Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 149 of 226
Found at i:46698621 original size:6 final size:6
Alignment explanation
Indices: 46698610--46698638 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
46698600 AAATTATAAT
46698610 ATATTA ATATTA ATATTA ATATTA ATATT
1 ATATTA ATATTA ATATTA ATATTA ATATT
46698639 CAAACCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
ATATTA
Found at i:46699078 original size:25 final size:24
Alignment explanation
Indices: 46699035--46699086 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 24
46699025 AAAAAATTGA
46699035 TATTTAATTGATATGCTTTAATTTT
1 TATTTAATTGATATGCTTT-ATTTT
*
46699060 TATTTAATTTAGTAT-CTTTATTTT
1 TATTTAATTGA-TATGCTTTATTTT
46699084 TAT
1 TAT
46699087 AATATTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 8 0.32
25 14 0.56
26 3 0.12
ACGTcount: A:0.27, C:0.04, G:0.06, T:0.63
Consensus pattern (24 bp):
TATTTAATTGATATGCTTTATTTT
Found at i:46705519 original size:40 final size:40
Alignment explanation
Indices: 46705464--46705545 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
46705454 AGAGAAGAGA
46705464 AGAAATATGTGAATGCTTGAGGTGTGTTTCTAAAATGACC
1 AGAAATATGTGAATGCTTGAGGTGTGTTTCTAAAATGACC
46705504 AGAAATATGTGAATGCTTGAGGTGTGTTTCTAAAATGACC
1 AGAAATATGTGAATGCTTGAGGTGTGTTTCTAAAATGACC
46705544 AG
1 AG
46705546 CCTAAGGAGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.32
Consensus pattern (40 bp):
AGAAATATGTGAATGCTTGAGGTGTGTTTCTAAAATGACC
Found at i:46717161 original size:49 final size:49
Alignment explanation
Indices: 46717099--46717192 Score: 134
Period size: 49 Copynumber: 1.9 Consensus size: 49
46717089 CCATGATAGC
* * * *
46717099 ATAACCATTGTCAACTGGGGGCTCGAGTTATACTTCAACCCGTGACTGT
1 ATAACCATCGTCAACTAGGAGCCCGAGTTATACTTCAACCCGTGACTGT
* *
46717148 ATAACCATCGTCAACTAGGAGCCCTAGTTATACTTCAACCTGTGA
1 ATAACCATCGTCAACTAGGAGCCCGAGTTATACTTCAACCCGTGA
46717193 TCATATAACA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 39 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (49 bp):
ATAACCATCGTCAACTAGGAGCCCGAGTTATACTTCAACCCGTGACTGT
Found at i:46721858 original size:25 final size:24
Alignment explanation
Indices: 46721830--46721894 Score: 58
Period size: 25 Copynumber: 2.6 Consensus size: 24
46721820 ATTTTCTCAA
* *
46721830 CTTTTCCTTTTTTTGTTTTTCTTTT
1 CTTTTCCTTTTTTTCTCTTT-TTTT
**
46721855 CTTTTTGTTTTTTCTCTCTTTTTTT
1 CTTTTCCTTTTTT-TCTCTTTTTTT
*
46721880 CTTATTCTTTTTTTT
1 CTT-TTCCTTTTTTT
46721895 ACAGTCTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
25 19 0.59
26 13 0.41
ACGTcount: A:0.02, C:0.15, G:0.03, T:0.80
Consensus pattern (24 bp):
CTTTTCCTTTTTTTCTCTTTTTTT
Found at i:46721867 original size:18 final size:18
Alignment explanation
Indices: 46721839--46721894 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 18
46721829 ACTTTTCCTT
46721839 TTTTTG-TTTTTCTTTTC
1 TTTTTGTTTTTTCTTTTC
*
46721856 TTTTTGTTTTTTC-TCTC
1 TTTTTGTTTTTTCTTTTC
46721873 TTTTT-TTCTTATTCTTTT-
1 TTTTTGTT-TT-TTCTTTTC
46721891 TTTT
1 TTTT
46721895 ACAGTCTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
16 2 0.06
17 16 0.48
18 13 0.39
19 2 0.06
ACGTcount: A:0.02, C:0.12, G:0.04, T:0.82
Consensus pattern (18 bp):
TTTTTGTTTTTTCTTTTC
Found at i:46721893 original size:17 final size:16
Alignment explanation
Indices: 46721831--46721894 Score: 53
Period size: 15 Copynumber: 4.1 Consensus size: 16
46721821 TTTTCTCAAC
* *
46721831 TTTTCCTTT-TTTTGT
1 TTTTCTTTTCTTTTTT
*
46721846 TTTTCTTTTCTTTTTG
1 TTTTCTTTTCTTTTTT
* *
46721862 TTTT-TTCTC-TCTTT
1 TTTTCTTTTCTTTTTT
46721876 TTTTCTTATTCTTTTTT
1 TTTTCTT-TTCTTTTTT
46721893 TT
1 TT
46721895 ACAGTCTTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
14 7 0.19
15 14 0.38
16 10 0.27
17 6 0.16
ACGTcount: A:0.02, C:0.14, G:0.03, T:0.81
Consensus pattern (16 bp):
TTTTCTTTTCTTTTTT
Found at i:46732982 original size:79 final size:81
Alignment explanation
Indices: 46732846--46733030 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
46732836 TTGAATGATG
* *
46732846 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
46732910 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
46732925 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
46732987 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
46733005 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
46733031 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:46733044 original size:40 final size:40
Alignment explanation
Indices: 46732847--46733030 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
46732837 TGAATGATGT
* * * *
46732847 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
46732887 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
46732927 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
46732965 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
46733006 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
46733031 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:46733052 original size:79 final size:79
Alignment explanation
Indices: 46732899--46733063 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
46732889 GGACTAAGAT
* * **
46732899 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
46732964 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
46732978 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
46733041 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
46733057 CCGAAGG
1 CCGAAGG
46733064 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:46740922 original size:40 final size:40
Alignment explanation
Indices: 46740731--46740915 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
46740721 TTGAATGATG
* * * *
46740731 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
46740771 TCCGGACTAA-TATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGT-CCCGAAGGCATTTGTGCGAGTTACTAAA
* *
46740811 TTCGGGCTAAG-CCCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
46740850 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
46740891 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
46740916 AACGAGTAGC
Statistics
Matches: 119, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
39 34 0.29
40 76 0.64
41 9 0.08
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:46740937 original size:79 final size:79
Alignment explanation
Indices: 46740784--46740948 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
46740774 GGACTAATAT
* ** **
46740784 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGCCCAAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTTGAACGAGTTACTAA
*
46740849 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
46740863 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCAAAGGCATTTGAACGAGTTA-C
* *
46740926 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
46740942 CCGAAGG
1 CCGAAGG
46740949 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.64
80 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:46742366 original size:19 final size:19
Alignment explanation
Indices: 46742344--46742381 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
46742334 TCAATCATCC
46742344 CTCATCGCATCA-TCTCTCA
1 CTCAT-GCATCATTCTCTCA
*
46742363 CTCATTCATCATTCTCTCA
1 CTCATGCATCATTCTCTCA
46742382 ACTCTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.39, G:0.03, T:0.37
Consensus pattern (19 bp):
CTCATGCATCATTCTCTCA
Found at i:46754272 original size:28 final size:28
Alignment explanation
Indices: 46754230--46754294 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
46754220 TAGCAATCTT
*
46754230 AATCAACTATTGTCTCAGGTTCTTCGTC
1 AATCAACTATCGTCTCAGGTTCTTCGTC
46754258 AATCAACTATCGTCTCAGGTTCTTCGTC
1 AATCAACTATCGTCTCAGGTTCTTCGTC
*
46754286 AATTAACTA
1 AATCAACTA
46754295 GTCGCTACTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.37
Consensus pattern (28 bp):
AATCAACTATCGTCTCAGGTTCTTCGTC
Found at i:46762341 original size:27 final size:27
Alignment explanation
Indices: 46762303--46762359 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
46762293 ACATAACGAG
*
46762303 TCAGCAAGAACTACTTACCTTTTGACC
1 TCAGCAAGAACTACATACCTTTTGACC
46762330 TCAGCAAGAACTACATACCTTTTGACC
1 TCAGCAAGAACTACATACCTTTTGACC
46762357 TCA
1 TCA
46762360 TAGTCTAGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.32, C:0.30, G:0.11, T:0.28
Consensus pattern (27 bp):
TCAGCAAGAACTACATACCTTTTGACC
Found at i:46778151 original size:19 final size:18
Alignment explanation
Indices: 46778127--46778164 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
46778117 TTCTTCAAGC
46778127 TCTTTTCAATTTTTTTCTT
1 TCTTTTC-ATTTTTTTCTT
*
46778146 TCTTTTCTTTTTTTTCTT
1 TCTTTTCATTTTTTTCTT
46778164 T
1 T
46778165 GTCTTTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (18 bp):
TCTTTTCATTTTTTTCTT
Found at i:46785060 original size:11 final size:13
Alignment explanation
Indices: 46785044--46785076 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
46785034 ATTTCACATA
46785044 AAAATTTCG-T-G
1 AAAATTTCGTTCG
46785055 AAAATTTCGTTCG
1 AAAATTTCGTTCG
46785068 AAAATTTCG
1 AAAATTTCG
46785077 ATGTTTGGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 1 0.05
13 10 0.50
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (13 bp):
AAAATTTCGTTCG
Found at i:46785788 original size:30 final size:31
Alignment explanation
Indices: 46785754--46785812 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
46785744 GAGCTTGGGA
46785754 ACAAAAATGTAATTATG-CAAAAGTTTAGGG
1 ACAAAAATGTAATTATGACAAAAGTTTAGGG
* *
46785784 ACAAAATTGTAATTTTGACAAAAGTTTAG
1 ACAAAAATGTAATTATGACAAAAGTTTAG
46785813 TCGAAGCTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.46, C:0.07, G:0.17, T:0.31
Consensus pattern (31 bp):
ACAAAAATGTAATTATGACAAAAGTTTAGGG
Found at i:46786454 original size:102 final size:101
Alignment explanation
Indices: 46786278--46786621 Score: 469
Period size: 102 Copynumber: 3.4 Consensus size: 101
46786268 TATCGATGAA
* * * *
46786278 CACGTGTGTAGTACTGTGTGAAGGCTACCACGTGTATCGATAAATAATGGTCACATGTGTAGCAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
*
46786343 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGA-AAGCTTTGGT
* *
46786380 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
46786445 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCG-AAAGCTTTGGT
* * * *
46786482 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGATCACGTGTGTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATA-ATGGTCACATGTGTAGTA
* * * * *
46786545 CTATGTGAAGGCTACTACGTGAACCGTAAAAC-TTGAT
65 CTAAGTGAAGGCTACTATGTGTACCG-AAAGCTTTGGT
* *
46786582 CACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
46786622 ATGATAAAAG
Statistics
Matches: 219, Mismatches: 20, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
100 40 0.18
101 46 0.21
102 132 0.60
103 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCGAAAGCTTTGGT
Found at i:46786548 original size:50 final size:50
Alignment explanation
Indices: 46786278--46786615 Score: 376
Period size: 51 Copynumber: 6.7 Consensus size: 50
46786268 TATCGATGAA
* * * * *
46786278 CACGTGTGTAGTACTGTGTGAAGGCTACCACGTGTATCGATAAATA-ATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAA-ACTTGGT
* * * * * * *
46786329 CACATGTGTAGCACTAAGTGAAGGCTACAATGTGTACCG-AGAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTA-AAAC-TTGGT
* * ***
46786380 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGGT
* * * *
46786431 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCG-AAAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAA-C-TTGGT
*
46786482 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
*
46786532 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
*
46786582 CACATGTGTAGTACTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
46786616 TATCGAATGA
Statistics
Matches: 244, Mismatches: 35, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
49 4 0.02
50 89 0.36
51 144 0.59
52 6 0.02
53 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
Found at i:46789106 original size:29 final size:28
Alignment explanation
Indices: 46789052--46789112 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
46789042 TATAAAACTT
*
46789052 ATATATGCATTTATGAAAAAAATATATAA
1 ATATATGCATATATGAAAAAAATATA-AA
* *
46789081 ATATATGCATATAT-ACATAAATTATAAA
1 ATATATGCATATATGA-AAAAAATATAAA
46789109 ATAT
1 ATAT
46789113 GTGTTAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 7 0.25
29 21 0.75
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (28 bp):
ATATATGCATATATGAAAAAAATATAAA
Found at i:46789364 original size:17 final size:18
Alignment explanation
Indices: 46789336--46789371 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
46789326 TTAGTTTTAA
*
46789336 AAAAAATAAAATGTACAT
1 AAAAAATAAAATATACAT
46789354 AAAAAAT-AAATATACAT
1 AAAAAATAAAATATACAT
46789371 A
1 A
46789372 TATATAGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.69, C:0.06, G:0.03, T:0.22
Consensus pattern (18 bp):
AAAAAATAAAATATACAT
Found at i:46791099 original size:45 final size:45
Alignment explanation
Indices: 46791048--46791214 Score: 165
Period size: 45 Copynumber: 3.7 Consensus size: 45
46791038 TTGTTTATTT
* * * *
46791048 AGTTTGCCCCACTGCAATTTCAGGGGGATAAGACTTGCTTTCTTG
1 AGTTTGCTCCACTGCAACTTCAGGGAGATAAGACCTGCTTTCTTG
* **
46791093 AGTTTGCTCCACTGCAACTTCAGGGAAATAAGACCCACTTTCTTG
1 AGTTTGCTCCACTGCAACTTCAGGGAGATAAGACCTGCTTTCTTG
* ** * * *
46791138 GGCCTGCTCCACTGCAACTTCAGGGAGATAGGACCTGCTTAC-TC
1 AGTTTGCTCCACTGCAACTTCAGGGAGATAAGACCTGCTTTCTTG
* * ** *
46791182 AGTCTACTCCTTTGCAACTTCAGAGAGATAAGA
1 AGTTTGCTCCACTGCAACTTCAGGGAGATAAGA
46791215 ATAGATGTGA
Statistics
Matches: 99, Mismatches: 23, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
44 27 0.27
45 72 0.73
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.28
Consensus pattern (45 bp):
AGTTTGCTCCACTGCAACTTCAGGGAGATAAGACCTGCTTTCTTG
Found at i:46791297 original size:44 final size:44
Alignment explanation
Indices: 46791224--46791335 Score: 140
Period size: 44 Copynumber: 2.6 Consensus size: 44
46791214 AATAGATGTG
* * *
46791224 ATCTGCT-CTCTGCAACTTC-AGAGAGATAGGATCT-GTGATTTTA
1 ATCTGCTCCACTGCAACTTCAAG-GACATAGGAT-TAGTGACTTTA
* *
46791267 ATCTGCTCCACTGCAACTTCAAGGACATAGGATTATTGGCTTTA
1 ATCTGCTCCACTGCAACTTCAAGGACATAGGATTAGTGACTTTA
46791311 ATCTGCTCCACTGCAACTTCAAGGA
1 ATCTGCTCCACTGCAACTTCAAGGA
46791336 GATAAGGTTC
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
43 8 0.13
44 51 0.84
45 2 0.03
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAAGGACATAGGATTAGTGACTTTA
Found at i:46791866 original size:267 final size:267
Alignment explanation
Indices: 46791369--46791893 Score: 771
Period size: 267 Copynumber: 2.0 Consensus size: 267
46791359 TTTAATCGCA
* *
46791369 ATGTTGGGGAAACAAGATTCGCCGTCATAGCTTCAATTTGTTCCACTACACCACCAGGGAAGTAA
1 ATGTTAGGGAAACAAGATTCGCCGTCATAGCTTCAATCTGTTCCACTACACCACCAGGGAAGTAA
* * * *
46791434 GATTCGCCGTTGCAACTTTAATCTGCTCCACTGTAATGCCAAAGAGATAGGGTTCGCTACCCACA
66 GATTCGCCATTGCAACTTCAATCTGCTCCACTGTAATGCCAAAGAGATAGGATTCACTACCCACA
* *
46791499 GCTTCAATCCGCTCTACTTCATCTAATCCAAGCCTTAACGCCAAGGAGATAAGATTCGCCGTCGT
131 GCTTCAATCCGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAAGGAGATAAGATTCGCCGTCGT
* * *
46791564 GGCTTCAATCTGCCCCGCTACCACGCCAAGGAAATAAGATTCGCCGTTGCGGCTTCAATCTTTTA
196 GGCTTCAATCTGCCCCGCTACAACGCCAAGGAAATAAGATTCCCCGTTGCGACTTCAATCTTTTA
46791629 AATTGCC
261 AATTGCC
** * * *
46791636 ATGTTAGGGAAATGAGATTCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGGAGTAA
1 ATGTTAGGGAAACAAGATTCGCCGTCATAGCTTCAATCTGTTCCACTACACCACCAGGGAAGTAA
** *** * * *
46791701 GATTTTCCATTGTGGCTTCAATCTTCTCCATTGTAATGCCAAAGAGATAGGATTCACTGCCCACA
66 GATTCGCCATTGCAACTTCAATCTGCTCCACTGTAATGCCAAAGAGATAGGATTCACTACCCACA
* * * *
46791766 GCTTTAATCCGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAGGGAGATTAGATTCGCTGTCGT
131 GCTTCAATCCGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAAGGAGATAAGATTCGCCGTCGT
* * *
46791831 GGCTTCAATCTGCTCCGCTACAACGCCAGGGAAATAAGATTCCCCGTTGTGACTTCAATCTTT
196 GGCTTCAATCTGCCCCGCTACAACGCCAAGGAAATAAGATTCCCCGTTGCGACTTCAATCTTT
46791894 GCAACGTCAT
Statistics
Matches: 227, Mismatches: 31, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
267 227 1.00
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (267 bp):
ATGTTAGGGAAACAAGATTCGCCGTCATAGCTTCAATCTGTTCCACTACACCACCAGGGAAGTAA
GATTCGCCATTGCAACTTCAATCTGCTCCACTGTAATGCCAAAGAGATAGGATTCACTACCCACA
GCTTCAATCCGCTCCACTTCAGCTAATCCAAGCCTTAACGCCAAGGAGATAAGATTCGCCGTCGT
GGCTTCAATCTGCCCCGCTACAACGCCAAGGAAATAAGATTCCCCGTTGCGACTTCAATCTTTTA
AATTGCC
Found at i:46796157 original size:17 final size:18
Alignment explanation
Indices: 46796129--46796164 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
46796119 TTAGTTTTAA
*
46796129 AAAAAATAAAATGTACAT
1 AAAAAATAAAATATACAT
46796147 AAAAAAT-AAATATACAT
1 AAAAAATAAAATATACAT
46796164 A
1 A
46796165 TATATATAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.69, C:0.06, G:0.03, T:0.22
Consensus pattern (18 bp):
AAAAAATAAAATATACAT
Found at i:46797501 original size:27 final size:27
Alignment explanation
Indices: 46797483--46797641 Score: 189
Period size: 27 Copynumber: 5.9 Consensus size: 27
46797473 GGTATAACAG
*
46797483 TCATTTTACCCTATGGGGGTATTTCGA
1 TCATCTTACCCTATGGGGGTATTTCGA
*
46797510 TCATCTTACCCTAAGGGGGTATTTC-A
1 TCATCTTACCCTATGGGGGTATTTCGA
*
46797536 GT-ACTCTTACCATATGGGGGTATTTCGA
1 -TCA-TCTTACCCTATGGGGGTATTTCGA
*
46797564 TCATCTTACCATATGGGGGTATTTCGA
1 TCATCTTACCCTATGGGGGTATTTCGA
* *
46797591 TCATCTTACCCTATAGGGGTATTT-TA
1 TCATCTTACCCTATGGGGGTATTTCGA
* * *
46797617 GCCATTTTACCCTATAGGGGTATTT
1 -TCATCTTACCCTATGGGGGTATTT
46797642 TGGTTATTTT
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
26 3 0.03
27 113 0.96
28 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.38
Consensus pattern (27 bp):
TCATCTTACCCTATGGGGGTATTTCGA
Found at i:46797627 original size:81 final size:81
Alignment explanation
Indices: 46797483--46797641 Score: 223
Period size: 81 Copynumber: 2.0 Consensus size: 81
46797473 GGTATAACAG
* * *
46797483 TCATTTTACCCTATGGGGGTATTTCGATCATCTTACCCTAAGGGGGTATTTCAGTACTCTTACCA
1 TCATCTTACCATATGGGGGTATTTCGATCATCTTACCCTAAGGGGGTATTTCAGCACTCTTACCA
*
46797548 TATGGGGGTATTTCGA
66 TATAGGGGTATTTCGA
* *
46797564 TCATCTTACCATATGGGGGTATTTCGATCATCTTACCCTATA-GGGGTATTTTAGC-CATTTTAC
1 TCATCTTACCATATGGGGGTATTTCGATCATCTTACCCTA-AGGGGGTATTTCAGCAC-TCTTAC
*
46797627 CCTATAGGGGTATTT
64 CATATAGGGGTATTT
46797642 TGGTTATTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
80 1 0.01
81 67 0.97
82 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.38
Consensus pattern (81 bp):
TCATCTTACCATATGGGGGTATTTCGATCATCTTACCCTAAGGGGGTATTTCAGCACTCTTACCA
TATAGGGGTATTTCGA
Found at i:46800423 original size:27 final size:27
Alignment explanation
Indices: 46800384--46800637 Score: 298
Period size: 27 Copynumber: 9.4 Consensus size: 27
46800374 GCCATAACAG
46800384 TCATTTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
* * *
46800411 TCATCTTAACCTATGGGGGTATTTCAA
1 TCATTTTACCCTATGGGGGTATTTCGA
* * * *
46800438 TCATCTTACCATATGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGA
*
46800465 TCATTTTATCCTATGGGGGTATTTC-A
1 TCATTTTACCCTATGGGGGTATTTCGA
* * *
46800491 GTCATTTTACTCC-ATAGGGGTATTTTGG
1 -TCATTTTAC-CCTATGGGGGTATTTCGA
*
46800519 TCATTTTTACCCTATGGGGGTATTTTGA
1 TCA-TTTTACCCTATGGGGGTATTTCGA
46800547 TCATTTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGA
*
46800574 TCATTTTACCCTATAGGGGTATTTCG-
1 TCATTTTACCCTATGGGGGTATTTCGA
** * *
46800600 TCCATTTTACCCTATAAGGGTATTTTGG
1 T-CATTTTACCCTATGGGGGTATTTCGA
46800628 TCATTTTACC
1 TCATTTTACC
46800638 TATTTTGGGG
Statistics
Matches: 197, Mismatches: 23, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.01
27 171 0.87
28 25 0.13
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGA
Found at i:46800648 original size:109 final size:107
Alignment explanation
Indices: 46800381--46800640 Score: 344
Period size: 109 Copynumber: 2.4 Consensus size: 107
46800371 AAAGCCATAA
* * * *
46800381 CAGTCATTTTACCCTATGGGGGTATTTCGATCATCTTAACCTATGGGGGTATTTCAATCATCTTA
1 CAGTCATTTTACCCTATAGGGGTATTTTGGTCAT-TTTACCTATGGGGGTATTTCAATCATCTTA
* * * *
46800446 CCATATGGGGGTATTTTGGTCATTTTATCCTATGGGGGTATTT
65 CCATATGGGGGTATTTCGATCATTTTACCCTATAGGGGTATTT
** *
46800489 CAGTCATTTTACTCC-ATAGGGGTATTTTGGTCATTTTTACCCTATGGGGGTATTTTGATCATTT
1 CAGTCATTTTAC-CCTATAGGGGTATTTTGGTCA-TTTTA-CCTATGGGGGTATTTCAATCATCT
*
46800553 TACCCTATGGGGGTATTTCGATCATTTTACCCTATAGGGGTATTT
63 TACCATATGGGGGTATTTCGATCATTTTACCCTATAGGGGTATTT
*
46800598 C-GTCCATTTTACCCTATAAGGGTATTTTGGTCATTTTACCTAT
1 CAGT-CATTTTACCCTATAGGGGTATTTTGGTCATTTTACCTAT
46800641 TTTGGGGTCT
Statistics
Matches: 134, Mismatches: 13, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
107 5 0.04
108 39 0.29
109 90 0.67
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.42
Consensus pattern (107 bp):
CAGTCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCTATGGGGGTATTTCAATCATCTTAC
CATATGGGGGTATTTCGATCATTTTACCCTATAGGGGTATTT
Found at i:46802338 original size:50 final size:50
Alignment explanation
Indices: 46802223--46802415 Score: 260
Period size: 50 Copynumber: 3.8 Consensus size: 50
46802213 GATAATAACA
* * * ** *
46802223 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * **
46802274 TGCCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
46802324 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
46802374 TGCCAACGCCATGTCCCAGACATGGTCTAACATGGGATCTCT
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCT
46802416 TTACCCAAAT
Statistics
Matches: 126, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 95 0.75
51 31 0.25
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:46805402 original size:18 final size:18
Alignment explanation
Indices: 46805379--46805414 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
46805369 ATATAATAAA
*
46805379 ATAATTTTGAAGTCTCTT
1 ATAATTTTAAAGTCTCTT
46805397 ATAATTTTAAAGTCTCTT
1 ATAATTTTAAAGTCTCTT
46805415 TTAAAACAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.50
Consensus pattern (18 bp):
ATAATTTTAAAGTCTCTT
Found at i:46806131 original size:121 final size:121
Alignment explanation
Indices: 46805915--46806135 Score: 356
Period size: 121 Copynumber: 1.8 Consensus size: 121
46805905 TCAACATAAC
*
46805915 TTTTCTTTTTTTAGTTCTCTAGTCATATGGTGATTGAAACCATTGCATATCTCCATACTTTGAAG
1 TTTTCTTTTTTTAGTTCTCTACTCATATGGTGATTGAAACCATTGCATATCTCCATACTTTGAAG
* * *
46805980 ATTGTAGTAGATTTGGGTCATCAAAGTGTCATATTTCATTATAATGAATAAAAAAA
66 ATTGTAGTAGATTTGAGACATCAAAATGTCATATTTCATTATAATGAATAAAAAAA
* *
46806036 TTTTCTTCTTTTT-GTTCTCTACTCATATGCG-GATTGAAACCATTGCATGTCTCCATGCTTTGA
1 TTTTCTT-TTTTTAGTTCTCTACTCATATG-GTGATTGAAACCATTGCATATCTCCATACTTTGA
46806099 AGATTGTAGTAGATTTGAGACATCAAAATGTCATATT
64 AGATTGTAGTAGATTTGAGACATCAAAATGTCATATT
46806136 AGAAGAAGAT
Statistics
Matches: 92, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
121 86 0.93
122 6 0.07
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (121 bp):
TTTTCTTTTTTTAGTTCTCTACTCATATGGTGATTGAAACCATTGCATATCTCCATACTTTGAAG
ATTGTAGTAGATTTGAGACATCAAAATGTCATATTTCATTATAATGAATAAAAAAA
Found at i:46811829 original size:16 final size:16
Alignment explanation
Indices: 46811808--46811838 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
46811798 AAATCAGAAT
46811808 CAAATTATTCATTTTG
1 CAAATTATTCATTTTG
46811824 CAAATTATTCATTTT
1 CAAATTATTCATTTT
46811839 AGTTCCTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.13, G:0.03, T:0.52
Consensus pattern (16 bp):
CAAATTATTCATTTTG
Found at i:46814861 original size:72 final size:73
Alignment explanation
Indices: 46814744--46814898 Score: 278
Period size: 72 Copynumber: 2.1 Consensus size: 73
46814734 ACAAGTCCCA
46814744 TGTCGTGACACCTTAGTGCTTGTATGGTGACATCAAAGGTAGTATGCAAGGTTTA-GGGTAGCTT
1 TGTCGTGACACCTTAGTGCTTGTATGGTGACATCAAAGGTAGTATGCAAGGTTTAGGGGTAGCTT
46814808 CAAGGGTG
66 CAAGGGTG
*
46814816 TGTCGCGACACCTTAGTGCATT-TATGGTGACATCAAAGGTAGTATGCAAGGTTTAGGGGTAGCT
1 TGTCGTGACACCTTAGTGC-TTGTATGGTGACATCAAAGGTAGTATGCAAGGTTTAGGGGTAGCT
46814880 TCAAGGGTG
65 TCAAGGGTG
46814889 TGTCGTGACA
1 TGTCGTGACA
46814899 TCCCATGGTT
Statistics
Matches: 79, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
72 51 0.65
73 28 0.35
ACGTcount: A:0.24, C:0.15, G:0.32, T:0.30
Consensus pattern (73 bp):
TGTCGTGACACCTTAGTGCTTGTATGGTGACATCAAAGGTAGTATGCAAGGTTTAGGGGTAGCTT
CAAGGGTG
Found at i:46823378 original size:50 final size:50
Alignment explanation
Indices: 46823300--46823542 Score: 326
Period size: 50 Copynumber: 4.8 Consensus size: 50
46823290 ATTTGGGTAA
* *
46823300 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGTGTTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATG
* * * *
46823350 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGCCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATG
**
46823400 AGAGGTCCTGTGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATG
* ** * *
46823450 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATG
**
46823500 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCT-TTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGG-TGTTGGCA
46823543 TGTTATTATC
Statistics
Matches: 168, Mismatches: 23, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
50 134 0.80
51 34 0.20
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATG
Found at i:46833082 original size:40 final size:40
Alignment explanation
Indices: 46832999--46833261 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
46832989 TTGAATGCTG
* * * * * *
46832999 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
46833039 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
46833079 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
46833119 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
46833159 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
46833199 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
46833238 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
46833262 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:46833281 original size:79 final size:80
Alignment explanation
Indices: 46833038--46833296 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
46833028 AAGTGAATAT
* * * * * * *
46833038 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
46833102 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
46833118 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
46833183 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
46833198 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
46833262 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
46833277 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
46833297 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:46841017 original size:39 final size:40
Alignment explanation
Indices: 46840944--46841128 Score: 238
Period size: 39 Copynumber: 4.8 Consensus size: 40
46840934 TTTGTGCGAA
*
46840944 TACTAAATCCGGGTT-AGTACCGAAGGCATTCGTGCGAGT
1 TACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGT
46840983 TA-TAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGT
1 TACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGT
* *
46841022 TATTAAATCCGGGTTAAGTCCCGAAGG-AGTCGTGCGAGT
1 TACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGT
** * *
46841061 TGTTAAAT-CGGGTTATGT-CCGAAGGCATT-GTGTGAGT
1 TACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGT
* * *
46841098 TACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TACTAAATCCGGGTTAAGTCCCGAAGGCATT
46841129 TGAACGAGGA
Statistics
Matches: 131, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
37 19 0.15
38 32 0.24
39 56 0.43
40 24 0.18
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (40 bp):
TACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGT
Found at i:46841055 original size:78 final size:77
Alignment explanation
Indices: 46840919--46841126 Score: 244
Period size: 76 Copynumber: 2.7 Consensus size: 77
46840909 TATATCCGGA
* * * * *
46840919 TTAAGATCCGAAGCCTTTGTGCGA-ATACTAAATCCGGGTT-AGTACCGAAGGCATTCGTGCGAG
1 TTAAG-TCCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAG
46840982 TT-ATAAATCCGGG
65 TTGATAAAT-CGGG
*
46840995 TTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG-AGTCGTGCGA
1 TTAAGT-CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAGTCGTGCGA
*
46841059 GTTGTTAAATCGGG
64 GTTGATAAATCGGG
* * * * *
46841073 TTATGTCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCA
1 TTAAGTCCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCA
46841127 TTTGAACGAG
Statistics
Matches: 113, Mismatches: 13, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
75 1 0.01
76 44 0.39
77 18 0.16
78 35 0.31
79 15 0.13
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (77 bp):
TTAAGTCCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGT
TGATAAATCGGG
Found at i:46874229 original size:69 final size:70
Alignment explanation
Indices: 46874097--46874229 Score: 214
Period size: 69 Copynumber: 1.9 Consensus size: 70
46874087 TAGTTTATTA
* * * * *
46874097 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
46874162 CTTAG
66 CTTAG
46874167 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
46874230 GTTATGTGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
69 35 0.60
70 23 0.40
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:46876069 original size:48 final size:48
Alignment explanation
Indices: 46875998--46876237 Score: 372
Period size: 48 Copynumber: 5.0 Consensus size: 48
46875988 CACAAGATTA
46875998 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
46876046 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* *
46876094 GGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
* * *
46876144 AGATACGTATATGTGGTAAAGCTGAATGGCTAGTGTGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
* * * * *
46876192 AGATACGTATATGTGGTAAAGCTGAAGGGCTAGTGTGAAGTATGTA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
46876238 GGAGGTGTGG
Statistics
Matches: 181, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
48 136 0.75
49 4 0.02
50 41 0.23
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:46876184 original size:98 final size:97
Alignment explanation
Indices: 46875998--46876230 Score: 369
Period size: 98 Copynumber: 2.4 Consensus size: 97
46875988 CACAAGATTA
* *
46875998 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AAATATGTATGAGATATGTATATGTGG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAATATATATGAGATACGTATATGTGG
46876062 TAAAGCCGAATGGCTAATGTGAAATATGTATG
66 TAAAGCCGAATGGCTAATGTGAAATATGTATG
*
46876094 GGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATACGTATATGTG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA-ATATATATGAGATACGTATATGTG
* *
46876159 GTAAAGCTGAATGGCTAGTGTGAAATATGTATG
65 GTAAAGCCGAATGGCTAATGTGAAATATGTATG
* * * *
46876192 AGATACGTATATGTGGTAAAGCTGAAGGGCTAGTGTGAA
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
46876231 GTATGTAGGA
Statistics
Matches: 125, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
96 36 0.29
97 2 0.02
98 87 0.70
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.30
Consensus pattern (97 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAATATATATGAGATACGTATATGTGG
TAAAGCCGAATGGCTAATGTGAAATATGTATG
Found at i:46876427 original size:37 final size:37
Alignment explanation
Indices: 46876373--46876487 Score: 162
Period size: 37 Copynumber: 3.1 Consensus size: 37
46876363 ACATGAAACT
*
46876373 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTG
1 TGGAAATATATTTCGGGTAAGACCCGATGACTACGTG
46876410 TGGAAATATATTTCGGGTAAGACCCGATGACTACGTG
1 TGGAAATATATTTCGGGTAAGACCCGATGACTACGTG
* * *
46876447 TGGAGAT-T-TTGTCCGGGTAAGACCCGATAACTTCGTG
1 TGGAAATATATT-T-CGGGTAAGACCCGATGACTACGTG
46876484 TGGA
1 TGGA
46876488 GATTTCATCT
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
35 2 0.03
36 2 0.03
37 68 0.94
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (37 bp):
TGGAAATATATTTCGGGTAAGACCCGATGACTACGTG
Found at i:46883152 original size:38 final size:39
Alignment explanation
Indices: 46883110--46883204 Score: 129
Period size: 38 Copynumber: 2.5 Consensus size: 39
46883100 TTATATAATT
* *
46883110 ATACCCCTAATCGCACTTACGTGACCCTGTTGTAC-TCA
1 ATACCCCTGATCGCACTTACATGACCCTGTTGTACTTCA
* * **
46883148 ATACCCCTGATCACACTTACATGCCCCTGTTGTACTTTG
1 ATACCCCTGATCGCACTTACATGACCCTGTTGTACTTCA
46883187 ATACCCCTGATCGCACTT
1 ATACCCCTGATCGCACTT
46883205 TTGCGTCATG
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
38 31 0.63
39 18 0.37
ACGTcount: A:0.22, C:0.35, G:0.13, T:0.31
Consensus pattern (39 bp):
ATACCCCTGATCGCACTTACATGACCCTGTTGTACTTCA
Found at i:46892280 original size:24 final size:23
Alignment explanation
Indices: 46892245--46892294 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
46892235 ATAAAGTAGT
*
46892245 TATATATTATTTTTA-TAATATTA
1 TATATATGATTTTTATTAAT-TTA
46892268 TATATTATGATTTTTATTAATTTA
1 TATA-TATGATTTTTATTAATTTA
46892292 TAT
1 TAT
46892295 TTTAATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 4 0.17
24 16 0.67
25 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
TATATATGATTTTTATTAATTTA
Found at i:46892308 original size:16 final size:18
Alignment explanation
Indices: 46892269--46892308 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 18
46892259 ATAATATTAT
*
46892269 ATATTATGATTTTTATTA
1 ATATTATGATTTTTAATA
46892287 AT-TTAT-A-TTTTAATA
1 ATATTATGATTTTTAATA
46892302 ATATTAT
1 ATATTAT
46892309 TAAAAATGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
15 9 0.45
16 5 0.25
17 4 0.20
18 2 0.10
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
ATATTATGATTTTTAATA
Found at i:46892391 original size:57 final size:57
Alignment explanation
Indices: 46892268--46892431 Score: 192
Period size: 60 Copynumber: 2.8 Consensus size: 57
46892258 TATAATATTA
* *
46892268 TATATTATGATTTTTATTAATTTATATTTTAATAAT-ATTA-TTAAAAATGTTATTAAAT
1 TATA-TATTATTTTTATTAAATTATA-TTTAATAATAATTATTTAAAAATG-TATTAAAT
46892326 TATATATTA-TTTTATTAAATTATATTTAATAATAATTATGTTAAAACATG-ATTAAAT
1 TATATATTATTTTTATTAAATTATATTTAATAATAATTAT-TTAAAA-ATGTATTAAAT
* *
46892383 TATTTATTATTCTTTTATTAAATTATATTTAATAATAATTTTATTAAAA
1 TATATATTA-T-TTTTATTAAATTATATTTAATAATAATTAT-TTAAAA
46892432 TTTAAAAACA
Statistics
Matches: 94, Mismatches: 5, Indels: 12
0.85 0.05 0.11
Matches are distributed among these distances:
55 9 0.10
56 18 0.19
57 19 0.20
58 10 0.11
59 3 0.03
60 35 0.37
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (57 bp):
TATATATTATTTTTATTAAATTATATTTAATAATAATTATTTAAAAATGTATTAAAT
Found at i:46899085 original size:266 final size:267
Alignment explanation
Indices: 46898609--46899147 Score: 1044
Period size: 266 Copynumber: 2.0 Consensus size: 267
46898599 TTAATAAACA
46898609 TTTTCTATAACCTCAAATCCACCTTCGTTTTTTTCTTTTTTTCCCTTTTTTTTTTTTACTTTCCT
1 TTTTCTATAACCTCAAATCCACCTTCGTTTTTTTCTTTTTTTCCC-TTTTTTTTTTTACTTTCCT
*
46898674 AGACTCCAAACAGAACTTGACTATCACAACAATCGGCTAAAGTCATTTCTTACAAAATTAAAACC
65 AGACTCCAAACAGAACTTGACTATCACAACAATCAGCTAAAGTCATTTCTTACAAAATTAAAACC
46898739 CCCAAAAAGAACACATTTCTAAAACCATTTACATAACCAGAAATCTCTATCCATCCTGCTTAACC
130 CCCAAAAAGAACACATTTCTAAAACCATTTACATAACCAGAAATCTCTATCCATCCTGCTTAACC
46898804 CATCAACTAAAAACTAACTCTTCCAAGAGACTTTAAGTAACAAAAAAGAACAAATTTCAGAACCC
195 CATCAACTAAAAACTAACTCTTCCAAGAGACTTTAAGTAACAAAAAAGAACAAATTTCAGAACCC
46898869 ATCTCTTT
260 ATCTCTTT
46898877 TTTTCTATAACCTCAAATCCACCTTCGTTTTTTTCTTTTTTTCCC-TTTTTTTTTTACTTTCCTA
1 TTTTCTATAACCTCAAATCCACCTTCGTTTTTTTCTTTTTTTCCCTTTTTTTTTTTACTTTCCTA
*
46898941 GACTCGAAACAGAACTTGACTATCACAACAATCAGCTAAAGTCATTTCTTACAAAATTAAAACCC
66 GACTCCAAACAGAACTTGACTATCACAACAATCAGCTAAAGTCATTTCTTACAAAATTAAAACCC
46899006 CCAAAAAGAACACATTTCTAAAACCATTTACATAACCAGAAATCTCTATCCATCCTGCTTAACCC
131 CCAAAAAGAACACATTTCTAAAACCATTTACATAACCAGAAATCTCTATCCATCCTGCTTAACCC
46899071 ATCAACTAAAAACTAACTCTTCCAAGAGACTTTAAGTAACAAAAAAGAACAAATTTCAGAACCCA
196 ATCAACTAAAAACTAACTCTTCCAAGAGACTTTAAGTAACAAAAAAGAACAAATTTCAGAACCCA
46899136 TCTCTTT
261 TCTCTTT
46899143 TTTTC
1 TTTTC
46899148 ATTTTCCCAC
Statistics
Matches: 269, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
266 224 0.83
268 45 0.17
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.33
Consensus pattern (267 bp):
TTTTCTATAACCTCAAATCCACCTTCGTTTTTTTCTTTTTTTCCCTTTTTTTTTTTACTTTCCTA
GACTCCAAACAGAACTTGACTATCACAACAATCAGCTAAAGTCATTTCTTACAAAATTAAAACCC
CCAAAAAGAACACATTTCTAAAACCATTTACATAACCAGAAATCTCTATCCATCCTGCTTAACCC
ATCAACTAAAAACTAACTCTTCCAAGAGACTTTAAGTAACAAAAAAGAACAAATTTCAGAACCCA
TCTCTTT
Found at i:46904671 original size:27 final size:25
Alignment explanation
Indices: 46904623--46904677 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
46904613 CCGAAATTAA
46904623 ATATATTTGATTAAAAATAAAATAT
1 ATATATTTGATTAAAAATAAAATAT
46904648 ATATATTTGATTAAAAATTAAAA-AT
1 ATATATTTGATTAAAAA-TAAAATAT
46904673 ATATA
1 ATATA
46904678 ATTCGGGCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 24 0.83
26 5 0.17
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (25 bp):
ATATATTTGATTAAAAATAAAATAT
Found at i:46906315 original size:21 final size:23
Alignment explanation
Indices: 46906271--46906320 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 23
46906261 AAATATCTGA
46906271 TTTTTTTACTATTTTCTTGCTGTT
1 TTTTTTTAC-ATTTTCTTGCTGTT
*
46906295 TTTTTTTAC-TTTT-TTGTTGTT
1 TTTTTTTACATTTTCTTGCTGTT
*
46906316 ATTTT
1 TTTTT
46906321 CTTGTTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 11 0.46
22 4 0.17
24 9 0.38
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.76
Consensus pattern (23 bp):
TTTTTTTACATTTTCTTGCTGTT
Found at i:46906320 original size:24 final size:24
Alignment explanation
Indices: 46906271--46906320 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
46906261 AAATATCTGA
*
46906271 TTTTTTTACTATTTTCTTGCTGTT
1 TTTTTTTACTATTTTCTTGCTATT
* * *
46906295 TTTTTTTACTTTTTTGTTGTTATT
1 TTTTTTTACTATTTTCTTGCTATT
46906319 TT
1 TT
46906321 CTTGTTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.76
Consensus pattern (24 bp):
TTTTTTTACTATTTTCTTGCTATT
Found at i:46906573 original size:11 final size:12
Alignment explanation
Indices: 46906543--46906572 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
46906533 CATATATTTT
*
46906543 TAAAAAATTATA
1 TAAAAAATAATA
46906555 TAAAAAATAATA
1 TAAAAAATAATA
46906567 TAAAAA
1 TAAAAA
46906573 TTTTAATACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
TAAAAAATAATA
Found at i:46910676 original size:20 final size:20
Alignment explanation
Indices: 46910628--46910676 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
46910618 ATCTTCTTTC
*
46910628 ATCCTTCATTTTATTTTCTT
1 ATCCTTCAGTTTATTTTCTT
*
46910648 ATCCCTCAGTTTATTTTCTT
1 ATCCTTCAGTTTATTTTCTT
*
46910668 ATCTTTCAG
1 ATCCTTCAG
46910677 CTAATTGATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.16, C:0.22, G:0.04, T:0.57
Consensus pattern (20 bp):
ATCCTTCAGTTTATTTTCTT
Found at i:46911398 original size:21 final size:22
Alignment explanation
Indices: 46911350--46911408 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 22
46911340 AAGGGATGTG
*
46911350 AGTACTAAAGTAAATCTAATCT
1 AGTACTTAAGTAAATCTAATCT
* *
46911372 A-AACTTAAGTAGATCTAAT-T
1 AGTACTTAAGTAAATCTAATCT
*
46911392 AGTACTTTAACTAAATC
1 AGTAC-TTAAGTAAATC
46911409 ATACTACGAT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
20 2 0.07
21 17 0.59
22 10 0.34
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (22 bp):
AGTACTTAAGTAAATCTAATCT
Found at i:46913114 original size:18 final size:18
Alignment explanation
Indices: 46913091--46913125 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46913081 CAAAAACATG
*
46913091 AAGCATCAAAATGGTTTC
1 AAGCATCAAAATAGTTTC
*
46913109 AAGCATGAAAATAGTTT
1 AAGCATCAAAATAGTTT
46913126 GGCACATCGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (18 bp):
AAGCATCAAAATAGTTTC
Found at i:46918279 original size:16 final size:16
Alignment explanation
Indices: 46918258--46918288 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
46918248 TTTTGTTTAA
46918258 ATTTAAATAATTTTTC
1 ATTTAAATAATTTTTC
46918274 ATTTAAATAATTTTT
1 ATTTAAATAATTTTT
46918289 ATATGTACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTTAAATAATTTTTC
Found at i:46924538 original size:27 final size:27
Alignment explanation
Indices: 46924505--46924890 Score: 471
Period size: 27 Copynumber: 14.3 Consensus size: 27
46924495 GTAATGGGCC
*
46924505 TAAAATTACTGAAATACCCACGATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
*
46924532 TAAAATTACTAAAATACCCTCGATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
** *
46924559 TAAAATTACCAAAATACCCTTGATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
* * *
46924586 TAAAATTACCGAAATACACTCGATGGA
1 TAAAATTACTGAAATACCCTCGATGGG
*
46924613 TAAAATTACTGAAATACCC-CTGAAGGG
1 TAAAATTACTGAAATACCCTC-GATGGG
** *
46924640 T-AAATTACCAAAACACCC-CTGATGGG
1 TAAAATTACTGAAATACCCTC-GATGGG
*
46924666 TAAAATTACTGAAATACCCTTGATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
* **
46924693 TAAAATTACCGAAATACCCTTAATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
46924720 TAAAATTACTGAAATACCCTCGATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
*
46924747 TAAAATTATTGAAATACCCTCGATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
** * * *
46924774 TAAAATTTTTTAAATACCTTTGATGGG
1 TAAAATTACTGAAATACCCTCGATGGG
46924801 TAAAATTACTGAAATACCC-CTGATGGG
1 TAAAATTACTGAAATACCCTC-GATGGG
46924828 TAAAATTA-TCGAAATACCCTCGATGGG
1 TAAAATTACT-GAAATACCCTCGATGGG
46924855 TAAAATTA-TCGAAATACCC-CTGATGGG
1 TAAAATTACT-GAAATACCCTC-GATGGG
46924882 TAAAATTAC
1 TAAAATTAC
46924891 CGTAATAGCC
Statistics
Matches: 316, Mismatches: 35, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
26 25 0.08
27 290 0.92
28 1 0.00
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.27
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTCGATGGG
Found at i:46925102 original size:27 final size:27
Alignment explanation
Indices: 46925051--46925139 Score: 83
Period size: 27 Copynumber: 3.3 Consensus size: 27
46925041 GTTTCTACTA
*
46925051 GCTCTACCACACACATACTGATACTGGTG
1 GCTCTGCCACACAC-TACTG-TACTGGTG
46925080 GCTCTGCCACA-ACTACTGTTACTGGTG
1 GCTCTGCCACACACTACTG-TACTGGTG
* * * **
46925107 GCTTTGCCTCATA-TACTGTACTGGCA
1 GCTCTGCCACACACTACTGTACTGGTG
46925133 GCTCTGC
1 GCTCTGC
46925140 TGCATTATTA
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
26 12 0.23
27 27 0.52
28 3 0.06
29 10 0.19
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.29
Consensus pattern (27 bp):
GCTCTGCCACACACTACTGTACTGGTG
Found at i:46928052 original size:15 final size:15
Alignment explanation
Indices: 46928032--46928061 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
46928022 TTATAACTTC
46928032 TTTTTAGTTTAATTT
1 TTTTTAGTTTAATTT
*
46928047 TTTTTAGTTTTATTT
1 TTTTTAGTTTAATTT
46928062 ATCTAATTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.77
Consensus pattern (15 bp):
TTTTTAGTTTAATTT
Found at i:46929289 original size:21 final size:20
Alignment explanation
Indices: 46929265--46929310 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 20
46929255 ATGGAAGGAC
46929265 TTAATTGTATTAGACATATTA
1 TTAATTGTATTAGA-ATATTA
* *
46929286 TTAA--GTGTTAGAATTTTA
1 TTAATTGTATTAGAATATTA
46929304 TTAATTG
1 TTAATTG
46929311 AATGAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
18 9 0.43
19 7 0.33
20 1 0.05
21 4 0.19
ACGTcount: A:0.35, C:0.02, G:0.13, T:0.50
Consensus pattern (20 bp):
TTAATTGTATTAGAATATTA
Found at i:46929806 original size:20 final size:20
Alignment explanation
Indices: 46929783--46929875 Score: 64
Period size: 20 Copynumber: 4.7 Consensus size: 20
46929773 TGCCTCTATT
46929783 TACAATTTGGTGCCCCTGTA
1 TACAATTTGGTGCCCCTGTA
* * * *
46929803 TACACTTGGGTGTCCCTAT-
1 TACAATTTGGTGCCCCTGTA
* * ** *
46929822 TCGCACTACGGTGCCCCTGTT
1 T-ACAATTTGGTGCCCCTGTA
*
46929843 TACACATGT-GTGCCCCTGTA
1 TACA-ATTTGGTGCCCCTGTA
46929863 TACAATTTGGTGC
1 TACAATTTGGTGC
46929876 TCTTGTTATG
Statistics
Matches: 54, Mismatches: 15, Indels: 8
0.70 0.19 0.10
Matches are distributed among these distances:
19 4 0.07
20 48 0.89
21 2 0.04
ACGTcount: A:0.17, C:0.28, G:0.22, T:0.33
Consensus pattern (20 bp):
TACAATTTGGTGCCCCTGTA
Found at i:46932453 original size:28 final size:27
Alignment explanation
Indices: 46932390--46932454 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
46932380 GTACAACATG
* *
46932390 CAGTAGCAGTCTGGGCCTGAACCCTAA
1 CAGTAACAGTCTGGGCCTGAACCCAAA
* * * *
46932417 CAGCAACAGTGTGGGCCTTAGCCCAATA
1 CAGTAACAGTCTGGGCCTGAACCCAA-A
46932445 CAGTAACAGT
1 CAGTAACAGT
46932455 ACAATGCAGT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
27 20 0.67
28 10 0.33
ACGTcount: A:0.29, C:0.28, G:0.25, T:0.18
Consensus pattern (27 bp):
CAGTAACAGTCTGGGCCTGAACCCAAA
Found at i:46932617 original size:26 final size:26
Alignment explanation
Indices: 46932560--46932633 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
46932550 ACATCATCGC
* * **
46932560 AGCAAAGTTGCCAATAATAGTGATGCA
1 AGCAAAGCTGCCAGTAATAGT-AACCA
46932587 A-CAAAGCTGCCAGTAATAGTAACCA
1 AGCAAAGCTGCCAGTAATAGTAACCA
*
46932612 AGCAAAGCTGCCAGTAACAGTA
1 AGCAAAGCTGCCAGTAATAGTA
46932634 TATGTGGCAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
25 4 0.10
26 36 0.88
27 1 0.02
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.18
Consensus pattern (26 bp):
AGCAAAGCTGCCAGTAATAGTAACCA
Found at i:46932837 original size:27 final size:27
Alignment explanation
Indices: 46932806--46933113 Score: 404
Period size: 27 Copynumber: 11.4 Consensus size: 27
46932796 AGGGGTATGA
*
46932806 CAGTCACTTTACCCTTCGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
* * * *
46932833 TAGTCATTTTACCCTTTGAGGTTCTTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
*
46932860 CGGTCATTTTACCCTTCGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
* *
46932887 CAGTCATTTTAACCTTTGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
*
46932914 C-GATCATTTTACCCTTTTG-GGGTATTT
1 CAG-TCATTTTACCC-TTCGAGGGTATTT
** *
46932941 TGGTCATTTTACCCTTCGAAGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
*
46932968 CAGTCATTTTACCCTTCGGGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
46932995 CAGTCATTTTACCCTTCGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
*
46933022 CGGTCATTTTACCCTTCGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
*** *
46933049 TTTTCATTTTACCCTTCGAAGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
* *
46933076 CGGTCATTTTACCCTTTGAGGGTATTT
1 CAGTCATTTTACCCTTCGAGGGTATTT
46933103 CAGTCATTTTA
1 CAGTCATTTTA
46933114 GGCCCATTAC
Statistics
Matches: 244, Mismatches: 33, Indels: 8
0.86 0.12 0.03
Matches are distributed among these distances:
26 4 0.02
27 235 0.96
28 5 0.02
ACGTcount: A:0.17, C:0.20, G:0.19, T:0.44
Consensus pattern (27 bp):
CAGTCATTTTACCCTTCGAGGGTATTT
Found at i:46942993 original size:24 final size:24
Alignment explanation
Indices: 46942887--46942993 Score: 90
Period size: 25 Copynumber: 4.4 Consensus size: 24
46942877 ACGAGCTTTG
* *
46942887 AATCGGTATGCTCTTACGAGCTGTA
1 AATCGGTAAGCTCATACGAGCTG-A
* * * *
46942912 AA-CGATAGGCTCATTCGAGTTGA
1 AATCGGTAAGCTCATACGAGCTGA
* * * *
46942935 ATAACAGTAAGCTCATGCGAGCTAA
1 A-ATCGGTAAGCTCATACGAGCTGA
46942960 GAATCGGTAAGCTCATACGAGCTGA
1 -AATCGGTAAGCTCATACGAGCTGA
46942985 AATCGGTAA
1 AATCGGTAA
46942994 CCCTAATGAC
Statistics
Matches: 64, Mismatches: 15, Indels: 7
0.74 0.17 0.08
Matches are distributed among these distances:
23 2 0.03
24 25 0.39
25 36 0.56
26 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (24 bp):
AATCGGTAAGCTCATACGAGCTGA
Found at i:46946158 original size:27 final size:27
Alignment explanation
Indices: 46946106--46946323 Score: 84
Period size: 27 Copynumber: 8.1 Consensus size: 27
46946096 ACATAAGGCC
*
46946106 ATAACAGTCATTTCATCTCCTA--GGGGT
1 ATAACAGTCATTTTA-C-CCTATGGGGGT
* *
46946133 ATAACAGTTATTTTACTCTATGGGGGT
1 ATAACAGTCATTTTACCCTATGGGGGT
** *
46946160 ATTTCGGTCATTTTACCCTATGGGGGT
1 ATAACAGTCATTTTACCCTATGGGGGT
**** *
46946187 ATTTTGGTTATTTTACCCTATGGAGGG-
1 ATAACAGTCATTTTACCCTATGG-GGGT
* * * * *
46946214 AGT-TCGGTCAGTTTACCCGATGGGAGT
1 A-TAACAGTCATTTTACCCTATGGGGGT
** * * ** *
46946241 ATTTCGGTCATTTTACCATATAAGGTT
1 ATAACAGTCATTTTACCCTATGGGGGT
**** *
46946268 ATTTTGGTCATTTTATCCTATGGGGGT
1 ATAACAGTCATTTTACCCTATGGGGGT
** * *
46946295 ATTTCGGTCATTTTACCCTAAGGGGGT
1 ATAACAGTCATTTTACCCTATGGGGGT
46946322 AT
1 AT
46946324 TGTGCTCATT
Statistics
Matches: 154, Mismatches: 31, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
25 3 0.02
26 4 0.03
27 143 0.93
28 4 0.03
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.40
Consensus pattern (27 bp):
ATAACAGTCATTTTACCCTATGGGGGT
Found at i:46946324 original size:27 final size:27
Alignment explanation
Indices: 46946142--46946338 Score: 227
Period size: 27 Copynumber: 7.3 Consensus size: 27
46946132 TATAACAGTT
*
46946142 ATTTTACTCTATGGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
46946169 ATTTTACCCTATGGGGGTATTTTGGTT
1 ATTTTACCCTATGGGGGTATTTCGGTC
*
46946196 ATTTTACCCTATGGAGGG-AGTTCGGTC
1 ATTTTACCCTATGG-GGGTATTTCGGTC
* * *
46946223 AGTTTACCCGATGGGAGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* ** * *
46946250 ATTTTACCATATAAGGTTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
*
46946277 ATTTTATCCTATGGGGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTC
* *
46946304 ATTTTACCCTAAGGGGGTATTGT-GCTC
1 ATTTTACCCTATGGGGGTATT-TCGGTC
46946331 ATTTTACC
1 ATTTTACC
46946339 TATTTTGGGG
Statistics
Matches: 140, Mismatches: 27, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
26 2 0.01
27 134 0.96
28 4 0.03
ACGTcount: A:0.18, C:0.16, G:0.24, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTATGGGGGTATTTCGGTC
Found at i:46949772 original size:27 final size:27
Alignment explanation
Indices: 46949713--46949860 Score: 183
Period size: 27 Copynumber: 5.5 Consensus size: 27
46949703 GTATAATAGC
* * *
46949713 CATTTTACTCTATGGGGGGTATTTCGAT
1 CATTTTACCCTAT-AGGGGTATTTCGGT
*
46949741 CATTTTACCCTATAGGGGTATTTTGGT
1 CATTTTACCCTATAGGGGTATTTCGGT
* *
46949768 TATTTTACCCTATAGGGTTATTTCGGT
1 CATTTTACCCTATAGGGGTATTTCGGT
*
46949795 CATTTTACCCTAT-GTGGGTATTTCAGT
1 CATTTTACCCTATAG-GGGTATTTCGGT
* *
46949822 CATTTTACCCTATAAGGGTATTTTGGT
1 CATTTTACCCTATAGGGGTATTTCGGT
46949849 CATTTT-CCCTAT
1 CATTTTACCCTAT
46949861 TTTAAGGTCT
Statistics
Matches: 105, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
26 7 0.07
27 86 0.82
28 12 0.11
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.45
Consensus pattern (27 bp):
CATTTTACCCTATAGGGGTATTTCGGT
Found at i:46958366 original size:24 final size:24
Alignment explanation
Indices: 46958318--46958364 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
46958308 ATTGGTCATA
*
46958318 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
46958342 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
46958365 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:46959201 original size:14 final size:14
Alignment explanation
Indices: 46959179--46959209 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
46959169 AGCATTTTCA
46959179 TGGGCGATAGACTG
1 TGGGCGATAGACTG
*
46959193 TGGGTGATAGACTG
1 TGGGCGATAGACTG
46959207 TGG
1 TGG
46959210 AGGCTTCCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.10, G:0.45, T:0.26
Consensus pattern (14 bp):
TGGGCGATAGACTG
Found at i:46959706 original size:27 final size:27
Alignment explanation
Indices: 46959527--46959709 Score: 208
Period size: 27 Copynumber: 6.8 Consensus size: 27
46959517 GCCCCTATTA
* * * *
46959527 GGTAAAATGATCGAAATGCGCCTATAG
1 GGTAAAATGATTGAAATACCCCCATAG
***
46959554 GGTAAAATGACCAAAATACCCCCATAG
1 GGTAAAATGATTGAAATACCCCCATAG
*
46959581 GATAAAATGATTGAAATACCCCCATAG
1 GGTAAAATGATTGAAATACCCCCATAG
* *
46959608 GGTAAAATGATTGAGATA-CCTCATAG
1 GGTAAAATGATTGAAATACCCCCATAG
*
46959634 GGTAAAATGACCT-AAATACCCCCATAG
1 GGTAAAATGA-TTGAAATACCCCCATAG
* *
46959661 GGTAAAATGACTAAAATACCCCCATAG
1 GGTAAAATGATTGAAATACCCCCATAG
**
46959688 GGTAAAATGATTGTTATACCCC
1 GGTAAAATGATTGAAATACCCC
46959710 TAGGAGATGA
Statistics
Matches: 134, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
26 23 0.17
27 111 0.83
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (27 bp):
GGTAAAATGATTGAAATACCCCCATAG
Found at i:46959707 original size:80 final size:80
Alignment explanation
Indices: 46959550--46959700 Score: 266
Period size: 80 Copynumber: 1.9 Consensus size: 80
46959540 AAATGCGCCT
* *
46959550 ATAGGGTAAAATGACCAAAATACCCCCATAGGATAAAATGATTGAAATACCCCCATAGGGTAAAA
1 ATAGGGTAAAATGACCAAAATACCCCCATAGGATAAAATGACTAAAATACCCCCATAGGGTAAAA
46959615 TGATTGAGATACCTC
66 TGATTGAGATACCTC
* *
46959630 ATAGGGTAAAATGACCTAAATACCCCCATAGGGTAAAATGACTAAAATACCCCCATAGGGTAAAA
1 ATAGGGTAAAATGACCAAAATACCCCCATAGGATAAAATGACTAAAATACCCCCATAGGGTAAAA
46959695 TGATTG
66 TGATTG
46959701 TTATACCCCT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 67 1.00
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.21
Consensus pattern (80 bp):
ATAGGGTAAAATGACCAAAATACCCCCATAGGATAAAATGACTAAAATACCCCCATAGGGTAAAA
TGATTGAGATACCTC
Found at i:46962894 original size:13 final size:13
Alignment explanation
Indices: 46962871--46962904 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
46962861 TACCAAAACC
46962871 AATAGATACTTATT
1 AATA-ATACTTATT
46962885 AATAATACTTATT
1 AATAATACTTATT
*
46962898 AAAAATA
1 AATAATA
46962905 GTTCGAGGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (13 bp):
AATAATACTTATT
Found at i:46965122 original size:57 final size:57
Alignment explanation
Indices: 46965060--46965172 Score: 208
Period size: 57 Copynumber: 2.0 Consensus size: 57
46965050 GTTTTACCTA
46965060 ACACTAGCATATTTAAATCATAAAACCATATAAAAACCAAATTTAAACCAAAATCCT
1 ACACTAGCATATTTAAATCATAAAACCATATAAAAACCAAATTTAAACCAAAATCCT
* *
46965117 ACACTAGCATATTTAAATCATAAAACCGTATAAAAACCAAATTTAAGCCAAAATCC
1 ACACTAGCATATTTAAATCATAAAACCATATAAAAACCAAATTTAAACCAAAATCC
46965173 GTAAAGGCTA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.51, C:0.21, G:0.04, T:0.24
Consensus pattern (57 bp):
ACACTAGCATATTTAAATCATAAAACCATATAAAAACCAAATTTAAACCAAAATCCT
Found at i:46969242 original size:26 final size:26
Alignment explanation
Indices: 46969219--46969318 Score: 121
Period size: 26 Copynumber: 3.9 Consensus size: 26
46969209 CCAATATCTA
* *
46969219 AGCAAAGTTGCCAGTAATAGTATCGT
1 AGCAAAGCTGCCAGTAACAGTATCGT
* *
46969245 AGCAAAGCTGCCAGTAACAGTATTGC
1 AGCAAAGCTGCCAGTAACAGTATCGT
* * *
46969271 AGCAAAACTGTCAGTAACAGTATCGC
1 AGCAAAGCTGCCAGTAACAGTATCGT
*
46969297 AGCAAA-CTGCTAGTAACAGTAT
1 AGCAAAGCTGCCAGTAACAGTAT
46969319 GCTTCCTCCA
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
25 14 0.22
26 51 0.78
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.22
Consensus pattern (26 bp):
AGCAAAGCTGCCAGTAACAGTATCGT
Found at i:46969502 original size:27 final size:27
Alignment explanation
Indices: 46969485--46969642 Score: 208
Period size: 27 Copynumber: 5.9 Consensus size: 27
46969475 GTATAATAGC
*
46969485 CATTTTACCCTATGGGGGTATTTCGGT
1 CATTTTACCCTATGGGGGTATTTCAGT
* *
46969512 CATTTTACCTTATGAGGGTATTTCAGT
1 CATTTTACCCTATGGGGGTATTTCAGT
* * * *
46969539 CATTTTATCCTCTGAGGGTATTTCTGT
1 CATTTTACCCTATGGGGGTATTTCAGT
* * **
46969566 CATTTTTCCCTATGAGGGTATTTTGGT
1 CATTTTACCCTATGGGGGTATTTCAGT
*
46969593 CATTTTACCCTATGGGAGTATTTCAGT
1 CATTTTACCCTATGGGGGTATTTCAGT
46969620 CATTTTACCCTATGGGGGTATTT
1 CATTTTACCCTATGGGGGTATTT
46969643 TGATCATTTA
Statistics
Matches: 113, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 113 1.00
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.44
Consensus pattern (27 bp):
CATTTTACCCTATGGGGGTATTTCAGT
Found at i:46969570 original size:81 final size:81
Alignment explanation
Indices: 46969485--46969651 Score: 239
Period size: 81 Copynumber: 2.1 Consensus size: 81
46969475 GTATAATAGC
* * *
46969485 CATTTTACCCTATGGGGGTATTTCGGTCATTTTACCTTATGAGG-GTATTTCAGTCATTTTATCC
1 CATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTATG-GGAGTATTTCAGTCATTTTACCC
*
46969549 TCTGAGGGTATTTCTG-T
65 TATGAGGGTATTT-TGAT
* *
46969566 CATTTTTCCCTATGAGGGTATTTTGGTCATTTTACCCTATGGGAGTATTTCAGTCATTTTACCCT
1 CATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGAGTATTTCAGTCATTTTACCCT
*
46969631 ATGGGGGTATTTTGAT
66 ATGAGGGTATTTTGAT
46969647 CATTT
1 CATTT
46969652 ATTGACCTCT
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
80 4 0.05
81 73 0.95
ACGTcount: A:0.18, C:0.17, G:0.20, T:0.45
Consensus pattern (81 bp):
CATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGGGAGTATTTCAGTCATTTTACCCT
ATGAGGGTATTTTGAT
Found at i:46972400 original size:31 final size:32
Alignment explanation
Indices: 46972354--46972425 Score: 128
Period size: 31 Copynumber: 2.3 Consensus size: 32
46972344 AGCTGAGCTG
*
46972354 AAATAATCACAGGAAAAGTAGAGGTGTCACCT
1 AAATAAACACAGGAAAAGTAGAGGTGTCACCT
46972386 AAATAAACA-AGGAAAAGTAGAGGTGTCACCT
1 AAATAAACACAGGAAAAGTAGAGGTGTCACCT
46972417 AAATAAACA
1 AAATAAACA
46972426 TACTTTAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
31 31 0.79
32 8 0.21
ACGTcount: A:0.50, C:0.14, G:0.19, T:0.17
Consensus pattern (32 bp):
AAATAAACACAGGAAAAGTAGAGGTGTCACCT
Found at i:46978397 original size:46 final size:46
Alignment explanation
Indices: 46978329--46978538 Score: 181
Period size: 46 Copynumber: 4.6 Consensus size: 46
46978319 AGTTCTTACC
*
46978329 CAGGTTCCCAGCTCCTACATATGTTGCAGAATGGAGAA-ATCAAATT
1 CAGGTTCCCAGCTCCTGCATATGTTGCAGAATGGAGAATAT-AAATT
* * ** * * *
46978375 CAGGTTCCCAGTTCCTGTATATGTTGTGGACTTGAGAATATAGATT
1 CAGGTTCCCAGCTCCTGCATATGTTGCAGAATGGAGAATATAAATT
* * * * * * **
46978421 CAAGTTCCCAGCTCCTGGATATCTTGCAGACTAGATAATATAGGTT
1 CAGGTTCCCAGCTCCTGCATATGTTGCAGAATGGAGAATATAAATT
* * * *
46978467 TAGGTTCCCAACTCCTGCATATGTTGCGGATTGGAGAATA-AAAGTT
1 CAGGTTCCCAGCTCCTGCATATGTTGCAGAATGGAGAATATAAA-TT
* * *
46978513 TAGGTTCCCAGCTCTTGCAAATGTTG
1 CAGGTTCCCAGCTCCTGCATATGTTG
46978539 TAGGCTGGGG
Statistics
Matches: 131, Mismatches: 31, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
45 1 0.01
46 128 0.98
47 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (46 bp):
CAGGTTCCCAGCTCCTGCATATGTTGCAGAATGGAGAATATAAATT
Found at i:46978552 original size:46 final size:46
Alignment explanation
Indices: 46978464--46978552 Score: 108
Period size: 46 Copynumber: 1.9 Consensus size: 46
46978454 GATAATATAG
* * *
46978464 GTTTAGGTTCCCAACTCCTGCATATGTTGCGGATTGGAGAATAAAA
1 GTTTAGGTTCCCAACTCCTGCAAATGTTGAGGACTGGAGAATAAAA
* * *
46978510 GTTTAGGTTCCCAGCTCTTGCAAATGTTGTAGG-CTGGGGAATA
1 GTTTAGGTTCCCAACTCCTGCAAATGTTG-AGGACTGGAGAATA
46978553 TAGTAATAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
46 34 0.94
47 2 0.06
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (46 bp):
GTTTAGGTTCCCAACTCCTGCAAATGTTGAGGACTGGAGAATAAAA
Found at i:46981975 original size:16 final size:16
Alignment explanation
Indices: 46981954--46981986 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
46981944 GAGATAGTCT
46981954 ACGGGAAGCCCACATC
1 ACGGGAAGCCCACATC
46981970 ACGGGAAGCCCACATC
1 ACGGGAAGCCCACATC
46981986 A
1 A
46981987 GCATTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.36, G:0.24, T:0.06
Consensus pattern (16 bp):
ACGGGAAGCCCACATC
Found at i:46989733 original size:18 final size:17
Alignment explanation
Indices: 46989709--46989755 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 17
46989699 ACCGGTCACC
46989709 TTAAAAAAATATTAATT
1 TTAAAAAAATATTAATT
*
46989726 TGTAAAAATATA-TAATT
1 T-TAAAAAAATATTAATT
*
46989743 TTAAAAAAGTATT
1 TTAAAAAAATATT
46989756 TTGTTTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 8 0.32
17 8 0.32
18 9 0.36
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (17 bp):
TTAAAAAAATATTAATT
Found at i:46989734 original size:16 final size:16
Alignment explanation
Indices: 46989713--46989749 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
46989703 GTCACCTTAA
46989713 AAAAATAT-TAATTTGT
1 AAAAATATATAATTT-T
46989729 AAAAATATATAATTTT
1 AAAAATATATAATTTT
46989745 AAAAA
1 AAAAA
46989750 AGTATTTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (16 bp):
AAAAATATATAATTTT
Found at i:46989750 original size:17 final size:17
Alignment explanation
Indices: 46989712--46989755 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
46989702 GGTCACCTTA
46989712 AAAAAATATTAATTTGT
1 AAAAAATATTAATTTGT
46989729 -AAAAATATATAATTT-T
1 AAAAAATAT-TAATTTGT
46989745 AAAAAAGTATT
1 AAAAAA-TATT
46989756 TTGTTTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
16 9 0.38
17 12 0.50
18 3 0.12
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.39
Consensus pattern (17 bp):
AAAAAATATTAATTTGT
Found at i:46993052 original size:27 final size:26
Alignment explanation
Indices: 46993016--46993264 Score: 205
Period size: 27 Copynumber: 9.2 Consensus size: 26
46993006 AACAGTCAAA
46993016 TTTACCCATCGGGGATATTTCGA-ACAT
1 TTTACCCATCGGGG-TATTTCGATA-AT
* *
46993043 TTTACACATCGAGGGTATTCCGATAAT
1 TTTACCCATCG-GGGTATTTCGATAAT
* *
46993070 TTTACCCATTAGGGGTATTTCGGTAAT
1 TTTACCCA-TCGGGGTATTTCGATAAT
* * * *
46993097 TTTACCCATCAAGGGTCTTTTGGTAAT
1 TTTACCCATC-GGGGTATTTCGATAAT
* * *
46993124 TTTACCTATCGGTGGTATTTTGGTAAT
1 TTTACCCATCGG-GGTATTTCGATAAT
** * *
46993151 TTTACTTATTGTGGGTATTTTGATAAT
1 TTTACCCATCG-GGGTATTTCGATAAT
* *
46993178 TTTACCTATCGAGGGTATTTCGGTAAT
1 TTTACCCATCG-GGGTATTTCGATAAT
*
46993205 TTTACCTATCGAGGGTATTTC-AGTAAT
1 TTTACCCATCG-GGGTATTTCGA-TAAT
* *
46993232 TTTACCCATTAGGGGTATTTCGGTAAT
1 TTTACCCA-TCGGGGTATTTCGATAAT
46993259 TTTACC
1 TTTACC
46993265 TATTAAGAGT
Statistics
Matches: 188, Mismatches: 25, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
26 2 0.01
27 177 0.94
28 9 0.05
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (26 bp):
TTTACCCATCGGGGTATTTCGATAAT
Found at i:46993151 original size:81 final size:81
Alignment explanation
Indices: 46993016--46993289 Score: 299
Period size: 81 Copynumber: 3.4 Consensus size: 81
46993006 AACAGTCAAA
* * *
46993016 TTTACCCATC-GGGGATATTTC-GAACATTTTACAC-ATCGAGGGTA-TTCCGATAATTTTACCC
1 TTTACCCATCAAGGG-TATTTCGGTA-ATTTTAC-CTATCGAGGGTATTTCAG-TAATTTTACCC
46993077 ATTAGGGGTATTTCGGTAAT
62 ATTAGGGGTATTTCGGTAAT
* * ** **
46993097 TTTACCCATCAAGGGTCTTTTGGTAATTTTACCTATCG-GTGGTATTTTGGTAATTTTACTTATT
1 TTTACCCATCAAGGGTATTTCGGTAATTTTACCTATCGAG-GGTATTTCAGTAATTTTACCCATT
* *
46993161 -GTGGGTATTTTGATAAT
65 AG-GGGTATTTCGGTAAT
* *
46993178 TTTACCTATCGAGGGTATTTCGGTAATTTTACCTATCGAGGGTATTTCAGTAATTTTACCCATTA
1 TTTACCCATCAAGGGTATTTCGGTAATTTTACCTATCGAGGGTATTTCAGTAATTTTACCCATTA
46993243 GGGGTATTTCGGTAAT
66 GGGGTATTTCGGTAAT
* * * *
46993259 TTTACCTATTAAGAGTATTTCAGTAATTTTA
1 TTTACCCATCAAGGGTATTTCGGTAATTTTA
46993290 ACGTCCTTTT
Statistics
Matches: 161, Mismatches: 24, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
80 3 0.02
81 148 0.92
82 10 0.06
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.42
Consensus pattern (81 bp):
TTTACCCATCAAGGGTATTTCGGTAATTTTACCTATCGAGGGTATTTCAGTAATTTTACCCATTA
GGGGTATTTCGGTAAT
Found at i:46993265 original size:54 final size:53
Alignment explanation
Indices: 46993016--46993289 Score: 268
Period size: 54 Copynumber: 5.1 Consensus size: 53
46993006 AACAGTCAAA
* *
46993016 TTTACCCATCGGGGATATTTC-GAACATTTTACAC-ATCGAGGGTA-TTCCGATAAT
1 TTTACCCATCGGGG-TATTTCGGTA-ATTTTAC-CTATCGAGGGTATTTCAG-TAAT
* * * * **
46993070 TTTACCCATTAGGGGTATTTCGGTAATTTTACCCATCAAGGGTCTTTTGGTAAT
1 TTTACCCA-TCGGGGTATTTCGGTAATTTTACCTATCGAGGGTATTTCAGTAAT
* * * * * *
46993124 TTTACCTATCGGTGGTATTTTGGTAATTTTACTTATTGTGGGTATTT-TGATAAT
1 TTTACCCATCGG-GGTATTTCGGTAATTTTACCTATCGAGGGTATTTCAG-TAAT
*
46993178 TTTACCTATCGAGGGTATTTCGGTAATTTTACCTATCGAGGGTATTTCAGTAAT
1 TTTACCCATCG-GGGTATTTCGGTAATTTTACCTATCGAGGGTATTTCAGTAAT
* ** *
46993232 TTTACCCATTAGGGGTATTTCGGTAATTTTACCTATTAAGAGTATTTCAGTAAT
1 TTTACCCA-TCGGGGTATTTCGGTAATTTTACCTATCGAGGGTATTTCAGTAAT
46993286 TTTA
1 TTTA
46993290 ACGTCCTTTT
Statistics
Matches: 185, Mismatches: 26, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
53 5 0.03
54 166 0.90
55 14 0.08
ACGTcount: A:0.24, C:0.14, G:0.19, T:0.42
Consensus pattern (53 bp):
TTTACCCATCGGGGTATTTCGGTAATTTTACCTATCGAGGGTATTTCAGTAAT
Found at i:46993269 original size:27 final size:27
Alignment explanation
Indices: 46993055--46993289 Score: 226
Period size: 27 Copynumber: 8.7 Consensus size: 27
46993045 TACACATCGA
* * *
46993055 GGGTATTCCGATAATTTTACCCATTAG
1 GGGTATTTCGGTAATTTTACCTATTAG
* * *
46993082 GGGTATTTCGGTAATTTTACCCATCAA
1 GGGTATTTCGGTAATTTTACCTATTAG
* * *
46993109 GGGTCTTTTGGTAATTTTACCTA-TCG
1 GGGTATTTCGGTAATTTTACCTATTAG
* *
46993135 GTGGTATTTTGGTAATTTTACTTATT-G
1 G-GGTATTTCGGTAATTTTACCTATTAG
* * *
46993162 TGGGTATTTTGATAATTTTACCTA-TCG
1 -GGGTATTTCGGTAATTTTACCTATTAG
*
46993189 AGGGTATTTCGGTAATTTTACCTA-TCG
1 -GGGTATTTCGGTAATTTTACCTATTAG
* *
46993216 AGGGTATTTCAGTAATTTTACCCATTAG
1 -GGGTATTTCGGTAATTTTACCTATTAG
*
46993244 GGGTATTTCGGTAATTTTACCTATTAA
1 GGGTATTTCGGTAATTTTACCTATTAG
* *
46993271 GAGTATTTCAGTAATTTTA
1 GGGTATTTCGGTAATTTTA
46993290 ACGTCCTTTT
Statistics
Matches: 178, Mismatches: 25, Indels: 10
0.84 0.12 0.05
Matches are distributed among these distances:
26 2 0.01
27 172 0.97
28 4 0.02
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.44
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACCTATTAG
Found at i:46997651 original size:122 final size:122
Alignment explanation
Indices: 46997496--46997741 Score: 483
Period size: 122 Copynumber: 2.0 Consensus size: 122
46997486 ACGGTTTATC
46997496 AATGGTATTCTGGTTAGTAATAATTTATAGATCTAATTAGTTAACTTCACATTCTGGGTTTTTTT
1 AATGGTATTCTGGTTAGTAATAATTTATAGATCTAATTAGTTAACTTCACATTCTGGGTTTTTTT
*
46997561 TCTTTTTGGATTAATGTATTTGATTGAATGCTCTCTCATTAGTTTCATGTAATTTGA
66 TCTTTTTGGATTAAGGTATTTGATTGAATGCTCTCTCATTAGTTTCATGTAATTTGA
46997618 AATGGTATTCTGGTTAGTAATAATTTATAGATCTAATTAGTTAACTTCACATTCTGGGTTTTTTT
1 AATGGTATTCTGGTTAGTAATAATTTATAGATCTAATTAGTTAACTTCACATTCTGGGTTTTTTT
46997683 TCTTTTTGGATTAAGGTATTTGATTGAATGCTCTCTCATTAGTTTCATGTAATTTGA
66 TCTTTTTGGATTAAGGTATTTGATTGAATGCTCTCTCATTAGTTTCATGTAATTTGA
46997740 AA
1 AA
46997742 GATTGGAATG
Statistics
Matches: 123, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
122 123 1.00
ACGTcount: A:0.26, C:0.10, G:0.16, T:0.48
Consensus pattern (122 bp):
AATGGTATTCTGGTTAGTAATAATTTATAGATCTAATTAGTTAACTTCACATTCTGGGTTTTTTT
TCTTTTTGGATTAAGGTATTTGATTGAATGCTCTCTCATTAGTTTCATGTAATTTGA
Found at i:47005120 original size:3 final size:3
Alignment explanation
Indices: 47005112--47005211 Score: 200
Period size: 3 Copynumber: 33.3 Consensus size: 3
47005102 ATTGGCTTTT
47005112 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
47005160 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
47005208 AGA A
1 AGA A
47005212 AATCAAATTC
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 97 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:47011102 original size:16 final size:15
Alignment explanation
Indices: 47011073--47011109 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
47011063 CAATATAAAG
47011073 ATAAC-AATAATATA
1 ATAACAAATAATATA
47011087 ATAACAAATAAATATA
1 ATAACAAAT-AATATA
47011103 AT-ACAAA
1 ATAACAAA
47011110 GGAATCCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.24
15 8 0.38
16 8 0.38
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (15 bp):
ATAACAAATAATATA
Found at i:47011347 original size:12 final size:12
Alignment explanation
Indices: 47011318--47011360 Score: 52
Period size: 11 Copynumber: 3.5 Consensus size: 12
47011308 TAAAAAGAAC
47011318 ATAAAATATAAAA
1 ATAAAATA-AAAA
*
47011331 TATAAAATAAACA
1 -ATAAAATAAAAA
47011344 AT-AAATAAAAA
1 ATAAAATAAAAA
47011355 ATAAAA
1 ATAAAA
47011361 ATTCGGTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 10 0.38
12 5 0.19
13 3 0.12
14 8 0.31
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (12 bp):
ATAAAATAAAAA
Found at i:47011692 original size:42 final size:42
Alignment explanation
Indices: 47011630--47011714 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
47011620 TACTGCGAAG
47011630 CTGGAAGGACTGCATGCGCAAATATCCCCTCACATCAAAAAA
1 CTGGAAGGACTGCATGCGCAAATATCCCCTCACATCAAAAAA
* *
47011672 CTGGAAGGACTGCATTCGCAAATATCCCCTCACATCAGAAAA
1 CTGGAAGGACTGCATGCGCAAATATCCCCTCACATCAAAAAA
47011714 C
1 C
47011715 ACACAGATCC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.36, C:0.29, G:0.16, T:0.18
Consensus pattern (42 bp):
CTGGAAGGACTGCATGCGCAAATATCCCCTCACATCAAAAAA
Found at i:47013099 original size:44 final size:43
Alignment explanation
Indices: 47013030--47013440 Score: 295
Period size: 44 Copynumber: 9.3 Consensus size: 43
47013020 CTACCAAAAT
*
47013030 AGGAAGACAAGACCTGCTATCTTCGATCTACTTCACGCCAATAC
1 AGGAAGACAAGATCTG-TATCTTCGATCTACTTCACGCCAATAC
* * * * * * *
47013074 ATGAATACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTAT
1 AGGAAGACAAGATCTG-TATCTTCGATCTACTTC-ACGCCAATAC
* * * *
47013119 GGGAAGACACGATCTGCATCTTCGATCGACTTCACGCCAATAC
1 AGGAAGACAAGATCTGTATCTTCGATCTACTTCACGCCAATAC
* * * * * * *
47013162 ATGAATACAAGATCTACTTTCTTCGATCTACTTCGCCCCCAATAT
1 AGGAAGACAAGATCT-GTATCTTCGATCTACTTC-ACGCCAATAC
* * * * *
47013207 GGGAAGACAAGATCTGCATCTTCGATCCACTTC-CTACCAATAT
1 AGGAAGACAAGATCTGTATCTTCGATCTACTTCAC-GCCAATAC
* *
47013250 AGGAAGACAAGACCTGTTATCCTCGATCTACTTCACGCCAATAC
1 AGGAAGACAAGATCTG-TATCTTCGATCTACTTCACGCCAATAC
* * * * * *
47013294 ATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTAT
1 AGGAAGACAAGATCTG-TATCTTCGATCTACTTC-ACGCCAATAC
* * ** * * * *
47013339 GGGAAAACAAGATCTACACCTTCGATCCACTTC-CTACCAATAT
1 AGGAAGACAAGATCTGTATCTTCGATCTACTTCAC-GCCAATAC
* * * * *
47013382 AGGAAAACAGGATCTGCATTCTTTGATCTACTTCACGCTAATAC
1 AGGAAGACAAGATCTGTA-TCTTCGATCTACTTCACGCCAATAC
*
47013426 ATGAAGACAAGATCT
1 AGGAAGACAAGATCT
47013441 ACATCTTTTA
Statistics
Matches: 281, Mismatches: 76, Indels: 20
0.75 0.20 0.05
Matches are distributed among these distances:
42 2 0.01
43 60 0.21
44 162 0.58
45 57 0.20
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (43 bp):
AGGAAGACAAGATCTGTATCTTCGATCTACTTCACGCCAATAC
Found at i:47013145 original size:88 final size:87
Alignment explanation
Indices: 47013022--47013440 Score: 394
Period size: 88 Copynumber: 4.8 Consensus size: 87
47013012 TCCACTTTCT
* * *
47013022 ACCAAAATAGGAAGACAAGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAATACAAGAT
1 ACCAATATAGGAAGACAAGATCTGC-ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGAT
*
47013087 CTGTTTTCTTCGATCTACTTCGCC
65 CTGTTATCTTCGATCTACTTC-CC
* * * * *
47013111 ACCAGTATGGGAAGACACGATCTGCATCTTCGATCGACTTCACGCCAATACATGAATACAAGATC
1 ACCAATATAGGAAGACAAGATCTGCATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
*
47013176 TACTT-TCTTCGATCTACTTCGCC
66 T-GTTATCTTCGATCTACTTC-CC
* * * * * * *
47013199 CCCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTC-CTACCAATATAGGAAGACAAGAC
1 ACCAATATAGGAAGACAAGATCTGCATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGAT
* *
47013263 CTGTTATCCTCGATCTACTTCAC
65 CTGTTATCTTCGATCTACTTCCC
* * * * * * * *** *
47013286 GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAAACAAGA
1 ACCAATATAGGAAGACAAGATCTGC-ATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGA
** * * *
47013351 TCT-ACACCTTCGATCCACTTCCT
64 TCTGTTATCTTCGATCTACTTCCC
* * * *
47013374 ACCAATATAGGAAAACAGGATCTGCATTCTTTGATCTACTTCACGCTAATACATGAAGACAAGAT
1 ACCAATATAGGAAGACAAGATCTGCA-TCTTCGATCTACTTCACGCCAATACATGAAGACAAGAT
47013439 CT
65 CT
47013441 ACATCTTTTA
Statistics
Matches: 272, Mismatches: 51, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
87 42 0.15
88 188 0.69
89 41 0.15
90 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (87 bp):
ACCAATATAGGAAGACAAGATCTGCATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
TGTTATCTTCGATCTACTTCCC
Found at i:47013276 original size:132 final size:131
Alignment explanation
Indices: 47013032--47013442 Score: 500
Period size: 132 Copynumber: 3.1 Consensus size: 131
47013022 ACCAAAATAG
* * * * * *** * **
47013032 GAAGACAAGACCTGCTATCTTCGATCTACTTC-ACGCCAATACATGAATACAAGATCTGTTTTCT
1 GAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAAACAAGATCTG-CATCT
* * * * * *
47013096 TCGATCTACTTCGCCACCAGTATGGGAAGACACGATCTGCATCTTCGATCGACTTCACGCCAATA
65 TCGATCCACTTC-CTACCAATATAGGAAGACAAGATCTGCATCTTCGATCTACTTCACGCCAATA
47013161 CAT
129 CAT
* * *
47013164 GAATACAAGATCTACTTTCTTCGATCTACTTCGCCCCCAATATGGGAAGACAAGATCTGCATCTT
1 GAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAAACAAGATCTGCATCTT
* * *
47013229 CGATCCACTTCCTACCAATATAGGAAGACAAGACCTGTTATCCTCGATCTACTTCACGCCAATAC
66 CGATCCACTTCCTACCAATATAGGAAGACAAGATCTG-CATCTTCGATCTACTTCACGCCAATAC
47013294 AT
130 AT
* * * *
47013296 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAAACAAGATCTACACCTT
1 GAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAAACAAGATCTGCATCTT
* * * *
47013361 CGATCCACTTCCTACCAATATAGGAAAACAGGATCTGCATTCTTTGATCTACTTCACGCTAATAC
66 CGATCCACTTCCTACCAATATAGGAAGACAAGATCTGCA-TCTTCGATCTACTTCACGCCAATAC
47013426 AT
130 AT
47013428 GAAGACAAGATCTAC
1 GAAGACAAGATCTAC
47013443 ATCTTTTATG
Statistics
Matches: 240, Mismatches: 36, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
131 22 0.09
132 198 0.82
133 20 0.08
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (131 bp):
GAAGACAAGATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAAACAAGATCTGCATCTT
CGATCCACTTCCTACCAATATAGGAAGACAAGATCTGCATCTTCGATCTACTTCACGCCAATACA
T
Found at i:47013412 original size:220 final size:220
Alignment explanation
Indices: 47013011--47013415 Score: 623
Period size: 220 Copynumber: 1.8 Consensus size: 220
47013001 CTATTTTTCA
* *
47013011 ATCCACTTTCTACCAAAATAGGAAGACAAGACCTGCTATCTTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTACCAAAATAGGAAGACAAGACCTGCTATCCTCGATCTACTTCACGCCAATACAT
* * * * * *
47013076 GAATACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACACGATCTGCATCTT
66 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAAACAAGATCTACACCTT
* * * * *
47013141 CGATCGACTTCACGCCAATACATGAATACAAGATCTACTTTCTTCGATCTACTTCGCCCCCAATA
131 CGATCCACTTCACACCAATACAGGAAAACAAGATCTACATTCTTCGATCTACTTCGCCCCCAATA
47013206 TGGGAAGACAAGATCTGCATCTTCG
196 TGGGAAGACAAGATCTGCATCTTCG
* *
47013231 ATCCACTTCCTACCAATATAGGAAGACAAGACCTGTTATCCTCGATCTACTTCACGCCAATACAT
1 ATCCACTTCCTACCAAAATAGGAAGACAAGACCTGCTATCCTCGATCTACTTCACGCCAATACAT
47013296 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAAACAAGATCTACACCTT
66 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAAACAAGATCTACACCTT
* * * *
47013361 CGATCCACTTC-CTACCAATATAGGAAAACAGGATCTGCATTCTTTGATCTACTTC
131 CGATCCACTTCAC-ACCAATACAGGAAAACAAGATCTACATTCTTCGATCTACTTC
47013416 ACGCTAATAC
Statistics
Matches: 165, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
219 1 0.01
220 164 0.99
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (220 bp):
ATCCACTTCCTACCAAAATAGGAAGACAAGACCTGCTATCCTCGATCTACTTCACGCCAATACAT
GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAAACAAGATCTACACCTT
CGATCCACTTCACACCAATACAGGAAAACAAGATCTACATTCTTCGATCTACTTCGCCCCCAATA
TGGGAAGACAAGATCTGCATCTTCG
Found at i:47014107 original size:108 final size:109
Alignment explanation
Indices: 47013917--47014113 Score: 326
Period size: 108 Copynumber: 1.8 Consensus size: 109
47013907 AAAAAATGCT
47013917 TGAAAAAGATTATCAAAATGGACAAGATGAAATTTTGTTTGAGAGCAAAGCTCTAAACAAACAAA
1 TGAAAAAGATTATCAAAATGGACAAGATGAAATTTTGTTTGAGAGCAAAGCTCTAAACAAACAAA
47013982 TCAATCAAGATAGCAAATTTTGCTGAGCTACGAGATGTATAAGA
66 TCAATCAAGATAGCAAATTTTGCTGAGCTACGAGATGTATAAGA
* * **
47014026 TGAAAAAGATTATCACAATGGATAAGATGGAAA-TTTG-TTGAGAGCAAAGCTCTAAATGAACAA
1 TGAAAAAGATTATCAAAATGGACAAGAT-GAAATTTTGTTTGAGAGCAAAGCTCTAAACAAACAA
*
47014089 ATTAATCAAGATAGCAAATTTTGCT
65 ATCAATCAAGATAGCAAATTTTGCT
47014114 AGAATACAAA
Statistics
Matches: 82, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
108 48 0.59
109 30 0.37
110 4 0.05
ACGTcount: A:0.45, C:0.11, G:0.18, T:0.26
Consensus pattern (109 bp):
TGAAAAAGATTATCAAAATGGACAAGATGAAATTTTGTTTGAGAGCAAAGCTCTAAACAAACAAA
TCAATCAAGATAGCAAATTTTGCTGAGCTACGAGATGTATAAGA
Found at i:47014177 original size:45 final size:45
Alignment explanation
Indices: 47014079--47014179 Score: 107
Period size: 45 Copynumber: 2.2 Consensus size: 45
47014069 GCAAAGCTCT
* *
47014079 AAATGAACAAATTAATCAAGATAGCAAATTTTGCTAGAATACAAA
1 AAATGAATAAATTAATCAAGATAGCAAATTTTGCTAAAATACAAA
* * * **
47014124 ATGA-GAATAGATTAATCAAGATGGCGTATTTTG-TCAAAATACAAA
1 A-AATGAATAAATTAATCAAGATAGCAAATTTTGCT-AAAATACAAA
47014169 AAATGAATAAA
1 AAATGAATAAA
47014180 ATGGAAATAG
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
44 2 0.05
45 41 0.93
46 1 0.02
ACGTcount: A:0.51, C:0.09, G:0.14, T:0.26
Consensus pattern (45 bp):
AAATGAATAAATTAATCAAGATAGCAAATTTTGCTAAAATACAAA
Found at i:47025677 original size:20 final size:20
Alignment explanation
Indices: 47025654--47025691 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
47025644 AACATAAAAT
47025654 ATAAAATAAAAAAATAAACA
1 ATAAAATAAAAAAATAAACA
47025674 ATAAAATAAAAAAATAAA
1 ATAAAATAAAAAAATAAA
47025692 ATTTCGGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.16
Consensus pattern (20 bp):
ATAAAATAAAAAAATAAACA
Found at i:47026095 original size:36 final size:36
Alignment explanation
Indices: 47026048--47026139 Score: 175
Period size: 36 Copynumber: 2.6 Consensus size: 36
47026038 GGTCCAAAAG
47026048 CTAAACGACGTCGTTTTAGGGCTATGGTGCCAAGCC
1 CTAAACGACGTCGTTTTAGGGCTATGGTGCCAAGCC
47026084 CTAAACGACGTCGTTTTAGGGCTATGGTGCCAAGCC
1 CTAAACGACGTCGTTTTAGGGCTATGGTGCCAAGCC
*
47026120 CTAAACGACGCCGTTTTAGG
1 CTAAACGACGTCGTTTTAGG
47026140 AGGGGTATAA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.23, C:0.25, G:0.27, T:0.25
Consensus pattern (36 bp):
CTAAACGACGTCGTTTTAGGGCTATGGTGCCAAGCC
Found at i:47033830 original size:165 final size:165
Alignment explanation
Indices: 47033552--47034043 Score: 867
Period size: 165 Copynumber: 3.0 Consensus size: 165
47033542 GGTTTGTGAT
* *
47033552 TATATCTTGAATTATGATTGGAGCAGTACAAAACGTGATTAATGGTTGTATTAAATGTTTCAATA
1 TATATCTTGAATTATGATTGGAACAGTACAAAACGTGATTAATGGTTGTATTAAATGTTTCGATA
47033617 TGTTAAAAGAGGTTGAATGAATGTAGGAATAGATACAATTGGCATTCCAATAGGTTTGATTGCGT
66 TGTTAAAAGAGGTTGAATGAATGTAGGAATAGATACAATTGGCATTCCAATAGGTTTGATTGCGT
47033682 GTTTGTACGGGATATGTGTAAAAGATGATACAGAG
131 GTTTGTACGGGATATGTGTAAAAGATGATACAGAG
47033717 TATATCTTGAATTATGATTGGAACAGTACAAAACGTGATTAATGGTTGTATTAAATGTTTCGATA
1 TATATCTTGAATTATGATTGGAACAGTACAAAACGTGATTAATGGTTGTATTAAATGTTTCGATA
* *
47033782 TGTTAAAAGAGGTTGAATGAATGTAGGAATAGATACAATTGACATTCCAATGGGTTTGATTGCGT
66 TGTTAAAAGAGGTTGAATGAATGTAGGAATAGATACAATTGGCATTCCAATAGGTTTGATTGCGT
* * **
47033847 GTTTGTACGGGATATGTGTAAAATATTATATGGAG
131 GTTTGTACGGGATATGTGTAAAAGATGATACAGAG
*
47033882 TATATCTTGAATTATGATTGGAATAGTACAAAACGTGATTAATGGTTGTATTAAATGTTTCGATA
1 TATATCTTGAATTATGATTGGAACAGTACAAAACGTGATTAATGGTTGTATTAAATGTTTCGATA
* * *
47033947 TGTTAAAAGAGGTTGAATAAATATAGGAATAGATACAATTGGCATTCCAATAGGTTTGATTGTGT
66 TGTTAAAAGAGGTTGAATGAATGTAGGAATAGATACAATTGGCATTCCAATAGGTTTGATTGCGT
*
47034012 GTTTGTACAGGATATGTGTAAAAGATGATACA
131 GTTTGTACGGGATATGTGTAAAAGATGATACA
47034044 AACTAAAAGA
Statistics
Matches: 308, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
165 308 1.00
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.35
Consensus pattern (165 bp):
TATATCTTGAATTATGATTGGAACAGTACAAAACGTGATTAATGGTTGTATTAAATGTTTCGATA
TGTTAAAAGAGGTTGAATGAATGTAGGAATAGATACAATTGGCATTCCAATAGGTTTGATTGCGT
GTTTGTACGGGATATGTGTAAAAGATGATACAGAG
Found at i:47036595 original size:105 final size:104
Alignment explanation
Indices: 47036403--47036604 Score: 264
Period size: 105 Copynumber: 1.9 Consensus size: 104
47036393 GTCTAGGCTA
* *
47036403 TGTAACTCACTGTTTATGATTTAAGACCACACAGTCAGGGACATAGACGTGTGCCCAGGCTATGT
1 TGTAACTCACTATTTATGATTTAAGACCACACAGTCAGGGACATAGACGTATGCCCAGGCTATGT
*
47036468 GAACCGCACGGGCAAGGACATGGGCGTGTGTCCAGGTCG
66 GAACCACACGGGCAAGGACATGGGCGTGTGTCCAGGTCG
* ** * * *
47036507 TGTAACTCACTATTTGTGATTT-AGAATTACACGGTCAGAGGACATATACGTATGTCCAGGC-AG
1 TGTAACTCACTATTTATGATTTAAG-ACCACACAGTCAG-GGACATAGACGTATGCCCAGGCTA-
* *
47036570 TGTGAGCCACACGGGCAAGGGCATGGGCGTGTGTC
63 TGTGAACCACACGGGCAAGGACATGGGCGTGTGTC
47036605 TAGGCCATGT
Statistics
Matches: 84, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
103 2 0.02
104 31 0.37
105 51 0.61
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (104 bp):
TGTAACTCACTATTTATGATTTAAGACCACACAGTCAGGGACATAGACGTATGCCCAGGCTATGT
GAACCACACGGGCAAGGACATGGGCGTGTGTCCAGGTCG
Found at i:47043042 original size:18 final size:17
Alignment explanation
Indices: 47043017--47043054 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
47043007 TAAGTCCTTT
47043017 TTTATTTTTCTTATTTA
1 TTTATTTTTCTTATTTA
*
47043034 TTTATTTTTTGTTATTTA
1 TTTA-TTTTTCTTATTTA
47043052 TTT
1 TTT
47043055 TTATCTCATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTATTTTTCTTATTTA
Found at i:47045161 original size:21 final size:20
Alignment explanation
Indices: 47045137--47045203 Score: 68
Period size: 21 Copynumber: 3.4 Consensus size: 20
47045127 TTTTTTTTTC
47045137 TAATTTTAAATTATTTTCTAT
1 TAATTTTAAATTATTTT-TAT
* *
47045158 TAATTCT--ATTATTTTTAA
1 TAATTTTAAATTATTTTTAT
47045176 TAATTTTAAATCTAGTTTTT-T
1 TAATTTTAAAT-TA-TTTTTAT
47045197 TAATTTT
1 TAATTTT
47045204 CAAAAATCCT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 8 0.21
19 8 0.21
20 2 0.05
21 15 0.39
22 5 0.13
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (20 bp):
TAATTTTAAATTATTTTTAT
Found at i:47052263 original size:16 final size:16
Alignment explanation
Indices: 47052242--47052274 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
47052232 TTATGTCTCC
*
47052242 AATGGGTTGACCTGTG
1 AATGGGTTGACATGTG
47052258 AATGGGTTGACATGTG
1 AATGGGTTGACATGTG
47052274 A
1 A
47052275 CTCTCCATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.09, G:0.36, T:0.30
Consensus pattern (16 bp):
AATGGGTTGACATGTG
Found at i:47052964 original size:40 final size:40
Alignment explanation
Indices: 47052893--47052983 Score: 101
Period size: 40 Copynumber: 2.3 Consensus size: 40
47052883 ACCAGGCAAG
* * **
47052893 GGTATTAATAAAATAGGGAAGGTATCAATACTCTATTAAA
1 GGTATTGATACAATAGGGAAAATATCAATACTCTATTAAA
* * *
47052933 GGTATTGATACAATAGGGAAAATATCGATACTTTGTTAAA
1 GGTATTGATACAATAGGGAAAATATCAATACTCTATTAAA
* *
47052973 TGTATCGATAC
1 GGTATTGATAC
47052984 TTTTGATATT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.32
Consensus pattern (40 bp):
GGTATTGATACAATAGGGAAAATATCAATACTCTATTAAA
Found at i:47054034 original size:38 final size:38
Alignment explanation
Indices: 47053991--47054069 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
47053981 AAAATCCTCA
47053991 ATACTTTGCCCAGGCCTCTTCATCCCCAACACAAAAAG
1 ATACTTTGCCCAGGCCTCTTCATCCCCAACACAAAAAG
47054029 ATACTTTGCCCAGGCCTCTTCATCCCCAACACAAAAAG
1 ATACTTTGCCCAGGCCTCTTCATCCCCAACACAAAAAG
47054067 ATA
1 ATA
47054070 AGGGGACAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.33, C:0.35, G:0.10, T:0.22
Consensus pattern (38 bp):
ATACTTTGCCCAGGCCTCTTCATCCCCAACACAAAAAG
Found at i:47055135 original size:34 final size:37
Alignment explanation
Indices: 47055090--47055157 Score: 97
Period size: 34 Copynumber: 1.9 Consensus size: 37
47055080 AAAATCACAT
*
47055090 TCATTTTCAAATGATTT-CATTT-T-CATTTTCATAA
1 TCATTTCCAAATGATTTCCATTTCTCCATTTTCATAA
*
47055124 TCATTTCCAAATGTTTTCCATTTCTCCATTTTCA
1 TCATTTCCAAATGATTTCCATTTCTCCATTTTCA
47055158 CTATTTCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 15 0.52
35 5 0.17
36 1 0.03
37 8 0.28
ACGTcount: A:0.25, C:0.21, G:0.03, T:0.51
Consensus pattern (37 bp):
TCATTTCCAAATGATTTCCATTTCTCCATTTTCATAA
Found at i:47069755 original size:21 final size:21
Alignment explanation
Indices: 47069729--47069777 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
47069719 AATCATGGCT
*
47069729 CTGAGGAGGCTATGTGGGAGC
1 CTGAGGAGGCTACGTGGGAGC
47069750 CTGAGGAGGCTACGTGGGAGC
1 CTGAGGAGGCTACGTGGGAGC
47069771 CTGAGGA
1 CTGAGGA
47069778 TGCGATGCGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.47, T:0.16
Consensus pattern (21 bp):
CTGAGGAGGCTACGTGGGAGC
Found at i:47075530 original size:3 final size:3
Alignment explanation
Indices: 47075522--47075607 Score: 52
Period size: 3 Copynumber: 27.7 Consensus size: 3
47075512 AAGCTATTAT
* *
47075522 ATA ATA ATA ATA CGATA AGTA ACA ATA AT- ATAA ATA ATA ATA TTA ATA
1 ATA ATA ATA ATA --ATA A-TA ATA ATA ATA AT-A ATA ATA ATA ATA ATA
* * *
47075570 ATA ACA ATA ATGA A-A GATA ATA AT- ATA TTA AAA ATA AT
1 ATA ATA ATA AT-A ATA -ATA ATA ATA ATA ATA ATA ATA AT
47075608 GAGGAAAATA
Statistics
Matches: 64, Mismatches: 10, Indels: 18
0.70 0.11 0.20
Matches are distributed among these distances:
2 5 0.08
3 48 0.75
4 8 0.12
5 3 0.05
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:47075559 original size:30 final size:30
Alignment explanation
Indices: 47075519--47075595 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 30
47075509 TTTAAGCTAT
*
47075519 TATATAATAATAATA-CGATAAGTAACAATAA
1 TATA-AATAATAATATCAATAA-TAACAATAA
*
47075550 TATAAATAATAATATTAATAATAACAATAA
1 TATAAATAATAATATCAATAATAACAATAA
47075580 TGA-AAGATAATAATAT
1 T-ATAA-ATAATAATAT
47075596 ATTAAAAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
30 22 0.54
31 19 0.46
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.31
Consensus pattern (30 bp):
TATAAATAATAATATCAATAATAACAATAA
Found at i:47076236 original size:7 final size:6
Alignment explanation
Indices: 47076215--47076251 Score: 56
Period size: 6 Copynumber: 5.8 Consensus size: 6
47076205 TATATTTTTT
47076215 AAATATA AAATAA AAATAA AAATAA AAATAA AGAATA
1 AAATA-A AAATAA AAATAA AAATAA AAATAA A-AATA
47076252 CAAACAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 20 0.69
7 9 0.31
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:47083170 original size:42 final size:41
Alignment explanation
Indices: 47083087--47083170 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 41
47083077 TCACATGATC
* * * * * *
47083087 GTGTTACAGGCCGTGTGTTAGACCTTGTAACTCTCTGACTT
1 GTGTCACAGGCCATGTGCTAGACCGTGTAACTCACTAACTT
47083128 GTGTCACACGGCCATGTGCTAGACCGTGTAACTCACTAACTT
1 GTGTCACA-GGCCATGTGCTAGACCGTGTAACTCACTAACTT
47083170 G
1 G
47083171 ATATACACGA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 7 0.19
42 29 0.81
ACGTcount: A:0.20, C:0.25, G:0.24, T:0.31
Consensus pattern (41 bp):
GTGTCACAGGCCATGTGCTAGACCGTGTAACTCACTAACTT
Found at i:47083179 original size:42 final size:41
Alignment explanation
Indices: 47083091--47083179 Score: 99
Period size: 42 Copynumber: 2.1 Consensus size: 41
47083081 ATGATCGTGT
* * * * * *
47083091 TACA-GGCCGTGTGTTAGACCTTGTAACTCTCTGACTTGTG
1 TACACGGCCATGTGCTAGACCGTGTAACTCACTAACTTGTA
47083131 TCACACGGCCATGTGCTAGACCGTGTAACTCACTAACTTGATA
1 T-ACACGGCCATGTGCTAGACCGTGTAACTCACTAACTTG-TA
47083174 TACACG
1 TACACG
47083180 ATCGTGTCTT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
40 1 0.03
41 3 0.08
42 34 0.85
43 2 0.05
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (41 bp):
TACACGGCCATGTGCTAGACCGTGTAACTCACTAACTTGTA
Found at i:47086122 original size:42 final size:42
Alignment explanation
Indices: 47086063--47086149 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
47086053 AAGCAAGAAG
47086063 AAAGAAAAACTCACTTAAGAACTTGAGGTATCATCTTCCCAC
1 AAAGAAAAACTCACTTAAGAACTTGAGGTATCATCTTCCCAC
47086105 AAAGAAAAACTCACTTAAGAACTTGAGGTATCATCTTCCCAC
1 AAAGAAAAACTCACTTAAGAACTTGAGGTATCATCTTCCCAC
47086147 AAA
1 AAA
47086150 ATAAAATTTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.43, C:0.23, G:0.11, T:0.23
Consensus pattern (42 bp):
AAAGAAAAACTCACTTAAGAACTTGAGGTATCATCTTCCCAC
Found at i:47089502 original size:25 final size:25
Alignment explanation
Indices: 47089470--47089648 Score: 210
Period size: 25 Copynumber: 7.4 Consensus size: 25
47089460 GGAGTTTAGC
47089470 GTGCTCTCTGATTATTAGCACATCA
1 GTGCTCTCTGATTATTAGCACATCA
* *
47089495 GTGTTCTCTGATTATTAGCACATTA
1 GTGCTCTCTGATTATTAGCACATCA
47089520 GTGCTCTCTGATTATTAGCACATCA
1 GTGCTCTCTGATTATTAGCACATCA
*
47089545 GTGCTCTCTGATTATTAGCACGTCA
1 GTGCTCTCTGATTATTAGCACATCA
* *
47089570 GTGCTCTCTAATTACTAG--CA-C-
1 GTGCTCTCTGATTATTAGCACATCA
* * *
47089591 --GCTCTCTAATT-TCTAGCACGTTA
1 GTGCTCTCTGATTAT-TAGCACATCA
* *
47089614 GTGCTCTCCGATTATTAGCACATTA
1 GTGCTCTCTGATTATTAGCACATCA
47089639 GTGCTCTCTG
1 GTGCTCTCTG
47089649 TGTAGCACAT
Statistics
Matches: 131, Mismatches: 15, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
19 14 0.11
21 1 0.01
22 1 0.01
23 1 0.01
25 113 0.86
26 1 0.01
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (25 bp):
GTGCTCTCTGATTATTAGCACATCA
Found at i:47089596 original size:19 final size:19
Alignment explanation
Indices: 47089572--47089610 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
47089562 GCACGTCAGT
47089572 GCTCTCTAATTACTAGCAC
1 GCTCTCTAATTACTAGCAC
*
47089591 GCTCTCTAATTTCTAGCAC
1 GCTCTCTAATTACTAGCAC
47089610 G
1 G
47089611 TTAGTGCTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.31, G:0.13, T:0.33
Consensus pattern (19 bp):
GCTCTCTAATTACTAGCAC
Found at i:47089657 original size:22 final size:22
Alignment explanation
Indices: 47089604--47089689 Score: 91
Period size: 22 Copynumber: 3.8 Consensus size: 22
47089594 CTCTAATTTC
* *
47089604 TAGCACGTTAGTGCTCTCCGATTA
1 TAGCACATTAGTGCTCTCTG--TA
*
47089628 TTAGCACATTAGTGCTCTCTGTG
1 -TAGCACATTAGTGCTCTCTGTA
* *
47089651 TAGCACATTCGTGCTCCCTGTA
1 TAGCACATTAGTGCTCTCTGTA
*
47089673 TAGCACTTTAGTGCTCT
1 TAGCACATTAGTGCTCT
47089690 TTGTTTAATA
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
22 33 0.63
23 1 0.02
25 18 0.35
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.36
Consensus pattern (22 bp):
TAGCACATTAGTGCTCTCTGTA
Done.