Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold108
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: 1249174
ACGTcount: A:0.19, C:0.10, G:0.10, T:0.18
Warning! 531763 characters in sequence are not A, C, G, or T
File 1 of 5
Found at i:580 original size:20 final size:20
Alignment explanation
Indices: 555--631 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
545 GTAAAAAGAC
*
555 AGAATGTATCGATATATTGA
1 AGAATGTATCGATACATTGA
*
575 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
*
595 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
615 AGAATGTATCGATACAT
1 AGAATGTATCGATACAT
632 CTTGGTACTT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
19 1 0.02
20 48 0.96
21 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:3966 original size:21 final size:20
Alignment explanation
Indices: 3937--3979 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
3927 GACTAGTGTG
* *
3937 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
3958 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
3978 GG
1 GG
3980 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:4441 original size:12 final size:13
Alignment explanation
Indices: 4411--4447 Score: 67
Period size: 12 Copynumber: 2.9 Consensus size: 13
4401 ATAATCCCCC
4411 TGTATCGATACAG
1 TGTATCGATACAG
4424 TGTATCGATACA-
1 TGTATCGATACAG
4436 TGTATCGATACA
1 TGTATCGATACA
4448 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 12 0.50
13 12 0.50
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:6552 original size:15 final size:15
Alignment explanation
Indices: 6516--6553 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
6506 TTCATCAATT
* *
6516 TCATTTGGAGCTTCT
1 TCATTTTGAGCTTCC
6531 TCATTTTGAGCTTCC
1 TCATTTTGAGCTTCC
6546 TCATTTTG
1 TCATTTTG
6554 GACATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.21, G:0.16, T:0.50
Consensus pattern (15 bp):
TCATTTTGAGCTTCC
Found at i:10035 original size:13 final size:13
Alignment explanation
Indices: 10017--10042 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10007 AATTTTTTTG
10017 TGTATCGATACAT
1 TGTATCGATACAT
10030 TGTATCGATACAT
1 TGTATCGATACAT
10043 ACTTTGGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:10058 original size:33 final size:34
Alignment explanation
Indices: 9998--10061 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 34
9988 CAAGCCAATA
** *
9998 TATCGATACAATTTTTTTGTGTATCGATACATTG
1 TATCGATACAATACTTTGGTGTATCGATACATTG
10032 TATCGATAC-ATACTTTGGTGTATCGATACA
1 TATCGATACAATACTTTGGTGTATCGATACA
10062 AGTTTGGCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 18 0.67
34 9 0.33
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (34 bp):
TATCGATACAATACTTTGGTGTATCGATACATTG
Found at i:15234 original size:29 final size:29
Alignment explanation
Indices: 15186--15334 Score: 94
Period size: 29 Copynumber: 5.1 Consensus size: 29
15176 AGTATAAATG
* *
15186 AAAA-TATATTTATGT-TAAATAATAATT
1 AAAATTATATTTATATAAAAATAATAATT
15213 AAATATTATATTTATA-AAAAATAAATAATT
1 AAA-ATTATATTTATATAAAAAT-AATAATT
* * *
15243 ACAATTATATTTATATTAAAATAAAAAATT
1 AAAATTATATTTATATAAAAAT-AATAATT
* * * *
15273 ATATTTTTA-TTAAATAACTAAAT-ATATATT
1 AAAATTATATTTATATAA--AAATAATA-ATT
* * *
15303 AAAATTAGATTTATAT-TAAACAATAATT
1 AAAATTATATTTATATAAAAATAATAATT
15331 AAAA
1 AAAA
15335 ACTATTAAAA
Statistics
Matches: 94, Mismatches: 18, Indels: 19
0.72 0.14 0.15
Matches are distributed among these distances:
27 3 0.03
28 11 0.12
29 36 0.38
30 35 0.37
31 9 0.10
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (29 bp):
AAAATTATATTTATATAAAAATAATAATT
Found at i:15242 original size:30 final size:30
Alignment explanation
Indices: 15148--15328 Score: 104
Period size: 30 Copynumber: 5.9 Consensus size: 30
15138 TTAAAAGTTG
*
15148 TTAAAATTATATTCATAGTAAATAATAAAGTATAAA
1 TTAAAATTATATTTATA-TAAA-AAT-AA--AT-AA
* * *
15184 TGAAAA-TATATTTATGT-TAAAT-AATAA
1 TTAAAATTATATTTATATAAAAATAAATAA
15211 TTAAATATTATATTTATA-AAAAATAAATAA
1 TTAAA-ATTATATTTATATAAAAATAAATAA
* * *
15241 TTACAATTATATTTATATTAAAATAAAAAA
1 TTAAAATTATATTTATATAAAAATAAATAA
* * * * *
15271 TTATATTTTTA-TTAAATAACTAAATATAT-A
1 TTAAAATTATATTTATATAA--AAATAAATAA
*
15301 TTAAAATTAGATTTATATTAAACAATAA
1 TTAAAATTATATTTATA-TAAA-AATAA
15329 TTAAAAACTA
Statistics
Matches: 112, Mismatches: 23, Indels: 25
0.70 0.14 0.16
Matches are distributed among these distances:
27 6 0.05
28 3 0.03
29 31 0.28
30 37 0.33
31 14 0.12
32 6 0.05
33 1 0.01
34 1 0.01
35 8 0.07
36 5 0.04
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (30 bp):
TTAAAATTATATTTATATAAAAATAAATAA
Found at i:15262 original size:58 final size:58
Alignment explanation
Indices: 15186--15333 Score: 149
Period size: 60 Copynumber: 2.5 Consensus size: 58
15176 AGTATAAATG
* *
15186 AAAA-TATATTTATGTTAAATAATAATTAAATATTATATT-TATAA-AAAATAAATAATT
1 AAAATTATATTTATATTAAATAATAATTAAAT-TTATATTAAATAACAAAATAAAT-ATT
* * * * * *
15243 ACAATTATATTTATATTAAAATAAAAAATTATATTTTTATTAAATAACTAAATATATATT
1 AAAATTATATTTATATT-AAAT-AATAATTAAATTTATATTAAATAACAAAATAAATATT
* *
15303 AAAATTAGATTTATATTAAACAATAATTAAA
1 AAAATTATATTTATATTAAATAATAATTAAA
15334 AACTATTAAA
Statistics
Matches: 73, Mismatches: 13, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
57 3 0.04
58 19 0.26
59 13 0.18
60 31 0.42
61 7 0.10
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (58 bp):
AAAATTATATTTATATTAAATAATAATTAAATTTATATTAAATAACAAAATAAATATT
Found at i:15295 original size:24 final size:23
Alignment explanation
Indices: 15234--15302 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 23
15224 TTATAAAAAA
15234 TAAATAATTACAATTATATTTATAT
1 TAAATAA-TA-AATTATATTTATAT
* *
15259 TAAAATAAAAAATTATATTTTTAT
1 T-AAATAATAAATTATATTTATAT
15283 TAAATAACTAAATATATATT
1 TAAATAA-TAAAT-TATATT
15303 AAAATTAGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
23 6 0.16
24 18 0.47
25 8 0.21
26 6 0.16
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (23 bp):
TAAATAATAAATTATATTTATAT
Found at i:15387 original size:29 final size:27
Alignment explanation
Indices: 15349--15402 Score: 81
Period size: 29 Copynumber: 1.9 Consensus size: 27
15339 TTAAAATTAT
15349 ATTTAAAAATAATTAATACATATAAAAGA
1 ATTTAAAAATAATTAATA-AT-TAAAAGA
*
15378 ATTTAGAAATAATTAATAATTAAAA
1 ATTTAAAAATAATTAATAATTAAAA
15403 AAAACAGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 5 0.21
28 2 0.08
29 17 0.71
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (27 bp):
ATTTAAAAATAATTAATAATTAAAAGA
Found at i:17932 original size:24 final size:24
Alignment explanation
Indices: 17902--17949 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
17892 AATTCTTCTT
17902 ATTTTGTAGTTAAAAAATTTTAAG
1 ATTTTGTAGTTAAAAAATTTTAAG
17926 ATTTTGTAGTTAAAAAATTTTAAG
1 ATTTTGTAGTTAAAAAATTTTAAG
17950 TAGAAAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (24 bp):
ATTTTGTAGTTAAAAAATTTTAAG
Found at i:19840 original size:23 final size:23
Alignment explanation
Indices: 19814--19859 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
19804 ATTTTTTAAA
*
19814 TATATAAAAAATTTAATTATATT
1 TATATAAAAAATATAATTATATT
* * *
19837 TATATTAAATATATATTTATATT
1 TATATAAAAAATATAATTATATT
19860 CAAACTATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
TATATAAAAAATATAATTATATT
Found at i:20436 original size:7 final size:7
Alignment explanation
Indices: 20420--20474 Score: 83
Period size: 7 Copynumber: 7.9 Consensus size: 7
20410 TCAGTAATGA
20420 ATGAATT
1 ATGAATT
*
20427 ATGGATT
1 ATGAATT
20434 ATGAATT
1 ATGAATT
*
20441 AAGAATT
1 ATGAATT
20448 ATGAATT
1 ATGAATT
20455 ATGAATT
1 ATGAATT
*
20462 ATAAATT
1 ATGAATT
20469 ATGAAT
1 ATGAAT
20475 ATATAGGAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 42 1.00
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.40
Consensus pattern (7 bp):
ATGAATT
Found at i:21679 original size:2 final size:2
Alignment explanation
Indices: 21666--21701 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
21656 TCCATTCATC
* *
21666 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21702 GAAAGAGTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:23370 original size:3 final size:3
Alignment explanation
Indices: 23362--23394 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
23352 ACAAATAAAA
23362 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
23395 AAAAATTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:28529 original size:20 final size:20
Alignment explanation
Indices: 28498--28543 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
28488 TTTTTTTAAT
28498 GAAAATGAAAGAGAAATAAAA
1 GAAAATGAAAGAGAAA-AAAA
*
28519 GAAAA-GAAAGAGGAAAAAA
1 GAAAATGAAAGAGAAAAAAA
28538 GTAAAA
1 G-AAAA
28544 AAAATGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 5 0.22
20 13 0.57
21 5 0.22
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.07
Consensus pattern (20 bp):
GAAAATGAAAGAGAAAAAAA
Found at i:29373 original size:20 final size:21
Alignment explanation
Indices: 29336--29375 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
29326 GTTATGAAAA
*
29336 TTTAATTAATTTTAAAATTAT
1 TTTAATTAATTATAAAATTAT
*
29357 TTTAATT-ATTATCAAATTA
1 TTTAATTAATTATAAAATTA
29376 AATACATTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (21 bp):
TTTAATTAATTATAAAATTAT
Found at i:30356 original size:19 final size:19
Alignment explanation
Indices: 30330--30389 Score: 93
Period size: 19 Copynumber: 3.1 Consensus size: 19
30320 TTGTATGGAT
30330 AAATTGTATCGATACATGA
1 AAATTGTATCGATACATGA
**
30349 TCATTGTATCGATACATGAA
1 AAATTGTATCGATACATG-A
30369 AAATTGTATCGATACATGA
1 AAATTGTATCGATACATGA
30388 AA
1 AA
30390 CTGGCAGTAG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
19 19 0.53
20 17 0.47
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.32
Consensus pattern (19 bp):
AAATTGTATCGATACATGA
Found at i:30376 original size:20 final size:20
Alignment explanation
Indices: 30330--30389 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
30320 TTGTATGGAT
30330 AAATTGTATCGATACATG-A
1 AAATTGTATCGATACATGAA
**
30349 TCATTGTATCGATACATGAA
1 AAATTGTATCGATACATGAA
30369 AAATTGTATCGATACATGAA
1 AAATTGTATCGATACATGAA
30389 A
1 A
30390 CTGGCAGTAG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 16 0.44
20 20 0.56
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.32
Consensus pattern (20 bp):
AAATTGTATCGATACATGAA
Found at i:30454 original size:13 final size:13
Alignment explanation
Indices: 30436--30460 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30426 CATGAGACAT
30436 TGTATCGATACAA
1 TGTATCGATACAA
30449 TGTATCGATACA
1 TGTATCGATACA
30461 TAGTAAAATG
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:30473 original size:33 final size:33
Alignment explanation
Indices: 30416--30480 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
30406 TATCACTGTT
* * *
30416 TGTATCGATACATGAGACATTGTATCGATACAA
1 TGTATCGATACATGAGAAAATGTATCAATACAA
30449 TGTATCGATACAT-AGTAAAATGTATCAATACA
1 TGTATCGATACATGAG-AAAATGTATCAATACA
30481 TTATGCCCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 2 0.07
33 26 0.93
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (33 bp):
TGTATCGATACATGAGAAAATGTATCAATACAA
Found at i:39246 original size:20 final size:19
Alignment explanation
Indices: 39202--39248 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
39192 GTATTGATAT
**
39202 ATTGTATCGATACATGATC
1 ATTGTATCGATACATGAGA
*
39221 ATTGTATCGATGCATGAAGA
1 ATTGTATCGATACATG-AGA
39241 ATTGTATC
1 ATTGTATC
39249 AATATATGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (19 bp):
ATTGTATCGATACATGAGA
Found at i:39762 original size:23 final size:23
Alignment explanation
Indices: 39735--39778 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
39725 GCATTCAACC
*
39735 TTGGGTTATAATCTCTT-AAGAAT
1 TTGGGGTATAAT-TCTTGAAGAAT
39758 TTGGGGTATAATTCTTGAAGA
1 TTGGGGTATAATTCTTGAAGA
39779 GATTGAGAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.41
Consensus pattern (23 bp):
TTGGGGTATAATTCTTGAAGAAT
Found at i:40604 original size:19 final size:20
Alignment explanation
Indices: 40580--40618 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
40570 CACATTTTTG
*
40580 TCAAG-ATGTATCGATACAT
1 TCAAGAATGTATCAATACAT
40599 TCAAGAAATGTATCAATACA
1 TCAAG-AATGTATCAATACA
40619 AGGTCCTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
21 12 0.71
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (20 bp):
TCAAGAATGTATCAATACAT
Found at i:40737 original size:50 final size:51
Alignment explanation
Indices: 40677--40788 Score: 199
Period size: 51 Copynumber: 2.2 Consensus size: 51
40667 TGAACAGTAC
*
40677 ATGTATCGATACATTCTATT-TTTTACCCAGATGTTTCGATACATTTTTCA
1 ATGTATCGATACATTCTATTCTTTTACCCAGATGTATCGATACATTTTTCA
*
40727 ATGTATCGATACATTCTATTCTTTTACCTAGATGTATCGATACATTTTTCA
1 ATGTATCGATACATTCTATTCTTTTACCCAGATGTATCGATACATTTTTCA
40778 ATGTATCGATA
1 ATGTATCGATA
40789 TATCTAGTTA
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
50 20 0.34
51 39 0.66
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.45
Consensus pattern (51 bp):
ATGTATCGATACATTCTATTCTTTTACCCAGATGTATCGATACATTTTTCA
Found at i:49486 original size:13 final size:13
Alignment explanation
Indices: 49468--49492 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49458 CATAAAGTAT
49468 TGTATCGATACAA
1 TGTATCGATACAA
49481 TGTATCGATACA
1 TGTATCGATACA
49493 TAAGTTTTGT
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:49510 original size:32 final size:33
Alignment explanation
Indices: 49448--49513 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
49438 TTCAATGATT
49448 TGTAGCGATACATAAAGTATTGTATCGATACAA
1 TGTAGCGATACATAAAGTATTGTATCGATACAA
* * *
49481 TGTATCGATACAT-AAGTTTTGTATTGATACAA
1 TGTAGCGATACATAAAGTATTGTATCGATACAA
49513 T
1 T
49514 ATAAGCTACT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTAGCGATACATAAAGTATTGTATCGATACAA
Found at i:49572 original size:13 final size:13
Alignment explanation
Indices: 49554--49578 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49544 ATTACTCAAA
49554 TGTATCGATACAT
1 TGTATCGATACAT
49567 TGTATCGATACA
1 TGTATCGATACA
49579 CTGATCTTTG
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:49631 original size:52 final size:52
Alignment explanation
Indices: 49587--49715 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
49577 CACTGATCTT
49587 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
* *
49639 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
49691 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
49716 TCAAATTTTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
Found at i:50200 original size:10 final size:10
Alignment explanation
Indices: 50185--50212 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
50175 CCTTCCCACA
50185 AAAACACCTC
1 AAAACACCTC
50195 AAAACACCTC
1 AAAACACCTC
50205 AAAACACC
1 AAAACACC
50213 ATCGCCTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.54, C:0.39, G:0.00, T:0.07
Consensus pattern (10 bp):
AAAACACCTC
Found at i:52967 original size:32 final size:28
Alignment explanation
Indices: 52873--53181 Score: 274
Period size: 27 Copynumber: 10.9 Consensus size: 28
52863 AACCTCTTCA
52873 AAGTCCACAACTCTGTGGCAT-CCTTTT
1 AAGTCCACAACTCTGTGGCATCCCTTTT
*
52900 AAGTCCACAACTCCGTGGCA-CCCTTTT
1 AAGTCCACAACTCTGTGGCATCCCTTTT
52927 AAGTCCACAACTCTGTGGCACTTTCCCTTTT
1 AAGTCCACAACTCTGTGGCA---TCCCTTTT
**
52958 AAAGTCCACAACTCCATGGCACCTTCCCTTTTT
1 -AAGTCCACAACTCTGTGGCA---TCCC-TTTT
* * *
52991 AAATCCACAACTCCGTGGCA-CCCATTT
1 AAGTCCACAACTCTGTGGCATCCCTTTT
* *
53018 AAGTCCATAACTTTGTGGCAT-CCTTTT
1 AAGTCCACAACTCTGTGGCATCCCTTTT
* * **
53045 AAGTTCACAATTCCATGGCAT-CCTTTT
1 AAGTCCACAACTCTGTGGCATCCCTTTT
*
53072 AAGTCCATAACTCTGTGGCACCTTCCCTTTT
1 AAGTCCACAACTCTGTGGCA---TCCCTTTT
*
53103 AAAGTCCACAACTTTGTGGCAT-CCTTTT
1 -AAGTCCACAACTCTGTGGCATCCCTTTT
* * *
53131 AAGTCTACAACTCTTTGACA-CCCTTTT
1 AAGTCCACAACTCTGTGGCATCCCTTTT
* * *
53158 AAGCCCATAACTCCGTGGCA-CCCT
1 AAGTCCACAACTCTGTGGCATCCCT
53182 ATCAAAGCCC
Statistics
Matches: 232, Mismatches: 36, Indels: 28
0.78 0.12 0.09
Matches are distributed among these distances:
27 144 0.62
28 9 0.04
29 1 0.00
30 1 0.00
31 13 0.06
32 60 0.26
33 4 0.02
ACGTcount: A:0.24, C:0.32, G:0.13, T:0.32
Consensus pattern (28 bp):
AAGTCCACAACTCTGTGGCATCCCTTTT
Found at i:53116 original size:86 final size:81
Alignment explanation
Indices: 52873--53181 Score: 314
Period size: 86 Copynumber: 3.6 Consensus size: 81
52863 AACCTCTTCA
* **
52873 AAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAAC
1 AAGTTCACAACTCCATGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAAC
*
52938 TCTGTGGCACTTTCCCTTTT
66 TTTGTGGCA---T-CCTTTT
* * *
52958 AAAGTCCACAACTCCATGGCACCTTCCCTTTTTAAATCCACAACTCCGTGGCACCCATTTAAGTC
1 -AAGTTCACAACTCCATGGCA---T-CC-TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTC
*
53023 CATAACTTTGTGGCATCCTTTT
60 CACAACTTTGTGGCATCCTTTT
* * *
53045 AAGTTCACAATTCCATGGCATCCTTTTAAGTCCATAACTCTGTGGCACCTTCCCTTTTAAAGTCC
1 AAGTTCACAACTCCATGGCATCCTTTTAAGTCCACAACTCCGTGGCA----CCCTTTT-AAGTCC
53110 ACAACTTTGTGGCATCCTTTT
61 ACAACTTTGTGGCATCCTTTT
** * * * *
53131 AAG-TCTACAACTCTTTGACACCCTTTTAAGCCCATAACTCCGTGGCACCCT
1 AAGTTC-ACAACTCCATGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCT
53182 ATCAAAGCCC
Statistics
Matches: 192, Mismatches: 20, Indels: 26
0.81 0.08 0.11
Matches are distributed among these distances:
81 21 0.11
82 6 0.03
83 1 0.01
85 8 0.04
86 99 0.52
87 6 0.03
88 1 0.01
89 1 0.01
90 2 0.01
91 47 0.24
ACGTcount: A:0.24, C:0.32, G:0.13, T:0.32
Consensus pattern (81 bp):
AAGTTCACAACTCCATGGCATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAAC
TTTGTGGCATCCTTTT
Found at i:53265 original size:32 final size:30
Alignment explanation
Indices: 53172--54075 Score: 413
Period size: 28 Copynumber: 29.9 Consensus size: 30
53162 CCATAACTCC
* *
53172 GTGGCACCCTATC-AAAGCC-CACAAGTTA
1 GTGGCACCCTTTCTAAAGCCACACAAGTCA
*
53200 GTGGCACCC-TTCTAAAGGC-CACAAGTCA
1 GTGGCACCCTTTCTAAAGCCACACAAGTCA
* **
53228 ATGGCACCCTTCTCTAAAGCCCACACAAGTTG
1 GTGGCACCCTT-TCTAAAG-CCACACAAGTCA
* * * *
53260 GTGGCAACCCTTTCCAAAGTCCACAGACGTTA
1 GTGGC-ACCCTTTCTAAAG-CCACACAAGTCA
* **
53292 GTGGCAACACCCTTC-AAAGTCCACACAAGTTG
1 GTGGC-AC-CCTTTCTAAAG-CCACACAAGTCA
* ** * * *
53324 GTGGTATCTTTTTTTCAAAGGC-CACGAGTCA
1 GTGGCA-CCCTTTCT-AAAGCCACACAAGTCA
* * *
53355 GTGGCA-CCTTTCCAAAGGC-CACAAGTTA
1 GTGGCACCCTTTCTAAAGCCACACAAGTCA
*
53383 GTGGCACCCTTTTCTAAAGCCCACATAAGTC-
1 GTGGCACCC-TTTCTAAAG-CCACACAAGTCA
* *
53414 GATGGCAACCCTTTCCAGAGTCCACACATA-TCA
1 G-TGGC-ACCCTTTCTAAAG-CCACACA-AGTCA
* *
53447 GTGGCACCCCCTTC-AAAGCC-CACGAGTCA
1 GTGGCA-CCCTTTCTAAAGCCACACAAGTCA
* *
53476 GTGGCACCTTTTC-AAAGCC-CACGAGTCA
1 GTGGCACCCTTTCTAAAGCCACACAAGTCA
* *
53504 GTGGCACCC-TTCTGAAGGC-CACAAGTCA
1 GTGGCACCCTTTCTAAAGCCACACAAGTCA
* * *
53532 GTGACACCCTTCTCTAAAGCCCATATAAGTCA
1 GTGGCACCCTT-TCTAAAG-CCACACAAGTCA
* * * * *
53564 ATGGAAACCCTTTCCAAAGTCCACACATGTCG
1 GTGG-CACCCTTTCTAAAG-CCACACAAGTCA
* * **
53596 GTGGCAACCCCCCTTC-AAAGCCCACGCAAGTTG
1 GTGGC-A--CCCTTTCTAAAG-CCACACAAGTCA
** * * *
53629 GTGGCATCTTTTTTTCAAAGCC-CACGAGTTA
1 GTGGCA-CCCTTTCT-AAAGCCACACAAGTCA
53660 GTGGCACCCTTTC-AAAGCC-CACAAGTCA
1 GTGGCACCCTTTCTAAAGCCACACAAGTCA
*
53688 GTGGCACCCTTTC-AAAGCC-CACGAGTCA
1 GTGGCACCCTTTCTAAAGCCACACAAGTCA
* * * *
53716 GTGACACCC-TTCCAAAGGC-CACAAGTTA
1 GTGGCACCCTTTCTAAAGCCACACAAGTCA
* *
53744 GTGGCACCATTCTCTAAAGCCTACATAAGTC-
1 GTGGCACCCTT-TCTAAAGCC-ACACAAGTCA
* * *
53775 GATGGCAACCCTTTCCAAAGTTCACACAAGTCG
1 G-TGGC-ACCCTTTCTAAAG-CCACACAAGTCA
* * **
53808 GTGGCAACCCCTTC-AAGGCCCACACAAGTTG
1 GTGGC-ACCCTTTCTAAAG-CCACACAAGTCA
** * * *
53839 GTGGCATCTTTTTTTCAAAGCC-CATAAGTTA
1 GTGGCA-CCCTTTCT-AAAGCCACACAAGTCA
53870 GTGGCACCCTTTC-AAAGCC-CACAAGTCA
1 GTGGCACCCTTTCTAAAGCCACACAAGTCA
* * *
53898 GTGGCATCCTTTC-AAAGTC-CGCAAGTCA
1 GTGGCACCCTTTCTAAAGCCACACAAGTCA
*** * *
53926 GTGGCTTTCTTT-TAAAGCC-CAAAAGTTA
1 GTGGCACCCTTTCTAAAGCCACACAAGTCA
* * *
53954 GTGGTATCCTTT-TAAAGCCCACACAAGTCG
1 GTGGCACCCTTTCTAAAG-CCACACAAGTCA
** *
53984 GTGGCACCCCCTCTAAAGCCCACACAAG-CTG
1 GTGGCACCCTTTCTAAAG-CCACACAAGTC-A
* * *
54015 GTGGCAACCTTTTCTAAAGCCCACAAAAGTTA
1 GTGGC-ACCCTTTCTAAAG-CCACACAAGTCA
54047 GTGGCA-CCTTACTCTAAAGCCCACACAAG
1 GTGGCACCCTT--TCTAAAG-CCACACAAG
54076 CTGGTGGCAA
Statistics
Matches: 681, Mismatches: 143, Indels: 100
0.74 0.15 0.11
Matches are distributed among these distances:
27 8 0.01
28 238 0.35
29 22 0.03
30 57 0.08
31 94 0.14
32 197 0.29
33 59 0.09
34 6 0.01
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (30 bp):
GTGGCACCCTTTCTAAAGCCACACAAGTCA
Found at i:53548 original size:149 final size:152
Alignment explanation
Indices: 53183--53709 Score: 661
Period size: 149 Copynumber: 3.5 Consensus size: 152
53173 TGGCACCCTA
* * *
53183 TCAAAGCCCACAAGTTAGTGGCACCCTTCTAAAGGCCACAAGTCAATGGCACCCTTCTCTAAAGC
1 TCAAAGCCCACGAGTCAGTGGCACCCTTCTAAAGGCCACAAGTCAGTGGCACCCTTCTCTAAAGC
* * * * * * *
53248 CCACACAAGTTGGTGGCAACCCTTTCCAAAGTCCACAGACGTTAGTGGCAACACCCTTCAAAGTC
66 CCACATAAGTCGATGGCAACCCTTTCCAAAGTCCACACATGTCAGTGGCAACCCCCTTCAAAG-C
* * *
53313 CACACAAGTTGGTGGTATCTTTTTT
130 C-CACGAGTTGGTGGCATC-TCTTT
* * * * *
53338 TCAAAGGCCACGAGTCAGTGGCACCTTTCCAAAGGCCACAAGTTAGTGGCACCCTTTTCTAAAGC
1 TCAAAGCCCACGAGTCAGTGGCACCCTTCTAAAGGCCACAAGTCAGTGGCACCCTTCTCTAAAGC
* *
53403 CCACATAAGTCGATGGCAACCCTTTCCAGAGTCCACACATATCAGTGGC-ACCCCCTTCAAAGCC
66 CCACATAAGTCGATGGCAACCCTTTCCAAAGTCCACACATGTCAGTGGCAACCCCCTTCAAAGCC
**
53467 CACGAGTCAGTGGCA-C-CTTT
131 CACGAGTTGGTGGCATCTCTTT
* *
53487 TCAAAGCCCACGAGTCAGTGGCACCCTTCTGAAGGCCACAAGTCAGTGACACCCTTCTCTAAAGC
1 TCAAAGCCCACGAGTCAGTGGCACCCTTCTAAAGGCCACAAGTCAGTGGCACCCTTCTCTAAAGC
* * * *
53552 CCATATAAGTCAATGGAAACCCTTTCCAAAGTCCACACATGTCGGTGGCAACCCCCCTTCAAAGC
66 CCACATAAGTCGATGGCAACCCTTTCCAAAGTCCACACATGTCAGTGGCAA-CCCCCTTCAAAGC
*
53617 CCACGCAAGTTGGTGGCATCTTTTTT
130 CCACG--AGTTGGTGGCATC-TCTTT
* *
53643 TCAAAGCCCACGAGTTAGTGGCACCCTT-TCAAAGCCCACAAGTCAGTGGCACCCTT-TC-AAAG
1 TCAAAGCCCACGAGTCAGTGGCACCCTTCT-AAAGGCCACAAGTCAGTGGCACCCTTCTCTAAAG
53705 CCCAC
65 CCCAC
53710 GAGTCAGTGA
Statistics
Matches: 321, Mismatches: 43, Indels: 17
0.84 0.11 0.04
Matches are distributed among these distances:
149 104 0.32
150 1 0.00
151 19 0.06
152 11 0.03
153 11 0.03
154 21 0.07
155 101 0.31
156 53 0.17
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.22
Consensus pattern (152 bp):
TCAAAGCCCACGAGTCAGTGGCACCCTTCTAAAGGCCACAAGTCAGTGGCACCCTTCTCTAAAGC
CCACATAAGTCGATGGCAACCCTTTCCAAAGTCCACACATGTCAGTGGCAACCCCCTTCAAAGCC
CACGAGTTGGTGGCATCTCTTT
Found at i:53676 original size:212 final size:209
Alignment explanation
Indices: 53446--53930 Score: 727
Period size: 212 Copynumber: 2.3 Consensus size: 209
53436 CACACATATC
* *
53446 AGTGGCACCCCCTTCAAAGCCCACGAGTCAGTGGCACCTTTTCAAAGCCCACGAGTCAGTGGCAC
1 AGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCACC-TTTCAAAGCCCACGAGTCAGTGGCAC
** * *
53511 CCTTCTGAAGGCCACAAGTCAGTGACACCCTTCTCTAAAGCCCATATAAGTCAATGGAAACCCTT
64 CCTTCCAAAGGCCACAAGTCAGTGACACCATTCTCTAAAGCCCACATAAGTCAATGGAAACCCTT
* *
53576 TCCAAAGTCCACACATGTCGGTGGCAACCCCCCTTCAAAGCCCACGCAAGTTGGTGGCATCTTTT
129 TCCAAAGTCCACACAAGTCGGTGGCAA--CCCCTTCAAAGCCCACACAAGTTGGTGGCATCTTTT
*
53641 TTTCAAAGCCCACGAGTT
192 TTTCAAAGCCCACAAGTT
*
53659 AGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACGAGTCAGTGACACC
1 AGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTCAAAGCCCACGAGTCAGTGGCACC
* * * * *
53724 CTTCCAAAGGCCACAAGTTAGTGGCACCATTCTCTAAAGCCTACATAAGTCGATGGCAACCCTTT
65 CTTCCAAAGGCCACAAGTCAGTGACACCATTCTCTAAAGCCCACATAAGTCAATGGAAACCCTTT
* *
53789 CCAAAGTTCACACAAGTCGGTGGCAACCCCTTCAAGGCCCACACAAGTTGGTGGCATCTTTTTTT
130 CCAAAGTCCACACAAGTCGGTGGCAACCCCTTCAAAGCCCACACAAGTTGGTGGCATCTTTTTTT
*
53854 CAAAGCCCATAAGTT
195 CAAAGCCCACAAGTT
* * *
53869 AGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGTCCGCAAGTCAGTGGC
1 AGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTCAAAGCCCACGAGTCAGTGGC
53931 TTTCTTTTAA
Statistics
Matches: 248, Mismatches: 23, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
210 107 0.43
212 132 0.53
213 9 0.04
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (209 bp):
AGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTCAAAGCCCACGAGTCAGTGGCACCC
TTCCAAAGGCCACAAGTCAGTGACACCATTCTCTAAAGCCCACATAAGTCAATGGAAACCCTTTC
CAAAGTCCACACAAGTCGGTGGCAACCCCTTCAAAGCCCACACAAGTTGGTGGCATCTTTTTTTC
AAAGCCCACAAGTT
Found at i:53954 original size:210 final size:208
Alignment explanation
Indices: 53446--54052 Score: 754
Period size: 210 Copynumber: 2.9 Consensus size: 208
53436 CACACATATC
* *
53446 AGTGGCACCCCCTTCAAAGCCCACGAGTCAGTGGCACCTTTTCAAAGCCCACGAGTCAGTGGCAC
1 AGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCACC-TTTCAAAGCCCACGAGTCAGTGGCAC
* * * * * *
53511 CCTTCTGAAGGCCACAAGTCAGTGACACCCTTCTCTAAAGCCCATATAAGTCAATGGAAACCCTT
64 CCTTCTAAAGGCCACAAGTTAGTGGCA-CCTTCTCTAAAGCCCACATAAGTCGATGGCAACCCTT
* *
53576 TCCAAAGTCCACACATGTCGGTGGCAACCCCCCTTCAAAGCCCACGCAAGTTGGTGGCATCTTTT
128 TCCAAAGTCCACACAAGTCGGTGGCAA--CCCCTTCAAAGCCCACACAAGTTGGTGGCATCTTTT
*
53641 TTTCAAAGCCCACGAGTT
191 TTTCAAAGCCCACAAGTT
*
53659 AGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACGAGTCAGTGACACC
1 AGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTCAAAGCCCACGAGTCAGTGGCACC
* *
53724 CTTCCAAAGGCCACAAGTTAGTGGCACCATTCTCTAAAGCCTACATAAGTCGATGGCAACCCTTT
65 CTTCTAAAGGCCACAAGTTAGTGGCACC-TTCTCTAAAGCCCACATAAGTCGATGGCAACCCTTT
* *
53789 CCAAAGTTCACACAAGTCGGTGGCAACCCCTTCAAGGCCCACACAAGTTGGTGGCATCTTTTTTT
129 CCAAAGTCCACACAAGTCGGTGGCAACCCCTTCAAAGCCCACACAAGTTGGTGGCATCTTTTTTT
*
53854 CAAAGCCCATAAGTT
194 CAAAGCCCACAAGTT
* * * ***
53869 AGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGTCCGCAAGTCAGTGGCTTT
1 AGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTCAAAGCCCACGAGTCAGTGGCACC
* * * * * * **
53934 CTTTTAAAGCCCAAAAGTTAGTGGTATCCTT-T-TAAAGCCCACACAAGTCGGTGGC-ACCCCCT
65 CTTCTAAAGGCCACAAGTTAGTGGCA-CCTTCTCTAAAGCCCACATAAGTCGATGGCAACCCTTT
* * ** * *
53996 CTAAAGCCCACACAAG-CTGGTGGCAACCTTTTCTAAAGCCCACAAAAGTTAGTGGCA
129 CCAAAGTCCACACAAGTC-GGTGGCAACCCCTTC-AAAGCCCACACAAGTTGGTGGCA
54053 CCTTACTCTA
Statistics
Matches: 346, Mismatches: 43, Indels: 15
0.86 0.11 0.04
Matches are distributed among these distances:
206 1 0.00
207 31 0.09
208 40 0.12
209 1 0.00
210 130 0.38
211 4 0.01
212 130 0.38
213 9 0.03
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (208 bp):
AGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTCAAAGCCCACGAGTCAGTGGCACCC
TTCTAAAGGCCACAAGTTAGTGGCACCTTCTCTAAAGCCCACATAAGTCGATGGCAACCCTTTCC
AAAGTCCACACAAGTCGGTGGCAACCCCTTCAAAGCCCACACAAGTTGGTGGCATCTTTTTTTCA
AAGCCCACAAGTT
Found at i:54076 original size:64 final size:63
Alignment explanation
Indices: 53966--54088 Score: 192
Period size: 64 Copynumber: 1.9 Consensus size: 63
53956 GGTATCCTTT
* * *
53966 TAAAGCCCACACAAGTCGGTGGCACCCCCTCTAAAGCCCACACAAGCTGGTGGCAACCTTTTC
1 TAAAGCCCACAAAAGTCAGTGGCACCCACTCTAAAGCCCACACAAGCTGGTGGCAACCTTTTC
* *
54029 TAAAGCCCACAAAAGTTAGTGGCACCTTACTCTAAAGCCCACACAAGCTGGTGGCAACCT
1 TAAAGCCCACAAAAGTCAGTGGCACC-CACTCTAAAGCCCACACAAGCTGGTGGCAACCT
54089 CCCCTCTAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
63 23 0.43
64 31 0.57
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.18
Consensus pattern (63 bp):
TAAAGCCCACAAAAGTCAGTGGCACCCACTCTAAAGCCCACACAAGCTGGTGGCAACCTTTTC
Found at i:54083 original size:32 final size:32
Alignment explanation
Indices: 53966--54129 Score: 163
Period size: 32 Copynumber: 5.1 Consensus size: 32
53956 GGTATCCTTT
53966 TAAAGCCCACACAAG-TCGGTGGCACC-CCCTC
1 TAAAGCCCACACAAGCT-GGTGGCACCTCCCTC
**
53997 TAAAGCCCACACAAGCTGGTGGCAACCT-TTTC
1 TAAAGCCCACACAAGCTGGTGGC-ACCTCCCTC
* * * **
54029 TAAAGCCCACAAAAGTTAGTGGCACCTTACTC
1 TAAAGCCCACACAAGCTGGTGGCACCTCCCTC
54061 TAAAGCCCACACAAGCTGGTGGCAACCTCCCCTC
1 TAAAGCCCACACAAGCTGGTGGC-ACCT-CCCTC
* ** * *
54095 TAAAACCCACACAAATTGGTGGCATCTCCTTC
1 TAAAGCCCACACAAGCTGGTGGCACCTCCCTC
54127 TAA
1 TAA
54130 GTCCAATATC
Statistics
Matches: 110, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
31 25 0.23
32 55 0.50
33 7 0.06
34 23 0.21
ACGTcount: A:0.30, C:0.34, G:0.16, T:0.20
Consensus pattern (32 bp):
TAAAGCCCACACAAGCTGGTGGCACCTCCCTC
Found at i:54129 original size:98 final size:91
Alignment explanation
Indices: 53933--54118 Score: 223
Period size: 98 Copynumber: 2.0 Consensus size: 91
53923 TCAGTGGCTT
* *
53933 TCTTTTAAAGCCCAAAAGTTAGTGGTATCCTTTTAAAGCCCACACAAGTCGGTGGCACCCCCTCT
1 TCTTCTAAAGCCCAAAAGTTAGTGGCATCCTTTTAAAGCCCACACAAGTCGGTGGCACCCCCTCT
* *
53998 AAAGCCCACACAAGCTGGTGGCAACC
66 AAAACCCACACAAACTGGTGGCAACC
*
54024 TTTTCTAAAGCCCACAAAAGTTAGTGGCA-CCTTACTCTAAAGCCCACACAAG-CTGGTGGCAAC
1 TCTTCTAAAG-CC-CAAAAGTTAGTGGCATCCTT--T-TAAAGCCCACACAAGTC-GGTGGC-A-
*
54087 CTCCCCTCTAAAACCCACACAAATTGGTGGCA
58 C-CCCCTCTAAAACCCACACAAACTGGTGGCA
54119 TCTCCTTCTA
Statistics
Matches: 80, Mismatches: 6, Indels: 11
0.82 0.06 0.11
Matches are distributed among these distances:
91 8 0.10
92 6 0.08
93 14 0.17
94 2 0.03
95 21 0.26
96 1 0.01
97 1 0.01
98 27 0.34
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (91 bp):
TCTTCTAAAGCCCAAAAGTTAGTGGCATCCTTTTAAAGCCCACACAAGTCGGTGGCACCCCCTCT
AAAACCCACACAAACTGGTGGCAACC
Found at i:55241 original size:30 final size:31
Alignment explanation
Indices: 55207--55282 Score: 136
Period size: 31 Copynumber: 2.5 Consensus size: 31
55197 TGAACAGTAC
*
55207 ATGTATCGATTCATTCTA-TTTTTTACCTAG
1 ATGTATCGATACATTCTATTTTTTTACCTAG
55237 ATGTATCGATACATTCTATTTTTTTACCTAG
1 ATGTATCGATACATTCTATTTTTTTACCTAG
55268 ATGTATCGATACATT
1 ATGTATCGATACATT
55283 TTTTAATGTA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 17 0.39
31 27 0.61
ACGTcount: A:0.26, C:0.16, G:0.11, T:0.47
Consensus pattern (31 bp):
ATGTATCGATACATTCTATTTTTTTACCTAG
Found at i:56165 original size:204 final size:205
Alignment explanation
Indices: 55815--56222 Score: 737
Period size: 204 Copynumber: 2.0 Consensus size: 205
55805 CCAAAAGAAA
*
55815 TGTTAGGATCTTGGTTTTGATATAACAAAGGATTGAATAAAACCGGAAATTATTTTGAAAATACC
1 TGTTAGGATCTTGGTTTTGATATAACAAAGGATTGAATAAAACCGGAAATTATTTTGAAAATAAC
55880 AAAAATATGTTTTATTCAATTAAGTACTTTATAAATTTTGTACCAAATGATTTTTGATTCACCAA
66 AAAAATATGTTTTATTCAATTAAGTACTTTATAAATTTTGTACCAAATGATTTTTGATTCACCAA
* * * *
55945 ATGTTTTCTGGTTAAGTATAAATGTTTTCAAGGCTTAAAATGATTGA-TTTTAAGATAGAATATA
131 ATGTTTTCTAGTTAAGTATAAATGTTTTCAAAGCTTAAAATGATTGATTTTTAAGATAAAACATA
56009 TCAAAGTATC
196 TCAAAGTATC
56019 TGTTAGGATCTTGGTTTTGATATAACAAAGGATTGAATAAAACCGGAAATTATTTTGAAAATAAC
1 TGTTAGGATCTTGGTTTTGATATAACAAAGGATTGAATAAAACCGGAAATTATTTTGAAAATAAC
* *
56084 AATAATATGTTTTATTCAATTAAGTGCTTTATAAATTTTGTACCAAATGATTTTTGATTCACCAA
66 AAAAATATGTTTTATTCAATTAAGTACTTTATAAATTTTGTACCAAATGATTTTTGATTCACCAA
*
56149 ATGTTTTCTAGTTAAGTATAAATGTTTTCAAAGCTTAAAATGATTGATTTTTAAGTTAAAACATA
131 ATGTTTTCTAGTTAAGTATAAATGTTTTCAAAGCTTAAAATGATTGATTTTTAAGATAAAACATA
56214 TCAAAGTAT
196 TCAAAGTAT
56223 TGATACATAG
Statistics
Matches: 195, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
204 172 0.88
205 23 0.12
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.40
Consensus pattern (205 bp):
TGTTAGGATCTTGGTTTTGATATAACAAAGGATTGAATAAAACCGGAAATTATTTTGAAAATAAC
AAAAATATGTTTTATTCAATTAAGTACTTTATAAATTTTGTACCAAATGATTTTTGATTCACCAA
ATGTTTTCTAGTTAAGTATAAATGTTTTCAAAGCTTAAAATGATTGATTTTTAAGATAAAACATA
TCAAAGTATC
Found at i:58680 original size:21 final size:21
Alignment explanation
Indices: 58647--58696 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
58637 TTGCAAGTTG
*
58647 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
58669 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
58690 AAATAAA
1 AAATAAA
58697 ATTTTCATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:62612 original size:13 final size:13
Alignment explanation
Indices: 62594--62632 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
62584 ACATTTTACT
62594 TTGTATCGATACA
1 TTGTATCGATACA
62607 TTGTATCGATACA
1 TTGTATCGATACA
62620 TTGTATCGATACA
1 TTGTATCGATACA
62633 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:65200 original size:13 final size:13
Alignment explanation
Indices: 65182--65207 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
65172 TACACCAAGT
65182 ATGTATCGATACA
1 ATGTATCGATACA
65195 ATGTATCGATACA
1 ATGTATCGATACA
65208 CCAAAAATTG
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:65205 original size:32 final size:33
Alignment explanation
Indices: 65164--65227 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
65154 TCGCCAAACT
**
65164 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
65196 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
65228 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:66151 original size:13 final size:13
Alignment explanation
Indices: 66133--66157 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66123 ACACAAAGTA
66133 TGTATCGATACAT
1 TGTATCGATACAT
66146 TGTATCGATACA
1 TGTATCGATACA
66158 CATTTAAAAG
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:66275 original size:19 final size:19
Alignment explanation
Indices: 66251--66300 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
66241 TAGCCAAACT
66251 TGTATCGATACACAAAGTA
1 TGTATCGATACACAAAGTA
66270 TGTATCGATACACAAAGTA
1 TGTATCGATACACAAAGTA
*
66289 CGTATCGATACA
1 TGTATCGATACA
66301 TTGTATCGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (19 bp):
TGTATCGATACACAAAGTA
Found at i:72303 original size:13 final size:13
Alignment explanation
Indices: 72285--72323 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
72275 ACATCATTCT
72285 TTGTATCGATACA
1 TTGTATCGATACA
72298 TTGTATCGATACA
1 TTGTATCGATACA
*
72311 CTGTATCGATACA
1 TTGTATCGATACA
72324 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:73851 original size:137 final size:137
Alignment explanation
Indices: 73605--73888 Score: 514
Period size: 137 Copynumber: 2.1 Consensus size: 137
73595 CCCTGAAAAG
*
73605 TATCGATACATATTTAAAAGTATCGATACATGTTGCATTGTATCGATACATGAAAAAGATGTATC
1 TATCGATACATATTTAAAAGTATCGATACATGTTACATTGTATCGATACATGAAAAAGATGTATC
* *
73670 GATACATGTCTTTGGGATTTCTTGGCAGTAGCCAAACTTGTATCGATACACAAAGTATGTATCGA
66 GATACATGTCATTGGGATTTCTTGGCAGTAGCCAAACTTATATCGATACACAAAGTATGTATCGA
73735 TACATTA
131 TACATTA
* *
73742 TATCGTTACATATTTAAAAGTATCGATATATGTTACATTGTATCGATACATGAAAAAGATGTATC
1 TATCGATACATATTTAAAAGTATCGATACATGTTACATTGTATCGATACATGAAAAAGATGTATC
73807 GATACATGTCATTGGGATTTCTTGGCAGTAGCCAAACTTATATCGATACACAAAGTATGTATCGA
66 GATACATGTCATTGGGATTTCTTGGCAGTAGCCAAACTTATATCGATACACAAAGTATGTATCGA
*
73872 TACATTG
131 TACATTA
73879 TATCGATACA
1 TATCGATACA
73889 CCATAAAATG
Statistics
Matches: 140, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
137 140 1.00
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (137 bp):
TATCGATACATATTTAAAAGTATCGATACATGTTACATTGTATCGATACATGAAAAAGATGTATC
GATACATGTCATTGGGATTTCTTGGCAGTAGCCAAACTTATATCGATACACAAAGTATGTATCGA
TACATTA
Found at i:73882 original size:13 final size:13
Alignment explanation
Indices: 73864--73888 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
73854 ACACAAAGTA
73864 TGTATCGATACAT
1 TGTATCGATACAT
73877 TGTATCGATACA
1 TGTATCGATACA
73889 CCATAAAATG
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:73908 original size:33 final size:32
Alignment explanation
Indices: 73847--73911 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 32
73837 GCCAAACTTA
* *
73847 TATCGATACACAAAGTATGTATCGATACATTG
1 TATCGATACACAAAGAATGTATCAATACATTG
73879 TATCGATACACCATAA-AATGTATCAATACATTG
1 TATCGATACA-CA-AAGAATGTATCAATACATTG
73912 GCTTGCAACG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 10 0.34
33 17 0.59
34 2 0.07
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (32 bp):
TATCGATACACAAAGAATGTATCAATACATTG
Found at i:73952 original size:137 final size:136
Alignment explanation
Indices: 73605--73921 Score: 408
Period size: 137 Copynumber: 2.3 Consensus size: 136
73595 CCCTGAAAAG
* * * *
73605 TATCGATACATATTTAAAAGTATCGATACATGTTG-CATTGTATCGATACATGAAAAAGATGTAT
1 TATCGATACACA-TTAAAAGTATCAATACATG-TGACATTGCAACGATACATGAAAAAGATGTAT
* * *
73669 CGATACATGTCTTTGGGATTTCTTGGCAGTAGCCAAACTTGTATCGATACACAAAGTATGTATCG
64 CAATACATGTCATTGGGATTTCTTGGCAGTAGCCAAACTTATATCGATACACAAAGTATGTATCG
73734 ATACATTA
129 ATACATTA
* * * * * * *
73742 TATCGTTACATATTTAAAAGTATCGATATATGTTACATTGTATCGATACATGAAAAAGATGTATC
1 TATCGATACACA-TTAAAAGTATCAATACATGTGACATTGCAACGATACATGAAAAAGATGTATC
*
73807 GATACATGTCATTGGGATTTCTTGGCAGTAGCCAAACTTATATCGATACACAAAGTATGTATCGA
65 AATACATGTCATTGGGATTTCTTGGCAGTAGCCAAACTTATATCGATACACAAAGTATGTATCGA
*
73872 TACATTG
130 TACATTA
*
73879 TATCGATACACCA-TAAAATGTATCAATACAT-TGGC-TTGCAACG
1 TATCGATACA-CATTAAAA-GTATCAATACATGTGACATTGCAACG
73922 GCTAGTAATG
Statistics
Matches: 163, Mismatches: 14, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
135 6 0.04
136 8 0.05
137 148 0.91
138 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (136 bp):
TATCGATACACATTAAAAGTATCAATACATGTGACATTGCAACGATACATGAAAAAGATGTATCA
ATACATGTCATTGGGATTTCTTGGCAGTAGCCAAACTTATATCGATACACAAAGTATGTATCGAT
ACATTA
Found at i:78260 original size:13 final size:13
Alignment explanation
Indices: 78242--78298 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
78232 CATAAAGTGT
78242 TGTATCGATACAA
1 TGTATCGATACAA
*
78255 TGTATCAATACATAA
1 TGTATCGATAC--AA
78270 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
78287 TGTATCGATACA
1 TGTATCGATACA
78299 TAAGTTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 22 0.61
15 2 0.06
17 2 0.06
19 10 0.28
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:78277 original size:32 final size:32
Alignment explanation
Indices: 78222--78319 Score: 169
Period size: 32 Copynumber: 3.0 Consensus size: 32
78212 TTCAACGATT
78222 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
*
78255 TGTATCAATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
78287 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
78319 T
1 T
78320 TTAAGCTACT
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 50 0.81
33 12 0.19
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:78311 original size:19 final size:18
Alignment explanation
Indices: 78220--78317 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
78210 ATTTCAACGA
78220 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
78239 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
*
78255 --TGTATCAATACATAAG
1 TTTGTATCGATACATAAG
78271 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
78287 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
78303 TTTTGTATCGATACA
1 -TTTGTATCGATACA
78318 ATTTAAGCTA
Statistics
Matches: 64, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
13 21 0.33
15 4 0.06
17 4 0.06
19 23 0.36
20 12 0.19
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:78386 original size:20 final size:20
Alignment explanation
Indices: 78361--78412 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
78351 ATTACTCAAA
78361 TGTATCGATACACTGATCTT
1 TGTATCGATACACTGATCTT
78381 TGTATCGATACACTGATCTT
1 TGTATCGATACACTGATCTT
78401 TGTATCGATACA
1 TGTATCGATACA
78413 TGCAGGCAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.38
Consensus pattern (20 bp):
TGTATCGATACACTGATCTT
Found at i:78459 original size:52 final size:52
Alignment explanation
Indices: 78401--78521 Score: 197
Period size: 52 Copynumber: 2.3 Consensus size: 52
78391 CACTGATCTT
* * *
78401 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATATATTATAAAA
1 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
78453 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATTGATACACTATTAAA
1 TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATAAAA
78505 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
78522 ACAACTTTTC
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGCAGGAAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:78712 original size:9 final size:9
Alignment explanation
Indices: 78695--78730 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
78685 CAAGTTCATT
*
78695 GGCTCCCAA
1 GGCTTCCAA
78704 GGCTTCCAA
1 GGCTTCCAA
78713 GGCTTCCAA
1 GGCTTCCAA
*
78722 GGCTGCCAA
1 GGCTTCCAA
78731 ACCTTATCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.22, C:0.36, G:0.25, T:0.17
Consensus pattern (9 bp):
GGCTTCCAA
Found at i:79677 original size:13 final size:13
Alignment explanation
Indices: 79659--79684 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
79649 TACAGCAAGT
79659 ATGTATCGATACA
1 ATGTATCGATACA
79672 ATGTATCGATACA
1 ATGTATCGATACA
79685 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:81934 original size:21 final size:21
Alignment explanation
Indices: 81901--81945 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
81891 TTGCAAGTTG
*
81901 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
81923 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
81943 AAA
1 AAA
81946 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:85868 original size:13 final size:13
Alignment explanation
Indices: 85850--85875 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
85840 ACATTTTTCT
85850 TTGTATCGATACA
1 TTGTATCGATACA
85863 TTGTATCGATACA
1 TTGTATCGATACA
85876 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:86039 original size:20 final size:20
Alignment explanation
Indices: 85996--86041 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
85986 AAATCTTTTG
85996 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
86017 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
86037 CAAAA
1 CAAAA
86042 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:88229 original size:20 final size:20
Alignment explanation
Indices: 88206--88258 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
88196 ACAATTCAAA
88206 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
88226 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
88246 GTATCGATACATG
1 GTATCGATACATG
88259 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:91702 original size:52 final size:50
Alignment explanation
Indices: 91572--91707 Score: 148
Period size: 52 Copynumber: 2.6 Consensus size: 50
91562 TTCTGGAAAG
*
91572 AAAATGTATCGATACATTTTCATTATATCGATACATTCTAGGTTTTAACCC
1 AAAA-GTATCGATACATTTTCATTGTATCGATACATTCTAGGTTTTAACCC
* * * * *
91623 TAATGTATTGATACATTATTCATTGTATC-ATTATATTCTAGGTTTTTGACCC
1 AAAAGTATCGATACATT-TTCATTGTATCGA-TACATTCTAGG-TTTTAACCC
* *
91675 AAAAGTATCAATACATTCTTCAATGTATCGATA
1 AAAAGTATCGATACATT-TTCATTGTATCGATA
91708 AATGCAAGCA
Statistics
Matches: 69, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
50 13 0.19
51 22 0.32
52 33 0.48
53 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.41
Consensus pattern (50 bp):
AAAAGTATCGATACATTTTCATTGTATCGATACATTCTAGGTTTTAACCC
Found at i:95740 original size:19 final size:21
Alignment explanation
Indices: 95702--95743 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
95692 CTGAGAGCAT
95702 AAAAAAAGAGAACTAGAAGAG
1 AAAAAAAGAGAACTAGAAGAG
95723 AAAAAAAGAGAAC-A-AAGAG
1 AAAAAAAGAGAACTAGAAGAG
95742 AA
1 AA
95744 GACTAAGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 7 0.33
20 1 0.05
21 13 0.62
ACGTcount: A:0.71, C:0.05, G:0.21, T:0.02
Consensus pattern (21 bp):
AAAAAAAGAGAACTAGAAGAG
Found at i:107340 original size:19 final size:19
Alignment explanation
Indices: 107301--107352 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
107291 TGTATAGATA
* **
107301 CATTGTATCAATACATGCT
1 CATTGTATCGATACACACT
107320 CATTGTATCGATACACACT
1 CATTGTATCGATACACACT
*
107339 CAATTATATCGATA
1 C-ATTGTATCGATA
107353 TAAAAAATTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.35
Consensus pattern (19 bp):
CATTGTATCGATACACACT
Found at i:115835 original size:19 final size:20
Alignment explanation
Indices: 115791--115844 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
115781 CAGCCAATCT
**
115791 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
115811 CATGTATCGATACAATT-AA
1 CATGTATCGATACAATTGAA
115830 CATGTATCGATACAA
1 CATGTATCGATACAA
115845 AGCATAATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:117151 original size:13 final size:13
Alignment explanation
Indices: 117133--117159 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
117123 ACATTATGCT
117133 TTGTATCGATACA
1 TTGTATCGATACA
117146 TTGTATCGATACA
1 TTGTATCGATACA
117159 T
1 T
117160 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:117155 original size:33 final size:32
Alignment explanation
Indices: 117113--117177 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
117103 ACTCATCCAG
*
117113 TTGTATCGATACAT-TATGCTTTGTATCGATACA
1 TTGTATCGATACATGT-T-CATTGTATCGATACA
117146 TTGTATCGATACATGTTCATTGTATCGATACA
1 TTGTATCGATACATGTTCATTGTATCGATACA
117178 CACTTAATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.47
33 15 0.50
34 1 0.03
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (32 bp):
TTGTATCGATACATGTTCATTGTATCGATACA
Found at i:117168 original size:19 final size:19
Alignment explanation
Indices: 117144--117199 Score: 76
Period size: 20 Copynumber: 2.9 Consensus size: 19
117134 TGTATCGATA
117144 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGTT
**
117163 CATTGTATCGATACACACTT
1 CATTGTATCGATACA-TGTT
*
117183 AATTGTATCGATACATG
1 CATTGTATCGATACATG
117200 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (19 bp):
CATTGTATCGATACATGTT
Found at i:117247 original size:13 final size:13
Alignment explanation
Indices: 117229--117253 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
117219 TATCACTGTT
117229 TGTATCGATACAA
1 TGTATCGATACAA
117242 TGTATCGATACA
1 TGTATCGATACA
117254 TAGTAAAATG
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:118207 original size:31 final size:30
Alignment explanation
Indices: 118149--118208 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 30
118139 CCTTACAACA
118149 CTATCTTTCAAGGCTAAGATAGAAACCTCC
1 CTATCTTTCAAGGCTAAGATAGAAACCTCC
*
118179 CTATCTTTTCACGAGCTAAGATAG-AACCTC
1 CTATC-TTTCAAG-GCTAAGATAGAAACCTC
118209 TCTCGTTGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 5 0.19
31 12 0.44
32 10 0.37
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (30 bp):
CTATCTTTCAAGGCTAAGATAGAAACCTCC
Found at i:118737 original size:10 final size:10
Alignment explanation
Indices: 118724--118748 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
118714 AGTTCTAAAC
118724 AGTGATGAAT
1 AGTGATGAAT
118734 AGTGATGAAT
1 AGTGATGAAT
118744 AGTGA
1 AGTGA
118749 AAAATGAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.32, T:0.28
Consensus pattern (10 bp):
AGTGATGAAT
Found at i:124813 original size:20 final size:20
Alignment explanation
Indices: 124760--124814 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
124750 AAATTCCCAG
**
124760 ATGTATCGATACAAAGATCA
1 ATGTATCGATACATTGATCA
124780 ATGTATCGATACATTGAAT-A
1 ATGTATCGATACATTG-ATCA
124800 ATGTATCGATACATT
1 ATGTATCGATACATT
124815 TCCTTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.94
21 2 0.06
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGATCA
Found at i:125823 original size:49 final size:50
Alignment explanation
Indices: 125757--125936 Score: 207
Period size: 49 Copynumber: 3.8 Consensus size: 50
125747 TAGGAATGTT
*
125757 AAAGATGCCAATATGCTGATTCAAGGCCAACGATATTAGATTTAAAGATG
1 AAAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGATTTAAAGATG
* * * * *
125807 AAAG-TGCCAATTTGCTGATTCAAGGCTAGCGACATTGGTTTTAAAGAT-
1 AAAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGATTTAAAGATG
* * * *
125855 AAAGTTGCCAATATGCTGATTCAAGGCCAGCGGTATTGGACTT-AA-A-G
1 AAAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGATTTAAAGATG
125902 ---G-TGCCAATATGCTGATTCAAGGCCAACGATATTGG
1 AAAGATGCCAATATGCTGATTCAAGGCCAACGATATTGG
125937 GCTTATGCCA
Statistics
Matches: 114, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
43 32 0.28
44 1 0.01
47 1 0.01
48 6 0.05
49 70 0.61
50 4 0.04
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.27
Consensus pattern (50 bp):
AAAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGATTTAAAGATG
Found at i:125957 original size:39 final size:40
Alignment explanation
Indices: 125860--126291 Score: 217
Period size: 39 Copynumber: 10.0 Consensus size: 40
125850 AAGATAAAGT
* *
125860 TGCCAATATGCTGATTCAAGGCCAGCGGTATTGGACTTAAA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-AA
*
125901 GGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTT-A
1 --TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAA
* * * *
125942 TGCCAATGTGCTGATTCAAGGCCAGCGACATCGGTCTTAAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT--A-A
* *
125985 TGAAAGTACCAATATACTGATTTAAGGCCAGCGATATTGGGCTT-A
1 T----G--CCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAA
* ** * *
126030 TGCCAATGTGCTGATTCAAGGCTTGCGACATTGGTCTTAAAGACAA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT------AA
* ** *
126076 GGTGCTAATATGCTGATTCAAGGCCAATGATATTTGGCTT-A
1 --TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAA
* * * * *
126117 TGCCAATGTG-TAGATTCAAGCCCAACGACATTGGTCTTAAAGACAA
1 TGCCAATATGCT-GATTCAAGGCCAGCGATATTGGGCTT------AA
*
126163 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT-G
1 --TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAA
* * * * *
126204 TGCCAATGTGCTGATTCAAGGCCAACAACATTGGTCTTAAAGACAA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT------AA
* *
126250 GGTGCCAATATGCTGATTCAATGCCAGCGATATTGGACTTAA
1 --TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAA
126292 AGGTGCCACA
Statistics
Matches: 295, Mismatches: 55, Indels: 79
0.69 0.13 0.18
Matches are distributed among these distances:
38 1 0.00
39 124 0.42
41 3 0.01
42 2 0.01
43 37 0.13
45 2 0.01
46 2 0.01
47 1 0.00
48 92 0.31
49 31 0.11
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (40 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAA
Found at i:126146 original size:87 final size:87
Alignment explanation
Indices: 125899--126290 Score: 570
Period size: 87 Copynumber: 4.5 Consensus size: 87
125889 ATTGGACTTA
125899 AAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTATGCCAATGTGCTGATTCAAGGC
1 AAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTATGCCAATGTGCTGATTCAAGGC
* * *
125964 CAGCGACATCGGTCTTAAAGATG
66 CAACGACATTGGTCTTAAAGA-C
* * * * *
125987 AAAGTACCAATATACTGATTTAAGGCCAGCGATATTGGGCTTATGCCAATGTGCTGATTCAAGGC
1 AAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTATGCCAATGTGCTGATTCAAGGC
***
126052 TTGCGACATTGGTCTTAAAGAC
66 CAACGACATTGGTCTTAAAGAC
* * * *
126074 AAGGTGCTAATATGCTGATTCAAGGCCAATGATATTTGGCTTATGCCAATGTG-TAGATTCAAGC
1 AAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTATGCCAATGTGCT-GATTCAAGG
126138 CCAACGACATTGGTCTTAAAGAC
65 CCAACGACATTGGTCTTAAAGAC
* *
126161 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGC
1 AAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTATGCCAATGTGCTGATTCAAGGC
*
126226 CAACAACATTGGTCTTAAAGAC
66 CAACGACATTGGTCTTAAAGAC
* * *
126248 AAGGTGCCAATATGCTGATTCAATGCCAGCGATATTGGACTTA
1 AAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTA
126291 AAGGTGCCAC
Statistics
Matches: 271, Mismatches: 31, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
86 1 0.00
87 191 0.70
88 79 0.29
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (87 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTATGCCAATGTGCTGATTCAAGGC
CAACGACATTGGTCTTAAAGAC
Found at i:126198 original size:48 final size:48
Alignment explanation
Indices: 126129--126293 Score: 177
Period size: 48 Copynumber: 3.6 Consensus size: 48
126119 CCAATGTGTA
*
126129 GATTCAAGCCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCT
1 GATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCT
* * * *
126177 GATTCAAGGCCAGCGATATTGGGCTT---------GTGCCAATGTGCT
1 GATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCT
*
126216 GATTCAAGGCCAACAACATTGGTCTTAAAGACAAGGTGCCAATATGCT
1 GATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCT
* * * *
126264 GATTCAATGCCAGCGATATTGGACTTAAAG
1 GATTCAAGGCCAACGACATTGGTCTTAAAG
126294 GTGCCACAGA
Statistics
Matches: 93, Mismatches: 15, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
39 34 0.37
48 59 0.63
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.25
Consensus pattern (48 bp):
GATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCT
Found at i:126438 original size:59 final size:59
Alignment explanation
Indices: 126357--126916 Score: 457
Period size: 59 Copynumber: 8.9 Consensus size: 59
126347 TTAAAAGGGC
* * *
126357 AAAGGGTGCCACAGAGTCGTGGACTTAAAAAGAAAAGGTGCCATGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAGGTGCCACGGAGTTGTGGACTTA
* *** * *
126416 AAAGGGTGGCAAAAAGTTGTGGACTTAAAAAGAAAATGTGTCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAGGTGCCACGGAGTTGTGGACTTA
* * * * * *
126475 AAAGGAACAAGGTGCCACGAAGTTGTGGACTTAAAAGGGAAAAGATGCCATGGAGTTATCGACTT
1 AAA-G-----GGTGCCACGGAGTTGTGGACTTAAAA-AGAAAAGGTGCCACGGAGTTGTGGACTT
126540 A
59 A
* *
126541 AAA-GGTGCCATGGATTTGTGGACTTAAAAAGAAAAGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAGGTGCCACGGAGTTGTGGACTTA
126599 AAAGGAACAAGGTGCCACGGAGTTGTGGACTT-AAAAG----GGTGCCACGGAGTTGTGGACTTA
1 AAA-G-----GGTGCCACGGAGTTGTGGACTTAAAAAGAAAAGGTGCCACGGAGTTGTGGACTTA
* * *
126659 AAAGGGTGCCACGAAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAA
1 AAAGGGTGCCACGGAGTTGTGGACTTAAAAAG-AAAAG-GTGCCACGGAGTTGTGGACTT-A
* * * *
126721 AAAGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTCTAGACTTA
1 AAAG-----GGTGCCACGGAGTTGTGGACTTAAAAAGAA-AAGGTGCCACGGAGTTGTGGACTTA
* *
126786 AAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCT
1 AAAGG-----G-TGCCACGGAGTTGTGGACTTAAAAAG-AAAAG-GTGCCACGGAGTTGTGGAC-
126851 TTAA
57 TT-A
* * *
126855 AAAGAAAAAGGTGCCACGAAGTTATGGGCTTTAAAAAGAAAAAGGATGCCACGGAGTTGTGG
1 AAAG-----GGTGCCACGGAGTTGTGGAC-TTAAAAAG-AAAAGG-TGCCACGGAGTTGTGG
126917 GCTTTTAAAA
Statistics
Matches: 413, Mismatches: 43, Indels: 80
0.77 0.08 0.15
Matches are distributed among these distances:
54 21 0.05
55 4 0.01
58 27 0.07
59 79 0.19
60 29 0.07
61 20 0.05
62 5 0.01
64 5 0.01
65 49 0.12
66 73 0.18
67 47 0.11
68 18 0.04
69 35 0.08
74 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.20
Consensus pattern (59 bp):
AAAGGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAGGTGCCACGGAGTTGTGGACTTA
Found at i:126504 original size:33 final size:32
Alignment explanation
Indices: 126290--126954 Score: 582
Period size: 33 Copynumber: 20.8 Consensus size: 32
126280 TATTGGACTT
* * *
126290 AAAGGTGCCACAGAGTTGTGGACAT-ATAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGG-A
* * * *
126322 AAAGGGATGCCATGAAGGTGTGGGCTTAAAAGGGCA
1 AAA-GG-TGCCACGGAGTTGTGGACTTAAAA-GG-A
* * * *
126358 AAGGGTGCCACAGAGTCGTGGACTTAAAAAGA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
*
126390 AAAGGTGCCATGGAGTTGTGGACTTAAAA-G-
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
* *** *
126420 ---GGTGGCAAAAAGTTGTGGACTTAAAAAGA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
* *
126449 AAATGTGTCACGGAGTTGTGGACTTAAAAGGA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
*
126481 ACAAGGTGCCACGAAGTTGTGGACTTAAAAGGGA
1 A-AAGGTGCCACGGAGTTGTGGACTTAAAA-GGA
* * * *
126515 AAAGATGCCATGGAGTTATCGACTT------A
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
* * *
126541 AAAGGTGCCATGGATTTGTGGACTTAAAAAGA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
126573 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
126605 ACAAGGTGCCACGGAGTTGTGGACTTAAAA-G-
1 A-AAGGTGCCACGGAGTTGTGGACTTAAAAGGA
126636 ---GGTGCCACGGAGTTGTGGACTTAAAA-G-
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
*
126663 ---GGTGCCACGAAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGG-A
* *
126693 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGACTT-AAAAGGA
*
126727 AAAGGTGCCACAGAGTTGTGGACTTAAAAGGA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
* *
126759 ACAAGGTGCCACGGAGTTCTAGACTTAAAAGGAA
1 A-AAGGTGCCACGGAGTTGTGGACTTAAAAGG-A
*
126793 AAAGATGCCACGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGG-A
* *
126826 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGAC-TT-AAAAGGA
* * * *
126861 AAAGGTGCCACGAAGTTATGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGGA
* *
126895 AAAGGATGCCACGGAGTTGTGGGCTTTTAAAAGAA
1 AAAGG-TGCCACGGAGTTGTGGAC--TTAAAAGGA
* *
126930 AAAGGTGCCACAGAGTCGTGGACTT
1 AAAGGTGCCACGGAGTTGTGGACTT
126955 TGGGAAGAGA
Statistics
Matches: 532, Mismatches: 68, Indels: 66
0.80 0.10 0.10
Matches are distributed among these distances:
26 22 0.04
27 74 0.14
28 2 0.00
31 1 0.00
32 94 0.18
33 155 0.29
34 127 0.24
35 44 0.08
36 13 0.02
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.20
Consensus pattern (32 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
Found at i:126509 original size:124 final size:126
Alignment explanation
Indices: 126283--126916 Score: 634
Period size: 124 Copynumber: 5.0 Consensus size: 126
126273 CCAGCGATAT
* * * * * * *
126283 TGGACTT-AAA-GGTGCCAC-AGAGTTGTGGACAT-ATAGGAAAAAGGGATGCCATGAAGGTGTG
1 TGGACTTAAAAGGGTGCCACGA-AGTTGTGGACTTAAAAAGAAAAAGAG-TGCCACGGAGTTGTG
* * * * * *
126344 GGCTTAAAAGGGCAAAGGGTGCCAC-AGAGTCGTGGACTTAAAAAGAAAAGGTGCCATGGAGTTG
64 GACTTAAAA-AGAAAAAGGTGCCACGA-AGTTGTGGACTTAAAAAGAAAAGGTGCCACGGAGTTG
* ** * *
126408 TGGACTTAAAAGGGTGGCAAAAAGTTGTGGACTTAAAAAG-AAAA-TGTGTCACGGAGTTGTGGA
1 TGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGA
* * * * * *
126471 CTTAAAAGGAACAAGGTGCCACGAAGTTGTGGACTTAAAAGGGAAAAGATGCCATGGAGTTA
66 CTTAAAAAGAAAAAGGTGCCACGAAGTTGTGGACTTAAAA-AGAAAAGGTGCCACGGAGTTG
* * * *
126533 TCGACTTAAAA-GGTGCCATGGATTTGTGGACTTAAAAAG-AAAAG-GTGCCACGGAGTTGTGGA
1 TGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGA
* * *
126595 CTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTT-AAAAG----GGTGCCACGGAGTTG
66 CTTAAAAAGAAAAAGGTGCCACGAAGTTGTGGACTTAAAAAGAAAAGGTGCCACGGAGTTG
* *
126651 TGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGG
1 TGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGA
* *
126716 CTTAAAAAGAAAAAGGTGCCAC-AGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTC
66 CTTAAAAAGAAAAAGGTGCCACGA-AGTTGTGGACTTAAAAAGAA-AAGGTGCCACGGAGTTG
* * *
126778 TAGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGT
1 TGGACTTAAAAGG-----G-TGCCACGAAGTTGTGGACTTAAAAAGAAAAAGAGTGCCACGGAGT
* * *
126843 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGAAGTTATGGGCTTTAAAAAGAAAAAGGATGCCACG
60 TGTGGAC-TTAAAAAGAAAAAGGTGCCACGAAGTTGTGGAC-TTAAAAAG-AAAAGG-TGCCACG
126908 GAGTTG
121 GAGTTG
126914 TGG
1 TGG
126917 GCTTTTAAAA
Statistics
Matches: 433, Mismatches: 48, Indels: 45
0.82 0.09 0.09
Matches are distributed among these distances:
118 22 0.05
119 24 0.06
120 5 0.01
121 49 0.11
122 5 0.01
123 3 0.01
124 106 0.24
125 55 0.13
126 4 0.01
127 47 0.11
128 4 0.01
132 1 0.00
133 51 0.12
134 29 0.07
135 12 0.03
136 16 0.04
ACGTcount: A:0.35, C:0.13, G:0.32, T:0.20
Consensus pattern (126 bp):
TGGACTTAAAAGGGTGCCACGAAGTTGTGGACTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGA
CTTAAAAAGAAAAAGGTGCCACGAAGTTGTGGACTTAAAAAGAAAAGGTGCCACGGAGTTG
Found at i:126754 original size:154 final size:159
Alignment explanation
Indices: 126362--126954 Score: 527
Period size: 154 Copynumber: 3.8 Consensus size: 159
126352 AGGGCAAAGG
* * *
126362 GTGCCAC-AGAGTCGTGGAC-TTAAAAAG-AAAAGGTGCCATGGAGTTGTGGACTT-AAAAG---
1 GTGCCACGA-AGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTAAAAAGAAA
* *** * * *
126420 --GGTGGCAAAAAGTTGTGGACTTAAAAAGAA-AATGTGTCACGGAGTTGTGGACTTAAAAGGAA
65 AAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGG--
* * *
126482 CAAGGTGCCACGAAGTTGTGGACTTAAAAGGGAAAA
128 --AGATGCCACGGAGTTGTGGACTTAAAA-GG-AGA
* * * * * * *
126518 GATGCCATGGAGTTATCGAC-TT-------AAAAGGTGCCATGGATTTGTGGACTTAAAAAG-AA
1 G-TGCCACGAAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTAAAAAGAAA
126574 AAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGG-G
65 AAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGGAG
126638 -TGCCACGGAGTTGTGGACTTAAAA-G-G-
130 ATGCCACGGAGTTGTGGACTTAAAAGGAGA
*
126664 GTGCCACGAAGTTGTGGAC-TTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAAA
1 GTGCCACGAAGTTGTGGACTTTAAAAAGAAAAAG-GTGCCACGGAGTTGTGGGCTTAAAAAGAAA
* * *
126728 AAGGTGCCACAGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTCTAGACTTAAAAGGAA
65 AAGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGG--
126793 AAAGATGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
128 --AGATGCCACGGAGTTGTGGACTTAAAAGG----AGA
* * * *
126831 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGAAGTTATGGGCTTTAAAAAGAAA
1 GTGCCACGAAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGC-TTAAAAAGAAA
* * * *
126896 AAGGATGCCACGGAGTTGTGGGCTTTTAAAA-GAAAAAGGTGCCACAGAGTCGTGGACTT
65 AAGG-TGCCACGGAGTTGTGGAC--TTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTT
126955 TGGGAAGAGA
Statistics
Matches: 365, Mismatches: 37, Indels: 56
0.80 0.08 0.12
Matches are distributed among these distances:
145 16 0.04
146 1 0.00
149 1 0.00
151 48 0.13
152 11 0.03
153 24 0.07
154 62 0.17
156 26 0.07
157 42 0.12
159 1 0.00
160 24 0.07
161 1 0.00
166 1 0.00
167 34 0.09
168 28 0.08
169 16 0.04
170 23 0.06
171 6 0.02
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.21
Consensus pattern (159 bp):
GTGCCACGAAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTAAAAAGAAAA
AGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAGGAGA
TGCCACGGAGTTGTGGACTTAAAAGGAGA
Found at i:126976 original size:30 final size:30
Alignment explanation
Indices: 126935--127337 Score: 428
Period size: 30 Copynumber: 13.0 Consensus size: 30
126925 AAGAAAAAGG
* *
126935 TGCCACAGAGTCGTGGACTTTGGGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
126965 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
* *
126995 TTGCCACTGAGTCATGGACTTTGAAGAAAAGA
1 -TGCCACTGAGTCGTGGACTTTG-AGAAGAGA
* *
127027 TGCCATTGAGTCGTGGACTTTGGGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
*
127057 TGCCACTGAGTCGTGGACTTTGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTG-AG--AAGAGA
* * *
127090 TGCCACTAAGTCGTGGACTTGGAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTTTG-AGAAGA-GA
* * *
127122 TGCCACTAAGTCGTGGACTTAGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
* * *
127152 TGCCATTGAGTTGTGGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTG-AGAAGAGA
* * *
127183 TGCCACTAAGTCATGCACTTTGAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
* *
127213 TGCCACTGAGTCATGGACTTTGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTG-AG--AAGAGA
* * * * *
127246 TGCCACTAAGTCATAGACTTGGAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTTTG-AGAAGA-GA
* * *
127278 TGCCATTGAGTCGTGGACTTAGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
127308 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGA
127338 AATTTGAAGA
Statistics
Matches: 318, Mismatches: 44, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
30 131 0.41
31 83 0.26
32 49 0.15
33 55 0.17
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.23
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTGAGAAGAGA
Found at i:127013 original size:61 final size:61
Alignment explanation
Indices: 126929--127337 Score: 446
Period size: 61 Copynumber: 6.6 Consensus size: 61
126919 TTTTAAAAGA
* * *
126929 AAAAGGTGCCACAGAGTCGTGGACTTTGGGAAGAGATGCCACTGAGTCGTGGACTTTG-AG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGATGCCACTGAGTCGTGGACTTTGAAG
* * * * *
126989 AAGAGATTGCCACTGAGTCATGGACTTTGAAGAAAAGATGCCATTGAGTCGTGGACTTTG-GG
1 AAAAGA-TGCCACTGAGTCGTGGACTTTG-AGAAGAGATGCCACTGAGTCGTGGACTTTGAAG
* * * *
127051 AAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTAAGTCGTGGACTTGGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTG-AG--AAGAGATGCCACTGAGTCGTGGACTTTGAAG
* * * * *
127115 AAAAGGATGCCACTAAGTCGTGGACTTAGAAAAGAGATGCCATTGAGTTGTGGACTTTGAAG
1 AAAA-GATGCCACTGAGTCGTGGACTTTGAGAAGAGATGCCACTGAGTCGTGGACTTTGAAG
* * * *
127177 AAAAGATGCCACTAAGTCATGCACTTTGAGAAGAGATGCCACTGAGTCATGGACTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGATGCCACTGAGTCGTGGACTTTGAAG
* * * * * * *
127238 AAAAAAGATGCCACTAAGTCATAGACTTGGAAGAAAAGGATGCCATTGAGTCGTGGACTTAGAA-
1 --AAAAGATGCCACTGAGTCGTGGACTTTG-AGAAGA-GATGCCACTGAGTCGTGGACTTTGAAG
*
127302 AAGAGATGCCACTGAGTCGTGGACTTTGAGAAGAGA
1 AAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGA
127338 AATTTGAAGA
Statistics
Matches: 297, Mismatches: 42, Indels: 20
0.83 0.12 0.06
Matches are distributed among these distances:
60 6 0.02
61 99 0.33
62 87 0.29
63 50 0.17
64 10 0.03
65 45 0.15
ACGTcount: A:0.33, C:0.15, G:0.29, T:0.22
Consensus pattern (61 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGATGCCACTGAGTCGTGGACTTTGAAG
Found at i:127183 original size:156 final size:156
Alignment explanation
Indices: 126899--127330 Score: 602
Period size: 156 Copynumber: 2.8 Consensus size: 156
126889 AAAGAAAAAG
* * * * * *
126899 GATGCCACGGAGTTGTGGGCTTTTAAAAGAAAAAGGTGCCAC-AGAGTCGTGGACTTTGG--GAA
1 GATGCCACTGAGTCGTGGACTTTGAAGA-AAAAAGATGCCACTA-AGTCGTGGAC-TTGGAAGAA
* * * *
126961 GA-GATGCCACTGAGTCGTGGACTTTGAGAAGAGATTGCCACTGAGTCATGGACTTTGAAGAAAA
63 AAGGATGCCACTGAGTCGTGGACTTAGAAAAGAGA-TGCCACTGAGTCGTGGACTTTGAAGAAAA
* * * * *
127025 GATGCCATTGAGTCGTGGACTTTGGGAAGA
127 GATGCCACTAAGTCATGCACTTTGAGAAGA
127055 GATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTAAGTCGTGGACTTGGAAGAAAAG
1 GATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTAAGTCGTGGACTTGGAAGAAAAG
* * *
127120 GATGCCACTAAGTCGTGGACTTAGAAAAGAGATGCCATTGAGTTGTGGACTTTGAAGAAAAGATG
66 GATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGATG
127185 CCACTAAGTCATGCACTTTGAGAAGA
131 CCACTAAGTCATGCACTTTGAGAAGA
* * *
127211 GATGCCACTGAGTCATGGACTTTGAAGAAAAAAGATGCCACTAAGTCATAGACTTGGAAGAAAAG
1 GATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTAAGTCGTGGACTTGGAAGAAAAG
*
127276 GATGCCATTGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGGACTTTGA
66 GATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGGACTTTGA
127331 GAAGAGAAAT
Statistics
Matches: 247, Mismatches: 25, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
154 4 0.02
155 22 0.09
156 192 0.78
157 29 0.12
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.23
Consensus pattern (156 bp):
GATGCCACTGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTAAGTCGTGGACTTGGAAGAAAAG
GATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGATG
CCACTAAGTCATGCACTTTGAGAAGA
Found at i:133087 original size:13 final size:13
Alignment explanation
Indices: 133069--133094 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
133059 CAATTTTTTG
133069 TGTATCGATACAT
1 TGTATCGATACAT
133082 TGTATCGATACAT
1 TGTATCGATACAT
133095 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:133106 original size:32 final size:33
Alignment explanation
Indices: 133049--133112 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
133039 TACAAGCCAA
**
133049 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
133082 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
133113 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:138734 original size:52 final size:52
Alignment explanation
Indices: 138588--138716 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
138578 CGAAATATGA
138588 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
* *
138640 AAATTTGCCTGCATATATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
138692 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
138717 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
Found at i:138829 original size:13 final size:13
Alignment explanation
Indices: 138811--138835 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
138801 ACAAAACTTA
138811 TGTATCGATACAT
1 TGTATCGATACAT
138824 TGTATCGATACA
1 TGTATCGATACA
138836 ATATTTTATG
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:138831 original size:32 final size:33
Alignment explanation
Indices: 138790--138855 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
138780 AGTAGCTTAA
138790 ATTGTATCGATACAA-AACTTATGTATCGATAC
1 ATTGTATCGATACAATAACTTATGTATCGATAC
**
138822 ATTGTATCGATACAATATTTTATGTATCGATAC
1 ATTGTATCGATACAATAACTTATGTATCGATAC
138855 A
1 A
138856 AATCATTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.48
33 16 0.52
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (33 bp):
ATTGTATCGATACAATAACTTATGTATCGATAC
Found at i:139774 original size:43 final size:44
Alignment explanation
Indices: 139727--140183 Score: 427
Period size: 43 Copynumber: 9.8 Consensus size: 44
139717 CAGAGATGAC
*
139727 AAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGCCTTA
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
139771 AAGATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-
1 AA-A-G----A--TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
* * * *
139822 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAA
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-A
*
139867 AGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-
1 A-AAG-A--TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
* * * **
139914 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACGTTGGACTTA
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
* *
139958 AAGATGAAGGTGCCAATACGCTGATTCAAGGCCAGTGATATTGGACTT-
1 AA-A-G-A--TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
* * * * *
140006 AAAGGTGCCAATGTGCTGATTCAAAGCCAGCTACATTGGACTTAAAGA
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A
140054 AGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-
1 A-AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
* * *
140098 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGA
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A
* *
140146 AGAAGATGCCAATATGTTGATTCAAGGCCAGCAATATT
1 A-AAGATGCCAATATGCTGATTCAAGGCCAGCGATATT
140184 AGGCTTAGAA
Statistics
Matches: 341, Mismatches: 40, Indels: 59
0.77 0.09 0.13
Matches are distributed among these distances:
43 141 0.41
44 5 0.01
45 3 0.01
46 9 0.03
47 2 0.01
48 4 0.01
49 136 0.40
50 2 0.01
51 2 0.01
52 37 0.11
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (44 bp):
AAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
Found at i:139912 original size:92 final size:92
Alignment explanation
Indices: 139682--140183 Score: 737
Period size: 92 Copynumber: 5.5 Consensus size: 92
139672 CTTAGGAATG
* * * * *
139682 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCA--GAGA-T-GAC--AAAGATGCCAATAT
1 TTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGT
* * *
139741 GCTGATTCAAGGCCAGCGATATTGGCC
66 GCTGATTCAAGGCCAGCTACATTGGAC
*
139768 TTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAA
1 TTAAAGA--A-GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAA
* *
139833 TGTGCTGATTCAAGGCCAGCGACATTGGGC
63 TGTGCTGATTCAAGGCCAGCTACATTGGAC
*
139863 TTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGT
1 TTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGT
*
139928 GCTGATTCAAGGCCAGCTACGTTGGAC
66 GCTGATTCAAGGCCAGCTACATTGGAC
* * *
139955 TTAAAGATGAAGGTGCCAATACGCTGATTCAAGGCCAGTGATATTGGACTTAAAGGTGCCAATGT
1 TTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGT
*
140020 GCTGATTCAAAGCCAGCTACATTGGAC
66 GCTGATTCAAGGCCAGCTACATTGGAC
*
140047 TTAAAGAAGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGT
1 TTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGT
*
140112 GCTGATTCAAGGCCAGCTATATTGGAC
66 GCTGATTCAAGGCCAGCTACATTGGAC
* * *
140139 TTAAAGAAGAAGATGCCAATATGTTGATTCAAGGCCAGCAATATT
1 TTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT
140184 AGGCTTAGAA
Statistics
Matches: 380, Mismatches: 27, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
86 7 0.02
89 27 0.07
91 3 0.01
92 295 0.78
93 4 0.01
95 44 0.12
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (92 bp):
TTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGT
GCTGATTCAAGGCCAGCTACATTGGAC
Found at i:140223 original size:31 final size:32
Alignment explanation
Indices: 140188--140252 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
140178 AATATTAGGC
140188 TTAGA-AGGGTTGCCACCGACTTGTGTCGGCT
1 TTAGAGAGGGTTGCCACCGACTTGTGTCGGCT
*
140219 TTAGAGAGGGTTGCCACCGACTTGTGTGGGCT
1 TTAGAGAGGGTTGCCACCGACTTGTGTCGGCT
140251 TT
1 TT
140253 TGAAAAGGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 5 0.16
32 27 0.84
ACGTcount: A:0.15, C:0.20, G:0.34, T:0.31
Consensus pattern (32 bp):
TTAGAGAGGGTTGCCACCGACTTGTGTCGGCT
Found at i:140338 original size:61 final size:61
Alignment explanation
Indices: 140257--140502 Score: 300
Period size: 61 Copynumber: 4.0 Consensus size: 61
140247 GGCTTTTGAA
* * *
140257 AAGGAGAAAG-ATGCCACGGAG-C-TGTGGATGTAAAAGGGTGCCACAGAGTTGTGGACTTAG
1 AAGGAAAAAGAATGCCACGGAGTCGTG-GGCT-TAAAAGGGTGCCACAGAGTTGCGGACTTAG
* * * * *
140317 AAGGAGAAAGAATGCCACGGAGTTGTGGGCTTAAACGGAAAAGGTGCCACGGAGTTGTGGACTTA
1 AAGGAAAAAGAATGCCACGGAGTCGTGGGCTT--A---AAAGGGTGCCACAGAGTTGCGGACTTA
140382 G
61 G
* *
140383 AAGGAAAAAGAGTGCCACGGAGTCGTGGGCTTAAACGGGTGCCACAGAGTTGCGGACTTAG
1 AAGGAAAAAGAATGCCACGGAGTCGTGGGCTTAAAAGGGTGCCACAGAGTTGCGGACTTAG
* *
140444 AAGGAAAAAGAGTGCCACGGAGTCGTGGGCTTAAACGGGTGCCACAGAGTTGCGGACTT
1 AAGGAAAAAGAATGCCACGGAGTCGTGGGCTTAAAAGGGTGCCACAGAGTTGCGGACTT
140503 TTGAAGGGTG
Statistics
Matches: 167, Mismatches: 11, Indels: 15
0.87 0.06 0.08
Matches are distributed among these distances:
60 10 0.06
61 95 0.57
62 3 0.02
63 3 0.02
64 1 0.01
66 55 0.33
ACGTcount: A:0.30, C:0.16, G:0.36, T:0.17
Consensus pattern (61 bp):
AAGGAAAAAGAATGCCACGGAGTCGTGGGCTTAAAAGGGTGCCACAGAGTTGCGGACTTAG
Found at i:140340 original size:34 final size:34
Alignment explanation
Indices: 140288--140476 Score: 191
Period size: 34 Copynumber: 5.8 Consensus size: 34
140278 CTGTGGATGT
* *
140288 AAAAGGGTGCCACAGAGTTGTGGACTTAGAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
* * *
140322 GAAAGAATGCCACGGAGTTGTGGGCTTA-AACGG-
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAA-GGA
140355 AAAAG-GTGCCACGGAGTTGTGGACTTAGAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
* * *
140388 AAAAGAGTGCCACGGAGTCGTGGGCTTA-AACG-
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
* *
140420 ----G-GTGCCACAGAGTTGCGGACTTAGAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
* *
140449 AAAAGAGTGCCACGGAGTCGTGGGCTTA
1 AAAAGAGTGCCACGGAGTTGTGGACTTA
140477 AACGGGTGCC
Statistics
Matches: 124, Mismatches: 20, Indels: 22
0.75 0.12 0.13
Matches are distributed among these distances:
27 18 0.15
28 4 0.03
32 22 0.18
33 17 0.14
34 63 0.51
ACGTcount: A:0.31, C:0.15, G:0.36, T:0.17
Consensus pattern (34 bp):
AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
Found at i:140432 original size:27 final size:27
Alignment explanation
Indices: 140394--140493 Score: 83
Period size: 27 Copynumber: 3.4 Consensus size: 27
140384 AGGAAAAAGA
*
140394 GTGCCACGGAGTCGTGGGCTTAAACGG
1 GTGCCACAGAGTCGTGGGCTTAAACGG
* * * *
140421 GTGCCACAGAGTTGCGGACTTAGAAGGAAAAAG
1 GTGCCACAGAGTCGTGGGCTTA-AACG-----G
*
140454 AGTGCCACGGAGTCGTGGGCTTAAACGG
1 -GTGCCACAGAGTCGTGGGCTTAAACGG
140482 GTGCCACAGAGT
1 GTGCCACAGAGT
140494 TGCGGACTTT
Statistics
Matches: 55, Mismatches: 11, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
27 29 0.53
28 4 0.07
33 4 0.07
34 18 0.33
ACGTcount: A:0.26, C:0.20, G:0.37, T:0.17
Consensus pattern (27 bp):
GTGCCACAGAGTCGTGGGCTTAAACGG
Found at i:142012 original size:13 final size:12
Alignment explanation
Indices: 141993--142029 Score: 56
Period size: 13 Copynumber: 3.0 Consensus size: 12
141983 TTTGTTGTTG
141993 TTGTTTTTTTTT
1 TTGTTTTTTTTT
142005 TCTGTTTTTTTTT
1 T-TGTTTTTTTTT
*
142018 TTATTTTTTTTT
1 TTGTTTTTTTTT
142030 GTGGAGGACG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.03, C:0.03, G:0.05, T:0.89
Consensus pattern (12 bp):
TTGTTTTTTTTT
Found at i:142013 original size:14 final size:13
Alignment explanation
Indices: 141996--142029 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
141986 GTTGTTGTTG
*
141996 TTTTTTTTTTCTGT
1 TTTTTTTTTTAT-T
142010 TTTTTTTTTTATT
1 TTTTTTTTTTATT
142023 TTTTTTT
1 TTTTTTT
142030 GTGGAGGACG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.03, C:0.03, G:0.03, T:0.91
Consensus pattern (13 bp):
TTTTTTTTTTATT
Found at i:147102 original size:17 final size:17
Alignment explanation
Indices: 147080--147113 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
147070 CAGAGGTAAG
*
147080 AAGGAAGGCAAAGTCAA
1 AAGGAAGCCAAAGTCAA
*
147097 AAGGAAGCCACAGTCAA
1 AAGGAAGCCAAAGTCAA
147114 GAATCAATGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.18, G:0.26, T:0.06
Consensus pattern (17 bp):
AAGGAAGCCAAAGTCAA
Found at i:153799 original size:59 final size:59
Alignment explanation
Indices: 153730--155185 Score: 1840
Period size: 59 Copynumber: 25.2 Consensus size: 59
153720 TACGTTTCCT
*
153730 TCCTCAAAGAGCAGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAG
* *
153789 TCCTCAAAGAGCAGGACGCATTTTCTTTTAAAGCCCGCACAAGTTGGTGGCACCTTCAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAG
* * **
153848 TCATCAAAGAGCAGGACGCCTTCTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAG
** *
153908 TCCTCAAAGAGTGGGACGCCTTTTCTTTTAAAGCGCACACAAGTTGGTGGCACCTTCAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAG
* *
153967 TCCTCAAAGAGCGGGACGCATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAG
* *
154026 TCCTCAAAGAGCAGGAC-AC----CTTTTAAAGCCCACACAAGTTGGTGGCA-TTTCCCAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT--CAG
*
154081 TCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAG
* * * *
154140 TCCTTAAAGAGCGGGACACATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAG
* **
154199 TCCTCAAAGAGCAGGAC-AC----CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAG
*
154254 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACAAAAGTTGGTGGCACCTTCAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAG
* *
154313 TCCTCAAAGAGCGGGACGCATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAG
* * **
154372 TCCTCAAAAAGCAGGAC-AC----CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAG
* **
154427 TCCTCCAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC-AG
* **
154487 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGTCATTTTCCAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAG
** * **
154547 TCCTCAAAGAGTGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGTCATTTTCCAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAG
** * *
154607 TCCTCAAAGAGTGGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCCCCTTCAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAG
* *
154666 TCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCAC-CTAAGTTGGTGGCACCTTTAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACAC-AAGTTGGTGGCACCTTCAG
* * *
154725 TCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTCAG
* * **
154786 TCCCCAAAGAGCAGGAC-CC----CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAG
* *
154841 TCCTCAAAAAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGG------CA-
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAG
*
154888 TCCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCACCTTTCAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAG
* * **
154943 TCCTCAAAGAGCATGAC-AC----CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAG
*
154998 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAG
* *
155057 TCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTCGCACCTTTCAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAG
* *
155117 TCCTCAAAGAGCAGGACGCC-TTTC----AAAGCCCACACAAGTTGGTGGCACTTTTTAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCAG
155172 TCCTCAAAGAGCAG
1 TCCTCAAAGAGCAG
155186 AATACACTTT
Statistics
Matches: 1252, Mismatches: 93, Indels: 108
0.86 0.06 0.07
Matches are distributed among these distances:
45 2 0.00
47 40 0.03
48 2 0.00
53 3 0.00
54 95 0.08
55 219 0.17
56 10 0.01
58 1 0.00
59 471 0.38
60 385 0.31
61 24 0.02
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (59 bp):
TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAG
Found at i:154151 original size:173 final size:174
Alignment explanation
Indices: 153730--155185 Score: 1886
Period size: 173 Copynumber: 8.4 Consensus size: 174
153720 TACGTTTCCT
*
153730 TCCTCAAAGAGCAGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCA
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCA
* *
153795 AAGAGCAGGACGCATTTTCTTTTAAAGCCCGCACAAGTTGGTGGCACCTTCAGTCATCAAAGAGC
66 AAGAGCAGGACGCATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGC
*
153860 AGGACGCCTTCTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAG
131 AGGA---CTAC-CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAG
** *
153908 TCCTCAAAGAGTGGGACGCCTTTTCTTTTAAAGCGCACACAAGTTGGTGGCACCTTCAGTCCTCA
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCA
*
153973 AAGAGCGGGACGCATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGC
66 AAGAGCAGGACGCATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGC
*
154038 AGGAC-ACCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCCAG
131 AGGACTACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAG
* *
154081 TCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTTA
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCA
* *
154146 AAGAGCGGGACACATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGC
66 AAGAGCAGGACGCATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGC
154211 AGGAC-ACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAG
131 AGGACTACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAG
*
154254 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACAAAAGTTGGTGGCACCTTCAGTCCTCA
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCA
* *
154319 AAGAGCGGGACGCATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAAAGC
66 AAGAGCAGGACGCATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGC
154384 AGGAC-ACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAG
131 AGGACTACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAG
* **
154427 TCCTCCAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTC
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC-AGTCCTC
* * **
154492 AAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGTCATTTTCCAGTCCTCAAAGA
65 AAAGAGCAGGACGCATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGA
** ** *
154557 GTGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGTCATTTTCCAG
129 GCAGGA---C-TACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAG
** * *
154607 TCCTCAAAGAGTGGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCCCCTTCAGTCCTCA
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCA
* * *
154672 AAGAGCGGGACGCCTTTTCTTTTAAAGCCCAC-CTAAGTTGGTGGCACCTTTAGTCCTCAAAGAG
66 AAGAGCAGGACGCATTTTCTTTTAAAGCCCACAC-AAGTTGGTGGCACCTTCAGTCCTCAAAGAG
**
154736 CAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTT--AG
130 CAGGA--C--TACCTTTT-AAAGCCCACACAAGTTGGTGGCA--TTTTCCAG
* * **
154786 TCCCCAAAGAGCAGGAC-CC----CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTC
* * *
154846 AAAAAGCAGGA--CA---CCTTTCAAAGCCCACACAAGTTGGTGG------CA-TCCTCAAAGAG
65 AAAGAGCAGGACGCATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAG
* *
154899 CAGGAC-ACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-CAG
130 CAGGACTACCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAG
* * **
154943 TCCTCAAAGAGCATGAC-AC----CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTC
* *
155003 AAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTGTCCTCAAAGAG
65 AAAGAGCAGGACGCATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAG
* ** * *
155068 CGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTCGCACCTTT-CAG
130 CAGGA---C-TACCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAG
* *
155117 TCCTCAAAGAGCAGGACGCC-TTTC----AAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTC
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCAGTCCTC
155177 AAAGAGCAG
65 AAAGAGCAG
155186 AATACACTTT
Statistics
Matches: 1155, Mismatches: 86, Indels: 78
0.88 0.07 0.06
Matches are distributed among these distances:
156 4 0.00
157 91 0.08
158 4 0.00
159 1 0.00
161 1 0.00
162 25 0.02
163 16 0.01
164 1 0.00
168 1 0.00
169 15 0.01
170 23 0.02
171 1 0.00
172 1 0.00
173 425 0.37
174 171 0.15
175 38 0.03
177 1 0.00
178 157 0.14
179 90 0.08
180 85 0.07
181 4 0.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (174 bp):
TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCA
AAGAGCAGGACGCATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGC
AGGACTACCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAG
Found at i:154916 original size:47 final size:46
Alignment explanation
Indices: 154841--154990 Score: 183
Period size: 47 Copynumber: 3.0 Consensus size: 46
154831 CATTTTCCAG
*
154841 TCCTCAAAAAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TCCTCAAAGAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTGGCA
154888 TCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCA
1 TCCTCAAAGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGG-------CA
*
154942 GTCCTCAAAGAGCATGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
1 -TCCTCAAAGAGCAGGACACC-TTTAAAGCCCACACAAGTTGGTGGCA
154990 T
1 T
154991 TTTCCAGTCC
Statistics
Matches: 91, Mismatches: 2, Indels: 20
0.81 0.02 0.18
Matches are distributed among these distances:
47 42 0.46
48 4 0.04
54 2 0.02
55 42 0.46
56 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.20
Consensus pattern (46 bp):
TCCTCAAAGAGCAGGACACCTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:155954 original size:21 final size:21
Alignment explanation
Indices: 155930--155987 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
155920 AATTTATCCA
155930 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
* *
155951 AATGTATCCATACATTTGTGG
1 AATGTATCGATACATTTGTAG
155972 AATGTATCGATACATT
1 AATGTATCGATACATT
155988 ATACAAATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:155996 original size:21 final size:21
Alignment explanation
Indices: 155923--156006 Score: 64
Period size: 21 Copynumber: 4.0 Consensus size: 21
155913 AAAAAAAAAT
*
155923 TTATCCAAATGTATCGATACA
1 TTATACAAATGTATCGATACA
* * *
155944 TTTGTA-GAATGTATCCATACA
1 -TTATACAAATGTATCGATACA
***
155965 TT-TGTGGAATGTATCGATACA
1 TTAT-ACAAATGTATCGATACA
*
155986 TTATACAAATGTATCAATACA
1 TTATACAAATGTATCGATACA
156007 AGGTCCCAAC
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
19 1 0.02
20 2 0.04
21 42 0.86
22 4 0.08
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36
Consensus pattern (21 bp):
TTATACAAATGTATCGATACA
Found at i:156125 original size:13 final size:13
Alignment explanation
Indices: 156107--156132 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
156097 CATTTTTCTG
156107 TGTATCGATACAT
1 TGTATCGATACAT
156120 TGTATCGATACAT
1 TGTATCGATACAT
156133 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:156129 original size:33 final size:33
Alignment explanation
Indices: 156087--156153 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
156077 GCCAAGGAAA
***
156087 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
156120 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
156153 T
1 T
156154 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:158636 original size:28 final size:28
Alignment explanation
Indices: 158600--158676 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
158590 ATTTTTCATA
* **
158600 ATCGAGGATACTCCAACCTCGTTGTCTC
1 ATCGGGGATACTCCAACCTCGTTACCTC
*
158628 ATCGGGGATACTCCAACCCCGTTACCTC
1 ATCGGGGATACTCCAACCTCGTTACCTC
***
158656 CGAGGGGATACTCCAACCTCG
1 ATCGGGGATACTCCAACCTCG
158677 GCTTTATTCC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.22, C:0.35, G:0.21, T:0.22
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTACCTC
Found at i:158878 original size:52 final size:50
Alignment explanation
Indices: 158493--158879 Score: 242
Period size: 51 Copynumber: 7.4 Consensus size: 50
158483 CTCAATTCTC
* * * *
158493 CACAATCGGGGATATTCCATCTCCGATTTTATTTTCAAAACACTAA-TTTT
1 CACAATCGGGGATACTCCAAC-CCGATTTTATTTCCAAAACACCAATTTTT
* *
158543 CTATAATCGGGGATACTCCAATTCCGATTTTATTTCCAAAAACACCAATTTTT
1 C-ACAATCGGGGATACTCCAA-CCCGATTTTATTTCC-AAAACACCAATTTTT
* * ***** * * ***
158596 CATAATCGAGGATACTCCAACCTCG-TTGTCTCATCGGGGATACTCCAACCCCGTT
1 CACAATCGGGGATACTCCAACC-CGATT-T-T-ATTTCCAAAACACCAA--TTTTT
* ** * * *** *
158651 -AC-CTCCGAGGGGATACTCCAACCTCGGCTTTATTCCCAAAATATTGATTTCT
1 CACAAT-C--GGGGATACTCCAACC-CGATTTTATTTCCAAAACACCAATTTTT
* * * *
158703 CATAATCGGGGATACTCCAACCTCGGTTTTATTTCTAAAACACTAATTTTT
1 CACAATCGGGGATACTCCAACC-CGATTTTATTTCCAAAACACCAATTTTT
* * *
158754 CACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTC
1 CACAATCGGGGATACTCCAA-CCCGATTTTATTTCCAAAACACCAATTTTT
**
158805 CTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
1 C-ACAATCGGGGATACTCCAAC-CCGATTTTATTTCC-AAAACACCAATTTTT
*
158858 CACAATCGAGGATACTCCAACC
1 CACAATCGGGGATACTCCAACC
158880 TTGTTATTTC
Statistics
Matches: 258, Mismatches: 59, Indels: 39
0.72 0.17 0.11
Matches are distributed among these distances:
50 1 0.00
51 115 0.45
52 79 0.31
53 31 0.12
54 10 0.04
55 3 0.01
56 18 0.07
57 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (50 bp):
CACAATCGGGGATACTCCAACCCGATTTTATTTCCAAAACACCAATTTTT
Found at i:158957 original size:262 final size:261
Alignment explanation
Indices: 158493--158986 Score: 817
Period size: 262 Copynumber: 1.9 Consensus size: 261
158483 CTCAATTCTC
* * * *
158493 CACAATCGGGGATATTCCATCTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATA
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATA
* *
158558 CTCCAATTCCGATTTTATTTCCAAAAACACCAATTTTTCATAATCGAGGATACTCCAACCTCGTT
66 CTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTT
* *
158623 GTCTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCTCGGCTTTATTCCC
131 ATCTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCC
*
158688 AAAATATTGATTTCTCATAATCGGGGATACTCCAACCTCGGTTTTATTTCTAAAACACTAATTTT
196 AAAATATTGATTTCTCATAATCAGGGATACTCCAACCTCGGTTTTATTTCTAAAACACTAATTTT
158753 T
261 T
* *
158754 CACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGAT
1 CACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGGAT
*
158819 ACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTTGT
65 ACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGT
* * * *
158884 TATTTCATCGGGGATATTCCAACCTCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTC
130 TATCTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCC
* *
158949 CAAAATATTGATTTCTCATAATTATGGATACTCCAACC
195 CAAAATATTGATTTCTCATAATCAGGGATACTCCAACC
158987 CTGTTATTTC
Statistics
Matches: 214, Mismatches: 18, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
261 45 0.21
262 169 0.79
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (261 bp):
CACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATA
CTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTT
ATCTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCC
AAAATATTGATTTCTCATAATCAGGGATACTCCAACCTCGGTTTTATTTCTAAAACACTAATTTT
T
Found at i:160390 original size:20 final size:20
Alignment explanation
Indices: 160365--160440 Score: 143
Period size: 20 Copynumber: 3.8 Consensus size: 20
160355 GCATCGATAC
*
160365 AATGTATTGATACATTGAAT
1 AATGTATCGATACATTGAAT
160385 AATGTATCGATACATTGAAT
1 AATGTATCGATACATTGAAT
160405 AATGTATCGATACATTGAAT
1 AATGTATCGATACATTGAAT
160425 AATGTATCGATACATT
1 AATGTATCGATACATT
160441 TCCTTGGCAG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.37
Consensus pattern (20 bp):
AATGTATCGATACATTGAAT
Found at i:160502 original size:19 final size:20
Alignment explanation
Indices: 160478--160531 Score: 74
Period size: 21 Copynumber: 2.7 Consensus size: 20
160468 CATCGATACA
160478 TTGTATCGATACAACACT-T
1 TTGTATCGATACAACACTGT
**
160497 TTGTATCGATACATTTACTGT
1 TTGTATCGATACA-ACACTGT
160518 TTGTATCGATACAA
1 TTGTATCGATACAA
160532 GTTGCTGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.43
20 3 0.10
21 14 0.47
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.41
Consensus pattern (20 bp):
TTGTATCGATACAACACTGT
Found at i:161001 original size:52 final size:52
Alignment explanation
Indices: 160916--161115 Score: 247
Period size: 52 Copynumber: 3.8 Consensus size: 52
160906 TCATTTTAGC
* * * * *
160916 ACATCGGCACCTTTATCATCTTGAAGTCCAATGTCGCTGGCCTTGAAACAGT
1 ACATTGGCACCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGGATCAGT
* * *
160968 ACATTGGCACCTTTGTCATCTTTAAGTCTAATGTTGTTGGCCTTGGATCAGT
1 ACATTGGCACCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGGATCAGT
* * * *
161020 ACATTGGCATCTTTGTCATATTTAAGTCCAATGTCGCTAGCCTTGGATCAGC
1 ACATTGGCACCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGGATCAGT
* * * * *
161072 ACGTTGGCACCTTTGTTATTTTTAAGTCCAGTGTCGCAGGCCTT
1 ACATTGGCACCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTT
161116 AAATCTGCAA
Statistics
Matches: 126, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 126 1.00
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.35
Consensus pattern (52 bp):
ACATTGGCACCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGGATCAGT
Found at i:161460 original size:30 final size:30
Alignment explanation
Indices: 161426--161482 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
161416 ACCTATGTCT
*
161426 AAGCCCTCAAGTTAATAACACCTTTTTTCA
1 AAGCCCACAAGTTAATAACACCTTTTTTCA
* *
161456 AAGCCCACAAGTTAGTAACGCCTTTTT
1 AAGCCCACAAGTTAATAACACCTTTTT
161483 AAAACCTACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (30 bp):
AAGCCCACAAGTTAATAACACCTTTTTTCA
Found at i:161849 original size:59 final size:59
Alignment explanation
Indices: 161757--162039 Score: 284
Period size: 59 Copynumber: 4.8 Consensus size: 59
161747 CTGATGGCAT
* * * *
161757 CTTCTTTCTCAAGCTCAATGTTGCTAGCCTTGAATTAGCACATCGGCATTTGTCCAAAC
1 CTTCTTTCTCAAGCCCAATGTCGCTAGCCTTGAATCAGCACATTGGCATTTGTCCAAAC
* * * * *
161816 CTTCTTTCTTAAGCCCAATATCGCTAGCCTTGAATCAACATATTGGCATTTATCCAAAC
1 CTTCTTTCTCAAGCCCAATGTCGCTAGCCTTGAATCAGCACATTGGCATTTGTCCAAAC
* * * * *
161875 CTTCTTTCTCAAGCCCAATGTCGTTAGCCTTGAATCAGCACCTTGGTATTCGTCAAAAC
1 CTTCTTTCTCAAGCCCAATGTCGCTAGCCTTGAATCAGCACATTGGCATTTGTCCAAAC
* * *** * * * **
161934 CTTTTTTCTCAAGCCTAATGTTATTGGCCTTGAATCAACACATTGGCACTCAT-CAAACC
1 CTTCTTTCTCAAGCCCAATGTCGCTAGCCTTGAATCAGCACATTGGCATTTGTCCAAA-C
* * *
161993 CTT-TTTTTCAAGCCCAATGTCACTAACCTTGAATCAGTC-CATTGGCA
1 CTTCTTTCTCAAGCCCAATGTCGCTAGCCTTGAATCAG-CACATTGGCA
162040 CCCTACCTAT
Statistics
Matches: 185, Mismatches: 37, Indels: 5
0.81 0.16 0.02
Matches are distributed among these distances:
58 38 0.21
59 147 0.79
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.34
Consensus pattern (59 bp):
CTTCTTTCTCAAGCCCAATGTCGCTAGCCTTGAATCAGCACATTGGCATTTGTCCAAAC
Found at i:161965 original size:118 final size:118
Alignment explanation
Indices: 161757--162029 Score: 316
Period size: 118 Copynumber: 2.3 Consensus size: 118
161747 CTGATGGCAT
* * * * *
161757 CTTCTTTCTCAAGCTCAATGTTGCTAGCCTTGAATTAGCACATCGGCATTTGTCCAAACCTTCTT
1 CTTCTTTCTCAAGCCCAATGTCGCTAGCCTTGAATCAGCACATCGGCATTCGTCAAAACCTTCTT
* * * * *
161822 TCTTAAGCCCAATATCGCTAGCCTTGAATCAACATATTGGCATTTATCCAAA-C
66 TCTCAAGCCCAATATCACTAGCCTTGAATCAACACATTGGCACTCAT-CAAACC
* * * * *
161875 CTTCTTTCTCAAGCCCAATGTCGTTAGCCTTGAATCAGCACCTTGGTATTCGTCAAAACCTTTTT
1 CTTCTTTCTCAAGCCCAATGTCGCTAGCCTTGAATCAGCACATCGGCATTCGTCAAAACCTTCTT
* * * * *
161940 TCTCAAGCCTAATGTTATTGGCCTTGAATCAACACATTGGCACTCATCAAACC
66 TCTCAAGCCCAATATCACTAGCCTTGAATCAACACATTGGCACTCATCAAACC
* * *
161993 CTT-TTTTTCAAGCCCAATGTCACTAACCTTGAATCAG
1 CTTCTTTCTCAAGCCCAATGTCGCTAGCCTTGAATCAG
162030 TCCATTGGCA
Statistics
Matches: 130, Mismatches: 24, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
117 34 0.26
118 96 0.74
ACGTcount: A:0.26, C:0.27, G:0.13, T:0.34
Consensus pattern (118 bp):
CTTCTTTCTCAAGCCCAATGTCGCTAGCCTTGAATCAGCACATCGGCATTCGTCAAAACCTTCTT
TCTCAAGCCCAATATCACTAGCCTTGAATCAACACATTGGCACTCATCAAACC
Found at i:162626 original size:21 final size:20
Alignment explanation
Indices: 162588--162628 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
162578 GTCATATTTT
162588 TGCCTACAAGTATCGATACA
1 TGCCTACAAGTATCGATACA
* *
162608 TGCCTTCAATGTATGGATACA
1 TGCCTACAA-GTATCGATACA
162629 AGGTCCCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (20 bp):
TGCCTACAAGTATCGATACA
Found at i:165427 original size:103 final size:103
Alignment explanation
Indices: 165239--165432 Score: 239
Period size: 103 Copynumber: 1.9 Consensus size: 103
165229 CTACTCTTTG
* * *
165239 AAATTTGTCAAGATGGGAAGTTTTCCTTTGTCAAAGTGATTGGTCATCCATAGGGATACTTCAAT
1 AAATTTGTCAAGATGGGAAGTTTTCCTTTGTCAAAATGATTGGTCATCCACAGGGATACTCCAAT
* *
165304 CTCGACCTTTCAATGGGATACTCCAACCTTGCTTTTCA
66 CTCCACCTTTCAATGCGATACTCCAACCTTGCTTTTCA
** * * * *
165342 AAATTTGTCAAGATTTG-AGCTTTTCTTTTGTCAAAATTATTTGTCATCCACGGGGATACTCCAA
1 AAATTTGTCAAGATGGGAAG-TTTTCCTTTGTCAAAATGATTGGTCATCCACAGGGATACTCCAA
* *
165406 TC-CCATCTTTTCGATGCGATACTCCAA
65 TCTCCA-CCTTTCAATGCGATACTCCAA
165433 TCTCACCTTT
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
102 4 0.05
103 72 0.95
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.36
Consensus pattern (103 bp):
AAATTTGTCAAGATGGGAAGTTTTCCTTTGTCAAAATGATTGGTCATCCACAGGGATACTCCAAT
CTCCACCTTTCAATGCGATACTCCAACCTTGCTTTTCA
Found at i:169246 original size:20 final size:19
Alignment explanation
Indices: 169183--169359 Score: 98
Period size: 20 Copynumber: 8.8 Consensus size: 19
169173 AAAATGCCTG
169183 AATGTATCGATACATTAT-AA
1 AATGTATCGATACA--ATGAA
* *
169203 AATGCATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
169223 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
* *
169243 AATGTATTGATACATCTGGGTAAACCCA
1 AATGTATCGATACA-AT--G---A---A
169271 GAATGTATCGATACAATG--
1 -AATGTATCGATACAATGAA
169289 ----TATCGATACAATGAA
1 AATGTATCGATACAATGAA
*
169304 CAACGTATCGATACAATGAA
1 -AATGTATCGATACAATGAA
*
169324 CAACGTATCGATACAATGAA
1 -AATGTATCGATACAATGAA
169344 CAATGTATCGATACAA
1 -AATGTATCGATACAA
169360 ATTGTGAAAA
Statistics
Matches: 128, Mismatches: 10, Indels: 38
0.73 0.06 0.22
Matches are distributed among these distances:
13 13 0.10
18 2 0.02
19 1 0.01
20 92 0.72
21 2 0.02
23 1 0.01
25 1 0.01
26 1 0.01
28 2 0.02
29 13 0.10
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.25
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:169319 original size:13 final size:13
Alignment explanation
Indices: 169272--169301 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
169262 GTAAACCCAG
169272 AATGTATCGATAC
1 AATGTATCGATAC
169285 AATGTATCGATAC
1 AATGTATCGATAC
169298 AATG
1 AATG
169302 AACAACGTAT
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:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Done.