Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
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: 11160956
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 17 of 55
Found at i:3320391 original size:19 final size:19
Alignment explanation
Indices: 3320340--3320391 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
3320330 TTTTTAAAAA
*
3320340 TTTAATAAAAACATTAAATT
1 TTTAATAAAAA-ATAAAATT
* ***
3320360 TATAATTGGAAATAAAATT
1 TTTAATAAAAAATAAAATT
3320379 TTTAATAAAAAAT
1 TTTAATAAAAAAT
3320392 TATTTCTTTA
Statistics
Matches: 23, Mismatches: 9, Indels: 1
0.70 0.27 0.03
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (19 bp):
TTTAATAAAAAATAAAATT
Found at i:3320743 original size:32 final size:32
Alignment explanation
Indices: 3320701--3320797 Score: 115
Period size: 32 Copynumber: 3.0 Consensus size: 32
3320691 ACATAAACTG
*
3320701 AAAATCAACCGATCCGATATTGACCCAACCC-
1 AAAATCAACCGATCCGATATTGACCCGACCCA
* * * *
3320732 GAAATCTAACCGATCTGATATTAACTCGACCCA
1 AAAATC-AACCGATCCGATATTGACCCGACCCA
* *
3320765 AAAATCAACTGATCCGGTATTGACCCGACCCA
1 AAAATCAACCGATCCGATATTGACCCGACCCA
3320797 A
1 A
3320798 TATTGACCTG
Statistics
Matches: 53, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
31 5 0.09
32 43 0.81
33 5 0.09
ACGTcount: A:0.37, C:0.31, G:0.12, T:0.20
Consensus pattern (32 bp):
AAAATCAACCGATCCGATATTGACCCGACCCA
Found at i:3321137 original size:41 final size:42
Alignment explanation
Indices: 3321058--3321147 Score: 105
Period size: 41 Copynumber: 2.2 Consensus size: 42
3321048 ATTAAATTTA
* * *
3321058 AAATTCTAATTTTAACCTTTACAATCTTATTTTTTATTTTTC
1 AAATTCTAATTTTAACCTTTACAATCATATCTTCTATTTTTC
* * *
3321100 AAATTGTAATTTTTA-CTTTATAATCATATCTTCTA-TTTT-
1 AAATTCTAATTTTAACCTTTACAATCATATCTTCTATTTTTC
3321139 AAATTCTAA
1 AAATTCTAA
3321148 AAAAAGAACA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
39 8 0.20
40 4 0.10
41 16 0.39
42 13 0.32
ACGTcount: A:0.32, C:0.12, G:0.01, T:0.54
Consensus pattern (42 bp):
AAATTCTAATTTTAACCTTTACAATCATATCTTCTATTTTTC
Found at i:3321973 original size:62 final size:61
Alignment explanation
Indices: 3321813--3321979 Score: 196
Period size: 61 Copynumber: 2.7 Consensus size: 61
3321803 TTATTAATTT
* * * * * *
3321813 ATCATTTGAAAATAGTTTTAAAAAAGAAACTATTAATTTAATTTATTTATTAGATTTCTGA
1 ATCATTTAAAAATAATTTTAAAAATGAAAATATTAATTTTATTTATTTATTAAATTTCTGA
* * *
3321874 ATCATTTAAAAATAATTGTAAAACAT-AAAAAATTAATTTTATTTATTTATTAAAATTTTTGA
1 ATCATTTAAAAATAATTTTAAAA-ATGAAAATATTAATTTTATTTATTTATT-AAATTTCTGA
*
3321936 ATCATTT-AAAACAATTTTAAAAATGAAAATATTTAA-TTTATTTA
1 ATCATTTAAAAATAATTTTAAAAATGAAAATA-TTAATTTTATTTA
3321980 CATATGAAAT
Statistics
Matches: 90, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
60 2 0.02
61 68 0.76
62 20 0.22
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (61 bp):
ATCATTTAAAAATAATTTTAAAAATGAAAATATTAATTTTATTTATTTATTAAATTTCTGA
Found at i:3322897 original size:23 final size:23
Alignment explanation
Indices: 3322871--3322943 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
3322861 ATCAAGTATA
* *
3322871 ATAACATATTAGGTAGCGCTTAT
1 ATAACGTAATAGGTAGCGCTTAT
**
3322894 ATAACGTAATAGGTAATGCTTAT
1 ATAACGTAATAGGTAGCGCTTAT
*
3322917 ATAACGTAATAGATAGCGCTTAT
1 ATAACGTAATAGGTAGCGCTTAT
3322940 ATAA
1 ATAA
3322944 TAAAATATGT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (23 bp):
ATAACGTAATAGGTAGCGCTTAT
Found at i:3323078 original size:23 final size:23
Alignment explanation
Indices: 3323052--3323111 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
3323042 ATCAAGCACA
*
3323052 ATAACATATTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
* *
3323075 ATAACGTAATAGGTAGTGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
* *
3323098 ATAATAAAATAGGT
1 ATAACATAATAGGT
3323112 TAATTACTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.40, C:0.08, G:0.18, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:3323143 original size:158 final size:158
Alignment explanation
Indices: 3322911--3323243 Score: 558
Period size: 158 Copynumber: 2.1 Consensus size: 158
3322901 AATAGGTAAT
*
3322911 GCTTATATAACGTAATAGATAGCGCTTATATAATAAAATATGTTAATTACTTAATTTATTATTAC
1 GCTTATATAACGTAATAGATAGCGCTTATATAATAAAATAGGTTAATTACTTAATTTATTATTAC
* ** *
3322976 AACATATTAGGTAAATGCCTAAAATGCTATTAAGGATAACATAACCGGTTAATTACTGGAAACAT
66 AACATATTAGGTAAACGCCTAAAATGCTACCAAGGATAACATAACCGGTTAATTACTAGAAACAT
3323041 TATCAAGCACAATAACATATTAGGTAGC
131 TATCAAGCACAATAACATATTAGGTAGC
* * *
3323069 GCTTATATAACGTAATAGGTAGTGCTTATATAATAAAATAGGTTAATTACTTAATTTGTTATTAC
1 GCTTATATAACGTAATAGATAGCGCTTATATAATAAAATAGGTTAATTACTTAATTTATTATTAC
*
3323134 AACATATTAGGTAAACGCCTAAAATGTTACCAAGGATAACATAACCGGTTAATTACTAGAAACAT
66 AACATATTAGGTAAACGCCTAAAATGCTACCAAGGATAACATAACCGGTTAATTACTAGAAACAT
*
3323199 TATCAAGCATAATAACATATTAGGTAGC
131 TATCAAGCACAATAACATATTAGGTAGC
* *
3323227 GTTTATGTAACGTAATA
1 GCTTATATAACGTAATA
3323244 TGTTGCACAT
Statistics
Matches: 163, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
158 163 1.00
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (158 bp):
GCTTATATAACGTAATAGATAGCGCTTATATAATAAAATAGGTTAATTACTTAATTTATTATTAC
AACATATTAGGTAAACGCCTAAAATGCTACCAAGGATAACATAACCGGTTAATTACTAGAAACAT
TATCAAGCACAATAACATATTAGGTAGC
Found at i:3323502 original size:2 final size:2
Alignment explanation
Indices: 3323495--3323523 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3323485 TATAAGCATA
3323495 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3323524 ATGTGTGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3324642 original size:24 final size:24
Alignment explanation
Indices: 3324615--3324664 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
3324605 ATATTAAGGT
3324615 TAAATTACAAATTTATCCTTAAAC
1 TAAATTACAAATTTATCCTTAAAC
3324639 TAAATTACAAATTTATCCTTAAAC
1 TAAATTACAAATTTATCCTTAAAC
3324663 TA
1 TA
3324665 TTTTAGATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.46, C:0.16, G:0.00, T:0.38
Consensus pattern (24 bp):
TAAATTACAAATTTATCCTTAAAC
Found at i:3326139 original size:199 final size:198
Alignment explanation
Indices: 3325867--3327397 Score: 2249
Period size: 199 Copynumber: 7.7 Consensus size: 198
3325857 AAAAAGTGTT
* * * **
3325867 GATACATTATATTGACCTATTTTGTAATTAAACC-AGTATATTTCTATCGGTTATGTTGTAAATT
1 GATACATTATGTTGACCTATTTTCTAATT-AACCGA-TATATTTCTACCGGTTACATTGTAAATT
* * * *
3325931 TATCTATTACATTATAATTATCGGTTTTGATGTTTTAGGGATCAATACTTTTAATAAATGTATCG
64 TACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCG
*
3325996 ACACTTTATGTGTGCACCTCGTTTGGCATTCATTCTGGACAAAAAGTATCGACACAATTTAAAAA
129 ACACTTTATGCGTGCACCTCGTTTGGCATTCATTCTGGACAAAAAGTATCGACACAATTTAAAAA
3326061 GGTATC
194 -GTATC
* * *
3326067 GATACATTATGTTGACCTATTTTCTAATTAATCGATATATTTCTACCTGTTACATTGTAAATATA
1 GATACATTATGTTGACCTATTTTCTAATTAACCGATATATTTCTACCGGTTACATTGTAAATTTA
*
3326132 CCTATTACATTATAATTATCGGTTTTGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGAC
66 CCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGAC
* * * *
3326197 ATTTTATGCGTGCACCTTGTTTGACATTCATTTTGGACAAAAAGTATCGACACAATTTAAAAAGT
131 ACTTTATGCGTGCACCTCGTTTGGCATTCATTCTGGACAAAAAGTATCGACACAATTTAAAAAGT
3326262 ATC
196 ATC
* * *
3326265 GAAACATTATGTTGACCTATTTTCTAATTAACCGGTATATTTCTACTGGTTACATTGTAAATTTA
1 GATACATTATGTTGACCTATTTTCTAATTAACCGATATATTTCTACCGGTTACATTGTAAATTTA
* *
3326330 CCTATTACATTATAATTATCAGTTTCGATGTTTTTGGGGTCGATACTTTTAATAAATGTATCGAC
66 CCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGAC
* * ** *
3326395 GCTTTATGTGTGCACCTTTTTTGGCATTCATTCTGGACAAAAAGTATCGACATAATTTAAAAATG
131 ACTTTATGCGTGCACCTCGTTTGGCATTCATTCTGGACAAAAAGTATCGACACAATTTAAAAA-G
*
3326460 TATT
195 TATC
* *
3326464 GATACATTATGTTGACATATTTTCTAATTAACCGGTATATTTCTACCGGTTACATTGTAAATTTA
1 GATACATTATGTTGACCTATTTTCTAATTAACCGATATATTTCTACCGGTTACATTGTAAATTTA
* *
3326529 CCTATTACATTATAATTATCGGTTTCGATGTTTCTGGGGTCGATACTTTTAATAAATGTATCGAC
66 CCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGAC
* * *
3326594 ACTTTATGCGTGCACCTCGTTTGGCATTCATTATGGAAAAAAAGTATTGACACAATTTAAAAAGT
131 ACTTTATGCGTGCACCTCGTTTGGCATTCATTCTGGACAAAAAGTATCGACACAATTTAAAAAGT
3326659 ATC
196 ATC
* *
3326662 GATACATTATGTTGACCTATTTTCTAATTAACCGGTATATTTCTACTGGTTACATTGTAAATTTA
1 GATACATTATGTTGACCTATTTTCTAATTAACCGATATATTTCTACCGGTTACATTGTAAATTTA
* * * *
3326727 CATATTACATTATAATTATCAGTTTCGATGTTTTTGGGGTCGATACTTTTAATAAATGTATTGAC
66 CCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGAC
* * * *
3326792 GCTTTATGTGTGCACCTCTTTTGGCAATCATTCTGGACAAAAAGTATCGACACAATTTAAAAATG
131 ACTTTATGCGTGCACCTCGTTTGGCATTCATTCTGGACAAAAAGTATCGACACAATTTAAAAA-G
3326857 TATC
195 TATC
* *
3326861 GATACATTATGTTGACCTATTTTCTAATTAACCGGTATATTTCTGCCGGTTACATTGTAAATTTA
1 GATACATTATGTTGACCTATTTTCTAATTAACCGATATATTTCTACCGGTTACATTGTAAATTTA
* * * *
3326926 CCTATTACATTATAATTATTGGTTTCGATGTTTCTGGGGTCAATACTTTTAATAAATGTATCGAC
66 CCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGAC
* * *
3326991 ACTTTATGCGTGCACCTCGTTTGGCATTCATTATGGACAAAAAGTATTGACACAATTTAAAAATA
131 ACTTTATGCGTGCACCTCGTTTGGCATTCATTCTGGACAAAAAGTATCGACACAATTTAAAAA-G
*
3327056 TATT
195 TATC
* * *
3327060 GATACATTATGTTGACCTATTTTCTAATTAACCGATATATTTCAACTGATTACATTGTAAATTTA
1 GATACATTATGTTGACCTATTTTCTAATTAACCGATATATTTCTACCGGTTACATTGTAAATTTA
* * * ** *
3327125 CGTATTACATTATAATTATTGGTTTCGATGTTTTTGGGATTGATACTTACAATAAATGTATAGAC
66 CCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGAC
* * * *
3327190 ACTTTATGCGTGCACCTAGTTGGGCATTCATTCTGGACCAAAAGTATCGACACAAATTTCAAAAG
131 ACTTTATGCGTGCACCTCGTTTGGCATTCATTCTGGACAAAAAGTATCGACAC-AATTTAAAAAG
*
3327255 TGTC
195 TATC
* *
3327259 GATACATTATGTTGACCTATTTACTAATTAAACTGATATATTTCTACCGGTTACATTGTAAATTT
1 GATACATTATGTTGACCTATTTTCTAATT-AACCGATATATTTCTACCGGTTACATTGTAAATTT
* * * *
3327324 ACCTATTAAATTATAATTACCGGTTTCTATGTTTTTGGGATCAATACAATTTT-ATAAAT-TATC
65 ACCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATAC--TTTTAATAAATGTATC
* *
3327387 GATACATTATG
128 GACACTTTATG
3327398 TTTACCTATT
Statistics
Matches: 1209, Mismatches: 115, Indels: 14
0.90 0.09 0.01
Matches are distributed among these distances:
198 366 0.30
199 715 0.59
200 120 0.10
201 6 0.00
202 2 0.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.40
Consensus pattern (198 bp):
GATACATTATGTTGACCTATTTTCTAATTAACCGATATATTTCTACCGGTTACATTGTAAATTTA
CCTATTACATTATAATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGAC
ACTTTATGCGTGCACCTCGTTTGGCATTCATTCTGGACAAAAAGTATCGACACAATTTAAAAAGT
ATC
Found at i:3326638 original size:397 final size:397
Alignment explanation
Indices: 3325835--3327397 Score: 2344
Period size: 397 Copynumber: 3.9 Consensus size: 397
3325825 CGTGTAATTT
* * * * *
3325835 AAAAAAA-TATCGATACAAATTTAAAAAGTGTTGATACATTATATTGACCTATTTTGTAATTAAA
1 AAAAAAAGTATCGACAC-AATTTAAAAAGTATCGATACATTATGTTGACCTATTTTCTAATT-AA
* ** * * *
3325899 CCAGTATATTTCTA-TCGGTTATGTTGTAAATTTATCTATTACATTATAATTATCGGTTTTGATG
64 CCGGTATATTTCTACT-GGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATG
* *
3325963 TTTTAGGGATCAATACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTCGTTTGGCATTCA
128 TTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTCGTTTGGCATTCA
*
3326028 TTCTGGACAAAAAGTATCGACACAATTTAAAAAGGTATCGATACATTATGTTGACCTATTTTCTA
193 TTCTGGACAAAAAGTATCGACACAATTTAAAAATGTATCGATACATTATGTTGACCTATTTTCTA
* * * *
3326093 ATTAATCGATATATTTCTACCTGTTACATTGTAAATATACCTATTACATTATAATTATCGGTTTT
258 ATTAACCGATATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTC
* * * * *
3326158 GATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACATTTTATGCGTGCACCTTGTTTGACA
323 GATGTTTCTGGGATCAATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCA
*
3326223 TTCATTTTGG
388 TTCATTATGG
* *
3326233 ACAAAAAGTATCGACACAATTTAAAAAGTATCGAAACATTATGTTGACCTATTTTCTAATTAACC
1 AAAAAAAGTATCGACACAATTTAAAAAGTATCGATACATTATGTTGACCTATTTTCTAATTAACC
3326298 GGTATATTTCTACTGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTT
66 GGTATATTTCTACTGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTT
* * **
3326363 TTGGGGTCGATACTTTTAATAAATGTATCGACGCTTTATGTGTGCACCTTTTTTGGCATTCATTC
131 TTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTCGTTTGGCATTCATTC
* * *
3326428 TGGACAAAAAGTATCGACATAATTTAAAAATGTATTGATACATTATGTTGACATATTTTCTAATT
196 TGGACAAAAAGTATCGACACAATTTAAAAATGTATCGATACATTATGTTGACCTATTTTCTAATT
*
3326493 AACCGGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGAT
261 AACCGATATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGAT
* *
3326558 GTTTCTGGGGTCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATTC
326 GTTTCTGGGATCAATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATTC
3326623 ATTATGG
391 ATTATGG
*
3326630 AAAAAAAGTATTGACACAATTTAAAAAGTATCGATACATTATGTTGACCTATTTTCTAATTAACC
1 AAAAAAAGTATCGACACAATTTAAAAAGTATCGATACATTATGTTGACCTATTTTCTAATTAACC
*
3326695 GGTATATTTCTACTGGTTACATTGTAAATTTACATATTACATTATAATTATCAGTTTCGATGTTT
66 GGTATATTTCTACTGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTT
* * * * *
3326760 TTGGGGTCGATACTTTTAATAAATGTATTGACGCTTTATGTGTGCACCTCTTTTGGCAATCATTC
131 TTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTCGTTTGGCATTCATTC
3326825 TGGACAAAAAGTATCGACACAATTTAAAAATGTATCGATACATTATGTTGACCTATTTTCTAATT
196 TGGACAAAAAGTATCGACACAATTTAAAAATGTATCGATACATTATGTTGACCTATTTTCTAATT
* * *
3326890 AACCGGTATATTTCTGCCGGTTACATTGTAAATTTACCTATTACATTATAATTATTGGTTTCGAT
261 AACCGATATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGAT
*
3326955 GTTTCTGGGGTCAATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATTC
326 GTTTCTGGGATCAATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATTC
3327020 ATTATGG
391 ATTATGG
* * * *
3327027 ACAAAAAGTATTGACACAATTTAAAAATATATTGATACATTATGTTGACCTATTTTCTAATTAAC
1 AAAAAAAGTATCGACACAATTTAAAAA-GTATCGATACATTATGTTGACCTATTTTCTAATTAAC
* * * * **
3327092 CGATATATTTCAACTGATTACATTGTAAATTTACGTATTACATTATAATTATTGGTTTCGATGTT
65 CGGTATATTTCTACTGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTT
* ** * * * *
3327157 TTTGGGATTGATACTTACAATAAATGTATAGACACTTTATGCGTGCACCTAGTTGGGCATTCATT
130 TTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTCGTTTGGCATTCATT
* * * *
3327222 CTGGACCAAAAGTATCGACACAAATTTCAAAA-GTGTCGATACATTATGTTGACCTATTTACTAA
195 CTGGACAAAAAGTATCGACAC-AATTTAAAAATGTATCGATACATTATGTTGACCTATTTTCTAA
* * *
3327286 TTAAACTGATATATTTCTACCGGTTACATTGTAAATTTACCTATTAAATTATAATTACCGGTTTC
259 TT-AACCGATATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTC
* * * *
3327351 TATGTTTTTGGGATCAATACAATTTT-ATAAAT-TATCGATACATTATG
323 GATGTTTCTGGGATCAATAC--TTTTAATAAATGTATCGACACTTTATG
3327398 TTTACCTATT
Statistics
Matches: 1076, Mismatches: 82, Indels: 13
0.92 0.07 0.01
Matches are distributed among these distances:
397 717 0.67
398 246 0.23
399 103 0.10
400 6 0.01
401 4 0.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.40
Consensus pattern (397 bp):
AAAAAAAGTATCGACACAATTTAAAAAGTATCGATACATTATGTTGACCTATTTTCTAATTAACC
GGTATATTTCTACTGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTT
TTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTCGTTTGGCATTCATTC
TGGACAAAAAGTATCGACACAATTTAAAAATGTATCGATACATTATGTTGACCTATTTTCTAATT
AACCGATATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGAT
GTTTCTGGGATCAATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATTC
ATTATGG
Found at i:3326984 original size:596 final size:594
Alignment explanation
Indices: 3325836--3327397 Score: 2333
Period size: 596 Copynumber: 2.6 Consensus size: 594
3325826 GTGTAATTTA
* * * * *
3325836 AAAAAATATCGATACAAATTTAAAAA-GTGTTGATACATTATATTGACCTATTTTGTAATTAAAC
1 AAAAAGTATCGACAC-AATTTAAAAATGTATTGATACATTATGTTGACCTATTTTCTAATT-AAC
* * ** * *
3325900 CAGTATATTTCTATCGGTTATGTTGTAAATTTATCTATTACATTATAATTATCGGTTTTGATGTT
64 CGGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
* *
3325965 TTAGGGATCAATACTTTTAATAAATGTATCGACACTTTATGTGTGCACCTCGTTTGGCATTCATT
129 TT-GGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATTCATT
3326030 CTGGACAAAAAGTATCGACACAATTTAAAAAGGTATCGATACATTATGTTGACCTATTTTCTAAT
193 CTGGACAAAAAGTATCGACACAATTTAAAAA-GTATCGATACATTATGTTGACCTATTTTCTAAT
* * *
3326095 TAATCGATATATTTCTACCT-GTTACATTGTAAATATACCTATTACATTATAATTATCGGTTTTG
257 TAACCGATATATTTCTA-CTGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCG
* *
3326159 ATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACATTTTATGCGTGCACCTTGTTTGACAT
321 ATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTTGTTTGACAA
*
3326224 TCATTTTGGACAAAAAGTATCGACACAATTTAAAAAGTATCGAAACATTATGTTGACCTATTTTC
386 TCATTCTGGACAAAAAGTATCGACACAATTTAAAAAGTATCGAAACATTATGTTGACCTATTTTC
*
3326289 TAATTAACCGGTATATTTCTACTGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTT
451 TAATTAACCGGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTT
* * * * **
3326354 TCGATGTTTTTGGGGTCGATACTTTTAATAAATGTATCGACGCTTTATGTGTGCACCTTTTTTGG
516 TCGATGTTTCTGGGGTCAATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGG
*
3326419 CATTCATTCTGGAC
581 CATTCATTATGGAC
* *
3326433 AAAAAGTATCGACATAATTTAAAAATGTATTGATACATTATGTTGACATATTTTCTAATTAACCG
1 AAAAAGTATCGACACAATTTAAAAATGTATTGATACATTATGTTGACCTATTTTCTAATTAACCG
3326498 GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTC
66 GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTT-
* *
3326563 TGGGGTCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATTCATTAT
130 TGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATTCATTCT
* *
3326628 GGAAAAAAAGTATTGACACAATTTAAAAAGTATCGATACATTATGTTGACCTATTTTCTAATTAA
195 GGACAAAAAGTATCGACACAATTTAAAAAGTATCGATACATTATGTTGACCTATTTTCTAATTAA
* * *
3326693 CCGGTATATTTCTACTGGTTACATTGTAAATTTACATATTACATTATAATTATCAGTTTCGATGT
260 CCGATATATTTCTACTGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGT
* * * * *
3326758 TTTTGGGGTCGATACTTTTAATAAATGTATTGACGCTTTATGTGTGCACCTCT-TTTGGCAATCA
325 TTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCT-TGTTTGACAATCA
*
3326822 TTCTGGACAAAAAGTATCGACACAATTTAAAAATGTATCGATACATTATGTTGACCTATTTTCTA
389 TTCTGGACAAAAAGTATCGACACAATTTAAAAA-GTATCGAAACATTATGTTGACCTATTTTCTA
* **
3326887 ATTAACCGGTATATTTCTGCCGGTTACATTGTAAATTTACCTATTACATTATAATTATTGGTTTC
453 ATTAACCGGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTC
3326952 GATGTTTCTGGGGTCAATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCA
518 GATGTTTCTGGGGTCAATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCA
3327017 TTCATTATGGAC
583 TTCATTATGGAC
* *
3327029 AAAAAGTATTGACACAATTTAAAAATATATTGATACATTATGTTGACCTATTTTCTAATTAACCG
1 AAAAAGTATCGACACAATTTAAAAATGTATTGATACATTATGTTGACCTATTTTCTAATTAACCG
* * * * * *
3327094 ATATATTTCAACTGATTACATTGTAAATTTACGTATTACATTATAATTATTGGTTTCGATGTTTT
66 GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATG-TTT
* ** * * *
3327159 TGGGATTGATACTTACAATAAATGTATAGACACTTTATGCGTGCACCTAGTTGGGCATTCATTCT
130 TGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATTCATTCT
* * * *
3327224 GGACCAAAAGTATCGACACAAATTTCAAAAGTGTCGATACATTATGTTGACCTATTTACTAATTA
195 GGACAAAAAGTATCGACAC-AATTTAAAAAGTATCGATACATTATGTTGACCTATTTTCTAATT-
* * * * *
3327289 AACTGATATATTTCTACCGGTTACATTGTAAATTTACCTATTAAATTATAATTACCGGTTTCTAT
258 AACCGATATATTTCTACTGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGAT
* * *
3327354 GTTTTTGGGATCAATACAATTTT-ATAAAT-TATCGATACATTATG
323 GTTTTTGGGATCGATAC--TTTTAATAAATGTATCGACACTTTATG
3327398 TTTACCTATT
Statistics
Matches: 872, Mismatches: 83, Indels: 19
0.90 0.09 0.02
Matches are distributed among these distances:
594 2 0.00
595 179 0.21
596 511 0.59
597 87 0.10
598 83 0.10
599 6 0.01
600 4 0.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.40
Consensus pattern (594 bp):
AAAAAGTATCGACACAATTTAAAAATGTATTGATACATTATGTTGACCTATTTTCTAATTAACCG
GTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTTTT
GGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATTCATTCTG
GACAAAAAGTATCGACACAATTTAAAAAGTATCGATACATTATGTTGACCTATTTTCTAATTAAC
CGATATATTTCTACTGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGATGTT
TTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTTGTTTGACAATCATT
CTGGACAAAAAGTATCGACACAATTTAAAAAGTATCGAAACATTATGTTGACCTATTTTCTAATT
AACCGGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGAT
GTTTCTGGGGTCAATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCATTC
ATTATGGAC
Found at i:3328895 original size:24 final size:25
Alignment explanation
Indices: 3328838--3328895 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
3328828 GCCGAAATTT
3328838 ATATCGAAATTCAAACTCAAATTGAA
1 ATAT-GAAATTCAAACTCAAATTGAA
* *
3328864 AT-TTAAATTCAAACTCCAATT-AA
1 ATATGAAATTCAAACTCAAATTGAA
3328887 ATATGAAAT
1 ATATGAAAT
3328896 GAACATGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
23 4 0.14
24 21 0.75
25 1 0.04
26 2 0.07
ACGTcount: A:0.50, C:0.14, G:0.05, T:0.31
Consensus pattern (25 bp):
ATATGAAATTCAAACTCAAATTGAA
Found at i:3333457 original size:6 final size:6
Alignment explanation
Indices: 3333446--3333491 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
3333436 AATTCCATTA
*
3333446 TATTTT TATTTT TATCTT TACTTTT T-TTTT TCA-TTT TATTTT TATT
1 TATTTT TATTTT TATTTT TA-TTTT TATTTT T-ATTTT TATTTT TATT
3333492 CATTCAAGCA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
5 6 0.18
6 24 0.71
7 4 0.12
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (6 bp):
TATTTT
Found at i:3337180 original size:3 final size:3
Alignment explanation
Indices: 3337172--3337221 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
3337162 ACTTGTTTGG
* * * *
3337172 ATC ATC ATC ATC ATC ATC ATC ATC TTC ATC TTC ATC TTC ATC ATC TTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
3337220 AT
1 AT
3337222 TGAGCACTTG
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.26, C:0.32, G:0.00, T:0.42
Consensus pattern (3 bp):
ATC
Found at i:3339257 original size:198 final size:199
Alignment explanation
Indices: 3338722--3339645 Score: 1191
Period size: 198 Copynumber: 4.7 Consensus size: 199
3338712 ATATCGATAT
* * * * * * * * * *
3338722 AATTTAAAAAATGTCTATACAATATGTTTACCTATTCTCTCATAAAACCGGTACATTTTTACCGT
1 AATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAAACCGGTATATTTCTACCGG
* * *
3338787 TTACATTATAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTTTTGGGATCGATACAAT
66 TTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCAATGTTTTTGGGATCGATACAAT
** * * * *
3338852 TTTAAATGTATCGACACTTTATGCGTATACCTCGTTGGGGATTCATTTTGGGCCAAAAGTATCGA
131 TTTAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTAGACCAAAAGTATCGA
3338917 CACA
196 CACA
** * *
3338921 AATTTTAAAAAGTGTCGATACATTATGTAAACCTATTTTCTAATT-AATCGGTATATTTCTACCA
1 AA-TTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAAACCGGTATATTTCTACCG
* ** * *
3338985 GTTACATTGTAAATTTACCTATCACATTATAATTATCGGTTTCAATGTTTTCAGAATCAATACAA
65 GTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCAATGTTTTTGGGATCGATACAA
* * *
3339050 TTTTAAATGTATCTACACTTTATGTGTGCACCTCGTTGGGCATTCATTCTAGACCAAAAGTATTG
130 TTTTAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTAGACCAAAAGTATCG
*
3339115 CCAC-
195 ACACA
*
3339119 AATTTAAAAAGTGTCGATACATTATGTGGACCTATTTTCTAATTAAACCGGTATATTTCTACCGG
1 AATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAAACCGGTATATTTCTACCGG
* * **
3339184 TTACATTGTATATTTACCTATTACATTATAATTATCAGTTTCAATGTTTTTGGGATCGATA-TTT
66 TTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCAATGTTTTTGGGATCGATACAAT
*
3339248 TTATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTGGA-CAAAACGTATC
131 TT-TAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTAGACCAAAA-GTATC
3339312 GACACA
194 GACACA
* * * *
3339318 AATTTAAAAGGTGTCGATACATTATGTTGACCTATTTTCT-ATTTAACTGATATATTTCTACCGG
1 AATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAAACCGGTATATTTCTACCGG
* *
3339382 TTACATTGTAAATTTACGTATTACATTATAATTATCGGTTTCAATGTTTTCGGGATCGATACAAT
66 TTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCAATGTTTTTGGGATCGATACAAT
* * ** *
3339447 TTTAAATGTATAGACACTTTATGCATGCA--TTATTGGGCATTCATTCTAGACTAAAAGTATCGA
131 TTTAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTAGACCAAAAGTATCGA
3339510 CAC-
196 CACA
* ** * * * * * *
3339513 AATTTAAAAAAGTATCGCCACAATATGTTGACCTATTCTGTCATAAAATCGGTATA-TTCTTACC
1 AATTT-AAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAAACCGGTATATTTC-TACC
* * *
3339577 GGTTACATTGTAAATTTACCAATTACTTTATAATTATCGGTTTCGATGTTTTTGGGATCGATACA
64 GGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCAATGTTTTTGGGATCGATACA
3339642 ATTT
129 ATTT
3339646 AAAAATTATC
Statistics
Matches: 632, Mismatches: 83, Indels: 22
0.86 0.11 0.03
Matches are distributed among these distances:
195 5 0.01
196 59 0.09
197 129 0.20
198 232 0.37
199 173 0.27
200 34 0.05
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (199 bp):
AATTTAAAAAGTGTCGATACATTATGTTGACCTATTTTCTAATTAAACCGGTATATTTCTACCGG
TTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCAATGTTTTTGGGATCGATACAAT
TTTAAATGTATCGACACTTTATGCGTGCACCTCGTTGGGCATTCATTCTAGACCAAAAGTATCGA
CACA
Found at i:3346607 original size:20 final size:20
Alignment explanation
Indices: 3346582--3346634 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
3346572 AGCTCTTTAT
3346582 CGGTTTTGTCATAATGAAAC
1 CGGTTTTGTCATAATGAAAC
3346602 CGGTTTTGTCATAATGAAAC
1 CGGTTTTGTCATAATGAAAC
*
3346622 CGATTTTGTCATA
1 CGGTTTTGTCATA
3346635 TTTTTACCTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (20 bp):
CGGTTTTGTCATAATGAAAC
Found at i:3346822 original size:184 final size:183
Alignment explanation
Indices: 3346600--3347162 Score: 941
Period size: 182 Copynumber: 3.1 Consensus size: 183
3346590 TCATAATGAA
3346600 ACCGGTTTTGTCATAATGAAACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGAT
1 ACCGGTTTTGTCATAATGAAACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGAT
*
3346665 ACATTTTTTATAAAGTATCGACACTTTATAGGCGCTATTACTGCTTTTCTTTTAAATTCCAAAAG
66 ACA-TTTTTATAAAGTATCGACACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAG
* *
3346730 TGTCGATACTTTTTTCAATGGAATCGATACTTTTAACATATCCGGTAGCGCTTT
130 TGTCGATACTTATTTCAATGGAATCGATACTTTCAACATATCCGGTAGCGCTTT
*
3346784 ACCGGTTTTTTCATAATGAAACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGAT
1 ACCGGTTTTGTCATAATGAAACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGAT
* * * *
3346849 ACA-TTTTATAAAGTATCGACATTTTATAGGTGATATTAATGCTTCTCTTTTAAATTCCAAAAGT
66 ACATTTTTATAAAGTATCGACACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGT
3346913 GTCGATACTTATTTCAATGGAATCGATACTTTCAACATATCCGGTAGCGCTTT
131 GTCGATACTTATTTCAATGGAATCGATACTTTCAACATATCCGGTAGCGCTTT
*
3346966 ACCGGTTTTGTCATAATGAAACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGAT
1 ACCGGTTTTGTCATAATGAAACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGAT
**
3347031 ACATTTTTAT-TTGTATCGACACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGT
66 ACATTTTTATAAAGTATCGACACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGT
* ** * *
3347095 GTCGATACTTATTTCAATGGAATCAATACTTTCAACATATTAGGTAGTGTTTT
131 GTCGATACTTATTTCAATGGAATCGATACTTTCAACATATCCGGTAGCGCTTT
* *
3347148 ATCGGTTTGGTCATA
1 ACCGGTTTTGTCATA
3347163 TTTTTACCTG
Statistics
Matches: 355, Mismatches: 23, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
182 282 0.79
183 6 0.02
184 67 0.19
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (183 bp):
ACCGGTTTTGTCATAATGAAACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGAT
ACATTTTTATAAAGTATCGACACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGT
GTCGATACTTATTTCAATGGAATCGATACTTTCAACATATCCGGTAGCGCTTT
Found at i:3347267 original size:162 final size:162
Alignment explanation
Indices: 3346986--3347324 Score: 581
Period size: 162 Copynumber: 2.1 Consensus size: 162
3346976 TCATAATGAA
*
3346986 ACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATTTGTATCGAC
1 ACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTCTTATTTGTATCGAC
3347051 ACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATGGA
66 ACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATGGA
* *
3347116 ATCAATACTTTCAACATATTAGGTAGTGTTTT
131 ATCAATACTTTCAACATATTAGGTAGAGCTTT
* *
3347148 ATCGGTTTGGTCATATTTTTACCTGTTATATTGTTAT-GAGTCGATACATTCTTATTTGTATCGA
1 ACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGA-TCGATACATTCTTATTTGTATCGA
* * *
3347212 TACTTTATAGGCGCTATTACTTCTTCTCTTTTAAATTCCAAAAGTGTCTATACTTATTTCAATGG
65 CACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATGG
*
3347277 AATCAATACTTTCAACATATTTGGTAGAGCTTT
130 AATCAATACTTTCAACATATTAGGTAGAGCTTT
3347310 ACCGGTTTTGTCATA
1 ACCGGTTTTGTCATA
3347325 ATGAAACCGA
Statistics
Matches: 165, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
161 2 0.01
162 163 0.99
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.45
Consensus pattern (162 bp):
ACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTCTTATTTGTATCGAC
ACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATGGA
ATCAATACTTTCAACATATTAGGTAGAGCTTT
Found at i:3347375 original size:162 final size:164
Alignment explanation
Indices: 3347045--3347745 Score: 630
Period size: 182 Copynumber: 4.1 Consensus size: 164
3347035 TTTTATTTGT
*
3347045 ATCGACAC-TTTA-TAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATT
1 ATCGATACTTTTATTAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATT
* * * * * ***
3347108 TCAATGGAATCAATACTTTCAACATATTAGGTAGTGTTTTATCGGTTTGGTCATATTTTTACC--
66 TCAATGGAATCAATACTTTCAACATATTAGGTAGCGCTTTACCGGTTTTGTCATAATGAAACCGG
* * * * * *
3347171 --T-GTTATATTGTTATGA-GTCGATACATTCTTATTTGT
131 TTTGGTCATATT-TT-T-ACCT-GTTATATTGTTA--TGG
* *
3347207 ATCGATAC-TTTA-TAGGCGCTATTACTTCTTCTCTTTTAAATTCCAAAAGTGTCTATACTTATT
1 ATCGATACTTTTATTAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATT
* * *
3347270 TCAATGGAATCAATACTTTCAACATATTTGGTAGAGCTTTACCGGTTTTGTCATAATGAAACCGA
66 TCAATGGAATCAATACTTTCAACATATTAGGTAGCGCTTTACCGGTTTTGTCATAATGAAACCGG
*
3347335 TTTGGTCATATTTTTACCTGTTAAATTGTTATGG
131 TTTGGTCATATTTTTACCTGTTATATTGTTATGG
*
3347369 ATCGATACATTTTTATTTGTATCGATACTTTATAGGTGCTATTACTGCTTCTCTTTTAAATTCCA
1 ATCGATAC---------T-T-T---TA---T-TAGGCGCTATTACTGCTTCTCTTTTAAATTCCA
* *
3347434 AAAGTGTCGATACTTATTTCAATGGAATCGATACTTTCAACATAATAGGTAGCGCTTTACCGGTT
48 AAAGTGTCGATACTTATTTCAATGGAATCAATACTTTCAACATATTAGGTAGCGCTTTACCGGTT
* *
3347499 ATGTCATAATGAAACCGGTTTGGTCATATTTTTACATGTTATATTGTTATGG
113 TTGTCATAATGAAACCGGTTTGGTCATATTTTTACCTGTTATATTGTTATGG
* * *
3347551 GTCGATACATTTTTATTTGTATCGATACTTTATAAGCGCTACTGCTGCTTCTCTTTTAAATTCCA
1 ATCGATAC--TTTTA--T-TA--G-----------GCGCTATTACTGCTTCTCTTTTAAATTCCA
* * * * * *
3347616 AAAGAGTCGATACTTATTTTAATTGAATCGATACTTTCAACATATTATGTAGCGCTTTACCAGTT
48 AAAGTGTCGATACTTATTTCAATGGAATCAATACTTTCAACATATTAGGTAGCGCTTTACCGGTT
3347681 TTGTCATAATGAAACCGGTTTGGTCATATTTTTACCTGTTATATTGTTATGG
113 TTGTCATAATGAAACCGGTTTGGTCATATTTTTACCTGTTATATTGTTATGG
3347733 ATCGATACATTTT
1 ATCGATAC-TTTT
3347746 TATTTGTATT
Statistics
Matches: 455, Mismatches: 45, Indels: 59
0.81 0.08 0.11
Matches are distributed among these distances:
162 124 0.27
164 10 0.02
165 2 0.00
166 3 0.01
167 7 0.02
169 5 0.01
170 2 0.00
171 1 0.00
173 2 0.00
174 2 0.00
175 2 0.00
177 2 0.00
181 4 0.01
182 289 0.64
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.43
Consensus pattern (164 bp):
ATCGATACTTTTATTAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATT
TCAATGGAATCAATACTTTCAACATATTAGGTAGCGCTTTACCGGTTTTGTCATAATGAAACCGG
TTTGGTCATATTTTTACCTGTTATATTGTTATGG
Found at i:3347387 original size:182 final size:182
Alignment explanation
Indices: 3347150--3347760 Score: 1001
Period size: 182 Copynumber: 3.4 Consensus size: 182
3347140 AGTGTTTTAT
*
3347150 CGGTTTGGTCATATTTTTACCTGTTATATTGTTAT-GAGTCGATACATTCTTATTTGTATCGATA
1 CGGTTTGGTCATATTTTTACCTGTTATATTGTTATGGA-TCGATACATTTTTATTTGTATCGATA
* *
3347214 CTTTATAGGCGCTATTACTTCTTCTCTTTTAAATTCCAAAAGTGTCTATACTTATTTCAATGGAA
65 CTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATGGAA
* *
3347279 TCAATACTTTCAACATATTTGGTAGAGCTTTACCGGTTTTGTCATAATGAAAC
130 TCGATACTTTCAACATATTTGGTAGCGCTTTACCGGTTTTGTCATAATGAAAC
* *
3347332 CGATTTGGTCATATTTTTACCTGTTAAATTGTTATGGATCGATACATTTTTATTTGTATCGATAC
1 CGGTTTGGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATTTGTATCGATAC
*
3347397 TTTATAGGTGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATGGAAT
66 TTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATGGAAT
* * *
3347462 CGATACTTTCAACATAATAGGTAGCGCTTTACCGGTTATGTCATAATGAAAC
131 CGATACTTTCAACATATTTGGTAGCGCTTTACCGGTTTTGTCATAATGAAAC
* *
3347514 CGGTTTGGTCATATTTTTACATGTTATATTGTTATGGGTCGATACATTTTTATTTGTATCGATAC
1 CGGTTTGGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATTTGTATCGATAC
* * * * * *
3347579 TTTATAAGCGCTACTGCTGCTTCTCTTTTAAATTCCAAAAGAGTCGATACTTATTTTAATTGAAT
66 TTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATGGAAT
*
3347644 CGATACTTTCAACATATTAT-GTAGCGCTTTACCAGTTTTGTCATAATGAAAC
131 CGATACTTTCAACATATT-TGGTAGCGCTTTACCGGTTTTGTCATAATGAAAC
*
3347696 CGGTTTGGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATTTGTATTGATAC
1 CGGTTTGGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATTTGTATCGATAC
3347761 ATACCGACAA
Statistics
Matches: 398, Mismatches: 29, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
182 396 0.99
183 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (182 bp):
CGGTTTGGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATTTGTATCGATAC
TTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATGGAAT
CGATACTTTCAACATATTTGGTAGCGCTTTACCGGTTTTGTCATAATGAAAC
Found at i:3347395 original size:364 final size:358
Alignment explanation
Indices: 3346604--3347762 Score: 1373
Period size: 344 Copynumber: 3.2 Consensus size: 358
3346594 AATGAAACCG
* *
3346604 GTTTTGTCATAATGAAACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACAT
1 GTTTTGTCATAATGAAACCGATTTGGTCATATTTTTACCTGTTAAATTGTTATGGATCGATACAT
* * * * *
3346669 TTTT-TATAAAG-T--ATCGACACTTTATAGGCGCTATTACTGCTTTTCTTTTAAATTCCAAAAG
66 TTTTATTTGATGATACAT-GATACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAG
* * * * * *
3346730 TGTCGATACTTTTTTCAATGGAATCGATACTTTTAACAT-ATCCGGTAGCGCTTTACCGGTTTTT
130 TGTCGATACTTATTTCAATGGAATCAATACTTTCAACATAAT-AGGTA-CG--TT--C-GTTATG
* * *
3346794 TCATAATGAAACCGATTTTGTCATATTTTTACCTGTTATATTGTTATG-GATCGATACATT-TTA
188 T-ATAAT---A-CGGTTTGGTCATATTTTTACATGTTATATTGTTATGAG-TCGATACATTCTTA
** * * * * * * * *
3346857 TAAAGTATCGACATTTTATAGGTGATATTAATGCTTCTCTTTTAAATTCCAAAAGTGTCGATACT
247 T-TTGTATCGATACTTTATAAGCGCTACTACTGCTTCTCTTTTAAATTCCAAAAGAGTCGATACT
* *** * *
3346922 TATTTCAATGGAATCGATACTTTCAACATATCCGGTAGCGCTTTACCG
311 TATTTCAATGGAATCAATACTTTCAACATATTATGTAGAGCTTTACCA
* * *
3346970 GTTTTGTCATAATGAAACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACAT
1 GTTTTGTCATAATGAAACCGATTTGGTCATATTTTTACCTGTTAAATTGTTATGGATCGATACAT
*
3347035 TTTTATTTG-T-AT-C--GACACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGT
66 TTTTATTTGATGATACATGATACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGT
*
3347095 GTCGATACTTATTTCAATGGAATCAATACTTTCAACATATTAGGTA-G-T-G-T-T-T-T-AT-C
131 GTCGATACTTATTTCAATGGAATCAATACTTTCAACATAATAGGTACGTTCGTTATGTATAATAC
*
3347151 GGTTTGGTCATATTTTTACCTGTTATATTGTTATGAGTCGATACATTCTTATTTGTATCGATACT
196 GGTTTGGTCATATTTTTACATGTTATATTGTTATGAGTCGATACATTCTTATTTGTATCGATACT
* * * * *
3347216 TTATAGGCGCTATTACTTCTTCTCTTTTAAATTCCAAAAGTGTCTATACTTATTTCAATGGAATC
261 TTATAAGCGCTACTACTGCTTCTCTTTTAAATTCCAAAAGAGTCGATACTTATTTCAATGGAATC
*
3347281 AATACTTTCAACATATT-TGGTAGAGCTTTACCG
326 AATACTTTCAACATATTAT-GTAGAGCTTTACCA
3347314 GTTTTGTCATAATGAAACCGATTTGGTCATATTTTTACCTGTTAAATTGTTATGGATCGATACAT
1 GTTTTGTCATAATGAAACCGATTTGGTCATATTTTTACCTGTTAAATTGTTATGGATCGATACAT
*
3347379 TTTTATTTG-T-AT-C--GATACTTTATAGGTGCTATTACTGCTTCTCTTTTAAATTCCAAAAGT
66 TTTTATTTGATGATACATGATACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGT
*
3347439 GTCGATACTTATTTCAATGGAATCGATACTTTCAACATAATAGGTAGCGCTTTACCGGTTATGTC
131 GTCGATACTTATTTCAATGGAATCAATACTTTCAACATAATAGGTA-CG--TT--C-GTTATGT-
* *
3347504 ATAATGAAACCGGTTTGGTCATATTTTTACATGTTATATTGTTATGGGTCGATACATTTTTATTT
189 ATAAT---A-CGGTTTGGTCATATTTTTACATGTTATATTGTTATGAGTCGATACATTCTTATTT
*
3347569 GTATCGATACTTTATAAGCGCTACTGCTGCTTCTCTTTTAAATTCCAAAAGAGTCGATACTTATT
250 GTATCGATACTTTATAAGCGCTACTACTGCTTCTCTTTTAAATTCCAAAAGAGTCGATACTTATT
* * * *
3347634 TTAATTGAATCGATACTTTCAACATATTATGTAGCGCTTTACCA
315 TCAATGGAATCAATACTTTCAACATATTATGTAGAGCTTTACCA
* *
3347678 GTTTTGTCATAATGAAACCGGTTTGGTCATATTTTTACCTGTTATATTGTTATGGATCGATACAT
1 GTTTTGTCATAATGAAACCGATTTGGTCATATTTTTACCTGTTAAATTGTTATGGATCGATACAT
3347743 TTTTATTTGTATTGATACAT
66 TTTTATTTG-A-TGATACAT
3347763 ACCGACAAAC
Statistics
Matches: 710, Mismatches: 48, Indels: 65
0.86 0.06 0.08
Matches are distributed among these distances:
344 305 0.43
345 5 0.01
346 1 0.00
349 3 0.00
350 1 0.00
352 1 0.00
353 2 0.00
354 2 0.00
355 2 0.00
356 1 0.00
358 1 0.00
359 3 0.00
362 1 0.00
364 305 0.43
365 2 0.00
366 69 0.10
367 3 0.00
368 2 0.00
369 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (358 bp):
GTTTTGTCATAATGAAACCGATTTGGTCATATTTTTACCTGTTAAATTGTTATGGATCGATACAT
TTTTATTTGATGATACATGATACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGT
GTCGATACTTATTTCAATGGAATCAATACTTTCAACATAATAGGTACGTTCGTTATGTATAATAC
GGTTTGGTCATATTTTTACATGTTATATTGTTATGAGTCGATACATTCTTATTTGTATCGATACT
TTATAAGCGCTACTACTGCTTCTCTTTTAAATTCCAAAAGAGTCGATACTTATTTCAATGGAATC
AATACTTTCAACATATTATGTAGAGCTTTACCA
Found at i:3347440 original size:344 final size:351
Alignment explanation
Indices: 3346600--3347760 Score: 1570
Period size: 364 Copynumber: 3.2 Consensus size: 351
3346590 TCATAATGAA
* *
3346600 ACCGGTTTTGTCATAATGAAACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGAT
1 ACCGGTTTTGTCATAATGAAACCGGTTTGGTCATATTTTTACCTGTTATATTGTTATGGATCGAT
** * *
3346665 ACATTTTTTATAAAGTATCGACACTTTATAGGCGCTATTACTGCTTTTCTTTTAAATTCCAAAAG
66 ACA-TTTTTAT-TTGTATCGATACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAG
* * * * * *
3346730 TGTCGATACTTTTTTCAATGGAATCGATACTTTTAACAT-ATCCGGTAGCGCTTTACCGGTTTTT
129 TGTCGATACTTATTTCAATGGAATCAATACTTTCAACATAAT-AGGTA-CG--TT--C-GTTATG
* *
3346794 TCATAATGAAACCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTATA
187 T-ATAAT---A-CGGTTTGGTCATATTTTTACCTGTTATATTGTTATGG-TCGATACATTTTAT-
** * * * * *
3346859 AAGTATCGACATTTTATAGGTGATATTAATGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
245 TTGTATCGATACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
**
3346924 TTTCAATGGAATCGATACTTTCAACATATCCGGTAGCGCTTT
310 TTTCAATGGAATCGATACTTTCAACATATTTGGTAGCGCTTT
*
3346966 ACCGGTTTTGTCATAATGAAACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGAT
1 ACCGGTTTTGTCATAATGAAACCGGTTTGGTCATATTTTTACCTGTTATATTGTTATGGATCGAT
*
3347031 ACATTTTTATTTGTATCGACACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTG
66 ACATTTTTATTTGTATCGATACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTG
*
3347096 TCGATACTTATTTCAATGGAATCAATACTTTCAACATATTAGGTA-G-T-G-T-T-T-T-AT-CG
131 TCGATACTTATTTCAATGGAATCAATACTTTCAACATAATAGGTACGTTCGTTATGTATAATACG
3347152 GTTTGGTCATATTTTTACCTGTTATATTGTTATGAGTCGATACATTCTTATTTGTATCGATACTT
196 GTTTGGTCATATTTTTACCTGTTATATTGTTATG-GTCGATACATT-TTATTTGTATCGATACTT
* * *
3347217 TATAGGCGCTATTACTTCTTCTCTTTTAAATTCCAAAAGTGTCTATACTTATTTCAATGGAATCA
259 TATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATGGAATCG
*
3347282 ATACTTTCAACATATTTGGTAGAGCTTT
324 ATACTTTCAACATATTTGGTAGCGCTTT
* *
3347310 ACCGGTTTTGTCATAATGAAACCGATTTGGTCATATTTTTACCTGTTAAATTGTTATGGATCGAT
1 ACCGGTTTTGTCATAATGAAACCGGTTTGGTCATATTTTTACCTGTTATATTGTTATGGATCGAT
*
3347375 ACATTTTTATTTGTATCGATACTTTATAGGTGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTG
66 ACATTTTTATTTGTATCGATACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTG
*
3347440 TCGATACTTATTTCAATGGAATCGATACTTTCAACATAATAGGTAGCGCTTTACCGGTTATGTCA
131 TCGATACTTATTTCAATGGAATCAATACTTTCAACATAATAGGTA-CG--TT--C-GTTATGT-A
*
3347505 TAATGAAACCGGTTTGGTCATATTTTTACATGTTATATTGTTATGGGTCGATACATTTTTATTTG
189 TAAT---A-CGGTTTGGTCATATTTTTACCTGTTATATTGTTAT-GGTCGATACA-TTTTATTTG
* * * *
3347570 TATCGATACTTTATAAGCGCTACTGCTGCTTCTCTTTTAAATTCCAAAAGAGTCGATACTTATTT
248 TATCGATACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTT
* *
3347635 TAATTGAATCGATACTTTCAACATATTAT-GTAGCGCTTT
313 CAATGGAATCGATACTTTCAACATATT-TGGTAGCGCTTT
*
3347674 ACCAGTTTTGTCATAATGAAACCGGTTTGGTCATATTTTTACCTGTTATATTGTTATGGATCGAT
1 ACCGGTTTTGTCATAATGAAACCGGTTTGGTCATATTTTTACCTGTTATATTGTTATGGATCGAT
*
3347739 ACATTTTTATTTGTATTGATAC
66 ACATTTTTATTTGTATCGATAC
3347761 ATACCGACAA
Statistics
Matches: 723, Mismatches: 46, Indels: 54
0.88 0.06 0.07
Matches are distributed among these distances:
344 306 0.42
345 5 0.01
346 1 0.00
349 3 0.00
350 1 0.00
352 1 0.00
353 2 0.00
354 2 0.00
355 2 0.00
356 1 0.00
358 1 0.00
359 3 0.00
362 1 0.00
364 315 0.44
365 12 0.02
366 67 0.09
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (351 bp):
ACCGGTTTTGTCATAATGAAACCGGTTTGGTCATATTTTTACCTGTTATATTGTTATGGATCGAT
ACATTTTTATTTGTATCGATACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTG
TCGATACTTATTTCAATGGAATCAATACTTTCAACATAATAGGTACGTTCGTTATGTATAATACG
GTTTGGTCATATTTTTACCTGTTATATTGTTATGGTCGATACATTTTATTTGTATCGATACTTTA
TAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATGGAATCGAT
ACTTTCAACATATTTGGTAGCGCTTT
Found at i:3347740 original size:526 final size:525
Alignment explanation
Indices: 3346640--3347696 Score: 1589
Period size: 526 Copynumber: 2.0 Consensus size: 525
3346630 TCATATTTTT
* * * * *
3346640 ACCTGTTATATTGTTATGGA-TCGATACATTTTTTATAAAGTATCGACACTTTATAGGCGCTATT
1 ACCTGTCATATTGTTAT-GACTCGATACA-TTCTTAT--TGGATCGATACTTTATAGGCGCTATT
* * * *
3346704 ACTGCTTTTCTTTTAAATTCCAAAAGTGTCGATACTTTTTTCAATGGAATCGATACTTTTAACAT
62 ACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATGGAATCAATACTTTCAACAT
* * * *
3346769 ATCCGGTAGCGCTTTACCGGTTTTTTCATAATGAAACCGATTTTGTCATATTTTTACCTGTTATA
127 ATCCGGTAGAGCTTTACCGGTTTTGTCATAATGAAACCGATTTGGTCATATTTTTACCTGTTAAA
*
3346834 TTGTTATGGATCGATACATTTTATAAAGTATCGACATTTTATAGGTGATATTAATGCTTCTCTTT
192 TTGTTATGGATCGATACATTTTATAAAGTATCGACACTTTATAGGTGATATTAATGCTTCTCTTT
*
3346899 TAAATTCCAAAAGTGTCGATACTTATTTCAATGGAATCGATACTTTCAACATATCCGGTAGCGCT
257 TAAATTCCAAAAGTGTCGATACTTATTTCAATGGAATCGATACTTTCAACATATCAGGTAGCGCT
* * *
3346964 TTACCGGTTTTGTCATAATGAAACCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCG
322 TTACCGGTTATGTCATAATGAAACCGGTTTGGTCATATTTTTACATGTTATATTGTTATGGATCG
* *
3347029 ATACATTTTTATTTGTATCGACACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAG
387 ATACATTTTTATTTGTATCGACACTTTATAAGCGCTACTACTGCTTCTCTTTTAAATTCCAAAAG
* * * * *
3347094 TGTCGATACTTATTTCAATGGAATCAATACTTTCAACATATTAGGTAGTGTTTTATCGGTTTGGT
452 AGTCGATACTTATTTCAATGGAATCAATACTTTCAACATATTAGGTAGCGCTTTACCAGTTTGGT
* ***
3347159 CATATTTTT
517 CATAATGAA
* * *
3347168 ACCTGTTATATTGTTATGAGTCGATACATTCTTATTTGTATCGATACTTTATAGGCGCTATTACT
1 ACCTGTCATATTGTTATGACTCGATACATTCTTA-TTGGATCGATACTTTATAGGCGCTATTACT
* * *
3347233 TCTTCTCTTTTAAATTCCAAAAGTGTCTATACTTATTTCAATGGAATCAATACTTTCAACATATT
65 GCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATGGAATCAATACTTTCAACATATC
*
3347298 TGGTAGAGCTTTACCGGTTTTGTCATAATGAAACCGATTTGGTCATATTTTTACCTGTTAAATTG
130 CGGTAGAGCTTTACCGGTTTTGTCATAATGAAACCGATTTGGTCATATTTTTACCTGTTAAATTG
** * * *
3347363 TTATGGATCGATACATTTT-TATTTGTATCGATACTTTATAGGTGCTATTACTGCTTCTCTTTTA
195 TTATGGATCGATACATTTTATA-AAGTATCGACACTTTATAGGTGATATTAATGCTTCTCTTTTA
3347427 AATTCCAAAAGTGTCGATACTTATTTCAATGGAATCGATACTTTCAACATAAT-AGGTAGCGCTT
259 AATTCCAAAAGTGTCGATACTTATTTCAATGGAATCGATACTTTCAACAT-ATCAGGTAGCGCTT
*
3347491 TACCGGTTATGTCATAATGAAACCGGTTTGGTCATATTTTTACATGTTATATTGTTATGGGTCGA
323 TACCGGTTATGTCATAATGAAACCGGTTTGGTCATATTTTTACATGTTATATTGTTATGGATCGA
* *
3347556 TACATTTTTATTTGTATCGATACTTTATAAGCGCTACTGCTGCTTCTCTTTTAAATTCCAAAAGA
388 TACATTTTTATTTGTATCGACACTTTATAAGCGCTACTACTGCTTCTCTTTTAAATTCCAAAAGA
* * * * *
3347621 GTCGATACTTATTTTAATTGAATCGATACTTTCAACATATTATGTAGCGCTTTACCAGTTTTGTC
453 GTCGATACTTATTTCAATGGAATCAATACTTTCAACATATTAGGTAGCGCTTTACCAGTTTGGTC
3347686 ATAATGAA
518 ATAATGAA
3347694 ACC
1 ACC
3347697 GGTTTGGTCA
Statistics
Matches: 481, Mismatches: 44, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
525 2 0.00
526 444 0.92
527 9 0.02
528 26 0.05
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (525 bp):
ACCTGTCATATTGTTATGACTCGATACATTCTTATTGGATCGATACTTTATAGGCGCTATTACTG
CTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATGGAATCAATACTTTCAACATATCC
GGTAGAGCTTTACCGGTTTTGTCATAATGAAACCGATTTGGTCATATTTTTACCTGTTAAATTGT
TATGGATCGATACATTTTATAAAGTATCGACACTTTATAGGTGATATTAATGCTTCTCTTTTAAA
TTCCAAAAGTGTCGATACTTATTTCAATGGAATCGATACTTTCAACATATCAGGTAGCGCTTTAC
CGGTTATGTCATAATGAAACCGGTTTGGTCATATTTTTACATGTTATATTGTTATGGATCGATAC
ATTTTTATTTGTATCGACACTTTATAAGCGCTACTACTGCTTCTCTTTTAAATTCCAAAAGAGTC
GATACTTATTTCAATGGAATCAATACTTTCAACATATTAGGTAGCGCTTTACCAGTTTGGTCATA
ATGAA
Found at i:3351457 original size:22 final size:21
Alignment explanation
Indices: 3351401--3351502 Score: 99
Period size: 22 Copynumber: 5.0 Consensus size: 21
3351391 AATCGAGGGT
* *
3351401 TATATAGTGGTCATTCGGGATA
1 TATA-AGTGGTCCTTCGGGACA
3351423 TATACAGTGGTCCTTCGGGACA
1 TATA-AGTGGTCCTTCGGGACA
**
3351445 TATACAGTGGTCCTTCATGAC-
1 TATA-AGTGGTCCTTCGGGACA
3351466 -AT-AGTGGTCCTTCGGGAC-
1 TATAAGTGGTCCTTCGGGACA
3351484 -AT-AGTGGTCCTTCGGGACA
1 TATAAGTGGTCCTTCGGGACA
3351503 AATATTTAGT
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
18 32 0.44
20 2 0.03
22 38 0.53
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (21 bp):
TATAAGTGGTCCTTCGGGACA
Found at i:3351473 original size:18 final size:18
Alignment explanation
Indices: 3351450--3351502 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
3351440 GGACATATAC
*
3351450 AGTGGTCCTTCATGACAT
1 AGTGGTCCTTCAGGACAT
*
3351468 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCAGGACAT
*
3351486 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCAGGACA
3351503 AATATTTAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.28
Consensus pattern (18 bp):
AGTGGTCCTTCAGGACAT
Found at i:3354338 original size:45 final size:45
Alignment explanation
Indices: 3354274--3354367 Score: 161
Period size: 45 Copynumber: 2.1 Consensus size: 45
3354264 TTGACGAGAT
* *
3354274 GTGGAATGGACTTGGGCGGCCTACAGATAATATTCATGACTTGAC
1 GTGGAAGGGACTTGGGCGGCCAACAGATAATATTCATGACTTGAC
*
3354319 GTGGAAGGGACTTGGGCGGCCAACAGATAATATTCATGACTTGAT
1 GTGGAAGGGACTTGGGCGGCCAACAGATAATATTCATGACTTGAC
3354364 GTGG
1 GTGG
3354368 CAAGAACCTT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.26
Consensus pattern (45 bp):
GTGGAAGGGACTTGGGCGGCCAACAGATAATATTCATGACTTGAC
Found at i:3357631 original size:13 final size:13
Alignment explanation
Indices: 3357613--3357637 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3357603 AGATAAATTA
3357613 AATTATTTTTTAC
1 AATTATTTTTTAC
3357626 AATTATTTTTTA
1 AATTATTTTTTA
3357638 ATAGAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (13 bp):
AATTATTTTTTAC
Found at i:3359904 original size:58 final size:58
Alignment explanation
Indices: 3359832--3359945 Score: 210
Period size: 58 Copynumber: 2.0 Consensus size: 58
3359822 TACGGGAGTC
*
3359832 CACTCTACCGTGCCTCACTCTCTCCGCCTCGTAGAGGTTAAACATTGGACATGTCTTA
1 CACTCTACCATGCCTCACTCTCTCCGCCTCGTAGAGGTTAAACATTGGACATGTCTTA
*
3359890 CACTCTACCATGCCTCACTCTCTCCGCCTCTTAGAGGTTAAACATTGGACATGTCT
1 CACTCTACCATGCCTCACTCTCTCCGCCTCGTAGAGGTTAAACATTGGACATGTCT
3359946 AACAGGAGTC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.21, C:0.33, G:0.16, T:0.30
Consensus pattern (58 bp):
CACTCTACCATGCCTCACTCTCTCCGCCTCGTAGAGGTTAAACATTGGACATGTCTTA
Found at i:3361348 original size:55 final size:55
Alignment explanation
Indices: 3361283--3362104 Score: 1259
Period size: 55 Copynumber: 14.9 Consensus size: 55
3361273 ACCACTACCA
3361283 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
3361338 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
** * * *
3361393 ATACATAAATTCATAAATTTATTATGAACTTCTTAGTTTTGCACACAAAGTGCAC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
** * *
3361448 ATACAAAAATTCATAAACTCATTATGAATTTCTTAGATTTTGCACACCAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCC
* * * *
3361504 ATACGGTAATTCATAAACTCATTATGAATTTCTTAGTTTTGCAAACAAAGTTCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
* * *
3361559 ATACAGAAATTCATAAACTCATTACGAATTTCTTAGCTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCC
*
3361615 ATACGGAAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
** *
3361670 ATACAAAAATTCATAAACTTATTATGAATTTATTAGTTTTGCA-ACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
* *
3361724 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTTCCT
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
** * * *
3361779 ATACACAAATTCATAAACTCATTATGAATTTATTAGCTTTTGCACACAAAGTGCCT
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCC
* *
3361835 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAACTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
*
3361890 ATACGGAAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
3361945 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
* * *
3362000 ATAAGGAAATTCATAAACTCATTATGAATTTCTTAGCTTTTGCACATAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCC
* * *
3362056 ATACGCAAATTAATAAACTTATTATGAATTTATTAGCTTTTTGCACACA
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAG--TTTTGCACACA
3362105 TATAATGTCA
Statistics
Matches: 703, Mismatches: 58, Indels: 10
0.91 0.08 0.01
Matches are distributed among these distances:
54 51 0.07
55 442 0.63
56 200 0.28
57 10 0.01
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (55 bp):
ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
Found at i:3361517 original size:166 final size:165
Alignment explanation
Indices: 3361283--3362104 Score: 1259
Period size: 166 Copynumber: 5.0 Consensus size: 165
3361273 ACCACTACCA
* *
3361283 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAAT
1 ATACAGAAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAAT
** *
3361348 TCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACATAAATTCATAAATTT
66 TCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTT
* *
3361413 ATTATGAACTTCTTAGTTTTGCACACAAAGTGCAC
131 ATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
* * *
3361448 ATACAAAAATTCATAAACTCATTATGAATTTCTTAGATTTTGCACACCAAGTGCCCATACGGTAA
1 ATACAGAAATTCATAAACTCATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCCATACGGAAA
* * * *
3361513 TTCATAAACTCATTATGAATTTCTTAGTTTTGCAAACAAAGTTCCCATACAGAAATTCATAAACT
65 TTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACT
* *
3361578 CATTACGAATTTCTTAGCTTTTGCACACAAAGTGCCC
130 TATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCC
* **
3361615 ATACGGAAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACAAAAAT
1 ATACAGAAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAAT
*
3361680 TCATAAACTTATTATGAATTTATTAGTTTTGCA-ACAAAGTGCCCATACGGAAATTCATAAACTT
66 TCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTT
* *
3361744 ATTATGAATTTCTTAGTTTTGCACACAAAGTTCCT
131 ATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
* * * *
3361779 ATACACAAATTCATAAACTCATTATGAATTTATTAGCTTTTGCACACAAAGTGCCTATACGAAAA
1 ATACAGAAATTCATAAACTCATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCCATACGGAAA
*
3361844 TTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAACTGCCCATACGGAAATTCATAAACT
65 TTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACT
*
3361909 CATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
130 TATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
* * *
3361945 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATAAGGAAAT
1 ATACAGAAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAAT
* * * *
3362010 TCATAAACTCATTATGAATTTCTTAGCTTTTGCACATAAAGTGCCCATACGCAAATTAATAAACT
66 TCATAAACTTATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCCATACGGAAATTCATAAACT
*
3362075 TATTATGAATTTATTAGCTTTTTGCACACA
130 TATTATGAATTTCTTAG--TTTTGCACACA
3362105 TATAATGTCA
Statistics
Matches: 598, Mismatches: 52, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
164 50 0.08
165 186 0.31
166 299 0.50
167 52 0.09
168 11 0.02
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (165 bp):
ATACAGAAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAAT
TCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTT
ATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
Found at i:3361552 original size:111 final size:110
Alignment explanation
Indices: 3361283--3362104 Score: 1297
Period size: 111 Copynumber: 7.4 Consensus size: 110
3361273 ACCACTACCA
*
3361283 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAAT
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACAGAAAT
*
3361348 TCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
66 TCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
** * * * *
3361393 ATACATAAATTCATAAATTTATTATGAACTTCTTAGTTTTGCACACAAAGTGCACATACAAAAAT
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACAGAAAT
*
3361458 TCATAAACTCATTATGAATTTCTTAGATTTTGCACACCAAGTGCCC
66 TCATAAACTCATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCC
* * * *
3361504 ATACGGTAATTCATAAACTCATTATGAATTTCTTAGTTTTGCAAACAAAGTTCCCATACAGAAAT
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACAGAAAT
*
3361569 TCATAAACTCATTACGAATTTCTTAGCTTTTGCACACAAAGTGCCC
66 TCATAAACTCATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCC
* *
3361615 ATACGGAAATTCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACAAAAAT
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACAGAAAT
* *
3361680 TCATAAACTTATTATGAATTTATTAGTTTTGCA-ACAAAGTGCCC
66 TCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
* * *
3361724 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTTCCTATACACAAAT
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACAGAAAT
* *
3361789 TCATAAACTCATTATGAATTTATTAGCTTTTGCACACAAAGTGCCT
66 TCATAAACTCATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCC
* * *
3361835 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAACTGCCCATACGGAAAT
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACAGAAAT
3361900 TCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
66 TCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
3361945 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATA-AGGAAA
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACA-GAAA
*
3362009 TTCATAAACTCATTATGAATTTCTTAGCTTTTGCACATAAAGTGCCC
65 TTCATAAACTCATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCC
* * *
3362056 ATACGCAAATTAATAAACTTATTATGAATTTATTAGCTTTTTGCACACA
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAG--TTTTGCACACA
3362105 TATAATGTCA
Statistics
Matches: 655, Mismatches: 50, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
109 97 0.15
110 202 0.31
111 345 0.53
113 11 0.02
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (110 bp):
ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACAGAAAT
TCATAAACTCATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
Found at i:3367564 original size:55 final size:55
Alignment explanation
Indices: 3367499--3368027 Score: 718
Period size: 55 Copynumber: 9.6 Consensus size: 55
3367489 CCAACTACCA
* * * *
3367499 ATACGAAAATTCATAAATTTATTATGAATTTCTTAGTTTTGTATACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
** * *
3367554 ATACATAAATTCATAAACTTATTATAAATTTCTTAGTTTTGCACACAAAGTGCTC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
* *
3367609 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCAC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
* * * *
3367664 ATACGGAAATTTATAAACTAATTATGAATTTCTTATCTTTTGCACACCAAA-TGCCT
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTA-GTTTTGCACA-CAAAGTGCCC
* * * * *
3367720 ATACGGAAATTCATAAACTCAATATGAATTTCTTATTTTTGAACACAAAGTGCTC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
* *
3367775 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGCTTTTGTACACAAAGTGTCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCC
* * * *
3367831 ATACGAAAATTCATGAACTCATTATAAATTTCTTAGTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
*
3367886 ATACGGGAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
** * * * *
3367941 ATATAGAAATTCATAAACTCATTATGAATTTTTTAGCTTTTGAACACATAGTGCCC
1 ATACGGAAATTCATAAACTTATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCC
*
3367997 ATACGGAAATTCATAAACTTATTACGAATTT
1 ATACGGAAATTCATAAACTTATTATGAATTT
3368028 AATAGGTTTT
Statistics
Matches: 417, Mismatches: 52, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
54 4 0.01
55 273 0.65
56 136 0.33
57 4 0.01
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (55 bp):
ATACGGAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
Found at i:3367773 original size:166 final size:165
Alignment explanation
Indices: 3367499--3368027 Score: 722
Period size: 166 Copynumber: 3.2 Consensus size: 165
3367489 CCAACTACCA
* * * **
3367499 ATACGAAAATTCATAAATTTATTATGAATTTCTTAGTTTTGTATACAAAGTGCCCATACATAAAT
1 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAAT
*
3367564 TCATAAACTTATTATAAATTTCTTAGTTTTGCACACAAAGTGCTCATACGAAAATTCATAAACTT
66 TCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCTCATACGAAAATTCATAAACTT
*
3367629 ATTATGAATTTCTTAG-TTTTGCACACAAAGTGCAC
131 ATTATGAATTTCTTAGCTTTTGAACACAAAGTGC-C
* * * * *
3367664 ATACGGAAATTTATAAACTAATTATGAATTTCTTATCTTTTGCACACCAAA-TGCCTATACGGAA
1 ATACGAAAATTCATAAACTTATTATGAATTTCTTA-GTTTTGCACA-CAAAGTGCCCATACGGAA
* * * * *
3367728 ATTCATAAACTCAATATGAATTTCTTATTTTTGAACACAAAGTGCTCATACGGAAATTCATAAAC
64 ATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCTCATACGAAAATTCATAAAC
*
3367793 TTATTATGAATTTCTTAGCTTTTGTACACAAAGTGTCC
129 TTATTATGAATTTCTTAGCTTTTGAACACAAAGTG-CC
* * * *
3367831 ATACGAAAATTCATGAACTCATTATAAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGGAAT
1 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAAT
* *
3367896 TCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATA-TAGAAATTCATAAACT
66 TCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCTCATACGA-AAATTCATAAACT
* * *
3367960 CATTATGAATTTTTTAGCTTTTGAACACATAGTGCCC
130 TATTATGAATTTCTTAGCTTTTGAACACAAAGTG-CC
* *
3367997 ATACGGAAATTCATAAACTTATTACGAATTT
1 ATACGAAAATTCATAAACTTATTATGAATTT
3368028 AATAGGTTTT
Statistics
Matches: 316, Mismatches: 42, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
165 35 0.11
166 230 0.73
167 50 0.16
168 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (165 bp):
ATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGAAAT
TCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCTCATACGAAAATTCATAAACTT
ATTATGAATTTCTTAGCTTTTGAACACAAAGTGCC
Found at i:3368043 original size:111 final size:110
Alignment explanation
Indices: 3367499--3368027 Score: 738
Period size: 111 Copynumber: 4.8 Consensus size: 110
3367489 CCAACTACCA
* * * * **
3367499 ATACGAAAATTCATAAATTTATTATGAATTTCTTAGTTTTGTATACAAAGTGCCCATACATAAAT
1 ATACGAAAATTCATAAACTCATTATGAATTTCTTAGTTTTGAACACAAAGTGCCCATACGGAAAT
* *
3367564 TCATAAACTTATTATAAATTTCTTAGTTTTGCACACAAAGTGCTC
66 TCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
* * *
3367609 ATACGAAAATTCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCACATACGGAAAT
1 ATACGAAAATTCATAAACTCATTATGAATTTCTTAGTTTTGAACACAAAGTGCCCATACGGAAAT
* * * *
3367674 TTATAAACTAATTATGAATTTCTTATCTTTTGCACACCAAA-TGCCT
66 TCATAAACTTATTATGAATTTCTTA-GTTTTGCACA-CAAAGTGCCC
* * * *
3367720 ATACGGAAATTCATAAACTCAATATGAATTTCTTATTTTTGAACACAAAGTGCTCATACGGAAAT
1 ATACGAAAATTCATAAACTCATTATGAATTTCTTAGTTTTGAACACAAAGTGCCCATACGGAAAT
* *
3367785 TCATAAACTTATTATGAATTTCTTAGCTTTTGTACACAAAGTGTCC
66 TCATAAACTTATTATGAATTTCTTAG-TTTTGCACACAAAGTGCCC
* * * *
3367831 ATACGAAAATTCATGAACTCATTATAAATTTCTTAGTTTTGCACACAAAGTGCCCATACGGGAAT
1 ATACGAAAATTCATAAACTCATTATGAATTTCTTAGTTTTGAACACAAAGTGCCCATACGGAAAT
3367896 TCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
66 TCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
* * *
3367941 ATA-TAGAAATTCATAAACTCATTATGAATTTTTTAGCTTTTGAACACATAGTGCCCATACGGAA
1 ATACGA-AAATTCATAAACTCATTATGAATTTCTTAG-TTTTGAACACAAAGTGCCCATACGGAA
*
3368005 ATTCATAAACTTATTACGAATTT
64 ATTCATAAACTTATTATGAATTT
3368028 AATAGGTTTT
Statistics
Matches: 371, Mismatches: 42, Indels: 11
0.88 0.10 0.03
Matches are distributed among these distances:
109 1 0.00
110 132 0.36
111 234 0.63
112 4 0.01
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (110 bp):
ATACGAAAATTCATAAACTCATTATGAATTTCTTAGTTTTGAACACAAAGTGCCCATACGGAAAT
TCATAAACTTATTATGAATTTCTTAGTTTTGCACACAAAGTGCCC
Found at i:3371607 original size:40 final size:40
Alignment explanation
Indices: 3371485--3371610 Score: 107
Period size: 40 Copynumber: 3.2 Consensus size: 40
3371475 TAATAAGGTG
*
3371485 TGTAT-CC-CGTACAATACATCACCACTCTCATATTTACA
1 TGTATACCTCGTACAATACATCACCACTCTCATATTTAGA
* * * * * * *
3371523 TATGTACCTCATACGATACATCACCTTACT-T-GTAATTCGA
1 TGTATACCTCGTACAATACATCACC--ACTCTCATATTTAGA
* * *
3371563 TGTATATCTTGTACAATACATCACCACTCTCATATTTAGG
1 TGTATACCTCGTACAATACATCACCACTCTCATATTTAGA
3371603 TGTATACC
1 TGTATACC
3371611 CCATATATCA
Statistics
Matches: 63, Mismatches: 19, Indels: 10
0.68 0.21 0.11
Matches are distributed among these distances:
38 6 0.10
39 3 0.05
40 50 0.79
41 1 0.02
42 3 0.05
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.35
Consensus pattern (40 bp):
TGTATACCTCGTACAATACATCACCACTCTCATATTTAGA
Found at i:3371687 original size:40 final size:40
Alignment explanation
Indices: 3371643--3372086 Score: 319
Period size: 40 Copynumber: 11.2 Consensus size: 40
3371633 TTGGGTATGT
* * *
3371643 ATCACCATTCTCATATTTAAGTGTGTACCTCGTATGATAC
1 ATCACCATTCTCATATTTAAGTGTGTACCCCATACGATAC
* * ** * *
3371683 ATCACCTTATT-T-GTAATTGGGTGTGTATCCCATACAATAC
1 ATCACC--ATTCTCATATTTAAGTGTGTACCCCATACGATAC
* * * * *
3371723 ATCACTACTCTCATATTTAAATTTGTACCCCATATGATAC
1 ATCACCATTCTCATATTTAAGTGTGTACCCCATACGATAC
* * ** * *
3371763 ATCA-CATTGCTTATAATTGGGTGTGTATCCCATACAATAC
1 ATCACCATT-CTCATATTTAAGTGTGTACCCCATACGATAC
* * *
3371803 ATCACCACTT-TCATATTTAAGTGAGTACCTCGTACGATAC
1 ATCACCA-TTCTCATATTTAAGTGTGTACCCCATACGATAC
** * ** * * * *
3371843 ATCA-CATTTCTTGTAATTGGGTGTGTATCACGTACAATAC
1 ATCACCA-TTCTCATATTTAAGTGTGTACCCCATACGATAC
* *
3371883 AACACCACTCTCATATTTAAGTGTGTACCCCATACGATAC
1 ATCACCATTCTCATATTTAAGTGTGTACCCCATACGATAC
*
3371923 ATCACCACTCTCATATTTAA--GTGTACCCCATACGATAC
1 ATCACCATTCTCATATTTAAGTGTGTACCCCATACGATAC
* *
3371961 ATCACCAGTCTCATATTTAAGTATGTACCCCATACGATAC
1 ATCACCATTCTCATATTTAAGTGTGTACCCCATACGATAC
** * ** * * * * *
3372001 ATCA-CATTGCTTGTAATTGGGGGTGTATCACGTACAATAC
1 ATCACCATT-CTCATATTTAAGTGTGTACCCCATACGATAC
* * * *
3372041 ATCACCACTATCATATTTAGGTGTGTACCCCGTACGATAC
1 ATCACCATTCTCATATTTAAGTGTGTACCCCATACGATAC
3372081 ATCACC
1 ATCACC
3372087 TTGCTTATAA
Statistics
Matches: 305, Mismatches: 86, Indels: 26
0.73 0.21 0.06
Matches are distributed among these distances:
38 39 0.13
39 10 0.03
40 243 0.80
41 8 0.03
42 5 0.02
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (40 bp):
ATCACCATTCTCATATTTAAGTGTGTACCCCATACGATAC
Found at i:3371780 original size:80 final size:80
Alignment explanation
Indices: 3371643--3372123 Score: 581
Period size: 80 Copynumber: 6.0 Consensus size: 80
3371633 TTGGGTATGT
* * * * * ** *
3371643 ATCACCATTCTCATATTTAAGTGTGTACCTCGTATGATACATCACCTTATTTGTAATTGGGTGTG
1 ATCACCACTCTCATATTTAAGTGTGTACCCCATACGATACATCACATTGCTTATAATTGGGTGTG
*
3371708 TATCCCATACAATAC
66 TATCACATACAATAC
* * * *
3371723 ATCACTACTCTCATATTTAAATTTGTACCCCATATGATACATCACATTGCTTATAATTGGGTGTG
1 ATCACCACTCTCATATTTAAGTGTGTACCCCATACGATACATCACATTGCTTATAATTGGGTGTG
*
3371788 TATCCCATACAATAC
66 TATCACATACAATAC
* * * * * *
3371803 ATCACCACTTTCATATTTAAGTGAGTACCTCGTACGATACATCACATTTCTTGTAATTGGGTGTG
1 ATCACCACTCTCATATTTAAGTGTGTACCCCATACGATACATCACATTGCTTATAATTGGGTGTG
*
3371868 TATCACGTACAATAC
66 TATCACATACAATAC
* * * ***
3371883 AACACCACTCTCATATTTAAGTGTGTACCCCATACGATACATCACCACT-CTCAT-ATT-TAAGT
1 ATCACCACTCTCATATTTAAGTGTGTACCCCATACGATACATCA-CATTGCTTATAATTGGGTGT
* * *
3371945 GTACCCCATACGATAC
65 GTATCACATACAATAC
* * * *
3371961 ATCACCAGTCTCATATTTAAGTATGTACCCCATACGATACATCACATTGCTTGTAATTGGGGGTG
1 ATCACCACTCTCATATTTAAGTGTGTACCCCATACGATACATCACATTGCTTATAATTGGGTGTG
*
3372026 TATCACGTACAATAC
66 TATCACATACAATAC
* * * *
3372041 ATCACCACTATCATATTTAGGTGTGTACCCCGTACGATACATCACCTTGCTTATAATTGGGTGTG
1 ATCACCACTCTCATATTTAAGTGTGTACCCCATACGATACATCACATTGCTTATAATTGGGTGTG
3372106 TATCACATACAATAC
66 TATCACATACAATAC
3372121 ATC
1 ATC
3372124 GTGCATATAC
Statistics
Matches: 338, Mismatches: 59, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
77 3 0.01
78 58 0.17
79 6 0.02
80 268 0.79
81 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (80 bp):
ATCACCACTCTCATATTTAAGTGTGTACCCCATACGATACATCACATTGCTTATAATTGGGTGTG
TATCACATACAATAC
Found at i:3372016 original size:158 final size:161
Alignment explanation
Indices: 3371643--3372123 Score: 596
Period size: 158 Copynumber: 3.0 Consensus size: 161
3371633 TTGGGTATGT
* * * * *
3371643 ATCACCATTCTCATATTTAAGTGTGTACCTCGTATGATACATCACCTTATTTGTAATTGGGTGTG
1 ATCACCACTCTCATATTTAAGTATGTACCTCGTACGATACATCACATTACTTGTAATTGGGTGTG
* * * * * * *
3371708 TATCCCATACAATACATCACTACTCTCATATTTAAATTTGTACCCCATATGATACATCA-CATTG
66 TATCACGTACAATACATCACCACTCTCATATTTAAGTGTGTACCCCATACGATACATCACCACTG
* ** *
3371772 CTTATAATTGGGTGTGTATCCCATACAATAC
131 CTCATAATTGGAAGTGTACCCCATACAATAC
* *
3371803 ATCACCACTTTCATATTTAAGTGA-GTACCTCGTACGATACATCACATTTCTTGTAATTGGGTGT
1 ATCACCACTCTCATATTTAAGT-ATGTACCTCGTACGATACATCACATTACTTGTAATTGGGTGT
*
3371867 GTATCACGTACAATACAACACCACTCTCATATTTAAGTGTGTACCCCATACGATACATCACCACT
65 GTATCACGTACAATACATCACCACTCTCATATTTAAGTGTGTACCCCATACGATACATCACCACT
* *
3371932 -CTCAT-ATT-TAAGTGTACCCCATACGATAC
130 GCTCATAATTGGAAGTGTACCCCATACAATAC
* * * * *
3371961 ATCACCAGTCTCATATTTAAGTATGTACCCCATACGATACATCACATTGCTTGTAATTGGGGGTG
1 ATCACCACTCTCATATTTAAGTATGTACCTCGTACGATACATCACATTACTTGTAATTGGGTGTG
* * * *
3372026 TATCACGTACAATACATCACCACTATCATATTTAGGTGTGTACCCCGTACGATACATCACC-TTG
66 TATCACGTACAATACATCACCACTCTCATATTTAAGTGTGTACCCCATACGATACATCACCACTG
* ** * *
3372090 CTTATAATTGGGTGTGTATCACATACAATAC
131 CTCATAATTGGAAGTGTACCCCATACAATAC
3372121 ATC
1 ATC
3372124 GTGCATATAC
Statistics
Matches: 276, Mismatches: 39, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
157 2 0.01
158 134 0.49
159 6 0.02
160 131 0.47
161 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (161 bp):
ATCACCACTCTCATATTTAAGTATGTACCTCGTACGATACATCACATTACTTGTAATTGGGTGTG
TATCACGTACAATACATCACCACTCTCATATTTAAGTGTGTACCCCATACGATACATCACCACTG
CTCATAATTGGAAGTGTACCCCATACAATAC
Found at i:3372229 original size:20 final size:19
Alignment explanation
Indices: 3372204--3372333 Score: 73
Period size: 20 Copynumber: 6.5 Consensus size: 19
3372194 TTCTAGTTTC
*
3372204 CAACCTAAAAATCTGGGTTG
1 CAACCTAAAAATAT-GGTTG
* *
3372224 CAACCTAAAAATATAGTTC
1 CAACCTAAAAATATGGTTG
* * *
3372243 CTAACCTAAAGTATAT-ATTA
1 C-AACCTAAA-AATATGGTTG
* *
3372263 TAACCTAAAAAATCTAGGTTG
1 CAACCT-AAAAATAT-GGTTG
* * * *
3372284 CAATCTAAAAATCTAGTTTC
1 CAACCTAAAAATAT-GGTTG
*
3372304 CAACCTAAAATTATGCGTTG
1 CAACCTAAAAATATG-GTTG
3372324 CAACCTAAAA
1 CAACCTAAAA
3372334 TCTCAAACCA
Statistics
Matches: 84, Mismatches: 20, Indels: 12
0.72 0.17 0.10
Matches are distributed among these distances:
19 13 0.15
20 61 0.73
21 10 0.12
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.28
Consensus pattern (19 bp):
CAACCTAAAAATATGGTTG
Found at i:3372292 original size:21 final size:21
Alignment explanation
Indices: 3372195--3372313 Score: 79
Period size: 20 Copynumber: 5.9 Consensus size: 21
3372185 TACAAGGAAT
*
3372195 TCTAGTTTCCAACCT-AAAAA
1 TCTAGGTTCCAACCTAAAAAA
* *
3372215 TCTGGGTTGCAACCT-AAAAA
1 TCTAGGTTCCAACCTAAAAAA
* **
3372235 TATA-GTTCCTAACCTAAAGTA
1 TCTAGGTTCC-AACCTAAAAAA
* **
3372256 TATA--TTATAACCTAAAAAA
1 TCTAGGTTCCAACCTAAAAAA
* *
3372275 TCTAGGTTGCAATCT-AAAAA
1 TCTAGGTTCCAACCTAAAAAA
*
3372295 TCTAGTTTCCAACCTAAAA
1 TCTAGGTTCCAACCTAAAA
3372314 TTATGCGTTG
Statistics
Matches: 75, Mismatches: 19, Indels: 9
0.73 0.18 0.09
Matches are distributed among these distances:
19 16 0.21
20 43 0.57
21 16 0.21
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.30
Consensus pattern (21 bp):
TCTAGGTTCCAACCTAAAAAA
Found at i:3373864 original size:17 final size:17
Alignment explanation
Indices: 3373839--3373876 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
3373829 AACTTTTATG
*
3373839 ACATGATAATCTAAATA
1 ACATAATAATCTAAATA
3373856 ACATAATAATCTAAATA
1 ACATAATAATCTAAATA
3373873 ACAT
1 ACAT
3373877 TTCTCTTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.55, C:0.13, G:0.03, T:0.29
Consensus pattern (17 bp):
ACATAATAATCTAAATA
Found at i:3377644 original size:20 final size:20
Alignment explanation
Indices: 3377601--3377671 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 20
3377591 CAAATATTTT
* * *
3377601 TATGAATAGT-TCTATACAG
1 TATGAATAGTAACGATACTG
*
3377620 TATGAATAGTAACGATATTG
1 TATGAATAGTAACGATACTG
* * *
3377640 TATGAATAATACCGATACTA
1 TATGAATAGTAACGATACTG
*
3377660 TGTGAATAGTAA
1 TATGAATAGTAA
3377672 TGAACAATAT
Statistics
Matches: 40, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.34
Consensus pattern (20 bp):
TATGAATAGTAACGATACTG
Found at i:3377816 original size:20 final size:20
Alignment explanation
Indices: 3377718--3377806 Score: 115
Period size: 20 Copynumber: 4.5 Consensus size: 20
3377708 ATGGGTACCT
*
3377718 ATACTGCTACAGTAGTATCA
1 ATACTGCTACAGTAGTATCG
*
3377738 ATATTGCTACAGTAGTATCG
1 ATACTGCTACAGTAGTATCG
* * * *
3377758 ATACTACTACAATGGTGTCG
1 ATACTGCTACAGTAGTATCG
*
3377778 ATACTGCTATAGTAGTATCG
1 ATACTGCTACAGTAGTATCG
3377798 ATACTGCTA
1 ATACTGCTA
3377807 TAGTGATATC
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 57 1.00
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (20 bp):
ATACTGCTACAGTAGTATCG
Found at i:3378615 original size:15 final size:15
Alignment explanation
Indices: 3378595--3378624 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3378585 CGGTGCCTAT
*
3378595 TACATTGAAGATTCA
1 TACATTCAAGATTCA
3378610 TACATTCAAGATTCA
1 TACATTCAAGATTCA
3378625 CAACTGTCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (15 bp):
TACATTCAAGATTCA
Found at i:3385891 original size:16 final size:16
Alignment explanation
Indices: 3385870--3385904 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
3385860 ATCAGATATG
*
3385870 TTGAGATATGTTGAGC
1 TTGAGATATATTGAGC
3385886 TTGAGATATATTGAGC
1 TTGAGATATATTGAGC
3385902 TTG
1 TTG
3385905 TCAGTCAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.26, C:0.06, G:0.29, T:0.40
Consensus pattern (16 bp):
TTGAGATATATTGAGC
Found at i:3388697 original size:29 final size:29
Alignment explanation
Indices: 3388653--3388842 Score: 256
Period size: 29 Copynumber: 6.6 Consensus size: 29
3388643 ACCCAACCCA
* *
3388653 GTGACATTCTGAGAATTATTTTGAAAAAT
1 GTGACATTCTGGGAATTATTTTGAAAAAG
*
3388682 GTGACATTCAGGGAATTATTTTGAAAAAG
1 GTGACATTCTGGGAATTATTTTGAAAAAG
* * *
3388711 GTAACATTCTAGGAATTATTTTGAAAAAT
1 GTGACATTCTGGGAATTATTTTGAAAAAG
* *
3388740 ATGAAATTCTGGGAATTATTTTGAAAAA-
1 GTGACATTCTGGGAATTATTTTGAAAAAG
* ** *
3388768 GTGACATTTTTAGAATTATTTTGAAAAAA
1 GTGACATTCTGGGAATTATTTTGAAAAAG
3388797 GTGACATTCTGGGAATTATTTTGAAAAAG
1 GTGACATTCTGGGAATTATTTTGAAAAAG
*
3388826 GTGACATTTTGGGAATT
1 GTGACATTCTGGGAATT
3388843 TTTGAATGTG
Statistics
Matches: 139, Mismatches: 21, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
28 23 0.17
29 116 0.83
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.37
Consensus pattern (29 bp):
GTGACATTCTGGGAATTATTTTGAAAAAG
Found at i:3388804 original size:86 final size:87
Alignment explanation
Indices: 3388658--3388842 Score: 255
Period size: 86 Copynumber: 2.1 Consensus size: 87
3388648 ACCCAGTGAC
* * *
3388658 ATTCTGAGAATTATTTTGAAAAATGTGACATTCAGGGAATTATTTTGAAAAAGGTAACATTCTAG
1 ATTCTGGGAATTATTTTGAAAAATGTGACATTCAGAGAATTATTTTGAAAAAAGTAACATTCTAG
*
3388723 GAATTATTTTGAAAAATATGAA
66 GAATTATTTTGAAAAAGATGAA
*** * *
3388745 ATTCTGGGAATTATTTTGAAAAA-GTGACATTTTTAGAATTATTTTGAAAAAAGTGACATTCTGG
1 ATTCTGGGAATTATTTTGAAAAATGTGACATTCAGAGAATTATTTTGAAAAAAGTAACATTCTAG
* *
3388809 GAATTATTTTGAAAAAGGTGAC
66 GAATTATTTTGAAAAAGATGAA
*
3388831 ATTTTGGGAATT
1 ATTCTGGGAATT
3388843 TTTGAATGTG
Statistics
Matches: 86, Mismatches: 12, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
86 64 0.74
87 22 0.26
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.37
Consensus pattern (87 bp):
ATTCTGGGAATTATTTTGAAAAATGTGACATTCAGAGAATTATTTTGAAAAAAGTAACATTCTAG
GAATTATTTTGAAAAAGATGAA
Found at i:3395078 original size:17 final size:18
Alignment explanation
Indices: 3395056--3395098 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
3395046 TAACCGGTTT
3395056 GACCCGACCCGTCGAC-C
1 GACCCGACCCGTCGACTC
*
3395073 GACCCGA-CCGTTGACTC
1 GACCCGACCCGTCGACTC
3395090 GACCCGACC
1 GACCCGACC
3395099 TAGTGACATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 7 0.30
17 15 0.65
18 1 0.04
ACGTcount: A:0.19, C:0.49, G:0.23, T:0.09
Consensus pattern (18 bp):
GACCCGACCCGTCGACTC
Found at i:3395251 original size:87 final size:87
Alignment explanation
Indices: 3395102--3395272 Score: 270
Period size: 87 Copynumber: 2.0 Consensus size: 87
3395092 CCCGACCTAG
* **
3395102 TGACATTCTGAGAATTATTTTGAAAAAGGTGATATTCTGGGAATTATTTTGAAAAATGTGACATT
1 TGACATTCTGAGAATTATTTTGAAAAAGGTGACATTCTGGGAATTATTTTGAAAAAAATGACATT
3395167 CTGGGAATTATTTTGAAAATAT
66 CTGGGAATTATTTTGAAAATAT
* * * **
3395189 TGACATTCTGGGAATTATTTTTAAAAAGGTGACATTTTTTGAATTATTTTGAAAAAAATGACATT
1 TGACATTCTGAGAATTATTTTGAAAAAGGTGACATTCTGGGAATTATTTTGAAAAAAATGACATT
3395254 CTGGGAATTATTTTGAAAA
66 CTGGGAATTATTTTGAAAA
3395273 AAAAGGGTGA
Statistics
Matches: 76, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 76 1.00
ACGTcount: A:0.36, C:0.06, G:0.18, T:0.40
Consensus pattern (87 bp):
TGACATTCTGAGAATTATTTTGAAAAAGGTGACATTCTGGGAATTATTTTGAAAAAAATGACATT
CTGGGAATTATTTTGAAAATAT
Found at i:3395275 original size:29 final size:29
Alignment explanation
Indices: 3395100--3395274 Score: 242
Period size: 29 Copynumber: 6.0 Consensus size: 29
3395090 GACCCGACCT
*
3395100 AGTGACATTCTGAGAATTATTTTGAAAAA
1 AGTGACATTCTGGGAATTATTTTGAAAAA
* *
3395129 GGTGATATTCTGGGAATTATTTTGAAAAA
1 AGTGACATTCTGGGAATTATTTTGAAAAA
* *
3395158 TGTGACATTCTGGGAATTATTTTGAAAAT
1 AGTGACATTCTGGGAATTATTTTGAAAAA
* *
3395187 ATTGACATTCTGGGAATTATTTTTAAAAA
1 AGTGACATTCTGGGAATTATTTTGAAAAA
* * **
3395216 GGTGACATTTTTTGAATTATTTTGAAAAA
1 AGTGACATTCTGGGAATTATTTTGAAAAA
*
3395245 AATGACATTCTGGGAATTATTTTGAAAAA
1 AGTGACATTCTGGGAATTATTTTGAAAAA
3395274 A
1 A
3395275 AAGGGTGACA
Statistics
Matches: 125, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 125 1.00
ACGTcount: A:0.37, C:0.06, G:0.18, T:0.39
Consensus pattern (29 bp):
AGTGACATTCTGGGAATTATTTTGAAAAA
Found at i:3397680 original size:21 final size:20
Alignment explanation
Indices: 3397641--3397682 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
3397631 ATTTTTAAGT
*
3397641 TTTGAAATTAATTTCTTATA
1 TTTGAAATTAATGTCTTATA
*
3397661 TTTGAAATTCATGGTCTTATA
1 TTTGAAATTAAT-GTCTTATA
3397682 T
1 T
3397683 CCCAAATACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.31, C:0.07, G:0.10, T:0.52
Consensus pattern (20 bp):
TTTGAAATTAATGTCTTATA
Found at i:3398309 original size:15 final size:15
Alignment explanation
Indices: 3398289--3398318 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3398279 TGACCAGTTG
*
3398289 TGAATCTTGAATGTA
1 TGAATCTTCAATGTA
3398304 TGAATCTTCAATGTA
1 TGAATCTTCAATGTA
3398319 ATAGGCACCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (15 bp):
TGAATCTTCAATGTA
Found at i:3401164 original size:45 final size:47
Alignment explanation
Indices: 3401108--3401220 Score: 160
Period size: 47 Copynumber: 2.4 Consensus size: 47
3401098 GGAGAGATAT
*
3401108 TGTGGTGGAGGGACAGT-TGTTGTTTAT-G-AGCTACTGGAATGCTGC
1 TGTGGTAGAGGGACA-TCTGTTGTTTATGGAAGCTACTGGAATGCTGC
*
3401153 TGTGGTAGAGGGACATCTGTTGTTTATGGAAGCTACTGGAATGTTGC
1 TGTGGTAGAGGGACATCTGTTGTTTATGGAAGCTACTGGAATGCTGC
* *
3401200 TGTGGTATAGGGACAACTGTT
1 TGTGGTAGAGGGACATCTGTT
3401221 ATTGACGTAC
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
44 1 0.02
45 24 0.39
46 1 0.02
47 35 0.57
ACGTcount: A:0.20, C:0.11, G:0.35, T:0.34
Consensus pattern (47 bp):
TGTGGTAGAGGGACATCTGTTGTTTATGGAAGCTACTGGAATGCTGC
Found at i:3401502 original size:16 final size:16
Alignment explanation
Indices: 3401481--3401519 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
3401471 TTCGAACGAG
3401481 CTCTTCCTATTATGAA
1 CTCTTCCTATTATGAA
*
3401497 CTCTTCATATTATGAA
1 CTCTTCCTATTATGAA
3401513 CTCTTCC
1 CTCTTCC
3401520 ACTGGAAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.23, C:0.28, G:0.05, T:0.44
Consensus pattern (16 bp):
CTCTTCCTATTATGAA
Found at i:3401765 original size:19 final size:19
Alignment explanation
Indices: 3401741--3401784 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
3401731 TATGAACTTC
3401741 TTCTTCCTCTTCAGATAAG
1 TTCTTCCTCTTCAGATAAG
3401760 TTCTTCCTCTTCAGATAAG
1 TTCTTCCTCTTCAGATAAG
3401779 TTCTTC
1 TTCTTC
3401785 TTATTACGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.18, C:0.27, G:0.09, T:0.45
Consensus pattern (19 bp):
TTCTTCCTCTTCAGATAAG
Found at i:3401765 original size:22 final size:22
Alignment explanation
Indices: 3401738--3401786 Score: 77
Period size: 19 Copynumber: 2.4 Consensus size: 22
3401728 CATTATGAAC
3401738 TTCTTCTTCCTCTTCAGATAAG
1 TTCTTCTTCCTCTTCAGATAAG
3401760 ---TTCTTCCTCTTCAGATAAG
1 TTCTTCTTCCTCTTCAGATAAG
3401779 TTCTTCTT
1 TTCTTCTT
3401787 ATTACGAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
19 19 0.79
22 5 0.21
ACGTcount: A:0.16, C:0.27, G:0.08, T:0.49
Consensus pattern (22 bp):
TTCTTCTTCCTCTTCAGATAAG
Found at i:3401782 original size:142 final size:142
Alignment explanation
Indices: 3401618--3401907 Score: 463
Period size: 142 Copynumber: 2.0 Consensus size: 142
3401608 TATGAACTTT
* * * *
3401618 TTCTTCCTCTTCAGATGAGTTCTTCTAATTATGAACTCCTTCTGGAAATGTTGATGTTGATCTAT
1 TTCTTCCTCTTCAGATAAGTTCTTCTAATTACGAACTCCTTCTAGAAATGTTGATGATGATCTAT
*
3401683 CCCCTTATGTGATAGAGTCAAGAAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC
66 CCCCTTATGTGATAGAGTCAAGAAAAAGGTTGAACAAGTTCTTCACATTATGAACTTCTTCTTCC
3401748 TCTTCAGATAAG
131 TCTTCAGATAAG
* *
3401760 TTCTTCCTCTTCAGATAAGTTCTTCTTATTACGAACTCCTTCTAGAAATGTTGATGATGCTCTAT
1 TTCTTCCTCTTCAGATAAGTTCTTCTAATTACGAACTCCTTCTAGAAATGTTGATGATGATCTAT
* * * * *
3401825 CTCCTTCTGTGATAGAGTCAAGAAAAAGGTTGAATAAGTTCTTCAGATTATGAACTTCTTCTTCT
66 CCCCTTATGTGATAGAGTCAAGAAAAAGGTTGAACAAGTTCTTCACATTATGAACTTCTTCTTCC
*
3401890 TCTTCAGATGAG
131 TCTTCAGATAAG
3401902 TTCTTC
1 TTCTTC
3401908 TTATTATGAA
Statistics
Matches: 135, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
142 135 1.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.40
Consensus pattern (142 bp):
TTCTTCCTCTTCAGATAAGTTCTTCTAATTACGAACTCCTTCTAGAAATGTTGATGATGATCTAT
CCCCTTATGTGATAGAGTCAAGAAAAAGGTTGAACAAGTTCTTCACATTATGAACTTCTTCTTCC
TCTTCAGATAAG
Found at i:3401904 original size:123 final size:123
Alignment explanation
Indices: 3401760--3402008 Score: 401
Period size: 123 Copynumber: 2.0 Consensus size: 123
3401750 TTCAGATAAG
3401760 TTCTTCCTCTTCAGATAAGTTCTTCTTATTACGAACTCCTTCTAGAAATGTTGATGATGCTCTAT
1 TTCTTCCTCTTCAGATAAGTTCTTCTTATTACGAACTCCTTCTAGAAATGTTGATGATGCTCTAT
*
3401825 CTCCT-TCTGTGATAGAGTCAAGAAAAAGGTTGAATAAGTTCTTCAGATTATGAACTTC
66 CTCCTGT-TGTGATAGAGTCAAGAAAAAGGTTGAATAAGTTCTTCAGATTATAAACTTC
* * * * * *
3401883 TTCTTCTTCTTCAGATGAGTTCTTCTTATTATGAACTTCTTCTGGAAATGTTGATGATGCTTTAT
1 TTCTTCCTCTTCAGATAAGTTCTTCTTATTACGAACTCCTTCTAGAAATGTTGATGATGCTCTAT
* *
3401948 CTCCTGTTGTGATAGAGTCGAGCAAAAGGTTGAATAAGTTCTTCAGATTATAAACTTC
66 CTCCTGTTGTGATAGAGTCAAGAAAAAGGTTGAATAAGTTCTTCAGATTATAAACTTC
3402006 TTC
1 TTC
3402009 AGATTATAAA
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
123 115 0.99
124 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.16, T:0.40
Consensus pattern (123 bp):
TTCTTCCTCTTCAGATAAGTTCTTCTTATTACGAACTCCTTCTAGAAATGTTGATGATGCTCTAT
CTCCTGTTGTGATAGAGTCAAGAAAAAGGTTGAATAAGTTCTTCAGATTATAAACTTC
Found at i:3402028 original size:20 final size:17
Alignment explanation
Indices: 3401986--3402025 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
3401976 GTTGAATAAG
3401986 TTCTTCAGATTATAAAC
1 TTCTTCAGATTATAAAC
3402003 TTCTTCAGATTATAAAC
1 TTCTTCAGATTATAAAC
3402020 TTCTTC
1 TTCTTC
3402026 TTCCTCTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.30, C:0.20, G:0.05, T:0.45
Consensus pattern (17 bp):
TTCTTCAGATTATAAAC
Found at i:3404138 original size:335 final size:335
Alignment explanation
Indices: 3403528--3404497 Score: 1654
Period size: 335 Copynumber: 2.9 Consensus size: 335
3403518 AGTCATAAAA
* * *
3403528 TTCATCCTCAATG-TCTAGTGGATTTGAATATCATGATACCCACGAGGTCAACTTTGATAATGCC
1 TTCATCCCCAATGTTC-ATTGGATTTGAATATCATAATACCCACGAGGTCAACTTTGATAATGCC
* *
3403592 CCTTTGTGGTTACTCGTGGCTCTATTCGTGACCAAATTTCTTAATCTTGAATGTTTTCATTTGGG
65 CCTTTGTGGGTACTCGTGGCTCTATTCGTGACCAAATTTCTGAATCTTGAATGTTTTCATTTGGG
*
3403657 TGTCACTAAACAACAATGTAGTCAAGTAACTTGAGGGATTCTTTTCATGTAGTCCAAAACTTAAG
130 TGTCACTAAACAACAGTGTAGTCAAGTAACTTGAGGGATTCTTTTCATGTAGTCCAAAACTTAAG
3403722 AAGTGATCAATCATTCTAACAGAAATGTCTGAGATATGTGCCTCTTTTGAATGAGGTGGTCATCT
195 AAGTGATCAATCATTCTAACAGAAATGTCTGAGATATGTGCCTCTTTTGAATGAGGTGGTCATCT
*
3403787 TCTTCTTGAATGGTCGTGTTCTTGCCTCTTTGTTATGCATTAGGATATGTGCCCCTTTTGAATAG
260 TCTTCTTGAATGGTCGTGTTCTTGCCTCTTTGCTATGCATTAGGATATGTGCCCCTTTTGAATAG
3403852 GGTAATCTTTC
325 GGTAATCTTTC
3403863 TTCATCCCCAATGTTCATTGGATTTGAATATCATAATACCCACGAGGTCAACTTTGATAATGCCC
1 TTCATCCCCAATGTTCATTGGATTTGAATATCATAATACCCACGAGGTCAACTTTGATAATGCCC
*
3403928 CTTTGTGGGTATTCGTGGCTCTATTCGTGACCAAATTTCTGAATCTTGAATGTTTTCATTTGGGT
66 CTTTGTGGGTACTCGTGGCTCTATTCGTGACCAAATTTCTGAATCTTGAATGTTTTCATTTGGGT
*
3403993 GTCACTAAACAACAGTGTAGTCAAGTAACTTGAGGGATTCTTTTCATGTAGTTCAAAACTTAAGA
131 GTCACTAAACAACAGTGTAGTCAAGTAACTTGAGGGATTCTTTTCATGTAGTCCAAAACTTAAGA
3404058 AGTGATCAATCATTCTAACAGAAATGTCTGAGATATGTGCCTCTTTTGAATGAGGTGGTCATCTT
196 AGTGATCAATCATTCTAACAGAAATGTCTGAGATATGTGCCTCTTTTGAATGAGGTGGTCATCTT
3404123 CTTCTTGAATGGTCGTGTTCTTGCCTCTTTGCTATGCATTAGGATATGTGCCCCTTTTGAATAGG
261 CTTCTTGAATGGTCGTGTTCTTGCCTCTTTGCTATGCATTAGGATATGTGCCCCTTTTGAATAGG
3404188 GTAATCTTTC
326 GTAATCTTTC
3404198 TTCATCCCCAATGTTCATTGGATTTGAATATCATAATACCCACGAGGTCAACTTTGATAATGCCC
1 TTCATCCCCAATGTTCATTGGATTTGAATATCATAATACCCACGAGGTCAACTTTGATAATGCCC
* * * * **
3404263 ATTTATGGGTACTCGTGGCTCTATTCGTGACCAAATTTTTGAATCTTGAATGTTCTCATTCAGGT
66 CTTTGTGGGTACTCGTGGCTCTATTCGTGACCAAATTTCTGAATCTTGAATGTTTTCATTTGGGT
* * ** * * *
3404328 GTAACTAAACAGCAGTACAGTCAAGTAACTTAAGGGATTCTTTTCATGTAGACCCAAACTTAAGA
131 GTCACTAAACAACAGTGTAGTCAAGTAACTTGAGGGATTCTTTTCATGTAGTCCAAAACTTAAGA
* * *
3404393 AGTGATTAATCATTCTAATAGAAATGTCTGAGATATGTGCCTCTTCTGAATGAGGTGGTCATCTT
196 AGTGATCAATCATTCTAACAGAAATGTCTGAGATATGTGCCTCTTTTGAATGAGGTGGTCATCTT
* * *
3404458 ATTCTTGAATGGTCGCGTTCTTGCCTTTTTTTGCTATGCA
261 CTTCTTGAATGGTCGTGTTCTTGCC--TCTTTGCTATGCA
3404498 CATAGGGTAA
Statistics
Matches: 602, Mismatches: 30, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
335 588 0.98
336 2 0.00
337 12 0.02
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.37
Consensus pattern (335 bp):
TTCATCCCCAATGTTCATTGGATTTGAATATCATAATACCCACGAGGTCAACTTTGATAATGCCC
CTTTGTGGGTACTCGTGGCTCTATTCGTGACCAAATTTCTGAATCTTGAATGTTTTCATTTGGGT
GTCACTAAACAACAGTGTAGTCAAGTAACTTGAGGGATTCTTTTCATGTAGTCCAAAACTTAAGA
AGTGATCAATCATTCTAACAGAAATGTCTGAGATATGTGCCTCTTTTGAATGAGGTGGTCATCTT
CTTCTTGAATGGTCGTGTTCTTGCCTCTTTGCTATGCATTAGGATATGTGCCCCTTTTGAATAGG
GTAATCTTTC
Found at i:3405455 original size:87 final size:87
Alignment explanation
Indices: 3405344--3405512 Score: 277
Period size: 87 Copynumber: 1.9 Consensus size: 87
3405334 TAATAGTATA
*
3405344 ATAGGCTAGCTGAATATTATCCATAAAGCCA-AGGCTATTAACCAATTACTTTAGGGGGATAACT
1 ATAGGCTAGCTGAATATTATCCATAAAGCCAGA-GCGATTAACCAATTACTTTAGGGGGATAACT
3405408 CAAGCTTTATTGTATATAATAGT
65 CAAGCTTTATTGTATATAATAGT
* * * *
3405431 ATAGGCTAGCTGAATATTTTCCATAAAGTCGGAGCGATTAACCAATTGCTTTAGGGGGATAACTC
1 ATAGGCTAGCTGAATATTATCCATAAAGCCAGAGCGATTAACCAATTACTTTAGGGGGATAACTC
3405496 AAGCTTTATTGTATATA
66 AAGCTTTATTGTATATA
3405513 TAATATGAGT
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
87 75 0.99
88 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.33
Consensus pattern (87 bp):
ATAGGCTAGCTGAATATTATCCATAAAGCCAGAGCGATTAACCAATTACTTTAGGGGGATAACTC
AAGCTTTATTGTATATAATAGT
Found at i:3413191 original size:12 final size:12
Alignment explanation
Indices: 3413174--3413198 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3413164 AGAAAAGAGG
3413174 AAAAAATAGAAA
1 AAAAAATAGAAA
3413186 AAAAAATAGAAA
1 AAAAAATAGAAA
3413198 A
1 A
3413199 TGAAAAAGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (12 bp):
AAAAAATAGAAA
Found at i:3414217 original size:84 final size:84
Alignment explanation
Indices: 3414076--3414263 Score: 322
Period size: 84 Copynumber: 2.2 Consensus size: 84
3414066 AGGAAAAAGA
3414076 AGTTCATAATGAGAAGAACTTATTCAACCTTTTACTCGACTCTATCACAAAAGGAGATAGATTAG
1 AGTTCATAATGAGAAGAACTTATTCAACCTTTTACTCGACTCTATCACAAAAGGAGATAGATTAG
3414141 CACCAACATTTCCAGAGAG
66 CACCAACATTTCCAGAGAG
* * * *
3414160 AGTTCAAAATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATAGATTAG
1 AGTTCATAATGAGAAGAACTTATTCAACCTTTTACTCGACTCTATCACAAAAGGAGATAGATTAG
*
3414225 CACCAACATTTTCAGAGAG
66 CACCAACATTTCCAGAGAG
*
3414244 AGTTCATAATAAGAAGAACT
1 AGTTCATAATGAGAAGAACT
3414264 CATCTGAAGA
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
84 97 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (84 bp):
AGTTCATAATGAGAAGAACTTATTCAACCTTTTACTCGACTCTATCACAAAAGGAGATAGATTAG
CACCAACATTTCCAGAGAG
Found at i:3414386 original size:123 final size:123
Alignment explanation
Indices: 3414160--3414430 Score: 416
Period size: 123 Copynumber: 2.2 Consensus size: 123
3414150 TTCCAGAGAG
* * * *
3414160 AGTTCAAAATGAGAAGAACTTGTTCAACCTTTTGCTCGACTCTATCACAGAAGGAGATAGATTAG
1 AGTTCATAATGAGAAGAACTTGTTCAACCCTTTGCTCGACTCTATCACAAAAGGAGATAGATCAG
* *
3414225 CACCAACATTTTCAGAGAGAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGA
66 CACCAACATTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGA
**
3414283 AGTTTGTAATGAGAAGAACTTGTTCAACCCTTTGCTCGACTCTATCACAAAAGGAGATAGATCAG
1 AGTTCATAATGAGAAGAACTTGTTCAACCCTTTGCTCGACTCTATCACAAAAGGAGATAGATCAG
* * * *
3414348 CATCAACATTTCCAGATAAATTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGA
66 CACCAACATTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGA
* *
3414406 AGTTCATAGTGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTTGTTC
3414431 GCCTTAACTT
Statistics
Matches: 132, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
123 132 1.00
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.25
Consensus pattern (123 bp):
AGTTCATAATGAGAAGAACTTGTTCAACCCTTTGCTCGACTCTATCACAAAAGGAGATAGATCAG
CACCAACATTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAGGAAGAAGA
Found at i:3416606 original size:30 final size:30
Alignment explanation
Indices: 3416572--3416695 Score: 108
Period size: 32 Copynumber: 4.0 Consensus size: 30
3416562 CCTGAAGGAC
* *
3416572 CTATCAATATGTTCCTG-AGAACATAGGTAA
1 CTATCAATATG-TCCCGAAAAACATAGGTAA
*
3416602 CTATCCATATGTCCCGAAAAACATAGGTAA
1 CTATCAATATGTCCCGAAAAACATAGGTAA
* *
3416632 -TCATGTACATATGTCCCGAAAGACATAGGTAA
1 CT-AT-CA-ATATGTCCCGAAAAACATAGGTAA
* * *
3416664 TCTTGTCCATATGTCCCGAAAGACATAGGTAA
1 -C-TATCAATATGTCCCGAAAAACATAGGTAA
3416696 TCCTTGACTC
Statistics
Matches: 78, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
29 5 0.06
30 24 0.31
32 47 0.60
34 1 0.01
35 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (30 bp):
CTATCAATATGTCCCGAAAAACATAGGTAA
Found at i:3416648 original size:32 final size:31
Alignment explanation
Indices: 3416591--3416697 Score: 153
Period size: 32 Copynumber: 3.4 Consensus size: 31
3416581 TGTTCCTGAG
*
3416591 AACATAGGTAA-CTATCCATATGTCCCGAAA
1 AACATAGGTAATCTGTCCATATGTCCCGAAA
*
3416621 AACATAGGTAATCATGTACATATGTCCCGAAA
1 AACATAGGTAATC-TGTCCATATGTCCCGAAA
*
3416653 GACATAGGTAATCTTGTCCATATGTCCCGAAA
1 AACATAGGTAATC-TGTCCATATGTCCCGAAA
*
3416685 GACATAGGTAATC
1 AACATAGGTAATC
3416698 CTTGACTCTT
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
30 11 0.16
31 1 0.01
32 58 0.83
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (31 bp):
AACATAGGTAATCTGTCCATATGTCCCGAAA
Found at i:3419019 original size:11 final size:11
Alignment explanation
Indices: 3418993--3419026 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
3418983 TCTTCAATAT
*
3418993 TAAAAAATAAA
1 TAAAATATAAA
3419004 T-AAATATAAA
1 TAAAATATAAA
3419014 TAAAATATAAA
1 TAAAATATAAA
3419025 TA
1 TA
3419027 TTTTCTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
TAAAATATAAA
Found at i:3419213 original size:19 final size:20
Alignment explanation
Indices: 3419179--3419217 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
3419169 CATACATAAA
3419179 TTAAAATATATCAAATTATAC
1 TTAAAATATA-CAAATTATAC
3419200 TTAAAATATA-AAATTATA
1 TTAAAATATACAAATTATA
3419218 GGATTAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
21 10 0.56
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
TTAAAATATACAAATTATAC
Found at i:3420686 original size:6 final size:6
Alignment explanation
Indices: 3420675--3420701 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
3420665 TAGGTACATG
3420675 CATAAT CATAAT CATAAT CATAAT CAT
1 CATAAT CATAAT CATAAT CATAAT CAT
3420702 GTGTTATCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.33
Consensus pattern (6 bp):
CATAAT
Found at i:3421939 original size:32 final size:32
Alignment explanation
Indices: 3421889--3422003 Score: 137
Period size: 32 Copynumber: 3.6 Consensus size: 32
3421879 ACGGTGTTGT
*
3421889 TACTAA-AGTATC-AGTACTACAATAGTATTGG
1 TACTAACAGTATCGA-TACTAAAATAGTATTGG
* * *
3421920 TATTAACAGTATCGATACTAAAACAGTATAGG
1 TACTAACAGTATCGATACTAAAATAGTATTGG
*
3421952 TACTAACAATATCGATACTAAAATAGTA-TGAG
1 TACTAACAGTATCGATACTAAAATAGTATTG-G
*
3421984 TACTAACAGTCTCGATACTA
1 TACTAACAGTATCGATACTA
3422004 TGACCTAGAA
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
31 6 0.08
32 64 0.90
33 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.30
Consensus pattern (32 bp):
TACTAACAGTATCGATACTAAAATAGTATTGG
Found at i:3421946 original size:17 final size:16
Alignment explanation
Indices: 3421924--3422003 Score: 67
Period size: 17 Copynumber: 5.0 Consensus size: 16
3421914 TATTGGTATT
3421924 AACAGTATCGATACTAA
1 AACAGTATCGATACT-A
* *
3421941 AACAGTATAGGTACT-
1 AACAGTATCGATACTA
*
3421956 AACAATATCGATACTAA
1 AACAGTATCGATACT-A
*
3421973 AATAGTAT-GAGTACT-
1 AACAGTATCGA-TACTA
*
3421988 AACAGTCTCGATACTA
1 AACAGTATCGATACTA
3422004 TGACCTAGAA
Statistics
Matches: 49, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
15 22 0.45
16 4 0.08
17 23 0.47
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (16 bp):
AACAGTATCGATACTA
Found at i:3426031 original size:54 final size:54
Alignment explanation
Indices: 3425973--3426482 Score: 526
Period size: 54 Copynumber: 9.4 Consensus size: 54
3425963 TCAAATTTCA
* *
3425973 TGGGTTGCACACATT-GTACCGATACAGTAGTTCATAAACTTATTATGAATTACG
1 TGGGTTGCACAC-TTAGTGCCGATACGGTAGTTCATAAACTTATTATGAATTACG
* * * * *
3426027 TGGGTTGCTCTCTTAGTGCTGATACGGTCGTTCATAAACTTCA-TATGAATTTCG
1 TGGGTTGCACACTTAGTGCCGATACGGTAGTTCATAAACTT-ATTATGAATTACG
* * * *
3426081 TGGGTTGCACACTTAGTGTCGTTATGGT-GATTCATAAACTTATTATGAATTATG
1 TGGGTTGCACACTTAGTGCCGATACGGTAG-TTCATAAACTTATTATGAATTACG
* * * * ** * * *
3426135 TGGGTTACAAACGTATTGTTGATACTGTCGTTCATAAACTTATTATGAATTATG
1 TGGGTTGCACACTTAGTGCCGATACGGTAGTTCATAAACTTATTATGAATTACG
* * * * * *
3426189 TTGGTTGCATAGTTAGTGTCGATATGGTCA-TTCATAAACTTATTATGAATTTCG
1 TGGGTTGCACACTTAGTGCCGATACGGT-AGTTCATAAACTTATTATGAATTACG
** * * ** *
3426243 TGGGTTGCACACTTAGTATCGATACGGTCGTTCATAAACTTATTATCAATCCCA
1 TGGGTTGCACACTTAGTGCCGATACGGTAGTTCATAAACTTATTATGAATTACG
* * **
3426297 TGGGTTGCACACTTAGTTCCGATACGGTTGTTCATAAACTTATTATGAATTTTG
1 TGGGTTGCACACTTAGTGCCGATACGGTAGTTCATAAACTTATTATGAATTACG
* * *
3426351 TGGGTTGCACACTTAGTGTCGATACGGTAGTTCATAAACTTATTATAAATTATG
1 TGGGTTGCACACTTAGTGCCGATACGGTAGTTCATAAACTTATTATGAATTACG
* * * * *
3426405 TGGGTTACACACTTAGTGCCAATGCGGTTA-TTCATAAACTTATTATAAATTTCG
1 TGGGTTGCACACTTAGTGCCGATACGG-TAGTTCATAAACTTATTATGAATTACG
*
3426459 TGGGTTGCACACTTAGTGCAGATA
1 TGGGTTGCACACTTAGTGCCGATA
3426483 GTACACATAG
Statistics
Matches: 380, Mismatches: 68, Indels: 16
0.82 0.15 0.03
Matches are distributed among these distances:
53 4 0.01
54 372 0.98
55 4 0.01
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (54 bp):
TGGGTTGCACACTTAGTGCCGATACGGTAGTTCATAAACTTATTATGAATTACG
Found at i:3426146 original size:27 final size:27
Alignment explanation
Indices: 3426102--3426194 Score: 66
Period size: 27 Copynumber: 3.4 Consensus size: 27
3426092 CTTAGTGTCG
* *
3426102 TTATGGTGATTCATAAACTTATTATGAA
1 TTAT-GTGGTTCACAAACTTATTATGAA
* *
3426130 TTATGTGGGTT-ACAAACGTATTGTTG-A
1 TTATGT-GGTTCACAAACTTATT-ATGAA
* *
3426157 -TACTGTCGTTCATAAACTTATTATGAA
1 TTA-TGTGGTTCACAAACTTATTATGAA
3426184 TTATGTTGGTT
1 TTATG-TGGTT
3426195 GCATAGTTAG
Statistics
Matches: 49, Mismatches: 9, Indels: 14
0.68 0.12 0.19
Matches are distributed among these distances:
26 7 0.14
27 27 0.55
28 15 0.31
ACGTcount: A:0.29, C:0.09, G:0.18, T:0.44
Consensus pattern (27 bp):
TTATGTGGTTCACAAACTTATTATGAA
Found at i:3426831 original size:20 final size:21
Alignment explanation
Indices: 3426806--3426857 Score: 70
Period size: 22 Copynumber: 2.5 Consensus size: 21
3426796 AAACTCAATA
*
3426806 GTATCGGTACATC-TACTATG
1 GTATCGATACATCATACTATG
3426826 GTATCGATACATCTATACTATG
1 GTATCGATACATC-ATACTATG
*
3426848 GTACCGATAC
1 GTATCGATAC
3426858 TCCCTTCAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 12 0.43
22 16 0.57
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (21 bp):
GTATCGATACATCATACTATG
Found at i:3431515 original size:22 final size:22
Alignment explanation
Indices: 3431490--3431590 Score: 94
Period size: 22 Copynumber: 4.5 Consensus size: 22
3431480 TTAAAATAAA
*
3431490 TTATTATAAAATATGGATTGAT
1 TTATTTTAAAATATGGATTGAT
** * *
3431512 TTATTTTAAAATAATTTATTTTAA
1 TTATTTTAAAAT-ATGGA-TTGAT
* * * *
3431536 ATAATTTATTAGTATGGATTGAT
1 TTATTTTA-AAATATGGATTGAT
3431559 TTATTTTAAAATATGGATTGAT
1 TTATTTTAAAATATGGATTGAT
3431581 TTATTTTAAA
1 TTATTTTAAA
3431591 TAATTTATTA
Statistics
Matches: 59, Mismatches: 17, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
22 33 0.56
23 12 0.20
24 12 0.20
25 2 0.03
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (22 bp):
TTATTTTAAAATATGGATTGAT
Found at i:3431539 original size:14 final size:15
Alignment explanation
Indices: 3431467--3431545 Score: 70
Period size: 15 Copynumber: 4.9 Consensus size: 15
3431457 TATTTTTTAA
3431467 AAAATAATTTATTTT
1 AAAATAATTTATTTT
* *
3431482 AAAATAAATTATTATA
1 AAAATAATTTATT-TT
3431498 AAATATGGATTGATTTATTTT
1 AAA-AT--A---ATTTATTTT
3431519 AAAATAATTTATTTT
1 AAAATAATTTATTTT
3431534 -AAATAATTTATT
1 AAAATAATTTATT
3431546 AGTATGGATT
Statistics
Matches: 53, Mismatches: 4, Indels: 15
0.74 0.06 0.21
Matches are distributed among these distances:
14 12 0.23
15 21 0.40
16 4 0.08
17 2 0.04
18 1 0.02
19 1 0.02
20 2 0.04
21 4 0.08
22 6 0.11
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (15 bp):
AAAATAATTTATTTT
Found at i:3431563 original size:32 final size:32
Alignment explanation
Indices: 3431525--3431778 Score: 160
Period size: 32 Copynumber: 8.4 Consensus size: 32
3431515 TTTTAAAATA
3431525 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
3431557 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
3431579 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
3431611 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
3431633 ATTTATTTTAAACAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
** **
3431665 ATTTATTTTAAA-ATATGGATT-G-ATTTATT-
1 ATTTATTTTAAATA-ATTTATTAGTATGGATTG
* * * *
3431694 ATCATAGTTGTATAGATTGATTTATTTTAAAATATGGATTG
1 AT-TTA-TT-T-TA-AATAATTTA--TT--AGTATGGATTG
*
3431735 GTTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
3431767 ATTTATTTTAAA
1 ATTTATTTTAAA
3431779 ATATGGATTG
Statistics
Matches: 169, Mismatches: 19, Indels: 68
0.66 0.07 0.27
Matches are distributed among these distances:
22 28 0.17
23 8 0.05
25 2 0.01
26 5 0.03
28 6 0.04
29 4 0.02
30 7 0.04
31 12 0.07
32 67 0.40
33 2 0.01
34 6 0.04
36 9 0.05
37 2 0.01
38 1 0.01
39 2 0.01
40 7 0.04
41 1 0.01
ACGTcount: A:0.35, C:0.01, G:0.13, T:0.52
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:3431590 original size:54 final size:54
Alignment explanation
Indices: 3431525--3432024 Score: 477
Period size: 54 Copynumber: 9.4 Consensus size: 54
3431515 TTTTAAAATA
3431525 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
3431579 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
3431633 ATTTATTTTAAACAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* *
3431687 ATTTA--TT--ATCA--TAGTT-GTATAGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
3431735 GTTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * *
3431789 ATTTA--TT--AT--TGTAGGT-GTATGGATTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAAATATGGATTG
* * * * * * **
3431833 ATTAGTATGGATTAATTTATTT-TAAAATATGGATTGGTTTATTTT-AAATAATTTATTAG
1 ATT--TAT--TTTAAATAATTTAT-TAGTATGGATTGATTTATTTTAAAAT-ATGGATT-G
** * ** * * * ***
3431892 TATGGA-TTGATTTATTTTA-AAATATGGATTGATTTATTATTGTAGTTGTATGGATTG
1 -ATTTATTTTAAATAATTTATTAGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
*
3431949 ATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
3432003 ATTTATTTTAAATAATTTATTA
1 ATTTATTTTAAATAATTTATTA
3432025 TTGTAGTTGT
Statistics
Matches: 368, Mismatches: 43, Indels: 70
0.77 0.09 0.15
Matches are distributed among these distances:
44 6 0.02
46 2 0.01
47 5 0.01
48 59 0.16
49 3 0.01
50 8 0.02
52 8 0.02
53 2 0.01
54 219 0.60
55 11 0.03
56 7 0.02
57 12 0.03
58 23 0.06
59 1 0.00
60 2 0.01
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:3431627 original size:22 final size:22
Alignment explanation
Indices: 3431602--3431746 Score: 92
Period size: 22 Copynumber: 6.0 Consensus size: 22
3431592 AATTTATTAG
3431602 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
3431624 TATGGATTGATTTATTTTAAACAA
1 TATGGATTGATTTATTTT-AA-AA
* * *
3431648 TTTATTAGTATGGATTGATTTATTTTAAAA
1 --TA-T-GGATTGATTTA-TT---TTAAAA
***
3431678 TATGGATTGATTTATTATCATAGTTG
1 TATGGATTGATTTATT-T--TA-AAA
*
3431704 TATAGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
*
3431726 TATGGATTGGTTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
3431747 TAATTTATTA
Statistics
Matches: 94, Mismatches: 16, Indels: 26
0.69 0.12 0.19
Matches are distributed among these distances:
22 37 0.39
23 5 0.05
24 2 0.02
25 5 0.05
26 25 0.27
27 2 0.02
28 10 0.11
29 2 0.02
30 2 0.02
31 2 0.02
32 2 0.02
ACGTcount: A:0.34, C:0.01, G:0.14, T:0.50
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:3431757 original size:102 final size:102
Alignment explanation
Indices: 3431525--3432009 Score: 486
Period size: 102 Copynumber: 4.6 Consensus size: 102
3431515 TTTTAAAATA
3431525 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA--TT--
3431590 ATAATTTA-TTAGTATGGATTGATTTATTTTAAAATATGGATTG
62 ATAA--TAGTT-GTATGGATTGATTTATTTTAAAATATGGATTG
* *
3431633 ATTTATTTTAAACAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATCA
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATAA
*
3431698 TAGTTGTATAGATTGATTTATTTTAAAATATGGATTG
66 TAGTTGTATGGATTGATTTATTTTAAAATATGGATTG
* **
3431735 GTTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATAA
* *
3431800 TAGGTGTATGGATTGATTTATTTT-AAATA---ATTT
66 TAGTTGTATGGATTGATTTATTTTAAAATATGGATTG
* * * * * *
3431833 ATTAGTATGGATTAATTTATTT-TAAAATATGGATTGGTTTATTTTAAATAATTTATTAGTATGG
1 ATT--TAT--TTTAAATAATTTAT-TAGTATGGATTGATTTA-TTT---TAA---A--A-TATGG
* * ***
3431897 ATTGATTTATTTTAA-A---ATATGGATTGATTTATTATTGTAGTTGTATGGATTG
51 ATTGATTTATTATAATAGTTGTATGGATTGATTTA-T-TT-TA-AAATATGGATTG
*
3431949 ATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGGATTGATTTATT
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATT
3432010 TTAAATAATT
Statistics
Matches: 320, Mismatches: 32, Indels: 56
0.78 0.08 0.14
Matches are distributed among these distances:
98 5 0.02
100 3 0.01
101 6 0.02
102 155 0.48
103 6 0.02
104 3 0.01
105 1 0.00
106 5 0.02
108 75 0.23
109 2 0.01
110 2 0.01
111 6 0.02
112 39 0.12
113 3 0.01
114 3 0.01
116 6 0.02
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (102 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATAA
TAGTTGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:3431772 original size:18 final size:18
Alignment explanation
Indices: 3431749--3431796 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
3431739 ATTTTAAATA
*
3431749 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
3431767 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
3431789 ATTTATTA
1 ATTTATTA
3431797 TTGTAGGTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:3431851 original size:32 final size:32
Alignment explanation
Indices: 3431805--3431912 Score: 128
Period size: 32 Copynumber: 3.7 Consensus size: 32
3431795 TATTGTAGGT
3431805 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
3431837 GTATGGATTAATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
3431860 -TATGGATTGGTTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
3431891 GTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
3431913 ATATGGATTG
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
22 12 0.19
23 4 0.06
25 1 0.02
26 3 0.05
28 3 0.05
29 1 0.02
31 4 0.06
32 34 0.55
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:3431854 original size:80 final size:78
Alignment explanation
Indices: 3431548--3431875 Score: 318
Period size: 80 Copynumber: 4.2 Consensus size: 78
3431538 AATTTATTAG
**
3431548 TATGGATTGATTTA-T-TTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 TATGGATTGATTTATTATTTAATGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
3431611 ATTTATTTTAAAA
66 ATTTATTTTAAAA
* *
3431624 TATGGATTGATTTATTTTAAACAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA-T-GG
1 TATGGATTGATTTA--TT-----ATTTAAT-GTATGGATTGATTTATTTTAAATAATTTATTAGT
* * ** ***
3431683 ATTGATTTA-TTATCATAGTTG
58 ATGGATTGATTTATTTTA-AAA
* ** *
3431704 TATAGATTGATTTA-T-TTTAAAATATGGATTGGTTTATTTTAAATAATTTATTAGTATGGATTG
1 TATGGATTGATTTATTATTTAATGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
3431767 ATTTATTTTAAAA
66 ATTTATTTTAAAA
*
3431780 TATGGATTGATTTATTATTGTAGGTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGAT
1 TATGGATTGATTTATTATT-TA-ATGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGAT
*
3431845 TAATTTATTTTAAAA
64 TGATTTATTTTAAAA
*
3431860 TATGGATTGGTTTATT
1 TATGGATTGATTTATT
3431876 TTAAATAATT
Statistics
Matches: 199, Mismatches: 31, Indels: 40
0.74 0.11 0.15
Matches are distributed among these distances:
70 17 0.09
71 6 0.03
72 2 0.01
74 2 0.01
75 1 0.01
76 35 0.18
77 8 0.04
78 2 0.01
79 9 0.05
80 88 0.44
81 1 0.01
82 2 0.01
84 2 0.01
85 6 0.03
86 18 0.09
ACGTcount: A:0.33, C:0.01, G:0.15, T:0.51
Consensus pattern (78 bp):
TATGGATTGATTTATTATTTAATGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
ATTTATTTTAAAA
Found at i:3431863 original size:22 final size:22
Alignment explanation
Indices: 3431838--3431880 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
3431828 AATTTATTAG
3431838 TATGGATTAATTTATTTTAAAA
1 TATGGATTAATTTATTTTAAAA
**
3431860 TATGGATTGGTTTATTTTAAA
1 TATGGATTAATTTATTTTAAA
3431881 TAATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTAATTTATTTTAAAA
Found at i:3431906 original size:18 final size:18
Alignment explanation
Indices: 3431883--3431930 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 18
3431873 ATTTTAAATA
*
3431883 ATTTATTAGTATGGATTG
1 ATTTATTAATATGGATTG
3431901 ATTTATTTTAAAATATGGATTG
1 ATTTA--TT--AATATGGATTG
3431923 ATTTATTA
1 ATTTATTA
3431931 TTGTAGTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
18 6 0.24
20 4 0.16
22 15 0.60
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (18 bp):
ATTTATTAATATGGATTG
Found at i:3431944 original size:80 final size:80
Alignment explanation
Indices: 3431624--3432009 Score: 305
Period size: 80 Copynumber: 4.9 Consensus size: 80
3431614 TATTTTAAAA
* *
3431624 TATGGATTGATTTATTTTAAACAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGGATTGAT
**
3431689 TTATTATCATAGTTG
66 TTATTATTGTAGTTG
* ** * * *** * * * *
3431704 TATAGATTGATTTATTTTAAA-ATATGGATTGGTTTATTTTAA-ATAATTTATTAGTATGGATTG
1 TATGGATTGATTTATTTTAAATA-ATTTATTAGTATGGATTAATTTATTTTA-AAATATGGATTG
***
3431767 ATTTA-T-TT-TA-AAA
64 ATTTATTATTGTAGTTG
* * *
3431780 TATGGATTGATTTA--TT--AT--TGTAGGT-GTATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTAATTTATTTT-AA-AA--TA-T-G
* * * * ***
3431838 TATGGATTAATTTATTTTA-AAA
59 GATTGATTTA-TTATTGTAGTTG
* *
3431860 TATGGATTGGTTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGGATTGAT
3431925 TTATTATTGTAGTTG
66 TTATTATTGTAGTTG
3431940 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGGATTGAT
3432005 TTATT
66 TTATT
3432010 TTAAATAATT
Statistics
Matches: 239, Mismatches: 44, Indels: 46
0.73 0.13 0.14
Matches are distributed among these distances:
70 9 0.04
71 6 0.03
72 3 0.01
74 4 0.02
75 1 0.00
76 21 0.09
77 2 0.01
78 2 0.01
79 17 0.07
80 140 0.59
81 1 0.00
82 4 0.02
84 4 0.02
85 3 0.01
86 22 0.09
ACGTcount: A:0.33, C:0.01, G:0.15, T:0.52
Consensus pattern (80 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTAATTTATTTTAAAATATGGATTGAT
TTATTATTGTAGTTG
Found at i:3431953 original size:134 final size:134
Alignment explanation
Indices: 3431703--3432024 Score: 608
Period size: 134 Copynumber: 2.4 Consensus size: 134
3431693 TATCATAGTT
* *
3431703 GTATAGATTGATTTATTTTAAAATATGGATTGGTTTATTTTAAATAATTTATTAGTATGGATTGA
1 GTATGGATTAATTTATTTTAAAATATGGATTGGTTTATTTTAAATAATTTATTAGTATGGATTGA
3431768 TTTATTTTAAAATATGGATTGATTTATTATTGTAGGTGTATGGATTGATTTATTTTAAATAATTT
66 TTTATTTTAAAATATGGATTGATTTATTATTGTAGGTGTATGGATTGATTTATTTTAAATAATTT
3431833 ATTA
131 ATTA
3431837 GTATGGATTAATTTATTTTAAAATATGGATTGGTTTATTTTAAATAATTTATTAGTATGGATTGA
1 GTATGGATTAATTTATTTTAAAATATGGATTGGTTTATTTTAAATAATTTATTAGTATGGATTGA
*
3431902 TTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTT
66 TTTATTTTAAAATATGGATTGATTTATTATTGTAGGTGTATGGATTGATTTATTTTAAATAATTT
3431967 ATTA
131 ATTA
*
3431971 GTATGGATTAATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTAATTTATTTTAAAATATGGATTGGTTTATTTTAAATAATTTATTA
3432025 TTGTAGTTGT
Statistics
Matches: 184, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
134 184 1.00
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.52
Consensus pattern (134 bp):
GTATGGATTAATTTATTTTAAAATATGGATTGGTTTATTTTAAATAATTTATTAGTATGGATTGA
TTTATTTTAAAATATGGATTGATTTATTATTGTAGGTGTATGGATTGATTTATTTTAAATAATTT
ATTA
Found at i:3431988 original size:22 final size:22
Alignment explanation
Indices: 3431972--3432014 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
3431962 AATTTATTAG
3431972 TATGGATTAATTTATTTTAAAA
1 TATGGATTAATTTATTTTAAAA
*
3431994 TATGGATTGATTTATTTTAAA
1 TATGGATTAATTTATTTTAAA
3432015 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGGATTAATTTATTTTAAAA
Found at i:3432074 original size:31 final size:31
Alignment explanation
Indices: 3432039--3432097 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
3432029 AGTTGTATGG
* *
3432039 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
3432070 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
3432098 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:3432353 original size:54 final size:54
Alignment explanation
Indices: 3432271--3432512 Score: 313
Period size: 54 Copynumber: 4.5 Consensus size: 54
3432261 CAAACACCAC
* * * * *
3432271 CTTAGTGTCGATTCAGTCGTTCATAAACTTATTTTGAATTTTTTGGGTTGCACA
1 CTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTTGTGGGTTGCACA
* * *
3432325 CTTAGTGCCAATACGGTCATTCATAAACTTATTATGAATTTCGTGGGTTGCACA
1 CTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTTGTGGGTTGCACA
* ** * * * *
3432379 CCTAGTGCCGATGTGGTCGTTCAAAAACGTATTATAAATTTTGTGGGTTACACA
1 CTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTTGTGGGTTGCACA
* *
3432433 CTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATTATGTGGGTTGCACA
1 CTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTTGTGGGTTGCACA
* *
3432487 CTTAGTGTCGATACAGTCGTTCATAA
1 CTTAGTGCCGATACGGTCGTTCATAA
3432513 GTGTCGATAC
Statistics
Matches: 160, Mismatches: 28, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 160 1.00
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (54 bp):
CTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTTGTGGGTTGCACA
Found at i:3432518 original size:22 final size:22
Alignment explanation
Indices: 3432490--3432534 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
3432480 TTGCACACTT
3432490 AGTGTCGATACAGTCGTTCATA
1 AGTGTCGATACAGTCGTTCATA
*
3432512 AGTGTCGATACGGTCGTTCATA
1 AGTGTCGATACAGTCGTTCATA
3432534 A
1 A
3432535 ACTTATTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (22 bp):
AGTGTCGATACAGTCGTTCATA
Found at i:3432918 original size:20 final size:20
Alignment explanation
Indices: 3432893--3432931 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
3432883 TCCAAACTCA
3432893 ATAGTATCGGTACCTCTATT
1 ATAGTATCGGTACCTCTATT
*
3432913 ATAGTATCGGTACTTCTAT
1 ATAGTATCGGTACCTCTAT
3432932 ACTATGGCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (20 bp):
ATAGTATCGGTACCTCTATT
Found at i:3434580 original size:6 final size:6
Alignment explanation
Indices: 3434569--3434615 Score: 69
Period size: 6 Copynumber: 7.8 Consensus size: 6
3434559 CTAAATATAT
*
3434569 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTTC TTTTTC -TCTTC TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC -TTTTTC TTTTTC TTTTTC TTTTT
3434616 TTCAAAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
5 4 0.11
6 27 0.73
7 6 0.16
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:3434584 original size:13 final size:13
Alignment explanation
Indices: 3434568--3434606 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
3434558 ACTAAATATA
3434568 TTTTTTCTTTTTC
1 TTTTTTCTTTTTC
3434581 -TTTTTCTTTTTC
1 TTTTTTCTTTTTC
3434593 TTTTTTCTTTTTC
1 TTTTTTCTTTTTC
3434606 T
1 T
3434607 CTTCTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 12 0.48
13 13 0.52
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTCTTTTTC
Found at i:3434592 original size:18 final size:18
Alignment explanation
Indices: 3434569--3434615 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
3434559 CTAAATATAT
3434569 TTTTTCTTTTTCTTTTTC
1 TTTTTCTTTTTCTTTTTC
3434587 TTTTTCTTTTTTCTTTTTC
1 TTTTTC-TTTTTCTTTTTC
*
3434606 -TCTTCTTTTT
1 TTTTTCTTTTT
3434616 TTCAAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 5 0.19
18 10 0.37
19 12 0.44
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTCTTTTTCTTTTTC
Found at i:3434754 original size:27 final size:27
Alignment explanation
Indices: 3434724--3434777 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
3434714 CATTTTCTAT
3434724 GGATCCCAATCCTAACAAATATCTAAA
1 GGATCCCAATCCTAACAAATATCTAAA
**
3434751 GGATTTCAATCCTAACAAATATCTAAA
1 GGATCCCAATCCTAACAAATATCTAAA
3434778 ACATTCCCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.44, C:0.22, G:0.07, T:0.26
Consensus pattern (27 bp):
GGATCCCAATCCTAACAAATATCTAAA
Found at i:3434955 original size:12 final size:12
Alignment explanation
Indices: 3434938--3434964 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
3434928 TCAAACAAAC
3434938 AAATGTCATATG
1 AAATGTCATATG
3434950 AAATGTCATATG
1 AAATGTCATATG
3434962 AAA
1 AAA
3434965 AATGCAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.30
Consensus pattern (12 bp):
AAATGTCATATG
Found at i:3435328 original size:5 final size:5
Alignment explanation
Indices: 3435315--3435368 Score: 74
Period size: 5 Copynumber: 10.8 Consensus size: 5
3435305 ACATAACCTG
* *
3435315 AAAAG AAAAT AAAAT AAAAT AAAA- ATAAT ACAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT A-AAAT AAAAT AAAAT AAAAT
3435365 AAAA
1 AAAA
3435369 AGTTAAATTA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
4 3 0.07
5 37 0.84
6 4 0.09
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:3443559 original size:2 final size:2
Alignment explanation
Indices: 3443515--3443541 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3443505 TACAAGTCTT
3443515 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
3443542 TAGAATTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3443918 original size:2 final size:2
Alignment explanation
Indices: 3443913--3443940 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3443903 TATAATGTCC
3443913 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3443941 TCTATTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3449267 original size:12 final size:12
Alignment explanation
Indices: 3449252--3449293 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
3449242 AACATTAGCA
*
3449252 TTATAATTATTC
1 TTATTATTATTC
*
3449264 TTATTCTTATTC
1 TTATTATTATTC
*
3449276 TTATTATTATTA
1 TTATTATTATTC
3449288 TTATTA
1 TTATTA
3449294 ATAGGGTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (12 bp):
TTATTATTATTC
Found at i:3449284 original size:3 final size:3
Alignment explanation
Indices: 3449251--3449293 Score: 50
Period size: 3 Copynumber: 14.3 Consensus size: 3
3449241 TAACATTAGC
* * * *
3449251 ATT ATA ATT ATT CTT ATT CTT ATT CTT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
3449294 ATAGGGTAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:3451011 original size:17 final size:17
Alignment explanation
Indices: 3450989--3451022 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3450979 GTCAAAGAAA
*
3450989 ATGTGAAGAAAGAATTT
1 ATGTGAAAAAAGAATTT
3451006 ATGTGAAAAAAGAATTT
1 ATGTGAAAAAAGAATTT
3451023 GTAAACAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (17 bp):
ATGTGAAAAAAGAATTT
Found at i:3451130 original size:2 final size:2
Alignment explanation
Indices: 3451123--3451149 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3451113 GAATTGAAAT
3451123 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
3451150 TCTATAGTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3455761 original size:22 final size:22
Alignment explanation
Indices: 3455713--3455766 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
3455703 TTTAGCTGTT
* *
3455713 ATAACTCCTGAAATTATATCAT
1 ATAACTCCTGAAATTAAATCAA
* * *
3455735 GTAACCCCTGGAATTAAATCAA
1 ATAACTCCTGAAATTAAATCAA
3455757 ATAACTCCTG
1 ATAACTCCTG
3455767 TAACTCCTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (22 bp):
ATAACTCCTGAAATTAAATCAA
Found at i:3461234 original size:22 final size:22
Alignment explanation
Indices: 3461204--3461245 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
3461194 TCAGTTGTTA
* *
3461204 TAACTCCTGAAATTATATCATG
1 TAACCCCTGAAATTAAATCATG
*
3461226 TAACCCCTGGAATTAAATCA
1 TAACCCCTGAAATTAAATCA
3461246 AATAATTCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (22 bp):
TAACCCCTGAAATTAAATCATG
Found at i:3461532 original size:6 final size:6
Alignment explanation
Indices: 3461521--3461552 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
3461511 GACACGTATT
3461521 ACCACG ACCACG ACCACG ACCACG ACCACG AC
1 ACCACG ACCACG ACCACG ACCACG ACCACG AC
3461553 GAGATGAGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.34, C:0.50, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:3464076 original size:23 final size:23
Alignment explanation
Indices: 3464034--3464100 Score: 107
Period size: 23 Copynumber: 2.9 Consensus size: 23
3464024 ATATATAATG
3464034 ATATAATATAGTTTTTGAAAATAT
1 ATATAATATAG-TTTTGAAAATAT
*
3464058 ATATCATATAGTTTTGAAAATAT
1 ATATAATATAGTTTTGAAAATAT
*
3464081 ATATTATATAGTTTTGAAAA
1 ATATAATATAGTTTTGAAAA
3464101 CCTTTTTGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
23 31 0.76
24 10 0.24
ACGTcount: A:0.45, C:0.01, G:0.09, T:0.45
Consensus pattern (23 bp):
ATATAATATAGTTTTGAAAATAT
Found at i:3464274 original size:81 final size:81
Alignment explanation
Indices: 3464077--3464398 Score: 256
Period size: 75 Copynumber: 4.2 Consensus size: 81
3464067 AGTTTTGAAA
* * * *
3464077 ATATATATTATATAG-TTTTGAAAACCTTTTTG---A-ATATATATATA-ACATAT-AGTTTTGA
1 ATATATAATATATAGTTTTTGAAAACATTTTTGAAAACATATATATATATA-ATATAAATTTGGA
*
3464135 AAATGATTTTTGAAA-AT
65 AAAT-ATTTTTAAAACAT
* * *
3464152 ATATATATTATATAG-TTTTGAAAACTTTTTTG-AAA-ATATATATA-AT-ATAT-AATTTTGAA
1 ATATATAATATATAGTTTTTGAAAACATTTTTGAAAACATATATATATATAATATAAATTTGGAA
3464211 AATATTTTT-AAA-A-
66 AATATTTTTAAAACAT
* * **
3464224 ATATATCATATATAGTTTTTTAAAACA-TTTTGAAAACATATATATA-AT-ATATAGCTTTGGAA
1 ATATATAATATATAGTTTTTGAAAACATTTTTGAAAACATATATATATATAATATAAATTTGGAA
3464286 AATATTTTTGAAAACAT
66 AATATTTTT-AAAACAT
* ** *
3464303 ATATATAATATATAGTTTTTGAAAATATTTTTTGAAAACATATATATA-AT-ATATAGTTTTTGA
1 ATATATAATATATAGTTTTTGAAAACA-TTTTTGAAAACATATATATATATAATATAAATTTGGA
* * * *
3464366 AAAAATTTTGAAAATAA
65 AAATATTTTTAAAACAT
3464383 ATAATATATATATATA
1 AT-ATATA-ATATATA
3464399 TATATATATA
Statistics
Matches: 214, Mismatches: 18, Indels: 23
0.84 0.07 0.09
Matches are distributed among these distances:
72 18 0.08
73 16 0.07
74 21 0.10
75 61 0.29
76 1 0.00
77 13 0.06
78 1 0.00
79 24 0.11
80 7 0.03
81 45 0.21
82 7 0.03
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.44
Consensus pattern (81 bp):
ATATATAATATATAGTTTTTGAAAACATTTTTGAAAACATATATATATATAATATAAATTTGGAA
AATATTTTTAAAACAT
Found at i:3464393 original size:2 final size:2
Alignment explanation
Indices: 3464386--3464417 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3464376 AAAATAAATA
3464386 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3464418 TTGTAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3464394 original size:39 final size:38
Alignment explanation
Indices: 3464069--3464396 Score: 347
Period size: 37 Copynumber: 8.7 Consensus size: 38
3464059 TATCATATAG
**
3464069 TTTTG-AAA-ATATATAT-TATATAGTTTTGAAAACCT
1 TTTTGAAAATATATATATATATATAGTTTTGAAAATAT
* *
3464104 TTTTGAATATATATATA-ACATATAGTTTTGAAAATGAT
1 TTTTGAAAATATATATATATATATAGTTTTGAAAAT-AT
3464142 TTTTGAAAATATATATAT-TATATAGTTTTGAAAACT-T
1 TTTTGAAAATATATATATATATATAGTTTTGAAAA-TAT
*
3464179 TTTTGAAAATATATATA-ATATATAATTTTGAAAATAT
1 TTTTGAAAATATATATATATATATAGTTTTGAAAATAT
* * *
3464216 TTTT-AAAA-ATATAT-CATATATAGTTTTTTAAAACA-
1 TTTTGAAAATATATATATATATATAG-TTTTGAAAATAT
* *
3464251 TTTTGAAAACATATATATAATATATAGCTTTGGAAAATAT
1 TTTTGAAAATATATATAT-ATATATAG-TTTTGAAAATAT
*
3464291 TTTTGAAAACATATATATAATATATAGTTTTTGAAAATATT
1 TTTTGAAAATATATATAT-ATATATAG-TTTTGAAAATA-T
* *
3464332 TTTTGAAAACATATATATAATATATAGTTTTTGAAAA-AA
1 TTTTGAAAATATATATAT-ATATATAG-TTTTGAAAATAT
*
3464371 TTTTGAAAATAAATAATATATATATA
1 TTTTGAAAATATAT-ATATATATATA
3464397 TATATATATA
Statistics
Matches: 256, Mismatches: 20, Indels: 30
0.84 0.07 0.10
Matches are distributed among these distances:
35 22 0.09
36 20 0.08
37 66 0.26
38 32 0.12
39 36 0.14
40 42 0.16
41 38 0.15
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (38 bp):
TTTTGAAAATATATATATATATATAGTTTTGAAAATAT
Found at i:3464442 original size:9 final size:10
Alignment explanation
Indices: 3464428--3464473 Score: 64
Period size: 9 Copynumber: 5.0 Consensus size: 10
3464418 TTGTAAATAA
3464428 TATTATT-TT
1 TATTATTATT
3464437 TATTATTATT
1 TATTATTATT
3464447 TA-TATTATT
1 TATTATTATT
3464456 TATTATT-TT
1 TATTATTATT
3464465 TA-TATTATT
1 TATTATTATT
3464474 GCTTATTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
8 4 0.12
9 22 0.65
10 8 0.24
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TATTATTATT
Found at i:3464466 original size:18 final size:19
Alignment explanation
Indices: 3464431--3464473 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 19
3464421 TAAATAATAT
3464431 TATT-TTTATTATTATTTA
1 TATTATTTATTATTATTTA
3464449 TATTATTTATTATT-TTTA
1 TATTATTTATTATTATTTA
3464467 TATTATT
1 TATTATT
3464474 GCTTATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
TATTATTTATTATTATTTA
Found at i:3464479 original size:18 final size:18
Alignment explanation
Indices: 3464438--3464481 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
3464428 TATTATTTTT
*
3464438 ATTATTATTTATATTATTT
1 ATTATT-TTTATATTATTG
3464457 ATTATTTTTATATTATTG
1 ATTATTTTTATATTATTG
*
3464475 CTTATTT
1 ATTATTT
3464482 ATTTAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 17 0.74
19 6 0.26
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (18 bp):
ATTATTTTTATATTATTG
Found at i:3465711 original size:19 final size:18
Alignment explanation
Indices: 3465668--3465711 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
3465658 TTTTATTTTA
*
3465668 TTTTTTATCATTTTTTCT
1 TTTTTTAACATTTTTTCT
*
3465686 TCCTTTTAACATTTTTTCCT
1 T-TTTTTAACATTTTTT-CT
3465706 TTTTTT
1 TTTTTT
3465712 CTATTTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
18 1 0.05
19 17 0.81
20 3 0.14
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTTTTAACATTTTTTCT
Found at i:3465782 original size:5 final size:5
Alignment explanation
Indices: 3465772--3465802 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
3465762 TAGTATTTTC
3465772 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT T
3465803 GCTTTTCACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:3465865 original size:15 final size:15
Alignment explanation
Indices: 3465847--3465876 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3465837 TTTTTATCTA
3465847 TTTATTTTAACATTT
1 TTTATTTTAACATTT
*
3465862 TTTATTTTATCATTT
1 TTTATTTTAACATTT
3465877 AATATTTATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTATTTTAACATTT
Found at i:3472058 original size:85 final size:85
Alignment explanation
Indices: 3471917--3472146 Score: 275
Period size: 85 Copynumber: 2.7 Consensus size: 85
3471907 ATTACAATAT
* * * ** **
3471917 AGCTTAAGGTGAGAAGGGTTATCTATCAACAGAAACCTTCGAGTTCGATTTTATTCAGCTCAAGG
1 AGCTTAAGGTGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCAAAA
3471982 GCATATCAAATTTACAGCAC
66 GCATATCAAATTTACAGCAC
* * * *
3472002 AGCTCAAGGTGAGAAGGGCTATCTGTCAACAAAAACCTTTGGGTTCTATTCCATTCAGCTCAAAA
1 AGCTTAAGGTGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCAAAA
*
3472067 GCATATCAAATTTACAGCAT
66 GCATATCAAATTTACAGCAC
** * * * *
3472087 AGCTTAA-GTCGAGAAAAGCTATCAGTCAACGAAAACTTTCGAGTTCGATTCTA-TCAGCTC
1 AGCTTAAGGT-GAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTC
3472147 GATGACAGCG
Statistics
Matches: 122, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
84 9 0.07
85 113 0.93
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.27
Consensus pattern (85 bp):
AGCTTAAGGTGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTCCATTCAGCTCAAAA
GCATATCAAATTTACAGCAC
Found at i:3472758 original size:24 final size:23
Alignment explanation
Indices: 3472726--3472770 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
3472716 ATATATAATG
3472726 ATATAATATAGTTTTTGAAAATAT
1 ATATAATATAG-TTTTGAAAATAT
*
3472750 ATATTATATAGTTTTGAAAAT
1 ATATAATATAGTTTTGAAAAT
3472771 GATTTTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (23 bp):
ATATAATATAGTTTTGAAAATAT
Done.