Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 93 of 284
Found at i:30616762 original size:19 final size:17
Alignment explanation
Indices: 30616738--30616772 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
30616728 TCTCTATTTT
30616738 TTCTCTTATTCTTTTTCTC
1 TTCTCTT-TT-TTTTTCTC
30616757 TTCTCTTTTTTTTTCT
1 TTCTCTTTTTTTTTCT
30616773 TCTTTTCCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 2 0.12
19 7 0.44
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (17 bp):
TTCTCTTTTTTTTTCTC
Found at i:30620542 original size:46 final size:47
Alignment explanation
Indices: 30620486--30620580 Score: 183
Period size: 46 Copynumber: 2.0 Consensus size: 47
30620476 AAAGAGAATG
30620486 ATACAACAAGAGTTTCGACTACGTCTATTTAAAGGTTAAAAAA-CAT
1 ATACAACAAGAGTTTCGACTACGTCTATTTAAAGGTTAAAAAATCAT
30620532 ATACAACAAGAGTTTCGACTACGTCTATTTAAAGGTTAAAAAATCAT
1 ATACAACAAGAGTTTCGACTACGTCTATTTAAAGGTTAAAAAATCAT
30620579 AT
1 AT
30620581 TCTAATCAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 43 0.90
47 5 0.10
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (47 bp):
ATACAACAAGAGTTTCGACTACGTCTATTTAAAGGTTAAAAAATCAT
Found at i:30620809 original size:14 final size:14
Alignment explanation
Indices: 30620771--30620810 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
30620761 AATCAATGTC
30620771 AAATATATTATGCT
1 AAATATATTATGCT
30620785 -AATA-A--ATGCT
1 AAATATATTATGCT
30620795 AAATATATTATGCT
1 AAATATATTATGCT
30620809 AA
1 AA
30620811 TAAATACAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 8
0.73 0.00 0.27
Matches are distributed among these distances:
10 5 0.23
11 4 0.18
12 2 0.09
13 4 0.18
14 7 0.32
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.38
Consensus pattern (14 bp):
AAATATATTATGCT
Found at i:30622448 original size:19 final size:19
Alignment explanation
Indices: 30622426--30622464 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
30622416 GTACACTTGT
30622426 TATATAATTATTAATTTAC
1 TATATAATTATTAATTTAC
30622445 TATATAATTATTAATTTAC
1 TATATAATTATTAATTTAC
30622464 T
1 T
30622465 TAATATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (19 bp):
TATATAATTATTAATTTAC
Found at i:30622568 original size:14 final size:15
Alignment explanation
Indices: 30622549--30622603 Score: 69
Period size: 14 Copynumber: 3.6 Consensus size: 15
30622539 AGAATTAAAG
30622549 AAAC-AAAAGAAACA
1 AAACGAAAAGAAACA
30622563 AAAC-AAAAGAAACA
1 AAACGAAAAGAAACA
30622577 GAAACGAAACAGAGAACA
1 -AAACGAAA-AGA-AACA
30622595 AAACGAAAA
1 AAACGAAAA
30622604 CAGGGGAAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
14 14 0.38
15 4 0.11
16 4 0.11
17 11 0.30
18 4 0.11
ACGTcount: A:0.73, C:0.15, G:0.13, T:0.00
Consensus pattern (15 bp):
AAACGAAAAGAAACA
Found at i:30623594 original size:39 final size:40
Alignment explanation
Indices: 30623484--30623594 Score: 93
Period size: 38 Copynumber: 2.8 Consensus size: 40
30623474 GACCTCGAGT
* * **
30623484 CGATGAGACACTGGATGTC-ACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCAAC--TATTACTTCGGATAGAGC
** ** *
30623525 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAG-GC
1 CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
*
30623563 CGATGAGACACTGGGTGTCAACTATTGCTTCG
1 CGATGAGACACTGGGTGTCAACTATTACTTCG
30623595 AACTATCCGA
Statistics
Matches: 54, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
38 19 0.35
39 18 0.33
40 1 0.02
41 14 0.26
42 2 0.04
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAACTATTACTTCGGATAGAGC
Found at i:30629735 original size:21 final size:21
Alignment explanation
Indices: 30629710--30629778 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
30629700 TATAATGATT
30629710 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
30629731 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
30629751 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
30629771 ATTATTAT
1 ATTATTAT
30629779 TATTAGCATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:30629791 original size:15 final size:14
Alignment explanation
Indices: 30629765--30629795 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
30629755 TATGGTTTTA
30629765 TATTAGATTATTAT
1 TATTAGATTATTAT
30629779 TATTAGCATTATTAT
1 TATTAG-ATTATTAT
30629794 TA
1 TA
30629796 AATAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TATTAGATTATTAT
Found at i:30640627 original size:21 final size:21
Alignment explanation
Indices: 30640602--30640647 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
30640592 CTCATAGCTG
* * * *
30640602 ATTTAGATTTAAACTTTGGAA
1 ATTTAGAGTCAAAATTTGAAA
30640623 ATTTAGAGTCAAAATTTGAAA
1 ATTTAGAGTCAAAATTTGAAA
30640644 ATTT
1 ATTT
30640648 TAAGTTAGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.04, G:0.13, T:0.41
Consensus pattern (21 bp):
ATTTAGAGTCAAAATTTGAAA
Found at i:30645678 original size:79 final size:81
Alignment explanation
Indices: 30645567--30645748 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 81
30645557 GCTACTCGTT
* * *
30645567 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
30645631 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* **
30645647 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
30645710 GATATGGTCACTTAGCA
65 GATATAGTAACTTAGCA
30645727 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
30645749 AGACATCATT
Statistics
Matches: 88, Mismatches: 10, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
78 4 0.05
79 54 0.61
80 30 0.34
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:30645684 original size:39 final size:40
Alignment explanation
Indices: 30645567--30645748 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 40
30645557 GCTACTCGTT
*
30645567 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
30645607 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
30645647 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
30645686 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
30645727 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
30645749 AGACATCATT
Statistics
Matches: 122, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.27
40 74 0.61
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:30648890 original size:90 final size:90
Alignment explanation
Indices: 30648724--30649076 Score: 429
Period size: 90 Copynumber: 3.9 Consensus size: 90
30648714 GCTTGAATGA
* * ** * * ** *
30648724 AATGAATAAGACCATAGTTGAAAGACACTATGGCACCAT-ATTGGAAACGAGTAAGACTATAGCT
1 AATGAGTAAGACCATAGCTGAAAGACGTTATGGAATCATGATT-TTAACGAGTAAGACCATAGCT
* * * *
30648788 GTAAGGCGTTATGGCATCACGATTTT
65 GAAAGACATTATGGCATCACAATTTT
* * * * * * *
30648814 AATGAGTAAGACCATAGCTGTAGGGCGTTATAGCATCACGATTTTAACGAGTAAGACCATATCTG
1 AATGAGTAAGACCATAGCTGAAAGACGTTATGGAATCATGATTTTAACGAGTAAGACCATAGCTG
*
30648879 AAAGACATTATGGCATCACTATTTT
66 AAAGACATTATGGCATCACAATTTT
* *
30648904 AATGAGTAAGATCATAGCTGAAAGACGTTATGGAATCATGATTTTAACGAGTAAGACCATAGCTA
1 AATGAGTAAGACCATAGCTGAAAGACGTTATGGAATCATGATTTTAACGAGTAAGACCATAGCTG
*
30648969 AAAGACGTTATGGCATCACAATTTT
66 AAAGACATTATGGCATCACAATTTT
* * * *
30648994 AATGAGTAAGACCATAACTGAAAGATGTTATGGTATCATGATTCTAACGAGTAAGACCATAGCTG
1 AATGAGTAAGACCATAGCTGAAAGACGTTATGGAATCATGATTTTAACGAGTAAGACCATAGCTG
*
30649059 AAAGACACTATGGCATCA
66 AAAGACATTATGGCATCA
30649077 TGAATTAGAC
Statistics
Matches: 225, Mismatches: 37, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
90 222 0.99
91 3 0.01
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (90 bp):
AATGAGTAAGACCATAGCTGAAAGACGTTATGGAATCATGATTTTAACGAGTAAGACCATAGCTG
AAAGACATTATGGCATCACAATTTT
Found at i:30649060 original size:45 final size:45
Alignment explanation
Indices: 30648769--30649076 Score: 391
Period size: 45 Copynumber: 6.8 Consensus size: 45
30648759 CCATATTGGA
* * *
30648769 AACGAGTAAGACTATAGCTGTAAGGCGTTATGGCATCACGATTTT
1 AACGAGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTTT
* * * * *
30648814 AATGAGTAAGACCATAGCTGTAGGGCGTTATAGCATCACGATTTT
1 AACGAGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTTT
* * *
30648859 AACGAGTAAGACCATATCTGAAAGACATTATGGCATCACTATTTT
1 AACGAGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTTT
* * * *
30648904 AATGAGTAAGATCATAGCTGAAAGACGTTATGGAATCATGATTTT
1 AACGAGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTTT
* *
30648949 AACGAGTAAGACCATAGCTAAAAGACGTTATGGCATCACAATTTT
1 AACGAGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTTT
* * * * * *
30648994 AATGAGTAAGACCATAACTGAAAGATGTTATGGTATCATGATTCT
1 AACGAGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTTT
**
30649039 AACGAGTAAGACCATAGCTGAAAGACACTATGGCATCA
1 AACGAGTAAGACCATAGCTGAAAGACGTTATGGCATCA
30649077 TGAATTAGAC
Statistics
Matches: 224, Mismatches: 39, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 224 1.00
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (45 bp):
AACGAGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTTT
Found at i:30649077 original size:45 final size:45
Alignment explanation
Indices: 30648730--30649079 Score: 389
Period size: 45 Copynumber: 7.8 Consensus size: 45
30648720 ATGAAATGAA
* ** * **
30648730 TAAGACCATAGTTGAAAGACACTATGGCACCAT-ATTGGAAACGAG
1 TAAGACCATAGCTGAAAGACGTTATGGCATCATGATT-TTAACGAG
* * * * *
30648775 TAAGACTATAGCTGTAAGGCGTTATGGCATCACGATTTTAATGAG
1 TAAGACCATAGCTGAAAGACGTTATGGCATCATGATTTTAACGAG
* * * * *
30648820 TAAGACCATAGCTGTAGGGCGTTATAGCATCACGATTTTAACGAG
1 TAAGACCATAGCTGAAAGACGTTATGGCATCATGATTTTAACGAG
* * *
30648865 TAAGACCATATCTGAAAGACATTATGGCATCACT-ATTTTAATGAG
1 TAAGACCATAGCTGAAAGACGTTATGGCATCA-TGATTTTAACGAG
* *
30648910 TAAGATCATAGCTGAAAGACGTTATGGAATCATGATTTTAACGAG
1 TAAGACCATAGCTGAAAGACGTTATGGCATCATGATTTTAACGAG
* ** *
30648955 TAAGACCATAGCTAAAAGACGTTATGGCATCACAATTTTAATGAG
1 TAAGACCATAGCTGAAAGACGTTATGGCATCATGATTTTAACGAG
* * * *
30649000 TAAGACCATAACTGAAAGATGTTATGGTATCATGATTCTAACGAG
1 TAAGACCATAGCTGAAAGACGTTATGGCATCATGATTTTAACGAG
**
30649045 TAAGACCATAGCTGAAAGACACTATGGCATCATGA
1 TAAGACCATAGCTGAAAGACGTTATGGCATCATGA
30649080 ATTAGACGAT
Statistics
Matches: 255, Mismatches: 47, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
44 1 0.00
45 251 0.98
46 3 0.01
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (45 bp):
TAAGACCATAGCTGAAAGACGTTATGGCATCATGATTTTAACGAG
Found at i:30649108 original size:44 final size:44
Alignment explanation
Indices: 30649057--30649195 Score: 149
Period size: 44 Copynumber: 3.4 Consensus size: 44
30649047 AGACCATAGC
30649057 TGAAAGACACTATGGCATCATGAATTAGACGATAAGATCATGAT
1 TGAAAGACACTATGGCATCATGAATTAGACGATAAGATCATGAT
* * * **
30649101 TGAAAGACACTATGGCATCCT---TCA-ACCATTTG--C-T-AT
1 TGAAAGACACTATGGCATCATGAATTAGACGATAAGATCATGAT
30649137 T----GACACTATGGCATCATGAATTAGACGATAAGATCATGAT
1 TGAAAGACACTATGGCATCATGAATTAGACGATAAGATCATGAT
30649177 TGAAAGACACTATGGCATC
1 TGAAAGACACTATGGCATC
30649196 CTTCAACCAT
Statistics
Matches: 73, Mismatches: 10, Indels: 24
0.68 0.09 0.22
Matches are distributed among these distances:
32 15 0.21
35 2 0.03
36 8 0.11
37 1 0.01
38 2 0.03
39 1 0.01
40 8 0.11
41 2 0.03
44 34 0.47
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.27
Consensus pattern (44 bp):
TGAAAGACACTATGGCATCATGAATTAGACGATAAGATCATGAT
Found at i:30649175 original size:76 final size:76
Alignment explanation
Indices: 30649062--30649213 Score: 304
Period size: 76 Copynumber: 2.0 Consensus size: 76
30649052 ATAGCTGAAA
30649062 GACACTATGGCATCATGAATTAGACGATAAGATCATGATTGAAAGACACTATGGCATCCTTCAAC
1 GACACTATGGCATCATGAATTAGACGATAAGATCATGATTGAAAGACACTATGGCATCCTTCAAC
30649127 CATTTGCTATT
66 CATTTGCTATT
30649138 GACACTATGGCATCATGAATTAGACGATAAGATCATGATTGAAAGACACTATGGCATCCTTCAAC
1 GACACTATGGCATCATGAATTAGACGATAAGATCATGATTGAAAGACACTATGGCATCCTTCAAC
30649203 CATTTGCTATT
66 CATTTGCTATT
30649214 CAGGTAATAT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (76 bp):
GACACTATGGCATCATGAATTAGACGATAAGATCATGATTGAAAGACACTATGGCATCCTTCAAC
CATTTGCTATT
Found at i:30655447 original size:38 final size:38
Alignment explanation
Indices: 30655363--30655551 Score: 254
Period size: 38 Copynumber: 4.9 Consensus size: 38
30655353 GAATCCAGTC
* *
30655363 ACCAGCACAGAA-CCTGCGGGACTTTAAGCTCGAATATAAT
1 ACCAGCAC-GAAGCCTGCGGGA-TTTAA-CCCGGATATAAT
*
30655403 ACCAGCACTAAGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
* * *
30655441 ACCAGCACTAAGCCTGCAGGATTTAACACGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
* **
30655479 ACCAGCACGAAGCCTACGGGATAAAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
*
30655517 ACCAGCACGAAGCCTGTGGGATTTAACCCGGATAT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT
30655552 GCATCAAATA
Statistics
Matches: 133, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
38 109 0.82
39 7 0.05
40 17 0.13
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.19
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAAT
Found at i:30659795 original size:45 final size:45
Alignment explanation
Indices: 30659745--30659833 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
30659735 TCTTTAATTT
* *
30659745 AGGCACAATTTACACATCAATATCCTTTATTACAATTCATTCCAC
1 AGGCACAATTTACACATAAATATCCTTCATTACAATTCATTCCAC
*
30659790 AGGCACAATTTATACATAAATATCCTTCATTACAATTCATTCCA
1 AGGCACAATTTACACATAAATATCCTTCATTACAATTCATTCCA
30659834 TTCCTAACAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.34
Consensus pattern (45 bp):
AGGCACAATTTACACATAAATATCCTTCATTACAATTCATTCCAC
Found at i:30660239 original size:15 final size:15
Alignment explanation
Indices: 30660219--30660248 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30660209 CTTCTATTTC
30660219 TTGATTAAATTCCAA
1 TTGATTAAATTCCAA
*
30660234 TTGATTTAATTCCAA
1 TTGATTAAATTCCAA
30660249 ATATATGATA
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:0.37, C:0.13, G:0.07, T:0.43
Consensus pattern (15 bp):
TTGATTAAATTCCAA
Found at i:30664659 original size:21 final size:21
Alignment explanation
Indices: 30664633--30664678 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
30664623 CCACACGCCT
30664633 GTGTGG-CCAAGGGACATGCCC
1 GTGTGGTCCAA-GGACATGCCC
* *
30664654 GTGTGGTCCCATGACATGCCC
1 GTGTGGTCCAAGGACATGCCC
30664675 GTGT
1 GTGT
30664679 TTCAGGCCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.15, C:0.28, G:0.35, T:0.22
Consensus pattern (21 bp):
GTGTGGTCCAAGGACATGCCC
Found at i:30665584 original size:45 final size:47
Alignment explanation
Indices: 30665497--30665585 Score: 110
Period size: 45 Copynumber: 1.9 Consensus size: 47
30665487 TGAGTCATGT
* * *
30665497 AACAAGAAGCTTATCTGGGCTAAATCAGGAAACTCATAAGAGTTTAG
1 AACAAGAAGCTAATCTGAGCTAAATCAGGAAACTCAGAAGAGTTTAG
* * *
30665544 AACAAGAAGCTAAT-TGAGCTTAA-CAGGTAACTCCGAAGAGTT
1 AACAAGAAGCTAATCTGAGCTAAATCAGGAAACTCAGAAGAGTT
30665586 ATTATTAGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
45 16 0.44
46 7 0.19
47 13 0.36
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.22
Consensus pattern (47 bp):
AACAAGAAGCTAATCTGAGCTAAATCAGGAAACTCAGAAGAGTTTAG
Found at i:30676253 original size:5 final size:5
Alignment explanation
Indices: 30676243--30676285 Score: 86
Period size: 5 Copynumber: 8.6 Consensus size: 5
30676233 AAGCAATTAA
30676243 AACAT AACAT AACAT AACAT AACAT AACAT AACAT AACAT AAC
1 AACAT AACAT AACAT AACAT AACAT AACAT AACAT AACAT AAC
30676286 TTATAATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.60, C:0.21, G:0.00, T:0.19
Consensus pattern (5 bp):
AACAT
Found at i:30677265 original size:21 final size:20
Alignment explanation
Indices: 30677237--30677276 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
30677227 CAAAACTTGT
30677237 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
30677257 ATAATCTATCATCAATCATT
1 ATAA-CTATCATCAAACATT
30677277 AAAGCTCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:30682381 original size:13 final size:13
Alignment explanation
Indices: 30682363--30682387 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30682353 AGGGAAAAAA
30682363 ATAATAACAAATG
1 ATAATAACAAATG
30682376 ATAATAACAAAT
1 ATAATAACAAAT
30682388 AAAAACTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.08, G:0.04, T:0.24
Consensus pattern (13 bp):
ATAATAACAAATG
Found at i:30691179 original size:17 final size:16
Alignment explanation
Indices: 30691143--30691185 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
30691133 TTTAGCCATT
*
30691143 TTTATTTTTATTACAT
1 TTTATTTTTATTACAG
*
30691159 TTTATTTTTATTTCTAG
1 TTTATTTTTATTAC-AG
30691176 TTTAATTTTT
1 TTT-ATTTTT
30691186 GTTTTCTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 13 0.57
17 4 0.17
18 6 0.26
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (16 bp):
TTTATTTTTATTACAG
Found at i:30699027 original size:17 final size:17
Alignment explanation
Indices: 30698981--30699027 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 17
30698971 CTTCAAAAAT
*
30698981 AAATAAAAGAAAAATAA
1 AAATAAAATAAAAATAA
*
30698998 AAATAAAAGTAAAATTAA
1 AAATAAAA-TAAAAATAA
*
30699016 TAATAAAATAAA
1 AAATAAAATAAA
30699028 TTGACTCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (17 bp):
AAATAAAATAAAAATAA
Found at i:30706143 original size:22 final size:22
Alignment explanation
Indices: 30706084--30706135 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
30706074 AGCTCAAGGT
* *
30706084 CGTAAACAGGATAGCACATAGC
1 CGTAAACAGCACAGCACATAGC
30706106 CGTAAACAGCACAGCACATAGC
1 CGTAAACAGCACAGCACATAGC
30706128 CGTAAACA
1 CGTAAACA
30706136 TCGCAGCAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.42, C:0.27, G:0.19, T:0.12
Consensus pattern (22 bp):
CGTAAACAGCACAGCACATAGC
Found at i:30706372 original size:22 final size:22
Alignment explanation
Indices: 30706338--30706402 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
30706328 GCAAATACGT
*
30706338 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
30706360 TTGGCATAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
30706382 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
30706403 AATAATTGGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:30706667 original size:41 final size:41
Alignment explanation
Indices: 30706556--30706667 Score: 170
Period size: 41 Copynumber: 2.7 Consensus size: 41
30706546 TTGGATATAT
* *
30706556 GGTCATCAAGCAACCATGCGATCCTGAATCGGTGGATCCAC
1 GGTCATCAAGCAACCATGCGATCCTCAATTGGTGGATCCAC
* **
30706597 GATCATCAAGCAACCATGCGATTTTCAATTGGTGGATCCAC
1 GGTCATCAAGCAACCATGCGATCCTCAATTGGTGGATCCAC
*
30706638 GGTCGTCAAGCAACCATGCGATCCTCAATT
1 GGTCATCAAGCAACCATGCGATCCTCAATT
30706668 TCTTCCTTCG
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (41 bp):
GGTCATCAAGCAACCATGCGATCCTCAATTGGTGGATCCAC
Found at i:30706956 original size:27 final size:27
Alignment explanation
Indices: 30706924--30707223 Score: 150
Period size: 27 Copynumber: 11.1 Consensus size: 27
30706914 TTGGTAAATC
30706924 TACAAACTAAGGGTATTTCGATAATTT
1 TACAAACTAAGGGTATTTCGATAATTT
* * * *
30706951 TGCAAACCAATGGTATTTTTG-TAATTT
1 TACAAACTAAGGGTA-TTTCGATAATTT
** * *
30706978 TTGAAAGTCAAGGGTATTTCTATAATTT
1 TACAAACT-AAGGGTATTTCGATAATTT
** *
30707006 TGTAAA-TCAGGGGTATTTCTG-TAATTT
1 TACAAACT-AAGGGTATTTC-GATAATTT
* * * * *
30707033 TCCAAATTAGGGGTATTTTGGTAATTT
1 TACAAACTAAGGGTATTTCGATAATTT
* *
30707060 TATAAA-TCGAGGGTATTTCGATAATTT
1 TACAAACT-AAGGGTATTTCGATAATTT
*
30707087 TAC-AAGTCAAGGGTATTTCGATAATTT
1 TACAAACT-AAGGGTATTTCGATAATTT
* ** * *
30707114 TA-GAGGTCGAGGGTATTT-TAGTAATTT
1 TACAAACT-AAGGGTATTTCGA-TAATTT
* * * * *
30707141 CACAAACCAGGGGTATTTTGGTAATTT
1 TACAAACTAAGGGTATTTCGATAATTT
*
30707168 TACAAACTAAGGGTATTTAG-TAATTT
1 TACAAACTAAGGGTATTTCGATAATTT
*** *
30707194 CGTAAACCAAGGGTATTTC-AGTAATTT
1 TACAAACTAAGGGTATTTCGA-TAATTT
30707221 TAC
1 TAC
30707224 CCTACAAGGG
Statistics
Matches: 209, Mismatches: 50, Indels: 28
0.73 0.17 0.10
Matches are distributed among these distances:
26 25 0.12
27 162 0.78
28 22 0.11
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
TACAAACTAAGGGTATTTCGATAATTT
Found at i:30706991 original size:55 final size:54
Alignment explanation
Indices: 30706932--30707140 Score: 183
Period size: 54 Copynumber: 3.9 Consensus size: 54
30706922 TCTACAAACT
* * *
30706932 AAGGGTATTTCGATAATTTTGCAAACCAATGGTATTTTTGTAATTTTTGAAAGTC
1 AAGGGTATTTCGATAATTTTGTAAATCAAGGGTATTTTTGTAATTTTT-AAAGTC
* * * * *
30706987 AAGGGTATTTCTATAATTTTGTAAATCAGGGGTATTTCTGTAATTTTCCAAA-TT
1 AAGGGTATTTCGATAATTTTGTAAATCAAGGGTATTTTTGTAATTTT-TAAAGTC
* * * * * *
30707041 AGGGGTATTTTGGTAATTTTATAAATCGAGGGTA-TTTCGATAA-TTTTACAAGTC
1 AAGGGTATTTCGATAATTTTGTAAATCAAGGGTATTTTTG-TAATTTTTA-AAGTC
** * *
30707095 AAGGGTATTTCGATAATTTTAG-AGGTCGAGGGTATTTTAGTAATTT
1 AAGGGTATTTCGATAATTTT-GTAAATCAAGGGTATTTTTGTAATTT
30707141 CACAAACCAG
Statistics
Matches: 121, Mismatches: 26, Indels: 14
0.75 0.16 0.09
Matches are distributed among these distances:
52 1 0.01
53 8 0.07
54 62 0.51
55 50 0.41
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.42
Consensus pattern (54 bp):
AAGGGTATTTCGATAATTTTGTAAATCAAGGGTATTTTTGTAATTTTTAAAGTC
Found at i:30707066 original size:54 final size:54
Alignment explanation
Indices: 30706962--30707169 Score: 183
Period size: 54 Copynumber: 3.8 Consensus size: 54
30706952 GCAAACCAAT
* ** * * *
30706962 GGTATTTTTGTAATTTTTGAAAGTCAAGGGTATTTCT-ATAATTTTGTAAATC-AGG
1 GGTATTTCTGTAATTTTCCAAA-TCAGGGGTATTT-TGGTAATTTTATAAATCGA-G
*
30707017 GGTATTTCTGTAATTTTCCAAATTAGGGGTATTTTGGTAATTTTATAAATCGAG
1 GGTATTTCTGTAATTTTCCAAATCAGGGGTATTTTGGTAATTTTATAAATCGAG
* * * * * * **
30707071 GGTATTTC-GATAATTTTACAAGTCAAGGGTATTTCGATAATTTTAGAGGTCGAG
1 GGTATTTCTG-TAATTTTCCAAATCAGGGGTATTTTGGTAATTTTATAAATCGAG
*
30707125 GGTATTT-TAGTAA-TTTCACAAACCAGGGGTATTTTGGTAATTTTA
1 GGTATTTCT-GTAATTTTC-CAAATCAGGGGTATTTTGGTAATTTTA
30707170 CAAACTAAGG
Statistics
Matches: 125, Mismatches: 22, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
53 5 0.04
54 99 0.79
55 21 0.17
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (54 bp):
GGTATTTCTGTAATTTTCCAAATCAGGGGTATTTTGGTAATTTTATAAATCGAG
Found at i:30707102 original size:81 final size:82
Alignment explanation
Indices: 30706924--30707114 Score: 219
Period size: 82 Copynumber: 2.3 Consensus size: 82
30706914 TTGGTAAATC
* ** ** *
30706924 TACAAA-CTAAGGGTATTTCGATAATTTTGCAAACCAATGGTATTTTTGTAATTTTTGAAAGTCA
1 TACAAATC-AAGGGTATTTCGATAATTTTCCAAATTAGGGGTATTTTGGTAATTTTTGAAAGTCA
*
30706988 AGGGTATTTCTATAATTT
65 AGGGTATTTCGATAATTT
** *
30707006 TGTAAATCAGGGGTATTTCTG-TAATTTTCCAAATTAGGGGTATTTTGGTAATTTTAT-AAA-TC
1 TACAAATCAAGGGTATTTC-GATAATTTTCCAAATTAGGGGTATTTTGGTAATTTT-TGAAAGTC
*
30707068 GAGGGTATTTCGATAATTT
64 AAGGGTATTTCGATAATTT
*
30707087 TACAAGTCAAGGGTATTTCGATAATTTT
1 TACAAATCAAGGGTATTTCGATAATTTT
30707115 AGAGGTCGAG
Statistics
Matches: 90, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
80 1 0.01
81 41 0.46
82 45 0.50
83 3 0.03
ACGTcount: A:0.31, C:0.09, G:0.18, T:0.42
Consensus pattern (82 bp):
TACAAATCAAGGGTATTTCGATAATTTTCCAAATTAGGGGTATTTTGGTAATTTTTGAAAGTCAA
GGGTATTTCGATAATTT
Found at i:30707128 original size:81 final size:80
Alignment explanation
Indices: 30707043--30707193 Score: 189
Period size: 81 Copynumber: 1.9 Consensus size: 80
30707033 TCCAAATTAG
* * * * * *
30707043 GGGTATTTTGGTAATTTTATAAATC-GAGGGTATTTCGATAATTTTAC-AAGTCAAGGGTATTTC
1 GGGTATTTTAGTAATTTCACAAACCAG-GGGTATTTCGATAATTTTACAAACT-AAGGGTATTTA
30707106 GATAATTTTAGAGGTCGA
64 G-TAATTTTAGAGGTCGA
* *
30707124 GGGTATTTTAGTAATTTCACAAACCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTAGT
1 GGGTATTTTAGTAATTTCACAAACCAGGGGTATTTCGATAATTTTACAAACTAAGGGTATTTAGT
30707189 AATTT
66 AATTT
30707194 CGTAAACCAA
Statistics
Matches: 60, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
80 6 0.10
81 50 0.83
82 4 0.07
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (80 bp):
GGGTATTTTAGTAATTTCACAAACCAGGGGTATTTCGATAATTTTACAAACTAAGGGTATTTAGT
AATTTTAGAGGTCGA
Found at i:30707231 original size:27 final size:27
Alignment explanation
Indices: 30707201--30707271 Score: 115
Period size: 27 Copynumber: 2.6 Consensus size: 27
30707191 TTTCGTAAAC
*
30707201 CAAGGGTATTTCAGTAATTTTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
*
30707228 CAAGGGCATTTCAGTAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
*
30707255 CAGGGGTATTTCAGTAA
1 CAAGGGTATTTCAGTAA
30707272 CACTAGCCTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTCTACCCTA
Found at i:30724334 original size:94 final size:94
Alignment explanation
Indices: 30724173--30724360 Score: 297
Period size: 94 Copynumber: 2.0 Consensus size: 94
30724163 GTAACACGCT
30724173 TATTAACACCAGATACTAAATGAGTTGTGTCACCAATACCACTAGAGGAGAATAAATCATTAAAA
1 TATTAACACCAGATACTAAATGAGTTGTGTCACCAATACCACTAGAGGAGAATAAATCATTAAAA
30724238 TAATTCCTGGCCACTCTTTCTATATCAGC
66 TAATTCCTGGCCACTCTTTCTATATCAGC
* * * * *
30724267 TATTAACACTAGATAGTAAATGGGTTGTGTCACTAATACC-CTTAGAGGAGAATAAATTATTAAA
1 TATTAACACCAGATACTAAATGAGTTGTGTCACCAATACCAC-TAGAGGAGAATAAATCATTAAA
* *
30724331 ATAATTCCTGGCCACTTTTTCTTTATCAGC
65 ATAATTCCTGGCCACTCTTTCTATATCAGC
30724361 AGAATCAAAA
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
93 1 0.01
94 85 0.99
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.32
Consensus pattern (94 bp):
TATTAACACCAGATACTAAATGAGTTGTGTCACCAATACCACTAGAGGAGAATAAATCATTAAAA
TAATTCCTGGCCACTCTTTCTATATCAGC
Found at i:30726164 original size:55 final size:54
Alignment explanation
Indices: 30726077--30726331 Score: 251
Period size: 55 Copynumber: 4.8 Consensus size: 54
30726067 ATTAGGGTTT
* *
30726077 AAGGATACCGTGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
30726132 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * *
30726187 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
* *
30726240 AAGGCTACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * * *
30726289 AAGGATACCACGTAAGACCATGGCAAGTCATGG-AAATGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
30726332 GTACCCGTGT
Statistics
Matches: 169, Mismatches: 23, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
48 2 0.01
49 36 0.21
52 7 0.04
53 41 0.24
54 12 0.07
55 67 0.40
56 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:30726283 original size:108 final size:110
Alignment explanation
Indices: 30726087--30726284 Score: 312
Period size: 108 Copynumber: 1.8 Consensus size: 110
30726077 AAGGATACCG
*
30726087 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGACCA
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
*
30726152 TGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCA
66 TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
* **
30726197 TGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGCTACCATGTAAGACC
1 TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAGACC
*
30726259 ATGTCAAGACATGGCAATGGTAAGTT
65 ATGTCAAGACATGGCAATGATAAGTT
30726285 TCAAAAGGAT
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.58
109 7 0.09
110 24 0.30
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.23
Consensus pattern (110 bp):
TGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGACCA
TGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCCA
Found at i:30726544 original size:16 final size:16
Alignment explanation
Indices: 30726523--30726553 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30726513 ATAAATTTGA
30726523 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
30726539 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
30726554 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:30729918 original size:31 final size:31
Alignment explanation
Indices: 30729880--30729960 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 31
30729870 CACTTAACTA
* *
30729880 AAAAATTTATAATTTGA-TCATTGAACTATTT
1 AAAAATTT-TAATTTAAGTAATTGAACTATTT
*
30729911 AAAAATTTTCATTTAAGTAATTGAACTATTT
1 AAAAATTTTAATTTAAGTAATTGAACTATTT
* *
30729942 AAAATTTTTTTATTTAAGT
1 AAAA-ATTTTAATTTAAGT
30729961 CACTAGGTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
30 6 0.14
31 25 0.58
32 12 0.28
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.48
Consensus pattern (31 bp):
AAAAATTTTAATTTAAGTAATTGAACTATTT
Found at i:30730894 original size:39 final size:39
Alignment explanation
Indices: 30730851--30730936 Score: 136
Period size: 39 Copynumber: 2.2 Consensus size: 39
30730841 TTTAGTTATT
* *
30730851 TTAGTTTGTGTCTTTAACTATGTCATAGTTTGAACATCA
1 TTAGTATGAGTCTTTAACTATGTCATAGTTTGAACATCA
*
30730890 TTAGTATGAGTCTTTAATTATGTCATAGTTTGAACATCA
1 TTAGTATGAGTCTTTAACTATGTCATAGTTTGAACATCA
*
30730929 TTAATATG
1 TTAGTATG
30730937 TGTTCTGCAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.45
Consensus pattern (39 bp):
TTAGTATGAGTCTTTAACTATGTCATAGTTTGAACATCA
Found at i:30732895 original size:15 final size:16
Alignment explanation
Indices: 30732877--30732906 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
30732867 TTAAATTCAA
30732877 TTATGTTAAC-TATTC
1 TTATGTTAACATATTC
30732892 TTATGTTAACATATT
1 TTATGTTAACATATT
30732907 TTCCATGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (16 bp):
TTATGTTAACATATTC
Found at i:30734356 original size:12 final size:12
Alignment explanation
Indices: 30734339--30734373 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
30734329 TAAGTTTTCA
30734339 AAAATGGAAATG
1 AAAATGGAAATG
*
30734351 AAAATGAAAATG
1 AAAATGGAAATG
*
30734363 GAAATGGAAAT
1 AAAATGGAAAT
30734374 TTGCAATCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.23, T:0.17
Consensus pattern (12 bp):
AAAATGGAAATG
Found at i:30734362 original size:18 final size:18
Alignment explanation
Indices: 30734339--30734373 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
30734329 TAAGTTTTCA
30734339 AAAATGGAAATGAAAATG
1 AAAATGGAAATGAAAATG
*
30734357 AAAATGGAAATGGAAAT
1 AAAATGGAAATGAAAAT
30734374 TTGCAATCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.23, T:0.17
Consensus pattern (18 bp):
AAAATGGAAATGAAAATG
Found at i:30736900 original size:57 final size:59
Alignment explanation
Indices: 30736808--30736928 Score: 176
Period size: 58 Copynumber: 2.1 Consensus size: 59
30736798 TCATTTTCAT
* *
30736808 TTTTCATTTTTATTTTGGAGGAAAACCACATTCA-TTTCTAAATGATT-TCATTTCTCCA
1 TTTTCATTTTCATTTTGGAGGAAAACCACAATCATTTTC-AAATGATTCTCATTTCTCCA
* *
30736866 TTTTCATTTTCATTTTGGA-GAAAACCATAATCATTTTCAAATGTTTCTCATTTCTCCA
1 TTTTCATTTTCATTTTGGAGGAAAACCACAATCATTTTCAAATGATTCTCATTTCTCCA
30736924 TTTTC
1 TTTTC
30736929 TCCATTTTCA
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
57 19 0.33
58 38 0.67
ACGTcount: A:0.26, C:0.18, G:0.07, T:0.48
Consensus pattern (59 bp):
TTTTCATTTTCATTTTGGAGGAAAACCACAATCATTTTCAAATGATTCTCATTTCTCCA
Found at i:30736945 original size:8 final size:9
Alignment explanation
Indices: 30736916--30736954 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
30736906 ATGTTTCTCA
30736916 TTTCTCCAT
1 TTTCTCCAT
30736925 TTTCTCCAT
1 TTTCTCCAT
*
30736934 TTTCACCAT
1 TTTCTCCAT
*
30736943 TTCTATCCAT
1 TT-TCTCCAT
30736953 TT
1 TT
30736955 ATGTTCATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
9 19 0.73
10 7 0.27
ACGTcount: A:0.15, C:0.31, G:0.00, T:0.54
Consensus pattern (9 bp):
TTTCTCCAT
Found at i:30738944 original size:62 final size:62
Alignment explanation
Indices: 30738846--30739093 Score: 469
Period size: 62 Copynumber: 4.0 Consensus size: 62
30738836 AAATATAATT
* * *
30738846 GGTATAGGTTTATTAACTTAGTTAGCGATCAGCAAATCAATCGACCATCGTTTTATTATTTA
1 GGTATAGGTTTATTAGCTTAGTTAGTGATCAACAAATCAATCGACCATCGTTTTATTATTTA
30738908 GGTATAGGTTTATTAGCTTAGTTAGTGATCAACAAATCAATCGACCATCGTTTTATTATTTA
1 GGTATAGGTTTATTAGCTTAGTTAGTGATCAACAAATCAATCGACCATCGTTTTATTATTTA
30738970 GGTATAGGTTTATTAGCTTAGTTAGTGATCAACAAATCAATCGACCATCGTTTTATTATTTA
1 GGTATAGGTTTATTAGCTTAGTTAGTGATCAACAAATCAATCGACCATCGTTTTATTATTTA
30739032 GGTATAGGTTTATTAGCTTAGTTAGTGATCAACAAATCAATCGACCATCGTTTTATTATTTA
1 GGTATAGGTTTATTAGCTTAGTTAGTGATCAACAAATCAATCGACCATCGTTTTATTATTTA
30739094 CATTATCTAA
Statistics
Matches: 183, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 183 1.00
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (62 bp):
GGTATAGGTTTATTAGCTTAGTTAGTGATCAACAAATCAATCGACCATCGTTTTATTATTTA
Found at i:30743632 original size:16 final size:16
Alignment explanation
Indices: 30743611--30743641 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30743601 ATTTAATGTG
30743611 TAATTTGATAAAATTT
1 TAATTTGATAAAATTT
*
30743627 TAATTTGATATAATT
1 TAATTTGATAAAATT
30743642 ATATATATGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (16 bp):
TAATTTGATAAAATTT
Found at i:30745071 original size:18 final size:18
Alignment explanation
Indices: 30745050--30745084 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30745040 TGGTGGTGCT
* *
30745050 GGAGGTGGAGGTGGAGGG
1 GGAGGCGGAGGAGGAGGG
30745068 GGAGGCGGAGGAGGAGG
1 GGAGGCGGAGGAGGAGG
30745085 TGCCTCTGGT
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:0.20, C:0.03, G:0.71, T:0.06
Consensus pattern (18 bp):
GGAGGCGGAGGAGGAGGG
Found at i:30745285 original size:9 final size:9
Alignment explanation
Indices: 30745271--30745309 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
30745261 TGCAAGGTAT
*
30745271 TGGTGGTGG
1 TGGTGGAGG
30745280 TGGTGGAGG
1 TGGTGGAGG
* *
30745289 TGGAGAAGG
1 TGGTGGAGG
30745298 TGGTGGAGG
1 TGGTGGAGG
30745307 TGG
1 TGG
30745310 CAGTAGTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.13, C:0.00, G:0.64, T:0.23
Consensus pattern (9 bp):
TGGTGGAGG
Found at i:30745397 original size:6 final size:6
Alignment explanation
Indices: 30745383--30745426 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
30745373 CGAAGGGGTG
* * *
30745383 GGAGGT GGTGGT GGTGGT GGAGGG GGAGGT GGAGGT GGAGGT GG
1 GGAGGT GGAGGT GGAGGT GGAGGT GGAGGT GGAGGT GGAGGT GG
30745427 TAAAGGTTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.11, C:0.00, G:0.70, T:0.18
Consensus pattern (6 bp):
GGAGGT
Found at i:30745781 original size:1 final size:1
Alignment explanation
Indices: 30745731--30745763 Score: 66
Period size: 1 Copynumber: 33.0 Consensus size: 1
30745721 GGGAGGTGGA
30745731 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
30745764 NNNNNNNNNN
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:30745794 original size:3 final size:3
Alignment explanation
Indices: 30745783--30745822 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
30745773 NNGGGGGGGT
* * *
30745783 GTG GAG GTG GTG GTG GTG GGG GTG GTG GTG GGG GTG GTG G
1 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG G
30745823 AGGTTCTAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.03, C:0.00, G:0.72, T:0.25
Consensus pattern (3 bp):
GTG
Found at i:30745806 original size:12 final size:12
Alignment explanation
Indices: 30745777--30745822 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
30745767 NNNNNNNNGG
*
30745777 GGGGGT-GTGGA
1 GGGGGTGGTGGT
*
30745788 GGTGGTGGTGGT
1 GGGGGTGGTGGT
30745800 GGGGGTGGTGGT
1 GGGGGTGGTGGT
30745812 GGGGGTGGTGG
1 GGGGGTGGTGG
30745823 AGGTTCTAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
11 5 0.16
12 26 0.84
ACGTcount: A:0.02, C:0.00, G:0.74, T:0.24
Consensus pattern (12 bp):
GGGGGTGGTGGT
Found at i:30745960 original size:18 final size:18
Alignment explanation
Indices: 30745939--30745974 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
30745929 GGTGGTTCGA
* *
30745939 GTGGAGGTGGAGGCGGAG
1 GTGGAAGTGGAGGAGGAG
30745957 GTGGAAGTGGAGGAGGAG
1 GTGGAAGTGGAGGAGGAG
30745975 AAGGGATGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.03, G:0.64, T:0.11
Consensus pattern (18 bp):
GTGGAAGTGGAGGAGGAG
Found at i:30757877 original size:71 final size:71
Alignment explanation
Indices: 30757756--30757892 Score: 238
Period size: 71 Copynumber: 1.9 Consensus size: 71
30757746 TATCATAACC
* *
30757756 AAATGGGTAAAAGTTATTATTCTTTACTGGAAAAATAATAATTAACTCTGAGCAAGTAAAACAAT
1 AAATCGGTAAAAGTTATTATTCTTTACTGAAAAAATAATAATTAACTCTGAGCAAGTAAAACAAT
30757821 TCATAT
66 TCATAT
* *
30757827 AAATCGGTAAAAGTTATTATTCTTTACTGAAAAAATAATAATTAACTCTGAGTAAGTACAACAAT
1 AAATCGGTAAAAGTTATTATTCTTTACTGAAAAAATAATAATTAACTCTGAGCAAGTAAAACAAT
30757892 T
66 T
30757893 TCATCCTTAA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (71 bp):
AAATCGGTAAAAGTTATTATTCTTTACTGAAAAAATAATAATTAACTCTGAGCAAGTAAAACAAT
TCATAT
Found at i:30759966 original size:26 final size:28
Alignment explanation
Indices: 30759937--30759994 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
30759927 TCTTCCTTTC
30759937 CCTTTC-TT-TTTTTCTT-TCTTTTTCCT
1 CCTTTCTTTATTTTTCTTCT-TTTTTCCT
30759963 CC-TTCTTTATTTTTCTTCTTTTTTCCT
1 CCTTTCTTTATTTTTCTTCTTTTTTCCT
30759990 -CTTTC
1 CCTTTC
30759995 AAGTGAGTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
25 3 0.11
26 5 0.18
27 19 0.68
28 1 0.04
ACGTcount: A:0.02, C:0.28, G:0.00, T:0.71
Consensus pattern (28 bp):
CCTTTCTTTATTTTTCTTCTTTTTTCCT
Found at i:30761252 original size:29 final size:29
Alignment explanation
Indices: 30761209--30761267 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
30761199 TGTGATTAGC
* *
30761209 CCGTGTGAGTGACATG-CTAGTGTCTCAGG
1 CCGTGTGAATAACATGCCTA-TGTCTCAGG
30761238 CCGTGTGAATAACATGCCTATGTCTCAGG
1 CCGTGTGAATAACATGCCTATGTCTCAGG
30761267 C
1 C
30761268 TATATAGGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 24 0.89
30 3 0.11
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (29 bp):
CCGTGTGAATAACATGCCTATGTCTCAGG
Found at i:30762563 original size:23 final size:24
Alignment explanation
Indices: 30762521--30762565 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
30762511 ATGGAAAACT
*
30762521 CACACAAAGCCATATCGAGAAGCC
1 CACAAAAAGCCATATCGAGAAGCC
30762545 CACAAAAAGCC-TATCGAGAAG
1 CACAAAAAGCCATATCGAGAAG
30762566 TTCATCTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.44, C:0.29, G:0.18, T:0.09
Consensus pattern (24 bp):
CACAAAAAGCCATATCGAGAAGCC
Found at i:30762645 original size:24 final size:24
Alignment explanation
Indices: 30762587--30762645 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
30762577 TATATAACGA
* *
30762587 GAAGCTTATAAGAACTATCTTCAG
1 GAAGCTTACAAGAACTATCATCAG
30762611 GAAG-TTCACAAGGAACTAT-ATCAG
1 GAAGCTT-ACAA-GAACTATCATCAG
30762635 GAAGCTTACAA
1 GAAGCTTACAA
30762646 AGAGCCATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
23 2 0.07
24 19 0.63
25 9 0.30
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.24
Consensus pattern (24 bp):
GAAGCTTACAAGAACTATCATCAG
Found at i:30762718 original size:23 final size:23
Alignment explanation
Indices: 30762684--30762734 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
30762674 CTATACATCG
30762684 GGAAGTTCAAGCGAGCACTATCA
1 GGAAGTTCAAGCGAGCACTATCA
* *
30762707 GGAAGTTTAAGCGAGCACTATCG
1 GGAAGTTCAAGCGAGCACTATCA
30762730 GGAAG
1 GGAAG
30762735 CTCACAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.33, C:0.18, G:0.31, T:0.18
Consensus pattern (23 bp):
GGAAGTTCAAGCGAGCACTATCA
Found at i:30762759 original size:27 final size:27
Alignment explanation
Indices: 30762729--30762781 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
30762719 GAGCACTATC
*
30762729 GGGAAGCTCACAAAGAGCCATATAATT
1 GGGAAGCTCACAAAGAGCAATATAATT
**
30762756 GGGAAGCTCATGAAGAGCAATATAAT
1 GGGAAGCTCACAAAGAGCAATATAAT
30762782 CAAGAAGCTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.42, C:0.15, G:0.25, T:0.19
Consensus pattern (27 bp):
GGGAAGCTCACAAAGAGCAATATAATT
Found at i:30762788 original size:27 final size:26
Alignment explanation
Indices: 30762731--30762799 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 26
30762721 GCACTATCGG
* * ***
30762731 GAAGCTCACAAAGAGCCATATAATTGG
1 GAAGCTCA-TAAGAGCAATATAATCAA
30762758 GAAGCTCATGAAGAGCAATATAATCAA
1 GAAGCTCAT-AAGAGCAATATAATCAA
30762785 GAAGCTCATAAGAGC
1 GAAGCTCATAAGAGC
30762800 TAAGGTGTGT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
26 6 0.17
27 30 0.83
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.17
Consensus pattern (26 bp):
GAAGCTCATAAGAGCAATATAATCAA
Found at i:30764255 original size:46 final size:45
Alignment explanation
Indices: 30764202--30764418 Score: 179
Period size: 46 Copynumber: 4.6 Consensus size: 45
30764192 ATTATGGGCT
*
30764202 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CACAATATGAGAGCC
* * *
30764248 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAAAATGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCA-CAATATGAGAGCC
* * * * **
30764296 AGTGCAAAATATGTCTAGGACATGCATC-G-ACCTTGA-GACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCACAAT-ATGA-G--AGCC
* * * * *
30764342 AGTGTAAGACATGTCTGGGATATGCATCGGTTACAAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CACAATATGAGAGCC
30764388 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
30764419 ACATGAGATA
Statistics
Matches: 134, Mismatches: 24, Indels: 24
0.74 0.13 0.13
Matches are distributed among these distances:
43 3 0.02
44 3 0.02
45 1 0.01
46 51 0.38
47 42 0.31
48 30 0.22
49 4 0.03
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCACAATATGAGAGCC
Found at i:30764439 original size:47 final size:45
Alignment explanation
Indices: 30764199--30764465 Score: 170
Period size: 47 Copynumber: 5.7 Consensus size: 45
30764189 GTTATTATGG
*
30764199 GCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCACAT-TATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATC-G--ACATAGATGAGA
* * * *
30764245 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAAAATGAGT
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGACAT--AGATGAGA
* ** * * *
30764293 GCTAGTGCAA-AATATGTCTAGGACATGCATCGACCTTGA-GACGTAA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGACATAGATGA-G--A
* * *
30764339 GCCAGTGTAAGA-CATGTCTGGGATATGCATCGGTTACA-AGATGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATC-G--ACATAGATGAGA
*
30764385 G-TCAGTGTAAGACCATGTCTGGGACATGGCATCGACATGAGATAAGA
1 GCT-AGTGTAAGACCATGTCTGGGACAT-GCATCGACAT-AGATGAGA
* * * *
30764432 GATAGTGTAAGACCGTGTTTGGGATATGGCATCG
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCG
30764466 GCACCTTACC
Statistics
Matches: 173, Mismatches: 29, Indels: 37
0.72 0.12 0.15
Matches are distributed among these distances:
43 2 0.01
44 2 0.01
45 6 0.03
46 54 0.31
47 79 0.46
48 26 0.15
49 4 0.02
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.24
Consensus pattern (45 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCGACATAGATGAGA
Found at i:30767994 original size:60 final size:59
Alignment explanation
Indices: 30767920--30768039 Score: 213
Period size: 60 Copynumber: 2.0 Consensus size: 59
30767910 ACTCAAATAT
30767920 CATATTTTCTGTTTTGAAGATAGGGGTAACCTTAATATAAAGTCCATAGTAACTCTTTC
1 CATATTTTCTGTTTTGAAGATAGGGGTAACCTTAATATAAAGTCCATAGTAACTCTTTC
* *
30767979 CNATATTTTCTGTTTTGAAGATAGGGGTAACCTTAATATAAATTCCATAGTTACTCTTTC
1 C-ATATTTTCTGTTTTGAAGATAGGGGTAACCTTAATATAAAGTCCATAGTAACTCTTTC
30768039 C
1 C
30768040 CATTACCATT
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
59 1 0.02
60 57 0.98
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.40
Consensus pattern (59 bp):
CATATTTTCTGTTTTGAAGATAGGGGTAACCTTAATATAAAGTCCATAGTAACTCTTTC
Found at i:30769960 original size:14 final size:13
Alignment explanation
Indices: 30769939--30769971 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
30769929 AAATATTTAA
30769939 CTTGTTCTTAATT
1 CTTGTTCTTAATT
30769952 CTGTGTTCTTAATT
1 CT-TGTTCTTAATT
30769966 CTTGTT
1 CTTGTT
30769972 TTGATATCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.12, C:0.15, G:0.12, T:0.61
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:30779817 original size:23 final size:24
Alignment explanation
Indices: 30779766--30779819 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
30779756 GCCTTATAAC
* *
30779766 GAGAAGCTCACACAGAGCCGTATT
1 GAGAAGCCCACAAAGAGCCGTATT
*
30779790 CAGAAGCCCACAAAGAGCC-TATT
1 GAGAAGCCCACAAAGAGCCGTATT
30779813 GAGAAGC
1 GAGAAGC
30779820 TTATCCGGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 10 0.38
24 16 0.62
ACGTcount: A:0.37, C:0.26, G:0.24, T:0.13
Consensus pattern (24 bp):
GAGAAGCCCACAAAGAGCCGTATT
Found at i:30788771 original size:40 final size:39
Alignment explanation
Indices: 30788673--30788895 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
30788663 TCCTCGTTCA
* * ** * *
30788673 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
*
30788712 AATGCCTTCGGGACATAACCCGGATTTAACAATTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
*
30788751 GAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
**
30788791 GAATGCCTTCGGGACTTAACCCGGATTT-AGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAAT-TCGCAC
* * * * * *
30788831 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAATTCGCAC
* *
30788872 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
30788896 CAGCATTCAA
Statistics
Matches: 156, Mismatches: 22, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
39 39 0.25
40 108 0.69
41 8 0.05
42 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAATTCGCAC
Found at i:30788829 original size:80 final size:79
Alignment explanation
Indices: 30788671--30788895 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
30788661 GCTCCTCGTT
* * ** * *
30788671 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
30788736 TTTAACAATTCGCA
66 TTTAACAATTCGCA
*
30788750 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC-AATGCCTTCGGGACTTAACCCGG
**
30788815 ATTT-AGTATCTCGCA
65 ATTTAACAAT-TCGCA
* * * * * * *
30788830 CAAAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACAATGCCTTCGGGACTTAACCC
30788893 GGA
63 GGA
30788896 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
79 41 0.33
80 77 0.62
81 6 0.05
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAATGCCTTCGGGACTTAACCCGGA
TTTAACAATTCGCA
Found at i:30788895 original size:120 final size:119
Alignment explanation
Indices: 30788673--30788895 Score: 288
Period size: 120 Copynumber: 1.9 Consensus size: 119
30788663 TCCTCGTTCA
* * *
30788673 AATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
30788738 TAACAATTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
66 TAACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
30788792 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* * *
30788856 TATATTCACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGA
30788896 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
119 38 0.43
120 42 0.48
121 8 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAATTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:30794010 original size:32 final size:32
Alignment explanation
Indices: 30793969--30794030 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
30793959 ATGAGGAACA
30793969 AAAACTATAAATCGATAAACTAGATGAATGGT
1 AAAACTATAAATCGATAAACTAGATGAATGGT
*
30794001 AAAACTATAAATCGATGAACTAGATGAATG
1 AAAACTATAAATCGATAAACTAGATGAATG
30794031 ACAGACACAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.50, C:0.10, G:0.16, T:0.24
Consensus pattern (32 bp):
AAAACTATAAATCGATAAACTAGATGAATGGT
Found at i:30795396 original size:3 final size:3
Alignment explanation
Indices: 30795388--30795449 Score: 88
Period size: 3 Copynumber: 20.7 Consensus size: 3
30795378 ACCCCTCCCA
* *
30795388 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC ATC ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
30795436 ATC ATT ATC ATT AT
1 ATT ATT ATT ATT AT
30795450 CATATTTAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:30800333 original size:25 final size:23
Alignment explanation
Indices: 30800305--30800362 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
30800295 TTTCCTTTCC
*
30800305 TTTCTTCTTTTATTTTTTCTTTCTT
1 TTTCATCTTTTA-TTTTTC-TTCTT
* *
30800330 TTTCCTCCTTTATTTTTCTTCTT
1 TTTCATCTTTTATTTTTCTTCTT
30800353 TTTCATCTTT
1 TTTCATCTTT
30800363 CAAGTGAGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 13 0.45
24 6 0.21
25 10 0.34
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTCATCTTTTATTTTTCTTCTT
Found at i:30809152 original size:16 final size:16
Alignment explanation
Indices: 30809133--30809164 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
30809123 TGCAGGGGAT
30809133 TTAGCCTGGACTGGTA
1 TTAGCCTGGACTGGTA
30809149 TTAGCCTGGACTGGTA
1 TTAGCCTGGACTGGTA
30809165 ATCCCGACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.31
Consensus pattern (16 bp):
TTAGCCTGGACTGGTA
Found at i:30813158 original size:44 final size:44
Alignment explanation
Indices: 30813091--30813179 Score: 151
Period size: 44 Copynumber: 2.0 Consensus size: 44
30813081 TTGTTACTCC
30813091 AAACCTCAATCCAGAGTTCCCTCCTGAAGTGATGACTTTGATTG
1 AAACCTCAATCCAGAGTTCCCTCCTGAAGTGATGACTTTGATTG
* * *
30813135 AAACCTCAATCTAGAGTTTCCTCCTGAGGTGATGACTTTGATTG
1 AAACCTCAATCCAGAGTTCCCTCCTGAAGTGATGACTTTGATTG
30813179 A
1 A
30813180 GCAAGGAACC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.31
Consensus pattern (44 bp):
AAACCTCAATCCAGAGTTCCCTCCTGAAGTGATGACTTTGATTG
Found at i:30813626 original size:57 final size:57
Alignment explanation
Indices: 30813563--30813680 Score: 211
Period size: 57 Copynumber: 2.1 Consensus size: 57
30813553 GTTATCATCT
* *
30813563 TCTACAAGCCTCAGTATTTTGTTACACGAGGAAAAGCAATCCAGTTAGGTTCTTTCC
1 TCTACAAGCCTCAGTATTTTGTTACACGAGGAAAAGCAATCAAGTTAGATTCTTTCC
30813620 TCTACAAGCCTCAGTATTTTGTTACACGAGGAAAAGCAATCAAGTTAGATTCTTTCC
1 TCTACAAGCCTCAGTATTTTGTTACACGAGGAAAAGCAATCAAGTTAGATTCTTTCC
30813677 -CTAC
1 TCTAC
30813681 TGCTTGGATT
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
56 4 0.07
57 55 0.93
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (57 bp):
TCTACAAGCCTCAGTATTTTGTTACACGAGGAAAAGCAATCAAGTTAGATTCTTTCC
Found at i:30818143 original size:24 final size:24
Alignment explanation
Indices: 30818111--30818169 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
30818101 CCTAAGTTTG
30818111 GCATTTTTTTCTAAAGTGGTACTT
1 GCATTTTTTTCTAAAGTGGTACTT
* *
30818135 GCATTTTTTCCTGAAGTGGTACTT
1 GCATTTTTTTCTAAAGTGGTACTT
*
30818159 GCTTCTTTTTT
1 GCAT-TTTTTT
30818170 TTTTTTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 25 0.83
25 5 0.17
ACGTcount: A:0.15, C:0.15, G:0.17, T:0.53
Consensus pattern (24 bp):
GCATTTTTTTCTAAAGTGGTACTT
Found at i:30821374 original size:18 final size:18
Alignment explanation
Indices: 30821348--30821382 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30821338 ATCCTTGGAT
*
30821348 TTTTCATTTTTCATTTAG
1 TTTTAATTTTTCATTTAG
*
30821366 TTTTAATTTTTCTTTTA
1 TTTTAATTTTTCATTTA
30821383 AAAATTATAT
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:0.17, C:0.09, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTTAATTTTTCATTTAG
Found at i:30835881 original size:40 final size:40
Alignment explanation
Indices: 30835831--30835932 Score: 114
Period size: 40 Copynumber: 2.5 Consensus size: 40
30835821 TAGACGAACG
* * *
30835831 ATACTTACTGAATCTACTGAAACATATGCACTTTCGAGCC
1 ATACCTACTGAATCTACTGAAACATATGCACTCTCAAGCC
* * * *
30835871 ATACCTACTGAATTTTCTGAAACGTATGCGCTCTCAAGCC
1 ATACCTACTGAATCTACTGAAACATATGCACTCTCAAGCC
* * *
30835911 TTACCTATTGAATCTATTGAAA
1 ATACCTACTGAATCTACTGAAA
30835933 ATAATGCTCT
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (40 bp):
ATACCTACTGAATCTACTGAAACATATGCACTCTCAAGCC
Found at i:30836073 original size:37 final size:37
Alignment explanation
Indices: 30835990--30836083 Score: 95
Period size: 37 Copynumber: 2.5 Consensus size: 37
30835980 TCATGGAACG
* *
30835990 TTATCCACTGATATACTGAAGAAGCTCAATCGAGTGA
1 TTATCCACTGATATACTGAAGAAGCTCAAGCGAGTCA
* *
30836027 -AATCTACTGATATACT-AAGTAAAGCTCAAGCGAG-CA
1 TTATCCACTGATATACTGAAG--AAGCTCAAGCGAGTCA
*
30836063 TTATCCACTGAATATATTGAA
1 TTATCCACTG-ATATACTGAA
30836084 CTACTATACT
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
35 3 0.07
36 15 0.33
37 19 0.42
38 6 0.13
39 2 0.04
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (37 bp):
TTATCCACTGATATACTGAAGAAGCTCAAGCGAGTCA
Found at i:30840631 original size:29 final size:29
Alignment explanation
Indices: 30840566--30840668 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 29
30840556 GCATGAGTAT
* *
30840566 AATATGATTTGGGCCTAATGGGCCACATG
1 AATATGAATTGGGCCTAATGGGCCATATG
** * * *
30840595 AAGGTGAATTGGGCCTAGTGGACCATAAG
1 AATATGAATTGGGCCTAATGGGCCATATG
* * *
30840624 AATATGAAGTGGGCCAAATGGGCCATTTG
1 AATATGAATTGGGCCTAATGGGCCATATG
*
30840653 AATAAG-ATTGGGCCTA
1 AATATGAATTGGGCCTA
30840669 GTAGGCTATA
Statistics
Matches: 56, Mismatches: 18, Indels: 1
0.75 0.24 0.01
Matches are distributed among these distances:
28 8 0.14
29 48 0.86
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.24
Consensus pattern (29 bp):
AATATGAATTGGGCCTAATGGGCCATATG
Found at i:30846669 original size:17 final size:16
Alignment explanation
Indices: 30846646--30846677 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
30846636 GTTGTAACAC
30846646 CCCAAAAATCTCGAAA
1 CCCAAAAATCTCGAAA
30846662 CCCAAAAATCTCGAAA
1 CCCAAAAATCTCGAAA
30846678 TCCTGAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.31, G:0.06, T:0.12
Consensus pattern (16 bp):
CCCAAAAATCTCGAAA
Found at i:30847741 original size:24 final size:23
Alignment explanation
Indices: 30847699--30847746 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
30847689 GGCAAAAGCC
30847699 GAAATGCCAAAAACCCGAAAAGTT
1 GAAATGCCAAAAACCCG-AAAGTT
* **
30847723 GAAATGTCAAAAAGTCGAAAGTT
1 GAAATGCCAAAAACCCGAAAGTT
30847746 G
1 G
30847747 GGCTACGGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.48, C:0.15, G:0.21, T:0.17
Consensus pattern (23 bp):
GAAATGCCAAAAACCCGAAAGTT
Found at i:30848355 original size:26 final size:27
Alignment explanation
Indices: 30848326--30848378 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
30848316 AATTGTAATT
* *
30848326 AAGG-GAAAATTATCAAAATACCCCTA
1 AAGGTGAAAATGACCAAAATACCCCTA
* *
30848352 AAGGTGAAGATGACCAAAGTACCCCTA
1 AAGGTGAAAATGACCAAAATACCCCTA
30848379 CGTGTTGAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.45, C:0.21, G:0.17, T:0.17
Consensus pattern (27 bp):
AAGGTGAAAATGACCAAAATACCCCTA
Found at i:30850888 original size:23 final size:23
Alignment explanation
Indices: 30850842--30850889 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
30850832 GTTCGTTTAA
* *
30850842 ATTAAATGAACATGTTCGTGAAC
1 ATTAAACGAACATGTTCGTAAAC
30850865 ATTAAACGAACATGTTC-TCAAAC
1 ATTAAACGAACATGTTCGT-AAAC
30850888 AT
1 AT
30850890 GTTCAACATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 21 0.95
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (23 bp):
ATTAAACGAACATGTTCGTAAAC
Found at i:30858058 original size:14 final size:14
Alignment explanation
Indices: 30858039--30858089 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
30858029 ATATATTAAC
30858039 TTAATATT-TAAGTA
1 TTAATATTATAA-TA
30858053 TTAATATTATAATA
1 TTAATATTATAATA
* *
30858067 TAATATATTATTATA
1 TTA-ATATTATAATA
30858082 TTATATAT
1 TTA-ATAT
30858090 CAAAAACATA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.38
15 20 0.62
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (14 bp):
TTAATATTATAATA
Found at i:30858934 original size:19 final size:19
Alignment explanation
Indices: 30858910--30858950 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
30858900 TTTAGCCTGG
30858910 ACTGGTAATCCTGAAAAAT
1 ACTGGTAATCCTGAAAAAT
30858929 ACTGGTAATCCTGAAAAAT
1 ACTGGTAATCCTGAAAAAT
30858948 ACT
1 ACT
30858951 CTTTAAGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (19 bp):
ACTGGTAATCCTGAAAAAT
Found at i:30861037 original size:3 final size:3
Alignment explanation
Indices: 30861029--30861074 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
30861019 TCATTCATGT
30861029 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
30861075 CCAAGATGAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:30867628 original size:19 final size:19
Alignment explanation
Indices: 30867572--30867643 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
30867562 AATCATATCT
30867572 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
30867590 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
30867607 TCTAAGATTGCATATGATA
1 TCTAAGATTGCATATCATA
30867626 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
30867644 TGAAGATTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
17 16 0.33
18 10 0.20
19 23 0.47
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:30867650 original size:36 final size:35
Alignment explanation
Indices: 30867575--30867651 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 35
30867565 CATATCTTCT
*
30867575 AAGATTGCAATCATATCTAAGATTGTATCATATCT
1 AAGATTGCAATCATATCTAAGATTGTATCATATCG
*
30867610 AAGATTGCATATGATATCTAAGATTGCATATCAT-T-G
1 AAGATTGCA-ATCATATCTAAGATTG--TATCATATCG
30867646 AAGATT
1 AAGATT
30867652 ATATTTCCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
35 9 0.24
36 21 0.57
37 1 0.03
38 6 0.16
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (35 bp):
AAGATTGCAATCATATCTAAGATTGTATCATATCG
Found at i:30867651 original size:17 final size:19
Alignment explanation
Indices: 30867575--30867651 Score: 83
Period size: 19 Copynumber: 4.3 Consensus size: 19
30867565 CATATCTTCT
*
30867575 AAGATTGCA-ATCATATCT
1 AAGATTGCATATCATATCG
*
30867593 AAGATTG--TATCATATCT
1 AAGATTGCATATCATATCG
* *
30867610 AAGATTGCATATGATATCT
1 AAGATTGCATATCATATCG
30867629 AAGATTGCATATCAT-T-G
1 AAGATTGCATATCATATCG
30867646 AAGATT
1 AAGATT
30867652 ATATTTCCAT
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
17 22 0.42
18 8 0.15
19 23 0.43
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (19 bp):
AAGATTGCATATCATATCG
Found at i:30868047 original size:45 final size:45
Alignment explanation
Indices: 30867992--30868265 Score: 315
Period size: 45 Copynumber: 6.1 Consensus size: 45
30867982 GGAAGGCGAT
* * *
30867992 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
30868037 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* *
30868082 ATCTGCT-TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* *
30868126 ATCTGTTATC-TCTGATTTGCTCCCCGTCTAATATAGAGATGCCAA
1 ATCTGTTATCTTC-GATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * * * * * *
30868171 ATCTGTCATCTTGGATCTGCT--TCGATGTAA-ACACATGAAGGTCAG
1 ATCTGTTATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAA
*
30868216 ATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTG-T-TATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
30868263 ATC
1 ATC
30868266 ATCTTGGATC
Statistics
Matches: 190, Mismatches: 28, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
43 5 0.03
44 49 0.26
45 104 0.55
46 2 0.01
47 19 0.10
48 5 0.03
49 6 0.03
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
Found at i:30868113 original size:89 final size:89
Alignment explanation
Indices: 30867992--30868265 Score: 322
Period size: 89 Copynumber: 3.0 Consensus size: 89
30867982 GGAAGGCGAT
*
30867992 ATCTGCTATCTTTGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCGATCTGC
1 ATCTGCT-TCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCGATCTGC
30868057 TCCCCGTCTAATACAGAGATGCCAA
65 TCCCCGTCTAATACAGAGATGCCAA
* * *
30868082 ATCTGCTTCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATC-TCTGATTTGC
1 ATCTGCTTCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTC-GATCTGC
*
30868146 TCCCCGTCTAATATAGAGATGCCAA
65 TCCCCGTCTAATACAGAGATGCCAA
* * * * * * * * *
30868171 ATCTGTCATCTTGGATCTGCT--TCGATGTAA-ACACATGAAGGTCAGATCTGCTATGTCTTCGA
1 ATCTG-CTTCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ACGCCAAATCTG-T-TATCTTCGA
30868233 TCTGCTCCCCGTCTAATACAGAGATGCCAA
60 TCTGCTCCCCGTCTAATACAGAGATGCCAA
30868263 ATC
1 ATC
30868266 ATCTTGGATC
Statistics
Matches: 159, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
88 8 0.05
89 84 0.53
90 28 0.18
91 1 0.01
92 36 0.23
93 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (89 bp):
ATCTGCTTCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCGATCTGCT
CCCCGTCTAATACAGAGATGCCAA
Found at i:30868334 original size:78 final size:78
Alignment explanation
Indices: 30868205--30868421 Score: 389
Period size: 78 Copynumber: 2.8 Consensus size: 78
30868195 ATGTAAACAC
30868205 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
30868270 TGGATCTGCTTCA
66 TGGATCTGCTTCA
*
30868283 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
30868348 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * **
30868361 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
30868422 TGTTTCTTCG
Statistics
Matches: 133, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 133 1.00
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:30868674 original size:94 final size:91
Alignment explanation
Indices: 30868552--30868750 Score: 247
Period size: 94 Copynumber: 2.2 Consensus size: 91
30868542 ATGCCAAATC
* *
30868552 ATCTTGGATCTACTTCGATGTAGAAACATCCGAAGGTTAGATCTGCTATGTCACCGATCTGCTCT
1 ATCTTGGATCTACTTCGACGTAGAAACATCCGAAGGTCAGATCTGCTA--TCACCGATCTGCTCT
* * *
30868617 CCGTCGAATATACAGATGCCAAATCTGTT
64 CCGGC-AATACACAGATGCCAAATCTGCT
** **
30868646 ATCTTGGATCTGTTTCGACGT-GAAAACATCCGAAGGTCAGATCTGCTATCTTCGATCTGCTCTC
1 ATCTTGGATCTACTTCGACGTAG-AAACATCCGAAGGTCAGATCTGCTATCACCGATCTGCTCTC
* *
30868710 TGGCAATACAGAGATGCCAAATCTGCT
65 CGGCAATACACAGATGCCAAATCTGCT
*
30868737 ATCTTCGATCTACT
1 ATCTTGGATCTACT
30868751 CTCTGACAAT
Statistics
Matches: 90, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
91 31 0.34
92 16 0.18
93 1 0.01
94 42 0.47
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (91 bp):
ATCTTGGATCTACTTCGACGTAGAAACATCCGAAGGTCAGATCTGCTATCACCGATCTGCTCTCC
GGCAATACACAGATGCCAAATCTGCT
Found at i:30868741 original size:44 final size:44
Alignment explanation
Indices: 30868686--30868776 Score: 164
Period size: 44 Copynumber: 2.1 Consensus size: 44
30868676 CGAAGGTCAG
* *
30868686 ATCTGCTATCTTCGATCTGCTCTCTGGCAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTACTCTCTGACAATACAGAGATGCCAA
30868730 ATCTGCTATCTTCGATCTACTCTCTGACAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTACTCTCTGACAATACAGAGATGCCAA
30868774 ATC
1 ATC
30868777 ATCTTTGATT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.30
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTACTCTCTGACAATACAGAGATGCCAA
Found at i:30873313 original size:19 final size:19
Alignment explanation
Indices: 30873257--30873328 Score: 114
Period size: 19 Copynumber: 3.9 Consensus size: 19
30873247 AATCATATCT
30873257 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
30873275 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
30873292 TCTAAGATTGCATATGATA
1 TCTAAGATTGCATATCATA
30873311 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
30873329 TGAAGATTAT
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
17 16 0.33
18 10 0.20
19 23 0.47
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:30873335 original size:36 final size:35
Alignment explanation
Indices: 30873260--30873336 Score: 95
Period size: 36 Copynumber: 2.2 Consensus size: 35
30873250 CATATCTTCT
*
30873260 AAGATTGCAATCATATCTAAGATTGTATCATATCT
1 AAGATTGCAATCATATCTAAGATTGTATCATATCG
*
30873295 AAGATTGCATATGATATCTAAGATTGCATATCAT-T-G
1 AAGATTGCA-ATCATATCTAAGATTG--TATCATATCG
30873331 AAGATT
1 AAGATT
30873337 ATATTTCCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
35 9 0.24
36 21 0.57
37 1 0.03
38 6 0.16
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (35 bp):
AAGATTGCAATCATATCTAAGATTGTATCATATCG
Found at i:30873336 original size:17 final size:19
Alignment explanation
Indices: 30873260--30873336 Score: 83
Period size: 19 Copynumber: 4.3 Consensus size: 19
30873250 CATATCTTCT
*
30873260 AAGATTGCA-ATCATATCT
1 AAGATTGCATATCATATCG
*
30873278 AAGATTG--TATCATATCT
1 AAGATTGCATATCATATCG
* *
30873295 AAGATTGCATATGATATCT
1 AAGATTGCATATCATATCG
30873314 AAGATTGCATATCAT-T-G
1 AAGATTGCATATCATATCG
30873331 AAGATT
1 AAGATT
30873337 ATATTTCCAT
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
17 22 0.42
18 8 0.15
19 23 0.43
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (19 bp):
AAGATTGCATATCATATCG
Found at i:30873853 original size:22 final size:21
Alignment explanation
Indices: 30873818--30873893 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
30873808 AAAAGGTATC
* *
30873818 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
30873839 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
30873862 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
30873881 TGC-AATCATATCT
1 TACAAATCATATCT
30873894 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:30873910 original size:35 final size:37
Alignment explanation
Indices: 30873847--30873944 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
30873837 ATTACAAAAT
30873847 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
30873883 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
30873918 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
30873945 TGAAGATTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:30873952 original size:17 final size:19
Alignment explanation
Indices: 30873854--30873944 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
30873844 AATCATATCT
30873854 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
30873873 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
30873891 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
30873908 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
30873927 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
30873945 TGAAGATTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:30874148 original size:56 final size:56
Alignment explanation
Indices: 30874082--30874195 Score: 219
Period size: 56 Copynumber: 2.0 Consensus size: 56
30874072 GGGGGTTTAT
*
30874082 TATTTTTGTTTTTGGACTTATTTCTGGGCCCGGGCAAAATTGAGTGTCTACAATGA
1 TATTTTTGTTTTTGGACTTATTTCTGGGCCCGGGAAAAATTGAGTGTCTACAATGA
30874138 TATTTTTGTTTTTGGACTTATTTCTGGGCCCGGGAAAAATTGAGTGTCTACAATGA
1 TATTTTTGTTTTTGGACTTATTTCTGGGCCCGGGAAAAATTGAGTGTCTACAATGA
30874194 TA
1 TA
30874196 ATAAAAGAAA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.41
Consensus pattern (56 bp):
TATTTTTGTTTTTGGACTTATTTCTGGGCCCGGGAAAAATTGAGTGTCTACAATGA
Found at i:30878213 original size:23 final size:23
Alignment explanation
Indices: 30878187--30878280 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
30878177 AAGTTAGAAG
30878187 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
30878210 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
30878233 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
30878256 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
30878279 AG
1 AG
30878281 ATACACACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:30882723 original size:23 final size:23
Alignment explanation
Indices: 30882697--30882790 Score: 134
Period size: 23 Copynumber: 4.1 Consensus size: 23
30882687 AAGTTAGAAG
30882697 AGTGAAGAGACTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* * *
30882720 AGTGAAAAAACTTGAATATGAAT
1 AGTGAAGAGACTTGAATATGAAA
*
30882743 AGTGAAGAGACTTGAAGATGAAA
1 AGTGAAGAGACTTGAATATGAAA
* *
30882766 AGTTAAGAGGCTTGAATATGAAA
1 AGTGAAGAGACTTGAATATGAAA
30882789 AG
1 AG
30882791 ATACACACAT
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.22
Consensus pattern (23 bp):
AGTGAAGAGACTTGAATATGAAA
Found at i:30883978 original size:26 final size:26
Alignment explanation
Indices: 30883949--30883999 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
30883939 ATAACATAAC
30883949 TAAATAACTT-ATTATATATATATATT
1 TAAATAA-TTCATTATATATATATATT
30883975 TAAATAATTCATTATATATATATAT
1 TAAATAATTCATTATATATATATAT
30884000 ATTTAAACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 2 0.08
26 22 0.92
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (26 bp):
TAAATAATTCATTATATATATATATT
Found at i:30886941 original size:43 final size:43
Alignment explanation
Indices: 30886880--30886982 Score: 161
Period size: 43 Copynumber: 2.4 Consensus size: 43
30886870 CATACTGAAG
* *
30886880 CAATTATATTGGCACACACAGTGCATCATCTGACAAGCCGAAA
1 CAATTATATTGGCACACACAGTACATCATCAGACAAGCCGAAA
* * *
30886923 CAATTATACTGGCACACACAGTACATCATCAGACAAGCTGAAG
1 CAATTATATTGGCACACACAGTACATCATCAGACAAGCCGAAA
30886966 CAATTATATTGGCACAC
1 CAATTATATTGGCACAC
30886983 GGTGCATCAT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.38, C:0.25, G:0.16, T:0.21
Consensus pattern (43 bp):
CAATTATATTGGCACACACAGTACATCATCAGACAAGCCGAAA
Found at i:30887487 original size:17 final size:18
Alignment explanation
Indices: 30887447--30887488 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
30887437 CAAATTAATA
30887447 ATTAA-TTTTCATTTTAT
1 ATTAATTTTTCATTTTAT
* *
30887464 ATAAATTTTTCATTTTGT
1 ATTAATTTTTCATTTTAT
30887482 -TTAATTT
1 ATTAATTT
30887489 AGTCCCTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (18 bp):
ATTAATTTTTCATTTTAT
Found at i:30896408 original size:6 final size:6
Alignment explanation
Indices: 30896397--30896424 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
30896387 GGAGAATATT
30896397 TATACA TATACA TATACA TATACA TATA
1 TATACA TATACA TATACA TATACA TATA
30896425 TATACACGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (6 bp):
TATACA
Found at i:30897789 original size:196 final size:187
Alignment explanation
Indices: 30897527--30897933 Score: 424
Period size: 196 Copynumber: 2.1 Consensus size: 187
30897517 TATACGCGTG
* * * * *
30897527 TGATAGGATTTCTAGTATTAATAATGTATTTGATTGAATTGGTGTCATCAGTTAAACTATTTTTC
1 TGATAGGATTTCTAGTATTAACAATGTATTTAATAGAATTGGTATCATCAGTTAAACTAATTTTC
* *
30897592 ATTTTAATTTCGTACATGTTGCATAT-GTGTTGATGTTATTATTAGTGTCAAACCGTATGTTTCA
66 ATTAT-A-TT-GCACATG-TG-ATATGGTGTT-A--TTATTATTAGTGTCAAACCGTATGTTTCA
* *
30897656 TTATTTATTTTATGTTATTTTTAAACATACA-TTTTTATTCAAAATTTGTGATTTCTTCACGCAT
123 TT-TTT-TTGTATGTTATTTTTAAACACA-ATTTTTTATTCAAAATTTGTGATTTCTTCACGCAT
30897720 ACA
185 ACA
* * * *
30897723 TGATAGTATTTTTAGTATTAACAATGTATTTAATAGAGTTGGTATTA-CAAGTTAAACTAATTTT
1 TGATAGGATTTCTAGTATTAACAATGTATTTAATAGAATTGGTATCATC-AGTTAAACTAATTTT
* * * * * *
30897787 CATTATATTGCATATGTGGTGTGGTGTTATTATTATTAGTTTCAATCCTTATGTTTCATTTTTTT
65 CATTATATTGCACATGTGATATGGTGTTATTATTATTAGTGTCAAACCGTATGTTTCATTTTTTT
* ** * ** *
30897852 GTATGTTATTTTTAGACACAATTTTTTATTCAAAATTTACGGTTTCCACACACATACA
130 GTATGTTATTTTTAAACACAATTTTTTATTCAAAATTTGTGATTTCTTCACGCATACA
30897910 CTGTGATAGGATTTCTAGTATTAA
1 ---TGATAGGATTTCTAGTATTAA
30897934 TAATATTATG
Statistics
Matches: 177, Mismatches: 28, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
186 1 0.01
187 49 0.28
188 3 0.02
189 28 0.16
190 19 0.11
191 3 0.02
192 7 0.04
193 5 0.03
194 2 0.01
195 2 0.01
196 58 0.33
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.48
Consensus pattern (187 bp):
TGATAGGATTTCTAGTATTAACAATGTATTTAATAGAATTGGTATCATCAGTTAAACTAATTTTC
ATTATATTGCACATGTGATATGGTGTTATTATTATTAGTGTCAAACCGTATGTTTCATTTTTTTG
TATGTTATTTTTAAACACAATTTTTTATTCAAAATTTGTGATTTCTTCACGCATACA
Found at i:30898606 original size:199 final size:201
Alignment explanation
Indices: 30898063--30898613 Score: 623
Period size: 206 Copynumber: 2.7 Consensus size: 201
30898053 TAATTTCATG
* * * * * * **
30898063 TTAGTTTCAAACCATATGTTTCA-TAGTTTATTGTATGTAATTTTTAAACACAAATTTGTGTTTT
1 TTAGTTTCAAACCTTATGTTTCATTA-TTTATTATATGTTATTTTTAAACACACATTTTTATTCA
* ** *
30898127 AAATCCATGT-TTTCCACATGCATACTCGTGTGATAGGATTTTTAGTATTAATAATGTATTTGAT
65 AAAT--TTGTGTTTCCACACACATACACGTGTGATAGGA-TTTTAGTATTAATAATGTATTTGAT
* * * * *
30898191 TGAGATGATGTCGCAAGTTAATCTATTTTTCATTTTAATTTCGTGCATATTGCATATGTGGTATT
127 TGAGTTGGTGTCACAAGTTAAACTATTTTTCATTTTAATTTCGTACATATTGCATATGTGG-ATT
30898256 GTTATTATTATTA
191 G-T-TTATTATTA
* * ** * *
30898269 TTAGTTTCAAATCTTACGTCCCATTATTTATTTTATGTTATTTTTAAACATACATTTTTATTCAA
1 TTAGTTTCAAACCTTATGTTTCATTATTTATTATATGTTATTTTTAAACACACATTTTTATTCAA
* * *** *
30898334 AATTTATGGTTTCAACACGA-ATATGTGTATGATAGGATTATTAGTATTAATAATGTATTTGATT
66 AATTTGT-GTTTCCACAC-ACATACACGTGTGATAGGATT-TTAGTATTAATAATGTATTTGATT
*
30898398 GAGTTGGTGTCACAAGTTAAACTATTTTTCATTTTAATTTCGTACGTATTGCATATGT-G-TTG-
128 GAGTTGGTGTCACAAGTTAAACTATTTTTCATTTTAATTTCGTACATATTGCATATGTGGATTGT
30898460 TTATTATTA
193 TTATTATTA
*
30898469 TTAGTTTCATACCTTATGTTTCATTATTTATTATATGTTA-TTTTAAACACACATTTTTATTCAA
1 TTAGTTTCAAACCTTATGTTTCATTATTTATTATATGTTATTTTTAAACACACATTTTTATTCAA
* *
30898533 AATTTGTAGTTTCCACACACATACACGTGTGATAGAATTTCTAGTATTAATAATGT-TGTTAATT
66 AATTTGT-GTTTCCACACACATACACGTGTGATAGGATTT-TAGTATTAATAATGTAT-TTGATT
*
30898597 AAGTTGGTGTCACAAGT
128 GAGTTGGTGTCACAAGT
30898614 CAACTCGACA
Statistics
Matches: 292, Mismatches: 45, Indels: 23
0.81 0.12 0.06
Matches are distributed among these distances:
198 3 0.01
199 88 0.30
200 43 0.15
203 3 0.01
204 2 0.01
205 3 0.01
206 148 0.51
207 2 0.01
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.47
Consensus pattern (201 bp):
TTAGTTTCAAACCTTATGTTTCATTATTTATTATATGTTATTTTTAAACACACATTTTTATTCAA
AATTTGTGTTTCCACACACATACACGTGTGATAGGATTTTAGTATTAATAATGTATTTGATTGAG
TTGGTGTCACAAGTTAAACTATTTTTCATTTTAATTTCGTACATATTGCATATGTGGATTGTTTA
TTATTA
Found at i:30914020 original size:35 final size:35
Alignment explanation
Indices: 30913981--30914050 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
30913971 TCCCAATTAA
30913981 ATTTCTGATTTATTTAATTATTTATCTTAGCAGTT
1 ATTTCTGATTTATTTAATTATTTATCTTAGCAGTT
30914016 ATTTCTGATTTATTTAATTATTTATCTTAGCAGTT
1 ATTTCTGATTTATTTAATTATTTATCTTAGCAGTT
30914051 TTAATTATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.57
Consensus pattern (35 bp):
ATTTCTGATTTATTTAATTATTTATCTTAGCAGTT
Found at i:30915060 original size:40 final size:40
Alignment explanation
Indices: 30914994--30915090 Score: 106
Period size: 40 Copynumber: 2.4 Consensus size: 40
30914984 CTATCTTGGT
* *
30914994 ATCGCACACTTAGTGCCACATATAGCCGAAGCTATTCCAGC
1 ATCGCACACTTAGTGCCACATATAGCCAAAGCTATTCC-GA
* ** * * *
30915035 A-CGCACACTTAGTGTCATTTGTAGCCAAAGTTATTTCGA
1 ATCGCACACTTAGTGCCACATATAGCCAAAGCTATTCCGA
30915074 ATCGCACACTTAGTGCC
1 ATCGCACACTTAGTGCC
30915091 GAACATAATC
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
39 2 0.04
40 43 0.93
41 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.27
Consensus pattern (40 bp):
ATCGCACACTTAGTGCCACATATAGCCAAAGCTATTCCGA
Found at i:30919413 original size:20 final size:19
Alignment explanation
Indices: 30919374--30919415 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
30919364 GAGAATCGGC
30919374 AAGAGGAGAAAGAAGAGAG
1 AAGAGGAGAAAGAAGAGAG
* *
30919393 AAGAGGGGAAGAGATGAGAG
1 AAGAGGAGAA-AGAAGAGAG
30919413 AAG
1 AAG
30919416 GATAGAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.52, C:0.00, G:0.45, T:0.02
Consensus pattern (19 bp):
AAGAGGAGAAAGAAGAGAG
Found at i:30929534 original size:80 final size:79
Alignment explanation
Indices: 30929350--30929574 Score: 238
Period size: 80 Copynumber: 2.8 Consensus size: 79
30929340 GCTCCTCGTT
* * * * *
30929350 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGA
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCACACAATGCCTTCGGGACTTAACCCGGA
30929415 TTTGATAACTCGCA
66 TTTGATAACTCGCA
* * *
30929429 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCACAC-AATGCCTTCGGGACTTAACCCGG
*
30929494 ATTT-AGTATCTCGCA
65 ATTTGA-TAACTCGCA
** * * * * * * *
30929509 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAACGCCTTCGGAACTTAGCCCG
1 CAAAGGCCTTCGGGA-CTTAACCCGGATTTAATAACTCA-CACAATGCCTTCGGGACTTAACCCG
30929573 GA
64 GA
30929575 CAGCATTCAA
Statistics
Matches: 123, Mismatches: 19, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
79 39 0.32
80 81 0.66
81 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAAGGCCTTCGGGACTTAACCCGGATTTAATAACTCACACAATGCCTTCGGGACTTAACCCGGA
TTTGATAACTCGCA
Found at i:30929535 original size:40 final size:40
Alignment explanation
Indices: 30929352--30929521 Score: 245
Period size: 40 Copynumber: 4.3 Consensus size: 40
30929342 TCCTCGTTCA
* * * *
30929352 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
30929391 AATGCCTTCGGGACTTAACCCGGATTT-GATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAG-TAACTCGCACG
*
30929431 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
* *
30929471 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
*
30929511 AAGGCCTTCGG
1 AATGCCTTCGG
30929522 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
38 1 0.01
39 33 0.28
40 85 0.71
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACG
Found at i:30929574 original size:120 final size:119
Alignment explanation
Indices: 30929352--30929574 Score: 263
Period size: 120 Copynumber: 1.9 Consensus size: 119
30929342 TCCTCGTTCA
* * * *
30929352 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACTTAACCCGGATA
* * *
30929417 TGATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
66 TGATAACTAGCACGAACGCCTTCGGAACTTAACCCGGATTTAATAACTCGCACG
* * * **
30929471 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CTTAACCCGGA
* *
30929535 TAT-ATTCACTTAGCAC-AACGCCTTCGGAACTTAGCCCGGA
64 TATGA-TAAC-TAGCACGAACGCCTTCGGAACTTAACCCGGA
30929575 CAGCATTCAA
Statistics
Matches: 86, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
119 38 0.44
120 43 0.50
121 5 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACTTAACCCGGATA
TGATAACTAGCACGAACGCCTTCGGAACTTAACCCGGATTTAATAACTCGCACG
Found at i:30937353 original size:40 final size:40
Alignment explanation
Indices: 30937255--30937517 Score: 309
Period size: 40 Copynumber: 6.6 Consensus size: 40
30937245 TCCTCGTTCA
* * * ** *
30937255 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
30937294 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
30937334 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
30937374 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
30937414 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
30937454 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
30937494 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
30937518 CAGCATTCAA
Statistics
Matches: 199, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 37 0.19
40 154 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:30940092 original size:11 final size:11
Alignment explanation
Indices: 30940062--30940100 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
30940052 GGTTTAAGCC
*
30940062 TTCAATCTCATA
1 TTCAATTTCA-A
30940074 TCTCAATTTCAA
1 T-TCAATTTCAA
30940086 TTCAATTTCAA
1 TTCAATTTCAA
30940097 TTCA
1 TTCA
30940101 TAATTCCACT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 14 0.56
12 3 0.12
13 8 0.32
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.44
Consensus pattern (11 bp):
TTCAATTTCAA
Done.