Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 188 of 318
Found at i:58950798 original size:262 final size:262
Alignment explanation
Indices: 58950324--58950855 Score: 1010
Period size: 262 Copynumber: 2.0 Consensus size: 262
58950314 GCAAGGGATG
* * *
58950324 TTTATTTTGCAACTCTGCCATGTGAGTTGTTAAAGTTGATCGAAACTCTACTTGTTGAGGAGAGT
1 TTTACTTTACAACTCTGCCATGTGAGTTGTTAAAGTTGATCGAAACTCTACTTGTTAAGGAGAGT
58950389 TGAATGGGCGGTTGAGGAGATGTTGTAGGAGGGATTTTAGGAGGATTTTTTGGAATTTTGAAAGT
66 TGAATGGGCGGTTGAGGAGATGTTGTAGGAGGGATTTTAGGAGGATTTTTTGGAATTTTGAAAGT
58950454 GGGTAAGGTTGTGCCGAAATTGAACTCTTGTTCATAAGAGTTTTGGCTGAGGTGGGAAGAGGGTT
131 GGGTAAGGTTGTGCCGAAATTGAACTCTTGTTCATAAGAGTTTTGGCTGAGGTGGGAAGAGGGTT
*
58950519 GAAAGAGTCAAGTGTGTGGGTTGTGCTGCGGTTTGCCGAACTAATAGTACCTTTTGTCAAAACTG
196 GAAAGAGTCAAGTGTGTGGGTTGTGCTGCGGTTTGCCGAACTAAGAGTACCTTTTGTCAAAACTG
58950584 GC
261 GC
* *
58950586 TTTACTTTACAACTCTGCCATGTGAGTTGTTGAAGTTGATCGAAACTCTGCTTGTTAAGGAGAGT
1 TTTACTTTACAACTCTGCCATGTGAGTTGTTAAAGTTGATCGAAACTCTACTTGTTAAGGAGAGT
58950651 TGAATGGGCGGTTGAGGAGATGTTGTAGGAGGGATTTTAGGAGGATTTTTTGGAATTTTGAAAGT
66 TGAATGGGCGGTTGAGGAGATGTTGTAGGAGGGATTTTAGGAGGATTTTTTGGAATTTTGAAAGT
58950716 GGGTAAGGTTGTGCCGAAATTGAACTCTTGTTCATAAGAGTTTTGGCTGAGGTGGGAAGAGGGTT
131 GGGTAAGGTTGTGCCGAAATTGAACTCTTGTTCATAAGAGTTTTGGCTGAGGTGGGAAGAGGGTT
58950781 GAAAGAGTCAAGTGTGTGGGTTGTGCTGCGGTTTGCCGAACTAAGAGTACCTTTTGTCAAAACTG
196 GAAAGAGTCAAGTGTGTGGGTTGTGCTGCGGTTTGCCGAACTAAGAGTACCTTTTGTCAAAACTG
58950846 GC
261 GC
58950848 TTTACTTT
1 TTTACTTT
58950856 TTCCCCTTTT
Statistics
Matches: 264, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
262 264 1.00
ACGTcount: A:0.24, C:0.11, G:0.32, T:0.34
Consensus pattern (262 bp):
TTTACTTTACAACTCTGCCATGTGAGTTGTTAAAGTTGATCGAAACTCTACTTGTTAAGGAGAGT
TGAATGGGCGGTTGAGGAGATGTTGTAGGAGGGATTTTAGGAGGATTTTTTGGAATTTTGAAAGT
GGGTAAGGTTGTGCCGAAATTGAACTCTTGTTCATAAGAGTTTTGGCTGAGGTGGGAAGAGGGTT
GAAAGAGTCAAGTGTGTGGGTTGTGCTGCGGTTTGCCGAACTAAGAGTACCTTTTGTCAAAACTG
GC
Found at i:58954478 original size:79 final size:81
Alignment explanation
Indices: 58954376--58954560 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
58954366 GCTCCTCGTT
* *
58954376 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
58954439 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
58954456 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
58954520 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
58954536 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
58954561 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:58954560 original size:40 final size:40
Alignment explanation
Indices: 58954376--58954560 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
58954366 GCTCCTCGTT
* *
58954376 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
58954416 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
58954456 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
58954495 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
58954536 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
58954561 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:58962369 original size:79 final size:82
Alignment explanation
Indices: 58962258--58962442 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
58962248 GCTCCTCGTT
* *
58962258 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
58962321 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
58962338 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
58962401 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
58962418 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
58962443 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:58962442 original size:40 final size:40
Alignment explanation
Indices: 58962258--58962442 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
58962248 GCTCCTCGTT
* *
58962258 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
58962298 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
58962338 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
58962377 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
58962418 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
58962443 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:58963568 original size:1 final size:1
Alignment explanation
Indices: 58963564--58963600 Score: 56
Period size: 1 Copynumber: 37.0 Consensus size: 1
58963554 ACCACACACC
**
58963564 TTTTTTTTTTTTTCATTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
58963601 CCATGATGCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
1 33 1.00
ACGTcount: A:0.03, C:0.03, G:0.00, T:0.95
Consensus pattern (1 bp):
T
Found at i:58981181 original size:40 final size:40
Alignment explanation
Indices: 58981092--58981312 Score: 168
Period size: 40 Copynumber: 5.5 Consensus size: 40
58981082 CTCGTTCAAG
* * * * *
58981092 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGAAT-TAGAAACTCACACAAA
* *
58981131 TGCCTTCGGGACTTAACCCGGATTTTA-AAACTCACACGAA
1 TGCCTTCGGGACTTAACCCGGA-ATTAGAAACTCACACAAA
* * *
58981171 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGAATTAGAAACTCACACAAA
* * *
58981211 GGCCCTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGAATTAGA-AACTCACACAAA
** ** *
58981251 TGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA
1 TGCCTTCGGGA-CTTAACCCGGAAT-TAGAAACTCA-CACAAA
*
58981292 -GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAACCCGGA
58981313 CAGCATTCAA
Statistics
Matches: 149, Mismatches: 22, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
39 35 0.23
40 103 0.69
41 11 0.07
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGAATTAGAAACTCACACAAA
Found at i:58981272 original size:80 final size:80
Alignment explanation
Indices: 58981092--58981312 Score: 211
Period size: 80 Copynumber: 2.8 Consensus size: 80
58981082 CTCGTTCAAG
* * * * * * * * *
58981092 TGCCTTCGGGACATAGCCCGGTTATAGTAACTCA-TACAATGCCTTCGGGACTTAACCCGGATTT
1 TGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCCTCGGGACTTAACCCGGATAT
*
58981156 TAAAACTCACACGAA
66 TAAAACTCACACAAA
*
58981171 TGCCTTCGGGACTTAACCCGGA-ATTAGT-A-TCTCGCACAAAGGCCCTCGGGACTTAACCCGGA
1 TGCCTTCGGGACTTAACCCGGATA-TAGTCACT-TAGCACAAA-GCCCTCGGGACTTAACCCGGA
*
58981233 -ATTAATAACTCGCACAAA
63 TATTAA-AACTCACACAAA
** * *
58981251 TGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CTTAACCCGGATATAGTCACTTAGCACAAAGCCCTCGGGACTTAACCCGGA
58981313 CAGCATTCAA
Statistics
Matches: 117, Mismatches: 16, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
77 1 0.01
78 2 0.02
79 34 0.29
80 69 0.59
81 10 0.09
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCCTCGGGACTTAACCCGGATAT
TAAAACTCACACAAA
Found at i:58984694 original size:52 final size:54
Alignment explanation
Indices: 58984588--58984696 Score: 186
Period size: 52 Copynumber: 2.0 Consensus size: 54
58984578 GTATTCATCC
*
58984588 TCCATTAAAATTTTATGGGTGCAAAAAGAAGGACTGATCCCTCTAATGTCAGAAA
1 TCCATTAAAATTTTATAGGTGC-AAAAGAAGGACTGATCCCTCTAATGTCAGAAA
58984643 TCCATTAAAATTTTATAGGTGC-AAA-AAGGACTGATCCCTCTAATGTCAGAAA
1 TCCATTAAAATTTTATAGGTGCAAAAGAAGGACTGATCCCTCTAATGTCAGAAA
58984695 TC
1 TC
58984697 TTCCAAGCTA
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
52 29 0.55
53 3 0.06
55 21 0.40
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (54 bp):
TCCATTAAAATTTTATAGGTGCAAAAGAAGGACTGATCCCTCTAATGTCAGAAA
Found at i:58987586 original size:14 final size:14
Alignment explanation
Indices: 58987567--58987597 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
58987557 ATGATTGTTT
*
58987567 TAATCTAAATTTAC
1 TAATCTAAATTAAC
58987581 TAATCTAAATTAAC
1 TAATCTAAATTAAC
58987595 TAA
1 TAA
58987598 GAACATGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:58989463 original size:46 final size:46
Alignment explanation
Indices: 58989413--58989585 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
58989403 TGGTTGAGCA
*
58989413 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
58989459 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
58989506 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
58989552 -CCTGAGCTTGTTGAGTTGAGTCTGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
58989586 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 5 0.05
45 5 0.05
46 58 0.56
47 29 0.28
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:58989569 original size:93 final size:93
Alignment explanation
Indices: 58989410--58989580 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
58989400 GGATGGTTGA
*
58989410 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
58989475 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * *
58989503 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTTGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC-GAACTCGTTGAG
*
58989567 TTGAGTCTGAGTTC
65 TTGAGTCCGAGTTC
58989581 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:58991271 original size:40 final size:40
Alignment explanation
Indices: 58991216--58991507 Score: 471
Period size: 40 Copynumber: 7.3 Consensus size: 40
58991206 AAGGGCGTGT
58991216 GCCCGGATACATCACTAGCACGAATGCTCTTAGGGACTTA
1 GCCCGGATACATCACTAGCACGAATGCTCTTAGGGACTTA
* *
58991256 GCCCGGATACATCACTAGCACAAATGCTTTTTA-GGACTTA
1 GCCCGGATACATCACTAGCACGAATGC-TCTTAGGGACTTA
*
58991296 GCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTA
1 GCCCGGATACATCACTAGCACGAATGCTCTTAGGGACTTA
* *
58991336 GCCCGGATACATCACTAGCACGAATGCTTTTCGGGACTTA
1 GCCCGGATACATCACTAGCACGAATGCTCTTAGGGACTTA
58991376 GCCCGGATACATCACTAGCACGAATGCT-TTACGGGACTTA
1 GCCCGGATACATCACTAGCACGAATGCTCTTA-GGGACTTA
* *
58991416 GCCCGGATACATCACTAGCATGAATGCTCTTTGGGACTTA
1 GCCCGGATACATCACTAGCACGAATGCTCTTAGGGACTTA
*
58991456 GCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTA
1 GCCCGGATACATCACTAGCACGAATGCTCTTAGGGACTTA
*
58991496 GCCAGGATACAT
1 GCCCGGATACAT
58991508 TCGAATAATC
Statistics
Matches: 236, Mismatches: 12, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
39 5 0.02
40 225 0.95
41 6 0.03
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
GCCCGGATACATCACTAGCACGAATGCTCTTAGGGACTTA
Found at i:58993263 original size:46 final size:46
Alignment explanation
Indices: 58993210--58993300 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
58993200 TATATATACA
* *
58993210 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATC
* *
58993256 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
1 CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATAT
58993301 ATATACACTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.27, C:0.31, G:0.08, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAGCCATTCGGCTTTACCACATATC
Found at i:58993347 original size:22 final size:22
Alignment explanation
Indices: 58993319--58993440 Score: 67
Period size: 22 Copynumber: 5.3 Consensus size: 22
58993309 TTCCACGTTC
58993319 ATCACATTGGCCATTCTGCCTT
1 ATCACATTGGCCATTCTGCCTT
*
58993341 ATCACATATATG-CATGT-T-CACATTT
1 ATCACAT-T-GGCCAT-TCTGC-C--TT
*
58993366 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCTGCCTT
58993388 ATCACATATGTG-CATGT-T-CACATTT
1 ATCACAT-TG-GCCAT-TCTGC-C--TT
*
58993413 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCTGCCTT
58993435 ATCACA
1 ATCACA
58993441 CATATGTGCA
Statistics
Matches: 77, Mismatches: 5, Indels: 36
0.65 0.04 0.31
Matches are distributed among these distances:
22 26 0.34
23 16 0.21
24 15 0.19
25 20 0.26
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.35
Consensus pattern (22 bp):
ATCACATTGGCCATTCTGCCTT
Found at i:58993351 original size:49 final size:48
Alignment explanation
Indices: 58993274--58993516 Score: 323
Period size: 47 Copynumber: 5.1 Consensus size: 48
58993264 ACACATTTCG
* * * * * *
58993274 CATTAGCCATTCGGCTTTACCACATATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACA-ATATATGCA-TGTTCACATTCATCA
* *
58993323 CATTGGCCATTCTGCCTTATCAC-ATATATGCATGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACAATATATGCATGTTCACATTCATCA
* *
58993370 CATTGGCCATTCGGCCTTATCAC-ATATGTGCATGTTCACATTTATCA
1 CATTGGCCATTCGGCCTTATCACAATATATGCATGTTCACATTCATCA
*
58993417 CATTGGCCATTCGGCCTTATCACACATATGTGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACA-ATATATGCATGTTCACATTCATCA
*
58993466 CATTGGCCATTCGGCCTTATCAC-ACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACAATATATGCATGTTCACATTCATCA
58993513 CATT
1 CATT
58993517 TGCCTTGGCT
Statistics
Matches: 178, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
46 1 0.01
47 112 0.63
49 65 0.37
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.35
Consensus pattern (48 bp):
CATTGGCCATTCGGCCTTATCACAATATATGCATGTTCACATTCATCA
Found at i:58993372 original size:47 final size:47
Alignment explanation
Indices: 58993316--58993516 Score: 330
Period size: 47 Copynumber: 4.2 Consensus size: 47
58993306 CACTTCCACG
*
58993316 TTCATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
58993363 TTTATCACATTGGCCATTCGGCCTTATCACATATGTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
* *
58993410 TTTATCACATTGGCCATTCGGCCTTATCACACATATGTGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTAT--CACATATATGCATGTTCACA
*
58993459 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
58993506 TTCATCACATT
1 TTCATCACATT
58993517 TGCCTTGGCT
Statistics
Matches: 146, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
47 100 0.68
49 46 0.32
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.35
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACA
Found at i:58993394 original size:96 final size:96
Alignment explanation
Indices: 58993274--58993516 Score: 305
Period size: 96 Copynumber: 2.5 Consensus size: 96
58993264 ACACATTTCG
* * * * *
58993274 CATTAGCCATTCGGCTTTACCACATATATATACACT-TCCACGTTCATCACATTGGCCATTCTGC
1 CATTGGCCATTCGGCCTTATCACA-ATATATACA-TGTCCACATTCATCACATTGGCCATTCGGC
*
58993338 CTTAT-CACATATATGCATGTTCACATTTATCA
64 CTTATACACATATATGCATGTTCACATTCATCA
* * * *
58993370 CATTGGCCATTCGGCCTTATCAC-ATATGTGCATGTTCACATTTATCACATTGGCCATTCGGCCT
1 CATTGGCCATTCGGCCTTATCACAATATATACATGTCCACATTCATCACATTGGCCATTCGGCCT
*
58993434 TATCACACATATGTGCATGTTCACATTCATCA
66 TAT-ACACATATATGCATGTTCACATTCATCA
* * *
58993466 CATTGGCCATTCGGCCTTATCAC-ACATATGCATGTTCACATTCATCACATT
1 CATTGGCCATTCGGCCTTATCACAATATATACATGTCCACATTCATCACATT
58993517 TGCCTTGGCT
Statistics
Matches: 130, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
93 1 0.01
94 36 0.28
96 93 0.72
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.35
Consensus pattern (96 bp):
CATTGGCCATTCGGCCTTATCACAATATATACATGTCCACATTCATCACATTGGCCATTCGGCCT
TATACACATATATGCATGTTCACATTCATCA
Found at i:58998262 original size:220 final size:221
Alignment explanation
Indices: 58997855--58998286 Score: 661
Period size: 220 Copynumber: 2.0 Consensus size: 221
58997845 GAAAAACGAT
* *
58997855 TCTTTGAGATTGTGTATAGATTACAGACAGTTGAATAAAGTCATAATTAAAAATAAGTATCCTTT
1 TCTTTGAGATTGTGTATAGATTACAGACAGTTGAATAAAGTCACAATAAAAAATAAGTATCCTTT
*
58997920 GCCACGTATTGACAATTTGTTTGATCAATTGAAAAGTGCCACAGTGTTCTCGAAGATAGATCTCA
66 GCCACGTATCGACAATTTGTTTGATCAATTGAAAAGTGCCACAGTGTTCTCGAAGATAGATCTCA
* * * * *
58997985 ACTTTGGGTATTATCAATTGAAGGTTAAAAACTATGATGTGTCAAAGACTACTTTCAGTACTTGT
131 ACTCTAGGTATTATCAATTGAAGGTTAAAAACTATGATATGTCAAAGACTACTTTCAGAACTCGT
*
58998050 TATGGTCATTATGAGTTAAAGATGGC
196 TATGGTCATTATAAGTTAAAGATGGC
*
58998076 TCTTTGAGATTGTGTATAGATTACATACAGTTGAATAAAGTCACAATAAAAAATAAGTATCC-TT
1 TCTTTGAGATTGTGTATAGATTACAGACAGTTGAATAAAGTCACAATAAAAAATAAGTATCCTTT
*** * *
58998140 GCCACGTATCGGTGATTTGTTTGATCAATTGAAAGGTGTCACAGTGTTCTCGAAGATAGATCTCA
66 GCCACGTATCGACAATTTGTTTGATCAATTGAAAAGTGCCACAGTGTTCTCGAAGATAGATCTCA
* * * * *
58998205 GA-TCTAGGTATTATCAATTGAAGGTTAAAGATTGTGATATGTCTAAGACTGCTTTCAGAACTCG
131 -ACTCTAGGTATTATCAATTGAAGGTTAAAAACTATGATATGTCAAAGACTACTTTCAGAACTCG
58998269 TTATGGTCATTATAAGTT
195 TTATGGTCATTATAAGTT
58998287 TCTAGTAATG
Statistics
Matches: 190, Mismatches: 20, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
220 130 0.68
221 60 0.32
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (221 bp):
TCTTTGAGATTGTGTATAGATTACAGACAGTTGAATAAAGTCACAATAAAAAATAAGTATCCTTT
GCCACGTATCGACAATTTGTTTGATCAATTGAAAAGTGCCACAGTGTTCTCGAAGATAGATCTCA
ACTCTAGGTATTATCAATTGAAGGTTAAAAACTATGATATGTCAAAGACTACTTTCAGAACTCGT
TATGGTCATTATAAGTTAAAGATGGC
Found at i:59003269 original size:43 final size:42
Alignment explanation
Indices: 59003138--59003290 Score: 209
Period size: 42 Copynumber: 3.6 Consensus size: 42
59003128 TAGGGTTACG
*
59003138 GAGATTACGTGTAAGACCATATCTGGGATATGGCACCGATAT
1 GAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATAT
* *
59003180 GAGACTT-CGTGTAAAACCATATCTGAGATATGGCATCGATAT
1 GAGA-TTACGTGTAAGACCATATCTGGGATATGGCATCGATAT
* * * *
59003222 GAGATTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATAC
1 GAGATTACGTGTAAGACCATATCTGGGATA-TGGCATCGATAT
*
59003265 GAGATTACATGTAAGACCATATCTGG
1 GAGATTACGTGTAAGACCATATCTGG
59003291 AGATTCTCGA
Statistics
Matches: 97, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
41 2 0.02
42 59 0.61
43 36 0.37
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (42 bp):
GAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATAT
Found at i:59003333 original size:34 final size:34
Alignment explanation
Indices: 59003290--59003355 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
59003280 ACCATATCTG
59003290 GAGATTCTCGAGTATCCTTTAGTATTCCAAGTAC
1 GAGATTCTCGAGTATCCTTTAGTATTCCAAGTAC
*
59003324 GAGATTCTCGAGTATCCTTTAGTATTTCAAGT
1 GAGATTCTCGAGTATCCTTTAGTATTCCAAGT
59003356 GGTTCAACGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (34 bp):
GAGATTCTCGAGTATCCTTTAGTATTCCAAGTAC
Found at i:59011757 original size:42 final size:43
Alignment explanation
Indices: 59011671--59011783 Score: 129
Period size: 42 Copynumber: 2.7 Consensus size: 43
59011661 TTTATGAAAG
* **
59011671 AAACACCGCTATAGAACATGATTTTTAACGGCGCTTTCCCCAC
1 AAACGCCGCTATAGAACATGACCTTTAACGGCGCTTTCCCCAC
* ** * * *
59011714 AAATGTTGCTATAGAACA-GACCTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTATAGAACATGACCTTTAACGGCGCTTTCCCCAC
*
59011756 AAACGCCGCTAAAGAACATGACCTTTAA
1 AAACGCCGCTATAGAACATGACCTTTAA
59011784 AAAAATTATT
Statistics
Matches: 55, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
42 33 0.60
43 22 0.40
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTATAGAACATGACCTTTAACGGCGCTTTCCCCAC
Found at i:59015893 original size:30 final size:30
Alignment explanation
Indices: 59015857--59015916 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
59015847 AAGAGTGCGG
59015857 TTTTATGTAAGACTTTTTGCGGCGTTTTTA
1 TTTTATGTAAGACTTTTTGCGGCGTTTTTA
59015887 TTTTATGTAAGACTTTTTGCGGCGTTTTTA
1 TTTTATGTAAGACTTTTTGCGGCGTTTTTA
59015917 ATAAAAACGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.17, C:0.10, G:0.20, T:0.53
Consensus pattern (30 bp):
TTTTATGTAAGACTTTTTGCGGCGTTTTTA
Found at i:59016274 original size:7 final size:7
Alignment explanation
Indices: 59016262--59016327 Score: 62
Period size: 7 Copynumber: 9.6 Consensus size: 7
59016252 TTTCTAACAG
59016262 TAAACCC
1 TAAACCC
*
59016269 TAAACCT
1 TAAACCC
*
59016276 TAAACCT
1 TAAACCC
*
59016283 TAAACCA
1 TAAACCC
*
59016290 TAAACCA
1 TAAACCC
*
59016297 TAAACCA
1 TAAACCC
*
59016304 TAAGCCC
1 TAAACCC
*
59016311 -ACACCC
1 TAAACCC
59016317 TAAACCC
1 TAAACCC
59016324 TAAA
1 TAAA
59016328 TATATATATA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
6 4 0.08
7 47 0.92
ACGTcount: A:0.47, C:0.35, G:0.02, T:0.17
Consensus pattern (7 bp):
TAAACCC
Found at i:59016281 original size:14 final size:14
Alignment explanation
Indices: 59016262--59016327 Score: 71
Period size: 14 Copynumber: 4.8 Consensus size: 14
59016252 TTTCTAACAG
*
59016262 TAAACCCTAAACCT
1 TAAACCCTAAACCA
*
59016276 TAAACCTTAAACCA
1 TAAACCCTAAACCA
*
59016290 TAAACCATAAACCA
1 TAAACCCTAAACCA
* * *
59016304 TAAGCCC-ACACCC
1 TAAACCCTAAACCA
59016317 TAAACCCTAAA
1 TAAACCCTAAA
59016328 TATATATATA
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
13 10 0.24
14 32 0.76
ACGTcount: A:0.47, C:0.35, G:0.02, T:0.17
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:59016523 original size:14 final size:14
Alignment explanation
Indices: 59016498--59016550 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
59016488 TATAAAACAA
59016498 AAACCCACAAACTCT
1 AAACCCA-AAACTCT
*
59016513 AAACCCTAAAC-CTT
1 AAACCCAAAACTC-T
* *
59016527 AAATCAAAAACTCT
1 AAACCCAAAACTCT
59016541 AAACCCAAAA
1 AAACCCAAAA
59016551 TAATAAATAT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
13 1 0.03
14 22 0.73
15 7 0.23
ACGTcount: A:0.53, C:0.32, G:0.00, T:0.15
Consensus pattern (14 bp):
AAACCCAAAACTCT
Found at i:59016587 original size:43 final size:42
Alignment explanation
Indices: 59016534--59016662 Score: 125
Period size: 43 Copynumber: 3.0 Consensus size: 42
59016524 CTTAAATCAA
* *
59016534 AAACTCTAAACCCAAAATAATAAATATTATATCATAAACCCT
1 AAACTCTAAACCCAAAATAATAAACATTATATCATAAACCAT
** * * * * *
59016576 AAACTCTTAAA-CCATGGATATTAAACCTTAAATCTTAAATCAT
1 AAACTC-TAAACCCA-AAATAATAAACATTATATCATAAACCAT
* *
59016619 AAACCCTAAACCCCAAAATAATAAACATTATATCATAACCCAT
1 AAACTCTAAA-CCCAAAATAATAAACATTATATCATAAACCAT
59016662 A
1 A
59016663 TCCCTTAAAC
Statistics
Matches: 65, Mismatches: 18, Indels: 7
0.72 0.20 0.08
Matches are distributed among these distances:
42 13 0.20
43 49 0.75
44 3 0.05
ACGTcount: A:0.50, C:0.22, G:0.02, T:0.26
Consensus pattern (42 bp):
AAACTCTAAACCCAAAATAATAAACATTATATCATAAACCAT
Found at i:59017220 original size:21 final size:21
Alignment explanation
Indices: 59017171--59017258 Score: 70
Period size: 21 Copynumber: 4.2 Consensus size: 21
59017161 ATTTACCCTC
59017171 AAACCCTAAACCATAAACCAT
1 AAACCCTAAACCATAAACCAT
* * *
59017192 AAATCCTAGACTATAAACCCA-
1 AAACCCTAAACCATAAA-CCAT
** * *
59017213 AAACCCTAAATTATAAGCCCT
1 AAACCCTAAACCATAAACCAT
** *
59017234 AAATACTAAACCATAACCCAT
1 AAACCCTAAACCATAAACCAT
59017255 AAAC
1 AAAC
59017259 TAAATTGATT
Statistics
Matches: 50, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
20 2 0.04
21 45 0.90
22 3 0.06
ACGTcount: A:0.50, C:0.30, G:0.02, T:0.18
Consensus pattern (21 bp):
AAACCCTAAACCATAAACCAT
Found at i:59017576 original size:40 final size:41
Alignment explanation
Indices: 59017532--59017696 Score: 203
Period size: 40 Copynumber: 4.1 Consensus size: 41
59017522 TTTACGGCAT
* * * * *
59017532 TTTTTCAGAAAGCGACGCTAATGGTTGACT-TATAGCGGCG
1 TTTTTCAAAAAGCGCCGCTAATGCTCGACTCTATAGCAGCG
*
59017572 TTTTTCAAAAAGCGCCGCTAATGCTC-AATCTATAGCAGCG
1 TTTTTCAAAAAGCGCCGCTAATGCTCGACTCTATAGCAGCG
* * *
59017612 TTTTTCAAAAAGTGCCGTTGATGCTCGA-TCTATAGCAGCG
1 TTTTTCAAAAAGCGCCGCTAATGCTCGACTCTATAGCAGCG
* *
59017652 TTTTTCAAAAAGCGCTGCTAATGCTCGAC-CTATAGCGGCG
1 TTTTTCAAAAAGCGCCGCTAATGCTCGACTCTATAGCAGCG
59017692 TTTTT
1 TTTTT
59017697 GGTCCTAGCG
Statistics
Matches: 108, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
39 2 0.02
40 105 0.97
41 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (41 bp):
TTTTTCAAAAAGCGCCGCTAATGCTCGACTCTATAGCAGCG
Found at i:59017620 original size:141 final size:139
Alignment explanation
Indices: 59017368--59017623 Score: 363
Period size: 141 Copynumber: 1.8 Consensus size: 139
59017358 AAGCTGACGT
** * *
59017368 CATTGTGCTTAACTTTTTGTGGCGTTTTTTAGAAAGCATCGCTAATGGTCGACCTATGGTGTGTT
1 CATTGTGCTTAACTTTTTACGGCATTTTTTAGAAAGCATCGCTAATGGTCGACCTATGGTGCGTT
* * *
59017433 TTTCAGAAAGCGCTGCTAATGCTCGATATATAGCAGCGTTTTTCAAAAAGCACCGCTAATGCCAC
66 TTTCAAAAAGCGCCGCTAATGCTCAATATATAGCAGCGTTTTTCAAAAAGCACCGCTAATGCCAC
59017498 TAAAGCTCA
131 TAAAGCTCA
* * *
59017507 CATTGTGCTTAATTTTTTACGGCATTTTTTCAGAAAGCGA-CGCTAATGGTTGACTTATAGCG-G
1 CATTGTGCTTAACTTTTTACGGCATTTTTT-AGAAAGC-ATCGCTAATGGTCGACCTAT-G-GTG
*
59017570 CGTTTTTCAAAAAGCGCCGCTAATGCTCAATCTATAGCAGCGTTTTTCAAAAAG
62 CGTTTTTCAAAAAGCGCCGCTAATGCTCAATATATAGCAGCGTTTTTCAAAAAG
59017624 TGCCGTTGAT
Statistics
Matches: 102, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
139 26 0.25
140 23 0.23
141 52 0.51
142 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (139 bp):
CATTGTGCTTAACTTTTTACGGCATTTTTTAGAAAGCATCGCTAATGGTCGACCTATGGTGCGTT
TTTCAAAAAGCGCCGCTAATGCTCAATATATAGCAGCGTTTTTCAAAAAGCACCGCTAATGCCAC
TAAAGCTCA
Found at i:59018234 original size:23 final size:22
Alignment explanation
Indices: 59018182--59018234 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
59018172 GCTAACCTCA
**
59018182 TATATATGTTACATGCGAACCC
1 TATATATGTTACATGAAAACCC
**
59018204 TATATATGTTACATGTAAAACTG
1 TATATATGTTACATG-AAAACCC
59018227 TATATATG
1 TATATATG
59018235 CGAACCTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 15 0.58
23 11 0.42
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (22 bp):
TATATATGTTACATGAAAACCC
Found at i:59018255 original size:37 final size:37
Alignment explanation
Indices: 59018194--59018269 Score: 91
Period size: 37 Copynumber: 2.1 Consensus size: 37
59018184 TATATGTTAC
** *
59018194 ATGCGAACCCTATATATGTTACATGTAAAACTGTATAT
1 ATGCGAACCCTATATACATCACATGTAAAACT-TATAT
* *
59018232 ATGCGAA-CCTATATACATCACATGTGAACCTTATAT
1 ATGCGAACCCTATATACATCACATGTAAAACTTATAT
59018268 AT
1 AT
59018270 CTGTTAAATG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
36 7 0.21
37 19 0.58
38 7 0.21
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (37 bp):
ATGCGAACCCTATATACATCACATGTAAAACTTATAT
Found at i:59020490 original size:64 final size:64
Alignment explanation
Indices: 59020416--59020559 Score: 252
Period size: 64 Copynumber: 2.2 Consensus size: 64
59020406 AATGACCAAC
* * *
59020416 TGTATGAAAAATATTTAAAATTATATTTTTAGTATTTTATGTGTAAAACTATTAGTAAACAATTA
1 TGTAT-AAAAATATTTAAAATTATATTTTTAATATTTTATGTCTAAAACTATAAGTAAACAATTA
59020481 TGTATAAAAATATTTAAAATTATATTTTTAATATTTTATGTCTAAAACTATAAGTAAACAATTA
1 TGTATAAAAATATTTAAAATTATATTTTTAATATTTTATGTCTAAAACTATAAGTAAACAATTA
59020545 TGTATAAAAATATTT
1 TGTATAAAAATATTT
59020560 TTTAAATGCA
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
64 71 0.93
65 5 0.07
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.44
Consensus pattern (64 bp):
TGTATAAAAATATTTAAAATTATATTTTTAATATTTTATGTCTAAAACTATAAGTAAACAATTA
Found at i:59022754 original size:18 final size:17
Alignment explanation
Indices: 59022731--59022816 Score: 88
Period size: 18 Copynumber: 4.9 Consensus size: 17
59022721 AATAATAATG
59022731 TGTATAATAAAATTAAAA
1 TGTATAA-AAAATTAAAA
59022749 TGTATAAAAAA-TAAAA
1 TGTATAAAAAATTAAAA
*
59022765 -ATA-AAAGAAATAATAAAA
1 TGTATAAA-AAAT--TAAAA
59022783 TGTATAATAAAATTAAAA
1 TGTATAA-AAAATTAAAA
59022801 TGTATAAAAATATTAA
1 TGTATAAAAA-ATTAA
59022817 GATAAAACTT
Statistics
Matches: 58, Mismatches: 2, Indels: 16
0.76 0.03 0.21
Matches are distributed among these distances:
14 3 0.05
15 5 0.09
16 5 0.09
17 7 0.12
18 29 0.50
19 2 0.03
20 6 0.10
21 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (17 bp):
TGTATAAAAAATTAAAA
Found at i:59023301 original size:22 final size:23
Alignment explanation
Indices: 59023269--59023320 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
59023259 AAACCACTTA
* *
59023269 AGACAT-A-AACATCTAACATCT
1 AGACATCACAACACCTAAAATCT
59023290 A-ACATCACAACACCTAAAATCT
1 AGACATCACAACACCTAAAATCT
59023312 AGACATCAC
1 AGACATCAC
59023321 CAAATCACGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 4 0.15
21 2 0.08
22 13 0.50
23 7 0.27
ACGTcount: A:0.48, C:0.29, G:0.04, T:0.19
Consensus pattern (23 bp):
AGACATCACAACACCTAAAATCT
Found at i:59029419 original size:40 final size:40
Alignment explanation
Indices: 59029360--59029540 Score: 251
Period size: 40 Copynumber: 4.6 Consensus size: 40
59029350 ATTCGGATTG
*
59029360 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
59029399 ATAATCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
*
59029439 ATAACCGGGCTAAGTCTCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
* *
59029479 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA-CT
* **
59029519 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
59029541 TACTTGGTTT
Statistics
Matches: 128, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 28 0.22
40 100 0.78
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.22
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
Found at i:59035131 original size:27 final size:28
Alignment explanation
Indices: 59035088--59035201 Score: 137
Period size: 28 Copynumber: 4.2 Consensus size: 28
59035078 GAGAAAGCAT
*
59035088 TCTGGTGGATCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACAAATATCTGTA
* *
59035115 TCTGGTGGCTCTACCACAAATATCTGTT
1 TCTGGTGGCTCTGCCACAAATATCTGTA
*
59035143 TCTGGTGGC-CTTGCCACAATTATCTGTA
1 TCTGGTGGCTC-TGCCACAAATATCTGTA
* *
59035171 TCTGGTGACTCTGTCAC-AATATCTGT-
1 TCTGGTGGCTCTGCCACAAATATCTGTA
59035197 TCTGG
1 TCTGG
59035202 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 5 0.07
27 33 0.44
28 36 0.48
29 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (28 bp):
TCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:59037160 original size:14 final size:14
Alignment explanation
Indices: 59037141--59037180 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
59037131 AGTTGCTGAG
59037141 TACGAGGCTGAGTT
1 TACGAGGCTGAGTT
59037155 TACGAGGCTGAGTT
1 TACGAGGCTGAGTT
59037169 T-CTGAGGCTGAG
1 TAC-GAGGCTGAG
59037181 CCGGCATGCT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 1 0.04
14 24 0.96
ACGTcount: A:0.20, C:0.15, G:0.38, T:0.28
Consensus pattern (14 bp):
TACGAGGCTGAGTT
Found at i:59041111 original size:37 final size:37
Alignment explanation
Indices: 59040972--59041109 Score: 240
Period size: 37 Copynumber: 3.7 Consensus size: 37
59040962 CGAATAGTCC
* * *
59040972 CCACACGTAGTTATCGGGTCTTACCCGAAAAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGAACATAATCT
59041009 CCACACGTAGTCATCGGGTCTTACCCGAACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGAACATAATCT
*
59041046 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGAACATAATCT
59041083 CCACACGTAGTCATCGGGTCTTACCCG
1 CCACACGTAGTCATCGGGTCTTACCCG
59041110 GAATATATTT
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 97 1.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGAACATAATCT
Found at i:59041310 original size:48 final size:48
Alignment explanation
Indices: 59041252--59041964 Score: 1291
Period size: 48 Copynumber: 14.9 Consensus size: 48
59041242 ATATACACAC
*
59041252 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
59041300 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
59041348 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCGCATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
59041396 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCGCATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
59041444 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCGCATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
59041492 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
59041540 CTCTCATGCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
59041588 CTCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
59041636 CTCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
59041684 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
59041732 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
59041780 ATCTCATACATATTTCACACTAGCGATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
59041828 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
59041876 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
59041924 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
59041965 CACATATATA
Statistics
Matches: 650, Mismatches: 15, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 650 1.00
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:59045596 original size:40 final size:40
Alignment explanation
Indices: 59045395--59045596 Score: 368
Period size: 40 Copynumber: 5.0 Consensus size: 40
59045385 CCGAATGCAC
59045395 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* *
59045435 AACACCAGTACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
*
59045475 AACACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
59045515 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
*
59045555 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGCTAT
1 ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
59045595 AT
1 AT
59045597 AACTCTCAAT
Statistics
Matches: 157, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 157 1.00
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (40 bp):
ATCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
Found at i:59046928 original size:37 final size:37
Alignment explanation
Indices: 59046871--59047010 Score: 217
Period size: 37 Copynumber: 3.8 Consensus size: 37
59046861 CGAATAGTCC
* * * *
59046871 CCACACGTAGTTATCAGGTCTTACCTGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
59046908 CCACACGTAGTCATCGGGTCTCACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
* *
59046945 CCACACGTAGTCATCGGGTCTTACCCGAACATAATTT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
59046982 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
59047011 ATATATTTCC
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 94 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:59047212 original size:48 final size:48
Alignment explanation
Indices: 59047151--59047767 Score: 1117
Period size: 48 Copynumber: 12.9 Consensus size: 48
59047141 ATATACACAC
* *
59047151 ATCTCCTACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
59047199 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
59047247 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
59047295 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
59047343 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
59047391 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
59047439 ATCTCATGCATATTTCACACTAGCCATTCGGCTTTATCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
59047487 CTCTTATCCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
59047535 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
59047583 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAC
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
59047631 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
59047679 ATCTCATACATATTTCACACTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
59047727 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
59047768 CACATATATA
Statistics
Matches: 546, Mismatches: 23, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 546 1.00
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:59053008 original size:28 final size:28
Alignment explanation
Indices: 59052965--59053052 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 28
59052955 GGAGGAAGCA
59052965 TTCTGGTGGCTCTGCCACAAATATCTGT
1 TTCTGGTGGCTCTGCCACAAATATCTGT
*
59052993 TTCTGGTGGC-CTTGCCACAATTATCTGT
1 TTCTGGTGGCTC-TGCCACAAATATCTGT
* * *
59053021 ATCTGGTGACTCTGTCAC-AATATCTG-
1 TTCTGGTGGCTCTGCCACAAATATCTGT
59053047 TTCTGG
1 TTCTGG
59053053 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
26 5 0.10
27 8 0.15
28 38 0.73
29 1 0.02
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.38
Consensus pattern (28 bp):
TTCTGGTGGCTCTGCCACAAATATCTGT
Found at i:59055338 original size:28 final size:28
Alignment explanation
Indices: 59055296--59055361 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
59055286 ATAGTGCTTG
* * * *
59055296 CAGTAACAGTTTGGGCCTGAGCCCTATT
1 CAGTATCAGTGTGGGCCTAAGCCCGATT
59055324 CAGTATCAGTGTGGGCCTAAGCCCGATT
1 CAGTATCAGTGTGGGCCTAAGCCCGATT
*
59055352 TAGTATCAGT
1 CAGTATCAGT
59055362 ATAGTGCAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.29
Consensus pattern (28 bp):
CAGTATCAGTGTGGGCCTAAGCCCGATT
Found at i:59055488 original size:23 final size:23
Alignment explanation
Indices: 59055468--59055511 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
59055458 CACCAATATT
*
59055468 GCAGCATAGCTGCTAATAATAAC
1 GCAGCAAAGCTGCTAATAATAAC
*
59055491 GCAGCAAAGCTGCTTATAATA
1 GCAGCAAAGCTGCTAATAATA
59055512 GTAAACGTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (23 bp):
GCAGCAAAGCTGCTAATAATAAC
Found at i:59058415 original size:40 final size:41
Alignment explanation
Indices: 59058327--59058423 Score: 119
Period size: 40 Copynumber: 2.4 Consensus size: 41
59058317 TATGTCGGTA
*
59058327 TCGCACACTTAGTGCC-TTATATAGCCGAAGCTATGCCAAC
1 TCGCACACTTAGTGCCATTATATAGCCGAAGCTATGCAAAC
* * **
59058367 TCGAACACTTAGTGCCATT-TGTAGCCGAAGCTATATTAAAC
1 TCGCACACTTAGTGCCATTATATAGCCGAAGCTAT-GCAAAC
59058408 -CGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
59058424 AGCATAGACG
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
40 44 0.90
41 5 0.10
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (41 bp):
TCGCACACTTAGTGCCATTATATAGCCGAAGCTATGCAAAC
Found at i:59060719 original size:46 final size:46
Alignment explanation
Indices: 59060666--59060794 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
59060656 TATTTGGGCA
*
59060666 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
59060712 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
59060758 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59060795 GCGGGTTACA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:59066560 original size:23 final size:25
Alignment explanation
Indices: 59066533--59066599 Score: 84
Period size: 23 Copynumber: 2.7 Consensus size: 25
59066523 AATGAAAAAG
59066533 GCACTATGTGTGCGAATGG-GGC-A
1 GCACTATGTGTGCGAATGGAGGCTA
*
59066556 GCACTATGTGTGCGTATGGAAAGGCTA
1 GCACTATGTGTGCGAATGG--AGGCTA
*
59066583 GTACTATGTGTGCGAAT
1 GCACTATGTGTGCGAAT
59066600 AAATATATGC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
23 18 0.49
26 3 0.08
27 16 0.43
ACGTcount: A:0.24, C:0.15, G:0.34, T:0.27
Consensus pattern (25 bp):
GCACTATGTGTGCGAATGGAGGCTA
Found at i:59074111 original size:14 final size:14
Alignment explanation
Indices: 59074092--59074119 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
59074082 TAAGCAATTA
59074092 AGACTTAGATTACT
1 AGACTTAGATTACT
59074106 AGACTTAGATTACT
1 AGACTTAGATTACT
59074120 TTTTATTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
AGACTTAGATTACT
Found at i:59077454 original size:40 final size:40
Alignment explanation
Indices: 59077399--59077724 Score: 345
Period size: 40 Copynumber: 8.2 Consensus size: 40
59077389 GTTTGGATAA
*
59077399 AAAAACGCCGATATAGATCGAGCATTAGCGGCGCTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* * * * *
59077439 AAAAACACCGCTATAGATCGAGAATTAACGACGC-TTTTA
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* *
59077478 AAAAACGCCGCTATAGAACGAGCATTAACGGCGCTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* *
59077518 AAAAAACGCCGCTATAGATCGAGCATTAGCGGCACTTTTTA
1 -AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* * * *
59077559 AAAAACGTCGCTATAAATCAAGCATTAGCAGCGCTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* * * * *
59077599 AAAAAACACCACTATAGATCGAGC-TATAGCGACACTTATT-
1 -AAAAACGCCGCTATAGATCGAGCAT-TAGCGGCGCTTTTTG
*
59077639 AAAAAAGCCGCTATAGATCGAGCATTA-CTGGCGCTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGC-GGCGCTTTTTG
* * * * * * *
59077679 AAAAATGCCACTATAGGTCAACCATTAGCGGCGCCTTTTA
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
59077719 AAAAAC
1 AAAAAC
59077725 ATCGCAAAAA
Statistics
Matches: 234, Mismatches: 44, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
38 1 0.00
39 63 0.27
40 105 0.45
41 65 0.28
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (40 bp):
AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
Found at i:59077593 original size:81 final size:80
Alignment explanation
Indices: 59077398--59077724 Score: 367
Period size: 81 Copynumber: 4.1 Consensus size: 80
59077388 CGTTTGGATA
* * * *
59077398 AAAAAACGCCGATATAGATCGAGCATTAGCGGCGCTTTTTGAAAAACACCGCTATAGATCGAGAA
1 AAAAAACGCCGCTATAAATCGAGCATTAGCGGCGCTTTTTGAAAAACACCACTATAGATCGAGCA
* *
59077463 TTAACGACGC-TTTT
66 TTAGCGACACTTTTT
* * *
59077477 AAAAAACGCCGCTATAGAA-CGAGCATTAACGGCGCTTTTTGAAAAAACGCCGCTATAGATCGAG
1 AAAAAACGCCGCTATA-AATCGAGCATTAGCGGCGCTTTTTG-AAAAACACCACTATAGATCGAG
*
59077541 CATTAGCGGCACTTTTT
64 CATTAGCGACACTTTTT
* * *
59077558 AAAAAACGTCGCTATAAATCAAGCATTAGCAGCGCTTTTTGAAAAAACACCACTATAGATCGAGC
1 AAAAAACGCCGCTATAAATCGAGCATTAGCGGCGCTTTTTG-AAAAACACCACTATAGATCGAGC
*
59077623 -TATAGCGACACTTATT
65 AT-TAGCGACACTTTTT
* ** * * *
59077639 AAAAAA-GCCGCTATAGATCGAGCATTA-CTGGCGCTTTTTGAAAAATGCCACTATAGGTCAACC
1 AAAAAACGCCGCTATAAATCGAGCATTAGC-GGCGCTTTTTGAAAAACACCACTATAGATCGAGC
* * *
59077702 ATTAGCGGCGCCTTTT
65 ATTAGCGACACTTTTT
59077718 AAAAAAC
1 AAAAAAC
59077725 ATCGCAAAAA
Statistics
Matches: 211, Mismatches: 29, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
79 71 0.34
80 62 0.29
81 78 0.37
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (80 bp):
AAAAAACGCCGCTATAAATCGAGCATTAGCGGCGCTTTTTGAAAAACACCACTATAGATCGAGCA
TTAGCGACACTTTTT
Found at i:59077819 original size:40 final size:41
Alignment explanation
Indices: 59077764--59077866 Score: 156
Period size: 40 Copynumber: 2.6 Consensus size: 41
59077754 AGCTTTAGTG
59077764 GCATTAGCGGCGCTTTTTGAAAAATGCCGCCATAGATCG-C
1 GCATTAGCGGCGCTTTTTGAAAAATGCCGCCATAGATCGAC
* * *
59077804 GCATTAGTGGCGCTTTTTGAAAAATGCCGCTATAGGTCGAC
1 GCATTAGCGGCGCTTTTTGAAAAATGCCGCCATAGATCGAC
*
59077845 -CAATAGCGGCGCTTTTTGAAAA
1 GCATTAGCGGCGCTTTTTGAAAA
59077867 CGCCGCAAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 56 0.98
41 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.27
Consensus pattern (41 bp):
GCATTAGCGGCGCTTTTTGAAAAATGCCGCCATAGATCGAC
Found at i:59077896 original size:144 final size:143
Alignment explanation
Indices: 59077639--59077912 Score: 374
Period size: 144 Copynumber: 1.9 Consensus size: 143
59077629 GACACTTATT
* *
59077639 AAAAAAGCCGCTATAGATCGAGCATTACTGGCGCTTTTTGAAAAATGCCACTATAGGTCAACCAT
1 AAAAAAGCCGCCATAGATCGAGCATTACTGGCGCTTTTTGAAAAATGCCACTATAGGTCAACCAA
*
59077704 TAGCGGCGCCTTTTAAAAAACATCGCAAAAAAAATTTAACCACAATGTTGAGCTTTAGTGGCATT
66 TAGCGGCGCCTTTTAAAAAACACCGC-AAAAAAATTTAACCACAATGTTGAGCTTTAGTGGCATT
59077769 AGCGGCGCTTTTTG
130 AGCGGCGCTTTTTG
* * * * *
59077783 AAAAATGCCGCCATAGATCGCGCATTAGTGGCGCTTTTTGAAAAATGCCGCTATAGGTCGACCAA
1 AAAAAAGCCGCCATAGATCGAGCATTACTGGCGCTTTTTGAAAAATGCCACTATAGGTCAACCAA
** * *
59077848 TAGCGGCG-CTTTTTGAAAACGCCGC-AAAAAA-TTAAGCACACTTTATGTTGAGCTTTAGTGGC
66 TAGCGGCGCCTTTTAAAAAACACCGCAAAAAAATTTAA-C-CAC--AATGTTGAGCTTTAGTGGC
59077910 ATT
127 ATT
59077913 TCGCTATAGA
Statistics
Matches: 114, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
140 4 0.04
141 7 0.06
142 3 0.03
143 13 0.11
144 87 0.76
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (143 bp):
AAAAAAGCCGCCATAGATCGAGCATTACTGGCGCTTTTTGAAAAATGCCACTATAGGTCAACCAA
TAGCGGCGCCTTTTAAAAAACACCGCAAAAAAATTTAACCACAATGTTGAGCTTTAGTGGCATTA
GCGGCGCTTTTTG
Found at i:59077961 original size:40 final size:40
Alignment explanation
Indices: 59077916--59077996 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 40
59077906 TGGCATTTCG
* *
59077916 CTATAGATCAAGCATTTA-TGGCGCTTTTTGAAAAACGCCA
1 CTATAGATCAA-CAGTTAGCGGCGCTTTTTGAAAAACGCCA
* * *
59077956 CTATAGGTCAACCGTTAGCGGCTCTTTTTGAAAAACGCCA
1 CTATAGATCAACAGTTAGCGGCGCTTTTTGAAAAACGCCA
59077996 C
1 C
59077997 AAAAAAATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (40 bp):
CTATAGATCAACAGTTAGCGGCGCTTTTTGAAAAACGCCA
Found at i:59078197 original size:7 final size:7
Alignment explanation
Indices: 59078066--59078199 Score: 63
Period size: 7 Copynumber: 18.7 Consensus size: 7
59078056 TAGTTACTAT
*
59078066 TTTAAGG
1 TTTAGGG
*
59078073 TTTATGG
1 TTTAGGG
59078080 TTTATGGG
1 TTTA-GGG
*
59078088 TTAAGGG
1 TTTAGGG
59078095 -TTAGGG
1 TTTAGGG
* *
59078101 TTTAAGA
1 TTTAGGG
59078108 TTTAGGGG
1 TTTA-GGG
** *
59078116 GGTGGGG
1 TTTAGGG
*
59078123 TTTAAGG
1 TTTAGGG
59078130 TTTAGGGG
1 TTTA-GGG
*
59078138 TTAAGGG
1 TTTAGGG
* *
59078145 TTTATGT
1 TTTAGGG
*
59078152 TTTATGG
1 TTTAGGG
* *
59078159 TTTAAGA
1 TTTAGGG
59078166 TTTAGGG
1 TTTAGGG
**
59078173 GATAGGGG
1 TTTA-GGG
*
59078181 TTAAGGG
1 TTTAGGG
59078188 TTTAGGG
1 TTTAGGG
59078195 TTTAG
1 TTTAG
59078200 ATTAATTAGT
Statistics
Matches: 91, Mismatches: 31, Indels: 10
0.69 0.23 0.08
Matches are distributed among these distances:
6 5 0.05
7 70 0.77
8 16 0.18
ACGTcount: A:0.21, C:0.00, G:0.39, T:0.40
Consensus pattern (7 bp):
TTTAGGG
Found at i:59078197 original size:36 final size:36
Alignment explanation
Indices: 59078120--59078202 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 36
59078110 TAGGGGGGTG
* * * * *
59078120 GGGTTTAAGGTTTAGGGGTTAAGGGTTTATGTTTTA
1 GGGTTTAAGATTTAGGGGATAAGGGTTAAGGGTTTA
* *
59078156 TGGTTTAAGATTTAGGGGATAGGGGTTAAGGGTTTA
1 GGGTTTAAGATTTAGGGGATAAGGGTTAAGGGTTTA
59078192 GGGTTT-AGATT
1 GGGTTTAAGATT
59078203 AATTAGTGTT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
35 5 0.13
36 34 0.87
ACGTcount: A:0.22, C:0.00, G:0.37, T:0.41
Consensus pattern (36 bp):
GGGTTTAAGATTTAGGGGATAAGGGTTAAGGGTTTA
Found at i:59079036 original size:21 final size:22
Alignment explanation
Indices: 59079012--59079056 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
59079002 GCACGGTTTT
59079012 AACCCAAAATTTTCCCT-CTAA
1 AACCCAAAATTTTCCCTCCTAA
** *
59079033 AACCCCTAATTTTTCCTCCTAA
1 AACCCAAAATTTTCCCTCCTAA
59079055 AA
1 AA
59079057 TTGGTATCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.31
Consensus pattern (22 bp):
AACCCAAAATTTTCCCTCCTAA
Found at i:59085123 original size:44 final size:44
Alignment explanation
Indices: 59085075--59085163 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 44
59085065 GCTATCCCTT
* **
59085075 TCATTTAGGTGTCAACTTTTTTTTAACAGATATTATACCTTATA
1 TCATTTAGGTGTCAACATTAATTTAACAGATATTATACCTTATA
* * *
59085119 TCATTTAGGTGTCAACATTAATTTAATAGATGTTATGCCTTATA
1 TCATTTAGGTGTCAACATTAATTTAACAGATATTATACCTTATA
59085163 T
1 T
59085164 GATGCTATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.46
Consensus pattern (44 bp):
TCATTTAGGTGTCAACATTAATTTAACAGATATTATACCTTATA
Found at i:59087376 original size:19 final size:19
Alignment explanation
Indices: 59087353--59087394 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
59087343 TTTTATTGAT
59087353 ATTTTTA-TATTTAATTTA
1 ATTTTTATTATTTAATTTA
*
59087371 ATTTTTATTATTTATTTTA
1 ATTTTTATTATTTAATTTA
*
59087390 GTTTT
1 ATTTT
59087395 GATTCTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (19 bp):
ATTTTTATTATTTAATTTA
Found at i:59087534 original size:35 final size:35
Alignment explanation
Indices: 59087466--59087534 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
59087456 TAATTGTGTT
*
59087466 ATTAATTTATTATTTTAGATTCTAAATTTAAATTC
1 ATTAATTTATTATTTTAGATTCTAAATTAAAATTC
* * *
59087501 ATTAATTT-TTATATTTAGTTTTTAAGTTAAAATT
1 ATTAATTTATTAT-TTTAGATTCTAAATTAAAATT
59087535 TTAACTTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 4 0.14
35 25 0.86
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.57
Consensus pattern (35 bp):
ATTAATTTATTATTTTAGATTCTAAATTAAAATTC
Found at i:59087743 original size:42 final size:42
Alignment explanation
Indices: 59087665--59087897 Score: 202
Period size: 42 Copynumber: 5.5 Consensus size: 42
59087655 AATAGTCATA
* * * *
59087665 TTCTTTAGCGGCGTTTATAGGAAAAGTGCCGCTAAAGGTCTG
1 TTCTATAGCGGCGTTTGTGGGAAAAATGCCGCTAAAGGTCTG
* * *
59087707 TTCTATAGCTGCATTTGTGGGAAAAATGCCGCTAAAGGTCTA
1 TTCTATAGCGGCGTTTGTGGGAAAAATGCCGCTAAAGGTCTG
** *
59087749 TTCTATAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGGTCTG
1 TTCTATAGCGGCGTTTGTGGGAAAAATGCCGCTAAAGGTCTG
* * * *
59087791 TTCTGTAGAGGCGTTTGT-GGAAAAAAGCGACGCTAAAGGCCAT-
1 TTCTATAGCGGCGTTTGTGGGAAAAATGC--CGCTAAAGGTC-TG
* * * * *
59087834 ATCTTTAGCGGCGTTTGTAGGAAAAGA-GCCGTTAAAGGCCATG
1 TTCTATAGCGGCGTTTGTGGGAAAA-ATGCCGCTAAAGGTC-TG
* * *
59087877 ATCTTTAGCGGCATTTGTGGG
1 TTCTATAGCGGCGTTTGTGGG
59087898 TAAAGCGCCG
Statistics
Matches: 160, Mismatches: 25, Indels: 11
0.82 0.13 0.06
Matches are distributed among these distances:
41 8 0.05
42 99 0.62
43 43 0.27
44 9 0.06
45 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (42 bp):
TTCTATAGCGGCGTTTGTGGGAAAAATGCCGCTAAAGGTCTG
Found at i:59087858 original size:85 final size:85
Alignment explanation
Indices: 59087661--59087897 Score: 282
Period size: 84 Copynumber: 2.8 Consensus size: 85
59087651 TTTTAATAGT
* * * **
59087661 CATATTCTTTAGCGGCGTTTATAGGAAAAGTGCCGCTAAAGGTCTGTTCTATAGCTGCATTTGTG
1 CATATTCTTTAGCGGCGTTTGTAGGAAAAGAGCCGTTAAAGGTCTGTTCTATAGAGGCATTTGTG
* *
59087726 GGAAAAATGCCGCTAAAGGT
66 GGAAAAAAGCCGCTAAAGGC
* * * * *
59087746 C-TATTCTATAGCGGCGTTTGTGGGAAAAGCGCCGTTAAAGGTCTGTTCTGTAGAGGCGTTTGT-
1 CATATTCTTTAGCGGCGTTTGTAGGAAAAGAGCCGTTAAAGGTCTGTTCTATAGAGGCATTTGTG
59087809 GGAAAAAAGCGACGCTAAAGGC
66 GGAAAAAAGC--CGCTAAAGGC
* * * *
59087831 CATA-TCTTTAGCGGCGTTTGTAGGAAAAGAGCCGTTAAAGGCCATGATCTTTAGCGGCATTTGT
1 CATATTCTTTAGCGGCGTTTGTAGGAAAAGAGCCGTTAAAGGTC-TGTTCTATAGAGGCATTTGT
59087895 GGG
65 GGG
59087898 TAAAGCGCCG
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
83 9 0.07
84 53 0.41
85 46 0.36
86 18 0.14
87 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (85 bp):
CATATTCTTTAGCGGCGTTTGTAGGAAAAGAGCCGTTAAAGGTCTGTTCTATAGAGGCATTTGTG
GGAAAAAAGCCGCTAAAGGC
Found at i:59087991 original size:15 final size:15
Alignment explanation
Indices: 59087960--59087990 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
59087950 CACAAAAATG
59087960 TTAGCGGCGTTGTTT
1 TTAGCGGCGTTGTTT
59087975 TTAGCGGCGTT-TTT
1 TTAGCGGCGTTGTTT
59087989 TT
1 TT
59087991 TGCGCTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.06, C:0.13, G:0.29, T:0.52
Consensus pattern (15 bp):
TTAGCGGCGTTGTTT
Found at i:59089875 original size:40 final size:41
Alignment explanation
Indices: 59089787--59089883 Score: 110
Period size: 40 Copynumber: 2.4 Consensus size: 41
59089777 TAAGCCGGTA
*
59089787 TCGCACACTTAGTGCC-TTATATAGCCGAAGCTATGCCAAC
1 TCGCACACTTAGTGCCATTATATAGCCGAAGCTATGCAAAC
** * **
59089827 TCAAACACTTAGTGCCATT-TGTAGCCGAAGCTATATTAAAC
1 TCGCACACTTAGTGCCATTATATAGCCGAAGCTAT-GCAAAC
59089868 -CGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCA
59089884 AGCATAGTCG
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
40 42 0.89
41 5 0.11
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (41 bp):
TCGCACACTTAGTGCCATTATATAGCCGAAGCTATGCAAAC
Found at i:59093347 original size:20 final size:21
Alignment explanation
Indices: 59093306--59093348 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
59093296 TCCTAGTTAT
59093306 TTATGTTATAATTGTTGCAAA
1 TTATGTTATAATTGTTGCAAA
59093327 TTATGTT-TAATT-TTGCTAAA
1 TTATGTTATAATTGTTGC-AAA
59093347 TT
1 TT
59093349 CTATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 10 0.48
21 7 0.33
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (21 bp):
TTATGTTATAATTGTTGCAAA
Found at i:59093907 original size:35 final size:35
Alignment explanation
Indices: 59093860--59093927 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
59093850 TCTAAAGAAG
*
59093860 AAAGATGACATTTGGGTAATTGTTGATCAGTTGTC
1 AAAGATGACATTTGGATAATTGTTGATCAGTTGTC
*
59093895 AAAGATGCCATTTGGATAATTGTTGATCAGTTG
1 AAAGATGACATTTGGATAATTGTTGATCAGTTG
59093928 ACTAAGTCTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.29, C:0.09, G:0.25, T:0.37
Consensus pattern (35 bp):
AAAGATGACATTTGGATAATTGTTGATCAGTTGTC
Found at i:59108618 original size:21 final size:21
Alignment explanation
Indices: 59108577--59108620 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
59108567 TGGTTCAATC
* *
59108577 TCTGTGGGATCTTCTTCTTCT
1 TCTGTGGGATCCTCCTCTTCT
59108598 TCTGTGGGATCCTCACT-TTCT
1 TCTGTGGGATCCTC-CTCTTCT
59108619 TC
1 TC
59108621 AACTTGTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.07, C:0.27, G:0.18, T:0.48
Consensus pattern (21 bp):
TCTGTGGGATCCTCCTCTTCT
Found at i:59109879 original size:16 final size:15
Alignment explanation
Indices: 59109854--59109887 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
59109844 AAAGTTGATA
*
59109854 ATAATTAATATATATT
1 ATAATAAATATA-ATT
59109870 ATAATAAATATAATT
1 ATAATAAATATAATT
59109885 ATA
1 ATA
59109888 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:59111425 original size:21 final size:21
Alignment explanation
Indices: 59111399--59111439 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
59111389 ACACGGCTGC
59111399 GACACATGGTCGTGTCTCTGT
1 GACACATGGTCGTGTCTCTGT
59111420 GACACATGGTCGTGTCTCTG
1 GACACATGGTCGTGTCTCTG
59111440 CCTGTGTGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.15, C:0.24, G:0.29, T:0.32
Consensus pattern (21 bp):
GACACATGGTCGTGTCTCTGT
Found at i:59113868 original size:30 final size:30
Alignment explanation
Indices: 59113834--59113894 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
59113824 TCCTTAACTC
59113834 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
59113864 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
59113894 A
1 A
59113895 GGGTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:59116842 original size:26 final size:26
Alignment explanation
Indices: 59116789--59116855 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
59116779 CATAGAGCCA
*
59116789 TAATCAGGAAGTTCACAAAGAAATTT
1 TAATCAGGAAGCTCACAAAGAAATTT
*
59116815 TAATCAGGAAGCTCACAAAG-AGTGTT
1 TAATCAGGAAGCTCACAAAGAAAT-TT
*
59116841 TAAACAGGAAGCTCA
1 TAATCAGGAAGCTCA
59116856 AATGAGCCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 2 0.05
26 35 0.95
ACGTcount: A:0.43, C:0.15, G:0.19, T:0.22
Consensus pattern (26 bp):
TAATCAGGAAGCTCACAAAGAAATTT
Found at i:59117042 original size:65 final size:65
Alignment explanation
Indices: 59116915--59117060 Score: 166
Period size: 65 Copynumber: 2.2 Consensus size: 65
59116905 AGCTAGCCAT
* * * ** *
59116915 AACAGGACACCCACAAATAGCTACGTTTGTTTCTGCAACATATGCCGGATCACAACCAATCATAA
1 AACAGGACGCTCACAAATAGCTACGTTTGTGTCCACAACATATGCAGGATCACAACCAATCATAA
* * * *** *
59116980 AATAGGACGCTCACAAATAGCTGCGTTTGTGTCCACAATATATGCAGGATCACAATTGATCATAT
1 AACAGGACGCTCACAAATAGCTACGTTTGTGTCCACAACATATGCAGGATCACAACCAATCATAA
*
59117045 AACAGTACGCTCACAA
1 AACAGGACGCTCACAA
59117061 GGAGTTGCGG
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (65 bp):
AACAGGACGCTCACAAATAGCTACGTTTGTGTCCACAACATATGCAGGATCACAACCAATCATAA
Found at i:59121342 original size:16 final size:16
Alignment explanation
Indices: 59121323--59121353 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
59121313 CTTCTTCACT
59121323 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
59121339 TACTTACTTACTTAA
1 TACTCACTTACTTAA
59121354 TCAAATTCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:59121359 original size:20 final size:20
Alignment explanation
Indices: 59121320--59121359 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
59121310 AAACTTCTTC
* *
59121320 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
59121340 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
59121360 TCATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:59121735 original size:55 final size:53
Alignment explanation
Indices: 59121545--59121799 Score: 218
Period size: 55 Copynumber: 4.8 Consensus size: 53
59121535 ACGCGGGTAC
* * * * *
59121545 CTTACCATTTCCATGACTTGTCATGGTCTTACATGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* *
59121594 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
* * * * *
59121647 CTCACCAACGCCATGCCTTGGCATAGTCTTACATGGGA-CCTTCGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTT-GCCTTAT-G-AA
* ***
59121702 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA
* * * *
59121755 CCTTACCAATTGTCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTT
59121800 AAACCCTAAT
Statistics
Matches: 169, Mismatches: 26, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
49 38 0.22
50 1 0.01
52 4 0.02
53 45 0.27
54 10 0.06
55 67 0.40
56 4 0.02
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAA
Found at i:59121744 original size:108 final size:110
Alignment explanation
Indices: 59121592--59121792 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
59121582 ATCCTTTTGA
* *
59121592 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
59121655 -CGCCATGCCTTGGCATAGTCTTACATGGGACCTTCGCCTTATAGT
65 TCGCCATGCCTTGGCATAGTCTTACATGGGACCTTCGCCTTATAGT
* * *
59121700 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
* * *
59121765 TGTCATGCCTTGGCATGGTCTTACATGG
66 CGCCATGCCTTGGCATAGTCTTACATGG
59121793 TATCCTTAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.60
109 7 0.09
110 25 0.30
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
CGCCATGCCTTGGCATAGTCTTACATGGGACCTTCGCCTTATAGT
Found at i:59125032 original size:47 final size:49
Alignment explanation
Indices: 59124910--59125088 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 49
59124900 TGTAACCCGC
* *
59124910 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C-GTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTT-ACAT
* *
59124956 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACAT
* * * *
59125006 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTC-GA--ACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACAT
*
59125049 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
59125089 TCAACCATCC
Statistics
Matches: 110, Mismatches: 12, Indels: 19
0.78 0.09 0.13
Matches are distributed among these distances:
43 6 0.05
44 2 0.02
45 2 0.02
46 61 0.55
47 28 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACAT
Found at i:59125076 original size:93 final size:93
Alignment explanation
Indices: 59124917--59125088 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
59124907 CGCCCATAAG
** * *
59124917 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59124982 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
59125010 CGAACTCGGACTCAACTCAACGAGTTCGAACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
59125075 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
59125089 TCAACCATCC
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:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:59129473 original size:30 final size:30
Alignment explanation
Indices: 59129439--59129499 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
59129429 TTCTTAACTC
59129439 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
59129469 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
59129499 A
1 A
59129500 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:59133917 original size:30 final size:30
Alignment explanation
Indices: 59133883--59133943 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
59133873 TCCTCAACTC
*
59133883 AAACTTTGGTAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
59133913 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
59133943 A
1 A
59133944 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:59138906 original size:16 final size:16
Alignment explanation
Indices: 59138887--59138917 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
59138877 CTTCTTCGCT
59138887 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
59138903 TACTTACTTACTTAA
1 TACTCACTTACTTAA
59138918 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:59138923 original size:20 final size:20
Alignment explanation
Indices: 59138885--59138923 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
59138875 AACTTCTTCG
* *
59138885 CTTACTCACTTACTTAAATA
1 CTTACTCACTTAATCAAATA
*
59138905 CTTACTTACTTAATCAAAT
1 CTTACTCACTTAATCAAAT
59138924 TTATTAATAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.23, G:0.00, T:0.41
Consensus pattern (20 bp):
CTTACTCACTTAATCAAATA
Found at i:59139873 original size:46 final size:45
Alignment explanation
Indices: 59139816--59139991 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 45
59139806 TATTTGGGCA
59139816 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAG-G
* *** * * *
59139862 TCCAAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAGG
* * *
59139907 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-AGG
* * *
59139955 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59139992 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 19, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
45 1 0.01
46 71 0.67
47 32 0.30
48 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGG
Found at i:59139971 original size:93 final size:93
Alignment explanation
Indices: 59139812--59139983 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
59139802 GGGATATTTG
** *
59139812 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGTGTCCAAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAG
59139877 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
59139905 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAG
*
59139970 TTGAGTCTGAGTTC
66 TTGAGTCCGAGTTC
59139984 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:59142245 original size:47 final size:47
Alignment explanation
Indices: 59142182--59142686 Score: 762
Period size: 47 Copynumber: 10.6 Consensus size: 47
59142172 CCCTTCGGGA
* * * *
59142182 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
59142229 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
59142276 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTAGGC
* * *
59142323 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTAGGC
*
59142370 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
59142419 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
59142466 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
59142515 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
59142562 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
59142611 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
59142660 CTTATCATATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
59142687 TATTCAAATA
Statistics
Matches: 435, Mismatches: 15, Indels: 16
0.93 0.03 0.03
Matches are distributed among these distances:
46 1 0.00
47 249 0.57
49 184 0.42
50 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:59142415 original size:96 final size:96
Alignment explanation
Indices: 59142182--59142686 Score: 801
Period size: 96 Copynumber: 5.3 Consensus size: 96
59142172 CCCTTCGGGA
* *
59142182 CTTATCACAT-T-TATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
59142245 ACTTTCACATTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
59142276 CTTATCTC--ATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACA
1 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATA
*
59142338 CA-TGTTCACATTCATCACATTGGCCATTCGGC
65 CACT-TTCACATTCATCACATTGGCCATTAGGC
59142370 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
59142435 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATTGGCCATTAGGC
* *
59142466 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
59142531 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATTGGCCATTAGGC
*
59142562 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATAT
59142627 ACACTTTCACATTCATCACATTGGCCATTAGGC
64 ACACTTTCACATTCATCACATTGGCCATTAGGC
59142660 CTTAT--CATATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
59142687 TATTCAAATA
Statistics
Matches: 385, Mismatches: 16, Indels: 18
0.92 0.04 0.04
Matches are distributed among these distances:
93 3 0.01
94 88 0.23
96 249 0.65
97 2 0.01
98 43 0.11
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.34
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:59144209 original size:56 final size:56
Alignment explanation
Indices: 59144142--59144261 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
59144132 TATTAGTTTA
59144142 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
59144198 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
59144254 TTGCCCAT
1 TTGCCCAT
59144262 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:59147184 original size:15 final size:15
Alignment explanation
Indices: 59147134--59147206 Score: 62
Period size: 15 Copynumber: 4.9 Consensus size: 15
59147124 TCGTATCTTG
59147134 GGTTTCTTTA-TCCT
1 GGTTTCTTTATTCCT
* *
59147148 GAATCTCTTTATT-CT
1 G-GTTTCTTTATTCCT
59147163 GGATTTCTTTATTCCT
1 GG-TTTCTTTATTCCT
* *
59147179 GGTTTCTCTA-TCTT
1 GGTTTCTTTATTCCT
59147193 GGATTTCTTTATTC
1 GG-TTTCTTTATTC
59147207 GGTTTTCTTA
Statistics
Matches: 46, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
14 6 0.13
15 33 0.72
16 7 0.15
ACGTcount: A:0.12, C:0.19, G:0.12, T:0.56
Consensus pattern (15 bp):
GGTTTCTTTATTCCT
Found at i:59147205 original size:30 final size:31
Alignment explanation
Indices: 59147127--59147206 Score: 94
Period size: 30 Copynumber: 2.6 Consensus size: 31
59147117 CATAGTATCG
* *
59147127 TATCTTGGGTTTCTTTA-TCCTGAATCTCTT
1 TATCTTGGATTTCTTTATTCCTGAATCTCTC
* *
59147157 TAT-TCTGGATTTCTTTATTCCTG-GTTTCTC
1 TATCT-TGGATTTCTTTATTCCTGAATCTCTC
59147187 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
59147207 GGTTTTCTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
29 1 0.02
30 36 0.84
31 6 0.14
ACGTcount: A:0.12, C:0.19, G:0.12, T:0.56
Consensus pattern (31 bp):
TATCTTGGATTTCTTTATTCCTGAATCTCTC
Found at i:59149180 original size:46 final size:46
Alignment explanation
Indices: 59149127--59149302 Score: 219
Period size: 46 Copynumber: 3.8 Consensus size: 46
59149117 TATTTGGGCA
59149127 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *** * * * *
59149173 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGA-GCG
* *
59149220 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
59149266 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59149303 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:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:59149282 original size:93 final size:93
Alignment explanation
Indices: 59149123--59149294 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
59149113 GGGATATTTG
* *
59149123 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
59149188 TTGAGTCTGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
59149216 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
59149281 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
59149295 ACTTATGGGC
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:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:59150909 original size:108 final size:110
Alignment explanation
Indices: 59150770--59150970 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
59150760 ATCCTTTTGA
* * *
59150770 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCAC-CA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACAAA
59150832 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTCGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTCGCCTTATAGT
* * *
59150878 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACAAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACAAAT
**
59150943 TTTCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
59150971 TATCCTTAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.60
109 4 0.05
110 28 0.34
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACAAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTCGCCTTATAGT
Found at i:59150927 original size:55 final size:52
Alignment explanation
Indices: 59150721--59150977 Score: 213
Period size: 55 Copynumber: 4.8 Consensus size: 52
59150711 ACGCGGGTAC
* *
59150721 CTTACCATTGCCATGACTTGTCACATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCATTGCCATGTCTTG--ACATGGTCTTACAT-GTATCCTTGCCTTATG-AA
59150772 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCATTGCCATGTCTTGACATGGTCTTACAT-GTATCCTTGCCTTATGAA
* * * *
59150825 CTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTCGCCTTATAGTAA
1 CTTACCATTGCCATGTCTTGACATGGTCTTACAT-GTATCCTT-GCCTTAT-G-AA
* * *
59150880 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCATTGCCATGTCTTGACATGGTCTTACATG-TATCCTTGCCTTATG-AA
* ** * *
59150933 CCTTACAAATTTTCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTAC-CATTGCCATGTCTTGACATGGTCTTACAT-GTATCCTT
59150978 AAACCCTAAT
Statistics
Matches: 171, Mismatches: 22, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
49 20 0.12
50 1 0.01
51 19 0.11
52 4 0.02
53 48 0.28
54 8 0.05
55 66 0.39
56 5 0.03
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (52 bp):
CTTACCATTGCCATGTCTTGACATGGTCTTACATGTATCCTTGCCTTATGAA
Found at i:59161181 original size:18 final size:18
Alignment explanation
Indices: 59161158--59161194 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
59161148 CATTGTCACT
59161158 ACCACACTGAATGAGGAA
1 ACCACACTGAATGAGGAA
59161176 ACCACACTGAATGAGGAA
1 ACCACACTGAATGAGGAA
59161194 A
1 A
59161195 TCCCTCTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.11
Consensus pattern (18 bp):
ACCACACTGAATGAGGAA
Found at i:59170543 original size:40 final size:40
Alignment explanation
Indices: 59170506--59170731 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
59170496 GCTACTCGTT
* *
59170506 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
59170546 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
59170586 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** *
59170626 CCAATGCCTTC-GGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * *
59170666 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
59170707 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
59170732 CATCATTCGA
Statistics
Matches: 169, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 3 0.02
40 153 0.91
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:59171925 original size:56 final size:56
Alignment explanation
Indices: 59171858--59171977 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
59171848 TATTAGTTTA
*
59171858 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATATT
*
59171914 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATATT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATATT
59171970 TTGCCCAT
1 TTGCCCAT
59171978 CATCCCTTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATATT
Found at i:59172810 original size:18 final size:18
Alignment explanation
Indices: 59172760--59172822 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 18
59172750 AAAATGAAAT
59172760 GAAAGAAAAAGAGGAA-GA
1 GAAAGAAAAAGA-GAATGA
*
59172778 G--AGGAAAA-A-AATGA
1 GAAAGAAAAAGAGAATGA
**
59172792 GATTGAAAAAGAGAATGA
1 GAAAGAAAAAGAGAATGA
59172810 GAAAGAAAAAGAG
1 GAAAGAAAAAGAG
59172823 TTTGATCAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
13 2 0.06
14 3 0.09
15 1 0.03
16 11 0.31
17 1 0.03
18 17 0.49
ACGTcount: A:0.63, C:0.00, G:0.30, T:0.06
Consensus pattern (18 bp):
GAAAGAAAAAGAGAATGA
Found at i:59179801 original size:50 final size:50
Alignment explanation
Indices: 59179726--59180115 Score: 416
Period size: 50 Copynumber: 7.8 Consensus size: 50
59179716 ATTATGAATA
* * *
59179726 CACATGTTTAATACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATACTGTTAAGT
* * **
59179776 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACT-TCGA-T
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TC-AT-ACTGTTAAGT
* * *
59179827 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGATGAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATACTG-TTAAGT
* *
59179877 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATACTGTTAAGT
* * **
59179927 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACT-TCGA-T
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TC-AT-ACTGTTAAGT
* * *
59179978 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGATGAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATACTG-TTAAGT
* * * * * *
59180028 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGTTGA-T
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATACTGTTAAGT
* *
59180077 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTATCA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCA
59180116 GATAGCTTCG
Statistics
Matches: 285, Mismatches: 41, Indels: 29
0.80 0.12 0.08
Matches are distributed among these distances:
47 2 0.01
48 2 0.01
49 39 0.14
50 150 0.53
51 78 0.27
52 8 0.03
53 6 0.02
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATACTGTTAAGT
Found at i:59179902 original size:101 final size:101
Alignment explanation
Indices: 59179726--59180115 Score: 422
Period size: 101 Copynumber: 3.9 Consensus size: 101
59179716 ATTATGAATA
* * * * * *
59179726 CACATGTTTAATACTAAGTGTAGGCTACTACGTGTATCATACTG-TTAAGTCACATGTGTAGTAC
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACTGATGAGGTCACATGTGTAGTAC
* *
59179790 TAAGTGCAGGCTACTATGCGTACTCAATGACTTCGAT
66 TAAGTGCAGGCTACTACGCGTA-TCAATGACTTAGAT
*
59179827 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGATGAGGTCACGTGTGTAGTAC
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACTGATGAGGTCACATGTGTAGTAC
* *
59179891 TAAGTGTAGGCTACTACGTGTATC-AT-ACTGTTA-AGT
66 TAAGTGCAGGCTACTACGCGTATCAATGAC--TTAGA-T
* * ** *
59179927 CACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCA-A-TGACTTCGATCACATGTGTAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGACTGA-TGAGGTCACATGTGTAGT
* * *
59179990 ACTAAGTGCAGGCTACTACGTGTATCAGATGA-TGAGGT
64 ACTAAGTGCAGGCTACTACGCGTATCA-ATGACTTAGAT
* * * * *
59180028 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGTTGA--TCACATGTGTAGTAC
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACTGATGAGGTCACATGTGTAGTAC
*
59180091 TAAGTGCAGGCTACTATGCGTATCA
66 TAAGTGCAGGCTACTACGCGTATCA
59180116 GATAGCTTCG
Statistics
Matches: 247, Mismatches: 30, Indels: 26
0.82 0.10 0.09
Matches are distributed among these distances:
98 2 0.01
99 41 0.17
100 47 0.19
101 152 0.62
102 2 0.01
103 2 0.01
104 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (101 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGACTGATGAGGTCACATGTGTAGTAC
TAAGTGCAGGCTACTACGCGTATCAATGACTTAGAT
Found at i:59180011 original size:151 final size:151
Alignment explanation
Indices: 59179737--59180112 Score: 709
Period size: 151 Copynumber: 2.5 Consensus size: 151
59179727 ACATGTTTAA
59179737 TACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGTCACATGTGTAGTACTAAGTGCAGGCT
1 TACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGTCACATGTGTAGTACTAAGTGCAGGCT
59179802 ACTATGCGTACTCAATGACTTCGATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAG
66 ACTATGCGTACTCAATGACTTCGATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAG
59179867 ATGATGAGGTCACGTGTGTAG
131 ATGATGAGGTCACGTGTGTAG
59179888 TACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGTCACATGTGTAGTACTAAGTGCAGGCT
1 TACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGTCACATGTGTAGTACTAAGTGCAGGCT
59179953 ACTATGCGTACTCAATGACTTCGATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAG
66 ACTATGCGTACTCAATGACTTCGATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAG
59180018 ATGATGAGGTCACGTGTGTAG
131 ATGATGAGGTCACGTGTGTAG
* * * *
59180039 TACTAAGTGTAGGCTACTACGTGTACCAGATTGTTGA-TCACATGTGTAGTACTAAGTGCAGGCT
1 TACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGTCACATGTGTAGTACTAAGTGCAGGCT
59180103 ACTATGCGTA
66 ACTATGCGTA
59180113 TCAGATAGCT
Statistics
Matches: 221, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
150 37 0.17
151 184 0.83
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (151 bp):
TACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGTCACATGTGTAGTACTAAGTGCAGGCT
ACTATGCGTACTCAATGACTTCGATCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAG
ATGATGAGGTCACGTGTGTAG
Found at i:59181928 original size:26 final size:26
Alignment explanation
Indices: 59181869--59181925 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
59181859 AATCAACCCT
* * *
59181869 AGGGGTATAATGGTCATTTTGCTCTA
1 AGGGGTATAATGGTAATTTTACACTA
*
59181895 AGGGGTATAATGGTAATTTTCACACTT
1 AGGGGTATAATGGTAATTTT-ACACTA
59181922 AGGG
1 AGGG
59181926 TATTTTAGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.35
Consensus pattern (26 bp):
AGGGGTATAATGGTAATTTTACACTA
Found at i:59182865 original size:17 final size:17
Alignment explanation
Indices: 59182843--59182875 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
59182833 TCGGCTATGG
59182843 AGAAAA-GACAAGATGAT
1 AGAAAAGGA-AAGATGAT
59182860 AGAAAAGGAAAGATGA
1 AGAAAAGGAAAGATGA
59182876 GAAGGGAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.61, C:0.03, G:0.27, T:0.09
Consensus pattern (17 bp):
AGAAAAGGAAAGATGAT
Found at i:59185310 original size:33 final size:33
Alignment explanation
Indices: 59185268--59185334 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
59185258 CTTCGCTGCC
59185268 TCAGATTCAACTCCTTCTGAGTTAGCAGGTACT
1 TCAGATTCAACTCCTTCTGAGTTAGCAGGTACT
59185301 TCAGATTCAACTCCTTCTGAGTTAGCAGGTACT
1 TCAGATTCAACTCCTTCTGAGTTAGCAGGTACT
59185334 T
1 T
59185335 GAGACTCTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (33 bp):
TCAGATTCAACTCCTTCTGAGTTAGCAGGTACT
Found at i:59189585 original size:27 final size:27
Alignment explanation
Indices: 59189555--59189607 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
59189545 CTACTAGAAA
*
59189555 CAGATATTTGT-GACAGAGCCACCAGAT
1 CAGATATTTGTAG-CAGAACCACCAGAT
59189582 CAGATATTTGTAGCAGAACCACCAGA
1 CAGATATTTGTAGCAGAACCACCAGA
59189608 ACGCTTCCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.21
Consensus pattern (27 bp):
CAGATATTTGTAGCAGAACCACCAGAT
Found at i:59189768 original size:26 final size:26
Alignment explanation
Indices: 59189711--59189768 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
59189701 CAAAATCAAC
* ** *
59189711 CCTAGGGGTATAATGGTCATTTTGCT
1 CCTAGGGGTATAATGGTAATTTCACA
59189737 CCTAGGGGTATAATGGTAATTTCACA
1 CCTAGGGGTATAATGGTAATTTCACA
*
59189763 CTTAGG
1 CCTAGG
59189769 TTATTTTAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (26 bp):
CCTAGGGGTATAATGGTAATTTCACA
Found at i:59190059 original size:16 final size:16
Alignment explanation
Indices: 59190022--59190051 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
59190012 CAAAATGCCG
59190022 GCTTTTCGGCATTTTA
1 GCTTTTCGGCATTTTA
59190038 GCTTTTCGGC-TTTT
1 GCTTTTCGGCATTTT
59190052 TGCCTTTTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.07, C:0.20, G:0.20, T:0.53
Consensus pattern (16 bp):
GCTTTTCGGCATTTTA
Found at i:59190715 original size:17 final size:17
Alignment explanation
Indices: 59190693--59190725 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
59190683 TCAACTATGG
59190693 AGAAAAGAAAAGATGAA
1 AGAAAAGAAAAGATGAA
*
59190710 AGAAAAGGAAAGATGA
1 AGAAAAGAAAAGATGA
59190726 GAAGGGAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.27, T:0.06
Consensus pattern (17 bp):
AGAAAAGAAAAGATGAA
Found at i:59197669 original size:50 final size:49
Alignment explanation
Indices: 59197587--59197773 Score: 187
Period size: 50 Copynumber: 3.8 Consensus size: 49
59197577 TGAATACACG
* * * *
59197587 TGTGTAGTAGTAAGTGTAGGCTACTACATGTATCATACTGTTAAGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGTTAAGTCACA
* * * * * *
59197637 TGTGTAGTACTAACTGCAGGCTATTACGTGTATCAGATGATGAGGTCCCG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATG-TTAAGTCACA
* * * * *
59197687 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATTGA-TCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGTTAAGTCACA
* *
59197736 TGTGTAGTACTAAGTGCAGGCTACTATGCGTATCAGAT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT
59197774 AGCTTCGGCT
Statistics
Matches: 111, Mismatches: 24, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
48 1 0.01
49 38 0.34
50 71 0.64
51 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGTTAAGTCACA
Found at i:59197769 original size:99 final size:100
Alignment explanation
Indices: 59197585--59197773 Score: 245
Period size: 99 Copynumber: 1.9 Consensus size: 100
59197575 TGTGAATACA
* * * * *
59197585 CGTGTGTAGTAGTAAGTGTAGGCTACTACATGTATCATACTGTTAAGTCACATGTGTAGTACTAA
1 CGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTATTAAGTCACATGTGTAGTACTAA
* *
59197650 CTGCAGGCTATTACGTGTATCAGATGATGAGGTCC
66 CTGCAGGCTACTACGCGTATCAGATGATGAGGTCC
* * * * *
59197685 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTATTGA-TCGCATGTGTAGTACTAA
1 CGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTATTAAGTCACATGTGTAGTACTAA
* *
59197749 GTGCAGGCTACTATGCGTATCAGAT
66 CTGCAGGCTACTACGCGTATCAGAT
59197774 AGCTTCGGCT
Statistics
Matches: 75, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
99 38 0.51
100 37 0.49
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (100 bp):
CGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTATTAAGTCACATGTGTAGTACTAA
CTGCAGGCTACTACGCGTATCAGATGATGAGGTCC
Found at i:59201635 original size:44 final size:42
Alignment explanation
Indices: 59201500--59201654 Score: 143
Period size: 43 Copynumber: 3.6 Consensus size: 42
59201490 GGTACCTTAC
* * * * * *
59201500 CCCAGACGTGGTCTTACATGTAATCAAATATCAATGCCACTGT
1 CCCAGACATGGTCTTACACGAAATCATATA-CGATGCCAATGT
* * * *
59201543 CCCAGACAGGGTATTACACGAAATCATATACGATGCCGATGA
1 CCCAGACATGGTCTTACACGAAATCATATACGATGCCAATGT
*
59201585 CCCAGACATGGTCTTACACGTAAATC-TCA-AGTCGGTGCCAATGT
1 CCCAGACATGGTCTTACACG-AAATCAT-ATA--CGATGCCAATGT
*
59201629 CCCAGACATGGTCTTACACGATATCA
1 CCCAGACATGGTCTTACACGAAATCA
59201655 CACCTCAGAA
Statistics
Matches: 91, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
42 28 0.31
43 34 0.37
44 29 0.32
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (42 bp):
CCCAGACATGGTCTTACACGAAATCATATACGATGCCAATGT
Found at i:59205327 original size:26 final size:26
Alignment explanation
Indices: 59205290--59205373 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
59205280 TGATACAAAT
* *
59205290 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
59205316 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
59205342 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
59205368 TGATAA
1 TGATAA
59205374 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:59215396 original size:37 final size:37
Alignment explanation
Indices: 59215346--59215485 Score: 244
Period size: 37 Copynumber: 3.8 Consensus size: 37
59215336 CGAATAGTCC
*
59215346 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* *
59215383 CCACACGTAGTTATCGGGTCTTACCCGGAAAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
59215420 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
59215457 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
59215486 ATATATTTTC
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:59215687 original size:48 final size:48
Alignment explanation
Indices: 59215626--59216001 Score: 655
Period size: 48 Copynumber: 7.9 Consensus size: 48
59215616 CTATACACAC
*
59215626 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
59215674 ATCTCATATATATTTCACACTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
59215722 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
59215770 AT-TCATACATATTTTACACTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
59215817 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
59215865 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
59215913 ATCTCATACATATTTCACACTAGTCATACGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
59215961 ATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
59216002 CACATATATA
Statistics
Matches: 310, Mismatches: 17, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
47 45 0.15
48 265 0.85
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:59215956 original size:191 final size:192
Alignment explanation
Indices: 59215626--59216001 Score: 691
Period size: 191 Copynumber: 2.0 Consensus size: 192
59215616 CTATACACAC
*
59215626 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
*
59215691 CACTAGCCATTCAGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTT
66 CACTAGCCATTCAGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATACGGCTT
*
59215756 TACCACATATACATAT-TCATACATATTTTACACTAGCCATTTGGCTTTACCACATATACAT
131 TACCACATATACATATCTCATACATATTTCACACTAGCCATTTGGCTTTACCACATATACAT
59215817 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
* *
59215882 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGTCATACGGCTT
66 CACTAGCCATTCAGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATACGGCTT
*
59215947 TACCACATATACATATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACA
131 TACCACATATACATATCTCATACATATTTCACACTAGCCATTTGGCTTTACCACA
59216002 CACATATATA
Statistics
Matches: 178, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
191 142 0.80
192 36 0.20
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (192 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCA
CACTAGCCATTCAGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATACGGCTT
TACCACATATACATATCTCATACATATTTCACACTAGCCATTTGGCTTTACCACATATACAT
Found at i:59221621 original size:30 final size:30
Alignment explanation
Indices: 59221587--59221647 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
59221577 TCCTTAACTC
59221587 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
59221617 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
59221647 A
1 A
59221648 GGCTTGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:59227588 original size:40 final size:40
Alignment explanation
Indices: 59227451--59227675 Score: 246
Period size: 40 Copynumber: 5.5 Consensus size: 40
59227441 TATTCGGATG
*
59227451 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAGTTGCT
* *
59227494 ATATCCAGGCT-A-TCCCGACGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAGTTGCT
59227535 ATA-CCTGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
1 ATATCC-GGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
**
59227575 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
* * *
59227615 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
*
59227655 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
59227676 ATACTTGGGT
Statistics
Matches: 161, Mismatches: 15, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
39 15 0.09
40 79 0.49
41 39 0.24
42 2 0.01
43 26 0.16
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
Found at i:59233117 original size:47 final size:47
Alignment explanation
Indices: 59233039--59233224 Score: 273
Period size: 47 Copynumber: 3.9 Consensus size: 47
59233029 CCCTTCGGGA
* * * * *
59233039 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGC
* * *
59233086 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGC
*
59233133 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCACTAGGC
59233182 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACT
59233225 TTCACATTCA
Statistics
Matches: 126, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
47 79 0.63
49 47 0.37
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGC
Found at i:59233164 original size:49 final size:49
Alignment explanation
Indices: 59233039--59233394 Score: 278
Period size: 49 Copynumber: 6.9 Consensus size: 49
59233029 CCCTTCGGGA
* * * * *
59233039 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59233086 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59233133 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
59233182 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCACTTTCAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
* ** ** **
59233230 ATTCATCACATCGGCCAT-TAGGC-CTTATCACATATATACACTTTCACATTCATCACATCGGCC
1 CTT-ATCACAT-----ATATATACACTT-TCAC--AT-T-CA---TCACA-TCGGC-CAT---TA
59233293 ATTAGGC
47 ----GGC
59233300 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59233349 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
59233395 CGCCATACTA
Statistics
Matches: 248, Mismatches: 29, Indels: 62
0.73 0.09 0.18
Matches are distributed among these distances:
46 1 0.00
47 76 0.31
48 5 0.02
49 100 0.40
54 3 0.01
55 7 0.03
56 5 0.02
57 5 0.02
58 6 0.02
59 2 0.01
61 2 0.01
62 6 0.02
63 6 0.02
64 4 0.02
65 7 0.03
66 3 0.01
69 7 0.03
70 3 0.01
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:59233226 original size:71 final size:71
Alignment explanation
Indices: 59233150--59233293 Score: 288
Period size: 71 Copynumber: 2.0 Consensus size: 71
59233140 CATATATATA
59233150 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
59233215 ATCGGC
66 ATCGGC
59233221 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
1 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
59233286 ATCGGC
66 ATCGGC
59233292 CA
1 CA
59233294 TTAGGCCTTA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 73 1.00
ACGTcount: A:0.28, C:0.33, G:0.08, T:0.31
Consensus pattern (71 bp):
CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
ATCGGC
Done.