Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 92 of 253
Found at i:28599240 original size:46 final size:46
Alignment explanation
Indices: 28599187--28599323 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
28599177 TATATATACA
* * *
28599187 CATCTCATACACATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
28599233 CATCTCATACACGTTTCGCATTAGCCATTCAGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
28599279 TATCTCATACACATTTCGCATTAGCCATTCGACCTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
28599324 ATACATGTTC
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.27, C:0.32, G:0.07, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:28599362 original size:47 final size:47
Alignment explanation
Indices: 28599297--28599538 Score: 324
Period size: 47 Copynumber: 5.1 Consensus size: 47
28599287 ACACATTTCG
* * * *
28599297 CATTAGCCATTCGACCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
28599344 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCGCATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
28599391 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
* *
28599438 CATTGGCCATTCGGCTTTATCACGCATATATATAG-AGGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCA--C--ATATAT-GCATGTTCACATTCATCA
* *
28599489 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
28599536 CAT
1 CAT
28599539 AAAATCCTAA
Statistics
Matches: 171, Mismatches: 18, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.01
47 127 0.74
49 2 0.01
51 40 0.23
52 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:28599412 original size:22 final size:22
Alignment explanation
Indices: 28599340--28599414 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
28599330 GTTCACATTC
28599340 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
28599362 ATCTCATATATG-CATGTTC-GCATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
28599386 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
28599409 ATCACA
1 ATCACA
28599415 CATACGCATG
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 15 0.38
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:28599510 original size:98 final size:94
Alignment explanation
Indices: 28599297--28599538 Score: 342
Period size: 98 Copynumber: 2.5 Consensus size: 94
28599287 ACACATTTCG
* * * * **
28599297 CATTAGCCATTCGACCTTACCACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * *
28599362 ATCTCATATATGCATGTTCGCATTCATCA
66 ATCGCATATATGCAGGTTCACATTCATCA
*
28599391 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCTTT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
28599456 ATCACGCATATATATAG-AGGTTCACATTCATCA
66 AT--CGC--ATATAT-GCAGGTTCACATTCATCA
28599489 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACAT
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACAT
28599539 AAAATCCTAA
Statistics
Matches: 133, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
94 60 0.45
96 2 0.02
98 70 0.53
99 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.32
Consensus pattern (94 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCGGCCTT
ATCGCATATATGCAGGTTCACATTCATCA
Found at i:28609009 original size:93 final size:93
Alignment explanation
Indices: 28608897--28609068 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
28608887 GCCCATAAGT
* *
28608897 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
28608962 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
28608990 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
28609055 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
28609069 CAAATATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:28609064 original size:46 final size:46
Alignment explanation
Indices: 28608889--28609064 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
28608879 TGTAACCCGC
* *
28608889 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
28608935 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
28608981 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
28609028 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
28609065 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:28611488 original size:15 final size:15
Alignment explanation
Indices: 28611439--28611521 Score: 82
Period size: 15 Copynumber: 5.7 Consensus size: 15
28611429 CAAAGATAAT
*
28611439 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
*
28611453 AA-AAATCCA-AGATA
1 AAGAAACCCAGA-ATA
*
28611467 GAGAAACCCAGAATA
1 AAGAAACCCAGAATA
28611482 AAGAAACCCAGAATA
1 AAGAAACCCAGAATA
* * *
28611497 AAGAGATCCAGGATA
1 AAGAAACCCAGAATA
28611512 AAGAAACCCA
1 AAGAAACCCA
28611522 AGATACGATA
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 6 0.11
14 6 0.11
15 43 0.77
16 1 0.02
ACGTcount: A:0.58, C:0.18, G:0.16, T:0.08
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:28618162 original size:40 final size:40
Alignment explanation
Indices: 28618088--28618229 Score: 189
Period size: 40 Copynumber: 3.6 Consensus size: 40
28618078 AACCCAAGTA
* *
28618088 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* * *
28618127 CCATCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
28618167 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
28618207 CCTTCGGGACTTAACCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
28618230 CATTCGAATA
Statistics
Matches: 90, Mismatches: 11, Indels: 3
0.87 0.11 0.03
Matches are distributed among these distances:
39 11 0.12
40 76 0.84
41 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:28620142 original size:21 final size:21
Alignment explanation
Indices: 28620116--28620155 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
28620106 CTAACCACTA
28620116 TTATTTTATTA-TCTATGCTCT
1 TTATTTTATTACT-TATGCTCT
28620137 TTATTTTATTACTTATGCT
1 TTATTTTATTACTTATGCT
28620156 ATAAAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.20, C:0.12, G:0.05, T:0.62
Consensus pattern (21 bp):
TTATTTTATTACTTATGCTCT
Found at i:28626762 original size:40 final size:40
Alignment explanation
Indices: 28626688--28626829 Score: 198
Period size: 40 Copynumber: 3.6 Consensus size: 40
28626678 AACCCAAGTA
* *
28626688 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
28626727 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
28626767 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
28626807 CCTTCGGGACTTAACCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
28626830 CATTCGAATA
Statistics
Matches: 92, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 12 0.13
40 77 0.84
41 3 0.03
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:28630686 original size:474 final size:474
Alignment explanation
Indices: 28629791--28630736 Score: 1775
Period size: 474 Copynumber: 2.0 Consensus size: 474
28629781 AAGATTGACG
*
28629791 ACTATACTGAAAAAGCTGAGTTCTGGCTCGAGAATACTACTCGGGTATTAGATGAATTATCGTAC
1 ACTATACTGAAAAAGCTGAGTTCTGGCTCGAGAATACTACTCGAGTATTAGATGAATTATCGTAC
*
28629856 ACACATGAGGAGTGCTTAAAGTGTACCGTGTCTCTCCTGAAGGATACTGCATACCACTGGTGGAA
66 ACACATGAGGAGTGCTTAAAGTGTACCGTGTCTCTCCTGAAGGATACTACATACCACTGGTGGAA
28629921 TATTGTATCTTTCGTGATGCCAAAGGAAAACATCAATTGGGAATTCTTCCAAGCAGAGTTTAAAA
131 TATTGTATCTTTCGTGATGCCAAAGGAAAACATCAATTGGGAATTCTTCCAAGCAGAGTTTAAAA
*
28629986 ATAAATACATTAGTCAAAGGTTCTTAGACTCAAAATGGAAGGAGTTCCTGCAACTCAAGCAAGGA
196 AGAAATACATTAGTCAAAGGTTCTTAGACTCAAAATGGAAGGAGTTCCTGCAACTCAAGCAAGGA
28630051 AATAAGACTGTAGCAGAATACGAAAGGAGTTTGTAAGGCTAAGTCAGTATGCCACTAATGGGTTC
261 AATAAGACTGTAGCAGAATACGAAAGGAGTTTGTAAGGCTAAGTCAGTATGCCACTAATGGGTTC
28630116 AAACTGAGTCAGAAATGTGCAAACATTTTGAGGAATGTCTAAAGGAGGAAATCAAGCTGTTGATT
326 AAACTGAGTCAGAAATGTGCAAACATTTTGAGGAATGTCTAAAGGAGGAAATCAAGCTGTTGATT
* *
28630181 GGGATTCTTGAGATACGGGAGTTCGCCGCATTAGCTGATCGGGCCAAGAAGGCCGACGAGTTCAA
391 GGGATTCTTGAGATACGGGAGTTCACCGCATTAGCTAATCGGGCCAAGAAGGCCGACGAGTTCAA
28630246 TAATGAAAGAAAGCAAGAA
456 TAATGAAAGAAAGCAAGAA
*
28630265 ACTATGCTGAAAAAGCTGAGTTCTGGCTCGAGAATACTACTCGAGTATTAGATGAATTATCGTAC
1 ACTATACTGAAAAAGCTGAGTTCTGGCTCGAGAATACTACTCGAGTATTAGATGAATTATCGTAC
**
28630330 ACACATGAGGAGTGCTTAAAGTGTGTCGTGTCTCTCCTGAAGGATACTACATACCACTGGTGGAA
66 ACACATGAGGAGTGCTTAAAGTGTACCGTGTCTCTCCTGAAGGATACTACATACCACTGGTGGAA
*
28630395 TATTGTATCTTTCGTGATTCCAAAGGAAAACATCAATTGGGAATTCTTCCAAGCAGAGTTTAAAA
131 TATTGTATCTTTCGTGATGCCAAAGGAAAACATCAATTGGGAATTCTTCCAAGCAGAGTTTAAAA
*
28630460 AGAAATACATTAGTCAAAGGTTCTTAGACTCGAAATGGAAGGAGTTCCTGCAACTCAAGCAAGGA
196 AGAAATACATTAGTCAAAGGTTCTTAGACTCAAAATGGAAGGAGTTCCTGCAACTCAAGCAAGGA
28630525 AATAAGACTGTAGCAGAATACGAAAGGAGTTTGTAAGGCTAAGTCAGTATGCCACTAATGGGTTC
261 AATAAGACTGTAGCAGAATACGAAAGGAGTTTGTAAGGCTAAGTCAGTATGCCACTAATGGGTTC
*
28630590 AAACTGAGTTAGAAATGTGCAAACATTTTGAGGAATGTCTAAAGGAGGAAATCAAGCTGTTGATT
326 AAACTGAGTCAGAAATGTGCAAACATTTTGAGGAATGTCTAAAGGAGGAAATCAAGCTGTTGATT
* *
28630655 GGGATTCTTGAGATACGGGAGTTCACCGCATTAGCTAATCGGGCCAAGATGGCCGAGGAGTTCAA
391 GGGATTCTTGAGATACGGGAGTTCACCGCATTAGCTAATCGGGCCAAGAAGGCCGACGAGTTCAA
28630720 TAATGAAAGAAAGCAAG
456 TAATGAAAGAAAGCAAG
28630737 CAAAGAGAGA
Statistics
Matches: 459, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
474 459 1.00
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.25
Consensus pattern (474 bp):
ACTATACTGAAAAAGCTGAGTTCTGGCTCGAGAATACTACTCGAGTATTAGATGAATTATCGTAC
ACACATGAGGAGTGCTTAAAGTGTACCGTGTCTCTCCTGAAGGATACTACATACCACTGGTGGAA
TATTGTATCTTTCGTGATGCCAAAGGAAAACATCAATTGGGAATTCTTCCAAGCAGAGTTTAAAA
AGAAATACATTAGTCAAAGGTTCTTAGACTCAAAATGGAAGGAGTTCCTGCAACTCAAGCAAGGA
AATAAGACTGTAGCAGAATACGAAAGGAGTTTGTAAGGCTAAGTCAGTATGCCACTAATGGGTTC
AAACTGAGTCAGAAATGTGCAAACATTTTGAGGAATGTCTAAAGGAGGAAATCAAGCTGTTGATT
GGGATTCTTGAGATACGGGAGTTCACCGCATTAGCTAATCGGGCCAAGAAGGCCGACGAGTTCAA
TAATGAAAGAAAGCAAGAA
Found at i:28635037 original size:40 final size:40
Alignment explanation
Indices: 28634960--28635179 Score: 286
Period size: 40 Copynumber: 5.5 Consensus size: 40
28634950 ACCCAAGTAT
* *
28634960 CTTCGGGAT-TTAG-CCGGATATA-ACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* *
28634999 CTTCGGGTCTTAGCCCGGATATAGTTACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
28635039 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
28635079 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
28635119 CTTCGGATCTTAGTCCGGATATAGTCACTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
28635159 CTTCGGGACTTAGCCCGGATA
1 CTTCGGGTCTTAGCCCGGATA
28635180 CATTCGAATA
Statistics
Matches: 158, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 12 0.08
40 144 0.91
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:28642746 original size:19 final size:19
Alignment explanation
Indices: 28642710--28642749 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
28642700 CTCGAGGAAG
**
28642710 TTATGATTATTATGTGACT
1 TTATGATTATTAAATGACT
28642729 TTATGATTATTAAATGACT
1 TTATGATTATTAAATGACT
28642748 TT
1 TT
28642750 CATTCCTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (19 bp):
TTATGATTATTAAATGACT
Found at i:28645591 original size:20 final size:20
Alignment explanation
Indices: 28645566--28645638 Score: 66
Period size: 20 Copynumber: 3.8 Consensus size: 20
28645556 ATTCCAAAAA
*
28645566 TAATATTATTTTAATAGATT
1 TAATATTAATTTAATAGATT
*
28645586 TAATATTAAATT-A-AG-TT
1 TAATATTAATTTAATAGATT
*
28645603 TAATATTTATCTTAATAGTATT
1 TAATATTAAT-TTAATAG-ATT
28645625 T--TATTAATTTAATA
1 TAATATTAATTTAATA
28645639 TTAAAGTGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
17 10 0.23
18 4 0.09
19 8 0.19
20 18 0.42
22 3 0.07
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.53
Consensus pattern (20 bp):
TAATATTAATTTAATAGATT
Found at i:28645630 original size:37 final size:36
Alignment explanation
Indices: 28645566--28645636 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 36
28645556 ATTCCAAAAA
*
28645566 TAATATTATTTTAATAGATTTAATATTAAATTAAGTT
1 TAATATTATCTTAATAGATTT-ATATTAAATTAAGTT
*
28645603 TAATATTTATCTTAATAGTATTT-TATTAATTTAA
1 TAATA-TTATCTTAATAG-ATTTATATTAAATTAA
28645637 TATTAAAGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
37 15 0.50
38 11 0.37
39 4 0.13
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (36 bp):
TAATATTATCTTAATAGATTTATATTAAATTAAGTT
Found at i:28647209 original size:16 final size:16
Alignment explanation
Indices: 28647188--28647220 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
28647178 CTATGTATTC
28647188 CAACTTTGTATGGGAA
1 CAACTTTGTATGGGAA
28647204 CAACTTTGTATGGGAA
1 CAACTTTGTATGGGAA
28647220 C
1 C
28647221 TTGTAGACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (16 bp):
CAACTTTGTATGGGAA
Found at i:28649915 original size:28 final size:28
Alignment explanation
Indices: 28649875--28649931 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
28649865 TTTGATGCCA
28649875 TAGTCCAACTATGGTCTTACACATTCAT
1 TAGTCCAACTATGGTCTTACACATTCAT
28649903 TAGTCCAACTATGGTCTTACACATTCAT
1 TAGTCCAACTATGGTCTTACACATTCAT
28649931 T
1 T
28649932 GCCAAGGCCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.37
Consensus pattern (28 bp):
TAGTCCAACTATGGTCTTACACATTCAT
Found at i:28657818 original size:17 final size:17
Alignment explanation
Indices: 28657793--28657834 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
28657783 GAAAAGTGAC
*
28657793 AAGCCAACGATTTTTCT
1 AAGCTAACGATTTTTCT
28657810 AAGCTAACGATTTTTCT
1 AAGCTAACGATTTTTCT
*
28657827 AAACTAAC
1 AAGCTAAC
28657835 TCTATCAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (17 bp):
AAGCTAACGATTTTTCT
Found at i:28672688 original size:17 final size:17
Alignment explanation
Indices: 28672666--28672706 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
28672656 ATGGGCTAAA
28672666 TGGGCCCGATGGGCTGT
1 TGGGCCCGATGGGCTGT
28672683 TGGGCCCGATGGGCTGT
1 TGGGCCCGATGGGCTGT
28672700 TGGGCCC
1 TGGGCCC
28672707 ATAATAGGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.05, C:0.27, G:0.46, T:0.22
Consensus pattern (17 bp):
TGGGCCCGATGGGCTGT
Found at i:28684875 original size:28 final size:29
Alignment explanation
Indices: 28684835--28684932 Score: 128
Period size: 29 Copynumber: 3.4 Consensus size: 29
28684825 CATGACTGTA
*
28684835 AATGTGTTTTGGGCCTAAT-GGCCATATG
1 AATGTGATTTGGGCCTAATGGGCCATATG
*
28684863 AATGTGATTTGGGCCTAATGGGCCATATA
1 AATGTGATTTGGGCCTAATGGGCCATATG
*
28684892 AATGCT-ATTTGGGCCTCATGGGCCATATG
1 AATG-TGATTTGGGCCTAATGGGCCATATG
* *
28684921 AAAGAGATTTGG
1 AATGTGATTTGG
28684933 CTTAGTGGGC
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
28 18 0.30
29 42 0.69
30 1 0.02
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.32
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAATGGGCCATATG
Found at i:28690549 original size:23 final size:22
Alignment explanation
Indices: 28690497--28690549 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
28690487 TCCACGTCTT
*
28690497 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
28690519 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
28690542 TTTCTTTT
1 TTTCTTTT
28690550 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:28691861 original size:19 final size:20
Alignment explanation
Indices: 28691829--28691871 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
28691819 TTTTTTTAAA
*
28691829 TTTTTATTGAATTTCGTCTTT
1 TTTTTATT-AATTTCGACTTT
*
28691850 TTTTTATT-ATTTTGACTTT
1 TTTTTATTAATTTCGACTTT
28691869 TTT
1 TTT
28691872 GACTGATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 12 0.60
21 8 0.40
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.72
Consensus pattern (20 bp):
TTTTTATTAATTTCGACTTT
Found at i:28692920 original size:4 final size:4
Alignment explanation
Indices: 28692911--28692938 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
28692901 TTAAACTAAG
28692911 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA
28692939 AATAAAACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:28693712 original size:28 final size:29
Alignment explanation
Indices: 28693676--28693753 Score: 122
Period size: 29 Copynumber: 2.7 Consensus size: 29
28693666 TAAATGTTTG
28693676 TGGGCCTAAT-GGCCATATGAATGTGATT
1 TGGGCCTAATGGGCCATATGAATGTGATT
* *
28693704 TGGGTCTAATGGGCCATATAAATGTGATT
1 TGGGCCTAATGGGCCATATGAATGTGATT
*
28693733 TGGGCCTCATGGGCCATATGA
1 TGGGCCTAATGGGCCATATGA
28693754 TAAAGGTTGG
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 9 0.20
29 35 0.80
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.31
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATGAATGTGATT
Found at i:28699586 original size:47 final size:47
Alignment explanation
Indices: 28699508--28700440 Score: 1517
Period size: 47 Copynumber: 19.6 Consensus size: 47
28699498 CCCTTCGGGA
* * * * * * *
28699508 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28699555 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28699602 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28699649 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28699696 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCA-GC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATT-AGGC
28699745 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28699792 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28699839 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28699888 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28699937 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28699984 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28700031 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28700078 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28700127 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28700174 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28700223 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28700270 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28700319 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28700368 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28700415 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
28700441 CACAATTATC
Statistics
Matches: 841, Mismatches: 33, Indels: 24
0.94 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 515 0.61
49 324 0.39
50 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:28699747 original size:96 final size:96
Alignment explanation
Indices: 28699508--28700440 Score: 1546
Period size: 96 Copynumber: 9.8 Consensus size: 96
28699498 CCCTTCGGGA
* * * * * * * *
28699508 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGACCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
28699571 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
28699602 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
28699665 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
28699696 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCA-GCCTTATCACATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATT-AGGCCTTATCACATATATA
28699760 CACTTTCACATTCATCACATCGGCCATTAGGC
65 CACTTTCACATTCATCACATCGGCCATTAGGC
*
28699792 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
* *
28699855 ACACTTTCACATTCATCACATTGGCCATTCGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28699888 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
28699953 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
28699984 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
28700047 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
28700078 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
28700143 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
28700174 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
28700239 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
28700270 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
* *
28700335 ACACTTTCACATTCATCACATTGGCCATTCGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
28700368 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
28700431 ACATTCACAT
66 ACTTTCACAT
28700441 CACAATTATC
Statistics
Matches: 793, Mismatches: 32, Indels: 28
0.93 0.04 0.03
Matches are distributed among these distances:
93 2 0.00
94 238 0.30
96 463 0.58
97 1 0.00
98 89 0.11
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:28704798 original size:40 final size:40
Alignment explanation
Indices: 28704621--28704854 Score: 328
Period size: 41 Copynumber: 5.8 Consensus size: 40
28704611 TGGATGATAA
* * **
28704621 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTATTACAT
28704662 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACA-T
28704703 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACA-T
28704744 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
* * *
28704784 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
* * *
28704824 TCGGGCTATGTCCCGAAGGCA-TTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
28704855 AGCTATATCC
Statistics
Matches: 180, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
39 8 0.04
40 63 0.35
41 105 0.58
42 4 0.02
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
Found at i:28707716 original size:45 final size:45
Alignment explanation
Indices: 28707646--28707735 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
28707636 AAACTAACTC
*
28707646 TATCAACAATAAAATGAAACTTAAGCATACACGACCTAATGAATG
1 TATCAACAATAAAATGAAACCTAAGCATACACGACCTAATGAATG
*
28707691 TATCAACAATAAAATGAATCCTAAGCATACACGACCTAATGAATG
1 TATCAACAATAAAATGAAACCTAAGCATACACGACCTAATGAATG
28707736 AACTCTTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.48, C:0.19, G:0.11, T:0.22
Consensus pattern (45 bp):
TATCAACAATAAAATGAAACCTAAGCATACACGACCTAATGAATG
Found at i:28709644 original size:23 final size:23
Alignment explanation
Indices: 28709618--28709665 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
28709608 TTTCTTTCGA
28709618 CTAGCATGGGCATGGTCTCTTCT
1 CTAGCATGGGCATGGTCTCTTCT
* *
28709641 CTAGCTTGGGTATGGTCTCTTCT
1 CTAGCATGGGCATGGTCTCTTCT
28709664 CT
1 CT
28709666 CTTCAATTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.10, C:0.25, G:0.25, T:0.40
Consensus pattern (23 bp):
CTAGCATGGGCATGGTCTCTTCT
Found at i:28715499 original size:21 final size:20
Alignment explanation
Indices: 28715475--28715515 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
28715465 ATTAATGAGT
28715475 GATAAGGGGAGAGATTTTAGG
1 GATAA-GGGAGAGATTTTAGG
*
28715496 GATAATGGAGAGATTTTAGG
1 GATAAGGGAGAGATTTTAGG
28715516 AGATTTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.34, C:0.00, G:0.39, T:0.27
Consensus pattern (20 bp):
GATAAGGGAGAGATTTTAGG
Found at i:28716362 original size:11 final size:10
Alignment explanation
Indices: 28716346--28716395 Score: 50
Period size: 9 Copynumber: 5.0 Consensus size: 10
28716336 ATGATTGATA
28716346 TGATATGCAC
1 TGATATGCAC
*
28716356 GTGATATGTAC
1 -TGATATGCAC
28716367 -GATATGCAC
1 TGATATGCAC
*
28716376 GTGATATGTA-
1 -TGATATGCAC
28716386 TGATATGCAC
1 TGATATGCAC
28716396 CTAATGTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
9 16 0.50
11 16 0.50
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (10 bp):
TGATATGCAC
Found at i:28716370 original size:20 final size:20
Alignment explanation
Indices: 28716347--28716395 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
28716337 TGATTGATAT
28716347 GATATGCACGTGATATGTAC
1 GATATGCACGTGATATGTAC
*
28716367 GATATGCACGTGATATGTAT
1 GATATGCACGTGATATGTAC
28716387 GATATGCAC
1 GATATGCAC
28716396 CTAATGTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (20 bp):
GATATGCACGTGATATGTAC
Found at i:28716479 original size:27 final size:27
Alignment explanation
Indices: 28716449--28716636 Score: 246
Period size: 27 Copynumber: 7.2 Consensus size: 27
28716439 GAGGAAGTGC
28716449 AAAAGGGCTTATGCCCCAGTTTATTGA
1 AAAAGGGCTTATGCCCCAGTTTATTGA
*
28716476 AAAAGGGCTTATGCCCTAGTTTATTG-
1 AAAAGGGCTTATGCCCCAGTTTATTGA
* *
28716502 AAAATGGATTATGCCCCAGTTTATTGA
1 AAAAGGGCTTATGCCCCAGTTTATTGA
28716529 AAAAGGGCTTATGCCCCAGTTTATTGA
1 AAAAGGGCTTATGCCCCAGTTTATTGA
*
28716556 AAAAGAGCTTATGCCCCAGTTTATTG-
1 AAAAGGGCTTATGCCCCAGTTTATTGA
* **
28716582 AAAAGGGCTT-TGCCCTAGTTTACCG-
1 AAAAGGGCTTATGCCCCAGTTTATTGA
* *
28716607 AAAAGGG-TTTTTCCCCAG-TTATT-A
1 AAAAGGGCTTATGCCCCAGTTTATTGA
28716631 AAAAGG
1 AAAAGG
28716637 CTAGGCCTCT
Statistics
Matches: 143, Mismatches: 15, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
24 11 0.08
25 25 0.17
26 32 0.22
27 75 0.52
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (27 bp):
AAAAGGGCTTATGCCCCAGTTTATTGA
Found at i:28716537 original size:53 final size:52
Alignment explanation
Indices: 28716457--28716636 Score: 242
Period size: 53 Copynumber: 3.5 Consensus size: 52
28716447 GCAAAAGGGC
28716457 TTATGCCCCAGTTTATTGAAAAAGGGCTTATGCCCTAGTTTATTGAAAATGGA
1 TTATGCCCCAGTTTATTGAAAAAGGGCTTATGCCCTAGTTTATTGAAAA-GGA
* *
28716510 TTATGCCCCAGTTTATTGAAAAAGGGCTTATGCCCCAGTTTATTGAAAAAGAGC
1 TTATGCCCCAGTTTATTGAAAAAGGGCTTATGCCCTAGTTTATTG-AAAAG-GA
** *
28716564 TTATGCCCCAGTTTATTG-AAAAGGGCTT-TGCCCTAGTTTACCGAAAAGGG
1 TTATGCCCCAGTTTATTGAAAAAGGGCTTATGCCCTAGTTTATTGAAAAGGA
* *
28716614 TTTTTCCCCAG-TTATT-AAAAAGG
1 TTATGCCCCAGTTTATTGAAAAAGG
28716637 CTAGGCCTCT
Statistics
Matches: 116, Mismatches: 8, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
49 11 0.09
50 10 0.09
51 5 0.04
52 12 0.10
53 55 0.47
54 23 0.20
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (52 bp):
TTATGCCCCAGTTTATTGAAAAAGGGCTTATGCCCTAGTTTATTGAAAAGGA
Found at i:28716582 original size:80 final size:78
Alignment explanation
Indices: 28716449--28716635 Score: 254
Period size: 80 Copynumber: 2.4 Consensus size: 78
28716439 GAGGAAGTGC
* * *
28716449 AAAAGGGCTTATGCCCCAGTTTATTGAAAAAGGGCTTATGCCCTAGTTTATTGAAAATGGATTAT
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAAGAGCTTATGCCCCAGTTTATTGAAAAGGGATT-T
**
28716514 GCCCCAGTTTATTG
65 GCCCCAGTTTACCG
*
28716528 AAAAAGGGCTTATGCCCCAGTTTATTGAAAAAGAGCTTATGCCCCAGTTTATTGAAAAGGGCTTT
1 -AAAAGGGCTTATGCCCCAGTTTATTGAAAAAGAGCTTATGCCCCAGTTTATTGAAAAGGGATTT
*
28716593 GCCCTAGTTTACCG
65 GCCCCAGTTTACCG
* *
28716607 AAAAGGG-TTTTTCCCCAG-TTATT-AAAAAG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAAG
28716636 GCTAGGCCTC
Statistics
Matches: 98, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
75 6 0.06
76 5 0.05
77 9 0.09
78 7 0.07
79 12 0.12
80 59 0.60
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (78 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAAGAGCTTATGCCCCAGTTTATTGAAAAGGGATTTG
CCCCAGTTTACCG
Found at i:28721616 original size:14 final size:15
Alignment explanation
Indices: 28721597--28721625 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
28721587 CATTTTGCTC
28721597 TCTTTT-TTTCTTTT
1 TCTTTTCTTTCTTTT
28721611 TCTTTTCTTTCTTTT
1 TCTTTTCTTTCTTTT
28721626 CACTTGTGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TCTTTTCTTTCTTTT
Found at i:28723044 original size:20 final size:20
Alignment explanation
Indices: 28723019--28723065 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
28723009 ATTTTGATAT
28723019 ACATGAT-TGATATGATATAC
1 ACATGATATG-TATGATATAC
*
28723039 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATAC
28723059 ACATGAT
1 ACATGAT
28723066 GTATTCATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATAC
Found at i:28723188 original size:25 final size:26
Alignment explanation
Indices: 28723115--28723212 Score: 128
Period size: 25 Copynumber: 3.8 Consensus size: 26
28723105 GAGGAAGTGC
28723115 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
28723141 AAAAAGGGCTTATGCCCCAGTTTATTG
1 -AAAAGGGCTTATGCCCCAGTTTATTG
* * * **
28723168 GAAAGGGCTT-TGCCACTGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
28723193 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
28723213 ATTAAAGAGG
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
25 28 0.44
26 9 0.14
27 26 0.41
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:28723842 original size:18 final size:18
Alignment explanation
Indices: 28723819--28723853 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
28723809 ACTTAGGACG
*
28723819 TGTTTTCAAAACGACACT
1 TGTTTTCAAAACAACACT
*
28723837 TGTTTTCCAAACAACAC
1 TGTTTTCAAAACAACAC
28723854 AACATTACGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.31
Consensus pattern (18 bp):
TGTTTTCAAAACAACACT
Found at i:28726135 original size:43 final size:43
Alignment explanation
Indices: 28726045--28726140 Score: 122
Period size: 43 Copynumber: 2.2 Consensus size: 43
28726035 AGATGTAATT
* * * * *
28726045 ACATGTAAGGCCATGTCTGGGACATTGGCATTGTATTTTGATT
1 ACATGTAAGACCATGTCTGGGACAATGGCATCGTATTGTGATA
*
28726088 ACATGTAAGACCCTGTCTGGGACAATGGCATCG-ATATGTGATA
1 ACATGTAAGACCATGTCTGGGACAATGGCATCGTAT-TGTGATA
28726131 ACATGTAAGA
1 ACATGTAAGA
28726141 TCATATATGG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 2 0.04
43 44 0.96
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (43 bp):
ACATGTAAGACCATGTCTGGGACAATGGCATCGTATTGTGATA
Found at i:28730539 original size:14 final size:14
Alignment explanation
Indices: 28730520--28730548 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
28730510 TTTAGTCATT
28730520 TGGGAATTAAAAGA
1 TGGGAATTAAAAGA
28730534 TGGGAATTAAAAGA
1 TGGGAATTAAAAGA
28730548 T
1 T
28730549 TAAAAAAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.28, T:0.24
Consensus pattern (14 bp):
TGGGAATTAAAAGA
Found at i:28733363 original size:39 final size:40
Alignment explanation
Indices: 28733263--28733447 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
28733253 TCGAATGATG
* * *
28733263 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
28733302 ATCTGGACTAAGAT-CTGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
28733343 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
28733382 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
28733421 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
28733448 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 35 0.29
40 77 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:28733469 original size:79 final size:79
Alignment explanation
Indices: 28733318--28733480 Score: 206
Period size: 79 Copynumber: 2.1 Consensus size: 79
28733308 ACTAAGATCT
* **
28733318 GAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAAT
1 GAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAAT
*
28733383 CCGGGTTAAGTCCC
66 CCGGGTTAAATCCC
* *
28733397 GAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTA
1 GAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTA
* *
28733460 TATCC-GGTTAAATTCC
63 AATCCGGGTTAAATCCC
28733476 GAAGG
1 GAAGG
28733481 TACGTGATTC
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
GAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAAT
CCGGGTTAAATCCC
Found at i:28743700 original size:31 final size:31
Alignment explanation
Indices: 28743662--28743725 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
28743652 CCTTTTCATA
28743662 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
28743693 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
28743724 TT
1 TT
28743726 ACTGTAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:28744103 original size:43 final size:43
Alignment explanation
Indices: 28744040--28744201 Score: 234
Period size: 43 Copynumber: 3.7 Consensus size: 43
28744030 GTTTATTGGA
*
28744040 AAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
* * * *
28744083 AAAAGCACCGCTAAACGTCAAGGCTTTTTAACGGCGTTTGTGGT
1 AAAAGCGCCGCTAAAGGTCAAGGC-TTTTAGCGGCGTTTGTGGG
*
28744127 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGCG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
* * *
28744170 TAAAGCGCTGCTAAATGTCAAGGCTTTTAGCG
1 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCG
28744202 CCGCTTTTTT
Statistics
Matches: 105, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
43 66 0.63
44 39 0.37
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
Found at i:28744314 original size:31 final size:31
Alignment explanation
Indices: 28744279--28744359 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 31
28744269 CTTCCTGCAT
* *
28744279 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * *
28744310 TAAAATGCAGCCAAAAACAACAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
28744341 TAAAAAATACAACCAAAAA
1 T--AAAATCCAACCAAAAA
28744360 TATTAATTCT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
31 27 0.66
33 14 0.34
ACGTcount: A:0.63, C:0.19, G:0.02, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:28744629 original size:21 final size:21
Alignment explanation
Indices: 28744605--28744650 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
28744595 GCTCGTGCCT
*
28744605 CTGCCTCTCTCGCTGCAGCCG
1 CTGCCTCCCTCGCTGCAGCCG
* * *
28744626 CTGCCTCCCTCTCTGCTGCCT
1 CTGCCTCCCTCGCTGCAGCCG
28744647 CTGC
1 CTGC
28744651 TCTAAGTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.50, G:0.20, T:0.28
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCAGCCG
Found at i:28750303 original size:9 final size:9
Alignment explanation
Indices: 28750289--28750549 Score: 172
Period size: 9 Copynumber: 28.4 Consensus size: 9
28750279 TATTTAAGTA
28750289 TTATGTAAG
1 TTATGTAAG
*
28750298 TTATGTAAT
1 TTATGTAAG
28750307 TTATG-ATA-
1 TTATGTA-AG
*
28750315 TTGATATATA-
1 TT-ATGTA-AG
*
28750325 TTATGTAAA
1 TTATGTAAG
* *
28750334 TTATAT-AT
1 TTATGTAAG
*
28750342 TTATCTAAG
1 TTATGTAAG
*
28750351 TTATATAAG
1 TTATGTAAG
28750360 TTATGTAAG
1 TTATGTAAG
*
28750369 TTATGTAAA
1 TTATGTAAG
*
28750378 TTATGATATAAAT
1 TTATG---T-AAG
*
28750391 TTATTTAAG
1 TTATGTAAG
*
28750400 TATTATGTAAAT
1 --TTATGT-AAG
28750412 TTATGTAAG
1 TTATGTAAG
* *
28750421 TTATAT-AT
1 TTATGTAAG
*
28750429 TTATCTAAG
1 TTATGTAAG
*
28750438 TTATATAAG
1 TTATGTAAG
*
28750447 TTATATAAG
1 TTATGTAAG
*
28750456 TTATGTATG
1 TTATGTAAG
*
28750465 TTATATAAG
1 TTATGTAAG
28750474 TTATGTAAG
1 TTATGTAAG
* *
28750483 TTATATATG
1 TTATGTAAG
*
28750492 TTATATAAG
1 TTATGTAAG
28750501 TTATGTAAG
1 TTATGTAAG
*
28750510 TTATATAAG
1 TTATGTAAG
*
28750519 TTATATAAG
1 TTATGTAAG
*
28750528 TTATGTACG
1 TTATGTAAG
*
28750537 TTTTGTAAG
1 TTATGTAAG
28750546 TTAT
1 TTAT
28750550 ATAAATTATA
Statistics
Matches: 203, Mismatches: 36, Indels: 26
0.77 0.14 0.10
Matches are distributed among these distances:
8 16 0.08
9 161 0.79
10 12 0.06
11 5 0.02
12 3 0.01
13 6 0.03
ACGTcount: A:0.37, C:0.01, G:0.13, T:0.49
Consensus pattern (9 bp):
TTATGTAAG
Found at i:28750381 original size:27 final size:27
Alignment explanation
Indices: 28750342--28750558 Score: 211
Period size: 27 Copynumber: 7.8 Consensus size: 27
28750332 AATTATATAT
*
28750342 TTATCTAAGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
28750369 TTATGTAAATTATGATATAAATTTATTTAAG
1 TTATGT-AAGT-T-ATAT-AAGTTATGTAAG
* * * *
28750400 TATTATGTAAATTTATGTAAGTTATAT-AT
1 --TTATGT-AAGTTATATAAGTTATGTAAG
* *
28750429 TTATCTAAGTTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
*
28750456 TTATGTATGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* *
28750483 TTATATATGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* *
28750510 TTATATAAGTTATATAAGTTATGTACG
1 TTATGTAAGTTATATAAGTTATGTAAG
* *
28750537 TTTTGTAAGTTATATAAATTAT
1 TTATGTAAGTTATATAAGTTAT
28750559 AATATCAAAT
Statistics
Matches: 162, Mismatches: 21, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
26 16 0.10
27 105 0.65
28 3 0.02
29 2 0.01
30 11 0.07
31 13 0.08
32 1 0.01
33 11 0.07
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (27 bp):
TTATGTAAGTTATATAAGTTATGTAAG
Found at i:28750684 original size:15 final size:15
Alignment explanation
Indices: 28750664--28750719 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
28750654 AAGTAGTGGG
28750664 ATTAAATAATATTTA
1 ATTAAATAATATTTA
28750679 ATTAAATAATATTT-
1 ATTAAATAATATTTA
28750693 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
*
28750708 ATTAAGTAATAT
1 ATTAAATAATAT
28750720 ACATGTCGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.46
16 5 0.14
17 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:28755227 original size:10 final size:11
Alignment explanation
Indices: 28755206--28755256 Score: 57
Period size: 12 Copynumber: 4.3 Consensus size: 11
28755196 ACTAAACCAC
28755206 TTTTCATATATA
1 TTTT-ATATATA
28755218 TATTTATATATA
1 T-TTTATATATA
*
28755230 TTTTAAAATAATA
1 TTTT-ATAT-ATA
28755243 TTTTATATATA
1 TTTTATATATA
28755254 TTT
1 TTT
28755257 ATCTTATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
11 9 0.26
12 15 0.44
13 10 0.29
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTATATATA
Found at i:28755265 original size:15 final size:15
Alignment explanation
Indices: 28755245--28755276 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
28755235 AAATAATATT
*
28755245 TTATATATATTTATC
1 TTATATACATTTATC
28755260 TTATATACATTTATC
1 TTATATACATTTATC
28755275 TT
1 TT
28755277 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:28756342 original size:41 final size:41
Alignment explanation
Indices: 28756285--28756544 Score: 369
Period size: 41 Copynumber: 6.4 Consensus size: 41
28756275 GTTATGAGAT
* * *
28756285 TTTTAGCGGCGTTTTACCGAAAGCGTCGCTAATGCTTTGGC
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
* ** *
28756326 TTTTAGCGGCATTTTACCTAACGCGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
*
28756367 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
* *
28756408 TTTTAGCTGCGTTTTACAGAAAGCGCCGCTAATGCTTTGGC
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
* *
28756449 TTTTAGTGGCGTTTTACAGAAAGCGCCGCTAGTGCTCTGGC
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
* * *
28756490 TTTTAGTGGCGTTTTACAGAAAGCACCGCTAATGCTCT-GT
1 TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
*
28756530 TTTTAGCGGCATTTT
1 TTTTAGCGGCGTTTT
28756545 TTTAGAACGT
Statistics
Matches: 199, Mismatches: 20, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
40 14 0.07
41 185 0.93
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.34
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACAGAAAGCGCCGCTAATGCTCTGGC
Found at i:28756725 original size:23 final size:24
Alignment explanation
Indices: 28756661--28756777 Score: 152
Period size: 23 Copynumber: 5.0 Consensus size: 24
28756651 GCTTTATCAT
*
28756661 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
28756686 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
28756710 ATAACT-GGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
28756732 ATAACTGGGGCATAAGTCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
28756755 ATAACTAGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
28756778 TCACTTCCTC
Statistics
Matches: 83, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
22 10 0.12
23 43 0.52
24 18 0.22
25 12 0.14
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:28756852 original size:20 final size:20
Alignment explanation
Indices: 28756827--28756893 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
28756817 TTATGATTAC
28756827 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
28756847 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
28756867 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
28756887 ACCATGT
1 ATCATGT
28756894 CTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:28756858 original size:11 final size:11
Alignment explanation
Indices: 28756827--28756882 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
28756817 TTATGATTAC
28756827 ATCATGTGCAT
1 ATCATGTGCAT
*
28756838 ATCA--TACAT
1 ATCATGTGCAT
28756847 ATCATGTGCAT
1 ATCATGTGCAT
*
28756858 ATCA--TACAT
1 ATCATGTGCAT
*
28756867 GTCATGTGCAT
1 ATCATGTGCAT
28756878 ATCAT
1 ATCAT
28756883 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:28756962 original size:25 final size:25
Alignment explanation
Indices: 28756930--28756977 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
28756920 ATACATAAAC
* * *
28756930 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
28756955 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
28756978 CATGTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:28758075 original size:12 final size:12
Alignment explanation
Indices: 28758045--28758077 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
28758035 GTTTGAAAGA
*
28758045 AAGAGAAGGAAG
1 AAGAGATGGAAG
28758057 AAGAGATGGAAG
1 AAGAGATGGAAG
28758069 AAGAGATGG
1 AAGAGATGG
28758078 TAGGTTCGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.52, C:0.00, G:0.42, T:0.06
Consensus pattern (12 bp):
AAGAGATGGAAG
Found at i:28763586 original size:41 final size:41
Alignment explanation
Indices: 28763541--28763628 Score: 103
Period size: 39 Copynumber: 2.2 Consensus size: 41
28763531 TAGTGGTTGG
* *
28763541 GTAGCCCGACATGT-GTTACGGGT-ACCTGTCAGCTTGTGTGA
1 GTAGCCCG-CATGTAGTTACGGCTCA-CTATCAGCTTGTGTGA
*
28763582 GTAG-CC-CATGTAGTTACGTCTCACTATCAGCTTGTGTGA
1 GTAGCCCGCATGTAGTTACGGCTCACTATCAGCTTGTGTGA
28763621 GTAGCCCG
1 GTAGCCCG
28763629 TGATTAGCTC
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
38 5 0.12
39 26 0.65
40 5 0.12
41 4 0.10
ACGTcount: A:0.18, C:0.24, G:0.28, T:0.30
Consensus pattern (41 bp):
GTAGCCCGCATGTAGTTACGGCTCACTATCAGCTTGTGTGA
Found at i:28775022 original size:40 final size:40
Alignment explanation
Indices: 28774967--28775143 Score: 286
Period size: 40 Copynumber: 4.5 Consensus size: 40
28774957 CGAATGATAA
28774967 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
28775007 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
28775047 CCGGGCTAAGACCCGAAGGCATTTGTGTGAGTTGCTGTAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * *
28775087 CCGAGCTAGGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
28775127 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
28775144 ATACTTGGGT
Statistics
Matches: 127, Mismatches: 9, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
38 1 0.01
39 11 0.09
40 115 0.91
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:28775412 original size:22 final size:22
Alignment explanation
Indices: 28775370--28775413 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
28775360 AAAATGTGCA
* *
28775370 TATATGAAGTTATTCATTTAGC
1 TATATGAAGTTATACACTTAGC
28775392 TATATGAATGTTATAC-CTTAGC
1 TATATGAA-GTTATACACTTAGC
28775414 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATATGAAGTTATACACTTAGC
Found at i:28779356 original size:43 final size:42
Alignment explanation
Indices: 28779215--28779368 Score: 137
Period size: 43 Copynumber: 3.6 Consensus size: 42
28779205 CCGAGATGTA
* * * ** *
28779215 ATTACATGTAAGGCCATGTCTGGGACATTGGCATTGTATTTTG
1 ATTACATGTAAGACCATGTCTGGGACAATAGCA-TCAATATTG
* * **
28779258 ATTACATGTAAGACCATGTTTGGGACAATGGCATCGCTATTCG
1 ATTACATGTAAGACCATGTCTGGGACAATAGCATCAATATT-G
* * * *
28779301 ATTTCGTCTAAGACCCTGTCTGGGACAATAGCATCAATATGTG
1 ATTACATGTAAGACCATGTCTGGGACAATAGCATCAATAT-TG
* *
28779344 ATAACATGTAAGACCATATCTGGGA
1 ATTACATGTAAGACCATGTCTGGGA
28779369 TATGGTATTG
Statistics
Matches: 88, Mismatches: 21, Indels: 4
0.78 0.19 0.04
Matches are distributed among these distances:
42 4 0.05
43 83 0.94
44 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.31
Consensus pattern (42 bp):
ATTACATGTAAGACCATGTCTGGGACAATAGCATCAATATTG
Found at i:28780914 original size:21 final size:21
Alignment explanation
Indices: 28780889--28780951 Score: 126
Period size: 21 Copynumber: 3.0 Consensus size: 21
28780879 TTTATTTAAG
28780889 TATGAATCTCTATGTTTAACT
1 TATGAATCTCTATGTTTAACT
28780910 TATGAATCTCTATGTTTAACT
1 TATGAATCTCTATGTTTAACT
28780931 TATGAATCTCTATGTTTAACT
1 TATGAATCTCTATGTTTAACT
28780952 ATTATGACAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.29, C:0.14, G:0.10, T:0.48
Consensus pattern (21 bp):
TATGAATCTCTATGTTTAACT
Found at i:28785603 original size:47 final size:47
Alignment explanation
Indices: 28785550--28786110 Score: 815
Period size: 47 Copynumber: 12.0 Consensus size: 47
28785540 TTAGGATTTT
* *
28785550 ATGTGATGAATGTGAACATGCATATATGTTATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
28785597 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
28785644 ATGTGGTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
28785691 ATGTGATGAATGTGAACATGCATATATGTGATGAA-GCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGAT-AAGGCCGAATGGCCA
*
28785738 ATGTGATGAATGTG-ACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
28785784 ATGTGGTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
28785831 ATGTGATGAATGTGAACATGCATATATGTGATGAA-GCCGAATGGACA
1 ATGTGATGAATGTGAACATGCATATATGTGAT-AAGGCCGAATGGCCA
* * *
28785878 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
28785925 ATGTGGTGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
28785972 ATGTGATAAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
28786019 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* ** * * *
28786066 ATGTGGTGAAAATGAAAATGCATATAT-TCGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGT-GATAAGGCCGAATGGC
28786111 TAGTGTGAAA
Statistics
Matches: 462, Mismatches: 46, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
45 2 0.00
46 42 0.09
47 414 0.90
48 4 0.01
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:28786011 original size:141 final size:141
Alignment explanation
Indices: 28785549--28786118 Score: 959
Period size: 141 Copynumber: 4.0 Consensus size: 141
28785539 TTTAGGATTT
* *
28785549 TATGTGATGAATGTGAACATGCATATATGTTATGAGGCCGAATGGCCAATGTGATGAATGTGAGC
1 TATGTGATGAATGTGAACATGCATATATGTGATGAAGCCGAATGGCCAATGTGATGAATGTGAGC
28785614 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
66 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
28785679 GCCGAATGGCC
131 GCCGAATGGCC
*
28785690 TATGTGATGAATGTGAACATGCATATATGTGATGAAGCCGAATGGTCAATGTGATGAATGTGA-C
1 TATGTGATGAATGTGAACATGCATATATGTGATGAAGCCGAATGGCCAATGTGATGAATGTGAGC
28785754 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
66 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
28785819 GCCGAATGGCC
131 GCCGAATGGCC
*
28785830 TATGTGATGAATGTGAACATGCATATATGTGATGAAGCCGAATGGACAATGTGATGAATGTGAGC
1 TATGTGATGAATGTGAACATGCATATATGTGATGAAGCCGAATGGCCAATGTGATGAATGTGAGC
* * *
28785895 ATGCATATGTGTGATAAGGCCGAATGACCAATGTGGTGAATGTGAACATGCATATATGTGATGAG
66 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
28785960 GCCGAATGGCC
131 GCCGAATGGCC
* * *
28785971 AATGTGATAAATGTGAGCATGCATATATGTGAT-AAGGCCGAATGGCCAATGTGATGAATGTGAG
1 TATGTGATGAATGTGAACATGCATATATGTGATGAA-GCCGAATGGCCAATGTGATGAATGTGAG
* * *
28786035 CATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAAAATGAAAATGCATATAT-TCGGTA
65 CATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGT-GATA
*
28786099 AAGCCGAATGG-C
129 AGGCCGAATGGCC
28786111 TAGTGTGA
1 TA-TGTGA
28786119 AATATGTAGG
Statistics
Matches: 406, Mismatches: 19, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
140 144 0.35
141 262 0.65
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.26
Consensus pattern (141 bp):
TATGTGATGAATGTGAACATGCATATATGTGATGAAGCCGAATGGCCAATGTGATGAATGTGAGC
ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
GCCGAATGGCC
Found at i:28786074 original size:25 final size:25
Alignment explanation
Indices: 28785999--28786074 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
28785989 ATGCATATAT
28785999 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
28786024 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
28786046 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
28786071 GTGA
1 GTGA
28786075 AAATGAAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:28786323 original size:37 final size:37
Alignment explanation
Indices: 28786273--28786387 Score: 185
Period size: 37 Copynumber: 3.1 Consensus size: 37
28786263 TGAAATATAT
*
28786273 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
28786310 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
28786347 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTACG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
28786384 TCCG
1 TCCG
28786388 AGCTAAAGGT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:28791415 original size:18 final size:19
Alignment explanation
Indices: 28791392--28791427 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
28791382 AACTTGGCAC
*
28791392 CATAA-TCATTTAATTTAA
1 CATAATTCAATTAATTTAA
28791410 CATAATTCAATTAATTTA
1 CATAATTCAATTAATTTA
28791428 CTAAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (19 bp):
CATAATTCAATTAATTTAA
Found at i:28800038 original size:53 final size:52
Alignment explanation
Indices: 28799859--28800064 Score: 162
Period size: 53 Copynumber: 3.8 Consensus size: 52
28799849 ATTAGGGTTT
* * * * * * *
28799859 AAGGATACCTTGTAAGACCATGCCAAGGCACGACATTGGTATGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTA-G-TTCATAAGGC
* * * * * * * *
28799913 AACGAAATCATGCAAGACCATGTCAAGACATGGCATTGATA-TACTACAATAAGAC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAGT--T-C-ATAAGGC
* * *
28799968 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AGTTCATAAGGC
* *
28800021 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATAGTAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAGTT
28800065 TTAAAAAAGA
Statistics
Matches: 118, Mismatches: 28, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
51 1 0.01
52 4 0.03
53 42 0.36
54 32 0.27
55 37 0.31
56 1 0.01
57 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.21
Consensus pattern (52 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAGTTCATAAGGC
Found at i:28819320 original size:9 final size:9
Alignment explanation
Indices: 28819306--28819332 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
28819296 TTATCAAAAA
28819306 TGTGTAAAT
1 TGTGTAAAT
28819315 TGTGTAAAT
1 TGTGTAAAT
28819324 TGTGTAAAT
1 TGTGTAAAT
28819333 GGAATGAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (9 bp):
TGTGTAAAT
Found at i:28819735 original size:43 final size:43
Alignment explanation
Indices: 28819687--28819849 Score: 156
Period size: 43 Copynumber: 3.8 Consensus size: 43
28819677 GATGTAATTT
* *
28819687 CATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTA
1 CATGTAAGACCATATCTGGGACATTGGCATCGTATTGTGATTA
* * *
28819730 CATGTAAGACCATGTCTGGGACATTGGCATCGTTATT-CGATTT
1 CATGTAAGACCATATCTGGGACATTGGCATCG-TATTGTGATTA
* *
28819773 CGTGTAAGACTC-TATCTGGGACAATGGCATCG-ATATGTGA-TA
1 CATGTAAGAC-CATATCTGGGACATTGGCATCGTAT-TGTGATTA
* * * *
28819815 CCATATAAGACCATATTTGGGATA-TGGCATTGTAT
1 -CATGTAAGACCATATCTGGGACATTGGCATCGTAT
28819850 GACCTTTACG
Statistics
Matches: 100, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
41 2 0.02
42 10 0.10
43 83 0.83
44 5 0.05
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (43 bp):
CATGTAAGACCATATCTGGGACATTGGCATCGTATTGTGATTA
Found at i:28819836 original size:86 final size:85
Alignment explanation
Indices: 28819683--28819844 Score: 195
Period size: 86 Copynumber: 1.9 Consensus size: 85
28819673 CCAAGATGTA
* * * * *
28819683 ATTTCATGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTACATGTAAGACCATGTCTG
1 ATTTCATGTAAGACCATATCTGGGACAATGGCATCGTATTGTGATTACATATAAGACCATATCTG
28819748 GGACATTGGCATCGTTATTCG
66 GGACA-TGGCATCGTTATTCG
*
28819769 ATTTCGTGTAAGACTC-TATCTGGGACAATGGCATCG-ATATGTGA-TACCATATAAGACCATAT
1 ATTTCATGTAAGAC-CATATCTGGGACAATGGCATCGTAT-TGTGATTA-CATATAAGACCATAT
* *
28819831 TTGGGATATGGCAT
63 CTGGGACATGGCAT
28819845 TGTATGACCT
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
85 10 0.15
86 54 0.83
87 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.33
Consensus pattern (85 bp):
ATTTCATGTAAGACCATATCTGGGACAATGGCATCGTATTGTGATTACATATAAGACCATATCTG
GGACATGGCATCGTTATTCG
Found at i:28831874 original size:47 final size:47
Alignment explanation
Indices: 28831803--28832444 Score: 1068
Period size: 47 Copynumber: 13.6 Consensus size: 47
28831793 CCCTTCGGGA
* * * * * *
28831803 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
28831850 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28831897 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28831944 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28831991 CTTATCACATATATACACTTTCACAGTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28832038 CTTATCACATATATACATTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28832085 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28832132 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28832181 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28832228 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28832275 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28832322 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28832371 CTTATCACATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28832418 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
28832445 TATTCAAATA
Statistics
Matches: 565, Mismatches: 26, Indels: 8
0.94 0.04 0.01
Matches are distributed among these distances:
47 475 0.84
49 90 0.16
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:28831881 original size:25 final size:25
Alignment explanation
Indices: 28831853--28831931 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
28831843 ACTCGGCCCT
28831853 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
28831878 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
28831900 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
28831925 ATCACAT
1 ATCACAT
28831932 CGGCCATTCG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:28832239 original size:190 final size:190
Alignment explanation
Indices: 28831803--28832444 Score: 1135
Period size: 190 Copynumber: 3.4 Consensus size: 190
28831793 CCCTTCGGGA
* * * * * * *
28831803 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* * *
28831868 TTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
* *
28831933 GGCCATTCGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTCGGC
131 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
28831991 CTTATCACATATATACACTTTCACAGTCATCACATCGGCCATTAGGCCTTATCACATATATACAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
28832056 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
28832121 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
131 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
28832181 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
28832246 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
28832311 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
131 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
28832371 CTTATCACATGTATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
28832436 TTTCACATT
66 TTTCACATT
28832445 TATTCAAATA
Statistics
Matches: 435, Mismatches: 17, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
188 136 0.31
190 299 0.69
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.33
Consensus pattern (190 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:28836523 original size:40 final size:40
Alignment explanation
Indices: 28836453--28836811 Score: 612
Period size: 40 Copynumber: 9.0 Consensus size: 40
28836443 ATTTTGTCCA
* ** * *
28836453 AGCACGAATGC-CTTCGGGGTTTAGCACGGATATATCACT
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
* *
28836492 AGCACGAATGCTCTTCGAAACTTAGTCCGGATACATCACT
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
28836532 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
28836572 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
*
28836612 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
28836652 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
*
28836692 AGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
28836732 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
* *
28836772 AGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACT
1 AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
28836812 CTCAATTCTC
Statistics
Matches: 304, Mismatches: 15, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
39 11 0.04
40 293 0.96
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
AGCACGAATGCTCTTCGAGACTTAGCCCGGATACATCACT
Found at i:28838302 original size:47 final size:47
Alignment explanation
Indices: 28838231--28838870 Score: 1100
Period size: 47 Copynumber: 13.6 Consensus size: 47
28838221 CCCTTCGGGA
* * * * * *
28838231 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
28838278 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28838325 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28838372 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28838419 CTTATCACATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28838466 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28838515 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28838562 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28838609 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28838656 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28838703 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
28838750 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
28838797 CTTATCACATGTATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
28838844 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
28838871 TATTCAAATA
Statistics
Matches: 565, Mismatches: 26, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 521 0.92
49 44 0.08
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:28838309 original size:25 final size:25
Alignment explanation
Indices: 28838281--28838359 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
28838271 ACTCGGCCCT
28838281 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
28838306 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
28838328 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
28838353 ATCACAT
1 ATCACAT
28838360 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:28843537 original size:53 final size:53
Alignment explanation
Indices: 28843337--28843543 Score: 184
Period size: 53 Copynumber: 3.8 Consensus size: 53
28843327 ATTAGGGTTT
* * * * * *
28843337 AAGGATACCAAGTAAGACCATG-CTAAGGCACGGCATTGGTAAGTTTGACAAGGC
1 AAGGATACCATGTAAGACCATGTC-AAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * *
28843391 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACAATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * * *
28843446 AAAGATCCCATGTAAGACCATGCCAA-ATCGTGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGA-CATGGCAATGGTAAGTTCATAAGGC
* *
28843499 AAGGATACCACGTAAGACCATGTCAAGACATGGAAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
28843544 TAAAAAGGAA
Statistics
Matches: 120, Mismatches: 28, Indels: 11
0.75 0.18 0.07
Matches are distributed among these distances:
53 43 0.36
54 38 0.32
55 39 0.32
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:28851742 original size:29 final size:30
Alignment explanation
Indices: 28851686--28851742 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
28851676 ATTTTCGGGC
* **
28851686 CTAGGGATAAAATGGTTATTTTGTCAAAGT
1 CTAGGGATAAAATGGTAATTTTACCAAAGT
28851716 CTAGGGA-AAAATGGTAATTTTACCAAA
1 CTAGGGATAAAATGGTAATTTTACCAAA
28851743 TATATGGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.32
Consensus pattern (30 bp):
CTAGGGATAAAATGGTAATTTTACCAAAGT
Found at i:28852230 original size:46 final size:46
Alignment explanation
Indices: 28852130--28852290 Score: 179
Period size: 46 Copynumber: 3.5 Consensus size: 46
28852120 ATGAGAGCAA
* * *
28852130 TGTAAGACCATGTCTGGGACATGGCATTGGCATTGAGACG-AGTGCTAG
1 TGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGACGTAGT-C-AG
28852178 TGTAAGA-CATGTCTGGGACATGCATCGGCCTCGAGACGTAAGTCAG
1 TGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGACGT-AGTCAG
* * * *
28852224 TGTAAGA-CATGTCTGAGACATGCATCAG-CTACGAGATGT-GTCAC
1 TGTAAGACCATGTCTGGGACATGCATCGGCCT-CGAGACGTAGTCAG
28852268 TGTAAGACCATGTCTGGGACATG
1 TGTAAGACCATGTCTGGGACATG
28852291 GCATTGACAC
Statistics
Matches: 101, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
44 11 0.11
45 16 0.16
46 49 0.49
47 15 0.15
48 10 0.10
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
TGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGACGTAGTCAG
Found at i:28870567 original size:27 final size:26
Alignment explanation
Indices: 28870530--28870644 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
28870520 AGCATCGCTG
* * *
28870530 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCATAGCCA
28870556 CCAGATACAGATATTGTGGCATAGCCA
1 CCAGA-ACAGATATTGTGGCATAGCCA
*
28870583 CCAGAACAGATTTTGTGGCATAGCCA
1 CCAGAACAGATATTGTGGCATAGCCA
*
28870609 CCAGAAACAAATATTTGTGGCATAGCCA
1 CCAG-AACAGATA-TTGTGGCATAGCCA
*
28870637 CCAAAACA
1 CCAGAACA
28870645 CTTCCTCCAT
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
26 29 0.37
27 33 0.42
28 17 0.22
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCATAGCCA
Found at i:28870588 original size:53 final size:54
Alignment explanation
Indices: 28870530--28870644 Score: 160
Period size: 53 Copynumber: 2.1 Consensus size: 54
28870520 AGCATCGCTG
* * *
28870530 CCAGAACAGATATTGTGACAGAGTCACCAGATACAGATA-TTGTGGCATAGCCA
1 CCAGAACAGATATTGTGACAGAGCCACCAGAAACAAATATTTGTGGCATAGCCA
* * *
28870583 CCAGAACAGATTTTGTGGCATAGCCACCAGAAACAAATATTTGTGGCATAGCCA
1 CCAGAACAGATATTGTGACAGAGCCACCAGAAACAAATATTTGTGGCATAGCCA
*
28870637 CCAAAACA
1 CCAGAACA
28870645 CTTCCTCCAT
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
53 33 0.61
54 21 0.39
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (54 bp):
CCAGAACAGATATTGTGACAGAGCCACCAGAAACAAATATTTGTGGCATAGCCA
Found at i:28875963 original size:27 final size:26
Alignment explanation
Indices: 28875925--28876039 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
28875915 AACATGGCTG
* *
28875925 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
*
28875951 CCAGATATAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
*
28875978 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
*
28876005 CCAGAAACAGATATTTGTGGCATAGCCA
1 CCAG-AACAGATA-TTGTGGCAGAGCCA
*
28876033 CTAGAAC
1 CCAGAAC
28876040 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 11 0.14
27 43 0.54
28 26 0.32
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.21
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:28876275 original size:27 final size:27
Alignment explanation
Indices: 28876241--28876316 Score: 125
Period size: 28 Copynumber: 2.8 Consensus size: 27
28876231 TTCATTCATA
*
28876241 TTGTGGCAGAGCCACCAGAACAGATAT
1 TTGTGGCATAGCCACCAGAACAGATAT
*
28876268 TTGTGGCATAGCCACCAAAAACAGATAT
1 TTGTGGCATAGCCACC-AGAACAGATAT
28876296 TTGTGGCATAGCCACCAGAAC
1 TTGTGGCATAGCCACCAGAAC
28876317 GCTTCCTCCA
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
27 19 0.42
28 26 0.58
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.20
Consensus pattern (27 bp):
TTGTGGCATAGCCACCAGAACAGATAT
Found at i:28876455 original size:277 final size:277
Alignment explanation
Indices: 28875961--28876519 Score: 1046
Period size: 277 Copynumber: 2.0 Consensus size: 277
28875951 CCAGATATAG
*
28875961 ATATTGTGGCAGAGCCACCAGAACAGATATTTGTGGCATAGCCACCAGAAACAGATATTTGTGGC
1 ATATTGTGGCAGAGCCACCAGAACAGATATTTGTGGCATAGCCACCAAAAACAGATATTTGTGGC
* *
28876026 ATAGCCACTAGAACGCTTCCTCCATCAATATAACCCATATCTCATGCAACAGATATACATGACAT
66 ATAGCCACCAGAACGCTTCCTCCATCAATATAACCCATATCCCATGCAACAGATATACATGACAT
* * *
28876091 GGCATACAACATACATAATCGGAATAGCATGCATTTCAGTCAAAATTAGCCCTAGGGATATAATG
131 GGCATACAACATACAGAATCAGAATAGCATGCATTTCAGTCAAAATTAGCCCTAGGGATATAACG
*
28876156 GTCACTTTGCACCTAGGGGTATAATGGTAATTTTCATACTTAGGGGTATTTTAGTAAATTTACTA
196 GTCACTTTACACCTAGGGGTATAATGGTAATTTTCATACTTAGGGGTATTTTAGTAAATTTACTA
28876221 TTTTTGGGTTTTCATTC
261 TTTTTGGGTTTTCATTC
28876238 ATATTGTGGCAGAGCCACCAGAACAGATATTTGTGGCATAGCCACCAAAAACAGATATTTGTGGC
1 ATATTGTGGCAGAGCCACCAGAACAGATATTTGTGGCATAGCCACCAAAAACAGATATTTGTGGC
28876303 ATAGCCACCAGAACGCTTCCTCCATCAATATAACCCATATCCCATGCAACAGATATACATGACAT
66 ATAGCCACCAGAACGCTTCCTCCATCAATATAACCCATATCCCATGCAACAGATATACATGACAT
28876368 GGCATACAACATACAGAATCAGAATAGCATGCATTTCAGTCAAAATTAGCCCTAGGGATATAACG
131 GGCATACAACATACAGAATCAGAATAGCATGCATTTCAGTCAAAATTAGCCCTAGGGATATAACG
*
28876433 GTCACTTTACACCTAGGGGTATAATGGTAATTTTCATACTTAGGTGTATTTTAGTAAATTTACTA
196 GTCACTTTACACCTAGGGGTATAATGGTAATTTTCATACTTAGGGGTATTTTAGTAAATTTACTA
28876498 TTTTTGGGTTTTCATTC
261 TTTTTGGGTTTTCATTC
28876515 ATATT
1 ATATT
28876520 ACAGCCATTA
Statistics
Matches: 274, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
277 274 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (277 bp):
ATATTGTGGCAGAGCCACCAGAACAGATATTTGTGGCATAGCCACCAAAAACAGATATTTGTGGC
ATAGCCACCAGAACGCTTCCTCCATCAATATAACCCATATCCCATGCAACAGATATACATGACAT
GGCATACAACATACAGAATCAGAATAGCATGCATTTCAGTCAAAATTAGCCCTAGGGATATAACG
GTCACTTTACACCTAGGGGTATAATGGTAATTTTCATACTTAGGGGTATTTTAGTAAATTTACTA
TTTTTGGGTTTTCATTC
Found at i:28879031 original size:27 final size:27
Alignment explanation
Indices: 28879001--28879092 Score: 85
Period size: 27 Copynumber: 3.4 Consensus size: 27
28878991 GGTGCAAAAT
*
28879001 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCCACAAGGGTATCTC
* * * *
28879028 GGTAATTCTACTCTACAGGGGTATTTC
1 GGTAATTCTACCCCACAAGGGTATCTC
* ** * * *
28879055 GATAATTCTACCTTACAGGGGTCTTTC
1 GGTAATTCTACCCCACAAGGGTATCTC
28879082 GGTAATTCTAC
1 GGTAATTCTAC
28879093 AACTTATCCA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCCACAAGGGTATCTC
Found at i:28880053 original size:85 final size:85
Alignment explanation
Indices: 28879954--28880132 Score: 340
Period size: 85 Copynumber: 2.1 Consensus size: 85
28879944 GGCCGGCCAT
*
28879954 GAGCATGGGTGGACAAGATGTTATGGTTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
28880019 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
28880039 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
28880104 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
28880124 GGGCATGGG
1 GAGCATGGG
28880133 CAATAAAATA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.27
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:28882001 original size:47 final size:47
Alignment explanation
Indices: 28881950--28882240 Score: 393
Period size: 47 Copynumber: 6.1 Consensus size: 47
28881940 TTAGGATTTT
* *
28881950 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
** *
28881997 ATGTGATGAATGTGAACCTGTATATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAA-C-----ATGCATATGTGTGATAAGGCCGAATGGCCA
*
28882050 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* *
28882097 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGGATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * *
28882144 ATGTGATGAATGTGAAGATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
* * * *
28882191 ATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
28882238 ATG
1 ATG
28882241 CGAAACGTGT
Statistics
Matches: 218, Mismatches: 20, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
47 174 0.80
48 1 0.00
52 1 0.00
53 42 0.19
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
Found at i:28882077 original size:23 final size:23
Alignment explanation
Indices: 28882050--28882124 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
28882040 CGAATGGCCA
28882050 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
28882073 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
28882097 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
28882120 ATGTG
1 ATGTG
28882125 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:28882303 original size:46 final size:46
Alignment explanation
Indices: 28882214--28882304 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
28882204 GAACATGAAT
* * * *
28882214 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
* * *
28882260 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATG
28882305 TGTATATATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.33, C:0.10, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACGAGATGG
Found at i:28882311 original size:141 final size:140
Alignment explanation
Indices: 28881961--28882289 Score: 378
Period size: 141 Copynumber: 2.3 Consensus size: 140
28881951 TGTGATGGAT
* * **
28881961 GTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATATAT
1 GTGAACATGCGTATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAA---G-ATGCATAT
* ** *
28882026 ATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAA
62 AT--GAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAA
* *
28882091 TGGCCAATGTGATGAAT
125 TGGCCAATGCGA-GAAC
* **
28882108 GTGAACATGCGTATGTGTGATAAGGCCGGATGGCCAATGTGATGAATGTGAAGATGCATATATGA
1 GTGAACATGCGTATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAAGATGCATATATGA
* *
28882173 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATGTGGTAAGGCCGAATGGCTA
66 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCCA
28882238 ATGCGA-AAC
131 ATGCGAGAAC
* *
28882247 GTGTATGAGATG-GATATGTG-G-TAAAGCCAAATGGCTAATGTGA
1 GTG-A--ACATGCG-TATGTGTGATAAAGCCAAATGGCCAATGTGA
28882290 GATATGTACG
Statistics
Matches: 162, Mismatches: 16, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
139 5 0.03
140 19 0.12
141 68 0.42
142 10 0.06
143 8 0.05
144 1 0.01
147 51 0.31
ACGTcount: A:0.32, C:0.12, G:0.31, T:0.26
Consensus pattern (140 bp):
GTGAACATGCGTATGTGTGATAAAGCCAAATGGCCAATGTGATGAATGTGAAGATGCATATATGA
GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGAATATATGTGATAAGGCCGAATGGCCA
ATGCGAGAAC
Found at i:28882594 original size:37 final size:37
Alignment explanation
Indices: 28882451--28882593 Score: 241
Period size: 37 Copynumber: 3.9 Consensus size: 37
28882441 AAATATATTT
*
28882451 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTT
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
28882488 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
*
28882525 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
* * *
28882562 CGGGTAAGACCCGATAACTTCATGTGGAGATT
1 CGGGTAAGACCCGATGACTACGTGTGGAGATT
28882594 TCGTCTGAGC
Statistics
Matches: 101, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.26
Consensus pattern (37 bp):
CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
Found at i:28884411 original size:40 final size:40
Alignment explanation
Indices: 28883848--28884385 Score: 887
Period size: 40 Copynumber: 13.4 Consensus size: 40
28883838 GAGAACTGAG
28883848 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
28883888 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* *
28883928 AGTGGTATATCCAGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
28883968 AGTGATATATCAGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
28884008 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
28884048 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
28884088 AGTGCTATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * * *
28884128 AGTGGTATATCCGGGCTAAGTTCTGAGGAGCATTCCTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
28884168 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
28884208 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
28884248 AGTGATATATCCGTGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * * * *
28884288 AGTGATGTATCCGGGCTATGTTCCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * ** *
28884328 AGTGATATATCCGTGCCAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* *
28884368 GGTGTTATATCCGGGCTA
1 AGTGATATATCCGGGCTA
28884386 GGTCGCGAAG
Statistics
Matches: 464, Mismatches: 34, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 464 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:28884680 original size:58 final size:57
Alignment explanation
Indices: 28884611--28884719 Score: 155
Period size: 57 Copynumber: 1.9 Consensus size: 57
28884601 CGAATGATTA
* * *
28884611 GAGGCACTGTGTGTGCAAATTCTTTTAACCGAGCACTATGTGTGCGAAATCGGTAATT
1 GAGGCACTGTGTGTACAAATTC-TTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
* * *
28884669 GAGGCACTGTGTGTACGAGTTCTTCAACCAAGCACTATGTGTGCGAGATCG
1 GAGGCACTGTGTGTACAAATTCTTCAACCAAGCACTATGTGTGCGAAATCG
28884720 ATCAGTGAGC
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 26 0.58
58 19 0.42
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (57 bp):
GAGGCACTGTGTGTACAAATTCTTCAACCAAGCACTATGTGTGCGAAATCGGTAATT
Found at i:28886309 original size:85 final size:85
Alignment explanation
Indices: 28886166--28886342 Score: 345
Period size: 85 Copynumber: 2.1 Consensus size: 85
28886156 GGCCGGCCAT
28886166 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
28886231 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
28886251 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
28886316 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
28886336 GGGCATG
1 GAGCATG
28886343 TGCAATAAAA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 91 1.00
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.27
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:28888215 original size:47 final size:47
Alignment explanation
Indices: 28888164--28888454 Score: 359
Period size: 47 Copynumber: 6.1 Consensus size: 47
28888154 TTAGGATTTT
* * *
28888164 ATGTGATGGATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
** *
28888211 ATGTGATGAATGTGAACCTGTATATATATATGCATGATAAGGCCGAATGGACA
1 ATGTGATGAATGTGAA-C---ATGCATATATG--TGATAAGGCCGAATGGCCA
* *
28888264 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
28888311 ATGTGATGAATGTGAACATGCGTATGTGTGATAA-GCCAGGATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCC-GAATGGCCA
* *
28888358 ATGTGATGAATGTGAAGATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
28888405 ATGTGATGAATATGAACATGAATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
28888452 ATG
1 ATG
28888455 CGAAACGTGT
Statistics
Matches: 213, Mismatches: 23, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
46 3 0.01
47 157 0.74
48 4 0.02
49 7 0.03
51 7 0.03
52 1 0.00
53 34 0.16
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:28888290 original size:23 final size:23
Alignment explanation
Indices: 28888264--28888338 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
28888254 CGAATGGACA
28888264 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
28888287 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
28888311 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
28888334 ATGTG
1 ATGTG
28888339 TGATAAGCCA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:28888293 original size:25 final size:25
Alignment explanation
Indices: 28888265--28888342 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
28888255 GAATGGACAA
28888265 TGTGATGAATGTGAACATGCGTATG
1 TGTGATGAATGTGAACATGCGTATG
* * * *
28888290 TGTGAT-AAGGCCG-A-ATG-GCCA-A
1 TGTGATGAATG-TGAACATGCG-TATG
28888312 TGTGATGAATGTGAACATGCGTATG
1 TGTGATGAATGTGAACATGCGTATG
28888337 TGTGAT
1 TGTGAT
28888343 AAGCCAGGAT
Statistics
Matches: 38, Mismatches: 8, Indels: 14
0.63 0.13 0.23
Matches are distributed among these distances:
22 8 0.21
23 8 0.21
24 8 0.21
25 14 0.37
ACGTcount: A:0.28, C:0.10, G:0.32, T:0.29
Consensus pattern (25 bp):
TGTGATGAATGTGAACATGCGTATG
Found at i:28888518 original size:46 final size:46
Alignment explanation
Indices: 28888428--28888518 Score: 110
Period size: 46 Copynumber: 2.0 Consensus size: 46
28888418 GAACATGAAT
* * * **
28888428 ATATGTGGTAAGGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACAAGATGG
* * *
28888474 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTACAAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACAAGATG
28888519 TGTATATATA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.34, C:0.10, G:0.31, T:0.25
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTACAAGATGG
Found at i:28888769 original size:37 final size:37
Alignment explanation
Indices: 28888663--28888771 Score: 164
Period size: 37 Copynumber: 2.9 Consensus size: 37
28888653 GGAAATATAT
*
28888663 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
28888700 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * * * *
28888737 TCCGGGTAAGACTCGATAACTTCATGTCGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
28888772 CGTCTGAGCT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:28891228 original size:22 final size:22
Alignment explanation
Indices: 28891203--28891263 Score: 52
Period size: 24 Copynumber: 2.7 Consensus size: 22
28891193 CCTAAGCTGA
28891203 TAAACAATAAGCTCTATTGAGC
1 TAAACAATAAGCTCTATTGAGC
* *
28891225 TAAA-AATGGTGAGCTCTATTGAGT
1 TAAACAA---TAAGCTCTATTGAGC
* *
28891249 TGAACAGTAAGCTCT
1 TAAACAATAAGCTCT
28891264 TTTAAGCTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
21 2 0.07
22 11 0.37
24 16 0.53
25 1 0.03
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.30
Consensus pattern (22 bp):
TAAACAATAAGCTCTATTGAGC
Found at i:28891283 original size:23 final size:23
Alignment explanation
Indices: 28891249--28891308 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
28891239 TCTATTGAGT
***
28891249 TGAA-CAGTAAGCTCTTTTAAGC
1 TGAATCAGTAAGCTCCAATAAGC
*
28891271 TGAATCAGTAAGCTCCAATGAGC
1 TGAATCAGTAAGCTCCAATAAGC
*
28891294 TGAATTAGTAAGCTC
1 TGAATCAGTAAGCTC
28891309 ATACGAGCTG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 4 0.12
23 28 0.88
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.28
Consensus pattern (23 bp):
TGAATCAGTAAGCTCCAATAAGC
Found at i:28891316 original size:23 final size:23
Alignment explanation
Indices: 28891268--28891318 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
28891258 AGCTCTTTTA
*
28891268 AGCTGAATCAGTAAGCTCCAATG
1 AGCTGAATCAGTAAGCTCCAACG
*
28891291 AGCTGAATTAGTAAGCT-CATACG
1 AGCTGAATCAGTAAGCTCCA-ACG
28891314 AGCTG
1 AGCTG
28891319 TGGTGAGTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 2 0.08
23 23 0.92
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.24
Consensus pattern (23 bp):
AGCTGAATCAGTAAGCTCCAACG
Found at i:28915885 original size:96 final size:96
Alignment explanation
Indices: 28915716--28915904 Score: 333
Period size: 96 Copynumber: 2.0 Consensus size: 96
28915706 ATCATTTACG
* * *
28915716 AAATTAGCTCATTTTATTCTGGTTCGATTCGATTACTCACTTGATAAATTAGCTGAGTTATATAT
1 AAATCAGCTCATTTTATTCTAGTTCGATCCGATTACTCACTTGATAAATTAGCTGAGTTATATAT
*
28915781 TTCTGATATTGAGAGATTGCATGGTGTGACA
66 TTCTGATATTAAGAGATTGCATGGTGTGACA
*
28915812 AAATCAGCTCATTTTATTCTAGTTTGATCCGATTACTCACTTGATAAATTAGCTGAGTTATATAT
1 AAATCAGCTCATTTTATTCTAGTTCGATCCGATTACTCACTTGATAAATTAGCTGAGTTATATAT
28915877 TTCTGATATTAAGAGATTGCATGGTGTG
66 TTCTGATATTAAGAGATTGCATGGTGTG
28915905 CCATTGTATA
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
96 88 1.00
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.41
Consensus pattern (96 bp):
AAATCAGCTCATTTTATTCTAGTTCGATCCGATTACTCACTTGATAAATTAGCTGAGTTATATAT
TTCTGATATTAAGAGATTGCATGGTGTGACA
Found at i:28917104 original size:38 final size:38
Alignment explanation
Indices: 28917055--28917128 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
28917045 GAGAGGTCCT
28917055 TATGTTGTTATTTGACCATTAAACTTATGAATGGACCA
1 TATGTTGTTATTTGACCATTAAACTTATGAATGGACCA
* *
28917093 TATGTTTTTATTTGACCATTGAACTTATGAATGGAC
1 TATGTTGTTATTTGACCATTAAACTTATGAATGGAC
28917129 ATTAATTGCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (38 bp):
TATGTTGTTATTTGACCATTAAACTTATGAATGGACCA
Found at i:28919133 original size:18 final size:18
Alignment explanation
Indices: 28919107--28919150 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
28919097 CAACTCCTTG
*
28919107 TAATTACAATGAAAATAA
1 TAATAACAATGAAAATAA
** *
28919125 TAATAACAATTCAAGTAA
1 TAATAACAATGAAAATAA
28919143 TAATAACA
1 TAATAACA
28919151 TAATGAAAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.59, C:0.09, G:0.05, T:0.27
Consensus pattern (18 bp):
TAATAACAATGAAAATAA
Found at i:28920085 original size:29 final size:29
Alignment explanation
Indices: 28920046--28920121 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
28920036 ATCATATTCC
*
28920046 TATGGCCCATTAGGCCCAAACCACCTGTA
1 TATGGCCCATTAGGCCCAAACCACATGTA
* * *
28920075 TATGGCCCATTAGGGCCAAATCACATTTA
1 TATGGCCCATTAGGCCCAAACCACATGTA
* *
28920104 TATGGTCCGTTAGGCCCA
1 TATGGCCCATTAGGCCCA
28920122 GTTACATTCA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (29 bp):
TATGGCCCATTAGGCCCAAACCACATGTA
Found at i:28920120 original size:58 final size:57
Alignment explanation
Indices: 28920011--28920121 Score: 141
Period size: 58 Copynumber: 1.9 Consensus size: 57
28920001 AAATTCACAT
* * * * *
28920011 ACCTGTATCTGGCCCATTATGCCCAATCATATTCCTATGGCCCATTAGGCCCAAACC
1 ACCTGTATATGGCCCATTAGGCCAAATCACATTCATATGGCCCATTAGGCCCAAACC
* * *
28920068 ACCTGTATATGGCCCATTAGGGCCAAATCACATTTATATGGTCCGTTAGGCCCA
1 ACCTGTATATGGCCCATTA-GGCCAAATCACATTCATATGGCCCATTAGGCCCA
28920122 GTTACATTCA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 18 0.40
58 27 0.60
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (57 bp):
ACCTGTATATGGCCCATTAGGCCAAATCACATTCATATGGCCCATTAGGCCCAAACC
Found at i:28925066 original size:40 final size:40
Alignment explanation
Indices: 28924986--28925202 Score: 359
Period size: 40 Copynumber: 5.5 Consensus size: 40
28924976 TTCGGATGAC
* *
28924986 ATCCGGGCTAAGTCCTGAAGGCA-TGGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
28925025 ATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
28925065 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
28925105 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
28925145 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTAT
28925185 ATCC-GGCTAAGTCCCGAA
1 ATCCGGGCTAAGTCCCGAA
28925203 TACGCACATA
Statistics
Matches: 170, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
39 36 0.21
40 132 0.78
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
Found at i:28933502 original size:40 final size:40
Alignment explanation
Indices: 28933417--28933635 Score: 311
Period size: 40 Copynumber: 5.5 Consensus size: 40
28933407 TTCGGATGAC
* *
28933417 ATCCGGGCTAAGTCCCGAAGGCA-TGGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCCAGTGACTAT
** *
28933456 ATCCGGGCTAAGTCTTGAAGGCAGTTGTGCCAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCCAGTGACTAT
*
28933496 ATCCGGGCTAAGTCCCGAAGGCATTTGTG-CTGTTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCCAG-TGACTAT
*
28933536 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCCAGTGACTAT
*
28933576 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCCAG-TGACTAT
*
28933616 ATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
28933636 TACTTGGGTT
Statistics
Matches: 164, Mismatches: 12, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
39 38 0.23
40 123 0.75
41 3 0.02
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCCAGTGACTAT
Found at i:28934447 original size:16 final size:19
Alignment explanation
Indices: 28934412--28934448 Score: 53
Period size: 16 Copynumber: 2.1 Consensus size: 19
28934402 AAATCACTAA
28934412 AAATAGTAGAAATGAAATT
1 AAATAGTAGAAATGAAATT
28934431 AAATAGT-G-AAT-AAATT
1 AAATAGTAGAAATGAAATT
28934447 AA
1 AA
28934449 TTAATCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.39
17 3 0.17
18 1 0.06
19 7 0.39
ACGTcount: A:0.59, C:0.00, G:0.14, T:0.27
Consensus pattern (19 bp):
AAATAGTAGAAATGAAATT
Found at i:28936737 original size:29 final size:29
Alignment explanation
Indices: 28936678--28936739 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
28936668 ATCATATTCC
* *
28936678 TATGGCCCATTAGGCCCAAACCACCTGTA
1 TATGACCCATTAGGCCCAAACCACATGTA
* *
28936707 TATGACCCATTAGGCCCAAATCACATTTA
1 TATGACCCATTAGGCCCAAACCACATGTA
28936736 TATG
1 TATG
28936740 GGCCTAACCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.26
Consensus pattern (29 bp):
TATGACCCATTAGGCCCAAACCACATGTA
Found at i:28948377 original size:46 final size:48
Alignment explanation
Indices: 28948305--28948424 Score: 138
Period size: 48 Copynumber: 2.5 Consensus size: 48
28948295 GACAGGACAG
* * * *
28948305 GACAGAAATGAGCCATGTAAGTCCATATCA-GT-TATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGTCCATATCATATATATATGGCATTAGA
*
28948351 GACAGGAATGAGCCATGTAA-TCCCATATTATATATATATGGCATTAGA
1 GACAGGAATGAGCCATGTAAGT-CCATATCATATATATATGGCATTAGA
* **
28948399 GACAGGAATAATTCATGTAAGTCCAT
1 GACAGGAATGAGCCATGTAAGTCCAT
28948425 GTCGAAGACA
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
45 1 0.02
46 26 0.42
47 1 0.02
48 33 0.53
49 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGTCCATATCATATATATATGGCATTAGA
Found at i:28950738 original size:25 final size:25
Alignment explanation
Indices: 28950704--28950764 Score: 113
Period size: 25 Copynumber: 2.4 Consensus size: 25
28950694 GGTGGAGATT
28950704 TGATTTTCATGCAAGCATATGGTAA
1 TGATTTTCATGCAAGCATATGGTAA
28950729 TGATTTTCATGCAAGCATATGGTAA
1 TGATTTTCATGCAAGCATATGGTAA
28950754 TGACTTTTCAT
1 TGA-TTTTCAT
28950765 TATTGACTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 28 0.80
26 7 0.20
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.39
Consensus pattern (25 bp):
TGATTTTCATGCAAGCATATGGTAA
Found at i:28955628 original size:47 final size:47
Alignment explanation
Indices: 28955449--28955999 Score: 901
Period size: 47 Copynumber: 11.6 Consensus size: 47
28955439 TATTTGAATA
28955449 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
28955498 AATGTGAAAGTGTATATATGTGATAAGGCC-AATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
28955544 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
28955593 AATGTGAAAGTGTATATATGTGATAAGG-CTGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATG
28955640 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
28955689 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
28955736 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
28955783 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
28955832 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
28955879 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
28955926 AATGTGAAAGTGTATATATGCGA-CAGAGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATG
* *
28955973 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
28956000 TCCCGAAGGG
Statistics
Matches: 477, Mismatches: 14, Indels: 23
0.93 0.03 0.04
Matches are distributed among these distances:
46 31 0.06
47 295 0.62
48 20 0.04
49 129 0.27
50 2 0.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:28955692 original size:96 final size:94
Alignment explanation
Indices: 28955449--28955999 Score: 901
Period size: 96 Copynumber: 5.8 Consensus size: 94
28955439 TATTTGAATA
28955449 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
28955514 TATGTGATAAGGCC-AATGGCCAATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
28955544 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
28955609 TATGTGATAAGG-CTGAATGGCCAATGTGATG
64 TATGTGATAAGGCCT-AATGGCCGATGTGATG
28955640 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
28955705 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
28955736 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
28955801 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
28955832 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
28955897 TGTGATAAGGCCTAATGGCCGATGTGATG
66 TGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * * *
28955926 AATGTGAAAGTGTATATATGCGA-CAGAGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAA
1 AATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
28955990 ATGTGATAAG
65 ATGTGATAAG
28956000 TCCCGAAGGG
Statistics
Matches: 441, Mismatches: 9, Indels: 13
0.95 0.02 0.03
Matches are distributed among these distances:
93 2 0.00
94 146 0.33
95 77 0.17
96 214 0.49
97 2 0.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:28955751 original size:143 final size:141
Alignment explanation
Indices: 28955449--28955999 Score: 901
Period size: 143 Copynumber: 3.9 Consensus size: 141
28955439 TATTTGAATA
28955449 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
28955514 TATGTGATAAGGCC-AATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
64 TATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTA
28955578 ATGGCCGATGTGATG
127 ATGGCCGATGTGATG
*
28955593 AATGTGAAAGTGTATATATGTGATAAGG-CTGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 AATGTGAAAGTGTATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGTGAAAGTG--TAT
*
28955657 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
63 ATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
28955722 TGGCCGATGTGATG
128 TGGCCGATGTGATG
28955736 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
*
28955801 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
64 TATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
28955866 GGCCGATGTGATG
129 GGCCGATGTGATG
28955879 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * *
28955944 TGCGA-CAGAGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 TGTGATAAG-GCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
28956000 TCCCGAAGGG
Statistics
Matches: 390, Mismatches: 11, Indels: 15
0.94 0.03 0.04
Matches are distributed among these distances:
140 2 0.01
141 53 0.14
142 43 0.11
143 233 0.60
144 32 0.08
145 27 0.07
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (141 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
CCGATGTGATG
Found at i:28956191 original size:36 final size:37
Alignment explanation
Indices: 28956118--28956217 Score: 150
Period size: 36 Copynumber: 2.8 Consensus size: 37
28956108 CCGAGCTCTA
*
28956118 AAGA-CCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
28956154 AAGACCCGATGACTACGTGTGGAGATTTTGTCC-GGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
* * *
28956190 AAGACCCGATAACTTCATGTGGAGATTT
1 AAGACCCGATGACTACGTGTGGAGATTT
28956218 CGTCTGAGCT
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
36 32 0.54
37 27 0.46
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
Found at i:28957697 original size:125 final size:124
Alignment explanation
Indices: 28957480--28957778 Score: 428
Period size: 125 Copynumber: 2.4 Consensus size: 124
28957470 GAGAATTGAG
* * * * *
28957480 AGTGAAATGTCCGGGCTAAATCTCGAAGAGCATTCGTGCTAGTGATGTAT----CCGGACTAAGT
1 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGCCGGACTAAGT
28957541 TCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
66 TCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* ***
28957600 AGTGATGTATCCG-GACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACCGGACTAA
1 AGTGATATATCCGTG-CTAAACCCCGAAGAGCATTCGTGCTAGTGATGTATCCGG-CCGGACTAA
28957664 GTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
64 GTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
** * *
28957725 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTTATGCTAGTGTTATATCCGG
1 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTAGTGATGTATCCGG
28957779 GCTAGGTCCC
Statistics
Matches: 158, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
119 1 0.01
120 42 0.27
125 114 0.72
126 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (124 bp):
AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGCCGGACTAAGT
TCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Done.