Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 178 of 349
Found at i:57662418 original size:40 final size:40
Alignment explanation
Indices: 57662288--57662582 Score: 360
Period size: 40 Copynumber: 7.4 Consensus size: 40
57662278 ATATTTGATG
* *
57662288 TGTATCTGGGCTTAAAGACTCGCAGGCTTCGTGCTGGAAT
1 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
* ** *
57662328 TGTATCCGGACTT-AAGGTCCTCAGGCTTCGTGCTGGAAT
1 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
* * * *
57662367 TGTATCCGGGCTTAAAGACCCGCAGGATTTGTACTGAAAT
1 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
* * *
57662407 TGTATCAGGGCTTAAAGACCCACAGGCTTCGTGATGGAAT
1 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
* * *
57662447 TGTATCCGAGCTTAAAGACCCGCAGGCTTCGTGTTGAAAT
1 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
* *
57662487 TGTATCAGGGCTTAAAGACCCACAGGCTTCGTGCTGGAAT
1 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
* * * *
57662527 TGTATCCGGACTT-AAGATCCGCAGGCTTCGTGCTGGTAC
1 TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
* *
57662566 TGTATCTGGACTTAAAG
1 TGTATCCGGGCTTAAAG
57662583 TCTGTAGGCT
Statistics
Matches: 215, Mismatches: 38, Indels: 4
0.84 0.15 0.02
Matches are distributed among these distances:
39 68 0.32
40 147 0.68
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAAT
Found at i:57662592 original size:39 final size:39
Alignment explanation
Indices: 57662288--57662624 Score: 219
Period size: 40 Copynumber: 8.5 Consensus size: 39
57662278 ATATTTGATG
* * * * *
57662288 TGTATCTGGGCTTAAAGACTCGCAGGCTTCGTGCTGGAAT
1 TGTATCCGGACTTAAAGTC-CGCAGGCTTCGTGCTGGTAC
* * * *
57662328 TGTATCCGGACTTAAGGTCCTCAGGCTTCGTGCTGGAAT
1 TGTATCCGGACTTAAAGTCCGCAGGCTTCGTGCTGGTAC
* * * * * ** *
57662367 TGTATCCGGGCTTAAAGACCCGCAGGATTTGTACTGAAAT
1 TGTATCCGGACTTAAAG-TCCGCAGGCTTCGTGCTGGTAC
* * * * * * *
57662407 TGTATCAGGGCTTAAAGACCCACAGGCTTCGTGATGGAAT
1 TGTATCCGGACTTAAAG-TCCGCAGGCTTCGTGCTGGTAC
* * ** *
57662447 TGTATCC-GAGCTTAAAGACCCGCAGGCTTCGTGTTGAAAT
1 TGTATCCGGA-CTTAAAG-TCCGCAGGCTTCGTGCTGGTAC
* * * * * *
57662487 TGTATCAGGGCTTAAAGACCCACAGGCTTCGTGCTGGAAT
1 TGTATCCGGACTTAAAG-TCCGCAGGCTTCGTGCTGGTAC
57662527 TGTATCCGGACTT-AAGATCCGCAGGCTTCGTGCTGGTAC
1 TGTATCCGGACTTAAAG-TCCGCAGGCTTCGTGCTGGTAC
* * * * *
57662566 TGTATCTGGACTTAAAGTCTGTAGGCTTTGTACTGGTAC
1 TGTATCCGGACTTAAAGTCCGCAGGCTTCGTGCTGGTAC
* *
57662605 TATATCCGGGCTTAAAGTCC
1 TGTATCCGGACTTAAAGTCC
57662625 CATAGGCTTT
Statistics
Matches: 248, Mismatches: 45, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
39 103 0.42
40 144 0.58
41 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (39 bp):
TGTATCCGGACTTAAAGTCCGCAGGCTTCGTGCTGGTAC
Found at i:57672249 original size:46 final size:46
Alignment explanation
Indices: 57672187--57672362 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 46
57672177 TATTTGGGCA
*
57672187 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAGCG
* * *** * * *
57672233 TCCAAACTCGTCGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATACGA-GCG
* *
57672280 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAGCG
* *
57672326 CCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57672363 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
46 69 0.66
47 36 0.34
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAGCG
Found at i:57672342 original size:93 final size:93
Alignment explanation
Indices: 57672183--57672354 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
57672173 GGGATATTTG
* * *
57672183 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCAAACTCGTCGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCAAACTCGTCGAG
57672248 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
57672276 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCAAACTCGTCGAG
*
57672341 TTGAGTCTGAGTTC
66 TTGAGTCCGAGTTC
57672355 ACTTATGGGC
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:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCAAACTCGTCGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:57676535 original size:27 final size:27
Alignment explanation
Indices: 57676504--57676681 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
57676494 TAAATTGTAC
57676504 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *** *
57676531 TGCACTAAGTGTGCGAAACGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57676557 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
57676585 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
57676613 AGCACTAAGTGTGTGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57676640 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
57676667 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57676682 GACTCAATAT
Statistics
Matches: 125, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
27 103 0.82
28 22 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:57676645 original size:82 final size:81
Alignment explanation
Indices: 57676505--57676660 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
57676495 AAATTGTACA
* *
57676505 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAACGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAAGTGT
57676570 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* *** *
57676586 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGTGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGAT-GCACTAAGT
*
57676650 GTGCGAGTTGA
64 GTGCGAATTGA
57676661 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 16 0.25
82 49 0.75
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:57676672 original size:82 final size:81
Alignment explanation
Indices: 57676501--57676681 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
57676491 GATTAAATTG
* *
57676501 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAACGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAA
57676566 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * *** *
57676582 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGTGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGAT-GCACT
* **
57676646 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
57676664 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
57676682 GACTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 18 0.22
82 64 0.78
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:57678646 original size:15 final size:15
Alignment explanation
Indices: 57678607--57678677 Score: 81
Period size: 15 Copynumber: 4.7 Consensus size: 15
57678597 GTATCTTGGG
*
57678607 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
57678622 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
57678637 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
57678652 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
57678667 TTTCTTTATTC
1 TTTCTTTATTC
57678678 GATTTTCTTG
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
14 2 0.04
15 41 0.91
16 2 0.04
ACGTcount: A:0.11, C:0.20, G:0.13, T:0.56
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:57678676 original size:30 final size:31
Alignment explanation
Indices: 57678598--57678677 Score: 94
Period size: 30 Copynumber: 2.6 Consensus size: 31
57678588 CATAGTATCG
* *
57678598 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCCTGGATCTCTC
* *
57678628 TAT-TCTGGATTTCTTTATTCC-GGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCTGGATCTCTC
57678658 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
57678678 GATTTTCTTG
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 1 0.02
30 38 0.88
31 4 0.09
ACGTcount: A:0.11, C:0.19, G:0.15, T:0.55
Consensus pattern (31 bp):
TATCTTGGATTTCTTTATTCCTGGATCTCTC
Found at i:57681120 original size:46 final size:46
Alignment explanation
Indices: 57681065--57681240 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 46
57681055 TATTTGGGCA
*
57681065 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *** * * * *
57681111 TCCGAACTCGTCGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-GCG
* *
57681158 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
57681204 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57681241 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
46 72 0.67
47 36 0.33
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:57681220 original size:93 final size:93
Alignment explanation
Indices: 57681061--57681232 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
57681051 TGGATATTTG
* * *
57681061 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAGCGTCCGAACTCGTCGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTCGAG
57681126 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
57681154 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTCGAG
57681219 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
57681233 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTCGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:57686939 original size:22 final size:22
Alignment explanation
Indices: 57686913--57686986 Score: 62
Period size: 22 Copynumber: 3.2 Consensus size: 22
57686903 ATGCATATAC
57686913 GTGATAAGGCCGAATGGCCAAT
1 GTGATAAGGCCGAATGGCCAAT
* * *
57686935 GTGATGAATG-TGAACT-TCCATATGT
1 GTGAT-AAGGCCGAA-TGGCCA-A--T
57686960 GTGATAAGGCCGAATGGCCAAT
1 GTGATAAGGCCGAATGGCCAAT
57686982 GTGAT
1 GTGAT
57686987 GAATGTAAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
22 17 0.44
23 5 0.13
24 5 0.13
25 12 0.31
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.26
Consensus pattern (22 bp):
GTGATAAGGCCGAATGGCCAAT
Found at i:57687033 original size:22 final size:22
Alignment explanation
Indices: 57686959--57687033 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
57686949 CTTCCATATG
**
57686959 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGTAGAATGGCCAA
* * *
57686981 TGTGATGAATGTAAACAT-GCATATA
1 TGTGAT-AAGGTAGA-ATGGC-CA-A
57687006 TGTGATAAGGTAGAATGGCCAA
1 TGTGATAAGGTAGAATGGCCAA
57687028 TGTGAT
1 TGTGAT
57687034 GAACGTGGAA
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 13 0.32
23 9 0.22
24 11 0.28
25 7 0.17
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.27
Consensus pattern (22 bp):
TGTGATAAGGTAGAATGGCCAA
Found at i:57687056 original size:47 final size:47
Alignment explanation
Indices: 57686843--57687036 Score: 316
Period size: 47 Copynumber: 4.1 Consensus size: 47
57686833 GATTTTATGA
*
57686843 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGACCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
57686890 GATGAATGTGAACATGCATATACGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* * *
57686937 GATGAATGTGAACTTCCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* **
57686984 GATGAATGTAAACATGCATATATGTGATAAGGTAGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
57687031 GATGAA
1 GATGAA
57687037 CGTGGAAGTG
Statistics
Matches: 135, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 135 1.00
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.26
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:57687066 original size:94 final size:94
Alignment explanation
Indices: 57686843--57687076 Score: 283
Period size: 94 Copynumber: 2.5 Consensus size: 94
57686833 GATTTTATGA
* * * * * * *
57686843 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGACCAATGTGATGAATGTGAACATGCA
1 GATGAACGTGAACTTACATATGTGTGAGAAGGCCGAATGGCCAATGTGATGAATGTAAACATGCA
*
57686908 TATACGTGATAAGGCCGAATGGCCAATGT
66 TATACGTGATAAGGCAGAATGGCCAATGT
* * *
57686937 GATGAATGTGAACTTCCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTAAACATGCA
1 GATGAACGTGAACTTACATATGTGTGAGAAGGCCGAATGGCCAATGTGATGAATGTAAACATGCA
* *
57687002 TATATGTGATAAGGTAGAATGGCCAATGT
66 TATACGTGATAAGGCAGAATGGCCAATGT
* * * *
57687031 GATGAACGTGGAAGTGTATATATGTG-GCGAA-GCCGAATGGCTAATG
1 GATGAACGT-GAACT-TACATATGTGTGAGAAGGCCGAATGGCCAATG
57687077 CGAAATGTGT
Statistics
Matches: 123, Mismatches: 15, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
94 108 0.88
95 7 0.06
96 8 0.07
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (94 bp):
GATGAACGTGAACTTACATATGTGTGAGAAGGCCGAATGGCCAATGTGATGAATGTAAACATGCA
TATACGTGATAAGGCAGAATGGCCAATGT
Found at i:57687069 original size:47 final size:47
Alignment explanation
Indices: 57686843--57687076 Score: 244
Period size: 47 Copynumber: 5.0 Consensus size: 47
57686833 GATTTTATGA
* *
57686843 GATGAATGTGAACATGCATATATGT-GATAAGGCCGAATGACCAATGT
1 GATGAATGTGAA-ATGTATATATGTGGATAAGGCCGAATGGCCAATGT
* *
57686890 GATGAATGTGAACATGCATATACGT-GATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAA-ATGTATATATGTGGATAAGGCCGAATGGCCAATGT
* **
57686937 GATGAATGTGAACT-TCCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAATGTATATATGTG-GATAAGGCCGAATGGCCAATGT
* * **
57686984 GATGAATGTAAACATGCATATATGT-GATAAGGTAGAATGGCCAATGT
1 GATGAATGTGAA-ATGTATATATGTGGATAAGGCCGAATGGCCAATGT
* * ** *
57687031 GATGAACGTGGAAGTGTATATATGTGGCGAA-GCCGAATGGCTAATG
1 GATGAATGT-GAAATGTATATATGTGGATAAGGCCGAATGGCCAATG
57687077 CGAAATGTGT
Statistics
Matches: 158, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
45 5 0.03
46 1 0.01
47 140 0.89
48 6 0.04
49 6 0.04
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
GATGAATGTGAAATGTATATATGTGGATAAGGCCGAATGGCCAATGT
Found at i:57687110 original size:46 final size:46
Alignment explanation
Indices: 57687060--57687232 Score: 292
Period size: 46 Copynumber: 3.8 Consensus size: 46
57687050 ATATGTGGCG
*
57687060 AAGCCGAATGGCTAATGCGAAATGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
57687106 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
57687152 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
* * * **
57687198 AAGCTGAATGGCTAATGTGAGATATGTATGAGATG
1 AAGCCGAATGGCTAATGCGAAACGTGTATGAGATG
57687233 TGTATATATA
Statistics
Matches: 121, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 121 1.00
ACGTcount: A:0.35, C:0.09, G:0.32, T:0.24
Consensus pattern (46 bp):
AAGCCGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTA
Found at i:57688900 original size:20 final size:20
Alignment explanation
Indices: 57688871--57688912 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
57688861 CTCTGGACTA
*
57688871 AAGTATCAATAATTTTTAAC
1 AAGTACCAATAATTTTTAAC
*
57688891 AAGTACCAATAATTTTTGAC
1 AAGTACCAATAATTTTTAAC
57688911 AA
1 AA
57688913 ACAAGAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.12, G:0.07, T:0.36
Consensus pattern (20 bp):
AAGTACCAATAATTTTTAAC
Found at i:57693687 original size:23 final size:24
Alignment explanation
Indices: 57693634--57693692 Score: 84
Period size: 23 Copynumber: 2.5 Consensus size: 24
57693624 TTAGCTCGTA
*
57693634 AGAGCTTACTGTTCTCAACTCATT
1 AGAGCTTACTGTTCTCAACTCAAT
**
57693658 AGAGCTTACTGTT-TCAGTTCAAT
1 AGAGCTTACTGTTCTCAACTCAAT
57693681 AGAGCTTACTGT
1 AGAGCTTACTGT
57693693 CCACCAGTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
23 19 0.59
24 13 0.41
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.37
Consensus pattern (24 bp):
AGAGCTTACTGTTCTCAACTCAAT
Found at i:57696263 original size:37 final size:37
Alignment explanation
Indices: 57696220--57696293 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
57696210 AGAGAAAACA
57696220 AAACCCGATTCTGAAGCTAGAGGCTTTAGAAAGAGAT
1 AAACCCGATTCTGAAGCTAGAGGCTTTAGAAAGAGAT
*
57696257 AAACCCGATTCTGAAGCTAGGGGCTTTAGAAAGAGAT
1 AAACCCGATTCTGAAGCTAGAGGCTTTAGAAAGAGAT
57696294 TTTCAGGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.22
Consensus pattern (37 bp):
AAACCCGATTCTGAAGCTAGAGGCTTTAGAAAGAGAT
Found at i:57699407 original size:12 final size:13
Alignment explanation
Indices: 57699385--57699413 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
57699375 TAATTAAATG
57699385 AATTAAAAAGCCA
1 AATTAAAAAGCCA
57699398 AATT-AAAAGCCA
1 AATTAAAAAGCCA
57699410 AATT
1 AATT
57699414 TGTCCATCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.59, C:0.14, G:0.07, T:0.21
Consensus pattern (13 bp):
AATTAAAAAGCCA
Found at i:57700319 original size:42 final size:42
Alignment explanation
Indices: 57700256--57700410 Score: 143
Period size: 42 Copynumber: 3.7 Consensus size: 42
57700246 CTGAGATTAT
* **
57700256 GTGTAAGACCATGTCTGGGATATGGCATCAATATGGGACTTC
1 GTGTAAGACCATATCTGGGATATGGCATCAATATAAGACTTC
* * *
57700298 GTGTAAGACTATATCTTGGATATGGCATCAATATAAGACTTT
1 GTGTAAGACCATATCTGGGATATGGCATCAATATAAGACTTC
* * * **
57700340 GTGTAAGACCATAGCT-AGACTATTGGCATCGATACGAGA-TTAC
1 GTGTAAGACCATATCTGGGA-TA-TGGCATCAATATAAGACTT-C
* * *
57700383 ATGTAAGACCAGATCTAGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
57700411 TGGTACAGTA
Statistics
Matches: 92, Mismatches: 17, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
41 2 0.02
42 60 0.65
43 28 0.30
44 2 0.02
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCAATATAAGACTTC
Found at i:57704994 original size:13 final size:13
Alignment explanation
Indices: 57704978--57705010 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
57704968 TTTAAGTAAA
*
57704978 TTAGTTAATTAGT
1 TTAGATAATTAGT
57704991 TTAGATAATTAGT
1 TTAGATAATTAGT
57705004 TTA-ATAA
1 TTAGATAA
57705011 ACAAATCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:57706163 original size:26 final size:26
Alignment explanation
Indices: 57706122--57706174 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
57706112 AACCATCAAC
*
57706122 AATAAAACACCGGAAGATGCCTATGA
1 AATAAAACACCAGAAGATGCCTATGA
*
57706148 AATAAAACATCAGAAGATGCCTATGA
1 AATAAAACACCAGAAGATGCCTATGA
57706174 A
1 A
57706175 TTCATAGAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (26 bp):
AATAAAACACCAGAAGATGCCTATGA
Found at i:57710364 original size:14 final size:14
Alignment explanation
Indices: 57710345--57710371 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
57710335 CCTCTTATTT
57710345 TTTTATTTATTTTA
1 TTTTATTTATTTTA
57710359 TTTTATTTATTTT
1 TTTTATTTATTTT
57710372 TCTTTTTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTATTTATTTTA
Found at i:57710395 original size:17 final size:16
Alignment explanation
Indices: 57710344--57710410 Score: 57
Period size: 17 Copynumber: 4.1 Consensus size: 16
57710334 TCCTCTTATT
*
57710344 TTTTTATTTA-TTTTA
1 TTTTCATTTATTTTTA
*
57710359 TTTT-ATTTATTTTTCT
1 TTTTCATTTATTTTT-A
*
57710375 TTTTCTTTTGATTTTTA
1 TTTTCATTT-ATTTTTA
*
57710392 TTTTCATTTCAATTTTA
1 TTTTCATTT-ATTTTTA
57710409 TT
1 TT
57710411 AATTTATTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
14 5 0.12
15 8 0.19
16 4 0.10
17 19 0.45
18 6 0.14
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.76
Consensus pattern (16 bp):
TTTTCATTTATTTTTA
Found at i:57718119 original size:40 final size:41
Alignment explanation
Indices: 57717984--57718169 Score: 252
Period size: 41 Copynumber: 4.6 Consensus size: 41
57717974 TACTCGAATG
*
57717984 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* *
57718025 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGAGT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* *
57718066 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAAGCGACT
* * *
57718106 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCT-AGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
* *
57718146 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
57718170 CTTGTGCGAG
Statistics
Matches: 131, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.01
40 61 0.47
41 68 0.52
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGCGACT
Found at i:57718126 original size:81 final size:82
Alignment explanation
Indices: 57717986--57718139 Score: 249
Period size: 81 Copynumber: 1.9 Consensus size: 82
57717976 CTCGAATGAT
* * *
57717986 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCTT
1 ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCAT
*
57718051 TTGTGCTAAGCGAGTAC
66 TTATGCTAAGCGAGTAC
57718068 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCT-AGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATCCGGACTAAG-TCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
57718131 TTTATGCTA
65 TTTATGCTA
57718140 GTGACCATAT
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
81 39 0.58
82 27 0.40
83 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (82 bp):
ATCCGGACTAAGTCCCGAAGGCATTTGTGCTAAGCGACTATATCCGGGCTAAGTCCCGAAGGCAT
TTATGCTAAGCGAGTAC
Found at i:57720831 original size:28 final size:28
Alignment explanation
Indices: 57720799--57720875 Score: 109
Period size: 28 Copynumber: 2.8 Consensus size: 28
57720789 ATCTTCGATG
*
57720799 TCTCGTACACTAAGTGCCATACTCAATA
1 TCTCGCACACTAAGTGCCATACTCAATA
* *
57720827 TCTCGCACACTAAGTGCCATTCTTAATA
1 TCTCGCACACTAAGTGCCATACTCAATA
* *
57720855 TTTTGCACACTAAGTGCCATA
1 TCTCGCACACTAAGTGCCATA
57720876 TACATATATA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (28 bp):
TCTCGCACACTAAGTGCCATACTCAATA
Found at i:57720948 original size:40 final size:40
Alignment explanation
Indices: 57720884--57720959 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
57720874 TATACATATA
*
57720884 TAGCCGAAGCTATCTCCAATCGCACACTAAGTGCCACATT
1 TAGCCGAAGCTATCTCCAACCGCACACTAAGTGCCACATT
* *
57720924 TAGCCGAAGCTATTTCGC-ACCGCACAGTAAGTGCCA
1 TAGCCGAAGCTATCTC-CAACCGCACACTAAGTGCCA
57720960 TTTGTTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 31 0.97
41 1 0.03
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (40 bp):
TAGCCGAAGCTATCTCCAACCGCACACTAAGTGCCACATT
Found at i:57722938 original size:42 final size:42
Alignment explanation
Indices: 57722850--57722997 Score: 162
Period size: 42 Copynumber: 3.6 Consensus size: 42
57722840 GGATTATGTC
*
57722850 TAAGACCATATCTGGGATATGGCATCGATATGAGACTTCGTG
1 TAAGACCATATCTGGGATATGGCATCGATATGAGACTTCATG
*
57722892 TAAGACCATATCTGGGATATGGCATCGATATGAGACTTCATT
1 TAAGACCATATCTGGGATATGGCATCGATATGAGACTTCATG
* * * * * *
57722934 TAAGATCATAGCTAGGCTATTGGCATCAATACGAGA-TTACATG
1 TAAGACCATATCTGGGATA-TGGCATCGATATGAGACTT-CATG
*
57722977 T-AG--C-TATCTGAGATATGGCAT
1 TAAGACCATATCTGGGATATGGCAT
57722998 TGGTATGGTA
Statistics
Matches: 91, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
38 6 0.07
39 7 0.08
40 1 0.01
42 59 0.65
43 18 0.20
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (42 bp):
TAAGACCATATCTGGGATATGGCATCGATATGAGACTTCATG
Found at i:57732270 original size:21 final size:21
Alignment explanation
Indices: 57732244--57732286 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
57732234 TGCCCTTAGC
57732244 AGAGTATGTGTAACACACCTA
1 AGAGTATGTGTAACACACCTA
57732265 AGAGTATGTGTAACACACCTA
1 AGAGTATGTGTAACACACCTA
57732286 A
1 A
57732287 CCCGTATCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.23
Consensus pattern (21 bp):
AGAGTATGTGTAACACACCTA
Found at i:57734718 original size:40 final size:40
Alignment explanation
Indices: 57734640--57734793 Score: 209
Period size: 40 Copynumber: 3.9 Consensus size: 40
57734630 AAAAGTGGCC
* * * * *
57734640 CTTCGGTACCCTTGAATGCACATCTATGCCCTTGTTTGTA
1 CTTCGATACCCCTGAATGCACATCTGTGCCCCTATTTGTA
* * * *
57734680 CTTTGATACCTCTGAATGCACATCCGTGTCCCTATTTGTA
1 CTTCGATACCCCTGAATGCACATCTGTGCCCCTATTTGTA
*
57734720 CTTCGGTACCCCTGAATGCACATCTGTGCCCCTATTTGTA
1 CTTCGATACCCCTGAATGCACATCTGTGCCCCTATTTGTA
*
57734760 CTTCGATACCCCTAAATGCACATCTGTGCCCCTA
1 CTTCGATACCCCTGAATGCACATCTGTGCCCCTA
57734794 ATTGCATTTT
Statistics
Matches: 98, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 98 1.00
ACGTcount: A:0.19, C:0.31, G:0.16, T:0.34
Consensus pattern (40 bp):
CTTCGATACCCCTGAATGCACATCTGTGCCCCTATTTGTA
Found at i:57734799 original size:20 final size:20
Alignment explanation
Indices: 57734696--57734799 Score: 68
Period size: 20 Copynumber: 5.2 Consensus size: 20
57734686 TACCTCTGAA
* * *
57734696 TGCACATCCGTGTCCCTATT
1 TGCACATCTGTGCCCCTAAT
* * * *
57734716 TGTACTTCGGTACCCCTGAA-
1 TGCACATCTGTGCCCCT-AAT
*
57734736 TGCACATCTGTGCCCCTATT
1 TGCACATCTGTGCCCCTAAT
* * * *
57734756 TGTACTTC-GATACCCCTAAA
1 TGCACATCTG-TGCCCCTAAT
57734776 TGCACATCTGTGCCCCTAAT
1 TGCACATCTGTGCCCCTAAT
57734796 TGCA
1 TGCA
57734800 TTTTGGTGCT
Statistics
Matches: 60, Mismatches: 20, Indels: 8
0.68 0.23 0.09
Matches are distributed among these distances:
19 2 0.03
20 56 0.93
21 2 0.03
ACGTcount: A:0.20, C:0.33, G:0.15, T:0.32
Consensus pattern (20 bp):
TGCACATCTGTGCCCCTAAT
Found at i:57734808 original size:20 final size:20
Alignment explanation
Indices: 57734785--57734850 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 20
57734775 ATGCACATCT
* *
57734785 GTGCCCCTAATTGCATTTTG
1 GTGCCCCTGATTGCACTTTG
* * *
57734805 GTGCTCCTGATTGCACATTC
1 GTGCCCCTGATTGCACTTTG
*
57734825 GTGCTCCTGATTGCACTTTG
1 GTGCCCCTGATTGCACTTTG
57734845 GTGCCC
1 GTGCCC
57734851 TTGTTATGCA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.12, C:0.29, G:0.23, T:0.36
Consensus pattern (20 bp):
GTGCCCCTGATTGCACTTTG
Found at i:57734814 original size:80 final size:80
Alignment explanation
Indices: 57734640--57734822 Score: 222
Period size: 80 Copynumber: 2.3 Consensus size: 80
57734630 AAAAGTGGCC
* * * * * *
57734640 CTTCGGTACCCTTGAATGCACATCTATGCCCTTGTTTGTACTTTGATACCTCTGAATGCACATCC
1 CTTCGGTACCCCTGAATGCACATCTATGCCCCTATTTGTACTTCGATACCCCTAAATGCACATCC
* * *
57734705 GTGTCCCTATTTGTA
66 GTGCCCCTAATTGCA
* *
57734720 CTTCGGTACCCCTGAATGCACATCTGTGCCCCTATTTGTACTTCGATACCCCTAAATGCACATCT
1 CTTCGGTACCCCTGAATGCACATCTATGCCCCTATTTGTACTTCGATACCCCTAAATGCACATCC
57734785 GTGCCCCTAATTGCA
66 GTGCCCCTAATTGCA
* * * * *
57734800 TTTTGGTGCTCCTGATTGCACAT
1 CTTCGGTACCCCTGAATGCACAT
57734823 TCGTGCTCCT
Statistics
Matches: 87, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
80 87 1.00
ACGTcount: A:0.19, C:0.30, G:0.16, T:0.35
Consensus pattern (80 bp):
CTTCGGTACCCCTGAATGCACATCTATGCCCCTATTTGTACTTCGATACCCCTAAATGCACATCC
GTGCCCCTAATTGCA
Found at i:57734820 original size:40 final size:40
Alignment explanation
Indices: 57734652--57734850 Score: 157
Period size: 40 Copynumber: 5.0 Consensus size: 40
57734642 TCGGTACCCT
* * ** * * * *
57734652 TGAATGCACATCTATGCCCTTGTTTGTACTTTGATACCTC
1 TGAATGCACATCTGTGCCCCTAATTGCACTTTGGTGCCCC
* * * * * *
57734692 TGAATGCACATCCGTGTCCCTATTTGTACTTCGGTACCCC
1 TGAATGCACATCTGTGCCCCTAATTGCACTTTGGTGCCCC
* * * * *
57734732 TGAATGCACATCTGTGCCCCTATTTGTACTTCGATACCCC
1 TGAATGCACATCTGTGCCCCTAATTGCACTTTGGTGCCCC
* * *
57734772 TAAATGCACATCTGTGCCCCTAATTGCATTTTGGTGCTCC
1 TGAATGCACATCTGTGCCCCTAATTGCACTTTGGTGCCCC
* * *
57734812 TGATTGCACAT-TCGTGCTCCTGATTGCACTTTGGTGCCC
1 TGAATGCACATCT-GTGCCCCTAATTGCACTTTGGTGCCC
57734851 TTGTTATGCA
Statistics
Matches: 133, Mismatches: 25, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
39 1 0.01
40 132 0.99
ACGTcount: A:0.18, C:0.29, G:0.18, T:0.35
Consensus pattern (40 bp):
TGAATGCACATCTGTGCCCCTAATTGCACTTTGGTGCCCC
Found at i:57741442 original size:14 final size:16
Alignment explanation
Indices: 57741409--57741445 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
57741399 TTTTAATTAC
*
57741409 TATTATGAGATAAAAT
1 TATTATTAGATAAAAT
57741425 TATTATTAGA-AAAA-
1 TATTATTAGATAAAAT
57741439 TATTATT
1 TATTATT
57741446 GTATGTATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 4 0.20
16 9 0.45
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (16 bp):
TATTATTAGATAAAAT
Found at i:57743753 original size:25 final size:25
Alignment explanation
Indices: 57743725--57743811 Score: 120
Period size: 25 Copynumber: 3.4 Consensus size: 25
57743715 AAGTGCAAAT
*
57743725 GGGCTATGCCCTAATTTATCGAAAA
1 GGGCTTTGCCCTAATTTATCGAAAA
*
57743750 GGGCTTTGCCCTAATTTACCGAAAA
1 GGGCTTTGCCCTAATTTATCGAAAA
* * *
57743775 GGGCTTTTGCCCCAGTTTATCAAAAA
1 GGGC-TTTGCCCTAATTTATCGAAAA
57743801 GGGCTTTGCCC
1 GGGCTTTGCCC
57743812 CAGTTATTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
25 34 0.62
26 21 0.38
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (25 bp):
GGGCTTTGCCCTAATTTATCGAAAA
Found at i:57743829 original size:24 final size:24
Alignment explanation
Indices: 57743740--57743843 Score: 70
Period size: 25 Copynumber: 4.2 Consensus size: 24
57743730 ATGCCCTAAT
* *
57743740 TTATCGAAAAG-GGCTTTGCCCTAAT
1 TTATC-AAAAGAGGCTTTGCCC-CAG
*
57743765 TTACCGAAAAG-GGCTTTTGCCCCAG
1 TTATC-AAAAGAGGC-TTTGCCCCAG
57743790 TTTATCAAAA-AGGGCTTTGCCCCAG
1 -TTATCAAAAGA-GGCTTTGCCCCAG
* **
57743815 TTATTAAAAGAGGCTAGGCCTCCAG
1 TTATCAAAAGAGGCTTTGCC-CCAG
57743840 TTAT
1 TTAT
57743844 ATGTTAAAGC
Statistics
Matches: 66, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
24 15 0.23
25 37 0.56
26 14 0.21
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
TTATCAAAAGAGGCTTTGCCCCAG
Found at i:57744113 original size:31 final size:31
Alignment explanation
Indices: 57744034--57744119 Score: 147
Period size: 31 Copynumber: 2.8 Consensus size: 31
57744024 TATTGTTACA
*
57744034 GTAAAGGCTTCGGCCCAATGATATGAATAAT
1 GTAAAGGCTTCGGCCCAGTGATATGAATAAT
*
57744065 GAAAAGGCTTCGGCCCAGTGATATGAATAAT
1 GTAAAGGCTTCGGCCCAGTGATATGAATAAT
57744096 GTAAAGGCTTCGGCCCAGT-ATATG
1 GTAAAGGCTTCGGCCCAGTGATATG
57744120 CTGAGATTGA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 5 0.10
31 47 0.90
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (31 bp):
GTAAAGGCTTCGGCCCAGTGATATGAATAAT
Found at i:57748457 original size:18 final size:19
Alignment explanation
Indices: 57748420--57748457 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
57748410 GATTTGATAC
57748420 GATACGCACATGTTATGTAT
1 GATACGCACATG-TATGTAT
*
57748440 GATATGCACATG-ATGTAT
1 GATACGCACATGTATGTAT
57748458 TCATTTATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
20 11 0.65
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (19 bp):
GATACGCACATGTATGTAT
Found at i:57748580 original size:51 final size:50
Alignment explanation
Indices: 57748500--57748620 Score: 179
Period size: 51 Copynumber: 2.4 Consensus size: 50
57748490 GAGGAAGTGC
* * *
57748500 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTACCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCAAAAAGGGCTTTACCCCAGTTTACCA
* * *
57748550 AAAAGGGCTTTTGCCCCAGTTTATCAAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGC-TTTGCCCCAGTTTACCAAAAAGGGCTTTACCCCAGTTTACCA
57748601 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
57748621 ATTAAAAGAG
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
50 20 0.31
51 44 0.69
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (50 bp):
AAAAGGGCTTTGCCCCAGTTTACCAAAAAGGGCTTTACCCCAGTTTACCA
Found at i:57748633 original size:24 final size:25
Alignment explanation
Indices: 57748500--57748620 Score: 179
Period size: 25 Copynumber: 4.8 Consensus size: 25
57748490 GAGGAAGTGC
* * *
57748500 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
* * *
57748525 AAAAGGGCTTTACCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
57748550 AAAAGGGCTTTTGCCCCAGTTTATCA
1 AAAAGGGC-TTTGCCCCAGTTTATCA
57748576 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
57748601 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
57748621 ATTAAAAGAG
Statistics
Matches: 90, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 68 0.76
26 22 0.24
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:57748644 original size:50 final size:51
Alignment explanation
Indices: 57748500--57748645 Score: 147
Period size: 51 Copynumber: 2.9 Consensus size: 51
57748490 GAGGAAGTGC
* * * *** *
57748500 AAAAGGGC-TATGCCCCAGTTTACCGAAAAGGGCTTTACCCCAGTTTACCG
1 AAAAGGGCTTTTGCCCCAGTTTATCAAAAAGGGCTAGGCCCCAGTTTACCA
** *
57748550 AAAAGGGCTTTTGCCCCAGTTTATCAAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTTGCCCCAGTTTATCAAAAAGGGCTAGGCCCCAGTTTACCA
*
57748601 AAAAGGGC-TTTGCCCCAG-TTAT-TAAAAGAGGCTAGGCCTCCAGTT
1 AAAAGGGCTTTTGCCCCAGTTTATCAAAAAG-GGCTAGGCC-CCAGTT
57748646 ATATGTTAAA
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
48 5 0.06
49 11 0.13
50 24 0.29
51 44 0.52
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (51 bp):
AAAAGGGCTTTTGCCCCAGTTTATCAAAAAGGGCTAGGCCCCAGTTTACCA
Found at i:57748878 original size:31 final size:31
Alignment explanation
Indices: 57748840--57748914 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
57748830 TTGTTACAGT
*
57748840 AAAGGCTTCGGCGCAATGATATGAATAATGA
1 AAAGGCTTCGGCCCAATGATATGAATAATGA
* *
57748871 AAAGGCTTCGGCCCAGTGATATGAATAATGT
1 AAAGGCTTCGGCCCAATGATATGAATAATGA
57748902 AAAGGCTTCGGCC
1 AAAGGCTTCGGCC
57748915 TAGTTTATGC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATGATATGAATAATGA
Found at i:57751384 original size:64 final size:64
Alignment explanation
Indices: 57751306--57751490 Score: 196
Period size: 67 Copynumber: 2.9 Consensus size: 64
57751296 AAGACATTAT
* * *
57751306 TATGTAGCTAGGTCGTATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 TATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * *
57751370 TATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGA
57751435 TA
63 TA
* * * *
57751437 AAT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 TATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
57751491 CGAACTATAT
Statistics
Matches: 99, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.25
66 21 0.21
67 33 0.33
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (64 bp):
TATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:57754282 original size:40 final size:40
Alignment explanation
Indices: 57754120--57754270 Score: 268
Period size: 40 Copynumber: 3.8 Consensus size: 40
57754110 CGGATGATAA
57754120 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
57754160 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
*
57754200 CGGGCTAAGTCCCTAAGGCATTTGTGCGAGTTACT-ATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TC
*
57754240 CGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
57754271 AGCTATATCC
Statistics
Matches: 107, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
39 2 0.02
40 105 0.98
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTC
Found at i:57762348 original size:40 final size:40
Alignment explanation
Indices: 57762109--57762338 Score: 383
Period size: 40 Copynumber: 5.8 Consensus size: 40
57762099 GATGATAACG
*
57762109 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
57762149 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
*
57762189 GGGCTAAGTCCCGAAGGCATTTGTGAGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
57762229 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
**
57762269 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
*
57762309 GGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
57762339 AGCTATATCC
Statistics
Matches: 181, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 2 0.01
40 179 0.99
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:57763775 original size:15 final size:16
Alignment explanation
Indices: 57763757--57763786 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57763747 ATGGAAACTA
57763757 TGGTAT-ATGAAATAT
1 TGGTATAATGAAATAT
57763772 TGGTATAATGAAATA
1 TGGTATAATGAAATA
57763787 AATGATATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (16 bp):
TGGTATAATGAAATAT
Found at i:57770103 original size:43 final size:43
Alignment explanation
Indices: 57770028--57770193 Score: 169
Period size: 43 Copynumber: 3.9 Consensus size: 43
57770018 TCGTACAATA
* * *
57770028 CCAACGTCCCAGAC-GTGGTCTTACATGTAATCAAATATCGATG
1 CCAATGTCCCAGACAG-GGTCTTACACGAAATCAAATATCGATG
* * * *
57770071 CCACTGTACCAGATAGGGTCTTAGACGAAATCAAATA-CGATG
1 CCAATGTCCCAGACAGGGTCTTACACGAAATCAAATATCGATG
* * *
57770113 CCAATGTCCCAGACATGGTCTTACACGTAATCTCAA-ATCGATG
1 CCAATGTCCCAGACAGGGTCTTACACGAAATC-AAATATCGATG
* *
57770156 CCAATGTCCCAGAC-GTGGTCTTACACAAAATCACATAT
1 CCAATGTCCCAGACAG-GGTCTTACACGAAATCAAATAT
57770194 TGAAAATCCT
Statistics
Matches: 99, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
42 33 0.33
43 65 0.66
44 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (43 bp):
CCAATGTCCCAGACAGGGTCTTACACGAAATCAAATATCGATG
Found at i:57770176 original size:85 final size:85
Alignment explanation
Indices: 57770028--57770188 Score: 209
Period size: 85 Copynumber: 1.9 Consensus size: 85
57770018 TCGTACAATA
* * *
57770028 CCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTACCAGATAGGGTCTT
1 CCAACGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCAATGTACCAGATAGGGTCTT
* *
57770093 AGACGAAATCAAATACGATG
66 ACACAAAATCAAATACGATG
* * * *
57770113 CCAATGTCCCAGACATGGTCTTACACGTAATCTCAA-ATCGATGCCAATGTCCCAGA-CGTGGTC
1 CCAACGTCCCAGACATGGTCTTACACGTAATC-AAATATCGATGCCAATGTACCAGATAG-GGTC
57770176 TTACACAAAATCA
64 TTACACAAAATCA
57770189 CATATTGAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
84 1 0.02
85 62 0.95
86 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (85 bp):
CCAACGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCAATGTACCAGATAGGGTCTT
ACACAAAATCAAATACGATG
Found at i:57777645 original size:43 final size:44
Alignment explanation
Indices: 57777579--57777735 Score: 175
Period size: 43 Copynumber: 3.7 Consensus size: 44
57777569 AGCTTGTACA
* * *
57777579 ATGCCAAC-GTCCCCGACGTGGTCTTACATGTACTCAAATATCG
1 ATGCCAACTGTCCCAGACATGGTCTTACACGTACTCAAATATCG
* * *
57777622 ATGCC-ACTGTCCCAGACAGGGTCTTACACGAAATCAAATA-CG
1 ATGCCAACTGTCCCAGACATGGTCTTACACGTACTCAAATATCG
*
57777664 ATGCCGA-TGTCCCAGACATGGTCTTACACGTAATCTC-AA-ATCG
1 ATGCCAACTGTCCCAGACATGGTCTTACACGT-A-CTCAAATATCG
*
57777707 ATGCCAAC-ATCCCAGACATGGTCTTACAC
1 ATGCCAACTGTCCCAGACATGGTCTTACAC
57777736 AAAATCATAT
Statistics
Matches: 97, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
42 32 0.33
43 63 0.65
44 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.18, T:0.23
Consensus pattern (44 bp):
ATGCCAACTGTCCCAGACATGGTCTTACACGTACTCAAATATCG
Found at i:57777722 original size:85 final size:85
Alignment explanation
Indices: 57777587--57777742 Score: 210
Period size: 85 Copynumber: 1.8 Consensus size: 85
57777577 CAATGCCAAC
* * * * *
57777587 GTCCCCGACGTGGTCTTACATGTACTCAAATATCGATGCCACTGTCCCAGACAGGGTCTTACACG
1 GTCCCAGACATGGTCTTACACGTACTCAAATATCGATGCCACTATCCCAGACAGGGTCTTACACA
57777652 AAATCAAATACGATGCCGAT
66 AAATCAAATACGATGCCGAT
*
57777672 GTCCCAGACATGGTCTTACACGTAATCTC-AA-ATCGATGCCAAC-ATCCCAGACATGGTCTTAC
1 GTCCCAGACATGGTCTTACACGT-A-CTCAAATATCGATGCC-ACTATCCCAGACAGGGTCTTAC
57777734 ACAAAATCA
63 ACAAAATCA
57777743 TATATCAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
85 54 0.87
86 5 0.08
87 3 0.05
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (85 bp):
GTCCCAGACATGGTCTTACACGTACTCAAATATCGATGCCACTATCCCAGACAGGGTCTTACACA
AAATCAAATACGATGCCGAT
Found at i:57785082 original size:27 final size:26
Alignment explanation
Indices: 57785034--57785093 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
57785024 GCAAGGCTGC
* *
57785034 CAGATATTGTGATGAGGTCACCAGTTA
1 CAGATATTGTGATGAGGCCACCAG-AA
*
57785061 CAGATATTGTGGCT-AGGCCACCAGAA
1 CAGATATTGT-GATGAGGCCACCAGAA
57785087 CAGATAT
1 CAGATAT
57785094 ATATTTTTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 8 0.28
27 19 0.66
28 2 0.07
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (26 bp):
CAGATATTGTGATGAGGCCACCAGAA
Found at i:57785176 original size:26 final size:27
Alignment explanation
Indices: 57785133--57785183 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
57785123 CGAGGCTGCT
57785133 AGATATTGTGACGAAGG-CACCAGAAC
1 AGATATTGTGACGAAGGCCACCAGAAC
*
57785159 AGATATATGTGGCG-AGGCCACCAGA
1 AGATAT-TGTGACGAAGGCCACCAGA
57785184 TTGCAGTGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.35, C:0.20, G:0.29, T:0.16
Consensus pattern (27 bp):
AGATATTGTGACGAAGGCCACCAGAAC
Found at i:57788559 original size:28 final size:28
Alignment explanation
Indices: 57788528--57788581 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
57788518 GCCTTCACAA
57788528 ATGTATCACACACTAAGTGCCATCCTGG
1 ATGTATCACACACTAAGTGCCATCCTGG
* * *
57788556 ATGTCTCGCACATTAAGTGCCATCCT
1 ATGTATCACACACTAAGTGCCATCCT
57788582 CGATAATTCG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.28
Consensus pattern (28 bp):
ATGTATCACACACTAAGTGCCATCCTGG
Found at i:57788665 original size:57 final size:57
Alignment explanation
Indices: 57788536--57788665 Score: 140
Period size: 57 Copynumber: 2.3 Consensus size: 57
57788526 AAATGTATCA
* * *
57788536 CACACTAAGTGCCA-TCCTGGATGTCTCGCACATTAAGTGCCATCCTCGATAATTCG
1 CACACTAAGTGCCATTTCTGGATGTCTCGCACACTAAGTGCCATCCTCGATAACTCG
** * * * *
57788592 TTCACTAA-TAGTCATTTCTGGATGTTTTGCACACTGAGTGCCATCCTC-AGTAACTCG
1 CACACTAAGT-GCCATTTCTGGATGTCTCGCACACTAAGTGCCATCCTCGA-TAACTCG
57788649 CACACTAAGTGCCATTT
1 CACACTAAGTGCCATTT
57788666 TTCAAAATCG
Statistics
Matches: 58, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
55 1 0.02
56 10 0.17
57 46 0.79
58 1 0.02
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.31
Consensus pattern (57 bp):
CACACTAAGTGCCATTTCTGGATGTCTCGCACACTAAGTGCCATCCTCGATAACTCG
Found at i:57791866 original size:28 final size:27
Alignment explanation
Indices: 57791809--57791960 Score: 223
Period size: 27 Copynumber: 5.6 Consensus size: 27
57791799 TAAATTGTGC
* *
57791809 AGCACTAAGTGTGCGAATTGAATATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
57791836 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
57791864 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
57791891 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGT-TGACTATGT
** *
57791919 AGCACTAAGTGTGCGAGTTGTTTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
57791946 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57791961 GACTTAATAT
Statistics
Matches: 117, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 65 0.56
28 52 0.44
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:57791873 original size:55 final size:55
Alignment explanation
Indices: 57791809--57791960 Score: 232
Period size: 55 Copynumber: 2.8 Consensus size: 55
57791799 TAAATTGTGC
* *
57791809 AGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
* *
57791864 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
** * *
57791919 AGCACTAAGTGTGCGAGTTGTTTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
57791961 GACTTAATAT
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 89 1.00
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTATGT
Found at i:57800030 original size:28 final size:27
Alignment explanation
Indices: 57799970--57800124 Score: 238
Period size: 27 Copynumber: 5.7 Consensus size: 27
57799960 GTTTAAATTG
* *
57799970 TGTAGCACTAAGTGTGCGAATTGAATA
1 TGTAGCACTAAGTGTGCGAGTTGACTA
57799997 TGTAGCACTAAGTGTGCGAGTTTGACTA
1 TGTAGCACTAAGTGTGCGAG-TTGACTA
57800025 TGTAGCACTAAGTGTGCGAGTTGACTA
1 TGTAGCACTAAGTGTGCGAGTTGACTA
*
57800052 TGTAGCACTAAGTGTGCGAGTATGATTA
1 TGTAGCACTAAGTGTGCGAGT-TGACTA
*
57800080 TGTAGCACTAAGTGTGCGAGTTGATTA
1 TGTAGCACTAAGTGTGCGAGTTGACTA
* *
57800107 TATAGCACTGAGTGTGCG
1 TGTAGCACTAAGTGTGCG
57800125 GACTTAATAT
Statistics
Matches: 121, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 69 0.57
28 52 0.43
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (27 bp):
TGTAGCACTAAGTGTGCGAGTTGACTA
Found at i:57800035 original size:55 final size:55
Alignment explanation
Indices: 57799970--57800124 Score: 247
Period size: 55 Copynumber: 2.8 Consensus size: 55
57799960 GTTTAAATTG
* *
57799970 TGTAGCACTAAGTGTGCGAATTGAATATGTAGCACTAAGTGTGCGAGTTTGACTA
1 TGTAGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTA
* *
57800025 TGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTA
1 TGTAGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTA
* * *
57800080 TGTAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 TGTAGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
57800125 GACTTAATAT
Statistics
Matches: 93, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 93 1.00
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (55 bp):
TGTAGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAGTATGACTA
Found at i:57804858 original size:24 final size:24
Alignment explanation
Indices: 57804826--57804926 Score: 175
Period size: 24 Copynumber: 4.2 Consensus size: 24
57804816 AAGAGCCATA
57804826 ATCGAGAAGTTCACAAAGAACCTT
1 ATCGAGAAGTTCACAAAGAACCTT
* *
57804850 ATTGGGAAGTTCACAAAGAACCTT
1 ATCGAGAAGTTCACAAAGAACCTT
57804874 ATCGAGAAGTTCACAAAGAACCTT
1 ATCGAGAAGTTCACAAAGAACCTT
*
57804898 ATCGAGAAGTTCACAAAGAACCAT
1 ATCGAGAAGTTCACAAAGAACCTT
57804922 ATCGA
1 ATCGA
57804927 AAAACTCCGA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 72 1.00
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.21
Consensus pattern (24 bp):
ATCGAGAAGTTCACAAAGAACCTT
Found at i:57809135 original size:22 final size:21
Alignment explanation
Indices: 57809088--57809137 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
57809078 AATTAATTAG
* *
57809088 TAAAA-TAAAAATAAATAATA
1 TAAAATTAAAAATAAACAAAA
57809108 TAAAAATTAAAAATAAAACAAAA
1 T-AAAATTAAAAAT-AAACAAAA
57809131 TAAAATT
1 TAAAATT
57809138 GGGGTGTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 1 0.04
21 4 0.16
22 13 0.52
23 7 0.28
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAAATTAAAAATAAACAAAA
Found at i:57819745 original size:27 final size:26
Alignment explanation
Indices: 57819707--57819801 Score: 118
Period size: 27 Copynumber: 3.5 Consensus size: 26
57819697 AGCATGACTG
* * *
57819707 CCAGAATAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
*
57819733 CCAGATACAGATATTGTGGTAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
*
57819760 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
57819787 CCAGAAACAGATATT
1 CCAG-AACAGATATT
57819802 TTTGGCATGG
Statistics
Matches: 60, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
26 12 0.20
27 40 0.67
28 8 0.13
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:57819820 original size:28 final size:28
Alignment explanation
Indices: 57819714--57819814 Score: 109
Period size: 27 Copynumber: 3.7 Consensus size: 28
57819704 CTGCCAGAAT
* * * *
57819714 AGATA-TTGTGACAGAGTCACCAGATAC
1 AGATATTTGTGGCATAGCCACCAGAAAC
* *
57819741 AGATA-TTGTGGTAGAGCCACCAG-AAC
1 AGATATTTGTGGCATAGCCACCAGAAAC
57819767 AGATATTTGTGGCATAGCCACCAGAAAC
1 AGATATTTGTGGCATAGCCACCAGAAAC
* *
57819795 AGATATTTTTGGCATGGCCA
1 AGATATTTGTGGCATAGCCA
57819815 GTAGAACGCT
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
26 7 0.11
27 36 0.56
28 21 0.33
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.24
Consensus pattern (28 bp):
AGATATTTGTGGCATAGCCACCAGAAAC
Found at i:57821741 original size:27 final size:28
Alignment explanation
Indices: 57821687--57821747 Score: 83
Period size: 27 Copynumber: 2.2 Consensus size: 28
57821677 TTATACAATC
*
57821687 AAAA-CACAGAAATTCTAAAATTCATCA
1 AAAATCACAGAAATTCGAAAATTCATCA
57821714 AAAATCACAGAAATCTCGAAAA-TC-TCA
1 AAAATCACAGAAAT-TCGAAAATTCATCA
57821741 AAAATCA
1 AAAATCA
57821748 GGGCGTTACA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 14 0.45
28 11 0.35
29 6 0.19
ACGTcount: A:0.56, C:0.20, G:0.05, T:0.20
Consensus pattern (28 bp):
AAAATCACAGAAATTCGAAAATTCATCA
Found at i:57825706 original size:22 final size:22
Alignment explanation
Indices: 57825681--57825727 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
57825671 ATAAGCAAGT
57825681 CATTTTCGCATGGCTTTAAATA
1 CATTTTCGCATGGCTTTAAATA
57825703 CATTTTCGCATGGCTTTAAATA
1 CATTTTCGCATGGCTTTAAATA
57825725 CAT
1 CAT
57825728 ACTCATTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.40
Consensus pattern (22 bp):
CATTTTCGCATGGCTTTAAATA
Found at i:57826324 original size:21 final size:22
Alignment explanation
Indices: 57826291--57826331 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
57826281 TTCATTTATG
*
57826291 TTTCATTGGCACATA-ATCATA
1 TTTCATTGCCACATACATCATA
*
57826312 TTTCATTTCCACATACATCA
1 TTTCATTGCCACATACATCA
57826332 AAATGCATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (22 bp):
TTTCATTGCCACATACATCATA
Found at i:57826794 original size:28 final size:28
Alignment explanation
Indices: 57826763--57826819 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
57826753 CTAAGTGTTG
*
57826763 TTCTCAATATCTCGCACACT-AGGTGCCA
1 TTCTAAATATCTCGCACACTGA-GTGCCA
* *
57826791 TTCTAAATATTTCGTACACTGAGTGCCA
1 TTCTAAATATCTCGCACACTGAGTGCCA
57826819 T
1 T
57826820 ATTTGATTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.33
Consensus pattern (28 bp):
TTCTAAATATCTCGCACACTGAGTGCCA
Found at i:57833123 original size:28 final size:28
Alignment explanation
Indices: 57833091--57833161 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
57833081 CGATATTTTG
* * *
57833091 CACACTAAGTGTCATTCTTAATATCTCA
1 CACACTAAGTGCCATGCTCAATATCTCA
*
57833119 CACACTAAGTGCCATGCTCAATATTTCA
1 CACACTAAGTGCCATGCTCAATATCTCA
* *
57833147 TACACTGAGTGCCAT
1 CACACTAAGTGCCAT
57833162 ATTTGATTGC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.31
Consensus pattern (28 bp):
CACACTAAGTGCCATGCTCAATATCTCA
Found at i:57841597 original size:19 final size:19
Alignment explanation
Indices: 57841556--57841599 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
57841546 TACTGTGATG
****
57841556 ATAAATCATCAATACGTGT
1 ATAAATCATCAATACCAAA
57841575 ATAAATCATCAATACCAAA
1 ATAAATCATCAATACCAAA
57841594 ATAAAT
1 ATAAAT
57841600 TTAATTCAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.52, C:0.16, G:0.05, T:0.27
Consensus pattern (19 bp):
ATAAATCATCAATACCAAA
Found at i:57844643 original size:25 final size:24
Alignment explanation
Indices: 57844579--57844647 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 24
57844569 ATACACCTTA
*
57844579 GCTCTTATGAGCTTCCCGATATAG
1 GCTCTTATGAGCTTCCCGAAATAG
* * *
57844603 GCTCTTCGTGATCTTCCCGCTAAATTG
1 GCTCTT-ATGAGCTTCCCG--AAATAG
57844630 GCTCTT-TGAGCTTCCCGA
1 GCTCTTATGAGCTTCCCGA
57844648 CAATGCTTGC
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
23 1 0.03
24 6 0.16
25 20 0.54
27 10 0.27
ACGTcount: A:0.16, C:0.29, G:0.20, T:0.35
Consensus pattern (24 bp):
GCTCTTATGAGCTTCCCGAAATAG
Found at i:57846248 original size:27 final size:25
Alignment explanation
Indices: 57846165--57846253 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 25
57846155 ACCCCAGTTT
* *
57846165 GTAAAATTACCTAAATACCCTTGTAG
1 GTAAAATGACCT-AATACCCCTGTAG
* *
57846191 TGTAAAATGACCGTAATGCCCCTATAGG
1 -GTAAAATGACC-TAATACCCCTGTA-G
57846219 GTAAAATGACCATAATACCCCTGTATG
1 GTAAAATGACC-TAATACCCCTGTA-G
*
57846246 GTAGAATG
1 GTAAAATG
57846254 GCGATTATGC
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
27 49 0.96
28 2 0.04
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (25 bp):
GTAAAATGACCTAATACCCCTGTAG
Found at i:57859671 original size:46 final size:47
Alignment explanation
Indices: 57859603--57859774 Score: 228
Period size: 46 Copynumber: 3.7 Consensus size: 47
57859593 GCCCATAAGT
*
57859603 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCTC
57859650 GAACTC-GACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCTC
* * ***
57859696 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--TCCATAAGT-
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CTAGTTACATCTCTC
57859742 GAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC
57859775 CAAATATCCT
Statistics
Matches: 114, Mismatches: 7, Indels: 12
0.86 0.05 0.09
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 73 0.64
47 32 0.28
49 4 0.04
50 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCTC
Found at i:57862177 original size:15 final size:15
Alignment explanation
Indices: 57862155--57862231 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
57862145 AAGAAACCGA
57862155 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
57862170 ATAGAGAAA-CC-AG
1 ATAAAGAAATCCAAG
57862183 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
57862198 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
57862214 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
57862229 ATA
1 ATA
57862232 CGATACTATG
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
13 2 0.04
14 10 0.19
15 39 0.75
16 1 0.02
ACGTcount: A:0.57, C:0.14, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:57862188 original size:29 final size:29
Alignment explanation
Indices: 57862145--57862231 Score: 106
Period size: 29 Copynumber: 3.0 Consensus size: 29
57862135 CAAAGATAAC
57862145 AAGAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCAGAATAAAGAAATCCAAGATA
*
57862173 GAGAAACCAGAATAAAGAAATCC-AGAATA
1 AAGAAACCAGAATAAAGAAATCCAAG-ATA
* * *
57862202 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCAGAATAAAGAAATCCAAGATA
57862232 CGATACTATG
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
28 9 0.18
29 20 0.40
30 19 0.38
31 2 0.04
ACGTcount: A:0.57, C:0.15, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCAGAATAAAGAAATCCAAGATA
Found at i:57865244 original size:45 final size:42
Alignment explanation
Indices: 57865154--57865268 Score: 162
Period size: 45 Copynumber: 2.7 Consensus size: 42
57865144 GCCCATAAGT
57865154 GAACTCGGACTCAACTCAACGAGCTCGG-GCGTTACATCTCTC
1 GAACTC-GACTCAACTCAACGAGCTCGGAGCGTTACATCTCTC
57865196 GAACTCGACTCAACTCAACGAG-TCGGATGCCTAGTTACATCTCTC
1 GAACTCGACTCAACTCAACGAGCTCGGA-G-C--GTTACATCTCTC
*
57865241 GAACTCGACTCAACTCAACGAGTTCGGA
1 GAACTCGACTCAACTCAACGAGCTCGGA
57865269 CATTCGCATC
Statistics
Matches: 67, Mismatches: 0, Indels: 8
0.89 0.00 0.11
Matches are distributed among these distances:
40 4 0.06
41 16 0.24
42 7 0.10
43 1 0.01
45 34 0.51
46 5 0.07
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.22
Consensus pattern (42 bp):
GAACTCGACTCAACTCAACGAGCTCGGAGCGTTACATCTCTC
Found at i:57873983 original size:93 final size:93
Alignment explanation
Indices: 57873871--57874042 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
57873861 GCCCATAAGT
* *
57873871 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
57873936 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
57873964 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
57874029 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
57874043 CAAATATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:57874038 original size:46 final size:46
Alignment explanation
Indices: 57873863--57874038 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
57873853 TGTAACCCGC
* *
57873863 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
57873909 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
57873955 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
57874002 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
57874039 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:57879678 original size:43 final size:44
Alignment explanation
Indices: 57879510--57879666 Score: 166
Period size: 43 Copynumber: 3.7 Consensus size: 44
57879500 ATATCGTACA
* * * **
57879510 ATGCCAACATCCCAGACGTGGTCTTAC-TTGCAATCACATATAA
1 ATGCCAACGTCCCAGACATGGTCTTACATCGCAATCACATATCG
*
57879553 ATGCC-ACTGTCCCAGACATGGTCTTACA-CG-AATCAAATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACATCGCAATCACATATCG
* * *
57879594 ATGCCAATGTCCCAGACATGGTTTTACAT-GTAATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATCGCAATCACATATCG
*
57879637 ATGCCAACGTCCCAGACGTGGTCTTA-ATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATCG
57879667 AGAACACATA
Statistics
Matches: 95, Mismatches: 12, Indels: 14
0.79 0.10 0.12
Matches are distributed among these distances:
41 25 0.26
42 21 0.22
43 49 0.52
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACATGGTCTTACATCGCAATCACATATCG
Found at i:57880719 original size:56 final size:56
Alignment explanation
Indices: 57880644--57880753 Score: 193
Period size: 56 Copynumber: 2.0 Consensus size: 56
57880634 TTACCGTCCA
* * *
57880644 TTACATGCTATCATGGACAAATTGCAACTTAAACACCTCAAATTACAAAGACAAAC
1 TTACATCCTATCATCGACAAATTGCAACTTAAACACATCAAATTACAAAGACAAAC
57880700 TTACATCCTATCATCGACAAATTGCAACTTAAACACATCAAATTACAAAGACAA
1 TTACATCCTATCATCGACAAATTGCAACTTAAACACATCAAATTACAAAGACAA
57880754 TCACAATTCG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.45, C:0.24, G:0.07, T:0.24
Consensus pattern (56 bp):
TTACATCCTATCATCGACAAATTGCAACTTAAACACATCAAATTACAAAGACAAAC
Found at i:57880747 original size:28 final size:28
Alignment explanation
Indices: 57880660--57880748 Score: 71
Period size: 28 Copynumber: 3.2 Consensus size: 28
57880650 GCTATCATGG
*
57880660 ACAAATTGCAACTTAAACACCTCAAATT
1 ACAAATTGCAACTTAAACACATCAAATT
* *
57880688 ACAAA--GACAAACTTACATC-CTATC--ATCG
1 ACAAATTG-C-AACTTA-AACAC-ATCAAAT-T
57880716 ACAAATTGCAACTTAAACACATCAAATT
1 ACAAATTGCAACTTAAACACATCAAATT
57880744 ACAAA
1 ACAAA
57880749 GACAATCACA
Statistics
Matches: 46, Mismatches: 5, Indels: 20
0.65 0.07 0.28
Matches are distributed among these distances:
26 1 0.02
27 8 0.17
28 29 0.63
29 7 0.15
30 1 0.02
ACGTcount: A:0.48, C:0.25, G:0.04, T:0.22
Consensus pattern (28 bp):
ACAAATTGCAACTTAAACACATCAAATT
Found at i:57882175 original size:30 final size:30
Alignment explanation
Indices: 57882122--57882183 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
57882112 CCTTTTCATA
57882122 TTTCATTTTCATAACACTGGGCCGAAGCCT
1 TTTCATTTTCATAACACTGGGCCGAAGCCT
**
57882152 TTTCATATTTCATATTACT-GGCCGAAGCCT
1 TTTCAT-TTTCATAACACTGGGCCGAAGCCT
57882182 TT
1 TT
57882184 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 19 0.66
31 10 0.34
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.39
Consensus pattern (30 bp):
TTTCATTTTCATAACACTGGGCCGAAGCCT
Found at i:57882456 original size:23 final size:23
Alignment explanation
Indices: 57882391--57882584 Score: 261
Period size: 23 Copynumber: 8.4 Consensus size: 23
57882381 CTGGAGGCCT
* *
57882391 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTGATAACT-GGGCATA
*
57882416 AGCCCTTTTTATAACTGGGGCATA
1 AGCCCTTTTGATAACT-GGGCATA
* *
57882440 AGCCC-TTTAATAACTGGGCGTA
1 AGCCCTTTTGATAACTGGGCATA
57882462 AGCCC-TTTGATAACTGGGCATA
1 AGCCCTTTTGATAACTGGGCATA
57882484 AGCCCTTTTGATAACTGGGGC-TA
1 AGCCCTTTTGATAACT-GGGCATA
57882507 AGCCCTTTTGATAACTGGGCATA
1 AGCCCTTTTGATAACTGGGCATA
57882530 AGCCCTTTTGATAACTGGGCATA
1 AGCCCTTTTGATAACTGGGCATA
*
57882553 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTGATAACT-GGGCATA
57882576 AGCCCTTTT
1 AGCCCTTTT
57882585 TCACTTCCTC
Statistics
Matches: 157, Mismatches: 7, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
22 44 0.28
23 79 0.50
24 30 0.19
25 4 0.03
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (23 bp):
AGCCCTTTTGATAACTGGGCATA
Found at i:57882490 original size:68 final size:69
Alignment explanation
Indices: 57882391--57882583 Score: 284
Period size: 68 Copynumber: 2.8 Consensus size: 69
57882381 CTGGAGGCCT
* * *
57882391 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTAATAACTG
1 AGCC-CTTTTGATAACT-GGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTG
*
57882456 GGCGTA
64 GGCATA
* *
57882462 AGCCC-TTTGATAACTGGGCATAAGCCCTTTTGATAACTGGGGC-TAAGCCCTTTTGATAACTGG
1 AGCCCTTTTGATAACTGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC-TTTAATAACTGG
57882525 GCATA
65 GCATA
57882530 AGCCCTTTTGATAACTGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTT
1 AGCCCTTTTGATAACTGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
57882584 TTCACTTCCT
Statistics
Matches: 113, Mismatches: 6, Indels: 9
0.88 0.05 0.07
Matches are distributed among these distances:
67 7 0.06
68 63 0.56
69 38 0.34
70 1 0.01
71 4 0.04
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (69 bp):
AGCCCTTTTGATAACTGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTAATAACTGGG
CATA
Found at i:57882659 original size:20 final size:20
Alignment explanation
Indices: 57882634--57882700 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
57882624 TTATGATTAC
57882634 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
57882654 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
57882674 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
57882694 ACCATGT
1 ATCATGT
57882701 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:57882665 original size:11 final size:11
Alignment explanation
Indices: 57882634--57882689 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
57882624 TTATGATTAC
57882634 ATCATGTGCAT
1 ATCATGTGCAT
*
57882645 ATCA--TACAT
1 ATCATGTGCAT
57882654 ATCATGTGCAT
1 ATCATGTGCAT
*
57882665 ATCA--TACAT
1 ATCATGTGCAT
*
57882674 GTCATGTGCAT
1 ATCATGTGCAT
57882685 ATCAT
1 ATCAT
57882690 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:57882769 original size:25 final size:25
Alignment explanation
Indices: 57882737--57882784 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
57882727 ATACATAAAC
* * *
57882737 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
57882762 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
57882785 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:57883992 original size:27 final size:27
Alignment explanation
Indices: 57883930--57884007 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
57883920 GGGCATATTC
57883930 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
57883957 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
57883984 GTCTTTTTACC-TAATAGGGGTATT
1 GTCATTTTACCAT-ACAGGGGTATT
57884008 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.05
27 40 0.93
28 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:57884078 original size:27 final size:27
Alignment explanation
Indices: 57884052--57884277 Score: 154
Period size: 27 Copynumber: 8.3 Consensus size: 27
57884042 ATCTACAAAC
*
57884052 CAAGGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTGTAAAT
*
57884079 CAATGGTATTTCTA-TAATTTT-TAGAAAGT
1 CAAGGGTATTT-TAGTAATTTTGT--AAA-T
*
57884108 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTGTAAAT
* * **
57884135 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTGTAAAT
** ** *** *
57884162 TTAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTAGTAATTTTGTAAAT
* **
57884189 CAAGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTTAGTAATTTTGTAAAT
*
57884215 CTAGGGGTATTTTAGTAATTTTGTAAAT
1 C-AAGGGTATTTTAGTAATTTTGTAAAT
* *** *
57884243 CGAGGGTAAAATAGTAATTCTGTAAAT
1 CAAGGGTATTTTAGTAATTTTGTAAAT
57884270 CAAGGGTA
1 CAAGGGTA
57884278 AAACAGTAAT
Statistics
Matches: 161, Mismatches: 29, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
26 3 0.02
27 130 0.81
28 9 0.06
29 18 0.11
30 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTGTAAAT
Found at i:57884249 original size:54 final size:54
Alignment explanation
Indices: 57884025--57884250 Score: 213
Period size: 54 Copynumber: 4.1 Consensus size: 54
57884015 TTTCATCCTA
* * * *
57884025 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTGTAAAC
* * * * * *
57884079 CAATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAA-TTTTACAAACT-AAGGGTATTT-TAGTAATTTTGTAAAC
* * * ** ***
57884135 CAGGGGTATTTTGGTAATTTTACAAATTTAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTGTAAAC
* *
57884189 CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTGTAAAC
*
57884243 CGAGGGTA
1 CAAGGGTA
57884251 AAATAGTAAT
Statistics
Matches: 133, Mismatches: 33, Indels: 12
0.75 0.19 0.07
Matches are distributed among these distances:
54 81 0.61
55 17 0.13
56 34 0.26
57 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTAGTAATTTTGTAAAC
Found at i:57884278 original size:27 final size:27
Alignment explanation
Indices: 57884228--57884362 Score: 191
Period size: 27 Copynumber: 5.0 Consensus size: 27
57884218 GGGGTATTTT
* *
57884228 AGTAATTTTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
57884255 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
57884282 AGTAATTCTATAAATCGACGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
57884309 -GATAATTCTGTAAATCGAGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* *
57884336 GGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
57884363 GTGGGTAAAA
Statistics
Matches: 97, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
26 1 0.01
27 95 0.98
28 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.27
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:57884369 original size:38 final size:37
Alignment explanation
Indices: 57884318--57884398 Score: 108
Period size: 38 Copynumber: 2.2 Consensus size: 37
57884308 CGATAATTCT
* * *
57884318 GTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGG
1 GTAAAACGAGGGTAAAACGGTAATTATGTAAATCG-GG
* *
57884356 GTAAAACGTGGGTAAAATGGTAATTATGTAAATCGGG
1 GTAAAACGAGGGTAAAACGGTAATTATGTAAATCGGG
57884393 GTAAAA
1 GTAAAA
57884399 TGTAATTCTG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
37 8 0.21
38 30 0.79
ACGTcount: A:0.38, C:0.07, G:0.30, T:0.25
Consensus pattern (37 bp):
GTAAAACGAGGGTAAAACGGTAATTATGTAAATCGGG
Found at i:57884380 original size:65 final size:62
Alignment explanation
Indices: 57884301--57884420 Score: 168
Period size: 65 Copynumber: 1.9 Consensus size: 62
57884291 ATAAATCGAC
* *
57884301 GGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAACGTG
1 GGTAAAACGATAATTATGTAAATCG-GGGTAAAA-GGTAATTCTGTAAATCG-GGGTAAAACGTG
* * *
57884366 GGTAAAATGGTAATTATGTAAATCGGGGTAAAATGTAATTCTGTAAATCGGGGTA
1 GGTAAAACGATAATTATGTAAATCGGGGTAAAAGGTAATTCTGTAAATCGGGGTA
57884421 CTTTGGTAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
62 5 0.10
63 15 0.30
64 8 0.16
65 22 0.44
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.28
Consensus pattern (62 bp):
GGTAAAACGATAATTATGTAAATCGGGGTAAAAGGTAATTCTGTAAATCGGGGTAAAACGTG
Found at i:57884410 original size:25 final size:26
Alignment explanation
Indices: 57884356--57884420 Score: 96
Period size: 25 Copynumber: 2.5 Consensus size: 26
57884346 TAAGTCGAGG
*
57884356 GTAAAACGTGGGTAAAATGGTAATTAT
1 GTAAATCG-GGGTAAAATGGTAATTAT
*
57884383 GTAAATCGGGGTAAAAT-GTAATTCT
1 GTAAATCGGGGTAAAATGGTAATTAT
57884408 GTAAATCGGGGTA
1 GTAAATCGGGGTA
57884421 CTTTGGTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
25 20 0.56
26 9 0.25
27 7 0.19
ACGTcount: A:0.37, C:0.06, G:0.28, T:0.29
Consensus pattern (26 bp):
GTAAATCGGGGTAAAATGGTAATTAT
Found at i:57884455 original size:26 final size:27
Alignment explanation
Indices: 57884426--57884514 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
57884416 GGGTACTTTG
57884426 GTAATTTTACAAGTCGAAGGTA-TTCA
1 GTAATTTTACAAGTCGAAGGTATTTCA
* *
57884452 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAGTCGAAGGTATTTCA
* * *
57884479 GTACTTTTACAAG-CTAAGGGTATTTCG
1 GTAATTTTACAAGTCGAA-GGTATTTCA
57884506 GTAATTTTA
1 GTAATTTTA
57884515 GTAAACTAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
26 22 0.42
27 31 0.58
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAGTCGAAGGTATTTCA
Found at i:57884486 original size:27 final size:26
Alignment explanation
Indices: 57884426--57884490 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
57884416 GGGTACTTTG
*
57884426 GTAATTTTACAAGTCGAAGGTATTCA
1 GTAATTTTACAAATCGAAGGTATTCA
*
57884452 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTA-TTCA
*
57884479 GTACTTTTACAA
1 GTAATTTTACAA
57884491 GCTAAGGGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
26 20 0.57
27 15 0.43
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (26 bp):
GTAATTTTACAAATCGAAGGTATTCA
Found at i:57887353 original size:31 final size:31
Alignment explanation
Indices: 57887311--57887374 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
57887301 CCTTTTCATA
*
57887311 TTTCATTTTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
57887342 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
57887373 TT
1 TT
57887375 ACTGTAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:57887620 original size:24 final size:24
Alignment explanation
Indices: 57887568--57887781 Score: 290
Period size: 24 Copynumber: 9.0 Consensus size: 24
57887558 GCTTTATCAT
* *
57887568 ATAACTGGAGGCCT-AGCCCCTTTTA
1 ATAACTGG-GGCATAAG-CCCTTTTG
* * *
57887593 ATAACTGGGGAAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTG
*
57887617 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTG
*
57887640 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
57887664 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
* *
57887688 CTAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
57887712 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
* *
57887736 ATGACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTG
57887759 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
57887782 TCACTTCCTC
Statistics
Matches: 169, Mismatches: 17, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
23 42 0.25
24 117 0.69
25 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:57887926 original size:25 final size:25
Alignment explanation
Indices: 57887894--57887941 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
57887884 ATACATAAAC
* * *
57887894 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
57887919 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
57887942 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:57888242 original size:21 final size:20
Alignment explanation
Indices: 57888210--57888248 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
57888200 GGGCCCGAAT
*
57888210 GCCCATTGGGCCCTATTTCA
1 GCCCATTGGGCCCAATTTCA
*
57888230 GCCCCTTGAGGCCCAATTT
1 GCCCATTG-GGCCCAATTT
57888249 ACCGTGATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.15, C:0.36, G:0.21, T:0.28
Consensus pattern (20 bp):
GCCCATTGGGCCCAATTTCA
Found at i:57889156 original size:27 final size:27
Alignment explanation
Indices: 57889100--57889177 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
57889090 GGGCATATTC
* * *
57889100 GTCATTTTACCATACAGGGGTATTATG
1 GTCATTTTACCCTATAGGGGTATTACG
*
57889127 GTCACTTTACCCTATAGGGGCT-TTACG
1 GTCATTTTACCCTATAGGGG-TATTACG
*
57889154 GTCTTTTTA-CCTGATAGGGGTATT
1 GTCATTTTACCCT-ATAGGGGTATT
57889178 TTAGTCATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 4 0.10
27 37 0.88
28 1 0.02
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTACG
Found at i:57889248 original size:27 final size:27
Alignment explanation
Indices: 57889222--57889447 Score: 136
Period size: 27 Copynumber: 8.3 Consensus size: 27
57889212 ATCTACAAAC
*
57889222 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAAT
*
57889249 CAATGGTATTTCTA-TAATTTT-TAGAAAGT
1 CAAGGGTATTTC-AGTAATTTTGT--AAA-T
* *
57889278 CAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* ** **
57889305 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTCAGTAATTTTGTAAAT
** * *** *
57889332 TTAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTCAGTAATTTTGTAAAT
** **
57889359 CAAGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTCAGTAATTTTGTAAAT
* *
57889385 CTAGGGGTATTTTAGTAATTTTGTAAAT
1 C-AAGGGTATTTCAGTAATTTTGTAAAT
* ** *
57889413 CGAGGGTAAAAT-AGTAATTCTGTAAAT
1 CAAGGGT-ATTTCAGTAATTTTGTAAAT
57889440 CAAGGGTA
1 CAAGGGTA
57889448 AAATAGTAAT
Statistics
Matches: 159, Mismatches: 31, Indels: 19
0.76 0.15 0.09
Matches are distributed among these distances:
26 3 0.02
27 128 0.81
28 10 0.06
29 17 0.11
30 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTTTGTAAAT
Found at i:57889393 original size:54 final size:53
Alignment explanation
Indices: 57889195--57889420 Score: 202
Period size: 54 Copynumber: 4.2 Consensus size: 53
57889185 TTTCATCCTA
* * * *
57889195 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAA-TTTGTAAAC
* * * * * *
57889249 CAATGGTATTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAA-TTTTACAAACT-AAGGGTATTTCAGTAA-TTTGTAAAC
* * * * **
57889305 CAGGGGTATTTTGGTAATTTTACAAATTTAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTT-GTAAAC
* * *
57889359 CAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAA-TTTGTAAAC
*
57889413 CGAGGGTA
1 CAAGGGTA
57889421 AAATAGTAAT
Statistics
Matches: 135, Mismatches: 31, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
53 3 0.02
54 77 0.57
55 20 0.15
56 35 0.26
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.38
Consensus pattern (53 bp):
CAAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTGTAAAC
Found at i:57889530 original size:38 final size:38
Alignment explanation
Indices: 57889488--57889569 Score: 92
Period size: 38 Copynumber: 2.2 Consensus size: 38
57889478 CGATAATTCT
* * * *
57889488 GTAAATCAAGGGTAAAACGGTAATTCTGTAAGTCGAGG
1 GTAAAACAAGGGTAAAACAGTAATTATGTAAATCGAGG
** * *
57889526 GTAAAACGGGGGTAAAATAGTAATTATGTAAATCGGGG
1 GTAAAACAAGGGTAAAACAGTAATTATGTAAATCGAGG
57889564 GTAAAA
1 GTAAAA
57889570 TTGTAATTCT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.40, C:0.07, G:0.29, T:0.23
Consensus pattern (38 bp):
GTAAAACAAGGGTAAAACAGTAATTATGTAAATCGAGG
Found at i:57889532 original size:27 final size:27
Alignment explanation
Indices: 57889399--57889534 Score: 173
Period size: 27 Copynumber: 5.0 Consensus size: 27
57889389 GGGTATTTTA
* * **
57889399 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCAAGGGTAAAACG
**
57889426 GTAATTCTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCAAGGGTAAAACG
* *
57889453 GTAATTCTATAAATCAATGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAACG
*
57889480 ATAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAACG
* *
57889507 GTAATTCTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAACG
57889534 G
1 G
57889535 GGGTAAAATA
Statistics
Matches: 97, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (27 bp):
GTAATTCTGTAAATCAAGGGTAAAACG
Found at i:57889604 original size:27 final size:27
Alignment explanation
Indices: 57889526--57889593 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 27
57889516 TAAGTCGAGG
* *
57889526 GTAAAACGGGGGTAAAATAGTAATTAT
1 GTAAATCGGGGGTAAAATTGTAATTAT
*
57889553 GTAAATCGGGGGTAAAATTGTAATTCT
1 GTAAATCGGGGGTAAAATTGTAATTAT
57889580 GTAAATCGGGGGTA
1 GTAAATCGGGGGTA
57889594 CTTTGGTAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.37, C:0.06, G:0.29, T:0.28
Consensus pattern (27 bp):
GTAAATCGGGGGTAAAATTGTAATTAT
Found at i:57889620 original size:27 final size:27
Alignment explanation
Indices: 57889599--57889688 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
57889589 GGGTACTTTG
57889599 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAGTCGAAGGTATTTCA
* * *
57889626 ATAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAGTCGAAGGTATTTCA
* * *
57889653 GTATTTTTACAAG-CTAAGGGTATTTCG
1 GTAATTTTACAAGTCGAA-GGTATTTCA
57889680 GTAATTTTA
1 GTAATTTTA
57889689 GTAAACTAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
26 2 0.04
27 50 0.96
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAGTCGAAGGTATTTCA
Found at i:57889640 original size:54 final size:54
Alignment explanation
Indices: 57889582--57889688 Score: 128
Period size: 54 Copynumber: 2.0 Consensus size: 54
57889572 GTAATTCTGT
* *
57889582 AAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAA-GGTATTTCAATAATTTTAC
1 AAATCGAGGGTA-TTTCAGTAATTTTACAAG-CGAAGGGTATTTCAATAATTTTAC
* * **
57889636 AAATCGAGGGTATTTCAGTATTTTTACAAGCTAAGGGTATTTCGGTAATTTTA
1 AAATCGAGGGTATTTCAGTAATTTTACAAGCGAAGGGTATTTCAATAATTTTA
57889689 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 6 0.13
54 39 0.87
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (54 bp):
AAATCGAGGGTATTTCAGTAATTTTACAAGCGAAGGGTATTTCAATAATTTTAC
Found at i:57894383 original size:18 final size:18
Alignment explanation
Indices: 57894356--57894391 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
57894346 ACGTGATGGA
*
57894356 AAGGGGGAAAGAACTTGC
1 AAGGGAGAAAGAACTTGC
57894374 AAGGGAGAAAGAACTTGC
1 AAGGGAGAAAGAACTTGC
57894392 CCTGACCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.11, G:0.36, T:0.11
Consensus pattern (18 bp):
AAGGGAGAAAGAACTTGC
Found at i:57904735 original size:28 final size:29
Alignment explanation
Indices: 57904694--57904817 Score: 162
Period size: 28 Copynumber: 4.3 Consensus size: 29
57904684 GAAAGCATGT
*
57904694 ATATGAATGTGATTTGGGCCTGATGGG-C
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
57904722 GTATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* * *
57904751 ATACGAATATGATTTGGGCCTAATGGGTC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
57904780 ATATGAATGAGA-TTGGGCCTAGTGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
57904808 ATATGTATGT
1 ATATGAATGT
57904818 ATGTAGACTT
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 47 0.57
29 35 0.43
ACGTcount: A:0.24, C:0.12, G:0.32, T:0.31
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:57904777 original size:57 final size:57
Alignment explanation
Indices: 57904698--57904810 Score: 165
Period size: 57 Copynumber: 2.0 Consensus size: 57
57904688 GCATGTATAT
* * * *
57904698 GAATGTGATTTGGGCCTGATGGG-CGTATGAATGTGATTTGGGCCTAATGGGCCATAC
1 GAATATGATTTGGGCCTAATGGGTCATATGAATGAGA-TTGGGCCTAATGGGCCATAC
*
57904755 GAATATGATTTGGGCCTAATGGGTCATATGAATGAGATTGGGCCTAGTGGGCCATA
1 GAATATGATTTGGGCCTAATGGGTCATATGAATGAGATTGGGCCTAATGGGCCATA
57904811 TGTATGTATG
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
57 39 0.78
58 11 0.22
ACGTcount: A:0.24, C:0.13, G:0.34, T:0.29
Consensus pattern (57 bp):
GAATATGATTTGGGCCTAATGGGTCATATGAATGAGATTGGGCCTAATGGGCCATAC
Found at i:57909353 original size:29 final size:28
Alignment explanation
Indices: 57909253--57909372 Score: 109
Period size: 29 Copynumber: 4.2 Consensus size: 28
57909243 GAAAGCATGT
* *
57909253 ATATGAATGAGATTTGGGCTTAATCGACC
1 ATATGAATGAGATTTGGGCCTAAT-GGCC
* *
57909282 GTATGAATGTGATTTGGGCCTAATGGTCC
1 ATATGAATGAGATTTGGGCCTAATGG-CC
**
57909311 ATACAAAT-ATGATTTGGGCCTAATAGGCC
1 ATATGAATGA-GATTTGGGCCTAAT-GGCC
* *
57909340 ATATGAATGAGA-TTGAGCCTAGTGGGCC
1 ATATGAATGAGATTTGGGCCTAAT-GGCC
57909368 ATATG
1 ATATG
57909373 CATGTATGTA
Statistics
Matches: 74, Mismatches: 13, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
28 19 0.26
29 52 0.70
30 3 0.04
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
ATATGAATGAGATTTGGGCCTAATGGCC
Found at i:57913976 original size:56 final size:56
Alignment explanation
Indices: 57913708--57913979 Score: 377
Period size: 56 Copynumber: 4.9 Consensus size: 56
57913698 ACCTGGAAGT
* *
57913708 ATATG-TGGCATCGATATGTGACTCCGATATATATGTGCGAGTAA-ACCGATGTTTA
1 ATATGTTGGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACC-ACGTTTA
* * * *
57913763 ATATGTTGGCATCGATATGTAACTCCGATATATATGTGCGAGTAAGTCAACGTTTA
1 ATATGTTGGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTA
* * * * * *
57913819 ATAAGTTGGCATCGATATTTGACTCCAATATATGTGTGCAAGTAAAAACACGTTTA
1 ATATGTTGGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTA
*
57913875 ATATGTTTGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTA
1 ATATGTTGGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTA
* * *
57913931 ATACGTTGGCATCGATATATGACTCCGATATATGTGTACGAGTAAGACC
1 ATATGTTGGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACC
57913980 CTGTCTGGGG
Statistics
Matches: 190, Mismatches: 25, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
55 5 0.03
56 184 0.97
57 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (56 bp):
ATATGTTGGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTA
Found at i:57917073 original size:40 final size:40
Alignment explanation
Indices: 57917013--57917236 Score: 270
Period size: 40 Copynumber: 5.5 Consensus size: 40
57917003 TATTCGGATG
*
57917013 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
57917053 ATATCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * * *
57917096 AAACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* ** * *
57917136 ATATCCGGGCTAAGTCTCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
57917176 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
57917216 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
57917237 ATACTTGGGT
Statistics
Matches: 158, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 13 0.08
40 109 0.69
41 1 0.01
43 35 0.22
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:57917157 original size:83 final size:80
Alignment explanation
Indices: 57917018--57917236 Score: 282
Period size: 83 Copynumber: 2.7 Consensus size: 80
57917008 GGATGATATT
* **
57917018 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGGT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCAT
57917083 GCGAGTAGTTG-CTAAACC
66 GC---TAG-TGACTAAACC
* *
57917101 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCTCGAAGGCATTCAT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCAT
* *
57917166 GCTAGTGACTATATC
66 GCTAGTGACTAAACC
* * *
57917181 CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
57917237 ATACTTGGGT
Statistics
Matches: 123, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
79 15 0.12
80 44 0.36
81 2 0.02
83 62 0.50
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCAT
GCTAGTGACTAAACC
Found at i:57921488 original size:27 final size:28
Alignment explanation
Indices: 57921436--57921492 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 28
57921426 TCATCACGTG
57921436 AATAAATCAATATATCATCAATGAATAC
1 AATAAATCAATATATCATCAATGAATAC
57921464 AATAAATCAATAT-TCATCAATGAATAC
1 AATAAATCAATATATCATCAATGAATAC
57921491 AA
1 AA
57921493 CAACAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 16 0.55
28 13 0.45
ACGTcount: A:0.54, C:0.14, G:0.04, T:0.28
Consensus pattern (28 bp):
AATAAATCAATATATCATCAATGAATAC
Found at i:57924881 original size:40 final size:40
Alignment explanation
Indices: 57924806--57925011 Score: 177
Period size: 40 Copynumber: 5.2 Consensus size: 40
57924796 GGATTTAGCT
* * *
57924806 GGATATAA-CTACTTGCAC-AAGGCCTTCGGGTCTTAGCCT
1 GGATATAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCC
* ** * * *
57924845 GGATGTGGTCACTAGCATAAATGCCTTTGGGACTTAGCCC
1 GGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGCCC
*
57924885 GGATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGCCC
1 GGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGCCC
* * * * *
57924925 GGATAT-AGCAACTCGCACGAATGCCTTCGGATCTTAGTCC
1 GGATATAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCC
* * * *
57924965 GGTTATAGTCAGATAGCACAAAAT-CCTTCGGGACTTAGCCC
1 GGATATAATCA-CTAGCAC-AAATGCCTTCGGGTCTTAGCCC
57925006 GGATAT
1 GGATAT
57925012 CATTCGAATA
Statistics
Matches: 129, Mismatches: 32, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
39 13 0.10
40 88 0.68
41 25 0.19
42 3 0.02
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (40 bp):
GGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGCCC
Found at i:57924948 original size:80 final size:82
Alignment explanation
Indices: 57924827--57925011 Score: 209
Period size: 80 Copynumber: 2.3 Consensus size: 82
57924817 CTTGCACAAG
* * * * *
57924827 GCCTTCGGGTCTTAGCCTGGATGTGGTCACTAGCATAAATGCCTTTGGGA-CTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGCC-TTCGGATCTTAGCCCGGATAT
*
57924891 AATC-GCTAGCAC-AAAT
65 AATCAGATAGCACAAAAT
* * * *
57924907 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGATCTTAGCCCGGATAT
*
57924971 AGTCAGATAGCACAAAAT
65 AATCAGATAGCACAAAAT
*
57924989 -CCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
57925012 CATTCGAATA
Statistics
Matches: 89, Mismatches: 12, Indels: 7
0.82 0.11 0.06
Matches are distributed among these distances:
79 6 0.07
80 50 0.56
81 29 0.33
82 4 0.04
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.26
Consensus pattern (82 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGATCTTAGCCCGGATATA
ATCAGATAGCACAAAAT
Done.