Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 104 of 222
Found at i:33074053 original size:119 final size:120
Alignment explanation
Indices: 33073871--33074093 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
33073861 TCCTTGTTCA
* *
33073871 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGAT
*
33073936 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 TTAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
33073991 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATACCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATACCTTCGGGA-CTTAACCCGG
* * *
33074053 ATTTGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATTTAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
33074094 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGAT
TTAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:33076615 original size:25 final size:25
Alignment explanation
Indices: 33076559--33076616 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
33076549 AGGGTCAAAC
* * * *
33076559 GATCATGTCACACGCTCGTGTGCCA
1 GATCGTGTCACACGCCCATGTACCA
* *
33076584 GACCGTGTCACACGCCCATGTACTA
1 GATCGTGTCACACGCCCATGTACCA
33076609 GATCGTGT
1 GATCGTGT
33076617 AACTCATTTA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.21, C:0.31, G:0.24, T:0.24
Consensus pattern (25 bp):
GATCGTGTCACACGCCCATGTACCA
Found at i:33087414 original size:11 final size:11
Alignment explanation
Indices: 33087398--33087422 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
33087388 TATATTACGA
33087398 CACATATTAAT
1 CACATATTAAT
33087409 CACATATTAAT
1 CACATATTAAT
33087420 CAC
1 CAC
33087423 TTTCAGTCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (11 bp):
CACATATTAAT
Found at i:33094270 original size:51 final size:50
Alignment explanation
Indices: 33094143--33094319 Score: 223
Period size: 51 Copynumber: 3.5 Consensus size: 50
33094133 GATACACATT
* * *
33094143 GCCTTCACATAGTACTACACACGTAATC-AAGTTTTACGGTCCACGTAGTA
1 GCCTTCACATAGTACTACACACGTGACCAAAGTTTT-CGGTACACGTAGTA
*
33094193 GCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCGGTACACATAGTA
1 GCCTTCACATAGTACTACACACGTGACCAAAG-TTTTCGGTACACGTAGTA
* * * * *
33094244 GCCTTCACTTAGTACTACGCATGTGACCATTA-TTTATCGATACACGTAGTA
1 GCCTTCACATAGTACTACACACGTGACCA-AAGTTT-TCGGTACACGTAGTA
33094295 GCCTTCACATAGTACTACACACGTG
1 GCCTTCACATAGTACTACACACGTG
33094320 TTCATCGATA
Statistics
Matches: 110, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
50 29 0.26
51 76 0.69
52 5 0.05
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (50 bp):
GCCTTCACATAGTACTACACACGTGACCAAAGTTTTCGGTACACGTAGTA
Found at i:33114038 original size:19 final size:20
Alignment explanation
Indices: 33114004--33114045 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
33113994 ACAACACTTG
* *
33114004 TTTCTCGCACTCTTTTTTTC
1 TTTCTCGCAATCTTTTTCTC
33114024 TTTCTC-CAATCTTTTTCTC
1 TTTCTCGCAATCTTTTTCTC
33114043 TTT
1 TTT
33114046 TTCAATTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.07, C:0.29, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTCTCGCAATCTTTTTCTC
Found at i:33115018 original size:14 final size:14
Alignment explanation
Indices: 33114992--33115025 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
33114982 TTGAAACTAG
33114992 TTTTTTTTCACAAT
1 TTTTTTTTCACAAT
33115006 TTCTTTTTT-ACAAT
1 TT-TTTTTTCACAAT
33115020 TTTTTT
1 TTTTTT
33115026 CACAACTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.21
14 9 0.47
15 6 0.32
ACGTcount: A:0.18, C:0.12, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTTTTTCACAAT
Found at i:33117245 original size:51 final size:50
Alignment explanation
Indices: 33117112--33117303 Score: 210
Period size: 51 Copynumber: 3.8 Consensus size: 50
33117102 ACTATTATCA
* * *
33117112 TTCGATACACGTATTAGCCTTCACATAGTACTACACACGTAATC-AAGTT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
* *
33117161 TTACGTTCCACGTAGTAGCCTTCACATTA-TACTACACACGTGACCAAAGCTT
1 TT-CGATACACGTAGTAGCCTTCACA-TAGTACTACACACGTGACCAAAG-TT
* * * * *
33117213 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATTA-TT
1 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGTT
* *
33117263 TATCAATAAACGTAGTAGCCTTCACATAGTACTACACACGT
1 T-TCGATACACGTAGTAGCCTTCACATAGTACTACACACGT
33117304 ATTCATCGAT
Statistics
Matches: 119, Mismatches: 17, Indels: 12
0.80 0.11 0.08
Matches are distributed among these distances:
49 2 0.02
50 39 0.33
51 73 0.61
52 5 0.04
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (50 bp):
TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGTT
Found at i:33127949 original size:20 final size:20
Alignment explanation
Indices: 33127906--33127949 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
33127896 ACTAGTTCAC
* *
33127906 ACAATAGCATAGGTTCGCAT
1 ACAATAGCATAGGTTCACAA
* *
33127926 ACAATAGTATAGTTTCACAA
1 ACAATAGCATAGGTTCACAA
33127946 ACAA
1 ACAA
33127950 ATAGACTTCG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (20 bp):
ACAATAGCATAGGTTCACAA
Found at i:33129122 original size:9 final size:10
Alignment explanation
Indices: 33129096--33129125 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
33129086 AAAGCTGTAC
*
33129096 TTTAAAAATT
1 TTTAAAAATG
33129106 TTTAAAAATG
1 TTTAAAAATG
33129116 TTTAAAAATG
1 TTTAAAAATG
33129126 CTTAGAAGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (10 bp):
TTTAAAAATG
Found at i:33140958 original size:22 final size:23
Alignment explanation
Indices: 33140933--33141016 Score: 86
Period size: 22 Copynumber: 3.8 Consensus size: 23
33140923 ATTGTGATGT
* *
33140933 AGTGGTGGTGTAGTGGTGATA-A
1 AGTGGTTGTGTGGTGGTGATATA
*
33140955 AGTGGTTGAGTGGTGGTGATATA
1 AGTGGTTGTGTGGTGGTGATATA
*
33140978 A-TGGTTGTATGGTGGTGATAT-
1 AGTGGTTGTGTGGTGGTGATATA
*
33140999 GGTGGTTGT-TGGGTGGTG
1 AGTGGTTGTGT-GGTGGTG
33141017 TTTTGGTTTG
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.02
22 50 0.94
23 2 0.04
ACGTcount: A:0.17, C:0.00, G:0.46, T:0.37
Consensus pattern (23 bp):
AGTGGTTGTGTGGTGGTGATATA
Found at i:33143044 original size:21 final size:21
Alignment explanation
Indices: 33143020--33143059 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
33143010 TTGGTATCAT
* *
33143020 TTTTAACAAAGGTATCGATTA
1 TTTTAAAAAAAGTATCGATTA
33143041 TTTTAAAAAAAGTATCGAT
1 TTTTAAAAAAAGTATCGAT
33143060 ACTGAAATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.38
Consensus pattern (21 bp):
TTTTAAAAAAAGTATCGATTA
Found at i:33145349 original size:40 final size:37
Alignment explanation
Indices: 33145292--33145575 Score: 237
Period size: 40 Copynumber: 7.1 Consensus size: 37
33145282 TTGAATGATG
* * *
33145292 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGC-GAGT-ACTA-A
33145332 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAG-TACTAA
* * *
33145371 TTCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAAA
1 -TCCGGACTAAGTCCGAAGGCATTTGTGCGAG-TACT-AA
33145411 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAG-TACT-AA
**
33145451 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGCGAG-TACT-AA
**
33145491 TCCGGGTTAAGTCCTGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGACTAAGTCC-GAAGGCATTTGTGCGAG-TACTA-A
* * * **
33145531 ACCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGCGAGTA-CTA-A
33145571 TCCGG
1 TCCGG
33145576 TTAAATTCCG
Statistics
Matches: 215, Mismatches: 18, Indels: 22
0.84 0.07 0.09
Matches are distributed among these distances:
39 39 0.18
40 165 0.77
41 11 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (37 bp):
TCCGGACTAAGTCCGAAGGCATTTGTGCGAGTACTAA
Found at i:33145516 original size:80 final size:80
Alignment explanation
Indices: 33145292--33145556 Score: 376
Period size: 80 Copynumber: 3.3 Consensus size: 80
33145282 TTGAATGATG
* * * *
33145292 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
* *
33145356 TGTGCGAGATACTAAT
65 TGTGCGAGTTACTAAA
*
33145372 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
33145436 GTGCGAGTTACTAAA
66 GTGCGAGTTACTAAA
* **
33145451 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCTGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCC-GAAGGCATT
33145515 TGTGCGAGTTACTATAA
65 TGTGCGAGTTACTA-AA
*
33145532 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33145557 AACGAGTAGC
Statistics
Matches: 168, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
79 67 0.40
80 99 0.59
81 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAA
Found at i:33145563 original size:80 final size:79
Alignment explanation
Indices: 33145293--33145589 Score: 345
Period size: 80 Copynumber: 3.7 Consensus size: 79
33145283 TGAATGATGT
* * * * * **
33145293 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTAC-GAGTTACTAAATCCGGGTTAAGATCCGAAGGCATTT
* *
33145357 GTGCGAGATACTAATT
65 GTGCGAGTTACTAA-A
**
33145373 CCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAGATCCGAAGGCATTTG
33145437 TGCGAGTTACTAAA
66 TGCGAGTTACTAAA
* *
33145451 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCTGAAGGCATT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAGATCC-GAAGGCATT
33145515 TGTGCGAGTTACTATAA
64 TGTGCGAGTTACTA-AA
* * *
33145532 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTA-CTAAATCCGGGTTAAGA-TCCGAAGG
33145590 TACGTGATTT
Statistics
Matches: 193, Mismatches: 16, Indels: 17
0.85 0.07 0.08
Matches are distributed among these distances:
79 79 0.41
80 112 0.58
81 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAGATCCGAAGGCATTTG
TGCGAGTTACTAAA
Found at i:33145563 original size:120 final size:118
Alignment explanation
Indices: 33145345--33145589 Score: 316
Period size: 120 Copynumber: 2.1 Consensus size: 118
33145335 GGACTAAGAT
*
33145345 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAA
** *
33145410 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGTC
66 ATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCTAAATCC-GGTTAAATC
* * * *
33145464 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCTGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTA
* * * *
33145529 TAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATT
65 -AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATC
33145583 CCGAAGG
1 CCGAAGG
33145590 TACGTGATTT
Statistics
Matches: 110, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
119 52 0.47
120 56 0.51
121 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (118 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAA
ATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATC
Found at i:33153606 original size:80 final size:79
Alignment explanation
Indices: 33153336--33153630 Score: 332
Period size: 80 Copynumber: 3.7 Consensus size: 79
33153326 TGAATGATGT
* * * * * **
33153336 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTAC-GAGTTACTAAATCCGGGTTAAGATCCGAAGGCATTT
* *
33153400 GTGCGAGATACTAATT
65 GTGCGAGTTACTAA-A
* **
33153416 CCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTAAACCCGGACTAAGATCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAGATCCGAAGGCATTTG
33153480 TGCGAGTTACTAAA
66 TGCGAGTTACTAAA
* *
33153494 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAGAT-CCGAAGGCATT
33153558 TGTGCGAGTTACTATAA
64 TGTGCGAGTTACTA-AA
* * *
33153575 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATAT-CGGGTTAA-ATTCCGAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTA-CTAAATCCGGGTTAAGA-TCCGAA
33153631 TGTACGTGAT
Statistics
Matches: 189, Mismatches: 18, Indels: 17
0.84 0.08 0.08
Matches are distributed among these distances:
79 78 0.41
80 109 0.58
81 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAGATCCGAAGGCATTTG
TGCGAGTTACTAAA
Found at i:33153613 original size:40 final size:40
Alignment explanation
Indices: 33153335--33153599 Score: 342
Period size: 40 Copynumber: 6.7 Consensus size: 40
33153325 TTGAATGATG
* * * *
33153335 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
33153375 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
33153415 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
33153454 CCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
33153494 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
33153534 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
33153575 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33153600 AACGAGTAGC
Statistics
Matches: 199, Mismatches: 19, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
39 34 0.17
40 155 0.78
41 10 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:33164719 original size:49 final size:50
Alignment explanation
Indices: 33164647--33164755 Score: 139
Period size: 50 Copynumber: 2.2 Consensus size: 50
33164637 TACGGAGGAA
* * * *
33164647 GTATCTAGCAGTATATTTGCAATT-TCTGATGGCTTGACCATAATATTTT
1 GTATCTGGCAGTATATTTACAATTATCTGATGGCTCGACCACAATATTTT
* * *
33164696 GTATCTGGTAGTATATTTACAATTATTTGGTGGCTCGACCACAATATTTT
1 GTATCTGGCAGTATATTTACAATTATCTGATGGCTCGACCACAATATTTT
*
33164746 GTTTCTGGCA
1 GTATCTGGCA
33164756 TCTCAACTGC
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
49 21 0.42
50 29 0.58
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.42
Consensus pattern (50 bp):
GTATCTGGCAGTATATTTACAATTATCTGATGGCTCGACCACAATATTTT
Found at i:33165201 original size:24 final size:24
Alignment explanation
Indices: 33165173--33165225 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
33165163 TGTGTTTTTA
*
33165173 TTTCTATAGACTTTGGCTTGGGAC
1 TTTCTATAGACTTTGGCTTGCGAC
* *
33165197 TTTCTTTTGACTTTGGCTTGCGAC
1 TTTCTATAGACTTTGGCTTGCGAC
33165221 TTTCT
1 TTTCT
33165226 TTTGGACTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.11, C:0.19, G:0.21, T:0.49
Consensus pattern (24 bp):
TTTCTATAGACTTTGGCTTGCGAC
Found at i:33165226 original size:24 final size:25
Alignment explanation
Indices: 33165181--33165235 Score: 94
Period size: 24 Copynumber: 2.2 Consensus size: 25
33165171 TATTTCTATA
*
33165181 GACTTTGGCTTGGGACTTTCTTTT-
1 GACTTTGGCTTGCGACTTTCTTTTG
33165205 GACTTTGGCTTGCGACTTTCTTTTG
1 GACTTTGGCTTGCGACTTTCTTTTG
33165230 GACTTT
1 GACTTT
33165236 AGATTTTGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 23 0.79
25 6 0.21
ACGTcount: A:0.09, C:0.18, G:0.24, T:0.49
Consensus pattern (25 bp):
GACTTTGGCTTGCGACTTTCTTTTG
Found at i:33166890 original size:23 final size:23
Alignment explanation
Indices: 33166859--33166911 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
33166849 TTACAAGCAG
* *
33166859 TAAATTTATATGA-ATTTATATTA
1 TAAAATTATATGATATTT-TAGTA
*
33166882 TAAAATTATTTGATATTTTAGTA
1 TAAAATTATATGATATTTTAGTA
33166905 -AAAATTA
1 TAAAATTA
33166912 AGCATTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 7 0.27
23 15 0.58
24 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (23 bp):
TAAAATTATATGATATTTTAGTA
Found at i:33167652 original size:19 final size:20
Alignment explanation
Indices: 33167618--33167672 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
33167608 AAAAACCAAA
33167618 AATAAAAATCAA-TAAAAGTT
1 AATAAAAAT-AATTAAAAGTT
**
33167638 -ATAAAAATAATTAAATTTT
1 AATAAAAATAATTAAAAGTT
33167657 AATAAAAAT-ATTAAAA
1 AATAAAAATAATTAAAA
33167673 TATTAAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 2 0.07
19 20 0.67
20 8 0.27
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (20 bp):
AATAAAAATAATTAAAAGTT
Found at i:33167672 original size:8 final size:8
Alignment explanation
Indices: 33167661--33167685 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
33167651 AATTTTAATA
33167661 AAAATATT
1 AAAATATT
33167669 AAAATATT
1 AAAATATT
33167677 AAAATATT
1 AAAATATT
33167685 A
1 A
33167686 TTAATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
AAAATATT
Found at i:33167726 original size:20 final size:20
Alignment explanation
Indices: 33167703--33167778 Score: 79
Period size: 20 Copynumber: 4.0 Consensus size: 20
33167693 TTTATGATTT
33167703 ATATTTATTTATAATTTTTA
1 ATATTTATTTATAATTTTTA
*
33167723 ATATATATTTA-AA--TTTA
1 ATATTTATTTATAATTTTTA
*
33167740 ATAATT-TTTATAATTTTTA
1 ATATTTATTTATAATTTTTA
* *
33167759 TTGATTTTTTTATAATTTTT
1 AT-ATTTATTTATAATTTTT
33167779 TTGCCTCATA
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
16 4 0.09
17 10 0.22
19 7 0.15
20 13 0.28
21 12 0.26
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (20 bp):
ATATTTATTTATAATTTTTA
Found at i:33167754 original size:9 final size:9
Alignment explanation
Indices: 33167700--33167778 Score: 54
Period size: 9 Copynumber: 8.3 Consensus size: 9
33167690 TTTTTTATGA
*
33167700 TTTATATTT
1 TTTATAATT
33167709 ATTTATAATT
1 -TTTATAATT
*
33167719 TTTAATATATA
1 TTT-ATA-ATT
33167730 TTTA-AA-T
1 TTTATAATT
*
33167737 TTAATAATT
1 TTTATAATT
33167746 TTTATAATT
1 TTTATAATT
*
33167755 TTTATTGATTTT
1 TTTA-T-A-ATT
33167767 TTTATAATT
1 TTTATAATT
33167776 TTT
1 TTT
33167779 TTGCCTCATA
Statistics
Matches: 55, Mismatches: 7, Indels: 15
0.71 0.09 0.19
Matches are distributed among these distances:
7 3 0.05
8 3 0.05
9 22 0.40
10 14 0.25
11 7 0.13
12 6 0.11
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (9 bp):
TTTATAATT
Found at i:33170343 original size:108 final size:107
Alignment explanation
Indices: 33170175--33170381 Score: 292
Period size: 108 Copynumber: 1.9 Consensus size: 107
33170165 ATTTTGACTT
* *
33170175 TAAGAATTAAAAAATTAGTGATGAAAAAAGATATATAACAATTTTTATAGTTTACTAAAAAAACT
1 TAAGAATTAAAAAATTAATGATGAAAAAAGATATATAACAACTTTTATAGTTTACTAAAAAAACT
* *
33170240 AAACAACAGTTGAAATTTTTCTTTGGGGGTTAAAACCTAATTG
66 AAACAACAGTTGAAAGTTTTC-TGGGGGGTTAAAACCTAATTG
* * * * *
33170283 TAAGAATTAAAACATTAATGACT-AAAACAGATATATGACTACTTTT-TAGTTTATTAAAAAAAA
1 TAAGAATTAAAAAATTAATGA-TGAAAAAAGATATATAACAACTTTTATAGTTTACT-AAAAAAA
33170346 CTAAACAACAGTTGAAAGTTTTCTGGGGGGTTAAAA
64 CTAAACAACAGTTGAAAGTTTTCTGGGGGGTTAAAA
33170382 AGCAAAATTT
Statistics
Matches: 88, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
107 20 0.23
108 67 0.76
109 1 0.01
ACGTcount: A:0.46, C:0.08, G:0.14, T:0.32
Consensus pattern (107 bp):
TAAGAATTAAAAAATTAATGATGAAAAAAGATATATAACAACTTTTATAGTTTACTAAAAAAACT
AAACAACAGTTGAAAGTTTTCTGGGGGGTTAAAACCTAATTG
Found at i:33174757 original size:203 final size:203
Alignment explanation
Indices: 33174408--33174802 Score: 700
Period size: 203 Copynumber: 1.9 Consensus size: 203
33174398 CAAGGTACAT
*
33174408 GGCCCTATTAACTGATCTATAAGGGAGAAACACTTAGTGGATTGAGGCTTCTCAACTAGCTGAAT
1 GGCCCTATTAACTGATCTATAAGGGAGAAACACTTAGTGGATTGAGGCTTCACAACTAGCTGAAT
*
33174473 GGTGCTTGGTTTAATGCTTTGCAGCACACAAGGATGGAAATCAAGAGTGAACTGCATGGTCAATG
66 GGTGCTTGGTTCAATGCTTTGCAGCACACAAGGATGGAAATCAAGAGTGAACTGCATGGTCAATG
33174538 AGCTGAAACTCCACACAATGGTTCCCAAAGAAAGGCGCCATTGAACACCTAGAACCAGATCAACC
131 AGCTGAAACTCCACACAATGGTTCCCAAAGAAAGGCGCCATTGAACACCTAGAACCAGATCAACC
33174603 AACAACAA
196 AACAACAA
** * *
33174611 GGCCCTATTAACTGATCTATAAGGGAGATGCATTTAGTGGATTGAGGCTTCACAACTAGTTGAAT
1 GGCCCTATTAACTGATCTATAAGGGAGAAACACTTAGTGGATTGAGGCTTCACAACTAGCTGAAT
* * *
33174676 GGTTCTTGGTTCAATGCTTTGTAGCACACAATGATGGAAATCAAGAGTGAACTGCATGGTCAATG
66 GGTGCTTGGTTCAATGCTTTGCAGCACACAAGGATGGAAATCAAGAGTGAACTGCATGGTCAATG
*
33174741 AGCTGAAACTCCACACAATGGTTCCCAAAGAAAGGCGCCATTGAACACCTAGAACTAGATCA
131 AGCTGAAACTCCACACAATGGTTCCCAAAGAAAGGCGCCATTGAACACCTAGAACCAGATCA
33174803 CACTCGTATA
Statistics
Matches: 182, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
203 182 1.00
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.24
Consensus pattern (203 bp):
GGCCCTATTAACTGATCTATAAGGGAGAAACACTTAGTGGATTGAGGCTTCACAACTAGCTGAAT
GGTGCTTGGTTCAATGCTTTGCAGCACACAAGGATGGAAATCAAGAGTGAACTGCATGGTCAATG
AGCTGAAACTCCACACAATGGTTCCCAAAGAAAGGCGCCATTGAACACCTAGAACCAGATCAACC
AACAACAA
Found at i:33176666 original size:17 final size:17
Alignment explanation
Indices: 33176640--33176673 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
33176630 ATACTTCCTA
33176640 AAAAAATGTGTTTTATT
1 AAAAAATGTGTTTTATT
*
33176657 AAAAATTGTGTTTTATT
1 AAAAAATGTGTTTTATT
33176674 TTCAAAAGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (17 bp):
AAAAAATGTGTTTTATT
Found at i:33189900 original size:39 final size:41
Alignment explanation
Indices: 33189800--33189909 Score: 131
Period size: 39 Copynumber: 2.8 Consensus size: 41
33189790 TTGAATGATG
* *
33189800 TCCGGGCTAAGTCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGAGTGACAATA
*
33189839 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGA-T-ACTAAT-
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGAGTGAC-AATA
*
33189879 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAG
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAG
33189910 NNNNNNNNNN
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
39 29 0.47
40 21 0.34
41 11 0.18
42 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.24
Consensus pattern (41 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGAGTGACAATA
Found at i:33203928 original size:15 final size:15
Alignment explanation
Indices: 33203908--33203946 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
33203898 CTCACTCTCA
33203908 TTTTCTTTTAGTTCT
1 TTTTCTTTTAGTTCT
*
33203923 TTTTCTTTTATTTCT
1 TTTTCTTTTAGTTCT
33203938 TTTTCTTTT
1 TTTTCTTTT
33203947 TCTCTCATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.05, C:0.13, G:0.03, T:0.79
Consensus pattern (15 bp):
TTTTCTTTTAGTTCT
Found at i:33203945 original size:21 final size:21
Alignment explanation
Indices: 33203919--33203971 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
33203909 TTTCTTTTAG
* *
33203919 TTCTTTTTCTTTTATTTCTTT
1 TTCTTTTTCTCTCATTTCTTT
33203940 TTCTTTTTCTCTCATTTCTTT
1 TTCTTTTTCTCTCATTTCTTT
*
33203961 TT-TTCTTCTCT
1 TTCTTTTTCTCT
33203972 TAATTTCATT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 8 0.28
21 21 0.72
ACGTcount: A:0.04, C:0.21, G:0.00, T:0.75
Consensus pattern (21 bp):
TTCTTTTTCTCTCATTTCTTT
Found at i:33203977 original size:21 final size:21
Alignment explanation
Indices: 33203932--33203978 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
33203922 TTTTTCTTTT
* *
33203932 ATTTCTTTTTCTTTTTCTCTC
1 ATTTCTTTTTCTTCTTCTCTA
33203953 ATTTCTTTTT-TTCTTCTCTTA
1 ATTTCTTTTTCTTCTTCTC-TA
33203974 ATTTC
1 ATTTC
33203979 ATTCAAGATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.09, C:0.21, G:0.00, T:0.70
Consensus pattern (21 bp):
ATTTCTTTTTCTTCTTCTCTA
Found at i:33204828 original size:29 final size:31
Alignment explanation
Indices: 33204776--33204848 Score: 105
Period size: 29 Copynumber: 2.4 Consensus size: 31
33204766 CAATCACTCT
* *
33204776 TTTTTTTTTCAATTTTGAATTTTTTTTCTTC
1 TTTTTTTTTCAAATCTGAATTTTTTTTCTTC
33204807 TTTTTTTTT-AAATCTGAA-TTTTTTTCTTC
1 TTTTTTTTTCAAATCTGAATTTTTTTTCTTC
33204836 TTTTTTTCTTCAA
1 TTTTTTT-TTCAA
33204849 TACTAAATAC
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
29 18 0.47
30 9 0.24
31 11 0.29
ACGTcount: A:0.15, C:0.11, G:0.03, T:0.71
Consensus pattern (31 bp):
TTTTTTTTTCAAATCTGAATTTTTTTTCTTC
Found at i:33204904 original size:11 final size:11
Alignment explanation
Indices: 33204888--33204916 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
33204878 AATACAAACT
33204888 TTTTTTTTGAA
1 TTTTTTTTGAA
33204899 TTTTTTTTGAA
1 TTTTTTTTGAA
33204910 TTTTTTT
1 TTTTTTT
33204917 CAAGTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:33204924 original size:11 final size:10
Alignment explanation
Indices: 33204889--33204935 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 10
33204879 ATACAAACTT
33204889 TTTTTTTGAA
1 TTTTTTTGAA
33204899 TTTTTTTTGAA
1 -TTTTTTTGAA
*
33204910 TTTTTTTCAA
1 TTTTTTTGAA
33204920 GTTTTTTT--A
1 -TTTTTTTGAA
33204929 TTTTTTT
1 TTTTTTT
33204936 ACAATACCGT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
8 7 0.21
9 1 0.03
10 9 0.26
11 17 0.50
ACGTcount: A:0.15, C:0.02, G:0.06, T:0.77
Consensus pattern (10 bp):
TTTTTTTGAA
Found at i:33209952 original size:10 final size:10
Alignment explanation
Indices: 33209926--33209976 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
33209916 TTTAACTTAG
33209926 TTCAGCTC-A
1 TTCAGCTCAA
*
33209935 CTCGAGCTCAA
1 TTC-AGCTCAA
*
33209946 GTCAGCTC-A
1 TTCAGCTCAA
33209955 TTCAAGCTCAA
1 TTC-AGCTCAA
33209966 TTCAGCTCAA
1 TTCAGCTCAA
33209976 T
1 T
33209977 ATTAACCCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
9 5 0.14
10 23 0.66
11 7 0.20
ACGTcount: A:0.27, C:0.31, G:0.14, T:0.27
Consensus pattern (10 bp):
TTCAGCTCAA
Found at i:33209952 original size:20 final size:20
Alignment explanation
Indices: 33209927--33209974 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
33209917 TTAACTTAGT
*
33209927 TCAGCTCACTCGAGCTCAAG
1 TCAGCTCACTCAAGCTCAAG
* *
33209947 TCAGCTCATTCAAGCTCAAT
1 TCAGCTCACTCAAGCTCAAG
33209967 TCAGCTCA
1 TCAGCTCA
33209975 ATATTAACCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.25
Consensus pattern (20 bp):
TCAGCTCACTCAAGCTCAAG
Found at i:33210695 original size:22 final size:21
Alignment explanation
Indices: 33210666--33210713 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
33210656 AAGCATAAAC
*
33210666 TGAA-ATTTTAATGATTTAGTG
1 TGAACATTTTAATGAGTT-GTG
* *
33210687 TGAACATTTTTATTAGTTGTG
1 TGAACATTTTAATGAGTTGTG
33210708 TGAACA
1 TGAACA
33210714 CATAGGTTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.31, C:0.04, G:0.19, T:0.46
Consensus pattern (21 bp):
TGAACATTTTAATGAGTTGTG
Found at i:33215670 original size:40 final size:40
Alignment explanation
Indices: 33215518--33215663 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
33215508 TTGAATGATG
* * * *
33215518 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
33215558 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
33215598 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
33215639 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33215664 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 80 0.88
41 10 0.11
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:33215670 original size:80 final size:80
Alignment explanation
Indices: 33215518--33215696 Score: 186
Period size: 80 Copynumber: 2.2 Consensus size: 80
33215508 TTGAATGATG
* * *
33215518 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
33215583 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * * *
33215598 TCCGGGTTAAGTCCCGAAGGCAATTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-ATTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
*
33215661 TTGAACGAGTAGCTATA
64 TTGAACGAGTAGCTAAA
* *
33215678 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
33215697 TACGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 7
0.81 0.13 0.07
Matches are distributed among these distances:
79 17 0.20
80 60 0.72
81 6 0.07
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTAGCTAAA
Found at i:33223484 original size:79 final size:81
Alignment explanation
Indices: 33223348--33223532 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
33223338 TTGAATGATG
* *
33223348 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
33223412 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
33223427 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
33223489 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
33223507 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33223533 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:33223546 original size:40 final size:40
Alignment explanation
Indices: 33223349--33223532 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
33223339 TGAATGATGT
* * * *
33223349 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
33223389 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
33223429 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
33223467 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
33223508 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
33223533 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:33223554 original size:79 final size:79
Alignment explanation
Indices: 33223401--33223565 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
33223391 GGACTAAGAT
* * **
33223401 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
33223466 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
33223480 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
33223543 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
33223559 CCGAAGG
1 CCGAAGG
33223566 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:33228572 original size:11 final size:12
Alignment explanation
Indices: 33228551--33228598 Score: 73
Period size: 11 Copynumber: 4.2 Consensus size: 12
33228541 ATAGTAGTTT
33228551 CTCGAAAAAAAA
1 CTCGAAAAAAAA
33228563 CTCGAAAAAAAA
1 CTCGAAAAAAAA
*
33228575 TTC-AAAAAAAA
1 CTCGAAAAAAAA
33228586 -TCGAAAAAAAA
1 CTCGAAAAAAAA
33228597 CT
1 CT
33228599 AGTTTCCATT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
10 2 0.06
11 16 0.48
12 15 0.45
ACGTcount: A:0.67, C:0.15, G:0.06, T:0.12
Consensus pattern (12 bp):
CTCGAAAAAAAA
Found at i:33228657 original size:15 final size:15
Alignment explanation
Indices: 33228637--33228678 Score: 68
Period size: 14 Copynumber: 2.9 Consensus size: 15
33228627 TATCAAGTTG
*
33228637 TGAAAAAAAAATTTT
1 TGAAAAAAAAATTTC
33228652 TGAAAAAAAAA-TTC
1 TGAAAAAAAAATTTC
33228666 TGAAAAAAAAATT
1 TGAAAAAAAAATT
33228679 GAAAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.26
Consensus pattern (15 bp):
TGAAAAAAAAATTTC
Found at i:33228659 original size:14 final size:13
Alignment explanation
Indices: 33228640--33228687 Score: 53
Period size: 12 Copynumber: 3.6 Consensus size: 13
33228630 CAAGTTGTGA
33228640 AAAAAAAATTTTTG
1 AAAAAAAA-TTTTG
*
33228654 AAAAAAAAATTCTG
1 -AAAAAAAATTTTG
*
33228668 AAAAAAAA-ATTG
1 AAAAAAAATTTTG
33228680 AAAAAAAA
1 AAAAAAAA
33228688 AAGAGAGCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
12 10 0.33
13 8 0.27
14 4 0.13
15 8 0.27
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.21
Consensus pattern (13 bp):
AAAAAAAATTTTG
Found at i:33235304 original size:503 final size:505
Alignment explanation
Indices: 33234356--33235363 Score: 1921
Period size: 503 Copynumber: 2.0 Consensus size: 505
33234346 TTAAGTGGAT
*
33234356 GTTTTTGACCATTCGGTTACCTTGTTTTAGCATTATAAATAGATGTAATCAGCCATAGAGTGAAA
1 GTTTTTGACCATTCGGTTACCTTGTTTTAGCATTATAAATAGATGTAATCAGCCATAGAGAGAAA
33234421 GAACTTTTGGATGAATATAGATGAAATATTTGAATTGTGAGCTATCCAATTCTCTTTGTTCTTAC
66 GAACTTTTGGATGAATATAGATGAAATATTTGAATTGTGAGCTATCCAATTCTCTTTGTTCTTAC
* *
33234486 GGAATTGATTTGACTTATCAAGCTTAGCTTGTGGCGTCTATCCATTTCTTGTTTTTGAACTTATC
131 GGAATTGATTTGACTTATCAAGCTTAGCTTGTGGCATCTATCCATTTCTTGTTTTCGAACTTATC
*
33234551 ACTTTCATAGTGTGGCGTTCATCATATACCAAGGTTCCTGTCATTCTTGATAGTGGGTCGAGGTC
196 ACTTTCATAGTGTGGCGTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAGGTC
33234616 TTTTCTTTGTTGTTTTCCTATACTGTCATTCACCTAAGAGCTACTTTGAGTCTCGGGTCAACAAC
261 TTTTCTTTGTTGTTTTCCTATACTGTCATTCACCTAAGAGCTACTTTGAGTCTCGGGTCAACAAC
*
33234681 CTCTATTGTTGGTTCATTCTCTACCCTTAGCCAAATTTTTCCATTCGTTGTTAAACCCATTTCCC
326 CTCTATTGTTGGTTCATTCTCTACCCTTAGCCAAAATTTTCCATTCGTTGTTAAACCCATTTCCC
33234746 TTTTAAACGTTTGTTTGTAGCCTTTCTTCTATTTTGAAACAAACTTAGCCTTACTCAAATTCACG
391 TTTTAAACGTTTGTTTGTAGCCTTTCTTCTATTTTGAAACAAACTTAGCCTTACTCAAATTCACG
33234811 ATCGAGCAAACACTAACGACTCGAATCAATCACAAAACGAGTT-GTATCA
456 ATCGAGCAAACACTAACGACTCGAATCAATCACAAAACGAGTTCGTATCA
*
33234860 GTTTTTGACCATTCGGTTACCTTGTTTTAGCATTATAAATAGATGTAATCAGCCATAGAGAG-GA
1 GTTTTTGACCATTCGGTTACCTTGTTTTAGCATTATAAATAGATGTAATCAGCCATAGAGAGAAA
33234924 GAACTTTTGGATGAATATAGATGAAATATTTGAATTGTGAGCTATCCAATTCTCTTTGTTCTTAC
66 GAACTTTTGGATGAATATAGATGAAATATTTGAATTGTGAGCTATCCAATTCTCTTTGTTCTTAC
33234989 GGAATTGATTTGACTTATCAAGCTTAGCTTGTGGCATCTATCCATTTCTTGTTTTCGAACTTATC
131 GGAATTGATTTGACTTATCAAGCTTAGCTTGTGGCATCTATCCATTTCTTGTTTTCGAACTTATC
33235054 ACTTTCATAGTGTGGCGTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAGGTC
196 ACTTTCATAGTGTGGCGTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAGGTC
33235119 TTTTCTTTGTTGTTTTCCTATACTGTCATTCACCTAAGAGCTACTTTGAGTCTCGGGTCAACAAC
261 TTTTCTTTGTTGTTTTCCTATACTGTCATTCACCTAAGAGCTACTTTGAGTCTCGGGTCAACAAC
* * *
33235184 CTCTATTGTTGGTTCGTTCTCTGCGCTTAGCCAAAATTTTCCATTCGTTGTTAAACCCATTTCCC
326 CTCTATTGTTGGTTCATTCTCTACCCTTAGCCAAAATTTTCCATTCGTTGTTAAACCCATTTCCC
33235249 TTTTAAACGTTTGTTTGTAGCCTTTCTTCTATTTTGAAACAAACTTAGCCTTACTCAAATTCACG
391 TTTTAAACGTTTGTTTGTAGCCTTTCTTCTATTTTGAAACAAACTTAGCCTTACTCAAATTCACG
33235314 ATCGAGCAAACACTAACGACTCGAATCAATCACAAAACGAGTTCGTATCA
456 ATCGAGCAAACACTAACGACTCGAATCAATCACAAAACGAGTTCGTATCA
33235364 TCATCCTTAT
Statistics
Matches: 494, Mismatches: 9, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
503 427 0.86
504 67 0.14
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.38
Consensus pattern (505 bp):
GTTTTTGACCATTCGGTTACCTTGTTTTAGCATTATAAATAGATGTAATCAGCCATAGAGAGAAA
GAACTTTTGGATGAATATAGATGAAATATTTGAATTGTGAGCTATCCAATTCTCTTTGTTCTTAC
GGAATTGATTTGACTTATCAAGCTTAGCTTGTGGCATCTATCCATTTCTTGTTTTCGAACTTATC
ACTTTCATAGTGTGGCGTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAGGTC
TTTTCTTTGTTGTTTTCCTATACTGTCATTCACCTAAGAGCTACTTTGAGTCTCGGGTCAACAAC
CTCTATTGTTGGTTCATTCTCTACCCTTAGCCAAAATTTTCCATTCGTTGTTAAACCCATTTCCC
TTTTAAACGTTTGTTTGTAGCCTTTCTTCTATTTTGAAACAAACTTAGCCTTACTCAAATTCACG
ATCGAGCAAACACTAACGACTCGAATCAATCACAAAACGAGTTCGTATCA
Found at i:33245581 original size:22 final size:22
Alignment explanation
Indices: 33245555--33245606 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
33245545 AAATCCCTAA
*
33245555 TTTTCTATTTAAAATCTGATT-G
1 TTTTCT-TTTAAAATCTAATTCG
* *
33245577 TTTTCTTTTGAATTCTAATTCG
1 TTTTCTTTTAAAATCTAATTCG
33245599 TTTTCTTT
1 TTTTCTTT
33245607 CGTGATTGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.19, C:0.12, G:0.08, T:0.62
Consensus pattern (22 bp):
TTTTCTTTTAAAATCTAATTCG
Found at i:33246182 original size:21 final size:22
Alignment explanation
Indices: 33246142--33246188 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
33246132 TTTGGTGCCC
*
33246142 AAACTTTCCAGATCAAAAA-TT
1 AAACTTTACAGATCAAAAATTT
**
33246163 AAACTTTACAGATCTGAAATTT
1 AAACTTTACAGATCAAAAATTT
33246185 AAAC
1 AAAC
33246189 CCTAAAAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.47, C:0.17, G:0.06, T:0.30
Consensus pattern (22 bp):
AAACTTTACAGATCAAAAATTT
Found at i:33251299 original size:40 final size:39
Alignment explanation
Indices: 33251215--33251399 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
33251205 TTGAATGATG
* * * *
33251215 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
33251255 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
33251295 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
33251334 TCCGGGTTAAGTCCCAAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
33251375 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
33251400 AATGAGTAGC
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 35 0.29
40 77 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:33251354 original size:79 final size:81
Alignment explanation
Indices: 33251215--33251399 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
33251205 TTGAATGATG
* * *
33251215 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCAAAGGCAAT
33251279 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
33251294 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCAAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCAAAGGCA
*
33251356 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
33251374 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33251400 AATGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 33 0.37
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCAAAGGCAAT
TGTGCGAGATACTATA
Found at i:33251421 original size:79 final size:79
Alignment explanation
Indices: 33251271--33251422 Score: 184
Period size: 79 Copynumber: 1.9 Consensus size: 79
33251261 CTAAGATCCG
* * **
33251271 AAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATC
1 AAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATC
33251336 CGGGTTAAGTCCCA
66 CGGGTTAAGTCCCA
* * * *
33251350 AAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAATGAG-TAGCTAT
1 AAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAA
33251413 ATCC-GGTTAA
63 ATCCGGGTTAA
33251423 ATTCCGAAGG
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
78 2 0.03
79 36 0.58
80 24 0.39
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (79 bp):
AAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATC
CGGGTTAAGTCCCA
Found at i:33256214 original size:20 final size:20
Alignment explanation
Indices: 33256189--33256243 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
33256179 TGTGGTTCAA
* *
33256189 CTCATTCGAGCTTAAGTTAG
1 CTCATTCGAGCTCAAGTCAG
*
33256209 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTCAG
*
33256229 CTCATTCAAGCTCAA
1 CTCATTCGAGCTCAA
33256244 TTTAACTCGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.31
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTCAG
Found at i:33256335 original size:13 final size:13
Alignment explanation
Indices: 33256314--33256348 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
33256304 ATAAGTTGCT
* *
33256314 GTTAGTTAAATTA
1 GTTAATTAAATAA
33256327 GTTAATTAAATAA
1 GTTAATTAAATAA
33256340 GTTAATTAA
1 GTTAATTAA
33256349 TTTGTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (13 bp):
GTTAATTAAATAA
Found at i:33256599 original size:23 final size:23
Alignment explanation
Indices: 33256569--33256632 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
33256559 ATTTTCCAGA
33256569 CGAATTTAATGTATGTCTT-TGGC
1 CGAATTTAATGTATGT-TTCTGGC
*
33256592 CGAATTTAAAGTATGTTTCTGGC
1 CGAATTTAATGTATGTTTCTGGC
*
33256615 CGAATTTAATGCATGTTT
1 CGAATTTAATGTATGTTT
33256633 TAAATGGTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
22 2 0.05
23 35 0.95
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.42
Consensus pattern (23 bp):
CGAATTTAATGTATGTTTCTGGC
Found at i:33264623 original size:11 final size:12
Alignment explanation
Indices: 33264595--33264641 Score: 78
Period size: 13 Copynumber: 3.9 Consensus size: 12
33264585 CGTTTCTTCA
33264595 AAAAAAAAATTC
1 AAAAAAAAATTC
33264607 GAAAAAAAAATTC
1 -AAAAAAAAATTC
33264620 AAAAAAAAATT-
1 AAAAAAAAATTC
33264631 AAAAAAAAATT
1 AAAAAAAAATT
33264642 TGGTTTCCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 11 0.32
12 11 0.32
13 12 0.35
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (12 bp):
AAAAAAAAATTC
Found at i:33273434 original size:11 final size:10
Alignment explanation
Indices: 33273409--33273469 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
33273399 ACCAATAAAA
33273409 TAAA-TGAGC
1 TAAATTGAGC
*
33273418 TGAATTGTAGC
1 TAAATTG-AGC
33273429 TAAATTGAGC
1 TAAATTGAGC
**
33273439 TCGATTGAGC
1 TAAATTGAGC
33273449 TGAAA-TGAGC
1 T-AAATTGAGC
*
33273459 TCAATTGAGC
1 TAAATTGAGC
33273469 T
1 T
33273470 GGTCGGAGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
9 5 0.12
10 26 0.63
11 10 0.24
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:33273470 original size:20 final size:20
Alignment explanation
Indices: 33273410--33273470 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
33273400 CCAATAAAAT
*
33273410 AAATGAGCTGAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
33273430 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
33273451 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
33273471 GTCGGAGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:33275563 original size:18 final size:18
Alignment explanation
Indices: 33275542--33275576 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
33275532 TTTTTCTTTT
33275542 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
33275560 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
33275577 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:33276505 original size:30 final size:29
Alignment explanation
Indices: 33276471--33276534 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 29
33276461 TTTAACTTGA
**
33276471 TTTTTTTGCTC-ACTTTTTTTTTCTTTCTTT
1 TTTTTTTGCTCGA-TTTTTTTCACTTT-TTT
33276501 TTTTTTTGCTCGATTTTTTTCACTTTTTT
1 TTTTTTTGCTCGATTTTTTTCACTTTTTT
33276530 TTTTT
1 TTTTT
33276535 GAATTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 8 0.26
30 22 0.71
31 1 0.03
ACGTcount: A:0.05, C:0.14, G:0.05, T:0.77
Consensus pattern (29 bp):
TTTTTTTGCTCGATTTTTTTCACTTTTTT
Found at i:33276541 original size:12 final size:12
Alignment explanation
Indices: 33276526--33276553 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
33276516 TTTTTCACTT
33276526 TTTTTTTTTGAA
1 TTTTTTTTTGAA
33276538 TTTTTTTTTGAA
1 TTTTTTTTTGAA
33276550 TTTT
1 TTTT
33276554 GATTTTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (12 bp):
TTTTTTTTTGAA
Found at i:33277930 original size:11 final size:10
Alignment explanation
Indices: 33277905--33277965 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
33277895 ACCAATAAAA
33277905 TAAA-TGAGC
1 TAAATTGAGC
*
33277914 TGAATTGTAGC
1 TAAATTG-AGC
33277925 TAAATTGAGC
1 TAAATTGAGC
**
33277935 TCGATTGAGC
1 TAAATTGAGC
33277945 TGAAA-TGAGC
1 T-AAATTGAGC
*
33277955 TCAATTGAGC
1 TAAATTGAGC
33277965 T
1 T
33277966 GGTCGGAGTT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
9 5 0.12
10 26 0.63
11 10 0.24
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.30
Consensus pattern (10 bp):
TAAATTGAGC
Found at i:33277966 original size:20 final size:20
Alignment explanation
Indices: 33277906--33277966 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
33277896 CCAATAAAAT
*
33277906 AAATGAGCTGAATTGTAGCT-
1 AAATGAGCTCAATTG-AGCTG
*
33277926 AAATTGAGCTCGATTGAGCTG
1 AAA-TGAGCTCAATTGAGCTG
33277947 AAATGAGCTCAATTGAGCTG
1 AAATGAGCTCAATTGAGCTG
33277967 GTCGGAGTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (20 bp):
AAATGAGCTCAATTGAGCTG
Found at i:33285569 original size:40 final size:39
Alignment explanation
Indices: 33285525--33285669 Score: 166
Period size: 40 Copynumber: 3.6 Consensus size: 39
33285515 AGTGACCATA
33285525 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAT
* * * * * *
33285565 TCCGGGCTAAGCCCGAAGGCATTGGTTCAAGTTACTAAA
1 TCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTACTAAT
**
33285604 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAT
*
33285643 AACCGGACTAAGATCCGAAGGCATTTG
1 -TCCGGACTAAG-TCCGAAGGCATTTG
33285670 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
39 34 0.39
40 52 0.60
41 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (39 bp):
TCCGGACTAAGTCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:33285691 original size:79 final size:79
Alignment explanation
Indices: 33285538--33285702 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
33285528 GGACTAAGAT
* * **
33285538 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTTCAAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGACTAAGCCCGAAGGCATTGGAACAAGTTACTAA
*
33285603 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
33285617 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGACTAAG-CCCGAAGGCATTGGAACAAGTTA-C
* *
33285680 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
33285696 CCGAAGG
1 CCGAAGG
33285703 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.67
80 22 0.30
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGACTAAGCCCGAAGGCATTGGAACAAGTTACTAA
ATCCGGGTTAAATC
Found at i:33293912 original size:119 final size:120
Alignment explanation
Indices: 33293718--33293940 Score: 335
Period size: 119 Copynumber: 1.9 Consensus size: 120
33293708 TTGAATGATG
*
33293718 TCCGGGCTAAGTCCCGAAGGCTTTATGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTATGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
*
33293783 GTGCGAGTTACTA-ATTCCGGGCTAAG-CCCGAAGGCATTGGTTCAAGTTACTAAA
66 GTGCGAGTTACTATA-ACCGGGCTAAGTCCCGAAGGCATTGGTTCAAGTTACTAAA
* * * * *
33293837 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGC-TTTATGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATT
*
33293901 TGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATT
65 TGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATT
33293941 TGAACGAGTA
Statistics
Matches: 93, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
119 74 0.80
120 19 0.20
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTATGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTGGTTCAAGTTACTAAA
Found at i:33293956 original size:40 final size:40
Alignment explanation
Indices: 33293719--33293942 Score: 244
Period size: 40 Copynumber: 5.6 Consensus size: 40
33293709 TGAATGATGT
* * * * *
33293719 CCGGGCTAAGTCCCGAAGGC-TTTATGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
33293759 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
* * *
33293799 CCGGGCTAAG-CCCGAAGGCATTGGTTCAAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
33293837 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
33293878 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
*
33293918 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
33293943 AACGAGTAGC
Statistics
Matches: 157, Mismatches: 18, Indels: 18
0.81 0.09 0.09
Matches are distributed among these distances:
39 34 0.22
40 113 0.72
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:33293964 original size:119 final size:119
Alignment explanation
Indices: 33293718--33293975 Score: 317
Period size: 119 Copynumber: 2.2 Consensus size: 119
33293708 TTGAATGATG
* *
33293718 TCCGGGCTAAGTCCCGAAGGCTTTATGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTATGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
* **
33293783 GTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTTCAAGTTACTAAA
66 GTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACAAGTTACTAAA
* * * *
33293837 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGC-TTTATGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATT
* * * *
33293901 TGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
65 TGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACAAGTTA-CTAAA
* *
33293957 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
33293976 TACGTGATTT
Statistics
Matches: 120, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
118 2 0.02
119 89 0.74
120 29 0.24
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTATGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACAAGTTACTAAA
Found at i:33301150 original size:15 final size:14
Alignment explanation
Indices: 33301130--33301158 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
33301120 CGTAGCTTCG
33301130 AAAAAAAAAATTGC
1 AAAAAAAAAATTGC
33301144 AAAAAAAAAATTGC
1 AAAAAAAAAATTGC
33301158 A
1 A
33301159 TACGGTCTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.14
Consensus pattern (14 bp):
AAAAAAAAAATTGC
Found at i:33303442 original size:24 final size:25
Alignment explanation
Indices: 33303415--33303468 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 25
33303405 ATGAGTGATA
*
33303415 AAAAAAGAGA-GAGTGATTCAAAA-G
1 AAAAAAGAAACGAGTGA-TCAAAATG
*
33303439 -AAAAAGAAACGAGTGATGAAAATG
1 AAAAAAGAAACGAGTGATCAAAATG
33303463 AAAAAA
1 AAAAAA
33303469 AGAATTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 13 0.52
24 7 0.28
25 5 0.20
ACGTcount: A:0.63, C:0.04, G:0.22, T:0.11
Consensus pattern (25 bp):
AAAAAAGAAACGAGTGATCAAAATG
Found at i:33307855 original size:23 final size:22
Alignment explanation
Indices: 33307803--33307855 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
33307793 TCCACGTCTT
*
33307803 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
33307825 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
33307848 TTTCTTTT
1 TTTCTTTT
33307856 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:33315019 original size:47 final size:47
Alignment explanation
Indices: 33314964--33315645 Score: 1143
Period size: 47 Copynumber: 14.6 Consensus size: 47
33314954 TAATTGAATA
* *
33314964 AATGTGATGAAAGTGAACATGTATATGTGTGATAGGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
*
33315011 AATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
*
33315058 AATGTGATGAAAGTGAACATGTGTATGTGTGATAGGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
*
33315105 AATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
*
33315152 AATGTGATGAAAGTGAACATGTATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
*
33315199 AATGTGATGAAAGTGAACATGTGTATGTGTGATAGGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
*
33315246 AATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
*
33315293 AATGTGATGAAAGTGAACATGTGTATGTGTGATAGGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
*
33315340 AATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
* *
33315387 AATGTGATGAAAGTGAACATGTATATGTGTGATAGGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
33315434 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
*
33315481 AATGTGATGAAAGTGAACATGTATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
* *
33315528 AATGTGATGAAAGTGAACAGGTGTATGTGTGATAAGGCCGAGTGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
* * * * *
33315575 AATGTGATGAATGTGAGCATGTGTATGTGAGGTAAGGCCTAATGGCC
1 AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
* * *
33315622 GATGTAATGAATGTGAA-A-GTGTAT
1 AATGTGATGAAAGTGAACATGTGTAT
33315646 AAATGTGATA
Statistics
Matches: 599, Mismatches: 36, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
45 6 0.01
46 1 0.00
47 592 0.99
ACGTcount: A:0.31, C:0.10, G:0.32, T:0.26
Consensus pattern (47 bp):
AATGTGATGAAAGTGAACATGTGTATGTGTGATAAGGCCGAATGGCC
Found at i:33315833 original size:37 final size:37
Alignment explanation
Indices: 33315776--33315855 Score: 106
Period size: 37 Copynumber: 2.2 Consensus size: 37
33315766 CCGGGCTCTA
* * *
33315776 AAGACCCGATGACTACGTGTGGAAATTTTGTCCGGGT
1 AAGACTCGATAACTACGTGTGGAAATTATGTCCGGGT
* * *
33315813 ACGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTACGTGTGGAAATTATGTCCGGGT
33315850 AAGACT
1 AAGACT
33315856 TCGTAATAAG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.28
Consensus pattern (37 bp):
AAGACTCGATAACTACGTGTGGAAATTATGTCCGGGT
Found at i:33321298 original size:24 final size:24
Alignment explanation
Indices: 33321274--33321320 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
33321264 AAACTACTTC
*
33321274 TAAAGAAAACTCAAGAGAGAATTCT
1 TAAACAAAACTCAA-AGAGAATTCT
**
33321299 TGGACAAAACTCAAAGAGAATT
1 TAAACAAAACTCAAAGAGAATT
33321321 TCTACTTAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 8 0.42
25 11 0.58
ACGTcount: A:0.51, C:0.13, G:0.17, T:0.19
Consensus pattern (24 bp):
TAAACAAAACTCAAAGAGAATTCT
Found at i:33325819 original size:290 final size:290
Alignment explanation
Indices: 33325299--33325885 Score: 1156
Period size: 290 Copynumber: 2.0 Consensus size: 290
33325289 ATTACTCGAC
33325299 TTATGACAAAGAACTATTGGCATTAGTTCGTGCACTTCAAGTATGGCAACATTATTTGCTGCCTA
1 TTATGACAAAGAACTATTGGCATTAGTTCGTGCACTTCAAGTATGGCAACATTATTTGCTGCCTA
33325364 ATGAGTTTGTCATACATACAGATCATGAGTCTCTTAAATGGTTAAAGGGACAAGGTAAGTTGAGT
66 ATGAGTTTGTCATACATACAGATCATGAGTCTCTTAAATGGTTAAAGGGACAAGGTAAGTTGAGT
33325429 AAAAGACATGCCCGATGGGTAGAATTCATTGAAACATTCCCTTATGTGATTCAATATAAAACAGG
131 AAAAGACATGCCCGATGGGTAGAATTCATTGAAACATTCCCTTATGTGATTCAATATAAAACAGG
33325494 TAAAGATAATGTAGTCGCAGATGCGTTGTCTAGACGATATACTTTAATCACTACATTGAATGCTA
196 TAAAGATAATGTAGTCGCAGATGCGTTGTCTAGACGATATACTTTAATCACTACATTGAATGCTA
33325559 AAGTCTTAGGGTTTGAACATATTAAAGAGT
261 AAGTCTTAGGGTTTGAACATATTAAAGAGT
33325589 TTATGACAAAGAACTATTGGCATTAGTTCGTGCACTTCAAGTATGGCAACATTATTTGCTGCCTA
1 TTATGACAAAGAACTATTGGCATTAGTTCGTGCACTTCAAGTATGGCAACATTATTTGCTGCCTA
33325654 ATGAGTTTGTCATACATACAGATCATGAGTCTCTTAAATGGTTAAAGGGACAAGGTAAGTTGAGT
66 ATGAGTTTGTCATACATACAGATCATGAGTCTCTTAAATGGTTAAAGGGACAAGGTAAGTTGAGT
33325719 AAAAGACATGCCCGATGGGTAGAATTCATTGAAACATTCCCTTATGTGATTCAATATAAAACAGG
131 AAAAGACATGCCCGATGGGTAGAATTCATTGAAACATTCCCTTATGTGATTCAATATAAAACAGG
*
33325784 TAAAGATAATGTAGTTGCAGATGCGTTGTCTAGACGATATACTTTAATCACTACATTGAATGCTA
196 TAAAGATAATGTAGTCGCAGATGCGTTGTCTAGACGATATACTTTAATCACTACATTGAATGCTA
33325849 AAGTCTTAGGGTTTGAACATATTAAAGAGT
261 AAGTCTTAGGGTTTGAACATATTAAAGAGT
33325879 TATATGA
1 T-TATGA
33325886 TGATGATACT
Statistics
Matches: 295, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
290 290 0.98
291 5 0.02
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.31
Consensus pattern (290 bp):
TTATGACAAAGAACTATTGGCATTAGTTCGTGCACTTCAAGTATGGCAACATTATTTGCTGCCTA
ATGAGTTTGTCATACATACAGATCATGAGTCTCTTAAATGGTTAAAGGGACAAGGTAAGTTGAGT
AAAAGACATGCCCGATGGGTAGAATTCATTGAAACATTCCCTTATGTGATTCAATATAAAACAGG
TAAAGATAATGTAGTCGCAGATGCGTTGTCTAGACGATATACTTTAATCACTACATTGAATGCTA
AAGTCTTAGGGTTTGAACATATTAAAGAGT
Found at i:33332324 original size:20 final size:20
Alignment explanation
Indices: 33332301--33332338 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33332291 TTGAGTTGAA
33332301 TTGAGCTCGAA-TGAGCTGAC
1 TTGAGCTC-AAGTGAGCTGAC
33332321 TTGAGCTCAAGTGAGCTG
1 TTGAGCTCAAGTGAGCTG
33332339 GAAACGAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (20 bp):
TTGAGCTCAAGTGAGCTGAC
Found at i:33336468 original size:45 final size:45
Alignment explanation
Indices: 33336404--33336591 Score: 295
Period size: 45 Copynumber: 4.2 Consensus size: 45
33336394 CATGAAATTA
* *
33336404 AGGAAGCATTTGACCAACATCATGCATAATTCGTGGGAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
*
33336449 AGGAAGCATTTGACCAACATCATGCATAATTCCTGGAAGAATTTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
* *
33336494 AGGAAGCATTTGACCAACATCATTCATAATTCATGGAAGAATTTA
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
* * * *
33336539 AGGAAGCATTTGGCCAACATCATGCATAATTTATGGAACAAATTG
1 AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
33336584 AGGAAGCA
1 AGGAAGCA
33336592 CCATGGCCGA
Statistics
Matches: 132, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 132 1.00
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (45 bp):
AGGAAGCATTTGACCAACATCATGCATAATTCATGGAAGAATTTG
Found at i:33345178 original size:10 final size:10
Alignment explanation
Indices: 33345163--33345224 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
33345153 TTTGAACCAT
*
33345163 TACCAATTCG
1 TACCAATTCA
*
33345173 TACCAAATACCA
1 TACC-AAT-TCA
*
33345185 TACCATTTCA
1 TACCAATTCA
33345195 TACCAATTCCA
1 TACCAATT-CA
* *
33345206 TACCATTTCG
1 TACCAATTCA
33345216 TACCAATTC
1 TACCAATTC
33345225 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:33345208 original size:21 final size:21
Alignment explanation
Indices: 33345163--33345225 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
33345153 TTTGAACCAT
* *
33345163 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
33345185 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
33345206 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
33345226 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:33349061 original size:11 final size:11
Alignment explanation
Indices: 33349047--33349084 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
33349037 AGTGAGCAAG
33349047 AAAAGAAAAAA
1 AAAAGAAAAAA
*
33349058 AAAAGTAAAAA
1 AAAAGAAAAAA
33349069 AAAAGAACAAAA
1 AAAAGAA-AAAA
33349081 AAAA
1 AAAA
33349085 ATTGAAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 16 0.67
12 8 0.33
ACGTcount: A:0.87, C:0.03, G:0.08, T:0.03
Consensus pattern (11 bp):
AAAAGAAAAAA
Found at i:33350127 original size:6 final size:6
Alignment explanation
Indices: 33350111--33350201 Score: 58
Period size: 6 Copynumber: 14.8 Consensus size: 6
33350101 GAAAGAAAAC
** * ** *
33350111 AAAAG- AAAAGA AAAAGA AATTGC AAAAGA AAAAGA AATCGA AAAAGT
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
* * * *
33350158 GAGAGA AAAAGA AAATGAA GAAAAGA AAATTGA AAAAGA AAAAG
1 AAAAGA AAAAGA AAAAG-A -AAAAGA AAA-AGA AAAAGA AAAAG
33350202 CGAAAAAAGA
Statistics
Matches: 62, Mismatches: 20, Indels: 7
0.70 0.22 0.08
Matches are distributed among these distances:
5 5 0.08
6 46 0.74
7 7 0.11
8 4 0.06
ACGTcount: A:0.70, C:0.02, G:0.20, T:0.08
Consensus pattern (6 bp):
AAAAGA
Found at i:33350155 original size:18 final size:18
Alignment explanation
Indices: 33350116--33350156 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
33350106 AAAACAAAAG
* *
33350116 AAAAGAAAAAGAAATTGC
1 AAAAGAAAAAGAAATCGA
33350134 AAAAGAAAAAGAAATCGA
1 AAAAGAAAAAGAAATCGA
33350152 AAAAG
1 AAAAG
33350157 TGAGAGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.71, C:0.05, G:0.17, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAAGAAATCGA
Found at i:33350183 original size:14 final size:13
Alignment explanation
Indices: 33350162--33350199 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
33350152 AAAAGTGAGA
33350162 GAAAAAGAAAA-T
1 GAAAAAGAAAATT
33350174 GAAGAAAAGAAAATT
1 G-A-AAAAGAAAATT
33350189 GAAAAAGAAAA
1 GAAAAAGAAAA
33350200 AGCGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (13 bp):
GAAAAAGAAAATT
Found at i:33350213 original size:21 final size:21
Alignment explanation
Indices: 33350163--33350213 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
33350153 AAAGTGAGAG
*
33350163 AAAAAGAAAATGAAGAAAAGA
1 AAAAAGAAAAAGAAGAAAAGA
** *
33350184 AAATTGAAAAAGAA-AAAGCGA
1 AAAAAGAAAAAGAAGAAA-AGA
33350205 AAAAAGAAA
1 AAAAAGAAA
33350214 TTGAAAGAGA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.06
Consensus pattern (21 bp):
AAAAAGAAAAAGAAGAAAAGA
Found at i:33360627 original size:40 final size:40
Alignment explanation
Indices: 33360544--33360886 Score: 476
Period size: 40 Copynumber: 8.6 Consensus size: 40
33360534 TTGAATGCTG
* * * * * *
33360544 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
33360584 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
33360624 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
33360664 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
33360704 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
33360744 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
33360784 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
33360824 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
33360863 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
33360887 TGAACGAGGA
Statistics
Matches: 279, Mismatches: 21, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
39 35 0.13
40 236 0.85
41 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:33380137 original size:79 final size:81
Alignment explanation
Indices: 33380001--33380185 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
33379991 TTGAATGATG
* *
33380001 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
33380065 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
33380080 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
33380142 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
33380160 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33380186 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:33380199 original size:40 final size:40
Alignment explanation
Indices: 33380002--33380185 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
33379992 TGAATGATGT
* * * *
33380002 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
33380042 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
33380082 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
33380120 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
33380161 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
33380186 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:33380207 original size:79 final size:79
Alignment explanation
Indices: 33380054--33380218 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
33380044 GGACTAAGAT
* * **
33380054 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
33380119 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
33380133 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
33380196 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
33380212 CCGAAGG
1 CCGAAGG
33380219 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:33401003 original size:18 final size:19
Alignment explanation
Indices: 33400980--33401020 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
33400970 AAAAATTTGG
33400980 AATAAGAAATAATAAA-AT
1 AATAAGAAATAATAAATAT
**
33400998 AATAAGAGCTAATAAATAT
1 AATAAGAAATAATAAATAT
33401017 AATA
1 AATA
33401021 TTGGGTCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.24
Consensus pattern (19 bp):
AATAAGAAATAATAAATAT
Found at i:33407223 original size:17 final size:19
Alignment explanation
Indices: 33407193--33407230 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
33407183 TTTATTTTCT
33407193 AAATTAATATATTTA-ATG
1 AAATTAATATATTTAGATG
*
33407211 AAATTATTA-ATTTAGATG
1 AAATTAATATATTTAGATG
33407229 AA
1 AA
33407231 GATCGAGTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (19 bp):
AAATTAATATATTTAGATG
Found at i:33414434 original size:40 final size:40
Alignment explanation
Indices: 33414336--33414681 Score: 317
Period size: 40 Copynumber: 8.6 Consensus size: 40
33414326 TCCTCGTTCA
* * * * *
33414336 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
33414375 AATGCCTTCGGGACATAACCCGAATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * **
33414415 AATGCCTTCGGGACTTAA-CC-GATCCTCGGACTTAACCCGGATTT
1 AATGCCTTCGGGACTTAACCCGGAT--T--TA-ATAACTCGCA-CG
*** *
33414459 AACAAC-TCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
33414498 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
33414538 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
33414578 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
33414618 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
33414658 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
33414682 CAGCATTCAA
Statistics
Matches: 252, Mismatches: 42, Indels: 25
0.79 0.13 0.08
Matches are distributed among these distances:
38 2 0.01
39 41 0.16
40 173 0.69
41 9 0.04
42 1 0.00
43 18 0.07
44 5 0.02
45 3 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:33414472 original size:26 final size:26
Alignment explanation
Indices: 33414442--33414493 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
33414432 ACCGATCCTC
33414442 GGACTTAACCCGGATTTAACAACTCG
1 GGACTTAACCCGGATTTAACAACTCG
33414468 GGACTTAACCCGGATTTAACAACTCG
1 GGACTTAACCCGGATTTAACAACTCG
33414494 CACGAATGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (26 bp):
GGACTTAACCCGGATTTAACAACTCG
Found at i:33421836 original size:40 final size:40
Alignment explanation
Indices: 33421738--33422146 Score: 442
Period size: 40 Copynumber: 10.6 Consensus size: 40
33421728 TCCTCGTTCA
* * * * *
33421738 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
33421777 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
33421817 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
33421857 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGGGACTT
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTC-GCAC-G
*
33421899 AA--CC--C-GGATTTAA--C-------A--ACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
33421923 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
33421963 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
33422003 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
33422043 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
33422083 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
33422123 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
33422147 CAGCATTCAA
Statistics
Matches: 323, Mismatches: 25, Indels: 43
0.83 0.06 0.11
Matches are distributed among these distances:
24 2 0.01
25 3 0.01
26 6 0.02
28 2 0.01
29 7 0.02
31 1 0.00
35 1 0.00
37 7 0.02
38 2 0.01
39 37 0.11
40 242 0.75
41 11 0.03
42 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:33421894 original size:26 final size:26
Alignment explanation
Indices: 33421864--33421918 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
33421854 ACGAATGCCT
33421864 TCGGGACTTAACCCGGATTTAACAAC
1 TCGGGACTTAACCCGGATTTAACAAC
33421890 TCGGGACTTAACCCGGATTTAACAAC
1 TCGGGACTTAACCCGGATTTAACAAC
33421916 TCG
1 TCG
33421919 CACGAATGCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (26 bp):
TCGGGACTTAACCCGGATTTAACAAC
Found at i:33421930 original size:66 final size:66
Alignment explanation
Indices: 33421824--33421958 Score: 261
Period size: 66 Copynumber: 2.0 Consensus size: 66
33421814 ACGAATGCCT
33421824 TCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAA
1 TCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAA
33421889 C
66 C
*
33421890 TCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAA
1 TCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAA
33421955 C
66 C
33421956 TCG
1 TCG
33421959 CACGAATGCC
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (66 bp):
TCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAA
C
Found at i:33421969 original size:106 final size:112
Alignment explanation
Indices: 33421781--33422107 Score: 452
Period size: 106 Copynumber: 2.9 Consensus size: 112
33421771 TCACACAATG
*
33421781 CCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAA
1 CCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAA
*
33421846 CAACTCGCACGAATGCCTTCGGGACTTAACCCGGATT-T-A-AC-AA
66 TAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTATAACACGAA
33421889 -C-TCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAA
1 CCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAA
33421952 TAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAA
66 TAACTCGCACGAATGCCTTCGGGACTTAACCCGGA-TT-ATAA----CACGAA
*
33422005 TGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTT
1 --CCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTT
* * * * *
33422070 AGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGAT
64 AATAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGAT
33422108 ATATTCACTT
Statistics
Matches: 196, Mismatches: 8, Indels: 19
0.88 0.04 0.09
Matches are distributed among these distances:
106 95 0.48
107 3 0.02
109 1 0.01
110 1 0.01
115 2 0.01
116 2 0.01
119 5 0.03
120 87 0.44
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (112 bp):
CCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAA
TAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTATAACACGAA
Found at i:33424391 original size:10 final size:10
Alignment explanation
Indices: 33424378--33424428 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
33424368 ATATATTTAA
33424378 TTTCCTTTTT
1 TTTCCTTTTT
*
33424388 TTT-CTTTTC
1 TTTCCTTTTT
*
33424397 TTT-ATTTTAT
1 TTTCCTTTT-T
*
33424407 TTTCCTTTAT
1 TTTCCTTTTT
33424417 TTTCCTTTTT
1 TTTCCTTTTT
33424427 TT
1 TT
33424429 AATGGAAACC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
9 12 0.36
10 18 0.55
11 3 0.09
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTCCTTTTT
Found at i:33424395 original size:29 final size:30
Alignment explanation
Indices: 33424363--33424425 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 30
33424353 ATTATTCACA
*
33424363 TTTTC-ATATATTTAATTTCCTTT-TTTTTC
1 TTTTCTATAT-TTTAATTTCCTTTATTTTCC
* *
33424392 TTTTCTTTATTTTATTTTCCTTTATTTTCC
1 TTTTCTATATTTTAATTTCCTTTATTTTCC
33424422 TTTT
1 TTTT
33424426 TTTAATGGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 17 0.59
30 12 0.41
ACGTcount: A:0.13, C:0.14, G:0.00, T:0.73
Consensus pattern (30 bp):
TTTTCTATATTTTAATTTCCTTTATTTTCC
Found at i:33424396 original size:15 final size:15
Alignment explanation
Indices: 33424378--33424425 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
33424368 ATATATTTAA
33424378 TTTCCTTTTTTTTCT
1 TTTCCTTTTTTTTCT
* *
33424393 TTT-CTTTATTTTAT
1 TTTCCTTTTTTTTCT
*
33424407 TTTCCTTTATTTTCCT
1 TTTCCTTT-TTTTTCT
33424423 TTT
1 TTT
33424426 TTTAATGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
14 12 0.46
15 7 0.27
16 7 0.27
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTCCTTTTTTTTCT
Found at i:33424429 original size:29 final size:29
Alignment explanation
Indices: 33424373--33424429 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
33424363 TTTTCATATA
*
33424373 TTTAATTTCCTTTTTTTTCTTTTCTTTAT
1 TTTAATTTCCTTTTTTTCCTTTTCTTTAT
*
33424402 TTTATTTTCCTTTATTTTCCTTTT-TTTA
1 TTTAATTTCCTTT-TTTTCCTTTTCTTTA
33424430 ATGGAAACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 16 0.64
30 9 0.36
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.75
Consensus pattern (29 bp):
TTTAATTTCCTTTTTTTCCTTTTCTTTAT
Found at i:33427628 original size:12 final size:13
Alignment explanation
Indices: 33427606--33427656 Score: 54
Period size: 12 Copynumber: 4.2 Consensus size: 13
33427596 AAGAGATGAA
*
33427606 AAAGGCTTGATTG
1 AAAGACTTGATTG
33427619 AAA-ACTTGA-TG
1 AAAGACTTGATTG
33427630 AAAGACTTGATT-
1 AAAGACTTGATTG
* *
33427642 AATGAATTGATTG
1 AAAGACTTGATTG
33427655 AA
1 AA
33427657 TGAATGAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
11 5 0.16
12 21 0.66
13 6 0.19
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (13 bp):
AAAGACTTGATTG
Found at i:33429453 original size:40 final size:39
Alignment explanation
Indices: 33429369--33429553 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
33429359 TTGAATGATG
* * * *
33429369 TCCGGGCTAAGTCCTGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCC-GAAGGCATTTGTGC-GAGTTACTAAA
* * *
33429409 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
33429449 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
33429488 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
33429529 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
33429554 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
39 35 0.28
40 77 0.62
41 12 0.10
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:33429506 original size:79 final size:81
Alignment explanation
Indices: 33429369--33429553 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
33429359 TTGAATGATG
* * *
33429369 TCCGGGCTAAGTCCTGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
33429433 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
33429448 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
33429510 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
33429528 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33429554 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 33 0.37
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:33429575 original size:79 final size:79
Alignment explanation
Indices: 33429422--33429586 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
33429412 GGACTAAGAT
* * **
33429422 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
33429487 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
33429501 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
33429564 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
33429580 CCGAAGG
1 CCGAAGG
33429587 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:33434865 original size:27 final size:27
Alignment explanation
Indices: 33434835--33435012 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
33434825 ATATTGAGCC
* * * *
33434835 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
33434862 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
33434889 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
33434917 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
33434944 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
33434971 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
33434998 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33435013 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:33434974 original size:82 final size:81
Alignment explanation
Indices: 33434856--33435011 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
33434846 TGCTATATAA
* *
33434856 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
33434921 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
33434938 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
33435002 CACTTAGTGC
65 CACTTAGTGC
33435012 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:33442886 original size:27 final size:27
Alignment explanation
Indices: 33442856--33443033 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
33442846 ATATTGAGCC
* * * *
33442856 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
33442883 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
33442910 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
33442938 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
33442965 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
33442992 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
33443019 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33443034 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:33442995 original size:82 final size:81
Alignment explanation
Indices: 33442877--33443032 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
33442867 TGCTATATAA
* *
33442877 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
33442942 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
33442959 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
33443023 CACTTAGTGC
65 CACTTAGTGC
33443033 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:33451734 original size:33 final size:34
Alignment explanation
Indices: 33451685--33451753 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 34
33451675 AAATTTAAAC
33451685 AAATTAATTTCTAACACTTATTTAAGCTGAACTA
1 AAATTAATTTCTAACACTTATTTAAGCTGAACTA
*
33451719 AAATTAA-TTCTAACACTTATTTTAGCTGAACTA
1 AAATTAATTTCTAACACTTATTTAAGCTGAACTA
33451752 AA
1 AA
33451754 TGTAATAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 27 0.79
34 7 0.21
ACGTcount: A:0.42, C:0.14, G:0.06, T:0.38
Consensus pattern (34 bp):
AAATTAATTTCTAACACTTATTTAAGCTGAACTA
Found at i:33453552 original size:18 final size:18
Alignment explanation
Indices: 33453524--33453567 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
33453514 TCAATCTCTT
33453524 TTTTCTCTTTTTC-ATTCTC
1 TTTT-TCTTTTTCGATT-TC
33453543 TTTTTCTTTTTCGATTTC
1 TTTTTCTTTTTCGATTTC
33453561 TTTTTCT
1 TTTTTCT
33453568 GTGTTCCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.05, C:0.20, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTTTCTTTTTCGATTTC
Found at i:33456022 original size:9 final size:9
Alignment explanation
Indices: 33456010--33456035 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
33456000 AGATTTGAAA
33456010 TCTTGATTT
1 TCTTGATTT
33456019 TCTTGATTT
1 TCTTGATTT
33456028 TCTTGATT
1 TCTTGATT
33456036 CTTGAAATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.65
Consensus pattern (9 bp):
TCTTGATTT
Found at i:33482554 original size:34 final size:34
Alignment explanation
Indices: 33482498--33482563 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
33482488 TTAATTAATT
*
33482498 AGCTTGACAATTGAAGTCCCCGAACAGTCATTGA
1 AGCTTGACAATTAAAGTCCCCGAACAGTCATTGA
* *
33482532 AGCTTGACACTTAAAGTTCCCGAACAGTCATT
1 AGCTTGACAATTAAAGTCCCCGAACAGTCATT
33482564 AGAGTGGACT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (34 bp):
AGCTTGACAATTAAAGTCCCCGAACAGTCATTGA
Found at i:33490841 original size:121 final size:121
Alignment explanation
Indices: 33490627--33490869 Score: 450
Period size: 121 Copynumber: 2.0 Consensus size: 121
33490617 ATTTGAAAGC
*
33490627 ATTTTATTTTGGATTGATAAAATTCATTATTGAAATTCTATATGCTATTTGGCTAATACTCTATT
1 ATTTTATTTTGGAATGATAAAATTCATTATTGAAATTCTATATGCTATTTGGCTAATACTCTATT
*
33490692 TGTAATGACCTCAACTCGATCTGGTTAACCAGATTCAGATTTTGGGTGTTACTGTA
66 TGTAATGACCTCAACTCGATCTGGTTAACCAGATTCAGATCTTGGGTGTTACTGTA
33490748 ATTTTATTTTGGAATGATAAAATTCATTATTGAAATTCTATATGCTATTTGGCTAATACTCTATT
1 ATTTTATTTTGGAATGATAAAATTCATTATTGAAATTCTATATGCTATTTGGCTAATACTCTATT
* *
33490813 TGTAATGACCTCAACTCGATCTGGTTAACTAGATTCGGATCTTGGGTGTTACTGTA
66 TGTAATGACCTCAACTCGATCTGGTTAACCAGATTCAGATCTTGGGTGTTACTGTA
33490869 A
1 A
33490870 CACCCCAAAC
Statistics
Matches: 118, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
121 118 1.00
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.42
Consensus pattern (121 bp):
ATTTTATTTTGGAATGATAAAATTCATTATTGAAATTCTATATGCTATTTGGCTAATACTCTATT
TGTAATGACCTCAACTCGATCTGGTTAACCAGATTCAGATCTTGGGTGTTACTGTA
Found at i:33491572 original size:26 final size:26
Alignment explanation
Indices: 33491503--33491588 Score: 100
Period size: 26 Copynumber: 3.3 Consensus size: 26
33491493 CAGCCAACAC
* * *
33491503 AACAATATCGCAGCAAAATTGCTAGT
1 AACAGTATCGCAGCAAAGTTGCCAGT
* *
33491529 AATAGTATCGCGGCAAAGTTGCCAGT
1 AACAGTATCGCAGCAAAGTTGCCAGT
* *
33491555 AACAGTATCGCAGCAAAGCTACCAGT
1 AACAGTATCGCAGCAAAGTTGCCAGT
*
33491581 CACAGTAT
1 AACAGTAT
33491589 ACTTCCTCCA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 50 1.00
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (26 bp):
AACAGTATCGCAGCAAAGTTGCCAGT
Found at i:33493982 original size:28 final size:28
Alignment explanation
Indices: 33493923--33494045 Score: 140
Period size: 28 Copynumber: 4.4 Consensus size: 28
33493913 ATACGACATG
* * * *
33493923 CAGTAACAGTCTGGGCCTAAGCCCTAA-G
1 CAGTAATAGTATGGGCCTTAGCCC-AATA
*
33493951 CAGTATTAGTATGGGCCTTAGCCCAATA
1 CAGTAATAGTATGGGCCTTAGCCCAATA
* *
33493979 CAGTAGTAGTGTGGGCCTTAGCCCAATA
1 CAGTAATAGTATGGGCCTTAGCCCAATA
* * *
33494007 TAGTAACAGTGTGGGCCTTAGCCCAATA
1 CAGTAATAGTATGGGCCTTAGCCCAATA
33494035 CAGTAATAGTA
1 CAGTAATAGTA
33494046 CAATGCAGTA
Statistics
Matches: 81, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
27 2 0.02
28 79 0.98
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (28 bp):
CAGTAATAGTATGGGCCTTAGCCCAATA
Found at i:33494413 original size:27 final size:27
Alignment explanation
Indices: 33494383--33494615 Score: 292
Period size: 27 Copynumber: 8.6 Consensus size: 27
33494373 CATCTCTTAT
* *
33494383 GGGTATATCAGTCATTTTACCCTAT-GG
1 GGGTATTTCAGTCATTTTACCCT-TCGA
* *
33494410 GGGTATTTCAGTCATTTTACACTTCGG
1 GGGTATTTCAGTCATTTTACCCTTCGA
* * *
33494437 GGGTATTT-TGATCATTTTACCTTTCGG
1 GGGTATTTCAG-TCATTTTACCCTTCGA
* *
33494464 GGGTATTTCAGTCATTTTACCTTTTGA
1 GGGTATTTCAGTCATTTTACCCTTCGA
*
33494491 GGGTATTTTAGTCATTTTACCCTTCGA
1 GGGTATTTCAGTCATTTTACCCTTCGA
*
33494518 GGGTATTTCGGTCATTTTACCCTTCGA
1 GGGTATTTCAGTCATTTTACCCTTCGA
*
33494545 GAGTATTTCCA-TCATTTTACCCTTCGA
1 GGGTATTT-CAGTCATTTTACCCTTCGA
* *
33494572 GGGTATTTTAGTCATGTTACCCTTCGA
1 GGGTATTTCAGTCATTTTACCCTTCGA
33494599 GGGTATTTCAGTCATTT
1 GGGTATTTCAGTCATTT
33494616 GCCCACGAAT
Statistics
Matches: 181, Mismatches: 20, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
26 3 0.02
27 176 0.97
28 2 0.01
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.43
Consensus pattern (27 bp):
GGGTATTTCAGTCATTTTACCCTTCGA
Found at i:33501464 original size:28 final size:28
Alignment explanation
Indices: 33501433--33501519 Score: 80
Period size: 28 Copynumber: 3.4 Consensus size: 28
33501423 GAGTCCTAAG
*
33501433 CAGTATCAGTGTGGGCCTTAGCCCAATA
1 CAGTAGCAGTGTGGGCCTTAGCCCAATA
*
33501461 CAGTAGCA--GT--G---TAGCCTAATA
1 CAGTAGCAGTGTGGGCCTTAGCCCAATA
* *
33501482 TAGTAGCAATGTGGGCCTTAGCCCAATA
1 CAGTAGCAGTGTGGGCCTTAGCCCAATA
*
33501510 CAGTAACAGT
1 CAGTAGCAGT
33501520 ATAGTGCAGT
Statistics
Matches: 45, Mismatches: 7, Indels: 14
0.68 0.11 0.21
Matches are distributed among these distances:
21 16 0.36
23 2 0.04
24 1 0.02
25 1 0.02
26 2 0.04
28 23 0.51
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (28 bp):
CAGTAGCAGTGTGGGCCTTAGCCCAATA
Found at i:33501645 original size:23 final size:24
Alignment explanation
Indices: 33501619--33501670 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 24
33501609 GCCAAGACAA
*
33501619 TAAT-ATCGCAGCAAAGCTGCTAG
1 TAATAATCGCAGCAAAGCTGCAAG
*
33501642 TAATAGAATCGCAGCGAAGCTGCAAG
1 TAAT--AATCGCAGCAAAGCTGCAAG
33501668 TAA
1 TAA
33501671 CAGTATATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 4 0.17
26 20 0.83
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.19
Consensus pattern (24 bp):
TAATAATCGCAGCAAAGCTGCAAG
Found at i:33504214 original size:43 final size:43
Alignment explanation
Indices: 33504124--33504235 Score: 145
Period size: 43 Copynumber: 2.6 Consensus size: 43
33504114 TCACATATTG
* * * * * *
33504124 ATGCCATTGTCCTACACAGGGTCTTATACGAAATCATATAACG
1 ATGCCAATGTCCCAGACATGGTCTTATACGAAATCACATAACA
*
33504167 ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACAGT-ACA
1 ATGCCAATGTCCCAGACATGGTCTTATACGAAATCACA-TAACA
33504210 ATGCCAATGTCCCAGACATGGTCTTA
1 ATGCCAATGTCCCAGACATGGTCTTA
33504236 CATGTTATCT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 60 0.98
44 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTATACGAAATCACATAACA
Found at i:33505186 original size:32 final size:32
Alignment explanation
Indices: 33505145--33505347 Score: 291
Period size: 32 Copynumber: 6.4 Consensus size: 32
33505135 GCTGCGATGC
* * *
33505145 TACTGATGGCTTTGTGTCGGTCATATTACTGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
33505177 TACTGATGGCTTTGTGCCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
*
33505209 TACTGATGGTTTTGTGCCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* *
33505241 TATTGATGGCTTTGTGCCAATCATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
*
33505273 TACTGATGGCTTTGTGCCGATCATATTACCAT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * * *
33505305 TATTGATGGCTTTGTGCCAAACATATTACTG-
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
*
33505336 TACTTATGGCTT
1 TACTGATGGCTT
33505348 GTAACCATTC
Statistics
Matches: 154, Mismatches: 17, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
31 10 0.06
32 144 0.94
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.40
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATTACCGT
Done.