Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01006743.1 Corchorus capsularis cultivar CVL-1 contig06764, whole genome shotgun sequence
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: 159678
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:2489 original size:20 final size:20
Alignment explanation
Indices: 2464--2502 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2454 CATATAAAAT
*
2464 AATAATAACTAATTTTTAAA
1 AATAATAACTAATTATTAAA
2484 AATAATAACTAATTATTAA
1 AATAATAACTAATTATTAA
2503 TTTTAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
AATAATAACTAATTATTAAA
Found at i:4820 original size:168 final size:166
Alignment explanation
Indices: 4446--4890 Score: 608
Period size: 168 Copynumber: 2.7 Consensus size: 166
4436 TTAGTCATTT
*
4446 GTCAATTGAGAAATGACAAAAAAGTTTAGTTATTTAATCCCCTCAAGAATCAAAAGTTAGGACAT
1 GTCAATTGAGAAATGACCAAAAAG-TTAGTTATTTAATCCCCTCAAGAATCAAAAGTTAGGACAT
* * * * * * * *
4511 TTAAGAAATCTGCCAAGTAGGTAAAGATGAAAAAGATTAGTTCTC-AAGCTCAACATCGATCATT
65 TTAAGTAATCTGCCAAGTAGGAAAAGACGAAAAAAATTAGTTCTCTAAGCTCAAAAGCAAGCATT
* * * * *
4575 GATGGGGATCTTTTATTAATTCCACCACTCTATTCAA
130 GATAGGAATCTTTTAGTAATTCCAACACTCTATTAAA
* *
4612 GTCTATTGAGAAATGACCAAAAAGATTACTTATTTAATCCCCTCAAGAATCAAAAGTTAGGACAT
1 GTCAATTGAGAAATGACCAAAAAG-TTAGTTATTTAATCCCCTCAAGAATCAAAAGTTAGGACAT
* *
4677 TTAAGTAATCTGCCAAGTAGGAAAAGACGAAAAAAAATTAATTCTCTAA-CTCCAAAAGCAAGCC
65 TTAAGTAATCTGCCAAGTAGGAAAAGACG-AAAAAAATTAGTTCTCTAAGCT-CAAAAGCAAGCA
* *
4741 TTGGTAGGAATCTTTTAGTAATTCCAATACTCTATTAAA
128 TTGATAGGAATCTTTTAGTAATTCCAACACTCTATTAAA
*
4780 GTCAATTGAGAAATGACCAAAAAGTCTAGTTATTTAATCCCCTCAAGAATCAAAAGTTGGGACAT
1 GTCAATTGAGAAATGACCAAAAAGT-TAGTTATTTAATCCCCTCAAGAATCAAAAGTTAGGACAT
* *
4845 TTAAGTAATCTACCAAGT-GCAAAAAGACGAAAAAAATTAGTTCTCT
65 TTAAGTAATCTGCCAAGTAG-GAAAAGACGAAAAAAATTAGTTCTCT
4891 CGGTTCTCAT
Statistics
Matches: 247, Mismatches: 27, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
166 87 0.35
167 34 0.14
168 126 0.51
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (166 bp):
GTCAATTGAGAAATGACCAAAAAGTTAGTTATTTAATCCCCTCAAGAATCAAAAGTTAGGACATT
TAAGTAATCTGCCAAGTAGGAAAAGACGAAAAAAATTAGTTCTCTAAGCTCAAAAGCAAGCATTG
ATAGGAATCTTTTAGTAATTCCAACACTCTATTAAA
Found at i:5455 original size:45 final size:45
Alignment explanation
Indices: 5405--5493 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
5395 GATTACTTCT
5405 CCAGCTCATCATTAATCCGGGGTAGGGATATTTTAGTAATTCCAG
1 CCAGCTCATCATTAATCCGGGGTAGGGATATTTTAGTAATTCCAG
* * *
5450 CCAGCTCATCATTAATTCGGGGTATGGATCTTTTAGTAATTCCA
1 CCAGCTCATCATTAATCCGGGGTAGGGATATTTTAGTAATTCCA
5494 CTACTCTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (45 bp):
CCAGCTCATCATTAATCCGGGGTAGGGATATTTTAGTAATTCCAG
Found at i:8562 original size:13 final size:13
Alignment explanation
Indices: 8544--8568 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8534 AAATATAATA
8544 AATATGATTTATG
1 AATATGATTTATG
8557 AATATGATTTAT
1 AATATGATTTAT
8569 AAGGTTATAG
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:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
AATATGATTTATG
Found at i:9381 original size:166 final size:164
Alignment explanation
Indices: 8927--9407 Score: 667
Period size: 165 Copynumber: 2.9 Consensus size: 164
8917 GAATAAACAT
** * * **
8927 GTGGAATTACTAAAAGATCCCCACCCCGGATTAATGAGGAGCGAGAGAACTAATTTTTTTCATCT
1 GTGGAATTACTAAAAGATCCCCACCAAGGATTGATGATGAGTTAGAGAACTAATTTTTTTC-TCT
* * * *
8992 TTTCCCACTTGGCAGATTACTTAAATATCCTAACTTTTGATTCTTAAGGGGATTAAATAACTAGA
65 TTTCCTACTTGACAGATTACTTAAATGTCCTAACTTTTGATTCTTGAGGGGATTAAATAACTA-A
* * *
9057 CTTGTTGGTCATTTCTCAATTGACTTTAATAGAGTA
129 CTTTTTGGTCATTTCTCAATGGACTTGAATAGAGTA
* * * ** * *
9093 GTGGAATTACTAAAAGATCCCTACCAAGGCTTGCTTTTGGAGTTAGAGAACT-TTTTTTTTGTCT
1 GTGGAATTACTAAAAGATCCCCACCAAGGATTGATGAT-GAGTTAGAGAACTAATTTTTTTCTCT
*
9157 TTTCCTACTTGACAGATTACTTAAATGTCCTAACTTTTGATTCTTGAGGGGATTAAATAAGTAAT
65 TTTCCTACTTGACAGATTACTTAAATGTCCTAACTTTTGATTCTTGAGGGGATTAAATAACTAA-
*
9222 CTTTTTGGTCATTTCTTAATGGACTTGAATAGAGTA
129 CTTTTTGGTCATTTCTCAATGGACTTGAATAGAGTA
* *
9258 GTGGAATTAATAAAAGATCCCCATCAAGGATTGATGATGAGTTAGAGAACTAATCTTTTTTCTCT
1 GTGGAATTACTAAAAGATCCCCACCAAGGATTGATGATGAGTTAGAGAACTAAT-TTTTTTCTCT
* *
9323 TTACCTACTTGACAGATTACTTAAATGTCCTAAGTTTTGATTCTTGAGGGGATTAAATAACTAAA
65 TTTCCTACTTGACAGATTACTTAAATGTCCTAACTTTTGATTCTTGAGGGGATTAAATAACT-AA
9388 CTTTTTGGTCATTTCTCAAT
129 CTTTTTGGTCATTTCTCAAT
9408 TGACAAATGA
Statistics
Matches: 275, Mismatches: 35, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
164 14 0.05
165 125 0.45
166 123 0.45
167 13 0.05
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (164 bp):
GTGGAATTACTAAAAGATCCCCACCAAGGATTGATGATGAGTTAGAGAACTAATTTTTTTCTCTT
TTCCTACTTGACAGATTACTTAAATGTCCTAACTTTTGATTCTTGAGGGGATTAAATAACTAACT
TTTTGGTCATTTCTCAATGGACTTGAATAGAGTA
Found at i:9599 original size:18 final size:17
Alignment explanation
Indices: 9573--9606 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
9563 TTTTCCCGTC
9573 GATTATTTTTTGAAAAA
1 GATTATTTTTTGAAAAA
9590 GATTATTTTTTGAAAAA
1 GATTATTTTTTGAAAAA
9607 TCTGTAACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (17 bp):
GATTATTTTTTGAAAAA
Found at i:10028 original size:22 final size:21
Alignment explanation
Indices: 10002--10078 Score: 73
Period size: 22 Copynumber: 3.6 Consensus size: 21
9992 TATTTTTATG
* *
10002 AAATTTTGGTAACTATCCTATC
1 AAATTTTGATAACTA-CCTATA
* * *
10024 AAATTTTGATAACCAACATATG
1 AAATTTTGATAA-CTACCTATA
*
10046 AAATTTTGATAATTACCTATA
1 AAATTTTGATAACTACCTATA
*
10067 AAATTGTGATAA
1 AAATTTTGATAA
10079 ACTCCATAAG
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
21 16 0.36
22 27 0.60
23 2 0.04
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.38
Consensus pattern (21 bp):
AAATTTTGATAACTACCTATA
Found at i:14188 original size:35 final size:34
Alignment explanation
Indices: 14149--14840 Score: 685
Period size: 35 Copynumber: 20.0 Consensus size: 34
14139 TTCTTACTAA
*
14149 ACTTAATTACCCTGAATTAAGTTACTTATTGAACT-
1 ACTTAATTACCCTGAATTAAGTTA-TTACTG-ACTC
* * *
14184 ACTTAATTACCCTGAATTAAGTTACTCATTAACTC
1 ACTTAATTACCCTGAATTAAGTTA-TTACTGACTC
*
14219 ACTTAATTACCCTGAATTAAAGTTGATTACTAACTC
1 ACTTAATTACCCTGAATT-AAGTT-ATTACTGACTC
* *
14255 ACTTAATTACCCTGAATTAAGCTGATTACCGACTC
1 ACTTAATTACCCTGAATTAAG-TTATTACTGACTC
14290 ACTTAATTACCCTGAATTAAAGTTGATTACTGACTC
1 ACTTAATTACCCTGAATT-AAGTT-ATTACTGACTC
* *
14326 ACTTAATTACCCTGAATTAAGCTGATTACCGACTC
1 ACTTAATTACCCTGAATTAAG-TTATTACTGACTC
* * *
14361 ACTTAATTACCCTGAATTAAGTTACTCATTAACTC
1 ACTTAATTACCCTGAATTAAGTTA-TTACTGACTC
*
14396 ACTTAATTACCCTGAATTAAAGTTGATTACTAACTC
1 ACTTAATTACCCTGAATT-AAGTT-ATTACTGACTC
* *
14432 ACTTAATTACCCTGAATTAAGCTGATTACCGACTC
1 ACTTAATTACCCTGAATTAAG-TTATTACTGACTC
14467 ACTTAATTACCCTGAATTAAAGTTGATTACTGACTC
1 ACTTAATTACCCTGAATT-AAGTT-ATTACTGACTC
*
14503 ACTTAATTACCCTGAATTAAGTTGATTACCGACTC
1 ACTTAATTACCCTGAATTAAGTT-ATTACTGACTC
* *
14538 ACTTAATTACCCTGAATTAAGTTACTCATTGAACT-
1 ACTTAATTACCCTGAATTAAGTTA-TTACTG-ACTC
* * * *
14573 ACTTAATTACCCTGAATTAAGCTACTCATTAACTC
1 ACTTAATTACCCTGAATTAAGTTA-TTACTGACTC
*
14608 ACTTAATTACCCTGAATTAAAGTTGATTACTAACTC
1 ACTTAATTACCCTGAATT-AAGTT-ATTACTGACTC
** *
14644 ACTTAATTA-----AGCT--G--ATTACTGACTTT
1 ACTTAATTACCCTGAATTAAGTTATTACTGAC-TC
* * *
14670 GCTTAATTACCCTGAATTAAGTTGATTGCTGACTTT
1 ACTTAATTACCCTGAATTAAGTT-ATTACTGAC-TC
* *
14706 GCTTAATTACCCTGAATTAAGCTACTTACTGACTC
1 ACTTAATTACCCTGAATTAAGTTA-TTACTGACTC
* * *
14741 ACTTAATTACCCTGAATTAAGTTGATTACTTAATT
1 ACTTAATTACCCTGAATTAAGTT-ATTACTGACTC
* *
14776 ACTTAATTACCCTGAATTAAG---TTACTGCCTT
1 ACTTAATTACCCTGAATTAAGTTATTACTGACTC
* *
14807 ACTTAACTT-CCCTGAACTAAGTTACTAACTGACT
1 ACTTAA-TTACCCTGAATTAAGTTA-TTACTGACT
14841 GTCGAAACGT
Statistics
Matches: 567, Mismatches: 54, Indels: 72
0.82 0.08 0.10
Matches are distributed among these distances:
25 8 0.01
26 9 0.02
28 1 0.00
31 28 0.05
32 2 0.00
33 1 0.00
34 9 0.02
35 314 0.55
36 192 0.34
37 3 0.01
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (34 bp):
ACTTAATTACCCTGAATTAAGTTATTACTGACTC
Found at i:14269 original size:71 final size:70
Alignment explanation
Indices: 14149--14798 Score: 688
Period size: 71 Copynumber: 9.3 Consensus size: 70
14139 TTCTTACTAA
* *
14149 ACTTAATTACCCTGAATTAAGTT-ACTTATTGAACT-ACTTAATTACCCTGAATTAAGTT-ACTC
1 ACTTAATTACCCTGAATTAAGTTGA-TTACT-AACTCACTTAATTACCCTGAATTAAGTTGA-TT
14211 ATTAACTC
63 ATTAACTC
* *
14219 ACTTAATTACCCTGAATTAAAGTTGATTACTAACTCACTTAATTACCCTGAATTAAGCTGATTAC
1 ACTTAATTACCCTGAATT-AAGTTGATTACTAACTCACTTAATTACCCTGAATTAAGTTGATTAT
**
14284 CGACTC
65 TAACTC
* * *
14290 ACTTAATTACCCTGAATTAAAGTTGATTACTGACTCACTTAATTACCCTGAATTAAGCTGATTAC
1 ACTTAATTACCCTGAATT-AAGTTGATTACTAACTCACTTAATTACCCTGAATTAAGTTGATTAT
**
14355 CGACTC
65 TAACTC
* *
14361 ACTTAATTACCCTGAATTAAGTT-ACTCATTAACTCACTTAATTACCCTGAATTAAAGTTGATTA
1 ACTTAATTACCCTGAATTAAGTTGA-TTACTAACTCACTTAATTACCCTGAATT-AAGTTGATTA
*
14425 CTAACTC
64 TTAACTC
* ** *
14432 ACTTAATTACCCTGAATTAAGCTGATTACCGACTCACTTAATTACCCTGAATTAAAGTTGATTAC
1 ACTTAATTACCCTGAATTAAGTTGATTACTAACTCACTTAATTACCCTGAATT-AAGTTGATTAT
*
14497 TGACTC
65 TAACTC
** *
14503 ACTTAATTACCCTGAATTAAGTTGATTACCGACTCACTTAATTACCCTGAATTAAGTT-ACTCAT
1 ACTTAATTACCCTGAATTAAGTTGATTACTAACTCACTTAATTACCCTGAATTAAGTTGA-TTAT
14567 TGAACT-
65 T-AACTC
* * *
14573 ACTTAATTACCCTGAATTAAGCT-ACTCATTAACTCACTTAATTACCCTGAATTAAAGTTGATTA
1 ACTTAATTACCCTGAATTAAGTTGA-TTACTAACTCACTTAATTACCCTGAATT-AAGTTGATTA
*
14637 CTAACTC
64 TTAACTC
** * ** **
14644 ACTTAATTAAGCTG-ATT-A-CTG---ACT---TTGCTTAATTACCCTGAATTAAGTTGATTGCT
1 ACTTAATTACCCTGAATTAAGTTGATTACTAACTCACTTAATTACCCTGAATTAAGTTGATTATT
* *
14700 GACTTT
66 AAC-TC
* * *
14706 GCTTAATTACCCTGAATTAAGCT-ACTTACTGACTCACTTAATTACCCTGAATTAAGTTGATTAC
1 ACTTAATTACCCTGAATTAAGTTGA-TTACTAACTCACTTAATTACCCTGAATTAAGTTGATTA-
*
14770 TTAA-TT
64 TTAACTC
14776 ACTTAATTACCCTGAATTAAGTT
1 ACTTAATTACCCTGAATTAAGTT
14799 ACTGCCTTAC
Statistics
Matches: 506, Mismatches: 48, Indels: 52
0.83 0.08 0.09
Matches are distributed among these distances:
61 13 0.03
62 30 0.06
63 3 0.01
64 1 0.00
65 4 0.01
68 5 0.01
69 4 0.01
70 136 0.27
71 304 0.60
72 6 0.01
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (70 bp):
ACTTAATTACCCTGAATTAAGTTGATTACTAACTCACTTAATTACCCTGAATTAAGTTGATTATT
AACTC
Found at i:14445 original size:177 final size:176
Alignment explanation
Indices: 14149--14796 Score: 905
Period size: 177 Copynumber: 3.7 Consensus size: 176
14139 TTCTTACTAA
**
14149 ACTTAATTACCCTGAATTAAGTT-ACTTATTGAACT-ACTTAATTACCCTGAATTAAGTTACTCA
1 ACTTAATTACCCTGAATTAAGTTGA-TTACCG-ACTCACTTAATTACCCTGAATTAAGTTACTCA
14212 TTAACTCACTTAATTACCCTGAATTAAAGTTGATTACTAACTCACTTAATTACCCTGAATTAAGC
64 TTAACTCACTTAATTACCCTGAATT-AAGTTGATTACTAACTCACTTAATTACCCTGAATTAAGC
14277 TGATTACCGACTCACTTAATTACCCTGAATTAAAGTTGATTACTGACTC
128 TGATTACCGACTCACTTAATTACCCTGAATTAAAGTTGATTACTGACTC
*
14326 ACTTAATTACCCTGAATTAAGCTGATTACCGACTCACTTAATTACCCTGAATTAAGTTACTCATT
1 ACTTAATTACCCTGAATTAAGTTGATTACCGACTCACTTAATTACCCTGAATTAAGTTACTCATT
14391 AACTCACTTAATTACCCTGAATTAAAGTTGATTACTAACTCACTTAATTACCCTGAATTAAGCTG
66 AACTCACTTAATTACCCTGAATT-AAGTTGATTACTAACTCACTTAATTACCCTGAATTAAGCTG
14456 ATTACCGACTCACTTAATTACCCTGAATTAAAGTTGATTACTGACTC
130 ATTACCGACTCACTTAATTACCCTGAATTAAAGTTGATTACTGACTC
14503 ACTTAATTACCCTGAATTAAGTTGATTACCGACTCACTTAATTACCCTGAATTAAGTTACTCATT
1 ACTTAATTACCCTGAATTAAGTTGATTACCGACTCACTTAATTACCCTGAATTAAGTTACTCATT
* * * *
14568 GAACT-ACTTAATTACCCTGAATTAAGCT-ACTCATTAACTCACTTAATTACCCTGAATTAAAGT
66 -AACTCACTTAATTACCCTGAATTAAGTTGA-TTACTAACTCACTTAATTACCCTGAATT-AAGC
** * *
14631 TGATTACTAACTCAC-----T----T-AATT-AAGCTGATTACTGACTTT
128 TGATTACCGACTCACTTAATTACCCTGAATTAAAGTTGATTACTGAC-TC
* * * ** * * *
14670 GCTTAATTACCCTGAATTAAGTTGATTGCTGACTTTGCTTAATTACCCTGAATTAAGCTACTTAC
1 ACTTAATTACCCTGAATTAAGTTGATTACCGAC-TCACTTAATTACCCTGAATTAAGTTACTCAT
* *
14735 TGACTCACTTAATTACCCTGAATTAAGTTGATTACTTAA-TTACTTAATTACCCTGAATTAAG
65 TAACTCACTTAATTACCCTGAATTAAGTTGATTAC-TAACTCACTTAATTACCCTGAATTAAG
14797 TTACTGCCTT
Statistics
Matches: 436, Mismatches: 25, Indels: 30
0.89 0.05 0.06
Matches are distributed among these distances:
166 14 0.03
167 41 0.09
168 71 0.16
169 4 0.01
172 1 0.00
175 1 0.00
176 33 0.08
177 266 0.61
178 5 0.01
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (176 bp):
ACTTAATTACCCTGAATTAAGTTGATTACCGACTCACTTAATTACCCTGAATTAAGTTACTCATT
AACTCACTTAATTACCCTGAATTAAGTTGATTACTAACTCACTTAATTACCCTGAATTAAGCTGA
TTACCGACTCACTTAATTACCCTGAATTAAAGTTGATTACTGACTC
Found at i:24695 original size:25 final size:26
Alignment explanation
Indices: 24670--24722 Score: 79
Period size: 29 Copynumber: 1.9 Consensus size: 26
24660 TTGATGAACG
24670 TCAATTGAAAACTAGACCTATTACGTTAA
1 TCAATTGAAAACTAGACCTATTACG---A
24699 TCAATTGAAAACTAGACCTATTAC
1 TCAATTGAAAACTAGACCTATTAC
24723 TAAGAGGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (26 bp):
TCAATTGAAAACTAGACCTATTACGA
Found at i:25039 original size:31 final size:30
Alignment explanation
Indices: 25004--25280 Score: 132
Period size: 31 Copynumber: 9.1 Consensus size: 30
24994 ACTGACTTTG
25004 CTTAATTACCCTGAATTAAGCTACTTACTGA
1 CTTAATTACCCTGAATTAAGCTA-TTACTGA
* * *
25035 CTTAATTA-----AGTT-ACCTATTACTTA
1 CTTAATTACCCTGAATTAAGCTATTACTGA
* * * *
25059 CTTAATTATCCTGAATTAAGTTGTTGACTTA
1 CTTAATTACCCTGAATTAAGCTATT-ACTGA
* *
25090 CTTAATTACCCTGAATTAAGTTATTCATTGA
1 CTTAATTACCCTGAATTAAGCTATT-ACTGA
* * *
25121 CTTATTAATTGCCCTGAATTAA-TTTTCTAACTGA
1 C---TTAATTACCCTGAATTAAGCTAT-T-ACTGA
25155 CTTTGCTTAATTACCCTGAATTAAGCTACTTACTGA
1 -----CTTAATTACCCTGAATTAAGCTA-TTACTGA
* *
25191 CTTAA-T---C-GAGTT-A-CATATTACTTA
1 CTTAATTACCCTGAATTAAGC-TATTACTGA
* * * *
25215 CTTAATTACCCTGAATTAAGTTGCTGACTTA
1 CTTAATTACCCTGAATTAAGCT-ATTACTGA
*
25246 CTTAATTACCCTGAATTAAGTTATTCACTGA
1 CTTAATTACCCTGAATTAAGCTATT-ACTGA
25277 CTTA
1 CTTA
25281 CTTAATTTCC
Statistics
Matches: 190, Mismatches: 28, Indels: 56
0.69 0.10 0.20
Matches are distributed among these distances:
24 26 0.14
25 8 0.04
26 7 0.04
27 1 0.01
28 1 0.01
29 7 0.04
30 8 0.04
31 81 0.43
33 3 0.02
34 22 0.12
36 22 0.12
37 2 0.01
38 1 0.01
39 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (30 bp):
CTTAATTACCCTGAATTAAGCTATTACTGA
Found at i:25077 original size:34 final size:33
Alignment explanation
Indices: 25038--25312 Score: 188
Period size: 31 Copynumber: 8.5 Consensus size: 33
25028 TTACTGACTT
*
25038 AATTAAGTTACCTATTACTTACTTAATTATCCTG
1 AATTAAGTTA-CTATTACTTACTTAATTACCCTG
* *
25072 AATTAAGTT-GT-TGACTTACTTAATTACCCTG
1 AATTAAGTTACTATTACTTACTTAATTACCCTG
* *
25103 AATTAAGTTATTCATTGACTTA-TTAATTGCCCTG
1 AATTAAGTTACT-ATT-ACTTACTTAATTACCCTG
* * * *
25137 AATTAATTTTCTAACTGACTTTGCTTAATTACCCTG
1 AATTAAGTTACT-A-TTAC-TTACTTAATTACCCTG
* *
25173 AATTAAGCTAC--TTACTGACTTAA-T---C-G
1 AATTAAGTTACTATTACTTACTTAATTACCCTG
25199 -----AGTTACATATTACTTACTTAATTACCCTG
1 AATTAAGTTAC-TATTACTTACTTAATTACCCTG
* *
25228 AATTAAGTTGC--TGACTTACTTAATTACCCTG
1 AATTAAGTTACTATTACTTACTTAATTACCCTG
* * *
25259 AATTAAGTTATTCACTGACTTACTTAATTTCCCTG
1 AATTAAGTTACT-A-TTACTTACTTAATTACCCTG
*
25294 AATTAAGTTTCTTATTACT
1 AATTAAGTTAC-TATTACT
25313 GATTCACCTT
Statistics
Matches: 187, Mismatches: 29, Indels: 50
0.70 0.11 0.19
Matches are distributed among these distances:
21 5 0.03
24 11 0.06
25 1 0.01
26 1 0.01
27 1 0.01
28 1 0.01
29 1 0.01
30 1 0.01
31 61 0.33
32 5 0.03
34 42 0.22
35 37 0.20
36 20 0.11
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.43
Consensus pattern (33 bp):
AATTAAGTTACTATTACTTACTTAATTACCCTG
Found at i:25129 original size:65 final size:68
Alignment explanation
Indices: 25038--25179 Score: 159
Period size: 65 Copynumber: 2.1 Consensus size: 68
25028 TTACTGACTT
* *
25038 AATTAAGTTACCTATTACTTACTTAATTATCCTGAATTAA-GTTGT-TGAC-TTACTTAATTACC
1 AATTAAGTTACCTATTACTTACTTAATTACCCTGAATTAATGTTCTATGACTTTACTTAATTACC
25100 CTG
66 CTG
* * * *
25103 AATTAAGTTA-TTCATTGACTTA-TTAATTGCCCTGAATTAATTTTCTAACTGACTTTGCTTAAT
1 AATTAAGTTACCT-ATT-ACTTACTTAATTACCCTGAATTAATGTTCT-A-TGACTTTACTTAAT
25166 TACCCTG
62 TACCCTG
25173 AATTAAG
1 AATTAAG
25180 CTACTTACTG
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
64 1 0.02
65 29 0.45
66 8 0.12
69 4 0.06
70 22 0.34
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (68 bp):
AATTAAGTTACCTATTACTTACTTAATTACCCTGAATTAATGTTCTATGACTTTACTTAATTACC
CTG
Found at i:25278 original size:156 final size:157
Alignment explanation
Indices: 24994--25305 Score: 545
Period size: 156 Copynumber: 2.0 Consensus size: 157
24984 GGGTGACTAC
* *
24994 ACTGACTTTGCTTAATTACCCTGAATTAAGCTACTTACTGACTTAATTAAGTTACCTATTACTTA
1 ACTGACTTTGCTTAATTACCCTGAATTAAGCTACTTACTGACTTAATCAAGTTACATATTACTTA
* * *
25059 CTTAATTATCCTGAATTAAGTTGTTGACTTACTTAATTACCCTGAATTAAGTTATTCATTGACTT
66 CTTAATTACCCTGAATTAAGTTGCTGACTTACTTAATTACCCTGAATTAAGTTATTCACTGACTT
*
25124 A-TTAATTGCCCTGAATTAATTTTCTA
131 ACTTAATTGCCCTGAATTAAGTTTCTA
*
25150 ACTGACTTTGCTTAATTACCCTGAATTAAGCTACTTACTGACTTAATCGAGTTACATATTACTTA
1 ACTGACTTTGCTTAATTACCCTGAATTAAGCTACTTACTGACTTAATCAAGTTACATATTACTTA
25215 CTTAATTACCCTGAATTAAGTTGCTGACTTACTTAATTACCCTGAATTAAGTTATTCACTGACTT
66 CTTAATTACCCTGAATTAAGTTGCTGACTTACTTAATTACCCTGAATTAAGTTATTCACTGACTT
*
25280 ACTTAATTTCCCTGAATTAAGTTTCT
131 ACTTAATTGCCCTGAATTAAGTTTCT
25306 TATTACTGAT
Statistics
Matches: 147, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
156 125 0.85
157 22 0.15
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.42
Consensus pattern (157 bp):
ACTGACTTTGCTTAATTACCCTGAATTAAGCTACTTACTGACTTAATCAAGTTACATATTACTTA
CTTAATTACCCTGAATTAAGTTGCTGACTTACTTAATTACCCTGAATTAAGTTATTCACTGACTT
ACTTAATTGCCCTGAATTAAGTTTCTA
Found at i:37908 original size:11 final size:10
Alignment explanation
Indices: 37890--37923 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
37880 ATTAGTCTTC
37890 AAATCTTCAA
1 AAATCTTCAA
37900 AATATCTTCAA
1 AA-ATCTTCAA
37911 GAAATCTTCAA
1 -AAATCTTCAA
37922 AA
1 AA
37924 CACGAACTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 4 0.18
11 16 0.73
12 2 0.09
ACGTcount: A:0.50, C:0.18, G:0.03, T:0.29
Consensus pattern (10 bp):
AAATCTTCAA
Found at i:38113 original size:20 final size:21
Alignment explanation
Indices: 38076--38116 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
38066 ACAAAATAGG
*
38076 GTAAAAACTCATATAAAAATA
1 GTAAAAACTCATAGAAAAATA
*
38097 GTAAAAAGT-ATAGAAAAATA
1 GTAAAAACTCATAGAAAAATA
38117 ACTATAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.63, C:0.05, G:0.10, T:0.22
Consensus pattern (21 bp):
GTAAAAACTCATAGAAAAATA
Found at i:44775 original size:11 final size:10
Alignment explanation
Indices: 44757--44790 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
44747 ATTAGTCTTC
44757 AAATCTTCAA
1 AAATCTTCAA
44767 AATATCTTCAA
1 AA-ATCTTCAA
44778 GAAATCTTCAA
1 -AAATCTTCAA
44789 AA
1 AA
44791 CACGAACTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 4 0.18
11 16 0.73
12 2 0.09
ACGTcount: A:0.50, C:0.18, G:0.03, T:0.29
Consensus pattern (10 bp):
AAATCTTCAA
Found at i:44980 original size:20 final size:21
Alignment explanation
Indices: 44943--44984 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
44933 ACAAAATAGG
*
44943 GTAAAAACTCATATAAAAATA
1 GTAAAAACTCATAGAAAAATA
*
44964 GTAAAAAGT-ATAGAAAAATA
1 GTAAAAACTCATAGAAAAATA
44984 G
1 G
44985 CTATAAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.62, C:0.05, G:0.12, T:0.21
Consensus pattern (21 bp):
GTAAAAACTCATAGAAAAATA
Found at i:46643 original size:45 final size:44
Alignment explanation
Indices: 46579--46677 Score: 112
Period size: 45 Copynumber: 2.2 Consensus size: 44
46569 ATCGCACAAG
* * *
46579 GCCAA-GCACTTGACCGGCCACACCAGCTACATGAACC-GGCCAT
1 GCCAATGCACATGCCCGGCCACACCAGCCACATG-ACCAGGCCAT
* *
46622 GCCAATCGCACATGCCCGGCCATACCGGCCACATGACCAGGCCAT
1 GCCAAT-GCACATGCCCGGCCACACCAGCCACATGACCAGGCCAT
*
46667 GCCCATGCACA
1 GCCAATGCACA
46678 ACCGGCCATG
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
43 5 0.11
44 8 0.17
45 34 0.72
ACGTcount: A:0.26, C:0.41, G:0.21, T:0.11
Consensus pattern (44 bp):
GCCAATGCACATGCCCGGCCACACCAGCCACATGACCAGGCCAT
Found at i:50532 original size:11 final size:11
Alignment explanation
Indices: 50518--50542 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
50508 GAAGTAAAAG
50518 AAAAAATGGAA
1 AAAAAATGGAA
50529 AAAAAATGGAA
1 AAAAAATGGAA
50540 AAA
1 AAA
50543 TCAGAAGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (11 bp):
AAAAAATGGAA
Found at i:50750 original size:40 final size:40
Alignment explanation
Indices: 50695--50800 Score: 151
Period size: 40 Copynumber: 2.6 Consensus size: 40
50685 TTTACACAAC
* **
50695 TCCAAGAGAAGACTTTTGGAAAATAAATGATTTT-AGCAAA
1 TCCAAGAGAAGACTTTTGGAAAATAAAAG-TTTTAAAAAAA
*
50735 TCCAAAAGAAGACTTTTGGAAAATAAAAGTTTTAAAAAAA
1 TCCAAGAGAAGACTTTTGGAAAATAAAAGTTTTAAAAAAA
*
50775 TCCAAGAGAAGTCTTTTGGAAAATAA
1 TCCAAGAGAAGACTTTTGGAAAATAA
50801 TAAGATTGGT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
39 4 0.07
40 55 0.93
ACGTcount: A:0.48, C:0.09, G:0.16, T:0.26
Consensus pattern (40 bp):
TCCAAGAGAAGACTTTTGGAAAATAAAAGTTTTAAAAAAA
Found at i:53411 original size:14 final size:13
Alignment explanation
Indices: 53394--53438 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 13
53384 GACATTTTTT
53394 AAAATGTGTTTTCAA
1 AAAATG-GTTTTC-A
*
53409 AAAAAGGTTTTCA
1 AAAATGGTTTTCA
53422 AAAATGAGTTTTCA
1 AAAATG-GTTTTCA
53436 AAA
1 AAA
53439 GGTTTGGGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 6 0.22
14 16 0.59
15 5 0.19
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.33
Consensus pattern (13 bp):
AAAATGGTTTTCA
Found at i:54740 original size:20 final size:21
Alignment explanation
Indices: 54697--54742 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
54687 GATTGTTCCT
*
54697 AAAATAAAAATTGTTTTTTGC
1 AAAAGAAAAATTGTTTTTTGC
54718 AAAAGAAAAA-TGTTTTTCT-C
1 AAAAGAAAAATTGTTTTT-TGC
54738 AAAAG
1 AAAAG
54743 GCTTTTAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.35
Consensus pattern (21 bp):
AAAAGAAAAATTGTTTTTTGC
Found at i:59201 original size:30 final size:30
Alignment explanation
Indices: 59167--59262 Score: 113
Period size: 30 Copynumber: 3.1 Consensus size: 30
59157 ATCGCATGCA
*
59167 CCATCGCATGGGGCAACCGGCCTCAACCGG
1 CCATCGCATGGGGCAACCGGCCACAACCGG
* *
59197 CCATCGCATGGAGCATCAACCGGCCACAATCGG
1 CCATCGCATGG-G--GCAACCGGCCACAACCGG
*
59230 CCATCGCATGGGGCATCC-GCGCACAACCGG
1 CCATCGCATGGGGCAACCGGC-CACAACCGG
59260 CCA
1 CCA
59263 ATGGATCCTT
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
29 2 0.04
30 26 0.46
31 1 0.02
32 1 0.02
33 26 0.46
ACGTcount: A:0.23, C:0.40, G:0.27, T:0.10
Consensus pattern (30 bp):
CCATCGCATGGGGCAACCGGCCACAACCGG
Found at i:59231 original size:33 final size:33
Alignment explanation
Indices: 59180--59246 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
59170 TCGCATGGGG
*
59180 CAACCGGCCTCAACCGGCCATCGCATGGAGCAT
1 CAACCGGCCACAACCGGCCATCGCATGGAGCAT
* *
59213 CAACCGGCCACAATCGGCCATCGCATGGGGCAT
1 CAACCGGCCACAACCGGCCATCGCATGGAGCAT
59246 C
1 C
59247 CGCGCACAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.24, C:0.39, G:0.25, T:0.12
Consensus pattern (33 bp):
CAACCGGCCACAACCGGCCATCGCATGGAGCAT
Found at i:62278 original size:64 final size:64
Alignment explanation
Indices: 62209--62335 Score: 166
Period size: 64 Copynumber: 2.0 Consensus size: 64
62199 TTAGAAGATT
* * * * *
62209 TCAAGAAGTACACCAGAAGATGGTTTATC-AAGAGTTTTCAGAGGTTGATCGGAAGATGATCTTG
1 TCAAGAAGTACA-CAGAAGATAGTTTATCAAAAAGGTTTCAGAAGTTGATCGGAAGACGATCTTG
* * *
62273 TCAAGAAGTACACAGAAGATAGTTTCTCAAAAAGGTTTCGGAAGTTGGTCGGAAGACGATCTT
1 TCAAGAAGTACACAGAAGATAGTTTATCAAAAAGGTTTCAGAAGTTGATCGGAAGACGATCTT
62336 ATTAAAATAT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
63 14 0.26
64 40 0.74
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (64 bp):
TCAAGAAGTACACAGAAGATAGTTTATCAAAAAGGTTTCAGAAGTTGATCGGAAGACGATCTTG
Found at i:62819 original size:85 final size:84
Alignment explanation
Indices: 62591--62839 Score: 256
Period size: 85 Copynumber: 2.9 Consensus size: 84
62581 AACCTTTTAA
* * * * *
62591 ATGAACCTGAAGAC-AGATCAAGAAAGATTTTGAATGATGGATCGAAGACAATCCTTTTAAGTAT
1 ATGAATCTGAAGACAAG-TCATGAAAGAATTTGAATGATGGATCGAAGACGATCCTTTTGA-TAT
* *
62655 GAGTCTGAAGACAGCTCATGG
64 GAGTCTGAAGATAGCTCACGG
* * * * *
62676 ATGAAAT-TGAACACAAATCAATG-AAG-ATTTCGGAGGATGGATCGAAGACGATCATTTTGATA
1 ATG-AATCTGAAGACAAGTC-ATGAAAGAATTT-GAATGATGGATCGAAGACGATCCTTTTGATA
62738 TTGAGTCTGAAGATAGCTCAC-G
63 -TGAGTCTGAAGATAGCTCACGG
*
62760 AGTGAATCTGAAGACAAGTCATGAAAGAATTTGAATGATGGATCGAAGACGATCCTTTTGGAGAG
1 A-TGAATCTGAAGACAAGTCATGAAAGAATTTGAATGATGGATCGAAGACGATCCTTTT-GATA-
*
62825 TGAATCTGAAGATAG
63 TGAGTCTGAAGATAG
62840 TTCTTGAAAG
Statistics
Matches: 134, Mismatches: 20, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
84 13 0.10
85 95 0.71
86 26 0.19
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.25
Consensus pattern (84 bp):
ATGAATCTGAAGACAAGTCATGAAAGAATTTGAATGATGGATCGAAGACGATCCTTTTGATATGA
GTCTGAAGATAGCTCACGG
Found at i:62966 original size:34 final size:36
Alignment explanation
Indices: 62885--62968 Score: 93
Period size: 36 Copynumber: 2.4 Consensus size: 36
62875 GCTCACGAAG
* * * *
62885 ATGGATCTAAAGACAGTTCCTGAAAGATATTTGAGA
1 ATGGATATGAAGACAGTTCCTGAAAGAGATTTAAGA
*
62921 ATGGATCTGAAGACAGTTCCT-AAA-AGATTTAAGA
1 ATGGATATGAAGACAGTTCCTGAAAGAGATTTAAGA
62955 AT-GAGTATGAAGAC
1 ATGGA-TATGAAGAC
62969 TGCTTATGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
33 2 0.05
34 18 0.42
35 3 0.07
36 20 0.47
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (36 bp):
ATGGATATGAAGACAGTTCCTGAAAGAGATTTAAGA
Found at i:63027 original size:36 final size:36
Alignment explanation
Indices: 62980--63054 Score: 123
Period size: 36 Copynumber: 2.1 Consensus size: 36
62970 GCTTATGAAG
*
62980 ATGGATCTGAAGATAGTTCCTGAAAGATATTTGAGA
1 ATGGATCTGAAGATAGTTCCTGAAAGATATTTAAGA
* *
63016 ATGGATCTGAAGACAGTTCCTGAAAGGTATTTAAGA
1 ATGGATCTGAAGATAGTTCCTGAAAGATATTTAAGA
63052 ATG
1 ATG
63055 AGTATGAAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.29
Consensus pattern (36 bp):
ATGGATCTGAAGATAGTTCCTGAAAGATATTTAAGA
Found at i:63063 original size:36 final size:36
Alignment explanation
Indices: 62980--63065 Score: 111
Period size: 36 Copynumber: 2.4 Consensus size: 36
62970 GCTTATGAAG
* * *
62980 ATGGATCTGAAGATAGTTCCTGAAAGATATTTGAGA
1 ATGGATATGAAGACAGTTCCTGAAAGATATTTAAGA
* *
63016 ATGGATCTGAAGACAGTTCCTGAAAGGTATTTAAGA
1 ATGGATATGAAGACAGTTCCTGAAAGATATTTAAGA
63052 AT-GAGTATGAAGAC
1 ATGGA-TATGAAGAC
63066 TGCTCACGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
35 2 0.04
36 43 0.96
ACGTcount: A:0.37, C:0.09, G:0.26, T:0.28
Consensus pattern (36 bp):
ATGGATATGAAGACAGTTCCTGAAAGATATTTAAGA
Found at i:63089 original size:97 final size:97
Alignment explanation
Indices: 62828--63421 Score: 835
Period size: 97 Copynumber: 6.2 Consensus size: 97
62818 TGGAGAGTGA
* * * *
62828 ATCTGAAGATAGTTCTTGAAAGGTATTCAAAAATGAGTATGAAGACTGCTCACGAAGATGGATCT
1 ATCTGAAGACAGTTCCTGAAAGGTATTTAAGAATGAGTATGAAGACTGCTCACGAAGATGGATCT
* *
62893 AAAGACAGTTCCTGAAAGATATTTGAGAATGG
66 GAAGATAGTTCCTGAAAGATATTTGAGAATGG
* * *
62925 ATCTGAAGACAGTTCCT-AAAAG-ATTTAAGAATGAGTATGAAGACTGCTTATGAAGATGGATCT
1 ATCTGAAGACAGTTCCTGAAAGGTATTTAAGAATGAGTATGAAGACTGCTCACGAAGATGGATCT
62988 GAAGATAGTTCCTGAAAGATATTTGAGAATGG
66 GAAGATAGTTCCTGAAAGATATTTGAGAATGG
63020 ATCTGAAGACAGTTCCTGAAAGGTATTTAAGAATGAGTATGAAGACTGCTCACGAAGATGGATCT
1 ATCTGAAGACAGTTCCTGAAAGGTATTTAAGAATGAGTATGAAGACTGCTCACGAAGATGGATCT
63085 GAAGATAGTTCCTGAAAGATATTTGAGAATGG
66 GAAGATAGTTCCTGAAAGATATTTGAGAATGG
** * *
63117 ATCTGAAGACAGTTGTTGAAAGGTATTTAAGAATGACTATGAAGACTGCTCACGAAGATGGATTT
1 ATCTGAAGACAGTTCCTGAAAGGTATTTAAGAATGAGTATGAAGACTGCTCACGAAGATGGATCT
*
63182 GAAG-TCAGTTCCTGAAAGATATTTGTGAATGG
66 GAAGAT-AGTTCCTGAAAGATATTTGAGAATGG
* * * *
63214 ATCTGAAGACATTTCCT-AAAGGGTATTTAAGAGTGAGTATGAAAACTGCTCACGAATATGGATC
1 ATCTGAAGACAGTTCCTGAAA-GGTATTTAAGAATGAGTATGAAGACTGCTCACGAAGATGGATC
63278 TGAAGATAGTTCCTGAAAGATATTTGAGAATGG
65 TGAAGATAGTTCCTGAAAGATATTTGAGAATGG
* * * * *
63311 ATCTAAAGATAGTTCCTAAAAGGTATTTAAGAATGAGTATGAAGACAGCTCAC-AA-ATGGGTTC
1 ATCTGAAGACAGTTCCTGAAAGGTATTTAAGAATGAGTATGAAGACTGCTCACGAAGAT-GGATC
* * * * *
63374 TGAAGACAGATCCT-AAAAAGTATTT-AGGAGTGA
65 TGAAGATAGTTCCTGAAAGA-TATTTGA-GAATGG
63407 ATCTGAAGACAGTTC
1 ATCTGAAGACAGTTC
63422 ACGAAGATGG
Statistics
Matches: 448, Mismatches: 40, Indels: 19
0.88 0.08 0.04
Matches are distributed among these distances:
95 91 0.20
96 52 0.12
97 301 0.67
98 4 0.01
ACGTcount: A:0.37, C:0.11, G:0.24, T:0.28
Consensus pattern (97 bp):
ATCTGAAGACAGTTCCTGAAAGGTATTTAAGAATGAGTATGAAGACTGCTCACGAAGATGGATCT
GAAGATAGTTCCTGAAAGATATTTGAGAATGG
Found at i:63124 original size:36 final size:36
Alignment explanation
Indices: 63077--63151 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
63067 GCTCACGAAG
* *
63077 ATGGATCTGAAGATAGTTCCTGAAAGATATTTGAGA
1 ATGGATCTGAAGACAGTTCCTGAAAGATATTTAAGA
** *
63113 ATGGATCTGAAGACAGTTGTTGAAAGGTATTTAAGA
1 ATGGATCTGAAGACAGTTCCTGAAAGATATTTAAGA
63149 ATG
1 ATG
63152 ACTATGAAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.31
Consensus pattern (36 bp):
ATGGATCTGAAGACAGTTCCTGAAAGATATTTAAGA
Found at i:63311 original size:36 final size:36
Alignment explanation
Indices: 63271--63345 Score: 114
Period size: 36 Copynumber: 2.1 Consensus size: 36
63261 GCTCACGAAT
* * *
63271 ATGGATCTGAAGATAGTTCCTGAAAGATATTTGAGA
1 ATGGATCTAAAGATAGTTCCTAAAAGATATTTAAGA
*
63307 ATGGATCTAAAGATAGTTCCTAAAAGGTATTTAAGA
1 ATGGATCTAAAGATAGTTCCTAAAAGATATTTAAGA
63343 ATG
1 ATG
63346 AGTATGAAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.31
Consensus pattern (36 bp):
ATGGATCTAAAGATAGTTCCTAAAAGATATTTAAGA
Found at i:63459 original size:62 final size:61
Alignment explanation
Indices: 63316--63513 Score: 240
Period size: 62 Copynumber: 3.3 Consensus size: 61
63306 AATGGATCTA
* *
63316 AAGATAGTTCCTAAAAGGTATTTAAGAATGAGTATGAAGACAGCTCACAA-ATGGGTTCTG
1 AAGACAGTTCCTAAAAGGTATTTAGGAATGAGTATGAAGACAGCTCACAAGATGGGTTCTG
* * * * * *
63376 AAGACAGATCCTAAAAAGTATTTAGGAGTGAATCTGAAGACAGTTCACGAAGATGGGTTCTG
1 AAGACAGTTCCTAAAAGGTATTTAGGAATGAGTATGAAGACAGCTCAC-AAGATGGGTTCTG
* * * * *
63438 AAGACAGTTCCTCAATGGTATTTAGGAATGAGTATGAAGACGGCTCA-TAGAT-GGATCTG
1 AAGACAGTTCCTAAAAGGTATTTAGGAATGAGTATGAAGACAGCTCACAAGATGGGTTCTG
*
63497 AAGACAGTTCCTGAAAG
1 AAGACAGTTCCTAAAAG
63514 ATTTATCATG
Statistics
Matches: 115, Mismatches: 21, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
59 21 0.18
60 44 0.38
61 2 0.02
62 48 0.42
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.25
Consensus pattern (61 bp):
AAGACAGTTCCTAAAAGGTATTTAGGAATGAGTATGAAGACAGCTCACAAGATGGGTTCTG
Found at i:63657 original size:56 final size:56
Alignment explanation
Indices: 63589--63696 Score: 155
Period size: 56 Copynumber: 1.9 Consensus size: 56
63579 AGTTTTCAAC
** *
63589 AGTTACTCAAGTTGATCAAAGACGGTCATCTTTCTTAG-TTTCCAGCAGTTTTTAGT
1 AGTTACTCAAGTTGATCAAAGACAATCATCTTTCTTAGATTT-CAGCAATTTTTAGT
* *
63645 AGTTACTCAAGTTGATCGAAGACAATCATTTTTCTTAGATTTCAGCAATTTT
1 AGTTACTCAAGTTGATCAAAGACAATCATCTTTCTTAGATTTCAGCAATTTT
63697 CAGTGCAGAC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
56 43 0.93
57 3 0.07
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.40
Consensus pattern (56 bp):
AGTTACTCAAGTTGATCAAAGACAATCATCTTTCTTAGATTTCAGCAATTTTTAGT
Found at i:63979 original size:26 final size:27
Alignment explanation
Indices: 63925--63988 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 27
63915 GGTCACATAT
**
63925 GGGCATTTTGGTCATTTTTACACTAA-
1 GGGCATTTTGGTCATTTGCACACTAAG
* *
63951 GGGCATTTTGGTCATTTGCACATTCAG
1 GGGCATTTTGGTCATTTGCACACTAAG
63978 GGGCATTTTGG
1 GGGCATTTTGG
63989 CCTTTTACTA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
26 22 0.67
27 11 0.33
ACGTcount: A:0.19, C:0.16, G:0.27, T:0.39
Consensus pattern (27 bp):
GGGCATTTTGGTCATTTGCACACTAAG
Found at i:65728 original size:19 final size:19
Alignment explanation
Indices: 65704--65740 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
65694 TTTTACCCTG
65704 AATTTGAGCATTTTAGCTT
1 AATTTGAGCATTTTAGCTT
65723 AATTTGAGCATTTTAGCT
1 AATTTGAGCATTTTAGCT
65741 ACTTTTCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (19 bp):
AATTTGAGCATTTTAGCTT
Found at i:69760 original size:40 final size:41
Alignment explanation
Indices: 69685--69791 Score: 146
Period size: 40 Copynumber: 2.6 Consensus size: 41
69675 TTTACACAAC
* **
69685 TCCAAGAGAAGACTTTTTGGAAAAT-AAATTATTTTAGCAAA
1 TCCAAGAGAAGAC-TTTTGGAAAATAAAAGTATTTTAAAAAA
* *
69726 TCCAAAAGAAGACTTTTGAAAAATAAAAGT-TTTTAAAAAA
1 TCCAAGAGAAGACTTTTGGAAAATAAAAGTATTTTAAAAAA
69766 TCCAAGAGAAGACTTTTGGAAAATAA
1 TCCAAGAGAAGACTTTTGGAAAATAA
69792 TAAGATTGGT
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
40 42 0.72
41 16 0.28
ACGTcount: A:0.49, C:0.09, G:0.14, T:0.28
Consensus pattern (41 bp):
TCCAAGAGAAGACTTTTGGAAAATAAAAGTATTTTAAAAAA
Found at i:71797 original size:39 final size:40
Alignment explanation
Indices: 71748--71860 Score: 138
Period size: 39 Copynumber: 2.8 Consensus size: 40
71738 TTTACACAAC
* **
71748 TCCAAGAGAAGACTTTTGGAAAATAAATGATTT-AGCAAA
1 TCCAAGAGAAGACTTTTGGAAAATAAAAGATTTAAAAAAA
* * *
71787 TCCAAAAGAAGACTTTTGAAAAATAAAAGTTTTAAAAAAAA
1 TCCAAGAGAAGACTTTTGGAAAATAAAAGATTT-AAAAAAA
*
71828 TCCAAGACAAGACTTTTGGAAAATAATAAGATT
1 TCCAAGAGAAGACTTTTGGAAAATAA-AAGATT
71861 GGTCAAGTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
39 29 0.48
41 27 0.44
42 5 0.08
ACGTcount: A:0.50, C:0.10, G:0.14, T:0.26
Consensus pattern (40 bp):
TCCAAGAGAAGACTTTTGGAAAATAAAAGATTTAAAAAAA
Found at i:73804 original size:21 final size:22
Alignment explanation
Indices: 73780--73826 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
73770 TAACTAAGTC
*
73780 TGATTTGAAT-TTGAAAAC-CTT
1 TGATTTAAATCTTGAAAACTC-T
73801 TGA-TTAAATCTTGAAAACTCT
1 TGATTTAAATCTTGAAAACTCT
73822 TGATT
1 TGATT
73827 ACAAATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
20 5 0.23
21 15 0.68
22 2 0.09
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.43
Consensus pattern (22 bp):
TGATTTAAATCTTGAAAACTCT
Found at i:73943 original size:15 final size:15
Alignment explanation
Indices: 73910--73942 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
73900 TTATTACATC
*
73910 TTTTAATTTTCTGAT
1 TTTTAATTTTCTAAT
73925 TTTTAATTTT-TAAT
1 TTTTAATTTTCTAAT
73939 TTTT
1 TTTT
73943 TCTTTTCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.73
Consensus pattern (15 bp):
TTTTAATTTTCTAAT
Found at i:75085 original size:6 final size:6
Alignment explanation
Indices: 75070--75098 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
75060 AAAACAAAGC
75070 AAAT-T AAATCT AAATCT AAATCT AAATCT
1 AAATCT AAATCT AAATCT AAATCT AAATCT
75099 GAAGCAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 19 0.83
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (6 bp):
AAATCT
Found at i:80476 original size:15 final size:15
Alignment explanation
Indices: 80456--80486 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
80446 CTTGTGTAGA
80456 TTGAAAATTAGGTCT
1 TTGAAAATTAGGTCT
*
80471 TTGAAAATTCGGTCT
1 TTGAAAATTAGGTCT
80486 T
1 T
80487 CCTTGAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (15 bp):
TTGAAAATTAGGTCT
Found at i:81867 original size:58 final size:59
Alignment explanation
Indices: 81783--81897 Score: 214
Period size: 58 Copynumber: 2.0 Consensus size: 59
81773 AAAAATAATT
*
81783 TTTTTTTTTGAGAAAATCGGAAAAACGGAAAAAACTTATTTTTTTTTAGAAAAAACAAA
1 TTTTTTTTAGAGAAAATCGGAAAAACGGAAAAAACTTATTTTTTTTTAGAAAAAACAAA
81842 TTTTTTTTAGA-AAAATCGGAAAAACGGAAAAAACTTATTTTTTTTTAGAAAAAACA
1 TTTTTTTTAGAGAAAATCGGAAAAACGGAAAAAACTTATTTTTTTTTAGAAAAAACA
81898 GAAAAGCAAA
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
58 45 0.82
59 10 0.18
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.36
Consensus pattern (59 bp):
TTTTTTTTAGAGAAAATCGGAAAAACGGAAAAAACTTATTTTTTTTTAGAAAAAACAAA
Found at i:82206 original size:6 final size:6
Alignment explanation
Indices: 82191--82219 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
82181 AAAACAAAGC
82191 AAAT-T AAATCT AAATCT AAATCT AAATCT
1 AAATCT AAATCT AAATCT AAATCT AAATCT
82220 GAAGCAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.17
6 19 0.83
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (6 bp):
AAATCT
Found at i:86639 original size:12 final size:11
Alignment explanation
Indices: 86622--86732 Score: 60
Period size: 12 Copynumber: 10.1 Consensus size: 11
86612 TTTGCACATT
86622 TTTCTTTTTTCC
1 TTTCTTTTTT-C
86634 TTTC--TTTTC
1 TTTCTTTTTTC
86643 -TTCTTTTTTC
1 TTTCTTTTTTC
*
86653 TCTTCTTTTTTT
1 T-TTCTTTTTTC
86665 TTTCCTCTTTTT-
1 TTT-CT-TTTTTC
86677 TTTCTTCTTTT-
1 TTTCTT-TTTTC
*
86688 TTATC-ATTTT-
1 TT-TCTTTTTTC
86698 TTTC-TTTTTC
1 TTTCTTTTTTC
86708 -TTCTTCTTTTC
1 TTTCTT-TTTTC
86719 TTTTTCTTTTTTC
1 --TTTCTTTTTTC
86732 T
1 T
86733 AAGACCTACT
Statistics
Matches: 82, Mismatches: 3, Indels: 29
0.72 0.03 0.25
Matches are distributed among these distances:
8 3 0.04
9 10 0.12
10 17 0.21
11 16 0.20
12 21 0.26
13 10 0.12
14 5 0.06
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTCTTTTTTC
Found at i:86643 original size:17 final size:17
Alignment explanation
Indices: 86621--86728 Score: 59
Period size: 18 Copynumber: 6.2 Consensus size: 17
86611 ATTTGCACAT
86621 TTTTCTTTTTTCCTTTC
1 TTTTCTTTTTTCCTTTC
*
86638 TTTTCTTCTTTTTTCTCTTC
1 TTTTC-T-TTTTTCCT-TTC
86658 TTTT-TTTTTTCC--TC
1 TTTTCTTTTTTCCTTTC
86672 TTTT-TTTTCTT-CTTT-
1 TTTTCTTTT-TTCCTTTC
*
86687 TTTATCATTTTTTTCTTT-
1 TTT-TC-TTTTTTCCTTTC
*
86705 TTCTTCTTCTTTTCTTTTTC
1 TT-TTCTT-TTTTC-CTTTC
86725 TTTT
1 TTTT
86729 TTCTAAGACC
Statistics
Matches: 73, Mismatches: 4, Indels: 26
0.71 0.04 0.25
Matches are distributed among these distances:
14 11 0.15
15 5 0.07
16 2 0.03
17 15 0.21
18 18 0.25
19 13 0.18
20 9 0.12
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTCTTTTTTCCTTTC
Found at i:86658 original size:15 final size:14
Alignment explanation
Indices: 86634--86730 Score: 69
Period size: 14 Copynumber: 6.9 Consensus size: 14
86624 TCTTTTTTCC
*
86634 TTTCTTTTCTTCTTT
1 TTTCTCTTCTT-TTT
86649 TTTCTCTTCTTTTT
1 TTTCTCTTCTTTTT
* *
86663 TTTTTCCTC-TTTT
1 TTTCTCTTCTTTTT
86676 TTT-TCTTCTTTTT
1 TTTCTCTTCTTTTT
* *
86689 TATCAT-TTTTTTCTT
1 TTTC-TCTTCTTT-TT
86704 TTTCTTCTTCTTTTCT
1 TTTC-TCTTCTTTT-T
86720 TTT-TCTT-TTTT
1 TTTCTCTTCTTTT
86731 CTAAGACCTA
Statistics
Matches: 67, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
12 4 0.06
13 17 0.25
14 19 0.28
15 18 0.27
16 9 0.13
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTCTCTTCTTTTT
Found at i:86680 original size:38 final size:39
Alignment explanation
Indices: 86620--86732 Score: 133
Period size: 38 Copynumber: 2.9 Consensus size: 39
86610 TATTTGCACA
* *
86620 TTTTTCTTTTTTC-CTTTCTTTTCTTCTTTTTTCTC-TT
1 TTTTTCTTTTTCCTCTTTTTTTTCTTCTTTTTTCTCATT
*
86657 CTTTTT-TTTTTCCTCTTTTTTTTCTTCTTTTTTATCATT
1 -TTTTTCTTTTTCCTCTTTTTTTTCTTCTTTTTTCTCATT
* *
86696 TTTTTCTTTTTCTTCTTCTTTTCTTTTTCTTTTTTCT
1 TTTTTCTTTTTCCTCTT-TTTT-TTCTTCTTTTTTCT
86733 AAGACCTACT
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
37 6 0.09
38 30 0.47
39 12 0.19
40 4 0.06
41 12 0.19
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (39 bp):
TTTTTCTTTTTCCTCTTTTTTTTCTTCTTTTTTCTCATT
Found at i:86707 original size:6 final size:6
Alignment explanation
Indices: 86696--86729 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
86686 TTTTATCATT
*
86696 TTTTTC TTTTTC TTCTTC -TTTTC TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTT
86730 TCTAAGACCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTC
Found at i:86901 original size:48 final size:48
Alignment explanation
Indices: 86783--86941 Score: 257
Period size: 48 Copynumber: 3.3 Consensus size: 48
86773 GAAACCCGTT
* *
86783 GACCAACTTTGGTCACTAAATTGTAAACTCGCGTGGAAGCGAGAAAGGAAA
1 GACCATCTTTGGTCACTAAATTGAAAACTCGCGTGGAAGCGAG--A-GAAA
86834 GACCATCTTTGGTCACTAAATTGAAAACTCGCGTGGAAGCGAGAGAAA
1 GACCATCTTTGGTCACTAAATTGAAAACTCGCGTGGAAGCGAGAGAAA
*
86882 GACCATCTTTTGTCACTAAATTGAAAACTCGCGTGGAAGCGAGA-AAA
1 GACCATCTTTGGTCACTAAATTGAAAACTCGCGTGGAAGCGAGAGAAA
86929 GACCATCTTTGGT
1 GACCATCTTTGGT
86942 GATACGAATC
Statistics
Matches: 104, Mismatches: 4, Indels: 4
0.93 0.04 0.04
Matches are distributed among these distances:
47 15 0.14
48 47 0.45
49 1 0.01
51 41 0.39
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.23
Consensus pattern (48 bp):
GACCATCTTTGGTCACTAAATTGAAAACTCGCGTGGAAGCGAGAGAAA
Found at i:88308 original size:33 final size:33
Alignment explanation
Indices: 88266--88351 Score: 145
Period size: 33 Copynumber: 2.6 Consensus size: 33
88256 TTCTTTTCAC
*
88266 CCAAAACAGAATTATTTTTAATGCTATAATCAA
1 CCAAAACAGAATTATTTTCAATGCTATAATCAA
* *
88299 CCAAAACAGAATTATTTGCAATGCTATGATCAA
1 CCAAAACAGAATTATTTTCAATGCTATAATCAA
88332 CCAAAACAGAATTATTTTCA
1 CCAAAACAGAATTATTTTCA
88352 TCACAATTAG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.30
Consensus pattern (33 bp):
CCAAAACAGAATTATTTTCAATGCTATAATCAA
Found at i:88404 original size:33 final size:32
Alignment explanation
Indices: 88367--88471 Score: 120
Period size: 33 Copynumber: 3.2 Consensus size: 32
88357 ATTAGCATCC
*
88367 AAAACAGATTTAGTATCATCACAAACAACACTT
1 AAAACAGATTTAGTATCATCGCAAACAACA-TT
* * *
88400 AAAACAGATTTAGTGTCATTGCAAACAACAGTC
1 AAAACAGATTTAGTATCATCGCAAACAACA-TT
** *
88433 AAATTAGGTTTAGTATCATCGCAAACAACATCT
1 AAAACAGATTTAGTATCATCGCAAACAACAT-T
88466 AAAACA
1 AAAACA
88472 CTCTTTTCAA
Statistics
Matches: 58, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
32 1 0.02
33 57 0.98
ACGTcount: A:0.46, C:0.19, G:0.10, T:0.25
Consensus pattern (32 bp):
AAAACAGATTTAGTATCATCGCAAACAACATT
Found at i:91228 original size:47 final size:47
Alignment explanation
Indices: 91153--91339 Score: 284
Period size: 47 Copynumber: 4.0 Consensus size: 47
91143 GCCTTAGGTG
*
91153 CATCATTTGGTTACTAAATTGAAAACTCGCGTGGAAGCGAGAAAAGAC
1 CATC-TTTGGTCACTAAATTGAAAACTCGCGTGGAAGCGAGAAAAGAC
* * *
91201 CATCTTTGGTCACTAAATTGTAGACTCGTGTGGAAGCGAGAAAAGAC
1 CATCTTTGGTCACTAAATTGAAAACTCGCGTGGAAGCGAGAAAAGAC
* *
91248 CATCTTTGGTCACTTAATTGAAAACTCGCGTGGAAGCGAGTAAAGAC
1 CATCTTTGGTCACTAAATTGAAAACTCGCGTGGAAGCGAGAAAAGAC
* * *
91295 CATCTTTGGTCACTAAATTGTAGACTCGCGTGGAAGCAAGAAAAG
1 CATCTTTGGTCACTAAATTGAAAACTCGCGTGGAAGCGAGAAAAG
91340 GTTGCCTGGA
Statistics
Matches: 125, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
47 121 0.97
48 4 0.03
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.25
Consensus pattern (47 bp):
CATCTTTGGTCACTAAATTGAAAACTCGCGTGGAAGCGAGAAAAGAC
Found at i:91319 original size:94 final size:95
Alignment explanation
Indices: 91153--91339 Score: 322
Period size: 94 Copynumber: 2.0 Consensus size: 95
91143 GCCTTAGGTG
*
91153 CATCATTTGGTTACTAAATTGAAAACTCGCGTGGAAGCGAGAAAAGACCATCTTTGGTCACTAAA
1 CATCATTTGGTCACTAAATTGAAAACTCGCGTGGAAGCGAGAAAAGACCATCTTTGGTCACTAAA
* *
91218 TTGTAGACTCGTGTGGAAGCGAGAAAAGAC
66 TTGTAGACTCGCGTGGAAGCAAGAAAAGAC
* *
91248 CATC-TTTGGTCACTTAATTGAAAACTCGCGTGGAAGCGAGTAAAGACCATCTTTGGTCACTAAA
1 CATCATTTGGTCACTAAATTGAAAACTCGCGTGGAAGCGAGAAAAGACCATCTTTGGTCACTAAA
91312 TTGTAGACTCGCGTGGAAGCAAGAAAAG
66 TTGTAGACTCGCGTGGAAGCAAGAAAAG
91340 GTTGCCTGGA
Statistics
Matches: 87, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
94 83 0.95
95 4 0.05
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.25
Consensus pattern (95 bp):
CATCATTTGGTCACTAAATTGAAAACTCGCGTGGAAGCGAGAAAAGACCATCTTTGGTCACTAAA
TTGTAGACTCGCGTGGAAGCAAGAAAAGAC
Found at i:91567 original size:70 final size:70
Alignment explanation
Indices: 91451--91954 Score: 535
Period size: 70 Copynumber: 7.3 Consensus size: 70
91441 CTCATTCAAC
* * *
91451 TTGGCTTATGGAAAAGCCCATGT--CGCTTGGATGGAACC-AATGCTTGAACTGACTCGTATGGA
1 TTGGCTTATGGAAAAGCCCCT-TAATGCTTGGATGGAACCAAAT-CTTGAACTGACTCGTGTGGA
91513 AACGAGT
64 AACGAGT
** *
91520 TTGGCTTATGGAAAAGCCCCTTAATGCTTGGATGGAACCAAATCTTGAACTTTCTCGTATGGAAA
1 TTGGCTTATGGAAAAGCCCCTTAATGCTTGGATGGAACCAAATCTTGAACTGACTCGTGTGGAAA
91585 CGAGT
66 CGAGT
* * * *
91590 TTGGCTTGTGGAAAAACCCCTGAATGCTTGGATGGAACCAAATC-TGAAACT-ATCTCGCGTGGA
1 TTGGCTTATGGAAAAGCCCCTTAATGCTTGGATGGAACCAAATCTTG-AACTGA-CTCGTGTGGA
**
91653 TTCGAGT
64 AACGAGT
* * * * * *
91660 TTGGCTTATGGAAAAGCCTCTCT--TGCCTGGATGGAACCAGAGCTGGATCTGACTCGTGTGGAA
1 TTGGCTTATGGAAAAGCCCCT-TAATGCTTGGATGGAACCAAATCTTGAACTGACTCGTGTGGAA
91723 ACGAGT
65 ACGAGT
* * ** * *
91729 TTGGCTTGTGGAAAAGCCCCTGAATGCTTGGATGGAACCAAATCTAAAAGT-ATCTCGCGTGGAA
1 TTGGCTTATGGAAAAGCCCCTTAATGCTTGGATGGAACCAAATCTTGAACTGA-CTCGTGTGGAA
*
91793 GCGAGT
65 ACGAGT
* * * *
91799 TTGGCTTATGGAAAAGCCTCTCT--TGCTTGGATGGAACCAAAGCTGGATCTGACTCGTGTGGAA
1 TTGGCTTATGGAAAAGCCCCT-TAATGCTTGGATGGAACCAAATCTTGAACTGACTCGTGTGGAA
*
91862 ATGAGT
65 ACGAGT
* * ** *
91868 TTGGCTTGTGGAAAAGCCCCTGAATGCTTGGATGGAACCAAGGC-TAAACTGACTCGTGTGGAAA
1 TTGGCTTATGGAAAAGCCCCTTAATGCTTGGATGGAACCAAATCTTGAACTGACTCGTGTGGAAA
*
91932 TGAGT
66 CGAGT
*
91937 TTGGCTTGTGGAAAAGCC
1 TTGGCTTATGGAAAAGCC
91955 GGAGCATTCG
Statistics
Matches: 366, Mismatches: 54, Indels: 30
0.81 0.12 0.07
Matches are distributed among these distances:
68 1 0.00
69 171 0.47
70 191 0.52
71 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.27
Consensus pattern (70 bp):
TTGGCTTATGGAAAAGCCCCTTAATGCTTGGATGGAACCAAATCTTGAACTGACTCGTGTGGAAA
CGAGT
Found at i:91725 original size:139 final size:138
Alignment explanation
Indices: 91451--91954 Score: 653
Period size: 139 Copynumber: 3.6 Consensus size: 138
91441 CTCATTCAAC
* * * **
91451 TTGGCTTATGGAAAAGCCCATG--TCGCTTGGATGGAACC-AATGCTTGAACTGA-CTCGTATGG
1 TTGGCTTGTGGAAAAGCCCCTGAAT-GCTTGGATGGAACCAAAT-C-TAAACT-ATCTCGCGTGG
* * * * * **
91512 AAACGAGTTTGGCTTATGGAAAAGCCCCT-TAATGCTTGGATGGAACCAAATCTTGAACTTTCTC
62 AATCGAGTTTGGCTTATGGAAAAGCCTCTCT--TGCTTGGATGGAACCAAAGCTGGATCTGACTC
*
91576 GTATGGAAACGAGT
125 GTGTGGAAACGAGT
* *
91590 TTGGCTTGTGGAAAAACCCCTGAATGCTTGGATGGAACCAAATCTGAAACTATCTCGCGTGGATT
1 TTGGCTTGTGGAAAAGCCCCTGAATGCTTGGATGGAACCAAATCT-AAACTATCTCGCGTGGAAT
* *
91655 CGAGTTTGGCTTATGGAAAAGCCTCTCTTGCCTGGATGGAACCAGAGCTGGATCTGACTCGTGTG
65 CGAGTTTGGCTTATGGAAAAGCCTCTCTTGCTTGGATGGAACCAAAGCTGGATCTGACTCGTGTG
91720 GAAACGAGT
130 GAAACGAGT
* *
91729 TTGGCTTGTGGAAAAGCCCCTGAATGCTTGGATGGAACCAAATCTAAAAGTATCTCGCGTGGAAG
1 TTGGCTTGTGGAAAAGCCCCTGAATGCTTGGATGGAACCAAATCT-AAACTATCTCGCGTGGAAT
91794 CGAGTTTGGCTTATGGAAAAGCCTCTCTTGCTTGGATGGAACCAAAGCTGGATCTGACTCGTGTG
65 CGAGTTTGGCTTATGGAAAAGCCTCTCTTGCTTGGATGGAACCAAAGCTGGATCTGACTCGTGTG
*
91859 GAAATGAGT
130 GAAACGAGT
** *
91868 TTGGCTTGTGGAAAAGCCCCTGAATGCTTGGATGGAACCAAGGCTAAACTGA-CTCGTGTGGAAA
1 TTGGCTTGTGGAAAAGCCCCTGAATGCTTGGATGGAACCAAATCTAAACT-ATCTCGCGTGG-AA
*
91932 T-GAGTTTGGCTTGTGGAAAAGCC
64 TCGAGTTTGGCTTATGGAAAAGCC
91955 GGAGCATTCG
Statistics
Matches: 326, Mismatches: 31, Indels: 17
0.87 0.08 0.05
Matches are distributed among these distances:
138 33 0.10
139 236 0.72
140 52 0.16
141 5 0.02
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.27
Consensus pattern (138 bp):
TTGGCTTGTGGAAAAGCCCCTGAATGCTTGGATGGAACCAAATCTAAACTATCTCGCGTGGAATC
GAGTTTGGCTTATGGAAAAGCCTCTCTTGCTTGGATGGAACCAAAGCTGGATCTGACTCGTGTGG
AAACGAGT
Found at i:92124 original size:30 final size:30
Alignment explanation
Indices: 92096--92154 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
92086 GTTCTGAATC
92096 TTTGCT-TTCTTGAATTTGCTTCCTTGAATCCT
1 TTTGCTCTTCTTG-ATTTG--TCCTTGAATCCT
*
92128 TTTGTTCTTCTTGATTTGTCCTTGAAT
1 TTTGCTCTTCTTGATTTGTCCTTGAAT
92155 TTGTTTCCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 9 0.36
32 10 0.40
33 6 0.24
ACGTcount: A:0.12, C:0.19, G:0.14, T:0.56
Consensus pattern (30 bp):
TTTGCTCTTCTTGATTTGTCCTTGAATCCT
Found at i:92496 original size:50 final size:50
Alignment explanation
Indices: 92416--92512 Score: 158
Period size: 50 Copynumber: 1.9 Consensus size: 50
92406 ACTAAAAAGT
* * *
92416 GAATTTTGATCTTGGACTCACAAATGGAATGCAATCTTATTTTGAAAATC
1 GAATCTTGATATTGGACTCACAAATGGAATGCAATCTCATTTTGAAAATC
*
92466 GAATCTTGATATTGGACTCACAAATGGAATGCCATCTCATTTTGAAA
1 GAATCTTGATATTGGACTCACAAATGGAATGCAATCTCATTTTGAAA
92513 CTTCTTGTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34
Consensus pattern (50 bp):
GAATCTTGATATTGGACTCACAAATGGAATGCAATCTCATTTTGAAAATC
Found at i:92827 original size:14 final size:11
Alignment explanation
Indices: 92784--92845 Score: 53
Period size: 11 Copynumber: 5.9 Consensus size: 11
92774 TCATTCTCTT
92784 TTTCCTTTTTC
1 TTTCCTTTTTC
92795 TCTT--TTTTTC
1 T-TTCCTTTTTC
92805 TTTCCTTTTTC
1 TTTCCTTTTTC
* *
92816 TTTCATCATTT-
1 TTTCCT-TTTTC
92827 TTTCCTTTTT-
1 TTTCCTTTTTC
92837 TTT-CTTTTT
1 TTTCCTTTTT
92846 TTACATGCAC
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
9 8 0.19
10 13 0.30
11 17 0.40
12 5 0.12
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTCCTTTTTC
Found at i:94080 original size:44 final size:44
Alignment explanation
Indices: 93976--94102 Score: 218
Period size: 44 Copynumber: 2.9 Consensus size: 44
93966 ACCACTTTGG
*
93976 AAAACCTTTTGAAAACCATGACTCTTTTTGAAAAAGCATTTTATC
1 AAAACCTTTTGAAAACCATGACTCTTTTTG-AAAACCATTTTATC
* *
94021 AAAATCTTTTAAAAACCATGACTCTTTTTGAAAACCATTTTATC
1 AAAACCTTTTGAAAACCATGACTCTTTTTGAAAACCATTTTATC
94065 AAAACCTTTTGAAAACCATGACTCTTTTTGAAAACCAT
1 AAAACCTTTTGAAAACCATGACTCTTTTTGAAAACCAT
94103 CGTTGCTTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
44 49 0.64
45 28 0.36
ACGTcount: A:0.39, C:0.19, G:0.07, T:0.35
Consensus pattern (44 bp):
AAAACCTTTTGAAAACCATGACTCTTTTTGAAAACCATTTTATC
Found at i:94672 original size:74 final size:75
Alignment explanation
Indices: 94565--94715 Score: 189
Period size: 74 Copynumber: 2.0 Consensus size: 75
94555 GGATTTTAAT
* * * **
94565 CACCTTGAAATCATTGCTTTGACTAAAATTGATTTTGAAACAT-CTTTGGTTAAAA-CTCAACAT
1 CACCTCGAAACCATTGCTTTGACTAAAACTGATTTTGAAACATGCTTTAATTAAAACCT-AACAT
*
94628 TCTTTTGCTCA
65 TCCTTTGCTCA
* * * *
94639 CACCTCGAAACCATTGCTTTGATTGAAACTGATTTTGAAACCTGTTTTAATTAAAACCTAACATT
1 CACCTCGAAACCATTGCTTTGACTAAAACTGATTTTGAAACATGCTTTAATTAAAACCTAACATT
94704 CCTTTGCTCA
66 CCTTTGCTCA
94714 CA
1 CA
94716 GTCTAGATAA
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
74 37 0.57
75 26 0.40
76 2 0.03
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (75 bp):
CACCTCGAAACCATTGCTTTGACTAAAACTGATTTTGAAACATGCTTTAATTAAAACCTAACATT
CCTTTGCTCA
Found at i:99719 original size:21 final size:21
Alignment explanation
Indices: 99695--99743 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
99685 TCTAACTAAG
*
99695 TCTGATTTGAAT-TTGAAAACC
1 TCTGATTTAAATCTTGAAAA-C
99716 TCTGA-TTAAATCTTGAAAAC
1 TCTGATTTAAATCTTGAAAAC
99736 TCTTGATT
1 TC-TGATT
99744 ACCAAATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 8 0.33
21 15 0.62
22 1 0.04
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (21 bp):
TCTGATTTAAATCTTGAAAAC
Found at i:101390 original size:6 final size:6
Alignment explanation
Indices: 101319--101389 Score: 55
Period size: 6 Copynumber: 12.3 Consensus size: 6
101309 CTGGCAAAAT
*
101319 GAACCC GAAACTC GAAACCC G--CCC GAACCC GAACCC GAGA--C -AACCC
1 GAACCC G-AACCC G-AACCC GAACCC GAACCC GAACCC GA-ACCC GAACCC
*
101365 GAACCC GAACCC G-ACCC GAGCCC GA
1 GAACCC GAACCC GAACCC GAACCC GA
101390 GATCAAAATA
Statistics
Matches: 54, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
3 1 0.02
4 5 0.09
5 7 0.13
6 29 0.54
7 12 0.22
ACGTcount: A:0.32, C:0.46, G:0.20, T:0.01
Consensus pattern (6 bp):
GAACCC
Found at i:102206 original size:16 final size:16
Alignment explanation
Indices: 102167--102255 Score: 128
Period size: 16 Copynumber: 5.6 Consensus size: 16
102157 CCGATGCGAG
102167 CCCGAACCCG-AAATA
1 CCCGAACCCGAAAATA
* *
102182 CCGGAACCCGAAAAAA
1 CCCGAACCCGAAAATA
102198 CCCGAACCCGAAAA-A
1 CCCGAACCCGAAAATA
*
102213 TCCCAAACCCGAAAATA
1 -CCCGAACCCGAAAATA
102230 CCCGAACCCGAAAATA
1 CCCGAACCCGAAAATA
102246 CCCGAACCCG
1 CCCGAACCCG
102256 CTCGAACCCG
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
15 10 0.15
16 55 0.83
17 1 0.02
ACGTcount: A:0.43, C:0.39, G:0.13, T:0.04
Consensus pattern (16 bp):
CCCGAACCCGAAAATA
Found at i:107333 original size:24 final size:25
Alignment explanation
Indices: 107301--107359 Score: 95
Period size: 25 Copynumber: 2.4 Consensus size: 25
107291 AAATGAAGGA
*
107301 AAATG-AGTTTGAAG-ATTTGTTAG
1 AAATGAAGTTTGAAGAAGTTGTTAG
107324 AAATGAAGTTTGAAGAAGTTGTTAG
1 AAATGAAGTTTGAAGAAGTTGTTAG
107349 AAATGAAGTTT
1 AAATGAAGTTT
107360 ATGGTTTGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
23 5 0.15
24 9 0.27
25 19 0.58
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (25 bp):
AAATGAAGTTTGAAGAAGTTGTTAG
Found at i:107454 original size:22 final size:21
Alignment explanation
Indices: 107430--107470 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
107420 CAAAAGTTTA
*
107430 AAAAGGGGGGCGGTATTTAGC
1 AAAAGGGAGGCGGTATTTAGC
*
107451 AAAAGGGAGGCGGTGTTTAG
1 AAAAGGGAGGCGGTATTTAG
107471 AAATCCATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.07, G:0.44, T:0.20
Consensus pattern (21 bp):
AAAAGGGAGGCGGTATTTAGC
Found at i:118334 original size:20 final size:20
Alignment explanation
Indices: 118297--118335 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
118287 CAGTGACGGT
* *
118297 TAATTTATAACTTTTAATAG
1 TAATTTATAACATATAATAG
118317 TAATTTATAACATATAATA
1 TAATTTATAACATATAATA
118336 AAATCTTGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (20 bp):
TAATTTATAACATATAATAG
Found at i:119039 original size:37 final size:37
Alignment explanation
Indices: 118949--119093 Score: 206
Period size: 37 Copynumber: 3.9 Consensus size: 37
118939 GGATTAAATT
*
118949 CTTTATTGACTCCACTTAATTACCCTGAATTAAG--C
1 CTTTATTGACGCCACTTAATTACCCTGAATTAAGTCC
*
118984 CTGTTATTGACTCCACTTAATTACCCAT-AATTAAGTCC
1 CT-TTATTGACGCCACTTAATTACCC-TGAATTAAGTCC
*
119022 CTTTATTGACGCTACTTAATTACCCTGAATTAAGTCC
1 CTTTATTGACGCCACTTAATTACCCTGAATTAAGTCC
* *
119059 CTTTATTGACGCTACTTAATTACCTTGAATTAAGT
1 CTTTATTGACGCCACTTAATTACCCTGAATTAAGT
119094 TCCTAACTTG
Statistics
Matches: 102, Mismatches: 3, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
35 2 0.02
36 31 0.30
37 66 0.65
38 3 0.03
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.39
Consensus pattern (37 bp):
CTTTATTGACGCCACTTAATTACCCTGAATTAAGTCC
Found at i:119120 original size:32 final size:32
Alignment explanation
Indices: 119035--119143 Score: 105
Period size: 32 Copynumber: 3.2 Consensus size: 32
119025 TATTGACGCT
*
119035 ACTTAATTACCCTGAATTAAGTCCCTTTA-TTGACG
1 ACTTAATTACCCTGAATTAAGT-CCTTAACTT---G
*
119070 CTACTTAATTACCTTGAATTAAGTTCC-TAACTTG
1 --ACTTAATTACCCTGAATTAAG-TCCTTAACTTG
* *
119104 ATTTAATTACCCTGAATTAAGTCCTTGACTTG
1 ACTTAATTACCCTGAATTAAGTCCTTAACTTG
119136 ACTTAATT
1 ACTTAATT
119144 TCCTTCCTTG
Statistics
Matches: 63, Mismatches: 6, Indels: 11
0.79 0.08 0.14
Matches are distributed among these distances:
31 3 0.05
32 32 0.51
34 1 0.02
36 2 0.03
37 24 0.38
38 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.40
Consensus pattern (32 bp):
ACTTAATTACCCTGAATTAAGTCCTTAACTTG
Found at i:119177 original size:37 final size:37
Alignment explanation
Indices: 119118--119305 Score: 203
Period size: 37 Copynumber: 5.2 Consensus size: 37
119108 AATTACCCTG
*
119118 AATTAAGTCCTTGACT-TGACTTAATTTCCTTCCTTGA
1 AATTAAGTCCTTAACTCT-ACTTAATTTCCTTCCTTGA
* * *
119155 AATTAACTCCTTAACTCTACTTAATTCCCTTCCTTGG
1 AATTAAGTCCTTAACTCTACTTAATTTCCTTCCTTGA
* *
119192 AATCAAGT-C----CTCTACTTAATTTTCTTCCTTGA
1 AATTAAGTCCTTAACTCTACTTAATTTCCTTCCTTGA
** * *
119224 AATTAAG-CCTTTTCCTCTACTTAATTCCCCTT-CTTGG
1 AATTAAGTCC-TTAACTCTACTTAATT-TCCTTCCTTGA
119261 AATTAAGTCCTTAACTCTACTTAATTTCCTTCCTTGA
1 AATTAAGTCCTTAACTCTACTTAATTTCCTTCCTTGA
119298 AATTAAGT
1 AATTAAGT
119306 TCTTTGTCTG
Statistics
Matches: 124, Mismatches: 17, Indels: 20
0.77 0.11 0.12
Matches are distributed among these distances:
32 27 0.22
36 5 0.04
37 86 0.69
38 6 0.05
ACGTcount: A:0.25, C:0.25, G:0.07, T:0.43
Consensus pattern (37 bp):
AATTAAGTCCTTAACTCTACTTAATTTCCTTCCTTGA
Found at i:119179 original size:69 final size:71
Alignment explanation
Indices: 119081--119304 Score: 209
Period size: 69 Copynumber: 3.2 Consensus size: 71
119071 TACTTAATTA
* *
119081 CCTTG-AATTAAGTTCC-TAACT-TGATTTAATT-ACCC-T-GAATTAAGTCCTTGACTTGACTT
1 CCTTGAAATTAAGCTCCTTAACTCT-ACTTAATTCACCCTTGGAATTAAGTCCTT-ACTT-ACTT
119140 AATTTCCTT
63 AATTTCCTT
* *
119149 CCTTGAAATTAA-CTCCTTAACTCTACTTAATTCCCTTCCTTGGAATCAAGTCC-T-C-TACTTA
1 CCTTGAAATTAAGCTCCTTAACTCTACTTAATTCAC--CCTTGGAATTAAGTCCTTACTTACTTA
*
119210 ATTTTCTT
64 ATTTCCTT
* ** *
119218 CCTTGAAATTAAGC-CTTTTCCTCTACTTAATTCCCCTTCTTGGAATTAAGTCCTTAACTCTACT
1 CCTTGAAATTAAGCTCCTTAACTCTACTTAATTCACC--CTTGGAATTAAGTCCTT-ACT-TACT
119282 TAATTTCCTT
62 TAATTTCCTT
119292 CCTTGAAATTAAG
1 CCTTGAAATTAAG
119305 TTCTTTGTCT
Statistics
Matches: 130, Mismatches: 10, Indels: 26
0.78 0.06 0.16
Matches are distributed among these distances:
67 1 0.01
68 8 0.06
69 74 0.57
70 5 0.04
71 1 0.01
72 3 0.02
73 2 0.02
74 36 0.28
ACGTcount: A:0.25, C:0.25, G:0.08, T:0.42
Consensus pattern (71 bp):
CCTTGAAATTAAGCTCCTTAACTCTACTTAATTCACCCTTGGAATTAAGTCCTTACTTACTTAAT
TTCCTT
Found at i:119470 original size:41 final size:41
Alignment explanation
Indices: 119407--119658 Score: 377
Period size: 41 Copynumber: 6.1 Consensus size: 41
119397 GATTACCCTG
**
119407 AATTAAGTCTGTGCTTGCCTTTACCTAATTTCCTTCCTTGA
1 AATTAAGTCTGTGCTTATCTTTACCTAATTTCCTTCCTTGA
*
119448 AATTAAGTCTGTGCTTATCTTTACCTAATCTCCTTCCTTGA
1 AATTAAGTCTGTGCTTATCTTTACCTAATTTCCTTCCTTGA
119489 AATTAAGTCTGTGCTTA-CTTTTACCTAATTTCCTTCCTTGA
1 AATTAAGTCTGTGCTTATC-TTTACCTAATTTCCTTCCTTGA
*
119530 AATTGAGTCTGTGCTT-TACTTTACCTAATTTCCTTCCTTGA
1 AATTAAGTCTGTGCTTAT-CTTTACCTAATTTCCTTCCTTGA
119571 AATTAAGTCTGTGCTTA-CTTTTACCTAATTTCCTTCCTTGA
1 AATTAAGTCTGTGCTTATC-TTTACCTAATTTCCTTCCTTGA
* * *
119612 AATTAAGTCTATACTT-TACTTTACCTAATTTCCTGCCTTGA
1 AATTAAGTCTGTGCTTAT-CTTTACCTAATTTCCTTCCTTGA
119653 AATTAA
1 AATTAA
119659 TCCTTTAACT
Statistics
Matches: 195, Mismatches: 9, Indels: 14
0.89 0.04 0.06
Matches are distributed among these distances:
40 2 0.01
41 191 0.98
42 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.10, T:0.45
Consensus pattern (41 bp):
AATTAAGTCTGTGCTTATCTTTACCTAATTTCCTTCCTTGA
Found at i:119676 original size:41 final size:39
Alignment explanation
Indices: 119426--119685 Score: 252
Period size: 41 Copynumber: 6.4 Consensus size: 39
119416 TGTGCTTGCC
* * *
119426 TTTACCTAATTTCCTTCCTTGAAATTAAGTCTGTGCTTAT
1 TTTACCTAATTTCCTTCCTTGAAATTAAGTCTATAC-TCT
* * *
119466 CTTTACCTAATCTCCTTCCTTGAAATTAAGTCTGTGCTTACT
1 -TTTACCTAATTTCCTTCCTTGAAATTAAGTCTATAC-T-CT
* * * *
119508 TTTACCTAATTTCCTTCCTTGAAATTGAGTCTGTGCTTT
1 TTTACCTAATTTCCTTCCTTGAAATTAAGTCTATACTCT
* *
119547 ACTTTACCTAATTTCCTTCCTTGAAATTAAGTCTGTGCTTACT
1 --TTTACCTAATTTCCTTCCTTGAAATTAAGTCTATAC-T-CT
*
119590 TTTACCTAATTTCCTTCCTTGAAATTAAGTCTATACTTT
1 TTTACCTAATTTCCTTCCTTGAAATTAAGTCTATACTCT
* *
119629 ACTTTACCTAATTTCCTGCCTTGAAATTAA-TCCTTTAACTGCT
1 --TTTACCTAATTTCCTTCCTTGAAATTAAGT-CTAT-ACT-CT
*
119672 TTTACTTAATTTCC
1 TTTACCTAATTTCC
119686 CTGAATTAAG
Statistics
Matches: 195, Mismatches: 14, Indels: 20
0.85 0.06 0.09
Matches are distributed among these distances:
39 2 0.01
40 3 0.02
41 183 0.94
42 5 0.03
43 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.46
Consensus pattern (39 bp):
TTTACCTAATTTCCTTCCTTGAAATTAAGTCTATACTCT
Found at i:119685 original size:82 final size:82
Alignment explanation
Indices: 119407--119658 Score: 425
Period size: 82 Copynumber: 3.1 Consensus size: 82
119397 GATTACCCTG
* *
119407 AATTAAGTCTGTGCTTGCCTTTACCTAATTTCCTTCCTTGAAATTAAGTCTGTGC-TTATCTTTA
1 AATTAAGTCTGTGCTTACTTTTACCTAATTTCCTTCCTTGAAATTAAGTCTGTGCTTTA-CTTTA
*
119471 CCTAATCTCCTTCCTTGA
65 CCTAATTTCCTTCCTTGA
*
119489 AATTAAGTCTGTGCTTACTTTTACCTAATTTCCTTCCTTGAAATTGAGTCTGTGCTTTACTTTAC
1 AATTAAGTCTGTGCTTACTTTTACCTAATTTCCTTCCTTGAAATTAAGTCTGTGCTTTACTTTAC
119554 CTAATTTCCTTCCTTGA
66 CTAATTTCCTTCCTTGA
* *
119571 AATTAAGTCTGTGCTTACTTTTACCTAATTTCCTTCCTTGAAATTAAGTCTATACTTTACTTTAC
1 AATTAAGTCTGTGCTTACTTTTACCTAATTTCCTTCCTTGAAATTAAGTCTGTGCTTTACTTTAC
*
119636 CTAATTTCCTGCCTTGA
66 CTAATTTCCTTCCTTGA
119653 AATTAA
1 AATTAA
119659 TCCTTTAACT
Statistics
Matches: 161, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
82 158 0.98
83 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.10, T:0.45
Consensus pattern (82 bp):
AATTAAGTCTGTGCTTACTTTTACCTAATTTCCTTCCTTGAAATTAAGTCTGTGCTTTACTTTAC
CTAATTTCCTTCCTTGA
Found at i:119713 original size:37 final size:36
Alignment explanation
Indices: 119653--119767 Score: 151
Period size: 37 Copynumber: 3.1 Consensus size: 36
119643 CCTGCCTTGA
119653 AATTAA-TCCTTTAACTGCTTTTACTTAATTTCCCTG
1 AATTAAGTCCTTTAACTG-TTTTACTTAATTTCCCTG
* *
119689 AATTAAGTCCTTTGACTGTGTTTACTTAATTTCCCAG
1 AATTAAGTCCTTTAACTGT-TTTACTTAATTTCCCTG
* **
119726 AATTAAGCCCTTTAACTGTCTTTACTTAATTGGCCTG
1 AATTAAGTCCTTTAACTGT-TTTACTTAATTTCCCTG
119763 AATTA
1 AATTA
119768 CTTAATTACT
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
36 7 0.10
37 62 0.90
ACGTcount: A:0.26, C:0.20, G:0.10, T:0.43
Consensus pattern (36 bp):
AATTAAGTCCTTTAACTGTTTTACTTAATTTCCCTG
Found at i:119794 original size:55 final size:55
Alignment explanation
Indices: 119710--119822 Score: 165
Period size: 55 Copynumber: 2.1 Consensus size: 55
119700 TTGACTGTGT
* *
119710 TTACTTAATTTCCCAGAATTAAGCCCTTTAACTG-TCTTTACTTAATTGGCCTGAA
1 TTACTTAATTACCCAGAATTAAGCCCTTTAACTGCT-TTTACTTAATTGCCCTGAA
* * *
119765 TTACTTAATTACTCAGAATTAAGTCCTTTAACTGCTTTTACTTAATTTCCCTGAA
1 TTACTTAATTACCCAGAATTAAGCCCTTTAACTGCTTTTACTTAATTGCCCTGAA
119820 TTA
1 TTA
119823 AGTTCTCTGA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
55 51 0.98
56 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.09, T:0.42
Consensus pattern (55 bp):
TTACTTAATTACCCAGAATTAAGCCCTTTAACTGCTTTTACTTAATTGCCCTGAA
Found at i:119803 original size:129 final size:128
Alignment explanation
Indices: 119653--119896 Score: 373
Period size: 129 Copynumber: 1.9 Consensus size: 128
119643 CCTGCCTTGA
*
119653 AATTAATCCTTTAACTGCTTTTACTTAATTTCCCTGAATTAAGTCCTTTGACTGTGTTTACTTAA
1 AATTAATCCTTTAACTGCTTTTACTTAATTTCCCTGAATTAAGTCCTCTGACTGTGTTTACTTAA
* * *
119718 TTTCCC-AGAATTAAGCCCTTTAACTGTCTTTACTTAATTGGCCTGAATTACTTAATTACTCAG
66 TTACCCTA-AATTAAGCCCTCTAACTGTCTTTACTTAATTGCCCTGAATTACTTAATTACTCAG
*
119781 AATTAAGTCCTTTAACTGCTTTTACTTAATTTCCCTGAATTAAGTTCTCTGACTGTGTTTACTTA
1 AATTAA-TCCTTTAACTGCTTTTACTTAATTTCCCTGAATTAAGTCCTCTGACTGTGTTTACTTA
** * * *
119846 ATTACCCTAAATTAAGTTCTCTGACTGTGTTTACTTAATTTCCCTGAATTA
65 ATTACCCTAAATTAAGCCCTCTAACTGTCTTTACTTAATTGCCCTGAATTA
119897 AGTTCTTTGA
Statistics
Matches: 104, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
128 6 0.06
129 97 0.93
130 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.10, T:0.44
Consensus pattern (128 bp):
AATTAATCCTTTAACTGCTTTTACTTAATTTCCCTGAATTAAGTCCTCTGACTGTGTTTACTTAA
TTACCCTAAATTAAGCCCTCTAACTGTCTTTACTTAATTGCCCTGAATTACTTAATTACTCAG
Found at i:119821 original size:37 final size:37
Alignment explanation
Indices: 119765--120155 Score: 471
Period size: 37 Copynumber: 10.8 Consensus size: 37
119755 TTGGCCTGAA
* * * *
119765 TTACTTAATTACTCAGAATTAAGTCCTTTAACTGCT-T
1 TTACTTAATTTCCCTGAATTAAGTTCTTTAACTG-TGT
* *
119802 TTACTTAATTTCCCTGAATTAAGTTCTCTGACTGTGT
1 TTACTTAATTTCCCTGAATTAAGTTCTTTAACTGTGT
* * * *
119839 TTACTTAATTACCCTAAATTAAGTTCTCTGACTGTGT
1 TTACTTAATTTCCCTGAATTAAGTTCTTTAACTGTGT
*
119876 TTACTTAATTTCCCTGAATTAAGTTCTTTGACTGTGT
1 TTACTTAATTTCCCTGAATTAAGTTCTTTAACTGTGT
* * *
119913 TTACTTAATTACCCTGAATTAAGTTCTCTGACTGTGT
1 TTACTTAATTTCCCTGAATTAAGTTCTTTAACTGTGT
* *
119950 TTACTTAATTTCCCTGAATTAAGTTCTCTGACTGTGT
1 TTACTTAATTTCCCTGAATTAAGTTCTTTAACTGTGT
*
119987 TTACTTAATTACCCTGAATTAAGTTCTTTAACTGTGT
1 TTACTTAATTTCCCTGAATTAAGTTCTTTAACTGTGT
* *
120024 TTACTTAATTTCCCAGAATTAAGTTCTTTAACTATGT
1 TTACTTAATTTCCCTGAATTAAGTTCTTTAACTGTGT
*
120061 TTACTTAATTTCCCTGAATTAAGTTCTTTTAC-----
1 TTACTTAATTTCCCTGAATTAAGTTCTTTAACTGTGT
*
120093 TTACTT-A---CCCTTAATTAAGTTCTTTAACTGCT-T
1 TTACTTAATTTCCCTGAATTAAGTTCTTTAACTG-TGT
* * *
120126 TTACTAAATTTCTCTGAGTTAAGTTCTTTA
1 TTACTTAATTTCCCTGAATTAAGTTCTTTA
120156 CCGACTATCT
Statistics
Matches: 316, Mismatches: 28, Indels: 20
0.87 0.08 0.05
Matches are distributed among these distances:
28 19 0.06
31 1 0.00
32 6 0.02
33 5 0.02
34 1 0.00
36 1 0.00
37 283 0.90
ACGTcount: A:0.25, C:0.18, G:0.10, T:0.46
Consensus pattern (37 bp):
TTACTTAATTTCCCTGAATTAAGTTCTTTAACTGTGT
Found at i:119836 original size:92 final size:92
Alignment explanation
Indices: 119673--119848 Score: 246
Period size: 92 Copynumber: 1.9 Consensus size: 92
119663 TTAACTGCTT
* * * *
119673 TTACTTAATTTCCCTGAATTAAGTCCTTTGACTGTGTTTACTTAATTTCCCAGAATTAAGCCCTT
1 TTACTTAATTACCCAGAATTAAGTCCTTTAACTGTGTTTACTTAATTTCCCAGAATTAAGCCCTC
119738 TAACTGTCTTTACTTAATTGGCCTGAA
66 TAACTGTCTTTACTTAATTGGCCTGAA
* * **
119765 TTACTTAATTACTCAGAATTAAGTCCTTTAACTGCT-TTTACTTAATTTCCCTGAATTAAGTTCT
1 TTACTTAATTACCCAGAATTAAGTCCTTTAACTG-TGTTTACTTAATTTCCCAGAATTAAGCCCT
* *
119829 CTGACTGTGTTTACTTAATT
65 CTAACTGTCTTTACTTAATT
119849 ACCCTAAATT
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
92 72 0.99
93 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.44
Consensus pattern (92 bp):
TTACTTAATTACCCAGAATTAAGTCCTTTAACTGTGTTTACTTAATTTCCCAGAATTAAGCCCTC
TAACTGTCTTTACTTAATTGGCCTGAA
Found at i:119959 original size:111 final size:111
Alignment explanation
Indices: 119765--120152 Score: 528
Period size: 111 Copynumber: 3.6 Consensus size: 111
119755 TTGGCCTGAA
* * *
119765 TTACTTAATTACTCAGAATTAAGTCCTTTAACTGCT-TTTACTTAATTTCCCTGAATTAAGTTCT
1 TTACTTAATTACCCTGAATTAAGTTCTTTAACTG-TGTTTACTTAATTTCCCTGAATTAAGTTCT
* *
119829 CTGACTGTGTTTACTTAATTACCCTAAATTAAGTTCTCTGACTGTGT
65 CTGACTGTGTTTACTTAATTTCCCTGAATTAAGTTCTCTGACTGTGT
* * *
119876 TTACTTAATTTCCCTGAATTAAGTTCTTTGACTGTGTTTACTTAATTACCCTGAATTAAGTTCTC
1 TTACTTAATTACCCTGAATTAAGTTCTTTAACTGTGTTTACTTAATTTCCCTGAATTAAGTTCTC
119941 TGACTGTGTTTACTTAATTTCCCTGAATTAAGTTCTCTGACTGTGT
66 TGACTGTGTTTACTTAATTTCCCTGAATTAAGTTCTCTGACTGTGT
* *
119987 TTACTTAATTACCCTGAATTAAGTTCTTTAACTGTGTTTACTTAATTTCCCAGAATTAAGTTCTT
1 TTACTTAATTACCCTGAATTAAGTTCTTTAACTGTGTTTACTTAATTTCCCTGAATTAAGTTCTC
* *
120052 TAACTATGTTTACTTAATTTCCCTGAATTAAG---T-T--C--T-T
66 TGACTGTGTTTACTTAATTTCCCTGAATTAAGTTCTCTGACTGTGT
* * * * *
120089 TTACTTACTTACCCTTAATTAAGTTCTTTAACTGCT-TTTACTAAATTTCTCTGAGTTAAGTTCT
1 TTACTTAATTACCCTGAATTAAGTTCTTTAACTG-TGTTTACTTAATTTCCCTGAATTAAGTTCT
120153 TTACCGACTA
Statistics
Matches: 254, Mismatches: 21, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
102 57 0.22
103 2 0.01
105 1 0.00
107 1 0.00
108 1 0.00
110 1 0.00
111 191 0.75
ACGTcount: A:0.25, C:0.18, G:0.11, T:0.46
Consensus pattern (111 bp):
TTACTTAATTACCCTGAATTAAGTTCTTTAACTGTGTTTACTTAATTTCCCTGAATTAAGTTCTC
TGACTGTGTTTACTTAATTTCCCTGAATTAAGTTCTCTGACTGTGT
Found at i:120091 original size:28 final size:28
Alignment explanation
Indices: 120060--120117 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
120050 TTTAACTATG
*
120060 TTTACTTAATTTCCCTGAATTAAGTTCT
1 TTTACTTAATTACCCTGAATTAAGTTCT
* *
120088 TTTACTTACTTACCCTTAATTAAGTTCT
1 TTTACTTAATTACCCTGAATTAAGTTCT
120116 TT
1 TT
120118 AACTGCTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.24, C:0.19, G:0.05, T:0.52
Consensus pattern (28 bp):
TTTACTTAATTACCCTGAATTAAGTTCT
Found at i:120209 original size:39 final size:43
Alignment explanation
Indices: 120163--120307 Score: 169
Period size: 43 Copynumber: 3.5 Consensus size: 43
120153 TTACCGACTA
** *
120163 TCTTAATTACCCTGAATTTTGA-TTT-ACT-A-TGTTTACTTT
1 TCTTAATTACCCTGAATTAAGATTTTGACTGATTGGTTACTTT
120202 TCTTAATTACCCTGAATTAAGATTTTGACTGATTGGTTACTTT
1 TCTTAATTACCCTGAATTAAGATTTTGACTGATTGGTTACTTT
* *
120245 TCTTAATTACCTTGAATTAAGATTTTGACTGTACT--TT-CTTT
1 TCTTAATTACCCTGAATTAAGATTTTGACTG-ATTGGTTACTTT
* *
120286 TTTTAATTACCTTGAATTAAGA
1 TCTTAATTACCCTGAATTAAGA
120308 CTTTACTCTT
Statistics
Matches: 95, Mismatches: 6, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
39 20 0.21
40 3 0.03
41 28 0.29
42 3 0.03
43 39 0.41
44 2 0.02
ACGTcount: A:0.26, C:0.14, G:0.10, T:0.50
Consensus pattern (43 bp):
TCTTAATTACCCTGAATTAAGATTTTGACTGATTGGTTACTTT
Found at i:120323 original size:31 final size:31
Alignment explanation
Indices: 120288--120395 Score: 74
Period size: 31 Copynumber: 3.2 Consensus size: 31
120278 CTTTCTTTTT
120288 TTAATTACCTTGAATTAAGACTTTACTCTTC
1 TTAATTACCTTGAATTAAGACTTTACTCTTC
* * * *
120319 TTAATTGCCCAACTTAGGACCTTGACTATACTTT-CTTTTC
1 TTAATT----ACCTT--GA-ATT-A--AGACTTTACTCTTC
*
120359 TTAATTACCCTGAATTAAGACTTTACTCTTC
1 TTAATTACCTTGAATTAAGACTTTACTCTTC
120390 TTAATT
1 TTAATT
120396 GTCCAACTTA
Statistics
Matches: 57, Mismatches: 9, Indels: 22
0.65 0.10 0.25
Matches are distributed among these distances:
30 6 0.11
31 17 0.30
32 1 0.02
33 2 0.04
34 2 0.04
35 4 0.07
36 3 0.05
37 2 0.04
38 2 0.04
39 1 0.02
40 11 0.19
41 6 0.11
ACGTcount: A:0.27, C:0.21, G:0.07, T:0.44
Consensus pattern (31 bp):
TTAATTACCTTGAATTAAGACTTTACTCTTC
Found at i:120354 original size:71 final size:71
Alignment explanation
Indices: 120269--120466 Score: 344
Period size: 71 Copynumber: 2.8 Consensus size: 71
120259 AATTAAGATT
*
120269 TTGACTGTACTTTCTTTTTTTAATTACCTTGAATTAAGACTTTACTCTTCTTAATTGCCCAACTT
1 TTGACTGTACTTTCTTTTTTTAATTACCCTGAATTAAGACTTTACTCTTCTTAATTGCCCAACTT
120334 AGGACC
66 AGGACC
* * *
120340 TTGACTATACTTTCTTTTCTTAATTACCCTGAATTAAGACTTTACTCTTCTTAATTGTCCAACTT
1 TTGACTGTACTTTCTTTTTTTAATTACCCTGAATTAAGACTTTACTCTTCTTAATTGCCCAACTT
120405 AGGACC
66 AGGACC
120411 TTGACTGTACTTT-TTTTTCTTAATTACCCTGAATTAAGACTTTACTCTTCTTAATT
1 TTGACTGTACTTTCTTTTT-TTAATTACCCTGAATTAAGACTTTACTCTTCTTAATT
120467 TCTCTTAATT
Statistics
Matches: 120, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
70 4 0.03
71 116 0.97
ACGTcount: A:0.24, C:0.21, G:0.09, T:0.46
Consensus pattern (71 bp):
TTGACTGTACTTTCTTTTTTTAATTACCCTGAATTAAGACTTTACTCTTCTTAATTGCCCAACTT
AGGACC
Found at i:120362 original size:40 final size:40
Alignment explanation
Indices: 120307--120435 Score: 100
Period size: 40 Copynumber: 3.4 Consensus size: 40
120297 TTGAATTAAG
*
120307 ACTTTACTCTTCTTAATTGCCCAACTTAGGACCTTGACTAT
1 ACTTT-CTTTTCTTAATTGCCCAACTTAGGACCTTGACTAT
* *
120348 ACTTTCTTTTCTTAATTACCCTGAA-TTA--A----GACTTT
1 ACTTTCTTTTCTTAATTGCCC--AACTTAGGACCTTGACTAT
* *
120383 AC--TC--TTCTTAATTGTCCAACTTAGGACCTTGACTGT
1 ACTTTCTTTTCTTAATTGCCCAACTTAGGACCTTGACTAT
*
120419 ACTTTTTTTTCTTAATT
1 ACTTTCTTTTCTTAATT
120436 ACCCTGAATT
Statistics
Matches: 68, Mismatches: 7, Indels: 27
0.67 0.07 0.26
Matches are distributed among these distances:
29 2 0.03
30 3 0.04
31 11 0.16
32 1 0.01
33 2 0.03
35 7 0.10
36 7 0.10
38 1 0.01
39 1 0.01
40 23 0.34
41 8 0.12
42 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.09, T:0.46
Consensus pattern (40 bp):
ACTTTCTTTTCTTAATTGCCCAACTTAGGACCTTGACTAT
Found at i:137644 original size:11 final size:11
Alignment explanation
Indices: 137628--137670 Score: 68
Period size: 11 Copynumber: 3.9 Consensus size: 11
137618 TATACTATAT
137628 CTAATTAATAG
1 CTAATTAATAG
*
137639 CTAATTAATAT
1 CTAATTAATAG
137650 CTAATTAATAG
1 CTAATTAATAG
*
137661 TTAATTAATA
1 CTAATTAATA
137671 ATGAATAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.42
Consensus pattern (11 bp):
CTAATTAATAG
Found at i:137649 original size:22 final size:22
Alignment explanation
Indices: 137624--137670 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
137614 CCATTATACT
137624 ATATCTAATTAATAGCTAATTA
1 ATATCTAATTAATAGCTAATTA
*
137646 ATATCTAATTAATAGTTAATTA
1 ATATCTAATTAATAGCTAATTA
137668 ATA
1 ATA
137671 ATGAATAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (22 bp):
ATATCTAATTAATAGCTAATTA
Found at i:153843 original size:30 final size:29
Alignment explanation
Indices: 153776--153847 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 29
153766 ACACCGAACC
****
153776 GTCAAATAAGCCCCTGAACTATTATTTCA
1 GTCAAATAAGCCCCTGAACTATTAAAAAA
* *
153805 GCCAAATAAGCCCCTGAACTCTTAAAAAA
1 GTCAAATAAGCCCCTGAACTATTAAAAAA
153834 TGTCAAATAAGCCC
1 -GTCAAATAAGCCC
153848 TGTTGCCAAG
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
29 23 0.66
30 12 0.34
ACGTcount: A:0.39, C:0.26, G:0.11, T:0.24
Consensus pattern (29 bp):
GTCAAATAAGCCCCTGAACTATTAAAAAA
Found at i:157911 original size:72 final size:72
Alignment explanation
Indices: 157812--157947 Score: 184
Period size: 72 Copynumber: 1.9 Consensus size: 72
157802 TGAAGATCTT
* * * * *
157812 GGTTTGTGGGATTTTAGTTTTGATGCAAAGTTTTTTG-TTAAAGTCTTGAGATTGTCAAAAATTG
1 GGTTTGTGGGATTATAGTTTGGATGCAAAATTTTCTGCTGAAA-TCTTGAGATTGTCAAAAATTG
157876 ACTTTGAA
65 ACTTTGAA
* * *
157884 GGTTTGTGGGATTATGGTTTGGATGCAAAATTTTCTGCTGAAATTTTTAGATTGTCAAAAATTG
1 GGTTTGTGGGATTATAGTTTGGATGCAAAATTTTCTGCTGAAATCTTGAGATTGTCAAAAATTG
157948 GTCTTGATGG
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
72 51 0.93
73 4 0.07
ACGTcount: A:0.26, C:0.06, G:0.24, T:0.43
Consensus pattern (72 bp):
GGTTTGTGGGATTATAGTTTGGATGCAAAATTTTCTGCTGAAATCTTGAGATTGTCAAAAATTGA
CTTTGAA
Found at i:157960 original size:72 final size:72
Alignment explanation
Indices: 157811--157962 Score: 182
Period size: 72 Copynumber: 2.1 Consensus size: 72
157801 TTGAAGATCT
* * * * *
157811 TGGTTTGTGGGATTTTAGTTTTGATGCAAAGTTTTTTGTTAAAGTCTTGAGATTGTCAAAAATTG
1 TGGTTTGTGGGATTATAGTTTGGATGCAAAATTTTCTGTGAAAGTCTTGAGATTGTCAAAAATTG
157876 ACTTTGA
66 ACTTTGA
* * * *
157883 AGGTTTGTGGGATTATGGTTTGGATGCAAAATTTTCTGCTGAAA-TTTTTAGATTGTCAAAAATT
1 TGGTTTGTGGGATTATAGTTTGGATGCAAAATTTTCTG-TGAAAGTCTTGAGATTGTCAAAAATT
*
157947 G-GTCTTGA
65 GACT-TTGA
157955 TGGTTTGT
1 TGGTTTGT
157963 TTGCAAAAAG
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
71 1 0.01
72 62 0.93
73 4 0.06
ACGTcount: A:0.24, C:0.06, G:0.25, T:0.45
Consensus pattern (72 bp):
TGGTTTGTGGGATTATAGTTTGGATGCAAAATTTTCTGTGAAAGTCTTGAGATTGTCAAAAATTG
ACTTTGA
Found at i:159332 original size:21 final size:22
Alignment explanation
Indices: 159306--159350 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
159296 TTAAACTGAA
*
159306 TTGCTAAACACCGCCCTA-TTT
1 TTGCTAAACACCACCCTACTTT
**
159327 TTGCTATTCACCACCCTACTTT
1 TTGCTAAACACCACCCTACTTT
159349 TT
1 TT
159351 ACACTTTTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.20, C:0.33, G:0.07, T:0.40
Consensus pattern (22 bp):
TTGCTAAACACCACCCTACTTT
Found at i:159569 original size:33 final size:32
Alignment explanation
Indices: 159524--159603 Score: 81
Period size: 33 Copynumber: 2.4 Consensus size: 32
159514 AATTGCTCAT
* *
159524 GCCGCCCTAGGGGG-GCCACTGAGCCATGGTAGG
1 GCCGCCCCAGGGGGCGCC-CTG-GCCATGGTAAG
* *
159557 GCCGCCCCAGGGGAGCGGCCTGGCCATGGTAAT
1 GCCGCCCCAGGGG-GCGCCCTGGCCATGGTAAG
*
159590 GCCGCACCAGGGGG
1 GCCGCCCCAGGGGG
159604 ACGGCTTGCC
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
32 1 0.03
33 33 0.82
34 4 0.10
35 2 0.05
ACGTcount: A:0.15, C:0.33, G:0.42, T:0.10
Consensus pattern (32 bp):
GCCGCCCCAGGGGGCGCCCTGGCCATGGTAAG
Found at i:159649 original size:33 final size:33
Alignment explanation
Indices: 159611--159673 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
159601 GGGACGGCTT
* *
159611 GCCATGGCTAGGCCGTCCC-CCTGGGGCGGCTGA
1 GCCATGGCCAAGCCG-CCCTCCTGGGGCGGCTGA
159644 GCCATGGCCAAGCCGCCCTCCTGGGGCGGC
1 GCCATGGCCAAGCCGCCCTCCTGGGGCGGC
159674 ACTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 3 0.11
33 24 0.89
ACGTcount: A:0.10, C:0.40, G:0.38, T:0.13
Consensus pattern (33 bp):
GCCATGGCCAAGCCGCCCTCCTGGGGCGGCTGA
Done.