAAAATGT
9652749 GTTATGAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.52, C:0.18, G:0.07, T:0.23
Consensus pattern (22 bp):
AAACACAAAACTCTCAAAATGT
Found at i:9653212 original size:41 final size:41
Alignment explanation
Indices: 9653134--9653222 Score: 106
Period size: 41 Copynumber: 2.2 Consensus size: 41
9653124 GCCTACACGA
** * *
9653134 CCGTGTGAAGGAGGGACATGCCGTGTCACAGATGCACACAT
1 CCGTGTGAAGGAGGGACACACCCTGTCACAGAGGCACACAT
* * * *
9653175 TCGTGTGAAGGAGGGACACACCCTGTGATAGAGGCACACGT
1 CCGTGTGAAGGAGGGACACACCCTGTCACAGAGGCACACAT
9653216 CCGTGTG
1 CCGTGTG
9653223 GCTAAGACAT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.25, C:0.24, G:0.34, T:0.18
Consensus pattern (41 bp):
CCGTGTGAAGGAGGGACACACCCTGTCACAGAGGCACACAT
Found at i:9655296 original size:19 final size:18
Alignment explanation
Indices: 9655274--9655316 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
9655264 ACCCGACCTA
9655274 AAAGTTACGATTGGACC-CC
1 AAAGTTAC-ATTGG-CCACC
9655293 AAAGGTTACATTGGCCACC
1 AAA-GTTACATTGGCCACC
9655312 AAAGT
1 AAAGT
9655317 GACCTGGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 4 0.18
19 13 0.59
20 5 0.23
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (18 bp):
AAAGTTACATTGGCCACC
Found at i:9655926 original size:21 final size:21
Alignment explanation
Indices: 9655910--9655980 Score: 90
Period size: 21 Copynumber: 3.4 Consensus size: 21
9655900 CGACACGCAT
9655910 GTGTGAAAGAGGCACACGACC
1 GTGTGAAAGAGGCACACGACC
9655931 GTGTGAAAGAGGCACACGACC
1 GTGTGAAAGAGGCACACGACC
* ** *
9655952 ATGTGATTGAAGCACAC-ATCC
1 GTGTGAAAGAGGCACACGA-CC
9655973 GTGTGAAA
1 GTGTGAAA
9655981 AATGTCATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 1 0.02
21 41 0.98
ACGTcount: A:0.34, C:0.21, G:0.30, T:0.15
Consensus pattern (21 bp):
GTGTGAAAGAGGCACACGACC
Found at i:9668697 original size:15 final size:15
Alignment explanation
Indices: 9668677--9668705 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9668667 CGAAAAATAA
9668677 AGAGAATTTATTCTT
1 AGAGAATTTATTCTT
9668692 AGAGAATTTATTCT
1 AGAGAATTTATTCT
9668706 ATCGAAAAAT
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:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (15 bp):
AGAGAATTTATTCTT
Found at i:9668745 original size:104 final size:104
Alignment explanation
Indices: 9668610--9668798 Score: 360
Period size: 104 Copynumber: 1.8 Consensus size: 104
9668600 TTCTCTTCTT
*
9668610 ATAAATAGATGGCATCGGAAGGGCATAAAACACAACTTTGAGAGATTGTTACTCTGTCGAAAAAT
1 ATAAATAGATGGCATCGGAAGGGCATAAAACACAACTTTGAGAGATTGTTACTCTGTCAAAAAAT
9668675 AAAGAGAATTTATTCTTAGAGAATTTATTCTATCGAAAA
66 AAAGAGAATTTATTCTTAGAGAATTTATTCTATCGAAAA
*
9668714 ATAAATAGATGGCATTGGAAGGGCATAAAACACAACTTTGAGAGATTGTTACTCTGTCAAAAAAT
1 ATAAATAGATGGCATCGGAAGGGCATAAAACACAACTTTGAGAGATTGTTACTCTGTCAAAAAAT
9668779 AAAGAGAATTTATTCTTAGA
66 AAAGAGAATTTATTCTTAGA
9668799 TATTAAATAT
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
104 83 1.00
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.29
Consensus pattern (104 bp):
ATAAATAGATGGCATCGGAAGGGCATAAAACACAACTTTGAGAGATTGTTACTCTGTCAAAAAAT
AAAGAGAATTTATTCTTAGAGAATTTATTCTATCGAAAA
Found at i:9677054 original size:45 final size:46
Alignment explanation
Indices: 9676968--9677055 Score: 106
Period size: 45 Copynumber: 1.9 Consensus size: 46
9676958 TAAATGAATA
* * *
9676968 GAAATAGAGAAATGGAAAACATTTAGAAATTATTATGGTTTTCTCT
1 GAAATAGAGAAATGGAAAACATTTAGAAATGAATATAGTTTTCTCT
* * * *
9677014 GAAATGGAGAAATGG-AATCATTTGGAAATGAATGTAGTTTTC
1 GAAATAGAGAAATGGAAAACATTTAGAAATGAATATAGTTTTC
9677056 CCAAAATGGA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
45 21 0.60
46 14 0.40
ACGTcount: A:0.40, C:0.06, G:0.22, T:0.33
Consensus pattern (46 bp):
GAAATAGAGAAATGGAAAACATTTAGAAATGAATATAGTTTTCTCT
Found at i:9677070 original size:6 final size:6
Alignment explanation
Indices: 9677059--9677100 Score: 66
Period size: 6 Copynumber: 6.8 Consensus size: 6
9677049 AGTTTTCCCA
*
9677059 AAATGG AAATGG AAATGG AAATGG AAATGA AAATGAG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATG-G AAATG
9677101 ATTCGTTTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
6 28 0.85
7 5 0.15
ACGTcount: A:0.55, C:0.00, G:0.29, T:0.17
Consensus pattern (6 bp):
AAATGG
Done.