Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold419
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: 103894
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:5766 original size:2 final size:2
Alignment explanation
Indices: 5759--5783 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5749 TTTGCGTGGA
5759 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
5784 CATCATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6467 original size:20 final size:20
Alignment explanation
Indices: 6431--6469 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6421 TAATAATGTA
*
6431 TATATTTTTTACTTATTAAT
1 TATATTTTTTACATATTAAT
6451 TATATTTATTTA-ATATTAA
1 TATATTT-TTTACATATTAA
6470 ACTTAGTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
TATATTTTTTACATATTAAT
Found at i:8782 original size:12 final size:13
Alignment explanation
Indices: 8745--8788 Score: 63
Period size: 12 Copynumber: 3.3 Consensus size: 13
8735 ACTTAATAAA
8745 AAAATTAAATTATT
1 AAAATTAAATT-TT
8759 AAAGATTAAATTTT
1 AAA-ATTAAATTTT
8773 AAAA-TAAATTTT
1 AAAATTAAATTTT
8785 AAAA
1 AAAA
8789 AATAAAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.41
13 1 0.03
14 8 0.28
15 8 0.28
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (13 bp):
AAAATTAAATTTT
Found at i:8790 original size:14 final size:14
Alignment explanation
Indices: 8743--8794 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 14
8733 AAACTTAATA
8743 AAAAAATTAAATTATT
1 AAAAAA-TAAATT-TT
* *
8759 AAAGATTAAATTTT
1 AAAAAATAAATTTT
8773 --AAAATAAATTTT
1 AAAAAATAAATTTT
8785 AAAAAATAAA
1 AAAAAATAAA
8795 ATATGAGCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
12 10 0.33
14 10 0.33
15 6 0.20
16 4 0.13
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (14 bp):
AAAAAATAAATTTT
Found at i:11606 original size:20 final size:20
Alignment explanation
Indices: 11581--11646 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
11571 TTTCAATGAT
11581 TTGTATCGATACATAAAGTG
1 TTGTATCGATACATAAAGTG
11601 TTGTATCGATAC---AA---
1 TTGTATCGATACATAAAGTG
11615 -TGTATCGATACATAAAGTG
1 TTGTATCGATACATAAAGTG
11634 TTGTATCGATACA
1 TTGTATCGATACA
11647 ATGTATCGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 11 0.28
16 2 0.05
17 2 0.05
20 24 0.62
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (20 bp):
TTGTATCGATACATAAAGTG
Found at i:11620 original size:13 final size:13
Alignment explanation
Indices: 11602--11659 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 13
11592 CATAAAGTGT
11602 TGTATCGATACAA
1 TGTATCGATACAA
11615 TGTATCGATACATAAA
1 TGTATCGATAC---AA
11631 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
11648 TGTATCGATACA
1 TGTATCGATACA
11660 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 23 0.61
16 2 0.05
17 2 0.05
20 11 0.29
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:11624 original size:33 final size:33
Alignment explanation
Indices: 11582--11679 Score: 180
Period size: 33 Copynumber: 3.0 Consensus size: 33
11572 TTCAATGATT
11582 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
11615 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
11648 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
11680 AGTAAGCTAC
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 18 0.28
33 46 0.72
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:11718 original size:13 final size:13
Alignment explanation
Indices: 11700--11725 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11690 TGCCAAAAAA
11700 TGTATCGATACAT
1 TGTATCGATACAT
11713 TGTATCGATACAT
1 TGTATCGATACAT
11726 GCAGGCAAAT
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:11791 original size:52 final size:52
Alignment explanation
Indices: 11713--11841 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
11703 ATCGATACAT
11713 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
11765 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
11817 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
11842 TCATATTTCG
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:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:15893 original size:13 final size:13
Alignment explanation
Indices: 15875--15900 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15865 CTATTTATGA
15875 TGTATCGATACAC
1 TGTATCGATACAC
15888 TGTATCGATACAC
1 TGTATCGATACAC
15901 ACAATTATGT
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:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:16047 original size:22 final size:22
Alignment explanation
Indices: 15990--16048 Score: 93
Period size: 21 Copynumber: 2.7 Consensus size: 22
15980 ACAGTGACCT
*
15990 ATGAACAGTTATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
16012 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
*
16033 ATGAACAATGATGTAT
1 ATGAACAGTGATGTAT
16049 AGTGATCAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 20 0.59
22 14 0.41
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:16148 original size:53 final size:53
Alignment explanation
Indices: 16084--16220 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
16074 CTACTTCCAA
16084 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
16137 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
16190 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
16221 TATGCAATTT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 67 0.84
54 13 0.16
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:16253 original size:20 final size:20
Alignment explanation
Indices: 16190--16260 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
16180 GCCAATGTCC
**
16190 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
16210 TGTATCGATAC-TATGCAATT
1 TGTATCGATACATAT-TAATG
16230 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
16250 TGTATCGATAC
1 TGTATCGATAC
16261 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:16326 original size:21 final size:21
Alignment explanation
Indices: 16300--16340 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
16290 GTCAACCTTG
16300 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
16321 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
16341 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:17802 original size:13 final size:13
Alignment explanation
Indices: 17784--17808 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17774 ACTGAAATAA
17784 TGTATCGATACAT
1 TGTATCGATACAT
17797 TGTATCGATACA
1 TGTATCGATACA
17809 ATCTGGAAAA
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:18410 original size:23 final size:24
Alignment explanation
Indices: 18365--18411 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
18355 CAAAGAATTG
*
18365 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
18389 AACACAAA-TCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
18412 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.62, C:0.19, G:0.04, T:0.15
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:19871 original size:21 final size:21
Alignment explanation
Indices: 19847--19888 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
19837 GTCCATTTCT
* *
19847 TCATTTTCATCACCCTCTTGA
1 TCATCTTCATCACCATCTTGA
*
19868 TCATCTTCATCATCATCTTGA
1 TCATCTTCATCACCATCTTGA
19889 ATGGTTGATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.31, G:0.05, T:0.43
Consensus pattern (21 bp):
TCATCTTCATCACCATCTTGA
Found at i:21547 original size:13 final size:13
Alignment explanation
Indices: 21529--21554 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21519 CTATTTATGA
21529 TGTATCGATACAC
1 TGTATCGATACAC
21542 TGTATCGATACAC
1 TGTATCGATACAC
21555 ACAATTATGT
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:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:21701 original size:22 final size:22
Alignment explanation
Indices: 21644--21702 Score: 93
Period size: 21 Copynumber: 2.7 Consensus size: 22
21634 ACAATGACCT
*
21644 ATGAACAGTTATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
21666 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
*
21687 ATGAACAATGATGTAT
1 ATGAACAGTGATGTAT
21703 AGTGATCAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
21 20 0.59
22 14 0.41
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:21802 original size:53 final size:53
Alignment explanation
Indices: 21738--21874 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
21728 CTACTTCCAA
21738 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
21791 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
21844 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
21875 TATGCAATTT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 67 0.84
54 13 0.16
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:21907 original size:20 final size:20
Alignment explanation
Indices: 21844--21914 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
21834 GCCAATGTCC
**
21844 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
21864 TGTATCGATAC-TATGCAATT
1 TGTATCGATACATAT-TAATG
21884 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
21904 TGTATCGATAC
1 TGTATCGATAC
21915 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:21980 original size:21 final size:21
Alignment explanation
Indices: 21954--21994 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
21944 GTCAACCTTG
21954 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
21975 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
21995 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:33004 original size:52 final size:52
Alignment explanation
Indices: 32926--33052 Score: 218
Period size: 52 Copynumber: 2.4 Consensus size: 52
32916 CAAAATATGA
32926 AAATTTGCCTGAATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGAATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
32978 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATTTGGGC
1 AAATTTGCCTGAATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
33030 AATTTTGCCTGCATGTATCGATA
1 AAATTTGCCTGAATGTATCGATA
33053 TAAAGATCAG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 71 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (52 bp):
AAATTTGCCTGAATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:33065 original size:52 final size:52
Alignment explanation
Indices: 32926--33074 Score: 192
Period size: 52 Copynumber: 2.9 Consensus size: 52
32916 CAAAATATGA
* **
32926 AAATTTGCCTGAATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATAACATAGTGTATCGATACATCTGGGC
* ** *
32978 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATTTGGGC
1 AAATTTGCCTGCATGTATCGATACATAACATAGTGTATCGATACATCTGGGC
* * *
33030 AATTTTGCCTGCATGTATCGATATA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATAACAT-AGTGTATCGATACA
33075 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
51 2 0.02
52 86 0.98
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATAACATAGTGTATCGATACATCTGGGC
Found at i:33081 original size:13 final size:13
Alignment explanation
Indices: 33063--33087 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33053 TAAAGATCAG
33063 TGTATCGATACAA
1 TGTATCGATACAA
33076 TGTATCGATACA
1 TGTATCGATACA
33088 TTTGAGTAAT
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:33176 original size:32 final size:32
Alignment explanation
Indices: 33132--33217 Score: 145
Period size: 32 Copynumber: 2.7 Consensus size: 32
33122 AGCTTCATAG
*
33132 CGATACATTGTATCGATATAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
* *
33164 CGGTACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
33196 CGATACATTGTATCGATACAAA
1 CGATACATTGTATCGATACAAA
33218 TCGTTGAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 49 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:33177 original size:13 final size:13
Alignment explanation
Indices: 33159--33215 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
33149 ATAAAACTTA
*
33159 TGTATCGGTACAT
1 TGTATCGATACAT
33172 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
33190 ATGTATCGATACAT
1 -TGTATCGATACAT
33204 TGTATCGATACA
1 TGTATCGATACA
33216 AATCGTTGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 20 0.54
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:38982 original size:27 final size:27
Alignment explanation
Indices: 38952--39022 Score: 124
Period size: 27 Copynumber: 2.6 Consensus size: 27
38942 TTTATTCGGC
* *
38952 GGGGACACTCCAATCCCATTCCTCTGA
1 GGGGACACTCCAACCCCATTCCTCCGA
38979 GGGGACACTCCAACCCCATTCCTCCGA
1 GGGGACACTCCAACCCCATTCCTCCGA
39006 GGGGACACTCCAACCCC
1 GGGGACACTCCAACCCC
39023 GTTTTCAACC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.23, C:0.42, G:0.20, T:0.15
Consensus pattern (27 bp):
GGGGACACTCCAACCCCATTCCTCCGA
Found at i:42564 original size:25 final size:25
Alignment explanation
Indices: 42529--42592 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
42519 AACTGGACGT
42529 TAGCGGTCCAATTTAATGGACGCTTGC
1 TAGC-GTCCAATTTAATGGACGC-TGC
* * *
42556 -AGCGTCCAACTTATTGGATGCTGC
1 TAGCGTCCAATTTAATGGACGCTGC
*
42580 TTGCGTCCAATTT
1 TAGCGTCCAATTT
42593 TCTTAAAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
24 3 0.10
25 25 0.81
26 3 0.10
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.33
Consensus pattern (25 bp):
TAGCGTCCAATTTAATGGACGCTGC
Found at i:48150 original size:20 final size:19
Alignment explanation
Indices: 48120--48196 Score: 91
Period size: 20 Copynumber: 3.9 Consensus size: 19
48110 GTAAAAAGAT
48120 AAAATGTATCGATACATTG
1 AAAATGTATCGATACATTG
* *
48139 AAGAATGCATCGATACATTC
1 AA-AATGTATCGATACATTG
*
48159 ATACATGTATCGATACATTG
1 A-AAATGTATCGATACATTG
*
48179 AAAAATATATCGATACAT
1 -AAAATGTATCGATACAT
48197 CTGGGTAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
19 2 0.04
20 44 0.92
21 2 0.04
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (19 bp):
AAAATGTATCGATACATTG
Found at i:49580 original size:155 final size:155
Alignment explanation
Indices: 49342--49843 Score: 551
Period size: 155 Copynumber: 3.3 Consensus size: 155
49332 TCGGTGATCT
* * ** * * *
49342 TAAAGGACTTAAAAAGAATTATAGATAGGATGAACCCATCCTAAATAGTCACCTTTGGCACAAAA
1 TAAAGGACTTAAAAAGGATTATAGATAGGATGAACCTATCCTAAATACCCACCTTCGACATAAAA
* * **
49407 ACAGATTCGGTGACAACCTAAGACTCAGTTCTAAAAAATTATGAAAATGCCTTTAGGGGATACCT
66 GCGGACCCGGTGACAACCTAAGACTCAGTTCTAAAAAATTATGAAAATGCCTTTAGGGGATACCT
49472 TCGACTTAAAAGTGCTCGATACCTC
131 TCGACTTAAAAGTGCTCGATACCTC
* *
49497 TAAAGGACTTAAAAAGGATTATAGATGGGATGAACCTATCCTAAATACCCACCTTCAACATAAAA
1 TAAAGGACTTAAAAAGGATTATAGATAGGATGAACCTATCCTAAATACCCACCTTCGACATAAAA
* * * * * ** *
49562 GCGGACCCAGTGATAACCTAAGATTCGGTTCTATAAAATTATGAAAATGCCCCTAGTGGATACCT
66 GCGGACCCGGTGACAACCTAAGACTCAGTTCTAAAAAATTATGAAAATGCCTTTAGGGGATACCT
**
49627 TCGACTTAAAAGTTATCGATA--TC
131 TCGACTTAAAAGTGCTCGATACCTC
* * *
49650 -------CCT--AAAGGATTATAGACAGGATGAACCAATCCTAAATACCCACCTTCGACATAAAA
1 TAAAGGACTTAAAAAGGATTATAGATAGGATGAACCTATCCTAAATACCCACCTTCGACATAAAA
* * * * * * * *
49706 GTGGACCCGGTAACAACATAAGACTCAATTCTGAAAAATTATAAAAATACCTTTAGGGGATACTT
66 GCGGACCCGGTGACAACCTAAGACTCAGTTCTAAAAAATTATGAAAATGCCTTTAGGGGATACCT
* * * *
49771 TCAACTCAGAAGTGCTTGATACC-C
131 TCGACTTAAAAGTGCTCGATACCTC
* *
49795 TTAAAGGACTTAAACAGGATTATAGATGGGATGAACCTATCCTAAATAC
1 -TAAAGGACTTAAAAAGGATTATAGATAGGATGAACCTATCCTAAATAC
49844 GTATTTTTAA
Statistics
Matches: 280, Mismatches: 55, Indels: 24
0.78 0.15 0.07
Matches are distributed among these distances:
144 113 0.40
145 1 0.00
146 2 0.01
153 4 0.01
155 160 0.57
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (155 bp):
TAAAGGACTTAAAAAGGATTATAGATAGGATGAACCTATCCTAAATACCCACCTTCGACATAAAA
GCGGACCCGGTGACAACCTAAGACTCAGTTCTAAAAAATTATGAAAATGCCTTTAGGGGATACCT
TCGACTTAAAAGTGCTCGATACCTC
Found at i:49800 original size:144 final size:144
Alignment explanation
Indices: 49509--49814 Score: 341
Period size: 144 Copynumber: 2.1 Consensus size: 144
49499 AAGGACTTAA
** * *
49509 AAAGGATTATAGATGGGATGAACCTATCCTAAATACCCACCTTCAACATAAAAGCGGACCCAGTG
1 AAAGGATTATAGACAGGATGAACCAATCCTAAATACCCACCTTCAACATAAAAGCGGACCCAGTA
* * * ** * * * * *
49574 ATAACCTAAGATTCGGTTCTATAAAATTATGAAAATGCCCCTAGTGGATACCTTCGACTTAAAAG
66 ACAACATAAGACTCAATTCTATAAAATTATAAAAATACCCCTAGGGGATACCTTCAACTCAAAAG
*
49639 TTATCGATATCCCT
131 TGATCGATATCCCT
* * *
49653 AAAGGATTATAGACAGGATGAACCAATCCTAAATACCCACCTTCGACATAAAAGTGGACCCGGTA
1 AAAGGATTATAGACAGGATGAACCAATCCTAAATACCCACCTTCAACATAAAAGCGGACCCAGTA
** * *
49718 ACAACATAAGACTCAATTCTGA-AAAATTATAAAAATACCTTTAGGGGATACTTTCAACTCAGAA
66 ACAACATAAGACTCAATTCT-ATAAAATTATAAAAATACCCCTAGGGGATACCTTCAACTCAAAA
* *
49782 GTGCTTGATA-CCCTT
130 GTGATCGATATCCC-T
49797 AAAGGACTTA-A-ACAGGAT
1 AAAGGA-TTATAGACAGGAT
49815 TATAGATGGG
Statistics
Matches: 135, Mismatches: 24, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
143 10 0.07
144 121 0.90
145 4 0.03
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.25
Consensus pattern (144 bp):
AAAGGATTATAGACAGGATGAACCAATCCTAAATACCCACCTTCAACATAAAAGCGGACCCAGTA
ACAACATAAGACTCAATTCTATAAAATTATAAAAATACCCCTAGGGGATACCTTCAACTCAAAAG
TGATCGATATCCCT
Found at i:50300 original size:22 final size:20
Alignment explanation
Indices: 50260--50301 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
50250 TTGAAAAATG
*
50260 AAAATAACAAATTTTATTTA
1 AAAATAAAAAATTTTATTTA
50280 AAAATAAAATAATATTTATTTA
1 AAAATAAAA-AAT-TTTATTTA
50302 TTATTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 3 0.16
22 8 0.42
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAATAAAAAATTTTATTTA
Found at i:50301 original size:4 final size:4
Alignment explanation
Indices: 50292--50332 Score: 57
Period size: 4 Copynumber: 10.2 Consensus size: 4
50282 AATAAAATAA
*
50292 TATT TATT TA-T TATTT TATT TATT TATT TATT TTTT TATT T
1 TATT TATT TATT TA-TT TATT TATT TATT TATT TATT TATT T
50333 TTGAAACTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
3 3 0.09
4 27 0.82
5 3 0.09
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TATT
Found at i:50317 original size:20 final size:20
Alignment explanation
Indices: 50292--50332 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
50282 AATAAAATAA
50292 TATTTATTTATTATTTTATT
1 TATTTATTTATTATTTTATT
*
50312 TATTTATTTATTTTTTTATT
1 TATTTATTTATTATTTTATT
50332 T
1 T
50333 TTGAAACTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (20 bp):
TATTTATTTATTATTTTATT
Found at i:51443 original size:20 final size:20
Alignment explanation
Indices: 51414--51468 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
51404 ATTTTACCCA
51414 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
* *
51434 AATGTGTCGATACATTATTT
1 AATGTATCGATACATTATTC
51454 AATGTATCGATACAT
1 AATGTATCGATACAT
51469 GCAAGCAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.40
Consensus pattern (20 bp):
AATGTATCGATACATTATTC
Found at i:55697 original size:13 final size:13
Alignment explanation
Indices: 55679--55704 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55669 CATTATTCAA
55679 TGTATCGATACAT
1 TGTATCGATACAT
55692 TGTATCGATACAT
1 TGTATCGATACAT
55705 CGATCTTTGT
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:55772 original size:20 final size:20
Alignment explanation
Indices: 55760--55856 Score: 160
Period size: 20 Copynumber: 4.8 Consensus size: 20
55750 ATACATTTTG
55760 CATTGTATCGATACATTGCT
1 CATTGTATCGATACATTGCT
55780 CATTGTATCGATACATTGCT
1 CATTGTATCGATACATTGCT
55800 CATTGTATCGATACATTGCT
1 CATTGTATCGATACATTGCT
*
55820 CATTGTATCGATACATT-TT
1 CATTGTATCGATACATTGCT
*
55839 ACAATGTATCGATACATT
1 -CATTGTATCGATACATT
55857 CATGCATTTT
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
19 1 0.01
20 73 0.99
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.40
Consensus pattern (20 bp):
CATTGTATCGATACATTGCT
Found at i:55804 original size:40 final size:40
Alignment explanation
Indices: 55743--55856 Score: 176
Period size: 40 Copynumber: 2.9 Consensus size: 40
55733 TTTACCTAGA
* *
55743 TGTATAGATACATTTTGCATTGTATCGATACATTGCTCAT
1 TGTATCGATACATTTTACATTGTATCGATACATTGCTCAT
*
55783 TGTATCGATACATTGCT-CATTGTATCGATACATTGCTCAT
1 TGTATCGATACATT-TTACATTGTATCGATACATTGCTCAT
*
55823 TGTATCGATACATTTTACAATGTATCGATACATT
1 TGTATCGATACATTTTACATTGTATCGATACATT
55857 CATGCATTTT
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
39 1 0.01
40 66 0.97
41 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (40 bp):
TGTATCGATACATTTTACATTGTATCGATACATTGCTCAT
Found at i:55813 original size:60 final size:60
Alignment explanation
Indices: 55743--55856 Score: 160
Period size: 60 Copynumber: 1.9 Consensus size: 60
55733 TTTACCTAGA
* *
55743 TGTATAGATACATT-TTGCATTGTATCGATACATTGCT-CATTGTATCGATACATTGCTCAT
1 TGTATAGATACATTGCT-CATTGTATCGATACATT-CTACAATGTATCGATACATTGCTCAT
* *
55803 TGTATCGATACATTGCTCATTGTATCGATACATTTTACAATGTATCGATACATT
1 TGTATAGATACATTGCTCATTGTATCGATACATTCTACAATGTATCGATACATT
55857 CATGCATTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
59 1 0.02
60 46 0.96
61 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (60 bp):
TGTATAGATACATTGCTCATTGTATCGATACATTCTACAATGTATCGATACATTGCTCAT
Found at i:58231 original size:51 final size:51
Alignment explanation
Indices: 58176--58319 Score: 146
Period size: 51 Copynumber: 2.8 Consensus size: 51
58166 TCCCGGTTCC
** *
58176 ATTTCCAAAACATCAATTTTCCTTAATCAGAGATACTCCAACTCCGATTTT
1 ATTTCCAAAACATCAATTTTCCACAATCAGAGATACTCCAACTCCAATTTT
* * * * * *
58227 ATTTCTAAAGCATCGATTTACCACAATCGGGGATACTCCAACTCCAATTTT
1 ATTTCCAAAACATCAATTTTCCACAATCAGAGATACTCCAACTCCAATTTT
* * ** *
58278 ATTTTCAAAACA-CTAATTTTTCACAATTGGGGATACTCCAAC
1 ATTTCCAAAACATC-AATTTTCCACAATCAGAGATACTCCAAC
58320 CTTGTTATTT
Statistics
Matches: 76, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
50 1 0.01
51 75 0.99
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.33
Consensus pattern (51 bp):
ATTTCCAAAACATCAATTTTCCACAATCAGAGATACTCCAACTCCAATTTT
Found at i:58339 original size:28 final size:29
Alignment explanation
Indices: 58306--58377 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 29
58296 TTTCACAATT
** *
58306 GGGGATACTCCAACCTTGTTATTT-CATC
1 GGGGATACTCCAACCCCGTTATTTCCAAC
58334 GGGGATACTCCAACCCCGTTATTTCCAAC
1 GGGGATACTCCAACCCCGTTATTTCCAAC
58363 -GGGATACTCCAACCC
1 GGGGATACTCCAACCC
58378 TGGCTTTATA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 37 0.93
29 3 0.08
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (29 bp):
GGGGATACTCCAACCCCGTTATTTCCAAC
Found at i:58444 original size:108 final size:106
Alignment explanation
Indices: 58291--58566 Score: 351
Period size: 108 Copynumber: 2.6 Consensus size: 106
58281 TTCAAAACAC
* ** *
58291 TAATTTTTCACAATTGGGGATACTCCAACCTTGTTATTTCATCGGGGATACTCCAACCCCGTTAT
1 TAATTTTTCATAATTGGGG-TACTCCAACCCCGTTATTTCATCGGGGATACTCCAATCCCGTTAT
58356 TTCCAACG-GGATACTCCAACCCTGGCTTTATATCTAAAAATAT
65 TTCCAA-GAGGATACTCCAACCCTGGCTTTATATCT-AAAATAT
** *
58399 TGTTTTTTTCATAATTGGGGTACTCCAACCCCGTTATTTCATCGGGGATACTCCAATCTCGTTAT
1 T-AATTTTTCATAATTGGGGTACTCCAACCCCGTTATTTCATCGGGGATACTCCAATCCCGTTAT
* * *
58464 TTCCGAGAGGATACTCCAACCCTGGTTTTATTTCTAAAATAT
65 TTCCAAGAGGATACTCCAACCCTGGCTTTATATCTAAAATAT
* * *
58506 TAATTTCTCATAATCGGGAATACTCCAACCCCGTTATTT-A-CGAGGGGATACTCCAATCCCG
1 TAATTTTTCATAATTGGG-GTACTCCAACCCCGTTATTTCATC--GGGGATACTCCAATCCCG
58567 ATTGTATTTC
Statistics
Matches: 147, Mismatches: 16, Indels: 11
0.84 0.09 0.06
Matches are distributed among these distances:
105 1 0.01
106 14 0.10
107 45 0.31
108 72 0.49
109 15 0.10
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (106 bp):
TAATTTTTCATAATTGGGGTACTCCAACCCCGTTATTTCATCGGGGATACTCCAATCCCGTTATT
TCCAAGAGGATACTCCAACCCTGGCTTTATATCTAAAATAT
Found at i:58452 original size:28 final size:26
Alignment explanation
Indices: 58415--58485 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 26
58405 TTTCATAATT
58415 GGGG-TACTCCAACCCCGTTATTTCATC
1 GGGGATACTCCAACCCCGTTATTTC--C
* *
58442 GGGGATACTCCAATCTCGTTATTTCC
1 GGGGATACTCCAACCCCGTTATTTCC
58468 GAGAGGATACTCCAACCC
1 G-G-GGATACTCCAACCC
58486 TGGTTTTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.05
27 5 0.14
28 30 0.81
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.27
Consensus pattern (26 bp):
GGGGATACTCCAACCCCGTTATTTCC
Found at i:58530 original size:79 final size:77
Alignment explanation
Indices: 58443--58643 Score: 251
Period size: 79 Copynumber: 2.6 Consensus size: 77
58433 TATTTCATCG
* * * * * * *
58443 GGGATACTCCAATCTCGTTATTTCCGAGAGGATACTCCAACCCTGGTTTTATTTCTAAAAT-ATT
1 GGGATACTCCAACCCCGTTATTTACGAGGGGATACTCCAACCC-GATTGTATTTCT-AAATCATC
*
58507 AATTTCTCATAATC
64 AATTTCTCACAATC
58521 GGGAATACTCCAACCCCGTTATTTACGAGGGGATACTCCAATCCCGATTGTATTTCTAAATCATC
1 GGG-ATACTCCAACCCCGTTATTTACGAGGGGATACTCCAA-CCCGATTGTATTTCTAAATCATC
*
58586 AATTTTTCACAATC
64 AATTTCTCACAATC
* *
58600 GAGGATACTCTAACCCCGTTATTTTCGAGGGGATACTCCAACCC
1 G-GGATACTCCAACCCCGTTATTTACGAGGGGATACTCCAACCC
58644 CATTATTATC
Statistics
Matches: 108, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
78 10 0.09
79 93 0.86
80 5 0.05
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (77 bp):
GGGATACTCCAACCCCGTTATTTACGAGGGGATACTCCAACCCGATTGTATTTCTAAATCATCAA
TTTCTCACAATC
Found at i:58562 original size:107 final size:106
Alignment explanation
Indices: 58256--58566 Score: 344
Period size: 108 Copynumber: 2.9 Consensus size: 106
58246 ACCACAATCG
** * * * *
58256 GGGATACTCCAACTCC-AATTTTATTT-TCAAAACACTAATTTTTCACAATTGGGGATACTCCAA
1 GGGATACTCCAAC-CCTGGTTTTATTTCTAAAAATATTAATTTTTCATAATT-GGGATACTCCAA
** *
58319 CCTTGTTATTTCATCGGGGATACTCCAACCCCGTTATTTCCAAC
64 CCCCGTTATTTCA-CGGGGATACTCCAATCCCGTTATTTCCAAC
* * ** *
58363 GGGATACTCCAACCCTGGCTTTATATCTAAAAATATTGTTTTTTTCATAATTGGGGTACTCCAAC
1 GGGATACTCCAACCCTGGTTTTATTTCTAAAAATATT-AATTTTTCATAATTGGGATACTCCAAC
* *
58428 CCCGTTATTTCATCGGGGATACTCCAATCTCGTTATTTCCGA-
65 CCCGTTATTTCA-CGGGGATACTCCAATCCCGTTATTTCCAAC
* *
58470 GAGGATACTCCAACCCTGGTTTTATTTCT-AAAATATTAATTTCTCATAATCGGGAATACTCCAA
1 G-GGATACTCCAACCCTGGTTTTATTTCTAAAAATATTAATTTTTCATAATTGGG-ATACTCCAA
58534 CCCCGTTATTT-ACGAGGGGATACTCCAATCCCG
64 CCCCGTTATTTCAC--GGGGATACTCCAATCCCG
58567 ATTGTATTTC
Statistics
Matches: 173, Mismatches: 24, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
105 1 0.01
106 16 0.09
107 64 0.37
108 81 0.47
109 11 0.06
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (106 bp):
GGGATACTCCAACCCTGGTTTTATTTCTAAAAATATTAATTTTTCATAATTGGGATACTCCAACC
CCGTTATTTCACGGGGATACTCCAATCCCGTTATTTCCAAC
Found at i:59790 original size:15 final size:16
Alignment explanation
Indices: 59765--59796 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
59755 AAAACTCAAT
59765 TTTTTGAAGAAAAAAA
1 TTTTTGAAGAAAAAAA
59781 TTTTTG-AGAAAAAAA
1 TTTTTGAAGAAAAAAA
59796 T
1 T
59797 GAAAAACTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.34
Consensus pattern (16 bp):
TTTTTGAAGAAAAAAA
Found at i:61185 original size:42 final size:43
Alignment explanation
Indices: 61139--61274 Score: 122
Period size: 43 Copynumber: 3.2 Consensus size: 43
61129 TCGACAAGTC
*
61139 AACAAAGGATAAAGAATTTACTTGGGACTAAGC-CATCAGGTA
1 AACAAAGGATAAAGAATTTACTTGGGACTAAGCTGATCAGGTA
* * * * *
61181 AACAAAAGG-TGAAAG-ATTTAATTGAGATTGAA-CTGAT-AAGTC
1 AAC-AAAGGAT-AAAGAATTTACTTGGGACT-AAGCTGATCAGGTA
* *
61223 AACAAAGGATAAAAAGATTTACTCGGGACTAAGCTGA-CAGGTA
1 AACAAAGGATAAAGA-ATTTACTTGGGACTAAGCTGATCAGGTA
61266 AACAAAGGA
1 AACAAAGGA
61275 ATACAAGGTT
Statistics
Matches: 72, Mismatches: 13, Indels: 17
0.71 0.13 0.17
Matches are distributed among these distances:
41 8 0.11
42 25 0.35
43 39 0.54
ACGTcount: A:0.46, C:0.12, G:0.22, T:0.21
Consensus pattern (43 bp):
AACAAAGGATAAAGAATTTACTTGGGACTAAGCTGATCAGGTA
Found at i:61344 original size:42 final size:42
Alignment explanation
Indices: 61294--61410 Score: 116
Period size: 42 Copynumber: 2.8 Consensus size: 42
61284 TGATAGGGAT
61294 TGAACCGACAAGTCAATAAAGGATAAAGAATTTAACCGAGAC
1 TGAACCGACAAGTCAATAAAGGATAAAGAATTTAACCGAGAC
* * * * * * *
61336 T-AAGCCGACAGGTAAATAAAAGAATACAAG--GTTAACGGGGAT
1 TGAA-CCGACAAGTCAAT-AAAGGATA-AAGAATTTAACCGAGAC
61378 TGAA-CGACAAGTCAATAAAGGATAAAGAATTTA
1 TGAACCGACAAGTCAATAAAGGATAAAGAATTTA
61411 CCTGGGACTA
Statistics
Matches: 58, Mismatches: 11, Indels: 13
0.71 0.13 0.16
Matches are distributed among these distances:
39 3 0.05
40 7 0.12
41 15 0.26
42 21 0.36
43 9 0.16
44 3 0.05
ACGTcount: A:0.48, C:0.13, G:0.21, T:0.18
Consensus pattern (42 bp):
TGAACCGACAAGTCAATAAAGGATAAAGAATTTAACCGAGAC
Found at i:61659 original size:336 final size:337
Alignment explanation
Indices: 60967--61687 Score: 861
Period size: 336 Copynumber: 2.1 Consensus size: 337
60957 AAGCAGTCAG
** * * * * * *
60967 GTCAACAAAGGATAAAAGAGGTTACCCG-GGACTAGGCCAACAAGTAAACAAAAG-ATGCAAAAG
1 GTCAACAAAGGAT-AAAGAATTTA-CCGAGGACTAAGCCGACAGGTAAATAAAAGAATAC-AAGG
* * * *
61030 TTGATC-GGGATTGAACCGACAAGTCAATGAAGGACAAAGAATTTGCTCAAGACTAAGCCAACAG
63 TT-AACGGGGATTGAACCGACAAGTCAATAAAGGACAAAGAATTTCCTCAAGACTAAACCAACAG
* * * *
61094 GTAAACAAAGGAATACAAGGTTGACAGGGATTGAATCGACAAGTCAACAAAGGATAAAGAATTTA
127 GTAAACAAAAGAATACAAGGTTGACAGGGATTGAAGCAACAAGTCAACAAAGGATAAAAAATTTA
* * * * ** * * *
61159 CTTGGGACTAAGCCATCAGGTAAACAAAAGGTGAAAGATTTAATTGAGATTGAACTGATAAGTCA
192 CCTGGGACTAAGCCATCAGGTAAACAAAAGATAAAAGAGTTAACCGAGATTGAACCGAAAAATCA
* *
61224 ACAAAGGATAAAAAGATTTACTCGGGACTAAGCTGACAGGTAAACAAAGGAATACAAGGTTGATA
257 ACAAAGGATAAAAAGATTTACTAGGGACTAAGCTGACAGGTAAACAAAAGAATACAAGGTTGATA
61289 GGGATTGAACCGACAA
322 GGGATTGAACCGACAA
*
61305 GTCAATAAAGGATAAAGAATTTAACCGA-GACTAAGCCGACAGGTAAATAAAAGAATACAAGGTT
1 GTCAACAAAGGATAAAGAATTT-ACCGAGGACTAAGCCGACAGGTAAATAAAAGAATACAAGGTT
* ** *
61369 AACGGGGATTGAA-CGACAAGTCAATAAAGGATAAAGAATTTACCT-GGGACTAAACCATCAGGT
65 AACGGGGATTGAACCGACAAGTCAATAAAGGACAAAGAATTT-CCTCAAGACTAAACCAACAGGT
* ** *
61432 AAACAAAAG-ATGA-AAGATTTGATTGGGATTG-AGCAACAAGTCAACAACGGATAAAAAGATTT
129 AAACAAAAGAAT-ACAAG-GTTGACAGGGATTGAAGCAACAAGTCAACAAAGGATAAAAA-ATTT
* *
61494 ACCTGGGATTAAGCTGAT-AGGTAAACAAAAGATAAAA-AGGTTAACCGAGATTGAACCGAAAAA
191 ACCTGGGACTAAGC-CATCAGGTAAACAAAAGATAAAAGA-GTTAACCGAGATTGAACCGAAAAA
* * *
61557 TCAACAAAGGATAAAAGGATTTATTAGGGACTAAGCTTACAGGTAAACAAAAGAATACAAGGTTG
254 TCAACAAAGGATAAAAAGATTTACTAGGGACTAAGCTGACAGGTAAACAAAAGAATACAAGGTTG
61622 ATAGGGATTGAACCGACAA
319 ATAGGGATTGAACCGACAA
* * * *
61641 GTCGACAAAGGATAAAGAATTTACCTAGGACTAAGCTGCCAGGTAAA
1 GTCAACAAAGGATAAAGAATTTACCGAGGACTAAGCCGACAGGTAAA
61688 CAAAGGATGA
Statistics
Matches: 326, Mismatches: 46, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
335 32 0.10
336 229 0.70
337 49 0.15
338 16 0.05
ACGTcount: A:0.45, C:0.14, G:0.23, T:0.19
Consensus pattern (337 bp):
GTCAACAAAGGATAAAGAATTTACCGAGGACTAAGCCGACAGGTAAATAAAAGAATACAAGGTTA
ACGGGGATTGAACCGACAAGTCAATAAAGGACAAAGAATTTCCTCAAGACTAAACCAACAGGTAA
ACAAAAGAATACAAGGTTGACAGGGATTGAAGCAACAAGTCAACAAAGGATAAAAAATTTACCTG
GGACTAAGCCATCAGGTAAACAAAAGATAAAAGAGTTAACCGAGATTGAACCGAAAAATCAACAA
AGGATAAAAAGATTTACTAGGGACTAAGCTGACAGGTAAACAAAAGAATACAAGGTTGATAGGGA
TTGAACCGACAA
Found at i:61810 original size:85 final size:85
Alignment explanation
Indices: 60967--62330 Score: 748
Period size: 85 Copynumber: 16.2 Consensus size: 85
60957 AAGCAGTCAG
* * * ** * *
60967 GTCAACAAAGGATAAAA-GAGGTTACCCGGGACTAGGCCAACAAGTAAACAAAAGATGCAAAA-G
1 GTCAACAAAGGATAAAAGGA-TTTACCTGGGACTAAGCTGACAGGTAAACAAAAGAT-AAAAAGG
*
61030 TTGA-TCGGGATTGAACCGACAA
64 TTGACT-GGGATTGAACTGACAA
** * * * ** ** * *
61052 GTCAATGAAGGA-CAAAGAATTT-GCTCAAGACTAAGCCAACAGGTAAACAAAGGA-ATACAAGG
1 GTCAACAAAGGATAAAAGGATTTACCT-GGGACTAAGCTGACAGGTAAACAAAAGATA-AAAAGG
*
61114 TTGACAGGGATTGAA-TCGACAA
64 TTGACTGGGATTGAACT-GACAA
* * * * * *
61136 GTCAACAAAGGAT-AAAGAATTTACTTGGGACTAAGC-CATCAGGTAAACAAAAGGT-GAAAGAT
1 GTCAACAAAGGATAAAAGGATTTACCTGGGACTAAGCTGA-CAGGTAAACAAAAGATAAAAAG-G
* * * *
61198 TTAATTGAGATTGAACTGATAA
64 TTGACTGGGATTGAACTGACAA
* * *
61220 GTCAACAAAGGATAAAAAGATTTA-CTCGGGACTAAGCTGACAGGTAAACAAAGGA-ATACAAGG
1 GTCAACAAAGGATAAAAGGATTTACCT-GGGACTAAGCTGACAGGTAAACAAAAGATA-AAAAGG
*
61283 TTGA-TAGGGATTGAACCGACAA
64 TTGACT-GGGATTGAACTGACAA
* * * * * *
61305 GTCAATAAAGGAT-AAAGAATTTAACC-GAGACTAAGCCGACAGGTAAATAAAAGA-ATACAAGG
1 GTCAACAAAGGATAAAAGGATTT-ACCTGGGACTAAGCTGACAGGTAAACAAAAGATA-AAAAGG
* *
61367 TTAACGGGGATTGAAC-GACAA
64 TTGACTGGGATTGAACTGACAA
* * * * * *
61388 GTCAATAAAGGAT-AAAGAATTTACCTGGGACTAAAC-CATCAGGTAAACAAAAGAT-GAAAGAT
1 GTCAACAAAGGATAAAAGGATTTACCTGGGACTAAGCTGA-CAGGTAAACAAAAGATAAAAAG-G
* * *
61450 TTGATTGGGATTGAGC-AACAA
64 TTGACTGGGATTGAACTGACAA
* * * *
61471 GTCAACAACGGATAAAAAGATTTACCTGGGATTAAGCTGATAGGTAAACAAAAGATAAAAAGGTT
1 GTCAACAAAGGATAAAAGGATTTACCTGGGACTAAGCTGACAGGTAAACAAAAGATAAAAAGGTT
* * * * *
61536 AACCGAGATTGAACCGAAAA
66 GACTGGGATTGAACTGACAA
* * * *
61556 ATCAACAAAGGATAAAAGGATTTA-TTAGGGACTAAGCTTACAGGTAAACAAAAGA-ATACAAGG
1 GTCAACAAAGGATAAAAGGATTTACCT-GGGACTAAGCTGACAGGTAAACAAAAGATA-AAAAGG
*
61619 TTGA-TAGGGATTGAACCGACAA
64 TTGACT-GGGATTGAACTGACAA
* * * * *
61641 GTCGACAAAGGAT-AAAGAATTTACCTAGGACTAAGCTGCCAGGTAAACAAAGGATGAAAAA-GT
1 GTCAACAAAGGATAAAAGGATTTACCTGGGACTAAGCTGACAGGTAAACAAAAGAT-AAAAAGGT
* * *
61704 TGATTGGGATTAAAATGACAA
65 TGACTGGGATTGAACTGACAA
* * * * * *
61725 GTCAAAAAAGGATAAGAGGATTTACCCGGGATTAAGCTGACAAGTAAACAAAGGATAAAAAGGTT
1 GTCAACAAAGGATAAAAGGATTTACCTGGGACTAAGCTGACAGGTAAACAAAAGATAAAAAGGTT
*** *
61790 GACCAAGATTGAACTAACAA
66 GACTGGGATTGAACTGACAA
* ** * * * * * ** * *
61810 GTTAGTAAAGGATAAAAAGATTTACCTAGGACTAAGCCGTCAAGTAAACAAGCGAT-GAGAGAGT
1 GTCAACAAAGGATAAAAGGATTTACCTGGGACTAAGCTGACAGGTAAACAAAAGATAAAAAG-GT
* * * *
61874 TGATTGGGATTGAACCGATAC
65 TGACTGGGATTGAACTGACAA
* * * * * * * *
61895 GTAAAAAAAAGG-TAAAAGGATTTAACTAGGACTAAGCCG-CTAGGTAAATAAAGGAT-GAAAGA
1 GT-CAACAAAGGATAAAAGGATTTACCTGGGACTAAGCTGAC-AGGTAAACAAAAGATAAAAAG-
* *
61957 GTTGACTAGGATTGAA-TCGATAA
63 GTTGACTGGGATTGAACT-GACAA
* * * * * * * *
61980 ---ATCAAAGGATAAAAGGATTTA-TTGGGGACTAAGCCGATAAGCAAATAAAGGATAAAAAGGT
1 GTCAACAAAGGATAAAAGGATTTACCT-GGGACTAAGCTGACAGGTAAACAAAAGATAAAAAGGT
* * * *
62041 TGATTAGAATTGAACCGACAA
65 TGACTGGGATTGAACTGACAA
* ** * * ** * * * *
62062 GTCAACAATGGATAAAAATATTTACCCGAGACTAAGCCAATAGGCAAACAAAGGAT-GAAAGAGT
1 GTCAACAAAGGATAAAAGGATTTACCTGGGACTAAGCTGACAGGTAAACAAAAGATAAAAAG-GT
62126 TGACTGGGATTGAACTGACAA
65 TGACTGGGATTGAACTGACAA
* * * ** *** * * * * *
62147 ---ATCAAACGATAGAACAATTTACCCAAGACTAAGCCGATAGGTATACAAAGGATAAAAAGATT
1 GTCAACAAAGGATAAAAGGATTTACCTGGGACTAAGCTGACAGGTAAACAAAAGATAAAAAGGTT
*
62209 GA-TCAGGATTGAA-TCGACAA
66 GACT-GGGATTGAACT-GACAA
* ** * *
62229 GTCAACAAAGGATAAAAAGATTTACC-AAGACTAAG-TCGATAGGTAAACAAAGGAT-AAAAGAG
1 GTCAACAAAGGATAAAAGGATTTACCTGGGACTAAGCT-GACAGGTAAACAAAAGATAAAAAG-G
* *
62291 -TGATTGGGATTGATCTGACAA
64 TTGACTGGGATTGAACTGACAA
* *
62312 GTCAATAAAAGATAAAAGG
1 GTCAACAAAGGATAAAAGG
62331 TTGGCCAAGG
Statistics
Matches: 1004, Mismatches: 213, Indels: 126
0.75 0.16 0.09
Matches are distributed among these distances:
81 9 0.01
82 121 0.12
83 128 0.13
84 319 0.32
85 415 0.41
86 12 0.01
ACGTcount: A:0.45, C:0.13, G:0.23, T:0.19
Consensus pattern (85 bp):
GTCAACAAAGGATAAAAGGATTTACCTGGGACTAAGCTGACAGGTAAACAAAAGATAAAAAGGTT
GACTGGGATTGAACTGACAA
Found at i:61950 original size:170 final size:169
Alignment explanation
Indices: 61007--62291 Score: 425
Period size: 169 Copynumber: 7.6 Consensus size: 169
60997 ACTAGGCCAA
* * * * * * ** * *
61007 CAAGTAAACAAAAGATGCAAAAGTTGATCGGGATTGAACCGACAAGTCAATGAAGGA-CAAAGAA
1 CAAGTAAACAAAGGATGAAAAAGTTGATTGGGATTAAAACGACAAGTAAAAAAAGGATAAAAGGA
* * * * * * *
61071 TTT-GCTCAAGACTAAGCCAACAGGTAAACAAAGGAATACAAG-GTTGA-CAGGGATTGAA-TCG
66 TTTAAC-CAGGACTAAGCCGACAAGTAAACAAAGG-ATAAAAGAGTTGACCA-AGATTGAACT-A
* ** * * * **
61132 ACAAGTCAACAAAGGATAAAGAATTTACTTGGGACTAAGCCAT
127 ACAAGTTAGTAAAGGATAAAAAATTTACCTAGGACTAAGCCGC
* * * * * * * * * *
61175 CAGGTAAACAAAAGG-TGAAAGATTTAATTGAGATT-GAACTGATAAGTCAACAAAGGATAAAAA
1 CAAGTAAAC-AAAGGATGAAAAAGTTGATTGGGATTAAAAC-GACAAGTAAAAAAAGGATAAAAG
* * * * * * *
61238 GATTT-ACTCGGGACTAAGCTGACAGGTAAACAAAGGAATACAAG-GTTGA-TAGGGATTGAACC
64 GATTTAAC-CAGGACTAAGCCGACAAGTAAACAAAGG-ATAAAAGAGTTGACCA-AGATTGAACT
* * * * * *
61300 GACAAGTCAATAAAGGATAAAGAATTTAACCGA-GACTAAGCCGA
126 AACAAGTTAGTAAAGGATAAAAAATTT-ACCTAGGACTAAGCCGC
* * * * * * ** * * * *
61344 CAGGTAAATAAAAGAAT-ACAAGGTTAACGGGGATT-GAACGACAAGTCAATAAAGGAT-AAAGA
1 CAAGTAAA-CAAAGGATGAAAAAGTTGATTGGGATTAAAACGACAAGTAAAAAAAGGATAAAAGG
* * * * * * **** *
61406 ATTT-ACCTGGGACTAAACC-ATCAGGTAAACAAAAGATGAAAGATTTGATTGGGATTGAGC-AA
65 ATTTAACC-AGGACTAAGCCGA-CAAGTAAACAAAGGATAAAAGAGTTGACCAAGATTGAACTAA
* ** * * * * *
61468 CAAGTCAACAACGGATAAAAAGATTTACCTGGGATTAAGCTGA
128 CAAGTTAGTAAAGGATAAAAA-ATTTACCTAGGACTAAGCCGC
* * * * ** * * * * * * *
61511 TAGGTAAACAAAAGAT-AAAAAGGTTAACCGAGATTGAACCGAAAAATCAACAAAGGATAAAAGG
1 CAAGTAAACAAAGGATGAAAAA-GTTGATTGGGATTAAAACGACAAGTAAAAAAAGGATAAAAGG
** ** * * * * * **
61575 ATTT-ATTAGGGACTAAGCTTACAGGTAAACAAAAGAATACAAG-GTTGA-TAGGGATTGAACCG
65 ATTTAACCA-GGACTAAGCCGACAAGTAAAC-AAAGGATAAAAGAGTTGACCA-AGATTGAACTA
* * * *
61637 ACAAG-TCGACAAAGGATAAAGAATTTACCTAGGACTAAGCTGC
127 ACAAGTTAG-TAAAGGATAAAAAATTTACCTAGGACTAAGCCGC
* * * *
61680 CAGGTAAACAAAGGATGAAAAAGTTGATTGGGATTAAAATGACAAGTCAAAAAAGGATAAGAGGA
1 CAAGTAAACAAAGGATGAAAAAGTTGATTGGGATTAAAACGACAAGTAAAAAAAGGATAAAAGGA
* * * *
61745 TTTACCCGGGATTAAGCTGACAAGTAAACAAAGGATAAAA-AGGTTGACCAAGATTGAACTAACA
66 TTTAACCAGGACTAAGCCGACAAGTAAACAAAGGATAAAAGA-GTTGACCAAGATTGAACTAACA
*
61809 AGTTAGTAAAGGATAAAAAGATTTACCTAGGACTAAGCCGT
130 AGTTAGTAAAGGATAAAAA-ATTTACCTAGGACTAAGCCGC
* * * * * *
61850 CAAGTAAAC-AAGCGATGAGAGAGTTGATTGGGATTGAACCGATACGTAAAAAAAAGG-TAAAAG
1 CAAGTAAACAAAG-GATGAAAAAGTTGATTGGGATTAAAACGACAAGT-AAAAAAAGGATAAAAG
* * * * * *
61913 GATTTAACTAGGACTAAGCCG-CTAGGTAAATAAAGGATGAAAGAGTTGACTAGGATTGAA-T--
64 GATTTAACCAGGACTAAGCCGAC-AAGTAAACAAAGGATAAAAGAGTTGACCAAGATTGAACTAA
* * * * * * *
61974 CGA-TAAATCAAAGGATAAAAGGATTTA-TTGGGGACTAAGCCGA
128 CAAGTTAGT-AAAGGATAAAA-AATTTACCT-AGGACTAAGCCGC
* * * * * * * * * * **
62017 TAAGCAAATAAAGGAT-AAAAAGGTTGATTAGAATTGAACCGACAAGTCAACAATGGATAAAAAT
1 CAAGTAAACAAAGGATGAAAAA-GTTGATTGGGATTAAAACGACAAGTAAAAAAAGGATAAAAGG
* * * * * * *** *
62081 ATTT-ACCCGAGACTAAGCCAATAGGCAAACAAAGGATGAAAGAGTTGACTGGGATTGAACTGAC
65 ATTTAACCAG-GACTAAGCCGACAAGTAAACAAAGGATAAAAGAGTTGACCAAGATTGAACTAAC
* * * * *
62145 AA---A-TCAAACGATAGAACAATTTACCCAAGACTAAGCCGA
129 AAGTTAGT-AAAGGATA-AAAAATTTACCTAGGACTAAGCCGC
* * * ** * * * * *
62184 TAGGTATACAAAGGAT-AAAAAGATTGATCAGGATTGAATCGACAAGTCAACAAAGGATAAAAAG
1 CAAGTAAACAAAGGATGAAAAAG-TTGATTGGGATTAAAACGACAAGTAAAAAAAGGATAAAAGG
* * * *
62248 ATTT-ACCAAGACTAAGTCGATAGGTAAACAAAGGATAAAAGAGT
65 ATTTAACCAGGACTAAGCCGACAAGTAAACAAAGGATAAAAGAGT
62292 GATTGGGATT
Statistics
Matches: 875, Mismatches: 195, Indels: 96
0.75 0.17 0.08
Matches are distributed among these distances:
166 85 0.10
167 272 0.31
168 87 0.10
169 279 0.32
170 143 0.16
171 9 0.01
ACGTcount: A:0.45, C:0.13, G:0.23, T:0.19
Consensus pattern (169 bp):
CAAGTAAACAAAGGATGAAAAAGTTGATTGGGATTAAAACGACAAGTAAAAAAAGGATAAAAGGA
TTTAACCAGGACTAAGCCGACAAGTAAACAAAGGATAAAAGAGTTGACCAAGATTGAACTAACAA
GTTAGTAAAGGATAAAAAATTTACCTAGGACTAAGCCGC
Found at i:62055 original size:167 final size:166
Alignment explanation
Indices: 61206--62316 Score: 589
Period size: 167 Copynumber: 6.6 Consensus size: 166
61196 ATTTAATTGA
* * * * *
61206 GATTGAACTGATAAGTCAACAAAGGATAAAAAGATTTACTCGGGACTAAGCTGACAGGTAAACAA
1 GATTGAACCGACAAGTCAACAAAGGATAAAAAGATTTAC-CAGGACTAAGCCGATAGGTAAACAA
* * * * * *
61271 AGGAAT-ACAAG-GTTGA-TAGGGATTGAACCGACAAGTCAATAAAGGAT-AAAGAATTTAACCG
65 AGG-ATGA-AAGAGTTGACTA-GGATTGAACTGACAAATC---AAACGATAAAACAATTTACCCA
* * * * * * * ***
61332 AGACTAAGCCGACAGGTAAATAAAAGA-ATACAAGGTTAACGGG
124 AGACTAAGCCGATAAGCAAACAAAGGATA-AAAAGGTTGATTAG
* * * *
61375 GATTGAA-CGACAAGTCAATAAAGGATAAAGA-ATTTACCTGGGACTAAACC-ATCAGGTAAACA
1 GATTGAACCGACAAGTCAACAAAGGATAAAAAGATTTACC-AGGACTAAGCCGAT-AGGTAAACA
* * * * * * * ***
61437 AAAGATGAAAGATTTGATTGGGATTGAGC-AACAAGTCAACAACGGATAAAA-AGATTTACCTGG
64 AAGGATGAAAGAGTTGACTAGGATTGAACTGACAAATC-A-AAC-GATAAAACA-ATTTACCCAA
* * * * * ***
61500 GATTAAGCTGATAGGTAAACAAAAGATAAAAAGGTT-AACCG
125 GACTAAGCCGATAAGCAAACAAAGGATAAAAAGGTTGATTAG
* * * ** ** *
61541 AGATTGAACCGAAAAATCAACAAAGGATAAAAGGATTTATTAGGGACTAAGCTTACAGGTAAACA
1 -GATTGAACCGACAAGTCAACAAAGGATAAAAAGATTTACCA-GGACTAAGCCGATAGGTAAAC-
* * * * * *
61606 AAAGAAT-ACAAG-GTTGA-TAGGGATTGAACCGACAAGTCGACAAAGGAT-AAAGAATTTACCT
63 AAAGGATGA-AAGAGTTGACTA-GGATTGAACTGACAAAT---CAAACGATAAAACAATTTACCC
* * ** * * *
61667 AGGACTAAGCTGCCAGGTAAACAAAGGATGAAAAA-GTTGATTGG
123 AAGACTAAGCCGATAAGCAAACAAAGGAT-AAAAAGGTTGATTAG
* ** * * * * * * * *
61711 GATTAAAATGACAAGTCAAAAAAGGATAAGAGGATTTACCCGGGATTAAGCTGACAAGTAAACAA
1 GATTGAACCGACAAGTCAACAAAGGATAAAAAGATTTA-CCAGGACTAAGCCGATAGGTAAACAA
* * * * * *
61776 AGGAT-AAAAAGGTTGACCAAGATTGAACTAACAAGTTAGT-AAAGGATAAAA-AGATTTACCTA
65 AGGATGAAAGA-GTTGACTAGGATTGAACTGACAA---A-TCAAACGATAAAACA-ATTTACCCA
* * * * *
61838 GGACTAAGCCG-TCAAGTAAAC-AAGCGAT-GAGAGAGTTGATTGG
124 AGACTAAGCCGAT-AAGCAAACAAAG-GATAAAAAG-GTTGATTAG
* * * * * * * *
61881 GATTGAACCGATACGTAAAAAAAAGG-TAAAAGGATTTAACTAGGACTAAGCCGCTAGGTAAATA
1 GATTGAACCGACAAGT-CAACAAAGGATAAAAAGATTT-ACCAGGACTAAGCCGATAGGTAAACA
* * ** *****
61945 AAGGATGAAAGAGTTGACTAGGATTGAA-TCGATAAATCAAAGGATAAAAGGATTTATTGGGGAC
64 AAGGATGAAAGAGTTGACTAGGATTGAACT-GACAAATCAAACGATAAAACAATTTACCCAAGAC
*
62009 TAAGCCGATAAGCAAATAAAGGATAAAAAGGTTGATTAG
128 TAAGCCGATAAGCAAACAAAGGATAAAAAGGTTGATTAG
* * * * * *
62048 AATTGAACCGACAAGTCAACAATGGATAAAAATATTTACCCGAGACTAAGCCAATAGGCAAACAA
1 GATTGAACCGACAAGTCAACAAAGGATAAAAAGATTTACCAG-GACTAAGCCGATAGGTAAACAA
* *
62113 AGGATGAAAGAGTTGACTGGGATTGAACTGACAAATCAAACGATAGAACAATTTACCCAAGACTA
65 AGGATGAAAGAGTTGACTAGGATTGAACTGACAAATCAAACGATAAAACAATTTACCCAAGACTA
* * * * *
62178 AGCCGATAGGTATACAAAGGATAAAAAGATTGATCAG
130 AGCCGATAAGCAAACAAAGGATAAAAAGGTTGATTAG
* * *
62215 GATTGAATCGACAAGTCAACAAAGGATAAAAAGATTTACCAAGACTAAGTCGATAGGTAAACAAA
1 GATTGAACCGACAAGTCAACAAAGGATAAAAAGATTTACCAGGACTAAGCCGATAGGTAAACAAA
* * * * *
62280 GGATAAAAGAG-TGATTGGGATTGATCTGACAAGTCAA
66 GGATGAAAGAGTTGACTAGGATTGAACTGACAAATCAA
62317 TAAAAGATAA
Statistics
Matches: 741, Mismatches: 150, Indels: 106
0.74 0.15 0.11
Matches are distributed among these distances:
164 1 0.00
165 25 0.03
166 60 0.08
167 292 0.39
168 59 0.08
169 157 0.21
170 129 0.17
171 15 0.02
172 1 0.00
173 2 0.00
ACGTcount: A:0.45, C:0.12, G:0.23, T:0.20
Consensus pattern (166 bp):
GATTGAACCGACAAGTCAACAAAGGATAAAAAGATTTACCAGGACTAAGCCGATAGGTAAACAAA
GGATGAAAGAGTTGACTAGGATTGAACTGACAAATCAAACGATAAAACAATTTACCCAAGACTAA
GCCGATAAGCAAACAAAGGATAAAAAGGTTGATTAG
Found at i:62077 original size:252 final size:253
Alignment explanation
Indices: 60973--62140 Score: 622
Period size: 252 Copynumber: 4.6 Consensus size: 253
60963 TCAGGTCAAC
* * * * * * *
60973 AAAGGATAAAA-GAGGTTACCCGGGACTAGGCCAACAAGTAAACAAAAGATGCAAAA-GTTGATC
1 AAAGGATAAAAGGA-TTTACCCGGGACTAAGCCGACAAGCAAACAAAGGAT-AAAAAGGTTGACC
** * ** * * * * * *
61036 GGGATTGAACCGACAAGTCAATGAAGGACAAAGA-ATTTGCTCA-AGACTAAGCCAACAGGTAAA
64 AAGATTGAACCAACAAGTCAACAAAGGATAAAAAGATTTAC-CAGAGACTAAGCCAATAAGCAAA
* * * * * *
61099 CAAAGGAAT-ACAAG-GTTGACAGGGATTGAATCGACAAGT-CAACAAAGG-ATAAAGAATTT-A
128 CAAAGG-ATGA-AAGAGTTGACTGGGATTGAACCGATACGTAAAAAAAAGGTA-AAAGAATTTAA
* ** * * * * * * * *
61159 CTTGGGACTAAGCCATCAGGTAAACAAAAGG-TGAAAGA-TTTAATTGAGATTGAACTGATAAGT
190 C-TAGGACTAAGCCGCCAGGTAAAC-AAAGGATGAAAAAGTTGACTAG-GATTAAAATGACAAAT
61222 CAA
252 C-A
* * * * * * *
61225 CAAAGGATAAAAAGATTTACTCGGGACTAAGCTGACAGGTAAACAAAGGA-ATACAAGGTTGA-T
1 -AAAGGATAAAAGGATTTACCCGGGACTAAGCCGACAAGCAAACAAAGGATA-AAAAGGTTGACC
* * * * * * * *
61288 AGGGATTGAACCGACAAGTCAATAAAGGATAAAGA-ATTTAACC-GAGACTAAGCCGACAGGTAA
64 A-AGATTGAACCAACAAGTCAACAAAGGATAAAAAGATTT-ACCAGAGACTAAGCCAATAAGCAA
* * * * * * * *
61351 ATAAAAGAAT-ACAAG-GTTAACGGGGATTGAA-CGACAAGT-CAATAAAGG-ATAAAGAATTTA
127 A-CAAAGGATGA-AAGAGTTGACTGGGATTGAACCGATACGTAAAAAAAAGGTA-AAAGAATTTA
* * * ** * * * * * ** *
61411 CCTGGGACTAAACCATCAGGTAAACAAAAGATGAAAGATTTGATTGGGATTGAGCA--ACAAGTC
189 ACTAGGACTAAGCCGCCAGGTAAACAAAGGATGAAAAAGTTGACTAGGATT-AAAATGACAAATC
61474 A
253 A
* * * * * * * * *
61475 ACAACGGATAAAAAGATTTACCTGGGATTAAGCTGATAGGTAAACAAAAGATAAAAAGGTTAACC
1 A-AA-GGATAAAAGGATTTACCCGGGACTAAGCCGACAAGCAAACAAAGGATAAAAAGGTTGACC
* * * ** * ** * * *
61540 GAGATTGAACCGAA-AAATCAACAAAGGATAAAAGGATTTATTAGGGACTAAGCTTACAGGTAAA
64 AAGATTGAACC-AACAAGTCAACAAAGGATAAAAAGATTTACCAGAGACTAAGCCAATAAGCAAA
* * * ** *
61604 CAAAAGAAT-ACAAG-GTTGA-TAGGGATTGAACCGACAAGT-CGACAAAGG-ATAAAGAATTTA
128 C-AAAGGATGA-AAGAGTTGACT-GGGATTGAACCGATACGTAAAAAAAAGGTA-AAAGAATTTA
* * * * *
61664 CCTAGGACTAAGCTGCCAGGTAAACAAAGGATGAAAAAGTTGATTGGGATTAAAATGACAAGTCA
189 ACTAGGACTAAGCCGCCAGGTAAACAAAGGATGAAAAAGTTGACTAGGATTAAAATGACAAATC-
61729 AA
253 -A
* * * *
61731 AAAGGATAAGAGGATTTACCCGGGATTAAGCTGACAAGTAAACAAAGGATAAAAAGGTTGACCAA
1 AAAGGATAAAAGGATTTACCCGGGACTAAGCCGACAAGCAAACAAAGGATAAAAAGGTTGACCAA
* * ** * *
61796 GATTGAACTAACAAGTTAGTAAAGGATAAAAAGATTTACCTAG-GACTAAGCC-GTCAAGTAAAC
66 GATTGAACCAACAAGTCAACAAAGGATAAAAAGATTTACC-AGAGACTAAGCCAAT-AAGCAAAC
* * *
61859 -AAGCGATGAGAGAGTTGATTGGGATTGAACCGATACGTAAAAAAAAGGTAAAAGGATTTAACTA
129 AAAG-GATGAAAGAGTTGACTGGGATTGAACCGATACGTAAAAAAAAGGTAAAAGAATTTAACTA
* * * * *
61923 GGACTAAGCCGCTAGGTAAATAAAGGATGAAAGAGTTGACTAGGATT-GAATCGATAAATC-
193 GGACTAAGCCGCCAGGTAAACAAAGGATGAAAAAGTTGACTAGGATTAAAAT-GACAAATCA
*** * * **
61983 AAAGGATAAAAGGATTTATTGGGGACTAAGCCGATAAGCAAATAAAGGATAAAAAGGTTGA-TTA
1 AAAGGATAAAAGGATTTACCCGGGACTAAGCCGACAAGCAAACAAAGGATAAAAAGGTTGACCAA
* * * * *
62047 GAATTGAACCGACAAGTCAACAATGGATAAAAATATTTACCCGAGACTAAGCCAATAGGCAAACA
66 G-ATTGAACCAACAAGTCAACAAAGGATAAAAAGATTTACCAGAGACTAAGCCAATAAGCAAACA
62112 AAGGATGAAAGAGTTGACTGGGATTGAAC
130 AAGGATGAAAGAGTTGACTGGGATTGAAC
62141 TGACAAATCA
Statistics
Matches: 748, Mismatches: 128, Indels: 79
0.78 0.13 0.08
Matches are distributed among these distances:
249 1 0.00
250 3 0.00
251 88 0.12
252 240 0.32
253 206 0.28
254 137 0.18
255 70 0.09
256 3 0.00
ACGTcount: A:0.45, C:0.13, G:0.23, T:0.19
Consensus pattern (253 bp):
AAAGGATAAAAGGATTTACCCGGGACTAAGCCGACAAGCAAACAAAGGATAAAAAGGTTGACCAA
GATTGAACCAACAAGTCAACAAAGGATAAAAAGATTTACCAGAGACTAAGCCAATAAGCAAACAA
AGGATGAAAGAGTTGACTGGGATTGAACCGATACGTAAAAAAAAGGTAAAAGAATTTAACTAGGA
CTAAGCCGCCAGGTAAACAAAGGATGAAAAAGTTGACTAGGATTAAAATGACAAATCA
Found at i:62250 original size:42 final size:42
Alignment explanation
Indices: 62191--62328 Score: 129
Period size: 42 Copynumber: 3.3 Consensus size: 42
62181 CGATAGGTAT
62191 ACAAAGGATAAAAAGATTGATCAGGATTGAATCGACAAGTCA
1 ACAAAGGATAAAAAGATTGATCAGGATTGAATCGACAAGTCA
* * * * * * *
62233 ACAAAGGATAAAAAGATTTACCAAGACT-AAGTCGATAGGTAA
1 ACAAAGGATAAAAAGATTGATCAGGATTGAA-TCGACAAGTCA
* **
62275 ACAAAGGAT-AAAAGAGTGATTGGGATTG-ATCTGACAAGTCA
1 ACAAAGGATAAAAAGATTGATCAGGATTGAATC-GACAAGTCA
* *
62316 ATAAAAGATAAAA
1 ACAAAGGATAAAA
62329 GGTTGGCCAA
Statistics
Matches: 73, Mismatches: 19, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
40 2 0.03
41 27 0.37
42 44 0.60
ACGTcount: A:0.49, C:0.10, G:0.21, T:0.20
Consensus pattern (42 bp):
ACAAAGGATAAAAAGATTGATCAGGATTGAATCGACAAGTCA
Found at i:62452 original size:35 final size:35
Alignment explanation
Indices: 62413--62830 Score: 323
Period size: 35 Copynumber: 11.5 Consensus size: 35
62403 AATAAGAATA
* *
62413 AAAAGGGTTTGACCAGATATAGCCAAACAATGATG
1 AAAAGAGTTTGACCAGATATAGCCAAACGATGATG
* * * * *
62448 AAAAGAGTTGGACCAAATACAACCAAACAATGATG
1 AAAAGAGTTTGACCAGATATAGCCAAACGATGATG
* * *
62483 AAAAAAGTTTGAACAGATACAGCCAAACGATGACGCACGATG
1 AAAAGAGTTTGACCAGATATAGCCAAACGAT-------GATG
* *
62525 ACAAAAAGAGTTTGACTAGATATAGCCAAATGATGATG
1 ---AAAAGAGTTTGACCAGATATAGCCAAACGATGATG
*
62563 AAAAGAGTTTGACCAGAAATAGCCAAACGATGATG
1 AAAAGAGTTTGACCAGATATAGCCAAACGATGATG
* * * *
62598 AAAAGAGTTTGACCAAATGCAATTAAACAAAATGATGATG
1 AAAAGAGTTTGACCAGAT---A-T-AGCCAAACGATGATG
* * *
62638 AAAAGAGTTTGACTAGATACAGCCAACCGATGATG
1 AAAAGAGTTTGACCAGATATAGCCAAACGATGATG
* * * ** *
62673 AAAGGAGTTTGACCAAATGTAGAAAAATGATGATG
1 AAAAGAGTTTGACCAGATATAGCCAAACGATGATG
* *
62708 AAAATAGTTTGACTAGATATAGCCAAACGATGATG
1 AAAAGAGTTTGACCAGATATAGCCAAACGATGATG
* * * ** *
62743 AAAAAAGTTTGACCAAATGTAGAAAAATGATGATG
1 AAAAGAGTTTGACCAGATATAGCCAAACGATGATG
* ** ** * *
62778 AAAGGAGTTTGATTAGATGCAGCCAAATGATGACG
1 AAAAGAGTTTGACCAGATATAGCCAAACGATGATG
*
62813 AAAAAAGTTTGACCAGAT
1 AAAAGAGTTTGACCAGAT
62831 GCAAATTTTG
Statistics
Matches: 300, Mismatches: 68, Indels: 30
0.75 0.17 0.08
Matches are distributed among these distances:
35 235 0.78
37 1 0.00
38 5 0.02
39 1 0.00
40 28 0.09
42 4 0.01
45 26 0.09
ACGTcount: A:0.45, C:0.12, G:0.22, T:0.21
Consensus pattern (35 bp):
AAAAGAGTTTGACCAGATATAGCCAAACGATGATG
Found at i:62761 original size:70 final size:70
Alignment explanation
Indices: 62552--62827 Score: 372
Period size: 70 Copynumber: 3.9 Consensus size: 70
62542 AGATATAGCC
* * * *
62552 AAATGATGATGAAAAGAGTTTGACCAGAAATAGCCAAACGATGATGAAAAGAGTTTGACCAAATG
1 AAATGATGATGAAAAGAGTTTGACTAGATACAGCCAAACGATGATGAAAAAAGTTTGACCAAATG
*
62617 CAATTAAACA
66 ----TAGA-A
* **
62627 AAATGATGATGAAAAGAGTTTGACTAGATACAGCCAACCGATGATGAAAGGAGTTTGACCAAATG
1 AAATGATGATGAAAAGAGTTTGACTAGATACAGCCAAACGATGATGAAAAAAGTTTGACCAAATG
62692 TAGAA
66 TAGAA
* *
62697 AAATGATGATGAAAATAGTTTGACTAGATATAGCCAAACGATGATGAAAAAAGTTTGACCAAATG
1 AAATGATGATGAAAAGAGTTTGACTAGATACAGCCAAACGATGATGAAAAAAGTTTGACCAAATG
62762 TAGAA
66 TAGAA
* * * * *
62767 AAATGATGATGAAAGGAGTTTGATTAGATGCAGCCAAATGATGACGAAAAAAGTTTGACCA
1 AAATGATGATGAAAAGAGTTTGACTAGATACAGCCAAACGATGATGAAAAAAGTTTGACCA
62828 GATGCAAATT
Statistics
Matches: 183, Mismatches: 18, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
70 120 0.66
71 3 0.02
75 60 0.33
ACGTcount: A:0.45, C:0.11, G:0.22, T:0.22
Consensus pattern (70 bp):
AAATGATGATGAAAAGAGTTTGACTAGATACAGCCAAACGATGATGAAAAAAGTTTGACCAAATG
TAGAA
Found at i:62885 original size:35 final size:35
Alignment explanation
Indices: 62837--63078 Score: 256
Period size: 35 Copynumber: 6.9 Consensus size: 35
62827 AGATGCAAAT
62837 TTTGACCAGATACAGCCAAACGATGATGAAAAGAG
1 TTTGACCAGATACAGCCAAACGATGATGAAAAGAG
* * * * *
62872 TTTGACCAAATACAACTAAATGATGACGAAAAGAG
1 TTTGACCAGATACAGCCAAACGATGATGAAAAGAG
** * * *
62907 TTCAACCAGTTGCAGCCAAACGATGAAGAAAAGAG
1 TTTGACCAGATACAGCCAAACGATGATGAAAAGAG
* * *
62942 TTTAACCA-A-ACGTAGCTAAACGATGATGAAAATAG
1 TTTGACCAGATAC--AGCCAAACGATGATGAAAAGAG
* * * *
62977 TTTGACCAGATATAGCCAAACGGTAACGAAAAGAG
1 TTTGACCAGATACAGCCAAACGATGATGAAAAGAG
63012 TTTGACCAGATACAGCCAAACGATGATGAAAAGA-
1 TTTGACCAGATACAGCCAAACGATGATGAAAAGAG
* * *
63046 TTTCGACAAGATACAGTCAAACGTTGATGAAAA
1 TTT-GACCAGATACAGCCAAACGATGATGAAAA
63079 AATCATGATG
Statistics
Matches: 168, Mismatches: 34, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
33 1 0.01
34 3 0.02
35 162 0.96
36 1 0.01
37 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.20, T:0.19
Consensus pattern (35 bp):
TTTGACCAGATACAGCCAAACGATGATGAAAAGAG
Found at i:62921 original size:122 final size:121
Alignment explanation
Indices: 62715--62949 Score: 301
Period size: 122 Copynumber: 1.9 Consensus size: 121
62705 ATGAAAATAG
* * * *
62715 TTTGACTAGATATAGCCAAACGATGATGAAAAAAGTTTGACCAAATGTAGAAAAATGATGATGAA
1 TTTGACCAGATACAGCCAAACGATGATGAAAAAAGTTTGACCAAA-GTACAAAAATGATGACGAA
* ** ** * * *
62780 AGGAGTTTGATTAGATGCAGCCAAATGATGACGAAAAAAGTTTGACCAGATGCAAAT
65 AAGAGTTCAACCAGATGCAGCCAAACGATGAAGAAAAAAGTTTAACCAGATGCAAAT
*
62837 TTTGACCAGATACAGCCAAACGATGATGAAAAGAGTTTGACCAAA-TACAACTAAATGATGACGA
1 TTTGACCAGATACAGCCAAACGATGATGAAAAAAGTTTGACCAAAGTACAA--AAATGATGACGA
* *
62901 AAAGAGTTCAACCAGTTGCAGCCAAACGATGAAGAAAAGAGTTTAACCA
64 AAAGAGTTCAACCAGATGCAGCCAAACGATGAAGAAAAAAGTTTAACCA
62950 AACGTAGCTA
Statistics
Matches: 96, Mismatches: 15, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
120 4 0.04
122 92 0.96
ACGTcount: A:0.44, C:0.14, G:0.21, T:0.21
Consensus pattern (121 bp):
TTTGACCAGATACAGCCAAACGATGATGAAAAAAGTTTGACCAAAGTACAAAAATGATGACGAAA
AGAGTTCAACCAGATGCAGCCAAACGATGAAGAAAAAAGTTTAACCAGATGCAAAT
Found at i:62981 original size:192 final size:191
Alignment explanation
Indices: 62645--63022 Score: 461
Period size: 192 Copynumber: 2.0 Consensus size: 191
62635 ATGAAAAGAG
* * * * *
62645 TTTGACTAGATACAGCCAACCGATGATGAAAGGAGTTTGACCAAATGTAGAAAAATGATGATGAA
1 TTTGACCAGATACAGCCAAACGATGATGAAAAGAGTTTGACCAAA-GTACAAAAATGATGACGAA
* ** * * * * * *
62710 AATAGTTTGACTAGATATAGCCAAACGATGATGAAAAAAGTTTGACCAAATGTAGAAAAATGATG
65 AAGAGTTCAACCAGATACAGCCAAACGATGAAGAAAAAAGTTTAACCAAACGTAGAAAAACGATG
* ** * * *
62775 ATGAAAGGAGTTTGATTAGATGCAGCCAAATGATGACGAAAAAAGTTTGACCAGATGCAAAT
130 ATGAAAAGAGTTTGACCAGATACAGCCAAACGATAACGAAAAAAGTTTGACCAGATGCAAAT
62837 TTTGACCAGATACAGCCAAACGATGATGAAAAGAGTTTGACCAAA-TACAACTAAATGATGACGA
1 TTTGACCAGATACAGCCAAACGATGATGAAAAGAGTTTGACCAAAGTACAA--AAATGATGACGA
* * * **
62901 AAAGAGTTCAACCAGTTGCAGCCAAACGATGAAGAAAAGAGTTTAACCAAACGTAGCTAAACGAT
64 AAAGAGTTCAACCAGATACAGCCAAACGATGAAGAAAAAAGTTTAACCAAACGTAGAAAAACGAT
* * * *
62966 GATGAAAATAGTTTGACCAGATATAGCCAAACGGTAACGAAAAGAGTTTGACCAGAT
129 GATGAAAAGAGTTTGACCAGATACAGCCAAACGATAACGAAAAAAGTTTGACCAGAT
63023 ACAGCCAAAC
Statistics
Matches: 155, Mismatches: 29, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
190 4 0.03
192 151 0.97
ACGTcount: A:0.43, C:0.14, G:0.21, T:0.21
Consensus pattern (191 bp):
TTTGACCAGATACAGCCAAACGATGATGAAAAGAGTTTGACCAAAGTACAAAAATGATGACGAAA
AGAGTTCAACCAGATACAGCCAAACGATGAAGAAAAAAGTTTAACCAAACGTAGAAAAACGATGA
TGAAAAGAGTTTGACCAGATACAGCCAAACGATAACGAAAAAAGTTTGACCAGATGCAAAT
Found at i:63228 original size:47 final size:47
Alignment explanation
Indices: 63160--63522 Score: 283
Period size: 47 Copynumber: 7.8 Consensus size: 47
63150 ACAATGATTA
* * *
63160 AAAGA-TTTCGACCAAGTCCTAATGCCAATATAGTCAAACAGGGGTGA
1 AAAGAGTTT-GACCAGGTCCTAATGCCAATACAGTCAAACAGGGGTGG
* * ** * * *
63207 AAATAGTTTGACAAGGTCCTAACACCAATACAGTCAAACAAGGATGA
1 AAAGAGTTTGACCAGGTCCTAATGCCAATACAGTCAAACAGGGGTGG
* * * * * * *
63254 AAAAAGTTTGACTAGAT-TTAATGCTAATACAGTTAAACA-AGGTGG
1 AAAGAGTTTGACCAGGTCCTAATGCCAATACAGTCAAACAGGGGTGG
* * * * *
63299 AAAGAGTTTGACTAGGTACTATTGTCAATACAGTCAAACAAGGGTGG
1 AAAGAGTTTGACCAGGTCCTAATGCCAATACAGTCAAACAGGGGTGG
* * *
63346 AAAGAG-TTGATCAGGTCCTAATGCTAATTCAGTCAAAC-GAGGGTGG
1 AAAGAGTTTGACCAGGTCCTAATGCCAATACAGTCAAACAG-GGGTGG
* * *
63392 AAAGAGTTTGACCAGGTCGTAACGCCAAT-CAGTCAAAC-GAAGGTGG
1 AAAGAGTTTGACCAGGTCCTAATGCCAATACAGTCAAACAG-GGGTGG
* ** * * *
63438 AAAGAGTTTAACCAGGTCCTAACACCAATATAGTCAAA-TGAGAGTGG
1 AAAGAGTTTGACCAGGTCCTAATGCCAATACAGTCAAACAG-GGGTGG
** * * *
63485 AAAGAGTTTGATTAGATCCTGACGCCAATACAGTCAAA
1 AAAGAGTTTGACCAGGTCCTAATGCCAATACAGTCAAA
63523 TGAAGAAAGA
Statistics
Matches: 256, Mismatches: 53, Indels: 14
0.79 0.16 0.04
Matches are distributed among these distances:
45 18 0.07
46 113 0.44
47 122 0.48
48 3 0.01
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.23
Consensus pattern (47 bp):
AAAGAGTTTGACCAGGTCCTAATGCCAATACAGTCAAACAGGGGTGG
Found at i:63467 original size:139 final size:138
Alignment explanation
Indices: 63170--63522 Score: 341
Period size: 139 Copynumber: 2.5 Consensus size: 138
63160 AAAGATTTCG
* * * *
63170 ACCAAGTCCTAATGCCAATATAGTCAAACAGGGGTGAAAATAGTTTGACAAGGTCCTAACACCAA
1 ACCAGGTCCTAATGCCAATATAGTCAAACAAGGGTGGAAAGAG-TTGACAAGGTCCTAACACCAA
* * * * *
63235 TACAGTCAAACAAGGATGAAAAAAGTTTGACTAGATTTAATGCTAATACAGTTAAACAAGGTGGA
65 TACAGTCAAACAAGGATGAAAAAAGTTTGACCAGATGTAACGCCAATACAGTCAAACAAGGTGGA
*
63300 AAGAGTTTG
130 AAGAGTTTA
* * * * * ** *
63309 ACTAGGTACTATTGTCAATACAGTCAAACAAGGGTGGAAAGAGTTGATC-AGGTCCTAATGCTAA
1 ACCAGGTCCTAATGCCAATATAGTCAAACAAGGGTGGAAAGAGTTGA-CAAGGTCCTAACACCAA
* * * * * *
63373 TTCAGTCAAACGAGGGTGGAAAGAGTTTGACCAGGTCGTAACGCCAAT-CAGTCAAACGAAGGTG
65 TACAGTCAAACAAGGATGAAAAAAGTTTGACCAGAT-GTAACGCCAATACAGTCAAAC-AAGGTG
63437 GAAAGAGTTTA
128 GAAAGAGTTTA
** ** * ** * * *
63448 ACCAGGTCCTAACACCAATATAGTCAAATGAGAGTGGAAAGAGTTTGATTAGATCCTGACGCCAA
1 ACCAGGTCCTAATGCCAATATAGTCAAACAAGGGTGGAAAGAG-TTGACAAGGTCCTAACACCAA
63513 TACAGTCAAA
65 TACAGTCAAA
63523 TGAAGAAAGA
Statistics
Matches: 169, Mismatches: 40, Indels: 9
0.78 0.18 0.04
Matches are distributed among these distances:
138 53 0.31
139 92 0.54
140 24 0.14
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.22
Consensus pattern (138 bp):
ACCAGGTCCTAATGCCAATATAGTCAAACAAGGGTGGAAAGAGTTGACAAGGTCCTAACACCAAT
ACAGTCAAACAAGGATGAAAAAAGTTTGACCAGATGTAACGCCAATACAGTCAAACAAGGTGGAA
AGAGTTTA
Found at i:63473 original size:93 final size:92
Alignment explanation
Indices: 63160--63522 Score: 349
Period size: 93 Copynumber: 3.9 Consensus size: 92
63150 ACAATGATTA
* * * *
63160 AAAGA-TTTCGACCAAGTCCTAATGCCAATATAGTCAAACAGGGGTGAAAATAGTTTGACAAGGT
1 AAAGAGTTT-GACCAGGTCCTAATGCCAATATAGTCAAACA-GGGTGGAAAGAGTTTGACTAGGT
* *
63224 CCTAACACCAATACAGTCAAACAAGGATGA
64 CCTAACGCCAATACAGTCAAACAAGG-TGG
* * * * * * * * *
63254 AAAAAGTTTGACTAGAT-TTAATGCTAATACAGTTAAACAAGGTGGAAAGAGTTTGACTAGGTAC
1 AAAGAGTTTGACCAGGTCCTAATGCCAATATAGTCAAACAGGGTGGAAAGAGTTTGACTAGGTCC
** *
63318 TATTGTCAATACAGTCAAACAAGGGTGG
66 TAACGCCAATACAGTCAAACAA-GGTGG
* * *
63346 AAAGAG-TTGATCAGGTCCTAATGCTAAT-TCAGTCAAACGAGGGTGGAAAGAGTTTGACCAGGT
1 AAAGAGTTTGACCAGGTCCTAATGCCAATAT-AGTCAAAC-AGGGTGGAAAGAGTTTGACTAGGT
*
63409 CGTAACGCCAAT-CAGTCAAACGAAGGTGG
64 CCTAACGCCAATACAGTCAAAC-AAGGTGG
* ** * * * *
63438 AAAGAGTTTAACCAGGTCCTAACACCAATATAGTCAAATGAGAGTGGAAAGAGTTTGATTAGATC
1 AAAGAGTTTGACCAGGTCCTAATGCCAATATAGTCAAA-CAGGGTGGAAAGAGTTTGACTAGGTC
*
63503 CTGACGCCAATACAGTCAAA
65 CTAACGCCAATACAGTCAAA
63523 TGAAGAAAGA
Statistics
Matches: 215, Mismatches: 44, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
91 7 0.03
92 82 0.38
93 105 0.49
94 18 0.08
95 3 0.01
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.23
Consensus pattern (92 bp):
AAAGAGTTTGACCAGGTCCTAATGCCAATATAGTCAAACAGGGTGGAAAGAGTTTGACTAGGTCC
TAACGCCAATACAGTCAAACAAGGTGG
Found at i:63525 original size:47 final size:47
Alignment explanation
Indices: 63160--63522 Score: 283
Period size: 46 Copynumber: 7.8 Consensus size: 47
63150 ACAATGATTA
* * * * *
63160 AAAGA-TTTCGACCAAGTCCTAATGCCAATATAGTCAAAC-AGGGGTGA
1 AAAGAGTTT-GACCAGGTCCTAACGCCAATACAGTCAAACGA-GAGTGG
* * * * *
63207 AAATAGTTTGACAAGGTCCTAACACCAATACAGTCAAACAAG-GATGA
1 AAAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACGAGAG-TGG
* * * * * * * *
63254 AAAAAGTTTGACTAGAT-TTAATGCTAATACAGTTAAACAAG-GTGG
1 AAAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACGAGAGTGG
* * ** * * *
63299 AAAGAGTTTGACTAGGTACTATTGTCAATACAGTCAAACAAGGGTGG
1 AAAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACGAGAGTGG
* * * * *
63346 AAAGAG-TTGATCAGGTCCTAATGCTAATTCAGTCAAACGAGGGTGG
1 AAAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACGAGAGTGG
*
63392 AAAGAGTTTGACCAGGTCGTAACGCCAAT-CAGTCAAACGA-AGGTGG
1 AAAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACGAGA-GTGG
* * * *
63438 AAAGAGTTTAACCAGGTCCTAACACCAATATAGTCAAATGAGAGTGG
1 AAAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACGAGAGTGG
** * *
63485 AAAGAGTTTGATTAGATCCTGACGCCAATACAGTCAAA
1 AAAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAA
63523 TGAAGAAAGA
Statistics
Matches: 260, Mismatches: 47, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
45 17 0.07
46 119 0.46
47 119 0.46
48 5 0.02
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.23
Consensus pattern (47 bp):
AAAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACGAGAGTGG
Found at i:65570 original size:82 final size:82
Alignment explanation
Indices: 65433--65600 Score: 336
Period size: 82 Copynumber: 2.0 Consensus size: 82
65423 TCAAAACAAA
65433 GAAAGTTTACAAACAAGAATTGCTTCTAACTAGGCTGGCGTTTATGGAAATGTAAGCTCAAAATC
1 GAAAGTTTACAAACAAGAATTGCTTCTAACTAGGCTGGCGTTTATGGAAATGTAAGCTCAAAATC
65498 AAATACAAAAGAGCTTT
66 AAATACAAAAGAGCTTT
65515 GAAAGTTTACAAACAAGAATTGCTTCTAACTAGGCTGGCGTTTATGGAAATGTAAGCTCAAAATC
1 GAAAGTTTACAAACAAGAATTGCTTCTAACTAGGCTGGCGTTTATGGAAATGTAAGCTCAAAATC
65580 AAATACAAAAGAGCTTT
66 AAATACAAAAGAGCTTT
65597 GAAA
1 GAAA
65601 ATAATAACAA
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 86 1.00
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.26
Consensus pattern (82 bp):
GAAAGTTTACAAACAAGAATTGCTTCTAACTAGGCTGGCGTTTATGGAAATGTAAGCTCAAAATC
AAATACAAAAGAGCTTT
Found at i:65907 original size:20 final size:20
Alignment explanation
Indices: 65882--65934 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
65872 GTTACAAGCA
65882 ATGTATCGATACATT-T-CTTC
1 ATGTATCGATACATTGTAC--C
65902 ATGTATCGATACATTGTACC
1 ATGTATCGATACATTGTACC
65922 ATGTATCGATACA
1 ATGTATCGATACA
65935 AATAGTGATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTGTACC
Found at i:66008 original size:19 final size:20
Alignment explanation
Indices: 65965--66016 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
65955 TGCCAGTTTT
* **
65965 ATGTATCGATACATTTGTCC
1 ATGTATCGATACATATGAAC
65985 ATGTATCGATACA-ATGAAC
1 ATGTATCGATACATATGAAC
66004 ATGTATCGATACA
1 ATGTATCGATACA
66017 GTATATCGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATATGAAC
Found at i:66029 original size:32 final size:33
Alignment explanation
Indices: 65988--66049 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
65978 TTTGTCCATG
*
65988 TATCGATACAATG-AACATGTATCGATACAGTA
1 TATCGATACAAAGCAACATGTATCGATACAGTA
*
66020 TATCGATACAAAGCAGCATGTATCGATACA
1 TATCGATACAAAGCAACATGTATCGATACA
66050 TCTGGGTGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (33 bp):
TATCGATACAAAGCAACATGTATCGATACAGTA
Found at i:67306 original size:13 final size:13
Alignment explanation
Indices: 67288--67313 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
67278 CAATTTTTTG
67288 TGTATCGATACAT
1 TGTATCGATACAT
67301 TGTATCGATACAT
1 TGTATCGATACAT
67314 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:67325 original size:32 final size:33
Alignment explanation
Indices: 67268--67331 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
67258 TACAAGCCAA
**
67268 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
67301 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
67332 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:69429 original size:21 final size:20
Alignment explanation
Indices: 69400--69442 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
69390 GGCTAGTGTG
*
69400 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTTGCGACCT
*
69421 GGGAGTGCCGGTTGCGACCT
1 GGGACTGCCGGTTGCGACCT
69441 GG
1 GG
69443 TGGTGCTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.26, G:0.44, T:0.21
Consensus pattern (20 bp):
GGGACTGCCGGTTGCGACCT
Found at i:76137 original size:32 final size:33
Alignment explanation
Indices: 76075--76138 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
76065 TACAAGCCAA
** *
76075 TGTATCGATACAATTTTTTGTGTATTGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
76108 TGTATCGATAC-ATACTTTGTGTATCGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
76139 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:84040 original size:200 final size:199
Alignment explanation
Indices: 83693--84084 Score: 739
Period size: 200 Copynumber: 2.0 Consensus size: 199
83683 ATGGTTGAGT
*
83693 GTCCCTCGAGTCCGATGGCGCTTGAATTATTTTCCAATGCCATAAAACACAATTCTTCTTGGTTC
1 GTCCCTCAAGTCCGATGGCGCTTGAATTATTTTCCAATGCCATAAAACACAATTCTTCTTGGTTC
83758 GACAATTGTGAAACTTTAACAATTGATGCGCCTTCCATTTTTGAGCTGAAGATGATCTTCTCTCC
66 GACAATTGTGAAACTTTAACAATTGATGCGCCTTCCATTTTTGAGCTGAAGATGATCTTCTCTCC
83823 CGGGTGTGAAACCGTTGATGAAGGTTAGTCTCTGATACCAATTGAAAGCTCAAGGAATAATGGAG
131 CGGGTGTGAAACCGTTGATGAAGGTTAGTCTCTGATACCAATTGAAAGCTCAAGGAATAATGGAG
83888 GTTA
196 GTTA
*
83892 GTCCCTCAAGTCCGATGGCGCTTGAATTATTTTCCAATGCCATCAAAACATAATTCTTCTTGGTT
1 GTCCCTCAAGTCCGATGGCGCTTGAATTATTTTCCAATGCCAT-AAAACACAATTCTTCTTGGTT
83957 CGACAATTGTGAAACTTTAACAATTGATGCGCCTTCCATTTTTGAGCTGAAGATGATCTTCTCTC
65 CGACAATTGTGAAACTTTAACAATTGATGCGCCTTCCATTTTTGAGCTGAAGATGATCTTCTCTC
* *
84022 CCGGGTGTGAACCCGTTGATGGAGGTTAGTCTCTGATACCAATTGAAAGCTCAAGGAATAATG
130 CCGGGTGTGAAACCGTTGATGAAGGTTAGTCTCTGATACCAATTGAAAGCTCAAGGAATAATG
84085 AACCAAGAGG
Statistics
Matches: 188, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
199 42 0.22
200 146 0.78
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.32
Consensus pattern (199 bp):
GTCCCTCAAGTCCGATGGCGCTTGAATTATTTTCCAATGCCATAAAACACAATTCTTCTTGGTTC
GACAATTGTGAAACTTTAACAATTGATGCGCCTTCCATTTTTGAGCTGAAGATGATCTTCTCTCC
CGGGTGTGAAACCGTTGATGAAGGTTAGTCTCTGATACCAATTGAAAGCTCAAGGAATAATGGAG
GTTA
Found at i:84905 original size:19 final size:20
Alignment explanation
Indices: 84861--84913 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
84851 CTACCATTTT
* **
84861 CATGTATCGATACATTTGTC
1 CATGTATCGATACATATGAA
84881 CATGTATCGATACA-ATGAA
1 CATGTATCGATACATATGAA
84900 CATGTATCGATACA
1 CATGTATCGATACA
84914 GTGTATCCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACATATGAA
Found at i:84942 original size:33 final size:32
Alignment explanation
Indices: 84883--84946 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
84873 CATTTGTCCA
* *
84883 TGTATCGATACAATGAACATGTATCGATACAG
1 TGTATCCATACAAAGAACATGTATCGATACAG
*
84915 TGTATCCATACAAAGCAGCATGTATCGATACA
1 TGTATCCATACAAAG-AACATGTATCGATACA
84947 TCTGGGTGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.27
Consensus pattern (32 bp):
TGTATCCATACAAAGAACATGTATCGATACAG
Found at i:90328 original size:155 final size:155
Alignment explanation
Indices: 89732--90329 Score: 607
Period size: 155 Copynumber: 3.9 Consensus size: 155
89722 TCGGTGATTT
* * * * **
89732 TAAAAGACTTAAAAAGGATTATAGATG-GAATGAACGTATCCTAAATAGCCATCTTTGGCATAAA
1 TAAAGGACTTAAAAAGGATTATAGATGAG-ATGAACCTATCCTAAATACCCACCTTCAGCATAAA
* * * * *
89796 AGTAAAC-CTAGTGACAACCTAGGACTCG-GTTCTAAAAAATTATGAAAATACCCTAGGGGAAAC
65 AATAGACTCGA-TGACAACCTAAGACTCGAGTTCTAAAAAATTATGAAAATACCCTAGGGGATAC
* * * *
89859 CTTCGACTTAAAAGTGCCCAATACCTC
129 CTTCAACTTAAAAGTGCTCGATACCCC
* * * * *
89886 TAAAGGCCATAAAAAGGATTATAGATGTGATGAACCTATCCTAAATACCCAACTTCGGCATAAAA
1 TAAAGGACTTAAAAAGGATTATAGATGAGATGAACCTATCCTAAATACCCACCTTCAGCATAAAA
* * * * * * * * *
89951 ACATACCCGGTGACAACCTAAGACT-TAGTTCTTAAAAAGTATGAAAATGCCCCTAGGGGATACT
66 ATAGACTCGATGACAACCTAAGACTCGAGTTCTAAAAAATTATGAAAAT-ACCCTAGGGGATACC
* * * * *
90015 TTCGACTTAAAAGTGTTTGATATCCA
130 TTCAACTTAAAAGTGCTCGATACCCC
* * * *
90041 TAAAGGACTTAAAAATGATTATAGAT-AGGATGAACATATCCGAAGTACCCACCTTCAGCATAAA
1 TAAAGGACTTAAAAAGGATTATAGATGA-GATGAACCTATCCTAAATACCCACCTTCAGCATAAA
* * * * * *
90105 AGTGGACTAGGTGACAACCTAAGACTCGA-TTCTAGAAAATTATGAAAATACACCTAGGAGATAC
65 AATAGACTCGATGACAACCTAAGACTCGAGTTCTAAAAAATTATGAAAATAC-CCTAGGGGATAC
*
90169 CTTCAACTTAGAAGTGCTCGATACCCC
129 CTTCAACTTAAAAGTGCTCGATACCCC
* * *
90196 TAAAGGACTTAAAAAGGATTATAGATGAGATGAACCTATCTTAAATACCTACCTTCAGCGTAAAA
1 TAAAGGACTTAAAAAGGATTATAGATGAGATGAACCTATCCTAAATACCCACCTTCAGCATAAAA
* * * * * *
90261 ATGGACTCGATGACAACCTAGGACTCGAGTT-TAAAAAAACTATGAAAATGCCCTTGGGTATACC
66 ATAGACTCGATGACAACCTAAGACTCGAGTTCT-AAAAAATTATGAAAATACCCTAGGGGATACC
90325 TTCAA
130 TTCAA
90330 TGTGAAAGTA
Statistics
Matches: 363, Mismatches: 71, Indels: 19
0.80 0.16 0.04
Matches are distributed among these distances:
154 93 0.26
155 251 0.69
156 19 0.05
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (155 bp):
TAAAGGACTTAAAAAGGATTATAGATGAGATGAACCTATCCTAAATACCCACCTTCAGCATAAAA
ATAGACTCGATGACAACCTAAGACTCGAGTTCTAAAAAATTATGAAAATACCCTAGGGGATACCT
TCAACTTAAAAGTGCTCGATACCCC
Found at i:90369 original size:310 final size:308
Alignment explanation
Indices: 89732--90350 Score: 690
Period size: 310 Copynumber: 2.0 Consensus size: 308
89722 TCGGTGATTT
* * * * * * **
89732 TAAAAGACTTAAAAAGGATTATAGATGGAATGAACGTATCCTAAATAGCCATCTTTGGCATAAAA
1 TAAAGGAC-TAAAAATGATTATAGATGGAATGAACATATCCGAAATACCCACCTTCAGCATAAAA
* * *
89797 GTAAACCTAGTGACAACCTAGGACTCGGTTCTAAAAAATTATGAAAATACCCTAGGGGAAACCTT
65 GTAAACCTAGTGACAACCTAAGACTCGATTCTAAAAAATTATGAAAATACCCTAGGAGAAACCTT
* * * *
89862 CGACTTAAAAGTGCCCAATACCTCTAAAGGCCATAAAAAGGATTATAGATGTGATGAACCTATCC
130 CAACTTAAAAGTGCCCAATACCCCTAAAGGACATAAAAAGGATTATAGATGAGATGAACCTATCC
* * * * * *
89927 TAAATACCCAACTTCGGCATAAAAACATACCCGGTGACAACCTAAGACTTAGTTCTTAAAAAGTA
195 TAAATACCCAACTTCAGCATAAAAACAGACCCGATGACAACCTAAGACTGAGTTCTAAAAAACTA
* * * *** *
89992 TGAAAATGCCCCTAGGGGATACTTTCGACTTAAAAGTGTTTGATATCCA
260 TGAAAATGCCCCTAGGGGATACCTTCGAATTAAAAGTATCCCATAACCA
*
90041 TAAAGGACTTAAAAATGATTATAGATAGG-ATGAACATATCCGAAGTACCCACCTTCAGCATAAA
1 TAAAGGAC-TAAAAATGATTATAGAT-GGAATGAACATATCCGAAATACCCACCTTCAGCATAAA
** * *
90105 AGTGGA-CTAGGTGACAACCTAAGACTCGATTCTAGAAAATTATGAAAATACACCTAGGAGATAC
64 AGTAAACCTA-GTGACAACCTAAGACTCGATTCTAAAAAATTATGAAAATAC-CCTAGGAGAAAC
* * * *
90169 CTTCAACTTAGAAGTGCTCGATACCCCTAAAGGACTTAAAAAGGATTATAGATGAGATGAACCTA
127 CTTCAACTTAAAAGTGCCCAATACCCCTAAAGGACATAAAAAGGATTATAGATGAGATGAACCTA
* * * * ** * *
90234 TCTTAAATACCTACCTTCAGCGTAAAAATGGACTCGATGACAACCTAGGACTCGAGTT-TAAAAA
192 TCCTAAATACCCAACTTCAGCATAAAAACAGACCCGATGACAACCTAAGACT-GAGTTCT-AAAA
* * *
90298 AACTATGAAAATG-CCCTTGGGTATACCTTC-AATGTGAAAGTATCCCAGTAACC
255 AACTATGAAAATGCCCCTAGGGGATACCTTCGAAT-TAAAAGTATCCCA-TAACC
90351 CTAGTAGACA
Statistics
Matches: 255, Mismatches: 48, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
308 3 0.01
309 96 0.38
310 133 0.52
311 23 0.09
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (308 bp):
TAAAGGACTAAAAATGATTATAGATGGAATGAACATATCCGAAATACCCACCTTCAGCATAAAAG
TAAACCTAGTGACAACCTAAGACTCGATTCTAAAAAATTATGAAAATACCCTAGGAGAAACCTTC
AACTTAAAAGTGCCCAATACCCCTAAAGGACATAAAAAGGATTATAGATGAGATGAACCTATCCT
AAATACCCAACTTCAGCATAAAAACAGACCCGATGACAACCTAAGACTGAGTTCTAAAAAACTAT
GAAAATGCCCCTAGGGGATACCTTCGAATTAAAAGTATCCCATAACCA
Found at i:92505 original size:159 final size:164
Alignment explanation
Indices: 92264--92668 Score: 443
Period size: 159 Copynumber: 2.5 Consensus size: 164
92254 GTAGAGGCAT
* * * * * *
92264 TTTAAGAAATAAATGAAAAACTCATCAAAATGAATGAATTTTAAAAAAAATAATTTACTA-GGAA
1 TTTAAGAAA-AAATGAAAAACTCATGAAAATAAATGAATTTT-TAAAAACTGATTTAATATGGAA
* * *
92328 TTAAATGATGATATTTGATAAATATTAAAAATTTTGAA-TCGAGAAAAACCCTCCCGAAAACT-G
64 TTAAATGATGATATTTGATAAATATTAAAAATTAT-AAGCCAAGAAAAACCCTCCCGAAAA-TAG
* * * *
92391 TTATGGAATAGAAAACTTAGT-TTTTCAAAA-A-A-AA
127 TTACGGAATAAAAAACTCAGTATTTTAAAAATAGAGAA
* *
92425 TTTAAGAAAAAATGAAAAACTCATGAAAGTAAATGAATTTTTCAAAACTGATTTAATATGG-ATT
1 TTTAAGAAAAAATGAAAAACTCATGAAAATAAATGAATTTTTAAAAACTGATTTAATATGGAATT
* * * * *
92489 AAATGATGATATTTGATGAATTTTAAAAATTATAAGCCAAGCAAAATCCTCCCGAAAATATTTAC
66 AAATGATGATATTTGATAAATATTAAAAATTATAAGCCAAGAAAAACCCTCCCGAAAATAGTTAC
* *
92554 GGAGTAAAAAACTCCGTATTTTAAAAATAGGAGAA
131 GGAATAAAAAACTCAGTATTTTAAAAATA-GAGAA
* * *
92589 TTTCAAGAAAAAAATAAAAAACTCATGAAAATAAATGAATTTTTTAAAACTGATAT-A-ATGGTA
1 TTT-AAG-AAAAAATGAAAAACTCATGAAAATAAATGAATTTTTAAAAACTGATTTAATATGG-A
92652 ATTAAATGATGATATTT
63 ATTAAATGATGATATTT
92669 AAACAATTTT
Statistics
Matches: 206, Mismatches: 26, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
158 3 0.01
159 79 0.38
160 39 0.19
161 10 0.05
163 1 0.00
164 9 0.04
165 4 0.02
166 61 0.30
ACGTcount: A:0.49, C:0.08, G:0.12, T:0.31
Consensus pattern (164 bp):
TTTAAGAAAAAATGAAAAACTCATGAAAATAAATGAATTTTTAAAAACTGATTTAATATGGAATT
AAATGATGATATTTGATAAATATTAAAAATTATAAGCCAAGAAAAACCCTCCCGAAAATAGTTAC
GGAATAAAAAACTCAGTATTTTAAAAATAGAGAA
Found at i:95529 original size:2 final size:2
Alignment explanation
Indices: 95524--95549 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
95514 TTTTAGTTAA
95524 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
95550 TCAATAAACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:99672 original size:19 final size:19
Alignment explanation
Indices: 99648--99687 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
99638 TTGATAATTT
99648 TATTACCCCTTTTGTCAAA
1 TATTACCCCTTTTGTCAAA
99667 TATTACCCCTTTTGTCAAA
1 TATTACCCCTTTTGTCAAA
99686 TA
1 TA
99688 CAATCGCTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.25, G:0.05, T:0.42
Consensus pattern (19 bp):
TATTACCCCTTTTGTCAAA
Found at i:103883 original size:11 final size:12
Alignment explanation
Indices: 103862--103894 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
103852 TTGTGCCTTT
*
103862 CCTCGCCCCCGC
1 CCTCCCCCCCGC
103874 CC-CCCCCCCGC
1 CCTCCCCCCCGC
103885 CCTCCCCCCC
1 CCTCCCCCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.00, C:0.85, G:0.09, T:0.06
Consensus pattern (12 bp):
CCTCCCCCCCGC
Done.