Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 127 of 213
Found at i:36876560 original size:25 final size:26
Alignment explanation
Indices: 36876510--36876560 Score: 95
Period size: 25 Copynumber: 2.0 Consensus size: 26
36876500 AAATGAATAA
36876510 TAAAATTATTATTTTATTTAAATATT
1 TAAAATTATTATTTTATTTAAATATT
36876536 TAAAA-TATTATTTTATTTAAATATT
1 TAAAATTATTATTTTATTTAAATATT
36876561 AATATAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 20 0.80
26 5 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
TAAAATTATTATTTTATTTAAATATT
Found at i:36877201 original size:8 final size:8
Alignment explanation
Indices: 36877188--36877212 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
36877178 ATAGATACAA
36877188 TTTTTAAT
1 TTTTTAAT
36877196 TTTTTAAT
1 TTTTTAAT
36877204 TTTTTAAT
1 TTTTTAAT
36877212 T
1 T
36877213 CCTTTCAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTAAT
Found at i:36884429 original size:24 final size:25
Alignment explanation
Indices: 36884401--36884447 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
36884391 AGATTGTTAA
36884401 AACAACTTC-TAAAG-AAAACTCAAG
1 AACAA-TTCTTAAAGAAAAACTCAAG
*
36884425 AACAATTCTTGAAGAAAAACTCA
1 AACAATTCTTAAAGAAAAACTCA
36884448 GAGAGAATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 3 0.15
24 9 0.45
25 8 0.40
ACGTcount: A:0.53, C:0.19, G:0.09, T:0.19
Consensus pattern (25 bp):
AACAATTCTTAAAGAAAAACTCAAG
Found at i:36889849 original size:13 final size:13
Alignment explanation
Indices: 36889827--36889857 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
36889817 TTTCCAAAAA
*
36889827 TTATGCATTTATT
1 TTATGAATTTATT
36889840 TTATGAATTTATT
1 TTATGAATTTATT
36889853 TTATG
1 TTATG
36889858 TTGACTCCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.26, C:0.03, G:0.10, T:0.61
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:36890205 original size:50 final size:50
Alignment explanation
Indices: 36889953--36890204 Score: 380
Period size: 50 Copynumber: 5.1 Consensus size: 50
36889943 ATTTGGGTAA
* *
36889953 AGAGGTCCCATGTAAGATCATGTCTGGGACACGGCGTTGGCACCGA-ATG
1 AGAGGTCCCATGTAAGAGCATGTCTGGGACATGGCGTTGGCACCGAGATG
* *
36890002 AGAGGTCCCATGTAAGATCATGTCTGGGACATGGTGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGAGCATGTCTGGGACATGGCGTTGGCACCGAGATG
*
36890052 AGAGGTCCCCTGTAAGAGCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGAGCATGTCTGGGACATGGCGTTGGCACCGAGATG
36890102 AGAGGTCCCATGTAAGAGCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGAGCATGTCTGGGACATGGCGTTGGCACCGAGATG
* ** * * * * *
36890152 AGAAGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGAGCATGTCTGGGACATGGCGTTGGCACCGAGATG
36890202 AGA
1 AGA
36890205 ACATCCCATG
Statistics
Matches: 188, Mismatches: 14, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
49 44 0.23
50 144 0.77
ACGTcount: A:0.25, C:0.21, G:0.34, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGAGCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:36892473 original size:40 final size:40
Alignment explanation
Indices: 36892374--36892597 Score: 231
Period size: 40 Copynumber: 5.7 Consensus size: 40
36892364 TTGAATGCTG
* * * *
36892374 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
36892414 TCCGGACTAAGAT-CC-AAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
36892453 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * **
36892493 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
36892533 TCCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
36892572 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
36892598 AACGAGGAGC
Statistics
Matches: 159, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 55 0.35
40 102 0.64
41 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:36892615 original size:79 final size:80
Alignment explanation
Indices: 36892448--36892630 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
36892438 GTGCGAGATA
* * *
36892448 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
36892513 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
36892528 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
36892592 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
36892607 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
36892631 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:36900460 original size:39 final size:40
Alignment explanation
Indices: 36900256--36900478 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
36900246 TTGAATGCTG
* * * * * *
36900256 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
36900296 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
36900336 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
36900376 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
36900416 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
36900455 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
36900479 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:36900498 original size:79 final size:80
Alignment explanation
Indices: 36900331--36900513 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
36900321 GTGCGAGATA
* * *
36900331 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
36900396 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
36900411 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
36900475 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
36900490 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
36900514 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:36902716 original size:21 final size:21
Alignment explanation
Indices: 36902692--36902736 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
36902682 CTAGCACGGC
*
36902692 CGTG-CCCTAGGGTCACATCGG
1 CGTGACCCT-GGGACACATCGG
*
36902713 CGTGACCCTTGGACACATCGG
1 CGTGACCCTGGGACACATCGG
36902734 CGT
1 CGT
36902737 ATGAGCCATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.16, C:0.33, G:0.31, T:0.20
Consensus pattern (21 bp):
CGTGACCCTGGGACACATCGG
Found at i:36905481 original size:29 final size:29
Alignment explanation
Indices: 36905448--36905528 Score: 162
Period size: 29 Copynumber: 2.8 Consensus size: 29
36905438 CACCTTGACA
36905448 CGAACTCTCAATGAACAAGTTCTTCATCG
1 CGAACTCTCAATGAACAAGTTCTTCATCG
36905477 CGAACTCTCAATGAACAAGTTCTTCATCG
1 CGAACTCTCAATGAACAAGTTCTTCATCG
36905506 CGAACTCTCAATGAACAAGTTCT
1 CGAACTCTCAATGAACAAGTTCT
36905529 CCACCTCTTC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (29 bp):
CGAACTCTCAATGAACAAGTTCTTCATCG
Found at i:36920053 original size:39 final size:40
Alignment explanation
Indices: 36919849--36920071 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
36919839 TTGAATGCTG
* * * * * *
36919849 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * * *
36919889 TCCGGACTAAGAT-CCGAAGGCCTTTGTCCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
36919929 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
36919969 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
36920009 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
36920048 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
36920072 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 35 0.22
40 117 0.74
41 7 0.04
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:36920091 original size:79 final size:80
Alignment explanation
Indices: 36919924--36920106 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
36919914 GTCCGAGATA
* * *
36919924 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
36919989 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
36920004 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
36920068 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
36920083 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
36920107 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:36927922 original size:39 final size:40
Alignment explanation
Indices: 36927718--36927940 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
36927708 TTGAATGCTG
* * * * * *
36927718 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
36927758 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
36927798 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
36927838 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
36927878 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
36927917 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
36927941 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:36927960 original size:79 final size:80
Alignment explanation
Indices: 36927793--36927975 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
36927783 GTGCGAGATA
* * *
36927793 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
36927858 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
36927873 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
36927937 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
36927952 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
36927976 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:36963826 original size:10 final size:10
Alignment explanation
Indices: 36963811--36963840 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
36963801 CGGAGTACTG
36963811 GTTGAAAGGA
1 GTTGAAAGGA
36963821 GTTGAAAGGA
1 GTTGAAAGGA
36963831 GTTGAAAGGA
1 GTTGAAAGGA
36963841 TCCTCGAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (10 bp):
GTTGAAAGGA
Found at i:36969236 original size:15 final size:16
Alignment explanation
Indices: 36969203--36969236 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
36969193 TTATTCTATT
36969203 TTTCTTCACCTACTCC
1 TTTCTTCACCTACTCC
*
36969219 TTTCTTCCCCTA-TCC
1 TTTCTTCACCTACTCC
36969234 TTT
1 TTT
36969237 GCCAAACCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.09, C:0.41, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTCTTCACCTACTCC
Found at i:36970535 original size:22 final size:22
Alignment explanation
Indices: 36970510--36970554 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
36970500 ATTATGATGA
36970510 TTGACATG-ATGAGATTGATATT
1 TTGACATGTATGAGATT-ATATT
* *
36970532 TTGATATGTATGTGATTATATT
1 TTGACATGTATGAGATTATATT
36970554 T
1 T
36970555 GTGTTGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.29, C:0.02, G:0.20, T:0.49
Consensus pattern (22 bp):
TTGACATGTATGAGATTATATT
Found at i:36987405 original size:15 final size:16
Alignment explanation
Indices: 36987387--36987420 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
36987377 AGATTAAATT
36987387 AATTAA-CTAAATGCA
1 AATTAACCTAAATGCA
36987402 AATTAACCTAAATGCA
1 AATTAACCTAAATGCA
36987418 AAT
1 AAT
36987421 GAGATGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.53, C:0.15, G:0.06, T:0.26
Consensus pattern (16 bp):
AATTAACCTAAATGCA
Found at i:37002383 original size:11 final size:11
Alignment explanation
Indices: 37002340--37002383 Score: 52
Period size: 11 Copynumber: 3.6 Consensus size: 11
37002330 CCAACATATC
37002340 AATCTATACAGA
1 AATCT-TACAGA
37002352 AATCTTACAGTAA
1 AATCTTACAG--A
37002365 ACATCTTACAGA
1 A-ATCTTACAGA
37002377 AATCTTA
1 AATCTTA
37002384 ACAAGGAACC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
11 11 0.38
12 7 0.24
13 2 0.07
14 9 0.31
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.30
Consensus pattern (11 bp):
AATCTTACAGA
Found at i:37009738 original size:40 final size:40
Alignment explanation
Indices: 37009679--37009866 Score: 313
Period size: 40 Copynumber: 4.7 Consensus size: 40
37009669 GAGCATTGGA
* *
37009679 ATATATCCGGGCTAAGACCCGAAGGCAATTACGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
* *
37009719 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
37009759 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
37009799 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
** *
37009839 ATACGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
37009867 ATGTGTTTGC
Statistics
Matches: 141, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 141 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
Found at i:37014236 original size:20 final size:21
Alignment explanation
Indices: 37014205--37014252 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
37014195 TGCTTTAAGA
37014205 GCACCGAA-GTGCAAGT-AGGG
1 GCACC-AATGTGCAAGTCAGGG
*
37014225 GCACCAATGTGCAATTCAGGG
1 GCACCAATGTGCAAGTCAGGG
*
37014246 GTACCAA
1 GCACCAA
37014253 AGTACAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 12 0.50
21 10 0.42
ACGTcount: A:0.31, C:0.23, G:0.31, T:0.15
Consensus pattern (21 bp):
GCACCAATGTGCAAGTCAGGG
Found at i:37014251 original size:21 final size:20
Alignment explanation
Indices: 37014213--37014252 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
37014203 GAGCACCGAA
37014213 GTGCAAGTAGGGGCACCAAT
1 GTGCAAGTAGGGGCACCAAT
* *
37014233 GTGCAATTCAGGGGTACCAA
1 GTGCAAGT-AGGGGCACCAA
37014253 AGTACAAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.30, C:0.20, G:0.33, T:0.17
Consensus pattern (20 bp):
GTGCAAGTAGGGGCACCAAT
Found at i:37034556 original size:17 final size:18
Alignment explanation
Indices: 37034532--37034569 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
37034522 TTTCCAAATG
37034532 TTTCCCATTTC-A-TCAT
1 TTTCCCATTTCTATTCAT
37034548 TTTCACCATTTCTATTCAT
1 TTTC-CCATTTCTATTCAT
37034567 TTT
1 TTT
37034570 TTTTATTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.21
17 7 0.37
18 1 0.05
19 7 0.37
ACGTcount: A:0.18, C:0.26, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTCCCATTTCTATTCAT
Found at i:37040570 original size:27 final size:27
Alignment explanation
Indices: 37040540--37040716 Score: 167
Period size: 27 Copynumber: 6.5 Consensus size: 27
37040530 AAATTGTACA
* *
37040540 GCACTAAGGGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTG
** *
37040567 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGATTTGACTATG-TG
* * *
37040594 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTG
* * *
37040621 GCACTAAGAGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTG
* *
37040649 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGATTTGACTATGTG
* * * *
37040676 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGATTTGACTATGTG
*
37040703 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
37040717 GGCTCAATAT
Statistics
Matches: 123, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 101 0.82
28 22 0.18
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTG
Found at i:37040653 original size:82 final size:81
Alignment explanation
Indices: 37040540--37040695 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
37040530 AAATTGTACA
* * * *
37040540 GCACTAAGGGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGAGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
37040604 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
37040621 GCACTAAGAGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGAGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
37040686 TGCGAGTTGA
65 TGCGAATTGA
37040696 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.77
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGAGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:37043288 original size:58 final size:59
Alignment explanation
Indices: 37043199--37043316 Score: 202
Period size: 58 Copynumber: 2.0 Consensus size: 59
37043189 TGACAAGTAA
* *
37043199 ATTATTATTATTATTTTAATGTCTATGGGATGTTAGTAAGGTCATATTAAAATTTTGTT
1 ATTATTATTATTATTTTAATGCCTATGGGATGTTAGTAAGGTCATATTAAAATTTCGTT
*
37043258 ATTATTATTATTA-TTTAATGCCTATGGGATGTTAGTAAGGTCGTATTAAAATTTCGTT
1 ATTATTATTATTATTTTAATGCCTATGGGATGTTAGTAAGGTCATATTAAAATTTCGTT
37043316 A
1 A
37043317 AGAAATTTTG
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
58 43 0.77
59 13 0.23
ACGTcount: A:0.31, C:0.05, G:0.16, T:0.48
Consensus pattern (59 bp):
ATTATTATTATTATTTTAATGCCTATGGGATGTTAGTAAGGTCATATTAAAATTTCGTT
Found at i:37046410 original size:21 final size:21
Alignment explanation
Indices: 37046384--37046424 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
37046374 AGAATATAAA
37046384 TTATAACTCATAATTATTTTT
1 TTATAACTCATAATTATTTTT
* **
37046405 TTATAATTTTTAATTATTTT
1 TTATAACTCATAATTATTTT
37046425 CCAAAGTCAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (21 bp):
TTATAACTCATAATTATTTTT
Found at i:37046668 original size:16 final size:16
Alignment explanation
Indices: 37046647--37046678 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37046637 GTTTTGTTGC
*
37046647 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
37046663 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
37046679 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:37046971 original size:51 final size:51
Alignment explanation
Indices: 37046902--37047096 Score: 209
Period size: 51 Copynumber: 3.8 Consensus size: 51
37046892 AATACCGGTT
* * *
37046902 CACATAGTAGCCTACACATAGTACTACGCATGTGACCATCACTATCTGATA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGGTA
* * * * *
37046953 CACGTAGTAGCTTGCACATAGTACTACACACGTGA--TTGAAGCTATCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCAT-CA-CTATCTGGTA
** * * *
37047004 CGTATAGTAGTCTGCACATAGTACTATACATGCGACCTATCA-T-TCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACC-ATCACTATCTGGTA
*
37047054 CACATAGTAGCCTGCACATAGTACTACACAGGTGACCATCACT
1 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACT
37047097 TTCACTTTCA
Statistics
Matches: 114, Mismatches: 24, Indels: 13
0.75 0.16 0.09
Matches are distributed among these distances:
49 5 0.04
50 40 0.35
51 67 0.59
53 1 0.01
54 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCTGGTA
Found at i:37047063 original size:101 final size:102
Alignment explanation
Indices: 37046905--37047088 Score: 264
Period size: 101 Copynumber: 1.8 Consensus size: 102
37046895 ACCGGTTCAC
* * * *
37046905 ATAGTAGCCTACACATAGTACTACGCATGTGACCATCACTATCTGATACACGTAGTAGCTTGCAC
1 ATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCTGATACACATAGTAGCCTGCAC
37046970 ATAGTACTACACACGTGATTGAAGCTATCTGGTACGT
66 ATAGTACTACACACGTGATTGAAGCTATCTGGTACGT
* * * *
37047007 ATAGTAGTCTGCACATAGTACTATACATGCGACCTATCA-T-TCTGGTACACATAGTAGCCTGCA
1 ATAGTAGCCTACACATAGTACTACACATGCGACC-ATCACTATCTGATACACATAGTAGCCTGCA
*
37047070 CATAGTACTACACAGGTGA
65 CATAGTACTACACACGTGA
37047089 CCATCACTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
101 38 0.53
102 30 0.42
103 4 0.06
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.27
Consensus pattern (102 bp):
ATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCTGATACACATAGTAGCCTGCAC
ATAGTACTACACACGTGATTGAAGCTATCTGGTACGT
Found at i:37053952 original size:47 final size:47
Alignment explanation
Indices: 37053894--37054382 Score: 816
Period size: 47 Copynumber: 10.4 Consensus size: 47
37053884 CAACCAAGAC
*
37053894 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
37053941 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATAAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
37053988 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
37054035 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
37054082 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
37054129 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
37054176 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
37054223 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
37054270 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * * * * * * *
37054317 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
37054364 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
37054383 TCCCGAAGGG
Statistics
Matches: 421, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 421 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:37054557 original size:37 final size:37
Alignment explanation
Indices: 37054501--37054579 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
37054491 CCGAGCTCTA
* * *
37054501 AAGACCTGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
37054538 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
37054575 AAGAC
1 AAGAC
37054580 TTCATAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:37060234 original size:19 final size:19
Alignment explanation
Indices: 37060207--37060245 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
37060197 TTATTCCAGC
37060207 AACTAAATTAACTAAGATG
1 AACTAAATTAACTAAGATG
*
37060226 AACTTAATTAACTAAGATG
1 AACTAAATTAACTAAGATG
37060245 A
1 A
37060246 GTAATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.28
Consensus pattern (19 bp):
AACTAAATTAACTAAGATG
Found at i:37060257 original size:54 final size:54
Alignment explanation
Indices: 37060197--37060322 Score: 207
Period size: 54 Copynumber: 2.3 Consensus size: 54
37060187 CAACAATAAA
* * *
37060197 TTATTCCAGCAACTAAATTAACTAAGATGAACTTAATTAACTAAGATGAGTAAT
1 TTATTCCAGCAACTAAATTAAATAAGATAAACTCAATTAACTAAGATGAGTAAT
*
37060251 TTATTCCAGCAACTTAATTAAATAAGATAAACTCAATTAACTAAGATGAGTAAT
1 TTATTCCAGCAACTAAATTAAATAAGATAAACTCAATTAACTAAGATGAGTAAT
*
37060305 TTATTCCAACAACTAAAT
1 TTATTCCAGCAACTAAAT
37060323 ACTTATTCCA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (54 bp):
TTATTCCAGCAACTAAATTAAATAAGATAAACTCAATTAACTAAGATGAGTAAT
Found at i:37060288 original size:19 final size:19
Alignment explanation
Indices: 37060261--37060297 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
37060251 TTATTCCAGC
*
37060261 AACTTAATTAAATAAGATA
1 AACTCAATTAAATAAGATA
*
37060280 AACTCAATTAACTAAGAT
1 AACTCAATTAAATAAGAT
37060298 GAGTAATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.11, G:0.05, T:0.30
Consensus pattern (19 bp):
AACTCAATTAAATAAGATA
Found at i:37062640 original size:19 final size:19
Alignment explanation
Indices: 37062616--37062659 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
37062606 CTCCCGTTCG
37062616 GCTCTTGCTCGCTGGCCCC
1 GCTCTTGCTCGCTGGCCCC
37062635 GCTCTTGCTCGCTGGCCCC
1 GCTCTTGCTCGCTGGCCCC
37062654 GCTCTT
1 GCTCTT
37062660 CTACACGATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.00, C:0.45, G:0.25, T:0.30
Consensus pattern (19 bp):
GCTCTTGCTCGCTGGCCCC
Found at i:37064806 original size:27 final size:27
Alignment explanation
Indices: 37064776--37064953 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
37064766 ATATCGAGTC
* *
37064776 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
37064803 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
37064830 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
37064858 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
37064885 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
37064912 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
37064939 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
37064954 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:37064915 original size:82 final size:81
Alignment explanation
Indices: 37064797--37064952 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
37064787 TGCTATATAA
* *
37064797 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
37064862 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
37064879 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
37064943 CACTTAGTGC
65 CACTTAGTGC
37064953 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 19 0.29
82 47 0.71
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:37072876 original size:27 final size:27
Alignment explanation
Indices: 37072846--37073023 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
37072836 ATATCGAGTC
* *
37072846 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
37072873 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
37072900 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
37072928 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
37072955 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
37072982 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
37073009 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
37073024 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:37072985 original size:82 final size:81
Alignment explanation
Indices: 37072867--37073022 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
37072857 TGCTATATAA
* *
37072867 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
37072932 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
37072949 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
37073013 CACTTAGTGC
65 CACTTAGTGC
37073023 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 19 0.29
82 47 0.71
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:37075486 original size:11 final size:11
Alignment explanation
Indices: 37075470--37075501 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
37075460 ACCTACAAAG
37075470 AAACACATTAA
1 AAACACATTAA
37075481 AAACACATT--
1 AAACACATTAA
37075490 AAACACATTAA
1 AAACACATTAA
37075501 A
1 A
37075502 CACATTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 9 0.47
11 10 0.53
ACGTcount: A:0.62, C:0.19, G:0.00, T:0.19
Consensus pattern (11 bp):
AAACACATTAA
Found at i:37075495 original size:9 final size:9
Alignment explanation
Indices: 37075470--37075507 Score: 58
Period size: 9 Copynumber: 4.0 Consensus size: 9
37075460 ACCTACAAAG
37075470 AAACACATT
1 AAACACATT
37075479 AAAAACACATT
1 --AAACACATT
37075490 AAACACATT
1 AAACACATT
37075499 AAACACATT
1 AAACACATT
37075508 TTAACACATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 18 0.67
11 9 0.33
ACGTcount: A:0.58, C:0.21, G:0.00, T:0.21
Consensus pattern (9 bp):
AAACACATT
Found at i:37075511 original size:11 final size:10
Alignment explanation
Indices: 37075470--37075516 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 10
37075460 ACCTACAAAG
*
37075470 AAACACATTAA
1 AAACACATT-T
37075481 AAACACA-TT
1 AAACACATTT
37075490 AAACACA-TT
1 AAACACATTT
37075499 AAACACATTT
1 AAACACATTT
*
37075509 TAACACAT
1 AAACACAT
37075517 ATTAGACTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
9 16 0.48
10 10 0.30
11 7 0.21
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.23
Consensus pattern (10 bp):
AAACACATTT
Found at i:37075634 original size:9 final size:9
Alignment explanation
Indices: 37075620--37075672 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
37075610 TTATTTCAAC
37075620 AACTAAATT
1 AACTAAATT
*
37075629 AACTAAGATG
1 AACTAA-ATT
*
37075639 AACTTAATT
1 AACTAAATT
*
37075648 AACTAAGATG
1 AACTAA-ATT
*
37075658 AACTCAATT
1 AACTAAATT
37075667 AACTAA
1 AACTAA
37075673 GATGAGTAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
9 20 0.59
10 14 0.41
ACGTcount: A:0.51, C:0.13, G:0.08, T:0.28
Consensus pattern (9 bp):
AACTAAATT
Found at i:37075647 original size:19 final size:19
Alignment explanation
Indices: 37075620--37075677 Score: 98
Period size: 19 Copynumber: 3.1 Consensus size: 19
37075610 TTATTTCAAC
37075620 AACTAAATTAACTAAGATG
1 AACTAAATTAACTAAGATG
*
37075639 AACTTAATTAACTAAGATG
1 AACTAAATTAACTAAGATG
*
37075658 AACTCAATTAACTAAGATG
1 AACTAAATTAACTAAGATG
37075677 A
1 A
37075678 GTAATTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (19 bp):
AACTAAATTAACTAAGATG
Found at i:37080355 original size:25 final size:25
Alignment explanation
Indices: 37080319--37080379 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
37080309 CTCTTAAATT
*
37080319 TTAATTTAATTATCTAAT-TTTTCA-A
1 TTAATTAAATTAT-TAATATTTT-ATA
*
37080344 TTTATTAAATTATTAATATTTTATA
1 TTAATTAAATTATTAATATTTTATA
37080369 TTAATTAAATT
1 TTAATTAAATT
37080380 TTGTAAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 5 0.16
25 26 0.84
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.57
Consensus pattern (25 bp):
TTAATTAAATTATTAATATTTTATA
Found at i:37091138 original size:27 final size:27
Alignment explanation
Indices: 37091085--37091138 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
37091075 ATCATGCTTT
* **
37091085 TACACATAGCTGTGGACAAGCTTCCAA
1 TACACATAGCTGTGGACAAACCACCAA
* *
37091112 TACACATAGTTGTGGATAAACCACCAA
1 TACACATAGCTGTGGACAAACCACCAA
37091139 ATTTGCCGAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.22
Consensus pattern (27 bp):
TACACATAGCTGTGGACAAACCACCAA
Found at i:37091214 original size:168 final size:168
Alignment explanation
Indices: 37090933--37091252 Score: 577
Period size: 168 Copynumber: 1.9 Consensus size: 168
37090923 AAATTGCGGT
37090933 CAAGCTTCCAATACAAATAGTTGTCGATAAACCACCAAATTTGCAGATTATTAAACTGCCACATC
1 CAAGCTTCCAATACAAATAGTTGTCGATAAACCACCAAATTTGCAGATTATTAAACTGCCACATC
*
37090998 TTCCTCCTTACAAATGTCCCAACCCTATGTAATGCATCATGGCATACAAATCTCATTGCAAATCA
66 TTCCTCCTTACAAATGTCCCAACCCCATGTAATGCATCATGGCATACAAATCTCATTGCAAATCA
37091063 ATAGGCATGAAAATCATGCTTTTACACATAGCTGTGGA
131 ATAGGCATGAAAATCATGCTTTTACACATAGCTGTGGA
* * *
37091101 CAAGCTTCCAATACACATAGTTGTGGATAAACCACCAAATTTGCCGATTATTAAACTGCCACATC
1 CAAGCTTCCAATACAAATAGTTGTCGATAAACCACCAAATTTGCAGATTATTAAACTGCCACATC
* *
37091166 TTCCTCCTTACAAATGTCCTAACCCCATGTAATGCATCATGTCATACAAATCTCATTGCAAATCA
66 TTCCTCCTTACAAATGTCCCAACCCCATGTAATGCATCATGGCATACAAATCTCATTGCAAATCA
*
37091231 ATAGGCATGATAATCATGCTTT
131 ATAGGCATGAAAATCATGCTTT
37091253 CAAAATTTTA
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
168 145 1.00
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.29
Consensus pattern (168 bp):
CAAGCTTCCAATACAAATAGTTGTCGATAAACCACCAAATTTGCAGATTATTAAACTGCCACATC
TTCCTCCTTACAAATGTCCCAACCCCATGTAATGCATCATGGCATACAAATCTCATTGCAAATCA
ATAGGCATGAAAATCATGCTTTTACACATAGCTGTGGA
Found at i:37093520 original size:10 final size:10
Alignment explanation
Indices: 37093505--37093566 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
37093495 TTTGAACCAT
*
37093505 TACCAATTCG
1 TACCAATTCA
*
37093515 TACCAAATACCA
1 TACC-AAT-TCA
*
37093527 TACCATTTCA
1 TACCAATTCA
37093537 TACCAATTCCA
1 TACCAATT-CA
* *
37093548 TACCATTTCG
1 TACCAATTCA
37093558 TACCAATTC
1 TACCAATTC
37093567 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:37093550 original size:21 final size:21
Alignment explanation
Indices: 37093505--37093567 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
37093495 TTTGAACCAT
* *
37093505 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
37093527 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
37093548 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
37093568 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:37103406 original size:12 final size:12
Alignment explanation
Indices: 37103389--37103413 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
37103379 AAAAACATAG
37103389 AAAACATATAAA
1 AAAACATATAAA
37103401 AAAACATATAAA
1 AAAACATATAAA
37103413 A
1 A
37103414 GGAAACTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAACATATAAA
Found at i:37105484 original size:26 final size:26
Alignment explanation
Indices: 37105455--37105510 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
37105445 CTATTAACTG
37105455 ATGTTATTAAAAAGTCTACGGGTTTT
1 ATGTTATTAAAAAGTCTACGGGTTTT
37105481 ATGTTATTAAAAAGTCTACGGGTTTT
1 ATGTTATTAAAAAGTCTACGGGTTTT
37105507 ATGT
1 ATGT
37105511 GGGGAGAAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (26 bp):
ATGTTATTAAAAAGTCTACGGGTTTT
Found at i:37112880 original size:15 final size:15
Alignment explanation
Indices: 37112860--37112889 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
37112850 TATATTATTA
37112860 ATTAATACATATGAT
1 ATTAATACATATGAT
37112875 ATTAATACATATGAT
1 ATTAATACATATGAT
37112890 TTTGGACCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (15 bp):
ATTAATACATATGAT
Found at i:37115964 original size:25 final size:25
Alignment explanation
Indices: 37115913--37115966 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
37115903 TTTTCTCAAA
*
37115913 AATTTAATTAATATAAAATATTAAT
1 AATTTAATAAATATAAAATATTAAT
37115938 AATTTAATAAAT-TAATAA-ATTAGAT
1 AATTTAATAAATATAA-AATATTA-AT
37115963 AATT
1 AATT
37115967 AAATTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 7 0.27
25 19 0.73
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (25 bp):
AATTTAATAAATATAAAATATTAAT
Found at i:37116687 original size:30 final size:30
Alignment explanation
Indices: 37116630--37116691 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
37116620 GTTTTCTGAA
* * *
37116630 AATATTTACAAAAAGATGCATCTAATTTTT
1 AATATTTACAAAAAGATGAACCAAATTTTT
37116660 AATATTTACAAAAAGA-GAAACCAAATTTTT
1 AATATTTACAAAAAGATG-AACCAAATTTTT
37116690 AA
1 AA
37116692 AAATAATTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 1 0.04
30 27 0.96
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.34
Consensus pattern (30 bp):
AATATTTACAAAAAGATGAACCAAATTTTT
Found at i:37124878 original size:20 final size:20
Alignment explanation
Indices: 37124818--37124879 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
37124808 TACTAATTAG
* * *
37124818 AACATATTTAATAGACTTAA
1 AACATATTTAACACACATAA
* **
37124838 GACATATTAATAACATGCATAA
1 AACATATT--TAACACACATAA
37124860 AACATATTTAACACACATAA
1 AACATATTTAACACACATAA
37124880 TTAAATTTGT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
20 17 0.53
22 15 0.47
ACGTcount: A:0.52, C:0.15, G:0.05, T:0.29
Consensus pattern (20 bp):
AACATATTTAACACACATAA
Found at i:37124941 original size:9 final size:9
Alignment explanation
Indices: 37124929--37124962 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
37124919 TTAATTGAGT
37124929 TAATTTAAC
1 TAATTTAAC
37124938 TAATTTAAC
1 TAATTTAAC
* *
37124947 TAATTCAAA
1 TAATTTAAC
37124956 TAATTTA
1 TAATTTA
37124963 TTCCAACAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (9 bp):
TAATTTAAC
Found at i:37132354 original size:43 final size:43
Alignment explanation
Indices: 37132216--37132355 Score: 199
Period size: 43 Copynumber: 3.3 Consensus size: 43
37132206 AAAATGCCAC
** *
37132216 TAAAGACCATTACCTTTAGCGGCGCTTTTCCCACAAACGCCGC
1 TAAAGACCAGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGT
* * ** *
37132259 TAAAGACAAGGAACTTTAGTAGCGCTTTTCCCACAAACGCTGT
1 TAAAGACCAGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGT
*
37132302 TAAAAACCAGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGT
1 TAAAGACCAGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGT
37132345 TAAAGACCAGG
1 TAAAGACCAGG
37132356 TGTAACACCC
Statistics
Matches: 82, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 82 1.00
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (43 bp):
TAAAGACCAGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGT
Found at i:37133737 original size:27 final size:27
Alignment explanation
Indices: 37133707--37133884 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
37133697 ATATTGAGTC
* *
37133707 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
37133734 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
37133761 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* ** ** **
37133789 CGCACATTTAGTGCCGCATGGTCAGTT
1 CGCACACTTAGTGCTACATAATCAACT
* **
37133816 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
37133843 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
37133870 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
37133885 GTACAATTTA
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.82
28 23 0.18
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:37133846 original size:82 final size:81
Alignment explanation
Indices: 37133733--37133883 Score: 223
Period size: 82 Copynumber: 1.9 Consensus size: 81
37133723 TATAATCAAC
* * *
37133733 TCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACATTT
1 TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
37133798 AGTGCCGCATGGTCAGT
65 AGTGCCGCATGGTCAGT
* **
37133815 TCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
1 TCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
37133879 AGTGC
65 AGTGC
37133884 TGTACAATTT
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
81 15 0.24
82 47 0.76
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (81 bp):
TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGGTCAGT
Found at i:37140559 original size:27 final size:27
Alignment explanation
Indices: 37140529--37140706 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
37140519 ATATTGAGTC
* *
37140529 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
37140556 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
37140583 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** **
37140611 CGCACACTTAGTGCCGCATGGTCAGTT
1 CGCACACTTAGTGCTACATAATCAACT
* **
37140638 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
37140665 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
37140692 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
37140707 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:37140668 original size:82 final size:81
Alignment explanation
Indices: 37140555--37140705 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
37140545 TATAATCAAC
* *
37140555 TCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
37140620 AGTGCCGCATGGTCAGT
65 AGTGCCGCATGGTCAGT
* **
37140637 TCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
1 TCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
37140701 AGTGC
65 AGTGC
37140706 TGTACAATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.25
82 47 0.75
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGGTCAGT
Found at i:37141666 original size:43 final size:43
Alignment explanation
Indices: 37141602--37141851 Score: 301
Period size: 43 Copynumber: 5.8 Consensus size: 43
37141592 GGGCTGTCAC
* *
37141602 ACCAGGACCTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAG
1 ACCAGGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAG
* *
37141645 ACCAGGACCTTTAGCGACGCTTTTCCCACAAACGTCGCTAAAA
1 ACCAGGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAG
* *
37141688 ACCTGGACCTTTAGC-AGCGCTTTTCCAACAAACGCCGCTAAAG
1 ACCAGGACCTTTAGCGA-CGCTTTTCCCACAAACGCCGCTAAAG
* * * *
37141731 ACCAAGACCTTTAACG-CTCTTTTCCCACAAACACCGCTAAAG
1 ACCAGGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAG
* * * * *
37141773 ACCAGGACCTTTAGCGGCACTTTCCCCAAAAACGCAGCTAAAG
1 ACCAGGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAG
*
37141816 ACCAGGACCTTTAGC-AGCGC-TTTCTCCAAAAACGCC
1 ACCAGGACCTTTAGCGA-CGCTTTTC-CCACAAACGCC
37141852 ACTCCATTAT
Statistics
Matches: 177, Mismatches: 25, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
42 41 0.23
43 136 0.77
ACGTcount: A:0.30, C:0.34, G:0.16, T:0.20
Consensus pattern (43 bp):
ACCAGGACCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAG
Found at i:37141806 original size:85 final size:85
Alignment explanation
Indices: 37141602--37141828 Score: 303
Period size: 85 Copynumber: 2.6 Consensus size: 85
37141592 GGGCTGTCAC
* * *
37141602 ACCAGGACCTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAGACCAGGACCTTTAGCGACGCTT
1 ACCAGGACCTTTAGCGGCGC-TTTCCCAAAAACGCCGCTAAAGACCAGGACCTTTAACGACGCTT
**
37141667 TTCCCACAAACGTCGCTAAAA
65 TTCCCACAAACACCGCTAAAA
* * * * *
37141688 ACCTGGACCTTTAGCAGCGCTTTTCCAACAAACGCCGCTAAAGACCAAGACCTTTAACG-CTCTT
1 ACCAGGACCTTTAGCGGCGCTTTCCCAA-AAACGCCGCTAAAGACCAGGACCTTTAACGACGCTT
*
37141752 TTCCCACAAACACCGCTAAAG
65 TTCCCACAAACACCGCTAAAA
* *
37141773 ACCAGGACCTTTAGCGGCACTTTCCCCAAAAACGCAGCTAAAGACCAGGACCTTTA
1 ACCAGGACCTTTAGCGGCGCTTT-CCCAAAAACGCCGCTAAAGACCAGGACCTTTA
37141829 GCAGCGCTTT
Statistics
Matches: 122, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
85 73 0.60
86 49 0.40
ACGTcount: A:0.30, C:0.33, G:0.16, T:0.20
Consensus pattern (85 bp):
ACCAGGACCTTTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGACCAGGACCTTTAACGACGCTTT
TCCCACAAACACCGCTAAAA
Found at i:37141849 original size:128 final size:129
Alignment explanation
Indices: 37141602--37141851 Score: 380
Period size: 128 Copynumber: 1.9 Consensus size: 129
37141592 GGGCTGTCAC
* * *
37141602 ACCAGGACCTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAGACCAGGACCTTTAGCGACGCTT
1 ACCAAGACCTTTAACGGCGCTTTTCCCACAAACACCGCTAAAGACCAGGACCTTTAGCGACACTT
* * *
37141667 TTCCCACAAACGTCGCTAAAAACCTGGACCTTTAGCAGCGCTTTTCCAACAAACGCCGCTAAAG
66 TCCCCAAAAACGTCGCTAAAAACCAGGACCTTTAGCAGCGCTTTTCCAACAAACGCCGCTAAAG
* *
37141731 ACCAAGACCTTTAAC-GCTCTTTTCCCACAAACACCGCTAAAGACCAGGACCTTTAGCGGCACTT
1 ACCAAGACCTTTAACGGCGCTTTTCCCACAAACACCGCTAAAGACCAGGACCTTTAGCGACACTT
*
37141795 TCCCCAAAAACG-CAGCTAAAGACCAGGACCTTTAGCAGCGCTTTCTCCAA-AAACGCC
66 TCCCCAAAAACGTC-GCTAAAAACCAGGACCTTTAGCAGCGCTTT-TCCAACAAACGCC
37141852 ACTCCATTAT
Statistics
Matches: 110, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
127 1 0.01
128 91 0.83
129 18 0.16
ACGTcount: A:0.30, C:0.34, G:0.16, T:0.20
Consensus pattern (129 bp):
ACCAAGACCTTTAACGGCGCTTTTCCCACAAACACCGCTAAAGACCAGGACCTTTAGCGACACTT
TCCCCAAAAACGTCGCTAAAAACCAGGACCTTTAGCAGCGCTTTTCCAACAAACGCCGCTAAAG
Found at i:37142761 original size:23 final size:23
Alignment explanation
Indices: 37142727--37143189 Score: 248
Period size: 23 Copynumber: 20.3 Consensus size: 23
37142717 AATGGAAAGT
*
37142727 AGCACTTTAACACTTCAATTTAC
1 AGCACTTAAACACTTCAATTTAC
* *
37142750 AGCGA-TAAAACA-TCTCAATTTGC
1 AGC-ACTTAAACACT-TCAATTTAC
*
37142773 AGCAAC-TAAACACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTAC
37142796 AGCACTTAAACA-TATCAA-TTATC
1 AGCACTTAAACACT-TCAATTTA-C
* * * *
37142819 AACATTTATACACCTC-ATTTAC
1 AGCACTTAAACACTTCAATTTAC
* *
37142841 AGCGA-TAAAACA-TCTCAATTTCC
1 AGC-ACTTAAACACT-TCAATTTAC
*
37142864 AGCAAC-TAAACACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTAC
*
37142887 AACACTTAAACACTTCAATTTAC
1 AGCACTTAAACACTTCAATTTAC
* * *
37142910 AGCATTTAAACACTTAAATTTGC
1 AGCACTTAAACACTTCAATTTAC
*
37142933 AGCACTTAAACA-TATCAATTAAC
1 AGCACTTAAACACT-TCAATTTAC
* * * *
37142956 AACATTTATACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTAC
* * *
37142978 AACGA-TAAAACA-TCTCAATTTCC
1 AGC-ACTTAAACACT-TCAATTTAC
* *
37143001 TA-CAAC-TAAATACTTCAATTTGC
1 -AGC-ACTTAAACACTTCAATTTAC
37143024 AGCACTTAAACACTTCAATTTAC
1 AGCACTTAAACACTTCAATTTAC
* * * * *
37143047 AACATTTAGACACTTAAATTTGC
1 AGCACTTAAACACTTCAATTTAC
*
37143070 AGCACTTAAACA-TATCAATTAAC
1 AGCACTTAAACACT-TCAATTTAC
* * * *
37143093 AACATTTATACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTAC
*
37143115 AGCGA-TAAAACA-TCTCAATTT-C
1 AGC-ACTTAAACACT-TCAATTTAC
* * *
37143137 TAGTAAC-TAAATACTTCAATTTGC
1 -AG-CACTTAAACACTTCAATTTAC
*
37143161 AGCACTTAAACACTTTAATTTAC
1 AGCACTTAAACACTTCAATTTAC
*
37143184 AACACT
1 AGCACT
37143190 ATCAAACTTC
Statistics
Matches: 333, Mismatches: 71, Indels: 72
0.70 0.15 0.15
Matches are distributed among these distances:
22 56 0.17
23 270 0.81
24 7 0.02
ACGTcount: A:0.41, C:0.24, G:0.05, T:0.30
Consensus pattern (23 bp):
AGCACTTAAACACTTCAATTTAC
Found at i:37142905 original size:91 final size:91
Alignment explanation
Indices: 37142735--37143187 Score: 384
Period size: 91 Copynumber: 5.0 Consensus size: 91
37142725 GTAGCACTTT
* *
37142735 AACACTTCAATTTACAGCGATAAAACATCTCAATTTGCAGCAACTAAACACTTCAATTTGCAGCA
1 AACACCTC-ATTTACAGCGATAAAACATCTCAATTTACAGCAACTAAACACTTCAATTTGCAGCA
37142800 CTTAAACATATCAA-TTATCAACATTTA
65 CTTAAACATATCAATTTA-CAACATTTA
* * *
37142827 TACACCTCATTTACAGCGATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATTTGCAACAC
1 AACACCTCATTTACAGCGATAAAACATCTCAATTTACAGCAACTAAACACTTCAATTTGCAGCAC
*
37142892 TTAAACACT-TCAATTTACAGCATTTA
66 TTAAACA-TATCAATTTACAACATTTA
* * * * * * * ** * * * *
37142918 AACACTTAAATTTGCAGC-ACTTAAACATATCAATTAACAACATTTATACACCTCAA-TTACAAC
1 AACACCT-CATTTACAGCGA-TAAAACATCTCAATTTACAGCAACTAAACACTTCAATTTGCAGC
* * * * **
37142981 GA-TAAAACATCTCAATTTCCTACAACTA
64 -ACTTAAACATATCAATTTACAACATTTA
* * * * * ** * *
37143009 AATACTTCAATTTGCAGC-ACTTAAACA-CTTCAATTTACAACATTTAGACACTTAAATTTGCAG
1 AACACCTC-ATTTACAGCGA-TAAAACATC-TCAATTTACAGCAACTAAACACTTCAATTTGCAG
*
37143072 CACTTAAACATATCAATTAACAACATTTA
63 CACTTAAACATATCAATTTACAACATTTA
* * * *
37143101 TACACCTCAATTACAGCGATAAAACATCTCAATTT-CTAGTAACTAAATACTTCAATTTGCAGCA
1 AACACCTCATTTACAGCGATAAAACATCTCAATTTAC-AGCAACTAAACACTTCAATTTGCAGCA
*
37143165 CTTAAACACT-TTAATTTACAACA
65 CTTAAACA-TATCAATTTACAACA
37143188 CTATCAAACT
Statistics
Matches: 291, Mismatches: 56, Indels: 29
0.77 0.15 0.08
Matches are distributed among these distances:
90 2 0.01
91 211 0.73
92 78 0.27
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.30
Consensus pattern (91 bp):
AACACCTCATTTACAGCGATAAAACATCTCAATTTACAGCAACTAAACACTTCAATTTGCAGCAC
TTAAACATATCAATTTACAACATTTA
Found at i:37143185 original size:137 final size:137
Alignment explanation
Indices: 37142779--37143187 Score: 703
Period size: 137 Copynumber: 3.0 Consensus size: 137
37142769 TTGCAGCAAC
* * *
37142779 TAAACACTTCAATTTGCAGCACTTAAACATATCAATTATCAACATTTATACACCTCATTTACAGC
1 TAAACACTTAAATTTGCAGCACTTAAACATATCAATTAACAACATTTATACACCTCAATTACAGC
* * *
37142844 GATAAAACATCTCAATTTCCAGCAACTAAACACTTCAATTTGCAACACTTAAACACTTCAATTTA
66 GATAAAACATCTCAATTTCTAGCAACTAAATACTTCAATTTGCAGCACTTAAACACTTCAATTTA
*
37142909 CAGCATT
131 CAACATT
*
37142916 TAAACACTTAAATTTGCAGCACTTAAACATATCAATTAACAACATTTATACACCTCAATTACAAC
1 TAAACACTTAAATTTGCAGCACTTAAACATATCAATTAACAACATTTATACACCTCAATTACAGC
37142981 GATAAAACATCTCAATTTCCTA-CAACTAAATACTTCAATTTGCAGCACTTAAACACTTCAATTT
66 GATAAAACATCTCAATTT-CTAGCAACTAAATACTTCAATTTGCAGCACTTAAACACTTCAATTT
37143045 ACAACATT
130 ACAACATT
*
37143053 TAGACACTTAAATTTGCAGCACTTAAACATATCAATTAACAACATTTATACACCTCAATTACAGC
1 TAAACACTTAAATTTGCAGCACTTAAACATATCAATTAACAACATTTATACACCTCAATTACAGC
* *
37143118 GATAAAACATCTCAATTTCTAGTAACTAAATACTTCAATTTGCAGCACTTAAACACTTTAATTTA
66 GATAAAACATCTCAATTTCTAGCAACTAAATACTTCAATTTGCAGCACTTAAACACTTCAATTTA
37143183 CAACA
131 CAACA
37143188 CTATCAAACT
Statistics
Matches: 258, Mismatches: 12, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
136 3 0.01
137 253 0.98
138 2 0.01
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.31
Consensus pattern (137 bp):
TAAACACTTAAATTTGCAGCACTTAAACATATCAATTAACAACATTTATACACCTCAATTACAGC
GATAAAACATCTCAATTTCTAGCAACTAAATACTTCAATTTGCAGCACTTAAACACTTCAATTTA
CAACATT
Found at i:37143608 original size:41 final size:39
Alignment explanation
Indices: 37143525--37143608 Score: 105
Period size: 39 Copynumber: 2.1 Consensus size: 39
37143515 GCACAATACA
**
37143525 ATATAAAAAGAATATATAAATATATGAATGTAGAGGCAT
1 ATATAAAAAGAATATATAAATATATGAATGTAGAGAAAT
* * *
37143564 ATATAAAAAGCATATATAAATATATGTATGTCATAGAAACT
1 ATATAAAAAGAATATATAAATATATGAATGT-AGAGAAA-T
37143605 ATAT
1 ATAT
37143609 TCATTTATGT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
39 29 0.76
40 4 0.11
41 5 0.13
ACGTcount: A:0.52, C:0.05, G:0.12, T:0.31
Consensus pattern (39 bp):
ATATAAAAAGAATATATAAATATATGAATGTAGAGAAAT
Found at i:37146970 original size:22 final size:22
Alignment explanation
Indices: 37146929--37146991 Score: 101
Period size: 22 Copynumber: 2.8 Consensus size: 22
37146919 ATTAAATGAG
37146929 TCAATAAAAACAAGAG-ATGTTAT
1 TCAATAAAAA-AA-AGTATGTTAT
37146952 TCAATAAAAAAAAGTATGTTAT
1 TCAATAAAAAAAAGTATGTTAT
37146974 TCAATAAAAAAAAGTATG
1 TCAATAAAAAAAAGTATG
37146992 CTAAGTAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
21 2 0.05
22 27 0.69
23 10 0.26
ACGTcount: A:0.56, C:0.06, G:0.11, T:0.27
Consensus pattern (22 bp):
TCAATAAAAAAAAGTATGTTAT
Found at i:37148129 original size:41 final size:41
Alignment explanation
Indices: 37148068--37148263 Score: 243
Period size: 41 Copynumber: 4.8 Consensus size: 41
37148058 GGTGCTTTCT
* * *
37148068 TTAGCGGCGATTTTGAAAAAGCGCCGCTAAAGACCCGAGTA
1 TTAGCGGCGCTTTTGTAAAAGCGCCGCTAAAGACCCGAGCA
** *
37148109 TTAGCGGCGCTTTTGTAAAAGCGTTGCTAAAGACCCAAGCA
1 TTAGCGGCGCTTTTGTAAAAGCGCCGCTAAAGACCCGAGCA
* * * * *
37148150 TTAGCGGCTCTTTTTTAGAAGCGCCGCTGAAGACCAGAGCA
1 TTAGCGGCGCTTTTGTAAAAGCGCCGCTAAAGACCCGAGCA
*
37148191 TTAGCGGCG-TTTTGAGAAAAGCGCCGCTAAAGACCCGAGCA
1 TTAGCGGCGCTTTTG-TAAAAGCGCCGCTAAAGACCCGAGCA
*
37148232 TTAGCGGCGCTTTT-TCAAAAACGCCGCTAAAG
1 TTAGCGGCGCTTTTGT-AAAAGCGCCGCTAAAG
37148264 CCTCGAAAGG
Statistics
Matches: 130, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
40 4 0.03
41 122 0.94
42 4 0.03
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (41 bp):
TTAGCGGCGCTTTTGTAAAAGCGCCGCTAAAGACCCGAGCA
Found at i:37150375 original size:40 final size:40
Alignment explanation
Indices: 37150278--37150498 Score: 211
Period size: 40 Copynumber: 5.5 Consensus size: 40
37150268 TTGAATGCTG
* * *
37150278 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AT
** *
37150319 T-CGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
37150358 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
37150398 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAT
**
37150438 TCCGGGTTAAGTCCCGAAGGCA-TTGTATGAGTTACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
37150476 AACCGGGCTATGTCCCGAAGGCA
1 -TCCGGGTTAAGTCCCGAAGGCA
37150499 CTTGAACGAG
Statistics
Matches: 151, Mismatches: 22, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 32 0.21
40 109 0.72
41 9 0.06
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:37158305 original size:40 final size:40
Alignment explanation
Indices: 37158208--37158391 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
37158198 TTGAATGCTG
* * * *
37158208 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
37158247 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGGGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * * *
37158288 TTCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
37158328 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
37158368 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
37158392 GTATGAGTTA
Statistics
Matches: 121, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 2 0.02
40 109 0.90
41 10 0.08
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:37158348 original size:80 final size:81
Alignment explanation
Indices: 37158208--37158388 Score: 212
Period size: 80 Copynumber: 2.3 Consensus size: 81
37158198 TTGAATGCTG
* *
37158208 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* * *
37158272 TGTGCGGGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
* **
37158288 TTCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
37158349 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
37158368 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
37158389 ATTGTATGAG
Statistics
Matches: 87, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
79 4 0.05
80 74 0.85
81 9 0.10
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:37158412 original size:39 final size:38
Alignment explanation
Indices: 37158209--37158428 Score: 156
Period size: 40 Copynumber: 5.6 Consensus size: 38
37158199 TGAATGCTGT
* * * * *
37158209 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTA-AA
** * * *
37158249 CCGGACTAAGAT-CCGAAGGCATTTGTGCGGGTTATTAATT
1 CCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * * *
37158289 TCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAATT
1 CCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAA-A
*
37158329 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 CCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACT-AAA
**
37158368 TCCGGGTTAAGTCCCGAAGGCATTGTATGAGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTA-AA
* *
37158408 CCGGGCTATGTCCCGAAGGCA
1 CCGGGTTAAGTCCCGAAGGCA
37158429 CTTGAACGAG
Statistics
Matches: 147, Mismatches: 23, Indels: 21
0.77 0.12 0.11
Matches are distributed among these distances:
39 33 0.22
40 106 0.72
41 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (38 bp):
CCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:37164312 original size:12 final size:12
Alignment explanation
Indices: 37164295--37164320 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37164285 TCAATAAAAA
37164295 AATAAAAAAATC
1 AATAAAAAAATC
37164307 AATAAAAAAATC
1 AATAAAAAAATC
37164319 AA
1 AA
37164321 AATGAAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (12 bp):
AATAAAAAAATC
Found at i:37164353 original size:15 final size:15
Alignment explanation
Indices: 37164335--37164378 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 15
37164325 AAAATGATAA
37164335 AAAAAGAGAAAAAGG
1 AAAAAGAGAAAAAGG
*
37164350 AAAAAGA-AAAAA-T
1 AAAAAGAGAAAAAGG
*
37164363 AAAAAAAGAAAAAGG
1 AAAAAGAGAAAAAGG
37164378 A
1 A
37164379 GAGGCCAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
13 6 0.25
14 10 0.42
15 8 0.33
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (15 bp):
AAAAAGAGAAAAAGG
Found at i:37165271 original size:45 final size:44
Alignment explanation
Indices: 37165222--37165306 Score: 125
Period size: 45 Copynumber: 1.9 Consensus size: 44
37165212 GAGAAAGAAT
* * *
37165222 CAAGGTGAAAAGCTGCAAAGGGCGCTTTGATTCCTAAAAAAAGAC
1 CAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCC-AAAAAAAGAC
*
37165267 CAAGGTGAAAACCCGCAAAGGGCGTTTTGAGTCCAAAAAA
1 CAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCCAAAAAA
37165307 TTTAAAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 6 0.17
45 30 0.83
ACGTcount: A:0.40, C:0.19, G:0.25, T:0.16
Consensus pattern (44 bp):
CAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCCAAAAAAAGAC
Found at i:37166808 original size:88 final size:88
Alignment explanation
Indices: 37166573--37167223 Score: 1047
Period size: 88 Copynumber: 7.4 Consensus size: 88
37166563 GAAATATGTA
* * *
37166573 AGCCTGGTCTCCCTGAGCAGCAGTGGAGTAAGTTGAAAAATTACAGATCTTATTTCCCTAAGCAG
1 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAG
*
37166638 TAGTGGAGCAGATCGAATACCCC
66 TAGTGGAGCAGATCGAAGACCCC
*
37166661 AGCCTTGTCTCCCTGA-CAGCAGTGGAGTAGGTTAAAAAATTACAGATCTTATCTCCCTAAGCAG
1 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAG
*
37166725 TAGTGGACCAGATCGAAGACCCC
66 TAGTGGAGCAGATCGAAGACCCC
* *
37166748 AGCCTTATCTCCTTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAG
1 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAG
37166813 TAGTGGAGCAGATCGAAGACCCC
66 TAGTGGAGCAGATCGAAGACCCC
*
37166836 AGCCTTGTCTCCCTGAGCACCAGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAG
1 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAG
* *
37166901 TAGTAGAGTAGATCGAAGACCCC
66 TAGTGGAGCAGATCGAAGACCCC
* * * * *
37166924 AGCCTTTTGTCCCTGAGCAACAGTAGAGTAGGTTG-AAAATTACAGATCTTATCTCCCTAAGCAA
1 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAG
*
37166988 TAGTGGAGCAGATCGAAGACCCT
66 TAGTGGAGCAGATCGAAGACCCC
* *
37167011 AGCCTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTG-AAAATTACAGATCTTATCTCCCTAAGCAA
1 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAG
* * **
37167075 TAGTGGAGCAAATTGAAGACTTC
66 TAGTGGAGCAGATCGAAGACCCC
* *
37167098 AGCCTTGTCTCCCTGAGTAGCAGTGGAGTAGGTTGAAAAATTGCAGATCTTATCTCCCTAAGCAG
1 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAG
37167163 TAGTGGAGCAGATCGAAGACCCC
66 TAGTGGAGCAGATCGAAGACCCC
*
37167186 AGCCTTGTCTCCCTGAACAGCAGTGGAGTAGGTTGAAA
1 AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAA
37167224 GCAGAGTAGA
Statistics
Matches: 518, Mismatches: 43, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
87 238 0.46
88 280 0.54
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (88 bp):
AGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAG
TAGTGGAGCAGATCGAAGACCCC
Found at i:37166965 original size:175 final size:176
Alignment explanation
Indices: 37166580--37167223 Score: 1042
Period size: 175 Copynumber: 3.7 Consensus size: 176
37166570 GTAAGCCTGG
* *
37166580 TCTCCCTGAGCAGCAGTGGAGTAAGTTGAAAAATTACAGATCTTATTTCCCTAAGCAGTAGTGGA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
* *
37166645 GCAGATCGAATACCCCAGCCTTGTCTCCCTGA-CAGCAGTGGAGTAGGTTAAAAAATTACAGATC
66 GCAGATCGAAGACCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATC
*
37166709 TTATCTCCCTAAGCAGTAGTGGACCAGATCGAAGACCCCAGCCTTA
131 TTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGCCTTA
*
37166755 TCTCCTTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
*
37166820 GCAGATCGAAGACCCCAGCCTTGTCTCCCTGAGCACCAGTGGAGTAGGTTGAAAAATTACAGATC
66 GCAGATCGAAGACCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATC
* * *
37166885 TTATCTCCCTAAGCAGTAGTAGAGTAGATCGAAGACCCCAGCCTTT
131 TTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGCCTTA
* * * *
37166931 TGTCCCTGAGCAACAGTAGAGTAGGTTG-AAAATTACAGATCTTATCTCCCTAAGCAATAGTGGA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
* *
37166995 GCAGATCGAAGACCCTAGCCTTGTCTCCCTGAGCAGTAGTGGAGTAGGTTG-AAAATTACAGATC
66 GCAGATCGAAGACCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATC
* * * ** *
37167059 TTATCTCCCTAAGCAATAGTGGAGCAAATTGAAGACTTCAGCCTTG
131 TTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGCCTTA
* *
37167105 TCTCCCTGAGTAGCAGTGGAGTAGGTTGAAAAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGA
1 TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
*
37167170 GCAGATCGAAGACCCCAGCCTTGTCTCCCTGAACAGCAGTGGAGTAGGTTGAAA
66 GCAGATCGAAGACCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAA
37167224 GCAGAGTAGA
Statistics
Matches: 431, Mismatches: 35, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
174 75 0.17
175 258 0.60
176 98 0.23
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (176 bp):
TCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGA
GCAGATCGAAGACCCCAGCCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAAATTACAGATC
TTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACCCCAGCCTTA
Found at i:37167336 original size:89 final size:88
Alignment explanation
Indices: 37167223--37167561 Score: 399
Period size: 89 Copynumber: 3.8 Consensus size: 88
37167213 GTAGGTTGAA
* * * * ** *
37167223 AGCAGAGTAGACTGAAGATAGCAGATCTTGCCTTTCTGTACCAACAGCGAAGCAAATCGAAGACA
1 AGCAGAGCAGACTAAAGACAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACA
* *
37167288 CTAGCCTTGCCTCCCTAGGTTTCC
66 CCAGCCTTGCCTCCCT-GGTTTAC
* * * *
37167312 AACAGAGCAGACTAAAGACAGCAGATCTTGTCTTCCTGTACTGACAGCAAAGCAGATCAAAGACA
1 AGCAGAGCAGACTAAAGACAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACA
* *
37167377 CCAGCCTTGCCTCCTTGGGTTGAC
66 CCAGCCTTGCCTCCCT-GGTTTAC
* * * *
37167401 AGCGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATA
1 AGCAGAGCAGACTAAAGACAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACA
* *
37167466 CCAGCCTTGCCTCCCTGGGTTGC
66 CCAGCCTTGCCTCCCTGGTTTAC
* * * * * * *
37167489 AGCGGAGCAGACTAAAAACACCAGATATTGCCTTCCTGTATTGGCAGCGAAGCAGATCGAATACA
1 AGCAGAGCAGACTAAAGACAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACA
*
37167554 CCAACCTT
66 CCAGCCTT
37167562 ATTTCCTTGA
Statistics
Matches: 212, Mismatches: 38, Indels: 1
0.84 0.15 0.00
Matches are distributed among these distances:
88 67 0.32
89 145 0.68
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.21
Consensus pattern (88 bp):
AGCAGAGCAGACTAAAGACAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGACA
CCAGCCTTGCCTCCCTGGTTTAC
Found at i:37167411 original size:44 final size:43
Alignment explanation
Indices: 37167282--37167544 Score: 129
Period size: 45 Copynumber: 5.9 Consensus size: 43
37167272 AAGCAAATCG
* * ** *
37167282 AAGACACTAGCCTTGCCTCCCTAGGTTTCCAAC-AGAGCAGACTA
1 AAGACACCAGCCTTGCCT-CCTGGGTTGACAGCGA-AGCAGACTA
* * * *** *
37167326 AAGACAGCAGATCTTGTCTTCCTGTACTGACAGCAAAGCAGA-TCA
1 AAGACACCAG-CCTTG-CCTCCTGGGTTGACAGCGAAGCAGACT-A
* *
37167371 AAGACACCAGCCTTGCCTCCTTGGGTTGACAGCGGAGCAGACTG
1 AAGACACCAGCCTTGCCTCC-TGGGTTGACAGCGAAGCAGACTA
* * * *** *
37167415 AAGATAGCAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGA-TCG
1 AAGACACCAG-CCTTGCC-TCCTGGGTTGACAGCGAAGCAGACT-A
* *
37167460 AAGATACCAGCCTTGCCTCCCTGGGTTG-CAGCGGAGCAGACTA
1 AAGACACCAGCCTTGCCT-CCTGGGTTGACAGCGAAGCAGACTA
* ** ** *
37167503 AAAACACCAGATATTGCCTTCCTGTATTGGCAGCGAAGCAGA
1 AAGACACCAG-CCTTGCC-TCCTGGGTTGACAGCGAAGCAGA
37167545 TCGAATACAC
Statistics
Matches: 164, Mismatches: 41, Indels: 27
0.71 0.18 0.12
Matches are distributed among these distances:
43 24 0.15
44 62 0.38
45 72 0.44
46 6 0.04
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.21
Consensus pattern (43 bp):
AAGACACCAGCCTTGCCTCCTGGGTTGACAGCGAAGCAGACTA
Found at i:37167555 original size:45 final size:45
Alignment explanation
Indices: 37167333--37167556 Score: 147
Period size: 45 Copynumber: 5.0 Consensus size: 45
37167323 CTAAAGACAG
* * * *
37167333 CAGATCTTGTCTTCCTGTACTGACAGCAAAGCAGATC-AAAGACAC
1 CAGATCTTGCCTTCCTGTATTGGCAGCGAAGCAGATCGAAA-ACAC
* ** * * * * *
37167378 CAG-CCTTGCC-TCCTTGGGTTGACAGCGGAGCAGA-CTGAAGATAG
1 CAGATCTTGCCTTCC-TGTATTGGCAGCGAAGCAGATC-GAAAACAC
* * * *
37167422 CAGATCTTGCCTTCCTGTACTGACAGCGAAGCAGATCGAAGATAC
1 CAGATCTTGCCTTCCTGTATTGGCAGCGAAGCAGATCGAAAACAC
* * ** * *
37167467 CAG-CCTTGCCTCCCTGGGTT-GCAGCGGAGCAGA-CTAAAAACAC
1 CAGATCTTGCCTTCCTGTATTGGCAGCGAAGCAGATC-GAAAACAC
* *
37167510 CAGATATTGCCTTCCTGTATTGGCAGCGAAGCAGATCGAATACAC
1 CAGATCTTGCCTTCCTGTATTGGCAGCGAAGCAGATCGAAAACAC
37167555 CA
1 CA
37167557 ACCTTATTTC
Statistics
Matches: 135, Mismatches: 34, Indels: 20
0.71 0.18 0.11
Matches are distributed among these distances:
42 1 0.01
43 23 0.17
44 49 0.36
45 57 0.42
46 5 0.04
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.21
Consensus pattern (45 bp):
CAGATCTTGCCTTCCTGTATTGGCAGCGAAGCAGATCGAAAACAC
Found at i:37168058 original size:129 final size:129
Alignment explanation
Indices: 37167826--37168854 Score: 1425
Period size: 129 Copynumber: 8.0 Consensus size: 129
37167816 CAACAACGAA
* * * * *
37167826 TCTTATCTCCCTGAGGTTACAGTGGAACAGATTA-AAGAAATC-AATCCTATTTCCCTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAGAAGAAA-CAAATCCTATCTCCCTGAAGTTG
* * * *
37167889 CAGTGGAGCAGATTAAAACCACAGATCTTATCTCTATGAAGTTGCAGTAGAGTAGATCACATCCA
64 CAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCA
37167954 G
129 G
* * * *
37167955 TCTTATCTCACAGAAGTTGCAGTGGAGTAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACAAATCCTATCTCCCTGAAGTTGCA
* * * *
37168020 GTGGAGCGGGTTAAAACCACAGATCTTATCTCTCTGAAGTTGTAATAGAGCAGATCGCATACAG
66 GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAG
* * * * * * *
37168084 TCTTATATTCCTAAAGTTGTAGTGGAGTAGAAAGAAGAAACAAATCCTATCTCCCTGAAGTTACA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACAAATCCTATCTCCCTGAAGTTGCA
* * * **
37168149 GTGGAGCAGATTAAAACCATAGATCTTATCTCTCTGAAGTTGTAGTAGAGTGGATCGCATCCTA-
66 GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCC-AG
* * * *
37168213 TCTTATCTCCCTGAAGTTGCAATGGAGCAGACAGAAGAAACCAATCCTATCTCCCTAAAGTTACA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACAAATCCTATCTCCCTGAAGTTGCA
* * * *
37168278 GTGGAGCGAATTAAAACCACAAATCTTATCTTTCTAAAGTTGCAGTAGAGCAGATCGCATCCAG
66 GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAG
* ** *
37168342 TCTTATCTCCCTGAAGTTGCGGTAAAGCATACAGAAGAAACAAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACAAATCCTATCTCCCTGAAGTTGCA
* * * * *
37168407 GTGGAACGGATTAAAACCATAGATCTTATCGCTCTGAAGTTGCAGTAGAGTAGATAGCATCCAG
66 GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAG
* **
37168471 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCCTATCTCCCTGAAGTTATA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACAAATCCTATCTCCCTGAAGTTGCA
* *
37168536 GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATCACATCCAG
66 GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAG
* *
37168600 TATTATCTCCTTGAAGTTGCAGTGGAGCAGACAGAAGAAACAAATCCTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACAAATCCTATCTCCCTGAAGTTGCA
* * * * *
37168665 GTGGAGCGAATTAAAACCATAGATCTTATCTCTCTAAAGTTGCAGTATAGCAAATCGCATCCAG
66 GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAG
* * *
37168729 TCTTATCTCCCTGAAGTTGTAGTGGAGCAGACAGAAGAAACAAATCTTATCTCCTTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACAAATCCTATCTCCCTGAAGTTGCA
* * * *
37168794 GTGCAGCGGATTAAAACCACAAATCTCATATCTCTGAAGTTGCAGTAGAGCAGATCGCATC
66 GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATC
37168855 AGAATTATCT
Statistics
Matches: 789, Mismatches: 107, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
128 3 0.00
129 785 0.99
130 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (129 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACAAATCCTATCTCCCTGAAGTTGCA
GTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAG
Found at i:37168480 original size:85 final size:83
Alignment explanation
Indices: 37167877--37168756 Score: 341
Period size: 85 Copynumber: 10.3 Consensus size: 83
37167867 CAATCCTATT
* * *
37167877 TCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTATCTCTATGAAGTTGCAGTAGAGT
1 TCCCTGAAGTTGCAGTGGAGCGGATTAAAA-C-CAGATCTTATCTCTCTGAAGTTGCAGTAGAGC
*
37167942 AGATCA-CATCCAGTCTTATC
64 AGAT-AGAATCCAGTCTTATC
* * * * ** * * *
37167962 TCACAGAAGTTGCAGTGGAGTAGACAGAAGAAACCA-ATCCTATCTCCCTGAAGTTGCAGTGGAG
1 TCCCTGAAGTTGCAGTGGAG-CG-GATTA-AAACCAGATCTTATCTCTCTGAAGTTGCAGTAGAG
* * * *
37168026 CGGGTTAAAACCACAGATCTTATC
63 C-AGATAGAATC-CAG-TCTTATC
* * * * * ** * * * *
37168050 TCTCTGAAGTTGTAATAGAGCAGATCGCATA-CAG-TCTTATAT-TCCTAAAGTTGTAGTGGAGT
1 TCCCTGAAGTTGCAGTGGAGCGGAT-TAAAACCAGATCTTATCTCT-CTGAAGTTGCAGT--AG-
* * * * *
37168112 AGAAAGA-AGAAACAAATCCTATC
61 AG-CAGATAGAATCCAGTCTTATC
* * * *
37168135 TCCCTGAAGTTACAGTGGAGCAGATTAAAACCATAGATCTTATCTCTCTGAAGTTGTAGTAGAGT
1 TCCCTGAAGTTGCAGTGGAGCGGATTAAAACC--AGATCTTATCTCTCTGAAGTTGCAGTAGAGC
* * *
37168200 GGATCGCATCCTA-TCTTATC
64 AGATAGAATCC-AGTCTTATC
* * ** * * * * *
37168220 TCCCTGAAGTTGCAATGGAGCAGACAGAAGAAACCA-ATCCTATCTCCCTAAAGTTACAGTGGAG
1 TCCCTGAAGTTGCAGTGGAGC-G-GATTA-AAACCAGATCTTATCTCTCTGAAGTTGCAGTAGAG
* * *
37168284 C-GAATTAAAACCACAAATCTTATC
63 CAG-A-TAGAATC-C-AGTCTTATC
** * * * *** * * *
37168308 TTTCTAAAGTTGCAGTAGAGCAGATCGCATCCAG-TCTTATCTCCCTGAAGTTGCGGTAAAGCAT
1 TCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAGATCTTATCTCTCTGAAGTTGCAGT--AG-A-
* * * * *
37168372 ACAGA-AGAAACAAATCCTATC
62 GCAGATAGAATCCAGTCTTATC
* * *
37168393 TCCCTGAAGTTGCAGTGGAACGGATTAAAACCATAGATCTTATCGCTCTGAAGTTGCAGTAGAGT
1 TCCCTGAAGTTGCAGTGGAGCGGATTAAAACC--AGATCTTATCTCTCTGAAGTTGCAGTAGAGC
*
37168458 AGATAGCATCCAGTCTTATC
64 AGATAGAATCCAGTCTTATC
* ** * * ** *
37168478 TCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCA-ATCCTATCTCCCTGAAGTTATAGTGGAG
1 TCCCTGAAGTTGCAGTGGAGC-G-GATTA-AAACCAGATCTTATCTCTCTGAAGTTGCAGTAGAG
* * *
37168542 CGGATTAAAACCACAGATCTTATC
63 CAGA-TAGAATC-CAG-TCTTATC
* * * * * * * *
37168566 TCTCTGAAGTTGTAGTAGAGCAGATCACATCCAG-TATTATCTC-CTTGAAGTTGCAGTGGAGCA
1 TCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAGATCTTATCTCTC-TGAAGTTGCAGT--AG-A
* * * *
37168629 GACAGA-AGAAACAAATCCTATC
62 G-CAGATAGAATCCAGTCTTATC
* * *
37168651 TCCCTGAAGTTGCAGTGGAGCGAATTAAAACCATAGATCTTATCTCTCTAAAGTTGCAGTATAGC
1 TCCCTGAAGTTGCAGTGGAGCGGATTAAAACC--AGATCTTATCTCTCTGAAGTTGCAGTAGAGC
* * *
37168716 AAATCGCATCCAGTCTTATC
64 AGATAGAATCCAGTCTTATC
*
37168736 TCCCTGAAGTTGTAGTGGAGC
1 TCCCTGAAGTTGCAGTGGAGC
37168757 AGACAGAAGA
Statistics
Matches: 567, Mismatches: 173, Indels: 110
0.67 0.20 0.13
Matches are distributed among these distances:
84 12 0.02
85 334 0.59
86 30 0.05
87 36 0.06
88 147 0.26
89 7 0.01
90 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (83 bp):
TCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAG
ATAGAATCCAGTCTTATC
Found at i:37169237 original size:24 final size:26
Alignment explanation
Indices: 37169191--37169242 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 26
37169181 CCAGCCGAAT
37169191 AAACACCAAAAGAAAAATAAAAAATA
1 AAACACCAAAAGAAAAATAAAAAATA
* *
37169217 AAACA-CAAAA-ATAAATAAAAATTA
1 AAACACCAAAAGAAAAATAAAAAATA
37169241 AA
1 AA
37169243 TAACAGTCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 14 0.58
25 5 0.21
26 5 0.21
ACGTcount: A:0.77, C:0.10, G:0.02, T:0.12
Consensus pattern (26 bp):
AAACACCAAAAGAAAAATAAAAAATA
Found at i:37177535 original size:23 final size:25
Alignment explanation
Indices: 37177504--37177555 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 25
37177494 AATATATTAA
37177504 TAATATAAATA-AAATATTA-C-TTT
1 TAATATAAATATAAA-ATTATCATTT
*
37177527 TAATGTAAATATAAAATTATCATTT
1 TAATATAAATATAAAATTATCATTT
37177552 TAAT
1 TAAT
37177556 CTATCAATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 14 0.56
24 4 0.16
25 7 0.28
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (25 bp):
TAATATAAATATAAAATTATCATTT
Found at i:37178786 original size:3 final size:3
Alignment explanation
Indices: 37178778--37178805 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
37178768 AGAATTTCTA
37178778 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
37178806 GTCTGCAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:37180428 original size:13 final size:13
Alignment explanation
Indices: 37180410--37180434 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37180400 TCTTAGCTTT
37180410 TATATACTTATTA
1 TATATACTTATTA
37180423 TATATACTTATT
1 TATATACTTATT
37180435 CATTTTATTT
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:0.08, G:0.00, T:0.56
Consensus pattern (13 bp):
TATATACTTATTA
Found at i:37181184 original size:41 final size:41
Alignment explanation
Indices: 37181101--37181241 Score: 152
Period size: 39 Copynumber: 3.5 Consensus size: 41
37181091 ACCAAAAATT
*
37181101 TATTTTAAAAATTAAAACAAAAATTAAAAAAGTATTTTAAAAA
1 TATTTTAAAAACT-AAA-AAAAATTAAAAAAGTATTTTAAAAA
37181144 TATTTT-AAAA-TAAAAAAAATTAAAAAAGTATTTTTAAAAA
1 TATTTTAAAAACTAAAAAAAATTAAAAAAGTA-TTTTAAAAA
** *
37181184 -A-TTT-AAAACTTTAAAAAATTAAAAAAAAGTATTTT-AAAG
1 TATTTTAAAAACTAAAAAAAATT--AAAAAAGTATTTTAAAAA
37181223 TATTTTAAAAA-TAAAAAAA
1 TATTTTAAAAACTAAAAAAA
37181242 TAAAAATATT
Statistics
Matches: 86, Mismatches: 5, Indels: 16
0.80 0.05 0.15
Matches are distributed among these distances:
38 7 0.08
39 29 0.34
40 17 0.20
41 19 0.22
42 8 0.09
43 6 0.07
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.33
Consensus pattern (41 bp):
TATTTTAAAAACTAAAAAAAATTAAAAAAGTATTTTAAAAA
Found at i:37181208 original size:17 final size:17
Alignment explanation
Indices: 37181176--37181208 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
37181166 AAAAAGTATT
*
37181176 TTTAAAAAATTTAAAAC
1 TTTAAAAAATTAAAAAC
37181193 TTTAAAAAATTAAAAA
1 TTTAAAAAATTAAAAA
37181209 AAAGTATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
TTTAAAAAATTAAAAAC
Found at i:37181246 original size:39 final size:37
Alignment explanation
Indices: 37181101--37181247 Score: 125
Period size: 41 Copynumber: 3.7 Consensus size: 37
37181091 ACCAAAAATT
37181101 TATTTTAAAAATTAAAACAAAAATTAAAAAAGTATTTTAAAAA
1 TATTTTAAAAA-TAAAA-AAAAA--AAAAAAGTATTTT--AAA
*
37181144 TATTTT-AAAATAAAAAAAATTAAAAAAGTATTTTTAAA
1 TATTTTAAAAATAAAAAAAA-AAAAAAAGTA-TTTTAAA
* * * *
37181182 AAATTTAAAACTTTAAAAAATTAAAAAAAAGTATTTTAAA
1 TATTTTAAAA--ATAAAAAA-AAAAAAAAAGTATTTTAAA
*
37181222 GTATTTTAAAAATAAAAAAATAAAAA
1 -TATTTTAAAAATAAAAAAAAAAAAA
37181248 TATTTATTAT
Statistics
Matches: 86, Mismatches: 11, Indels: 19
0.74 0.09 0.16
Matches are distributed among these distances:
38 12 0.14
39 19 0.22
40 15 0.17
41 29 0.34
42 5 0.06
43 6 0.07
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (37 bp):
TATTTTAAAAATAAAAAAAAAAAAAAAGTATTTTAAA
Found at i:37182648 original size:8 final size:8
Alignment explanation
Indices: 37182635--37182734 Score: 56
Period size: 8 Copynumber: 11.2 Consensus size: 8
37182625 TATAAAAATT
37182635 ATTTTAAA
1 ATTTTAAA
37182643 ATTTTAAA
1 ATTTTAAA
*
37182651 ACTTTAAAA
1 A-TTTTAAA
37182660 ATTATTAAA
1 ATT-TTAAA
* *
37182669 AGTATAAAA
1 A-TTTTAAA
*
37182678 ATTATAATA
1 ATTTTAA-A
37182687 TATATTTATACA
1 -AT-TTTA-A-A
37182699 ATTTTTAATA
1 A-TTTTAA-A
* *
37182709 TTTTTAAT
1 ATTTTAAA
37182717 ATTTTAAA
1 ATTTTAAA
37182725 ATTTTAAA
1 ATTTTAAA
37182733 AT
1 AT
37182735 AATTTTTATA
Statistics
Matches: 70, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
8 30 0.43
9 24 0.34
10 5 0.07
11 8 0.11
12 3 0.04
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.48
Consensus pattern (8 bp):
ATTTTAAA
Found at i:37182650 original size:20 final size:19
Alignment explanation
Indices: 37182590--37182651 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
37182580 GCAATTAATT
37182590 AATTTTTTAAAAATTTTAAA
1 AATTTTTT-AAAATTTTAAA
***
37182610 AATTTAGAAGAAATTTATAAA
1 AATTTTTTA-AAATTT-TAAA
37182631 AATTATTTTAAAATTTTAAA
1 AATT-TTTTAAAATTTTAAA
37182651 A
1 A
37182652 CTTTAAAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
19 1 0.03
20 16 0.48
21 14 0.42
22 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
AATTTTTTAAAATTTTAAA
Found at i:37182767 original size:9 final size:9
Alignment explanation
Indices: 37182636--37182774 Score: 52
Period size: 9 Copynumber: 14.9 Consensus size: 9
37182626 ATAAAAATTA
37182636 TTTTAAAA-
1 TTTTAAAAT
*
37182644 TTTTAAAAC
1 TTTTAAAAT
*
37182653 TTTAAAAAT
1 TTTTAAAAT
*
37182662 TATTAAAA-
1 TTTTAAAAT
* * *
37182670 GTATAAAAA
1 TTTTAAAAT
*
37182679 TTATAATATAT
1 TTTTAA-A-AT
*
37182690 ATTTATACAAT
1 -TTT-TAAAAT
*
37182701 TTTTAATAT
1 TTTTAAAAT
*
37182710 TTTTAATA-
1 TTTTAAAAT
37182718 TTTTAAAAT
1 TTTTAAAAT
*
37182727 TTTAAAATAAT
1 TTT-TAA-AAT
*
37182738 TTTTATAATT
1 TTTTA-AAAT
*
37182748 TTCTTCTAAAT
1 TT-TT-AAAAT
37182759 TTTTAAAA-
1 TTTTAAAAT
37182767 TTTTAAAA
1 TTTTAAAA
37182775 AAATAATTAA
Statistics
Matches: 99, Mismatches: 20, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
8 28 0.28
9 36 0.36
10 13 0.13
11 17 0.17
12 3 0.03
13 2 0.02
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:37182775 original size:9 final size:9
Alignment explanation
Indices: 37182594--37182733 Score: 70
Period size: 9 Copynumber: 14.9 Consensus size: 9
37182584 TTAATTAATT
37182594 TTTTAAAAA
1 TTTTAAAAA
37182603 TTTTAAAAA
1 TTTTAAAAA
*
37182612 TTTAGAAGAAA
1 TTT-TAA-AAA
37182623 TTTATAAAAA
1 TTT-TAAAAA
*
37182633 TTATTTTAAAA
1 -T-TTTAAAAA
37182644 TTTT-AAAA
1 TTTTAAAAA
*
37182652 CTTTAAAAA
1 TTTTAAAAA
37182661 TTATT-AAAA
1 TT-TTAAAAA
* *
37182670 GTATAAAAA
1 TTTTAAAAA
* *
37182679 TTATAATATA
1 TTTTAA-AAA
*
37182689 TATTTATACAA
1 T-TTTA-AAAA
* *
37182700 TTTTTAATA
1 TTTTAAAAA
* *
37182709 TTTTTAATA
1 TTTTAAAAA
37182718 TTTT-AAAA
1 TTTTAAAAA
37182726 TTTTAAAA
1 TTTTAAAA
37182734 TAATTTTTAT
Statistics
Matches: 104, Mismatches: 16, Indels: 22
0.73 0.11 0.15
Matches are distributed among these distances:
8 15 0.14
9 52 0.50
10 14 0.13
11 20 0.19
12 3 0.03
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.46
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:37182778 original size:20 final size:20
Alignment explanation
Indices: 37182718--37182778 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
37182708 ATTTTTAATA
*
37182718 TTTTAAAATTTTAAAATAAT
1 TTTTAAAATTTTAAAAAAAT
* ****
37182738 TTTTATAATTTTCTTCTAAAT
1 TTTTAAAATTTT-AAAAAAAT
37182759 TTTTAAAATTTTAAAAAAAT
1 TTTTAAAATTTTAAAAAAAT
37182779 AATTAATTGC
Statistics
Matches: 29, Mismatches: 11, Indels: 2
0.69 0.26 0.05
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.52
Consensus pattern (20 bp):
TTTTAAAATTTTAAAAAAAT
Found at i:37185049 original size:18 final size:17
Alignment explanation
Indices: 37185026--37185068 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
37185016 AAACGTATAA
37185026 AAATATATAAAAAATTTT
1 AAATATATAAAAAA-TTT
* *
37185044 AAATATACAATAAATTT
1 AAATATATAAAAAATTT
37185061 -AATATATA
1 AAATATATA
37185069 GATAGTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 7 0.32
17 3 0.14
18 12 0.55
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (17 bp):
AAATATATAAAAAATTT
Found at i:37185238 original size:20 final size:20
Alignment explanation
Indices: 37185176--37185238 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
37185166 TATCCAACTG
37185176 AATGCTTCAACAATAGCAGC
1 AATGCTTCAACAATAGCAGC
*** *
37185196 AATGCCTTTGGC--TCG-AG-
1 AATG-CTTCAACAATAGCAGC
37185213 AATGCTTCAACAATAGCAGC
1 AATGCTTCAACAATAGCAGC
37185233 AATGCT
1 AATGCT
37185239 GAGAGTCAGA
Statistics
Matches: 30, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
16 4 0.13
17 4 0.13
18 4 0.13
19 4 0.13
20 10 0.33
21 4 0.13
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (20 bp):
AATGCTTCAACAATAGCAGC
Found at i:37185999 original size:83 final size:84
Alignment explanation
Indices: 37185898--37186061 Score: 224
Period size: 87 Copynumber: 1.9 Consensus size: 84
37185888 AAATTCTGTA
*
37185898 GTATTCAATATGGAGTAATTTTAAAAATTTCC-ATAAAGATACAAATATTTCCATTAAA-GGAGT
1 GTATTCAATATGGAGTAATTTTAAAAATTTCCAATAAAGATACAAACATTTCCATTAAATGG-GT
*
37185961 CTTTAAATTAGTTTTTATAG
65 CTTTAAATAAGTTTTTATAG
* * * *
37185981 GTATTCAATATGGGGTAATTTTGAAAATTTCCATAAATAAAGATACAAACCTTTTCATTAAATGG
1 GTATTCAATATGGAGTAATTTTAAAAATTTCC---AATAAAGATACAAACATTTCCATTAAATGG
37186046 GTCTTTAAATAAGTTT
63 GTCTTTAAATAAGTTT
37186062 GAATAAAATC
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
83 30 0.43
87 38 0.54
88 2 0.03
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (84 bp):
GTATTCAATATGGAGTAATTTTAAAAATTTCCAATAAAGATACAAACATTTCCATTAAATGGGTC
TTTAAATAAGTTTTTATAG
Found at i:37189792 original size:22 final size:22
Alignment explanation
Indices: 37189744--37189792 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
37189734 TCATCAATGG
*
37189744 AAAATTGGAAAAAGAAAATGAT
1 AAAATTGGAAAAAGAAAATAAT
* ** *
37189766 TAAATTGGAAAGTGGAAATAAT
1 AAAATTGGAAAAAGAAAATAAT
37189788 AAAAT
1 AAAAT
37189793 ATGATAAATA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.18, T:0.22
Consensus pattern (22 bp):
AAAATTGGAAAAAGAAAATAAT
Found at i:37190331 original size:5 final size:5
Alignment explanation
Indices: 37190321--37190358 Score: 58
Period size: 5 Copynumber: 7.2 Consensus size: 5
37190311 TCCTAGGATG
37190321 TGAAT TGAAT TGAAT TGAAT ATGAAT TGAAT ATGAAT T
1 TGAAT TGAAT TGAAT TGAAT -TGAAT TGAAT -TGAAT T
37190359 TTATTAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 21 0.68
6 10 0.32
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.39
Consensus pattern (5 bp):
TGAAT
Found at i:37190347 original size:11 final size:11
Alignment explanation
Indices: 37190321--37190358 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
37190311 TCCTAGGATG
37190321 TGAATTGAAT-
1 TGAATTGAATA
37190331 TGAATTGAATA
1 TGAATTGAATA
37190342 TGAATTGAATA
1 TGAATTGAATA
37190353 TGAATT
1 TGAATT
37190359 TTATTAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 10 0.37
11 17 0.63
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.39
Consensus pattern (11 bp):
TGAATTGAATA
Found at i:37190886 original size:26 final size:26
Alignment explanation
Indices: 37190822--37190888 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
37190812 TGAGTGTCCC
*
37190822 ATTATATGGCTCTTCGTGAGCTTACCG
1 ATTA-ATGGCTCTTCGTGAGCTTACCA
* * *
37190849 ATTAAAGACTCTTTGTGAGCTT-CCAA
1 ATTAATGGCTCTTCGTGAGCTTACC-A
37190875 ATTAATGGCTCTTC
1 ATTAATGGCTCTTC
37190889 AGAGTTTCCC
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
25 2 0.06
26 26 0.81
27 4 0.12
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37
Consensus pattern (26 bp):
ATTAATGGCTCTTCGTGAGCTTACCA
Found at i:37192445 original size:16 final size:15
Alignment explanation
Indices: 37192420--37192450 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
37192410 GACAATATGA
37192420 TTTTATATGTTTGAT
1 TTTTATATGTTTGAT
37192435 TTTTGATATGTTTGAT
1 TTTT-ATATGTTTGAT
37192451 GAATGATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.19, C:0.00, G:0.16, T:0.65
Consensus pattern (15 bp):
TTTTATATGTTTGAT
Found at i:37193919 original size:49 final size:50
Alignment explanation
Indices: 37193844--37193966 Score: 122
Period size: 49 Copynumber: 2.5 Consensus size: 50
37193834 TATTGAGGTT
* * * * * *
37193844 ATGAGATGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCACATAAGACCATGTCTAGAACATGGCATGGGCACCGAG
* * *
37193894 ATGAGAGGTCCC-CATAAGACTATGTCTAGAACATGGCATGGGCACTGAT
1 ATGAGAGGTCCCACATAAGACCATGTCTAGAACATGGCATGGGCACCGAG
** **
37193943 ATGAGAACTCCCATGTAAGACCAT
1 ATGAGAGGTCCCACATAAGACCAT
37193967 ATCTGGGATA
Statistics
Matches: 58, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
49 39 0.67
50 19 0.33
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCACATAAGACCATGTCTAGAACATGGCATGGGCACCGAG
Found at i:37194263 original size:20 final size:20
Alignment explanation
Indices: 37194238--37194276 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
37194228 TGAGTTATTT
37194238 AAGTAAG-CAAGTAAGTAAAC
1 AAGTAAGACAA-TAAGTAAAC
37194258 AAGTAAGACAATAAGTAAA
1 AAGTAAGACAATAAGTAAA
37194277 GAAGAAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.59, C:0.08, G:0.18, T:0.15
Consensus pattern (20 bp):
AAGTAAGACAATAAGTAAAC
Found at i:37198493 original size:19 final size:19
Alignment explanation
Indices: 37198457--37198500 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
37198447 ATCATGTTCA
*
37198457 TATTTTTTACATAATTAAAT
1 TATTTTATACATAATT-AAT
*
37198477 TATTTTATA-ATATTTAAT
1 TATTTTATACATAATTAAT
37198495 TATTTT
1 TATTTT
37198501 TCGACAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 9 0.41
19 5 0.23
20 8 0.36
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
TATTTTATACATAATTAAT
Found at i:37200690 original size:79 final size:80
Alignment explanation
Indices: 37200530--37200754 Score: 264
Period size: 79 Copynumber: 2.8 Consensus size: 80
37200520 TTGAATGATG
* * * * * *
37200530 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGGCTAAG-TCCCGAAGGCAT
37200593 TTGTGCGAGATACTAAA
64 TTGTGCGAGATACTAAA
*
37200610 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGCTAAG-CCCGAAGGCA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGA-ATTACTATA-ACCGGGCTAAGTCCCGAAGGCA
*
37200671 TTTGTGCGAGTTACTAAA
63 TTTGTGCGAGATACTAAA
** *
37200689 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
37200754 G
66 G
37200755 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 10, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
78 2 0.02
79 68 0.54
80 46 0.37
81 9 0.07
82 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:37200718 original size:40 final size:40
Alignment explanation
Indices: 37200530--37200754 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
37200520 TTGAATGATG
* * * *
37200530 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
37200570 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
37200610 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
37200650 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
37200689 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
37200730 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
37200755 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
39 35 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:37200746 original size:119 final size:120
Alignment explanation
Indices: 37200530--37200754 Score: 291
Period size: 119 Copynumber: 1.9 Consensus size: 120
37200520 TTGAATGATG
*
37200530 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
37200595 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
66 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
* * * **
37200650 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* *
37200712 TTGTGCGA-ATTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTG
64 TTGTGCGAGA-TACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
37200755 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
118 3 0.03
119 69 0.75
120 20 0.22
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:37200776 original size:79 final size:78
Alignment explanation
Indices: 37200537--37200787 Score: 244
Period size: 79 Copynumber: 3.2 Consensus size: 78
37200527 ATGTCCGGGC
* * * *
37200537 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTTGTGCGAA-TTACTATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCG
* *
37200600 AGATACTAAATCCGGAC
64 AG-GACTAAATCCGG-T
37200617 TAAGAT-CCGAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGC
1 TAAG-TCCCGAAGGCATTTGTGCGA-ATTACTATA-TCCGGGCTAAGTCCCGAAGGCATTTGTGC
*
37200678 GAGTTACTAAATCCGGGT
63 GAG-GACTAAATCC-GGT
* * **
37200696 TAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGCGAATTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
*
37200761 GAGCTATATCCGGT
66 GA-CTAAATCCGGT
* *
37200775 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
37200788 TACGTGATTT
Statistics
Matches: 146, Mismatches: 14, Indels: 23
0.80 0.08 0.13
Matches are distributed among these distances:
78 2 0.01
79 81 0.55
80 53 0.36
81 9 0.06
82 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (78 bp):
TAAGTCCCGAAGGCATTTGTGCGAATTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
GACTAAATCCGGT
Found at i:37219818 original size:63 final size:59
Alignment explanation
Indices: 37219750--37219869 Score: 159
Period size: 63 Copynumber: 2.0 Consensus size: 59
37219740 TATTAATGCG
* *
37219750 GTACAAACTAAGACACCATTAATAGACTTAGAACAACTAAACAATCAGACATGTAATAATGTT
1 GTACAAACTAAGACACAATTAATAAACTT--AACAA--AAACAATCAGACATGTAATAATGTT
* * *
37219813 GTACAAACTAGGACATAATTAATAAACTTAACAAAAATAATCAGACATGTAATAATG
1 GTACAAACTAAGACACAATTAATAAACTTAACAAAAACAATCAGACATGTAATAATG
37219870 CTATATGAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
59 22 0.42
61 5 0.10
63 25 0.48
ACGTcount: A:0.50, C:0.15, G:0.11, T:0.24
Consensus pattern (59 bp):
GTACAAACTAAGACACAATTAATAAACTTAACAAAAACAATCAGACATGTAATAATGTT
Found at i:37228339 original size:45 final size:45
Alignment explanation
Indices: 37228283--37228393 Score: 150
Period size: 45 Copynumber: 2.5 Consensus size: 45
37228273 TACTAGTATG
* * * **
37228283 GTGTAGATAAACCACTCATTGGTACAAATAAAATTTGCTAGTACA
1 GTGTAGATAAACCACTAATCGATACAAATAAAAACTGCTAGTACA
* *
37228328 GTGTAAATAAACCACTAATCGATACAGATAAAAACTGCTAGTACA
1 GTGTAGATAAACCACTAATCGATACAAATAAAAACTGCTAGTACA
*
37228373 GTGTGGATAAACCACTAATCG
1 GTGTAGATAAACCACTAATCG
37228394 GTGTAGATAA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 57 1.00
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.25
Consensus pattern (45 bp):
GTGTAGATAAACCACTAATCGATACAAATAAAAACTGCTAGTACA
Found at i:37228519 original size:34 final size:34
Alignment explanation
Indices: 37228456--37228520 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
37228446 ATGCAATATG
**
37228456 ACATGCTTATAACAGACCAAGACGGTAGCAAGGA
1 ACATGCTTATAACAGACCAAGACAATAGCAAGGA
* * *
37228490 ACATGCTTATAACAGATCAATATAATAGCAA
1 ACATGCTTATAACAGACCAAGACAATAGCAA
37228521 TATATATGCT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.45, C:0.18, G:0.17, T:0.20
Consensus pattern (34 bp):
ACATGCTTATAACAGACCAAGACAATAGCAAGGA
Found at i:37235403 original size:51 final size:51
Alignment explanation
Indices: 37235283--37235470 Score: 218
Period size: 51 Copynumber: 3.7 Consensus size: 51
37235273 TATCATTCGA
* * * *
37235283 TACACGTAGTACCCTTCACATAGTACTACACACGTGA-TCAAACTTTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACTAAAACCTTCCGG
* *
37235333 TTCACGTGGTAGCCTGCACATAGTACTACACACGTGACTAAAACCTTCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACTAAAACCTTCCGG
* * * ** * *
37235384 TACACATAGTAGCCTGCACATAGTACTACACATGTGACCATTATCTAT-CGA
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACTAAAACCT-TCCGG
* *
37235435 TACACGTAGTAGCCTGCACTTAGCACTACACACGTG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTG
37235471 TTTATAAGCA
Statistics
Matches: 117, Mismatches: 19, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
50 33 0.28
51 83 0.71
52 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (51 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGTGACTAAAACCTTCCGG
Found at i:37235468 original size:102 final size:101
Alignment explanation
Indices: 37235283--37235470 Score: 243
Period size: 101 Copynumber: 1.9 Consensus size: 101
37235273 TATCATTCGA
* * * * * * *
37235283 TACACGTAGTACCCTTCACATAGTACTACACACGTGATCAAACTTTCCGGTTCACGTGGTAGCCT
1 TACACATAGTACCCTGCACATAGTACTACACACGTGACCAAACTATCCGATACACGTAGTAGCCT
*
37235348 GCACATAGTACTACACACGTGACTAAAACCTTCCGG
66 GCACATAGCACTACACACGTGACTAAAACCTTCCGG
* * *
37235384 TACACATAGTAGCCTGCACATAGTACTACACATGTGACCATTATCTAT-CGATACACGTAGTAGC
1 TACACATAGTACCCTGCACATAGTACTACACACGTGACCA--AACTATCCGATACACGTAGTAGC
*
37235448 CTGCACTTAGCACTACACACGTG
64 CTGCACATAGCACTACACACGTG
37235471 TTTATAAGCA
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
101 35 0.48
102 34 0.47
103 4 0.05
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (101 bp):
TACACATAGTACCCTGCACATAGTACTACACACGTGACCAAACTATCCGATACACGTAGTAGCCT
GCACATAGCACTACACACGTGACTAAAACCTTCCGG
Found at i:37262619 original size:50 final size:50
Alignment explanation
Indices: 37262544--37262731 Score: 232
Period size: 50 Copynumber: 3.8 Consensus size: 50
37262534 TTTCTTGTAC
* * * * ** * *
37262544 TGCCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * **
37262594 TGCCCATGCCATGTCGCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
37262644 TGCTAACGCCAAGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
37262694 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAC
37262732 ATTTTTACCC
Statistics
Matches: 117, Mismatches: 21, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 117 1.00
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:37271902 original size:13 final size:13
Alignment explanation
Indices: 37271881--37271910 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
37271871 GCATCTTTAT
*
37271881 TTAATGTTTTGCA
1 TTAAAGTTTTGCA
37271894 TTAAAGTTTTGCA
1 TTAAAGTTTTGCA
37271907 TTAA
1 TTAA
37271911 TACATCTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (13 bp):
TTAAAGTTTTGCA
Done.