Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold276
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: 761718
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34
File 3 of 6
Found at i:359588 original size:20 final size:20
Alignment explanation
Indices: 359565--359638 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
359555 ACAATTCAAA
359565 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
* ****
359585 GTATCGATATATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
359606 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
359626 GTATCGATACATG
1 GTATCGATACATG
359639 AAAAAGATGT
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 28 0.65
21 15 0.35
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:359609 original size:21 final size:21
Alignment explanation
Indices: 359583--359658 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
359573 ACATGTTGCA
*
359583 ATGTATCGATATATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
359604 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
359624 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
359645 ATGTATCGATACAT
1 ATGTATCGATACAT
359659 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:359614 original size:41 final size:41
Alignment explanation
Indices: 359565--359658 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
359555 ACAATTCAAA
*
359565 GTATCGATACATGTTGCAATGTATCGATATATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
359606 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
359647 GTATCGATACAT
1 GTATCGATACAT
359659 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:359715 original size:13 final size:13
Alignment explanation
Indices: 359697--359722 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
359687 TACAGCAAGT
359697 ATGTATCGATACA
1 ATGTATCGATACA
359710 ATGTATCGATACA
1 ATGTATCGATACA
359723 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:360243 original size:34 final size:35
Alignment explanation
Indices: 360180--360246 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
360170 CTAAGTGATT
360180 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
360216 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
360247 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:363435 original size:13 final size:13
Alignment explanation
Indices: 363417--363441 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
363407 TTTTCCAGAT
363417 TGTATCGATACAA
1 TGTATCGATACAA
363430 TGTATCGATACA
1 TGTATCGATACA
363442 TTGCTTCAGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:364626 original size:23 final size:23
Alignment explanation
Indices: 364596--364642 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
364586 GTGCAAATAA
364596 ATTTTGATATGAATTACTTGATT
1 ATTTTGATATGAATTACTTGATT
364619 ATTTTGATATGAATTACTTGATT
1 ATTTTGATATGAATTACTTGATT
364642 A
1 A
364643 AGGGGGAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.04, G:0.13, T:0.51
Consensus pattern (23 bp):
ATTTTGATATGAATTACTTGATT
Found at i:365304 original size:20 final size:20
Alignment explanation
Indices: 365281--365354 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
365271 ACAATTCAAA
365281 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
* ****
365301 GTATCGATATATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
365322 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
365342 GTATCGATACATG
1 GTATCGATACATG
365355 AAAAAGATGT
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 28 0.65
21 15 0.35
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:365325 original size:21 final size:21
Alignment explanation
Indices: 365299--365374 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
365289 ACATGTTGCA
*
365299 ATGTATCGATATATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
365320 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
365340 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
365361 ATGTATCGATACAT
1 ATGTATCGATACAT
365375 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:365330 original size:41 final size:41
Alignment explanation
Indices: 365281--365374 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
365271 ACAATTCAAA
*
365281 GTATCGATACATGTTGCAATGTATCGATATATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
365322 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
365363 GTATCGATACAT
1 GTATCGATACAT
365375 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:365431 original size:13 final size:13
Alignment explanation
Indices: 365413--365438 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
365403 TACAGCAAGT
365413 ATGTATCGATACA
1 ATGTATCGATACA
365426 ATGTATCGATACA
1 ATGTATCGATACA
365439 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:365959 original size:34 final size:35
Alignment explanation
Indices: 365896--365962 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
365886 CTAAGTAATT
365896 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
365932 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
365963 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:371503 original size:20 final size:20
Alignment explanation
Indices: 371478--371552 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 20
371468 TTACGTAGAG
371478 GTATCGATACATTTTTCAAT
1 GTATCGATACATTTTTCAAT
* * *
371498 GTATCGATACATGTATGAAT
1 GTATCGATACATTTTTCAAT
*
371518 GTATCGATACATTCTTCAAT
1 GTATCGATACATTTTTCAAT
*
371538 GTATTGATACATTTT
1 GTATCGATACATTTT
371553 GTCTTTTTAC
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.43
Consensus pattern (20 bp):
GTATCGATACATTTTTCAAT
Found at i:384826 original size:12 final size:11
Alignment explanation
Indices: 384808--384849 Score: 59
Period size: 11 Copynumber: 3.7 Consensus size: 11
384798 CATCCTTCAT
384808 ACAAAAAAAAA
1 ACAAAAAAAAA
384819 ACCAAAAAAACAA
1 A-CAAAAAAA-AA
384832 AC-AAAAAAAA
1 ACAAAAAAAAA
384842 ACAAAAAA
1 ACAAAAAA
384850 GAAAGGTCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 4 0.14
11 12 0.43
12 9 0.32
13 3 0.11
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (11 bp):
ACAAAAAAAAA
Found at i:384827 original size:10 final size:10
Alignment explanation
Indices: 384811--384849 Score: 51
Period size: 10 Copynumber: 3.6 Consensus size: 10
384801 CCTTCATACA
384811 AAAAAAAAACC
1 AAAAAAAAA-C
384822 AAAAAAACAAAC
1 -AAAAAA-AAAC
384834 AAAAAAAAAC
1 AAAAAAAAAC
384844 AAAAAA
1 AAAAAA
384850 GAAAGGTCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.38
11 6 0.23
12 7 0.27
13 3 0.12
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:384828 original size:13 final size:12
Alignment explanation
Indices: 384808--384842 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
384798 CATCCTTCAT
384808 ACAAAAAAAAAA
1 ACAAAAAAAAAA
* *
384820 CCAAAAAAACAA
1 ACAAAAAAAAAA
384832 ACAAAAAAAAA
1 ACAAAAAAAAA
384843 CAAAAAAGAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (12 bp):
ACAAAAAAAAAA
Found at i:390570 original size:24 final size:22
Alignment explanation
Indices: 390514--390562 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
390504 TGGACATGTT
390514 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
390536 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
390558 AAAAA
1 AAAAA
390563 AATGCATGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.67, C:0.08, G:0.08, T:0.16
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:391528 original size:20 final size:20
Alignment explanation
Indices: 391481--391555 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
391471 AAAAAGACAT
*
391481 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
391500 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
391521 CATGTATCGATATATTAAAA
1 AATGTATCGATACATTCATA
391541 AATGTATCGATACAT
1 AATGTATCGATACAT
391556 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:391549 original size:40 final size:39
Alignment explanation
Indices: 391478--391555 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
391468 GGTAAAAAGA
** *
391478 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTAAAAAATATATCGATACATT
* *
391517 CATACATGTATCGATATATTAAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTAAAAAATATATCGATACAT
391556 CAGGGTATGA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTAAAAAATATATCGATACATT
Found at i:392132 original size:32 final size:32
Alignment explanation
Indices: 392091--392867 Score: 1358
Period size: 32 Copynumber: 24.3 Consensus size: 32
392081 GATTTGAAAA
* ** **
392091 GGGTTGCCACTGACTTGCATGGGCTTTTAAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
*
392123 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
*
392155 GAGTTGCCACCGACTTGTGTGGGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
* *
392187 GGGTTGCCACCGACTTGTGTGGGTTTTGAAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
*
392219 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
*
392251 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
*
392283 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
392315 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
392347 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
392379 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
392411 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
392443 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
392475 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
*
392507 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
*
392539 GGGTTGCCACCGACTTGTGTGTGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
*
392571 GGGTTGCCACCGACTTGTGTGTGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
*
392603 GGGTTGCCACCGACTTGTATGGGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
392635 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
392667 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
392699 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
* *
392731 GGGTTGCCACCGACTTGTGTGAGCTTTGAAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
392763 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
* *
392795 GGGCTGCCACCGACTTGTGTGGGCTTTGAAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
*
392827 GGGTTGCCACCGACTTGTGTGGGCTTTGAAAT
1 GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
392859 GGG-TGCCAC
1 GGGTTGCCAC
392868 GGAGTTATGG
Statistics
Matches: 721, Mismatches: 24, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
31 6 0.01
32 715 0.99
ACGTcount: A:0.14, C:0.19, G:0.35, T:0.31
Consensus pattern (32 bp):
GGGTTGCCACCGACTTGTGTGGGCTTTGGAAT
Found at i:392900 original size:27 final size:27
Alignment explanation
Indices: 392859--393623 Score: 1174
Period size: 27 Copynumber: 28.0 Consensus size: 27
392849 GCTTTGAAAT
* *
392859 GGGTGCCACGGAGTTATGGATTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
392886 GGATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
392913 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
392940 GGGTGCCACAGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
392967 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
392995 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
393022 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
393049 GGGTGCCACGGAGTTGTGGACTT-AAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
393075 GAGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
393102 AGGTGCTACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
393129 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
393156 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
393183 GAGATGCCACGGAGTTGTGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAA
*
393211 GGGATGCCACAGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
393239 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
393266 GGGTGCCACGGAGTTGTGGACTTAAAGA
1 GGGTGCCACGGAGTTGTGGACTTAAA-A
*
393294 AGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* * *
393322 GAGCGCTACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
393349 GGGTGCCACGGAGTTATGGACTTTGAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
393377 -GGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
393403 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* **
393431 GAGTGCCACGGAGTTGTGGACTTTGAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
393458 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
393485 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
393513 GAGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* *
393541 GAGTGCCACGGAGTTGTGGATTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
393568 GGGTGCCACAGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
* *
393596 AGATGCCACGGAGTTGTGGACTTCAAAA
1 GGGTGCCACGGAGTTGTGGACTT-AAAA
393624 AGAAATGCCA
Statistics
Matches: 678, Mismatches: 48, Indels: 23
0.91 0.06 0.03
Matches are distributed among these distances:
26 30 0.04
27 415 0.61
28 228 0.34
29 5 0.01
ACGTcount: A:0.28, C:0.14, G:0.35, T:0.23
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:392989 original size:82 final size:81
Alignment explanation
Indices: 392859--393623 Score: 1174
Period size: 82 Copynumber: 9.3 Consensus size: 81
392849 GCTTTGAAAT
* * *
392859 GGGTGCCACGGAGTTATGGATTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
392924 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
* *
392940 GGGTGCCACAGAGTTGTGGTCTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
393005 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
*
393022 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAGAGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
393086 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
* * *
393102 AGGTGCTACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
393167 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
* *
393183 GAGATGCCACGGAGTTGTGGACTTAAAAGGGATGCCACAGAGTTGTGGACTTAAAAGGGTGCCAC
1 G-GGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC
393248 GGAGTTGTGGACTTAAAA
64 GGAGTTGTGGACTTAAAA
* * * *
393266 GGGTGCCACGGAGTTGTGGACTTAAAGAAGGTGCCACGGAGTTGTGGACTTTAAAAGAGCGCTAC
1 GGGTGCCACGGAGTTGTGGACTTAAA-AGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCAC
393331 GGAGTTGTGGACTTAAAA
64 GGAGTTGTGGACTTAAAA
* * *
393349 GGGTGCCACGGAGTTATGGACTTTGAAA-GGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
393413 GAGTTGTGGACTTTAAAA
65 GAGTTGTGGAC-TTAAAA
* **
393431 GAGTGCCACGGAGTTGTGGACTTTGAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
393496 AGTTGTGGACTTTAAAA
66 AGTTGTGGAC-TTAAAA
* * * *
393513 GAGTGCCACGGAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGATTTAAAAGGGTGCCACA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
393578 GAGTTGTGGACTTTAAAA
65 GAGTTGTGGAC-TTAAAA
* *
393596 AGATGCCACGGAGTTGTGGACTTCAAAA
1 GGGTGCCACGGAGTTGTGGACTT-AAAA
393624 AGAAATGCCA
Statistics
Matches: 633, Mismatches: 40, Indels: 20
0.91 0.06 0.03
Matches are distributed among these distances:
80 76 0.12
81 102 0.16
82 267 0.42
83 184 0.29
84 4 0.01
ACGTcount: A:0.28, C:0.14, G:0.35, T:0.23
Consensus pattern (81 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAA
Found at i:392995 original size:55 final size:54
Alignment explanation
Indices: 392859--393623 Score: 1174
Period size: 55 Copynumber: 14.0 Consensus size: 54
392849 GCTTTGAAAT
* * *
392859 GGGTGCCACGGAGTTATGGATTTAAAAGGATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
392913 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGTCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
392967 GGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
393022 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* * *
393075 GAGTGCCACGGAGTTGTGGACTTAAAAAGGTGCTACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
*
393129 GGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
393183 GAGATGCCACGGAGTTGTGGACTTAAAAGGGATGCCACAGAGTTGTGGACTTAAAA
1 G-GGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAA
393239 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAGA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAA-A
* * * *
393294 AGGTGCCACGGAGTTGTGGACTTTAAAAGAGCGCTACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* * *
393349 GGGTGCCACGGAGTTATGGACTTTGAAA-GGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* **
393403 GGGTGCCACGGAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGACTTTGAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
393458 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAA
* * *
393513 GAGTGCCACGGAGTTGTGGACTTTAAAAGAGTGCCACGGAGTTGTGGATTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* * *
393568 GGGTGCCACAGAGTTGTGGACTTTAAAAAGATGCCACGGAGTTGTGGACTTCAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAA
393624 AGAAATGCCA
Statistics
Matches: 653, Mismatches: 48, Indels: 18
0.91 0.07 0.03
Matches are distributed among these distances:
53 50 0.08
54 249 0.38
55 272 0.42
56 82 0.13
ACGTcount: A:0.28, C:0.14, G:0.35, T:0.23
Consensus pattern (54 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:401188 original size:25 final size:22
Alignment explanation
Indices: 401131--401179 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
401121 TGGACATGTT
401131 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
401153 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
401175 AAAAA
1 AAAAA
401180 AAATGCATGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.67, C:0.08, G:0.08, T:0.16
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:402146 original size:20 final size:20
Alignment explanation
Indices: 402099--402173 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
402089 AAAAAGACAT
*
402099 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
402118 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
402139 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
402159 AATGTATCGATACAT
1 AATGTATCGATACAT
402174 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:402167 original size:40 final size:39
Alignment explanation
Indices: 402096--402173 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
402086 GGTAAAAAGA
* *
402096 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
402135 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
402174 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:404498 original size:39 final size:39
Alignment explanation
Indices: 404455--404553 Score: 135
Period size: 39 Copynumber: 2.5 Consensus size: 39
404445 TTTAGGGTTA
* * *
404455 ATTGAAATCCAAAAGATATGAGTAATGCATGGATTTTTT
1 ATTGAAATCTAAAAGATATGAGTAATGCATGGATTATAT
* **
404494 ATTGAAATCTAAAAGATATTAGTAATTTATGGATTATAT
1 ATTGAAATCTAAAAGATATGAGTAATGCATGGATTATAT
*
404533 ATTGAAATTTAAAAGATATGA
1 ATTGAAATCTAAAAGATATGA
404554 CTAACACGTA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.43, C:0.04, G:0.15, T:0.37
Consensus pattern (39 bp):
ATTGAAATCTAAAAGATATGAGTAATGCATGGATTATAT
Found at i:406106 original size:35 final size:35
Alignment explanation
Indices: 406029--406099 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
406019 ATGCTGAATC
406029 TGATGATAATGATGATTCTAACCTAAATGAATCAT
1 TGATGATAATGATGATTCTAACCTAAATGAATCAT
*
406064 TGATGATAGTGATGATTCTAACCTAAATGAATCAT
1 TGATGATAATGATGATTCTAACCTAAATGAATCAT
406099 T
1 T
406100 ACTGATATCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.35
Consensus pattern (35 bp):
TGATGATAATGATGATTCTAACCTAAATGAATCAT
Found at i:412756 original size:52 final size:52
Alignment explanation
Indices: 412671--412795 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
412661 ATATGAAAAG
* *
412671 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
412723 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
412775 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
412796 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:412808 original size:52 final size:51
Alignment explanation
Indices: 412671--412815 Score: 211
Period size: 52 Copynumber: 2.8 Consensus size: 51
412661 ATATGAAAAG
*
412671 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
412723 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
412775 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
412816 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:412822 original size:13 final size:13
Alignment explanation
Indices: 412804--412828 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
412794 CAAAGATCAG
412804 TGTATCGATACAA
1 TGTATCGATACAA
412817 TGTATCGATACA
1 TGTATCGATACA
412829 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:412912 original size:33 final size:33
Alignment explanation
Indices: 412870--412939 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
412860 GGCAGTAGCT
412870 TACATTGTATCGATACAAAAAAATATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
* ***
412903 TACATTGTATCGATACAACATTTTATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
412936 TACA
1 TACA
412940 AATCGTTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (33 bp):
TACATTGTATCGATACAAAAAAATATGTATCGA
Found at i:412913 original size:13 final size:13
Alignment explanation
Indices: 412895--412919 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
412885 CAAAAAAATA
412895 TGTATCGATACAT
1 TGTATCGATACAT
412908 TGTATCGATACA
1 TGTATCGATACA
412920 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:416138 original size:71 final size:71
Alignment explanation
Indices: 416052--416185 Score: 223
Period size: 71 Copynumber: 1.9 Consensus size: 71
416042 TCAATACAAC
*
416052 GACATATCTACTGATAGAGGGCTCTTTCACACAATGTTGAACAATAATGTGAAGCTTTCTTATTA
1 GACATATCTACTGATAGAGGGCTCTTTCACACAATGTTGAACAACAATGTGAAGCTTTCTTATTA
416117 TGTGGT
66 TGTGGT
* * * *
416123 GACATATCTACTGATAGAGGGCTTTTTCACACAGTTTTGAGCAACAATGTGAAGCTTTCTTAT
1 GACATATCTACTGATAGAGGGCTCTTTCACACAATGTTGAACAACAATGTGAAGCTTTCTTAT
416186 ACGTAGTGAC
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 58 1.00
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.35
Consensus pattern (71 bp):
GACATATCTACTGATAGAGGGCTCTTTCACACAATGTTGAACAACAATGTGAAGCTTTCTTATTA
TGTGGT
Found at i:418446 original size:24 final size:24
Alignment explanation
Indices: 418400--418446 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
418390 AATGCAATCA
* *
418400 AAATAAAAATTAAACTAATCTTAC
1 AAATAAAAATTAAACAAACCTTAC
418424 AAATAAAAA-TAAATCAAACCTTA
1 AAATAAAAATTAAA-CAAACCTTA
418447 AAAAATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.26
Consensus pattern (24 bp):
AAATAAAAATTAAACAAACCTTAC
Found at i:418590 original size:73 final size:73
Alignment explanation
Indices: 418421--418902 Score: 496
Period size: 73 Copynumber: 6.6 Consensus size: 73
418411 AAACTAATCT
* * * *
418421 TACAAATAAAAATAAATCAAACCTTAAAAAATTTTAACTCTTATAATCCACCCAAAAAGTTAATT
1 TACAAATAAAAATAAATCATACCTTAAAAAATTTTAACTCATATAATCAACCCAAAAAGTAAATT
*
418486 TGAACTTA
66 TAAACTTA
* * * * *
418494 TAC-AATAAGAATAAATCAAACCTTAAAAAATTTTAACTCCTATAATCCACCCAAAAAGTGAATT
1 TACAAATAAAAATAAATCATACCTTAAAAAATTTTAACTCATATAATCAACCCAAAAAGTAAATT
*
418558 TGAACTTA
66 TAAACTTA
*
418566 TACAAATAAGAATAAATCATACCTTAAAAAATTTTAACTCATATAATCAACCCAAAAAGTAAATT
1 TACAAATAAAAATAAATCATACCTTAAAAAATTTTAACTCATATAATCAACCCAAAAAGTAAATT
*
418631 TAAACTTC
66 TAAACTTA
* * * * *
418639 TACAAATAAAAATAAATCATACCTTTAAAAAATTTAAACTTATATGATCAAACCAAAAAATAAAT
1 TACAAATAAAAATAAATCATACC-TTAAAAAATTTTAACTCATATAATCAACCCAAAAAGTAAAT
* *
418704 TTAAAATTT
65 TTAAACTTA
** * * *
418713 TACAAATAAAAATAAATTGTACCTTAAAAAATTTAAACTTGTC-TAATAAT-AACCGAAAAA-CA
1 TACAAATAAAAATAAATCATACCTTAAAAAATTTTAAC---TCAT-ATAATCAACCCAAAAAGTA
* * *
418775 AATCTAAATTTT
62 AATTTAAACTTA
* * * * *
418787 TACAAAT-AAAATAAA-CAATATCTT-AAAAATTTAAACTCATATAATCAAACTAAAAAATAAAT
1 TACAAATAAAAATAAATC-ATACCTTAAAAAATTTTAACTCATATAATCAACCCAAAAAGTAAAT
*
418849 TTAAACTTT
65 TTAAACTTA
* * * * *
418858 TATAAATAAAAAGAAATTATA-CTT-TAAAATTTAAACTCATATAAT
1 TACAAATAAAAATAAATCATACCTTAAAAAATTTTAACTCATATAAT
418903 AGTAGCTAAA
Statistics
Matches: 359, Mismatches: 38, Indels: 26
0.85 0.09 0.06
Matches are distributed among these distances:
69 7 0.02
70 9 0.03
71 40 0.11
72 91 0.25
73 116 0.32
74 82 0.23
75 9 0.03
76 5 0.01
ACGTcount: A:0.53, C:0.13, G:0.03, T:0.30
Consensus pattern (73 bp):
TACAAATAAAAATAAATCATACCTTAAAAAATTTTAACTCATATAATCAACCCAAAAAGTAAATT
TAAACTTA
Found at i:418595 original size:145 final size:147
Alignment explanation
Indices: 418421--418902 Score: 509
Period size: 145 Copynumber: 3.3 Consensus size: 147
418411 AAACTAATCT
* * * *
418421 TACAAATAAAAATAAATCAAACCTTAAAAAATTTTAACTCTTATAATCCACCCAAAAAGTTAATT
1 TACAAATAAAAATAAATCATACCTTAAAAAATTTTAACTCATATAATCAACCCAAAAAGTAAATT
* * * * * *
418486 TGAACTTATAC-AATAAGAATAAATCAAACC-TTAAAAAATTTTAACTCCTATAATCCACCCAAA
66 TAAACTTATACAAATAAAAATAAATCAAACCTTTAAAAAATTTAAACTCATATAATCAAACCAAA
* * * *
418549 AAGTGAATTTGAACTTA
131 AAATAAATTTAAAATTA
*
418566 TACAAATAAGAATAAATCATACCTTAAAAAATTTTAACTCATATAATCAACCCAAAAAGTAAATT
1 TACAAATAAAAATAAATCATACCTTAAAAAATTTTAACTCATATAATCAACCCAAAAAGTAAATT
* * * *
418631 TAAACTTCTACAAATAAAAATAAATCATACCTTTAAAAAATTTAAACTTATATGATCAAACCAAA
66 TAAACTTATACAAATAAAAATAAATCAAACCTTTAAAAAATTTAAACTCATATAATCAAACCAAA
*
418696 AAATAAATTTAAAATTT
131 AAATAAATTTAAAATTA
** * * *
418713 TACAAATAAAAATAAATTGTACCTTAAAAAATTTAAACTTGTC-TAATAAT-AACCGAAAAA-CA
1 TACAAATAAAAATAAATCATACCTTAAAAAATTTTAAC---TCAT-ATAATCAACCCAAAAAGTA
* * * *
418775 AATCTAAATTTTTACAAAT-AAAATAAA-CAATATC-TT-AAAAATTTAAACTCATATAATCAAA
62 AATTTAAACTTATACAAATAAAAATAAATCAA-ACCTTTAAAAAATTTAAACTCATATAATCAAA
* * *
418836 CTAAAAAATAAATTTAAACTTT
126 CCAAAAAATAAATTTAAAATTA
* * * * *
418858 TATAAATAAAAAGAAATTATA-CTT-TAAAATTTAAACTCATATAAT
1 TACAAATAAAAATAAATCATACCTTAAAAAATTTTAACTCATATAAT
418903 AGTAGCTAAA
Statistics
Matches: 290, Mismatches: 39, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
140 7 0.02
141 1 0.00
143 11 0.04
144 3 0.01
145 130 0.45
146 21 0.07
147 83 0.29
148 17 0.06
149 10 0.03
150 7 0.02
ACGTcount: A:0.53, C:0.13, G:0.03, T:0.30
Consensus pattern (147 bp):
TACAAATAAAAATAAATCATACCTTAAAAAATTTTAACTCATATAATCAACCCAAAAAGTAAATT
TAAACTTATACAAATAAAAATAAATCAAACCTTTAAAAAATTTAAACTCATATAATCAAACCAAA
AAATAAATTTAAAATTA
Found at i:419127 original size:73 final size:74
Alignment explanation
Indices: 419040--419257 Score: 227
Period size: 74 Copynumber: 3.0 Consensus size: 74
419030 CATACTAATC
*
419040 TTATAAATAAAAATAAATCATACTTTAAAAAAATTT-AACTCCTATAATTAACTCAAAAAATAAA
1 TTATAAATAAAAATAAATCATACTTTAAAAAAATTTAAACTCCTATAATAAACTCAAAAAATAAA
419104 TTTAAACTT
66 TTTAAACTT
* * * * ** *
419113 TTATAAGTAAAAATAGATTATA-TCCTAAAAAAATTTAAACTTGTATAATGAAACT-AAAAAATT
1 TTATAAATAAAAATAAATCATACT-TTAAAAAAATTTAAACTCCTATAAT-AAACTCAAAAAATA
*
419176 AACTTAAACTT
64 AATTTAAACTT
* * * * *
419187 CTAAAAATAAAAATAAATCATTC-TT-AAAAAATTTAAATTCCTATAATCATAC-C-AAAAA-AA
1 TTATAAATAAAAATAAATCATACTTTAAAAAAATTTAAACTCCTATAAT-AAACTCAAAAAATAA
419247 ATTTAAACTT
65 ATTTAAACTT
419257 T
1 T
419258 CACAAAAAAT
Statistics
Matches: 116, Mismatches: 24, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
70 10 0.09
71 5 0.04
72 23 0.20
73 31 0.27
74 43 0.37
75 4 0.03
ACGTcount: A:0.54, C:0.11, G:0.02, T:0.33
Consensus pattern (74 bp):
TTATAAATAAAAATAAATCATACTTTAAAAAAATTTAAACTCCTATAATAAACTCAAAAAATAAA
TTTAAACTT
Found at i:419553 original size:468 final size:471
Alignment explanation
Indices: 418566--419593 Score: 1217
Period size: 475 Copynumber: 2.2 Consensus size: 471
418556 TTTGAACTTA
* * * *
418566 TACAAATAAGAATAAATCATACCTTAAAAAATTTTAACTCATATAATCAACCCAAAAAGTAAATT
1 TACAAATAAAAATAAATCATACTTTAAAAAATTTTAACTCCTATAATCAA-CCAAAAAATAAATT
* * *
418631 TAAACTTCTACAAATAAAAATAAATCATACCTTTAAAAAATTTAAACTTATATGATCAAACCAAA
65 TAAACTTTTACAAATAAAAATAAATCATACCTTAAAAAAATTTAAACTTATATAATCAAACCAAA
* * * ** *
418696 AAATAAATTTAAAATTTTACAAATAAAAATAAATTGTACCTTAAAAAATTTAAACTTGTCTAATA
130 AAATAAACTTAAAATTCTAAAAATAAAAATAAATCATACCTTAAAAAATTTAAACTTGCCTAATA
* * *
418761 ATAACCGAAAAACAAATCTAAATTTTTACAAATAAAATAAACAATATCTTAAAAATTTAAACTCA
195 ATAACCGAAAAACAAATCTAAACTTTCACAAATAAAAT--A-AATACCTTAAAAATTTAAACTCA
* *
418826 TATAATCAAACTAAAAAATAAATTTAAACTTTTATAAATAAAAAGAAATTATACTTTAAAATTTA
257 TATAATCAAACTAAAAAACAAATTTAAACTTTTACAAATAAAAAGAAATTATACTTTAAAATTTA
* * * * *
418891 AACTCATATAATAGTAGCTAAAAAATACTTTTACAAATAAAAATATTTTTATTTAAAATACTAGT
322 AACTCACATAATAGCAGCTAAAAAATACTGTTAAAAATAAAAATATTTTTATTTAAAATACTAAT
* * *
418956 TACCTAATATTTTAAAATATACTAATGCAATCAAGCTAAATTTCAGTCATATTTAGATAAAATAT
387 TACCTAATATTTAAAAATACACTAATGCAATCAAACTAAATTTCAGTCATATTTAGATAAAATAT
* * *
419021 CCCCAATATCATACTAATCT
452 CCCAAAAATCAAACTAATCT
* * *
419041 TATAAATAAAAATAAATCATACTTTAAAAAAATTTAACTCCTATAATTAACTCAAAAAATAAATT
1 TACAAATAAAAATAAATCATACTTTAAAAAATTTTAACTCCTATAATCAAC-CAAAAAATAAATT
* * * * * * *
419106 TAAACTTTTATAAGTAAAAATAGATTATATCC-TAAAAAAATTTAAACTTGTATAATGAAACTAA
65 TAAACTTTTACAAATAAAAATAAATCATA-CCTTAAAAAAATTTAAACTTATATAATCAAACCAA
* * *
419170 AAAATTAACTTAAACTTCTAAAAATAAAAATAAATCAT-TCTTAAAAAATTTAAA-TT-CCT-AT
129 AAAATAAACTTAAAATTCTAAAAATAAAAATAAATCATACCTTAAAAAATTTAAACTTGCCTAAT
* * *
419231 AATCATACC-AAAAA-AAATTTAAACTTTCAC-AA-AAAAT-AATACCTTAAAAGTTTAAACT-T
194 AAT-A-ACCGAAAAACAAATCTAAACTTTCACAAATAAAATAAATACCTTAAAAATTTAAACTCA
* * * * *
419290 TGTAATCTAA-TCAAAATACAAATTTAAACTTTTACAAATAAAAATAAATTATATTTTAAAAATT
257 TATAATCAAACT-AAAAAACAAATTTAAACTTTTACAAATAAAAAGAAATTATACTTT-AAAATT
* * ** * *
419354 TTAATTTGCATAATCA-CA-CTTAAAAGTACTGTTAAAAATAAAAATATTTTTATTTAAAATA-T
320 TAAACTCACATAAT-AGCAGCTAAAAAATACTGTTAAAAATAAAAATATTTTTATTTAAAATACT
419416 CAATTACCTAATATTTAAACAAAAATACACTAATGCAATCAAACTAAATTAT-AGTCATATTTAG
384 -AATTACCTAATATTT----AAAAATACACTAATGCAATCAAACTAAATT-TCAGTCATATTTAG
* *
419480 ATAAAATATTCCAAAAATCAAATTAATCT
443 ATAAAATATCCCAAAAATCAAACTAATCT
* ** *
419509 TACAAATAAAAATAAATCATAATTTAAAATTTTTTAATTCCTATAATCAACCTAAAAAATAAATT
1 TACAAATAAAAATAAATCATACTTTAAAAAATTTTAACTCCTATAATCAACC-AAAAAATAAATT
419574 TAAACTTTTACAAA-AAAAAT
65 TAAACTTTTACAAATAAAAAT
419594 CAAAATATAA
Statistics
Matches: 472, Mismatches: 67, Indels: 36
0.82 0.12 0.06
Matches are distributed among these distances:
463 2 0.00
464 101 0.21
465 35 0.07
466 1 0.00
467 7 0.01
468 131 0.28
469 6 0.01
470 2 0.00
471 18 0.04
472 8 0.02
473 5 0.01
474 16 0.03
475 138 0.29
476 2 0.00
ACGTcount: A:0.52, C:0.12, G:0.03, T:0.33
Consensus pattern (471 bp):
TACAAATAAAAATAAATCATACTTTAAAAAATTTTAACTCCTATAATCAACCAAAAAATAAATTT
AAACTTTTACAAATAAAAATAAATCATACCTTAAAAAAATTTAAACTTATATAATCAAACCAAAA
AATAAACTTAAAATTCTAAAAATAAAAATAAATCATACCTTAAAAAATTTAAACTTGCCTAATAA
TAACCGAAAAACAAATCTAAACTTTCACAAATAAAATAAATACCTTAAAAATTTAAACTCATATA
ATCAAACTAAAAAACAAATTTAAACTTTTACAAATAAAAAGAAATTATACTTTAAAATTTAAACT
CACATAATAGCAGCTAAAAAATACTGTTAAAAATAAAAATATTTTTATTTAAAATACTAATTACC
TAATATTTAAAAATACACTAATGCAATCAAACTAAATTTCAGTCATATTTAGATAAAATATCCCA
AAAATCAAACTAATCT
Found at i:420001 original size:429 final size:424
Alignment explanation
Indices: 419179--419943 Score: 972
Period size: 428 Copynumber: 1.8 Consensus size: 424
419169 AAAAATTAAC
*
419179 TTAAACTTCTAAAAATAAAAATAAATCATTCTTAAAAAATTTAAATTCCTATAATCATACCAAAA
1 TTAAACTTCTAAAAATAAAAATAAATCATACTTAAAAAATTTAAATTCCTATAATCATACCAAAA
* * * *
419244 AAAATTTAAACTTTCACAAAAAATAATACCTTAAAAGTTTAAACTTTGTAATCTAATCAAAATAC
66 AAAATTTAAACTTTCACAAAAAATAATACCTTAAAAGTTTAAACTCTATAATCAAACCAAAATAC
* * ** * *
419309 AAATTTAAACTTTTACAAATAAAAATAAATTATATTTTAAAAATTTTAATTTGCATAATCACACT
131 AAATTTAAAATTTTACAAATAAAAATAAATTATATCTTAAAAATTTTAAACTGCA-AACCACACC
* * * * *
419374 TAAAAGTACTGTTAAAAATAAAAATATTTTTATTTAAAATATCAATTACCTAATATTTAAACAAA
195 CAAAAGCACTGTTAAAAATAAAAATAATTTCATTTAAAATACCAATTACCTAATATTTAAACAAA
* *
419439 AATACACTAATGCAATCAAACTAAATTATAGTCATATTTAGATAAAATATTCCAAAAATCAAATT
260 AATACACTAAT-CAATCAAACTAAATTATAGTCATATTTAGATAAAATAGTCCAAAAATCAAACT
* * ****** *
419504 AATCTTACAAATAAAAATAAATCATAATTTAAAATTTTTTAATTCCTATAATCAACCTAAAAAAT
324 AATCTTAAAAATAAAAATAAATCATAATTCAAAAAAAGAAAATT-CTATAATCAACCAAAAAAAT
419569 AAATTTAAACTTTTACAAAAAAAATCAAAATATAAAT
388 AAATTTAAACTTTTACAAAAAAAATCAAAATATAAAT
** *
419606 TTAAACTTCTATGAATAAAAATAAATCATACTGTAAAAAATTTAAACTT-CTATAATCATACTAA
1 TTAAACTTCTAAAAATAAAAATAAATCATACT-TAAAAAATTTAAA-TTCCTATAATCATACCAA
* * * * * *
419670 AAAGAATTTAAACTTAT-ACAAAAAATAATACCTTGAAATTTTACAGTCCTATTATCAAACCAAA
64 AAAAAATTTAAACTT-TCACAAAAAATAATACCTTAAAAGTTTAAACT-CTATAATCAAACCAAA
* *
419734 ATACAAATTTAAAATTTTATAAATAAAAATAAATTATATCTTAAAAA-TTTAAACT-C-AACCAT
127 ATACAAATTTAAAATTTTACAAATAAAAATAAATTATATCTTAAAAATTTTAAACTGCAAACCAC
* * * * *
419796 ACCCCAAA-CACT-TTGACAAATAAAAAATAATTTCATTTAAAATGCCAATTATCTAATATTTTA
192 ACCCAAAAGCACTGTT-AAAAAT-AAAAATAATTTCATTTAAAATACCAATTACCTAATATTTAA
* *
419859 ACAAAAATACACTATAT-AATCAAACTAAATTTTAGTCATATTTAGATAAAAT-GTCCACAAATC
255 ACAAAAATACACTA-ATCAATCAAACTAAATTATAGTCATATTTAGATAAAATAGTCCAAAAATC
419922 AAACTAATCTTAAAAATAAAAA
319 AAACTAATCTTAAAAATAAAAA
419944 GATTAACTCC
Statistics
Matches: 294, Mismatches: 37, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
423 31 0.11
424 42 0.14
425 58 0.20
426 2 0.01
427 30 0.10
428 73 0.25
429 58 0.20
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (424 bp):
TTAAACTTCTAAAAATAAAAATAAATCATACTTAAAAAATTTAAATTCCTATAATCATACCAAAA
AAAATTTAAACTTTCACAAAAAATAATACCTTAAAAGTTTAAACTCTATAATCAAACCAAAATAC
AAATTTAAAATTTTACAAATAAAAATAAATTATATCTTAAAAATTTTAAACTGCAAACCACACCC
AAAAGCACTGTTAAAAATAAAAATAATTTCATTTAAAATACCAATTACCTAATATTTAAACAAAA
ATACACTAATCAATCAAACTAAATTATAGTCATATTTAGATAAAATAGTCCAAAAATCAAACTAA
TCTTAAAAATAAAAATAAATCATAATTCAAAAAAAGAAAATTCTATAATCAACCAAAAAAATAAA
TTTAAACTTTTACAAAAAAAATCAAAATATAAAT
Found at i:420048 original size:71 final size:71
Alignment explanation
Indices: 419965--420096 Score: 178
Period size: 71 Copynumber: 1.9 Consensus size: 71
419955 ATAATCAACC
* * *
419965 CAAAAAGAAAATTTAAGCTTCTCCAAAT-AAAATAAATCATATCTTAAAAAATTTCAATTCACAA
1 CAAAAAGAAAATTTAAACTTCTACAAATAAAAATAAATCATA-CTTAAAAAATTTAAATTCACAA
420029 AATTAAA
65 AATTAAA
* * *
420036 CAAAAA-ATAAATTTAAACTTTTACAAATAAAAATAAATTATACTTTAAAAATTTAAATTCA
1 CAAAAAGA-AAATTTAAACTTCTACAAATAAAAATAAATCATACTTAAAAAATTTAAATTCA
420097 TATAATCATA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
70 1 0.02
71 40 0.75
72 12 0.23
ACGTcount: A:0.56, C:0.11, G:0.02, T:0.31
Consensus pattern (71 bp):
CAAAAAGAAAATTTAAACTTCTACAAATAAAAATAAATCATACTTAAAAAATTTAAATTCACAAA
ATTAAA
Found at i:420092 original size:26 final size:26
Alignment explanation
Indices: 420038--420087 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
420028 AAATTAAACA
*
420038 AAAAATAAATTTAAACTTTTACAAAT
1 AAAAATAAATTTAAACTTTTAAAAAT
*
420064 AAAAATAAA-TTATAC-TTTAAAAAT
1 AAAAATAAATTTAAACTTTTAAAAAT
420088 TTAAATTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 8 0.36
25 5 0.23
26 9 0.41
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (26 bp):
AAAAATAAATTTAAACTTTTAAAAAT
Found at i:420374 original size:72 final size:71
Alignment explanation
Indices: 420244--420436 Score: 201
Period size: 73 Copynumber: 2.7 Consensus size: 71
420234 AAACTAATCT
* ** * *
420244 TACAAATAAAATTAAATCATGCTTTAAAATAATTTATACTCTTATAATCAACCTAAAAA-AAATG
1 TACAAATAAAAATAAATCATATTTTAAAAT-ATTTA-ACTCATATAATCAACCAAAAAATAAATG
*
420308 TAAACTTC
64 TAAACTTA
* * *
420316 TACAAATAAAAATAAATCATATTTTAAAATATTTGAACTCATATAGTCAAATCAAAAAATAAATT
1 TACAAATAAAAATAAATCATATTTTAAAATATTT-AACTCATATAATC-AACCAAAAAATAAATG
420381 TAAACTTA
64 TAAACTTA
* * * *
420389 TAGAAATAAAAATAAATCAAATCTTACAAA-ATTTAAACTCGTATAATC
1 TACAAATAAAAATAAATCATATTTTA-AAATATTT-AACTCATATAATC
420437 GCACCTAAAT
Statistics
Matches: 102, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
71 14 0.14
72 36 0.35
73 49 0.48
74 3 0.03
ACGTcount: A:0.53, C:0.12, G:0.03, T:0.32
Consensus pattern (71 bp):
TACAAATAAAAATAAATCATATTTTAAAATATTTAACTCATATAATCAACCAAAAAATAAATGTA
AACTTA
Found at i:422808 original size:56 final size:56
Alignment explanation
Indices: 422722--422833 Score: 152
Period size: 56 Copynumber: 2.0 Consensus size: 56
422712 CATTAAAGAA
** * *
422722 ACATTTGATTAGTGTAGGTATTACAAATTACTAATTTCTATTCATTTTTCATAACT
1 ACATTTGATTAGTACAGGTATTACAAATTACCAATTTCTATTAATTTTTCATAACT
* * * *
422778 ACATTTGATTATTACAGGTATTATAAATTACCAATTTTTATTAATTTTTCCTAACT
1 ACATTTGATTAGTACAGGTATTACAAATTACCAATTTCTATTAATTTTTCATAACT
422834 TTTTTTTGTA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 48 1.00
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.47
Consensus pattern (56 bp):
ACATTTGATTAGTACAGGTATTACAAATTACCAATTTCTATTAATTTTTCATAACT
Found at i:423740 original size:41 final size:41
Alignment explanation
Indices: 423695--423803 Score: 139
Period size: 41 Copynumber: 2.7 Consensus size: 41
423685 GGTTGGCAAG
* *
423695 GGCAAAACCGATAAAGCCAACAGGTTAAAGGAGTTAGCCAA
1 GGCAAAACAGATAAAGCCAACAAGTTAAAGGAGTTAGCCAA
* *
423736 GGCAAAACTA-ATAAAGCCAACAAGTTAAAGGGGTTAGCCAT
1 GGCAAAAC-AGATAAAGCCAACAAGTTAAAGGAGTTAGCCAA
** *
423777 GGTGAAATAGATAAAGCCAACAAGTTA
1 GGCAAAACAGATAAAGCCAACAAGTTA
423804 GAGGGATTGG
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
40 1 0.02
41 58 0.98
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.16
Consensus pattern (41 bp):
GGCAAAACAGATAAAGCCAACAAGTTAAAGGAGTTAGCCAA
Found at i:423832 original size:41 final size:41
Alignment explanation
Indices: 423705--423833 Score: 136
Period size: 41 Copynumber: 3.1 Consensus size: 41
423695 GGCAAAACCG
* **
423705 ATAAAGCCAACAGGTTAAA-GGAGTTAGCCAAGGCAAAACTA
1 ATAAAGCCAACAAGTTAAAGGGA-TTAGCCAAGGTGAAACTA
* *
423746 ATAAAGCCAACAAGTTAAAGGGGTTAGCCATGGTGAAA-TA
1 ATAAAGCCAACAAGTTAAAGGGATTAGCCAAGGTGAAACTA
* * * * *
423786 GATAAAGCCAACAAGTTAGAGGGATTGGCTAAGTTGAAACCA
1 -ATAAAGCCAACAAGTTAAAGGGATTAGCCAAGGTGAAACTA
423828 ATAAAG
1 ATAAAG
423834 TTAACAGGGT
Statistics
Matches: 73, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
40 2 0.03
41 68 0.93
42 3 0.04
ACGTcount: A:0.44, C:0.14, G:0.24, T:0.18
Consensus pattern (41 bp):
ATAAAGCCAACAAGTTAAAGGGATTAGCCAAGGTGAAACTA
Found at i:423932 original size:100 final size:100
Alignment explanation
Indices: 423759--423959 Score: 375
Period size: 100 Copynumber: 2.0 Consensus size: 100
423749 AAGCCAACAA
*
423759 GTTAAAGGGGTTAGCCATGGTGAAATAGATAAAGCCAACAAGTTAGAGGGATTGGCTAAGTTGAA
1 GTTAAAGAGGTTAGCCATGGTGAAATAGATAAAGCCAACAAGTTAGAGGGATTGGCTAAGTTGAA
423824 ACCAATAAAGTTAACAGGGTAGAGAGGTTCGTTAG
66 ACCAATAAAGTTAACAGGGTAGAGAGGTTCGTTAG
423859 GTTAAAGAGGTTAGCCATGGTGAAATAGATAAAGCCAACAAGTTAGAGGGATTGGCTAAGTTGAA
1 GTTAAAGAGGTTAGCCATGGTGAAATAGATAAAGCCAACAAGTTAGAGGGATTGGCTAAGTTGAA
* *
423924 ATCAATAAAGTTAACAGGTTAGAGAGGTTCGTTAG
66 ACCAATAAAGTTAACAGGGTAGAGAGGTTCGTTAG
423959 G
1 G
423960 CCAAAACTAA
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 98 1.00
ACGTcount: A:0.37, C:0.09, G:0.29, T:0.24
Consensus pattern (100 bp):
GTTAAAGAGGTTAGCCATGGTGAAATAGATAAAGCCAACAAGTTAGAGGGATTGGCTAAGTTGAA
ACCAATAAAGTTAACAGGGTAGAGAGGTTCGTTAG
Found at i:424806 original size:60 final size:59
Alignment explanation
Indices: 424697--424831 Score: 166
Period size: 60 Copynumber: 2.3 Consensus size: 59
424687 ATAGCACTAG
* * *
424697 AAACTTAAAAATGACTTAGGTAAAACCAAGACTTAATGGAATGCACTAGATGAAACCAA
1 AAACCTAAAAATGATTTAGGTAAAACCAAGACTCAATGGAATGCACTAGATGAAACCAA
* * * *
424756 AAACCTAAATAATGATTTAGGTGAAACCAAGACTCAAT-GATTTAGC-CTAGATGAAACTAG
1 AAACCTAAA-AATGATTTAGGTAAAACCAAGACTCAATGGA-AT-GCACTAGATGAAACCAA
424816 AAACCTAAAAATGATT
1 AAACCTAAAAATGATT
424832 ATATGAGCAA
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
59 17 0.26
60 47 0.71
61 2 0.03
ACGTcount: A:0.47, C:0.15, G:0.15, T:0.23
Consensus pattern (59 bp):
AAACCTAAAAATGATTTAGGTAAAACCAAGACTCAATGGAATGCACTAGATGAAACCAA
Found at i:426080 original size:20 final size:20
Alignment explanation
Indices: 426055--426142 Score: 100
Period size: 20 Copynumber: 4.8 Consensus size: 20
426045 TTTTCACAAT
*
426055 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGCTCA
426075 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGCTCA
*
426095 TTGTATC---AC--T-AT-A
1 TTGTATCGATACATTGCTCA
426108 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGCTCA
*
426128 TTGTATTGATACATT
1 TTGTATCGATACATT
426143 TTACAATATA
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
13 8 0.14
14 1 0.02
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 1 0.02
20 41 0.72
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.44
Consensus pattern (20 bp):
TTGTATCGATACATTGCTCA
Found at i:428537 original size:51 final size:52
Alignment explanation
Indices: 428471--428633 Score: 172
Period size: 51 Copynumber: 3.2 Consensus size: 52
428461 CATCTTCGGA
* * *
428471 ATACTCCAA-TCCCGATATCATTTCCAAAACATCAATTTTTCT-TAATCGGGG
1 ATACTCCAACT-CCGATTTTATTTCCAAAACATCAATTTTTCTGCAATCGGGG
* * * * *
428522 ATACTCTAACTCCGATTTTATTTCTAAAGCATCGA-TTTACTGCAATCGGGG
1 ATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCTGCAATCGGGG
* * * **
428573 ATACTCCAACTCTGATTTTATTTCCAAAACACCAATTTTTC-ACAATTTGGG
1 ATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCTGCAATCGGGG
428624 ATACTCCAAC
1 ATACTCCAAC
428634 CCCGTTATTT
Statistics
Matches: 91, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
50 5 0.05
51 81 0.89
52 5 0.05
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (52 bp):
ATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCTGCAATCGGGG
Found at i:428684 original size:28 final size:29
Alignment explanation
Indices: 428620--428691 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 29
428610 TTTCACAATT
**
428620 TGGGATACTCCAACCCCGTTATTTCATTG
1 TGGGATACTCCAACCCCGTTATTTCAGAG
*
428649 TGGG-TACTCCAACCCCGTTATTTCCGAG
1 TGGGATACTCCAACCCCGTTATTTCAGAG
*
428677 -GGGATACTCTAACCC
1 TGGGATACTCCAACCC
428692 TGGCTTTATA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 3 0.08
28 31 0.82
29 4 0.11
ACGTcount: A:0.21, C:0.31, G:0.19, T:0.29
Consensus pattern (29 bp):
TGGGATACTCCAACCCCGTTATTTCAGAG
Found at i:428858 original size:51 final size:51
Alignment explanation
Indices: 428803--428900 Score: 151
Period size: 51 Copynumber: 1.9 Consensus size: 51
428793 CTCTAACCCT
* * * *
428803 GATTTTATTTCTAAAATACCAATTTTTCACAATCGGGGATACTCCAATTCC
1 GATTTTATTTCCAAAACAACAATTTCTCACAATCGGGGATACTCCAATTCC
*
428854 GATTTTATTTCCAAAACAATAATTTCTCACAATCGGGGATACTCCAA
1 GATTTTATTTCCAAAACAACAATTTCTCACAATCGGGGATACTCCAA
428901 CCTCGTTATT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.35
Consensus pattern (51 bp):
GATTTTATTTCCAAAACAACAATTTCTCACAATCGGGGATACTCCAATTCC
Found at i:428864 original size:110 final size:107
Alignment explanation
Indices: 428571--428849 Score: 317
Period size: 110 Copynumber: 2.6 Consensus size: 107
428561 CTGCAATCGG
* * * * **
428571 GGATACTCCAACTCTGATTTTATTTCCAAAACACCAATTTTTCACAATTTGGGATACTCCAACCC
1 GGATACTCTAACCCTGATTTTATTTCTAAAATACCAATTTTTCACAATCGGGGATACTCCAACCC
* * **
428636 CGTTATTTCATTGTGGGTACTCCAACCCCGTTATTTCCGAGG
66 CGTTATTTCATCGTGGATACTCCAACCCCGTTATTTCCGAAA
** * ** * * *
428678 GGATACTCTAACCCTGGCTTTATATCTAAAAATATTAATTTCTTTCATAATCGGGGGTACTCTAA
1 GGATACTCTAACCCTGATTTTATTTCT-AAAATACCAA-TT-TTTCACAATCGGGGATACTCCAA
* * **
428743 CCCCGTTATTTCATCCG-GGATACTCCAATCTCGTTATTTTTGAAA
63 CCCCGTTATTTCAT-CGTGGATACTCCAACCCCGTTATTTCCGAAA
428788 GGATACTCTAACCCTGATTTTATTTCTAAAATACCAATTTTTCACAATCGGGGATACTCCAA
1 GGATACTCTAACCCTGATTTTATTTCTAAAATACCAATTTTTCACAATCGGGGATACTCCAA
428850 TTCCGATTTT
Statistics
Matches: 138, Mismatches: 30, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
107 41 0.30
108 9 0.07
109 10 0.07
110 77 0.56
111 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (107 bp):
GGATACTCTAACCCTGATTTTATTTCTAAAATACCAATTTTTCACAATCGGGGATACTCCAACCC
CGTTATTTCATCGTGGATACTCCAACCCCGTTATTTCCGAAA
Found at i:428940 original size:79 final size:81
Alignment explanation
Indices: 428837--428993 Score: 180
Period size: 79 Copynumber: 2.0 Consensus size: 81
428827 TTTCACAATC
* * *
428837 GGGGATACTCCAATTCCGATTTTATTTCCAAAACA-A-TAATTTC-TCACAATCGGGGATACTCC
1 GGGGATACTCCAACTCCGACTTTATATCCAAAA-ATATTAATTTCTTCACAATCGGGGATACTCC
428899 AA-CCTCGTTATTTTCGA
65 AACCCT-GTTATTTTCGA
* * * *
428916 GGGGATACTCCAAC-CTCGACTTTATATCTAAAAATATTGATTTCTTTCATAATCGGGGGTACTC
1 GGGGATACTCCAACTC-CGACTTTATATCCAAAAATATTAATTTC-TTCACAATCGGGGATACTC
428980 CAACCCTGTTATTT
64 CAACCCTGTTATTT
428994 CATCGGGGAT
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
78 2 0.03
79 28 0.43
80 6 0.09
82 26 0.40
83 3 0.05
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (81 bp):
GGGGATACTCCAACTCCGACTTTATATCCAAAAATATTAATTTCTTCACAATCGGGGATACTCCA
ACCCTGTTATTTTCGA
Found at i:428968 original size:240 final size:240
Alignment explanation
Indices: 428653--429230 Score: 858
Period size: 240 Copynumber: 2.4 Consensus size: 240
428643 TCATTGTGGG
* * * *
428653 TACTCCAACCCCGTTATTTCCGAGGGGATACTCTAACC-CTGGCTTTATATCTAAAAATATTAAT
1 TACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTC-GACTTTATATCTAAAAATATTGAT
* * *
428717 TTCTTTCATAATCGGGGGTACTCTAACCCCGTTATTTCATCCGGGATACTCCAATCTCGTTATTT
65 TTCTTTCATAATCGGGGGTACTCCAACCCCGTTATTTCATCCGGGATAATCCAATCTCGTTACTT
* * ** *
428782 TTGAAAGGATACTCTAACCCTGATTTTATTTCTAAAATACCAATTTTTCACAATCGGGGATACTC
130 TCGAAAGGATACTCCAACCCCAATTTTATTTCTAAAATACCAACTTTTCACAATCGGGGATACTC
* *
428847 CAATTCCGATTTTATTTCCAAAACAATAATTTCTCACAATCGGGGA
195 CAACTCCGATTTTATTTCCAAAACAACAATTTCTCACAATCGGGGA
*
428893 TACTCCAACCTCGTTATTTTCGAGGGGATACTCCAACCTCGACTTTATATCTAAAAATATTGATT
1 TACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCGACTTTATATCTAAAAATATTGATT
* *
428958 TCTTTCATAATCGGGGGTACTCCAACCCTGTTATTTCATCGGGGATAATCCAATCTCGTTACTTT
66 TCTTTCATAATCGGGGGTACTCCAACCCCGTTATTTCATCCGGGATAATCCAATCTCGTTACTTT
*
429023 CGAGAGGATACTCCAACCCCAATTTTATTTCTAAAATACCAACTTTTCACAATCGGGGATACTCC
131 CGAAAGGATACTCCAACCCCAATTTTATTTCTAAAATACCAACTTTTCACAATCGGGGATACTCC
*
429088 AACTCCGATTTTATTTCCAAAACACCAATTTCTCACAATCGGGGA
196 AACTCCGATTTTATTTCCAAAACAACAATTTCTCACAATCGGGGA
* * * * **
429133 TACTCCAACCCCGTTATTTTTGCGGGGATACTCCAACCTCGACCTTATTTCT-AAAGCATTGA-T
1 TACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCGACTTTATATCTAAAAATATTGATT
* * **
429196 T-TTCCACAATCGGGAATACTCCAACCCCGTTATTT
66 TCTTTCATAATCGGGGGTACTCCAACCCCGTTATTT
429231 TGGAGGGGAT
Statistics
Matches: 306, Mismatches: 31, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
237 29 0.09
238 2 0.01
239 8 0.03
240 266 0.87
241 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (240 bp):
TACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCGACTTTATATCTAAAAATATTGATT
TCTTTCATAATCGGGGGTACTCCAACCCCGTTATTTCATCCGGGATAATCCAATCTCGTTACTTT
CGAAAGGATACTCCAACCCCAATTTTATTTCTAAAATACCAACTTTTCACAATCGGGGATACTCC
AACTCCGATTTTATTTCCAAAACAACAATTTCTCACAATCGGGGA
Found at i:429089 original size:51 final size:51
Alignment explanation
Indices: 429028--429144 Score: 182
Period size: 51 Copynumber: 2.3 Consensus size: 51
429018 ACTTTCGAGA
* *
429028 GGATACTCCAACCCCAATTTTATTTCTAAAATACCAACTTT-TCACAATCGG
1 GGATACTCCAACCCCAATTTTATTTCCAAAACACCAA-TTTCTCACAATCGG
* *
429079 GGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTCTCACAATCGG
1 GGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTCTCACAATCGG
429130 GGATACTCCAACCCC
1 GGATACTCCAACCCC
429145 GTTATTTTTG
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
50 3 0.05
51 57 0.95
ACGTcount: A:0.32, C:0.31, G:0.09, T:0.28
Consensus pattern (51 bp):
GGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTCTCACAATCGG
Found at i:429104 original size:110 final size:110
Alignment explanation
Indices: 428885--429090 Score: 265
Period size: 110 Copynumber: 1.9 Consensus size: 110
428875 ATTTCTCACA
* * * * *
428885 ATCGGGGATACTCCAACCTCGTTATTTTCGAGGGGATACTCCAACCTCGACTTTATATCTAAAAA
1 ATCGGGGATAATCCAACCTCGTTACTTTCGAGAGGATACTCCAACCCCAACTTTATATCTAAAAA
** ** * *
428950 TATTGATTTCTTTCATAATCGGGGGTACTCCAACCCTGTTATTTC
66 TATCCAACTCTTTCACAATCGGGGATACTCCAACCCTGTTATTTC
* * *
428995 ATCGGGGATAATCCAATCTCGTTACTTTCGAGAGGATACTCCAACCCCAATTTTATTTCT-AAAA
1 ATCGGGGATAATCCAACCTCGTTACTTTCGAGAGGATACTCCAACCCCAACTTTATATCTAAAAA
429059 TA-CCAACT-TTTCACAATCGGGGATACTCCAAC
66 TATCCAACTCTTTCACAATCGGGGATACTCCAAC
429091 TCCGATTTTA
Statistics
Matches: 82, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
107 22 0.27
108 2 0.02
109 6 0.07
110 52 0.63
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (110 bp):
ATCGGGGATAATCCAACCTCGTTACTTTCGAGAGGATACTCCAACCCCAACTTTATATCTAAAAA
TATCCAACTCTTTCACAATCGGGGATACTCCAACCCTGTTATTTC
Found at i:429167 original size:79 final size:78
Alignment explanation
Indices: 429077--429385 Score: 332
Period size: 79 Copynumber: 3.9 Consensus size: 78
429067 TTTCACAATC
429077 GGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAA-TTTCTCACAATCGGGGATACTCCAA
1 GGGGATACTCCAAC-CCGATTTTATTTCCAAAACACCAATTTTC-CACAATCGGGGATACTCCAA
*
429141 CCCCGTTATTTTTGC
64 CCCCGTTATTTTTGA
** * * *** *
429156 GGGGATACTCCAACCTCGACCTTATTTCTAAAGCATTGATTTTCCACAATCGGGAATACTCCAAC
1 GGGGATACTCCAACC-CGATTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAAC
*
429221 CCCGTTATTTTGGA
65 CCCGTTATTTTTGA
* * * * *
429235 GGGGATACTCCAACCCCGATTTTATTTTCAAAACGCCAATTTTCTATAATCAGGGATACTCCAAC
1 GGGGATACTCCAA-CCCGATTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAAC
**
429300 CTTGTTATTTTTGA
65 CCCGTTATTTTTGA
* * * * ** * *
429314 GAGGATACTCCAACCCTGATTTTATTTTCAGAATACTGATTTTCCATAATCAGGGGATACTCCAG
1 GGGGATACTCCAACCC-GATTTTATTTCCAAAACACCAATTTTCCACAATC-GGGGATACTCCAA
429379 CCCCGTT
64 CCCCGTT
429386 TTCATCTCCA
Statistics
Matches: 188, Mismatches: 37, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
78 4 0.02
79 162 0.86
80 22 0.12
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (78 bp):
GGGGATACTCCAACCCGATTTTATTTCCAAAACACCAATTTTCCACAATCGGGGATACTCCAACC
CCGTTATTTTTGA
Found at i:441790 original size:19 final size:19
Alignment explanation
Indices: 441766--441827 Score: 96
Period size: 19 Copynumber: 3.5 Consensus size: 19
441756 CTTTTTCAAG
441766 AAAACAAAAAACAACAAAA
1 AAAACAAAAAACAACAAAA
441785 AAAAC--AAAA-AAC-AAA
1 AAAACAAAAAACAACAAAA
441800 AAAACAAAAAACAACAAAA
1 AAAACAAAAAACAACAAAA
441819 AAAACAAAA
1 AAAACAAAA
441828 CAAAGAAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.21
16 3 0.08
17 8 0.21
18 3 0.08
19 17 0.44
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (19 bp):
AAAACAAAAAACAACAAAA
Found at i:441800 original size:15 final size:15
Alignment explanation
Indices: 441782--441836 Score: 74
Period size: 15 Copynumber: 3.5 Consensus size: 15
441772 AAAAACAACA
441782 AAAAAAACAAAAAAC
1 AAAAAAACAAAAAAC
441797 AAAAAAACAAAAAAC
1 AAAAAAACAAAAAAC
*
441812 AACAAAAAAAACAAAAC
1 AA-AAAAACAA-AAAAC
441829 AAAGAAAA
1 AAA-AAAA
441837 AAGAGAGAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
15 17 0.47
16 8 0.22
17 11 0.31
ACGTcount: A:0.85, C:0.13, G:0.02, T:0.00
Consensus pattern (15 bp):
AAAAAAACAAAAAAC
Found at i:441837 original size:19 final size:18
Alignment explanation
Indices: 441766--441838 Score: 69
Period size: 19 Copynumber: 3.8 Consensus size: 18
441756 CTTTTTCAAG
441766 AAAACAAAAAACAACAAAA-
1 AAAACAAAAAA-AA-AAAAC
441785 AAAACAAAAAACAAAAAAAC
1 AAAAC-AAAAA-AAAAAAAC
441805 AAAA-AACAACAAAAAAAAC
1 AAAACAA-AA-AAAAAAAAC
441824 AAAACAAAGAAAAAA
1 AAAACAAA-AAAAAA
441839 GAGAGAAAAG
Statistics
Matches: 47, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
18 2 0.04
19 29 0.62
20 15 0.32
21 1 0.02
ACGTcount: A:0.85, C:0.14, G:0.01, T:0.00
Consensus pattern (18 bp):
AAAACAAAAAAAAAAAAC
Found at i:441840 original size:7 final size:7
Alignment explanation
Indices: 441766--441827 Score: 69
Period size: 7 Copynumber: 9.3 Consensus size: 7
441756 CTTTTTCAAG
441766 AAAACAA
1 AAAACAA
441773 AAAAC-A
1 AAAACAA
*
441779 ACAA-AA
1 AAAACAA
441785 AAAACAA
1 AAAACAA
441792 AAAACAAA
1 AAAAC-AA
441800 AAAACAA
1 AAAACAA
441807 AAAAC-A
1 AAAACAA
*
441813 ACAA-AA
1 AAAACAA
441819 AAAACAA
1 AAAACAA
441826 AA
1 AA
441828 CAAAGAAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
6 16 0.35
7 23 0.50
8 7 0.15
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAACAA
Found at i:441847 original size:27 final size:27
Alignment explanation
Indices: 441767--441827 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 27
441757 TTTTTCAAGA
441767 AAACAAAAAACAACAAAAAAAAC-AAA
1 AAACAAAAAACAACAAAAAAAACAAAA
441793 AAAC-AAAAA-AACAAAAAACAACAAAAA
1 AAACAAAAAACAACAAAAAA-AAC-AAAA
441820 AAACAAAA
1 AAACAAAA
441828 CAAAGAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
24 9 0.29
25 8 0.26
26 4 0.13
27 7 0.23
28 3 0.10
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (27 bp):
AAACAAAAAACAACAAAAAAAACAAAA
Found at i:443031 original size:111 final size:109
Alignment explanation
Indices: 442856--443258 Score: 349
Period size: 111 Copynumber: 3.5 Consensus size: 109
442846 GACGCATTTT
* * * * *
442856 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAAAGCAGGACGCCTTTCAAAG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAG
* ** * *
442921 CCCATACAAGTTGGTGGCATTTTTTTTAGTCCTCAAAAAGTAAGACG
65 CCCACACAAGTTGGTGGCA--TTTTCCAGTCCTCAAAAAGCAAGACA
* * *
442968 CCTTTCAAAGCCCACACAAGTT-ATGGCATTTCCCGGTCCTCAAAGAGCAGGACACTTTTCAAAG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCATTT-CCAGTCCTCAAAGAGCAGGACACCTTTCAAAG
* *
443032 CCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
65 CCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAAAGCAAGACA
* * *
443077 CCTTTCAAAGCCGACACAAGTTGGTGGCATTTTGCAGTCCTCAAAGAGCAGGATGCTTTCTCCTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTCCAGTCCTCAAAGAGCAGGA------CACCTT
* * * * ** * *
443142 TTAAAGACCACTCGAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAAGACGCA
59 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAAAGCAAGA--CA
* * * ** *
443195 TTTTCTTTTCAAAGCCCACACGAGTTGGTGCCATTTTTTAGTCCTCAAAGAGCAGGACGCCTTT
1 ----CCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTCCAGTCCTCAAAGAGCAGGACACCTTT
443259 TCCTTTTCTC
Statistics
Matches: 240, Mismatches: 36, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
109 41 0.17
110 25 0.10
111 53 0.22
112 21 0.09
116 51 0.21
118 2 0.01
122 47 0.20
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (109 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCATTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGC
CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAAAGCAAGACA
Found at i:443069 original size:55 final size:55
Alignment explanation
Indices: 442857--443252 Score: 366
Period size: 55 Copynumber: 7.0 Consensus size: 55
442847 ACGCATTTTC
** * *
442857 CTTTT-AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAAAGCAGGACG
1 CTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACA
* * * * * * *
442911 CCTTTCAAAGCCCATACAAGTTGGTGGCATTTTTTTTAGTCCTCAAAAAGTAAGACG
1 CTTTTCAAAGCCCACACAAGTTGGTGGCA--TTTTCTAGTCCTCAAAGAGCAGGACA
* * * **
442968 CCTTTCAAAGCCCACACAAGTT-ATGGCATTTCCCGGTCCTCAAAGAGCAGGACA
1 CTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACA
*
443022 CTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACA
1 CTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACA
* * *
443077 CCTTTCAAAGCCGACACAAGTTGGTGGCATTTTGC-AGTCCTCAAAGAGCAGGATGCTTT
1 CTTTTCAAAGCCCACACAAGTTGGTGGCATTTT-CTAGTCCTCAAAGAGCAGGA--C--A
* * * * ** *
443136 CTCCTTTTAAAGACCACTCGAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAAGACGCA
1 CT--TTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGA--CA
* * *
443195 TTTTCTTTTCAAAGCCCACACGAGTTGGTGCCATTTTTTAGTCCTCAAAGAGCAGGAC
1 ----CTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGAC
443253 GCCTTTTCCT
Statistics
Matches: 283, Mismatches: 43, Indels: 27
0.80 0.12 0.08
Matches are distributed among these distances:
54 43 0.15
55 100 0.35
56 6 0.02
57 43 0.15
59 2 0.01
60 1 0.00
61 86 0.30
63 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (55 bp):
CTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACA
Found at i:443177 original size:61 final size:61
Alignment explanation
Indices: 442825--443266 Score: 307
Period size: 61 Copynumber: 7.6 Consensus size: 61
442815 CTCCTTTTAC
* *
442825 TTTTC-AGTCCTCAAAGAGCAGGACGCATTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA
1 TTTTCTAGTCCTCAAAGAGCAGGACGC-TTTTCCTTTTCAAAGACCACACGAGTTGGTGGCA
** * * * *
442885 CCTTCTAGTCCTCAAAAAGCAGGACG-----CC-TTTCAAAGCCCATACAAGTTGGTGGCA
1 TTTTCTAGTCCTCAAAGAGCAGGACGCTTTTCCTTTTCAAAGACCACACGAGTTGGTGGCA
* * * * * * *
442940 TTTTTTTTAGTCCTCAAAAAGTAAGACG-----CC-TTTCAAAGCCCACACAAGTT-ATGGCA
1 --TTTTCTAGTCCTCAAAGAGCAGGACGCTTTTCCTTTTCAAAGACCACACGAGTTGGTGGCA
* ** * * *
442996 TTTCCCGGTCCTCAAAGAGCAGGA--C----ACTTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCTAGTCCTCAAAGAGCAGGACGCTTTTCCTTTTCAAAGACCACACGAGTTGGTGGCA
* * *
443051 TTTTCCAGTCCTCAAAGAGCAGGA--C---ACC-TTTCAAAG-CCGACACAAGTTGGTGGCA
1 TTTTCTAGTCCTCAAAGAGCAGGACGCTTTTCCTTTTCAAAGACC-ACACGAGTTGGTGGCA
* *
443106 TTTTGC-AGTCCTCAAAGAGCAGGATGCTTTCTCCTTTT-AAAGACCACTCGAGTTGGTGGCA
1 TTTT-CTAGTCCTCAAAGAGCAGGACGCTTT-TCCTTTTCAAAGACCACACGAGTTGGTGGCA
** * * *
443167 CCTTCTAGTCCTCAAAGAGCAAGACGCATTTT-CTTTTCAAAGCCCACACGAGTTGGTGCCA
1 TTTTCTAGTCCTCAAAGAGCAGGACGC-TTTTCCTTTTCAAAGACCACACGAGTTGGTGGCA
*
443228 TTTTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTC
1 TTTTCTAGTCCTCAAAGAGCAGGACG-CTTTTCCTTTTC
443267 TCCTTTGTCC
Statistics
Matches: 322, Mismatches: 37, Indels: 44
0.80 0.09 0.11
Matches are distributed among these distances:
53 1 0.00
54 42 0.13
55 98 0.30
56 7 0.02
57 43 0.13
60 9 0.03
61 107 0.33
62 15 0.05
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (61 bp):
TTTTCTAGTCCTCAAAGAGCAGGACGCTTTTCCTTTTCAAAGACCACACGAGTTGGTGGCA
Found at i:443278 original size:38 final size:43
Alignment explanation
Indices: 443230--443342 Score: 128
Period size: 45 Copynumber: 2.7 Consensus size: 43
443220 TGGTGCCATT
443230 TTTTAGTCCTCAAAGAGCAGGACGC-CTTTTCC-TT-TTCT-CC
1 TTTT-GTCCTCAAAGAGCAGGACGCACTTTTCCTTTCTTCTCCC
* * *
443270 -TTTGTCCTCAAAGAGAAGGACACACTTTATTCCTTTCTTTTCCC
1 TTTTGTCCTCAAAGAGCAGGACGCAC-TT-TTCCTTTCTTCTCCC
*
443314 TTTTGTCCTCAAAAAGCAGGACGCACTTT
1 TTTTGTCCTCAAAGAGCAGGACGCACTTT
443343 ATTTTCCTCA
Statistics
Matches: 60, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
38 18 0.30
39 4 0.07
40 2 0.03
41 4 0.07
42 2 0.03
43 4 0.07
44 4 0.07
45 22 0.37
ACGTcount: A:0.22, C:0.27, G:0.14, T:0.36
Consensus pattern (43 bp):
TTTTGTCCTCAAAGAGCAGGACGCACTTTTCCTTTCTTCTCCC
Found at i:444127 original size:20 final size:20
Alignment explanation
Indices: 444102--444294 Score: 139
Period size: 20 Copynumber: 9.6 Consensus size: 20
444092 TTTTCATAAT
444102 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
*
444122 TTGTATCAATACATTGTTCA
1 TTGTATCGATACATTGTTCA
*
444142 TTGTATCGATACATTATTCA
1 TTGTATCGATACATTGTTCA
444162 TTGTATCGATACATTG-T-A
1 TTGTATCGATACATTGTTCA
* * *
444180 TCG-ATAC-ATTCTAGGTT-TACCCAA
1 TTGTAT-CGATAC-A--TTGT--TC-A
* * * *
444204 ATGTATTGATATAATT-TGCA
1 TTGTATCGATA-CATTGTTCA
* *
444224 TTGTATCAATACATTGCTCA
1 TTGTATCGATACATTGTTCA
*
444244 TTGTATCGATACATTGCTCA
1 TTGTATCGATACATTGTTCA
444264 TTGTATCGATACATT-TTACA
1 TTGTATCGATACATTGTT-CA
*
444284 ATGTATCGATA
1 TTGTATCGATA
444295 TATTTAGGCA
Statistics
Matches: 137, Mismatches: 22, Indels: 28
0.73 0.12 0.15
Matches are distributed among these distances:
17 5 0.04
18 5 0.04
19 5 0.04
20 111 0.81
21 1 0.01
23 3 0.02
24 2 0.01
25 5 0.04
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.42
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:444178 original size:13 final size:13
Alignment explanation
Indices: 444160--444189 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
444150 ATACATTATT
444160 CATTGTATCGATA
1 CATTGTATCGATA
444173 CATTGTATCGATA
1 CATTGTATCGATA
444186 CATT
1 CATT
444190 CTAGGTTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:446660 original size:51 final size:51
Alignment explanation
Indices: 446599--446763 Score: 179
Period size: 51 Copynumber: 3.2 Consensus size: 51
446589 TTTATCTCGA
* **
446599 GGATACTCCAA-TCTCGATTTCATTTCCAAAACATCAATTTTTCTTAATCGG
1 GGATACTCCAACTC-CGATTTTATTTCCAAAACATCAATTTTTCACAATCGG
* * ** ** *
446650 GGATACTCCAACTCCGATTTTATTTCTAAAGCATTGATTTACCGCAATCGG
1 GGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCACAATCGG
* * * * *
446701 GGAGACTCCAACTCCGATTTTATTTTCAAAATACCAATTTTTCACAATTGG
1 GGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCACAATCGG
446752 GGATACTCCAAC
1 GGATACTCCAAC
446764 CCCGTTATTT
Statistics
Matches: 91, Mismatches: 22, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
51 89 0.98
52 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.34
Consensus pattern (51 bp):
GGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCACAATCGG
Found at i:446784 original size:28 final size:27
Alignment explanation
Indices: 446752--446823 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 27
446742 TCACAATTGG
*
446752 GGATACTCCAACCCCGTTATTTCATCG-C
1 GGATACTCCAACCCCGTTATTTC-T-GAA
*
446780 GGATACTCCAACCTCGTTATTTCTGAAA
1 GGATACTCCAACCCCGTTATTTCTG-AA
446808 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
446824 GCTTTATATC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 1 0.03
27 1 0.03
28 37 0.95
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.26
Consensus pattern (27 bp):
GGATACTCCAACCCCGTTATTTCTGAA
Found at i:446979 original size:51 final size:52
Alignment explanation
Indices: 446916--447032 Score: 168
Period size: 51 Copynumber: 2.3 Consensus size: 52
446906 TTATTTCCGA
* * *
446916 GGGGATAGTCCAACCTC-AATTTTA-TTTCTAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCTCTAATTTTATTTTC-AAAACACCAATTTCTCACAATC
*
446967 GGGGATACTCCAA-CTCTGATTTTATTTTCAAAACACCAATTTCTCACAATC
1 GGGGATACTCCAACCTCTAATTTTATTTTCAAAACACCAATTTCTCACAATC
447018 GGGGATACTCCAACC
1 GGGGATACTCCAACC
447033 CCGTTATTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
50 3 0.05
51 51 0.86
52 5 0.08
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.32
Consensus pattern (52 bp):
GGGGATACTCCAACCTCTAATTTTATTTTCAAAACACCAATTTCTCACAATC
Found at i:446993 original size:110 final size:107
Alignment explanation
Indices: 446705--446980 Score: 279
Period size: 110 Copynumber: 2.6 Consensus size: 107
446695 AATCGGGGAG
* * * * *
446705 ACTCCAACTCCGATTTTATTT-TCAAAATACCAATTTTTCACAATTGGGGATACTCCAACCCCGT
1 ACTCCAACCCCAATTTTATTTCTAAAAATACCAATTTTTCACAATCGGGGATACTCCAA-CACGT
* * *
446769 TATTTCATCGCGGATACTCCAACCTCGTTATTTCTGAAAGGAT
65 TATTTCATCGAGAATACTCCAACCTCGTTATTTCCGAAAGGAT
*** * ** * * * *
446812 ACTCCAACCCCGGCTTTATATCTAAAAATAGTTATTTCTTTCATAATCGGGGGTGCTCCAACACC
1 ACTCCAACCCCAATTTTATTTCTAAAAATA-CCAATT-TTTCACAATCGGGGATACTCCAACA-C
* **
446877 CTTATTTCATCGAGAATACTCCAATCC-CGTTATTTCCGAGGGGAT
63 GTTATTTCATCGAGAATACTCCAA-CCTCGTTATTTCCGAAAGGAT
* *
446922 AGTCCAACCTCAATTTTATTTCT-AAAATACCAATTTTTCACAATCGGGGATACTCCAAC
1 ACTCCAACCCCAATTTTATTTCTAAAAATACCAATTTTTCACAATCGGGGATACTCCAAC
446981 TCTGATTTTA
Statistics
Matches: 133, Mismatches: 31, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
107 38 0.29
108 10 0.08
109 10 0.08
110 73 0.55
111 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.33
Consensus pattern (107 bp):
ACTCCAACCCCAATTTTATTTCTAAAAATACCAATTTTTCACAATCGGGGATACTCCAACACGTT
ATTTCATCGAGAATACTCCAACCTCGTTATTTCCGAAAGGAT
Found at i:447213 original size:51 final size:51
Alignment explanation
Indices: 447155--447256 Score: 154
Period size: 51 Copynumber: 2.0 Consensus size: 51
447145 TTACTTCCGA
*
447155 GGGGATACTCCAACCCCGATTTTA-TTTCTAAAATACCAATTT-TCCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTCT-CACAATC
*
447206 GGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTCTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTCTCACAATC
447257 TCTAATACTC
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
51 42 0.89
52 5 0.11
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.31
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTCTCACAATC
Found at i:447220 original size:239 final size:240
Alignment explanation
Indices: 446775--447272 Score: 761
Period size: 239 Copynumber: 2.1 Consensus size: 240
446765 CCGTTATTTC
* *
446775 ATCGCGGATACTCCAACCTCGTTATTTCTGAAAGGATACTCCAACCCCGGCTTTATATCTAAAAA
1 ATCGCGGATACTCCAACCCCGTTATTTCTAAAAGGATACTCCAACCCCGGCTTTATATCTAAAAA
* * *
446840 TAGTTATTTCTTTCATAATCGGGGGTGCTCCAACACCCTTATTTCATCGAGAATACTCCAATCCC
66 TAGTTATTTCTTTCACAATCGAGGGTACTCCAACACCCTTATTTCATCGAGAATACTCCAATCCC
* * * *
446905 GTTATTTCCGAGGGGATAGTCCAACCTCAATTTTATTTCTAAAATACCAATTTTTCACAATCGGG
131 GTTACTTCCGAGGGGATACTCCAACCCCAATTTTATTTCTAAAATACCAATTTTCCACAATCGGG
*
446970 GATACTCCAACTCTGATTTTATTTTCAAAACACCAATTTCTCACA
196 GATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTCTCACA
* *
447015 ATCGGGGATACTCCAACCCCGTTATTT-TCAAAAGGATACTCCAACCTCGGCTTTATATCTAAAA
1 ATCGCGGATACTCCAACCCCGTTATTTCT-AAAAGGATACTCCAACCCCGGCTTTATATCTAAAA
* * *
447079 ATA-TTGATTTCTTTCACAATTGAGGGTACTCCAATC-CCGTTATTTCATCG-GGATACTCCAAT
65 ATAGTT-ATTTCTTTCACAATCGAGGGTACTCCAA-CACCCTTATTTCATCGAGAATACTCCAAT
* *
447141 CTCGTTACTTCCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTCCACAATC
128 CCCGTTACTTCCGAGGGGATACTCCAACCCCAATTTTATTTCTAAAATACCAATTTTCCACAATC
447206 GGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTCTCACA
193 GGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTCTCACA
* **
447254 ATCTCTAATACTCCAACCC
1 ATCGCGGATACTCCAACCC
447273 TGCTATTTTT
Statistics
Matches: 234, Mismatches: 21, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
239 135 0.58
240 98 0.42
241 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (240 bp):
ATCGCGGATACTCCAACCCCGTTATTTCTAAAAGGATACTCCAACCCCGGCTTTATATCTAAAAA
TAGTTATTTCTTTCACAATCGAGGGTACTCCAACACCCTTATTTCATCGAGAATACTCCAATCCC
GTTACTTCCGAGGGGATACTCCAACCCCAATTTTATTTCTAAAATACCAATTTTCCACAATCGGG
GATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTCTCACA
Found at i:447265 original size:51 final size:51
Alignment explanation
Indices: 447159--447272 Score: 142
Period size: 51 Copynumber: 2.2 Consensus size: 51
447149 TTCCGAGGGG
* * *
447159 ATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTCCACAATCGGGG
1 ATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTCCACAATCGCGA
* * *
447210 ATACTCCAACTCCGATTTTATTT-TCAAAACACCAA-TTTCTCACAATCTCTA
1 ATACTCCAACCCCGATTTTATTTCT-AAAACACCAATTTTC-CACAATCGCGA
447261 ATACTCCAACCC
1 ATACTCCAACCC
447273 TGCTATTTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
50 5 0.09
51 49 0.91
ACGTcount: A:0.32, C:0.31, G:0.05, T:0.32
Consensus pattern (51 bp):
ATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTCCACAATCGCGA
Found at i:447389 original size:79 final size:78
Alignment explanation
Indices: 447306--447506 Score: 199
Period size: 79 Copynumber: 2.5 Consensus size: 78
447296 AACCCCGGCC
* **
447306 TTATTTCTAAAGCATTGATTTTCCACAATCGGGGATACTCCAACCTCATTATTTTCGAGGGGATA
1 TTATTTC-AAAGCATTGATTTTCCATAATCGGGGATACTCCAACCTCATTATTTTCGAAAGGATA
*
447371 CTCCAACCTTGATT
65 CTCCAACCCTGATT
* ** * ** * ** *
447385 TTATTTTCAAAAC-GCGAATTTTCTATAATCAAGGATACTTCAACCTTGTTATTTTTGAAAGGAT
1 TTA-TTTCAAAGCATTG-ATTTTCCATAATCGGGGATACTCCAACCTCATTATTTTCGAAAGGAT
447449 ACTCCAACCCTGATT
64 ACTCCAACCCTGATT
*
447464 TTATATTCAGAA-TATTGATTTTCCATAATCAGGGGATACTCCA
1 TTAT-TTCA-AAGCATTGATTTTCCATAATC-GGGGATACTCCA
447507 GCCCCATTGT
Statistics
Matches: 95, Mismatches: 21, Indels: 11
0.75 0.17 0.09
Matches are distributed among these distances:
78 2 0.02
79 77 0.81
80 16 0.17
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.37
Consensus pattern (78 bp):
TTATTTCAAAGCATTGATTTTCCATAATCGGGGATACTCCAACCTCATTATTTTCGAAAGGATAC
TCCAACCCTGATT
Found at i:447449 original size:158 final size:159
Alignment explanation
Indices: 447206--447506 Score: 342
Period size: 158 Copynumber: 1.9 Consensus size: 159
447196 TTCCACAATC
***
447206 GGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTCTCACAATCTCTAATACTCCAAC
1 GGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTCTCACAATCAAGAATACTCCAAC
*** * *
447271 CCTGCTATTTTTGCGGGGATACTCTAACCCCGGCCTTAT-TTCTA-AAGCATTGATTTTCCACAA
66 CCTGCTATTTTTGAAAGGATACTCCAACCCCGACCTTATATTC-AGAA-CATTGATTTTCCACAA
447334 TC-GGGGATACTCCAACCTCATTATTTTCGA
129 TCAGGGGATACTCCAACCTCATTATTTTCGA
* * * * * *
447364 GGGGATACTCCAAC-CTTGATTTTATTTTCAAAACGCGAATTT-TCTATAATCAAGGATACTTCA
1 GGGGATACTCCAACTC-CGATTTTATTTTCAAAACACCAATTTCTC-ACAATCAAGAATACTCCA
* * * ** * *
447427 ACCTTGTTATTTTTGAAAGGATACTCCAACCCTGATTTTATATTCAGAATATTGATTTTCCATAA
64 ACCCTGCTATTTTTGAAAGGATACTCCAACCCCGACCTTATATTCAGAACATTGATTTTCCACAA
447492 TCAGGGGATACTCCA
129 TCAGGGGATACTCCA
447507 GCCCCATTGT
Statistics
Matches: 117, Mismatches: 21, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
157 3 0.03
158 97 0.83
159 17 0.15
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.35
Consensus pattern (159 bp):
GGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTCTCACAATCAAGAATACTCCAAC
CCTGCTATTTTTGAAAGGATACTCCAACCCCGACCTTATATTCAGAACATTGATTTTCCACAATC
AGGGGATACTCCAACCTCATTATTTTCGA
Found at i:448874 original size:112 final size:110
Alignment explanation
Indices: 448673--449006 Score: 388
Period size: 112 Copynumber: 3.0 Consensus size: 110
448663 AAAAACTTTG
* * *
448673 GTTGGCTCAATAATTTCAAAACTGATAGGAC-AAATGCCCTATTTT-CTAGACACAAATGGATCA
1 GTTGGCTCAA-AATTTCAAAACTAATAGG-CTACATGCCCTATTTTCCTAGTCACAAAT-GATCA
* *
448736 AGTTGTATAAAATATGAATTTCATTGAAAATCAAACAAATTTGAT-ATT
63 GGTTATATAAAATATGAATTTCATTGAAAATCAAACAAATTTGATGA-T
* *
448784 GTTGGCTCAAAAGTTTTAAAACTCATAGGCTACATGCCCTATTTTCCTAGTCACAAATAGATCAG
1 GTTGGCTCAAAA-TTTCAAAACTAATAGGCTACATGCCCTATTTTCCTAGTCACAAAT-GATCAG
448849 GTTATATAAAATATGAATTTCATTGAAAATCAAACAAATTTGATGAT
64 GTTATATAAAATATGAATTTCATTGAAAATCAAACAAATTTGATGAT
* * * * **
448896 GTTGGATCAAAAATTTCAAAACTAATAGGATACATGCCCCATTTTCCTAAAT-AGGAATGTATCA
1 GTTGGCTC-AAAATTTCAAAACTAATAGGCTACATGCCCTATTTTCCT-AGTCACAAATG-ATCA
* * * * *
448960 GGTTATATAAAACATGAATTTTCTTTGAAAATTAGACAAATCTGATG
63 GGTTATATAAAATATGAA-TTTCATTGAAAATCAAACAAATTTGATG
449007 TTCTTTCAAG
Statistics
Matches: 195, Mismatches: 20, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
110 3 0.02
111 38 0.19
112 123 0.63
113 31 0.16
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.33
Consensus pattern (110 bp):
GTTGGCTCAAAATTTCAAAACTAATAGGCTACATGCCCTATTTTCCTAGTCACAAATGATCAGGT
TATATAAAATATGAATTTCATTGAAAATCAAACAAATTTGATGAT
Found at i:449624 original size:1 final size:1
Alignment explanation
Indices: 449620--449666 Score: 58
Period size: 1 Copynumber: 47.0 Consensus size: 1
449610 TTTGTATTTC
* * * *
449620 TTTTTTTTCTTTTTTTTTTTTTTCTTTTTTTTTATTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
449667 GTTTCTTATT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.02, C:0.04, G:0.02, T:0.91
Consensus pattern (1 bp):
T
Found at i:449624 original size:14 final size:13
Alignment explanation
Indices: 449606--449673 Score: 68
Period size: 13 Copynumber: 5.2 Consensus size: 13
449596 TCATTTCACG
*
449606 CTTTTTTGTATTT
1 CTTTTTTTTATTT
*
449619 CTTTTTTTTCTTT
1 CTTTTTTTTATTT
449632 -TTTTTTTT-TTT
1 CTTTTTTTTATTT
449643 CTTTTTTTTTATTT
1 C-TTTTTTTTATTT
* *
449657 TTGTTTTTTTGTTT
1 CT-TTTTTTTATTT
449671 CTT
1 CTT
449674 ATTTAGAGAA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
11 3 0.07
12 8 0.17
13 21 0.46
14 14 0.30
ACGTcount: A:0.03, C:0.07, G:0.04, T:0.85
Consensus pattern (13 bp):
CTTTTTTTTATTT
Found at i:449625 original size:15 final size:13
Alignment explanation
Indices: 449606--449673 Score: 61
Period size: 12 Copynumber: 5.2 Consensus size: 13
449596 TCATTTCACG
* *
449606 CTTTTTTGTATTT
1 CTTTTTTTTTTTT
*
449619 C-TTTTTTTTCTT
1 CTTTTTTTTTTTT
449631 -TTTTTTTTTTTT
1 CTTTTTTTTTTTT
449643 CTTTTTTTTTATTT
1 CTTTTTTTTT-TTT
449657 -TTGTTTTTTTGTTT
1 CTT-TTTTTTT-TTT
449671 CTT
1 CTT
449674 ATTTAGAGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
12 18 0.40
13 12 0.27
14 13 0.29
15 2 0.04
ACGTcount: A:0.03, C:0.07, G:0.04, T:0.85
Consensus pattern (13 bp):
CTTTTTTTTTTTT
Found at i:449643 original size:24 final size:24
Alignment explanation
Indices: 449607--449666 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
449597 CATTTCACGC
* *
449607 TTTTTTGTATTTCTTTTTTTTCT-T
1 TTTTTTTTTTTTCTTTTTTTT-TAT
449631 TTTTTTTTTTTTCTTTTTTTTTAT
1 TTTTTTTTTTTTCTTTTTTTTTAT
*
449655 TTTTGTTTTTTT
1 TTTTTTTTTTTT
449667 GTTTCTTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
23 1 0.03
24 31 0.97
ACGTcount: A:0.03, C:0.05, G:0.03, T:0.88
Consensus pattern (24 bp):
TTTTTTTTTTTTCTTTTTTTTTAT
Found at i:449663 original size:16 final size:15
Alignment explanation
Indices: 449620--449666 Score: 76
Period size: 15 Copynumber: 3.1 Consensus size: 15
449610 TTTGTATTTC
449620 TTTTTTTTCTTTTTT
1 TTTTTTTTCTTTTTT
449635 TTTTTTTTCTTTTTT
1 TTTTTTTTCTTTTTT
*
449650 TTTATTTTTGTTTTTT
1 TTT-TTTTTCTTTTTT
449666 T
1 T
449667 GTTTCTTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 18 0.60
16 12 0.40
ACGTcount: A:0.02, C:0.04, G:0.02, T:0.91
Consensus pattern (15 bp):
TTTTTTTTCTTTTTT
Found at i:456552 original size:44 final size:44
Alignment explanation
Indices: 456504--456618 Score: 162
Period size: 44 Copynumber: 2.6 Consensus size: 44
456494 GTACTTTAGA
456504 TGACA-TTAGCATTTGCATCATTTCACATTTATTGGCCTTTCTAT
1 TGACACTT-GCATTTGCATCATTTCACATTTATTGGCCTTTCTAT
* * * *
456548 TGACAGTTGCATTTGCATCATTTCATATTTATTTGCCTTTTTAT
1 TGACACTTGCATTTGCATCATTTCACATTTATTGGCCTTTCTAT
*
456592 TGACACTTGTA-TTGCATCATTTCACAT
1 TGACACTTGCATTTGCATCATTTCACAT
456619 GTATCCACAC
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
43 15 0.23
44 47 0.73
45 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.11, T:0.47
Consensus pattern (44 bp):
TGACACTTGCATTTGCATCATTTCACATTTATTGGCCTTTCTAT
Found at i:457015 original size:89 final size:89
Alignment explanation
Indices: 456798--457015 Score: 233
Period size: 89 Copynumber: 2.4 Consensus size: 89
456788 ATTTAATTTG
* * * *
456798 CATTTCCCTCTTTACTAACACTTGCATTTACATCATTTCACGAAAATCTGTAATATTAAATAACA
1 CATTTACCTTTTTACTAATACTTGCATTTACATCATTTCACGAAAATCTGTAACATTAAATAACA
* *
456863 TTGTCATTTACATCATTTCACTTG
66 TTGTCATTTACATCATTTCACGTA
* * * ** ** ** *
456887 CATTTACCTTTTTACTGATAGTTGAATTGGCATTGTTTCACGAGCATCT-TCAACATTAGATGAA
1 CATTTACCTTTTTACTAATACTTGCATTTACATCATTTCACGAAAATCTGT-AACATTAAAT-AA
* *
456951 -ATTGTCATTTGCATTATTTCACGTA
64 CATTGTCATTTACATCATTTCACGTA
*
456976 CATTTACCTTTTTACTAATTCTTGCATTTACATCATTTCA
1 CATTTACCTTTTTACTAATACTTGCATTTACATCATTTCA
457016 TGAGTATTTG
Statistics
Matches: 101, Mismatches: 26, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
88 1 0.01
89 98 0.97
90 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.43
Consensus pattern (89 bp):
CATTTACCTTTTTACTAATACTTGCATTTACATCATTTCACGAAAATCTGTAACATTAAATAACA
TTGTCATTTACATCATTTCACGTA
Found at i:457313 original size:60 final size:59
Alignment explanation
Indices: 457231--457441 Score: 237
Period size: 60 Copynumber: 3.5 Consensus size: 59
457221 AATTTCTAGC
* * *
457231 TTTGTCCAAGCCATTTCT-TTAAGTCTTGGTTTCATCCAAGTCATTTTTTAGGTTTTTAGT
1 TTTGTCCAGGCCATTT-TATTAAGTCTTAGTTTCA-CCAAGTCATTGTTTAGGTTTTTAGT
* * ** *
457291 TTTGTCCAGGCTATTTTATTAAGTCTTAGTTTCACCTAAGTCATTGTGTATATTTCTAGT
1 TTTGTCCAGGCCATTTTATTAAGTCTTAGTTTCACC-AAGTCATTGTTTAGGTTTTTAGT
* * * *
457351 TTCG-CCAAGGCCATTTTATTGACTCTTAGTTTCACCAAGTCATTGTTTAGGTTTTTGGT
1 TTTGTCC-AGGCCATTTTATTAAGTCTTAGTTTCACCAAGTCATTGTTTAGGTTTTTAGT
* * *
457410 TTTGTCTAGGCCATTTCATTAAGTCTTGGTTT
1 TTTGTCCAGGCCATTTTATTAAGTCTTAGTTT
457442 TGCCTAAGTT
Statistics
Matches: 124, Mismatches: 23, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
59 47 0.38
60 77 0.62
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.48
Consensus pattern (59 bp):
TTTGTCCAGGCCATTTTATTAAGTCTTAGTTTCACCAAGTCATTGTTTAGGTTTTTAGT
Found at i:458199 original size:32 final size:31
Alignment explanation
Indices: 458162--458245 Score: 84
Period size: 31 Copynumber: 2.7 Consensus size: 31
458152 CAATTGAAGC
*
458162 TTTCACCCTAGAC-A-CTTCTTTGACTGTTAAG
1 TTTCACCCTAGACAATCTT-TTTGACTG-AAAG
* *
458193 ATTTCACCTTAGTCAATCTTTTTGACTGAAAG
1 -TTTCACCCTAGACAATCTTTTTGACTGAAAG
*
458225 TTTCACCCTAGTCAAT-TTTTT
1 TTTCACCCTAGACAATCTTTTT
458246 ACTATTATGA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
30 5 0.11
31 15 0.33
32 14 0.30
33 9 0.20
34 3 0.07
ACGTcount: A:0.24, C:0.23, G:0.11, T:0.43
Consensus pattern (31 bp):
TTTCACCCTAGACAATCTTTTTGACTGAAAG
Found at i:458229 original size:31 final size:32
Alignment explanation
Indices: 458162--458245 Score: 100
Period size: 32 Copynumber: 2.7 Consensus size: 32
458152 CAATTGAAGC
* * * *
458162 TTTCACCCTAGACACTTCTTTGACTGTTAAGA
1 TTTCACCCTAGTCAATTTTTTGACTGTAAAGA
*
458194 TTTCACCTTAGTCAATCTTTTTGACTG-AAAG-
1 TTTCACCCTAGTCAAT-TTTTTGACTGTAAAGA
458225 TTTCACCCTAGTCAATTTTTT
1 TTTCACCCTAGTCAATTTTTT
458246 ACTATTATGA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
30 5 0.11
31 15 0.33
32 16 0.36
33 9 0.20
ACGTcount: A:0.24, C:0.23, G:0.11, T:0.43
Consensus pattern (32 bp):
TTTCACCCTAGTCAATTTTTTGACTGTAAAGA
Found at i:458259 original size:62 final size:62
Alignment explanation
Indices: 458156--458401 Score: 267
Period size: 62 Copynumber: 3.9 Consensus size: 62
458146 AGTTTTCAAT
* * * * * * *
458156 TGAAGCTTTCACCCTAGACACTTCTTTGACTGTTAAGATTTCACCTTAGTCAATCTTTTTGAC
1 TGAAGGTTTCACCCTAGTCACTT-TTTTACTATTATGATTTCGCCTTAGTTAATCTTTTTGAC
* * * *
458219 TGAAAGTTTCACCCTAGTCAATTTTTTACTATTATGATTTCGCCTTGGTTAATTTTTTTGAC
1 TGAAGGTTTCACCCTAGTCACTTTTTTACTATTATGATTTCGCCTTAGTTAATCTTTTTGAC
* ** * * * *
458281 TCAAGGTTTTGCCTTAGTCACCTTTTTTACTATTATGGTTTCGCCCTAGTTAATCTTTTTGAT
1 TGAAGGTTTCACCCTAGTCA-CTTTTTTACTATTATGATTTCGCCTTAGTTAATCTTTTTGAC
** * * *
458344 TGAAGGTTTTGCCCTAGTCACTTTTGTACTATCATGATTTTGCCTTAGTTAATCTTTT
1 TGAAGGTTTCACCCTAGTCACTTTTTTACTATTATGATTTCGCCTTAGTTAATCTTTT
458402 CAAATGAAGG
Statistics
Matches: 153, Mismatches: 29, Indels: 3
0.83 0.16 0.02
Matches are distributed among these distances:
62 80 0.52
63 73 0.48
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.46
Consensus pattern (62 bp):
TGAAGGTTTCACCCTAGTCACTTTTTTACTATTATGATTTCGCCTTAGTTAATCTTTTTGAC
Found at i:458524 original size:30 final size:31
Alignment explanation
Indices: 458479--458553 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
458469 CATAATTTCA
* * *
458479 CCCTAGTCAATCTTTTGAACTGA-AGGTTTTG
1 CCCTAGTC-ATCTTTTCAACTAATAGATTTTG
*
458510 TCCTAGTCATCTTTTCAACTAATAGATTTTG
1 CCCTAGTCATCTTTTCAACTAATAGATTTTG
*
458541 CCCTAGCCATCTT
1 CCCTAGTCATCTT
458554 CTTTGACTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
30 12 0.32
31 25 0.68
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.40
Consensus pattern (31 bp):
CCCTAGTCATCTTTTCAACTAATAGATTTTG
Found at i:458610 original size:32 final size:33
Alignment explanation
Indices: 458541--458610 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 33
458531 ATAGATTTTG
* *
458541 CCCTAGCCATCTTCTTTGACTATCATGGTTTCA
1 CCCTAGCCACCTTCTTTGACTATCATGATTTCA
* * *
458574 CCCTAGTCACCTTC-TTGACTATTATGATTTCC
1 CCCTAGCCACCTTCTTTGACTATCATGATTTCA
458606 CCCTA
1 CCCTA
458611 TTCAATCTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 20 0.62
33 12 0.38
ACGTcount: A:0.19, C:0.33, G:0.10, T:0.39
Consensus pattern (33 bp):
CCCTAGCCACCTTCTTTGACTATCATGATTTCA
Found at i:458684 original size:127 final size:126
Alignment explanation
Indices: 458464--458709 Score: 277
Period size: 127 Copynumber: 1.9 Consensus size: 126
458454 GTCTTCCTTA
*
458464 ACTATCATAATTTCACCCTAGTCAATCTTTTGAACTGAAGGTTTTGTCCTAGTCATCTTTTCAAC
1 ACTATCATAATTTCACCCTAGTCAATCTTTTCAACTGAAGGTTTTGTCCTAGTCATCTTTTCAAC
* * *
458529 TAATAGATTTTGCCCTAG-C-CATCTTCTTTGACTATCATGGTTTCACCCTAGTCACCTTCTTG
66 TAAGAGATTTTGCCCTAGCCACATCTT-TTCGACTA--AAGGTTTCACCCTAGTCACCTTCTTG
* * * * * * **
458591 ACTATTATGATTTCCCCCTATTCAATCTTTTCTACTGAAGGTTTTGTCCTAGTTGCCT-TTTTTG
1 ACTATCATAATTTCACCCTAGTCAATCTTTTCAACTGAAGGTTTTGTCCTAG-T-CATCTTTTCA
*
458655 ACTAAGATGGTTTTGCCCTA-CTCA-ATCTTTTCGACTAAAGGTTTCACCCTAGTCA
64 ACTAAGA-GATTTTGCCCTAGC-CACATCTTTTCGACTAAAGGTTTCACCCTAGTCA
458710 TCTTTTTTAC
Statistics
Matches: 100, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
127 63 0.63
128 11 0.11
129 20 0.20
130 6 0.06
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.41
Consensus pattern (126 bp):
ACTATCATAATTTCACCCTAGTCAATCTTTTCAACTGAAGGTTTTGTCCTAGTCATCTTTTCAAC
TAAGAGATTTTGCCCTAGCCACATCTTTTCGACTAAAGGTTTCACCCTAGTCACCTTCTTG
Found at i:458715 original size:64 final size:63
Alignment explanation
Indices: 458567--458730 Score: 154
Period size: 64 Copynumber: 2.6 Consensus size: 63
458557 TGACTATCAT
* * ** * * *
458567 GGTTTCACCCTAGTCACCTTCTTGACTATTATGATTTCCCCCTATTCAATCTTTTCTACTGAA
1 GGTTTCACCCTAGTCACTTTTTTGACTAAGATGATTTCCCCCTACTCAATCTTTTCGACTAAA
*** * **
458630 GGTTTTGTCCTAGTTGC-CTTTTTTGACTAAGATGGTTTTGCCCTACTCAATCTTTTCGACTAAA
1 GGTTTCACCCTAG-T-CACTTTTTTGACTAAGATGATTTCCCCCTACTCAATCTTTTCGACTAAA
*
458694 GGTTTCACCCTAGTCATCTTTTTT-ACTAATA-GATTTC
1 GGTTTCACCCTAGTCA-CTTTTTTGACTAAGATGATTTC
458731 ATTTTACTCA
Statistics
Matches: 78, Mismatches: 19, Indels: 9
0.74 0.18 0.08
Matches are distributed among these distances:
62 5 0.06
63 17 0.22
64 55 0.71
65 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (63 bp):
GGTTTCACCCTAGTCACTTTTTTGACTAAGATGATTTCCCCCTACTCAATCTTTTCGACTAAA
Found at i:458763 original size:93 final size:95
Alignment explanation
Indices: 458661--458917 Score: 258
Period size: 93 Copynumber: 2.7 Consensus size: 95
458651 TTTGACTAAG
* * * *
458661 ATGGTTTTGCCCTACTCAATCTTTTCGACTAAAGGTTTCACCCTAGTCATCTTTTTTACTAATAG
1 ATGGTTTTGCTCTAGTCAATCTTTTCGACTAAAGTTTTC-CCCTAGTCATCTTTTTAACTAATAG
* * **
458726 A-TTTCATTTTACTCAT-TTTTT-TTCCATC
65 AGTTTCACTCTACTCATCTTTTTAGACCATC
* * * *
458754 ATGGTTTTGCTCTAGTCAATCTTTT-GAACTGAAGTTTTTGCCCTAATCATCTTTTTGACTAATA
1 ATGGTTTTGCTCTAGTCAATCTTTTCG-ACTAAAG-TTTTCCCCTAGTCATCTTTTTAACTAATA
* * *
458818 -AGTTTCGCTCTAGTCATCTTTTTAGACTATC
64 GAGTTTCACTCTACTCATCTTTTTAGACCATC
* * *
458849 ATGGTTTTGCTCTAGTCAGTCTTTTCGACTGAATA-TTTTCCCTTAGTTATCTTTTTAACTAATA
1 ATGGTTTTGCTCTAGTCAATCTTTTCGACT-AA-AGTTTTCCCCTAGTCATCTTTTTAACTAATA
458913 G-GTTT
64 GAGTTT
458918 GCCTTAATAA
Statistics
Matches: 134, Mismatches: 21, Indels: 16
0.78 0.12 0.09
Matches are distributed among these distances:
92 2 0.01
93 62 0.46
94 8 0.06
95 59 0.44
96 2 0.01
97 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.12, T:0.47
Consensus pattern (95 bp):
ATGGTTTTGCTCTAGTCAATCTTTTCGACTAAAGTTTTCCCCTAGTCATCTTTTTAACTAATAGA
GTTTCACTCTACTCATCTTTTTAGACCATC
Found at i:458835 original size:31 final size:31
Alignment explanation
Indices: 458800--458917 Score: 98
Period size: 33 Copynumber: 3.7 Consensus size: 31
458790 TTTGCCCTAA
458800 TCATCTTTTTGACTAATAAGTTTCGCTCTAG
1 TCATCTTTTTGACTAATAAGTTTCGCTCTAG
* *
458831 TCATCTTTTTAGACT-ATCATGGTTTTGCTCTAG
1 TCATCTTTTT-GACTAAT-A-AGTTTCGCTCTAG
* * *
458864 TCAGTCTTTTCGACTGAAT-ATTTTCCCT-TAG
1 TCA-TCTTTTTGACT-AATAAGTTTCGCTCTAG
* * *
458895 TTATCTTTTTAACTAATAGGTTT
1 TCATCTTTTTGACTAATAAGTTT
458918 GCCTTAATAA
Statistics
Matches: 68, Mismatches: 12, Indels: 15
0.72 0.13 0.16
Matches are distributed among these distances:
29 3 0.04
30 12 0.18
31 17 0.25
32 10 0.15
33 18 0.26
34 6 0.09
35 2 0.03
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (31 bp):
TCATCTTTTTGACTAATAAGTTTCGCTCTAG
Found at i:458901 original size:64 final size:63
Alignment explanation
Indices: 458789--458909 Score: 147
Period size: 64 Copynumber: 1.9 Consensus size: 63
458779 GAACTGAAGT
* *
458789 TTTTGCCCTAATCATCTTTTTGACTAATAAGTTTCGCTCTAGTCATCTTTTTAGACTATCATGG
1 TTTTGCCCTAATCATCTTTTCGACTAATAAGTTTCCCTCTAGTCATCTTTTTA-ACTATCATGG
* * * *
458853 TTTTGCTCTAGTCAGTCTTTTCGACTGAAT-ATTTTCCCT-TAGTTATCTTTTTAACTA
1 TTTTGCCCTAATCA-TCTTTTCGACT-AATAAGTTTCCCTCTAGTCATCTTTTTAACTA
458910 ATAGGTTTGC
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
63 4 0.08
64 25 0.51
65 17 0.35
66 3 0.06
ACGTcount: A:0.21, C:0.20, G:0.12, T:0.48
Consensus pattern (63 bp):
TTTTGCCCTAATCATCTTTTCGACTAATAAGTTTCCCTCTAGTCATCTTTTTAACTATCATGG
Found at i:458935 original size:95 final size:94
Alignment explanation
Indices: 458751--458952 Score: 234
Period size: 95 Copynumber: 2.1 Consensus size: 94
458741 TTTTTTTTCC
*
458751 ATCATGGTTTTGCTCTAGTCAATCTTTTGAACTGAAGTTTTTGCCCTAATCATCTTTTTGACTAA
1 ATCATGGTTTTGCTCTAGTCAATCTTTTGAACTGAAGTTTTTGCCCTAATCATCTTTTTAACTAA
* *
458816 TAAGTTTCGCTCTAGTCATCTTTTTAGACT
66 TAAGTTTCGCTCTAATAATCTTTTTA-ACT
* * *
458846 ATCATGGTTTTGCTCTAGTCAGTCTTTTCG-ACTGAA-TATTTT-CCCTTAGTTATCTTTTTAAC
1 ATCATGGTTTTGCTCTAGTCAATCTTTT-GAACTGAAGT-TTTTGCCC-TAATCATCTTTTTAAC
* *
458908 TAATAGGTTT-GC-CTTAATAATATTTTTTAACT
63 TAATAAGTTTCGCTC-TAATAAT-CTTTTTAACT
*
458940 ATTATGGTTTTGC
1 ATCATGGTTTTGC
458953 CTTAAATAAT
Statistics
Matches: 93, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
93 1 0.01
94 26 0.28
95 65 0.70
96 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.13, T:0.48
Consensus pattern (94 bp):
ATCATGGTTTTGCTCTAGTCAATCTTTTGAACTGAAGTTTTTGCCCTAATCATCTTTTTAACTAA
TAAGTTTCGCTCTAATAATCTTTTTAACT
Found at i:458938 original size:31 final size:34
Alignment explanation
Indices: 458900--458967 Score: 97
Period size: 31 Copynumber: 2.1 Consensus size: 34
458890 CTTAGTTATC
458900 TTTTTAACTAATA-GG-TTTGCCTT-AATAATAT
1 TTTTTAACTAATATGGTTTTGCCTTAAATAATAT
* *
458931 TTTTTAACTATTATGGTTTTGCCTTAAATAATCT
1 TTTTTAACTAATATGGTTTTGCCTTAAATAATAT
458965 TTT
1 TTT
458968 CAATTAAGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
31 12 0.38
32 2 0.06
33 8 0.25
34 10 0.31
ACGTcount: A:0.28, C:0.10, G:0.09, T:0.53
Consensus pattern (34 bp):
TTTTTAACTAATATGGTTTTGCCTTAAATAATAT
Found at i:468210 original size:19 final size:21
Alignment explanation
Indices: 468188--468228 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
468178 TTCACATAAA
*
468188 TAAAAT-AATATTATTT-TAT
1 TAAAATAAAAATTATTTATAT
468207 TAAAATAAAAATTATTTATAT
1 TAAAATAAAAATTATTTATAT
468228 T
1 T
468229 TATTTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 9 0.47
21 4 0.21
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TAAAATAAAAATTATTTATAT
Found at i:468225 original size:24 final size:25
Alignment explanation
Indices: 468185--468232 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
468175 ATATTCACAT
468185 AAATAAAATAATATTAT-TTTATTA
1 AAATAAAATAATATTATATTTATTA
*
468209 AAATAAAA-ATTATTTATATTTATT
1 AAATAAAATAATA-TTATATTTATT
468233 TTTTAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 3 0.14
24 12 0.57
25 6 0.29
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
AAATAAAATAATATTATATTTATTA
Found at i:468399 original size:2 final size:2
Alignment explanation
Indices: 468394--468420 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
468384 GGGAATGGAC
468394 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
468421 CGCAAAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:468621 original size:2 final size:2
Alignment explanation
Indices: 468614--468643 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
468604 ACTCAAATGC
*
468614 CT CT CT CT CT CT TT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
468644 ATGCATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:476037 original size:22 final size:21
Alignment explanation
Indices: 476009--476050 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
475999 ATATTTAAAA
476009 ATAT-TTTTAT-ATTAATATTT
1 ATATATTTTATAATTAA-ATTT
476029 ATATATTTTATAATTAAATTT
1 ATATATTTTATAATTAAATTT
476050 A
1 A
476051 AATAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 11 0.55
22 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATATTTTATAATTAAATTT
Found at i:476503 original size:19 final size:21
Alignment explanation
Indices: 476465--476527 Score: 67
Period size: 19 Copynumber: 3.0 Consensus size: 21
476455 AAAAATTAAA
*
476465 AATTTAATTACTTTTAATTTT
1 AATTTAATTACTTATAATTTT
476486 AATTT-ATTA-TTATAATTTT
1 AATTTAATTACTTATAATTTT
* **
476505 AATATAATTTTTTATTAATTTT
1 AATTTAATTACTTA-TAATTTT
476527 A
1 A
476528 TCATATTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
19 13 0.36
20 7 0.19
21 8 0.22
22 8 0.22
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
AATTTAATTACTTATAATTTT
Found at i:476526 original size:22 final size:21
Alignment explanation
Indices: 476478--476544 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 21
476468 TTAATTACTT
* *
476478 TTAATTTTAATTTA-TTATTA
1 TTAATTTTAATATATTTTTTA
476498 -TAATTTTAATATAATTTTTTA
1 TTAATTTTAATAT-ATTTTTTA
476519 TTAATTTT-ATCATATTTTTATA
1 TTAATTTTAAT-ATATTTTT-TA
476541 TTAA
1 TTAA
476545 CTCAATAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
19 11 0.28
20 1 0.03
21 13 0.32
22 15 0.38
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (21 bp):
TTAATTTTAATATATTTTTTA
Found at i:477138 original size:24 final size:23
Alignment explanation
Indices: 477093--477138 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
477083 TTTTTAAAAA
* *
477093 ATTTTATTAATTATATTTAAATT
1 ATTTTATTAAATATATTAAAATT
477116 ATTTTATTAAATATTATTAAAAT
1 ATTTTATTAAATA-TATTAAAAT
477139 ATAATAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
ATTTTATTAAATATATTAAAATT
Found at i:478471 original size:392 final size:394
Alignment explanation
Indices: 477845--478637 Score: 1472
Period size: 392 Copynumber: 2.0 Consensus size: 394
477835 TATATTATTA
*
477845 AAAAAGTAAATAAAAACAATTAATTAATAAAATAATTTTTTAACTTTTTTTTTACTTATAAAGTA
1 AAAAAGTAAATAAAAACAATTAATAAATAAAATAATTTTTTAACTTTTTTTTTACTTATAAAGTA
477910 TATATTTTAAATTGATTAGTAAAATAACATATAAATTAACTTATTTAAATGCATCTTTTATAAAA
66 TATATTTTAAATTGATTAGTAAAATAACATATAAATTAACTTATTTAAATGCATCTTTTAT-AAA
477975 AAACTTAAATCTAAAAGAAACTAAAAAGATTAATAAAATATTTTTCTAGTGGCATATGTATAGAT
130 AAACTTAAATCTAAAAGAAACTAAAAAGATT-ATAAAATATTTTTCTAGTGGCATATGTATAGAT
478040 TTTAAAACAACTCTTTAACTATCGAGGAGGTCAATTTAAAAATAAAATAAAAATTTAAAAATAAT
194 TTTAAAACAACTCTTTAACTATCGAGGAGGTCAATTTAAAAATAAAATAAAAATTTAAAAATAAT
478105 TAATAAAATAATATTTTTTAACAAATCAGATATGAATATAAAATTAATTTATAAATTTTTGCTTA
259 TAATAAAATAATATTTTTTAACAAATCAG-TATGAATAT-AAATTAATTTATAAATTTTTGCTTA
478170 AATTTAATTTTTAAAATATATTATTTTAAAATAAAAATTAAAAATATAAACCTAAAAAAAGAAAA
322 AATTTAATTTTTAAAATATATTATTTTAAAATAAAAATTAAAAA-ATAAACCTAAAAAAA-AAAA
478235 AAAAAATCAG
385 AAAAAATCAG
*
478245 AAAAAGTAAATAAAAACAATTAATAAATAAAATAATTTTTTAAC-TTTTTTTTACTTATCAAGTA
1 AAAAAGTAAATAAAAACAATTAATAAATAAAATAATTTTTTAACTTTTTTTTTACTTATAAAGTA
478309 TATATTTTAAATTGATTAGTAAAATAACATATAAATTAACTTA-TTAAATGCATCTTTTAT-AAA
66 TATATTTTAAATTGATTAGTAAAATAACATATAAATTAACTTATTTAAATGCATCTTTTATAAAA
478372 AACTTAAATCTAAAAGAAACTAAAAAGA-T-TAAAATA-TTTTCTAGTGGCATATGTATAGATTT
131 AACTTAAATCTAAAAGAAACTAAAAAGATTATAAAATATTTTTCTAGTGGCATATGTATAGATTT
478434 TAAAACAACTCTTTAACTATCGAGGAGGTCAATTTAAAAATAAAATAAAAATTTAAAAATAATTA
196 TAAAACAACTCTTTAACTATCGAGGAGGTCAATTTAAAAATAAAATAAAAATTTAAAAATAATTA
478499 ATAAAATAATATTTTTTAACAAATCAGTATGAATATAAATTAATTTATAAATTTTTGCTTAAATT
261 ATAAAATAATATTTTTTAACAAATCAGTATGAATATAAATTAATTTATAAATTTTTGCTTAAATT
478564 TAATTTTTAAAATATATTATTTTAAAATAAAAATTAAAAAATAAACCTAAAAAAAAAAAAAAAAA
326 TAATTTTTAAAATATATTATTTTAAAATAAAAATTAAAAAATAAACCTAAAAAAAAAAAAAAAAA
478629 TCAG
391 TCAG
478633 AAAAA
1 AAAAA
478638 CAAAATGATC
Statistics
Matches: 391, Mismatches: 2, Indels: 12
0.97 0.00 0.03
Matches are distributed among these distances:
388 19 0.05
389 15 0.04
390 69 0.18
391 9 0.02
392 118 0.30
393 7 0.02
395 1 0.00
396 31 0.08
398 17 0.04
399 62 0.16
400 43 0.11
ACGTcount: A:0.52, C:0.06, G:0.05, T:0.36
Consensus pattern (394 bp):
AAAAAGTAAATAAAAACAATTAATAAATAAAATAATTTTTTAACTTTTTTTTTACTTATAAAGTA
TATATTTTAAATTGATTAGTAAAATAACATATAAATTAACTTATTTAAATGCATCTTTTATAAAA
AACTTAAATCTAAAAGAAACTAAAAAGATTATAAAATATTTTTCTAGTGGCATATGTATAGATTT
TAAAACAACTCTTTAACTATCGAGGAGGTCAATTTAAAAATAAAATAAAAATTTAAAAATAATTA
ATAAAATAATATTTTTTAACAAATCAGTATGAATATAAATTAATTTATAAATTTTTGCTTAAATT
TAATTTTTAAAATATATTATTTTAAAATAAAAATTAAAAAATAAACCTAAAAAAAAAAAAAAAAA
TCAG
Found at i:479063 original size:20 final size:21
Alignment explanation
Indices: 479038--479076 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
479028 ATAAAATAAA
479038 TATGTT-TATATTATTTTTAT
1 TATGTTATATATTATTTTTAT
*
479058 TATGTTATATTTTATTTTT
1 TATGTTATATATTATTTTT
479077 TTAAAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (21 bp):
TATGTTATATATTATTTTTAT
Found at i:479275 original size:19 final size:18
Alignment explanation
Indices: 479225--479276 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 18
479215 TAAGAAAATT
*
479225 TTATTTTATTATTTAATTTT
1 TTATTTTA-T-TTTAATTTA
479245 TTATTTTATTTTAATTTAA
1 TTATTTTATTTTAATTT-A
479264 TTATGTTT-TTTTA
1 TTAT-TTTATTTTA
479277 GAAAAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 8 0.28
19 10 0.34
20 11 0.38
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (18 bp):
TTATTTTATTTTAATTTA
Found at i:479432 original size:22 final size:21
Alignment explanation
Indices: 479386--479437 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
479376 TTGAAAAATT
*
479386 AATTAT-T-TTTAAAATTTTA
1 AATTATGTATTTAAAATGTTA
479405 AATTATGTATTTAAAATAGTTA
1 AATTATGTATTTAAAAT-GTTA
* *
479427 ATTTATTTATT
1 AATTATGTATT
479438 CTCATTTATG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 6 0.22
20 1 0.04
21 8 0.30
22 12 0.44
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (21 bp):
AATTATGTATTTAAAATGTTA
Found at i:480354 original size:28 final size:27
Alignment explanation
Indices: 480323--480382 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
480313 AAATAATATA
*
480323 ATTATAATAACATAAACGATAAAAAATT
1 ATTATAATAACATAAA-AATAAAAAATT
* * *
480351 ATTATAATTATATAAAAATAATAAATT
1 ATTATAATAACATAAAAATAAAAAATT
480378 ATTAT
1 ATTAT
480383 TTTTTATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 14 0.50
28 14 0.50
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (27 bp):
ATTATAATAACATAAAAATAAAAAATT
Found at i:481356 original size:10 final size:11
Alignment explanation
Indices: 481326--481354 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
481316 TTAATTAATT
481326 ATATTTTTATC
1 ATATTTTTATC
481337 ATATTTTTATC
1 ATATTTTTATC
481348 ATATTTT
1 ATATTTT
481355 ATATACAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (11 bp):
ATATTTTTATC
Found at i:481597 original size:2 final size:2
Alignment explanation
Indices: 481590--481636 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
481580 AAATTTCAAG
481590 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
481632 AT AT A
1 AT AT A
481637 AAAATAAGTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:481917 original size:19 final size:20
Alignment explanation
Indices: 481885--481931 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
481875 TAGTAGTAAA
*
481885 TAAAAATAAAAATA-ATTAT
1 TAAAAATAAAAATATAATAT
**
481904 TAAAAATATTAATATAATAT
1 TAAAAATAAAAATATAATAT
481924 TAATAAAT
1 TAA-AAAT
481932 TATTTTTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 12 0.52
20 7 0.30
21 4 0.17
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAAAATAAAAATATAATAT
Found at i:481995 original size:21 final size:22
Alignment explanation
Indices: 481971--482020 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
481961 TAATACATAT
* *
481971 TATTTTATA-TATTTATCTAAA
1 TATTTTATATTAGTTAACTAAA
*
481992 TATTTTA-ATTAGTTAACTAAT
1 TATTTTATATTAGTTAACTAAA
482013 TATTTTAT
1 TATTTTAT
482021 TTTTTATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 23 0.96
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (22 bp):
TATTTTATATTAGTTAACTAAA
Found at i:482736 original size:25 final size:25
Alignment explanation
Indices: 482708--482759 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
482698 AATGGAGCAA
482708 TTTCAAATTGATAGTGGTGCAAATC
1 TTTCAAATTGATAGTGGTGCAAATC
*
482733 TTTCCAATTGATAGTGGTGCAAATC
1 TTTCAAATTGATAGTGGTGCAAATC
482758 TT
1 TT
482760 AAGTCGATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.38
Consensus pattern (25 bp):
TTTCAAATTGATAGTGGTGCAAATC
Found at i:484821 original size:21 final size:18
Alignment explanation
Indices: 484797--484837 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 18
484787 TGAGAAAAGG
484797 AATAAATTAAACTAAAATACA
1 AATAAATT--ACTAAAA-ACA
484818 AATAAATTACTAAAAACA
1 AATAAATTACTAAAAACA
484836 AA
1 AA
484838 AGTAGATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.25
19 7 0.35
21 8 0.40
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.22
Consensus pattern (18 bp):
AATAAATTACTAAAAACA
Found at i:485571 original size:15 final size:15
Alignment explanation
Indices: 485551--485649 Score: 83
Period size: 16 Copynumber: 6.3 Consensus size: 15
485541 ATTTTAAGTA
* *
485551 TTAAATTTAATTGAT
1 TTAAATTTAAATAAT
485566 TTAAA-TTAAATTAAT
1 TTAAATTTAAA-TAAT
**
485581 TTAAAATCAAAATAAT
1 TT-AAATTTAAATAAT
485597 TTAAATTTAAAATAAT
1 TTAAATTT-AAATAAT
* *
485613 TTAAATTTAAAATTAC
1 TTAAATTT-AAATAAT
*
485629 TTAAATTTAAAAATAT
1 TTAAATTTAAATA-AT
485645 TTAAA
1 TTAAA
485650 AATTTTAAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 9
0.77 0.12 0.10
Matches are distributed among these distances:
14 4 0.06
15 17 0.25
16 44 0.65
17 3 0.04
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (15 bp):
TTAAATTTAAATAAT
Found at i:485596 original size:16 final size:16
Alignment explanation
Indices: 485564--485650 Score: 88
Period size: 16 Copynumber: 5.5 Consensus size: 16
485554 AATTTAATTG
*
485564 ATTT-AAATTAAATTA
1 ATTTAAAATTAAAATA
*
485579 ATTTAAAATCAAAATA
1 ATTTAAAATTAAAATA
*
485595 ATTTAAATTTAAAATA
1 ATTTAAAATTAAAATA
* *
485611 ATTTAAATTTAAAATT
1 ATTTAAAATTAAAATA
* *
485627 ACTTAAATTTAAAA-A
1 ATTTAAAATTAAAATA
485642 TATTTAAAA
1 -ATTTAAAA
485651 ATTTTAAAAC
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
15 4 0.07
16 57 0.93
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (16 bp):
ATTTAAAATTAAAATA
Done.