Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 47 of 204
Found at i:13787871 original size:23 final size:22
Alignment explanation
Indices: 13787820--13787871 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
13787810 CCTCGTCTTT
*
13787820 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
13787842 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
13787865 TTCTTTT
1 TTCTTTT
13787872 TCAATTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:13787880 original size:12 final size:12
Alignment explanation
Indices: 13787829--13787883 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
13787819 TTTCTTTTGT
13787829 TTCTTTTTCTAAC
1 TTCTTTTTC-AAC
* *
13787842 -TCATTTTC-TC
1 TTCTTTTTCAAC
13787852 TTCTTTCTTCAAC
1 TTCTTT-TTCAAC
*
13787865 TTCTTTTTCAAT
1 TTCTTTTTCAAC
13787877 TTCTTTT
1 TTCTTTT
13787884 CTGTTTCACA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 1 0.03
11 4 0.12
12 22 0.65
13 7 0.21
ACGTcount: A:0.13, C:0.24, G:0.00, T:0.64
Consensus pattern (12 bp):
TTCTTTTTCAAC
Found at i:13803956 original size:18 final size:18
Alignment explanation
Indices: 13803933--13803973 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
13803923 ATAAATTCTC
13803933 TTTTTAAAAGAAAAATTA
1 TTTTTAAAAGAAAAATTA
*
13803951 TTTTT--AATAAAAATTA
1 TTTTTAAAAGAAAAATTA
13803967 TTTTTAA
1 TTTTTAA
13803974 TATTTTCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 15 0.75
18 5 0.25
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
TTTTTAAAAGAAAAATTA
Found at i:13803964 original size:16 final size:16
Alignment explanation
Indices: 13803943--13803975 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
13803933 TTTTTAAAAG
13803943 AAAAATTATTTTTAAT
1 AAAAATTATTTTTAAT
13803959 AAAAATTATTTTTAAT
1 AAAAATTATTTTTAAT
13803975 A
1 A
13803976 TTTTCTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AAAAATTATTTTTAAT
Found at i:13804410 original size:35 final size:35
Alignment explanation
Indices: 13804213--13804514 Score: 229
Period size: 35 Copynumber: 8.5 Consensus size: 35
13804203 ATACAAATTT
* * * * *
13804213 TTTTTTAAAAAACGAGAATTTTAGAAGCACGAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAAAA
* *
13804248 TTTTTTG-AAACACTG-AAATTTATGAAACACGAGCAA
1 -TTTTTGAAAACAC-GAAAATTTTTGAAACACGA-AAA
* * * * * * *
13804284 TTTTTTAAAACGCAAAAATTTTTAAAAGACGGGAAT
1 TTTTTGAAAACACGAAAATTTTTGAAACAC-GAAAA
* * * *
13804320 TTTTTGCAAACACGGAAATTTATGAAACACGAGAATTT
1 TTTTTGAAAACACGAAAATTTTTGAAACACGA-AA--A
13804358 TTTTTGAAAACACGAAAATTTTTGAAACACGAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAAAA
*
13804393 TTTTTGAAAACACGAAAATTTGTGAAACAC-AATAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAA-AA
*
13804428 TTTTTGAAAACACGAAAATTGTTGAAAACACGAAAAA
1 TTTTTGAAAACACGAAAATTTTTG-AAACACG-AAAA
* * * * *
13804465 ATTTTGAAATAC-CG-GATTTTTTGAAAACATGAAGA
1 TTTTTGAAA-ACACGAAAATTTTTG-AAACACGAAAA
13804500 TTTTTG-AAACACGAA
1 TTTTTGAAAACACGAA
13804515 TTTTTTTATT
Statistics
Matches: 211, Mismatches: 40, Indels: 31
0.75 0.14 0.11
Matches are distributed among these distances:
33 2 0.01
34 6 0.03
35 85 0.40
36 69 0.33
37 15 0.07
38 34 0.16
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (35 bp):
TTTTTGAAAACACGAAAATTTTTGAAACACGAAAA
Found at i:13804521 original size:17 final size:18
Alignment explanation
Indices: 13804213--13804514 Score: 214
Period size: 18 Copynumber: 16.9 Consensus size: 18
13804203 ATACAAATTT
* * *
13804213 TTTTTTAAAAAACGAGAA
1 TTTTTGAAAACACGAAAA
* *
13804231 TTTTAG-AAGCACGAAAA
1 TTTTTGAAAACACGAAAA
13804248 TTTTTTG-AAACACTG-AAA
1 -TTTTTGAAAACAC-GAAAA
* *
13804266 TTTATG-AAACACGAGCAA
1 TTTTTGAAAACACGA-AAA
* * *
13804284 TTTTTTAAAACGCAAAAA
1 TTTTTGAAAACACGAAAA
* * *
13804302 TTTTT-AAAAGACGGGAAT
1 TTTTTGAAAACAC-GAAAA
* *
13804320 TTTTTGCAAACACGGAAA
1 TTTTTGAAAACACGAAAA
* *
13804338 TTTATG-AAACACGAGAATTT
1 TTTTTGAAAACACGA-AA--A
13804358 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
13804376 TTTTTG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
13804393 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
13804411 TTTGTG-AAACAC-AATAA
1 TTTTTGAAAACACGAA-AA
13804428 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
13804446 TTGTTGAAAACACGAAAAA
1 TTTTTGAAAACACG-AAAA
* * *
13804465 ATTTTGAAATAC-CG-GAT
1 TTTTTGAAA-ACACGAAAA
* *
13804482 TTTTTGAAAACATGAAGA
1 TTTTTGAAAACACGAAAA
13804500 TTTTTG-AAACACGAA
1 TTTTTGAAAACACGAA
13804515 TTTTTTTATT
Statistics
Matches: 225, Mismatches: 40, Indels: 39
0.74 0.13 0.13
Matches are distributed among these distances:
16 5 0.02
17 79 0.35
18 97 0.43
19 27 0.12
20 9 0.04
21 8 0.04
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:13804825 original size:5 final size:5
Alignment explanation
Indices: 13804815--13804840 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
13804805 TAAAATTATT
13804815 TAAAA TAAAA TAAAA TAAAA TAAAA T
1 TAAAA TAAAA TAAAA TAAAA TAAAA T
13804841 TTGAATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
TAAAA
Found at i:13804825 original size:15 final size:15
Alignment explanation
Indices: 13804805--13804871 Score: 53
Period size: 15 Copynumber: 4.3 Consensus size: 15
13804795 CCTTATTTAT
**
13804805 TAAAATTATTTAAAA
1 TAAAATTAAATAAAA
*
13804820 TAAAATAAAATAAAA
1 TAAAATTAAATAAAA
* *
13804835 TAAAATTTGAATTAAA
1 TAAAA-TTAAATAAAA
* *
13804851 TTAAATTAAATTAAAT
1 TAAAATTAAA-TAAAA
13804867 TAAAA
1 TAAAA
13804872 ATATAAGTAT
Statistics
Matches: 39, Mismatches: 11, Indels: 3
0.74 0.21 0.06
Matches are distributed among these distances:
15 21 0.54
16 18 0.46
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (15 bp):
TAAAATTAAATAAAA
Found at i:13804852 original size:5 final size:5
Alignment explanation
Indices: 13804844--13804870 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
13804834 ATAAAATTTG
13804844 AATTA AATTA AATTA AATTA AATTA AA
1 AATTA AATTA AATTA AATTA AATTA AA
13804871 AATATAAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AATTA
Found at i:13805051 original size:11 final size:10
Alignment explanation
Indices: 13805030--13805127 Score: 109
Period size: 9 Copynumber: 10.1 Consensus size: 10
13805020 TGAACCCTTG
*
13805030 TTTTCCTTCT
1 TTTTTCTTCT
13805040 TTCTTTCTTCTT
1 TT-TTTCTTC-T
13805052 TTTTTCTTCT
1 TTTTTCTTCT
13805062 TTTTT-TTCT
1 TTTTTCTTCT
*
13805071 TTTTTTTTC-
1 TTTTTCTTCT
13805080 TTTTTCTT-T
1 TTTTTCTTCT
13805089 TCTTTT-TTCT
1 T-TTTTCTTCT
13805099 TTTTTCTTCT
1 TTTTTCTTCT
13805109 TTTTTC-TCT
1 TTTTTCTTCT
13805118 TTTTT-TTCT
1 TTTTTCTTCT
13805127 T
1 T
13805128 CTCTGCTGGG
Statistics
Matches: 78, Mismatches: 2, Indels: 17
0.80 0.02 0.18
Matches are distributed among these distances:
9 35 0.45
10 27 0.35
11 13 0.17
12 3 0.04
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTCTTCT
Found at i:13805056 original size:1 final size:1
Alignment explanation
Indices: 13805050--13805124 Score: 51
Period size: 1 Copynumber: 75.0 Consensus size: 1
13805040 TTCTTTCTTC
* * * * * * * * * *
13805050 TTTTTTTCTTCTTTTTTTTCTTTTTTTTTCTTTTTCTTTTCTTTTTTCTTTTTTCTTCTTTTTTC
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
13805115 TCTTTTTTTT
1 TTTTTTTTTT
13805125 CTTCTCTGCT
Statistics
Matches: 52, Mismatches: 22, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (1 bp):
T
Found at i:13805094 original size:28 final size:27
Alignment explanation
Indices: 13805039--13805127 Score: 117
Period size: 28 Copynumber: 3.2 Consensus size: 27
13805029 GTTTTCCTTC
*
13805039 TTTCTTTCTTCTT-TTTTTCTTCTTTTT
1 TTTCTTTTTTCTTCTTTTTCTT-TTTTT
*
13805066 TTTCTTTTTTTTTCTTTTTCTTTTCTTT
1 TTTCTTTTTTCTTCTTTTTCTTTT-TTT
*
13805094 TTTCTTTTTTCTTCTTTTTTCTCTTTTT
1 TTTCTTTTTTCTTC-TTTTTCTTTTTTT
13805122 TTTCTT
1 TTTCTT
13805128 CTCTGCTGGG
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 13 0.24
28 33 0.60
29 9 0.16
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (27 bp):
TTTCTTTTTTCTTCTTTTTCTTTTTTT
Found at i:13805380 original size:19 final size:19
Alignment explanation
Indices: 13805356--13805450 Score: 66
Period size: 19 Copynumber: 4.8 Consensus size: 19
13805346 TGTTAAAATT
13805356 TTTTTCTATTTT-TTCTTTC
1 TTTTTCT-TTTTCTTCTTTC
*
13805375 TTTTTCTTTTTCTTTTTTC
1 TTTTTCTTTTTCTTCTTTC
** ** *
13805394 TTTCCCCCTTTCTTCTTCC
1 TTTTTCTTTTTCTTCTTTC
* * *
13805413 TTCTTCTTCTTCTTTTTTC
1 TTTTTCTTTTTCTTCTTTC
13805432 TTTCTTTCTTTTTCCTTCT
1 -TT-TTTCTTTTT-CTTCT
13805451 CCTTTCAGCC
Statistics
Matches: 54, Mismatches: 18, Indels: 5
0.70 0.23 0.06
Matches are distributed among these distances:
18 4 0.07
19 37 0.69
20 2 0.04
21 7 0.13
22 4 0.07
ACGTcount: A:0.01, C:0.26, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTTCTTTTTCTTCTTTC
Found at i:13805385 original size:7 final size:7
Alignment explanation
Indices: 13805355--13805444 Score: 51
Period size: 7 Copynumber: 12.7 Consensus size: 7
13805345 CTGTTAAAAT
13805355 TTTTTTC
1 TTTTTTC
*
13805362 TATTTT-
1 TTTTTTC
*
13805368 TTCTTTC
1 TTTTTTC
13805375 -TTTTTC
1 TTTTTTC
13805381 -TTTTTC
1 TTTTTTC
13805387 TTTTTTC
1 TTTTTTC
***
13805394 TTTCCCCC
1 TTT-TTTC
*
13805402 TTTCTTC
1 TTTTTTC
**
13805409 TTCCTTC
1 TTTTTTC
13805416 TTCTTCTTC
1 TT-TT-TTC
13805425 TTTTTTC
1 TTTTTTC
13805432 TTTCTTTC
1 TTT-TTTC
13805440 TTTTT
1 TTTTT
13805445 CCTTCTCCTT
Statistics
Matches: 65, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
6 15 0.23
7 32 0.49
8 13 0.20
9 5 0.08
ACGTcount: A:0.01, C:0.24, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTTTC
Found at i:13805391 original size:13 final size:13
Alignment explanation
Indices: 13805356--13805396 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
13805346 TGTTAAAATT
13805356 TTTTTCTATTTTT-
1 TTTTTCT-TTTTTC
*
13805369 TCTTTC-TTTTTC
1 TTTTTCTTTTTTC
13805381 TTTTTCTTTTTTC
1 TTTTTCTTTTTTC
13805394 TTT
1 TTT
13805397 CCCCCTTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 5 0.21
12 5 0.21
13 14 0.58
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTCTTTTTTC
Found at i:13805570 original size:13 final size:12
Alignment explanation
Indices: 13805539--13805583 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
13805529 CCTTTCCCCT
13805539 TTTTTCTTT-T-
1 TTTTTCTTTCTC
*
13805549 TTCTTCTTTGCTC
1 TTTTTCTTT-CTC
13805562 TTTTTCTTTCTC
1 TTTTTCTTTCTC
13805574 TTTTT-TTTCT
1 TTTTTCTTTCT
13805584 TTTGCTTTCG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
10 8 0.27
11 5 0.17
12 9 0.30
13 8 0.27
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (12 bp):
TTTTTCTTTCTC
Found at i:13805586 original size:21 final size:21
Alignment explanation
Indices: 13805560--13805605 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
13805550 TCTTCTTTGC
* **
13805560 TCTTTTTCTTTCTCTTTTTTT
1 TCTTTTGCTTTCGATTTTTTT
13805581 TCTTTTGCTTTCGATTTTTTT
1 TCTTTTGCTTTCGATTTTTTT
13805602 TCTT
1 TCTT
13805606 CTTTGCTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.02, C:0.17, G:0.04, T:0.76
Consensus pattern (21 bp):
TCTTTTGCTTTCGATTTTTTT
Found at i:13805747 original size:22 final size:22
Alignment explanation
Indices: 13805722--13805773 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
13805712 TGCTCAAAAA
13805722 TTTGTTTTTTTTCTTTTTTTGC
1 TTTGTTTTTTTTCTTTTTTTGC
* * *
13805744 TTTGCTTTTTTTGTTTTTTTTC
1 TTTGTTTTTTTTCTTTTTTTGC
13805766 TCTTGTTT
1 T-TTGTTT
13805774 CTCTTTGCTG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 20 0.80
23 5 0.20
ACGTcount: A:0.00, C:0.10, G:0.10, T:0.81
Consensus pattern (22 bp):
TTTGTTTTTTTTCTTTTTTTGC
Found at i:13806029 original size:30 final size:29
Alignment explanation
Indices: 13805981--13806078 Score: 119
Period size: 30 Copynumber: 3.4 Consensus size: 29
13805971 TTTTAGGGTC
* *
13805981 AAATGTAA-TTCTAGAAAGTTCAAGGGTTA
1 AAATGTAATTTCAAGAAAGTT-AGGGGTTA
*
13806010 AAATGTAATTTCAAGAAAGTTTAGGGGTTG
1 AAATGTAATTTCAAGAAAG-TTAGGGGTTA
* *
13806040 AAATGTAATTTCAAAAAAGTTAGGGGTCA
1 AAATGTAATTTCAAGAAAGTTAGGGGTTA
13806069 AAA-GTAATTT
1 AAATGTAATTT
13806079 TTTTAAAAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
28 7 0.11
29 19 0.31
30 33 0.54
31 2 0.03
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.32
Consensus pattern (29 bp):
AAATGTAATTTCAAGAAAGTTAGGGGTTA
Found at i:13806479 original size:78 final size:76
Alignment explanation
Indices: 13806279--13807142 Score: 916
Period size: 78 Copynumber: 11.1 Consensus size: 76
13806269 ACTGAAATTG
* ** *
13806279 AAAAATACCTCGGCGTGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAA
1 AAAAATACCTCGG-ATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
*
13806344 AATAGAAAATTTTTATTTAAA
65 AACAG--AA-----ATTT--A
* * * *
13806365 AAAAATACCTCAGCATGTGACACGGGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAA
1 AAAAATACCTC-GGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
*
13806430 AACTGAAATTTAA
65 AACAGAAATTT-A
* ** * *
13806443 AAGAAATACCTCGGCATTTG-TTCGAGGCTCAACTCACTTCTTGCAATATGAGTTGATATTTTGA
1 AA-AAATACCTCGG-ATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT-TTTTGA
*
13806507 AAAACAGAAA-TTG
63 AAAACAGAAATTTA
* * *
13806520 AAAAATACCTCAGGATGTGATCTGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGA
1 AAAAATACCTC-GGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGA
* *
13806585 AAAACAGAAA-CTG
63 AAAACAGAAATTTA
13806598 AAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
1 AAAAATACCTC-GGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
13806663 AACA-AAATTTTAA
65 AACAGAAA-TTT-A
*
13806676 AAAAATATCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA
1 AAAAATACCTCGG-ATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAA
* *
13806741 AAACAGAAA-CTG
64 AAACAGAAATTTA
* *
13806753 AAAAATACCGCAGGATGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAA
1 AAAAATACCTC-GGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
* *
13806818 AATAAAAATTTTA
65 AACAGAAA-TTTA
* * *
13806831 AAAAATACCCCGGCATGTGACCCAATGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGAA
1 AAAAATACCTCGG-ATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-GAA
* * * *
13806896 AAATAGGAA-CTG
64 AAACAGAAATTTA
* * * * * *
13806908 GAAAATACCTCAAGATGTGATCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTAAAA
1 AAAAATACCTC-GGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
*
13806973 AATAGAAATTTA
65 AACAGAAATTTA
* *
13806985 AAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCACAATCTGAGTTGATTTCTTTGA
1 AAAAATACCTCGG-ATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT-TTTGA
* *
13807050 AAAA-AGAGAAATTG
63 AAAACAGA-AATTTA
* * * * *
13807064 GAAAATACCTC-GACGTGACTCGAGGCTCAACTTACCTCTCGCAATATGAGCTGATTTTTGAAAA
1 AAAAATACCTCGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
*
13807128 ACAGAAATTGA
66 ACAGAAATTTA
13807139 AAAA
1 AAAA
13807143 TGATTCTTGA
Statistics
Matches: 671, Mismatches: 81, Indels: 63
0.82 0.10 0.08
Matches are distributed among these distances:
75 18 0.03
76 57 0.08
77 226 0.34
78 227 0.34
79 78 0.12
80 3 0.00
84 2 0.00
86 59 0.09
87 1 0.00
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.28
Consensus pattern (76 bp):
AAAAATACCTCGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
ACAGAAATTTA
Found at i:13806549 original size:155 final size:154
Alignment explanation
Indices: 13806272--13807142 Score: 1042
Period size: 155 Copynumber: 5.6 Consensus size: 154
13806262 TTTTTTAACT
* * *
13806272 GAAATTGAAAAATACCTC-GGCGTGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 GAAACTGAAAAATACCTCAGG-ATGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* * * * *
13806336 TTTTAAAAAATAGAAAATTTTTATTTAAAAAAAATACCTCAGCATGTGACACGGGGCTCAACTCA
65 TTTTGAAAAACAG--AA-----ATTT--AAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCA
* *
13806401 CATCTCGCAATATGAGTTGA-TTTTTGAAAAACT
121 CCTCTCGCAATATGAGTTGATTTTTTGAAAAACA
* * * * * *
13806434 GAAATTTAAAAGAAATACCTC-GGCATTTG-TTCGAGGCTCAACTCACTTCTTGCAATATGAGTT
1 GAAA-CT-GAA-AAATACCTCAGG-ATGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *
13806497 GATATTTTGAAAAACAGAAA-TTGAAAAATACCTCAGG-ATGTGATCTGAGGCTCAACTCACCTC
62 GAT-TTTTGAAAAACAGAAATTTAAAAAATACCTC-GGCATGTGACCCGAGGCTCAACTCACCTC
*
13806560 TCGCATTATGAGTTGATTTTTTTGAAAAACA
125 TCGCAATATGAGTTGA-TTTTTTGAAAAACA
*
13806591 GAAACTGAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 GAAACTGAAAAATACCTCAGGATGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
*
13806656 TTTGAAAAACA-AAATTTTAAAAAAATATCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGC
66 TTTGAAAAACAGAAA-TTT-AAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGC
13806720 AATATGAGTTGATTTTTTGAAAAACA
129 AATATGAGTTGATTTTTTGAAAAACA
* * *
13806746 GAAACTGAAAAATACCGCAGGATGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATT
1 GAAACTGAAAAATACCTCAGGATGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
* * * * *
13806811 TTTGAAAAATAAAAATTTTAAAAAATACCCCGGCATGTGACCCAATGCTCAACTCACCTCTCGCA
66 TTTGAAAAACAGAAA-TTTAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCA
* *
13806876 ATATGAGTTGATTTTTGGAAAAATA
130 ATATGAGTTGATTTTTTGAAAAACA
* * * *
13806901 GGAACTGGAAAATACCTCAAGATGTGA-TCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGAT
1 GAAACTGAAAAATACCTCAGGATGTGACTC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
* * *
13806965 TTTTAAAAAATAGAAATTTAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCACA
65 TTTTGAAAAACAGAAATTTAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCA
* *
13807030 ATCTGAGTTGATTTCTTTGAAAAAAGA
130 ATATGAGTTGATTT-TTTG-AAAAACA
* * * * *
13807057 GAAATTGGAAAATACCTC--GACGTGACTCGAGGCTCAACTTACCTCTCGCAATATGAGCTGATT
1 GAAACTGAAAAATACCTCAGGATGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
*
13807120 TTTGAAAAACAGAAATTGAAAAA
66 TTTGAAAAACAGAAATTTAAAAA
13807143 TGATTCTTGA
Statistics
Matches: 627, Mismatches: 64, Indels: 44
0.85 0.09 0.06
Matches are distributed among these distances:
153 3 0.00
154 142 0.23
155 314 0.50
156 80 0.13
157 18 0.03
158 1 0.00
162 4 0.01
163 4 0.01
164 35 0.06
165 26 0.04
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (154 bp):
GAAACTGAAAAATACCTCAGGATGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
TTTGAAAAACAGAAATTTAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
TATGAGTTGATTTTTTGAAAAACA
Found at i:13806570 original size:77 final size:76
Alignment explanation
Indices: 13806365--13807143 Score: 908
Period size: 77 Copynumber: 10.1 Consensus size: 76
13806355 TTTATTTAAA
* * * *
13806365 AAAAATACCTCAGCATGTGACACGGGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTGAAA
1 AAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
* *
13806430 AACTGAAATTTAA
66 AACAGAAA-TT-G
* ** * *
13806443 AAGAAATACCTC-GGCATTTG-TTCGAGGCTCAACTCACTTCTTGCAATATGAGTTGATATTTTG
1 AA-AAATACCTCAGG-ATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT-TTTTG
13806506 AAAAACAGAAATTG
63 AAAAACAGAAATTG
* * *
13806520 AAAAATACCTCAGGATGTGATCTGAGGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTTTGA
1 AAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGA
*
13806585 AAAACAGAAACTG
64 AAAACAGAAATTG
13806598 AAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
1 AAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
*
13806663 AACA-AAATTTTAA
66 AACAGAAA--TT-G
*
13806676 AAAAATATCTC-GGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA
1 AAAAATACCTCAGG-ATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGA
*
13806740 AAAACAGAAACTG
64 AAAACAGAAATTG
* *
13806753 AAAAATACCGCAGGATGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAA
1 AAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
* * *
13806818 AATAAAAATTTTA
66 AACAGAAA--TTG
* * *
13806831 AAAAATACC-CCGGCATGTGACCCAATGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGGA
1 AAAAATACCTCAGG-ATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-GA
* * *
13806895 AAAATAGGAACTG
64 AAAACAGAAATTG
* * * * * *
13806908 GAAAATACCTCAAGATGTGATCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTAAAA
1 AAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
* *
13806973 AATAGAAATTTA
66 AACAGAAA-TTG
* *
13806985 AAAAATACCTC-GGCATGTGACCCGAGGCTCAACTCACCTCTCACAATCTGAGTTGATTTCTTTG
1 AAAAATACCTCAGG-ATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT-TTTG
*
13807049 AAAAAAGAGAAATTG
63 -AAAAACAGAAATTG
* * * * *
13807064 GAAAATACCTC--GACGTGACTCGAGGCTCAACTTACCTCTCGCAATATGAGCTGATTTTTGAAA
1 AAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
13807127 AACAGAAATTG
66 AACAGAAATTG
13807138 AAAAAT
1 AAAAAT
13807144 GATTCTTGAA
Statistics
Matches: 607, Mismatches: 70, Indels: 52
0.83 0.10 0.07
Matches are distributed among these distances:
74 18 0.03
75 7 0.01
76 54 0.09
77 226 0.37
78 222 0.37
79 67 0.11
80 13 0.02
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (76 bp):
AAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
AACAGAAATTG
Found at i:13806704 original size:233 final size:232
Alignment explanation
Indices: 13806272--13807142 Score: 987
Period size: 233 Copynumber: 3.7 Consensus size: 232
13806262 TTTTTTAACT
* ** *
13806272 GAAATTGAAAAATACCTC-GGCGTGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-
1 GAAATTGAAAAATACCTCAGG-ATGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGAT
* * * * * *
13806335 -TTTTTAAAAAATAGAAAATTTTTATTTAAAAAAAATACCTCAGCATGTGACACGGGGCTCAACT
65 TTTTTTGAAAAACAG--AA-----A-TT--GAAAAATACCTCAGGATGTGACCCGAGGCTCAACT
* * *
13806399 CACATCTCGCAATATGAGTTGATTTTTGAAAAACTGAAATTTAAAAGAAATACCTCGGCATTTG-
120 CACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAA-AAATACCTCGGCATGTGA
* *
13806463 TTCGAGGCTCAACTCACTTCTTGCAATATGAGTTGATATTTTGAAAAACA
184 TCCGAGGCTCAACTCACCTCTTGCAATATGAGTTGAT-TTTTGAAAAACA
* * * *
13806513 GAAATTGAAAAATACCTCAGGATGTGATCTGAGGCTCAACTCACCTCTCGCATTATGAGTTGATT
1 GAAATTGAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATT
*
13806578 TTTTTGAAAAACAGAAACTGAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCA
66 TTTTTGAAAAACAGAAATTGAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCA
* *
13806643 ATATGAGTTGATTTTTGAAAAACA-AAATTTTAAAAAAATATCTCGGCATGTGACCCGAGGCTCA
131 ATATGAGTTGATTTTTGAAAAACAGAAA-TTTAAAAAAATACCTCGGCATGTGATCCGAGGCTCA
*
13806707 ACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACA
195 ACTCACCTCTTGCAATATGAGTTGA-TTTTTGAAAAACA
* *
13806746 GAAACTGAAAAATACCGCAGGATGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGA--
1 GAAATTGAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATT
* * * * * *
13806809 TTTTTGAAAAATAAAAATTTTAAAAAATACC-CCGGCATGTGACCCAATGCTCAACTCACCTCTC
66 TTTTTGAAAAACAGAAA--TTGAAAAATACCTCAGG-ATGTGACCCGAGGCTCAACTCACCTCTC
* * * ** * *
13806873 GCAATATGAGTTGATTTTTGGAAAAATAGGAA-CT-GGAAAATACCTCAAG-ATGTGATCTGAGG
128 GCAATATGAGTTGATTTTT-GAAAAACAGAAATTTAAAAAAATACCTC-GGCATGTGATCCGAGG
* *
13806935 CTCAACTCACCTCTTGCAATATGAGTTGATTTTTAAAAAATA
191 CTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAACA
* *
13806977 GAAATTTAAAAAATACCTC-GGCATGTGACCCGAGGCTCAACTCACCTCTCACAATCTGAGTTGA
1 GAAA-TTGAAAAATACCTCAGG-ATGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGA
* * * * * *
13807041 TTTCTTTGAAAAAAGAGAAATTGGAAAATACCTC--GACGTGACTCGAGGCTCAACTTACCTCTC
64 TTTTTTTG-AAAAACAGAAATTGAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTC
* *
13807104 GCAATATGAGCTGATTTTTGAAAAACAGAAATTGAAAAA
128 GCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAA
13807143 TGATTCTTGA
Statistics
Matches: 545, Mismatches: 65, Indels: 49
0.83 0.10 0.07
Matches are distributed among these distances:
230 10 0.02
231 73 0.13
232 124 0.23
233 239 0.44
234 14 0.03
235 12 0.02
236 1 0.00
241 58 0.11
242 2 0.00
243 12 0.02
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (232 bp):
GAAATTGAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATT
TTTTTGAAAAACAGAAATTGAAAAATACCTCAGGATGTGACCCGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAAAATACCTCGGCATGTGATCCGAGGCTCAA
CTCACCTCTTGCAATATGAGTTGATTTTTGAAAAACA
Found at i:13808008 original size:14 final size:14
Alignment explanation
Indices: 13807987--13808020 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
13807977 TTCATCTTGA
13807987 TTTT-TTTCTTTTT
1 TTTTGTTTCTTTTT
13808000 TTTTGTTTCTTTTT
1 TTTTGTTTCTTTTT
13808014 TTTTGTT
1 TTTTGTT
13808021 GTTTCGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.88
Consensus pattern (14 bp):
TTTTGTTTCTTTTT
Found at i:13808017 original size:17 final size:18
Alignment explanation
Indices: 13807995--13808038 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
13807985 GATTTTTTTC
13807995 TTTTTTT-TTGTTTC-TT
1 TTTTTTTGTTGTTTCGTT
13808011 TTTTTTTGTTGTTTCGTT
1 TTTTTTTGTTGTTTCGTT
*
13808029 TTTTGTTGTT
1 TTTTTTTGTT
13808039 TTTTTAGGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 7 0.28
17 7 0.28
18 11 0.44
ACGTcount: A:0.00, C:0.05, G:0.14, T:0.82
Consensus pattern (18 bp):
TTTTTTTGTTGTTTCGTT
Found at i:13808029 original size:22 final size:22
Alignment explanation
Indices: 13807987--13808029 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
13807977 TTCATCTTGA
* *
13807987 TTTTTTTCTTTTTTTTTGTTTC
1 TTTTTTTCTTTTGTTTCGTTTC
13808009 TTTTTTT-TTGTTGTTTCGTTT
1 TTTTTTTCTT-TTGTTTCGTTT
13808030 TTTGTTGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.00, C:0.07, G:0.09, T:0.84
Consensus pattern (22 bp):
TTTTTTTCTTTTGTTTCGTTTC
Found at i:13813708 original size:4 final size:4
Alignment explanation
Indices: 13813699--13813723 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
13813689 ATGTACATGC
13813699 AATG AATG AATG AATG AATG AATG A
1 AATG AATG AATG AATG AATG AATG A
13813724 CCAATGGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (4 bp):
AATG
Found at i:13815485 original size:36 final size:36
Alignment explanation
Indices: 13815410--13815643 Score: 173
Period size: 35 Copynumber: 6.6 Consensus size: 36
13815400 TGAAATACAA
* ***
13815410 AATTTTTT-AAAACACGAGAATTTTA-GAAACACAAA
1 AATTTTTTGAAAACACG-GAAATTTATGAAACACGGG
*
13815445 AATTTTTTG-AAATACGGAAATTTATGAAACACGGG
1 AATTTTTTGAAAACACGGAAATTTATGAAACACGGG
** * * *
13815480 CAA-TTTTTGAAAACACAAAAATTTTTGAAAGACGGT
1 -AATTTTTTGAAAACACGGAAATTTATGAAACACGGG
* *
13815516 AATTTTTTGCAAACACGGAAATTTAAGAAACACGGG
1 AATTTTTTGAAAACACGGAAATTTATGAAACACGGG
* *
13815552 AATTTTTTTTGAAAACATGAAAATTT-TCGAAACAC---
1 AA--TTTTTTGAAAACACGGAAATTTAT-GAAACACGGG
* * * * *
13815587 AA-TTTTCGAAAACACGAAAATTTGTGAAACATGAG
1 AATTTTTTGAAAACACGGAAATTTATGAAACACGGG
*
13815622 AA-TTTTTGAAAACACGAAAATT
1 AATTTTTTGAAAACACGGAAATT
13815644 GTTGAAAACA
Statistics
Matches: 161, Mismatches: 26, Indels: 24
0.76 0.12 0.11
Matches are distributed among these distances:
32 25 0.16
33 1 0.01
34 7 0.04
35 52 0.32
36 50 0.31
38 26 0.16
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (36 bp):
AATTTTTTGAAAACACGGAAATTTATGAAACACGGG
Found at i:13815519 original size:17 final size:17
Alignment explanation
Indices: 13815413--13815707 Score: 136
Period size: 18 Copynumber: 16.7 Consensus size: 17
13815403 AATACAAAAT
*
13815413 TTTTTAAAACAC-GAGAA
1 TTTTTGAAACACGGA-AA
* **
13815430 TTTTAGAAACACAAAAA
1 TTTTTGAAACACGGAAA
*
13815447 TTTTTTGAAATACGGAAA
1 -TTTTTGAAACACGGAAA
* *
13815465 TTTATGAAACACGGGCAA
1 TTTTTGAAACAC-GGAAA
**
13815483 TTTTTGAAAACACAAAAA
1 TTTTTG-AAACACGGAAA
* *
13815501 TTTTTGAAAGACGGTAAT
1 TTTTTGAAACACGG-AAA
13815519 TTTTTGCAAACACGGAAA
1 TTTTTG-AAACACGGAAA
** *
13815537 TTTAAGAAACACGGGAATTT
1 TTTTTGAAACAC-GGAA--A
* *
13815557 TTTTTGAAAACATGAAAA
1 TTTTTG-AAACACGGAAA
*
13815575 TTTTCGAAACAC---AA
1 TTTTTGAAACACGGAAA
* *
13815589 TTTTCGAAAACACGAAAA
1 TTTTTG-AAACACGGAAA
* *
13815607 TTTGTGAAACA-TGAGAA
1 TTTTTGAAACACGGA-AA
*
13815624 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGGAAA
* *
13815642 TTGTTGAAAACACGAAAAA
1 TTTTTG-AAACACG-GAAA
* *
13815661 ATTTTGAAACATCGG-AG
1 TTTTTGAAACA-CGGAAA
13815678 TTTTTGAAAACAC-GAAGA
1 TTTTTG-AAACACGGAA-A
*
13815696 TTTTTTAAACAC
1 TTTTTGAAACAC
13815708 AATTTTTTTT
Statistics
Matches: 211, Mismatches: 45, Indels: 44
0.70 0.15 0.15
Matches are distributed among these distances:
14 8 0.04
15 6 0.03
16 2 0.01
17 64 0.30
18 95 0.45
19 24 0.11
20 7 0.03
21 5 0.02
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (17 bp):
TTTTTGAAACACGGAAA
Found at i:13815533 original size:19 final size:18
Alignment explanation
Indices: 13815395--13815559 Score: 101
Period size: 17 Copynumber: 9.3 Consensus size: 18
13815385 CAATAACCTT
* *
13815395 TTTTTTGAAATAC-AAAA
1 TTTTTTGAAACACGGAAA
*
13815412 TTTTTTAAAACAC-GAGAA
1 TTTTTTGAAACACGGA-AA
* **
13815430 -TTTTAGAAACACAAAAA
1 TTTTTTGAAACACGGAAA
*
13815447 TTTTTTGAAATACGGAAA
1 TTTTTTGAAACACGGAAA
* *
13815465 -TTTATGAAACACGGGCAA
1 TTTTTTGAAACAC-GGAAA
*
13815483 -TTTTTGAAAACAC-AAAA
1 TTTTTTG-AAACACGGAAA
* * *
13815500 ATTTTTGAAAGACGGTAA
1 TTTTTTGAAACACGGAAA
13815518 TTTTTTGCAAACACGGAAA
1 TTTTTTG-AAACACGGAAA
** *
13815537 -TTTAAGAAACACGGGAA
1 TTTTTTGAAACACGGAAA
13815554 TTTTTT
1 TTTTTT
13815560 TTGAAAACAT
Statistics
Matches: 112, Mismatches: 27, Indels: 17
0.72 0.17 0.11
Matches are distributed among these distances:
17 51 0.46
18 46 0.41
19 15 0.13
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (18 bp):
TTTTTTGAAACACGGAAA
Found at i:13815599 original size:32 final size:32
Alignment explanation
Indices: 13815557--13815643 Score: 95
Period size: 32 Copynumber: 2.6 Consensus size: 32
13815547 ACGGGAATTT
* *
13815557 TTTTTGAAAACATGAAAATTT-TCGAAACACAA
1 TTTTCGAAAACACGAAAATTTGT-GAAACACAA
*
13815589 TTTTCGAAAACACGAAAATTTGTGAAACATGAGAA
1 TTTTCGAAAACACGAAAATTTGTGAAAC---ACAA
*
13815624 TTTTTGAAAACACGAAAATT
1 TTTTCGAAAACACGAAAATT
13815644 GTTGAAAACA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
32 24 0.51
33 1 0.02
35 22 0.47
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (32 bp):
TTTTCGAAAACACGAAAATTTGTGAAACACAA
Found at i:13816012 original size:5 final size:5
Alignment explanation
Indices: 13816002--13816045 Score: 61
Period size: 5 Copynumber: 8.6 Consensus size: 5
13815992 AAATTATTTA
* *
13816002 AAATT AAATT AAATT ATATT AAATT AAAATT GAATT AAATT AAA
1 AAATT AAATT AAATT AAATT AAATT -AAATT AAATT AAATT AAA
13816046 AATATAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 29 0.85
6 5 0.15
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (5 bp):
AAATT
Found at i:13816031 original size:21 final size:20
Alignment explanation
Indices: 13815992--13816045 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
13815982 TTATTTATTA
13815992 AAATTAT-TTAAAATTAAATT
1 AAATTATATT-AAATTAAATT
13816012 AAATTATATTAAATTAAAATT
1 AAATTATATTAAATT-AAATT
* *
13816033 GAATTAAATTAAA
1 AAATTATATTAAA
13816046 AATATAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 12 0.40
21 18 0.60
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
AAATTATATTAAATTAAATT
Found at i:13816038 original size:16 final size:15
Alignment explanation
Indices: 13816003--13816046 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 15
13815993 AATTATTTAA
13816003 AATTAAATT-AAATT
1 AATTAAATTAAAATT
13816017 ATATTAAATTAAAATT
1 A-ATTAAATTAAAATT
13816033 GAATTAAATTAAAA
1 -AATTAAATTAAAA
13816047 ATATAAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 1 0.04
15 8 0.30
16 17 0.63
17 1 0.04
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (15 bp):
AATTAAATTAAAATT
Found at i:13816062 original size:31 final size:31
Alignment explanation
Indices: 13816003--13816087 Score: 84
Period size: 30 Copynumber: 2.7 Consensus size: 31
13815993 AATTATTTAA
*
13816003 AATTAAATTAAATTATATTAAATTAAAATTG
1 AATTAAATTAAATAATATTAAATTAAAATTG
*
13816034 AATTAAATTAAA-AATA-TAAATATAAAAATG
1 AATTAAATTAAATAATATTAAAT-TAAAATTG
* * *
13816064 CATAAAAGTACCAATAATATTAAA
1 AATTAAATTA--AATAATATTAAA
13816088 ATGGAATAGC
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
29 5 0.11
30 17 0.39
31 12 0.27
32 2 0.05
33 4 0.09
34 4 0.09
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (31 bp):
AATTAAATTAAATAATATTAAATTAAAATTG
Found at i:13816213 original size:11 final size:10
Alignment explanation
Indices: 13816197--13816283 Score: 55
Period size: 9 Copynumber: 9.2 Consensus size: 10
13816187 TTGAACCCCT
13816197 TTTTTTCCTTC
1 TTTTTT-CTTC
13816208 -TTTTT-TTC
1 TTTTTTCTTC
13816216 TTTTTTC-T-
1 TTTTTTCTTC
*
13816224 TTTTGTCTTC
1 TTTTTTCTTC
*
13816234 -TTTTTGTT-
1 TTTTTTCTTC
* *
13816242 TTCTTT-TTG
1 TTTTTTCTTC
13816251 TTTTTTCTTC
1 TTTTTTCTTC
13816261 TTTTTTCCTCTC
1 TTTTTT-CT-TC
13816273 TTTTTT-TTC
1 TTTTTTCTTC
13816282 TT
1 TT
13816284 CTCTGCTGGG
Statistics
Matches: 61, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
8 11 0.18
9 26 0.43
10 14 0.23
11 2 0.03
12 8 0.13
ACGTcount: A:0.00, C:0.17, G:0.03, T:0.79
Consensus pattern (10 bp):
TTTTTTCTTC
Found at i:13816238 original size:27 final size:26
Alignment explanation
Indices: 13816197--13816266 Score: 88
Period size: 26 Copynumber: 2.6 Consensus size: 26
13816187 TTGAACCCCT
*
13816197 TTTTTTCCTTCTTTTTTTCT-TTTTTC
1 TTTTTT-CTTCTTTTTTTTTCTTTTTC
*
13816223 TTTTTGTCTTCTTTTTGTTTTCTTTTTG
1 TTTTT-TCTTCTTTTT-TTTTCTTTTTC
13816251 TTTTTTCTTCTTTTTT
1 TTTTTTCTTCTTTTTT
13816267 CCTCTCTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
26 15 0.38
27 14 0.36
28 10 0.26
ACGTcount: A:0.00, C:0.14, G:0.04, T:0.81
Consensus pattern (26 bp):
TTTTTTCTTCTTTTTTTTTCTTTTTC
Found at i:13816246 original size:37 final size:37
Alignment explanation
Indices: 13816205--13816283 Score: 101
Period size: 37 Copynumber: 2.1 Consensus size: 37
13816195 CTTTTTTTCC
*
13816205 TTCTTTTT-TTCTTTT-TTCTTTTTGTCTTCT-TTTTGTT
1 TTCTTTTTGTT-TTTTCTTCTTTTT-TCCTCTCTTTT-TT
13816242 TTCTTTTTGTTTTTTCTTCTTTTTTCCTCTCTTTTTT
1 TTCTTTTTGTTTTTTCTTCTTTTTTCCTCTCTTTTTT
13816279 TTCTT
1 TTCTT
13816284 CTCTGCTGGG
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
37 24 0.63
38 14 0.37
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.80
Consensus pattern (37 bp):
TTCTTTTTGTTTTTTCTTCTTTTTTCCTCTCTTTTTT
Found at i:13816266 original size:29 final size:29
Alignment explanation
Indices: 13816211--13816265 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 29
13816201 TTCCTTCTTT
13816211 TTTTCTTTTTTCTTTTTGTCTTCTTTTTG
1 TTTTCTTTTTTCTTTTTGTCTTCTTTTTG
*
13816240 TTTTC-TTTTTGTTTTT-TCTTCTTTTT
1 TTTTCTTTTTTCTTTTTGTCTTCTTTTT
13816266 TCCTCTCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 10 0.40
28 10 0.40
29 5 0.20
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (29 bp):
TTTTCTTTTTTCTTTTTGTCTTCTTTTTG
Found at i:13816276 original size:27 final size:23
Alignment explanation
Indices: 13816208--13816285 Score: 65
Period size: 24 Copynumber: 3.4 Consensus size: 23
13816198 TTTTTCCTTC
13816208 TTTTT-TTC-TTTTTTC-TTTTT
1 TTTTTCTTCTTTTTTTCTTTTTT
* *
13816228 GTCTTCTT-TTTGTTTTCTTTTTGT
1 TTTTTCTTCTTT-TTTTCTTTTT-T
* *
13816252 TTTTTCTTCTTTTTTCCTCTCTTT
1 TTTTTCTTCTTTTTTTCT-TTTTT
13816276 TTTTTCTTCT
1 TTTTTCTTCT
13816286 CTGCTGGGCT
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
20 3 0.07
21 4 0.09
22 5 0.11
23 4 0.09
24 23 0.51
25 6 0.13
ACGTcount: A:0.00, C:0.17, G:0.04, T:0.79
Consensus pattern (23 bp):
TTTTTCTTCTTTTTTTCTTTTTT
Found at i:13816556 original size:37 final size:38
Alignment explanation
Indices: 13816492--13816563 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 38
13816482 TTAAATTTTT
13816492 TTCTTTTTCTTTTTTCTTTCCCCCTTTCTTCTTCCTTC
1 TTCTTTTTCTTTTTTCTTTCCCCCTTTCTTCTTCCTTC
***
13816530 TTCTTTTTCTTTTTT-TTTCTTTCTTTCTTCTTCC
1 TTCTTTTTCTTTTTTCTTTCCCCCTTTCTTCTTCC
13816564 CCTTTTTCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
37 16 0.52
38 15 0.48
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (38 bp):
TTCTTTTTCTTTTTTCTTTCCCCCTTTCTTCTTCCTTC
Found at i:13816569 original size:33 final size:36
Alignment explanation
Indices: 13816493--13816573 Score: 96
Period size: 37 Copynumber: 2.3 Consensus size: 36
13816483 TAAATTTTTT
13816493 TCTTTTTCTTTTTTCTTTCCCCCTTTCTTCTTCCTTC
1 TCTTTTTCTTTTTTCTTTCCCCCTTTCTTCTTCC-TC
***
13816530 TTCTTTTTCTTTTTT-TTTCTTTCTTTCTTCTTCC-C
1 -TCTTTTTCTTTTTTCTTTCCCCCTTTCTTCTTCCTC
13816565 -CTTTTTCTT
1 TCTTTTTCTT
13816574 CCTTCTCCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
33 9 0.22
35 1 0.03
37 16 0.40
38 14 0.35
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (36 bp):
TCTTTTTCTTTTTTCTTTCCCCCTTTCTTCTTCCTC
Found at i:13816711 original size:16 final size:16
Alignment explanation
Indices: 13816667--13816716 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
13816657 CCCTTTCCCC
*
13816667 CTTTTTCTTTTTTTCTT
1 CTTTCTCTTTTTTT-TT
*
13816684 CTTTC-C--TCTTTTT
1 CTTTCTCTTTTTTTTT
13816697 CTTTCTCTTTTTTTTT
1 CTTTCTCTTTTTTTTT
13816713 CTTT
1 CTTT
13816717 TGCTTGCGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
13 7 0.26
14 5 0.19
16 11 0.41
17 4 0.15
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (16 bp):
CTTTCTCTTTTTTTTT
Found at i:13817208 original size:29 final size:29
Alignment explanation
Indices: 13817110--13817215 Score: 108
Period size: 30 Copynumber: 3.6 Consensus size: 29
13817100 GGAAATTTTA
* *
13817110 GAGTCAAAATATAA-TTCTAGAAAAGTTCAA
1 GAGTCAAAATATAATTTC-AAAAAAGTT-AG
*
13817140 GAGTTAAAATATAATTTCAAAAAAGTTTAG
1 GAGTCAAAATATAATTTCAAAAAAG-TTAG
* *
13817170 G-GATTAAAATATAATTTCATAAAAGTTAG
1 GAG-TCAAAATATAATTTCAAAAAAGTTAG
*
13817199 GAGTCAAAATACAATTT
1 GAGTCAAAATATAATTT
13817216 TTTTTAAAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
29 18 0.27
30 43 0.65
31 5 0.08
ACGTcount: A:0.49, C:0.07, G:0.13, T:0.31
Consensus pattern (29 bp):
GAGTCAAAATATAATTTCAAAAAAGTTAG
Found at i:13826063 original size:2 final size:2
Alignment explanation
Indices: 13826056--13826089 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
13826046 CCTAAAAAGA
13826056 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13826090 CTGCAGGAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13828442 original size:29 final size:29
Alignment explanation
Indices: 13828387--13828443 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
13828377 TTCAGAAAAT
* *
13828387 TTAAAAATTCTAATTAAGCCTTTAATTTG
1 TTAAAAATTCTAATTAAACCTTAAATTTG
*
13828416 TTAAAAATTTTAATTAAAACC-TAAATTT
1 TTAAAAATTCTAATT-AAACCTTAAATTT
13828444 TTTTGAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.44
Consensus pattern (29 bp):
TTAAAAATTCTAATTAAACCTTAAATTTG
Found at i:13835004 original size:29 final size:27
Alignment explanation
Indices: 13834940--13835004 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 27
13834930 GTTTTATATG
*
13834940 TATAATTATACTAAATTAAAATTCATG
1 TATAATTATACTAAATTAAAATTCATA
*
13834967 TATTAAATTATACATTAAATTAAAGTTCATA
1 TA-T-AATTATAC--TAAATTAAAATTCATA
13834998 TATAATT
1 TATAATT
13835005 TTGAAATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 2 0.06
28 1 0.03
29 12 0.38
30 1 0.03
31 16 0.50
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (27 bp):
TATAATTATACTAAATTAAAATTCATA
Found at i:13837227 original size:12 final size:12
Alignment explanation
Indices: 13837210--13837239 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
13837200 ACCACACTGT
13837210 CGTGTGCCAGGC
1 CGTGTGCCAGGC
*
13837222 CGTGTGCTAGGC
1 CGTGTGCCAGGC
13837234 CGTGTG
1 CGTGTG
13837240 TGACACACGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.27, G:0.43, T:0.23
Consensus pattern (12 bp):
CGTGTGCCAGGC
Found at i:13839873 original size:41 final size:41
Alignment explanation
Indices: 13839822--13839904 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
13839812 AATACGGGTA
13839822 GGGGTCAGAGAGCATCAGGCAGAGGTGCTAATCAGAATGAG
1 GGGGTCAGAGAGCATCAGGCAGAGGTGCTAATCAGAATGAG
* * *
13839863 GGGGTTAGAGAGCATTAGGCAGAGGTGCTAATTAGAATGAG
1 GGGGTCAGAGAGCATCAGGCAGAGGTGCTAATCAGAATGAG
13839904 G
1 G
13839905 CTAGGCAGAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.31, C:0.11, G:0.40, T:0.18
Consensus pattern (41 bp):
GGGGTCAGAGAGCATCAGGCAGAGGTGCTAATCAGAATGAG
Found at i:13856193 original size:17 final size:17
Alignment explanation
Indices: 13856171--13856226 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
13856161 AAAATATGGA
*
13856171 ATGTAATCTTCTAAGAT
1 ATGTAATCTTATAAGAT
*
13856188 ATGTAATCTTAGATATGAT
1 ATGTAATCTT--ATAAGAT
*
13856207 ATGTAATCTTAGAAGAT
1 ATGTAATCTTATAAGAT
13856224 ATG
1 ATG
13856227 ATTCTTGAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 18 0.55
19 15 0.45
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (17 bp):
ATGTAATCTTATAAGAT
Found at i:13863568 original size:3 final size:3
Alignment explanation
Indices: 13863562--13863697 Score: 68
Period size: 3 Copynumber: 46.0 Consensus size: 3
13863552 ACTAATAAAC
* * **
13863562 TAA TAA TAA GAA TAA TAA -AA TACA GTAA -AA TAA TAG TAA TCC TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A -TAA TAA TAA TAA TAA TAA TAA
* * * ** * *
13863607 -AA -AA TAC TAA GAA TAC TAA TGT TAA TAA TAA AAA TAA TAT TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
13863653 CAA TAA TAA TAAA TAA TAA TAA -AA GTAA AAA CAA T-A TAA TAA TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA
13863698 ATGAATAAAA
Statistics
Matches: 97, Mismatches: 27, Indels: 18
0.68 0.19 0.13
Matches are distributed among these distances:
2 12 0.12
3 76 0.78
4 7 0.07
5 2 0.02
ACGTcount: A:0.63, C:0.05, G:0.04, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:13874647 original size:30 final size:30
Alignment explanation
Indices: 13874611--13874675 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
13874601 GAGATACTGT
*
13874611 TTGAGACAT-ATATAGAAGGTGCATCTAGAA
1 TTGAGAC-TCATATAGAAGGTGCATCCAGAA
* *
13874641 TTGAGACTCATATAGAAGGTGTATCCAGTA
1 TTGAGACTCATATAGAAGGTGCATCCAGAA
13874671 TTGAG
1 TTGAG
13874676 GATCTAGTCC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 1 0.03
30 30 0.97
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (30 bp):
TTGAGACTCATATAGAAGGTGCATCCAGAA
Found at i:13890056 original size:23 final size:23
Alignment explanation
Indices: 13890026--13890070 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
13890016 AGCACATGTT
* *
13890026 AGACACATCTTTCATATTGTATC
1 AGACACATCCTTCATAGTGTATC
13890049 AGACACATCCTTCATAGTGTAT
1 AGACACATCCTTCATAGTGTAT
13890071 GATTTTCTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (23 bp):
AGACACATCCTTCATAGTGTATC
Found at i:13896853 original size:23 final size:24
Alignment explanation
Indices: 13896803--13896853 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
13896793 AACACCGCTG
*
13896803 AAGCGGATAAACTGACCACCGTCA
1 AAGCGGATAAACTGACCACCGCCA
* *
13896827 AAGCGGAT-AACTGAGCACCGCCC
1 AAGCGGATAAACTGACCACCGCCA
13896850 AAGC
1 AAGC
13896854 AAATAAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.35, C:0.31, G:0.24, T:0.10
Consensus pattern (24 bp):
AAGCGGATAAACTGACCACCGCCA
Found at i:13899081 original size:17 final size:17
Alignment explanation
Indices: 13899052--13899085 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
13899042 TGAATAAAAA
13899052 AATAATAATTTTTTTTT
1 AATAATAATTTTTTTTT
*
13899069 AATAA-AATATTTTTTT
1 AATAATAATTTTTTTTT
13899085 A
1 A
13899086 TATTTTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
AATAATAATTTTTTTTT
Found at i:13899091 original size:23 final size:23
Alignment explanation
Indices: 13899065--13899108 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
13899055 AATAATTTTT
13899065 TTTTAATAA-AATATTTTTTTATA
1 TTTT-ATAATAATATTTTTTTATA
* *
13899088 TTTTTTAATAATTTTTTTTTA
1 TTTTATAATAATATTTTTTTA
13899109 AAAAAATACG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (23 bp):
TTTTATAATAATATTTTTTTATA
Found at i:13899200 original size:27 final size:27
Alignment explanation
Indices: 13899170--13899236 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
13899160 CCTATCAGGT
*
13899170 AGGCGCCAATGAAGGTGCCTTACAGAG
1 AGGCGCCAATGAAGGTGCCTCACAGAG
*
13899197 AGGCGCCAATGAAGGTGCCTCATAGAG
1 AGGCGCCAATGAAGGTGCCTCACAGAG
13899224 AGGCGCCAATGAA
1 AGGCGCCAATGAA
13899237 TATTGTAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.31, C:0.22, G:0.33, T:0.13
Consensus pattern (27 bp):
AGGCGCCAATGAAGGTGCCTCACAGAG
Found at i:13899335 original size:21 final size:21
Alignment explanation
Indices: 13899306--13899349 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
13899296 TGGATTAGTA
* *
13899306 TTTTGTATGAATATTGTAATT
1 TTTTATATGAATATTGCAATT
13899327 TTTTATATGAATATTGCAATT
1 TTTTATATGAATATTGCAATT
13899348 TT
1 TT
13899350 GTGTTTGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (21 bp):
TTTTATATGAATATTGCAATT
Found at i:13899482 original size:16 final size:16
Alignment explanation
Indices: 13899439--13899482 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
13899429 AAAATCAAAT
*
13899439 AAAATTTAATTATATA
1 AAAATTAAATTATATA
* *
13899455 AAAGTTACATTATATA
1 AAAATTAAATTATATA
13899471 AAAATTAAATTA
1 AAAATTAAATTA
13899483 GTTAACAACA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (16 bp):
AAAATTAAATTATATA
Found at i:13899558 original size:38 final size:38
Alignment explanation
Indices: 13899515--13899596 Score: 146
Period size: 38 Copynumber: 2.2 Consensus size: 38
13899505 AAAAAGTCAG
*
13899515 TTATAATTAAATTTTTAATAAAATGATTTTTAATTTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
*
13899553 TTATAATTAAACTTTTAATAAGATGATTTTTAATTTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
13899591 TTATAA
1 TTATAA
13899597 ACTTTATATG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (38 bp):
TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
Found at i:13899731 original size:60 final size:60
Alignment explanation
Indices: 13899629--13899750 Score: 156
Period size: 60 Copynumber: 2.0 Consensus size: 60
13899619 ATATTAAACT
* * * ** * *
13899629 AAACACAACAACTTATAGCTTAATCCTAAATTACTAATAAATTAAATT-TTAAATAATTAC
1 AAACACAAAAACTTATAACATAATCCTAAATTAAAAAAAAATT-AATTATAAAATAATTAC
*
13899689 AAACACAAAAATTTATAACATAATCCTAAATTAAAAAAAAATTAATTATAAAATAATTAC
1 AAACACAAAAACTTATAACATAATCCTAAATTAAAAAAAAATTAATTATAAAATAATTAC
13899749 AA
1 AA
13899751 TATTCATACA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
59 4 0.08
60 49 0.92
ACGTcount: A:0.57, C:0.12, G:0.01, T:0.30
Consensus pattern (60 bp):
AAACACAAAAACTTATAACATAATCCTAAATTAAAAAAAAATTAATTATAAAATAATTAC
Found at i:13899768 original size:21 final size:21
Alignment explanation
Indices: 13899738--13899904 Score: 104
Period size: 27 Copynumber: 7.2 Consensus size: 21
13899728 AATTAATTAT
13899738 AAAATAATTACAATATTCATAC
1 AAAA-AATTACAATATTCATAC
13899760 AAAAAATTACAATATTACAATATATC
1 AAAAAATTACAATATT-C---ATA-C
*** *
13899786 CCGACATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
13899807 --AAAATTACAATATTACAATATTC
1 AAAAAATTACAATATT-C-ATA--C
*
13899830 ATACAAAATTATAATATTACAATATTC
1 A-A-AAAATTACAATATT-C-ATA--C
*
13899857 ATACAAAATTACAATATTCATAT
1 A-A-AAAATTACAATATTCATAC
13899880 AAAAAATTACAATATTCATAC
1 AAAAAATTACAATATTCATAC
13899901 AAAA
1 AAAA
13899905 TACTAATCCA
Statistics
Matches: 122, Mismatches: 10, Indels: 27
0.77 0.06 0.17
Matches are distributed among these distances:
19 12 0.10
20 1 0.01
21 38 0.31
22 9 0.07
23 2 0.02
25 7 0.06
26 14 0.11
27 39 0.32
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.32
Consensus pattern (21 bp):
AAAAAATTACAATATTCATAC
Found at i:13899778 original size:8 final size:8
Alignment explanation
Indices: 13899765--13899895 Score: 61
Period size: 8 Copynumber: 15.4 Consensus size: 8
13899755 CATACAAAAA
13899765 ATTACAAT
1 ATTACAAT
13899773 ATTACAAT
1 ATTACAAT
* * *
13899781 ATATCCCGAC
1 AT-T-ACAAT
13899791 ATTACAAT
1 ATTACAAT
*
13899799 ATTCATACAAA
1 A-T--TACAAT
13899810 ATTACAAT
1 ATTACAAT
13899818 ATTACAAT
1 ATTACAAT
*
13899826 ATTCATACAAA
1 A-T--TACAAT
*
13899837 ATTATAAT
1 ATTACAAT
13899845 ATTACAAT
1 ATTACAAT
*
13899853 ATTCATACAAA
1 A-T--TACAAT
13899864 ATTACAAT
1 ATTACAAT
13899872 ATT-C-AT
1 ATTACAAT
* *
13899878 A-TAAAAA
1 ATTACAAT
13899885 ATTACAAT
1 ATTACAAT
13899893 ATT
1 ATT
13899896 CATACAAAAT
Statistics
Matches: 91, Mismatches: 18, Indels: 28
0.66 0.13 0.20
Matches are distributed among these distances:
5 1 0.01
6 3 0.03
7 3 0.03
8 54 0.59
9 5 0.05
10 7 0.08
11 18 0.20
ACGTcount: A:0.50, C:0.15, G:0.01, T:0.34
Consensus pattern (8 bp):
ATTACAAT
Found at i:13899815 original size:19 final size:19
Alignment explanation
Indices: 13899791--13899978 Score: 108
Period size: 19 Copynumber: 9.7 Consensus size: 19
13899781 ATATCCCGAC
13899791 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
13899810 ATTACAATA-T--TACAATA
1 ATTACAATATTCATACAA-A
* * *
13899827 TTCATACAAAATT-AT--AAT
1 AT--TACAATATTCATACAAA
13899845 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
*
13899864 ATTACAATATTCATATAAAAA
1 ATTACAATATTC--ATACAAA
13899885 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
* * *
13899904 A-TACTA-ATCCAAAACTATAA
1 ATTACAATATTC-ATAC-A-AA
*
13899924 A-TACAAATTTAATT-ATAAAATA
1 ATTAC-AA--T-ATTCATACAA-A
*
13899946 ATTACAATATTAATACAAA
1 ATTACAATATTCATACAAA
13899965 ATTACAATATTCAT
1 ATTACAATATTCAT
13899979 TGGCGCCTCT
Statistics
Matches: 131, Mismatches: 17, Indels: 42
0.69 0.09 0.22
Matches are distributed among these distances:
16 13 0.10
17 7 0.05
18 9 0.07
19 56 0.43
20 13 0.10
21 21 0.16
22 5 0.04
23 5 0.04
25 2 0.02
ACGTcount: A:0.54, C:0.13, G:0.00, T:0.34
Consensus pattern (19 bp):
ATTACAATATTCATACAAA
Found at i:13899827 original size:27 final size:27
Alignment explanation
Indices: 13899791--13899895 Score: 159
Period size: 27 Copynumber: 4.1 Consensus size: 27
13899781 ATATCCCGAC
13899791 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
*
13899818 ATTACAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTACAAT
13899845 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
13899872 ATT-C-ATA-T-A-A-AAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
13899893 ATT
1 ATT
13899896 CATACAAAAT
Statistics
Matches: 76, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
21 14 0.18
22 1 0.01
23 1 0.01
24 1 0.01
25 3 0.04
26 1 0.01
27 55 0.72
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (27 bp):
ATTACAATATTCATACAAAATTACAAT
Found at i:13899928 original size:67 final size:60
Alignment explanation
Indices: 13899818--13899966 Score: 138
Period size: 67 Copynumber: 2.4 Consensus size: 60
13899808 AAATTACAAT
** * **
13899818 ATTACAATATTCATACAAAATTATAATATTACAATATTCATACAAAATTACAATATTCATATAAA
1 ATTACAATATTCATACAAAA-TATAATACCAAAATATAAATAC-AAATT--AA-ATT-ATA-AAA
13899883 AA
59 AA
* *
13899885 ATTACAATATTCATACAAAATACTAAT-CCAAAACTATAAATACAAATTTAATTATAAAATA
1 ATTACAATATTCATACAAAATA-TAATACCAAAA-TATAAATACAAATTAAATTATAAAAAA
*
13899946 ATTACAATATTAATACAAAAT
1 ATTACAATATTCATACAAAAT
13899967 TACAATATTC
Statistics
Matches: 72, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
61 24 0.33
62 3 0.04
63 3 0.04
64 1 0.01
66 10 0.14
67 31 0.43
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (60 bp):
ATTACAATATTCATACAAAATATAATACCAAAATATAAATACAAATTAAATTATAAAAAA
Found at i:13900015 original size:27 final size:27
Alignment explanation
Indices: 13899974--13900040 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
13899964 AATTACAATA
13899974 TTCATTGGCGCCTCTCTATGAGGCACC
1 TTCATTGGCGCCTCTCTATGAGGCACC
* *
13900001 TTCATTGGCGTCTCTCTGTGAGGCACC
1 TTCATTGGCGCCTCTCTATGAGGCACC
13900028 TTCATTGGCGCCT
1 TTCATTGGCGCCT
13900041 ACCTGATAGG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.12, C:0.31, G:0.24, T:0.33
Consensus pattern (27 bp):
TTCATTGGCGCCTCTCTATGAGGCACC
Found at i:13902148 original size:138 final size:138
Alignment explanation
Indices: 13901991--13902270 Score: 436
Period size: 138 Copynumber: 2.0 Consensus size: 138
13901981 AGTAAAAAGG
*
13901991 AATTATATTATTTTCAAAAGAATATTAATTCTCATGTCTTTTATATTTTGACCAAAATTAATTAA
1 AATTATATTATTTTCAAAAGAATATTAATTCTCATGTCTTTTATATTTTGACCAAAATTAATCAA
* * * *
13902056 TATAACTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGTATGAATCAAATT
66 TATAACTGTTTATATTAAAAAATTTCGTAAAATATATACAATTAATATTTTATATAAATCAAATT
*
13902121 TATATATT
131 CATATATT
* * ***
13902129 AATTATATTA-TTTCTAAAAGAATATTAATTTTTATGTCTTTTATATTTTGATTGAAATTAATCA
1 AATTATATTATTTTC-AAAAGAATATTAATTCTCATGTCTTTTATATTTTGACCAAAATTAATCA
*
13902193 ATATAATTGTTTATATTAAAAAATTTCGTAAAATATATACAATTAATATTTTATATAAATCAAAT
65 ATATAACTGTTTATATTAAAAAATTTCGTAAAATATATACAATTAATATTTTATATAAATCAAAT
13902258 TCATATATT
130 TCATATATT
13902267 AATT
1 AATT
13902271 TTATCTATAT
Statistics
Matches: 129, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
137 4 0.03
138 125 0.97
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (138 bp):
AATTATATTATTTTCAAAAGAATATTAATTCTCATGTCTTTTATATTTTGACCAAAATTAATCAA
TATAACTGTTTATATTAAAAAATTTCGTAAAATATATACAATTAATATTTTATATAAATCAAATT
CATATATT
Found at i:13906655 original size:37 final size:37
Alignment explanation
Indices: 13906609--13906770 Score: 173
Period size: 39 Copynumber: 4.6 Consensus size: 37
13906599 TCAACCATAA
13906609 ATGCCGAATGCATACATATATACACTTATTTTCACCT
1 ATGCCGAATGCATACATATATACACTTATTTTCACCT
** *
13906646 ATGTTGAATGCATACATATATATACCCTTATTTTCACCT
1 ATGCCGAATGCATAC--ATATATACACTTATTTTCACCT
*
13906685 ATGCCGAATGCATACATATAT--A--TA--TCCACCT
1 ATGCCGAATGCATACATATATACACTTATTTTCACCT
* * *
13906716 ATGCCAAATGCATACATATAT----TTATATCCACCT
1 ATGCCGAATGCATACATATATACACTTATTTTCACCT
13906749 ATGCCGAATGCATACATATATA
1 ATGCCGAATGCATACATATATA
13906771 TATTTATCTA
Statistics
Matches: 110, Mismatches: 9, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
31 28 0.25
33 29 0.26
37 19 0.17
39 34 0.31
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.34
Consensus pattern (37 bp):
ATGCCGAATGCATACATATATACACTTATTTTCACCT
Found at i:13906729 original size:27 final size:28
Alignment explanation
Indices: 13906680--13906769 Score: 74
Period size: 31 Copynumber: 3.0 Consensus size: 28
13906670 CCCTTATTTT
*
13906680 CACCTATGCCGAATGCATACATATATATATC
1 CACCTATGCCAAATG---ACATATATATATC
13906711 CACCTATGCCAAATGCATACATATATTTATATC
1 CACCTATGCCAAATG---ACATATA--TATATC
* *
13906744 CACCTATGCCGAATG-CATACATATAT
1 CACCTATGCCAAATGACATATATATAT
13906770 ATATTTATCT
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
27 5 0.09
29 5 0.09
31 24 0.44
33 20 0.37
ACGTcount: A:0.36, C:0.26, G:0.09, T:0.30
Consensus pattern (28 bp):
CACCTATGCCAAATGACATATATATATC
Found at i:13906772 original size:37 final size:37
Alignment explanation
Indices: 13906609--13906777 Score: 169
Period size: 33 Copynumber: 4.8 Consensus size: 37
13906599 TCAACCATAA
* * *
13906609 ATGCCGAATGCATACATATATACACTTATTTTCACCT
1 ATGCCGAATGCATACATATATATACTTATATCCACCT
** * *
13906646 ATGTTGAATGCATACATATATATACCCTTATTTTCACCT
1 ATGCCGAATGCATACATATATATA--CTTATATCCACCT
13906685 ATGCCGAATGCATAC----ATATA--TATATCCACCT
1 ATGCCGAATGCATACATATATATACTTATATCCACCT
*
13906716 ATGCCAAATGCATAC--ATATAT--TTATATCCACCT
1 ATGCCGAATGCATACATATATATACTTATATCCACCT
*
13906749 ATGCCGAATGCATACATATATATATTTAT
1 ATGCCGAATGCATACATATATATACTTAT
13906778 CTATCAATTG
Statistics
Matches: 114, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
31 23 0.20
33 29 0.25
35 11 0.10
37 25 0.22
39 26 0.23
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.36
Consensus pattern (37 bp):
ATGCCGAATGCATACATATATATACTTATATCCACCT
Found at i:13907039 original size:41 final size:41
Alignment explanation
Indices: 13906989--13907095 Score: 146
Period size: 41 Copynumber: 2.6 Consensus size: 41
13906979 CCAGCTCTTG
*
13906989 AGCCTGCTAGACTTATAGTCCG-A-AATGTATCACCGGCATTA
1 AGCCTGCTAGACGTATAGTCCGAATAAT-T-TCACCGGCATTA
*
13907030 AGCCTGCTAGACGTATAGTCTGAATAATTTCACCGGCATTA
1 AGCCTGCTAGACGTATAGTCCGAATAATTTCACCGGCATTA
* *
13907071 AGCCTGCTAGACGTAAAGTCTGAAT
1 AGCCTGCTAGACGTATAGTCCGAAT
13907096 TATGTCACTG
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
41 56 0.92
42 2 0.03
43 3 0.05
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (41 bp):
AGCCTGCTAGACGTATAGTCCGAATAATTTCACCGGCATTA
Found at i:13908910 original size:13 final size:13
Alignment explanation
Indices: 13908892--13908916 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13908882 CAATCAAATG
13908892 CACACAAAATAAA
1 CACACAAAATAAA
13908905 CACACAAAATAA
1 CACACAAAATAA
13908917 TATTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:13914525 original size:39 final size:39
Alignment explanation
Indices: 13914456--13914554 Score: 166
Period size: 39 Copynumber: 2.6 Consensus size: 39
13914446 TCAACCATAA
13914456 ATGCCGAATGCATAC--ATATATACACTTATTTTCACCT
1 ATGCCGAATGCATACATATATATACACTTATTTTCACCT
* *
13914493 ATGCCAAATGCATACATATATATACCCTTATTTTCACCT
1 ATGCCGAATGCATACATATATATACACTTATTTTCACCT
13914532 ATGCCGAATGCATACATATATAT
1 ATGCCGAATGCATACATATATAT
13914555 TTATCTATCA
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
37 14 0.25
39 43 0.75
ACGTcount: A:0.34, C:0.23, G:0.08, T:0.34
Consensus pattern (39 bp):
ATGCCGAATGCATACATATATATACACTTATTTTCACCT
Found at i:13914815 original size:41 final size:39
Alignment explanation
Indices: 13914770--13914875 Score: 149
Period size: 41 Copynumber: 2.6 Consensus size: 39
13914760 CCAGCTCTTG
*
13914770 AGCCTGCTAGACTTATAGTCTGAAATGTATCACCGGCATTA
1 AGCCTGCTAGACGTATAGTCTGAAAT-T-TCACCGGCATTA
13914811 AGCCTGCTAGACGTATAGTCTGAATAATTTCACCGGCATTA
1 AGCCTGCTAGACGTATAGTCTG-A-AATTTCACCGGCATTA
* *
13914852 AGCCTACTAGACGTAAAGTCTGAA
1 AGCCTGCTAGACGTATAGTCTGAA
13914876 TTATGTCACT
Statistics
Matches: 60, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
39 1 0.02
40 1 0.02
41 53 0.88
42 2 0.03
43 3 0.05
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (39 bp):
AGCCTGCTAGACGTATAGTCTGAAATTTCACCGGCATTA
Found at i:13916686 original size:13 final size:13
Alignment explanation
Indices: 13916668--13916692 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13916658 GAATCAAATG
13916668 CACACAAAATAAA
1 CACACAAAATAAA
13916681 CACACAAAATAA
1 CACACAAAATAA
13916693 TATTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:13917639 original size:24 final size:25
Alignment explanation
Indices: 13917606--13917656 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
13917596 AAAAAATATA
*
13917606 AAACTAAAATTTTAAAAATAAAAGG
1 AAACTAAAATTCTAAAAATAAAAGG
* *
13917631 AAACT-AAATTCTAAATATAAGAGG
1 AAACTAAAATTCTAAAAATAAAAGG
13917655 AA
1 AA
13917657 GGCCAAGTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.61, C:0.06, G:0.10, T:0.24
Consensus pattern (25 bp):
AAACTAAAATTCTAAAAATAAAAGG
Found at i:13919217 original size:10 final size:9
Alignment explanation
Indices: 13919152--13919219 Score: 55
Period size: 9 Copynumber: 6.9 Consensus size: 9
13919142 TTCTAGAAAA
13919152 TTTTTAAAT
1 TTTTTAAAT
*
13919161 TTTTTAACT
1 TTTTTAAAT
*
13919170 TTCTTTATATCT
1 TT-TTTA-A-AT
13919182 TTTTTGAAATT
1 TTTTT-AAA-T
*
13919193 TTTTTGAAT
1 TTTTTAAAT
13919202 TTTTTATAAT
1 TTTTTA-AAT
13919212 TTTTTAAA
1 TTTTTAAA
13919220 AATATAAATT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
9 18 0.37
10 15 0.31
11 11 0.22
12 5 0.10
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.66
Consensus pattern (9 bp):
TTTTTAAAT
Found at i:13919252 original size:20 final size:20
Alignment explanation
Indices: 13919227--13919275 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
13919217 AAAAATATAA
*
13919227 ATTTTAGAATTTTTATAAAT
1 ATTTTAGAATTTTTAAAAAT
*
13919247 ATTTTA-AAATTTTAAAAAT
1 ATTTTAGAATTTTTAAAAAT
13919266 ATTTT-GAATT
1 ATTTTAGAATT
13919276 ATTTTGTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (20 bp):
ATTTTAGAATTTTTAAAAAT
Found at i:13921342 original size:16 final size:16
Alignment explanation
Indices: 13921321--13921351 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13921311 TATATTTTAA
13921321 AAATATAAATATAATT
1 AAATATAAATATAATT
*
13921337 AAATATAAATTTAAT
1 AAATATAAATATAAT
13921352 ATATATTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATATAAATATAATT
Found at i:13925296 original size:23 final size:23
Alignment explanation
Indices: 13925264--13925362 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
13925254 ATAAGTGCCA
*
13925264 CACTGATATGTAGTCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
13925287 CACTGTTATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
13925310 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
13925333 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
13925356 CACTGAT
1 CACTGAT
13925363 CAATAACACT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 71 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.23
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:13930214 original size:65 final size:65
Alignment explanation
Indices: 13930110--13930236 Score: 227
Period size: 65 Copynumber: 2.0 Consensus size: 65
13930100 AAACTATAAC
*
13930110 TTGGTTGTTATATCTAAAGTAATAAACACCTAATCAAAATTGTACCTTTTCGATTCGTCTAGAAT
1 TTGGTTGTTATATCTAAAGTAATAAACACCTAATCAAAATTGTACATTTTCGATTCGTCTAGAAT
**
13930175 TTGGTTGTTATATCTAAAGTAATAAACACCTAATCAAAATTGTACATTTTTTATTCGTCTAG
1 TTGGTTGTTATATCTAAAGTAATAAACACCTAATCAAAATTGTACATTTTCGATTCGTCTAG
13930237 GATGAACACG
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 59 1.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (65 bp):
TTGGTTGTTATATCTAAAGTAATAAACACCTAATCAAAATTGTACATTTTCGATTCGTCTAGAAT
Found at i:13930633 original size:69 final size:68
Alignment explanation
Indices: 13930534--13930666 Score: 212
Period size: 68 Copynumber: 1.9 Consensus size: 68
13930524 TGATTAAACT
* *
13930534 TAATCACTTTAATATTAAATTAATATAATACTTATCAAAATAAATATTAGATTAAATTTAATATT
1 TAATCACTTTAATATTAAATTAATAAAATAC-TATCAAAATAAATATTAAATTAAATTTAATATT
13930599 AAGA
65 AAGA
* * *
13930603 TAATCACTTTAATGTTAAATTAATAAAATACTATCAAGATAAGTATTAAATTAAATTTAATATT
1 TAATCACTTTAATATTAAATTAATAAAATACTATCAAAATAAATATTAAATTAAATTTAATATT
13930667 CTATTAATAT
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
68 30 0.51
69 29 0.49
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.41
Consensus pattern (68 bp):
TAATCACTTTAATATTAAATTAATAAAATACTATCAAAATAAATATTAAATTAAATTTAATATTA
AGA
Found at i:13935377 original size:30 final size:30
Alignment explanation
Indices: 13935341--13935401 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
13935331 TTTTACATCA
13935341 AAGGTAATATTTCGAATTCTTATGAGTTTT
1 AAGGTAATATTTCGAATTCTTATGAGTTTT
13935371 AAGGTAATATTTCGAATTCTTATGAGTTTT
1 AAGGTAATATTTCGAATTCTTATGAGTTTT
13935401 A
1 A
13935402 CATGATACCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.31, C:0.07, G:0.16, T:0.46
Consensus pattern (30 bp):
AAGGTAATATTTCGAATTCTTATGAGTTTT
Found at i:13941041 original size:15 final size:16
Alignment explanation
Indices: 13941021--13941051 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
13941011 ATGTTTTAAA
13941021 TATATTATATT-TTAT
1 TATATTATATTATTAT
13941036 TATATTATATTATTAT
1 TATATTATATTATTAT
13941052 GTAAAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TATATTATATTATTAT
Found at i:13941262 original size:16 final size:16
Alignment explanation
Indices: 13941209--13941271 Score: 58
Period size: 16 Copynumber: 3.9 Consensus size: 16
13941199 AAGCAAATGA
*
13941209 AAAAGAAAGAAA-CA-
1 AAAAGAAAGAAAGAAG
* *
13941223 AAAAGAAACACAGAGAG
1 AAAAGAAAGAAAGA-AG
*
13941240 CAAAAGAAGGAAAGAAG
1 -AAAAGAAAGAAAGAAG
13941257 AAAAGAAAGAAAGAA
1 AAAAGAAAGAAAGAA
13941272 AAGGGAAAAT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
14 10 0.26
16 15 0.39
17 2 0.05
18 11 0.29
ACGTcount: A:0.71, C:0.06, G:0.22, T:0.00
Consensus pattern (16 bp):
AAAAGAAAGAAAGAAG
Found at i:13942278 original size:23 final size:22
Alignment explanation
Indices: 13942251--13942332 Score: 116
Period size: 21 Copynumber: 3.8 Consensus size: 22
13942241 TTTGCCGATT
13942251 AGGCACTTTATGTGTCGTATCTC
1 AGGCACTTTATGTGTCGTAT-TC
13942274 AGGCACTTTATGTGTCGTA-TC
1 AGGCACTTTATGTGTCGTATTC
* *
13942295 AGGCACCTTGTGTGTCGT-TTC
1 AGGCACTTTATGTGTCGTATTC
13942316 AGGCAC-TTATGTGTCGT
1 AGGCACTTTATGTGTCGT
13942333 TTATTGATTA
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
20 10 0.18
21 26 0.47
23 19 0.35
ACGTcount: A:0.16, C:0.21, G:0.26, T:0.38
Consensus pattern (22 bp):
AGGCACTTTATGTGTCGTATTC
Found at i:13942309 original size:44 final size:41
Alignment explanation
Indices: 13942251--13942332 Score: 119
Period size: 44 Copynumber: 1.9 Consensus size: 41
13942241 TTTGCCGATT
*
13942251 AGGCACTTTATGTGTCGTATCTCAGGCACTTTATGTGTCGTATC
1 AGGCACCTTATGTGTCGT-T-TCAGGCAC-TTATGTGTCGTATC
*
13942295 AGGCACCTTGTGTGTCGTTTCAGGCACTTATGTGTCGT
1 AGGCACCTTATGTGTCGTTTCAGGCACTTATGTGTCGT
13942333 TTATTGATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 11 0.31
42 8 0.22
43 1 0.03
44 16 0.44
ACGTcount: A:0.16, C:0.21, G:0.26, T:0.38
Consensus pattern (41 bp):
AGGCACCTTATGTGTCGTTTCAGGCACTTATGTGTCGTATC
Found at i:13947493 original size:10 final size:10
Alignment explanation
Indices: 13947464--13947512 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
13947454 ATGTTTTTCA
13947464 AATTTTTAA-
1 AATTTTTAAT
*
13947473 AATTTTAAAT
1 AATTTTTAAT
*
13947483 AATTATTAAT
1 AATTTTTAAT
* *
13947493 ATTTTTTTAT
1 AATTTTTAAT
13947503 AATTTTTAAT
1 AATTTTTAAT
13947513 TTTTTTTAGT
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
9 8 0.26
10 23 0.74
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
AATTTTTAAT
Found at i:13947504 original size:20 final size:19
Alignment explanation
Indices: 13947481--13947520 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
13947471 AAAATTTTAA
13947481 ATAATTATTAATATTTTTTT
1 ATAATTATTAAT-TTTTTTT
*
13947501 ATAATTTTTAATTTTTTTT
1 ATAATTATTAATTTTTTTT
13947520 A
1 A
13947521 GTTTTGAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATAATTATTAATTTTTTTT
Found at i:13947656 original size:20 final size:21
Alignment explanation
Indices: 13947627--13947666 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
13947617 TTTATTAGTT
*
13947627 ATTTTTAAAA-AAATTATTTA
1 ATTTTAAAAATAAATTATTTA
13947647 ATTTTAAAAATAAATTATTT
1 ATTTTAAAAATAAATTATTT
13947667 GTTGATGTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTTTAAAAATAAATTATTTA
Found at i:13950502 original size:22 final size:22
Alignment explanation
Indices: 13950419--13950502 Score: 89
Period size: 22 Copynumber: 3.8 Consensus size: 22
13950409 CATGATTATT
*
13950419 TATGCGAACCCTATACATATGTAC
1 TATGCGAACCCTAT--ATTTGTAC
*
13950443 -ATGCGAACCCTTTATTTGTAC
1 TATGCGAACCCTATATTTGTAC
* * * *
13950464 AATGTGAACCATTTATTTGTAC
1 TATGCGAACCCTATATTTGTAC
13950486 TATGCGAACCCTATATT
1 TATGCGAACCCTATATT
13950503 GCATAAAAAC
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
21 7 0.14
22 32 0.63
23 12 0.24
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (22 bp):
TATGCGAACCCTATATTTGTAC
Found at i:13950546 original size:23 final size:23
Alignment explanation
Indices: 13950520--13950580 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
13950510 AACCCTAAAC
13950520 ATTGTTACATGCGAA-CTCTACAT
1 ATTGTTACATGCGAACCT-TACAT
* *
13950543 ATTGTTAGATGCGAACCTTTCAT
1 ATTGTTACATGCGAACCTTACAT
*
13950566 GTTGTTACATGCGAA
1 ATTGTTACATGCGAA
13950581 ACTATGTGTC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 31 0.94
24 2 0.06
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (23 bp):
ATTGTTACATGCGAACCTTACAT
Found at i:13958727 original size:13 final size:13
Alignment explanation
Indices: 13958709--13958735 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13958699 AGGGTAGGAA
13958709 ATTATGAAAATGT
1 ATTATGAAAATGT
13958722 ATTATGAAAATGT
1 ATTATGAAAATGT
13958735 A
1 A
13958736 CCCATGGCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.37
Consensus pattern (13 bp):
ATTATGAAAATGT
Found at i:13959227 original size:27 final size:24
Alignment explanation
Indices: 13959197--13959251 Score: 76
Period size: 23 Copynumber: 2.2 Consensus size: 24
13959187 ACTAAAATTA
13959197 AATTTAAAACTTAGCAAAGAAAGCAAT
1 AATTTAAAA-TT-G-AAAGAAAGCAAT
13959224 AA-TTAAAATTGAAAGAAAGCAAT
1 AATTTAAAATTGAAAGAAAGCAAT
13959247 AATTT
1 AATTT
13959252 CAATGAGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
23 14 0.52
24 3 0.11
25 2 0.07
26 6 0.22
27 2 0.07
ACGTcount: A:0.56, C:0.07, G:0.11, T:0.25
Consensus pattern (24 bp):
AATTTAAAATTGAAAGAAAGCAAT
Found at i:13974670 original size:14 final size:14
Alignment explanation
Indices: 13974633--13974690 Score: 50
Period size: 14 Copynumber: 4.2 Consensus size: 14
13974623 ATGAAAGTCC
13974633 ATTAGGTTAATTTAG
1 ATTA-GTTAATTTAG
*
13974648 GTTAGTTAATTTA-
1 ATTAGTTAATTTAG
*
13974661 ATTAGTTTAA-TTAA
1 ATTAG-TTAATTTAG
*
13974675 AATA-TTAATTTAG
1 ATTAGTTAATTTAG
13974688 ATT
1 ATT
13974691 CACACTACTA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
12 4 0.11
13 12 0.34
14 16 0.46
15 3 0.09
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (14 bp):
ATTAGTTAATTTAG
Found at i:13976047 original size:17 final size:17
Alignment explanation
Indices: 13976022--13976054 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13976012 GAAAAAGGAT
*
13976022 TTTGCTTTTAAATTTTG
1 TTTGATTTTAAATTTTG
13976039 TTTGATTTTAAATTTT
1 TTTGATTTTAAATTTT
13976055 ATTTTTCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.03, G:0.09, T:0.67
Consensus pattern (17 bp):
TTTGATTTTAAATTTTG
Found at i:13977898 original size:11 final size:11
Alignment explanation
Indices: 13977882--13977907 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
13977872 TTCAGTTTCA
13977882 GTTTTTATTTT
1 GTTTTTATTTT
13977893 GTTTTTATTTT
1 GTTTTTATTTT
13977904 GTTT
1 GTTT
13977908 GCTTAAGGAA
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:0.08, C:0.00, G:0.12, T:0.81
Consensus pattern (11 bp):
GTTTTTATTTT
Found at i:13978353 original size:21 final size:21
Alignment explanation
Indices: 13978327--13978367 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
13978317 TTGCAACATG
13978327 CAGCCTTGTATTGAGCCACAA
1 CAGCCTTGTATTGAGCCACAA
*
13978348 CAGCCTTGTGTTGAGCCACA
1 CAGCCTTGTATTGAGCCACA
13978368 TCAACCTGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (21 bp):
CAGCCTTGTATTGAGCCACAA
Found at i:13982253 original size:23 final size:25
Alignment explanation
Indices: 13982221--13982268 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
13982211 TATAGTGTTT
13982221 ATTTCATTTCATTT-TATT-TATTA
1 ATTTCATTTCATTTATATTATATTA
* *
13982244 ATTTCTTTTCCTTTATATTATATTA
1 ATTTCATTTCATTTATATTATATTA
13982269 CATATTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 12 0.57
24 4 0.19
25 5 0.24
ACGTcount: A:0.25, C:0.10, G:0.00, T:0.65
Consensus pattern (25 bp):
ATTTCATTTCATTTATATTATATTA
Found at i:13984626 original size:40 final size:40
Alignment explanation
Indices: 13984582--13984802 Score: 210
Period size: 40 Copynumber: 5.5 Consensus size: 40
13984572 TAATTATTGA
* *
13984582 TGATTGCACATAGGTGCCCCTATTTGTACTTCGGTACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCC
* *
13984622 TGATTGAACATACGTGCCCCTGTTTGTACTTTGGTACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCC
** ** * * * *
13984662 TGATTATACATACGCACCCATGTTTGTAATTCGGTACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCC
* * * * *
13984702 TGGTTACACATATGTGCCCCTGTTTGTAGTTTGGTACCCC
1 TGATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCC
* * * * *
13984742 TAAATGCACATATGTG-CCTTATTTGTACTTTGGTACCCT
1 TGATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCC
* * *
13984781 TGAATGCACTTAAGTGCCCCTA
1 TGATTGCACATACGTGCCCCTA
13984803 ATTATACTCT
Statistics
Matches: 149, Mismatches: 31, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 32 0.21
40 117 0.79
ACGTcount: A:0.20, C:0.26, G:0.19, T:0.35
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTATTTGTACTTTGGTACCCC
Found at i:13984661 original size:20 final size:20
Alignment explanation
Indices: 13984598--13984742 Score: 67
Period size: 20 Copynumber: 7.2 Consensus size: 20
13984588 CACATAGGTG
* *
13984598 CCCCTATTTGTACTTCGGTA
1 CCCCTGTTTGTACTTTGGTA
* * * ** *
13984618 CCCCTGATTGAACATACGTG
1 CCCCTGTTTGTACTTTGGTA
13984638 CCCCTGTTTGTACTTTGGTA
1 CCCCTGTTTGTACTTTGGTA
* * * ** *
13984658 CCCCTGATTATACATACGCA
1 CCCCTGTTTGTACTTTGGTA
* * *
13984678 CCCATGTTTGTAATTCGGTA
1 CCCCTGTTTGTACTTTGGTA
* ** * *
13984698 CCCCTGGTTACACATAT-GTG
1 CCCCTGTTTGTAC-TTTGGTA
*
13984718 CCCCTGTTTGTAGTTTGGTA
1 CCCCTGTTTGTACTTTGGTA
13984738 CCCCT
1 CCCCT
13984743 AAATGCACAT
Statistics
Matches: 82, Mismatches: 41, Indels: 4
0.65 0.32 0.03
Matches are distributed among these distances:
19 2 0.02
20 79 0.96
21 1 0.01
ACGTcount: A:0.18, C:0.29, G:0.18, T:0.35
Consensus pattern (20 bp):
CCCCTGTTTGTACTTTGGTA
Found at i:13985919 original size:30 final size:30
Alignment explanation
Indices: 13985873--13985996 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
13985863 TTTTATTATG
*
13985873 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
13985904 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
13985934 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
13985964 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
13985994 CCA
1 CCA
13985997 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:13985928 original size:15 final size:15
Alignment explanation
Indices: 13985883--13985990 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
13985873 CCAATATCTC
13985883 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
13985898 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
13985913 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
13985928 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
13985943 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
13985958 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
13985973 GATACCCATATCTTT
1 GATACCCATATCTTT
13985988 GAT
1 GAT
13985991 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:13990602 original size:30 final size:30
Alignment explanation
Indices: 13990556--13990679 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
13990546 TTTTATTATG
*
13990556 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
13990587 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
13990617 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * * *
13990647 CTATTATTTGATACCCATATATTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
13990677 CCA
1 CCA
13990680 TAAATATGGA
Statistics
Matches: 87, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 80 0.92
31 7 0.08
ACGTcount: A:0.27, C:0.23, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:13990611 original size:15 final size:15
Alignment explanation
Indices: 13990566--13990673 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
13990556 CCAATATCTC
*
13990566 GATACCCATATCTTT
1 GATACCCATATATTT
**
13990581 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
*
13990596 GATACCCATATCTTT
1 GATACCCATATATTT
**
13990611 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
*
13990626 GATACCCATATCTTT
1 GATACCCATATATTT
** *
13990641 GACTTTCTAT-TATTT
1 GA-TACCCATATATTT
13990656 GATACCCATATATTT
1 GATACCCATATATTT
13990671 GAT
1 GAT
13990674 TTTCCATAAA
Statistics
Matches: 68, Mismatches: 19, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
14 12 0.18
15 44 0.65
16 12 0.18
ACGTcount: A:0.27, C:0.21, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATATTT
Found at i:13993544 original size:43 final size:43
Alignment explanation
Indices: 13993496--13993684 Score: 369
Period size: 43 Copynumber: 4.4 Consensus size: 43
13993486 TTGGTTTTCA
13993496 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
13993539 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
13993582 ACACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
13993625 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
13993668 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
13993685 TTGAAATGCA
Statistics
Matches: 144, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 144 1.00
ACGTcount: A:0.23, C:0.15, G:0.35, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:13993701 original size:29 final size:29
Alignment explanation
Indices: 13993666--13993739 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
13993656 GTTGTGAGAT
* *
13993666 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
13993695 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
13993724 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
13993740 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:13994324 original size:40 final size:40
Alignment explanation
Indices: 13994050--13994310 Score: 296
Period size: 40 Copynumber: 6.5 Consensus size: 40
13994040 TCGAATGATG
* *
13994050 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * * * *
13994090 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-TATA
*
13994130 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
13994170 TCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
13994210 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* ** * * *
13994250 TCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
13994290 TCCGGGCTAGGTCCCGAAGAG
1 TCCGGGCTAAGTCCCGAAGAG
13994311 TAATCATGAT
Statistics
Matches: 187, Mismatches: 30, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
39 1 0.01
40 167 0.89
41 19 0.10
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:14001901 original size:6 final size:6
Alignment explanation
Indices: 14001890--14001923 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
14001880 ATCCAAAAGC
14001890 TTTTAA TTTTAA TTTTAA TTTTGCAA TTTTAA TT
1 TTTTAA TTTTAA TTTTAA TTTT--AA TTTTAA TT
14001924 GTCTTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 20 0.77
8 6 0.23
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (6 bp):
TTTTAA
Found at i:14005334 original size:20 final size:20
Alignment explanation
Indices: 14005309--14005380 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
14005299 TAAGCTTATT
*
14005309 ATAAGTAAATGGAATTGAAA
1 ATAAGTAAATGGAATGGAAA
*
14005329 ATAAGTAAATGAAATGGAAA
1 ATAAGTAAATGGAATGGAAA
* *
14005349 GTAAGTAAATGGAATGGTAA
1 ATAAGTAAATGGAATGGAAA
*
14005369 GTAAG-AAATGGA
1 ATAAGTAAATGGA
14005381 GTGGTTCATA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
19 7 0.15
20 40 0.85
ACGTcount: A:0.53, C:0.00, G:0.25, T:0.22
Consensus pattern (20 bp):
ATAAGTAAATGGAATGGAAA
Found at i:14005360 original size:15 final size:16
Alignment explanation
Indices: 14005340--14005372 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
14005330 TAAGTAAATG
14005340 AAATGGAA-AGTAAGT
1 AAATGGAATAGTAAGT
*
14005355 AAATGGAATGGTAAGT
1 AAATGGAATAGTAAGT
14005371 AA
1 AA
14005373 GAAATGGAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.52, C:0.00, G:0.27, T:0.21
Consensus pattern (16 bp):
AAATGGAATAGTAAGT
Found at i:14009055 original size:12 final size:12
Alignment explanation
Indices: 14009038--14009067 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
14009028 TATAGTATCA
14009038 AGTTCTAATACG
1 AGTTCTAATACG
*
14009050 AGTTCTAATATG
1 AGTTCTAATACG
14009062 AGTTCT
1 AGTTCT
14009068 GAATCGAGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (12 bp):
AGTTCTAATACG
Found at i:14011091 original size:92 final size:92
Alignment explanation
Indices: 14010934--14011120 Score: 365
Period size: 92 Copynumber: 2.0 Consensus size: 92
14010924 GTTTACGTAA
14010934 TCTTGGTAGTTTTGGCGCATTAGTGATGTGTGTGAATATGGCTAAGTTATGGTGCATGTTTAAGT
1 TCTTGGTAGTTTTGGCGCATTAGTGATGTGTGTGAATATGGCTAAGTTATGGTGCATGTTTAAGT
14010999 GACTAAATTGTATGTTTGTGTTTAAGT
66 GACTAAATTGTATGTTTGTGTTTAAGT
*
14011026 TCTTGGTAGTTTTGGCGCCTTAGTGATGTGTGTGAATATGGCTAAGTTATGGTGCATGTTTAAGT
1 TCTTGGTAGTTTTGGCGCATTAGTGATGTGTGTGAATATGGCTAAGTTATGGTGCATGTTTAAGT
14011091 GACTAAATTGTATGTTTGTGTTTAAGT
66 GACTAAATTGTATGTTTGTGTTTAAGT
14011118 TCT
1 TCT
14011121 AATGGTCATA
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 94 1.00
ACGTcount: A:0.21, C:0.07, G:0.28, T:0.44
Consensus pattern (92 bp):
TCTTGGTAGTTTTGGCGCATTAGTGATGTGTGTGAATATGGCTAAGTTATGGTGCATGTTTAAGT
GACTAAATTGTATGTTTGTGTTTAAGT
Found at i:14019343 original size:27 final size:27
Alignment explanation
Indices: 14019305--14019357 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
14019295 GCAGTGCTCG
*
14019305 TAGATATGTTTTGGCAAACTATGTTCC
1 TAGATATGTTTTGGCAAACTAAGTTCC
*
14019332 TAGATGTGTTTTGGCAAACTAAGTTC
1 TAGATATGTTTTGGCAAACTAAGTTC
14019358 TCAAATGTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (27 bp):
TAGATATGTTTTGGCAAACTAAGTTCC
Found at i:14019365 original size:27 final size:27
Alignment explanation
Indices: 14019311--14019366 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
14019301 CTCGTAGATA
* *
14019311 TGTTTTGGCAAACTATGTTCCTAGATG
1 TGTTTTGGCAAACTAAGTTCCTAAATG
14019338 TGTTTTGGCAAACTAAGTT-CTCAAATG
1 TGTTTTGGCAAACTAAGTTCCT-AAATG
14019365 TG
1 TG
14019367 GTTGTCAAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 2 0.08
27 24 0.92
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.39
Consensus pattern (27 bp):
TGTTTTGGCAAACTAAGTTCCTAAATG
Found at i:14026999 original size:16 final size:18
Alignment explanation
Indices: 14026961--14027001 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
14026951 ATATGAACAG
14026961 TGATTTACGAGCTCCTCA
1 TGATTTACGAGCTCCTCA
*
14026979 TGATTTGCGAGCT-CT-A
1 TGATTTACGAGCTCCTCA
14026995 TGATTTA
1 TGATTTA
14027002 GTAAATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 7 0.33
17 2 0.10
18 12 0.57
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.39
Consensus pattern (18 bp):
TGATTTACGAGCTCCTCA
Found at i:14033913 original size:22 final size:20
Alignment explanation
Indices: 14033881--14033930 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 20
14033871 TTTCTCTCAA
14033881 TCTCTCTTTCAATATCCTCTATT
1 TCTCT-TTTCAATAT-CTCT-TT
*
14033904 TTTCTTTTCAATATCTCTTT
1 TCTCTTTTCAATATCTCTTT
14033924 TCTCTTT
1 TCTCTTT
14033931 GCTTTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 8 0.32
21 4 0.16
22 9 0.36
23 4 0.16
ACGTcount: A:0.14, C:0.26, G:0.00, T:0.60
Consensus pattern (20 bp):
TCTCTTTTCAATATCTCTTT
Found at i:14042082 original size:26 final size:26
Alignment explanation
Indices: 14042046--14042099 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
14042036 AAGAAAAAAG
14042046 AAAGAGAAGTAAGCATATAGCTTAGT
1 AAAGAGAAGTAAGCATATAGCTTAGT
*
14042072 AAAGAGAAGTAATCATATAGCTTAGT
1 AAAGAGAAGTAAGCATATAGCTTAGT
14042098 AA
1 AA
14042100 GTACGTATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.48, C:0.07, G:0.20, T:0.24
Consensus pattern (26 bp):
AAAGAGAAGTAAGCATATAGCTTAGT
Found at i:14043010 original size:50 final size:51
Alignment explanation
Indices: 14042949--14043081 Score: 142
Period size: 51 Copynumber: 2.6 Consensus size: 51
14042939 TATCATTCGA
* * * *
14042949 TACACGTAGTAGCCTTCACATAGTACTACACACATGATC-AAACTTTCGGG
1 TACACGTAGTAGCCTACACATAGTACTACACACATGACCAAAACCTTCCGG
* * * * *
14042999 TTCACGTAGTAGCCGACACCTAGTATTACACACGTGACCAAAACCTTCCGG
1 TACACGTAGTAGCCTACACATAGTACTACACACATGACCAAAACCTTCCGG
** * *
14043050 TACACACAGTAGCCTGCACTTAGTACTACACA
1 TACACGTAGTAGCCTACACATAGTACTACACA
14043082 TGTGTTTATA
Statistics
Matches: 66, Mismatches: 16, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
50 32 0.48
51 34 0.52
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (51 bp):
TACACGTAGTAGCCTACACATAGTACTACACACATGACCAAAACCTTCCGG
Done.