Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 110 of 222
Found at i:35088877 original size:26 final size:28
Alignment explanation
Indices: 35088834--35088886 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 28
35088824 ACTAGCTCTC
35088834 TTTTTTTTCACAATTTTTTTTTCACAAT
1 TTTTTTTTCACAATTTTTTTTTCACAAT
35088862 TTTTTTTTCA-AA-TTTTTTTTCACAA
1 TTTTTTTTCACAATTTTTTTTTCACAA
35088887 CTTGATATCC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 13 0.52
27 2 0.08
28 10 0.40
ACGTcount: A:0.23, C:0.13, G:0.00, T:0.64
Consensus pattern (28 bp):
TTTTTTTTCACAATTTTTTTTTCACAAT
Found at i:35088939 original size:11 final size:11
Alignment explanation
Indices: 35088923--35088976 Score: 81
Period size: 11 Copynumber: 4.8 Consensus size: 11
35088913 ATGGAAACCA
*
35088923 AATTTTTTTTT
1 AATTTTTTTTG
35088934 AATTTTTTTTG
1 AATTTTTTTTG
35088945 AATTTTTTTTAG
1 AATTTTTTTT-G
35088957 AATTTTTTTTG
1 AATTTTTTTTG
*
35088968 AGTTTTTTT
1 AATTTTTTT
35088977 CGAGAAACTA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
11 29 0.73
12 11 0.28
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.74
Consensus pattern (11 bp):
AATTTTTTTTG
Found at i:35088942 original size:12 final size:12
Alignment explanation
Indices: 35088923--35088976 Score: 69
Period size: 12 Copynumber: 4.8 Consensus size: 12
35088913 ATGGAAACCA
35088923 AATTTTTTTTT-
1 AATTTTTTTTTG
35088934 AA-TTTTTTTTG
1 AATTTTTTTTTG
*
35088945 AATTTTTTTTAG
1 AATTTTTTTTTG
35088957 AA-TTTTTTTTG
1 AATTTTTTTTTG
*
35088968 AGTTTTTTT
1 AATTTTTTT
35088977 CGAGAAACTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
10 8 0.22
11 13 0.35
12 16 0.43
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.74
Consensus pattern (12 bp):
AATTTTTTTTTG
Found at i:35088960 original size:23 final size:22
Alignment explanation
Indices: 35088923--35088976 Score: 81
Period size: 23 Copynumber: 2.4 Consensus size: 22
35088913 ATGGAAACCA
*
35088923 AATTTTTTTTTAATTTTTTTTG
1 AATTTTTTTTGAATTTTTTTTG
35088945 AATTTTTTTTAGAATTTTTTTTG
1 AATTTTTTTT-GAATTTTTTTTG
*
35088968 AGTTTTTTT
1 AATTTTTTT
35088977 CGAGAAACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 10 0.34
23 19 0.66
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.74
Consensus pattern (22 bp):
AATTTTTTTTGAATTTTTTTTG
Found at i:35089352 original size:46 final size:46
Alignment explanation
Indices: 35089294--35089387 Score: 154
Period size: 46 Copynumber: 2.0 Consensus size: 46
35089284 CAAAGAAAAG
*
35089294 ACCTCGACCCACTATCAA-GAATGATAGGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAATG-ATGATAAGAACCTTGGTATATGATGA
*
35089340 ACCTTGACCCACTATCAATGATGATAAGAACCTTGGTATATGATGA
1 ACCTCGACCCACTATCAATGATGATAAGAACCTTGGTATATGATGA
35089386 AC
1 AC
35089388 GCCACACTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
46 44 0.98
47 1 0.02
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (46 bp):
ACCTCGACCCACTATCAATGATGATAAGAACCTTGGTATATGATGA
Found at i:35095539 original size:45 final size:45
Alignment explanation
Indices: 35095425--35095651 Score: 349
Period size: 45 Copynumber: 5.2 Consensus size: 45
35095415 CATGAAATTA
*
35095425 AGGAAGCATTTGACCAACATCATGCATAATTCATGGGAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
*
35095470 AGG-A--A---GACCAACATCATGCATAATTCATGGGAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
35095509 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
*
35095554 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTA
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
* * * *
35095599 AGGAAGCATTTGGCCAACATCATGCATAATTTATGGAACAAATTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
35095644 AGGAAGCA
1 AGGAAGCA
35095652 CCATGGCTGA
Statistics
Matches: 169, Mismatches: 7, Indels: 12
0.90 0.04 0.06
Matches are distributed among these distances:
39 37 0.22
40 1 0.01
42 2 0.01
44 1 0.01
45 128 0.76
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.25
Consensus pattern (45 bp):
AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
Found at i:35098471 original size:40 final size:40
Alignment explanation
Indices: 35098427--35098618 Score: 213
Period size: 40 Copynumber: 4.8 Consensus size: 40
35098417 ATAACCACAA
* *
35098427 GCACAAATGCCTTCGGGTCGTAGCCCGGATGTAGTAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTAACTC
* * * * * *
35098467 GCACAAATGCCTTCGGATCTTAGTCCGGATAAAATCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTAACTC
* * * *
35098507 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTAACTC
* * * *
35098547 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTAACTC
* * *
35098587 GCACAATTTCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
35098619 CATTCAAATG
Statistics
Matches: 122, Mismatches: 30, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 122 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTAACTC
Found at i:35098546 original size:80 final size:79
Alignment explanation
Indices: 35098398--35098618 Score: 300
Period size: 80 Copynumber: 2.8 Consensus size: 79
35098388 ACCCAAGTTT
* * * * * * *
35098398 CTTCGGAAT-TTAGCCGGATATAACCACAAGCACAAATGCCTTCGGGTCGTAGCCCGGATGTAGT
1 CTTCGG-ATCTTAGCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGC
35098462 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* *
35098477 CTTCGGATCTTAGTCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGC
1 CTTCGGATCTTAG-CCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGC
35098542 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* * *
35098557 CTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTTCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGATCTTAG-CCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATAT
35098619 CATTCAAATG
Statistics
Matches: 125, Mismatches: 15, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
78 2 0.02
79 10 0.08
80 113 0.90
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (79 bp):
CTTCGGATCTTAGCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCA
ACTCGCACAAATGC
Found at i:35106519 original size:40 final size:40
Alignment explanation
Indices: 35106470--35106681 Score: 239
Period size: 40 Copynumber: 5.3 Consensus size: 40
35106460 TTCTTCGAAT
* *
35106470 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * * * *
35106509 TTAGCCCGGATGTAGTAACTCGCACAAATGCCTTCGGATC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * *
35106549 TTAGTCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * * *
35106589 TTAACCCGGGTAT-AGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* * *
35106629 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
*
35106669 TTAGCTCGGATAT
1 TTAGCCCGGATAT
35106682 CATTCAAATG
Statistics
Matches: 139, Mismatches: 31, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
39 6 0.04
40 131 0.94
41 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:35106609 original size:80 final size:79
Alignment explanation
Indices: 35106462--35106681 Score: 298
Period size: 80 Copynumber: 2.8 Consensus size: 79
35106452 ACCCAAGTTT
* * * * * * * *
35106462 CTTCGAAT-TTAGCCGGATATAACCACAAGCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTA
1 CTTCGGATCTTAGCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGATATAGCA
35106526 ACTCGCACAAATGC
66 ACTCGCACAAATGC
*
35106540 CTTCGGATCTTAGTCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGC
1 CTTCGGATCTTAG-CCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGATATAGC
35106605 AACTCGCACAAATGC
65 AACTCGCACAAATGC
* * * *
35106620 CTTCGGGTCTTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGACTTAGCTCGGATAT
1 CTTCGGATCTTAG-CCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGATAT
35106682 CATTCAAATG
Statistics
Matches: 125, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
78 7 0.06
79 4 0.03
80 114 0.91
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (79 bp):
CTTCGGATCTTAGCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGATATAGCA
ACTCGCACAAATGC
Found at i:35114571 original size:18 final size:20
Alignment explanation
Indices: 35114527--35114574 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
35114517 CCACTCTTAA
35114527 TCTCTTTTTTCTCTTTTTCAT
1 TCTC-TTTTTCTCTTTTTCAT
*
35114548 TCTCTTTTTCT-TTTTTGAT
1 TCTCTTTTTCTCTTTTTCAT
35114567 T-TCTTTTT
1 TCTCTTTTT
35114575 GTGTCTTCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 7 0.27
19 8 0.31
20 7 0.27
21 4 0.15
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.75
Consensus pattern (20 bp):
TCTCTTTTTCTCTTTTTCAT
Found at i:35119178 original size:20 final size:20
Alignment explanation
Indices: 35119131--35119178 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
35119121 AGTAAGCTCG
35119131 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
**** *
35119151 AACAAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
35119171 GTTGAGCT
1 GTTGAGCT
35119179 AGACGGTGCT
Statistics
Matches: 19, Mismatches: 9, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:35121617 original size:12 final size:12
Alignment explanation
Indices: 35121600--35121624 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35121590 CTTTATAGAC
35121600 ATTACACATTGA
1 ATTACACATTGA
35121612 ATTACACATTGA
1 ATTACACATTGA
35121624 A
1 A
35121625 ATCAGATTTT
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:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (12 bp):
ATTACACATTGA
Found at i:35122714 original size:557 final size:557
Alignment explanation
Indices: 35121617--35122862 Score: 2397
Period size: 557 Copynumber: 2.2 Consensus size: 557
35121607 ATTGAATTAC
* *
35121617 ACATTGAAA-TCAGATTTTTGTTGAGTGAAAATTATCTTTGAG-TTTCTCCAAGAATTTTCTCTT
1 ACATT-AAAGTCAGATTTTTTTTGAGTGAAAATTCTCTTTGAGTTTTCTCCAAGAATTTTCTCTT
35121680 GAGTTTTCTTTAGAAGTAGTTTTAACAATCTTTTGATTGTGGGAGCCATCTTCAGCCTTTTTCTT
65 GAGTTTTCTTTAGAAGTAGTTTTAACAATCTTTTGATTGTGGGAGCCATCTTCAGCCTTTTTCTT
35121745 GCCGTGTTCTACATTGGAGAGGAGATTAGAGCCGTTTGAAGGGAGTTGTGAAATCTTTCGGGATT
130 GCCGTGTTCTACATTGGAGAGGAGATTAGAGCCGTTTGAAGGGAGTTGTGAAATCTTTCGGGATT
35121810 TCAAGGCTTCTTAGGACTTTCTTTATTTTCTTGATGTTCGTTCTTCTTTATTAATTTCTGCTTAT
195 TCAAGGCTTCTTAGGACTTTCTTTATTTTCTTGATGTTCGTTCTTCTTTATTAATTTCTGCTTAT
35121875 GCTGATTTATTGATTAACTTGGGATTAATTGTTCTTGTTGCCTTTCAGCCATTCCAAACTTCAAG
260 GCTGATTTATTGATTAACTTGGGATTAATTGTTCTTGTTGCCTTTCAGCCATTCCAAACTTCAAG
35121940 ATCTAATTCGGCTTCGTTCTTAGGCGTCAAGAAACGTTATTCATTCATAATTTCCAGATTTCTTA
325 ATCTAATTCGGCTTCGTTCTTAGGCGTCAAGAAACGTTATTCATTCATAATTTCCAGATTTCTTA
35122005 CCGCCCAAGTATTTCTTATTCTATTCGATTTGGGTTTCTTGATCTGACAAGTTTAGTTCTCTGTT
390 CCGCCCAAGTATTTCTTATTCTATTCGATTTGGGTTTCTTGATCTGACAAGTTTAGTTCTCTGTT
35122070 TTCTGTTTTCATTACAGCCAATTTGCTTGTAGAACTCAGAGGACTTTCCCGTGACTTGGCAACTC
455 TTCTGTTTTCATTACAGCCAATTTGCTTGTAGAACTCAGAGGACTTTCCCGTGACTTGGCAACTC
35122135 GATCTTGGTCCGCGCACGATCCTCTATTTGAAGAATAT
520 GATCTTGGTCCGCGCACGATCCTCTATTTGAAGAATAT
35122173 ACATTAAAGTCAGATTTTTTTTGAGTGAAAATTCTCTTTGAGTTTTCTCCAAGAATTTTCTCTTG
1 ACATTAAAGTCAGATTTTTTTTGAGTGAAAATTCTCTTTGAGTTTTCTCCAAGAATTTTCTCTTG
35122238 AGTTTTCTTTAGAAGTAGTTTTAACAATCTTTTGATTGTGGGAGCCATCTTCAGCCTTTTTCTTG
66 AGTTTTCTTTAGAAGTAGTTTTAACAATCTTTTGATTGTGGGAGCCATCTTCAGCCTTTTTCTTG
35122303 CCGTGTTCTACATTGGAGAGGAGATTAGAGCCGTTTGAAGGGAGTTGTGAAATCTTTCGGGATTT
131 CCGTGTTCTACATTGGAGAGGAGATTAGAGCCGTTTGAAGGGAGTTGTGAAATCTTTCGGGATTT
35122368 CAAGGCTTCTTAGGACTTTCTTTATTTTCTTGATGTTCGTTCTTCTTTATTAATTTCTGCTTATG
196 CAAGGCTTCTTAGGACTTTCTTTATTTTCTTGATGTTCGTTCTTCTTTATTAATTTCTGCTTATG
35122433 CTGATTTATTGATTAACTTGGGATTAATTGTTCTTGTTGCCTTTCAGCCATTCCAAACTTCAAGA
261 CTGATTTATTGATTAACTTGGGATTAATTGTTCTTGTTGCCTTTCAGCCATTCCAAACTTCAAGA
35122498 TCTAATTCGGCTTCGTTCTTAGGCGTCAAGAAACGTTATTCATTCATAATTTCCAGATTTCTTAC
326 TCTAATTCGGCTTCGTTCTTAGGCGTCAAGAAACGTTATTCATTCATAATTTCCAGATTTCTTAC
35122563 CGCCCAAGTATTTCTTATTCTATTCGATTTGGGTTTCTTGATCTGACAAGTTTAGTTCTCTGTTT
391 CGCCCAAGTATTTCTTATTCTATTCGATTTGGGTTTCTTGATCTGACAAGTTTAGTTCTCTGTTT
* *
35122628 TCTGTTTTCATTACAGCCAATTTGTTTGTAGAACTCAGAGGACTTTCCTGTGACTTGGCAACTCG
456 TCTGTTTTCATTACAGCCAATTTGCTTGTAGAACTCAGAGGACTTTCCCGTGACTTGGCAACTCG
35122693 ATCTTGGTCCGCGCACGATCCTCTATTTGAAGAATAT
521 ATCTTGGTCCGCGCACGATCCTCTATTTGAAGAATAT
35122730 ACATTAAAGTCAGATTTTTTTTGAGTGAAAATTCTCTTTGAGTTTTCTCCAAGAATTTTCTCTTG
1 ACATTAAAGTCAGATTTTTTTTGAGTGAAAATTCTCTTTGAGTTTTCTCCAAGAATTTTCTCTTG
* * *
35122795 AGTTTTCTTTAGAAGGAGTTTTAACAATCTTTTTTATTGTGGGAGCCATCTTCAGCCTTCTTCTT
66 AGTTTTCTTTAGAAGTAGTTTTAACAATC-TTTTGATTGTGGGAGCCATCTTCAGCCTTTTTCTT
35122860 GCC
130 GCC
35122863 ATTGTTCTGT
Statistics
Matches: 680, Mismatches: 7, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
555 3 0.00
556 36 0.05
557 605 0.89
558 36 0.05
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (557 bp):
ACATTAAAGTCAGATTTTTTTTGAGTGAAAATTCTCTTTGAGTTTTCTCCAAGAATTTTCTCTTG
AGTTTTCTTTAGAAGTAGTTTTAACAATCTTTTGATTGTGGGAGCCATCTTCAGCCTTTTTCTTG
CCGTGTTCTACATTGGAGAGGAGATTAGAGCCGTTTGAAGGGAGTTGTGAAATCTTTCGGGATTT
CAAGGCTTCTTAGGACTTTCTTTATTTTCTTGATGTTCGTTCTTCTTTATTAATTTCTGCTTATG
CTGATTTATTGATTAACTTGGGATTAATTGTTCTTGTTGCCTTTCAGCCATTCCAAACTTCAAGA
TCTAATTCGGCTTCGTTCTTAGGCGTCAAGAAACGTTATTCATTCATAATTTCCAGATTTCTTAC
CGCCCAAGTATTTCTTATTCTATTCGATTTGGGTTTCTTGATCTGACAAGTTTAGTTCTCTGTTT
TCTGTTTTCATTACAGCCAATTTGCTTGTAGAACTCAGAGGACTTTCCCGTGACTTGGCAACTCG
ATCTTGGTCCGCGCACGATCCTCTATTTGAAGAATAT
Found at i:35124557 original size:40 final size:39
Alignment explanation
Indices: 35124473--35124657 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
35124463 TTGAATGATG
* * * *
35124473 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
35124513 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
35124553 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
35124592 TCCGGGTTAAGTCCTGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCC-GAAGGCATTTGTGCGAGTTACTA-AA
*
35124633 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
35124658 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 37 0.30
40 74 0.60
41 12 0.10
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:35124611 original size:79 final size:81
Alignment explanation
Indices: 35124473--35124657 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
35124463 TTGAATGATG
* *
35124473 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
35124537 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
35124552 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCTGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCC-GAAGGCA
*
35124614 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
35124632 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
35124658 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 33 0.36
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:35124679 original size:79 final size:78
Alignment explanation
Indices: 35124474--35124690 Score: 201
Period size: 79 Copynumber: 2.7 Consensus size: 78
35124464 TGAATGATGT
** * * * * *
35124474 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTTACTATATCCGG-TTAAGATCCGAAGGCAATT
*
35124538 GTGCGAGATACTAATT
63 GTGCGAGATACTAATA
** *
35124554 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCTGAAGGCAATTG
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTATATCC-GGTTAAGATCC-GAAGGCAATTG
*
35124618 TGCGAGTTACT-ATAA
64 TGCGAGATACTAAT-A
*
35124633 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCCGGTTAA-ATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTATATCCGGTTAAGA-TCCGAAGG
35124691 TACGTGATTT
Statistics
Matches: 117, Mismatches: 12, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
78 5 0.04
79 65 0.56
80 47 0.40
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTATATCCGGTTAAGATCCGAAGGCAATTGTG
CGAGATACTAATA
Found at i:35140025 original size:13 final size:13
Alignment explanation
Indices: 35140004--35140038 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
35139994 ATAAGTTGCT
* *
35140004 GTTAGTTAAATTA
1 GTTAATTAAATAA
35140017 GTTAATTAAATAA
1 GTTAATTAAATAA
35140030 GTTAATTAA
1 GTTAATTAA
35140039 TTTGTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (13 bp):
GTTAATTAAATAA
Found at i:35140287 original size:23 final size:23
Alignment explanation
Indices: 35140261--35140324 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
35140251 ACTTTCCAGA
*
35140261 CGAATTTAATGTATGTCTT-TGGT
1 CGAATTTAATGTATGT-TTCTGGC
35140284 CGAATTTAATGTATGTTTCTGGC
1 CGAATTTAATGTATGTTTCTGGC
*
35140307 CGAATTTAATGCATGTTT
1 CGAATTTAATGTATGTTT
35140325 TAAAGGTGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 2 0.05
23 36 0.95
ACGTcount: A:0.23, C:0.11, G:0.20, T:0.45
Consensus pattern (23 bp):
CGAATTTAATGTATGTTTCTGGC
Found at i:35154810 original size:20 final size:20
Alignment explanation
Indices: 35154785--35154829 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
35154775 GTCCAAACCG
35154785 AATTAATTAG-GTCTTAG-TTT
1 AATTAATT-GTGTCTT-GTTTT
35154805 AATTAATTGTGTCTTGTTTT
1 AATTAATTGTGTCTTGTTTT
35154825 AATTA
1 AATTA
35154830 TGTGAACTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.29, C:0.04, G:0.13, T:0.53
Consensus pattern (20 bp):
AATTAATTGTGTCTTGTTTT
Found at i:35159833 original size:34 final size:33
Alignment explanation
Indices: 35159769--35159834 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
35159759 TTAAAGATGT
* *
35159769 TGTTCTACATGCATGGAACGGTAATTAATGAGA
1 TGTTCCACATGCATGGAACGGCAATTAATGAGA
*
35159802 TGTTCCACATGCAATGG-ACGGCATTTAAATGAG
1 TGTTCCACATGC-ATGGAACGGCAATT-AATGAG
35159835 GGAGAGTGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 18 0.64
34 10 0.36
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (33 bp):
TGTTCCACATGCATGGAACGGCAATTAATGAGA
Found at i:35162834 original size:18 final size:18
Alignment explanation
Indices: 35162813--35162851 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
35162803 AGCAAAGCTA
35162813 TCAAATTGTTCATTAACC
1 TCAAATTGTTCATTAACC
*
35162831 TCAACTTGTTCATTAACC
1 TCAAATTGTTCATTAACC
35162849 TCA
1 TCA
35162852 CAACCTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.38
Consensus pattern (18 bp):
TCAAATTGTTCATTAACC
Found at i:35166191 original size:15 final size:15
Alignment explanation
Indices: 35166171--35166207 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
35166161 ACTCTCCTCA
**
35166171 TTCTTTTCTTTCTTT
1 TTCTTTTCACTCTTT
35166186 TTCTTTTCACTCTTT
1 TTCTTTTCACTCTTT
35166201 TTCTTTT
1 TTCTTTT
35166208 TCTCGCTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.76
Consensus pattern (15 bp):
TTCTTTTCACTCTTT
Found at i:35170529 original size:79 final size:78
Alignment explanation
Indices: 35170427--35170649 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
35170417 GCTCCTCGTT
* *
35170427 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
35170492 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
35170507 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
35170570 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
35170585 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
35170648 GA
63 GA
35170650 CATCATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.38
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:35170544 original size:39 final size:40
Alignment explanation
Indices: 35170427--35170649 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
35170417 GCTCCTCGTT
* *
35170427 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
35170467 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
35170507 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
35170546 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
35170585 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
35170626 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35170650 CATCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:35178669 original size:39 final size:40
Alignment explanation
Indices: 35178574--35178796 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
35178564 TTGAATGATG
*
35178574 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
35178612 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
35178653 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
35178692 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
35178731 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
35178770 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
35178797 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 12, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 58 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:35178768 original size:79 final size:81
Alignment explanation
Indices: 35178574--35178796 Score: 266
Period size: 79 Copynumber: 2.8 Consensus size: 81
35178564 TTGAATGATG
* * *
35178574 TCCGGGCTAAGTCCCGAAGGC--TTGTGCT-AAGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTG-TGAA-TTACTAATATCCGGGCTAAGACCCGAAGGCA
*
35178635 TTTGTGCGAGATACTAAT
64 TTTGTGCGAGATACTAAA
*
35178653 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGA-ATTACTAATATCCGGGCTAAGACCCGAAGGCAT
*
35178714 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * *
35178731 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAATTACTAATATCCGGGCTAAGACCCGAAGGCATT
35178795 TG
66 TG
35178797 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 10, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
78 47 0.38
79 54 0.43
80 23 0.18
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGTGAATTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:35178818 original size:79 final size:79
Alignment explanation
Indices: 35178574--35178829 Score: 208
Period size: 79 Copynumber: 3.3 Consensus size: 79
35178564 TTGAATGATG
* * * *
35178574 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
35178635 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
35178653 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
35178717 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
* *
35178731 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
35178794 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
35178811 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
35178830 TACGTGATTT
Statistics
Matches: 152, Mismatches: 15, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 68 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:35180809 original size:79 final size:78
Alignment explanation
Indices: 35180707--35180929 Score: 249
Period size: 79 Copynumber: 2.8 Consensus size: 78
35180697 GCTCCTCGTT
* *
35180707 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCACACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCACACAAATGCCTTCGGGACTTAGCCCGG
*
35180772 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
35180787 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCACACAAATGCCTTCGGGACTTAGCCCGG
*
35180850 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * *
35180865 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTT-AGCAC-AA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCA-CACAAATGCCTTCGGGACTTAGCCC
35180927 GGA
62 GGA
35180930 CATCATTCAA
Statistics
Matches: 123, Mismatches: 12, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
78 47 0.38
79 56 0.46
80 19 0.15
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCACACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:35180824 original size:39 final size:40
Alignment explanation
Indices: 35180707--35180929 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
35180697 GCTCCTCGTT
* * *
35180707 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
35180747 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
35180787 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
35180826 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
35180865 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
35180906 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35180930 CATCATTCAA
Statistics
Matches: 165, Mismatches: 10, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 63 0.38
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:35183665 original size:27 final size:27
Alignment explanation
Indices: 35183634--35183685 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
35183624 ACAAGTGAGG
35183634 AAAAAGAAAAAGAGAATGAAAAGGAGC
1 AAAAAGAAAAAGAGAATGAAAAGGAGC
* ** *
35183661 AAAAAGAGATTGAGAGTGAAAAGGA
1 AAAAAGAAAAAGAGAATGAAAAGGA
35183686 ATGTGAAACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.62, C:0.02, G:0.29, T:0.08
Consensus pattern (27 bp):
AAAAAGAAAAAGAGAATGAAAAGGAGC
Found at i:35191674 original size:40 final size:40
Alignment explanation
Indices: 35191529--35191674 Score: 149
Period size: 40 Copynumber: 3.7 Consensus size: 40
35191519 GCTCCTCGTT
* *
35191529 CAAATGCCTTCGGGA-CATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATATAGT-ATTCGCA
* *
35191569 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATATAGTAT-TCGCA
* * * *
35191609 CAAATGCCTT-TGGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGATCTTAGCCCGGATATAGT-A-TTCGCA
35191650 CAAA-GCCTTCGGGA-CTTAGCCCGGA
1 CAAATGCCTTCGGGATCTTAGCCCGGA
35191675 CATCATTCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
39 5 0.05
40 73 0.80
41 12 0.13
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGATCTTAGCCCGGATATAGTATTCGCA
Found at i:35199671 original size:13 final size:13
Alignment explanation
Indices: 35199653--35199677 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35199643 TAAACTACCA
35199653 TCTTTTTTTTTTC
1 TCTTTTTTTTTTC
35199666 TCTTTTTTTTTT
1 TCTTTTTTTTTT
35199678 GAAAAACATG
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:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TCTTTTTTTTTTC
Found at i:35203972 original size:21 final size:21
Alignment explanation
Indices: 35203907--35203978 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 21
35203897 AAAACAAGTG
*
35203907 AGGAAAAAGAAAAAGAAGAGAA
1 AGGAAAATGAAAAAGAAGA-AA
*
35203929 A-AATACAAGTGAAAAAGAAGAAA
1 AGGA-A-AA-TGAAAAAGAAGAAA
* **
35203952 ATGAAAATGAAAAAGGCGAAA
1 AGGAAAATGAAAAAGAAGAAA
35203973 AGGAAA
1 AGGAAA
35203979 GCGAGAGAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
21 18 0.45
22 4 0.10
23 6 0.15
24 12 0.30
ACGTcount: A:0.68, C:0.03, G:0.24, T:0.06
Consensus pattern (21 bp):
AGGAAAATGAAAAAGAAGAAA
Found at i:35204077 original size:36 final size:33
Alignment explanation
Indices: 35204012--35204078 Score: 80
Period size: 33 Copynumber: 1.9 Consensus size: 33
35204002 GTGAATGAAG
*
35204012 TGAGTGAACAAGAGAGAGAGCTTAAACAAGGAA
1 TGAGTGAACAAGAGAGAGAGCTAAAACAAGGAA
* *
35204045 TGAGTGAAGAAGAAGAGAGTGCTCAAACACAAGG
1 TGAGTGAACAAG-AGAGAGAGCT-AAA-ACAAGG
35204079 GAGGAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 11 0.39
34 9 0.32
35 2 0.07
36 6 0.21
ACGTcount: A:0.46, C:0.10, G:0.31, T:0.12
Consensus pattern (33 bp):
TGAGTGAACAAGAGAGAGAGCTAAAACAAGGAA
Found at i:35206867 original size:36 final size:36
Alignment explanation
Indices: 35206766--35206868 Score: 136
Period size: 36 Copynumber: 2.9 Consensus size: 36
35206756 AGAACAATTG
* * *
35206766 GAACAATTAGGTGAAGAAGTACAATGCATCAGGAAT
1 GAACAATTAGGCGAAGAAGTACAATGCGTCAGGAAC
* *
35206802 GAACAATGAGGCGAAGAAGTACAACGCGTCAGGAAC
1 GAACAATTAGGCGAAGAAGTACAATGCGTCAGGAAC
*
35206838 GAACAATTAGGCGAAGAAAG-ATAATGCGTCA
1 GAACAATTAGGCGAAG-AAGTACAATGCGTCA
35206869 CAGTCCCCCA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
36 55 0.95
37 3 0.05
ACGTcount: A:0.44, C:0.15, G:0.27, T:0.15
Consensus pattern (36 bp):
GAACAATTAGGCGAAGAAGTACAATGCGTCAGGAAC
Found at i:35207464 original size:27 final size:27
Alignment explanation
Indices: 35207425--35207477 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
35207415 ATGTGTTTTT
*
35207425 ATTTTAATGCATGTTATTAATG-TGTCA
1 ATTTTAATACATGTT-TTAATGATGTCA
*
35207452 ATTTTATTACATGTTTTAATGATGTC
1 ATTTTAATACATGTTTTAATGATGTC
35207478 CAAAGTCCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.28, C:0.08, G:0.13, T:0.51
Consensus pattern (27 bp):
ATTTTAATACATGTTTTAATGATGTCA
Found at i:35216783 original size:16 final size:16
Alignment explanation
Indices: 35216762--35216793 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
35216752 TAATGTGTTT
35216762 TGCTGCTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
35216778 TGCTGCTGTTGTTTAA
1 TGCTGCTGTTGTTTAA
35216794 ATGCAGAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.25, T:0.50
Consensus pattern (16 bp):
TGCTGCTGTTGTTTAA
Found at i:35217118 original size:72 final size:73
Alignment explanation
Indices: 35216980--35217127 Score: 183
Period size: 72 Copynumber: 2.0 Consensus size: 73
35216970 GCAGGTACAT
* * *
35216980 GGACGGCATTTAAAGAAAAGGTGGCTGCTGCATTTTTCCAAAGCTGCCAAATTTATTGAGTGCAT
1 GGACGGCATTTAAAGAAAAGGTGGCTGCTGCATTTTTCCAAACCAGCCAAATTTAGTGAGTGCAT
35217045 GGGACTTG
66 GGGACTTG
* * * * * * *
35217053 GGACGGCATTTAAAGCGAAA-GTTGCTGTTGTA-TTTTCCCAACCAGCCGAATTTAGTGTGTGCA
1 GGACGGCATTTAAAG-AAAAGGTGGCTGCTGCATTTTTCCAAACCAGCCAAATTTAGTGAGTGCA
35217116 TGGGACTTG
65 TGGGACTTG
35217125 GGA
1 GGA
35217128 TAGCATTAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
72 37 0.58
73 24 0.38
74 3 0.05
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (73 bp):
GGACGGCATTTAAAGAAAAGGTGGCTGCTGCATTTTTCCAAACCAGCCAAATTTAGTGAGTGCAT
GGGACTTG
Found at i:35219315 original size:18 final size:18
Alignment explanation
Indices: 35219259--35219318 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
35219249 AGTGCGAGCG
35219259 AGAAAAAGAAATCAAAAGAAA
1 AGAAAAAGAAATC--AA-AAA
* **
35219280 AGAAAAAGAGATTGAAAA
1 AGAAAAAGAAATCAAAAA
35219298 AGAAAAAGAAATCAAAAA
1 AGAAAAAGAAATCAAAAA
35219316 AGA
1 AGA
35219319 GAGTGAGGTC
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
18 21 0.64
19 1 0.03
21 11 0.33
ACGTcount: A:0.73, C:0.03, G:0.17, T:0.07
Consensus pattern (18 bp):
AGAAAAAGAAATCAAAAA
Found at i:35221707 original size:72 final size:73
Alignment explanation
Indices: 35221572--35221719 Score: 192
Period size: 72 Copynumber: 2.0 Consensus size: 73
35221562 GCAGGTACAT
* * *
35221572 GGACGGCATTTAAAGAAAAGGTGGCTGCTGCATTTTTCCAAAGCTGCCGAATTTATTGAGTGCAT
1 GGACGGCATTTAAAGAAAAGGTGGCTGCTGCATTTTTCCAAACCAGCCGAATTTAGTGAGTGCAT
35221637 GGGACTTG
66 GGGACTTG
* * * * * *
35221645 GGACGGCATTTAAAGCGAAA-GTTGCTGTTGTA-TTTTCCCAACCAGCCGAATTTAGTGTGTGCA
1 GGACGGCATTTAAAG-AAAAGGTGGCTGCTGCATTTTTCCAAACCAGCCGAATTTAGTGAGTGCA
35221708 TGGGACTTG
65 TGGGACTTG
35221717 GGA
1 GGA
35221720 TAGCATTAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
72 38 0.58
73 24 0.37
74 3 0.05
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (73 bp):
GGACGGCATTTAAAGAAAAGGTGGCTGCTGCATTTTTCCAAACCAGCCGAATTTAGTGAGTGCAT
GGGACTTG
Found at i:35227097 original size:21 final size:22
Alignment explanation
Indices: 35227064--35227118 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
35227054 TGCTTCTCTC
* *
35227064 TCAC-TTTCCTTTTCTCCTTTT
1 TCACTTTTCATTTTCTCATTTT
*
35227085 TCA-TTTTCATTTTCTTATTTT
1 TCACTTTTCATTTTCTCATTTT
35227106 TCACTTTT-ATTTT
1 TCACTTTTCATTTT
35227119 TCTCTTCTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 25 0.86
22 4 0.14
ACGTcount: A:0.11, C:0.22, G:0.00, T:0.67
Consensus pattern (22 bp):
TCACTTTTCATTTTCTCATTTT
Found at i:35235734 original size:19 final size:18
Alignment explanation
Indices: 35235698--35235737 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
35235688 TTTTCACTCA
*
35235698 TTTCTTTTTCAACTTCTC
1 TTTCTTTTTCAACATCTC
*
35235716 TTTCTTTTTCCACAATCTC
1 TTTCTTTTTCAAC-ATCTC
35235735 TTT
1 TTT
35235738 GTTTGTTGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTCTTTTTCAACATCTC
Found at i:35236822 original size:13 final size:13
Alignment explanation
Indices: 35236801--35236849 Score: 73
Period size: 13 Copynumber: 3.8 Consensus size: 13
35236791 TAGCTCTTTC
35236801 TTTTT-ACAATTT
1 TTTTTCACAATTT
35236813 TTTTTCACAAATTT
1 TTTTTCAC-AATTT
*
35236827 TTTTTCAAAATTT
1 TTTTTCACAATTT
35236840 TTTTTCACAA
1 TTTTTCACAA
35236850 CTTGATATCC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
12 5 0.15
13 16 0.48
14 12 0.36
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.59
Consensus pattern (13 bp):
TTTTTCACAATTT
Found at i:35236827 original size:14 final size:14
Alignment explanation
Indices: 35236808--35236849 Score: 77
Period size: 14 Copynumber: 3.1 Consensus size: 14
35236798 TTCTTTTTAC
35236808 AATTTTTTTTCACA
1 AATTTTTTTTCACA
35236822 AATTTTTTTTCA-A
1 AATTTTTTTTCACA
35236835 AATTTTTTTTCACA
1 AATTTTTTTTCACA
35236849 A
1 A
35236850 CTTGATATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 13 0.48
14 14 0.52
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.57
Consensus pattern (14 bp):
AATTTTTTTTCACA
Found at i:35236902 original size:13 final size:12
Alignment explanation
Indices: 35236884--35236915 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
35236874 GAATGGAAAC
35236884 TTTTTTTTTCGAA
1 TTTTTTTTT-GAA
35236897 TTTTTTTTTGAA
1 TTTTTTTTTGAA
35236909 TTTTTTT
1 TTTTTTT
35236916 GAGTTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.12, C:0.03, G:0.06, T:0.78
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:35241271 original size:40 final size:40
Alignment explanation
Indices: 35241175--35241342 Score: 203
Period size: 40 Copynumber: 4.2 Consensus size: 40
35241165 CTCGTTCAAG
* * * *
35241175 TGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AA
1 TGCCTTCGGGACATAACCCGGATTTAATAACTCGCACGAA
* *
35241214 TGCCTTCGGGACATAACCCGGATTCAACAACTCGCACGAA
1 TGCCTTCGGGACATAACCCGGATTTAATAACTCGCACGAA
* *
35241254 TGCCTTCGGGACTTAACCCGGATTTAATAATTCGCACGAA
1 TGCCTTCGGGACATAACCCGGATTTAATAACTCGCACGAA
* * * * *
35241294 TGCCTTCGGGACTTAACCCGGATTTAGTATCTTGCACAAA
1 TGCCTTCGGGACATAACCCGGATTTAATAACTCGCACGAA
*
35241334 GGCCTTCGG
1 TGCCTTCGG
35241343 ATCTTAGTCC
Statistics
Matches: 112, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 31 0.28
40 81 0.72
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCCTTCGGGACATAACCCGGATTTAATAACTCGCACGAA
Found at i:35241339 original size:80 final size:79
Alignment explanation
Indices: 35241176--35241395 Score: 217
Period size: 80 Copynumber: 2.8 Consensus size: 79
35241166 TCGTTCAAGT
* * * * * *
35241176 GCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATTCAA
1 GCCTTCGGGACTTAGCCCGGATTTAATAATTCGCACAATGCCTTCGGGACTTAACCCGGATTCAA
* *
35241241 CAACTCGCACGAAT
66 CAACTCGCACAAAG
* *
35241255 GCCTTCGGGACTTAACCCGGATTTAATAATTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAGCCCGGATTTAATAATTCGCAC-AATGCCTTCGGGACTTAACCCGGATTCA
** * *
35241320 GTATCTTGCACAAAG
65 ACAACTCGCACAAAG
* * * * * * *
35241335 GCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGA-CTTAGCCCGGATTTAAT-AATTCGCACAATGCCTTCGGGACTTAACCCGGA
35241396 CAGCATTCAA
Statistics
Matches: 116, Mismatches: 22, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
79 33 0.28
80 76 0.66
81 7 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
GCCTTCGGGACTTAGCCCGGATTTAATAATTCGCACAATGCCTTCGGGACTTAACCCGGATTCAA
CAACTCGCACAAAG
Found at i:35241355 original size:40 final size:40
Alignment explanation
Indices: 35241176--35241395 Score: 132
Period size: 40 Copynumber: 5.5 Consensus size: 40
35241166 TCGTTCAAGT
* * * * * *
35241176 GCCTTCGGGACATAGCCCGGTTTTAGTAACTCA-CACAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTTAGCACAAA
* * * * *
35241215 GCCTTCGGGACATAACCCGGAT-TCA-ACAAC-TCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATAT-AGTC-ACTTAGCAC-AAA
* * * * * *
35241255 GCCTTCGGGACTTAACCCGGATTTAAT-AATTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTTAGCAC-AAA
* *
35241295 GCCTTCGGGACTTAACCCGGATTTAGT-ATCTT-GCACAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCA-CTTAGCACAAA
* *
35241334 GGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAA
1 -GCCTTCGGGA-CTTAGCCCGGATATAGTCACTTAGCACAAA
35241375 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAGCCCGGA
35241396 CAGCATTCAA
Statistics
Matches: 151, Mismatches: 17, Indels: 25
0.78 0.09 0.13
Matches are distributed among these distances:
38 1 0.01
39 32 0.21
40 104 0.69
41 14 0.09
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTTAGCACAAA
Found at i:35241404 original size:41 final size:41
Alignment explanation
Indices: 35241327--35241404 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
35241317 TTAGTATCTT
* * *
35241327 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
35241368 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
35241405 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:35249085 original size:39 final size:39
Alignment explanation
Indices: 35249042--35249206 Score: 185
Period size: 39 Copynumber: 4.3 Consensus size: 39
35249032 TCCTCGTTCA
* * *
35249042 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGG-ATTAGTAACTCGCACG
**
35249081 AATGCCTTCGGGACATAACCCGGATTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTAGTAACTCGCACG
* *
35249120 AATGCCTTCGGGACTTAACCC-GATTA-AAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTAGTAACTCGCACG
* * *
35249157 AATGCC-TCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACATAACCCGGA-TTAGTAACTCGCACG
*
35249196 AAGGCCTTCGG
1 AATGCCTTCGG
35249207 ATCTTAGTCC
Statistics
Matches: 110, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
36 14 0.13
37 18 0.16
38 19 0.17
39 55 0.50
40 4 0.04
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (39 bp):
AATGCCTTCGGGACATAACCCGGATTAGTAACTCGCACG
Found at i:35255680 original size:27 final size:27
Alignment explanation
Indices: 35255649--35255826 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
35255639 TAAATTGTAC
35255649 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
35255676 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35255702 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
35255730 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
35255758 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35255785 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
35255812 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35255827 GACTCGATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:35255763 original size:82 final size:81
Alignment explanation
Indices: 35255650--35255805 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
35255640 AAATTGTACA
*
35255650 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
35255714 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
35255731 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
35255796 TGCGAGTTGA
65 TGCGAATTGA
35255806 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:35255817 original size:82 final size:81
Alignment explanation
Indices: 35255646--35255826 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
35255636 GATTAAATTG
*
35255646 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
35255711 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
35255727 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
35255791 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
35255809 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
35255827 GACTCGATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:35264171 original size:27 final size:27
Alignment explanation
Indices: 35264141--35264244 Score: 122
Period size: 27 Copynumber: 3.9 Consensus size: 27
35264131 CACGTTAGGT
*
35264141 AAGAAAAGCCTTTGTGGTGTAATATGA
1 AAGAAAAGCCTTTGTGGCGTAATATGA
* * *
35264168 AAGAAAA-AC-ATGTGGCATAATATGA
1 AAGAAAAGCCTTTGTGGCGTAATATGA
* *
35264193 AAGAAAAGCCTTTGTGGCGCAAAATGA
1 AAGAAAAGCCTTTGTGGCGTAATATGA
* *
35264220 AAGAAAAGCCTTTGTAGTGTAATAT
1 AAGAAAAGCCTTTGTGGCGTAATAT
35264245 TGAAGGAATT
Statistics
Matches: 62, Mismatches: 13, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
25 20 0.32
26 2 0.03
27 40 0.65
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.25
Consensus pattern (27 bp):
AAGAAAAGCCTTTGTGGCGTAATATGA
Found at i:35276949 original size:15 final size:15
Alignment explanation
Indices: 35276929--35276964 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
35276919 TGTCTCGAGA
*
35276929 AGAATTTTTCGAGTC
1 AGAATTTTTCGAATC
*
35276944 AGAATTTTTTGAATC
1 AGAATTTTTCGAATC
35276959 AGAATT
1 AGAATT
35276965 CCAATATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (15 bp):
AGAATTTTTCGAATC
Found at i:35277446 original size:12 final size:13
Alignment explanation
Indices: 35277429--35277468 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
35277419 AAATAGCATG
35277429 TGAAAAAGAAAAA
1 TGAAAAAGAAAAA
*
35277442 T-AAAAAG-AAAT
1 TGAAAAAGAAAAA
35277453 TGAAAAAG-AAAA
1 TGAAAAAGAAAAA
35277465 TGAA
1 TGAA
35277469 CATGAACATG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 4 0.17
12 19 0.79
13 1 0.04
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.12
Consensus pattern (13 bp):
TGAAAAAGAAAAA
Found at i:35277543 original size:27 final size:26
Alignment explanation
Indices: 35277496--35277552 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
35277486 ACAAGAAATT
* *
35277496 GAAAAAGAAAATGAGAGTGAGAGTGA
1 GAAAAAGAAAAAGACAGTGAGAGTGA
* *
35277522 GAAAAAGAAAAAAGACATTGAGATTGA
1 GAAAAAG-AAAAAGACAGTGAGAGTGA
35277549 -AAAA
1 GAAAA
35277553 GGATTTGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.60, C:0.02, G:0.26, T:0.12
Consensus pattern (26 bp):
GAAAAAGAAAAAGACAGTGAGAGTGA
Found at i:35279565 original size:20 final size:20
Alignment explanation
Indices: 35279532--35279582 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
35279522 GTCCTAACCG
35279532 AATTAATTAG-GTCTTAATTT
1 AATTAATT-GTGTCTTAATTT
**
35279552 AATTAATTGTGTCTTGTTTT
1 AATTAATTGTGTCTTAATTT
35279572 AATTTAATTGT
1 AA-TTAATTGT
35279583 CCAGATTATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 1 0.04
20 18 0.67
21 8 0.30
ACGTcount: A:0.29, C:0.04, G:0.12, T:0.55
Consensus pattern (20 bp):
AATTAATTGTGTCTTAATTT
Found at i:35281797 original size:14 final size:14
Alignment explanation
Indices: 35281778--35281833 Score: 73
Period size: 14 Copynumber: 4.2 Consensus size: 14
35281768 CTAGTTTAAA
35281778 TTTAGTGCCGAAAC
1 TTTAGTGCCGAAAC
35281792 TTTAGTGCCGAAAC
1 TTTAGTGCCGAAAC
**
35281806 TTTAGT--TTAAA-
1 TTTAGTGCCGAAAC
35281817 TTTAGTGCCGAAAC
1 TTTAGTGCCGAAAC
35281831 TTT
1 TTT
35281834 CCATATCAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
11 6 0.17
12 3 0.09
13 3 0.09
14 23 0.66
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.38
Consensus pattern (14 bp):
TTTAGTGCCGAAAC
Found at i:35287516 original size:20 final size:20
Alignment explanation
Indices: 35287488--35287551 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
35287478 GCTGAAAGAA
* *
35287488 AGCTAAATTGAGCTCGAAGG
1 AGCTGAATTGAGCTCAAAGG
*
35287508 AGCTGAATTGAGCTCAAATG
1 AGCTGAATTGAGCTCAAAGG
* *
35287528 AGCTG-ATTGGAGCTGAAACG
1 AGCTGAATT-GAGCTCAAAGG
35287548 AGCT
1 AGCT
35287552 AAAGGAGCTG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
19 3 0.08
20 35 0.92
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.22
Consensus pattern (20 bp):
AGCTGAATTGAGCTCAAAGG
Found at i:35290064 original size:12 final size:12
Alignment explanation
Indices: 35290047--35290071 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35290037 CCTTATACAC
35290047 ATTACACATTGA
1 ATTACACATTGA
35290059 ATTACACATTGA
1 ATTACACATTGA
35290071 A
1 A
35290072 ATCAGCTTTT
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:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (12 bp):
ATTACACATTGA
Found at i:35290920 original size:27 final size:27
Alignment explanation
Indices: 35290854--35290926 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
35290844 TCTGTTGTTA
* * *
35290854 GAAAAAGGAGAAGAGAAAAATAAAAGT
1 GAAAAAGAAGAAAAGGAAAATAAAAGT
*
35290881 GAAAAAGAAGAAAATGAAAATGAAAA-T
1 GAAAAAGAAGAAAAGGAAAAT-AAAAGT
**
35290908 GAAAAAGGCGAAAAGGAAA
1 GAAAAAGAAGAAAAGGAAA
35290927 GCGAGAGAGA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 34 0.89
28 4 0.11
ACGTcount: A:0.67, C:0.01, G:0.25, T:0.07
Consensus pattern (27 bp):
GAAAAAGAAGAAAAGGAAAATAAAAGT
Found at i:35297212 original size:27 final size:27
Alignment explanation
Indices: 35297165--35297216 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
35297155 CTTTCTTTTC
*
35297165 TTTCTTTTTCAATCTTTTCTTTTTCAG
1 TTTCTTTTTCAATCTTCTCTTTTTCAG
*
35297192 TTTCTTTTTCGATGC-TCTCTTTTTC
1 TTTCTTTTTCAAT-CTTCTCTTTTTC
35297217 TTTAGCTTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.08, C:0.21, G:0.06, T:0.65
Consensus pattern (27 bp):
TTTCTTTTTCAATCTTCTCTTTTTCAG
Found at i:35308806 original size:29 final size:29
Alignment explanation
Indices: 35308764--35308831 Score: 136
Period size: 29 Copynumber: 2.3 Consensus size: 29
35308754 CATCCTTAAA
35308764 GCATCCACTCGTTGAAGGAAGACATTCAT
1 GCATCCACTCGTTGAAGGAAGACATTCAT
35308793 GCATCCACTCGTTGAAGGAAGACATTCAT
1 GCATCCACTCGTTGAAGGAAGACATTCAT
35308822 GCATCCACTC
1 GCATCCACTC
35308832 ATACAATGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (29 bp):
GCATCCACTCGTTGAAGGAAGACATTCAT
Found at i:35309222 original size:19 final size:20
Alignment explanation
Indices: 35309185--35309231 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
35309175 TGAGCTCAAG
*
35309185 TGAGCTGATTGGAGCTGAAA-
1 TGAGCT-ATGGGAGCTGAAAT
*
35309205 TGAGCTATGGGAGTTGAAAT
1 TGAGCTATGGGAGCTGAAAT
35309225 TGAGCTA
1 TGAGCTA
35309232 AAGTCAGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.30, C:0.09, G:0.34, T:0.28
Consensus pattern (20 bp):
TGAGCTATGGGAGCTGAAAT
Found at i:35326209 original size:14 final size:16
Alignment explanation
Indices: 35326178--35326210 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
35326168 AGAAATTGGC
35326178 AAAAGTATAAGCAAAG
1 AAAAGTATAAGCAAAG
35326194 AAAAGTA-AAG-AAAG
1 AAAAGTATAAGCAAAG
35326208 AAA
1 AAA
35326211 TCGAAAACAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 3 0.18
16 7 0.41
ACGTcount: A:0.70, C:0.03, G:0.18, T:0.09
Consensus pattern (16 bp):
AAAAGTATAAGCAAAG
Found at i:35351511 original size:10 final size:10
Alignment explanation
Indices: 35351495--35351552 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
35351485 CAACTCCGAC
35351495 CAGCTCAATT
1 CAGCTCAATT
* *
35351505 GAGCTCATTT
1 CAGCTCAATT
35351515 CAGCTCAA-T
1 CAGCTCAATT
35351524 CGAGCTCAATT
1 C-AGCTCAATT
*
35351535 TAGCTACAATT
1 CAGCT-CAATT
35351546 CAGCTCA
1 CAGCTCA
35351553 TTTATTTTGT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:35351518 original size:20 final size:20
Alignment explanation
Indices: 35351495--35351555 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
35351485 CAACTCCGAC
35351495 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
35351515 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
35351536 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
35351556 ATTTTGTTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:35353227 original size:16 final size:18
Alignment explanation
Indices: 35353208--35353249 Score: 63
Period size: 16 Copynumber: 2.5 Consensus size: 18
35353198 AAAGAATTAA
35353208 AAAGAAAAAGA-AATTC-
1 AAAGAAAAAGATAATTCG
35353224 AAAG-AAAAGATAATTCG
1 AAAGAAAAAGATAATTCG
35353241 AAAGAAAAA
1 AAAGAAAAA
35353250 AAAAGAGTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 6 0.26
16 9 0.39
17 4 0.17
18 4 0.17
ACGTcount: A:0.69, C:0.05, G:0.14, T:0.12
Consensus pattern (18 bp):
AAAGAAAAAGATAATTCG
Found at i:35355552 original size:25 final size:26
Alignment explanation
Indices: 35355512--35355572 Score: 106
Period size: 25 Copynumber: 2.4 Consensus size: 26
35355502 TAGTTTCTCG
*
35355512 AAAAAAAACTCGAAAAAAAAATTCAA
1 AAAAAAAATTCGAAAAAAAAATTCAA
35355538 AAAAAAAATTC-AAAAAAAAATTCAA
1 AAAAAAAATTCGAAAAAAAAATTCAA
35355563 AAAAAAAATT
1 AAAAAAAATT
35355573 TGGTTTCCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 24 0.71
26 10 0.29
ACGTcount: A:0.75, C:0.08, G:0.02, T:0.15
Consensus pattern (26 bp):
AAAAAAAATTCGAAAAAAAAATTCAA
Found at i:35355570 original size:13 final size:13
Alignment explanation
Indices: 35355512--35355572 Score: 97
Period size: 13 Copynumber: 4.8 Consensus size: 13
35355502 TAGTTTCTCG
* *
35355512 AAAAAAAACTCGA
1 AAAAAAAATTCAA
35355525 AAAAAAAATTCAA
1 AAAAAAAATTCAA
35355538 AAAAAAAATTC-A
1 AAAAAAAATTCAA
35355550 AAAAAAAATTCAA
1 AAAAAAAATTCAA
35355563 AAAAAAAATT
1 AAAAAAAATT
35355573 TGGTTTCCAT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
12 12 0.27
13 33 0.73
ACGTcount: A:0.75, C:0.08, G:0.02, T:0.15
Consensus pattern (13 bp):
AAAAAAAATTCAA
Found at i:35355651 original size:17 final size:16
Alignment explanation
Indices: 35355612--35355650 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
35355602 TATCAAGTTG
35355612 AAAAAAATTTCATGAA
1 AAAAAAATTTCATGAA
*
35355628 AAAAAAATTTCGTGAA
1 AAAAAAATTTCATGAA
35355644 AAAAAAA
1 AAAAAAA
35355651 AGAAGAAGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.67, C:0.05, G:0.08, T:0.21
Consensus pattern (16 bp):
AAAAAAATTTCATGAA
Found at i:35373635 original size:29 final size:27
Alignment explanation
Indices: 35373573--35373635 Score: 65
Period size: 29 Copynumber: 2.3 Consensus size: 27
35373563 TTTAACTTGA
*
35373573 TTTTTTTTTGCTCACCTTTTTTTTCTTT
1 TTTTTTTTTGCTCA-CTTTTTTTTCATT
**
35373601 TCTTTTTTTTGCTCGA-TTTTTTTTCACA
1 T-TTTTTTTTGCTC-ACTTTTTTTTCATT
35373629 TTTTTTT
1 TTTTTTT
35373636 GAATTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 6 0.20
28 11 0.37
29 12 0.40
30 1 0.03
ACGTcount: A:0.06, C:0.16, G:0.05, T:0.73
Consensus pattern (27 bp):
TTTTTTTTTGCTCACTTTTTTTTCATT
Found at i:35373666 original size:11 final size:11
Alignment explanation
Indices: 35373616--35373681 Score: 55
Period size: 11 Copynumber: 5.7 Consensus size: 11
35373606 TTTTTGCTCG
*
35373616 ATTTTTTTTCA
1 ATTTTTTTTGA
35373627 CA-TTTTTTTGA
1 -ATTTTTTTTGA
*
35373638 ATTTTTTTTCAATCA
1 A-TTTTTTT---TGA
35373653 ATTTTTTTTGA
1 ATTTTTTTTGA
35373664 ATTTTTTTTG-
1 ATTTTTTTTGA
35373674 ATTTTTTT
1 ATTTTTTT
35373682 GTTACTCCAA
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
10 9 0.20
11 20 0.43
12 7 0.15
14 7 0.15
15 3 0.07
ACGTcount: A:0.18, C:0.06, G:0.05, T:0.71
Consensus pattern (11 bp):
ATTTTTTTTGA
Found at i:35382570 original size:11 final size:11
Alignment explanation
Indices: 35382554--35382597 Score: 88
Period size: 11 Copynumber: 4.0 Consensus size: 11
35382544 TAGTAGTTTC
35382554 TTCAAAAAAAA
1 TTCAAAAAAAA
35382565 TTCAAAAAAAA
1 TTCAAAAAAAA
35382576 TTCAAAAAAAA
1 TTCAAAAAAAA
35382587 TTCAAAAAAAA
1 TTCAAAAAAAA
35382598 AATTGGTTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 33 1.00
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (11 bp):
TTCAAAAAAAA
Found at i:35404065 original size:40 final size:40
Alignment explanation
Indices: 35403967--35404229 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
35403957 TCCTCGTTCA
* * * * *
35403967 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
35404006 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
35404046 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
35404086 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
35404126 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
35404166 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
35404206 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
35404230 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:35404238 original size:41 final size:41
Alignment explanation
Indices: 35404161--35404238 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
35404151 TTAGTATCTC
* * *
35404161 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
35404202 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
35404239 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:35408154 original size:24 final size:24
Alignment explanation
Indices: 35408127--35408177 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
35408117 TTAAGCTTGG
*
35408127 GTTGGGCCTTTGTGACTCGTATCA
1 GTTGGGCCTTTATGACTCGTATCA
35408151 GTTGGGCCTTTATGACTCGTATCA
1 GTTGGGCCTTTATGACTCGTATCA
35408175 GTT
1 GTT
35408178 CTTGTTTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.14, C:0.20, G:0.27, T:0.39
Consensus pattern (24 bp):
GTTGGGCCTTTATGACTCGTATCA
Found at i:35416912 original size:79 final size:82
Alignment explanation
Indices: 35416795--35416979 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
35416785 GCTACTCGTT
* * * *
35416795 CAAATGCCTTCGGGACATAGCCCAG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
35416858 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
35416875 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
35416938 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
35416955 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35416980 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.59
80 34 0.38
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:35416979 original size:40 final size:40
Alignment explanation
Indices: 35416776--35416979 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
35416766 CGGAATTTAA
** *
35416776 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
35416816 CCAGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
35416856 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
35416895 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
35416935 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
35416975 CCGGA
1 CCGGA
35416980 CATCATTCAA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 90 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:35424171 original size:40 final size:40
Alignment explanation
Indices: 35424141--35424324 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
35424131 GCTACTCGTT
*
35424141 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
35424181 CAATTGCCTTCGGGACTTAACCCGGATT-TAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
35424221 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
35424260 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
35424301 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
35424325 ACATCATTCA
Statistics
Matches: 120, Mismatches: 16, Indels: 16
0.79 0.11 0.11
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 74 0.62
41 14 0.12
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:35424252 original size:79 final size:82
Alignment explanation
Indices: 35424141--35424325 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
35424131 GCTACTCGTT
* * *
35424141 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
*
35424204 GGATTTAGTAACTCA-CA
65 GGATATAGTAACTCAGCA
* **
35424221 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* * *
35424284 GATATGGTCACTTAGCA
66 GATATAGTAACTCAGCA
35424301 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35424326 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 56 0.62
80 32 0.35
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTCAGCA
Found at i:35431498 original size:14 final size:15
Alignment explanation
Indices: 35431479--35431519 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
35431469 GTTGTAAAGT
35431479 TTTATTTTTATTTA-
1 TTTATTTTTATTTAG
*
35431493 TTTATTTTTACTTAG
1 TTTATTTTTATTTAG
35431508 TTTAATTTTTAT
1 TTT-ATTTTTAT
35431520 GTAAATATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 13 0.57
15 3 0.13
16 7 0.30
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (15 bp):
TTTATTTTTATTTAG
Found at i:35434459 original size:21 final size:21
Alignment explanation
Indices: 35434433--35434495 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
35434423 TTGGTATTTG
**
35434433 GGAATTGGCTCGAAATGGTAT
1 GGAATTGGAACGAAATGGTAT
35434454 GGAATTGGAACGAAATGGTAT
1 GGAATTGGAACGAAATGGTAT
* * *
35434475 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGAACGAAATGGTA
35434496 ATGGTTCAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 21 0.58
22 15 0.42
ACGTcount: A:0.30, C:0.06, G:0.33, T:0.30
Consensus pattern (21 bp):
GGAATTGGAACGAAATGGTAT
Found at i:35434488 original size:22 final size:22
Alignment explanation
Indices: 35434443--35434500 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
35434433 GGAATTGGCT
35434443 CGAAATGGTATGG-AATTGGAA
1 CGAAATGGTATGGTAATTGGAA
* *
35434464 CGAAATGGTATGGTATTTGGTA
1 CGAAATGGTATGGTAATTGGAA
*
35434486 CGAATTGGTAATGGT
1 CGAAATGGT-ATGGT
35434501 TCAAAGAGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 13 0.41
22 14 0.44
23 5 0.16
ACGTcount: A:0.31, C:0.05, G:0.33, T:0.31
Consensus pattern (22 bp):
CGAAATGGTATGGTAATTGGAA
Found at i:35438098 original size:20 final size:20
Alignment explanation
Indices: 35438075--35438121 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
35438065 GGGTTAAGAT
*
35438075 TGAGCTGAATTGAGCTTGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
35438095 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAA
35438115 TGAGCTG
1 TGAGCTG
35438122 GAAACGAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:35439881 original size:48 final size:49
Alignment explanation
Indices: 35439791--35439897 Score: 141
Period size: 48 Copynumber: 2.2 Consensus size: 49
35439781 TTGTCTTTTC
35439791 TTTCTTTTTCAATTTTCTCTTTTTTCATCACACTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTTCTCTTTTTTCATCACACTTTTGTTCAATCTCAA
* *
35439840 TTTCTTTTTCGATTTCTTTCTCTTTTTCA-CATC-C-TTT-TTCAATCTCAA
1 TTTCTTTTTCAATTT-TCTCT-TTTTTCATCA-CACTTTTGTTCAATCTCAA
35439888 TTTCTTTTTC
1 TTTCTTTTTC
35439898 CATGACACTC
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
48 21 0.40
49 17 0.32
50 7 0.13
51 8 0.15
ACGTcount: A:0.15, C:0.23, G:0.02, T:0.60
Consensus pattern (49 bp):
TTTCTTTTTCAATTTTCTCTTTTTTCATCACACTTTTGTTCAATCTCAA
Found at i:35440998 original size:29 final size:27
Alignment explanation
Indices: 35440922--35441004 Score: 87
Period size: 29 Copynumber: 2.9 Consensus size: 27
35440912 GTAAGACTTT
35440922 TCACTTTTTTTTAACTTGATTTTTTTTTGC
1 TCACTTTTTTTT-ACTT--TTTTTTTTTGC
*
35440952 TCACCTTTTTTTTTCTTTCTTTTTTTTGC
1 TCA-CTTTTTTTTACTTT-TTTTTTTTGC
35440981 TCGA-TTTTTTTTCACTTTTTTTTT
1 TC-ACTTTTTTTT-ACTTTTTTTTT
35441005 CGATTTTGAT
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
28 15 0.32
29 16 0.34
30 7 0.15
31 9 0.19
ACGTcount: A:0.08, C:0.16, G:0.05, T:0.71
Consensus pattern (27 bp):
TCACTTTTTTTTACTTTTTTTTTTTGC
Found at i:35442468 original size:20 final size:20
Alignment explanation
Indices: 35442445--35442491 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
35442435 GGGTTAAGAT
*
35442445 TGAGCTGAATTGAGCTTGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
35442465 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAA
35442485 TGAGCTG
1 TGAGCTG
35442492 GAAACGAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:35448833 original size:56 final size:55
Alignment explanation
Indices: 35448717--35448834 Score: 150
Period size: 55 Copynumber: 2.1 Consensus size: 55
35448707 TGCATGCTTT
* * * *
35448717 CATT-AATGCCGTCCATGCATGGTGAATATCTCACTTAATTCATGTTTTGCTTCC
1 CATTAAATGCCGTCCATACATGGTGAACATCTCACTTAATTCATGTTTTGCTGCA
* *
35448771 CTTTAAATGCCGTTCCATACATGG-GAACATCTCATTTAATTCATGTCTTTGCTGCA
1 CATTAAATGCCG-TCCATACATGGTGAACATCTCACTTAATTCATGT-TTTGCTGCA
35448827 CATTAAAT
1 CATTAAAT
35448835 CAGCAAGCAG
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
54 3 0.06
55 27 0.50
56 24 0.44
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (55 bp):
CATTAAATGCCGTCCATACATGGTGAACATCTCACTTAATTCATGTTTTGCTGCA
Found at i:35449483 original size:20 final size:20
Alignment explanation
Indices: 35449458--35449512 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
35449448 ACGAGTTAAA
* *
35449458 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTAAC
*
35449478 TTGAGCACGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
35449498 TTGAGCTCGAATGAG
1 TTGAGCTCGAATGAG
35449513 TTGAACCACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Found at i:35451717 original size:29 final size:30
Alignment explanation
Indices: 35451640--35451718 Score: 76
Period size: 29 Copynumber: 2.7 Consensus size: 30
35451630 GTCATGCATT
*
35451640 ATGTAACTTTCATGTTAGTTAAGTTTGCATC
1 ATGTAACTTTCATGTTAGTT-AGTTTGAATC
* * *
35451671 AT-TAA-ATT-AAGTCAAGTTAGTTT-AATC
1 ATGTAACTTTCATGT-TAGTTAGTTTGAATC
35451698 ATGTAACTTTCATGTTAGTTA
1 ATGTAACTTTCATGTTAGTTA
35451719 AATTTGCATT
Statistics
Matches: 37, Mismatches: 7, Indels: 10
0.69 0.13 0.19
Matches are distributed among these distances:
27 5 0.14
28 11 0.30
29 13 0.35
30 6 0.16
31 2 0.05
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (30 bp):
ATGTAACTTTCATGTTAGTTAGTTTGAATC
Found at i:35453049 original size:11 final size:11
Alignment explanation
Indices: 35453033--35453073 Score: 73
Period size: 11 Copynumber: 3.6 Consensus size: 11
35453023 AGCATCTTCG
35453033 AAAAAAATTCA
1 AAAAAAATTCA
35453044 AAAAAAATTCAA
1 AAAAAAATTC-A
35453056 AAAAAAATTCA
1 AAAAAAATTCA
35453067 AAAAAAA
1 AAAAAAA
35453074 ATTAGTTTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 18 0.62
12 11 0.38
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAAAATTCA
Found at i:35453050 original size:12 final size:12
Alignment explanation
Indices: 35453033--35453076 Score: 81
Period size: 12 Copynumber: 3.8 Consensus size: 12
35453023 AGCATCTTCG
35453033 AAAAAAATTC-A
1 AAAAAAATTCAA
35453044 AAAAAAATTCAA
1 AAAAAAATTCAA
35453056 AAAAAAATTCAA
1 AAAAAAATTCAA
35453068 AAAAAAATT
1 AAAAAAATT
35453077 AGTTTCCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
11 10 0.31
12 22 0.69
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (12 bp):
AAAAAAATTCAA
Found at i:35453132 original size:14 final size:14
Alignment explanation
Indices: 35453113--35453151 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
35453103 CATATCAAAT
*
35453113 TGAAAAAAAATTCG
1 TGAAAAAAAAGTCG
35453127 TG-AAAAAAAGTCG
1 TGAAAAAAAAGTCG
35453140 TGAAAAAGAAAG
1 TGAAAAA-AAAG
35453152 CTAGTTTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 12 0.55
14 6 0.27
15 4 0.18
ACGTcount: A:0.59, C:0.05, G:0.21, T:0.15
Consensus pattern (14 bp):
TGAAAAAAAAGTCG
Found at i:35454096 original size:18 final size:18
Alignment explanation
Indices: 35454075--35454119 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
35454065 GAGTGACGAG
35454075 AGAAAAAAAAACCGAAAA
1 AGAAAAAAAAACCGAAAA
* **
35454093 AGAAACAAAAATTGAAAA
1 AGAAAAAAAAACCGAAAA
35454111 AGAGAAAAA
1 AGA-AAAAA
35454120 GATTGGAGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.76, C:0.07, G:0.13, T:0.04
Consensus pattern (18 bp):
AGAAAAAAAAACCGAAAA
Found at i:35455990 original size:29 final size:30
Alignment explanation
Indices: 35455913--35455991 Score: 76
Period size: 29 Copynumber: 2.7 Consensus size: 30
35455903 GTCATGCATT
*
35455913 ATGTAACTTTCATGTTAGTTAAGTTTGCATC
1 ATGTAACTTTCATGTTAGTT-AGTTTGAATC
* * *
35455944 AT-TAA-ATT-AAGTCAAGTTAGTTT-AATC
1 ATGTAACTTTCATGT-TAGTTAGTTTGAATC
35455971 ATGTAACTTTCATGTTAGTTA
1 ATGTAACTTTCATGTTAGTTA
35455992 AATTTGCATT
Statistics
Matches: 37, Mismatches: 7, Indels: 10
0.69 0.13 0.19
Matches are distributed among these distances:
27 5 0.14
28 11 0.30
29 13 0.35
30 6 0.16
31 2 0.05
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.44
Consensus pattern (30 bp):
ATGTAACTTTCATGTTAGTTAGTTTGAATC
Found at i:35458762 original size:12 final size:12
Alignment explanation
Indices: 35458742--35458771 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
35458732 TTAAACTAAG
35458742 TAAAAAAATAAA
1 TAAAAAAATAAA
*
35458754 TAAATAAATAAA
1 TAAAAAAATAAA
35458766 TAAAAA
1 TAAAAA
35458772 TAAAACTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (12 bp):
TAAAAAAATAAA
Found at i:35465493 original size:47 final size:47
Alignment explanation
Indices: 35465432--35465638 Score: 396
Period size: 47 Copynumber: 4.4 Consensus size: 47
35465422 CAGCCAAGAC
*
35465432 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
35465479 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
35465526 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
35465573 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
35465620 AGTGTATATATGTGATAAG
1 AGTGTATATGTGTGATAAG
35465639 TCCCGAAGGG
Statistics
Matches: 158, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 158 1.00
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (47 bp):
AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:35465831 original size:37 final size:37
Alignment explanation
Indices: 35465757--35465835 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 37
35465747 CCGAGCTTTA
* * **
35465757 AAGACCCGATGACTACGTGTGGGAATTTTGTTTGGGT
1 AAGACCCGATAACTACGTGTGGGAATTATGTCCGGGT
*
35465794 AAGACCCGATAACTTCGTGT-GGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGGA-ATTATGTCCGGGT
35465831 AAGAC
1 AAGAC
35465836 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
36 3 0.08
37 33 0.92
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.28
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGGAATTATGTCCGGGT
Found at i:35467752 original size:43 final size:43
Alignment explanation
Indices: 35467704--35467806 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
35467694 TTGGTTTTCA
35467704 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
35467747 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
35467790 GCACTAAGTGTGTGGGC
1 GCACTAAGTGTGCGGGC
35467807 TTGAAATGCA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.22, C:0.15, G:0.36, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:35467823 original size:29 final size:29
Alignment explanation
Indices: 35467788--35467861 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
35467778 GTTGTGAGAT
* * *
35467788 TGGCACTAAGTGTGTGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
35467817 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
35467846 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
35467862 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:35468295 original size:40 final size:40
Alignment explanation
Indices: 35468172--35468394 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
35468162 TCGAATGATG
* *
35468172 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * * * * *
35468212 TCCGGACTAAGACCCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TATA
* *
35468252 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
35468292 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* ** * * *
35468332 TCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATG
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
35468372 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
35468395 ATCATGCTGG
Statistics
Matches: 152, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
40 134 0.88
41 18 0.12
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:35468611 original size:25 final size:25
Alignment explanation
Indices: 35468570--35468620 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
35468560 TGTGTAATAA
35468570 TGAATGAATAAGAGCACTATGTGTG
1 TGAATGAATAAGAGCACTATGTGTG
* *
35468595 TGAATG-ATTAGAGGCACTGTGTGTG
1 TGAATGAATAAGA-GCACTATGTGTG
35468620 T
1 T
35468621 ACGAATTCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.29, C:0.08, G:0.31, T:0.31
Consensus pattern (25 bp):
TGAATGAATAAGAGCACTATGTGTG
Found at i:35471928 original size:47 final size:47
Alignment explanation
Indices: 35471867--35472073 Score: 378
Period size: 47 Copynumber: 4.4 Consensus size: 47
35471857 CAGCCAAGAC
35471867 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
35471914 AGTGTATATGTGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
35471961 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
35472008 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
35472055 AGTGTATATATGTGATAAG
1 AGTGTATATATGTGATAAG
35472074 TCCCGAAGGG
Statistics
Matches: 155, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 155 1.00
ACGTcount: A:0.31, C:0.07, G:0.31, T:0.31
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:35472248 original size:37 final size:37
Alignment explanation
Indices: 35472192--35472270 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
35472182 CCGAGCTCTA
* *
35472192 AAGACCCGATGACTACGTGTGG-GAGTTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGA-TTATGTCCGGGT
*
35472229 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
35472266 AAGAC
1 AAGAC
35472271 TTCATAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:35478326 original size:27 final size:27
Alignment explanation
Indices: 35478295--35478472 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
35478285 TAAATTGTAC
35478295 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
35478322 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35478348 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
35478376 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
35478404 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
35478431 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
35478458 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
35478473 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:35478409 original size:82 final size:81
Alignment explanation
Indices: 35478296--35478451 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
35478286 AAATTGTACA
* *
35478296 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
35478360 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
35478377 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
35478442 TGCGAGTTGA
65 TGCGAATTGA
35478452 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:35478463 original size:82 final size:81
Alignment explanation
Indices: 35478292--35478472 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
35478282 GATTAAATTG
* *
35478292 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
35478357 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
35478373 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
35478437 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
35478455 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
35478473 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:35482322 original size:52 final size:52
Alignment explanation
Indices: 35482261--35482361 Score: 175
Period size: 52 Copynumber: 1.9 Consensus size: 52
35482251 CATGCACATA
* *
35482261 TTTGAGCTTCAACCGAGCTAGAAATGAGGTCTTGAGCTGCTGTCTATTATTG
1 TTTGAGCTTCAACCGAGCTAGAAATGAGGTCTTAAGCTGCTGTCCATTATTG
*
35482313 TTTGAGCTTCAATCGAGCTAGAAATGAGGTCTTAAGCTGCTGTCCATTA
1 TTTGAGCTTCAACCGAGCTAGAAATGAGGTCTTAAGCTGCTGTCCATTA
35482362 CTTTTCCTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.34
Consensus pattern (52 bp):
TTTGAGCTTCAACCGAGCTAGAAATGAGGTCTTAAGCTGCTGTCCATTATTG
Found at i:35486112 original size:10 final size:10
Alignment explanation
Indices: 35486097--35486134 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
35486087 TTGGGTTAAG
35486097 ATTGAGCTGA
1 ATTGAGCTGA
35486107 ATTGAGCTCGA
1 ATTGAGCT-GA
35486118 A-TGAGCTGA
1 ATTGAGCTGA
*
35486127 CTTGAGCT
1 ATTGAGCT
35486135 CAAGTGAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 2 0.08
10 20 0.80
11 3 0.12
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (10 bp):
ATTGAGCTGA
Found at i:35495793 original size:18 final size:18
Alignment explanation
Indices: 35495770--35495806 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
35495760 CGTGGTCATT
*
35495770 ATAGTAGGGAATGCCCTA
1 ATAGTAGAGAATGCCCTA
35495788 ATAGTAGAGAATGCCCTA
1 ATAGTAGAGAATGCCCTA
35495806 A
1 A
35495807 CACGAGATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (18 bp):
ATAGTAGAGAATGCCCTA
Found at i:35500197 original size:13 final size:13
Alignment explanation
Indices: 35500179--35500235 Score: 93
Period size: 13 Copynumber: 4.6 Consensus size: 13
35500169 AGGAAATTTG
35500179 AAAAAAAAAATTC
1 AAAAAAAAAATTC
35500192 AAAAAAAAAATTC
1 AAAAAAAAAATTC
35500205 --AAAAAAAATTC
1 AAAAAAAAAATTC
35500216 -AAAAAAAAATTC
1 AAAAAAAAAATTC
35500228 AAAAAAAA
1 AAAAAAAA
35500236 TTTTTTTTGA
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.26
12 11 0.26
13 20 0.48
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAAAAAAAATTC
Found at i:35500219 original size:23 final size:24
Alignment explanation
Indices: 35500181--35500237 Score: 107
Period size: 23 Copynumber: 2.4 Consensus size: 24
35500171 GAAATTTGAA
35500181 AAAAAAAATTCAAAAAAAAAATTC
1 AAAAAAAATTCAAAAAAAAAATTC
35500205 AAAAAAAATTC-AAAAAAAAATTC
1 AAAAAAAATTCAAAAAAAAAATTC
35500228 AAAAAAAATT
1 AAAAAAAATT
35500238 TTTTTTGAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 22 0.67
24 11 0.33
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.18
Consensus pattern (24 bp):
AAAAAAAATTCAAAAAAAAAATTC
Found at i:35500237 original size:11 final size:12
Alignment explanation
Indices: 35500180--35500235 Score: 96
Period size: 12 Copynumber: 4.7 Consensus size: 12
35500170 GGAAATTTGA
35500180 AAAAAAAAATTC
1 AAAAAAAAATTC
35500192 AAAAAAAAAATTC
1 -AAAAAAAAATTC
35500205 -AAAAAAAATTC
1 AAAAAAAAATTC
35500216 AAAAAAAAATTC
1 AAAAAAAAATTC
35500228 AAAAAAAA
1 AAAAAAAA
35500236 TTTTTTTTGA
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
11 11 0.26
12 19 0.45
13 12 0.29
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (12 bp):
AAAAAAAAATTC
Found at i:35512281 original size:21 final size:22
Alignment explanation
Indices: 35512236--35512281 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
35512226 AGAGAAAAAT
*
35512236 AAAAGTGAAAAAGAAGAAAATG
1 AAAAGTGAAAAAGAAGAAAAGG
**
35512258 AAAA-TGAAAAAGGTGAAAAGG
1 AAAAGTGAAAAAGAAGAAAAGG
35512279 AAA
1 AAA
35512282 GAGAGAGAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.67, C:0.00, G:0.24, T:0.09
Consensus pattern (22 bp):
AAAAGTGAAAAAGAAGAAAAGG
Found at i:35514404 original size:21 final size:21
Alignment explanation
Indices: 35514378--35514440 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
35514368 TTGGTATTTG
35514378 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
35514399 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
35514420 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
35514441 ATGGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:35526215 original size:39 final size:40
Alignment explanation
Indices: 35526064--35526233 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
35526054 GGACTAAGAT
* * *
35526064 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * *
35526104 CCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
35526144 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * * *
35526184 CCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
35526223 CCGAAGGCATT
1 CCGAAGGCATT
35526234 TGAACAAGGA
Statistics
Matches: 112, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 32 0.29
40 80 0.71
ACGTcount: A:0.24, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:35526253 original size:79 final size:80
Alignment explanation
Indices: 35526086--35526268 Score: 199
Period size: 79 Copynumber: 2.3 Consensus size: 80
35526076 GTGCGAGATA
* * * *
35526086 CTAAATCCGGGTTAAGTCCCGAGGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** * **
35526151 CATTCGTGCGAGTTG
66 CATTCGAACAAGGAG
* * * * *
35526166 TTAAATCCGGGTTACGTCCCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
35526230 CATTTGAACAAGGAG
66 CATTCGAACAAGGAG
* *
35526245 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
35526269 TACGTGAATT
Statistics
Matches: 84, Mismatches: 19, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
78 14 0.17
79 46 0.55
80 24 0.29
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACAAGGAG
Done.