Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 201 of 210
Found at i:66987392 original size:14 final size:14
Alignment explanation
Indices: 66987373--66987437 Score: 58
Period size: 14 Copynumber: 4.4 Consensus size: 14
66987363 AAACAACCAA
66987373 AAAGAAAAAAAAAG
1 AAAGAAAAAAAAAG
* *
66987387 AAAGAAACAACAAG
1 AAAGAAAAAAAAAG
66987401 CAAAAGAGAAAAAAAGAG
1 --AAAGA-AAAAAAA-AG
* *
66987419 AAAGAGAAAAGAAG
1 AAAGAAAAAAAAAG
66987433 AAAGA
1 AAAGA
66987438 TGGGGGAAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
14 19 0.46
15 5 0.12
16 10 0.24
17 5 0.12
18 2 0.05
ACGTcount: A:0.75, C:0.05, G:0.20, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAAAAAG
Found at i:66987405 original size:31 final size:32
Alignment explanation
Indices: 66987364--66987423 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
66987354 CAACTAGCAA
66987364 AACAACCAAAA-AGAAAAAAAAAGAAAGAAAC
1 AACAACCAAAAGAGAAAAAAAAAGAAAGAAAC
* *
66987395 AACAAGCAAAAGAGAAAAAAAGAGAAAGA
1 AACAACCAAAAGAGAAAAAAAAAGAAAGA
66987424 GAAAAGAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 10 0.38
32 16 0.62
ACGTcount: A:0.75, C:0.10, G:0.15, T:0.00
Consensus pattern (32 bp):
AACAACCAAAAGAGAAAAAAAAAGAAAGAAAC
Found at i:66987422 original size:16 final size:16
Alignment explanation
Indices: 66987375--66987433 Score: 59
Period size: 16 Copynumber: 3.7 Consensus size: 16
66987365 ACAACCAAAA
*
66987375 AGAAAAAAAAAGAAAG
1 AGAAAAAAAGAGAAAG
*
66987391 A-AACAACAAGCA-AAAG
1 AGAA-AAAAAG-AGAAAG
66987407 AGAAAAAAAGAGAAAG
1 AGAAAAAAAGAGAAAG
*
66987423 AGAAAAGAAGA
1 AGAAAAAAAGA
66987434 AAGATGGGGG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 3 0.09
16 29 0.83
17 3 0.09
ACGTcount: A:0.75, C:0.05, G:0.20, T:0.00
Consensus pattern (16 bp):
AGAAAAAAAGAGAAAG
Found at i:66987546 original size:4 final size:4
Alignment explanation
Indices: 66987537--66987609 Score: 69
Period size: 4 Copynumber: 17.8 Consensus size: 4
66987527 GGCTGATCGG
*
66987537 GAAA GAAA GAAA AAAGA GAAA GAAAA GAGAA GAAA GAAA GAGAA -AAA
1 GAAA GAAA GAAA GAA-A GAAA G-AAA GA-AA GAAA GAAA GA-AA GAAA
* *
66987584 GAAA AAAA GAAA GAAA -ACA GAAA GAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAA
66987610 GAAGGAAGAA
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
3 4 0.07
4 40 0.70
5 13 0.23
ACGTcount: A:0.75, C:0.01, G:0.23, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:66987558 original size:13 final size:13
Alignment explanation
Indices: 66987540--66987600 Score: 72
Period size: 13 Copynumber: 4.8 Consensus size: 13
66987530 TGATCGGGAA
66987540 AGAAAGAAAAAAG
1 AGAAAGAAAAAAG
*
66987553 AGAAAGAAAAGAG
1 AGAAAGAAAAAAG
*
66987566 AAGAAAG-AAAGAG
1 -AGAAAGAAAAAAG
*
66987579 AAAAAGAAAAAA-
1 AGAAAGAAAAAAG
66987591 AGAAAGAAAA
1 AGAAAGAAAA
66987601 CAGAAAGAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
12 14 0.33
13 22 0.52
14 6 0.14
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AGAAAGAAAAAAG
Found at i:66987562 original size:11 final size:11
Alignment explanation
Indices: 66987548--66987621 Score: 58
Period size: 11 Copynumber: 7.4 Consensus size: 11
66987538 AAAGAAAGAA
66987548 AAAAGAGAAAG
1 AAAAGAGAAAG
66987559 AAAAGAG-AAG
1 AAAAGAGAAAG
66987569 -AAAGA-AAGAG
1 AAAAGAGAA-AG
66987579 AAAA-AG-AA-
1 AAAAGAGAAAG
66987587 AAAA-AGAAAG
1 AAAAGAGAAAG
*
66987597 AAAACAGAAAG
1 AAAAGAGAAAG
66987608 AAGAAG-G-AAG
1 AA-AAGAGAAAG
66987618 AAAA
1 AAAA
66987622 AAAGGGAGAT
Statistics
Matches: 54, Mismatches: 1, Indels: 18
0.74 0.01 0.25
Matches are distributed among these distances:
8 6 0.11
9 11 0.20
10 16 0.30
11 19 0.35
12 2 0.04
ACGTcount: A:0.74, C:0.01, G:0.24, T:0.00
Consensus pattern (11 bp):
AAAAGAGAAAG
Found at i:66987572 original size:31 final size:30
Alignment explanation
Indices: 66987537--66987625 Score: 96
Period size: 29 Copynumber: 3.0 Consensus size: 30
66987527 GGCTGATCGG
66987537 GAAAGAAAGAAAAAAGAGAAAGAAAAGAGAA
1 GAAAGAAAGAAAAAAGAGAAAGAAAAGA-AA
*
66987568 GAAAGAAAGAGAAAA-AGAAA-AAAAGAAA
1 GAAAGAAAGAAAAAAGAGAAAGAAAAGAAA
* * *
66987596 GAAA-ACAGAAAGAAGAAGGAAGAAAA-AAA
1 GAAAGAAAGAAAAAAG-AGAAAGAAAAGAAA
66987625 G
1 G
66987626 GGAGATAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
27 7 0.14
28 6 0.12
29 14 0.28
30 9 0.18
31 14 0.28
ACGTcount: A:0.74, C:0.01, G:0.25, T:0.00
Consensus pattern (30 bp):
GAAAGAAAGAAAAAAGAGAAAGAAAAGAAA
Found at i:66987597 original size:38 final size:40
Alignment explanation
Indices: 66987542--66987622 Score: 114
Period size: 39 Copynumber: 2.1 Consensus size: 40
66987532 ATCGGGAAAG
*
66987542 AAAGAAAAAAGAGAAAGAAAAGAG-AAGAAAGAAAG-AGAA
1 AAAGAAAAAAGAGAAAGAAAACAGAAAG-AAGAAAGAAGAA
*
66987581 AAAGAAAAAA-AGAAAGAAAACAGAAAGAAGAAGGAAGAA
1 AAAGAAAAAAGAGAAAGAAAACAGAAAGAAGAAAGAAGAA
66987620 AAA
1 AAA
66987623 AAGGGAGATA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
38 18 0.47
39 20 0.53
ACGTcount: A:0.75, C:0.01, G:0.23, T:0.00
Consensus pattern (40 bp):
AAAGAAAAAAGAGAAAGAAAACAGAAAGAAGAAAGAAGAA
Found at i:66988081 original size:23 final size:24
Alignment explanation
Indices: 66988037--66988083 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
66988027 TTTTAAGTAT
*
66988037 TTTTATTTTGTATTTATGTTTTTA
1 TTTTATTTTATATTTATGTTTTTA
*
66988061 TTTTATTTTAT-TTTATTTTTTTA
1 TTTTATTTTATATTTATGTTTTTA
66988084 AATTCGAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (24 bp):
TTTTATTTTATATTTATGTTTTTA
Found at i:66988083 original size:18 final size:19
Alignment explanation
Indices: 66988036--66988071 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
66988026 TTTTTAAGTA
*
66988036 TTTTTATTTTGTATTTATG
1 TTTTTATTTTATATTTATG
66988055 TTTTTATTTTAT-TTTAT
1 TTTTTATTTTATATTTAT
66988072 TTTATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.78
Consensus pattern (19 bp):
TTTTTATTTTATATTTATG
Found at i:66988525 original size:39 final size:38
Alignment explanation
Indices: 66988415--66988585 Score: 154
Period size: 39 Copynumber: 4.4 Consensus size: 38
66988405 CCGTGTTTTC
* * *
66988415 AAAAATTCCCGTATTTC-AAAATTTTCTTGTTTTCAAAGA
1 AAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTT-AAA-A
* * *
66988454 AAATGATT-TCCGTGTTTCATAAATTTTTGTGTTTTAAAAA
1 AAA-AATTCT-CGTGTTTCAAAAATTTTCGTGTTTT-AAAA
* *
66988494 AAAAATTCTCGTCTTTCAAAAATTTTCGTGTTTT-CAA
1 AAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTTAAAA
* *
66988531 AAAAATTGAC-CGTGTTTCATAAATTTTCGTG-TTTCAAA
1 AAAAATT--CTCGTGTTTCAAAAATTTTCGTGTTTTAAAA
66988569 AAAAATTCTCGTGTTTC
1 AAAAATTCTCGTGTTTC
66988586 GTTTTTATCA
Statistics
Matches: 109, Mismatches: 15, Indels: 18
0.77 0.11 0.13
Matches are distributed among these distances:
36 1 0.01
37 20 0.18
38 28 0.26
39 29 0.27
40 15 0.14
41 16 0.15
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (38 bp):
AAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTTAAAA
Found at i:66988534 original size:20 final size:20
Alignment explanation
Indices: 66988376--66988712 Score: 103
Period size: 20 Copynumber: 17.2 Consensus size: 20
66988366 ATCGTGTTTC
66988376 AAAAATTTTCGTGTTTTCAAA
1 AAAAATTTTCGTGTTTTC-AA
**
66988397 AAAAATTCCCGTGTTTTC--
1 AAAAATTTTCGTGTTTTCAA
** *
66988415 AAAAATTCCCGT-ATTTC--
1 AAAAATTTTCGTGTTTTCAA
*
66988432 -AAAATTTTCTTGTTTTCAA
1 AAAAATTTTCGTGTTTTCAA
66988451 AGAAAATGATTTCCGTG-TTTC--
1 A-AAAAT--TTT-CGTGTTTTCAA
* * *
66988472 ATAAATTTTTGTGTTTTAAAAA
1 AAAAATTTTCGTGTTTT--CAA
* *
66988494 AAAAATTCTCGT-CTTTC--
1 AAAAATTTTCGTGTTTTCAA
66988511 AAAAATTTTCGTGTTTTCAA
1 AAAAATTTTCGTGTTTTCAA
**
66988531 AAAAATTGACCGTG-TTTC--
1 AAAAATT-TTCGTGTTTTCAA
*
66988549 ATAAATTTTCGTG-TTTCAAA
1 AAAAATTTTCGTGTTTTC-AA
* * *
66988569 AAAAATTCTCGTGTTTCGTTTTTAT
1 AAAAATTTTC--G--T-GTTTTCAA
* **
66988594 CAAAATTTTTATGTTTTCAAA
1 AAAAATTTTCGTGTTTTC-AA
* *
66988615 AACAAATTTT-TTATTTT---
1 AA-AAATTTTCGTGTTTTCAA
66988632 AAAAATTTTCGTG-TTTCAA
1 AAAAATTTTCGTGTTTTCAA
**
66988651 AAAGAAAATTCGTGTTTTCAA
1 AAA-AATTTTCGTGTTTTCAA
* *
66988672 AAAAAATCTCGTG-TTTC--
1 AAAAATTTTCGTGTTTTCAA
*
66988689 -AAAATTTTCGTGTTTTTAA
1 AAAAATTTTCGTGTTTTCAA
66988708 AAAAA
1 AAAAA
66988713 AATTTGTGTT
Statistics
Matches: 233, Mismatches: 45, Indels: 77
0.66 0.13 0.22
Matches are distributed among these distances:
16 28 0.12
17 36 0.15
18 28 0.12
19 7 0.03
20 48 0.21
21 46 0.20
22 17 0.07
23 7 0.03
24 4 0.02
25 9 0.04
26 3 0.01
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (20 bp):
AAAAATTTTCGTGTTTTCAA
Found at i:66988573 original size:38 final size:37
Alignment explanation
Indices: 66988415--66988585 Score: 177
Period size: 38 Copynumber: 4.4 Consensus size: 37
66988405 CCGTGTTTTC
* *
66988415 AAAAATTCCCGTATTTCA-AAATTTTCTTGTTTTCAAA
1 AAAAATT-CCGTGTTTCATAAATTTTCGTGTTTTCAAA
* *
66988452 GAAAATGATTTCCGTGTTTCATAAATTTTTGTGTTTTAAAAA
1 -AAAA--A-TTCCGTGTTTCATAAATTTTCGTGTTTT-CAAA
* *
66988494 AAAAATTCTCGTCTTTCAAAAATTTTCGTGTTTTC-AA
1 AAAAATTC-CGTGTTTCATAAATTTTCGTGTTTTCAAA
66988531 AAAAATTGACCGTGTTTCATAAATTTTCGTG-TTTCAAA
1 AAAAATT--CCGTGTTTCATAAATTTTCGTGTTTTCAAA
66988569 AAAAATTCTCGTGTTTC
1 AAAAATTC-CGTGTTTC
66988586 GTTTTTATCA
Statistics
Matches: 113, Mismatches: 10, Indels: 21
0.78 0.07 0.15
Matches are distributed among these distances:
36 1 0.01
37 21 0.19
38 35 0.31
39 24 0.21
40 10 0.09
41 19 0.17
42 3 0.03
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (37 bp):
AAAAATTCCGTGTTTCATAAATTTTCGTGTTTTCAAA
Found at i:66988730 original size:37 final size:36
Alignment explanation
Indices: 66988659--66988765 Score: 128
Period size: 36 Copynumber: 2.9 Consensus size: 36
66988649 AAAAAGAAAA
*
66988659 TTCGTGTTTTCAAAAAAAATCTCGTGTTTCAAAATT-
1 TTCGTGTTTTAAAAAAAAAT-TCGTGTTTCAAAATTC
*
66988695 TTCGTGTTTTTAAAAAAAAATTTGTGTTTCTAAAATTC
1 TTCGTG-TTTTAAAAAAAAATTCGTGTTTC-AAAATTC
* *
66988733 TT-GTATTTAAAAAAAAAATTCGTGTTTTCAAAA
1 TTCGTGTTTTAAAAAAAAATTCGTG-TTTCAAAA
66988766 AAAAAGAAGT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
36 35 0.56
37 25 0.40
38 2 0.03
ACGTcount: A:0.37, C:0.09, G:0.10, T:0.43
Consensus pattern (36 bp):
TTCGTGTTTTAAAAAAAAATTCGTGTTTCAAAATTC
Found at i:66988750 original size:21 final size:20
Alignment explanation
Indices: 66988726--66988770 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 20
66988716 TTGTGTTTCT
*
66988726 AAAATTCTTGTATTTAAAAAA
1 AAAATTCGTGT-TTTAAAAAA
66988747 AAAATTCGTGTTTTCAAAAAA
1 AAAATTCGTGTTTT-AAAAAA
66988768 AAA
1 AAA
66988771 GAAGTTGTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 3 0.14
21 19 0.86
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (20 bp):
AAAATTCGTGTTTTAAAAAA
Found at i:66988765 original size:20 final size:20
Alignment explanation
Indices: 66988639--66988770 Score: 97
Period size: 20 Copynumber: 7.0 Consensus size: 20
66988629 TTTAAAAATT
66988639 TTCGTG-TTTCAAAAAGAAAA
1 TTCGTGTTTTCAAAAA-AAAA
66988659 TTCGTGTTTTC-AAAAAAAA
1 TTCGTGTTTTCAAAAAAAAA
**
66988678 TCTCGTG-TTTC---AAAATT
1 T-TCGTGTTTTCAAAAAAAAA
*
66988695 TTCGTGTTTTTAAAAAAAAA
1 TTCGTGTTTTCAAAAAAAAA
* *
66988715 TTTGTG-TTTC----TAAAA
1 TTCGTGTTTTCAAAAAAAAA
* *
66988730 TTCTTGTATTTAAAAAAAAAA
1 TTCGTGT-TTTCAAAAAAAAA
66988751 TTCGTGTTTTCAAAAAAAAA
1 TTCGTGTTTTCAAAAAAAAA
66988771 GAAGTTGTTG
Statistics
Matches: 86, Mismatches: 14, Indels: 24
0.69 0.11 0.19
Matches are distributed among these distances:
15 8 0.09
16 5 0.06
17 11 0.13
19 12 0.14
20 36 0.42
21 14 0.16
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (20 bp):
TTCGTGTTTTCAAAAAAAAA
Found at i:66989926 original size:132 final size:132
Alignment explanation
Indices: 66989709--66990110 Score: 750
Period size: 132 Copynumber: 3.0 Consensus size: 132
66989699 ATATAAAAAC
* *
66989709 ATAATTAAATATTTAAATTAACTTTTAATCCAGTGCGATTTTTAGTTGATAAAAACATTAACCCA
1 ATAATTAAATATTTAAATTAAATTTTAATCCAGTGCAATTTTTAGTTGATAAAAACATTAACCCA
66989774 CGTTAGACTATATGATTATATAAGTATATATATGGTAACACGTCTTAATTACAATTTTTTTTGAA
66 CGTTAGACTATATGATTATATAAGTATATATATGGTAACACGTCTTAATTACAATTTTTTTTGAA
66989839 TT
131 TT
66989841 ATAATTAAATATTTAAATTAAATTTTAATCCAGTGCAATTTTTAGTTGATAAAAACATTAACCCA
1 ATAATTAAATATTTAAATTAAATTTTAATCCAGTGCAATTTTTAGTTGATAAAAACATTAACCCA
66989906 CGTTAGACTATATGATTATATAAGTATATATATGGTAACACGTCTTAATTACAATTTTTTTTGAA
66 CGTTAGACTATATGATTATATAAGTATATATATGGTAACACGTCTTAATTACAATTTTTTTTGAA
66989971 TT
131 TT
66989973 ATAATTAAATATTTAAATTAAATTTTAATCCAGTGCAATTTTTAGTTGATAAAAACATTAACCCA
1 ATAATTAAATATTTAAATTAAATTTTAATCCAGTGCAATTTTTAGTTGATAAAAACATTAACCCA
* *
66990038 CGTTAGACTATATGGTTATATAAGTATATATATGGTAACACTTCTTAATTACAATTTTTTTTTTG
66 CGTTAGACTATATGATTATATAAGTATATATATGGTAACACGTCTTAATTACAA--TTTTTTTTG
66990103 AATT
129 AATT
66990107 ATAA
1 ATAA
66990111 CAGGAACTTG
Statistics
Matches: 264, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
132 247 0.94
134 17 0.06
ACGTcount: A:0.39, C:0.10, G:0.09, T:0.42
Consensus pattern (132 bp):
ATAATTAAATATTTAAATTAAATTTTAATCCAGTGCAATTTTTAGTTGATAAAAACATTAACCCA
CGTTAGACTATATGATTATATAAGTATATATATGGTAACACGTCTTAATTACAATTTTTTTTGAA
TT
Found at i:67015477 original size:18 final size:20
Alignment explanation
Indices: 67015447--67015483 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
67015437 TAAAGTATTT
67015447 AATTTATAGCATAA-ATAAC
1 AATTTATAGCATAATATAAC
67015466 AATTTA-AGCATAATATAA
1 AATTTATAGCATAATATAA
67015484 GGAACAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.32
Consensus pattern (20 bp):
AATTTATAGCATAATATAAC
Found at i:67033675 original size:51 final size:51
Alignment explanation
Indices: 67033541--67033692 Score: 163
Period size: 51 Copynumber: 3.0 Consensus size: 51
67033531 ACTTTTTTTT
*
67033541 ATTTATTATTTATCTCTT-ATTAATTT-AATTAATTAAAGATAAAATAATC
1 ATTTAATATTTATCTCTTAATTAATTTAAATTAATTAAAGATAAAATAATC
* * * * *
67033590 ATTTAATA-TTATCACTTAATTATTTTAATTTTAATTAATGATAATATAAAT-
1 ATTTAATATTTATCTCTTAATTAATTTAA-ATTAATTAAAGATAAAAT-AATC
* *
67033641 TTTTAATATTTATCTCTTAATTAATTTAAATTAA-TACGAGA-AAAATAATC
1 ATTTAATATTTATCTCTTAATTAATTTAAATTAATTA-AAGATAAAATAATC
67033691 AT
1 AT
67033693 AACACAGATA
Statistics
Matches: 82, Mismatches: 14, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
48 8 0.10
49 17 0.21
50 8 0.10
51 28 0.34
52 21 0.26
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (51 bp):
ATTTAATATTTATCTCTTAATTAATTTAAATTAATTAAAGATAAAATAATC
Found at i:67035309 original size:8 final size:7
Alignment explanation
Indices: 67035282--67035307 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
67035272 GATTCAATTT
67035282 AAAAATA
1 AAAAATA
67035289 AAAAATA
1 AAAAATA
67035296 AAAAATA
1 AAAAATA
67035303 AAAAA
1 AAAAA
67035308 ATTCGGGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:67035357 original size:18 final size:17
Alignment explanation
Indices: 67035329--67035365 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
67035319 TCGGGTATTT
*
67035329 TTCGGTAATTCTGTTAA
1 TTCGGTAATTCGGTTAA
67035346 TTCGGTTAATTCGGTTAA
1 TTCGG-TAATTCGGTTAA
67035364 TT
1 TT
67035366 TTTAACCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.22, C:0.11, G:0.19, T:0.49
Consensus pattern (17 bp):
TTCGGTAATTCGGTTAA
Found at i:67037077 original size:45 final size:45
Alignment explanation
Indices: 67037028--67037116 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 45
67037018 AACTCGTAGA
* *
67037028 AGAAAATTCATAGATGTGGA-GAACTCATACATGTGAATTCATAGT
1 AGAAAATTCATACATAT-GATGAACTCATACATGTGAATTCATAGT
* **
67037073 AGAAAATTCATACATATGATGGACTCATACATGTGGGTTCATAG
1 AGAAAATTCATACATATGATGAACTCATACATGTGAATTCATAG
67037117 ACATAGTGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
44 2 0.05
45 36 0.95
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.29
Consensus pattern (45 bp):
AGAAAATTCATACATATGATGAACTCATACATGTGAATTCATAGT
Found at i:67037159 original size:31 final size:31
Alignment explanation
Indices: 67037124--67037228 Score: 122
Period size: 31 Copynumber: 3.4 Consensus size: 31
67037114 TAGACATAGT
* *
67037124 GAACTTATACATACAAATTCATAGATATGAC
1 GAACTCATACATACAGATTCATAGATATGAC
* *
67037155 GAACTCATACA-AGCGGATTCATAGATATAAC
1 GAACTCATACATA-CAGATTCATAGATATGAC
* ** *
67037186 AAACTCATACATATTGATTCATAGATATGGC
1 GAACTCATACATACAGATTCATAGATATGAC
67037217 GAACTCATACAT
1 GAACTCATACAT
67037229 GTGGATTGTG
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
30 1 0.02
31 60 0.97
32 1 0.02
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.28
Consensus pattern (31 bp):
GAACTCATACATACAGATTCATAGATATGAC
Found at i:67037235 original size:62 final size:62
Alignment explanation
Indices: 67037076--67037235 Score: 185
Period size: 62 Copynumber: 2.6 Consensus size: 62
67037066 TCATAGTAGA
* * * * *** *
67037076 AAATTCATACATATGATGGACTCATACATGTGGGTTCATAGACATAGTGAACTTATACATAC
1 AAATTCATAGATATGACGAACTCATACATGTGGATTCATAGACATAACAAACTCATACATAC
* * * *
67037138 AAATTCATAGATATGACGAACTCATACAAGCGGATTCATAGATATAACAAACTCATACATAT
1 AAATTCATAGATATGACGAACTCATACATGTGGATTCATAGACATAACAAACTCATACATAC
** *
67037200 TGATTCATAGATATGGCGAACTCATACATGTGGATT
1 AAATTCATAGATATGACGAACTCATACATGTGGATT
67037236 GTGTCACGGA
Statistics
Matches: 81, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
62 81 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (62 bp):
AAATTCATAGATATGACGAACTCATACATGTGGATTCATAGACATAACAAACTCATACATAC
Found at i:67043840 original size:29 final size:30
Alignment explanation
Indices: 67043794--67043881 Score: 88
Period size: 31 Copynumber: 2.9 Consensus size: 30
67043784 TGATTTAATA
*
67043794 TGCAATTATATGCATG-AACTTTAATTTGG
1 TGCAATTATATACATGAAACTTTAATTTGG
* * *
67043823 TGCAATTATACACGTGAAACTCTAATTGTGG
1 TGCAATTATATACATGAAACTTTAATT-TGG
* * * *
67043854 TTCAAATGTATACTTGAAACTTTAATTT
1 TGCAATTATATACATGAAACTTTAATTT
67043882 TGATTTAATC
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
29 13 0.28
30 10 0.21
31 24 0.51
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (30 bp):
TGCAATTATATACATGAAACTTTAATTTGG
Found at i:67044081 original size:29 final size:30
Alignment explanation
Indices: 67044039--67044098 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
67044029 GAATCGGATC
*
67044039 AAATCAAAATTTCATGTATAAAATTACACA
1 AAATCAAAAGTTCATGTATAAAATTACACA
*
67044069 AAATC-AAAGTTCATGTATATAATTACACA
1 AAATCAAAAGTTCATGTATAAAATTACACA
67044098 A
1 A
67044099 TAAACCTTCG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
29 23 0.82
30 5 0.18
ACGTcount: A:0.52, C:0.13, G:0.05, T:0.30
Consensus pattern (30 bp):
AAATCAAAAGTTCATGTATAAAATTACACA
Found at i:67044319 original size:17 final size:17
Alignment explanation
Indices: 67044293--67044326 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
67044283 AGACATAACT
*
67044293 AAAGTTTTAAAATTAAA
1 AAAGTATTAAAATTAAA
67044310 AAAGTATTAAAATTAAA
1 AAAGTATTAAAATTAAA
67044327 TGATCAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (17 bp):
AAAGTATTAAAATTAAA
Found at i:67044592 original size:17 final size:17
Alignment explanation
Indices: 67044566--67044599 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
67044556 AGACATAACT
*
67044566 AAAGTTTTAAAATTAAA
1 AAAGTATTAAAATTAAA
67044583 AAAGTATTAAAATTAAA
1 AAAGTATTAAAATTAAA
67044600 TGATCAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (17 bp):
AAAGTATTAAAATTAAA
Found at i:67047565 original size:18 final size:18
Alignment explanation
Indices: 67047538--67047577 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
67047528 ATTACCAACA
*
67047538 ACAATGACTTTATAATTT
1 ACAATAACTTTATAATTT
* *
67047556 ACAATAACTTTTTATTTT
1 ACAATAACTTTATAATTT
67047574 ACAA
1 ACAA
67047578 ATCTATGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.40, C:0.12, G:0.03, T:0.45
Consensus pattern (18 bp):
ACAATAACTTTATAATTT
Found at i:67058853 original size:14 final size:13
Alignment explanation
Indices: 67058820--67058854 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
67058810 ATGTGTGCAT
*
67058820 TTCTGATTCTGTA
1 TTCTGTTTCTGTA
67058833 TTCTGTTTCTGTA
1 TTCTGTTTCTGTA
67058846 TGTCTGTTT
1 T-TCTGTTT
67058855 ACAAATGGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.09, C:0.14, G:0.17, T:0.60
Consensus pattern (13 bp):
TTCTGTTTCTGTA
Found at i:67060994 original size:38 final size:38
Alignment explanation
Indices: 67060950--67061045 Score: 129
Period size: 38 Copynumber: 2.5 Consensus size: 38
67060940 AATACAAAAA
* *
67060950 CAGTAAACATGCTTAACATGTATTCAATTCAATAGTAG
1 CAGTAAACATGCTTAACATGTATTCAATTCAACAATAG
* * *
67060988 CAGTAAACATGTTTAACATGTATTCGATTTAACAATAG
1 CAGTAAACATGCTTAACATGTATTCAATTCAACAATAG
**
67061026 CAGTAGGCATGCTTAACATG
1 CAGTAAACATGCTTAACATG
67061046 CAATCAGTAA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.31
Consensus pattern (38 bp):
CAGTAAACATGCTTAACATGTATTCAATTCAACAATAG
Found at i:67074565 original size:29 final size:30
Alignment explanation
Indices: 67074503--67074574 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 30
67074493 TTAGATAATG
67074503 TTAAAAGAAATTTTCATTTTTTTTAAAAAAA
1 TTAAAA-AAATTTTCATTTTTTTTAAAAAAA
* * **
67074534 TTATACAAATTTT-A-TTTTTTTAAATATTA
1 TTAAAAAAATTTTCATTTTTTTTAAA-AAAA
67074563 TTAAAAAAATTT
1 TTAAAAAAATTT
67074575 AAAAATAGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
28 10 0.29
29 13 0.38
30 7 0.21
31 4 0.12
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (30 bp):
TTAAAAAAATTTTCATTTTTTTTAAAAAAA
Found at i:67077049 original size:15 final size:16
Alignment explanation
Indices: 67077029--67077067 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
67077019 AAAATAAATT
67077029 ATTAAAAAT-TTAAAA
1 ATTAAAAATATTAAAA
*
67077044 ATTAAAATTATTAAAA
1 ATTAAAAATATTAAAA
67077060 A-TAAAAAT
1 ATTAAAAAT
67077068 CAATTCAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTAAAAATATTAAAA
Found at i:67077057 original size:16 final size:15
Alignment explanation
Indices: 67077029--67077067 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
67077019 AAAATAAATT
*
67077029 ATTAAAAATTTAAAA
1 ATTAAAATTTTAAAA
67077044 ATTAAAATTATTAAAA
1 ATTAAAATT-TTAAAA
*
67077060 ATAAAAAT
1 ATTAAAAT
67077068 CAATTCAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATTAAAATTTTAAAA
Found at i:67078351 original size:27 final size:27
Alignment explanation
Indices: 67078311--67078374 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
67078301 TAATACAAAG
*
67078311 TAGTGGCGCCTATCTCAGAGGCGCCAA
1 TAGTGGTGCCTATCTCAGAGGCGCCAA
* * * *
67078338 TGGTGGTGCCTATCTGATAGGCGCCAT
1 TAGTGGTGCCTATCTCAGAGGCGCCAA
67078365 TAGTGGTGCC
1 TAGTGGTGCC
67078375 ATGTTGAAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.17, C:0.25, G:0.33, T:0.25
Consensus pattern (27 bp):
TAGTGGTGCCTATCTCAGAGGCGCCAA
Found at i:67078386 original size:27 final size:27
Alignment explanation
Indices: 67078311--67078392 Score: 76
Period size: 27 Copynumber: 3.0 Consensus size: 27
67078301 TAATACAAAG
* * *
67078311 TAGTGGCGCCTATCTCAGAGGCGCCAA
1 TAGTGGTGCCTATCTGAAAGGCGCCAA
* * *
67078338 TGGTGGTGCCTATCTGATAGGCGCCAT
1 TAGTGGTGCCTATCTGAAAGGCGCCAA
* *
67078365 TAGTGGTGCC-ATGTTGAAAGGCACCAA
1 TAGTGGTGCCTAT-CTGAAAGGCGCCAA
67078392 T
1 T
67078393 GATCTTATTT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
26 2 0.05
27 42 0.95
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.24
Consensus pattern (27 bp):
TAGTGGTGCCTATCTGAAAGGCGCCAA
Found at i:67081783 original size:60 final size:60
Alignment explanation
Indices: 67081710--67081924 Score: 247
Period size: 60 Copynumber: 3.4 Consensus size: 60
67081700 CAAAATTACA
67081710 AAATTAATTATAAAATAATTACAAACACAAAAATTTATAACATAATCCTAAATTACTAAC
1 AAATTAATTATAAAATAATTACAAACACAAAAATTTATAACATAATCCTAAATTACTAAC
* * * *
67081770 AAATTAATTATAAAATAATTACAATATTCATACAAAAAATTACAAAATTACAATATTCATACAAA
1 AAATTAATTATAAAATAATTACAA-A--C--AC-AAAAATT----TATAAC-ATA---ATCCTAA
67081835 ATTAC--A-
52 ATTACTAAC
67081841 AAATTAATTATAAAATAATTACAAACACAAAAATTTATAACATAATCCTAAATTACTAAC
1 AAATTAATTATAAAATAATTACAAACACAAAAATTTATAACATAATCCTAAATTACTAAC
67081901 AAATTAATTATAAAATAATTACAA
1 AAATTAATTATAAAATAATTACAA
67081925 TATTCATACA
Statistics
Matches: 130, Mismatches: 8, Indels: 34
0.76 0.05 0.20
Matches are distributed among these distances:
57 10 0.08
59 1 0.01
60 51 0.39
61 5 0.04
63 1 0.01
65 9 0.07
66 9 0.07
68 1 0.01
70 5 0.04
71 27 0.21
72 1 0.01
74 10 0.08
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.31
Consensus pattern (60 bp):
AAATTAATTATAAAATAATTACAAACACAAAAATTTATAACATAATCCTAAATTACTAAC
Found at i:67081789 original size:71 final size:70
Alignment explanation
Indices: 67081703--67081919 Score: 226
Period size: 72 Copynumber: 3.2 Consensus size: 70
67081693 ATTCATACAA
*
67081703 AATTACAAAATTAATTATAAAATAATTACAAACACAAAAATTTATAACATAATCCTAAATTACTA
1 AATTATAAAA-TAA-TATAAAATAATTACAAACACAAAAATTTATAACATAATCCTAAATTACTA
67081768 ACAAATT
64 ACAAATT
* * * * *
67081775 AATTATAAAATAAT-TACAAT-ATT-CATACA-AAAAA-TTACAA-A-ATTAC-AATATT-C-AT
1 AATTATAAAATAATATAAAATAATTACAAACACAAAAATTTATAACATAATCCTAA-ATTACTA-
67081830 AC-AA--
64 ACAAATT
*
67081834 AATTACAAAATTAATTATAAAATAATTACAAACACAAAAATTTATAACATAATCCTAAATTACTA
1 AATTATAAAA-TAA-TATAAAATAATTACAAACACAAAAATTTATAACATAATCCTAAATTACTA
67081899 ACAAATT
64 ACAAATT
67081906 AATTATAAAATAAT
1 AATTATAAAATAAT
67081920 TACAATATTC
Statistics
Matches: 115, Mismatches: 13, Indels: 36
0.70 0.08 0.22
Matches are distributed among these distances:
59 9 0.08
60 3 0.03
61 4 0.03
62 10 0.09
63 9 0.08
64 6 0.05
65 10 0.09
66 10 0.09
67 6 0.05
68 9 0.08
69 10 0.09
70 5 0.04
71 6 0.05
72 18 0.16
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.31
Consensus pattern (70 bp):
AATTATAAAATAATATAAAATAATTACAAACACAAAAATTTATAACATAATCCTAAATTACTAAC
AAATT
Found at i:67081824 original size:29 final size:27
Alignment explanation
Indices: 67081786--67081977 Score: 109
Period size: 29 Copynumber: 7.2 Consensus size: 27
67081776 ATTATAAAAT
67081786 AATTACAATATTCATACAAAAAATTACAA
1 AATTACAATATTCATAC--AAAATTACAA
67081815 AATTACAATATTCATACAAAATTACAA
1 AATTACAATATTCATACAAAATTACAA
*
67081842 AATT---A-ATT-ATAAAATAATTAC-A
1 AATTACAATATTCATACAA-AATTACAA
* * * * * *
67081864 AA-CACAAAAATTTATAACATAA-TCCTA
1 AATTAC-AATATTCAT-ACAAAATTACAA
* * ** * *
67081891 AATTAC--TA-ACAAATTAATTATAAAA
1 AATTACAATATTCATACAAAAT-TACAA
67081916 TAATTACAATATTCATACAAAAAATTACAA
1 -AATTACAATATTCATAC--AAAATTACAA
67081946 AATTACAATATTCATACAAAATTACAA
1 AATTACAATATTCATACAAAATTACAA
67081973 AATTA
1 AATTA
67081978 ACTCAAACTA
Statistics
Matches: 122, Mismatches: 23, Indels: 38
0.67 0.13 0.21
Matches are distributed among these distances:
22 8 0.07
23 11 0.09
24 2 0.02
25 4 0.03
26 11 0.09
27 36 0.30
28 6 0.05
29 37 0.30
30 4 0.03
31 3 0.02
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.30
Consensus pattern (27 bp):
AATTACAATATTCATACAAAATTACAA
Found at i:67081861 original size:11 final size:12
Alignment explanation
Indices: 67081770--67081865 Score: 53
Period size: 11 Copynumber: 8.2 Consensus size: 12
67081760 AATTACTAAC
*
67081770 AAATTAATTATA
1 AAATTAATTACA
67081782 AAA-TAATTACA
1 AAATTAATTACA
* *
67081793 ATATTCA-TACA
1 AAATTAATTACA
67081804 AAA--AATTACA
1 AAATTAATTACA
*
67081814 AAATTACAATATTCA
1 AAATT--AAT-TACA
67081829 TACAA--AATTACA
1 -A-AATTAATTACA
*
67081841 AAATTAATTATA
1 AAATTAATTACA
67081853 AAA-TAATTACA
1 AAATTAATTACA
67081864 AA
1 AA
67081866 CACAAAAATT
Statistics
Matches: 64, Mismatches: 9, Indels: 23
0.67 0.09 0.24
Matches are distributed among these distances:
9 1 0.02
10 9 0.14
11 25 0.39
12 17 0.27
13 3 0.05
14 3 0.05
15 3 0.05
16 1 0.02
17 2 0.03
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.31
Consensus pattern (12 bp):
AAATTAATTACA
Found at i:67081902 original size:131 final size:131
Alignment explanation
Indices: 67081682--67081978 Score: 594
Period size: 131 Copynumber: 2.3 Consensus size: 131
67081672 AATTATACAA
67081682 AAAATTACAATATTCATACAAAATTACAAAATTAATTATAAAATAATTACAAACACAAAAATTTA
1 AAAATTACAATATTCATACAAAATTACAAAATTAATTATAAAATAATTACAAACACAAAAATTTA
67081747 TAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTACAATATTCATACAAAAAATTA
66 TAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTACAATATTCATACAAAAAATTA
67081812 C
131 C
67081813 AAAATTACAATATTCATACAAAATTACAAAATTAATTATAAAATAATTACAAACACAAAAATTTA
1 AAAATTACAATATTCATACAAAATTACAAAATTAATTATAAAATAATTACAAACACAAAAATTTA
67081878 TAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTACAATATTCATACAAAAAATTA
66 TAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTACAATATTCATACAAAAAATTA
67081943 C
131 C
67081944 AAAATTACAATATTCATACAAAATTACAAAATTAA
1 AAAATTACAATATTCATACAAAATTACAAAATTAA
67081979 CTCAAACTAT
Statistics
Matches: 166, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
131 166 1.00
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (131 bp):
AAAATTACAATATTCATACAAAATTACAAAATTAATTATAAAATAATTACAAACACAAAAATTTA
TAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTACAATATTCATACAAAAAATTA
C
Found at i:67081984 original size:19 final size:19
Alignment explanation
Indices: 67081941--67081978 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
67081931 TACAAAAAAT
* *
67081941 TACAAAATTACAATATTCA
1 TACAAAATTACAAAATTAA
67081960 TACAAAATTACAAAATTAA
1 TACAAAATTACAAAATTAA
67081979 CTCAAACTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (19 bp):
TACAAAATTACAAAATTAA
Found at i:67082112 original size:4 final size:4
Alignment explanation
Indices: 67082103--67082147 Score: 63
Period size: 4 Copynumber: 10.8 Consensus size: 4
67082093 TACATTACCT
*
67082103 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTCTCC TTTC TCTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-T-C TTTC TTTC TTT
67082148 TTTTTCTCTC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
4 32 0.86
5 2 0.05
6 3 0.08
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTC
Found at i:67082337 original size:27 final size:27
Alignment explanation
Indices: 67082299--67082360 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
67082289 GCCATGCCAT
**
67082299 TGGCGCCTCCCTATGAGGCACTTTTAA
1 TGGCGCCTCCCTATGAGGCACAATTAA
*
67082326 TGGCGCCTCCCTATGAGGCACAATTAG
1 TGGCGCCTCCCTATGAGGCACAATTAA
67082353 TGGCGCCT
1 TGGCGCCT
67082361 ACCTGACAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.18, C:0.31, G:0.26, T:0.26
Consensus pattern (27 bp):
TGGCGCCTCCCTATGAGGCACAATTAA
Found at i:67090219 original size:21 final size:24
Alignment explanation
Indices: 67090193--67090235 Score: 65
Period size: 21 Copynumber: 1.9 Consensus size: 24
67090183 AACTGTATTC
67090193 TATTTT-A-TTTTAT-ATATAATT
1 TATTTTAATTTTTATAATATAATT
67090214 TATTTTAATTTTTATAATATAA
1 TATTTTAATTTTTATAATATAA
67090236 AAATTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 1 0.05
23 6 0.32
24 6 0.32
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
TATTTTAATTTTTATAATATAATT
Found at i:67091775 original size:82 final size:83
Alignment explanation
Indices: 67091678--67091842 Score: 323
Period size: 82 Copynumber: 2.0 Consensus size: 83
67091668 ATTTTTTTCT
67091678 AATTTTTTACATATTTTTATTTTTATTTTCTATTAAAAAAAGATTATTATCTCTAAATTCTAAAA
1 AATTTTTTACATATTTTTATTTTTATTTTCTATTAAAAAAAGATTATTATCTCTAAATTCTAAAA
67091743 TTTTAAATAGTATATGAA
66 TTTTAAATAGTATATGAA
67091761 AATTTTTTAC-TATTTTTATTTTTATTTTCTATTAAAAAAAGATTATTATCTCTAAATTCTAAAA
1 AATTTTTTACATATTTTTATTTTTATTTTCTATTAAAAAAAGATTATTATCTCTAAATTCTAAAA
67091825 TTTTAAATAGTATATGAA
66 TTTTAAATAGTATATGAA
67091843 TTTTTACCGG
Statistics
Matches: 82, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
82 72 0.88
83 10 0.12
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.51
Consensus pattern (83 bp):
AATTTTTTACATATTTTTATTTTTATTTTCTATTAAAAAAAGATTATTATCTCTAAATTCTAAAA
TTTTAAATAGTATATGAA
Found at i:67092987 original size:12 final size:12
Alignment explanation
Indices: 67092966--67093012 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
67092956 GTTCATGAAC
67092966 AAGCTCGTTTAT
1 AAGCTCGTTTAT
*
67092978 AAGCTTGTTTATT
1 AAGCTCGTTTA-T
67092991 AA-CTCGTTTAT
1 AAGCTCGTTTAT
*
67093002 GA-CTCGTTTAT
1 AAGCTCGTTTAT
67093013 TTATTAATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
11 11 0.35
12 17 0.55
13 3 0.10
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.47
Consensus pattern (12 bp):
AAGCTCGTTTAT
Found at i:67094456 original size:23 final size:22
Alignment explanation
Indices: 67094428--67094516 Score: 79
Period size: 23 Copynumber: 3.9 Consensus size: 22
67094418 ATTTTGATTG
67094428 GCCTTTGTGGCAAATTCTGGTTA
1 GCCTTTGTGGCAAATTCT-GTTA
* * *
67094451 GCCTTTGTGGCGAATTGTGTTT
1 GCCTTTGTGGCAAATTCTGTTA
* * *
67094473 GACATTTGTGGCTAATTCTAATTA
1 G-CCTTTGTGGCAAATTCT-GTTA
**
67094497 GCCTTTGTGGCGTATTCTGT
1 GCCTTTGTGGCAAATTCTGT
67094517 ATGCTACCTT
Statistics
Matches: 52, Mismatches: 12, Indels: 5
0.75 0.17 0.07
Matches are distributed among these distances:
22 5 0.10
23 44 0.85
24 3 0.06
ACGTcount: A:0.16, C:0.16, G:0.26, T:0.43
Consensus pattern (22 bp):
GCCTTTGTGGCAAATTCTGTTA
Found at i:67099397 original size:36 final size:38
Alignment explanation
Indices: 67099344--67099417 Score: 107
Period size: 36 Copynumber: 2.0 Consensus size: 38
67099334 CTGCATCAGG
* *
67099344 AGAAAATTGAGGAAAATTATACAAT-G-AGCACAAAAT
1 AGAAAATAGAGGAAAATTAGACAATGGAAGCACAAAAT
*
67099380 AGAAAATAGAGGGAAATTAGACAATGGAAGCACAAAAT
1 AGAAAATAGAGGAAAATTAGACAATGGAAGCACAAAAT
67099418 CAAGCAGCAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 22 0.67
37 1 0.03
38 10 0.30
ACGTcount: A:0.55, C:0.08, G:0.20, T:0.16
Consensus pattern (38 bp):
AGAAAATAGAGGAAAATTAGACAATGGAAGCACAAAAT
Found at i:67102690 original size:39 final size:40
Alignment explanation
Indices: 67102629--67102705 Score: 93
Period size: 39 Copynumber: 1.9 Consensus size: 40
67102619 AAAACACAAA
* * *
67102629 AAAAATATTGTAAAATTCTAAAATAT-TATTTAAAAATCC
1 AAAAATATTATAAAATTCTAAAAAATATATTAAAAAATCC
* * *
67102668 AAAAATCTTATAAATTTTTAAAAAATATATTAAAAAAT
1 AAAAATATTATAAAATTCTAAAAAATATATTAAAAAAT
67102706 TAGAAAAATT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
39 21 0.68
40 10 0.32
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.36
Consensus pattern (40 bp):
AAAAATATTATAAAATTCTAAAAAATATATTAAAAAATCC
Found at i:67104007 original size:42 final size:39
Alignment explanation
Indices: 67103960--67104265 Score: 170
Period size: 42 Copynumber: 7.3 Consensus size: 39
67103950 GAGGTGAAGT
* *
67103960 TGGTGGTGGTGGAGATTGAACTGGTGGAGGTGGGAAGGAGAC
1 TGGTGGTGGTGG-GATAGAACTGGTGGTGGTGGGAA-GA-AC
* * *
67104002 GGGTGGTGGAGGGGATAGAACTGGTGGTGGTGGAGATTGAAC
1 TGGTGGTGG-TGGGATAGAACTGGTGGTGGTGG-GA-AGAAC
* * *
67104044 TGGTGGAGGTGGGA-AGGAGACGGGTGGTGGAGGGGACAGAAC
1 TGGTGGTGGTGGGATA-GA-ACTGGTGGTGG-TGGGA-AGAAC
* * *
67104086 TGGTGGAGGTGGGA-AGGAGACGGGTGGTGGAGGGGATAGAAC
1 TGGTGGTGGTGGGATA-GA-ACTGGTGGTGG-TGGGA-AGAAC
* * *
67104128 TGGTGGTGGTGGAGATTGAACTGGTGGAGGTGGAAAGGAGAC
1 TGGTGGTGGTGG-GATAGAACTGGTGGTGGTGGGAA-GA-AC
* * * *
67104170 GGGTGGTGGAGGGGAGAGAACTGGTGGTGGTGGAGATTGAAC
1 TGGTGGTGG-TGGGATAGAACTGGTGGTGGTGG-GA-AGAAC
* * *
67104212 TGGTGGAGGTGGAGAGTAG-ACGGGTGGTGGAGGGGAGAGAAC
1 TGGTGGTGGTGG-GA-TAGAACTGGTGGTGG-TGGGA-AGAAC
67104254 TGGTTGG-GGTGG
1 TGG-TGGTGGTGG
67104266 TGGTGGTGGT
Statistics
Matches: 213, Mismatches: 34, Indels: 34
0.76 0.12 0.12
Matches are distributed among these distances:
40 2 0.01
41 13 0.06
42 174 0.82
43 24 0.11
ACGTcount: A:0.22, C:0.05, G:0.55, T:0.18
Consensus pattern (39 bp):
TGGTGGTGGTGGGATAGAACTGGTGGTGGTGGGAAGAAC
Found at i:67104027 original size:63 final size:63
Alignment explanation
Indices: 67103960--67104097 Score: 258
Period size: 63 Copynumber: 2.2 Consensus size: 63
67103950 GAGGTGAAGT
*
67103960 TGGTGGTGGTGGAGATTGAACTGGTGGAGGTGGGAAGGAGACGGGTGGTGGAGGGGATAGAAC
1 TGGTGGTGGTGGAGATTGAACTGGTGGAGGTGGGAAGGAGACGGGTGGTGGAGGGGACAGAAC
67104023 TGGTGGTGGTGGAGATTGAACTGGTGGAGGTGGGAAGGAGACGGGTGGTGGAGGGGACAGAAC
1 TGGTGGTGGTGGAGATTGAACTGGTGGAGGTGGGAAGGAGACGGGTGGTGGAGGGGACAGAAC
*
67104086 TGGTGGAGGTGG
1 TGGTGGTGGTGG
67104098 GAAGGAGACG
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 73 1.00
ACGTcount: A:0.21, C:0.05, G:0.55, T:0.19
Consensus pattern (63 bp):
TGGTGGTGGTGGAGATTGAACTGGTGGAGGTGGGAAGGAGACGGGTGGTGGAGGGGACAGAAC
Found at i:67104217 original size:105 final size:105
Alignment explanation
Indices: 67103977--67104202 Score: 425
Period size: 105 Copynumber: 2.2 Consensus size: 105
67103967 GGTGGAGATT
67103977 GAACTGGTGGAGGTGGGAAGGAGACGGGTGGTGGAGGGGATAGAACTGGTGGTGGTGGAGATTGA
1 GAACTGGTGGAGGTGGGAAGGAGACGGGTGGTGGAGGGGATAGAACTGGTGGTGGTGGAGATTGA
*
67104042 ACTGGTGGAGGTGGGAAGGAGACGGGTGGTGGAGGGGACA
66 ACTGGTGGAGGTGGAAAGGAGACGGGTGGTGGAGGGGACA
67104082 GAACTGGTGGAGGTGGGAAGGAGACGGGTGGTGGAGGGGATAGAACTGGTGGTGGTGGAGATTGA
1 GAACTGGTGGAGGTGGGAAGGAGACGGGTGGTGGAGGGGATAGAACTGGTGGTGGTGGAGATTGA
*
67104147 ACTGGTGGAGGTGGAAAGGAGACGGGTGGTGGAGGGGAGA
66 ACTGGTGGAGGTGGAAAGGAGACGGGTGGTGGAGGGGACA
*
67104187 GAACTGGTGGTGGTGG
1 GAACTGGTGGAGGTGG
67104203 AGATTGAACT
Statistics
Matches: 118, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 118 1.00
ACGTcount: A:0.23, C:0.05, G:0.55, T:0.17
Consensus pattern (105 bp):
GAACTGGTGGAGGTGGGAAGGAGACGGGTGGTGGAGGGGATAGAACTGGTGGTGGTGGAGATTGA
ACTGGTGGAGGTGGAAAGGAGACGGGTGGTGGAGGGGACA
Found at i:67104239 original size:63 final size:63
Alignment explanation
Indices: 67104003--67104418 Score: 336
Period size: 63 Copynumber: 6.3 Consensus size: 63
67103993 GAAGGAGACG
* * * * * * * * *
67104003 GGTGGTGGAGGGGATAGAACTGGTGGTGGTGGAGATTGA-ACTGGTGGAGGTGGGAAG-GAGACG
1 GGTGGTGGTGGGGATTGAACTGGTGGAGGTGGAGA-GGAGACGGGTGGTGGAGGGGAGAGA-ACT
* ** *
67104066 GGTGGTGGAGGGGACAGAACTGGTGGAGGTGG-GAAGGAGACGGGTGGTGGAGGGGATAGAACT
1 GGTGGTGGTGGGGATTGAACTGGTGGAGGTGGAG-AGGAGACGGGTGGTGGAGGGGAGAGAACT
* *
67104129 GGTGGTGGTGGAGATTGAACTGGTGGAGGTGGAAAGGAGACGGGTGGTGGAGGGGAGAGAACT
1 GGTGGTGGTGGGGATTGAACTGGTGGAGGTGGAGAGGAGACGGGTGGTGGAGGGGAGAGAACT
* *
67104192 GGTGGTGGTGGAGATTGAACTGGTGGAGGTGGAGAGTAGACGGGTGGTGGAGGGGAGAGAACTGG
1 GGTGGTGGTGGGGATTGAACTGGTGGAGGTGGAGAGGAGACGGGTGGTGGAGGGGAGAGAAC---
67104257 TTGGGGT
63 ------T
* * *
67104264 GGTGGTGGTGGTGGTGATTGAACTGGTGGAGGTGGAGGGGAGCGAACTGGTTGTGGTGGTGGTGA
1 GGTGGTGGT-G-GG-GATTGAACTGGTGGAGGTGGAGAGGA--G-AC-GG--GTGGTGGAGGGGA
*
67104329 GTAG-ACG
57 G-AGAACT
* ** * *
67104336 GGTGGTGGAGGGGAGAGAACTGGTGGAGGTGGAGAGTAGACAGGTGGTGGAGGGGAGAGAACT
1 GGTGGTGGTGGGGATTGAACTGGTGGAGGTGGAGAGGAGACGGGTGGTGGAGGGGAGAGAACT
* * * *
67104399 TGTTGTGGTGGTGAGTGAAC
1 GGTGGTGGTGGGGATTGAAC
67104419 GGGAGGTTTT
Statistics
Matches: 292, Mismatches: 37, Indels: 48
0.77 0.10 0.13
Matches are distributed among these distances:
62 5 0.02
63 191 0.65
64 2 0.01
65 1 0.00
66 2 0.01
67 1 0.00
69 22 0.08
70 2 0.01
71 1 0.00
72 18 0.06
73 1 0.00
74 1 0.00
75 24 0.08
77 1 0.00
78 2 0.01
79 2 0.01
81 14 0.05
82 2 0.01
ACGTcount: A:0.21, C:0.05, G:0.54, T:0.19
Consensus pattern (63 bp):
GGTGGTGGTGGGGATTGAACTGGTGGAGGTGGAGAGGAGACGGGTGGTGGAGGGGAGAGAACT
Found at i:67104340 original size:42 final size:43
Alignment explanation
Indices: 67104294--67104416 Score: 160
Period size: 42 Copynumber: 2.8 Consensus size: 43
67104284 AACTGGTGGA
*
67104294 GGTGGAGGGGAGCGAACTGGTTGTGGTGGTGGTGAGTAGACGGGT
1 GGTGGAGGGGAGAGAACT-GTTGTGGTGGTGGTGAGTAGAC-GGT
* *
67104339 GGTGGAGGGGAGAGAACTG--GTGGAGGTGGAGAGTAGACAGGT
1 GGTGGAGGGGAGAGAACTGTTGTGGTGGTGGTGAGTAGAC-GGT
67104381 GGTGGAGGGGAGAGAACTTGTTGTGGTGGTGAGTGA
1 GGTGGAGGGGAGAGAAC-TGTTGTGGTGGTG-GTGA
67104417 ACGGGAGGTT
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
42 37 0.54
43 2 0.03
44 1 0.01
45 25 0.37
46 3 0.04
ACGTcount: A:0.20, C:0.05, G:0.54, T:0.20
Consensus pattern (43 bp):
GGTGGAGGGGAGAGAACTGTTGTGGTGGTGGTGAGTAGACGGT
Found at i:67104342 original size:21 final size:21
Alignment explanation
Indices: 67104316--67104385 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
67104306 CGAACTGGTT
* *
67104316 GTGGTGGTGGTGAGTAGACGG
1 GTGGTGGTGGAGAGTAGACAG
* * *
67104337 GTGGTGGAGGGGAG-AGAACTG
1 GTGGTGGTGGAGAGTAG-ACAG
*
67104358 GTGGAGGTGGAGAGTAGACAG
1 GTGGTGGTGGAGAGTAGACAG
67104379 GTGGTGG
1 GTGGTGG
67104386 AGGGGAGAGA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
20 2 0.05
21 35 0.90
22 2 0.05
ACGTcount: A:0.20, C:0.04, G:0.57, T:0.19
Consensus pattern (21 bp):
GTGGTGGTGGAGAGTAGACAG
Found at i:67104343 original size:24 final size:25
Alignment explanation
Indices: 67104263--67104367 Score: 80
Period size: 24 Copynumber: 4.5 Consensus size: 25
67104253 CTGGTTGGGG
*
67104263 TGGTGGTGGTGGTGGTGA-TTGAAC
1 TGGTGGTGGTGGTGGTGAGTAGAAC
* * * *
67104287 TGGTGGAGGTGGAGGGGAG-CGAAC
1 TGGTGGTGGTGGTGGTGAGTAGAAC
*
67104311 TGGTTGTGGTGGTGGTGAGTAG-AC
1 TGGTGGTGGTGGTGGTGAGTAGAAC
* *
67104335 --G-GGTGGTGGAGGGGAG-AGAAC
1 TGGTGGTGGTGGTGGTGAGTAGAAC
*
67104356 TGGTGGAGGTGG
1 TGGTGGTGGTGG
67104368 AGAGTAGACA
Statistics
Matches: 62, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
20 2 0.03
21 14 0.23
22 1 0.02
23 1 0.02
24 43 0.69
25 1 0.02
ACGTcount: A:0.16, C:0.05, G:0.56, T:0.23
Consensus pattern (25 bp):
TGGTGGTGGTGGTGGTGAGTAGAAC
Found at i:67104359 original size:18 final size:18
Alignment explanation
Indices: 67104338--67104398 Score: 68
Period size: 18 Copynumber: 3.1 Consensus size: 18
67104328 AGTAGACGGG
67104338 TGGTGGAGGGGAGAGAAC
1 TGGTGGAGGGGAGAGAAC
67104356 TGGTGGAGGTGGAGAGTAGAC
1 TGGTGGAGG-GGAGAG-A-AC
67104377 AGGTGGTGGAGGGGAGAGAAC
1 ---TGGTGGAGGGGAGAGAAC
67104398 T
1 T
67104399 TGTTGTGGTG
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
18 10 0.27
19 6 0.16
20 1 0.03
21 4 0.11
22 1 0.03
23 6 0.16
24 9 0.24
ACGTcount: A:0.26, C:0.05, G:0.54, T:0.15
Consensus pattern (18 bp):
TGGTGGAGGGGAGAGAAC
Found at i:67104368 original size:24 final size:24
Alignment explanation
Indices: 67104283--67104369 Score: 83
Period size: 24 Copynumber: 3.8 Consensus size: 24
67104273 GGTGGTGATT
*
67104283 GAACTGGTGGAGGTGGAGGGGAGC
1 GAACTGGTGGAGGTGGAGGGGAGA
* * * *
67104307 GAACTGGTTGTGGTGGTGGTGAGTA
1 GAACTGGTGGAGGTGGAGGGGAG-A
*
67104332 G-AC--G-GGTGGTGGAGGGGAGA
1 GAACTGGTGGAGGTGGAGGGGAGA
67104352 GAACTGGTGGAGGTGGAG
1 GAACTGGTGGAGGTGGAG
67104370 AGTAGACAGG
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
20 2 0.04
21 14 0.29
22 1 0.02
23 1 0.02
24 30 0.61
25 1 0.02
ACGTcount: A:0.20, C:0.06, G:0.56, T:0.18
Consensus pattern (24 bp):
GAACTGGTGGAGGTGGAGGGGAGA
Found at i:67106816 original size:2 final size:2
Alignment explanation
Indices: 67106811--67106845 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
67106801 AAAAATTTCA
*
67106811 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
67106846 CCTGTTTTGA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:67118591 original size:42 final size:42
Alignment explanation
Indices: 67118544--67118649 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 42
67118534 GCCCAAAGGC
*
67118544 TGAACAGAA-TTTCGTAAGAGCTAAATAGAAACCCATAAGAGT
1 TGAACAGAAGCTT-GTAAGAGCTAAATAGAAACCCATAAGAGT
* * * *
67118586 TGAACAGAAGCTTGTAAGAGCTGAATGGAAACTCATATGAGT
1 TGAACAGAAGCTTGTAAGAGCTAAATAGAAACCCATAAGAGT
* * **
67118628 TAAACGGAAGCTCATAAGAGCT
1 TGAACAGAAGCTTGTAAGAGCT
67118650 GAACAGAAGC
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 52 0.96
43 2 0.04
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.22
Consensus pattern (42 bp):
TGAACAGAAGCTTGTAAGAGCTAAATAGAAACCCATAAGAGT
Found at i:67118594 original size:21 final size:21
Alignment explanation
Indices: 67118558--67118721 Score: 121
Period size: 21 Copynumber: 7.8 Consensus size: 21
67118548 CAGAATTTCG
* *
67118558 TAAGAGCTAAATAGAAACCCA
1 TAAGAGCTAAACAGAAACTCA
* * * **
67118579 TAAGAGTTGAACAGAAGCTTG
1 TAAGAGCTAAACAGAAACTCA
* **
67118600 TAAGAGCTGAATGGAAACTCA
1 TAAGAGCTAAACAGAAACTCA
* * * *
67118621 TATGAGTTAAACGGAAGCTCA
1 TAAGAGCTAAACAGAAACTCA
* *
67118642 TAAGAGCTGAACAGAAGCTCA
1 TAAGAGCTAAACAGAAACTCA
* *
67118663 AAAGAGCTAAACGGAAACTCA
1 TAAGAGCTAAACAGAAACTCA
* * * *
67118684 TATGAGTTAAACAGAAGCTCG
1 TAAGAGCTAAACAGAAACTCA
*
67118705 TAAGAGCTAAACGGAAA
1 TAAGAGCTAAACAGAAA
67118722 GTAAAACATG
Statistics
Matches: 107, Mismatches: 36, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 107 1.00
ACGTcount: A:0.45, C:0.15, G:0.23, T:0.18
Consensus pattern (21 bp):
TAAGAGCTAAACAGAAACTCA
Found at i:67118646 original size:63 final size:63
Alignment explanation
Indices: 67118577--67118712 Score: 200
Period size: 63 Copynumber: 2.2 Consensus size: 63
67118567 AATAGAAACC
* *** * * *
67118577 CATAAGAGTTGAACAGAAGCTTGTAAGAGCTGAATGGAAACTCATATGAGTTAAACGGAAGCT
1 CATAAGAGCTGAACAGAAGCTCAAAAGAGCTAAACGGAAACTCATATGAGTTAAACAGAAGCT
67118640 CATAAGAGCTGAACAGAAGCTCAAAAGAGCTAAACGGAAACTCATATGAGTTAAACAGAAGCT
1 CATAAGAGCTGAACAGAAGCTCAAAAGAGCTAAACGGAAACTCATATGAGTTAAACAGAAGCT
*
67118703 CGTAAGAGCT
1 CATAAGAGCT
67118713 AAACGGAAAG
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.19
Consensus pattern (63 bp):
CATAAGAGCTGAACAGAAGCTCAAAAGAGCTAAACGGAAACTCATATGAGTTAAACAGAAGCT
Found at i:67118650 original size:42 final size:42
Alignment explanation
Indices: 67118558--67118720 Score: 146
Period size: 42 Copynumber: 3.9 Consensus size: 42
67118548 CAGAATTTCG
* * * * **
67118558 TAAGAGCTAAATAGAAACCCATAAGAGTTGAACAGAAGCTTG
1 TAAGAGCTGAATAGAAACTCATAAGAGTTAAACGGAAGCTCA
* *
67118600 TAAGAGCTGAATGGAAACTCATATGAGTTAAACGGAAGCTCA
1 TAAGAGCTGAATAGAAACTCATAAGAGTTAAACGGAAGCTCA
* * * * *
67118642 TAAGAGCTGAACAGAAGCTCAAAAGAGCTAAACGGAAACTCA
1 TAAGAGCTGAATAGAAACTCATAAGAGTTAAACGGAAGCTCA
* * * * * * *
67118684 TATGAGTTAAACAGAAGCTCGTAAGAGCTAAACGGAA
1 TAAGAGCTGAATAGAAACTCATAAGAGTTAAACGGAA
67118721 AGTAAAACAT
Statistics
Matches: 101, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 101 1.00
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.18
Consensus pattern (42 bp):
TAAGAGCTGAATAGAAACTCATAAGAGTTAAACGGAAGCTCA
Found at i:67139234 original size:15 final size:15
Alignment explanation
Indices: 67139168--67139237 Score: 52
Period size: 15 Copynumber: 4.6 Consensus size: 15
67139158 ATAGCAAGAA
* *
67139168 TTATATAAAATATTA
1 TTATATAATATATTT
*
67139183 CTACTATAA-ATATTT
1 TTA-TATAATATATTT
* * * *
67139198 ATATTTTATATTTTT
1 TTATATAATATATTT
67139213 GTTATATAATATATTT
1 -TTATATAATATATTT
67139229 TTATATAAT
1 TTATATAAT
67139238 TTGGTATTTA
Statistics
Matches: 42, Mismatches: 10, Indels: 6
0.72 0.17 0.10
Matches are distributed among these distances:
14 3 0.07
15 23 0.55
16 16 0.38
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (15 bp):
TTATATAATATATTT
Found at i:67140328 original size:18 final size:18
Alignment explanation
Indices: 67140305--67140347 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
67140295 ACTCAATTAA
**
67140305 AACCCAAGTATTCAACCC
1 AACCCAAGTACGCAACCC
*
67140323 AACCCAATTACGCAACCC
1 AACCCAAGTACGCAACCC
67140341 AACCCAA
1 AACCCAA
67140348 TCATAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.42, G:0.05, T:0.12
Consensus pattern (18 bp):
AACCCAAGTACGCAACCC
Found at i:67140406 original size:12 final size:13
Alignment explanation
Indices: 67140376--67140419 Score: 63
Period size: 12 Copynumber: 3.4 Consensus size: 13
67140366 ATTTAATAAA
*
67140376 TAAAAATAAAATTC
1 TAAAACTAAAA-TC
67140390 TAAAACTAAAA-C
1 TAAAACTAAAATC
67140402 TAAAACTAAAATC
1 TAAAACTAAAATC
67140415 TAAAA
1 TAAAA
67140420 GTCTAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 12 0.43
13 6 0.21
14 10 0.36
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (13 bp):
TAAAACTAAAATC
Found at i:67140426 original size:8 final size:7
Alignment explanation
Indices: 67140382--67140427 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 7
67140372 TAAATAAAAA
67140382 TAAAATTC
1 TAAAA-TC
67140390 TAAAA-C
1 TAAAATC
67140396 TAAAA-C
1 TAAAATC
67140402 TAAAA-C
1 TAAAATC
67140408 TAAAATC
1 TAAAATC
67140415 TAAAAGTC
1 TAAAA-TC
67140423 TAAAA
1 TAAAA
67140428 ATAATTTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
6 18 0.50
7 6 0.17
8 12 0.33
ACGTcount: A:0.61, C:0.13, G:0.02, T:0.24
Consensus pattern (7 bp):
TAAAATC
Found at i:67140471 original size:9 final size:9
Alignment explanation
Indices: 67140446--67140508 Score: 90
Period size: 9 Copynumber: 6.9 Consensus size: 9
67140436 ATTATGTAGT
*
67140446 GGTTCAATTT
1 GGTT-AATTC
67140456 GGTTAATTC
1 GGTTAATTC
*
67140465 GGGTAATTC
1 GGTTAATTC
67140474 GGTTAATTC
1 GGTTAATTC
*
67140483 GGGTAATTC
1 GGTTAATTC
67140492 GGTTAATTC
1 GGTTAATTC
67140501 GGTTAATT
1 GGTTAATT
67140509 TTTAACCAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
9 44 0.92
10 4 0.08
ACGTcount: A:0.22, C:0.10, G:0.25, T:0.43
Consensus pattern (9 bp):
GGTTAATTC
Found at i:67141525 original size:6 final size:6
Alignment explanation
Indices: 67141514--67141543 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
67141504 TACTATGTTA
67141514 GTGGAT GTGGAT GTGGAT GTGGAT GGTGGA
1 GTGGAT GTGGAT GTGGAT GTGGAT -GTGGA
67141544 GGGTAGTGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.78
7 5 0.22
ACGTcount: A:0.17, C:0.00, G:0.53, T:0.30
Consensus pattern (6 bp):
GTGGAT
Found at i:67145018 original size:33 final size:33
Alignment explanation
Indices: 67144976--67145046 Score: 142
Period size: 33 Copynumber: 2.2 Consensus size: 33
67144966 GGCAAGTGGC
67144976 CCAAGGATCGACCACTTTACTAAACCCGGTGAT
1 CCAAGGATCGACCACTTTACTAAACCCGGTGAT
67145009 CCAAGGATCGACCACTTTACTAAACCCGGTGAT
1 CCAAGGATCGACCACTTTACTAAACCCGGTGAT
67145042 CCAAG
1 CCAAG
67145047 TCCTTCAGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (33 bp):
CCAAGGATCGACCACTTTACTAAACCCGGTGAT
Found at i:67146472 original size:21 final size:21
Alignment explanation
Indices: 67146438--67146487 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
67146428 AATAGTAGGG
*
67146438 AAGGAAAAAGAAGAAGAAGAA
1 AAGGAAAAAGAAGAAAAAGAA
67146459 AAGGAGAAAA-AAGAAAAAGAA
1 AAGGA-AAAAGAAGAAAAAGAA
*
67146480 AAAGAAAA
1 AAGGAAAA
67146488 CCTGCAGTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 3 0.12
21 19 0.73
22 4 0.15
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (21 bp):
AAGGAAAAAGAAGAAAAAGAA
Found at i:67146567 original size:18 final size:18
Alignment explanation
Indices: 67146508--67146567 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
67146498 ACAGTACAAT
*
67146508 ATTTATGTAGTTAATTAA
1 ATTTATATAGTTAATTAA
* *
67146526 ATTTAAATAG-T-ATCGACA
1 ATTTATATAGTTAAT-TA-A
67146544 ATTTATATAGTTAATTAA
1 ATTTATATAGTTAATTAA
67146562 ATTTAT
1 ATTTAT
67146568 TCCAAACATT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 2 0.06
17 2 0.06
18 25 0.76
19 2 0.06
20 2 0.06
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.47
Consensus pattern (18 bp):
ATTTATATAGTTAATTAA
Found at i:67148598 original size:53 final size:53
Alignment explanation
Indices: 67148497--67148599 Score: 125
Period size: 53 Copynumber: 1.9 Consensus size: 53
67148487 AGAAATATAG
* * * *
67148497 ATATTGAATAAATTGGTCAAAATACAAAGACACAACTTAAATATAATTAAATT
1 ATATGGAATAAATTGGTCAAAATACAAAAACACAACTCAAATACAATTAAATT
* * * * *
67148550 ATATGGAATAGATTGTTCAAAATAGAAAAACGCAACTCAAGTACAATTAA
1 ATATGGAATAAATTGGTCAAAATACAAAAACACAACTCAAATACAATTAA
67148600 TTCGTGGAGT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
53 41 1.00
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.27
Consensus pattern (53 bp):
ATATGGAATAAATTGGTCAAAATACAAAAACACAACTCAAATACAATTAAATT
Found at i:67149722 original size:31 final size:30
Alignment explanation
Indices: 67149683--67149743 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
67149673 ATAACCGCCA
* * *
67149683 AAACTTTTTGCAATTGCTCAAATAAGAGCT
1 AAACTTTTTGAAAGTGCTCAAATAAAAGCT
*
67149713 AAACATTTTTTAAAGTGCTCAAATAAAAGCT
1 AAAC-TTTTTGAAAGTGCTCAAATAAAAGCT
67149744 TCTCAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (30 bp):
AAACTTTTTGAAAGTGCTCAAATAAAAGCT
Found at i:67150211 original size:14 final size:14
Alignment explanation
Indices: 67150189--67150232 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
67150179 GAAGAATATT
67150189 TATATTTTTTT-TC
1 TATATTTTTTTATC
*
67150202 TATAATTTTTTTATT
1 TAT-ATTTTTTTATC
67150217 TATATTTTTTTATC
1 TATATTTTTTTATC
67150231 TA
1 TA
67150233 ATAGTGAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 3 0.11
14 20 0.74
15 4 0.15
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.73
Consensus pattern (14 bp):
TATATTTTTTTATC
Found at i:67151145 original size:10 final size:10
Alignment explanation
Indices: 67151132--67151178 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
67151122 TTTAGGAAAA
67151132 TTTTTTATAT
1 TTTTTTATAT
67151142 TTTTTTATAT
1 TTTTTTATAT
*
67151152 ATTTTTGGAT-T
1 -TTTTT-TATAT
67151163 TTTTTTA-AT
1 TTTTTTATAT
67151172 TTTTTTA
1 TTTTTTA
67151179 GACGTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
9 9 0.28
10 15 0.47
11 6 0.19
12 2 0.06
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (10 bp):
TTTTTTATAT
Found at i:67153945 original size:37 final size:37
Alignment explanation
Indices: 67153885--67153998 Score: 92
Period size: 38 Copynumber: 3.1 Consensus size: 37
67153875 ATTCCTCAGC
** *
67153885 TTTTACAAAACAATCCC-AGAAATTCAGATTTT-AATT
1 TTTTACAATTCAATCCCTA-AAATTCAGATTTTCAACT
* * * *
67153921 CTTTTACGATTTAGTCCCTAAAATTTTAGATTTTCAACT
1 -TTTTACAATTCAATCCCTAAAA-TTCAGATTTTCAACT
* *
67153960 TTTTACAATTCAATCCCTAAAA-TCATA-TTTCAACG
1 TTTTACAATTCAATCCCTAAAATTCAGATTTTCAACT
67153995 TTTT
1 TTTT
67153999 CCCGATCAGT
Statistics
Matches: 61, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
35 11 0.18
36 3 0.05
37 15 0.25
38 29 0.48
39 3 0.05
ACGTcount: A:0.34, C:0.18, G:0.05, T:0.42
Consensus pattern (37 bp):
TTTTACAATTCAATCCCTAAAATTCAGATTTTCAACT
Found at i:67170076 original size:3 final size:3
Alignment explanation
Indices: 67170068--67170099 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
67170058 ACAAAAAGAA
67170068 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
67170100 CAAAGCTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:67172657 original size:652 final size:652
Alignment explanation
Indices: 67171409--67172719 Score: 2613
Period size: 652 Copynumber: 2.0 Consensus size: 652
67171399 ACAAATCATA
67171409 AAAATTAATATTGAGGGGTAAATTTTAATTAAAAATCAAAGTTGTTGGCAAAATTTAATAAAATT
1 AAAA-TAATATTGAGGGGTAAATTTTAATTAAAAATCAAAGTTGTTGGCAAAATTTAATAAAATT
67171474 CAAAGCTTAATTATAATGACAAATATCAATGAAAATAAAGTATAGTGACAAATTTTAATATTCAC
65 CAAAGCTTAATTATAATGACAAATATCAATGAAAATAAAGTATAGTGACAAATTTTAATATTCAC
67171539 ATGTAATATGATAATAATTTTGCATTTTAACCCTAATTTTTTAAATTAAATTGTTAATGTTTTTA
130 ATGTAATATGATAATAATTTTGCATTTTAACCCTAATTTTTTAAATTAAATTGTTAATGTTTTTA
67171604 ATAATAAACTATTTAATTTAATAAATATAATATATTAAACAATATATTCGAATACAATTATCATG
195 ATAATAAACTATTTAATTTAATAAATATAATATATTAAACAATATATTCGAATACAATTATCATG
67171669 AAATTAATATATATTATTTATTATTATTGAAATATTTTAACTCCACAATTAATAATTAAAAGTTG
260 AAATTAATATATATTATTTATTATTATTGAAATATTTTAACTCCACAATTAATAATTAAAAGTTG
67171734 TCATATCACCTTATATAATAGTAAAAGAATATAAATTAATTAAAATGCACATTTGTGAAAGTCAA
325 TCATATCACCTTATATAATAGTAAAAGAATATAAATTAATTAAAATGCACATTTGTGAAAGTCAA
67171799 ATATTATAATTTAAATATTTTATTTTTAACAAAAGTAAAGGGATACTTTATTTTGAATATAAATT
390 ATATTATAATTTAAATATTTTATTTTTAACAAAAGTAAAGGGATACTTTATTTTGAATATAAATT
67171864 AATATTAATTAATTATTGTGATTCAATTGAATTGATGTTCGAATTTTATCATATATTACTCTTTA
455 AATATTAATTAATTATTGTGATTCAATTGAATTGATGTTCGAATTTTATCATATATTACTCTTTA
67171929 TCTTTTATATGTGAAAGTCAAATATTTTTTTGCAACATAGGTCAAATATTATCAGATATTTGAGA
520 TCTTTTATATGTGAAAGTCAAATATTTTTTTGCAACATAGGTCAAATATTATCAGATATTTGAGA
67171994 ATCTGATTTTTTTTTCCCTTTGTTCTTTCACCGCATAGGTCTTTTTAGTTGCTTATTAGTTGGTT
585 ATCTGATTTTTTTTTCCCTTTGTTCTTTCACCGCATAGGTCTTTTTAGTTGCTTATTAGTTGGTT
67172059 GTT
650 GTT
67172062 AAAATAATATTGAGGGGTAAATTTTAATTAAAAATCAAAGTTGTTGGCAAAATTTAATAAAATTC
1 AAAATAATATTGAGGGGTAAATTTTAATTAAAAATCAAAGTTGTTGGCAAAATTTAATAAAATTC
67172127 AAAGCTTAATTATAATGACAAATATCAATGAAAATAAAGTATAGTGACAAATTTTAATATTCACA
66 AAAGCTTAATTATAATGACAAATATCAATGAAAATAAAGTATAGTGACAAATTTTAATATTCACA
67172192 TGTAATATGATAATAATTTTGCATTTTAACCCTAATTTTTTAAATTAAATTGTTAATGTTTTTAA
131 TGTAATATGATAATAATTTTGCATTTTAACCCTAATTTTTTAAATTAAATTGTTAATGTTTTTAA
67172257 TAATAAACTATTTAATTTAATAAATATAATATATTAAACAATATATTCGAATACAATTATCATGA
196 TAATAAACTATTTAATTTAATAAATATAATATATTAAACAATATATTCGAATACAATTATCATGA
67172322 AATTAATATATATTATTTATTATTATTGAAATATTTTAACTCCACAATTAATAATTAAAAGTTGT
261 AATTAATATATATTATTTATTATTATTGAAATATTTTAACTCCACAATTAATAATTAAAAGTTGT
67172387 CATATCACCTTATATAATAGTAAAAGAATATAAATTAATTAAAATGCACATTTGTGAAAGTCAAA
326 CATATCACCTTATATAATAGTAAAAGAATATAAATTAATTAAAATGCACATTTGTGAAAGTCAAA
67172452 TATTATAATTTAAATATTTTATTTTTAACAAAAGTAAAGGGATACTTTATTTTGAATATAAATTA
391 TATTATAATTTAAATATTTTATTTTTAACAAAAGTAAAGGGATACTTTATTTTGAATATAAATTA
67172517 ATATTAATTAATTATTGTGATTCAATTGAATTGATGTTCGAATTTTATCATATATTACTCTTTAT
456 ATATTAATTAATTATTGTGATTCAATTGAATTGATGTTCGAATTTTATCATATATTACTCTTTAT
67172582 CTTTTATATGTGAAAGTCAAATATTTTTTTGCAACATAGGTCAAATATTATCAGATATTTGAGAA
521 CTTTTATATGTGAAAGTCAAATATTTTTTTGCAACATAGGTCAAATATTATCAGATATTTGAGAA
67172647 TCTGATTTTTTTTTCCCTTTGTTCTTTCACCGCATAGGTCTTTTTAGTTGCTTATTAGTTGGTTG
586 TCTGATTTTTTTTTCCCTTTGTTCTTTCACCGCATAGGTCTTTTTAGTTGCTTATTAGTTGGTTG
67172712 TT
651 TT
67172714 AAAATA
1 AAAATA
67172720 CTTGTACAAA
Statistics
Matches: 658, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
652 654 0.99
653 4 0.01
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.42
Consensus pattern (652 bp):
AAAATAATATTGAGGGGTAAATTTTAATTAAAAATCAAAGTTGTTGGCAAAATTTAATAAAATTC
AAAGCTTAATTATAATGACAAATATCAATGAAAATAAAGTATAGTGACAAATTTTAATATTCACA
TGTAATATGATAATAATTTTGCATTTTAACCCTAATTTTTTAAATTAAATTGTTAATGTTTTTAA
TAATAAACTATTTAATTTAATAAATATAATATATTAAACAATATATTCGAATACAATTATCATGA
AATTAATATATATTATTTATTATTATTGAAATATTTTAACTCCACAATTAATAATTAAAAGTTGT
CATATCACCTTATATAATAGTAAAAGAATATAAATTAATTAAAATGCACATTTGTGAAAGTCAAA
TATTATAATTTAAATATTTTATTTTTAACAAAAGTAAAGGGATACTTTATTTTGAATATAAATTA
ATATTAATTAATTATTGTGATTCAATTGAATTGATGTTCGAATTTTATCATATATTACTCTTTAT
CTTTTATATGTGAAAGTCAAATATTTTTTTGCAACATAGGTCAAATATTATCAGATATTTGAGAA
TCTGATTTTTTTTTCCCTTTGTTCTTTCACCGCATAGGTCTTTTTAGTTGCTTATTAGTTGGTTG
TT
Found at i:67174143 original size:2 final size:2
Alignment explanation
Indices: 67174136--67174170 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
67174126 NNNNNNNTAT
67174136 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 T
67174171 GGAAGGCATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:67185727 original size:3 final size:3
Alignment explanation
Indices: 67185719--67185788 Score: 106
Period size: 3 Copynumber: 23.3 Consensus size: 3
67185709 TTTAGTAATT
*
67185719 TTA TTA TTA TT- TTCT TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
67185764 TTA TTA TTA TTA TTA TTA TCA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
67185789 ATTTCCATTA
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
2 2 0.03
3 58 0.94
4 2 0.03
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:67189279 original size:28 final size:26
Alignment explanation
Indices: 67189166--67189279 Score: 126
Period size: 26 Copynumber: 4.4 Consensus size: 26
67189156 GGCTATATAA
*
67189166 CGGGAAGCTCA-TAAGAGCCA-TAAT
1 CGGGAAGCTCACAAAGAGCCATTAAT
***
67189190 CGGGAAGCTC-CGGGGAGCCATTAAT
1 CGGGAAGCTCACAAAGAGCCATTAAT
* *
67189215 CAGGAAGCTCACAAAGAGCCTTTAAT
1 CGGGAAGCTCACAAAGAGCCATTAAT
67189241 CGGGAAGCTCACAAAGAGCCATATATAT
1 CGGGAAGCTCACAAAGAGCCAT-TA-AT
*
67189269 CGGGACGCTCA
1 CGGGAAGCTCA
67189280 TAAGAGTTGT
Statistics
Matches: 74, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
24 16 0.22
25 13 0.18
26 31 0.42
27 2 0.03
28 12 0.16
ACGTcount: A:0.33, C:0.24, G:0.26, T:0.17
Consensus pattern (26 bp):
CGGGAAGCTCACAAAGAGCCATTAAT
Found at i:67192444 original size:10 final size:10
Alignment explanation
Indices: 67192383--67192436 Score: 51
Period size: 10 Copynumber: 5.7 Consensus size: 10
67192373 AAATTAGAAA
*
67192383 AAAAAATTAT
1 AAAATATTAT
*
67192393 -AAAT-TTGT
1 AAAATATTAT
*
67192401 AAAATTTTAT
1 AAAATATTAT
*
67192411 AAAA-ATCAT
1 AAAATATTAT
67192420 AAAATATTAT
1 AAAATATTAT
67192430 AAAATAT
1 AAAATAT
67192437 ATAGAAATGT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
8 3 0.09
9 14 0.40
10 18 0.51
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (10 bp):
AAAATATTAT
Found at i:67192998 original size:16 final size:16
Alignment explanation
Indices: 67192977--67193008 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
67192967 TTTTATAATA
67192977 TTTTTTACAATTTTAT
1 TTTTTTACAATTTTAT
*
67192993 TTTTTTACTATTTTAT
1 TTTTTTACAATTTTAT
67193009 AAAAAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTTTACAATTTTAT
Found at i:67193103 original size:11 final size:11
Alignment explanation
Indices: 67193072--67193111 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
67193062 TAAAAAATTC
67193072 AATTTTTTTAT
1 AATTTTTTTAT
* *
67193083 AAATTCTTTAT
1 AATTTTTTTAT
*
67193094 GATTTTTTTAT
1 AATTTTTTTAT
67193105 AATTTTT
1 AATTTTT
67193112 GTGATTGAGA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (11 bp):
AATTTTTTTAT
Found at i:67203123 original size:31 final size:30
Alignment explanation
Indices: 67203081--67203159 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 30
67203071 TTTTATAATA
*
67203081 AATTTTAAATATTTTTTCTACA-AATTTTTTAT
1 AATTTTTAATA-TTTTTC--CATAATTTTTTAT
*
67203113 -ATTTTTAATATATTTCCATAATTTTTTAT
1 AATTTTTAATATTTTTCCATAATTTTTTAT
67203142 AAATTTTTAATAATTTTT
1 -AATTTTTAAT-ATTTTT
67203160 ATAACTTTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
28 2 0.05
29 10 0.25
30 5 0.12
31 18 0.45
32 5 0.12
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (30 bp):
AATTTTTAATATTTTTCCATAATTTTTTAT
Found at i:67203138 original size:41 final size:40
Alignment explanation
Indices: 67203052--67203160 Score: 105
Period size: 41 Copynumber: 2.6 Consensus size: 40
67203042 AATTTTTGTG
*
67203052 ATTTTTATAAAATTTTTTAT-TTTATAATAAATTTTAAATA
1 ATTTTT-TAAAATTTTTTATATTTTTAATAAATTTTAAATA
* * **
67203092 TTTTTTCTACAAATTTTTTATATTTTTAATATA-TTTCCATA
1 ATTTTT-TA-AAATTTTTTATATTTTTAATAAATTTTAAATA
*
67203133 ATTTTTTATAAATTTTTAATAATTTTTA
1 ATTTTTTA-AAATTTTTTAT-ATTTTTA
67203161 TAACTTTATT
Statistics
Matches: 57, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
40 19 0.33
41 29 0.51
42 9 0.16
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.61
Consensus pattern (40 bp):
ATTTTTTAAAATTTTTTATATTTTTAATAAATTTTAAATA
Found at i:67203158 original size:20 final size:20
Alignment explanation
Indices: 67203052--67203163 Score: 63
Period size: 20 Copynumber: 5.5 Consensus size: 20
67203042 AATTTTTGTG
67203052 ATTTTTATAAAATTTTT--T-
1 ATTTTTAT-AAATTTTTAATA
*
67203070 ATTTTATAATAAATTTTAAATA
1 ATTTT-T-ATAAATTTTTAATA
* * *
67203092 TTTTTTCTACAAATTTTTTAT-
1 -ATTTT-TATAAATTTTTAATA
* **
67203113 ATTTTTA-ATATATTTCCATA
1 ATTTTTATAAAT-TTTTAATA
67203133 ATTTTTTATAAATTTTTAATA
1 A-TTTTTATAAATTTTTAATA
67203154 ATTTTTATAA
1 ATTTTTATAA
67203164 CTTTATTGAT
Statistics
Matches: 71, Mismatches: 13, Indels: 18
0.70 0.13 0.18
Matches are distributed among these distances:
18 8 0.11
19 15 0.21
20 16 0.23
21 14 0.20
22 13 0.18
23 5 0.07
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTTTTATAAATTTTTAATA
Found at i:67211956 original size:2 final size:2
Alignment explanation
Indices: 67211949--67211979 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
67211939 GAAGTTCATA
67211949 AG 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 AG A
67211980 TAAGAGGGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:67212609 original size:9 final size:10
Alignment explanation
Indices: 67212584--67212609 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
67212574 ATTTTTTGTT
67212584 TTAAAAATTA
1 TTAAAAATTA
67212594 TTAAAAATTA
1 TTAAAAATTA
67212604 TTAAAA
1 TTAAAA
67212610 CGTCTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:67213048 original size:9 final size:9
Alignment explanation
Indices: 67213034--67213115 Score: 51
Period size: 9 Copynumber: 8.7 Consensus size: 9
67213024 TTTTGATGCA
67213034 TTTTATATT
1 TTTTATATT
67213043 TTTTATATT
1 TTTTATATT
*
67213052 TTTT-TACTA
1 TTTTATA-TT
67213061 TTTTATAATT
1 TTTTAT-ATT
67213071 CTTTCTA-ATT
1 -TTT-TATATT
*
67213081 TTTAATAAATT
1 TTT--TATATT
**
67213092 TTAAATATT
1 TTTTATATT
*
67213101 TTTTTTATT
1 TTTTATATT
67213110 TTTTAT
1 TTTTAT
67213116 TAAAATTTAA
Statistics
Matches: 56, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
8 2 0.04
9 36 0.64
10 7 0.12
11 9 0.16
12 2 0.04
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTATATT
Found at i:67215554 original size:8 final size:8
Alignment explanation
Indices: 67215541--67215616 Score: 109
Period size: 8 Copynumber: 9.4 Consensus size: 8
67215531 GAAAACAAAT
67215541 AAAATATA
1 AAAATATA
67215549 AAAATATA
1 AAAATATA
67215557 AAAATATA
1 AAAATATA
67215565 AAAATATA
1 AAAATATA
67215573 AAAATATA
1 AAAATATA
67215581 AAAATATA
1 AAAATATA
67215589 AAAATA-A
1 AAAATATA
*
67215596 ACAAATAGA
1 A-AAATATA
*
67215605 CAAAATTTA
1 -AAAATATA
67215614 AAA
1 AAA
67215617 GTAGAAGATG
Statistics
Matches: 63, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
7 2 0.03
8 54 0.86
9 6 0.10
10 1 0.02
ACGTcount: A:0.74, C:0.03, G:0.01, T:0.22
Consensus pattern (8 bp):
AAAATATA
Found at i:67218938 original size:19 final size:18
Alignment explanation
Indices: 67218898--67218938 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
67218888 AATATTACAC
*
67218898 ATTTCAATTTCACATTAA
1 ATTTCAATTTCACACTAA
*
67218916 ATTTCAATTTTCACACTAT
1 ATTTCAA-TTTCACACTAA
67218935 ATTT
1 ATTT
67218939 TGATTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTCAATTTCACACTAA
Found at i:67225511 original size:3 final size:3
Alignment explanation
Indices: 67225503--67225529 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
67225493 ATATTTAAAA
67225503 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG
67225530 CTTTTGTTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:67228548 original size:21 final size:22
Alignment explanation
Indices: 67228501--67228559 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
67228491 ATAAAAATTA
* * *
67228501 TTTTTTTATTGCTTTCTTGTTG
1 TTTTTTTACTGTTTTGTTGTTG
*
67228523 GTTTTTTACTGTTTTGTTGTT-
1 TTTTTTTACTGTTTTGTTGTTG
* *
67228544 TTTTTTCACTATTTTG
1 TTTTTTTACTGTTTTG
67228560 CTACCATTTC
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 13 0.43
22 17 0.57
ACGTcount: A:0.07, C:0.08, G:0.14, T:0.71
Consensus pattern (22 bp):
TTTTTTTACTGTTTTGTTGTTG
Found at i:67231284 original size:46 final size:49
Alignment explanation
Indices: 67231213--67231318 Score: 164
Period size: 46 Copynumber: 2.2 Consensus size: 49
67231203 TTGAAAGGCT
67231213 ATAACTTTTGGCTCGGTTGTCCGATTGAGACGA-TTTTTTTT-ATTTCGA
1 ATAACTTTT-GCTCGGTTGTCCGATTGAGACGATTTTTTTTTGATTTCGA
*
67231261 ATAACTTTT-CTCGGTTGTTCGATTGAGACGATTTTTTTTTTGATTTCGA
1 ATAACTTTTGCTCGGTTGTCCGATTGAGACGA-TTTTTTTTTGATTTCGA
67231310 ATAACTTTT
1 ATAACTTTT
67231319 TGAGATCTAC
Statistics
Matches: 54, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
46 21 0.39
48 17 0.31
49 16 0.30
ACGTcount: A:0.20, C:0.13, G:0.18, T:0.49
Consensus pattern (49 bp):
ATAACTTTTGCTCGGTTGTCCGATTGAGACGATTTTTTTTTGATTTCGA
Found at i:67234972 original size:56 final size:56
Alignment explanation
Indices: 67234881--67234990 Score: 184
Period size: 56 Copynumber: 2.0 Consensus size: 56
67234871 TTATCTTTGT
* *
67234881 GCTTCAACACATTTGAACCTACATTCTCTTGCACTGACAACAATGTCAATGCTTGC
1 GCTTCAACACACTTGAACCTACATTCTCTTACACTGACAACAATGTCAATGCTTGC
* *
67234937 GCTTCAACGCACTTGAACCTACATTCTCTTACACTGACAACAATGTCGATGCTT
1 GCTTCAACACACTTGAACCTACATTCTCTTACACTGACAACAATGTCAATGCTT
67234991 ATTTAGCTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.30
Consensus pattern (56 bp):
GCTTCAACACACTTGAACCTACATTCTCTTACACTGACAACAATGTCAATGCTTGC
Found at i:67240304 original size:17 final size:16
Alignment explanation
Indices: 67240272--67240313 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
67240262 AAAAAAGATA
67240272 ATTTAATTTTTAATTT
1 ATTTAATTTTTAATTT
*
67240288 ATTTAACTTTTTTATTT
1 ATTTAA-TTTTTAATTT
*
67240305 AATTAATTT
1 ATTTAATTT
67240314 AATAAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTTAATTTTTAATTT
Found at i:67244070 original size:15 final size:15
Alignment explanation
Indices: 67244050--67244093 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
67244040 AGAAGATGGG
67244050 GATGCA-AAGGAAGAA
1 GATGCAGAA-GAAGAA
67244065 GATGCAGAAGAAGAA
1 GATGCAGAAGAAGAA
67244080 G-T--AGAAGAAGAA
1 GATGCAGAAGAAGAA
67244092 GA
1 GA
67244094 CGAAGAAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 11 0.41
14 1 0.04
15 13 0.48
16 2 0.07
ACGTcount: A:0.55, C:0.05, G:0.34, T:0.07
Consensus pattern (15 bp):
GATGCAGAAGAAGAA
Found at i:67244076 original size:3 final size:3
Alignment explanation
Indices: 67244059--67244102 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
67244049 GGATGCAAAG
* * * *
67244059 GAA GAA GAT GCA GAA GAA GAA GTA GAA GAA GAA GAC GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
67244103 TGAGTACGAG
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.57, C:0.05, G:0.34, T:0.05
Consensus pattern (3 bp):
GAA
Found at i:67258601 original size:23 final size:23
Alignment explanation
Indices: 67258573--67258621 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
67258563 TCTAATCTAA
67258573 TATTTACAAGATATGATTTTCTC
1 TATTTACAAGATATGATTTTCTC
67258596 TATTTACAAGATATGATTTTCTC
1 TATTTACAAGATATGATTTTCTC
67258619 TAT
1 TAT
67258622 CTTTTAAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.31, C:0.12, G:0.08, T:0.49
Consensus pattern (23 bp):
TATTTACAAGATATGATTTTCTC
Found at i:67264029 original size:174 final size:171
Alignment explanation
Indices: 67263732--67264075 Score: 433
Period size: 174 Copynumber: 2.0 Consensus size: 171
67263722 CTTCAAGCAA
* * * *
67263732 GGAACAAAATAAAAGCATAAAGTGACCATACAGAATGTTTCCATTTAAAACGACCATCACAGCAA
1 GGAACAAAACAAAAGCATAAAGTGACCATACAGAATGTTTCCATCTAAAACAACCATCACAGAAA
* *
67263797 ACCGCAGTAACATCATCATAATGAATATTTCAAGGCCAATAACCCCAAACAATGTGATGCTTACT
66 AACGCAGTAACATCATCAAAATGAATATTTCAAGGCCAATAACCCCAAACAATGTGATGCTTACT
* * *
67263862 ATATTTTCAACATTGTGGGAGCCCTAAATCCTCACCACAAT
131 ACAATTTCAACATTGTGGGAACCCTAAATCCTCACCACAAT
* *
67263903 GGAACAAAACAAAAGCATGAATGTGACCATATAGAATGTTTCCA-CTAAAA-AACCATCACAGAA
1 GGAACAAAACAAAAGCAT-AAAGTGACCATACAGAATGTTTCCATCTAAAACAACCATCACAGAA
* * * ** **
67263966 AAATGCAGTGACATCATAAGAAAGACTGAATATTTCAAGGCCAA-AATTTCCAAACCGTGTGATG
65 AAACGCAGTAACATCAT--CAAA-A-TGAATATTTCAAGGCCAATAA-CCCCAAACAATGTGATG
* *
67264030 CTTACTACAATTTCAACATTGTGGGAACCTTAGATCCTCACCACAA
125 CTTACTACAATTTCAACATTGTGGGAACCCTAAATCCTCACCACAA
67264076 CGGACATGCA
Statistics
Matches: 147, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
170 25 0.17
171 22 0.15
172 25 0.17
173 3 0.02
174 72 0.49
ACGTcount: A:0.41, C:0.22, G:0.14, T:0.23
Consensus pattern (171 bp):
GGAACAAAACAAAAGCATAAAGTGACCATACAGAATGTTTCCATCTAAAACAACCATCACAGAAA
AACGCAGTAACATCATCAAAATGAATATTTCAAGGCCAATAACCCCAAACAATGTGATGCTTACT
ACAATTTCAACATTGTGGGAACCCTAAATCCTCACCACAAT
Found at i:67278657 original size:45 final size:45
Alignment explanation
Indices: 67278570--67278728 Score: 135
Period size: 45 Copynumber: 3.6 Consensus size: 45
67278560 TACACGGTGG
* *
67278570 ATCAGCACATAGC-ACCACCCT-TATAGTCAATGGTA-CTAGGTGAA
1 ATCAGCACATAGCAACCA-CCTATATAATCATTGGTATC-AGGTGAA
* *
67278614 ATCAGCACATAGCAACCACCTATATAACCATTGGTATCCGGTGAA
1 ATCAGCACATAGCAACCACCTATATAATCATTGGTATCAGGTGAA
* * * * ** ** * *
67278659 ATCAGTACATAGCCACCACATTTATTTTCATTAATATCGGGTGGA
1 ATCAGCACATAGCAACCACCTATATAATCATTGGTATCAGGTGAA
* *
67278704 ATCAGCACATAGGATCCACCTATAT
1 ATCAGCACATAGCAACCACCTATAT
67278729 TTCCAACGAT
Statistics
Matches: 91, Mismatches: 21, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
44 16 0.18
45 74 0.81
46 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.26
Consensus pattern (45 bp):
ATCAGCACATAGCAACCACCTATATAATCATTGGTATCAGGTGAA
Found at i:67286269 original size:14 final size:14
Alignment explanation
Indices: 67286250--67286277 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
67286240 AAATCAAACA
67286250 GAAATACCTTCAGC
1 GAAATACCTTCAGC
67286264 GAAATACCTTCAGC
1 GAAATACCTTCAGC
67286278 CATTGTCTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.29, G:0.14, T:0.21
Consensus pattern (14 bp):
GAAATACCTTCAGC
Found at i:67287557 original size:19 final size:19
Alignment explanation
Indices: 67287535--67287571 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
67287525 TTTAAAATAC
*
67287535 TTTTAAAATATTTTTTTAT
1 TTTTAAAATAATTTTTTAT
67287554 TTTTAAAATAATTTTTTA
1 TTTTAAAATAATTTTTTA
67287572 GTGTTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTTAAAATAATTTTTTAT
Found at i:67287578 original size:20 final size:19
Alignment explanation
Indices: 67287536--67287578 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
67287526 TTAAAATACT
* *
67287536 TTTAAAATATTTTTTTATT
1 TTTAAAATAATTTTTTATG
67287555 TTTAAAATAATTTTTTAGTG
1 TTTAAAATAATTTTTTA-TG
67287575 TTTA
1 TTTA
67287579 TTAAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (19 bp):
TTTAAAATAATTTTTTATG
Found at i:67288363 original size:14 final size:14
Alignment explanation
Indices: 67288344--67288371 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
67288334 AAATCAAACA
67288344 GAAATACCTTCAGC
1 GAAATACCTTCAGC
67288358 GAAATACCTTCAGC
1 GAAATACCTTCAGC
67288372 CATTGTCTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.29, G:0.14, T:0.21
Consensus pattern (14 bp):
GAAATACCTTCAGC
Found at i:67289622 original size:12 final size:12
Alignment explanation
Indices: 67289605--67289644 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
67289595 ATATTTTTAA
67289605 TTTTAAAATACT
1 TTTTAAAATACT
67289617 TTTTAAAATACT
1 TTTTAAAATACT
*
67289629 TTTTAAAATAAT
1 TTTTAAAATACT
67289641 TTTT
1 TTTT
67289645 TATTTTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (12 bp):
TTTTAAAATACT
Found at i:67289680 original size:26 final size:27
Alignment explanation
Indices: 67289628--67289682 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
67289618 TTTAAAATAC
* *
67289628 TTTTTAAAATAATTTTTTATTTTTTTA
1 TTTTTAAAATAATTTTTTATGTGTTTA
67289655 TTTTTAAAATAATTTTTTA-GTGTTTA
1 TTTTTAAAATAATTTTTTATGTGTTTA
67289681 TT
1 TT
67289683 AAAAAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 7 0.27
27 19 0.73
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (27 bp):
TTTTTAAAATAATTTTTTATGTGTTTA
Found at i:67289689 original size:26 final size:27
Alignment explanation
Indices: 67289633--67289692 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 27
67289623 AATACTTTTT
* * ***
67289633 AAAATAATTTTTTATTTTTTTATTTTT
1 AAAATAATTTTTTATGTGTTTATTAAA
67289660 AAAATAATTTTTTA-GTGTTTATTAAA
1 AAAATAATTTTTTATGTGTTTATTAAA
67289686 AAAATAA
1 AAAATAA
67289693 ACCGGGTCGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 14 0.50
27 14 0.50
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (27 bp):
AAAATAATTTTTTATGTGTTTATTAAA
Found at i:67289848 original size:13 final size:13
Alignment explanation
Indices: 67289830--67289855 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
67289820 TAACCAGTTT
67289830 GATGAGCATATTC
1 GATGAGCATATTC
67289843 GATGAGCATATTC
1 GATGAGCATATTC
67289856 ACTTCTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GATGAGCATATTC
Found at i:67301131 original size:22 final size:22
Alignment explanation
Indices: 67301105--67301146 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
67301095 TTTGTTTTGA
67301105 TTTTTAAGTTCTCTTTATTTAC
1 TTTTTAAGTTCTCTTTATTTAC
* *
67301127 TTTTTAAGTTTTTTTTATTT
1 TTTTTAAGTTCTCTTTATTT
67301147 GTCCTTTATT
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:0.17, C:0.07, G:0.05, T:0.71
Consensus pattern (22 bp):
TTTTTAAGTTCTCTTTATTTAC
Found at i:67301245 original size:21 final size:22
Alignment explanation
Indices: 67301216--67301261 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
67301206 TTTGAAATGT
*
67301216 TTTATTTTTTAAG-TTTCTTTA
1 TTTACTTTTTAAGTTTTCTTTA
*
67301237 TTTACTTTTTAAGTTTTTTTTA
1 TTTACTTTTTAAGTTTTCTTTA
67301259 TTT
1 TTT
67301262 GTCCTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.74
Consensus pattern (22 bp):
TTTACTTTTTAAGTTTTCTTTA
Found at i:67301247 original size:115 final size:116
Alignment explanation
Indices: 67301097--67301309 Score: 394
Period size: 115 Copynumber: 1.8 Consensus size: 116
67301087 TTTTTTTTTT
67301097 TGTTTTGATTTTTAAGTTCTCTTTATTTACTTTTTAAGTTTTTTTTATTTGTCCTTTATTTATTT
1 TGTTTTGATTTTTAAGTTCTCTTTATTTACTTTTTAAGTTTTTTTTATTTGTCCTTTATTTATTT
*
67301162 TATTTATTTGTTTATTATTGGTTTTATAAAATTTGAAATGTATATTTGAAA
66 TATTTATTTGTTTATTATTGGTTTTAGAAAATTTGAAATGTATATTTGAAA
67301213 TGTTTT-ATTTTTTAAGTT-TCTTTATTTACTTTTTAAGTTTTTTTTATTTGTCCTTTATTTATT
1 TGTTTTGA-TTTTTAAGTTCTCTTTATTTACTTTTTAAGTTTTTTTTATTTGTCCTTTATTTATT
67301276 TTATTTATTTGTTTATTATTGGTTTTAGAAAATT
65 TTATTTATTTGTTTATTATTGGTTTTAGAAAATT
67301310 AAAATATATA
Statistics
Matches: 95, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
115 79 0.83
116 16 0.17
ACGTcount: A:0.22, C:0.04, G:0.09, T:0.65
Consensus pattern (116 bp):
TGTTTTGATTTTTAAGTTCTCTTTATTTACTTTTTAAGTTTTTTTTATTTGTCCTTTATTTATTT
TATTTATTTGTTTATTATTGGTTTTAGAAAATTTGAAATGTATATTTGAAA
Found at i:67304733 original size:8 final size:7
Alignment explanation
Indices: 67304705--67304732 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
67304695 CACCAAAATA
67304705 AAATTTT
1 AAATTTT
67304712 AAATTTT
1 AAATTTT
67304719 AAATTTT
1 AAATTTT
67304726 AAATTTT
1 AAATTTT
67304733 TATATTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
AAATTTT
Found at i:67304806 original size:15 final size:15
Alignment explanation
Indices: 67304782--67304813 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
67304772 AATAAAGTGG
67304782 TGGAGCCATTCTAAA
1 TGGAGCCATTCTAAA
*
67304797 TGGAGTCATTCTAAA
1 TGGAGCCATTCTAAA
67304812 TG
1 TG
67304814 AATCCACCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (15 bp):
TGGAGCCATTCTAAA
Found at i:67304867 original size:23 final size:22
Alignment explanation
Indices: 67304841--67304908 Score: 57
Period size: 23 Copynumber: 3.0 Consensus size: 22
67304831 ACTATTTTTT
*
67304841 AAAAATTTTAAATATAGTTTAAA
1 AAAAATTTTAAATAT-CTTTAAA
** *
67304864 AAAACGTTTGAATATCTTTAAA
1 AAAAATTTTAAATATCTTTAAA
* *
67304886 AATAATTTTTAAA-ATTTTTAAA
1 AA-AAATTTTAAATATCTTTAAA
67304908 A
1 A
67304909 TATACATTAA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
22 17 0.47
23 19 0.53
ACGTcount: A:0.51, C:0.03, G:0.04, T:0.41
Consensus pattern (22 bp):
AAAAATTTTAAATATCTTTAAA
Found at i:67306135 original size:2 final size:2
Alignment explanation
Indices: 67306128--67306163 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
67306118 TTCGTAAAAT
67306128 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
67306164 CTCCAAAGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:67306673 original size:27 final size:28
Alignment explanation
Indices: 67306615--67306695 Score: 71
Period size: 27 Copynumber: 3.0 Consensus size: 28
67306605 AAAAAATCAT
*
67306615 TTAAAAACTAATCTGTAAACATATAAAA
1 TTAAAAACTAATCTATAAACATATAAAA
* * *
67306643 -TAAAACCTAATC-ATAAACTTTTAAAA
1 TTAAAAACTAATCTATAAACATATAAAA
* *
67306669 TT-AAAAGTAAT-TATTAAAAATATAAAA
1 TTAAAAACTAATCTA-TAAACATATAAAA
67306696 ATTATTCAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
26 19 0.46
27 22 0.54
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (28 bp):
TTAAAAACTAATCTATAAACATATAAAA
Done.