Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 34 of 216
Found at i:9711832 original size:18 final size:20
Alignment explanation
Indices: 9711791--9711835 Score: 58
Period size: 18 Copynumber: 2.3 Consensus size: 20
9711781 ATGCCATTGG
9711791 AAAGAAATTTGAACAAAAATC
1 AAAG-AATTTGAACAAAAATC
*
9711812 AAAGAATTTG-ATAAAAA-C
1 AAAGAATTTGAACAAAAATC
9711830 AAAGAA
1 AAAGAA
9711836 AACGCTTGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 7 0.30
19 6 0.26
20 6 0.26
21 4 0.17
ACGTcount: A:0.64, C:0.07, G:0.11, T:0.18
Consensus pattern (20 bp):
AAAGAATTTGAACAAAAATC
Found at i:9723553 original size:17 final size:19
Alignment explanation
Indices: 9723517--9723553 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
9723507 TATCTTTTAT
*
9723517 GAAAAATTGTAATGTTGTG
1 GAAAAATTGTAATCTTGTG
9723536 GAAAAA-TGTAA-CTTGTG
1 GAAAAATTGTAATCTTGTG
9723553 G
1 G
9723554 GACAAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 5 0.29
19 6 0.35
ACGTcount: A:0.38, C:0.03, G:0.27, T:0.32
Consensus pattern (19 bp):
GAAAAATTGTAATCTTGTG
Found at i:9725635 original size:49 final size:48
Alignment explanation
Indices: 9725565--9725664 Score: 155
Period size: 49 Copynumber: 2.1 Consensus size: 48
9725555 AAAAAAATAT
* * *
9725565 AATGTTATTGATTCAAGTTAATTTTAATAAATATAGTTTTTGAATAAAA
1 AATGTTATTAATTCAAGTTAATTTTAATAAATATA-TTTTTAAACAAAA
*
9725614 AATGTTATTAATTCAATTTAATTTTAATAAATATATTTTTAAACAAAA
1 AATGTTATTAATTCAAGTTAATTTTAATAAATATATTTTTAAACAAAA
9725662 AAT
1 AAT
9725665 AATTTAAGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
48 14 0.30
49 33 0.70
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.45
Consensus pattern (48 bp):
AATGTTATTAATTCAAGTTAATTTTAATAAATATATTTTTAAACAAAA
Found at i:9732728 original size:28 final size:28
Alignment explanation
Indices: 9732688--9732755 Score: 109
Period size: 28 Copynumber: 2.4 Consensus size: 28
9732678 CGAATATAAT
9732688 AAATATTTATTTTTTATTTTTTTATTTTAA
1 AAATA-TT-TTTTTTATTTTTTTATTTTAA
*
9732718 AAATATTTTTTTTATTTTTTTATTTTTA
1 AAATATTTTTTTTATTTTTTTATTTTAA
9732746 AAATATTTTT
1 AAATATTTTT
9732756 AAAATACTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
28 30 0.81
29 2 0.05
30 5 0.14
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (28 bp):
AAATATTTTTTTTATTTTTTTATTTTAA
Found at i:9742116 original size:16 final size:16
Alignment explanation
Indices: 9742063--9742118 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 16
9742053 CGTTTGGTTC
*
9742063 GCTGTAATGGAATAGA
1 GCTGTAATGAAATAGA
* * *
9742079 GTTATAATGTAATAGA
1 GCTGTAATGAAATAGA
*
9742095 GTTGTAATGAAATAGA
1 GCTGTAATGAAATAGA
9742111 GCTGTAAT
1 GCTGTAAT
9742119 CAGTTATTCA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.39, C:0.04, G:0.25, T:0.32
Consensus pattern (16 bp):
GCTGTAATGAAATAGA
Found at i:9742325 original size:37 final size:37
Alignment explanation
Indices: 9742283--9742353 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
9742273 TTGTTATTAA
*
9742283 ATTTTAATAGGATTATTATTAAAAATAATTTAATCAT
1 ATTTTAATAGAATTATTATTAAAAATAATTTAATCAT
* *
9742320 ATTTTAATATAATTATTATTAAATATAATTTAAT
1 ATTTTAATAGAATTATTATTAAAAATAATTTAAT
9742354 AAAAATAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (37 bp):
ATTTTAATAGAATTATTATTAAAAATAATTTAATCAT
Found at i:9742405 original size:19 final size:19
Alignment explanation
Indices: 9742324--9742406 Score: 55
Period size: 19 Copynumber: 4.3 Consensus size: 19
9742314 AATCATATTT
*
9742324 TAATAT-AATTATTAT-TA
1 TAATATAAATTAATATATA
* * *
9742341 -AATATAATTTAATAAAAA
1 TAATATAAATTAATATATA
*
9742359 TAATATAATATTTAATAATATTTT
1 TAATATAA-A-TTAAT-ATA--TA
9742383 TAATATAAATTAATATATA
1 TAATATAAATTAATATATA
9742402 TAATA
1 TAATA
9742407 ATATTTTTAA
Statistics
Matches: 49, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
16 5 0.10
17 6 0.12
18 1 0.02
19 13 0.27
21 8 0.16
22 7 0.14
23 1 0.02
24 8 0.16
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TAATATAAATTAATATATA
Found at i:9742416 original size:43 final size:45
Alignment explanation
Indices: 9742313--9742455 Score: 131
Period size: 43 Copynumber: 3.3 Consensus size: 45
9742303 AAAAATAATT
* * * * * *
9742313 TAATCATATTTTAATATAATTATTATTAAATATAATTTAATAAAAA
1 TAATAATATTTTTATATAATTATT-TTTAATATAAATTAATATATA
*
9742359 TAAT-ATAATATTTA-ATAA-TATTTTTAATATAAATTAATATATA
1 TAATAAT-ATTTTTATATAATTATTTTTAATATAAATTAATATATA
*
9742402 TAATAATATTTTTAATATAATTATTTTT-ATATTAATT--TATAT-
1 TAATAATATTTTT-ATATAATTATTTTTAATATAAATTAATATATA
9742444 TAA-AATATTTTT
1 TAATAATATTTTT
9742456 TTTTGTTTTA
Statistics
Matches: 84, Mismatches: 8, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
41 9 0.11
42 3 0.04
43 31 0.37
44 7 0.08
45 18 0.21
46 16 0.19
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.52
Consensus pattern (45 bp):
TAATAATATTTTTATATAATTATTTTTAATATAAATTAATATATA
Found at i:9742421 original size:14 final size:14
Alignment explanation
Indices: 9742373--9742430 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 14
9742363 ATAATATTTA
9742373 ATAATATTTTTAAT
1 ATAATATTTTTAAT
*
9742387 ATAA-ATTAATATATAT
1 ATAATATT--TTTA-AT
9742403 AATAATATTTTTAAT
1 -ATAATATTTTTAAT
9742418 ATAATTATTTTTA
1 ATAA-TATTTTTA
9742431 TATTAATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
13 3 0.08
14 8 0.22
15 13 0.36
16 5 0.14
17 4 0.11
18 3 0.08
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
ATAATATTTTTAAT
Found at i:9742433 original size:31 final size:31
Alignment explanation
Indices: 9742313--9742421 Score: 106
Period size: 31 Copynumber: 3.6 Consensus size: 31
9742303 AAAAATAATT
* *
9742313 TAATCATA-TTTTAATAT-AATTATTAT-TA
1 TAATAATATTTTTAATATAAATTAATATATA
* *
9742341 -AAT-ATA-ATTTAATA-AAAATAATATAATA
1 TAATAATATTTTTAATATAAATTAATAT-ATA
9742369 TTTAATAATATTTTTAATATAAATTAATATATA
1 --TAATAATATTTTTAATATAAATTAATATATA
9742402 TAATAATATTTTTAATATAA
1 TAATAATATTTTTAATATAA
9742422 TTATTTTTAT
Statistics
Matches: 67, Mismatches: 5, Indels: 15
0.77 0.06 0.17
Matches are distributed among these distances:
26 17 0.25
27 3 0.04
28 2 0.03
31 23 0.34
32 3 0.04
33 10 0.15
34 9 0.13
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (31 bp):
TAATAATATTTTTAATATAAATTAATATATA
Found at i:9742441 original size:16 final size:15
Alignment explanation
Indices: 9742321--9742430 Score: 52
Period size: 14 Copynumber: 7.3 Consensus size: 15
9742311 TTTAATCATA
9742321 TTTTAATATAATTAT
1 TTTTAATATAATTAT
*
9742336 TATTAAATATAATT-T
1 T-TTTAATATAATTAT
** * *
9742351 AATAAAAATAATATAAT
1 TTTTAATATAAT-T-AT
*
9742368 ATTT-A-ATAA-TAT
1 TTTTAATATAATTAT
9742380 TTTTAATATAA--AT
1 TTTTAATATAATTAT
**
9742393 TAATATATATAATAATAT
1 TTTTA-ATATAAT--TAT
9742411 TTTTAATATAATTAT
1 TTTTAATATAATTAT
9742426 TTTTA
1 TTTTA
9742431 TATTAATTTA
Statistics
Matches: 73, Mismatches: 11, Indels: 22
0.69 0.10 0.21
Matches are distributed among these distances:
12 5 0.07
13 7 0.10
14 19 0.26
15 15 0.21
16 12 0.16
17 10 0.14
18 5 0.07
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TTTTAATATAATTAT
Found at i:9745918 original size:15 final size:17
Alignment explanation
Indices: 9745898--9745929 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
9745888 ACACATGGTC
9745898 GTGTGTC-CAAG-CCGT
1 GTGTGTCACAAGACCGT
9745913 GTGTGTCACAAGACCGT
1 GTGTGTCACAAGACCGT
9745930 ATGGCCAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 4 0.27
17 4 0.27
ACGTcount: A:0.19, C:0.25, G:0.31, T:0.25
Consensus pattern (17 bp):
GTGTGTCACAAGACCGT
Found at i:9749601 original size:26 final size:26
Alignment explanation
Indices: 9749572--9749634 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
9749562 ACGAATTTTC
* *
9749572 TCAAAATTTTACCGGGAGTAAAATCG
1 TCAAAATTTTACCGAGAGTAAAATCA
*
9749598 TCAAAATTTTACTGAGAGTAAAATCA
1 TCAAAATTTTACCGAGAGTAAAATCA
*
9749624 TTAAAATTTTA
1 TCAAAATTTTA
9749635 TAATGGGTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (26 bp):
TCAAAATTTTACCGAGAGTAAAATCA
Found at i:9749644 original size:26 final size:26
Alignment explanation
Indices: 9749572--9749647 Score: 73
Period size: 26 Copynumber: 2.9 Consensus size: 26
9749562 ACGAATTTTC
*** *
9749572 TCAAAATTTTACCGGGAGTAAAATCG
1 TCAAAATTTTACTAAGAGTAAAATCA
*
9749598 TCAAAATTTTACTGAGAGTAAAATCA
1 TCAAAATTTTACTAAGAGTAAAATCA
* *
9749624 TTAAAATTTTA-TAATGGGTAAAAT
1 TCAAAATTTTACTAA-GAGTAAAAT
9749648 TAGCGTGAGA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
25 2 0.05
26 41 0.95
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.33
Consensus pattern (26 bp):
TCAAAATTTTACTAAGAGTAAAATCA
Found at i:9751840 original size:17 final size:17
Alignment explanation
Indices: 9751818--9751874 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
9751808 AAATAGGGTT
9751818 TAAATTTTCTTTTTGTC
1 TAAATTTTCTTTTTGTC
*** *
9751835 TAAATTAGTTCTTGAAGGTT
1 TAAATT--TTCTT-TTTGTC
9751855 TAAATTTTCTTTTTGTC
1 TAAATTTTCTTTTTGTC
9751872 TAA
1 TAA
9751875 GTTAGTTCTT
Statistics
Matches: 29, Mismatches: 8, Indels: 6
0.67 0.19 0.14
Matches are distributed among these distances:
17 11 0.38
18 5 0.17
19 5 0.17
20 8 0.28
ACGTcount: A:0.25, C:0.09, G:0.11, T:0.56
Consensus pattern (17 bp):
TAAATTTTCTTTTTGTC
Found at i:9751855 original size:37 final size:37
Alignment explanation
Indices: 9751814--9751884 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
9751804 CTCAAAATAG
9751814 GGTTTAAATTTTCTTTTTGTCTAAATTAGTTCTTGAA
1 GGTTTAAATTTTCTTTTTGTCTAAATTAGTTCTTGAA
*
9751851 GGTTTAAATTTTCTTTTTGTCTAAGTTAGTTCTT
1 GGTTTAAATTTTCTTTTTGTCTAAATTAGTTCTT
9751885 AAACTTAGCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.21, C:0.08, G:0.14, T:0.56
Consensus pattern (37 bp):
GGTTTAAATTTTCTTTTTGTCTAAATTAGTTCTTGAA
Found at i:9752426 original size:6 final size:6
Alignment explanation
Indices: 9752411--9752476 Score: 73
Period size: 6 Copynumber: 11.0 Consensus size: 6
9752401 AATAATTATA
* * *
9752411 TATATG TATATT TATATT T-T-TA TATATG TATATTT ATATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT TATA-TT -TATATT TATATT
9752459 TATATT TATATT TATATT
1 TATATT TATATT TATATT
9752477 AAATCACTAA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
4 2 0.04
5 2 0.04
6 41 0.79
7 3 0.06
8 4 0.08
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (6 bp):
TATATT
Found at i:9752434 original size:14 final size:14
Alignment explanation
Indices: 9752417--9752471 Score: 69
Period size: 16 Copynumber: 3.9 Consensus size: 14
9752407 TATATATATG
9752417 TATATTTATATTTT
1 TATATTTATATTTT
*
9752431 TATATATGTATATTTA
1 TATAT-T-TATATTTT
9752447 TATATTTATA--TT
1 TATATTTATATTTT
9752459 TATATTTATATTT
1 TATATTTATATTT
9752472 ATATTAAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
12 11 0.31
14 10 0.29
15 2 0.06
16 12 0.34
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (14 bp):
TATATTTATATTTT
Found at i:9752434 original size:22 final size:22
Alignment explanation
Indices: 9752409--9752471 Score: 103
Period size: 22 Copynumber: 3.0 Consensus size: 22
9752399 ATAATAATTA
9752409 TATATATGTATATTTATATTTT
1 TATATATGTATATTTATATTTT
*
9752431 TATATATGTATATTTATATATT
1 TATATATGTATATTTATATTTT
9752453 TATAT-T-TATATTTATATTT
1 TATATATGTATATTTATATTT
9752472 ATATTAAATC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
20 12 0.31
21 1 0.03
22 26 0.67
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (22 bp):
TATATATGTATATTTATATTTT
Found at i:9752739 original size:9 final size:10
Alignment explanation
Indices: 9752696--9752745 Score: 55
Period size: 10 Copynumber: 4.7 Consensus size: 10
9752686 AGAATTTTTA
9752696 TTTTAATGTTT
1 TTTTAATG-TT
*
9752707 TTTTAGTGTAT
1 TTTTAATGT-T
9752718 CTTTTAATGTT
1 -TTTTAATGTT
*
9752729 TTTTAATTTT
1 TTTTAATGTT
9752739 TTTTAAT
1 TTTTAAT
9752746 ATAATAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 17 0.50
11 9 0.26
12 8 0.24
ACGTcount: A:0.20, C:0.02, G:0.08, T:0.70
Consensus pattern (10 bp):
TTTTAATGTT
Found at i:9753458 original size:202 final size:204
Alignment explanation
Indices: 9753079--9753484 Score: 681
Period size: 203 Copynumber: 2.0 Consensus size: 204
9753069 TCAGGATTAA
9753079 AAAAATCAATTTTTTAGCGGAGCCATGTAGAATAGCGTCACCTATATAAATACCAAGAAAATACT
1 AAAAATCAATTTTTTAGCGGAGCCATGTAGAATAGCGTCACCTATATAAATACCAAGAAAATACT
* ** ** **
9753144 GTAATTTTTAAAAAATAAGGAGACTTTTAAAAAAATCATTTTCTGATAGAGTTAAATAAATTAGC
66 ATAATTTAAAAAAAATAAGGAGACTTAAAAAAAAATCATTTTCTGATAGAGCCAAATAAATTAGC
** *
9753209 GCCACCAGTTTCCAAAGCTGTCTATCTCCTTTTGCAACACTTTTTTAATATATTTAAAA-TTTTA
131 GCCACCAGTTTCCAAAGCTACCTATCTCCTTTTACAACACTTTTTTAATATATTTAAAATTTTTA
9753273 AAAAAATTT
196 AAAAAATTT
* *
9753282 AAAAATCAATTTTTTGGCGGAGCCATGTAGAATAGTGTCACCTATATAAATACCAAGAAAATACT
1 AAAAATCAATTTTTTAGCGGAGCCATGTAGAATAGCGTCACCTATATAAATACCAAGAAAATACT
*
9753347 ATAATTTAAAAAAAATAAGGAGAC-TAAAAAAAAATCATTTTCTGATAGAGCCAAATAAATTGGC
66 ATAATTTAAAAAAAATAAGGAGACTTAAAAAAAAATCATTTTCTGATAGAGCCAAATAAATTAGC
9753411 GCCACCAGTTTCCAAAGCTACCTATCTCCTTTTACAACACTTTTTTAATATATTTAAAATTTTTA
131 GCCACCAGTTTCCAAAGCTACCTATCTCCTTTTACAACACTTTTTTAATATATTTAAAATTTTTA
9753476 AAAAAATTT
196 AAAAAATTT
9753485 TAAGGTTACT
Statistics
Matches: 189, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
202 91 0.48
203 98 0.52
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.33
Consensus pattern (204 bp):
AAAAATCAATTTTTTAGCGGAGCCATGTAGAATAGCGTCACCTATATAAATACCAAGAAAATACT
ATAATTTAAAAAAAATAAGGAGACTTAAAAAAAAATCATTTTCTGATAGAGCCAAATAAATTAGC
GCCACCAGTTTCCAAAGCTACCTATCTCCTTTTACAACACTTTTTTAATATATTTAAAATTTTTA
AAAAAATTT
Found at i:9767557 original size:15 final size:17
Alignment explanation
Indices: 9767520--9767559 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
9767510 CAATAAAGAC
9767520 TAAAATATTATAAACAA
1 TAAAATATTATAAACAA
9767537 -ATAAATATT-T-AACAA
1 TA-AAATATTATAAACAA
9767552 TAAAATAT
1 TAAAATAT
9767560 GTCATGCCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
15 11 0.52
16 3 0.14
17 7 0.33
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAAATATTATAAACAA
Found at i:9770541 original size:28 final size:27
Alignment explanation
Indices: 9770510--9770580 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
9770500 TAAAAAATAT
9770510 CCAAAATGTTATAAAATTTTTTTATTTA
1 CCAAAAT-TTATAAAATTTTTTTATTTA
** *
9770538 CCAAAAAATATATAATTTTTTTATTTA
1 CCAAAATTTATAAAATTTTTTTATTTA
9770565 CCAAAAATTTATAAAA
1 CC-AAAATTTATAAAA
9770581 AAAACAAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
27 20 0.56
28 16 0.44
ACGTcount: A:0.46, C:0.08, G:0.01, T:0.44
Consensus pattern (27 bp):
CCAAAATTTATAAAATTTTTTTATTTA
Found at i:9770549 original size:27 final size:28
Alignment explanation
Indices: 9770519--9770580 Score: 99
Period size: 27 Copynumber: 2.2 Consensus size: 28
9770509 TCCAAAATGT
9770519 TATAAAATTTTTTTATTTACCAAAAA-A
1 TATAAAATTTTTTTATTTACCAAAAATA
* *
9770546 TATATAATTTTTTTATTTACCAAAAATT
1 TATAAAATTTTTTTATTTACCAAAAATA
9770574 TATAAAA
1 TATAAAA
9770581 AAAACAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
27 25 0.81
28 6 0.19
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (28 bp):
TATAAAATTTTTTTATTTACCAAAAATA
Found at i:9770598 original size:16 final size:16
Alignment explanation
Indices: 9770577--9770617 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
9770567 AAAAATTTAT
9770577 AAAAAAAACAAAAAAC
1 AAAAAAAACAAAAAAC
*
9770593 AAAAAAAATAAAAAAC
1 AAAAAAAACAAAAAAC
9770609 AGAAAAAAA
1 A-AAAAAAA
9770618 AACCTGGACT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 16 0.70
17 7 0.30
ACGTcount: A:0.88, C:0.07, G:0.02, T:0.02
Consensus pattern (16 bp):
AAAAAAAACAAAAAAC
Found at i:9770691 original size:27 final size:27
Alignment explanation
Indices: 9770649--9770726 Score: 120
Period size: 27 Copynumber: 2.9 Consensus size: 27
9770639 TCCCTGGGTG
* *
9770649 AAGGGAACACTATTGGCGGCACCAAAC
1 AAGGGAACCCTGTTGGCGGCACCAAAC
9770676 AAGGGAACCCTGTTGGCGGCACCAAAC
1 AAGGGAACCCTGTTGGCGGCACCAAAC
**
9770703 AAGGGTTCCCTGTTGGCGGCACCA
1 AAGGGAACCCTGTTGGCGGCACCA
9770727 CTCGTGTTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.28, C:0.28, G:0.29, T:0.14
Consensus pattern (27 bp):
AAGGGAACCCTGTTGGCGGCACCAAAC
Found at i:9771019 original size:3 final size:3
Alignment explanation
Indices: 9771011--9771042 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
9771001 AACTTTATAG
9771011 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
9771043 AGATGTTACT
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:9771101 original size:63 final size:63
Alignment explanation
Indices: 9771037--9771165 Score: 144
Period size: 61 Copynumber: 2.1 Consensus size: 63
9771027 ATTATTATTA
*
9771037 TTATTAA-GATGTTACTTAGTATTATTGTTAGTA-A-AAAATTAGT-AT-TAATT-TTGTAGTTA
1 TTATTAATAATGTTACTTAGTATTATT-TT-GTATATAAAATTAGTAATATAATTATTGT-GTTA
9771096 G
63 G
* * * *
9771097 TTATTAATAATTTTAGTTAGTATTATTTTGTATATAAAATTATTAATATTATTATTGTGTTAG
1 TTATTAATAATGTTACTTAGTATTATTTTGTATATAAAATTAGTAATATAATTATTGTGTTAG
9771160 TTATTA
1 TTATTA
9771166 GGATTAGTGG
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
59 3 0.05
60 10 0.17
61 24 0.41
62 2 0.03
63 15 0.26
64 4 0.07
ACGTcount: A:0.35, C:0.01, G:0.12, T:0.53
Consensus pattern (63 bp):
TTATTAATAATGTTACTTAGTATTATTTTGTATATAAAATTAGTAATATAATTATTGTGTTAG
Found at i:9771110 original size:22 final size:19
Alignment explanation
Indices: 9771075--9771121 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
9771065 TAGTAAAAAA
9771075 TTAGTATTAAT--TTTGTAG
1 TTAGTATTAATAATTT-TAG
9771093 TTAGTTATTAATAATTTTAG
1 TTAG-TATTAATAATTTTAG
9771113 TTAGTATTA
1 TTAGTATTA
9771122 TTTTGTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 4 0.15
19 12 0.46
20 7 0.27
21 3 0.12
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (19 bp):
TTAGTATTAATAATTTTAG
Found at i:9776092 original size:17 final size:18
Alignment explanation
Indices: 9776059--9776093 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
9776049 TTTTTTTCCT
*
9776059 TTTTTTTATTCTTTTTTG
1 TTTTTTTACTCTTTTTTG
9776077 TTTTTTTACT-TTTTTTG
1 TTTTTTTACTCTTTTTTG
9776094 ATATATTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.06, C:0.06, G:0.06, T:0.83
Consensus pattern (18 bp):
TTTTTTTACTCTTTTTTG
Found at i:9776124 original size:27 final size:29
Alignment explanation
Indices: 9776094--9776163 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
9776084 ACTTTTTTTG
9776094 ATATATTTTGGTAAAT-AAAAAAA-TTAT
1 ATATATTTTGGTAAATAAAAAAAAGTTAT
*
9776121 ATATTTTTTGGTAAATAAAAAAAAAGTTAT
1 ATATATTTTGGTAAAT-AAAAAAAAGTTAT
9776151 A-ATATTTTGGTAA
1 ATATATTTTGGTAA
9776164 TTTTTTATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
27 15 0.39
29 18 0.47
30 5 0.13
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (29 bp):
ATATATTTTGGTAAATAAAAAAAAGTTAT
Found at i:9776224 original size:19 final size:19
Alignment explanation
Indices: 9776200--9776240 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
9776190 TATAAAACCC
*
9776200 ATAATAAAACATTACAAAA
1 ATAATAAAACATTAAAAAA
*
9776219 ATAATAAAATATTAAAAAA
1 ATAATAAAACATTAAAAAA
9776238 ATA
1 ATA
9776241 CCAAAATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (19 bp):
ATAATAAAACATTAAAAAA
Found at i:9776246 original size:19 final size:19
Alignment explanation
Indices: 9776200--9776251 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
9776190 TATAAAACCC
* * *
9776200 ATAATAAAACATTACAAAA
1 ATAACAAAATATTAAAAAA
*
9776219 ATAATAAAATATTAAAAAA
1 ATAACAAAATATTAAAAAA
*
9776238 ATACCAAAATATTA
1 ATAACAAAATATTA
9776252 TATATATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (19 bp):
ATAACAAAATATTAAAAAA
Found at i:9776835 original size:16 final size:18
Alignment explanation
Indices: 9776814--9776848 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
9776804 TTCATGCTAA
9776814 ATATAT-CTAAA-AAATT
1 ATATATCCTAAATAAATT
9776830 ATATATCCTAAATAAATT
1 ATATATCCTAAATAAATT
9776848 A
1 A
9776849 ATAAAATACG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 5 0.29
18 6 0.35
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (18 bp):
ATATATCCTAAATAAATT
Found at i:9776966 original size:10 final size:10
Alignment explanation
Indices: 9776953--9777053 Score: 79
Period size: 10 Copynumber: 10.5 Consensus size: 10
9776943 TTCTCTTCTC
9776953 CTTTCCTTTT
1 CTTTCCTTTT
9776963 CTTTCCTTATT
1 CTTTCCTT-TT
9776974 -TTT-C-TTT
1 CTTTCCTTTT
***
9776981 CTTTCCTCCC
1 CTTTCCTTTT
9776991 CTTTCCTTTT
1 CTTTCCTTTT
9777001 CTTTCCTTCTT
1 CTTTCCTT-TT
9777012 -TTT-C-TTT
1 CTTTCCTTTT
* *
9777019 CTTTCCTCTC
1 CTTTCCTTTT
9777029 CTTTCCTTTT
1 CTTTCCTTTT
* *
9777039 CCTTCTTTTT
1 CTTTCCTTTT
9777049 CTTTC
1 CTTTC
9777054 TTCCTTTCTT
Statistics
Matches: 70, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
7 4 0.06
8 8 0.11
9 4 0.06
10 50 0.71
11 4 0.06
ACGTcount: A:0.01, C:0.34, G:0.00, T:0.65
Consensus pattern (10 bp):
CTTTCCTTTT
Found at i:9776981 original size:18 final size:18
Alignment explanation
Indices: 9776960--9777070 Score: 95
Period size: 18 Copynumber: 6.1 Consensus size: 18
9776950 CTCCTTTCCT
*
9776960 TTTCTTTCCTTATTTTTC
1 TTTCTTTCCTTCTTTTTC
* * *
9776978 TTTCTTTCCTCCCCTTTCC
1 TTTCTTTCCT-TCTTTTTC
9776997 TTTTCTTTCCTTCTTTTTC
1 -TTTCTTTCCTTCTTTTTC
*
9777016 TTTCTTTCC-TCTCCTTTC
1 TTTCTTTCCTTCT-TTTTC
*
9777034 -CT-TTTCCTTCTTTTTC
1 TTTCTTTCCTTCTTTTTC
9777050 TTTC-TTCCTTTCTTTCTTC
1 TTTCTTTCC-TTCTTT-TTC
9777069 TT
1 TT
9777071 CTTCCCCTCT
Statistics
Matches: 74, Mismatches: 11, Indels: 15
0.74 0.11 0.15
Matches are distributed among these distances:
16 9 0.12
17 12 0.16
18 29 0.39
19 14 0.19
20 10 0.14
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTCTTTCCTTCTTTTTC
Found at i:9776998 original size:38 final size:38
Alignment explanation
Indices: 9776928--9777061 Score: 173
Period size: 38 Copynumber: 3.5 Consensus size: 38
9776918 ATAAAAATTA
*
9776928 CCTTA-TTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTTT
1 CCTTATTTTTCTTTCTTTC-C-TCTCCTTTCCTTTTCTTT
*
9776967 CCTTATTTTTCTTTCTTTCCTCCCCTTTCCTTTTCTTT
1 CCTTATTTTTCTTTCTTTCCTCTCCTTTCCTTTTCTTT
* *
9777005 CCTTCTTTTTCTTTCTTTCCTCTCCTTTCCTTTTCCTT
1 CCTTATTTTTCTTTCTTTCCTCTCCTTTCCTTTTCTTT
* *
9777043 -CTTTTTCTTTCTTCCTTTC
1 CCTTATT-TTTCTTTCTTTC
9777062 TTTCTTCTTC
Statistics
Matches: 86, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
37 5 0.06
38 63 0.73
39 6 0.07
40 12 0.14
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.66
Consensus pattern (38 bp):
CCTTATTTTTCTTTCTTTCCTCTCCTTTCCTTTTCTTT
Found at i:9777014 original size:14 final size:14
Alignment explanation
Indices: 9776997--9777070 Score: 55
Period size: 14 Copynumber: 5.1 Consensus size: 14
9776987 TCCCCTTTCC
9776997 TTTTCTTTCCTTCT
1 TTTTCTTTCCTTCT
*
9777011 TTTTCTTTCTTTCCT
1 TTTTCTTTCCTT-CT
9777026 CTCCTTTCCTTTTCCTTCT
1 -T--TTT-C-TTTCCTTCT
9777045 TTTTCTTT-CTTC-
1 TTTTCTTTCCTTCT
*
9777057 CTTTCTTT-CTTCT
1 TTTTCTTTCCTTCT
9777070 T
1 T
9777071 CTTCCCCTCT
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
12 11 0.22
13 4 0.08
14 14 0.29
15 3 0.06
16 4 0.08
18 4 0.08
19 3 0.06
20 6 0.12
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTCTTTCCTTCT
Found at i:9777022 original size:28 final size:28
Alignment explanation
Indices: 9776991--9777070 Score: 85
Period size: 34 Copynumber: 2.8 Consensus size: 28
9776981 CTTTCCTCCC
9776991 CTTTCCTTTTCTTTCCTTCTTTTTCTTT
1 CTTTCCTTTTCTTTCCTTCTTTTTCTTT
9777019 CTTTCCTCTCCTTTCCTTTTCCTTCTTTTTCTTT
1 CTTT-C-CT--TTT-C-TTTCCTTCTTTTTCTTT
9777053 C-TTCC-TTTCTTT-CTTCTT
1 CTTTCCTTTTCTTTCCTTCTT
9777071 CTTCCCCTCT
Statistics
Matches: 46, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
25 6 0.13
26 3 0.07
27 1 0.02
28 7 0.15
29 1 0.02
30 2 0.04
31 1 0.02
32 4 0.09
33 3 0.07
34 18 0.39
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (28 bp):
CTTTCCTTTTCTTTCCTTCTTTTTCTTT
Found at i:9777040 original size:34 final size:34
Alignment explanation
Indices: 9776935--9777055 Score: 138
Period size: 34 Copynumber: 3.4 Consensus size: 34
9776925 TTACCTTATT
* *
9776935 TTCTTTTT-TTCTCTTCTCCTTTCCTTTTC-TTTCC
1 TTCTTTTTCTT-TCTT-TCCTCTCCTTTCCTTTTCC
* *
9776969 TTATTTTTCTTTCTTTCCTCCCCTTTCCTTTTCTTTCC
1 TTCTTTTTCTTTCTTTCCTCTCCTTTCC---T-TTTCC
9777007 TTCTTTTTCTTTCTTTCCTCTCCTTTCCTTTTCC
1 TTCTTTTTCTTTCTTTCCTCTCCTTTCCTTTTCC
9777041 TTCTTTTTCTTTCTT
1 TTCTTTTTCTTTCTT
9777056 CCTTTCTTTC
Statistics
Matches: 75, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
33 10 0.13
34 31 0.41
35 3 0.04
38 31 0.41
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (34 bp):
TTCTTTTTCTTTCTTTCCTCTCCTTTCCTTTTCC
Found at i:9777054 original size:10 final size:10
Alignment explanation
Indices: 9777002--9777073 Score: 54
Period size: 10 Copynumber: 6.6 Consensus size: 10
9776992 TTTCCTTTTC
*
9777002 TTTCCTTCTT
1 TTTCTTTCTT
9777012 TTTCTTTCTT
1 TTTCTTTCTT
*
9777022 TCCTCTCCTTTCCT
1 T--T-T-CTTTCTT
*
9777036 TTTCCTTCTT
1 TTTCTTTCTT
9777046 TTTCTTTCTT
1 TTTCTTTCTT
9777056 CCTTTCTTTCTT
1 --TTTCTTTCTT
*
9777068 CTTCTT
1 TTTCTT
9777074 CCCCTCTCCT
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
10 29 0.58
11 1 0.02
12 12 0.24
13 1 0.02
14 7 0.14
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:9777066 original size:22 final size:23
Alignment explanation
Indices: 9777031--9777073 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
9777021 TTCCTCTCCT
*
9777031 TTCCTTTTCCTTCTTTTTCTTTC
1 TTCCTTTTCCTTCTTCTTCTTTC
*
9777054 TTCC-TTTCTTTCTTCTTCTT
1 TTCCTTTTCCTTCTTCTTCTT
9777074 CCCCTCTCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (23 bp):
TTCCTTTTCCTTCTTCTTCTTTC
Found at i:9777071 original size:28 final size:30
Alignment explanation
Indices: 9776993--9777074 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 30
9776983 TTCCTCCCCT
*
9776993 TTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCC
1 TTCC-TTTCTTT-CTTCTTCTTCTTTCTTTCC
*
9777025 TCTCCTTTCCTTT-TCCTTCTT-TTTCTTT-C
1 T-TCCTTT-CTTTCTTCTTCTTCTTTCTTTCC
9777054 TTCCTTTCTTTCTTCTTCTTC
1 TTCCTTTCTTTCTTCTTCTTC
9777075 CCCTCTCCTT
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
27 4 0.09
28 13 0.30
29 2 0.05
30 7 0.16
31 6 0.14
32 4 0.09
33 7 0.16
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (30 bp):
TTCCTTTCTTTCTTCTTCTTCTTTCTTTCC
Found at i:9777084 original size:42 final size:40
Alignment explanation
Indices: 9776972--9777087 Score: 105
Period size: 42 Copynumber: 2.9 Consensus size: 40
9776962 TCTTTCCTTA
* *
9776972 TTTTTCTTTCTTTCCTCCCCTT-TCCT-T--TTCTTTCCTTC
1 TTTTTCTTTCTTTCCTCTCCTTCCCCTCTCCTTCTTT--TTC
* * *
9777010 TTTTTCTTTCTTTCCTCTCCTTTCCTTTTCCTTCTTTTTC
1 TTTTTCTTTCTTTCCTCTCCTTCCCCTCTCCTTCTTTTTC
* *
9777050 TTTCTTCCTTTCTTTCTTCTTCTTCCCCTCTCCTTCTT
1 TTT-TT-CTTTCTTTCCTCTCCTTCCCCTCTCCTTCTT
9777088 CCCCCCACCA
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
38 21 0.33
39 2 0.03
40 7 0.11
41 2 0.03
42 32 0.50
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (40 bp):
TTTTTCTTTCTTTCCTCTCCTTCCCCTCTCCTTCTTTTTC
Found at i:9777194 original size:27 final size:27
Alignment explanation
Indices: 9777121--9777198 Score: 129
Period size: 27 Copynumber: 2.9 Consensus size: 27
9777111 AAATTCAAGG
**
9777121 TGGTGCCGCCAACAGGGAACCCTTGTT
1 TGGTGCCGCCAACAGGGTTCCCTTGTT
9777148 TGGTGCCGCCAACAGGGTTCCCTTGTT
1 TGGTGCCGCCAACAGGGTTCCCTTGTT
*
9777175 TGGTGCCGCCAACAGTGTTCCCTT
1 TGGTGCCGCCAACAGGGTTCCCTT
9777199 CACCCAGGGA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.14, C:0.31, G:0.28, T:0.27
Consensus pattern (27 bp):
TGGTGCCGCCAACAGGGTTCCCTTGTT
Found at i:9777288 original size:27 final size:27
Alignment explanation
Indices: 9777258--9777320 Score: 101
Period size: 27 Copynumber: 2.3 Consensus size: 27
9777248 GTTTTTTTTG
9777258 ATATTTTGGTAAATAAAAAAA-TTATA
1 ATATTTTGGTAAATAAAAAAATTTATA
9777284 TATATTTTGGTAAATAAAAAAATTTATA
1 -ATATTTTGGTAAATAAAAAAATTTATA
*
9777312 ACATTTTGG
1 ATATTTTGG
9777321 ATATTTTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 29 0.85
28 5 0.15
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.41
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAATTTATA
Found at i:9778540 original size:24 final size:25
Alignment explanation
Indices: 9778513--9778565 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 25
9778503 AAATTTAGCT
* *
9778513 TTTAACATTTATTTCTTTT-ATCAC
1 TTTAAAATTTATTTATTTTAATCAC
9778537 TTTAAAATTTATTTATTTTAATCAC
1 TTTAAAATTTATTTATTTTAATCAC
9778562 TTTA
1 TTTA
9778566 GCTCTTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.58
Consensus pattern (25 bp):
TTTAAAATTTATTTATTTTAATCAC
Found at i:9781235 original size:18 final size:18
Alignment explanation
Indices: 9781195--9781233 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
9781185 TTAATAATAA
*
9781195 TTTTATTTTGTTTTTATC
1 TTTTATTTTGATTTTATC
*
9781213 TTTTATTTT-ATTTTATG
1 TTTTATTTTGATTTTATC
9781230 TTTT
1 TTTT
9781234 TAATATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.13, C:0.03, G:0.05, T:0.79
Consensus pattern (18 bp):
TTTTATTTTGATTTTATC
Found at i:9785809 original size:39 final size:39
Alignment explanation
Indices: 9785766--9785842 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
9785756 CCCCAGTCAG
* *
9785766 TCAACAAAATGCAAAATTTACTAGAATGCTTAGTGGGAT
1 TCAACAAAATGCAAAATTAACCAGAATGCTTAGTGGGAT
* *
9785805 TCAACAAAATGGAAAATTAACCAGAATTCTTAGTGGGA
1 TCAACAAAATGCAAAATTAACCAGAATGCTTAGTGGGA
9785843 CTGAAAGGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.43, C:0.13, G:0.18, T:0.26
Consensus pattern (39 bp):
TCAACAAAATGCAAAATTAACCAGAATGCTTAGTGGGAT
Found at i:9799923 original size:18 final size:18
Alignment explanation
Indices: 9799891--9799955 Score: 85
Period size: 18 Copynumber: 3.4 Consensus size: 18
9799881 TTATAACTAT
*
9799891 TTATATATATCTTTATATC
1 TTAT-TATATATTTATATC
9799910 TTATTATATATTTATATC
1 TTATTATATATTTATATC
9799928 TTATTATATATCTATATATC
1 TTATTATATAT-T-TATATC
*
9799948 TTTTTATA
1 TTATTATA
9799956 AACATATTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
18 24 0.57
19 5 0.12
20 13 0.31
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (18 bp):
TTATTATATATTTATATC
Found at i:9800214 original size:10 final size:10
Alignment explanation
Indices: 9800174--9800250 Score: 61
Period size: 10 Copynumber: 8.0 Consensus size: 10
9800164 ATTTTTTATA
9800174 TATACATATT
1 TATACATATT
9800184 TATAC-T-TT
1 TATACATATT
*
9800192 TATA-ATATA
1 TATACATATT
*
9800201 TATACATATG
1 TATACATATT
* *
9800211 TATACGTGTT
1 TATACATATT
* *
9800221 TATATATATA
1 TATACATATT
* *
9800231 TACACATACT
1 TATACATATT
9800241 TATACATATT
1 TATACATATT
9800251 ATTTATATTT
Statistics
Matches: 49, Mismatches: 15, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
8 7 0.14
9 6 0.12
10 36 0.73
ACGTcount: A:0.39, C:0.10, G:0.04, T:0.47
Consensus pattern (10 bp):
TATACATATT
Found at i:9806724 original size:30 final size:30
Alignment explanation
Indices: 9806689--9806748 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
9806679 ACCCAAATTG
9806689 GCCTTAGTCGTGTGATCCATTTTTAATATA
1 GCCTTAGTCGTGTGATCCATTTTTAATATA
9806719 GCCTTAGTCGTGTGATCCATTTTTAATATA
1 GCCTTAGTCGTGTGATCCATTTTTAATATA
9806749 ACCCATGCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (30 bp):
GCCTTAGTCGTGTGATCCATTTTTAATATA
Found at i:9809041 original size:58 final size:57
Alignment explanation
Indices: 9808979--9809096 Score: 145
Period size: 57 Copynumber: 2.1 Consensus size: 57
9808969 ATAGAAGTGG
*
9808979 TGAAAATAGAGAAAT-GATAATCATTTTG-AAATG-AT-TATGATTTTCTCCAAAATGAAAA
1 TGAAAATAGAGAAATGGA-AA-CA-TTTGAAAATGAATGTA-G-TTTTCTCCAAAATCAAAA
*
9809037 TGAAAATGGAGAAATGGAAACATTTGAAAATGAATGTAGTTTTCTCCAAAATCAAAA
1 TGAAAATAGAGAAATGGAAACATTTGAAAATGAATGTAGTTTTCTCCAAAATCAAAA
9809094 TGA
1 TGA
9809097 CTTGAAAAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
56 4 0.07
57 27 0.50
58 19 0.35
59 4 0.07
ACGTcount: A:0.47, C:0.08, G:0.16, T:0.30
Consensus pattern (57 bp):
TGAAAATAGAGAAATGGAAACATTTGAAAATGAATGTAGTTTTCTCCAAAATCAAAA
Found at i:9809691 original size:10 final size:10
Alignment explanation
Indices: 9809676--9809806 Score: 107
Period size: 10 Copynumber: 13.6 Consensus size: 10
9809666 CTAAAGTTAA
9809676 AATATATTAT
1 AATATATTAT
9809686 AATATA--AT
1 AATATATTAT
9809694 AATATTATT-T
1 AATA-TATTAT
9809704 AA-A-ATT-T
1 AATATATTAT
9809711 AAGTATATATAT
1 AA-TATAT-TAT
*
9809723 TATATATTAT
1 AATATATTAT
9809733 -ATATATTAT
1 AATATATTAT
*
9809742 ATTATA-TAT
1 AATATATTAT
*
9809751 ATTATATTAT
1 AATATATTAT
*
9809761 ATTATATTAT
1 AATATATTAT
*
9809771 ATTATATTAT
1 AATATATTAT
*
9809781 ATTATATTAT
1 AATATATTAT
*
9809791 ATTATATTAT
1 AATATATTAT
*
9809801 ATTATA
1 AATATA
9809807 AAAACAAACA
Statistics
Matches: 109, Mismatches: 2, Indels: 20
0.83 0.02 0.15
Matches are distributed among these distances:
7 6 0.06
8 6 0.06
9 22 0.20
10 67 0.61
11 6 0.06
12 2 0.02
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (10 bp):
AATATATTAT
Found at i:9809706 original size:30 final size:30
Alignment explanation
Indices: 9809678--9809807 Score: 135
Period size: 30 Copynumber: 4.3 Consensus size: 30
9809668 AAAGTTAAAA
*
9809678 TATATTATAATATAATAATATTAT-TTAAAAT
1 TATATTATAATAT-ATAATATTATATT-ATAT
*
9809709 T-TAAGTAT-ATATATTATATATTATA-TATAT
1 TAT-ATTATAATATA-TA-ATATTATATTATAT
*
9809739 TATATTAT-ATATATTATATTATATTATAT
1 TATATTATAATATATAATATTATATTATAT
* *
9809768 TATATTATATTATATTATATTATATTATAT
1 TATATTATAATATATAATATTATATTATAT
9809798 TATATTATAA
1 TATATTATAA
9809808 AAACAAACAA
Statistics
Matches: 86, Mismatches: 6, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
28 8 0.09
29 15 0.17
30 49 0.57
31 14 0.16
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.55
Consensus pattern (30 bp):
TATATTATAATATATAATATTATATTATAT
Found at i:9809733 original size:5 final size:5
Alignment explanation
Indices: 9809725--9809806 Score: 150
Period size: 5 Copynumber: 16.8 Consensus size: 5
9809715 ATATATATTA
9809725 TATAT TATA- TATAT TATAT TATA- TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
9809773 TATAT TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATA
9809807 AAAACAAACA
Statistics
Matches: 75, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
4 8 0.11
5 67 0.89
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:9810797 original size:25 final size:25
Alignment explanation
Indices: 9810747--9810799 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
9810737 ACTTTAGTGC
* **
9810747 GCTCTCTGATTATTAGCACGTTAGT
1 GCTCTCTGATTACTAGCACGACAGT
9810772 GCTCTCTGATTACTAGCACGACAGT
1 GCTCTCTGATTACTAGCACGACAGT
9810797 GCT
1 GCT
9810800 ATCCGTTTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.34
Consensus pattern (25 bp):
GCTCTCTGATTACTAGCACGACAGT
Found at i:9821712 original size:25 final size:25
Alignment explanation
Indices: 9821683--9821752 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
9821673 TTACCAATTC
*
9821683 CAACTCTTATGAGCTTACCGATACT
1 CAACTCGTATGAGCTTACCGATACT
* *
9821708 CAACTCGTATGAGCTTATCGATATT
1 CAACTCGTATGAGCTTACCGATACT
* *
9821733 CAACTCGGAGGAGCTTACCG
1 CAACTCGTATGAGCTTACCG
9821753 TTTATTGCTC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.29
Consensus pattern (25 bp):
CAACTCGTATGAGCTTACCGATACT
Found at i:9823574 original size:21 final size:20
Alignment explanation
Indices: 9823542--9823590 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
9823532 TAGCAATAAA
9823542 AAAACTAAAGAA-AACAAATTC
1 AAAAC-AAAGAATAA-AAATTC
*
9823563 AAGAACAAAGAATAAAGATTC
1 AA-AACAAAGAATAAAAATTC
9823584 AAAACAA
1 AAAACAA
9823591 TAAACAAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 5 0.20
21 15 0.60
22 5 0.20
ACGTcount: A:0.67, C:0.12, G:0.08, T:0.12
Consensus pattern (20 bp):
AAAACAAAGAATAAAAATTC
Found at i:9824966 original size:33 final size:33
Alignment explanation
Indices: 9824890--9824982 Score: 123
Period size: 33 Copynumber: 2.8 Consensus size: 33
9824880 AGGGTCTTAG
* * *
9824890 TGCTCATTTTCATGCATAATTAGATTCCATCAT
1 TGCTCATTTTGATGCACAATTAGATTCCATCAC
9824923 TGCTCATTTTGATGCACAATTAGATTCCATCAC
1 TGCTCATTTTGATGCACAATTAGATTCCATCAC
* * * *
9824956 TGCTTATTTTGATACACGATTTGATTC
1 TGCTCATTTTGATGCACAATTAGATTC
9824983 TTTCTCTACT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.42
Consensus pattern (33 bp):
TGCTCATTTTGATGCACAATTAGATTCCATCAC
Found at i:9828246 original size:21 final size:24
Alignment explanation
Indices: 9828222--9828269 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
9828212 TTTGTGTTTA
*
9828222 GTTGAAGA-GAA-AA-CAAATTTT
1 GTTGAAGATGAATAACCAAATGTT
9828243 GTTGAAGATGAATAACCAAATGTT
1 GTTGAAGATGAATAACCAAATGTT
9828267 GTT
1 GTT
9828270 TGTATACGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 8 0.35
22 3 0.13
23 2 0.09
24 10 0.43
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.31
Consensus pattern (24 bp):
GTTGAAGATGAATAACCAAATGTT
Found at i:9831098 original size:14 final size:14
Alignment explanation
Indices: 9831081--9831107 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9831071 TTCATATGAA
9831081 ATTATAATTTTTTC
1 ATTATAATTTTTTC
9831095 ATTATAATTTTTT
1 ATTATAATTTTTT
9831108 ATATGATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTATAATTTTTTC
Found at i:9831119 original size:11 final size:11
Alignment explanation
Indices: 9831103--9831136 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
9831093 TCATTATAAT
9831103 TTTTTATATGA
1 TTTTTATATGA
*
9831114 TTTTTATATTA
1 TTTTTATATGA
9831125 TTTCTTATATGA
1 TTT-TTATATGA
9831137 AAATATTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 13 0.65
12 7 0.35
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (11 bp):
TTTTTATATGA
Found at i:9831208 original size:13 final size:14
Alignment explanation
Indices: 9831178--9831209 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
9831168 TTTATATGAA
9831178 ATTATAATTTTTTC
1 ATTATAATTTTTTC
9831192 ATTATAATTTTTT-
1 ATTATAATTTTTTC
9831205 ATTAT
1 ATTAT
9831210 TTCTTATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTATAATTTTTTC
Found at i:9831217 original size:84 final size:83
Alignment explanation
Indices: 9831095--9831289 Score: 279
Period size: 84 Copynumber: 2.3 Consensus size: 83
9831085 TAATTTTTTC
* *
9831095 ATTATAATTTTTTATATGATTTTTATATTATTTCTTATATGAAAATATTGTTACAATTGATAAAG
1 ATTATAATTTTTTATATAATTTTTATATTATTTCTTATATGAAAATATTGTAACAATTGATAAAG
9831160 TGAAAATTTTTATATGAA
66 TGAAAATTTTTATATGAA
* *
9831178 ATTATAATTTTTTCATTATAATTTTT-TATTATTTCTTATATGAAAATATTGTAATATTTGATAA
1 ATTATAATTTTTT-A-TATAATTTTTATATTATTTCTTATATGAAAATATTGTAACAATTGATAA
* *
9831242 TGTGGAAATTTTTATATGAA
64 AGTGAAAATTTTTATATGAA
9831262 ATTATAATTTTTCTATGAT--TTTTTATAT
1 ATTATAATTTTT-TAT-ATAATTTTTATAT
9831290 GAAAATATTG
Statistics
Matches: 101, Mismatches: 6, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
82 5 0.05
83 17 0.17
84 69 0.68
85 10 0.10
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.54
Consensus pattern (83 bp):
ATTATAATTTTTTATATAATTTTTATATTATTTCTTATATGAAAATATTGTAACAATTGATAAAG
TGAAAATTTTTATATGAA
Found at i:9834246 original size:46 final size:46
Alignment explanation
Indices: 9834145--9834470 Score: 392
Period size: 46 Copynumber: 7.6 Consensus size: 46
9834135 TACGTATGAT
*
9834145 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
9834188 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
9834234 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* * *
9834280 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
9834326 CACTTATCACTTTGTCACTTGATCATATAA--GTA--T-A-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
9834362 CACTTAACACTTTTTCACTTGATCAGATAA--GTA--T-A-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
9834398 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
9834444 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
9834471 AGTACTCAAA
Statistics
Matches: 258, Mismatches: 12, Indels: 23
0.88 0.04 0.08
Matches are distributed among these distances:
36 62 0.24
38 3 0.01
40 2 0.01
41 2 0.01
42 2 0.01
43 10 0.04
44 8 0.03
45 20 0.08
46 149 0.58
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:9834367 original size:36 final size:36
Alignment explanation
Indices: 9834326--9834434 Score: 182
Period size: 36 Copynumber: 3.0 Consensus size: 36
9834316 CTAAAGCTAA
* *
9834326 CACTTATCACTTTGTCACTTGATCATATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
*
9834362 CACTTAACACTTTTTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
*
9834398 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
9834434 C
1 C
9834435 TAAAGCTACC
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 68 1.00
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (36 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
Found at i:9839342 original size:24 final size:24
Alignment explanation
Indices: 9839279--9839331 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
9839269 ACTTAAACCG
*
9839279 ATTGAATTGCAAATCAGTGCTCTA
1 ATTGAATTGCAAATCAGTACTCTA
9839303 ATTGAATTGCAAATCAGTACTCTA
1 ATTGAATTGCAAATCAGTACTCTA
9839327 ATTGA
1 ATTGA
9839332 TTTGACCATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (24 bp):
ATTGAATTGCAAATCAGTACTCTA
Found at i:9845820 original size:10 final size:9
Alignment explanation
Indices: 9845781--9845888 Score: 53
Period size: 10 Copynumber: 11.7 Consensus size: 9
9845771 CATGTGGCAA
9845781 AAAAATTAT
1 AAAAATTAT
9845790 AAAAA--AT
1 AAAAATTAT
*
9845797 AAAAATCAAT
1 AAAAAT-TAT
*
9845807 AAAAGTTAT
1 AAAAATTAT
9845816 AAAAATTATT
1 AAAAATTA-T
**
9845826 AAATTTTAAT
1 AAAAATT-AT
9845836 AAAAA-TAT
1 AAAAATTAT
*
9845844 AAAAAAATATT
1 -AAAAATTA-T
* *
9845855 TAAAATTAGG
1 AAAAATTA-T
*
9845865 AAAAAATAT
1 AAAAATTAT
9845874 -AAAATGTAT
1 AAAAAT-TAT
9845883 AAAAAT
1 AAAAAT
9845889 GACCCTCTAA
Statistics
Matches: 74, Mismatches: 15, Indels: 19
0.69 0.14 0.18
Matches are distributed among these distances:
7 7 0.09
8 6 0.08
9 23 0.31
10 36 0.49
11 2 0.03
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:9846079 original size:11 final size:10
Alignment explanation
Indices: 9846058--9846257 Score: 107
Period size: 10 Copynumber: 20.3 Consensus size: 10
9846048 CTTTTGGTAC
9846058 TATAA-TTTT
1 TATAATTTTT
9846067 TATAATTTTTT
1 TATAA-TTTTT
*
9846078 TATAA-ATTT
1 TATAATTTTT
9846087 TAT-ATTTCTT
1 TATAATTT-TT
*
9846097 TA-CATTTTT
1 TATAATTTTT
9846106 TATAATTTTCT
1 TATAATTTT-T
* *
9846117 TATGA--CTT
1 TATAATTTTT
**
9846125 TATAAAATTT
1 TATAATTTTT
9846135 TATAATTTTT
1 TATAATTTTT
9846145 TATATATATATTT
1 TATA-AT-T-TTT
9846158 TATAATTTTT
1 TATAATTTTT
9846168 T-T-ATATTTT
1 TATAAT-TTTT
**
9846177 TATAAAATTT
1 TATAATTTTT
*
9846187 TACAATTTTTT
1 TATAA-TTTTT
*
9846198 TATAATTTTC
1 TATAATTTTT
*
9846208 TA-AAATTTT
1 TATAATTTTT
* *
9846217 TAAAATTCTT
1 TATAATTTTT
*
9846227 TCTAATTTTT
1 TATAATTTTT
* *
9846237 AATAA-TTTC
1 TATAATTTTT
9846246 TAT-ATTTTT
1 TATAATTTTT
9846255 TAT
1 TAT
9846258 TAAAATTTAA
Statistics
Matches: 145, Mismatches: 28, Indels: 36
0.69 0.13 0.17
Matches are distributed among these distances:
8 9 0.06
9 41 0.28
10 60 0.41
11 25 0.17
12 3 0.02
13 7 0.05
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (10 bp):
TATAATTTTT
Found at i:9846085 original size:12 final size:11
Alignment explanation
Indices: 9846063--9846206 Score: 64
Period size: 11 Copynumber: 14.2 Consensus size: 11
9846053 GGTACTATAA
9846063 TTTTTATAATT
1 TTTTTATAATT
9846074 TTTTTATAA--
1 TTTTTATAATT
*
9846083 ATTTTAT-ATT
1 TTTTTATAATT
* *
9846093 TCTTTA-CA-T
1 TTTTTATAATT
9846102 TTTTTATAATT
1 TTTTTATAATT
* *
9846113 TTCTTATGA--
1 TTTTTATAATT
* *
9846122 -CTTTATAA-A
1 TTTTTATAATT
*
9846131 ATTTTATAA-T
1 TTTTTATAATT
9846141 TTTTTATATATAT
1 TTTTTATA-AT-T
*
9846154 ATTTTATAATT
1 TTTTTATAATT
9846165 TTTTTAT-A--
1 TTTTTATAATT
*
9846173 TTTTTATAA-A
1 TTTTTATAATT
* *
9846183 ATTTTACAATT
1 TTTTTATAATT
9846194 TTTTTATAATT
1 TTTTTATAATT
9846205 TT
1 TT
9846207 CTAAAATTTT
Statistics
Matches: 100, Mismatches: 20, Indels: 26
0.68 0.14 0.18
Matches are distributed among these distances:
8 13 0.13
9 13 0.13
10 28 0.28
11 36 0.36
12 2 0.02
13 8 0.08
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (11 bp):
TTTTTATAATT
Found at i:9846138 original size:29 final size:28
Alignment explanation
Indices: 9846103--9846297 Score: 127
Period size: 29 Copynumber: 6.9 Consensus size: 28
9846093 TCTTTACATT
* *
9846103 TTTTATAATTTTCTTATGACTTTATAAAA
1 TTTTATAATTTTTTTAT-ATTTTATAAAA
*
9846132 TTTTATAA-TTTTTTATA---TAT-ATA
1 TTTTATAATTTTTTTATATTTTATAAAA
9846155 TTTTATAATTTTTTTATATTTTTATAAAA
1 TTTTATAATTTTTTTATA-TTTTATAAAA
* *
9846184 TTTTACAATTTTTTTATAATTTTCTAAAA
1 TTTTATAATTTTTTTAT-ATTTTATAAAA
* *
9846213 TTTTTAAAATTCTTTCTA-ATTTT-TAATAA
1 -TTTTATAATT-TTTTTATATTTTATAA-AA
* * * *
9846242 TTTCTATATTTTTTATTAAAATTTA-ATAA
1 TTT-TATAATTTTT-TTATATTTTATAAAA
* *
9846271 TTTAATAATTAATTTTTATTTTTTATA
1 TTTTATAATT--TTTTTATATTTTATA
9846298 TGTTTTACCA
Statistics
Matches: 132, Mismatches: 17, Indels: 33
0.73 0.09 0.18
Matches are distributed among these distances:
23 10 0.08
24 12 0.09
27 1 0.01
28 24 0.18
29 61 0.46
30 19 0.14
31 5 0.04
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.61
Consensus pattern (28 bp):
TTTTATAATTTTTTTATATTTTATAAAA
Found at i:9846159 original size:23 final size:22
Alignment explanation
Indices: 9846123--9846173 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
9846113 TTCTTATGAC
*
9846123 TTTATA-AAATTTTATAATTTT
1 TTTATATATATTTTATAATTTT
9846144 TTATATATATATTTTATAATTTT
1 TT-TATATATATTTTATAATTTT
9846167 TTTATAT
1 TTTATAT
9846174 TTTTATAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 2 0.07
22 9 0.33
23 16 0.59
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTATATATATTTTATAATTTT
Found at i:9846218 original size:19 final size:19
Alignment explanation
Indices: 9846127--9846257 Score: 56
Period size: 19 Copynumber: 6.6 Consensus size: 19
9846117 TATGACTTTA
*
9846127 TAAAA-TTTTATAATTTTT
1 TAAAATTTTTATAATTTTC
*
9846145 TATATATATATTTTATAATTTTT
1 TA-A-A-AT-TTTTATAATTTTC
* *
9846168 TTATATTTTTATAAAATTTTAC
1 TAAAATTTTTAT--AATTTT-C
**
9846190 -AATTTTTTTATAATTTTC
1 TAAAATTTTTATAATTTTC
*
9846208 TAAAATTTTTAAAATTCTTTC
1 TAAAATTTTTATAA-T-TTTC
9846229 T--AATTTTTAATAA-TTTC
1 TAAAATTTTT-ATAATTTTC
* *
9846246 TATATTTTTTAT
1 TAAAATTTTTAT
9846258 TAAAATTTAA
Statistics
Matches: 89, Mismatches: 10, Indels: 28
0.70 0.08 0.22
Matches are distributed among these distances:
17 5 0.06
18 5 0.06
19 36 0.40
20 7 0.08
21 21 0.24
22 1 0.01
23 14 0.16
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (19 bp):
TAAAATTTTTATAATTTTC
Found at i:9846242 original size:10 final size:10
Alignment explanation
Indices: 9846193--9846288 Score: 56
Period size: 10 Copynumber: 9.6 Consensus size: 10
9846183 ATTTTACAAT
*
9846193 TTTTTTATAA
1 TTTTTAATAA
9846203 TTTTCTAA-AA
1 TTTT-TAATAA
9846213 TTTTTAA-AA
1 TTTTTAATAA
*
9846222 TTCTTT-CTAA
1 TT-TTTAATAA
9846232 TTTTTAATAA
1 TTTTTAATAA
* *
9846242 TTTCT-ATAT
1 TTTTTAATAA
*
9846251 TTTTTATTAA
1 TTTTTAATAA
**
9846261 AATTTAATAA
1 TTTTTAATAA
*
9846271 TTTAATAATTAA
1 TTT-TTAA-TAA
9846283 TTTTTA
1 TTTTTA
9846289 TTTTTTATAT
Statistics
Matches: 64, Mismatches: 15, Indels: 13
0.70 0.16 0.14
Matches are distributed among these distances:
9 17 0.27
10 34 0.53
11 7 0.11
12 6 0.09
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:9846564 original size:88 final size:88
Alignment explanation
Indices: 9846427--9846588 Score: 227
Period size: 89 Copynumber: 1.8 Consensus size: 88
9846417 ATTTTAGTAA
* ** * *
9846427 TTCAAGTAACCAATTGAGTGTAAAAAAAGTAAGAGCTTAATTACTTTTTTTGAAAAAGTTTGAGG
1 TTCAAGTAACCAATTGAGTGCAAAAAAAACAAGAGCTTAATTACTTTTTTTAAAAAAATTTGAGG
9846492 GCCTTTTTCATGCATTTTGAAAG
66 GCCTTTTTCATGCATTTTGAAAG
* * *
9846515 TTCAAGT-ACTCAATTGAGTGCAAAAAGAAACATGGGCTTAATTGCTTTTTTTAAAAAAATTTGA
1 TTCAAGTAAC-CAATTGAGTGCAAAAA-AAACAAGAGCTTAATTACTTTTTTTAAAAAAATTTGA
9846579 GGGCCTTTTT
64 GGGCCTTTTT
9846589 TATACATATT
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
87 2 0.03
88 22 0.34
89 40 0.62
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (88 bp):
TTCAAGTAACCAATTGAGTGCAAAAAAAACAAGAGCTTAATTACTTTTTTTAAAAAAATTTGAGG
GCCTTTTTCATGCATTTTGAAAG
Found at i:9846608 original size:89 final size:88
Alignment explanation
Indices: 9846425--9846608 Score: 226
Period size: 89 Copynumber: 2.1 Consensus size: 88
9846415 GTATTTTAGT
* ** * *
9846425 AATTCAAGTAACCAATTGAGTGTAAAAAAAGTAAGAGCTTAATTACTTTTTTTGAAAAAGTTTGA
1 AATTCAAGTAACCAATTGAGTGCAAAAAAAACAAGAGCTTAATTACTTTTTTTAAAAAAATTTGA
* * *
9846490 GGGCCTTTTTCATGCATTTTGAA
66 GGGCCTTTTTCATACATATTAAA
* * * *
9846513 AGTTCAAGT-ACTCAATTGAGTGCAAAAAGAAACATGGGCTTAATTGCTTTTTTTAAAAAAATTT
1 AATTCAAGTAAC-CAATTGAGTGCAAAAA-AAACAAGAGCTTAATTACTTTTTTTAAAAAAATTT
*
9846577 GAGGGCCTTTTTTATACATATTAAA
64 GAGGGCCTTTTTCATACATATTAAA
9846602 AATTCAA
1 AATTCAA
9846609 ATACCAAATT
Statistics
Matches: 80, Mismatches: 14, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
87 2 0.03
88 23 0.29
89 55 0.69
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (88 bp):
AATTCAAGTAACCAATTGAGTGCAAAAAAAACAAGAGCTTAATTACTTTTTTTAAAAAAATTTGA
GGGCCTTTTTCATACATATTAAA
Found at i:9846629 original size:89 final size:89
Alignment explanation
Indices: 9846461--9846629 Score: 205
Period size: 89 Copynumber: 1.9 Consensus size: 89
9846451 AAAAGTAAGA
* * * * * * *
9846461 GCTTAATTACTTTTTTTGAAAAAGTTTGAGGGCCTTTTTCATGCATTTTGAAAGTTCAAGTACTC
1 GCTTAATTACTTTTTTTAAAAAAATTTGAGGGCCTTTTTCATACATATTAAAAATTCAAATACTC
* * **
9846526 AATTGAGTGCAAAAAGAAACATGG
66 AATTAAATAAAAAAAGAAACATGG
* *
9846550 GCTTAATTGCTTTTTTTAAAAAAATTTGAGGGCCTTTTTTATACATATTAAAAATTCAAATAC-C
1 GCTTAATTACTTTTTTTAAAAAAATTTGAGGGCCTTTTTCATACATATTAAAAATTCAAATACTC
9846614 AAATTAAATAAAAAAA
66 -AATTAAATAAAAAAA
9846630 ATAGCTTAAT
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
88 1 0.02
89 65 0.98
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (89 bp):
GCTTAATTACTTTTTTTAAAAAAATTTGAGGGCCTTTTTCATACATATTAAAAATTCAAATACTC
AATTAAATAAAAAAAGAAACATGG
Found at i:9849254 original size:18 final size:17
Alignment explanation
Indices: 9849231--9849265 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9849221 TTGCCGGTAG
9849231 ATACATGCATATGGATGC
1 ATACATGCATA-GGATGC
*
9849249 ATACATGCTTAGGATGC
1 ATACATGCATAGGATGC
9849266 CATTTCCAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (17 bp):
ATACATGCATAGGATGC
Found at i:9858335 original size:20 final size:22
Alignment explanation
Indices: 9858300--9858341 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
9858290 TCTGCTCAAG
9858300 AAATTAGCAAATATTAG-TAAT
1 AAATTAGCAAATATTAGCTAAT
*
9858321 AAATTA-CAGATATTAGCTAAT
1 AAATTAGCAAATATTAGCTAAT
9858342 TGATTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (22 bp):
AAATTAGCAAATATTAGCTAAT
Found at i:9862849 original size:24 final size:24
Alignment explanation
Indices: 9862834--9862885 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
9862824 AATCAAAGTC
9862834 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
9862858 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
9862882 AAAT
1 AAAT
9862886 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:9867006 original size:24 final size:24
Alignment explanation
Indices: 9866997--9867048 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
9866987 AATCAAAGTC
9866997 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
9867021 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
9867045 AAAT
1 AAAT
9867049 CTTATTCTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:9869861 original size:25 final size:23
Alignment explanation
Indices: 9869819--9869866 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 23
9869809 TTCACTTAAA
9869819 TAAATAAATAAATAAATATTATT
1 TAAATAAATAAATAAATATTATT
*
9869842 TAAATATAATAATTATAATATTATT
1 TAAATA-AATAAATA-AATATTATT
9869867 ATTATTTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 6 0.27
24 7 0.32
25 9 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TAAATAAATAAATAAATATTATT
Found at i:9872354 original size:98 final size:98
Alignment explanation
Indices: 9872193--9872460 Score: 332
Period size: 96 Copynumber: 2.8 Consensus size: 98
9872183 GTTTTTTAAT
* * * *
9872193 TAAATTAATTATAAATTTTTT--AAAATTAGATTAGGGCTTCGCGTTTATGGTTTTTAAGGAAAA
1 TAAATTAATTATAAATTTTTTAAAAAATTAGATTAGGGTTTAGTGTTTAGGGTTTTTAAGGAAAA
* * * *
9872256 AATCAATTAAATTAATATTTA-GGATTACTCGAG
66 AATAAAATAAAATAAGATTTATGG-TTACTCGAG
*
9872289 TAAATTAATTATAAATTTTTTAAAAAATTAGATTAGGGTTTAATG-TTACGGGTTTTTAAGG-AA
1 TAAATTAATTATAAATTTTTTAAAAAATTAGATTAGGGTTTAGTGTTTA-GGGTTTTTAAGGAAA
* * *
9872352 AAATAAAATAAAATAGGGTTTATGGTTACTTGAG
65 AAATAAAATAAAATAAGATTTATGGTTACTCGAG
* * *
9872386 -AAATTAATTATAAATTTTTAAAAAAATTAGGTTAGGGTTTAGTGTTTAGGGTTTTTAAAGAAAA
1 TAAATTAATTATAAATTTTTTAAAAAATTAGATTAGGGTTTAGTGTTTAGGGTTTTTAAGGAAAA
*
9872450 ATTAAAATAAA
66 AATAAAATAAA
9872461 TTAGGGTTTG
Statistics
Matches: 149, Mismatches: 17, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
96 73 0.49
97 45 0.30
98 31 0.21
ACGTcount: A:0.42, C:0.03, G:0.16, T:0.40
Consensus pattern (98 bp):
TAAATTAATTATAAATTTTTTAAAAAATTAGATTAGGGTTTAGTGTTTAGGGTTTTTAAGGAAAA
AATAAAATAAAATAAGATTTATGGTTACTCGAG
Found at i:9872487 original size:96 final size:95
Alignment explanation
Indices: 9872193--9872493 Score: 315
Period size: 96 Copynumber: 3.1 Consensus size: 95
9872183 GTTTTTTAAT
* * * * *
9872193 TAAATTAATTATAAATTTTT-TAAAATTAGATTAGGGCTTCGCGTTTATGGTTTTTAAGGAAAAA
1 TAAATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTTAGTGTTTAGGGTTTTTAAGG-AAAA
* * *** *
9872257 ATCAATTAAATTAATATTTAGGATTACTCGAG
65 ATAAAATAAATTAGGGTTTAGGATTA-TAGAG
*
9872289 TAAATTAATTATAAATTTTTTAAAAAATTAGATTAGGGTTTAATG-TTACGGGTTTTTAAGGAAA
1 TAAATTAATTATAAA-TTTTTAAAAAATTAGATTAGGGTTTAGTGTTTA-GGGTTTTTAAGGAAA
* *
9872353 AATAAAATAAAATAGGGTTTATGG-TTACTTGAG
64 AATAAAATAAATTAGGGTTTA-GGATTA-TAGAG
* *
9872386 -AAATTAATTATAAATTTTTAAAAAAATTAGGTTAGGGTTTAGTGTTTAGGGTTTTTAAAGAAAA
1 TAAATTAATTATAAATTTTT-AAAAAATTAGATTAGGGTTTAGTGTTTAGGGTTTTTAAGGAAAA
* *
9872450 ATTAAAATAAATTAGGGTTTGGGATT-TAGGG
65 A-TAAAATAAATTAGGGTTTAGGATTATAGAG
*
9872481 TTAATTAAATTAT
1 TAAATT-AATTAT
9872494 TTGTTAATTT
Statistics
Matches: 174, Mismatches: 21, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
95 8 0.05
96 73 0.42
97 62 0.36
98 31 0.18
ACGTcount: A:0.40, C:0.03, G:0.17, T:0.40
Consensus pattern (95 bp):
TAAATTAATTATAAATTTTTAAAAAATTAGATTAGGGTTTAGTGTTTAGGGTTTTTAAGGAAAAA
TAAAATAAATTAGGGTTTAGGATTATAGAG
Found at i:9872752 original size:127 final size:126
Alignment explanation
Indices: 9872522--9872792 Score: 434
Period size: 127 Copynumber: 2.1 Consensus size: 126
9872512 CCCACGTGGA
** *
9872522 TTTGCTACAGTAGTTATTGAAAAAATAATTTTGAGAAGACGTTTCTGAGCAAATAGTGTCAAAAA
1 TTTGCTACAGTAGTTCCTGAAAAAATAATTTCGAGAAGACGTTTCTGAGCAAATAGTGTCAAAAA
*
9872587 CGCTTTAAGCAGGATGCATTGTCAGCAAAAGTAATGAAAGAAGCTCCCACGTGGATGCTCT
66 CGCTTTAAGCAGGATGCATTGTCAGCAAAAGTAATGAAAGAAGCTCCCACGTGGACGCTCT
*
9872648 TTTGCTATAGTAGTTCCTGAAAAAAATAATTTCGAGAAGACGTTTCTGAGCAAATAGTGTCAAAA
1 TTTGCTACAGTAGTTCCTG-AAAAAATAATTTCGAGAAGACGTTTCTGAGCAAATAGTGTCAAAA
* * * * *
9872713 ACGCTTTAAGTAGGATGCTTTGTTAGCAAAAGTACTGAAAGAAGCTCCCATGTGGACGCTCT
65 ACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTAATGAAAGAAGCTCCCACGTGGACGCTCT
*
9872775 TTTACTACAGTAGTTCCT
1 TTTGCTACAGTAGTTCCT
9872793 ATTTGGCCTG
Statistics
Matches: 132, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
126 16 0.12
127 116 0.88
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.30
Consensus pattern (126 bp):
TTTGCTACAGTAGTTCCTGAAAAAATAATTTCGAGAAGACGTTTCTGAGCAAATAGTGTCAAAAA
CGCTTTAAGCAGGATGCATTGTCAGCAAAAGTAATGAAAGAAGCTCCCACGTGGACGCTCT
Found at i:9874920 original size:55 final size:55
Alignment explanation
Indices: 9874861--9875025 Score: 192
Period size: 55 Copynumber: 3.2 Consensus size: 55
9874851 AAAGAATTTC
9874861 TATTTTATTAAAAATATTAAAGTAAATTATAATTACTTTATTCAAAACAACGTTT
1 TATTTTATTAAAAATATTAAAGTAAATTATAATTACTTTATTCAAAACAACGTTT
* * * * * *
9874916 TATTTTATT---AA-ATGAAA-T-AA-TAT-A--GC-TTATTTAAAAGAA-TTTC
1 TATTTTATTAAAAATATTAAAGTAAATTATAATTACTTTATTCAAAACAACGTTT
9874959 TATTTTATTAAAAATATTAAAGTAAATTATAATTACTTTATTCAAAACAACGTTT
1 TATTTTATTAAAAATATTAAAGTAAATTATAATTACTTTATTCAAAACAACGTTT
9875014 TATTTTATTAAA
1 TATTTTATTAAA
9875026 TGAAATAATA
Statistics
Matches: 86, Mismatches: 12, Indels: 24
0.70 0.10 0.20
Matches are distributed among these distances:
43 11 0.13
44 11 0.13
45 1 0.01
46 2 0.02
47 6 0.07
48 4 0.05
49 4 0.05
50 4 0.05
51 6 0.07
52 2 0.02
53 1 0.01
54 11 0.13
55 23 0.27
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (55 bp):
TATTTTATTAAAAATATTAAAGTAAATTATAATTACTTTATTCAAAACAACGTTT
Found at i:9874954 original size:98 final size:98
Alignment explanation
Indices: 9874843--9875038 Score: 383
Period size: 98 Copynumber: 2.0 Consensus size: 98
9874833 AAAATATTGC
9874843 CTTATATAAAAGAATTTCTATTTTATTAAAAATATTAAAGTAAATTATAATTACTTTATTCAAAA
1 CTTATATAAAAGAATTTCTATTTTATTAAAAATATTAAAGTAAATTATAATTACTTTATTCAAAA
9874908 CAACGTTTTATTTTATTAAATGAAATAATATAG
66 CAACGTTTTATTTTATTAAATGAAATAATATAG
*
9874941 CTTATTTAAAAGAATTTCTATTTTATTAAAAATATTAAAGTAAATTATAATTACTTTATTCAAAA
1 CTTATATAAAAGAATTTCTATTTTATTAAAAATATTAAAGTAAATTATAATTACTTTATTCAAAA
9875006 CAACGTTTTATTTTATTAAATGAAATAATATAG
66 CAACGTTTTATTTTATTAAATGAAATAATATAG
9875039 AAATATTCAA
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 97 1.00
ACGTcount: A:0.45, C:0.06, G:0.05, T:0.43
Consensus pattern (98 bp):
CTTATATAAAAGAATTTCTATTTTATTAAAAATATTAAAGTAAATTATAATTACTTTATTCAAAA
CAACGTTTTATTTTATTAAATGAAATAATATAG
Found at i:9875611 original size:18 final size:18
Alignment explanation
Indices: 9875585--9875626 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
9875575 GACTAGAAAA
* * *
9875585 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
9875603 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
9875621 AGGATA
1 AGGATA
9875627 TGGACCTGGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.45, C:0.07, G:0.29, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:9878113 original size:18 final size:20
Alignment explanation
Indices: 9878090--9878126 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
9878080 TAACATTATA
9878090 TATAATTTA-AC-TAATAAT
1 TATAATTTATACATAATAAT
9878108 TATAATTTATACATAATAA
1 TATAATTTATACATAATAA
9878127 AATTTTTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 2 0.12
20 6 0.35
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (20 bp):
TATAATTTATACATAATAAT
Found at i:9883086 original size:45 final size:45
Alignment explanation
Indices: 9883037--9883204 Score: 237
Period size: 45 Copynumber: 3.7 Consensus size: 45
9883027 GACCTAATGT
* * * * *
9883037 CATAGTGTCTTTCAACCATGGTCTTACACATTTGAATCGTGATGC
1 CATAGCGTCTTTCAGCTATGGTCTTACTCGTTTGAATCGTGATGC
9883082 CATAGCGTCTTTCAGCTATGGTCTTACTCGTTTGAATCGTGATGC
1 CATAGCGTCTTTCAGCTATGGTCTTACTCGTTTGAATCGTGATGC
* * * *
9883127 CATAACGTCTTTCAGCTATAGTCTTACTCGTTTGTATCGTGATGT
1 CATAGCGTCTTTCAGCTATGGTCTTACTCGTTTGAATCGTGATGC
* *
9883172 CACAGCGTCTTTCAGCTATGGTCTTACTTGTTT
1 CATAGCGTCTTTCAGCTATGGTCTTACTCGTTT
9883205 TCAACAAACG
Statistics
Matches: 110, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 110 1.00
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.39
Consensus pattern (45 bp):
CATAGCGTCTTTCAGCTATGGTCTTACTCGTTTGAATCGTGATGC
Found at i:9884403 original size:6 final size:6
Alignment explanation
Indices: 9884392--9884422 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
9884382 AATTCATGTC
*
9884392 TCATTT TCATTT TCATTT TCATTT CCATTT T
1 TCATTT TCATTT TCATTT TCATTT TCATTT T
9884423 GAGAAAACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.16, C:0.19, G:0.00, T:0.65
Consensus pattern (6 bp):
TCATTT
Found at i:9891849 original size:19 final size:19
Alignment explanation
Indices: 9891827--9891864 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
9891817 AGCAAGATAC
*
9891827 AAAAAGGGAAAGAAAGTTG
1 AAAAAGAGAAAGAAAGTTG
*
9891846 AAAATGAGAAAGAAAGTTG
1 AAAAAGAGAAAGAAAGTTG
9891865 GTGATGGCTA
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:0.00, G:0.29, T:0.13
Consensus pattern (19 bp):
AAAAAGAGAAAGAAAGTTG
Found at i:9894684 original size:19 final size:19
Alignment explanation
Indices: 9894660--9894712 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
9894650 TAAATAATTT
9894660 AAAAATTATAAAAATATTC
1 AAAAATTATAAAAATATTC
*
9894679 AAAAATTA-AAAATAAATTC
1 AAAAATTATAAAA-ATATTC
*
9894698 --AAATTTTAAAAATAT
1 AAAAATTATAAAAATAT
9894713 AAAATGTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 8 0.28
18 8 0.28
19 13 0.45
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAAATTATAAAAATATTC
Found at i:9901159 original size:20 final size:19
Alignment explanation
Indices: 9901130--9901168 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
9901120 GGCGTTACAG
*
9901130 AATATCTTTCAAATAACAAT
1 AATATATTTCAAAT-ACAAT
*
9901150 AATATATTTCCAATACAAT
1 AATATATTTCAAATACAAT
9901169 TCCTATGTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (19 bp):
AATATATTTCAAATACAAT
Found at i:9911516 original size:18 final size:21
Alignment explanation
Indices: 9911467--9911516 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
9911457 CAACATCTTT
**
9911467 TAATTAAAAATAATAAAAATC
1 TAATTAATTATAATAAAAATC
*
9911488 TAATTATTTATAA-AAAAAT-
1 TAATTAATTATAATAAAAATC
9911507 TAA-TAATTAT
1 TAATTAATTAT
9911517 TAAATTAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 6 0.24
19 3 0.12
20 6 0.24
21 10 0.40
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (21 bp):
TAATTAATTATAATAAAAATC
Found at i:9911747 original size:21 final size:21
Alignment explanation
Indices: 9911702--9911747 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
9911692 TATTAAACAT
9911702 TTAATTTTTTAGTATGTTTAA
1 TTAATTTTTTAGTATGTTTAA
*
9911723 -TAATTTTATTAGT-TTTTTAA
1 TTAATTTT-TTAGTATGTTTAA
9911743 TTAAT
1 TTAAT
9911748 AAAAGATTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (21 bp):
TTAATTTTTTAGTATGTTTAA
Found at i:9926607 original size:101 final size:99
Alignment explanation
Indices: 9926454--9926643 Score: 236
Period size: 101 Copynumber: 1.9 Consensus size: 99
9926444 CTTTTTGTGC
* * * ** **
9926454 CATAGTCCAACTATGGTCTTACACATGCATTGCCATGGCCCTGCCATGGTCTTACATTTGTAGTA
1 CATAGCCCAACTATGGTCTTACACATACACTGCCATGGCCCAACCATGGTCTTACATTCATAGTA
9926519 CCATAACCCAGTTATGGTCTTATCATCAGAATGT
66 CCATAACCCAGTTATGGTCTTATCATCAGAATGT
* * * *
9926553 CATAGCCCAGCTATGGTCTTACATATAAACACTGCCATGGTCCAACCATGGTCTTACGTTCATAG
1 CATAGCCCAACTATGGTCTTACACAT--ACACTGCCATGGCCCAACCATGGTCTTACATTCATAG
* **
9926618 TGCCATAACTTAGTTATGGTCTTATC
64 TACCATAACCCAGTTATGGTCTTATC
9926644 CGTCAATTCA
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
99 23 0.31
101 52 0.69
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (99 bp):
CATAGCCCAACTATGGTCTTACACATACACTGCCATGGCCCAACCATGGTCTTACATTCATAGTA
CCATAACCCAGTTATGGTCTTATCATCAGAATGT
Found at i:9953036 original size:29 final size:29
Alignment explanation
Indices: 9953003--9953061 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
9952993 ATAATTAGGA
*
9953003 ATTGAGAGAAGGACAAATTGAACCAAAGT
1 ATTGAGAAAAGGACAAATTGAACCAAAGT
*
9953032 ATTGAGAAAAGGACAGATTGAACCAAAGT
1 ATTGAGAAAAGGACAAATTGAACCAAAGT
9953061 A
1 A
9953062 ACTCTACTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.49, C:0.10, G:0.24, T:0.17
Consensus pattern (29 bp):
ATTGAGAAAAGGACAAATTGAACCAAAGT
Found at i:9963280 original size:66 final size:66
Alignment explanation
Indices: 9963174--9963299 Score: 207
Period size: 66 Copynumber: 1.9 Consensus size: 66
9963164 TGAAAGTTAG
* *
9963174 AACTTTGAAGAATGCTTTAGGATGCATGGATGTAGGTTGACTAAGACCAAAACTGAATAAATGTG
1 AACTTAGAAGAATGCTTTAGGATGCATGGATGTACGTTGACTAAGACCAAAACTGAATAAATGTG
9963239 A
66 A
* * *
9963240 AACTTAGAAGAGTGCTTTAGGATGCATGGATGTACTTTGACTAGGACCAAAACTGAATAA
1 AACTTAGAAGAATGCTTTAGGATGCATGGATGTACGTTGACTAAGACCAAAACTGAATAA
9963300 TAGGATGTAA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 55 1.00
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (66 bp):
AACTTAGAAGAATGCTTTAGGATGCATGGATGTACGTTGACTAAGACCAAAACTGAATAAATGTG
A
Found at i:9973589 original size:11 final size:11
Alignment explanation
Indices: 9973569--9973660 Score: 84
Period size: 11 Copynumber: 8.5 Consensus size: 11
9973559 TGTTTCTTTC
*
9973569 TATTCTATTAG
1 TATTATATTAG
*
9973580 TATTAAATTAG
1 TATTATATTAG
*
9973591 TATTATATT-C
1 TATTATATTAG
9973601 TATTATTATTAG
1 TATTA-TATTAG
9973613 -ATTAGTATTAG
1 TATTA-TATTAG
9973624 TATTAGTATTAG
1 TATTA-TATTAG
*
9973636 TATTA-GTTAG
1 TATTATATTAG
*
9973646 -ATTAGATTAG
1 TATTATATTAG
9973656 TATTA
1 TATTA
9973661 GTTAGTGATC
Statistics
Matches: 68, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
9 4 0.06
10 13 0.19
11 35 0.51
12 16 0.24
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (11 bp):
TATTATATTAG
Found at i:9973595 original size:6 final size:6
Alignment explanation
Indices: 9973574--9973662 Score: 95
Period size: 6 Copynumber: 16.2 Consensus size: 6
9973564 CTTTCTATTC
* * *
9973574 TATTAG TATTA- AATTAG TATTA- TATT-C TATTAT TATTAG -ATTAG
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
9973618 TATTAG TATTAG TATTAG TATTAG --TTAG -ATTAG -ATTAG TATTAG
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
9973662 T
1 T
9973663 TAGTGATCCC
Statistics
Matches: 73, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
4 4 0.05
5 26 0.36
6 43 0.59
ACGTcount: A:0.35, C:0.01, G:0.13, T:0.51
Consensus pattern (6 bp):
TATTAG
Found at i:9973610 original size:27 final size:28
Alignment explanation
Indices: 9973569--9973640 Score: 101
Period size: 27 Copynumber: 2.6 Consensus size: 28
9973559 TGTTTCTTTC
9973569 TATTCTATTAGTATTAAATTAGTATTA-
1 TATTCTATTAGTATTAAATTAGTATTAG
* *
9973596 TATTCTATTATTATTAGATTAGTATTAG
1 TATTCTATTAGTATTAAATTAGTATTAG
*
9973624 TATTAGTATTAGTATTA
1 TATT-CTATTAGTATTA
9973641 GTTAGATTAG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 25 0.64
28 4 0.10
29 10 0.26
ACGTcount: A:0.35, C:0.03, G:0.10, T:0.53
Consensus pattern (28 bp):
TATTCTATTAGTATTAAATTAGTATTAG
Found at i:9973623 original size:33 final size:32
Alignment explanation
Indices: 9973576--9973662 Score: 106
Period size: 33 Copynumber: 2.7 Consensus size: 32
9973566 TTCTATTCTA
* *
9973576 TTAGTATTAAATTAGTATTA-TATTCTATTATTA-
1 TTAG-ATTAGATTAGTATTAGTA-T-TAGTATTAG
9973609 TTAGATTAGTATTAGTATTAGTATTAGTATTAG
1 TTAGATTAG-ATTAGTATTAGTATTAGTATTAG
9973642 TTAGATTAGATTAGTATTAGT
1 TTAGATTAGATTAGTATTAGT
9973663 TAGTGATCCC
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
32 23 0.47
33 24 0.49
34 2 0.04
ACGTcount: A:0.34, C:0.01, G:0.14, T:0.51
Consensus pattern (32 bp):
TTAGATTAGATTAGTATTAGTATTAGTATTAG
Found at i:9973662 original size:38 final size:39
Alignment explanation
Indices: 9973575--9973662 Score: 112
Period size: 38 Copynumber: 2.3 Consensus size: 39
9973565 TTTCTATTCT
* *
9973575 ATTAGTATTA-AATTAGTATTATATTCTATTATTATTAG
1 ATTAGTATTAGTATTAGTATTATATTCTATTATGATTAG
9973613 ATTAGTATTAGTATTAGTATTAGTA-T-TAGTTA-GATTAG
1 ATTAGTATTAGTATTAGTATTA-TATTCTA-TTATGATTAG
9973651 ATTAGTATTAGT
1 ATTAGTATTAGT
9973663 TAGTGATCCC
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
38 29 0.64
39 14 0.31
40 2 0.04
ACGTcount: A:0.35, C:0.01, G:0.14, T:0.50
Consensus pattern (39 bp):
ATTAGTATTAGTATTAGTATTATATTCTATTATGATTAG
Found at i:9975646 original size:42 final size:42
Alignment explanation
Indices: 9975591--9975689 Score: 155
Period size: 42 Copynumber: 2.4 Consensus size: 42
9975581 TATATGAACA
9975591 GCACTAAGTGTGCGAAACTAAAAT-GACGAGGTTGAATAAAGG
1 GCACTAAGTGTGCGAAACTAAAATGGA-GAGGTTGAATAAAGG
* * *
9975633 GCACTAAGTGTGCGAAATTAAAATGGAGATGTTGAATAACGG
1 GCACTAAGTGTGCGAAACTAAAATGGAGAGGTTGAATAAAGG
9975675 GCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA
9975690 TACCGAGAGC
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
42 51 0.96
43 2 0.04
ACGTcount: A:0.37, C:0.12, G:0.29, T:0.21
Consensus pattern (42 bp):
GCACTAAGTGTGCGAAACTAAAATGGAGAGGTTGAATAAAGG
Found at i:9985860 original size:2 final size:2
Alignment explanation
Indices: 9985849--9985879 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
9985839 AGATTTGATT
9985849 GA GA -A GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
9985880 AAAGGCAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:9987295 original size:21 final size:21
Alignment explanation
Indices: 9987266--9987314 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
9987256 ATTAAAAATA
*
9987266 AATAGATTAAATGTTGTTAAT
1 AATAAATTAAATGTTGTTAAT
* * **
9987287 AATAAATTAACTTTTGTTGTT
1 AATAAATTAAATGTTGTTAAT
9987308 AATAAAT
1 AATAAAT
9987315 ATAATTTGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (21 bp):
AATAAATTAAATGTTGTTAAT
Found at i:9990290 original size:18 final size:19
Alignment explanation
Indices: 9990260--9990296 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
9990250 ACAATACTCA
9990260 TACCAGTTGAGCTAAGATT
1 TACCAGTTGAGCTAAGATT
9990279 TACCAG-TGAGCTAAGATT
1 TACCAGTTGAGCTAAGATT
9990297 CAATCTGGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (19 bp):
TACCAGTTGAGCTAAGATT
Found at i:10007680 original size:21 final size:21
Alignment explanation
Indices: 10007622--10007708 Score: 88
Period size: 21 Copynumber: 4.1 Consensus size: 21
10007612 CCTGATCAGT
10007622 ATACGACACAT-AAGTGCCTG
1 ATACGACACATAAAGTGCCTG
** *
10007642 -TAACGACACACGAGGTGCCTG
1 AT-ACGACACATAAAGTGCCTG
10007663 ATACGACACATAAAGTGCCTGAG
1 ATACGACACATAAAGTGCCT--G
* *
10007686 ATATGACACATAAAGTGTCTG
1 ATACGACACATAAAGTGCCTG
10007707 AT
1 AT
10007709 CGGCAAAGCC
Statistics
Matches: 55, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
19 1 0.02
20 8 0.15
21 26 0.47
22 1 0.02
23 19 0.35
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.21
Consensus pattern (21 bp):
ATACGACACATAAAGTGCCTG
Found at i:10008890 original size:28 final size:27
Alignment explanation
Indices: 10008859--10008928 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 27
10008849 TTTTGTTTCC
*
10008859 TATAA-TATATTATCTTAATTTTAATTAA
1 TATAATTATAATATCTTAA-TTTAA-TAA
*
10008887 TATAATTTATAATATTTTAATTTAATAA
1 TATAA-TTATAATATCTTAATTTAATAA
**
10008915 TATTTTTATAATAT
1 TATAATTATAATAT
10008929 AAATTAAGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 9 0.25
28 11 0.31
29 5 0.14
30 11 0.31
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (27 bp):
TATAATTATAATATCTTAATTTAATAA
Found at i:10008907 original size:15 final size:16
Alignment explanation
Indices: 10008889--10008920 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10008879 TTAATTAATA
10008889 TAATTT-ATAATATTT
1 TAATTTAATAATATTT
10008904 TAATTTAATAATATTT
1 TAATTTAATAATATTT
10008920 T
1 T
10008921 TATAATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTAATAATATTT
Found at i:10008911 original size:25 final size:26
Alignment explanation
Indices: 10008876--10008928 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
10008866 TATTATCTTA
10008876 ATTTTAATTAAT-ATA-ATTTATAAT
1 ATTTTAATTAATAATATATTTATAAT
*
10008900 ATTTTAATTTAATAATATTTTTATAAT
1 ATTTTAA-TTAATAATATATTTATAAT
10008927 AT
1 AT
10008929 AAATTAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 7 0.28
25 5 0.20
26 3 0.12
27 10 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
ATTTTAATTAATAATATATTTATAAT
Found at i:10020626 original size:21 final size:21
Alignment explanation
Indices: 10020579--10020626 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
10020569 CTGTTGAAGT
* *
10020579 TAGTTAAAAGGAGTTAGTTAG
1 TAGTTAAAAGGAATTAGTTAA
*
10020600 TTGTTAAACA-GAATTAGTTAA
1 TAGTTAAA-AGGAATTAGTTAA
10020621 TAGTTA
1 TAGTTA
10020627 GCTATTATCT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.40, C:0.02, G:0.21, T:0.38
Consensus pattern (21 bp):
TAGTTAAAAGGAATTAGTTAA
Found at i:10027335 original size:21 final size:20
Alignment explanation
Indices: 10027305--10027349 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
10027295 GATTGAGATC
10027305 TTTATTTTATTTATATATAT
1 TTTATTTTATTTATATATAT
* *
10027325 TTTATATTTATTTATCTATTT
1 TTTAT-TTTATTTATATATAT
10027346 TTTA
1 TTTA
10027350 AAAAATATCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTATTTTATTTATATATAT
Found at i:10032728 original size:36 final size:36
Alignment explanation
Indices: 10032681--10032749 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
10032671 AAAATGAAAA
* *
10032681 CAAACTTGATCAATTAGT-CCCGTGACAGCTTCTGCC
1 CAAACTCGATCAATGA-TACCCGTGACAGCTTCTGCC
*
10032717 CAAACTCGATCAATGATACTCGTGACAGCTTCT
1 CAAACTCGATCAATGATACCCGTGACAGCTTCT
10032750 TTGAACTTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 1 0.03
36 28 0.97
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (36 bp):
CAAACTCGATCAATGATACCCGTGACAGCTTCTGCC
Found at i:10034700 original size:29 final size:28
Alignment explanation
Indices: 10034632--10034703 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
10034622 TCTTTTCTTG
**
10034632 CTCGTATTCTTTTTCTTTCTCTTTTTTTT
1 CTCGT-TTCTTTTTCTTTCAATTTTTTTT
** *
10034661 CAAGCTCTCTTTTTCTTTCAATTTTTTTCT
1 CTCG-TTTCTTTTTCTTTCAATTTTTTT-T
10034691 CTCGTTTCTTTTT
1 CTCGTTTCTTTTT
10034704 TTCTTCTCTC
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
29 29 0.88
30 4 0.12
ACGTcount: A:0.07, C:0.22, G:0.04, T:0.67
Consensus pattern (28 bp):
CTCGTTTCTTTTTCTTTCAATTTTTTTT
Found at i:10034738 original size:20 final size:19
Alignment explanation
Indices: 10034682--10034738 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 19
10034672 TTTCTTTCAA
*
10034682 TTTTTTTCTCTCGTTTCTT
1 TTTTTTTCTCTCATTTCTT
10034701 TTTTTCTTCTCTCTATTTCTT
1 TTTTT-TTCTCTC-ATTTCTT
*
10034722 TTATTTTTCGCTCATTT
1 TT-TTTTTCTCTCATTT
10034739 TCTCTCATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
19 5 0.15
20 11 0.33
21 14 0.42
22 3 0.09
ACGTcount: A:0.05, C:0.21, G:0.04, T:0.70
Consensus pattern (19 bp):
TTTTTTTCTCTCATTTCTT
Found at i:10036984 original size:39 final size:37
Alignment explanation
Indices: 10036922--10036996 Score: 105
Period size: 39 Copynumber: 2.0 Consensus size: 37
10036912 AACACTTAAT
*
10036922 TAAAACACATATTAGTGAGTTCAAAATAAGACATAAC
1 TAAAACACATATTAATGAGTTCAAAATAAGACATAAC
* *
10036959 TAAAGACATATATTAATGATGTTCAAACTAAGACATAA
1 TAAA-ACACATATTAATGA-GTTCAAAATAAGACATAA
10036997 TATATTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 4 0.12
38 12 0.36
39 17 0.52
ACGTcount: A:0.51, C:0.12, G:0.11, T:0.27
Consensus pattern (37 bp):
TAAAACACATATTAATGAGTTCAAAATAAGACATAAC
Found at i:10036995 original size:27 final size:27
Alignment explanation
Indices: 10036956--10037033 Score: 113
Period size: 30 Copynumber: 2.8 Consensus size: 27
10036946 AATAAGACAT
10036956 AACTAAAGACATATATTAATGATGTTCA
1 AACT-AAGACATATATTAATGATGTTCA
10036984 AACTAAGACATAATATATTAATGATGTTCA
1 AACTAAGAC---ATATATTAATGATGTTCA
10037014 AACTAAGACATA-ATTAATGA
1 AACTAAGACATATATTAATGA
10037034 CATAACTAAG
Statistics
Matches: 47, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
26 8 0.17
27 8 0.17
28 4 0.09
30 27 0.57
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (27 bp):
AACTAAGACATATATTAATGATGTTCA
Done.