Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 173 of 356
Found at i:56331237 original size:79 final size:80
Alignment explanation
Indices: 56331128--56331389 Score: 381
Period size: 79 Copynumber: 3.3 Consensus size: 80
56331118 TACTCGTTCA
* * **
56331128 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
*
56331191 ATTTAGTGACTCGCACC
64 ATTTAGTGACTAGCACC
56331208 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
56331272 TTAGTGACTAGCACC
66 TTAGTGACTAGCACC
*
56331287 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTGGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
* *
56331351 ATAGTCACTTAGCA-C
66 TTAGTGAC-TAGCACC
*
56331366 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
56331390 CATCATTCGA
Statistics
Matches: 169, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
78 3 0.02
79 137 0.81
80 29 0.17
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
TTAGTGACTAGCACC
Found at i:56331349 original size:119 final size:121
Alignment explanation
Indices: 56331126--56331389 Score: 326
Period size: 119 Copynumber: 2.2 Consensus size: 121
56331116 GCTACTCGTT
* *
56331126 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCG
* * * *
56331190 GATTTAGTGACTCGCACCAATGCCTTCGGGCTTAGCCCGGA-ATTAGTAAC-TCGCA
66 GAATTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTTAGCA
* * * *
56331245 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTGACTAGCACCAATGCCTTCGGG-CTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTATAGTAACTAGCACAAATGCCTTCGGGACTTAACCC
* * * *
56331307 GGAATTAGTAACTCGCACAAATGCCTTCGGATCTTGGTCCGGATATAGTCACTTAGCA
65 GGAATTAGTAACTCGCACAAATGCCTTCGG-GCTTAGCCCGGATATAGTAACTTAGCA
56331365 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
56331390 CATCATTCGA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
118 37 0.30
119 73 0.59
120 14 0.11
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (121 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCG
GAATTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTTAGCA
Found at i:56331389 original size:40 final size:40
Alignment explanation
Indices: 56331107--56331389 Score: 303
Period size: 40 Copynumber: 7.1 Consensus size: 40
56331097 CGGAATTTAA
** *
56331107 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
56331147 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
56331187 CCGGATTTAGTGACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
56331226 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
56331266 CCGGATTTAGTGACTAGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
56331305 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTGGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
56331345 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
56331385 CCGGA
1 CCGGA
56331390 CATCATTCGA
Statistics
Matches: 202, Mismatches: 29, Indels: 24
0.79 0.11 0.09
Matches are distributed among these distances:
38 4 0.02
39 62 0.31
40 122 0.60
41 14 0.07
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:56333646 original size:16 final size:16
Alignment explanation
Indices: 56333625--56333678 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
56333615 TTTGGTTTAT
*
56333625 TGTAATGGAATAGGGC
1 TGTAATGGAATAGAGC
* *
56333641 TGTAATTGAATAGAGA
1 TGTAATGGAATAGAGC
56333657 TGTAATGGAATAGAGC
1 TGTAATGGAATAGAGC
56333673 TGTAAT
1 TGTAAT
56333679 TAGTAATTCA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.37, C:0.04, G:0.30, T:0.30
Consensus pattern (16 bp):
TGTAATGGAATAGAGC
Found at i:56333745 original size:44 final size:46
Alignment explanation
Indices: 56333660--56333752 Score: 129
Period size: 44 Copynumber: 2.1 Consensus size: 46
56333650 ATAGAGATGT
* *
56333660 AATGGAATAGAGCTGTAATTAGTAATTCAATTGTTTGGTTGAATGG
1 AATGAAATAGAGCTGTAATTAGTAATTCAATTGTTTAGTTGAATGG
*
56333706 AATGAAATAGAGCTGTAA-TAG-AATTC-TTGTGTTTAGTTGAATGG
1 AATGAAATAGAGCTGTAATTAGTAATTCAAT-TGTTTAGTTGAATGG
56333750 AAT
1 AAT
56333753 AGATGTTGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 1 0.02
44 22 0.51
45 3 0.07
46 17 0.40
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.37
Consensus pattern (46 bp):
AATGAAATAGAGCTGTAATTAGTAATTCAATTGTTTAGTTGAATGG
Found at i:56343924 original size:57 final size:56
Alignment explanation
Indices: 56343798--56343974 Score: 336
Period size: 56 Copynumber: 3.1 Consensus size: 56
56343788 ACAAGGGATG
56343798 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
56343854 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGG-AAAAATAAAATAAGAAGC
*
56343911 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
56343967 ATGGGCAA
1 ATGGGCAA
56343975 TAAACTAATA
Statistics
Matches: 119, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
56 63 0.53
57 56 0.47
ACGTcount: A:0.46, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:56345334 original size:40 final size:40
Alignment explanation
Indices: 56345103--56345327 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
56345093 TCGAATGATG
* * * *
56345103 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
56345143 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
56345183 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
56345222 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
56345262 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
56345303 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
56345328 AACGAGTAGT
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:56345350 original size:119 final size:119
Alignment explanation
Indices: 56345103--56345334 Score: 290
Period size: 119 Copynumber: 1.9 Consensus size: 119
56345093 TCGAATGATG
* *
56345103 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
56345168 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * **
56345222 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
56345285 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGT
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGT
56345335 AGTTATATCC
Statistics
Matches: 96, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
118 3 0.03
119 68 0.71
120 25 0.26
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:56353655 original size:59 final size:58
Alignment explanation
Indices: 56353475--56353758 Score: 150
Period size: 59 Copynumber: 4.7 Consensus size: 58
56353465 ATGATAAATT
* ** * *
56353475 ATATATTTTTATTAACTTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATT
1 ATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTATATTTTATAGTATC
* * * * * * * *
56353534 ATATATTATGATTTTAGAA-A-A-TTCATATAAGAATATTTAATATTAAGAATTTTATTA-AATC
1 ATATATT-TTA-ATTAAAATATATTTAATATTA-ATTATTTAA-ATT-A-TATTTTA-TAGTATC
56353595 ATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGTATC
1 ATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTATATTTTATAGTATC
* * ** * * * *
56353654 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATT-T-TATTATA-AAT
1 ATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATATTTTATAGTAT
*
56353716 T
58 C
*
56353717 ATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAA
56353759 ATATGATTAA
Statistics
Matches: 167, Mismatches: 37, Indels: 45
0.67 0.15 0.18
Matches are distributed among these distances:
56 12 0.07
57 6 0.04
58 13 0.08
59 39 0.23
60 11 0.07
61 30 0.18
62 15 0.09
63 12 0.07
64 7 0.04
65 6 0.04
66 16 0.10
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (58 bp):
ATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATATTTTATAGTATC
Found at i:56353682 original size:120 final size:122
Alignment explanation
Indices: 56353468--56353758 Score: 462
Period size: 120 Copynumber: 2.4 Consensus size: 122
56353458 TAGTATGATG
* **
56353468 ATAAATTATATATTTTTATTAACTTATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
* * *
56353533 TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTA-T
66 CATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
* *
56353589 -TAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTTTATAGTA
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTTTATAGTA
* *
56353652 TCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATT
65 TCATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
56353710 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
56353759 ATATGATTAA
Statistics
Matches: 154, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
119 2 0.01
120 106 0.69
121 1 0.01
122 43 0.28
123 2 0.01
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (122 bp):
ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
CATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
Found at i:56353737 original size:18 final size:19
Alignment explanation
Indices: 56353702--56353738 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
56353692 ATTATTAAGA
56353702 ATTTTATTATAAATTATAT
1 ATTTTATTATAAATTATAT
56353721 ATTTTAATTA-AAA-TATAT
1 ATTTT-ATTATAAATTATAT
56353739 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTATTATAAATTATAT
Found at i:56353968 original size:44 final size:45
Alignment explanation
Indices: 56353903--56353993 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
56353893 ACCTCTATTC
* * *
56353903 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
56353947 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
56353992 CA
1 CA
56353994 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:56353995 original size:16 final size:16
Alignment explanation
Indices: 56353974--56354075 Score: 186
Period size: 16 Copynumber: 6.2 Consensus size: 16
56353964 GATTAGCTAT
56353974 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
56353990 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
56354007 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
56354023 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
56354040 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
56354056 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
56354072 TACA
1 TACA
56354076 GCGAACCAAA
Statistics
Matches: 84, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
16 52 0.62
17 32 0.38
ACGTcount: A:0.37, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:56354016 original size:33 final size:33
Alignment explanation
Indices: 56353974--56354075 Score: 197
Period size: 33 Copynumber: 3.1 Consensus size: 33
56353964 GATTAGCTAT
56353974 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCCAA
56354007 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCCAA
56354040 TACACCTCTAATCCAATACACCTCTAAT-CCAA
1 TACACCTCTAATCCAATACACCTCTAATCCCAA
56354072 TACA
1 TACA
56354076 GCGAACCAAA
Statistics
Matches: 69, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
32 8 0.12
33 61 0.88
ACGTcount: A:0.37, C:0.38, G:0.00, T:0.25
Consensus pattern (33 bp):
TACACCTCTAATCCAATACACCTCTAATCCCAA
Found at i:56354056 original size:49 final size:49
Alignment explanation
Indices: 56353974--56354075 Score: 188
Period size: 49 Copynumber: 2.1 Consensus size: 49
56353964 GATTAGCTAT
56353974 TACACCTCTAATCCAATACACCTCTAATCCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCCAATACACCTCTAATCCAA
56354023 TACACCTCTAATCCCAATACACCTCTAAT-CCAATACACCTCTAATCCAA
1 TACACCTCTAAT-CCAATACACCTCTAATCCCAATACACCTCTAATCCAA
56354072 TACA
1 TACA
56354076 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
49 36 0.69
50 16 0.31
ACGTcount: A:0.37, C:0.38, G:0.00, T:0.25
Consensus pattern (49 bp):
TACACCTCTAATCCAATACACCTCTAATCCCAATACACCTCTAATCCAA
Found at i:56355308 original size:40 final size:40
Alignment explanation
Indices: 56355188--56355338 Score: 162
Period size: 41 Copynumber: 3.8 Consensus size: 40
56355178 TAATATACAT
* * * * * *
56355188 TAGCGGCGTTTGTC-CGAAATGCCACTAAAAGCTAAACTA
1 TAGCGGCGTTTTTCTCAAAACGCCACTAAAAGCTGATCAA
** * *
56355227 TAGCGGCGTTTTTGGCAAAAACGCCACTAAAAACTGGTCAA
1 TAGCGGCGTTTTTCTC-AAAACGCCACTAAAAGCTGATCAA
56355268 TAGCGGCGTTTTTCTCAAAACGCCACTAAAAGCTGATCAA
1 TAGCGGCGTTTTTCTCAAAACGCCACTAAAAGCTGATCAA
*
56355308 TAGAGGCGTTTTAATCTC-AAACGCCACTAAA
1 TAGCGGCGTTTT--TCTCAAAACGCCACTAAA
56355339 TTGCGGCGTT
Statistics
Matches: 94, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
39 12 0.13
40 34 0.36
41 44 0.47
42 4 0.04
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (40 bp):
TAGCGGCGTTTTTCTCAAAACGCCACTAAAAGCTGATCAA
Found at i:56357785 original size:14 final size:15
Alignment explanation
Indices: 56357766--56357795 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
56357756 TGTGTTTATA
56357766 TAAATACAT-AATTC
1 TAAATACATAAATTC
56357780 TAAATACATAAATTC
1 TAAATACATAAATTC
56357795 T
1 T
56357796 GAAGTTTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAATACATAAATTC
Found at i:56363797 original size:43 final size:42
Alignment explanation
Indices: 56363750--56363849 Score: 112
Period size: 43 Copynumber: 2.3 Consensus size: 42
56363740 ATCTGCCAAA
* *
56363750 TTTAGCGGCGTTTGT-AAAAAAAGCGCCGCTAAAAGGCTTGACC
1 TTTAGCGGCGTTT-TCAAAAAAA-CACCGCTAAAAGCCTTGACC
** *
56363793 TTTAGCGGCGCTTTTCCCACAAACACCGCTAAAAGCCTTGACC
1 TTTAGCGGCG-TTTTCAAAAAAACACCGCTAAAAGCCTTGACC
*
56363836 TTTAGCGGTGTTTT
1 TTTAGCGGCGTTTT
56363850 TTTTCAATAA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
42 4 0.08
43 38 0.78
44 7 0.14
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.28
Consensus pattern (42 bp):
TTTAGCGGCGTTTTCAAAAAAACACCGCTAAAAGCCTTGACC
Found at i:56370510 original size:27 final size:26
Alignment explanation
Indices: 56370437--56370530 Score: 89
Period size: 26 Copynumber: 3.6 Consensus size: 26
56370427 TATGTCATTC
* * * **
56370437 TTTAATTTGCTTTGTGTATTATAGAT
1 TTTAAATTGTTTTATGTATTATTCAT
* * ** *
56370463 TTTAAAATGCTTTATACATTATTTAT
1 TTTAAATTGTTTTATGTATTATTCAT
56370489 TTTAAACTTGTTTTATGTATTATTCAT
1 TTTAAA-TTGTTTTATGTATTATTCAT
56370516 TTTAAATTGTTTTAT
1 TTTAAATTGTTTTAT
56370531 TGTTTACTTT
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
26 34 0.62
27 21 0.38
ACGTcount: A:0.28, C:0.05, G:0.09, T:0.59
Consensus pattern (26 bp):
TTTAAATTGTTTTATGTATTATTCAT
Found at i:56372570 original size:2 final size:2
Alignment explanation
Indices: 56372565--56372618 Score: 67
Period size: 2 Copynumber: 28.0 Consensus size: 2
56372555 TTAATTTTTT
* * *
56372565 TA TA TA TA T- TA TA T- TA TT TA TA TA TA TA TA GA TA TA TA GA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
56372605 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
56372619 ATACATCAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
1 2 0.05
2 42 0.95
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (2 bp):
TA
Found at i:56372846 original size:22 final size:22
Alignment explanation
Indices: 56372821--56372868 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
56372811 ATATCCAAAC
56372821 AATAACAACAAAAT-AGTAGCAA
1 AATAACAACAAAATGA-TAGCAA
* *
56372843 AATAATAATAAAATGATAGCAA
1 AATAACAACAAAATGATAGCAA
56372865 AATA
1 AATA
56372869 GGGAGAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.65, C:0.08, G:0.08, T:0.19
Consensus pattern (22 bp):
AATAACAACAAAATGATAGCAA
Found at i:56375196 original size:30 final size:30
Alignment explanation
Indices: 56375162--56375224 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
56375152 ACTTTATGTA
56375162 TTATTAATATTTTAAGGTTAAATTTTATTC
1 TTATTAATATTTTAAGGTTAAATTTTATTC
56375192 TTATTAATATTTTAAGGTTAAATTTTATTC
1 TTATTAATATTTTAAGGTTAAATTTTATTC
56375222 TTA
1 TTA
56375225 GTCTTTATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.57
Consensus pattern (30 bp):
TTATTAATATTTTAAGGTTAAATTTTATTC
Found at i:56378762 original size:20 final size:20
Alignment explanation
Indices: 56378721--56378765 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
56378711 AGCACATGTA
* *
56378721 TTCATAAAATTTCAGAATTT
1 TTCATAAAATTTCACAACTT
56378741 TTCATCAAAATTT-ACAACTT
1 TTCAT-AAAATTTCACAACTT
56378761 TTCAT
1 TTCAT
56378766 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.38, C:0.16, G:0.02, T:0.44
Consensus pattern (20 bp):
TTCATAAAATTTCACAACTT
Found at i:56380252 original size:23 final size:21
Alignment explanation
Indices: 56380213--56380254 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
56380203 TACTTAAGTA
56380213 ACATTTTGTTGCATTTTTAGG
1 ACATTTTGTTGCATTTTTAGG
56380234 ACATTTTAGTTAGCATTTTTA
1 ACATTTT-GTT-GCATTTTTA
56380255 ATATTGCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 9 0.47
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.52
Consensus pattern (21 bp):
ACATTTTGTTGCATTTTTAGG
Found at i:56412139 original size:104 final size:104
Alignment explanation
Indices: 56411975--56412181 Score: 362
Period size: 104 Copynumber: 2.0 Consensus size: 104
56411965 TGTTGTGTGC
* *
56411975 TGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTTTGAAATGTGAAAGGGG
1 TGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTTTGAAATGTGAAAGGGG
56412040 GTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAAGTGT
66 GTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAAGTGT
* *
56412079 TGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCTTTGAAATGTGAAAGGG
1 TGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCTTTGAAATGTGAAAGGG
56412143 GGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAAGTG
65 GGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAAGTG
56412182 CGATATCCAT
Statistics
Matches: 98, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
104 97 0.99
105 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.32
Consensus pattern (104 bp):
TGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTTTGAAATGTGAAAGGGG
GTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAAGTGT
Found at i:56412234 original size:71 final size:72
Alignment explanation
Indices: 56412101--56412252 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
56412091 TCATTGGTGG
* *
56412101 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
56412166 GAGGGGT
66 GAGGGGT
***
56412173 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
56412237 GAGGGGT
66 GAGGGGT
56412244 TGCTAAGTG
1 TGCTAAGTG
56412253 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:56417974 original size:76 final size:76
Alignment explanation
Indices: 56417873--56418022 Score: 264
Period size: 76 Copynumber: 2.0 Consensus size: 76
56417863 ACCTAAAAAT
* *
56417873 GGCATACCAAACACCTTTTTAGCAATTTAATTTACGAAACGACAATAATAACCCAAACAATGCAC
1 GGCATACCAAACACCCTTTTAGCAATTTAATTTACGAAACGACAACAATAACCCAAACAATGCAC
*
56417938 ATGAACTTATC
66 ACGAACTTATC
*
56417949 GGCATACCAAACACCCTTTTAGCAATTTAATTTACGAAACGACAACAATAACCCAAACAATGGAC
1 GGCATACCAAACACCCTTTTAGCAATTTAATTTACGAAACGACAACAATAACCCAAACAATGCAC
56418014 ACGAACTTA
66 ACGAACTTA
56418023 CCGACGACGA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 70 1.00
ACGTcount: A:0.43, C:0.25, G:0.10, T:0.23
Consensus pattern (76 bp):
GGCATACCAAACACCCTTTTAGCAATTTAATTTACGAAACGACAACAATAACCCAAACAATGCAC
ACGAACTTATC
Found at i:56429069 original size:11 final size:11
Alignment explanation
Indices: 56429053--56429080 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
56429043 TTCTATTATT
56429053 TGAATGATGAA
1 TGAATGATGAA
56429064 TGAATGATGAA
1 TGAATGATGAA
56429075 TGAATG
1 TGAATG
56429081 GTGATAGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (11 bp):
TGAATGATGAA
Found at i:56431759 original size:24 final size:24
Alignment explanation
Indices: 56431732--56431781 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
56431722 TTGTATGAGA
56431732 AGAATTTCCTCTTTGATGTAGCAT
1 AGAATTTCCTCTTTGATGTAGCAT
56431756 AGAATTTCCTCTTTGATGTAGCAT
1 AGAATTTCCTCTTTGATGTAGCAT
56431780 AG
1 AG
56431782 TTCTTTCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (24 bp):
AGAATTTCCTCTTTGATGTAGCAT
Found at i:56435415 original size:17 final size:17
Alignment explanation
Indices: 56435393--56435428 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
56435383 AAAAGGGTCA
56435393 CAAATGCGTATGAAATT
1 CAAATGCGTATGAAATT
*
56435410 CAAATGGGTATGAAATT
1 CAAATGCGTATGAAATT
56435427 CA
1 CA
56435429 TCTTGTGATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (17 bp):
CAAATGCGTATGAAATT
Found at i:56442272 original size:18 final size:18
Alignment explanation
Indices: 56442249--56442305 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
56442239 ATATACCCAC
56442249 AGTAAGCTATAATAGCTT
1 AGTAAGCTATAATAGCTT
*
56442267 AGTAAG-TCAT-A-AGC-A
1 AGTAAGCT-ATAATAGCTT
*
56442282 AATAAGCTATAATAGCTT
1 AGTAAGCTATAATAGCTT
56442300 AGTAAG
1 AGTAAG
56442306 TAATTAAACT
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
15 7 0.23
16 5 0.17
17 5 0.17
18 13 0.43
ACGTcount: A:0.44, C:0.11, G:0.18, T:0.28
Consensus pattern (18 bp):
AGTAAGCTATAATAGCTT
Found at i:56444658 original size:25 final size:25
Alignment explanation
Indices: 56444627--56444730 Score: 95
Period size: 25 Copynumber: 4.2 Consensus size: 25
56444617 AGCCCTCTCT
56444627 TGAGCCATATAACAGGAAGCTCATG
1 TGAGCCATATAACAGGAAGCTCATG
* * *
56444652 TGAGCCATATAACGGGAAGCTTATC
1 TGAGCCATATAACAGGAAGCTCATG
* * ** *
56444677 CGGGCTGTATAAC-GGAAAGCTCATA
1 TGAGCCATATAACAGG-AAGCTCATG
* *
56444702 AGAGCCATA-ATCAGGAAGCTCATG
1 TGAGCCATATAACAGGAAGCTCATG
56444726 TGAGC
1 TGAGC
56444731 TAATAACGGG
Statistics
Matches: 61, Mismatches: 16, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
24 16 0.26
25 45 0.74
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (25 bp):
TGAGCCATATAACAGGAAGCTCATG
Found at i:56444888 original size:26 final size:26
Alignment explanation
Indices: 56444823--56444882 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
56444813 GAAGCTCTGG
*
56444823 AGAGCCATTAATTGAAAAGCTCACAA
1 AGAGCCATTAATCGAAAAGCTCACAA
* *
56444849 AGAGCCTTTAATCGAAAAGCTCACGA
1 AGAGCCATTAATCGAAAAGCTCACAA
56444875 AGAGCCAT
1 AGAGCCAT
56444883 ATATCGTGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (26 bp):
AGAGCCATTAATCGAAAAGCTCACAA
Found at i:56446369 original size:93 final size:92
Alignment explanation
Indices: 56446211--56446380 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 92
56446201 GCCCCTAAGT
*
56446211 GAACTCAGACTCAACTCAACGAGCTCGGGCTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCAGACTCAACTCAACGAGCTCGGACTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
56446276 GAGTTCGGATGCCTAGTTACATTTCAC
66 GAGTTCGGATGCCTAGTTACATTTCAC
* *
56446303 GAACTCGGACTCAACTCAACGAGTTCGGACTTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGAC-TTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56446368 CGAGTTCGGATGC
65 CGAGTTCGGATGC
56446381 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 27 0.36
93 47 0.64
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCAC
Found at i:56446396 original size:46 final size:46
Alignment explanation
Indices: 56446206--56446382 Score: 202
Period size: 46 Copynumber: 3.8 Consensus size: 46
56446196 AACCCGCCCC
* *
56446206 TAAGTGAACTCAGACTCAACTCAACGAGCTCGG--GCTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-TCGCATCCA
* * *
56446251 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-CTCGCATCCA
* * *
56446297 TTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACT-TTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-TGCTCGCATCCA
56446344 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
56446383 AACCATCCTA
Statistics
Matches: 109, Mismatches: 14, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
45 34 0.31
46 36 0.33
47 35 0.32
48 4 0.04
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGCATCCA
Found at i:56446834 original size:30 final size:30
Alignment explanation
Indices: 56446800--56446859 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
56446790 ATTTAATACG
56446800 AACTTTGGA-AAAATTACACTTTTGCCCCTA
1 AACTTT-GACAAAATTACACTTTTGCCCCTA
* *
56446830 AACTTTTACATAATTACACTTTTGCCCCTA
1 AACTTTGACAAAATTACACTTTTGCCCCTA
56446860 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 1 0.04
30 26 0.96
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGACAAAATTACACTTTTGCCCCTA
Found at i:56453484 original size:20 final size:20
Alignment explanation
Indices: 56453459--56453499 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
56453449 AAATTTCATC
56453459 ATACCATTGCTGATTGGGAG
1 ATACCATTGCTGATTGGGAG
56453479 ATACCATTGCTGATTGGGAG
1 ATACCATTGCTGATTGGGAG
56453499 A
1 A
56453500 CAGAAATATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (20 bp):
ATACCATTGCTGATTGGGAG
Found at i:56458822 original size:130 final size:130
Alignment explanation
Indices: 56458589--56458822 Score: 342
Period size: 130 Copynumber: 1.8 Consensus size: 130
56458579 TGTGGGATTT
**
56458589 TAGGAACAATATCTGGTGGCTTCATCCTAGATCGCATGGGTGCTACAATATCTAATGCTTTTATT
1 TAGGAACAATATCTGGTGGCTTCATCCTAGATCGCATAAGTGCTACAATATCTAATGCTTTTATT
* * ** * * *
56458654 GTGAGTTTGTTTTGTTTTGATGATGTTTTGCCTGAATGGTTTCATTTTACATACTTATCAAAATA
66 CTAAGTTTGGGTTGCTTTAATGATGTTTGGCCTGAATGGTTTCATTTTACATACTTATCAAAATA
* * *
56458719 TAGGAACATTATCTGGTGGTTTCATCCTAGATTGCATAAGTGCTACAATATCTAATGCTTTTATT
1 TAGGAACAATATCTGGTGGCTTCATCCTAGATCGCATAAGTGCTACAATATCTAATGCTTTTATT
**
56458784 CTAAGTTTGGGTTGCTTTAATGATGTTTGGTGTGAATGG
66 CTAAGTTTGGGTTGCTTTAATGATGTTTGGCCTGAATGG
56458823 CATGCTTATA
Statistics
Matches: 90, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
130 90 1.00
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.42
Consensus pattern (130 bp):
TAGGAACAATATCTGGTGGCTTCATCCTAGATCGCATAAGTGCTACAATATCTAATGCTTTTATT
CTAAGTTTGGGTTGCTTTAATGATGTTTGGCCTGAATGGTTTCATTTTACATACTTATCAAAATA
Found at i:56461470 original size:6 final size:6
Alignment explanation
Indices: 56461455--56461492 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
56461445 ACGTTACTTC
56461455 TTTTTG -TTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTT
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTT
56461493 AAATGATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (6 bp):
TTTTTG
Found at i:56463986 original size:22 final size:21
Alignment explanation
Indices: 56463920--56463989 Score: 86
Period size: 23 Copynumber: 3.2 Consensus size: 21
56463910 TCATCCTAAA
*
56463920 CCAAGCCTAAACCAACCTAGC
1 CCAATCCTAAACCAACCTAGC
56463941 CCAATACCCTAAACCAACCTAGC
1 CCAAT--CCTAAACCAACCTAGC
* *
56463964 CCAATCCTAAAACTACCTGAGC
1 CCAATCCTAAACCAACCT-AGC
56463986 CCAA
1 CCAA
56463990 ATTTTAAAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
21 15 0.35
22 7 0.16
23 21 0.49
ACGTcount: A:0.39, C:0.41, G:0.07, T:0.13
Consensus pattern (21 bp):
CCAATCCTAAACCAACCTAGC
Found at i:56477931 original size:120 final size:119
Alignment explanation
Indices: 56477709--56477971 Score: 316
Period size: 120 Copynumber: 2.2 Consensus size: 119
56477699 TCCTCGTTCA
* * **
56477709 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAACAACTCACACAATGCCTTCGGGACTTAACCCGGATT
* * * *
56477774 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA-ACAAC-TCGCAC
66 TAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATATAC-ACTTAGCAC
* *
56477827 GAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAACAACTCACAC-AATGCCTTCGGGACTTAACCCGGA
** * ** *
56477892 TTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
64 TTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATATATACACTTAGCAC
*
56477948 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
56477972 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 36 0.30
120 80 0.66
121 6 0.05
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAACAACTCACACAATGCCTTCGGGACTTAACCCGGATT
TAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATATACACTTAGCAC
Found at i:56477932 original size:40 final size:40
Alignment explanation
Indices: 56477709--56477918 Score: 314
Period size: 40 Copynumber: 5.3 Consensus size: 40
56477699 TCCTCGTTCA
* * * ** *
56477709 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
56477748 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
56477788 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
56477828 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
56477868 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
56477908 AAGGCCTTCGG
1 AATGCCTTCGG
56477919 ATCTTAGTCC
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 33 0.21
40 126 0.79
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:56477955 original size:80 final size:80
Alignment explanation
Indices: 56477712--56477971 Score: 267
Period size: 80 Copynumber: 3.3 Consensus size: 80
56477702 TCGTTCAAAT
* * * ** * * *
56477712 GCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* *
56477776 ACAACTCGCACGAAT
66 ACAACTAGCACGAAA
* * *
56477791 GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* *
56477856 ACAACTCGCACGAAT
66 ACAACTAGCACGAAA
** * **
56477871 GCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATAT
1 GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATAT
*
56477935 ATTC-ACTTAGCAC-AAA
65 A-ACAAC-TAGCACGAAA
*
56477951 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
56477972 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
79 33 0.21
80 120 0.75
81 6 0.04
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
ACAACTAGCACGAAA
Found at i:56477980 original size:41 final size:41
Alignment explanation
Indices: 56477903--56477980 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
56477893 TTAGTATCTC
* * *
56477903 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
56477944 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
56477981 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:56481711 original size:27 final size:26
Alignment explanation
Indices: 56481681--56481741 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
56481671 TAATTTAATA
*
56481681 TAAAATA-ATTATATTAATAATTATTAT
1 TAAAATATATT-TAATAATAATTA-TAT
*
56481708 TAAATTATATTTAATAATAATTATAT
1 TAAAATATATTTAATAATAATTATAT
56481734 TAAAATAT
1 TAAAATAT
56481742 GATTAAATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 10 0.33
27 17 0.57
28 3 0.10
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
TAAAATATATTTAATAATAATTATAT
Found at i:56481721 original size:24 final size:23
Alignment explanation
Indices: 56481687--56481731 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
56481677 AATATAAAAT
*
56481687 AATTATATTAATAATTATTATTA
1 AATTATATTAATAATAATTATTA
56481710 AATTATATTTAATAATAATTAT
1 AATTATA-TTAATAATAATTAT
56481732 ATTAAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
AATTATATTAATAATAATTATTA
Found at i:56481980 original size:16 final size:16
Alignment explanation
Indices: 56481960--56482025 Score: 89
Period size: 16 Copynumber: 4.2 Consensus size: 16
56481950 TGAATTACTT
*
56481960 ATTACAGCCCTATTCT
1 ATTACAGCCCTATTCC
*
56481976 ATTACAGCCTTATTCC
1 ATTACAGCCCTATTCC
* *
56481992 A-TACAACTCTATTCC
1 ATTACAGCCCTATTCC
56482007 ATTACAGCCCTATTCC
1 ATTACAGCCCTATTCC
56482023 ATT
1 ATT
56482026 CCAGTGAACC
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
15 12 0.29
16 30 0.71
ACGTcount: A:0.27, C:0.32, G:0.05, T:0.36
Consensus pattern (16 bp):
ATTACAGCCCTATTCC
Found at i:56483855 original size:42 final size:42
Alignment explanation
Indices: 56483747--56483859 Score: 120
Period size: 43 Copynumber: 2.7 Consensus size: 42
56483737 TACCATACCA
** *
56483747 ATGCCATATCCCAGATATGGTCTTACGTGAAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * * **
56483789 ATGCCAATAGCCCAGTTATTGTCTTACACGAGGTCTCATATC-
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATCG
*
56483831 ACTGTCATATCCCAGATATGGTCTTACAC
1 A-TGCCATATCCCAGATATGGTCTTACAC
56483860 ATAATCTTAG
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
42 26 0.46
43 31 0.54
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:56485841 original size:354 final size:347
Alignment explanation
Indices: 56485188--56486214 Score: 1303
Period size: 345 Copynumber: 2.9 Consensus size: 347
56485178 CAAGTCATTC
* * * * * *
56485188 ATCACAAAGACAAATGACCAGTGGCCACATTTACTTTCTATCAACCATGTAATGTCGATGAAAGA
1 ATCACAAAGACAAACGACC-GTGGCCACGTTTACTTTTTATCAACCATGTAATGCCAATGAAAGG
* * * * *
56485253 ATATCATTTACCCATGTCTCGGGCAATGAATTTCACTATTATGGATGACATTACATATTACAGAA
65 ATATCATTTACCCATGTCTCGGACAATGAATTCCACTATTGTGAATGACACTACATATTACAGAA
* * * *
56485318 GTCGTATACCCAATGCATCAGCCTTCAATTCCTTACCATTTTGAACTCAAGCTTTTACTTACATC
130 GTCGTATACCCAATGCACCAGCCTTCAATTCCTTAACAATTTGAACTCAGGCTTTTACTTACATC
* * * * *
56485383 AATGTATACGAGTCATACATACATAGCCCATCATCCACTCAGGATTAAGACATGCCACACTTTGA
195 AATGTATATGAGTCATGCATACATAG-TCGTCATCCACTCAGGATTAAGGCATGCCACACTTTGA
* *
56485448 ATGTCACAAATGAATAAATCCATAAACGGATTTAGGATCTCTTTTTCTTAGGTCTAGTCTAATGT
259 ATGTCACAAGTGAATAAATCCATAAACAGATTTAGGATCTCTTTTTCTTAGGTCTAGTCT-ATGT
56485513 ACTGTCAGTCTAGCCAGTCACATTCATAA
323 ACTGTC---C-AGCCAGTCACATTCATAA
* * *
56485542 ATCACAAAGATAAACGACTCGTGGCCATGTTTACTTTTTCTCAACCATGTAATGCCAATGAAAGG
1 ATCACAAAGACAAACGAC-CGTGGCCACGTTTACTTTTTATCAACCATGTAATGCCAATGAAAGG
* * *
56485607 ATATCATTTACTCATGTCTCGGACAATGAATTCCACTATTGTGAATGACGCTACGTATTACAGAA
65 ATATCATTTACCCATGTCTCGGACAATGAATTCCACTATTGTGAATGACACTACATATTACAGAA
* * *
56485672 GTTGTATACCCAATGCACCAGCCTTCAATTCCTTATCAATTTGAACTCAGGCTTTTACTTATATC
130 GTCGTATACCCAATGCACCAGCCTTCAATTCCTTAACAATTTGAACTCAGGCTTTTACTTACATC
* * *
56485737 AATGTATATGACTCATGCATACATAGTTCGTCATCCATTGAGGATTAAGGCATGCCACACTTTGA
195 AATGTATATGAGTCATGCATACATAG-TCGTCATCCACTCAGGATTAAGGCATGCCACACTTTGA
* *
56485802 ATGTCACAAGTGAATAAATCCATAAAAAGATTCAGGATCTCTTCTTT-TTAGGTCTAGTC--TG-
259 ATGTCACAAGTGAATAAATCCATAAACAGATTTAGGATCTCTT-TTTCTTAGGTCTAGTCTATGT
* **
56485863 A-TGTCCAGTCAGTCACATTCATTC
323 ACTGTCCAGCCAGTCACATTCATAA
* * *
56485887 ATCACAAAGACGAACGACCCATGGCCACGTTTACTTTTTATCAACCATGTAATGCCAATGAAAAG
1 ATCACAAAGACAAACGA-CCGTGGCCACGTTTACTTTTTATCAACCATGTAATGCCAATGAAAGG
* * * ** * *
56485952 ATATCATTTACCCATGTTTCTGGA-AATAAATTCCACTATTGCGAGCGGCACTACATATTCCAGA
65 ATATCATTTACCCATGTCTC-GGACAATGAATTCCACTATTGTGAATGACACTACATATTACAGA
* * ** *
56486016 AGTCGTATACCCAATGCACCAACCTTCAATTCCTTAACTAA-TTGAACTTAGAATTTTGCTTACA
129 AGTCGTATACCCAATGCACCAGCCTTCAATTCCTTAAC-AATTTGAACTCAGGCTTTTACTTACA
* * * *
56486080 TCTATGTATATGAGTCACGCATACATAGTCTGTCATCCACTCAAGATTAAGGTATGCCACACTTT
193 TCAATGTATATGAGTCATGCATACATAGTC-GTCATCCACTCAGGATTAAGGCATGCCACACTTT
* * * * *
56486145 GAATGGCACAAGTGAATAAATCCATAAACAGATTTAGGATATCTTCTTCTTGGGTCTAGGCTGAT
257 GAATGTCACAAGTGAATAAATCCATAAACAGATTTAGGATCTCTTTTTCTTAGGTCTAGTCT-AT
56486210 GTACT
321 GTACT
56486215 TTCAATCCAG
Statistics
Matches: 584, Mismatches: 77, Indels: 28
0.85 0.11 0.04
Matches are distributed among these distances:
344 4 0.01
345 281 0.48
346 7 0.01
348 2 0.00
349 5 0.01
350 2 0.00
351 2 0.00
354 277 0.47
355 4 0.01
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (347 bp):
ATCACAAAGACAAACGACCGTGGCCACGTTTACTTTTTATCAACCATGTAATGCCAATGAAAGGA
TATCATTTACCCATGTCTCGGACAATGAATTCCACTATTGTGAATGACACTACATATTACAGAAG
TCGTATACCCAATGCACCAGCCTTCAATTCCTTAACAATTTGAACTCAGGCTTTTACTTACATCA
ATGTATATGAGTCATGCATACATAGTCGTCATCCACTCAGGATTAAGGCATGCCACACTTTGAAT
GTCACAAGTGAATAAATCCATAAACAGATTTAGGATCTCTTTTTCTTAGGTCTAGTCTATGTACT
GTCCAGCCAGTCACATTCATAA
Found at i:56495483 original size:38 final size:38
Alignment explanation
Indices: 56495435--56495574 Score: 219
Period size: 38 Copynumber: 3.7 Consensus size: 38
56495425 GCTTAAAGAT
*
56495435 CCGCAGGCTTCGTGCTGGTATTATATCTGGGTTAAATC
1 CCGCAGGCTTAGTGCTGGTATTATATCTGGGTTAAATC
* **
56495473 CCGCAAGCTTCCTGCTGGTATTATAT-TCGGGTTAAATC
1 CCGCAGGCTTAGTGCTGGTATTATATCT-GGGTTAAATC
*
56495511 CCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAATC
1 CCGCAGGCTTAGTGCTGGTATTATATCTGGGTTAAATC
56495549 CCGCAGGCTTAGTGCTGGTATTATAT
1 CCGCAGGCTTAGTGCTGGTATTATAT
56495575 TCGAGCTTAA
Statistics
Matches: 94, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
37 1 0.01
38 93 0.99
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (38 bp):
CCGCAGGCTTAGTGCTGGTATTATATCTGGGTTAAATC
Found at i:56495527 original size:76 final size:78
Alignment explanation
Indices: 56495425--56495607 Score: 255
Period size: 76 Copynumber: 2.4 Consensus size: 78
56495415 GTGTATCCGG
* * *
56495425 GCTTAAAGAT-CCGCAGGCTTCGTGCTGGTATTATATCTGGGTTAAATCCCGCAAGCTTCCTGCT
1 GCTTAAAG-TCCCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAATCCCGCAAGCTTACTGCT
56495489 GGTATTATATTCG-
65 GGTATTATATTCGA
* * *
56495502 GGTTAAA-TCCCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTAGTGCTG
1 GCTTAAAGTCCCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAATCCCGCAAGCTTACTGCTG
56495566 GTATTATATTCGA
66 GTATTATATTCGA
* * *
56495579 GCTTAAAGTCACGCAGGTTTTGTGCTGGT
1 GCTTAAAGTCCCGCAGGCTTAGTGCTGGT
56495608 GACTGGATTC
Statistics
Matches: 93, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
75 1 0.01
76 62 0.67
77 12 0.13
78 18 0.19
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.33
Consensus pattern (78 bp):
GCTTAAAGTCCCGCAGGCTTAGTGCTGGTATTATATCCGGGTTAAATCCCGCAAGCTTACTGCTG
GTATTATATTCGA
Found at i:56501434 original size:47 final size:47
Alignment explanation
Indices: 56501356--56501577 Score: 336
Period size: 47 Copynumber: 4.7 Consensus size: 47
56501346 CCCTTCGGGA
* * * * * * *
56501356 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
56501403 CCTGTCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56501450 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56501497 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56501544 CTTATCACATATATACACTTTCACATTCATCACA
1 CTTATCACATATATACACTTTCACATTCATCACA
56501578 CATATACACT
Statistics
Matches: 161, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 161 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56501475 original size:38 final size:42
Alignment explanation
Indices: 56501423--56501867 Score: 224
Period size: 47 Copynumber: 10.0 Consensus size: 42
56501413 ATATACACCT
*
56501423 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 TCACATT-ATCACATCGGCTATTAGGCCTTATCACATATATA-A
56501467 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACA
1 ---TCACATT-ATCACATCGGCTATTAGGCCTTATCACATATATA-A
56501514 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACA
1 ---TCACATT-ATCACATCGGCTATTAGGCCTTATCACATATATA-A
* *
56501561 CTTTCACATTCATCACA-C--ATA-TA--CACTT-TCAC--AT-TCA
1 ---TCACATT-ATCACATCGGCTATTAGGC-CTTATCACATATATAA
*** * * * * *
56501598 TCACATCGGCTA-TTAGGCCTTATCA--CACATAT-ACA-CT-T--
1 TCACATTATC-ACATCGG-C-TATTAGGC-CTTATCACATATATAA
*
56501636 TCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACA
1 TCACATT-ATCACATCGGCTATTAGGCCTTATCACATATATA-A
*
56501680 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCGCATATATATACA
1 ---TCACATT-ATCACATCGGCTATTAGGCCTTAT--CACATATATA-A
*
56501729 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 ---TCACATT-ATCACATCGGCTATTAGGCCTTATCACATATATA-A
*
56501776 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACA
1 ---TCACATT-ATCACATCGGCTATTAGGCCTTATCACATATATA-A
*
56501823 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 ---TCACATT-ATCACATCGGCTATTAGGCCTTATCACATATATA
56501868 CACTTTCTTG
Statistics
Matches: 345, Mismatches: 28, Indels: 50
0.82 0.07 0.12
Matches are distributed among these distances:
33 1 0.00
34 7 0.02
37 5 0.01
38 15 0.04
39 17 0.05
40 4 0.01
41 6 0.02
42 3 0.01
43 2 0.01
44 2 0.01
46 1 0.00
47 238 0.69
49 44 0.13
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (42 bp):
TCACATTATCACATCGGCTATTAGGCCTTATCACATATATAA
Found at i:56501577 original size:72 final size:72
Alignment explanation
Indices: 56501500--56501650 Score: 284
Period size: 72 Copynumber: 2.1 Consensus size: 72
56501490 ATTAGGCCTT
*
56501500 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTT
56501565 CACATTC
66 CACATTC
*
56501572 ATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTT
56501637 CACATTC
66 CACATTC
56501644 ATCACAT
1 ATCACAT
56501651 CGGCTATTAG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 76 1.00
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.33
Consensus pattern (72 bp):
ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTT
CACATTC
Found at i:56501582 original size:25 final size:25
Alignment explanation
Indices: 56501547--56501602 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
56501537 ATTAGGCCTT
*
56501547 ATCACATATATACACTTTCACATTC
1 ATCACACATATACACTTTCACATTC
56501572 ATCACACATATACACTTTCACATTC
1 ATCACACATATACACTTTCACATTC
56501597 ATCACA
1 ATCACA
56501603 TCGGCTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.38, C:0.30, G:0.00, T:0.32
Consensus pattern (25 bp):
ATCACACATATACACTTTCACATTC
Found at i:56501587 original size:119 final size:119
Alignment explanation
Indices: 56501453--56501696 Score: 461
Period size: 119 Copynumber: 2.1 Consensus size: 119
56501443 ATTAGGCCTT
* *
56501453 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTT
1 ATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTT
*
56501518 CACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTC
66 CACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTC
56501572 ATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTT
1 ATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTT
56501637 CACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTC
66 CACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTC
56501691 ATCACA
1 ATCACA
56501697 TCGGCTATTA
Statistics
Matches: 122, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
119 122 1.00
ACGTcount: A:0.32, C:0.29, G:0.07, T:0.33
Consensus pattern (119 bp):
ATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTT
CACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTC
Found at i:56501623 original size:47 final size:47
Alignment explanation
Indices: 56501572--56501874 Score: 534
Period size: 47 Copynumber: 6.4 Consensus size: 47
56501562 TTTCACATTC
56501572 ATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
1 ATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
56501619 ATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
1 ATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
56501666 ATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
1 ATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
* * *
56501713 ATCGCATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 AT--CACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
*
56501762 ATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
1 ATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
*
56501809 ATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
*
56501856 ATCACATATATACACTTTC
1 ATCACACATATACACTTTC
56501875 TTGGCTGAAT
Statistics
Matches: 246, Mismatches: 8, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
47 202 0.82
49 44 0.18
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (47 bp):
ATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTT
Found at i:56501732 original size:143 final size:141
Alignment explanation
Indices: 56501572--56501874 Score: 543
Period size: 143 Copynumber: 2.1 Consensus size: 141
56501562 TTTCACATTC
* *
56501572 ATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTT
56501637 CACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGC
66 CACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGC
*
56501702 TATTAGGCCTT
131 CATTAGGCCTT
* *
56501713 ATCGCATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
1 AT--CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACT
56501778 TTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCG
64 TTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCG
56501843 GCCATTAGGCCTT
129 GCCATTAGGCCTT
56501856 ATCACATATATACACTTTC
1 ATCACATATATACACTTTC
56501875 TTGGCTGAAT
Statistics
Matches: 154, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
141 18 0.12
143 136 0.88
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.32
Consensus pattern (141 bp):
ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTT
CACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGC
CATTAGGCCTT
Found at i:56505461 original size:40 final size:40
Alignment explanation
Indices: 56505417--56505515 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 40
56505407 CATGATTGCT
* * *
56505417 CTTCGGGACTTAGCCCGGATTTAGTAAC-TCGCACCAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTTAGCA-CAAAGC
* * *
56505457 CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTAACTTAGCACAAAGC
56505497 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
56505516 CATCATTCGA
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
39 3 0.06
40 39 0.80
41 7 0.14
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTTAGCACAAAGC
Found at i:56509769 original size:64 final size:64
Alignment explanation
Indices: 56509693--56509821 Score: 258
Period size: 64 Copynumber: 2.0 Consensus size: 64
56509683 CTCGCACTCA
56509693 TAGTGCTCGATTAAAGGAATTCGCACACACACAGTGCCTCTAATTATTCATATACATAGTGCTC
1 TAGTGCTCGATTAAAGGAATTCGCACACACACAGTGCCTCTAATTATTCATATACATAGTGCTC
56509757 TAGTGCTCGATTAAAGGAATTCGCACACACACAGTGCCTCTAATTATTCATATACATAGTGCTC
1 TAGTGCTCGATTAAAGGAATTCGCACACACACAGTGCCTCTAATTATTCATATACATAGTGCTC
56509821 T
1 T
56509822 TATTCATTCG
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (64 bp):
TAGTGCTCGATTAAAGGAATTCGCACACACACAGTGCCTCTAATTATTCATATACATAGTGCTC
Found at i:56510377 original size:29 final size:29
Alignment explanation
Indices: 56510338--56510416 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
56510328 CTTAATAATC
*
56510338 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
56510368 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
* *
56510397 AGCCCGGACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
56510417 ATCTCACAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 3 0.07
29 37 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:56519589 original size:21 final size:22
Alignment explanation
Indices: 56519560--56519600 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
56519550 ATAGATATAA
56519560 TTATATATTAAAGA-TTATCATC
1 TTATATATTAAA-ACTTATCATC
56519582 TTAT-TATTAAAACTTATCA
1 TTATATATTAAAACTTATCA
56519601 AACAAAATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.06
21 13 0.72
22 4 0.22
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.46
Consensus pattern (22 bp):
TTATATATTAAAACTTATCATC
Found at i:56521712 original size:29 final size:29
Alignment explanation
Indices: 56521649--56521716 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
56521639 TAATCAACCG
56521649 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
56521678 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
56521707 CGCACACTTA
1 CGCACACTTA
56521717 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:56521886 original size:29 final size:29
Alignment explanation
Indices: 56521823--56521890 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
56521813 TAATCAACCG
56521823 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
56521852 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
56521881 CGCACACTTA
1 CGCACACTTA
56521891 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:56522031 original size:29 final size:29
Alignment explanation
Indices: 56521992--56522070 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 29
56521982 CTTAATAATC
* *
56521992 AACCGCGCACACTTAGTGCCATGCACTTTA
1 AACC-CGCACACTTAGTGCCATACAATTTA
* **
56522022 AACTCGCACACTTAGTGCTGTACAATTTA
1 AACCCGCACACTTAGTGCCATACAATTTA
56522051 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
56522071 ATCTCATGAC
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 38 0.93
30 3 0.07
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATACAATTTA
Found at i:56522064 original size:174 final size:174
Alignment explanation
Indices: 56521538--56522039 Score: 959
Period size: 174 Copynumber: 2.9 Consensus size: 174
56521528 AACTCAAGGT
* *
56521538 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
56521603 GAAACTATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
56521668 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
56521712 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
56521777 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
56521842 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
56521886 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAACTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
56521951 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
56522016 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
56522040 TGTACAATTT
Statistics
Matches: 323, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 323 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:56531002 original size:19 final size:20
Alignment explanation
Indices: 56530958--56531002 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
56530948 ATAATGTTCA
*
56530958 TATTTTTAACATAATTTATT
1 TATTTTTAACATAATTTAAT
56530978 TA-TTTTATA-AT-ATTTAAT
1 TATTTTTA-ACATAATTTAAT
56530996 TATTTTT
1 TATTTTT
56531003 TGACAAGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
18 8 0.36
19 11 0.50
20 3 0.14
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
TATTTTTAACATAATTTAAT
Found at i:56535680 original size:48 final size:46
Alignment explanation
Indices: 56535609--56535822 Score: 171
Period size: 46 Copynumber: 4.6 Consensus size: 46
56535599 AAGCTAACGC
* * *
56535609 CATGTGCCAGACAGGTCTTACACTAGCTCGTCTATATCAAAGACGATG
1 CATGTCCCAGACATGTCTTACACTAGCTC-TC-ATATCAAAGCCGATG
* * *
56535657 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAACGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATATCAAAGCCGATG
* * * * * * *
56535703 TATGTTCTAGACATGTCTTACACTGGCT-TAAATAT-ATTGAGTCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT-CATATCA--AAG-CCGATG
* * * **** *
56535751 CATGTCCCAGATATGTCTTACACTGGTTCTCATATTGTGGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATATCAAAGCCGATG
56535797 CATGTCCCAGACATGTCTTACACTAG
1 CATGTCCCAGACATGTCTTACACTAG
56535823 TACACACACC
Statistics
Matches: 131, Mismatches: 29, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
45 2 0.02
46 65 0.50
47 4 0.03
48 59 0.45
49 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATATCAAAGCCGATG
Found at i:56542983 original size:49 final size:49
Alignment explanation
Indices: 56542920--56543046 Score: 157
Period size: 49 Copynumber: 2.6 Consensus size: 49
56542910 TGTTGTGTGT
*
56542920 CAGTGTAAGACCTGTCTGGGACATGGCATCAACACT-GATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCAAC-CTCGATAGATGAAAGC
* * ** * *
56542969 CAGTGTAAGACCTGTCTGCGACATGGCTTCTGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCAACCTCGATAGATGAAAGC
* *
56543018 CAATGTAAGACCTGCCTGGGACATGGCAT
1 CAGTGTAAGACCTGTCTGGGACATGGCAT
56543047 TAACTTTAAT
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
48 2 0.03
49 64 0.97
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCAACCTCGATAGATGAAAGC
Found at i:56545523 original size:24 final size:25
Alignment explanation
Indices: 56545496--56545544 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
56545486 CTTTTTTTAT
*
56545496 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
56545520 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
56545545 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:56545537 original size:25 final size:23
Alignment explanation
Indices: 56545508--56545553 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
56545498 AATAAAAAAC
*
56545508 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
56545533 TTTAAAACATAAAAACAAATA
1 TTTAAAACATAAAAACAAATA
56545554 TTAAAACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:56554033 original size:6 final size:6
Alignment explanation
Indices: 56554024--56554048 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
56554014 ATGAATATAT
56554024 TAATTG TAATTG TAATTG TAATTG T
1 TAATTG TAATTG TAATTG TAATTG T
56554049 GATAATACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (6 bp):
TAATTG
Found at i:56554095 original size:26 final size:27
Alignment explanation
Indices: 56554066--56554116 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
56554056 CTTATATGTG
56554066 TAACTTCTT-AAATATATATATACACA
1 TAACTTCTTAAAATATATATATACACA
56554092 TAACTTCTTAAAATATATATATACA
1 TAACTTCTTAAAATATATATATACA
56554117 TACTTATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (27 bp):
TAACTTCTTAAAATATATATATACACA
Found at i:56558594 original size:46 final size:45
Alignment explanation
Indices: 56558544--56558719 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 45
56558534 TGGTTGAGCA
56558544 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
56558590 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * * *
56558637 TCTGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
56558683 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56558720 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
44 3 0.03
45 1 0.01
46 66 0.63
47 30 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:56558700 original size:93 final size:93
Alignment explanation
Indices: 56558541--56558712 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
56558531 GGATGGTTGA
* * *
56558541 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
56558606 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * * *
56558634 GCATCTGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATACGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
56558699 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
56558713 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:56559710 original size:46 final size:45
Alignment explanation
Indices: 56559660--56559835 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 45
56559650 TGGTTGAGCA
56559660 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
56559706 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* * * *
56559753 TCTGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
56559799 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56559836 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
44 3 0.03
45 1 0.01
46 66 0.63
47 30 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:56559816 original size:93 final size:93
Alignment explanation
Indices: 56559657--56559828 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
56559647 GGATGGTTGA
* * *
56559657 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
56559722 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * * *
56559750 GCATCTGAGCTCGTTGAGTTGAGTTCGAGTTCACTTATGGATACGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
56559815 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
56559829 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:56562773 original size:15 final size:15
Alignment explanation
Indices: 56562753--56562830 Score: 88
Period size: 15 Copynumber: 5.2 Consensus size: 15
56562743 CATAGTATCG
*
56562753 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTT
*
56562768 TATCTTGGATCTCTT
1 TATCTTGGATTTCTT
56562783 TAT-TCTGGATTTCTT
1 TATCT-TGGATTTCTT
* *
56562798 TAT-TCTGGGTTTCTC
1 TATCT-TGGATTTCTT
56562813 TATCTTGGATTTCTT
1 TATCTTGGATTTCTT
56562828 TAT
1 TAT
56562831 TCGGTTTTCT
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
14 1 0.02
15 52 0.96
16 1 0.02
ACGTcount: A:0.12, C:0.15, G:0.15, T:0.58
Consensus pattern (15 bp):
TATCTTGGATTTCTT
Found at i:56565272 original size:46 final size:46
Alignment explanation
Indices: 56565222--56565397 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
56565212 TGGTTGAGCA
56565222 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * *
56565268 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA--
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
*
56565315 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
56565361 CCCGAGCTCGCTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56565398 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.61
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:56565378 original size:93 final size:93
Alignment explanation
Indices: 56565219--56565390 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
56565209 GGATGGTTGA
* *
56565219 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGCTGAGT
56565284 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
56565312 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGCTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGCTGAGT
*
56565377 TGAGTCTGAGTTCG
66 TGAGTCCGAGTTCG
56565391 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGCTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:56567930 original size:17 final size:17
Alignment explanation
Indices: 56567893--56567931 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
56567883 CACATTTATT
* *
56567893 ATGTTGAATACTCAACC
1 ATGTCGAATACTCAACA
*
56567910 ATGTCGAATACTCAATA
1 ATGTCGAATACTCAACA
56567927 ATGTC
1 ATGTC
56567932 ACAATTTGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.31
Consensus pattern (17 bp):
ATGTCGAATACTCAACA
Found at i:56574455 original size:31 final size:32
Alignment explanation
Indices: 56574400--56574460 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
56574390 GAACAAAGTA
56574400 AGAAATAACATAAGAACCAAAGGGAAGACAGC
1 AGAAATAACATAAGAACCAAAGGGAAGACAGC
56574432 AGAAATAACATAAGAA-CAAAGGGAAGACA
1 AGAAATAACATAAGAACCAAAGGGAAGACA
56574461 ACTTTCGCGT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.45
32 16 0.55
ACGTcount: A:0.59, C:0.13, G:0.21, T:0.07
Consensus pattern (32 bp):
AGAAATAACATAAGAACCAAAGGGAAGACAGC
Found at i:56594079 original size:23 final size:22
Alignment explanation
Indices: 56594026--56594090 Score: 78
Period size: 23 Copynumber: 2.9 Consensus size: 22
56594016 GTTTTAAAAT
* *
56594026 TTGGGCTCAGGTAGTTTTA-GGA
1 TTGGGCT-AGGTTGGTTTAGGGA
*
56594048 TTAGGCTAGGTTGGTTTAGGGTA
1 TTGGGCTAGGTTGGTTTAGGG-A
56594071 TTGGGCTAGGTTGGTTTAGG
1 TTGGGCTAGGTTGGTTTAGG
56594091 CTTGGTTTAG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 9 0.24
22 8 0.22
23 20 0.54
ACGTcount: A:0.15, C:0.06, G:0.40, T:0.38
Consensus pattern (22 bp):
TTGGGCTAGGTTGGTTTAGGGA
Found at i:56596317 original size:27 final size:26
Alignment explanation
Indices: 56596286--56596463 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 26
56596276 TAAATTGTAC
56596286 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
56596313 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
* *
56596339 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
56596367 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGA-T-TGACTATGT
* *
56596395 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
56596422 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
56596449 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56596464 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 102 0.80
28 25 0.20
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:56596402 original size:82 final size:81
Alignment explanation
Indices: 56596287--56596442 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
56596277 AAATTGTACA
* * *
56596287 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
56596351 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
56596368 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
56596433 TGCGAGTTGA
65 TGCGAATTGA
56596443 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 17 0.26
82 48 0.73
83 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:56596454 original size:82 final size:81
Alignment explanation
Indices: 56596283--56596463 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
56596273 GATTAAATTG
* * *
56596283 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
56596348 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
56596364 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
56596428 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
56596446 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
56596464 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 20 0.24
82 63 0.76
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:56596474 original size:27 final size:27
Alignment explanation
Indices: 56596368--56596474 Score: 79
Period size: 27 Copynumber: 3.9 Consensus size: 27
56596358 TGACCATGCG
* * *
56596368 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
** * * **
56596396 GCACTAAGTGTGCGATTTGATTACGTA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
56596423 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
56596450 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
56596475 CATTCGTGAA
Statistics
Matches: 67, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
27 52 0.78
28 15 0.22
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:56598016 original size:44 final size:44
Alignment explanation
Indices: 56597866--56598478 Score: 426
Period size: 44 Copynumber: 13.9 Consensus size: 44
56597856 CGCCATCGTC
* * * * * *
56597866 GATCTGCTTTCTTCGATCTACTTTACCACCAGTATGGGAAGACAG
1 GATCTGCTATCTGCGATCTACTTCA-CACCAATATAGGAAGACAA
* * * * * *
56597911 GATCTGC-GTC-GTCGATCCACTTC-CAATCATTATAGGAAGATAG
1 GATCTGCTATCTG-CGATCTACTTCAC-ACCAATATAGGAAGACAA
* * ** * * * *
56597954 GACCTGTTATCTTTGATCTACTTCACGCCAATACATGAAAACAA
1 GATCTGCTATCTGCGATCTACTTCACACCAATATAGGAAGACAA
* * * *
56597998 GATCTGCTTTCTGCGATCTACTTCGCCATCAATATGGGAAGACAA
1 GATCTGCTATCTGCGATCTACTTC-ACACCAATATAGGAAGACAA
*
56598043 GATCTGC-ATCTTG-GATCCACTTC-CTACCAATATAGGAAGACAA
1 GATCTGCTATC-TGCGATCTACTTCAC-ACCAATATAGGAAGACAA
* * ** * * *
56598086 GACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTGCGATCTACTTCACACCAATATAGGAAGACAA
* * *
56598130 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTATCTGCGATCTACTTC-ACACCAATATAGGAAGACAA
*
56598175 GATCTGC-ATCTTG-GATCCACTTC-CTACCAATATAGGAAGACAA
1 GATCTGCTATC-TGCGATCTACTTCAC-ACCAATATAGGAAGACAA
* * ** * * *
56598218 GACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTGCGATCTACTTCACACCAATATAGGAAGACAA
* * *
56598262 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAA
1 GATCTGCTATCTGCGATCTACTTC-ACACCAATATAGGAAGACAA
* * *
56598307 GATCTGC-ATC-GTCGATCCACCTC-CTACCAATATAGGAAGATAA
1 GATCTGCTATCTG-CGATCTACTTCAC-ACCAATATAGGAAGACAA
* * ** * * *
56598350 GACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGACAA
1 GATCTGCTATCTGCGATCTACTTCACACCAATATAGGAAGACAA
* * * * *
56598394 GATCTGCTTTCTACGATCTACTTCGCCCCCAATATGGGAAGACAA
1 GATCTGCTATCTGCGATCTACTTC-ACACCAATATAGGAAGACAA
** *
56598439 GATCTGC-ATCTTTGATCCACTTC-CTACCAATATAGGAAGA
1 GATCTGCTATCTGCGATCTACTTCAC-ACCAATATAGGAAGA
56598479 TAGGATATGT
Statistics
Matches: 437, Mismatches: 106, Indels: 52
0.73 0.18 0.09
Matches are distributed among these distances:
42 5 0.01
43 99 0.23
44 232 0.53
45 101 0.23
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (44 bp):
GATCTGCTATCTGCGATCTACTTCACACCAATATAGGAAGACAA
Found at i:56598479 original size:132 final size:132
Alignment explanation
Indices: 56597866--56598480 Score: 1014
Period size: 132 Copynumber: 4.7 Consensus size: 132
56597856 CGCCATCGTC
* ** * * * *
56597866 GATCTGCTTTCTTCGATCTACTTTACCACCAGTATGGGAAGACAGGATCTGCGTCGTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
* * * * ** *
56597931 TTCCAATCATTATAGGAAGATAGGACCTGTTATCTTTGATCTACTTCACGCCAATACATGAAAAC
66 TTCCTACCAATATAGGAAGATAAGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGAC
56597996 AA
131 AA
* *
56597998 GATCTGCTTTCTGCGATCTACTTCGCCATCAATATGGGAAGACAAGATCTGCATCTTGGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
56598063 TTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAAGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGAC
56598128 AA
131 AA
*
56598130 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTGGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
56598195 TTCCTACCAATATAGGAAGACAAGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAAGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGAC
56598260 AA
131 AA
*
56598262 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCGTCGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
*
56598327 CTCCTACCAATATAGGAAGATAAGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGAC
66 TTCCTACCAATATAGGAAGATAAGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGAC
56598392 AA
131 AA
* * *
56598394 GATCTGCTTTCTACGATCTACTTCGCCCCCAATATGGGAAGACAAGATCTGCATCTTTGATCCAC
1 GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
56598459 TTCCTACCAATATAGGAAGATA
66 TTCCTACCAATATAGGAAGATA
56598481 GGATATGTTC
Statistics
Matches: 456, Mismatches: 27, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 456 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (132 bp):
GATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCAC
TTCCTACCAATATAGGAAGATAAGACCTACTATCTTTGATCTACTTCACGCCAATACATGAAGAC
AA
Found at i:56599353 original size:10 final size:10
Alignment explanation
Indices: 56599338--56599364 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
56599328 GGCCTCTCCC
56599338 TTTTTTTTGT
1 TTTTTTTTGT
56599348 TTTTTTTTGT
1 TTTTTTTTGT
56599358 TTTTTTT
1 TTTTTTT
56599365 AGGCAAAGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (10 bp):
TTTTTTTTGT
Found at i:56622763 original size:12 final size:13
Alignment explanation
Indices: 56622748--56622779 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
56622738 ATAACACATT
56622748 TCAAAAC-ATGCA
1 TCAAAACTATGCA
56622760 TCAAAACTATGCA
1 TCAAAACTATGCA
56622773 -CAAAACT
1 TCAAAACT
56622780 TAACATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:56625313 original size:48 final size:48
Alignment explanation
Indices: 56625255--56625347 Score: 152
Period size: 48 Copynumber: 1.9 Consensus size: 48
56625245 ATCGGCTACG
*
56625255 AGATGTGTCAGAGTAAGACCATGTT-TGGGACATGGCATCGTCACGTAT
1 AGATGTGTCAGAGTAAGACCAT-TTCTGGGACATGGCATCGGCACGTAT
*
56625303 AGATGTGTCAGTGTAAGACCATTTCTGGGACATGGCATCGGCACG
1 AGATGTGTCAGAGTAAGACCATTTCTGGGACATGGCATCGGCACG
56625348 GATATGTGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
47 2 0.05
48 40 0.95
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (48 bp):
AGATGTGTCAGAGTAAGACCATTTCTGGGACATGGCATCGGCACGTAT
Found at i:56625382 original size:50 final size:47
Alignment explanation
Indices: 56625267--56625385 Score: 141
Period size: 48 Copynumber: 2.4 Consensus size: 47
56625257 ATGTGTCAGA
* * * *
56625267 GTAAGACCATGTTTGGGACATGGCATCGTCACGTATAGATGTGTCAGT
1 GTAAGACCAT-TTTGGGACATGGCATCGGCACGGATAGATGAGGCAGT
56625315 GTAAGACCATTTCTGGGACATGGCATCGGCACGGATATG-TGAGAGCTAGT
1 GTAAGACCATTT-TGGGACATGGCATCGGCACGGATA-GATGAG-GC-AGT
56625365 GTAAGACCATATTTGGGACAT
1 GTAAGACCAT-TTTGGGACAT
56625386 AGCGTCAGCC
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
47 2 0.03
48 35 0.56
49 2 0.03
50 21 0.34
51 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (47 bp):
GTAAGACCATTTTGGGACATGGCATCGGCACGGATAGATGAGGCAGT
Found at i:56631236 original size:20 final size:20
Alignment explanation
Indices: 56631186--56631236 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
56631176 GTATGGTCTC
56631186 ACAC-CCCGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGGG
*
56631205 ACACGCCAGTGTGGCTTGGG
1 ACACGCCCGTGTGGCTTGGG
*
56631225 ACATGCCCGTGT
1 ACACGCCCGTGT
56631237 CCTTAGCCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.14, C:0.29, G:0.35, T:0.22
Consensus pattern (20 bp):
ACACGCCCGTGTGGCTTGGG
Found at i:56635380 original size:16 final size:16
Alignment explanation
Indices: 56635359--56635391 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
56635349 TCGATTGAAG
*
56635359 CTAAGGTTTGGTTGCC
1 CTAAGGTTTGATTGCC
56635375 CTAAGGTTTGATTGCC
1 CTAAGGTTTGATTGCC
56635391 C
1 C
56635392 AAGTTGCTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.15, C:0.21, G:0.27, T:0.36
Consensus pattern (16 bp):
CTAAGGTTTGATTGCC
Found at i:56647191 original size:34 final size:34
Alignment explanation
Indices: 56647144--56647220 Score: 109
Period size: 34 Copynumber: 2.3 Consensus size: 34
56647134 CCATGTGGTA
* * * *
56647144 GGCCGTGTACGATGACACGATCGTGTTATCGCAC
1 GGCCGTGTGCGATGACACGACCATGTGATCGCAC
*
56647178 GGTCGTGTGCGATGACACGACCATGTGATCGCAC
1 GGCCGTGTGCGATGACACGACCATGTGATCGCAC
56647212 GGCCGTGTG
1 GGCCGTGTG
56647221 ATGGCTAGAG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.18, C:0.26, G:0.34, T:0.22
Consensus pattern (34 bp):
GGCCGTGTGCGATGACACGACCATGTGATCGCAC
Found at i:56668687 original size:46 final size:46
Alignment explanation
Indices: 56668631--56668787 Score: 142
Period size: 46 Copynumber: 3.4 Consensus size: 46
56668621 TTGGGCATCT
* * *
56668631 GAACTTGTTGAGTTGAGTCCTAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCAAGTTCACTGATGGATGCGAATGTCC
* *
56668677 GAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCAAGTTCACTGATGGATGCGAA-T--G--TCC
* * * *
56668724 GAGCTCGTTGAGTTGAGTTCGAGTTCACTGATGGATGCGAACGTCC
1 GAACTCGTTGAGTTGAGTCCAAGTTCACTGATGGATGCGAATGTCC
* *
56668770 TAGCTCGTTGAGTTGAGT
1 GAACTCGTTGAGTTGAGT
56668788 ATGAGTTATT
Statistics
Matches: 90, Mismatches: 12, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.06
45 3 0.03
46 44 0.49
47 26 0.29
48 4 0.04
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCAAGTTCACTGATGGATGCGAATGTCC
Found at i:56673986 original size:42 final size:42
Alignment explanation
Indices: 56673931--56674063 Score: 128
Period size: 42 Copynumber: 3.2 Consensus size: 42
56673921 CTTACATGGG
* *
56673931 ATCTCATACCGATGCCAATAGCCTAGCTATGGTCTTACACG-A
1 ATCTCATAACGATGCC-ATAGCCTAGATATGGTCTTACACGAA
* * * * *
56673973 TTCTCGTATCGATGCCAT-GTCCCAGAAATGGTCTTACACGAA
1 ATCTCATAACGATGCCATAG-CCTAGATATGGTCTTACACGAA
* * *
56674015 ATCTCATAACGATGCCATATCCTAGATATGGTTTTGCACGTAA
1 ATCTCATAACGATGCCATAGCCTAGATATGGTCTTACACG-AA
56674058 A-CTCAT
1 ATCTCAT
56674064 TGCCCTAATG
Statistics
Matches: 73, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
40 1 0.01
41 19 0.26
42 50 0.68
43 3 0.04
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (42 bp):
ATCTCATAACGATGCCATAGCCTAGATATGGTCTTACACGAA
Found at i:56674007 original size:41 final size:42
Alignment explanation
Indices: 56673900--56674063 Score: 118
Period size: 42 Copynumber: 3.9 Consensus size: 42
56673890 AAGCGTACCA
* * * ** *
56673900 ATGCCATATCCCCA-ATATAGTCTTACATGGGATCTCATACCG
1 ATGCCATAT-CCCAGAAATGGTCTTACACGAAATCTCATAACG
* * ** * * *
56673942 ATGCCAATAGCCTAGCTATGGTCTTACACG-ATTCTCGTATCG
1 ATGCC-ATATCCCAGAAATGGTCTTACACGAAATCTCATAACG
*
56673984 ATGCCATGTCCCAGAAATGGTCTTACACGAAATCTCATAACG
1 ATGCCATATCCCAGAAATGGTCTTACACGAAATCTCATAACG
* * * *
56674026 ATGCCATATCCTAGATATGGTTTTGCACGTAAA-CTCAT
1 ATGCCATATCCCAGAAATGGTCTTACACG-AAATCTCAT
56674064 TGCCCTAATG
Statistics
Matches: 96, Mismatches: 22, Indels: 8
0.76 0.17 0.06
Matches are distributed among these distances:
41 19 0.20
42 59 0.61
43 18 0.19
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGAAATGGTCTTACACGAAATCTCATAACG
Found at i:56678468 original size:39 final size:40
Alignment explanation
Indices: 56678373--56678634 Score: 310
Period size: 39 Copynumber: 6.7 Consensus size: 40
56678363 TTGAATGATG
*
56678373 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
56678411 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
*
56678452 TCCGGGCTAAG-CCCGAAGGCATTTGTCCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
**
56678491 TCCGGGCTAAGT-CCGAAGGCATTTGTATGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
56678530 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
56678569 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
56678608 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
56678635 AACGAGGAGC
Statistics
Matches: 196, Mismatches: 16, Indels: 21
0.84 0.07 0.09
Matches are distributed among these distances:
39 125 0.64
40 59 0.30
41 11 0.06
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:56683533 original size:17 final size:18
Alignment explanation
Indices: 56683511--56683550 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
56683501 AGTTGTAACG
*
56683511 CCCAAAAAATCTCTAAA-
1 CCCAAAAAATCTCGAAAT
56683528 CCC-AAAAATCTCGAAAT
1 CCCAAAAAATCTCGAAAT
56683545 CCCAAA
1 CCCAAA
56683551 CTTTTTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 12 0.60
17 6 0.30
18 2 0.10
ACGTcount: A:0.50, C:0.33, G:0.03, T:0.15
Consensus pattern (18 bp):
CCCAAAAAATCTCGAAAT
Found at i:56684714 original size:16 final size:16
Alignment explanation
Indices: 56684693--56684730 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
56684683 ATGTATCGGC
*
56684693 AAAAGCCAAAATGCCG
1 AAAAGCCAAAACGCCG
56684709 AAAAGCCAAAACGCCG
1 AAAAGCCAAAACGCCG
56684725 AAAAGC
1 AAAAGC
56684731 TGAAAGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.53, C:0.26, G:0.18, T:0.03
Consensus pattern (16 bp):
AAAAGCCAAAACGCCG
Found at i:56685001 original size:29 final size:28
Alignment explanation
Indices: 56684945--56685057 Score: 118
Period size: 29 Copynumber: 4.0 Consensus size: 28
56684935 GTGAGCATGA
* * **
56684945 ATATGAATGTGACTGGGCCTAACAGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
56684973 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* *
56685002 ATATACAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* ** *
56685031 ATATGAATACGATTGGGCTTAATGGGC
1 ATATAAATGTGATTGGGCCTAATGGGC
56685058 TAGATACAGG
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 25 0.35
29 47 0.65
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.27
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:56685031 original size:58 final size:57
Alignment explanation
Indices: 56684958--56685068 Score: 141
Period size: 57 Copynumber: 1.9 Consensus size: 57
56684948 TGAATGTGAC
** *
56684958 TGGGCCTAACAGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAACAGGCCATATAAATACGA-TTGGGCCTAATGGGCCAGATACAGGTGATT
** * * *
56685016 TGGGCCTAATGGGCCATATGAATACGATTGGGCTTAATGGGCTAGATACAGGT
1 TGGGCCTAACAGGCCATATAAATACGATTGGGCCTAATGGGCCAGATACAGGT
56685069 ATGTGAAATT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 23 0.51
58 22 0.49
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (57 bp):
TGGGCCTAACAGGCCATATAAATACGATTGGGCCTAATGGGCCAGATACAGGTGATT
Found at i:56685371 original size:25 final size:26
Alignment explanation
Indices: 56685342--56685395 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
56685332 AAACCGTAAT
* * *
56685342 TAAGGG-AAAATTACTGAAATGCCCC
1 TAAGGGAAAAATGACTAAAATACCCC
56685367 TAAGGGCAAAAATGACTAAAATACCCC
1 TAAGGG-AAAAATGACTAAAATACCCC
56685394 TA
1 TA
56685396 GGTGTAGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
27 18 0.75
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.19
Consensus pattern (26 bp):
TAAGGGAAAAATGACTAAAATACCCC
Found at i:56689385 original size:27 final size:27
Alignment explanation
Indices: 56689345--56689528 Score: 82
Period size: 27 Copynumber: 6.8 Consensus size: 27
56689335 GTACCCCCAG
* * *
56689345 TTTATAAAACTACCCAAATATCCTCGA
1 TTTATAGAATTACCCAAATACCCTCGA
****
56689372 TTTATAGAATTACCGTTTTACCCTCGA
1 TTTATAGAATTACCCAAATACCCTCGA
** *
56689399 TTTATAGAATTA-CCATTTTACCCTTGA
1 TTTATAGAATTACCCA-AATACCCTCGA
* ****
56689426 TTTATAGAATTATCGTTTTACCCTCGA
1 TTTATAGAATTACCCAAATACCCTCGA
* * ****
56689453 TTTACAAAATTACCGTTTTACCCTCGA
1 TTTATAGAATTACCCAAATACCCTCGA
* * ****
56689480 TTTACAGAAATACCGTTTTACCCTCGA
1 TTTATAGAATTACCCAAATACCCTCGA
* **
56689507 TTTATAAAATTACTAAAATACC
1 TTTATAGAATTACCCAAATACC
56689529 TTTAGTTAAC
Statistics
Matches: 129, Mismatches: 26, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
26 1 0.01
27 127 0.98
28 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.38
Consensus pattern (27 bp):
TTTATAGAATTACCCAAATACCCTCGA
Found at i:56689394 original size:54 final size:54
Alignment explanation
Indices: 56689345--56689519 Score: 226
Period size: 54 Copynumber: 3.2 Consensus size: 54
56689335 GTACCCCCAG
* ** *
56689345 TTTATAAAACTACCCAAATATCCTCGATTTATAGAATTACCGTTTTACCCTCGA
1 TTTATAAAATTACCCATTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGA
* * *
56689399 TTTATAGAATTA-CCATTTTACCCTTGATTTATAGAATTATCGTTTTACCCTCGA
1 TTTATAAAATTACCCA-TTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGA
* ** * *
56689453 TTTACAAAATTACCGTTTTACCCTCGATTTACAGAAATACCGTTTTACCCTCGA
1 TTTATAAAATTACCCATTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGA
56689507 TTTATAAAATTAC
1 TTTATAAAATTAC
56689520 TAAAATACCT
Statistics
Matches: 103, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
53 3 0.03
54 99 0.96
55 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (54 bp):
TTTATAAAATTACCCATTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGA
Found at i:56689451 original size:81 final size:81
Alignment explanation
Indices: 56689366--56689518 Score: 243
Period size: 81 Copynumber: 1.9 Consensus size: 81
56689356 ACCCAAATAT
* * * * *
56689366 CCTCGATTTATAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCTTGATTTAT
1 CCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAAATACCATTTTACCCTCGATTTAT
*
56689431 AGAATTATCGTTTTAC
66 AAAATTATCGTTTTAC
*
56689447 CCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAAATACCGTTTTACCCTCGATTTAT
1 CCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAAATACCATTTTACCCTCGATTTAT
56689512 AAAATTA
66 AAAATTA
56689519 CTAAAATACC
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 65 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (81 bp):
CCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAAATACCATTTTACCCTCGATTTAT
AAAATTATCGTTTTAC
Found at i:56689583 original size:81 final size:80
Alignment explanation
Indices: 56689500--56689666 Score: 199
Period size: 81 Copynumber: 2.1 Consensus size: 80
56689490 TACCGTTTTA
** *
56689500 CCCTCGATTTATAAAATTACTAAAATACCTTTAGTTAACAAAATTTCCAAAATACCCTCGATCAG
1 CCCT-GATTTATAAAATTACTAAAATACCCCTAGTTAACAAAATTACCAAAATACCCTCGATCAG
56689565 TAAAATTACCAAAATAC
65 TAAAA-TACCAAAATAC
* * * * * * **
56689582 CCCTGGTTTGTAAAATTACTAAAATACCCCTAGTTTATAAAATTACTAAAATACCCTTGATTTGT
1 CCCTGATTTATAAAATTACTAAAATACCCCTAGTTAACAAAATTACCAAAATACCCTCGATCAGT
*
56689647 AAAATACCGAAATAC
66 AAAATACCAAAATAC
*
56689662 TCCTG
1 CCCTG
56689667 TAGGGTAGAA
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 14 0.19
81 54 0.75
82 4 0.06
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (80 bp):
CCCTGATTTATAAAATTACTAAAATACCCCTAGTTAACAAAATTACCAAAATACCCTCGATCAGT
AAAATACCAAAATAC
Found at i:56689646 original size:54 final size:53
Alignment explanation
Indices: 56689498--56689661 Score: 152
Period size: 54 Copynumber: 3.1 Consensus size: 53
56689488 AATACCGTTT
* * *** *
56689498 TACCCTCGATTTATAAAATTACTAAAATA-CCTTTAGTTAACAAAATTTCCAAAA
1 TACCCTAG-TTTATAAAATTACTAAAATACCCTTGA-TTTGTAAAATTACCAAAA
* * * * * * *
56689552 TACCCTCGATCAGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 TACCCTAGTTTA-TAAAATTACTAAAATACCCTTGATTTGTAAAATTACCAAAA
*
56689606 TACCCCTAGTTTATAAAATTACTAAAATACCCTTGATTTGTAAAA-TACCGAAA
1 TA-CCCTAGTTTATAAAATTACTAAAATACCCTTGATTTGTAAAATTACCAAAA
56689659 TAC
1 TAC
56689662 TCCTGTAGGG
Statistics
Matches: 88, Mismatches: 19, Indels: 8
0.77 0.17 0.07
Matches are distributed among these distances:
52 1 0.01
53 10 0.11
54 67 0.76
55 10 0.11
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (53 bp):
TACCCTAGTTTATAAAATTACTAAAATACCCTTGATTTGTAAAATTACCAAAA
Found at i:56689649 original size:27 final size:27
Alignment explanation
Indices: 56689498--56689651 Score: 134
Period size: 27 Copynumber: 5.7 Consensus size: 27
56689488 AATACCGTTT
*
56689498 TACCCTCGATTTATAAAATTACTAAAA
1 TACCCTTGATTTATAAAATTACTAAAA
* * * * *
56689525 TA-CCTTTAGTTAACAAAATTTCCAAAA
1 TACCCTTGA-TTTATAAAATTACTAAAA
* * *
56689552 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTTGATTTA-TAAAATTACTAAAA
* * *
56689579 TACCCCTGGTTTGTAAAATTACTAAAA
1 TACCCTTGATTTATAAAATTACTAAAA
*
56689606 TACCCCT-AGTTTATAAAATTACTAAAA
1 TACCCTTGA-TTTATAAAATTACTAAAA
*
56689633 TACCCTTGATTTGTAAAAT
1 TACCCTTGATTTATAAAAT
56689652 ACCGAAATAC
Statistics
Matches: 100, Mismatches: 21, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
26 6 0.06
27 88 0.88
28 6 0.06
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.32
Consensus pattern (27 bp):
TACCCTTGATTTATAAAATTACTAAAA
Found at i:56689659 original size:26 final size:27
Alignment explanation
Indices: 56689539--56689666 Score: 127
Period size: 27 Copynumber: 4.8 Consensus size: 27
56689529 TTTAGTTAAC
* **
56689539 AAAATTTCCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCCT-GATTTGT
*
56689566 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* *
56689593 AAAATTACTAAAATACCCCT-AGTTTAT
1 AAAATTACCAAAATACCCCTGA-TTTGT
* *
56689620 AAAATTACTAAAATACCCTTGATTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* *
56689647 AAAA-TACCGAAATACTCCTG
1 AAAATTACCAAAATACCCCTG
56689667 TAGGGTAGAA
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
26 12 0.14
27 68 0.80
28 5 0.06
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:56689695 original size:27 final size:27
Alignment explanation
Indices: 56689651--56689868 Score: 283
Period size: 27 Copynumber: 8.1 Consensus size: 27
56689641 ATTTGTAAAA
*
56689651 TACCGAAATACTCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * *
56689678 TACTGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAT
56689705 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* *
56689732 TACTGAAATACCCCTGTAAGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
** *
56689759 TACTAAAATACCCCTGTAGGGCAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * *
56689786 TACCGAAATACCCTTGTAGGGTAAAAA
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
56689813 TACCAAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * * *
56689840 TACCGAGATACCCATGTGGGGTAAAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
56689867 TA
1 TA
56689869 TCATTTTGCC
Statistics
Matches: 164, Mismatches: 27, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 164 1.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
TACCGAAATACCCCTGTAGGGTAGAAT
Found at i:56689721 original size:54 final size:53
Alignment explanation
Indices: 56689622--56689866 Score: 303
Period size: 54 Copynumber: 4.6 Consensus size: 53
56689612 TAGTTTATAA
* ** * *
56689622 AATTACTAAAATACCCTTG-ATTTGTAAAATACCGAAATACTCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTA-GGGTAAAATACCAAAATACCCCTGTAGGGTAG
*
56689675 AATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTA-AAATACCAAAATACCCCTGTAGGGTAG
* * * * *
56689729 AATTACTGAAATACCCCTGTAAGGTAGAATTACTAAAATACCCCTGTAGGGCAG
1 AATTACTGAAATACCCTTGTAGGGTA-AAATACCAAAATACCCCTGTAGGGTAG
*
56689783 AATTACCGAAATACCCTTGTAGGGTAAAAATACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGT-AAAATACCAAAATACCCCTGTAGGGTAG
* * * *
56689837 AATTACCGAGATACCCATGTGGGGTAAAAT
1 AATTACTGAAATACCCTTGTAGGGTAAAAT
56689867 TATCATTTTG
Statistics
Matches: 170, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
53 26 0.15
54 143 0.84
55 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (53 bp):
AATTACTGAAATACCCTTGTAGGGTAAAATACCAAAATACCCCTGTAGGGTAG
Found at i:56690107 original size:25 final size:25
Alignment explanation
Indices: 56690073--56690167 Score: 163
Period size: 25 Copynumber: 3.8 Consensus size: 25
56690063 AGGAAGTGCT
56690073 AAAAGGGCTTTGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTATCG
*
56690098 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCG
*
56690123 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCG
*
56690148 AAAAGGACTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
56690168 ATTAAAAGAG
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 66 1.00
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCG
Found at i:56692231 original size:29 final size:29
Alignment explanation
Indices: 56692145--56692221 Score: 145
Period size: 29 Copynumber: 2.7 Consensus size: 29
56692135 TGAATGTCAC
*
56692145 TGGGCCTAACGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
56692174 TGGGCCTAATGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATAAATGTGATT
56692203 TGGGCCTAATGGGCCATAT
1 TGGGCCTAATGGGCCATAT
56692222 GAATACGATT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATAAATGTGATT
Found at i:56693153 original size:15 final size:15
Alignment explanation
Indices: 56693120--56693159 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
56693110 AGGCTTCCTT
*
56693120 ATTATTATTATTTGG
1 ATTATTATTATTTGC
*
56693135 ATTATTATTATTTTC
1 ATTATTATTATTTGC
*
56693150 ATTATAATTA
1 ATTATTATTA
56693160 CGAGAAGTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (15 bp):
ATTATTATTATTTGC
Found at i:56693359 original size:17 final size:18
Alignment explanation
Indices: 56693326--56693360 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
56693316 GTTTAAGAAG
56693326 GGTTTTCAATGAAAACAC
1 GGTTTTCAATGAAAACAC
*
56693344 GGTTTTCACT-AAAACAC
1 GGTTTTCAATGAAAACAC
56693361 TTCAATGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAC
Found at i:56697973 original size:52 final size:52
Alignment explanation
Indices: 56697890--56698000 Score: 195
Period size: 52 Copynumber: 2.1 Consensus size: 52
56697880 AACGCAAACA
*
56697890 CAATGGCGGCTAGCTCCAAATCATGTGTTGGATAATTTTTCTCATGCGGTTT
1 CAATTGCGGCTAGCTCCAAATCATGTGTTGGATAATTTTTCTCATGCGGTTT
* *
56697942 CAGTTGCGGCTAGCTGCAAATCATGTGTTGGATAATTTTTCTCATGCGGTTT
1 CAATTGCGGCTAGCTCCAAATCATGTGTTGGATAATTTTTCTCATGCGGTTT
56697994 CAATTGC
1 CAATTGC
56698001 CTTGAGGCAT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (52 bp):
CAATTGCGGCTAGCTCCAAATCATGTGTTGGATAATTTTTCTCATGCGGTTT
Found at i:56699918 original size:12 final size:13
Alignment explanation
Indices: 56699903--56699934 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
56699893 ATAACACATT
56699903 TCAAAAC-ATGCA
1 TCAAAACTATGCA
56699915 TCAAAACTATGCA
1 TCAAAACTATGCA
56699928 -CAAAACT
1 TCAAAACT
56699935 TAACATTTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Done.