Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 151 of 356
Found at i:48604282 original size:27 final size:26
Alignment explanation
Indices: 48604252--48604427 Score: 165
Period size: 27 Copynumber: 6.5 Consensus size: 26
48604242 AAATTGTACA
*
48604252 GCACTAAGTGTGCGATTCGACTATGTT
1 GCACTAAGTGTGCGATT-GACTATGTG
* *
48604279 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCG-ATTGACTATG-TG
* *
48604306 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTG
*
48604333 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-T-TGACTATGTG
* *
48604361 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGA-TTGACTATGTG
* * *
48604388 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGA-TTGACTATGTG
*
48604415 GCACTGAGTGTGC
1 GCACTAAGTGTGC
48604428 AGGCTCAATA
Statistics
Matches: 126, Mismatches: 18, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 99 0.79
28 26 0.21
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTG
Found at i:48604367 original size:82 final size:81
Alignment explanation
Indices: 48604252--48604407 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
48604242 AAATTGTACA
* * *
48604252 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
48604316 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
48604333 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
48604398 TGCGAGTTGA
65 TGCGAATTGA
48604408 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:48604419 original size:82 final size:81
Alignment explanation
Indices: 48604248--48604427 Score: 218
Period size: 82 Copynumber: 2.2 Consensus size: 81
48604238 GATTAAATTG
* * *
48604248 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
48604313 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
48604329 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
48604393 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
48604411 TATAGCACTGAGTGTGC
1 TACAGCACTAAGTGTGC
48604428 AGGCTCAATA
Statistics
Matches: 82, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 20 0.24
82 62 0.76
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:48617419 original size:39 final size:40
Alignment explanation
Indices: 48617376--48617543 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
48617366 CTCGTTCAAG
* * * *
48617376 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
48617415 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
48617455 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
48617495 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
48617535 TGCCTTCGG
1 TGCCTTCGG
48617544 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:48617527 original size:80 final size:80
Alignment explanation
Indices: 48617411--48617596 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
48617401 AGTAACTCAT
* * *
48617411 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
48617475 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
48617490 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
48617554 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
48617571 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
48617597 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:48617556 original size:40 final size:40
Alignment explanation
Indices: 48617413--48617596 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
48617403 TAACTCATAC
* *
48617413 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
48617453 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
48617493 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
48617533 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
48617574 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
48617597 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:48625314 original size:39 final size:40
Alignment explanation
Indices: 48625271--48625438 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
48625261 CTCGTTCAAG
* * * *
48625271 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
48625310 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
48625350 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
48625390 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
48625430 TGCCTTCGG
1 TGCCTTCGG
48625439 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:48625360 original size:40 final size:39
Alignment explanation
Indices: 48625308--48625438 Score: 190
Period size: 40 Copynumber: 3.3 Consensus size: 39
48625298 TAACTCATAC
* *
48625308 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAAAACTCGCACA
* *
48625348 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTA-AAACTCGCACA
*
48625388 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAA-AACTCGCACA
48625428 AATGCCTTCGG
1 AATGCCTTCGG
48625439 ATCTTAGTCC
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
39 3 0.04
40 78 0.96
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGAATTAAAACTCGCACA
Found at i:48625422 original size:80 final size:80
Alignment explanation
Indices: 48625306--48625491 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
48625296 AGTAACTCAT
* * *
48625306 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCC-
*
48625370 GAAT-TAGT-A-TCTCGC
64 GAATATAGTCACT-TAGC
**
48625385 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
48625449 GAATATAGTCACTTAGC
64 GAATATAGTCACTTAGC
*
48625466 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
48625492 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 15 0.16
80 69 0.73
81 9 0.10
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGA
ATATAGTCACTTAGC
Found at i:48625485 original size:40 final size:40
Alignment explanation
Indices: 48625311--48625491 Score: 163
Period size: 40 Copynumber: 4.5 Consensus size: 40
48625301 CTCATACAAT
* * * * *
48625311 GCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACGAAT
1 GCCTTCGGGACTTAGCCCGGA-ATTAATAACTAGCACAAAG
* * * *
48625351 GCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAG
1 GCCTTCGGGACTTAGCCCGGAATTAATAACTAGCACAAAG
* * *
48625391 GCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGAATTAATAACTAGCACAAAG
* * *
48625431 GCCTTC-GGATCTTAGTCC-GAATATAGTCACTTAGCACAAA-
1 GCCTTCGGGA-CTTAGCCCGGAAT-TAATAAC-TAGCACAAAG
48625471 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAGCCCGGA
48625492 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 14, Indels: 11
0.83 0.10 0.08
Matches are distributed among these distances:
39 10 0.08
40 98 0.81
41 13 0.11
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGAATTAATAACTAGCACAAAG
Found at i:48634294 original size:26 final size:21
Alignment explanation
Indices: 48634246--48634285 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
48634236 TTTGAGAATA
48634246 AGCCAAATGAAATATCTAATG
1 AGCCAAATGAAATATCTAATG
48634267 AGCCAAATGAAATATCTAA
1 AGCCAAATGAAATATCTAA
48634286 CTCTCTGAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.23
Consensus pattern (21 bp):
AGCCAAATGAAATATCTAATG
Found at i:48635963 original size:27 final size:27
Alignment explanation
Indices: 48635946--48636096 Score: 176
Period size: 27 Copynumber: 5.6 Consensus size: 27
48635936 ATATTAAGTC
48635946 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
48635973 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
48636001 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
48636028 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * * *
48636055 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
*
48636082 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
48636097 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
27 93 0.78
28 26 0.22
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:48636030 original size:55 final size:54
Alignment explanation
Indices: 48635946--48636096 Score: 248
Period size: 55 Copynumber: 2.8 Consensus size: 54
48635936 ATATTAAGTC
* * *
48635946 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATC-AACT
*
48636001 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAACT
*
48636055 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
48636097 GCACAATTTA
Statistics
Matches: 91, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
54 45 0.49
55 46 0.51
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAACT
Found at i:48639062 original size:28 final size:28
Alignment explanation
Indices: 48639028--48639099 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
48639018 TACTCAATGC
* *
48639028 CTCGCACACTAAGTGCCATACTTGAAAT
1 CTCGCACACTAAGTGCCACACTCGAAAT
* * *
48639056 CTTGCACACTAAGTACCACACTCGATAT
1 CTCGCACACTAAGTGCCACACTCGAAAT
48639084 CTCGCACACTAAGTGC
1 CTCGCACACTAAGTGC
48639100 TGTATATAGT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.31, C:0.32, G:0.14, T:0.24
Consensus pattern (28 bp):
CTCGCACACTAAGTGCCACACTCGAAAT
Found at i:48639146 original size:40 final size:40
Alignment explanation
Indices: 48639085--48639181 Score: 140
Period size: 40 Copynumber: 2.4 Consensus size: 40
48639075 ACTCGATATC
** **
48639085 TCGCACACTAAGTGCTGTATATAGTTGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCAAA
* *
48639125 TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCAAA
48639165 TCGCACACTAAGTGCCA
1 TCGCACACTAAGTGCCA
48639182 CAAATTGAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCAAA
Found at i:48644346 original size:191 final size:189
Alignment explanation
Indices: 48644022--48644395 Score: 500
Period size: 191 Copynumber: 2.0 Consensus size: 189
48644012 ATTGGACTAC
** *
48644022 CCCTAAGCCCAGAATCACACCTATGGCATGTCTTATCCAAACCCCCTTCTTCAATGGCCGGCCCA
1 CCCTAAGCCCAGAATCACACCTATGGCATGTCTTATCCAAACCCCCTTCTTCAATGAACGACCCA
48644087 ACAACCTTAGACCTTTCCCAATTTCATCATGTTTAATGAACCTAATAAAATTCCCTTTCCTAAAA
66 ACAACCTTAGACCTTTCCCAATTTCATCATGTTTAATGAACCTAATAAAATTCCCTTTCCTAAAA
* *
48644152 ATTGACCCCCGATAAATCAACCATCGTGTCTTCGTTTTCCCAAAATTGACTATTCAGACTG
131 ATTGACCCCCAATAAATCAACCATCGTATCTT--TTTTCCCAAAATTGACTATTCAGACTG
* ** * * *
48644213 CCCTAAGCCTAGAATCACTTCTATGGCCTTTCTTATCCAAACCCCCTTCTTTAATGAACGACCCA
1 CCCTAAGCCCAGAATCACACCTATGGCATGTCTTATCCAAACCCCCTTCTTCAATGAACGACCCA
* * * * * *
48644278 ACAACTTTA-ACCCTTTTCCCATTTTCATCATGTTTACTGAACTTAATAAAA-TCCCTTTTCTCA
66 ACAACCTTAGA-CC-TTTCCCAATTTCATCATGTTTAATGAACCTAATAAAATTCCCTTTCCTAA
** * * *
48644341 AAATTGACCCCCAATAAATCAGTCATTGTATCTTTTTTCCCCACATTGACTATTC
129 AAATTGACCCCCAATAAATCAACCATCGTATCTTTTTTCCCAAAATTGACTATTC
48644396 GCCGAAGCTA
Statistics
Matches: 159, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
189 19 0.12
190 1 0.01
191 105 0.66
192 34 0.21
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (189 bp):
CCCTAAGCCCAGAATCACACCTATGGCATGTCTTATCCAAACCCCCTTCTTCAATGAACGACCCA
ACAACCTTAGACCTTTCCCAATTTCATCATGTTTAATGAACCTAATAAAATTCCCTTTCCTAAAA
ATTGACCCCCAATAAATCAACCATCGTATCTTTTTTCCCAAAATTGACTATTCAGACTG
Found at i:48646852 original size:40 final size:39
Alignment explanation
Indices: 48646808--48647032 Score: 290
Period size: 40 Copynumber: 5.7 Consensus size: 39
48646798 GCCACTAGCT
*
48646808 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
*
48646848 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
* *
48646887 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* *
48646927 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* * ** * *
48646967 CGAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
48647007 CAAATG-CTCTCGGGACTTAGCCCGGT
1 CAAATGCCT-TCGGGACTTAGCCCGGT
48647033 TATCATCCGA
Statistics
Matches: 167, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 40 0.24
40 127 0.76
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:48654535 original size:40 final size:39
Alignment explanation
Indices: 48654491--48654715 Score: 254
Period size: 40 Copynumber: 5.7 Consensus size: 39
48654481 GCCACTAGCT
*
48654491 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* *
48654531 CAAATGCCTTCGGGACTTAGCCTGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
* *
48654570 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* *
48654610 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* * * * ** * *
48654650 CGAATGCCGTCGGAACTTAGCCCGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
*
48654690 CAAATG-CTCTCGGGACTTGGCCCGGT
1 CAAATGCCT-TCGGGACTTAGCCCGGT
48654716 TATCATCCGA
Statistics
Matches: 160, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
39 38 0.24
40 122 0.76
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:48654591 original size:79 final size:80
Alignment explanation
Indices: 48654491--48654675 Score: 264
Period size: 79 Copynumber: 2.3 Consensus size: 80
48654481 GCCACTAGCT
* * * * *
48654491 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCTGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
48654556 -TATAATAACTCGCA
66 ATATAATAACTCGCA
*
48654570 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACAAACGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
* *
48654635 ATATAGTAGCTCGCA
66 ATATAATAACTCGCA
* * *
48654650 CGAATGCCGTCGGAACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48654676 ATTAGCCACT
Statistics
Matches: 94, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
79 59 0.63
80 35 0.37
ACGTcount: A:0.26, C:0.28, G:0.24, T:0.23
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
ATATAATAACTCGCA
Found at i:48654703 original size:80 final size:78
Alignment explanation
Indices: 48654491--48654715 Score: 231
Period size: 79 Copynumber: 2.8 Consensus size: 78
48654481 GCCACTAGCT
* * * * * *
48654491 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCTGG
1 CAAATGCCGTCGGAACTTAGCCCGGATATA-TAGCTAGCACAAATGCCTTCGGGACTTAGCCCGG
48654556 TATAATAACTCGCA
65 TATAATAACTCGCA
* * * *
48654570 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACAAACGCCTTCGGGACTTAGCCCGG
1 CAAATGCCGTCGGAACTTAGCCCGGATAT-ATAGCTAGCACAAATGCCTTCGGGACTTAGCCCGG
* *
48654635 ATATAGTAGCTCGCA
65 -TATAATAACTCGCA
* * *
48654650 CGAATGCCGTCGGAACTTAGCCCGGA-AT-TAGCCACTAGCTCAAATG-CTCTCGGGACTTGGCC
1 CAAATGCCGTCGGAACTTAGCCCGGATATATAG---CTAGCACAAATGCCT-TCGGGACTTAGCC
48654712 CGGT
62 CGGT
48654716 TATCATCCGA
Statistics
Matches: 126, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
77 3 0.02
79 63 0.50
80 60 0.48
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (78 bp):
CAAATGCCGTCGGAACTTAGCCCGGATATATAGCTAGCACAAATGCCTTCGGGACTTAGCCCGGT
ATAATAACTCGCA
Found at i:48658351 original size:21 final size:21
Alignment explanation
Indices: 48658312--48658378 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
48658302 CAATATTCAT
48658312 TTCAAT-TCAAATAATCAATATA
1 TTCAATAT-AAAT-ATCAATATA
*
48658334 TTCAATATATATATCAAT-TCA
1 TTCAATATAAATATCAATAT-A
* *
48658355 ATCAATATAAAT-TCAATAAA
1 TTCAATATAAATATCAATATA
48658375 TTCA
1 TTCA
48658379 TCACATACTA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
20 10 0.27
21 17 0.46
22 9 0.24
23 1 0.03
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.37
Consensus pattern (21 bp):
TTCAATATAAATATCAATATA
Found at i:48658394 original size:24 final size:24
Alignment explanation
Indices: 48658349--48658395 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
48658339 TATATATATC
48658349 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
48658373 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
48658396 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:48659194 original size:5 final size:5
Alignment explanation
Indices: 48659184--48659230 Score: 71
Period size: 5 Copynumber: 9.8 Consensus size: 5
48659174 TTTGTTTTAT
*
48659184 TATAA TATAA TATAA TAT-A -ATAA TATAA TAAAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
48659231 TACTTAATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
3 2 0.05
4 2 0.05
5 34 0.89
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
TATAA
Found at i:48659218 original size:23 final size:22
Alignment explanation
Indices: 48659184--48659232 Score: 80
Period size: 23 Copynumber: 2.2 Consensus size: 22
48659174 TTTGTTTTAT
*
48659184 TATAATATAATATAATATAATAA
1 TATAATAAAATATAATATAAT-A
48659207 TATAATAAAATATAATATAATA
1 TATAATAAAATATAATATAATA
48659229 TATA
1 TATA
48659233 CTTAATTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TATAATAAAATATAATATAATA
Found at i:48660845 original size:14 final size:14
Alignment explanation
Indices: 48660809--48660847 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
48660799 TTGTTTCACT
*
48660809 GAAAATGACTTCTA
1 GAAAATGATTTCTA
*
48660823 GAAAATGATTTCTG
1 GAAAATGATTTCTA
48660837 GAAAATGATTT
1 GAAAATGATTT
48660848 ACTTTTTTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (14 bp):
GAAAATGATTTCTA
Found at i:48662302 original size:30 final size:30
Alignment explanation
Indices: 48662266--48662324 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
48662256 GTAACCGAAG
48662266 CTAGTTTAAACCACACACTTAGTGCCAAAT
1 CTAGTTTAAACCACACACTTAGTGCCAAAT
* * *
48662296 CTAGTTTAAATCGCACACTTGGTGCCAAA
1 CTAGTTTAAACCACACACTTAGTGCCAAA
48662325 ACTTCCGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (30 bp):
CTAGTTTAAACCACACACTTAGTGCCAAAT
Found at i:48663883 original size:16 final size:16
Alignment explanation
Indices: 48663852--48663888 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
48663842 ATGTGAATAA
48663852 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
48663868 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
48663884 TATTA
1 TATTA
48663889 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:48666264 original size:85 final size:85
Alignment explanation
Indices: 48666121--48666299 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
48666111 GGCCGGCCAT
48666121 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
48666186 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
48666206 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
48666271 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
48666291 GGGCATGGG
1 GAGCATGGG
48666300 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:48667629 original size:49 final size:48
Alignment explanation
Indices: 48667551--48668008 Score: 637
Period size: 47 Copynumber: 9.6 Consensus size: 48
48667541 TATCTGAATA
* *
48667551 AATGTGAAATTG-TATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
48667598 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGT-TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
48667647 AATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
48667694 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGT-TATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
48667743 AATGTGAAAGTG-TATATATGTGATAAGGTCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTTATATATGTGATAAGGCCGAATGGCCAATGTGATG
48667790 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGT-TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
48667839 AATGTGAACA-TG-TGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
48667886 AATGTGAACA-TG-CATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
48667933 AATGTGAACA-TGTGTATATATGTGATAAGGCCGAATGACCAATGTGATG
1 AATGTGAA-AGTGT-TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
48667982 GATGTGGAAGTG-TATAAATGTGATAAG
1 AATGTGAAAGTGTTATATATGTGATAAG
48668009 TCCCGAAGGG
Statistics
Matches: 383, Mismatches: 18, Indels: 20
0.91 0.04 0.05
Matches are distributed among these distances:
47 204 0.53
48 1 0.00
49 177 0.46
50 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.29
Consensus pattern (48 bp):
AATGTGAAAGTGTTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:48667661 original size:96 final size:96
Alignment explanation
Indices: 48667551--48668008 Score: 694
Period size: 96 Copynumber: 4.8 Consensus size: 96
48667541 TATCTGAATA
* *
48667551 AATGTGAAATTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
* *
48667616 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
* *
48667647 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
* *
48667712 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
*
48667743 AATGTGAAAGTGTATATATGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
48667808 TATGTGATAAGGCCGAATGGCCAATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
48667839 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG--CA
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATA
*
48667900 TATATGAGATAAGGCCGAATGGCCAATGTGATG
64 TATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
48667933 AATGTGAACATGTGTATATATGTGATAAGGCCGAATGACCAATGTGATGGATGTGGAAGTGTATA
1 AATGTGAA-A-GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
48667998 -A-ATGTGATAAG
64 TATATGTGATAAG
48668009 TCCCGAAGGG
Statistics
Matches: 336, Mismatches: 19, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
94 43 0.13
95 1 0.00
96 288 0.86
97 3 0.01
98 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.29
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:48670502 original size:38 final size:38
Alignment explanation
Indices: 48670438--48670512 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
48670428 AATCCGAGTT
*
48670438 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
48670476 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
48670513 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:48670628 original size:40 final size:40
Alignment explanation
Indices: 48670573--48671006 Score: 679
Period size: 40 Copynumber: 10.8 Consensus size: 40
48670563 GACGATGATT
48670573 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
48670613 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
* *
48670653 CGGGCTAAGTTCCGAAGATCATTCATGCTAGTGATGTATC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
**
48670693 CGGGCTAAGTTTCGAAGAGCATTCATGCTAGTGATGTATC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
*
48670733 CGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATGTATC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
* *
48670773 CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
48670813 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
48670853 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
* * *
48670893 CGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
* ** * * * *
48670933 CGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATATC
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
** * *
48670973 CGGGCTGGGTCCCGAAGAGCAATCATGCTGGTGA
1 CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
48671007 CGTGTATTCG
Statistics
Matches: 369, Mismatches: 25, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 369 1.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATC
Found at i:48672402 original size:85 final size:85
Alignment explanation
Indices: 48672259--48672436 Score: 347
Period size: 85 Copynumber: 2.1 Consensus size: 85
48672249 GGCTGGCCAT
48672259 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
48672324 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
48672344 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
48672409 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
48672429 GGGCATGG
1 GAGCATGG
48672437 CAATAAATAT
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.38, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:48673777 original size:49 final size:47
Alignment explanation
Indices: 48673698--48674245 Score: 802
Period size: 47 Copynumber: 11.6 Consensus size: 47
48673688 TATCTGAATA
*
48673698 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
48673745 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
48673794 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
48673841 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
48673890 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
48673937 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
48673986 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
48674033 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
48674080 AATGTGAACA-TG--TGTATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
48674125 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
48674172 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGACCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
48674219 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
48674246 TCCCGAAGGG
Statistics
Matches: 472, Mismatches: 19, Indels: 20
0.92 0.04 0.04
Matches are distributed among these distances:
45 43 0.09
46 1 0.00
47 289 0.61
49 138 0.29
50 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:48673806 original size:96 final size:96
Alignment explanation
Indices: 48673698--48674245 Score: 823
Period size: 96 Copynumber: 5.8 Consensus size: 96
48673688 TATCTGAATA
*
48673698 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
* *
48673763 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
* *
48673794 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
* *
48673859 TATGTGATAAGGCCTAATGGCCGATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
48673890 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
48673955 TATGTGATAAGGCCGAATGGCCAATGTGATG
66 TATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
48673986 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG--TG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATA
*
48674047 TATGTGTGATAAGGCCGAATGGCCAATGTGATG
64 TATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
48674080 AATGTGAACA-TG--TGTATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG--CA
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATA
*
48674139 TATATGAGATAAGGCCGAATGGCCAATGTGATG
64 TATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
48674172 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGACCAATGTGATGGATGTGGAAGTGTATA-A
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
48674236 -ATGTGATAAG
66 TATGTGATAAG
48674246 TCCCGAAGGG
Statistics
Matches: 423, Mismatches: 21, Indels: 18
0.92 0.05 0.04
Matches are distributed among these distances:
91 1 0.00
92 84 0.20
93 1 0.00
94 93 0.22
95 1 0.00
96 241 0.57
97 2 0.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (96 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:48674078 original size:22 final size:22
Alignment explanation
Indices: 48674051--48674123 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
48674041 CATGTGTATG
48674051 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
48674073 TGTGATGAATG-TGAACATGTG--TA
1 TGTGAT-AAGGCCG-A-ATG-GCCAA
48674096 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
48674118 TGTGAT
1 TGTGAT
48674124 GAATGTGAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
20 1 0.03
21 3 0.08
22 18 0.47
23 12 0.32
24 3 0.08
25 1 0.03
ACGTcount: A:0.30, C:0.12, G:0.32, T:0.26
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:48679252 original size:43 final size:43
Alignment explanation
Indices: 48679199--48679367 Score: 191
Period size: 43 Copynumber: 4.0 Consensus size: 43
48679189 GTTATCGAGA
* * *
48679199 TGTGAATACGTGTAAGACCATCTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* *
48679242 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * * *
48679285 TATGATTTCATGTAAGACCCTGTCTGGGACAGTGGC-TTCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATT-GTAT
* * *
48679327 ATGTGATAACATGTAAGACCATATCTGGGA-TTTGGCATTGT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
48679368 GTGAGCTTAT
Statistics
Matches: 106, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
42 8 0.08
43 98 0.92
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:48682856 original size:20 final size:21
Alignment explanation
Indices: 48682817--48682856 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
48682807 CAGGGCACAA
* *
48682817 GCCCGTGTGGAAGGGTAGCAG
1 GCCCGTATGGAAGAGTAGCAG
48682838 GCCCGTATGG-AGAGTAGCA
1 GCCCGTATGGAAGAGTAGCA
48682857 CACACGTACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.23, C:0.20, G:0.42, T:0.15
Consensus pattern (21 bp):
GCCCGTATGGAAGAGTAGCAG
Found at i:48690347 original size:21 final size:21
Alignment explanation
Indices: 48690323--48690371 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
48690313 AAAACAGGGC
* *
48690323 ACACGTCCGTGTAGAAGGGTA
1 ACACGCCCGTGTAGAAGGATA
* *
48690344 ACACGCCCGTGTGGGAGGATA
1 ACACGCCCGTGTAGAAGGATA
48690365 ACACGCC
1 ACACGCC
48690372 TGTGCCCCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.27, C:0.27, G:0.33, T:0.14
Consensus pattern (21 bp):
ACACGCCCGTGTAGAAGGATA
Found at i:48692271 original size:79 final size:80
Alignment explanation
Indices: 48692173--48692355 Score: 230
Period size: 79 Copynumber: 2.3 Consensus size: 80
48692163 TACTCGTTCA
* *
48692173 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
48692236 ATTTAGTAAC-TCGCACC
64 ATATAGTAACTTAGCA-C
**
48692253 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
* *
48692317 ATGGTCACTTAGCAC
66 ATAGTAACTTAGCAC
*
48692332 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
48692356 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:48692355 original size:40 final size:40
Alignment explanation
Indices: 48692171--48692355 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
48692161 GCTACTCGTT
* *
48692171 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
48692211 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
48692251 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
48692290 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
48692331 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48692356 CATCATTCGA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:48700328 original size:79 final size:80
Alignment explanation
Indices: 48700219--48700401 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 80
48700209 TACTCGTTCA
* *
48700219 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGA
*
48700283 TTTAGTAACTT-GCACC
65 TATAGTAACTTAGCA-C
* * **
48700299 AATGCCTTCGGG-CTTAGCCTGGA-ATTAGTAGCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
48700362 TATGGTCACTTAGCAC
65 TATAGTAACTTAGCAC
*
48700378 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
48700402 CATCATTCTC
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 4 0.05
79 59 0.67
80 25 0.28
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:48700342 original size:39 final size:40
Alignment explanation
Indices: 48700217--48700401 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
48700207 GCTACTCGTT
*
48700217 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
48700257 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
48700297 CCAATGCCTTCGGG-CTTAGCCTGGAATTAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
48700336 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
48700377 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48700402 CATCATTCTC
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 76 0.63
41 13 0.11
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:48702810 original size:47 final size:46
Alignment explanation
Indices: 48702735--48702911 Score: 155
Period size: 47 Copynumber: 3.8 Consensus size: 46
48702725 GGTTAAGTGC
* * *
48702735 CGATGCCAAGTCCCAGACATGGTTTTACACTGGCTCATAGCTCAAGT
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATA-CTCAAGT
* * * *
48702782 TGATGCCATGTCCCAAACATGGTCTTACACTGACT-ATCATCTCTTAGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCAT-A-CTC-AAGT
* *
48702830 CGAT-ACATGTCCCAAACAT-GTCTTACACTAGCCCTCAT-CTCAATGT
1 CGATGCCATGTCCCAAACATGGTCTTACACT-G-GCTCATACTCAA-GT
* * *
48702876 CGATGCCATGTCCCAGACGTGGTCTTAGACTGGCTC
1 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTC
48702912 TCATAATGGG
Statistics
Matches: 104, Mismatches: 18, Indels: 17
0.75 0.13 0.12
Matches are distributed among these distances:
45 1 0.01
46 23 0.22
47 62 0.60
48 16 0.15
49 2 0.02
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (46 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATACTCAAGT
Found at i:48702899 original size:94 final size:93
Alignment explanation
Indices: 48702775--48702955 Score: 229
Period size: 94 Copynumber: 1.9 Consensus size: 93
48702765 TGGCTCATAG
* * **
48702775 CTCAAGTTGATGCCATGTCCCAAACATGGTCTTACACTGACTATCAT-CTCTTAGCCGATACATG
1 CTCAAGTCGATGCCATGTCCCAAACATGGTCTTACACTGACTATCATAAT-GGAGCCGATACATG
48702839 TCCCAAACATGTCTTACACTAGCCCTCAT
65 TCCCAAACATGTCTTACACTAGCCCTCAT
* * * * * * *
48702868 CTCAATGTCGATGCCATGTCCCAGACGTGGTCTTAGACTGGCTCTCATAATGGGGCCGATGCATG
1 CTCAA-GTCGATGCCATGTCCCAAACATGGTCTTACACTGACTATCATAATGGAGCCGATACATG
*
48702933 TCCCAGACATGTCTTACACTAGC
65 TCCCAAACATGTCTTACACTAGC
48702956 TCACACAAGT
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
93 5 0.07
94 68 0.92
95 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (93 bp):
CTCAAGTCGATGCCATGTCCCAAACATGGTCTTACACTGACTATCATAATGGAGCCGATACATGT
CCCAAACATGTCTTACACTAGCCCTCAT
Found at i:48709059 original size:18 final size:18
Alignment explanation
Indices: 48709020--48709059 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
48709010 TAAAAATAAA
* * *
48709020 AAAAATGTAAAATATTTG
1 AAAAATGTAAAAAAGTTC
48709038 AAAAATGTAAAAAAGTTC
1 AAAAATGTAAAAAAGTTC
48709056 AAAA
1 AAAA
48709060 TTAAATGTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.62, C:0.03, G:0.10, T:0.25
Consensus pattern (18 bp):
AAAAATGTAAAAAAGTTC
Found at i:48710719 original size:17 final size:17
Alignment explanation
Indices: 48710697--48710734 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
48710687 CTTTTGATTG
48710697 TGATTTCTACGTTTTTA
1 TGATTTCTACGTTTTTA
*
48710714 TGATTTCTACGTTTTTG
1 TGATTTCTACGTTTTTA
48710731 TGAT
1 TGAT
48710735 CGGTGCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.16, C:0.11, G:0.16, T:0.58
Consensus pattern (17 bp):
TGATTTCTACGTTTTTA
Found at i:48711512 original size:44 final size:43
Alignment explanation
Indices: 48711445--48711604 Score: 112
Period size: 43 Copynumber: 3.7 Consensus size: 43
48711435 CTGATATATA
* * *
48711445 ATTTCGTGTACGACCACGTCTGGGATGTTGGCATCGAT-TTGAG
1 ATTTCGTGTAAGATCATGTCTGGGATGTTGGCATCGATGTT-AG
** * *
48711488 ATTTACGTGTAAGATCATGTCTGGGACATCGGCATCG-TGTTTG
1 ATTT-CGTGTAAGATCATGTCTGGGATGTTGGCATCGATGTTAG
* * *
48711531 ATTTCGTGTAAGACTC-TGTCTAGGATAG-TGGCATCGATATTTG
1 ATTTCGTGTAAGA-TCATGTCTGGGAT-GTTGGCATCGATGTTAG
* * * * * *
48711574 ATTACATGTAAGACCAAGTTTGGGACGTTGG
1 ATTTCGTGTAAGATCATGTCTGGGATGTTGG
48711605 TATTGTACGA
Statistics
Matches: 91, Mismatches: 19, Indels: 14
0.73 0.15 0.11
Matches are distributed among these distances:
42 26 0.29
43 37 0.41
44 28 0.31
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.34
Consensus pattern (43 bp):
ATTTCGTGTAAGATCATGTCTGGGATGTTGGCATCGATGTTAG
Found at i:48714153 original size:48 final size:48
Alignment explanation
Indices: 48714062--48714421 Score: 596
Period size: 48 Copynumber: 7.5 Consensus size: 48
48714052 AAGATAAATA
*
48714062 TATATGTGGTAAAGCCGAATGG-AAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
48714109 TATATGTGGTAAAGCCGAATGGCAAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
48714157 TATATGTGGTAAAGCCGAATGGCAAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
48714205 TATATGTGGTAAAGCCGAATGGCTAGTGTGAACTATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
48714253 TATACGTGGTAAAGCCGAATGGCTAGTGTGAACTATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
48714301 TATACGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
48714349 TATACGTGGTAAAGTCGAATGGCTAATGCGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
48714397 TATATGTGGTAAAGCCGAATGGCTA
1 TATATGTGGTAAAGCCGAATGGCTA
48714422 GTGATTCGGC
Statistics
Matches: 302, Mismatches: 10, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
47 22 0.07
48 280 0.93
ACGTcount: A:0.35, C:0.08, G:0.28, T:0.29
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:48714644 original size:37 final size:37
Alignment explanation
Indices: 48714594--48714696 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
48714584 GGAAATGTAT
48714594 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
48714631 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
48714668 TCCAGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
48714697 CGACTATTCG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:48716073 original size:40 final size:40
Alignment explanation
Indices: 48715971--48716102 Score: 234
Period size: 40 Copynumber: 3.4 Consensus size: 40
48715961 ATTGAGAGTT
48715971 ATATATCCGGGCTAAGT-CCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
48716010 ATATAT-C-GGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
48716048 ATATATCCGGGCTAAGTCCCAAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
48716088 ATATATCCGGGCTAA
1 ATATATCCGGGCTAA
48716103 ACCTCAAGGC
Statistics
Matches: 89, Mismatches: 1, Indels: 5
0.94 0.01 0.05
Matches are distributed among these distances:
37 8 0.09
38 29 0.33
39 7 0.08
40 45 0.51
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
Found at i:48716115 original size:78 final size:77
Alignment explanation
Indices: 48715971--48716121 Score: 227
Period size: 78 Copynumber: 1.9 Consensus size: 77
48715961 ATTGAGAGTT
* *
48715971 ATATATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGTGATATATCGGCTAAGTCCCGAAGAGCA
1 ATATATCCGGGCTAAGTCCAAAGAGCATTCGTGCTAGTGATATATCGGCTAAGACCCGAAGAGCA
48716036 TTCGTGCTAGTG
66 TTCGTGCTAGTG
48716048 ATATATCCGGGCTAAGTCCCAAAGAGCATTCGTGCTAGTGATATATCCGGGCTAA-ACCTC-AAG
1 ATATATCCGGGCTAAGT-CCAAAGAGCATTCGTGCTAGTGATATAT-C-GGCTAAGACC-CGAAG
48716111 -GCATTCGTGCT
62 AGCATTCGTGCT
48716122 GGAATTATGA
Statistics
Matches: 68, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
77 17 0.25
78 38 0.56
79 6 0.09
80 7 0.10
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (77 bp):
ATATATCCGGGCTAAGTCCAAAGAGCATTCGTGCTAGTGATATATCGGCTAAGACCCGAAGAGCA
TTCGTGCTAGTG
Found at i:48716165 original size:28 final size:28
Alignment explanation
Indices: 48716133--48716201 Score: 120
Period size: 28 Copynumber: 2.5 Consensus size: 28
48716123 GAATTATGAG
*
48716133 GCACTGTGTGTGCAAGTTCTTCAATCGA
1 GCACTATGTGTGCAAGTTCTTCAATCGA
48716161 GCACTATGTGTGCAAGTTCTTCAATCGA
1 GCACTATGTGTGCAAGTTCTTCAATCGA
*
48716189 GCGCTATGTGTGC
1 GCACTATGTGTGC
48716202 GAAATCAGTC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.32
Consensus pattern (28 bp):
GCACTATGTGTGCAAGTTCTTCAATCGA
Found at i:48719787 original size:48 final size:48
Alignment explanation
Indices: 48719729--48720089 Score: 587
Period size: 48 Copynumber: 7.5 Consensus size: 48
48719719 AAGATAAATA
* * *
48719729 TATATGTGGTAAAGCCGAATGGCAAATGTGAAATATATATAAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
48719777 TATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATTAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
48719825 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
**
48719873 TATATGTGGTAAAGCCGAATGGAAAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
48719921 TATATGTGGTAAAGTCGAATGGCTAGTGTGAACTATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* * *
48719969 TATACGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
48720017 TATACGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
48720065 TATATGTGGTAAAGCCGAATGGCTA
1 TATATGTGGTAAAGCCGAATGGCTA
48720090 GTGATTCAGC
Statistics
Matches: 294, Mismatches: 19, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 294 1.00
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:48720314 original size:37 final size:37
Alignment explanation
Indices: 48720264--48720363 Score: 173
Period size: 37 Copynumber: 2.7 Consensus size: 37
48720254 AATGTATTCT
48720264 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
*
48720301 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
* *
48720338 AGGTAAGACCCGATAACTACGTGTGG
1 GGGTAAGACCCGATGACTACGTGTGG
48720364 CGACTATTCG
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCC
Found at i:48735989 original size:20 final size:20
Alignment explanation
Indices: 48735951--48735989 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48735941 TGTCACATAT
*
48735951 ATCATGAACTCAGGCCACAA
1 ATCATGAACTCAGACCACAA
* *
48735971 ATCATGAGCTCAGATCACA
1 ATCATGAACTCAGACCACA
48735990 TAATTCCTAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.38, C:0.28, G:0.15, T:0.18
Consensus pattern (20 bp):
ATCATGAACTCAGACCACAA
Found at i:48738870 original size:21 final size:21
Alignment explanation
Indices: 48738846--48738885 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
48738836 AACTTACCAA
*
48738846 TTCAGCTCGATAAAGCTTATG
1 TTCAGCTCAATAAAGCTTATG
*
48738867 TTCAGCTTAATAAAGCTTA
1 TTCAGCTCAATAAAGCTTA
48738886 CCGTTTTTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (21 bp):
TTCAGCTCAATAAAGCTTATG
Found at i:48747408 original size:35 final size:35
Alignment explanation
Indices: 48747369--48747460 Score: 98
Period size: 35 Copynumber: 2.6 Consensus size: 35
48747359 ATTCGATTAC
** * *
48747369 ATGTGAGTTTATATTGAATTTGTGTATTTGGTCAT
1 ATGTGAGTTTATATTGAATTTGCATATTCGGCCAT
* *
48747404 ATGTGAAG-TTATCTTGAATGTGCATATTCGGCCAT
1 ATGTG-AGTTTATATTGAATTTGCATATTCGGCCAT
48747439 ATGTGA-TGTTATATTGAATTTG
1 ATGTGAGT-TTATATTGAATTTG
48747461 AACTATAGGT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
34 1 0.02
35 43 0.93
36 2 0.04
ACGTcount: A:0.25, C:0.07, G:0.23, T:0.46
Consensus pattern (35 bp):
ATGTGAGTTTATATTGAATTTGCATATTCGGCCAT
Found at i:48749718 original size:50 final size:50
Alignment explanation
Indices: 48749656--48749786 Score: 244
Period size: 50 Copynumber: 2.6 Consensus size: 50
48749646 CTGGTACGCA
*
48749656 TAGTAGCTTGCACTTAGTACTACACACGTGACCTCACCATCTAATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACATG
*
48749706 TAGTAGCCTGCACTTAGTACTACACACTTGACCTCACCATCTAATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACATG
48749756 TAGTAGCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
48749787 TCACAGTTTT
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 78 1.00
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCATCTAATACATG
Found at i:48759843 original size:25 final size:25
Alignment explanation
Indices: 48759814--48759866 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
48759804 CAAGGTGGCA
*
48759814 CCACTTAGGGGACAAGGAATTGACG
1 CCACTTAGGGGACAAGGAAGTGACG
48759839 CCACTTAGGGGACAAGGAAGTGACG
1 CCACTTAGGGGACAAGGAAGTGACG
48759864 CCA
1 CCA
48759867 TAGAGGAAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.32, C:0.23, G:0.32, T:0.13
Consensus pattern (25 bp):
CCACTTAGGGGACAAGGAAGTGACG
Found at i:48759879 original size:25 final size:24
Alignment explanation
Indices: 48759814--48759880 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 24
48759804 CAAGGTGGCA
* *
48759814 CCACTTAGGGGACAAGGAATTGACG
1 CCAC-TAGGGAACAAGGAAGTGACG
*
48759839 CCACTTAGGGGACAAGGAAGTGACG
1 CCAC-TAGGGAACAAGGAAGTGACG
48759864 CCA-TAGAGGAAGCAAGG
1 CCACTAG-GGAA-CAAGG
48759881 GGTCCAAGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
23 3 0.08
24 3 0.08
25 32 0.84
ACGTcount: A:0.34, C:0.19, G:0.34, T:0.12
Consensus pattern (24 bp):
CCACTAGGGAACAAGGAAGTGACG
Found at i:48760610 original size:27 final size:27
Alignment explanation
Indices: 48760579--48760881 Score: 182
Period size: 27 Copynumber: 11.3 Consensus size: 27
48760569 TTAGTTTTCC
* **
48760579 AAATTACTAAAATACCCTCGACTTGTA
1 AAATTACTAAAATACCCTCGATTTACA
* *
48760606 AAATTACCAAAGTACCCTCGATTTACA
1 AAATTACTAAAATACCCTCGATTTACA
*
48760633 AAATTAC-AAATTTACCCTCGATTTACA
1 AAATTACTAAA-ATACCCTCGATTTACA
*** * *
48760660 AAATTACTATTTTACCTTCAATTTACA
1 AAATTACTAAAATACCCTCGATTTACA
****
48760687 AAATTA-TCGTTTACCCTCGATTTACA
1 AAATTACTAAAATACCCTCGATTTACA
*** *
48760713 AAATTACTATTTTACCCTCCATTTACA
1 AAATTACTAAAATACCCTCGATTTACA
* ***
48760740 GAATTACTATTTTACCCTCGATTTACA
1 AAATTACTAAAATACCCTCGATTTACA
** * *
48760767 AAATTATCGT--TTTACCTTTGATTTACA
1 AAATTA-C-TAAAATACCCTCGATTTACA
* **** * *
48760794 GAATTACTGTTTTCCCCTCAATTTACA
1 AAATTACTAAAATACCCTCGATTTACA
***
48760821 AAATTACTATTTTACCCTCGATTTACA
1 AAATTACTAAAATACCCTCGATTTACA
***
48760848 AAATTACTATTTTACCCTCGATTTACA
1 AAATTACTAAAATACCCTCGATTTACA
*
48760875 GAATTAC
1 AAATTAC
48760882 AGTTTTACCC
Statistics
Matches: 237, Mismatches: 32, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
25 1 0.00
26 26 0.11
27 207 0.87
28 2 0.01
29 1 0.00
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.38
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCGATTTACA
Found at i:48760826 original size:81 final size:81
Alignment explanation
Indices: 48760618--48760962 Score: 435
Period size: 81 Copynumber: 4.3 Consensus size: 81
48760608 ATTACCAAAG
*** * *
48760618 TACCCTCGATTTACAAAATTACAAATTTACCCTCGATTTACAAAATTACTATTTTACCTTCAATT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATT
*
48760683 TACAAAATTATC-GTT
66 TACAAAATTATCATTT
* * *
48760698 TACCCTCGATTTACAAAATTACTATTTTACCCTCCATTTACAGAATTACTATTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATT
*
48760763 TACAAAATTATCGTTT
66 TACAAAATTATCATTT
* * * * *
48760779 TACCTTTGATTTACAGAATTACTGTTTTCCCCTCAATTTACAAAATTACTATTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATT
48760844 TACAAAATTA-CTATTT
66 TACAAAATTATC-ATTT
* * * * * *
48760860 TACCCTCGATTTACAGAATTACAGTTTTACCCTTGATTTA-AAGTATTACTGTTTTACCTTCGAT
1 TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAA-AATTACTATTTTACCCTCGAT
* *
48760924 TTACAGAATTACCATTT
65 TTACAAAATTATCATTT
*
48760941 TACCCTCGATTTATAAAATTAC
1 TACCCTCGATTTACAAAATTAC
48760963 CATTTTGCTC
Statistics
Matches: 234, Mismatches: 27, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
80 74 0.32
81 159 0.68
82 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.06, T:0.41
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATT
TACAAAATTATCATTT
Found at i:48760887 original size:27 final size:26
Alignment explanation
Indices: 48760618--48760968 Score: 382
Period size: 27 Copynumber: 13.0 Consensus size: 26
48760608 ATTACCAAAG
*
48760618 TACCCTCGATTTACAAAATTACAAATT
1 TACCCTCGATTTACAAAATTAC-ATTT
48760645 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-ATTT
* * *
48760672 TACCTTCAATTTACAAAATTATC-GTT
1 TACCCTCGATTTACAAAATTA-CATTT
48760698 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-ATTT
* *
48760725 TACCCTCCATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-ATTT
*
48760752 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCTCGATTTACAAAATTA-CATTT
* * * *
48760779 TACCTTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTAC-ATTT
* *
48760806 TCCCCTCAATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-ATTT
48760833 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-ATTT
*
48760860 TACCCTCGATTTACAGAATTACAGTTT
1 TACCCTCGATTTACAAAATTACA-TTT
* * *
48760887 TACCCTTGATTTA-AAGTATTACTGTTT
1 TACCCTCGATTTACAA-AATTAC-ATTT
* *
48760914 TACCTTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTA-CATTT
*
48760941 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTA-CATTT
48760968 T
1 T
48760969 GCTCCTAGAG
Statistics
Matches: 277, Mismatches: 37, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
25 1 0.00
26 24 0.09
27 248 0.90
28 4 0.01
ACGTcount: A:0.32, C:0.21, G:0.06, T:0.41
Consensus pattern (26 bp):
TACCCTCGATTTACAAAATTACATTT
Found at i:48761331 original size:73 final size:67
Alignment explanation
Indices: 48761189--48761332 Score: 162
Period size: 67 Copynumber: 2.1 Consensus size: 67
48761179 GAGGAAGCGT
* * *
48761189 TCTGGCAGCCTCGCTGCAATCTAGTAGCCTCGCCACATATATTAGTTCTGGTGACTTGGCCACAA
1 TCTGGCAACCTCGCTGCAATCTAGTAGCCTCGCCACATATATTAGTTCTGGTGACCTAGCCACAA
48761254 TA
66 TA
* * ** *
48761256 TCTGGCAACCTCGCTGCAATCTGGTGGTTTCGCCACATATATATATATCTGTTCTGGTGGCCTAG
1 TCTGGCAACCTCGCTGCAATCTAGTAGCCTCGCCAC--ATATAT-TA---GTTCTGGTGACCTAG
48761321 CCACAATA
60 CCACAATA
48761329 TCTG
1 TCTG
48761333 TATCTGGTGA
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
67 31 0.49
69 6 0.10
70 2 0.03
73 24 0.38
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.31
Consensus pattern (67 bp):
TCTGGCAACCTCGCTGCAATCTAGTAGCCTCGCCACATATATTAGTTCTGGTGACCTAGCCACAA
TA
Found at i:48761352 original size:27 final size:26
Alignment explanation
Indices: 48761300--48761359 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
48761290 ACATATATAT
*
48761300 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
48761326 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
48761353 ATATCTG
1 ATATCTG
48761360 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:48761525 original size:31 final size:31
Alignment explanation
Indices: 48761478--48761550 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
48761468 TTGCTTTCAC
* * * *
48761478 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTAATTCTGTCACCTAATACTG
* *
48761509 ATTTTGATTCTAATTCTGTCACCTAATTCTG
1 ATTCTGATTCTAATTCTGTCACCTAATACTG
48761540 ATTCTGATTCT
1 ATTCTGATTCT
48761551 GTCATCTAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTAATTCTGTCACCTAATACTG
Found at i:48761541 original size:25 final size:25
Alignment explanation
Indices: 48761513--48761575 Score: 108
Period size: 25 Copynumber: 2.5 Consensus size: 25
48761503 ATACTGATTT
*
48761513 TGATTCTAATTCTGTCACCTAATTC
1 TGATTCTGATTCTGTCACCTAATTC
*
48761538 TGATTCTGATTCTGTCATCTAATTC
1 TGATTCTGATTCTGTCACCTAATTC
48761563 TGATTCTGATTCT
1 TGATTCTGATTCT
48761576 CATTTTGATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.48
Consensus pattern (25 bp):
TGATTCTGATTCTGTCACCTAATTC
Found at i:48761543 original size:6 final size:6
Alignment explanation
Indices: 48761478--48761596 Score: 66
Period size: 6 Copynumber: 19.3 Consensus size: 6
48761468 TTGCTTTCAC
* * * *
48761478 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTTTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
48761527 -TCACCTA ATTCTG ATTCTG ATTCTG -TCATCTA ATTCTG ATTCTG ATTCTC
1 AT--TCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
*
48761577 ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
48761597 AATGTTTCTT
Statistics
Matches: 84, Mismatches: 18, Indels: 22
0.68 0.15 0.18
Matches are distributed among these distances:
5 5 0.06
6 67 0.80
7 9 0.11
8 3 0.04
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:48761564 original size:13 final size:13
Alignment explanation
Indices: 48761517--48761564 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
48761507 TGATTTTGAT
48761517 TCTAATTCTGTCA
1 TCTAATTCTGTCA
*
48761530 CCTAATTCTG--A
1 TCTAATTCTGTCA
*
48761541 TTCTGATTCTGTCA
1 -TCTAATTCTGTCA
48761555 TCTAATTCTG
1 TCTAATTCTG
48761565 ATTCTGATTC
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
11 1 0.04
12 8 0.29
13 18 0.64
14 1 0.04
ACGTcount: A:0.21, C:0.23, G:0.10, T:0.46
Consensus pattern (13 bp):
TCTAATTCTGTCA
Found at i:48763011 original size:25 final size:25
Alignment explanation
Indices: 48762982--48763035 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
48762972 GGCAAGGTGG
48762982 CGCCACTTAGGGGACAAGGAAGTGA
1 CGCCACTTAGGGGACAAGGAAGTGA
*
48763007 CGCCACTTAGGGGACAAGGAAGTGG
1 CGCCACTTAGGGGACAAGGAAGTGA
48763032 CGCC
1 CGCC
48763036 TTAGAGGAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.28, C:0.24, G:0.37, T:0.11
Consensus pattern (25 bp):
CGCCACTTAGGGGACAAGGAAGTGA
Found at i:48763821 original size:27 final size:27
Alignment explanation
Indices: 48763791--48764143 Score: 406
Period size: 27 Copynumber: 13.1 Consensus size: 27
48763781 TACCAAAGTG
*
48763791 CCCTTGATTTACAAAATTACTATTTTA
1 CCCTCGATTTACAAAATTACTATTTTA
* **
48763818 CCCTCAATTTACAAAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACTATTTTA
**
48763845 CCCTTAATTTA-AAAATTACTATTTTA
1 CCCTCGATTTACAAAATTACTATTTTA
* * *
48763871 CCATCGATTTACAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACTATTTTA
* * *
48763898 CCTTCGATTTACAAAATTATTGTTTTA
1 CCCTCGATTTACAAAATTACTATTTTA
* *
48763925 CCCTTGATTTACAGAATTACTATTTTA
1 CCCTCGATTTACAAAATTACTATTTTA
* *
48763952 CCCTCGATTTACAGAATTA-TCGTTTTA
1 CCCTCGATTTACAAAATTACT-ATTTTA
* *
48763979 CCCTCGATTTAAAAAATTACTGTTTTA
1 CCCTCGATTTACAAAATTACTATTTTA
48764006 CCCTCGATTTACAAAATTACTATTTTA
1 CCCTCGATTTACAAAATTACTATTTTA
*
48764033 CCCTCGATTTACAAAATTAC-AGTATTA
1 CCCTCGATTTACAAAATTACTA-TTTTA
* * *
48764060 CCCTCGATTTATAGAATTACTATTTTG
1 CCCTCGATTTACAAAATTACTATTTTA
* ** *
48764087 CCTTCGATTTACAAAATTACCGTTATA
1 CCCTCGATTTACAAAATTACTATTTTA
* * *
48764114 CCCTCAATTTATAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACTATTTTA
48764141 CCC
1 CCC
48764144 CTTGGGTGTT
Statistics
Matches: 276, Mismatches: 45, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
26 23 0.08
27 251 0.91
28 2 0.01
ACGTcount: A:0.32, C:0.21, G:0.06, T:0.41
Consensus pattern (27 bp):
CCCTCGATTTACAAAATTACTATTTTA
Found at i:48764619 original size:6 final size:6
Alignment explanation
Indices: 48764580--48764710 Score: 79
Period size: 6 Copynumber: 21.3 Consensus size: 6
48764570 TTGCATTCAC
* * * *
48764580 ATTCTG ATTTTG ATTCTG TTTCTTG ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
48764629 -TCACCTA ATTTTG ATTCTG ATTCTG TTTCTG ATTCTG -TCACCTG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* * *
48764679 ATTCTG ATACTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
48764711 AATGTTTCTT
Statistics
Matches: 92, Mismatches: 24, Indels: 18
0.69 0.18 0.13
Matches are distributed among these distances:
5 3 0.03
6 77 0.84
7 10 0.11
8 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:48764643 original size:37 final size:37
Alignment explanation
Indices: 48764602--48764686 Score: 125
Period size: 37 Copynumber: 2.3 Consensus size: 37
48764592 ATTCTGTTTC
*
48764602 TTGATACTGATTCTGATTCTAATTCTGTCACCTAATT
1 TTGATTCTGATTCTGATTCTAATTCTGTCACCTAATT
* * *
48764639 TTGATTCTGATTCTGTTTCTGATTCTGTCACCTGATT
1 TTGATTCTGATTCTGATTCTAATTCTGTCACCTAATT
*
48764676 CTGATTCTGAT
1 TTGATTCTGAT
48764687 ACTCATTTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (37 bp):
TTGATTCTGATTCTGATTCTAATTCTGTCACCTAATT
Found at i:48764663 original size:12 final size:12
Alignment explanation
Indices: 48764643--48764727 Score: 57
Period size: 12 Copynumber: 7.0 Consensus size: 12
48764633 CTAATTTTGA
48764643 TTCTGATTCTGT
1 TTCTGATTCTGT
48764655 TTCTGATTCTGT
1 TTCTGATTCTGT
** *
48764667 CACCTGATTCTGA
1 -TTCTGATTCTGT
* *
48764680 TTCTGATACTCAT
1 TTCTGATTCT-GT
48764693 TT-TGATTCTAG-
1 TTCTGATTCT-GT
**
48764704 TTCTGATAATGT
1 TTCTGATTCTGT
*
48764716 TTCTTATTCTGT
1 TTCTGATTCTGT
48764728 AAAGGGCTAA
Statistics
Matches: 53, Mismatches: 16, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
11 3 0.06
12 39 0.74
13 11 0.21
ACGTcount: A:0.16, C:0.18, G:0.14, T:0.52
Consensus pattern (12 bp):
TTCTGATTCTGT
Found at i:48764699 original size:37 final size:37
Alignment explanation
Indices: 48764618--48764701 Score: 107
Period size: 37 Copynumber: 2.3 Consensus size: 37
48764608 CTGATTCTGA
* * * *
48764618 TTCTAATTCTGTCACCTAATTTTGATTCTGATTCTGT
1 TTCTGATTCTGTCACCTAATTCTGATTCTGATACTAT
*
48764655 TTCTGATTCTGTCACCTGATTCTGATTCTGATACTCAT
1 TTCTGATTCTGTCACCTAATTCTGATTCTGATACT-AT
48764693 TT-TGATTCT
1 TTCTGATTCT
48764702 AGTTCTGATA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
37 38 0.93
38 3 0.07
ACGTcount: A:0.18, C:0.20, G:0.12, T:0.50
Consensus pattern (37 bp):
TTCTGATTCTGTCACCTAATTCTGATTCTGATACTAT
Found at i:48766873 original size:27 final size:27
Alignment explanation
Indices: 48766856--48767209 Score: 421
Period size: 27 Copynumber: 13.1 Consensus size: 27
48766846 ATTACCAAAG
*
48766856 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
48766883 TACCCTCGATTTCCAAAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-ATTT
48766910 TACCCTCGATTTA-AAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* * *
48766936 TACCCTCAATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
* * *
48766963 TACCCTCGATTTATAAAATTATTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
48766990 TATCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* *
48767017 TACCCTCAATTTACAGAATTA-TCATTT
1 TACCCTCGATTTACAAAATTACT-ATTT
* *
48767044 TACCCTCGATTTACATAATTACTATTG
1 TACCCTCGATTTACAAAATTACTATTT
*
48767071 TACCCTCAATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* * * *
48767098 TACCCTCGATTTGCAATATTA-TCGTTC
1 TACCCTCGATTTACAAAATTACT-ATTT
*
48767125 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTATTT
*
48767152 TACCTTCGATTTACAAAATTATCT-TTT
1 TACCCTCGATTTACAAAATTA-CTATTT
* *
48767179 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
48767206 TACC
1 TACC
48767210 ACTTGGGTGT
Statistics
Matches: 281, Mismatches: 37, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
26 26 0.09
27 251 0.89
28 4 0.01
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.42
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTATTT
Found at i:48766901 original size:54 final size:54
Alignment explanation
Indices: 48766811--48767209 Score: 426
Period size: 54 Copynumber: 7.4 Consensus size: 54
48766801 AATAATTTAG
*** * * ***
48766811 TTTACAAAATTACTAAAATACCCTCAACTTT-TAAAATTACCAAAGTACCCTCGA
1 TTTACAAAATTACTATTTTACCCTCGA-TTTACAAAATTACCATTTTACCCTCGA
* * * *
48766865 TTTACAAAATTACTGTTTTACCCTCGATTTCCAAAATTATCGTTTTACCCTCGA
1 TTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGA
* *
48766919 TTTA-AAAATTACTATTTTACCCTCAATTTACAGAATTACCATTTTACCCTCGA
1 TTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGA
* * * * * * *
48766972 TTTATAAAATTATTGTTTTATCCTCGATTTACAGAATTACTATTTTACCCTCAA
1 TTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGA
* * * * *
48767026 TTTACAGAATTA-TCATTTTACCCTCGATTTACATAATTACTATTGTACCCTCAA
1 TTTACAAAATTACT-ATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGA
* * * * *
48767080 TTTACAAAATTACTATTTTACCCTCGATTTGCAATATTATCGTTCTACCCTCGA
1 TTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGA
* * * *
48767134 TTTACAAAATTACTGTTTTACCTTCGATTTACAAAATTATCTTTTTACCCTCGA
1 TTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGA
* *
48767188 TTTATAAAATTACCATTTTACC
1 TTTACAAAATTACTATTTTACC
48767210 ACTTGGGTGT
Statistics
Matches: 294, Mismatches: 47, Indels: 8
0.84 0.13 0.02
Matches are distributed among these distances:
53 51 0.17
54 242 0.82
55 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (54 bp):
TTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGA
Found at i:48767757 original size:6 final size:6
Alignment explanation
Indices: 48767718--48767848 Score: 81
Period size: 6 Copynumber: 21.3 Consensus size: 6
48767708 TTGCATTCAC
* * *
48767718 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCT-
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
48767766 ATCACCTA ATTTTG ATTCTG ATTCTG TTTCTG ATTCTG -TCCCCTG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* *
48767817 ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
48767849 AATGTTTCTT
Statistics
Matches: 96, Mismatches: 18, Indels: 22
0.71 0.13 0.16
Matches are distributed among these distances:
5 6 0.06
6 77 0.80
7 9 0.09
8 4 0.04
ACGTcount: A:0.18, C:0.19, G:0.13, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:48767765 original size:31 final size:31
Alignment explanation
Indices: 48767718--48767790 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 31
48767708 TTGCATTCAC
* * * * *
48767718 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTAATTCTATCACCTAATACTG
**
48767749 ATTCTGATTCTAATTCTATCACCTAATTTTG
1 ATTCTGATTCTAATTCTATCACCTAATACTG
48767780 ATTCTGATTCT
1 ATTCTGATTCT
48767791 GTTTCTGATT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.22, C:0.18, G:0.11, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTAATTCTATCACCTAATACTG
Found at i:48767837 original size:37 final size:36
Alignment explanation
Indices: 48767718--48767839 Score: 119
Period size: 37 Copynumber: 3.4 Consensus size: 36
48767708 TTGCATTCAC
* *
48767718 ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTG
1 ATTCT-ATTTTGATTCTGTCACCTGATTCTGATTCTG
* * *
48767755 ATTCTA-----ATTCTATCACCTAATTTTGATTCTG
1 ATTCTATTTTGATTCTGTCACCTGATTCTGATTCTG
* *
48767786 ATTCTGTTTCTGATTCTGTCCCCTGATTCTGATTCTG
1 ATTCTATTT-TGATTCTGTCACCTGATTCTGATTCTG
48767823 ATTCTCATTTTGATTCT
1 ATTCT-ATTTTGATTCT
48767840 AGTTCTGATA
Statistics
Matches: 67, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
31 25 0.37
36 1 0.01
37 38 0.57
38 3 0.04
ACGTcount: A:0.18, C:0.20, G:0.12, T:0.50
Consensus pattern (36 bp):
ATTCTATTTTGATTCTGTCACCTGATTCTGATTCTG
Found at i:48769991 original size:27 final size:27
Alignment explanation
Indices: 48769954--48770074 Score: 77
Period size: 27 Copynumber: 4.5 Consensus size: 27
48769944 AATACTTTAG
*
48769954 TTTACCAAATTACTAAAATACCCTCGA
1 TTTACAAAATTACTAAAATACCCTCGA
* * * *
48769981 CTTT-TAAAATTACCAAAGTTCCCTCGA
1 -TTTACAAAATTACTAAAATACCCTCGA
*** *
48770008 TTTACAAAATTACT-GTTTCACCATCGA
1 TTTACAAAATTACTAAAAT-ACCCTCGA
***
48770035 TTTACAAAATTATCT-TTTTACCCTCGA
1 TTTACAAAATTA-CTAAAATACCCTCGA
*
48770062 TTTATAAAATTAC
1 TTTACAAAATTAC
48770075 CATTTTACCA
Statistics
Matches: 75, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
26 5 0.07
27 62 0.83
28 8 0.11
ACGTcount: A:0.36, C:0.22, G:0.05, T:0.37
Consensus pattern (27 bp):
TTTACAAAATTACTAAAATACCCTCGA
Found at i:48770080 original size:27 final size:27
Alignment explanation
Indices: 48770001--48770083 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 27
48769991 TACCAAAGTT
** *
48770001 CCCTCGATTTACAAAATTACTGTTTCA
1 CCCTCGATTTACAAAATTACCATTTTA
* * *
48770028 CCATCGATTTACAAAATTATCTTTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
*
48770055 CCCTCGATTTATAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
48770082 CC
1 CC
48770084 ACTTGGGTGT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTACAAAATTACCATTTTA
Found at i:48770631 original size:6 final size:6
Alignment explanation
Indices: 48770592--48770722 Score: 81
Period size: 6 Copynumber: 21.3 Consensus size: 6
48770582 TTGCATTCAC
* * *
48770592 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCT-
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * *
48770640 ATCACCTA ATTTTG ATTCTG ATTCTG TTTCTG ATTCTG -TCCCCTG ATTCTG
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* *
48770691 ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
48770723 AATGTTTCTT
Statistics
Matches: 96, Mismatches: 18, Indels: 22
0.71 0.13 0.16
Matches are distributed among these distances:
5 6 0.06
6 77 0.80
7 9 0.09
8 4 0.04
ACGTcount: A:0.18, C:0.19, G:0.13, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:48770639 original size:31 final size:31
Alignment explanation
Indices: 48770592--48770664 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 31
48770582 TTGCATTCAC
* * * * *
48770592 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTAATTCTATCACCTAATACTG
**
48770623 ATTCTGATTCTAATTCTATCACCTAATTTTG
1 ATTCTGATTCTAATTCTATCACCTAATACTG
48770654 ATTCTGATTCT
1 ATTCTGATTCT
48770665 GTTTCTGATT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.22, C:0.18, G:0.11, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTAATTCTATCACCTAATACTG
Found at i:48770711 original size:37 final size:36
Alignment explanation
Indices: 48770592--48770713 Score: 119
Period size: 37 Copynumber: 3.4 Consensus size: 36
48770582 TTGCATTCAC
* *
48770592 ATTCTGATTTTGATTCTGTTACCTGATACTGATTCTG
1 ATTCT-ATTTTGATTCTGTCACCTGATTCTGATTCTG
* * *
48770629 ATTCTA-----ATTCTATCACCTAATTTTGATTCTG
1 ATTCTATTTTGATTCTGTCACCTGATTCTGATTCTG
* *
48770660 ATTCTGTTTCTGATTCTGTCCCCTGATTCTGATTCTG
1 ATTCTATTT-TGATTCTGTCACCTGATTCTGATTCTG
48770697 ATTCTCATTTTGATTCT
1 ATTCT-ATTTTGATTCT
48770714 AGTTCTGATA
Statistics
Matches: 67, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
31 25 0.37
36 1 0.01
37 38 0.57
38 3 0.04
ACGTcount: A:0.18, C:0.20, G:0.12, T:0.50
Consensus pattern (36 bp):
ATTCTATTTTGATTCTGTCACCTGATTCTGATTCTG
Found at i:48772865 original size:27 final size:27
Alignment explanation
Indices: 48772829--48772895 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 27
48772819 ATACTTTAGT
*
48772829 TTACCAAATTACTAAAATACCCTCGAC
1 TTACAAAATTACTAAAATACCCTCGAC
** * * * *
48772856 TTGTAAAATTACCAAAGTTCCCTCGAT
1 TTACAAAATTACTAAAATACCCTCGAC
48772883 TTACAAAATTACT
1 TTACAAAATTACT
48772896 GTTTCACCAT
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.31
Consensus pattern (27 bp):
TTACAAAATTACTAAAATACCCTCGAC
Found at i:48772908 original size:27 final size:27
Alignment explanation
Indices: 48772875--48773172 Score: 332
Period size: 27 Copynumber: 11.1 Consensus size: 27
48772865 TACCAAAGTT
*
48772875 CCCTCGATTTACAAAATTACTGTTTCA
1 CCCTCGATTTACAAAATTACTGTTTTA
* *
48772902 CCATCGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACTGTTTTA
48772929 CCCTCGATTTACAAAATTACTGTTTTA
1 CCCTCGATTTACAAAATTACTGTTTTA
* * **
48772956 CCCTCGATTTATAGAATTACAATTTTA
1 CCCTCGATTTACAAAATTACTGTTTTA
*
48772983 CCCTCGATTTAC-AAATTACTATTTTA
1 CCCTCGATTTACAAAATTACTGTTTTA
* * *
48773009 CCCTTGATTTTCAAAATTACTATTTTA
1 CCCTCGATTTACAAAATTACTGTTTTA
* *
48773036 CCCTCGATTTACAGAATTA-TCATTTTA
1 CCCTCGATTTACAAAATTACT-GTTTTA
* * *
48773063 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTACAAAATTACTGTTTTA
*
48773090 CCCTCGATTTACAGAATTACTGTTTTA
1 CCCTCGATTTACAAAATTACTGTTTTA
* * * *
48773117 CCTTTGATTT-TAAAATTACAGTTTTA
1 CCCTCGATTTACAAAATTACTGTTTTA
* * * **
48773143 CCCTTGATTTATAATATTACCATTTTA
1 CCCTCGATTTACAAAATTACTGTTTTA
48773170 CCC
1 CCC
48773173 CTAGGGTGTT
Statistics
Matches: 236, Mismatches: 31, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
26 45 0.19
27 191 0.81
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (27 bp):
CCCTCGATTTACAAAATTACTGTTTTA
Found at i:48773048 original size:107 final size:106
Alignment explanation
Indices: 48772875--48773172 Score: 393
Period size: 107 Copynumber: 2.8 Consensus size: 106
48772865 TACCAAAGTT
* * * *
48772875 CCCTCGATTTACAAAATTACTGTTTCACCATCGATTTACAAAATTACCGTTTTACCCTCGATTTA
1 CCCTCGATTTAC-AAATTACTGTTTTACCATTGATTTTCAAAATTA-CATTTTACCCTCGATTTA
*
48772940 CAAAATTACTGTTTTACCCTCGATTTATAGAATTACAATTTTA
64 CAAAATTACTATTTTACCCTCGATTTATAGAATTACAATTTTA
* *
48772983 CCCTCGATTTACAAATTACTATTTTACCCTTGATTTTCAAAATTACTATTTTACCCTCGATTTAC
1 CCCTCGATTTACAAATTACTGTTTTACCATTGATTTTCAAAATTAC-ATTTTACCCTCGATTTAC
* **
48773048 AGAATTA-TCATTTTACCCTCGATTTATAGAATTACCGTTTTA
65 AAAATTACT-ATTTTACCCTCGATTTATAGAATTACAATTTTA
* *
48773090 CCCTCGATTTACAGAATTACTGTTTTACCTTTGATTTT-AAAATTACAGTTTTACCCTTGATTTA
1 CCCTCGATTTACA-AATTACTGTTTTACCATTGATTTTCAAAATTACA-TTTTACCCTCGATTTA
* * *
48773154 TAATATTACCATTTTACCC
64 CAAAATTACTATTTTACCC
48773173 CTAGGGTGTT
Statistics
Matches: 168, Mismatches: 17, Indels: 11
0.86 0.09 0.06
Matches are distributed among these distances:
106 3 0.02
107 131 0.78
108 34 0.20
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (106 bp):
CCCTCGATTTACAAATTACTGTTTTACCATTGATTTTCAAAATTACATTTTACCCTCGATTTACA
AAATTACTATTTTACCCTCGATTTATAGAATTACAATTTTA
Found at i:48773106 original size:134 final size:134
Alignment explanation
Indices: 48772875--48773172 Score: 386
Period size: 134 Copynumber: 2.2 Consensus size: 134
48772865 TACCAAAGTT
* * * * * *
48772875 CCCTCGATTTACAAAATTACTGTTTCACCATCGATTTACAAAATTACCGTTTTACCCTCGATTTA
1 CCCTTGATTTTCAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTA
* *
48772940 CAAAATTACTGTTTTACCCTCGATTTATAGAATTACAATTTTACCCTCGA-TTTACAAATTACTA
66 CAAAATTACCGTTTTACCCTCGATTTACAGAATTACAATTTTACCCTCGATTTTA-AAATTAC-A
48773004 -TTTTA
129 GTTTTA
* *
48773009 CCCTTGATTTTCAAAATTACTATTTTACCCTCGATTTACAGAATTATCATTTTACCCTCGATTTA
1 CCCTTGATTTTCAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTA
* * ** * *
48773074 TAGAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCTTTGATTTTAAAATTACAGT
66 CAAAATTACCGTTTTACCCTCGATTTACAGAATTACAATTTTACCCTCGATTTTAAAATTACAGT
48773139 TTTA
131 TTTA
* *
48773143 CCCTTGATTTAT-AATATTACCATTTTACCC
1 CCCTTGATTT-TCAAAATTACTATTTTACCC
48773173 CTAGGGTGTT
Statistics
Matches: 143, Mismatches: 18, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
133 1 0.01
134 137 0.96
135 5 0.03
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (134 bp):
CCCTTGATTTTCAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTA
CAAAATTACCGTTTTACCCTCGATTTACAGAATTACAATTTTACCCTCGATTTTAAAATTACAGT
TTTA
Found at i:48773527 original size:70 final size:67
Alignment explanation
Indices: 48773390--48773528 Score: 181
Period size: 67 Copynumber: 2.0 Consensus size: 67
48773380 GGAAGCGTTT
* * *
48773390 TGGCAGCCTCGCTGCAATTTGGTGGCCTCGCCACATATATTTGTTCTGGTGACTTCGTCACAATA
1 TGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATTTGTTCTGGTGACCTAGTCACAATA
48773455 TC
66 TC
* * *
48773457 TGGCAGCCTCGCTGCAATCTGGTGGCTTCGCACATATATATATCTGTTCTGGTGGCCTAG-CGAC
1 TGGCAGCCTCGCTGCAATCTGGTGGCCTCGC-CACATATAT-T-TGTTCTGGTGACCTAGTC-AC
48773521 AATATC
62 AATATC
48773527 TG
1 TG
48773529 TATCTGGTGA
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
67 29 0.47
68 8 0.13
69 2 0.03
70 23 0.37
ACGTcount: A:0.19, C:0.26, G:0.24, T:0.32
Consensus pattern (67 bp):
TGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATTTGTTCTGGTGACCTAGTCACAATA
TC
Found at i:48773709 original size:31 final size:31
Alignment explanation
Indices: 48773674--48773753 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 31
48773664 TTGCATTCAC
* * *
48773674 ATTCTGATTTTGATTCTGTTACTTAATACTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTG
* *
48773705 ATTCTGATTCTAATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAATACTG
*
48773736 ATTCTAATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
48773754 ATTCTGTTAC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.23, C:0.17, G:0.11, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATACTG
Found at i:48773713 original size:6 final size:6
Alignment explanation
Indices: 48773674--48773804 Score: 72
Period size: 6 Copynumber: 21.3 Consensus size: 6
48773664 TTGCATTCAC
* * * *
48773674 ATTCTG ATTTTG ATTCTG -TTACTTA ATACTG ATTCTG ATTCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * * *
48773723 -TCACCTA ATTCTG ATTCTA ATTCTG ATTCTG ATTCTG -TTACCTG ATTCTA
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG
* * *
48773773 ATTCTG ATTTTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
48773805 AATGTTTCTT
Statistics
Matches: 94, Mismatches: 20, Indels: 22
0.69 0.15 0.16
Matches are distributed among these distances:
5 6 0.06
6 76 0.81
7 8 0.09
8 4 0.04
ACGTcount: A:0.21, C:0.17, G:0.11, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:48773746 original size:37 final size:37
Alignment explanation
Indices: 48773705--48773777 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
48773695 CTTAATACTG
*
48773705 ATTCTGATTCTAATTCTGTCACCTAATTCTGATTCTA
1 ATTCTGATTCTAATTCTGTCACCTAATTCTAATTCTA
* * *
48773742 ATTCTGATTCTGATTCTGTTACCTGATTCTAATTCT
1 ATTCTGATTCTAATTCTGTCACCTAATTCTAATTCT
48773778 GATTTTCATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.22, C:0.21, G:0.10, T:0.48
Consensus pattern (37 bp):
ATTCTGATTCTAATTCTGTCACCTAATTCTAATTCTA
Found at i:48773768 original size:31 final size:31
Alignment explanation
Indices: 48773674--48773781 Score: 99
Period size: 31 Copynumber: 3.3 Consensus size: 31
48773664 TTGCATTCAC
* * * * *
48773674 ATTCTGATTTTGATTCTGTTACTTAATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATTCTA
* *
48773705 ATTCTGATTCTAATTCTGTCACCTAATTCTGATTCTA
1 ATTCTGATTCTGATTCTGT----T-A-CCTGATTCTA
48773742 ATTCTGATTCTGATTCTGTTACCTGATTCTA
1 ATTCTGATTCTGATTCTGTTACCTGATTCTA
48773773 ATTCTGATT
1 ATTCTGATT
48773782 TTCATTTTGA
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
31 35 0.56
32 1 0.02
33 1 0.02
35 1 0.02
36 1 0.02
37 23 0.37
ACGTcount: A:0.22, C:0.18, G:0.11, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATTCTA
Found at i:48773793 original size:37 final size:37
Alignment explanation
Indices: 48773705--48773795 Score: 101
Period size: 37 Copynumber: 2.5 Consensus size: 37
48773695 CTTAATACTG
* * *
48773705 ATTCTGATTCTAATTCTGTCACCTAATTCTGATTCTA
1 ATTCTCATTCTGATTCTGTCACCTAATTCTAATTCTA
* * * *
48773742 ATTCTGATTCTGATTCTGTTACCTGATTCTAATTCTG
1 ATTCTCATTCTGATTCTGTCACCTAATTCTAATTCTA
* *
48773779 ATTTTCATTTTGATTCT
1 ATTCTCATTCTGATTCT
48773796 AGTTCTGATA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.21, C:0.19, G:0.10, T:0.51
Consensus pattern (37 bp):
ATTCTCATTCTGATTCTGTCACCTAATTCTAATTCTA
Found at i:48775966 original size:27 final size:27
Alignment explanation
Indices: 48775922--48776301 Score: 390
Period size: 27 Copynumber: 14.2 Consensus size: 27
48775912 ATTCCTGAAA
* ** ***
48775922 TACCCTCGACTTGTAAAATTACCAAAG
1 TACCCTCGATTTACAAAATTACCATTT
* *
48775949 TACCCTCAATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACCATTT
*
48775976 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* **
48776003 TACCCTCGATTTAAAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCATTT
*
48776030 TACCCT-AATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
**
48776056 TACCCTCGATTTACAAAATTATTATTT
1 TACCCTCGATTTACAAAATTACCATTT
* **
48776083 TACCCTCGATTTACAGAAA-AACTGTTT
1 TACCCTCGATTTACA-AAATTACCATTT
* * * *
48776110 TACACTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
48776137 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
*
48776164 TACCCTCGATTTAC-AAATTACTATTT
1 TACCCTCGATTTACAAAATTACCATTT
* * * *
48776190 TACCCTCAATTTATAGAATTATCA-TT
1 TACCCTCGATTTACAAAATTACCATTT
* * **
48776216 TACCATCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* * * *
48776243 TACCTTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
48776270 TACCCTCAATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
48776297 TACCC
1 TACCC
48776302 CTAGGGTGTT
Statistics
Matches: 297, Mismatches: 51, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
26 67 0.23
27 227 0.76
28 3 0.01
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:48776069 original size:80 final size:81
Alignment explanation
Indices: 48775949--48776301 Score: 446
Period size: 80 Copynumber: 4.4 Consensus size: 81
48775939 ATTACCAAAG
* *
48775949 TACCCTCAATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATT
1 TACCCTCAATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
48776014 TAAAAAATTACTGTTT
66 TAAAAAATTACTGTTT
**
48776030 TACCCT-AATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTATTATTTTACCCTCGATT
1 TACCCTCAATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
48776094 TACAGAAAA--ACTGTTT
66 TA-A-AAAATTACTGTTT
* * * * *
48776110 TACACTCGATTTACAGAATTATCGTTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
1 TACCCTCAATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
* *
48776175 T-ACAAATTACTATTT
66 TAAAAAATTACTGTTT
* * * * * ** *
48776190 TACCCTCAATTTATAGAATTATCA-TTTACCATCGATTTACAGAATTACTGTTTTACCTTCGATT
1 TACCCTCAATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
* * *
48776254 TATAGAATTACCGTTT
66 TAAAAAATTACTGTTT
*
48776270 TACCCTCAATTTATAAAATTACCATTTTACCC
1 TACCCTCAATTTACAAAATTACCATTTTACCC
48776302 CTAGGGTGTT
Statistics
Matches: 235, Mismatches: 30, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
78 3 0.01
79 37 0.16
80 125 0.53
81 66 0.28
82 4 0.02
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.40
Consensus pattern (81 bp):
TACCCTCAATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
TAAAAAATTACTGTTT
Found at i:48776840 original size:31 final size:31
Alignment explanation
Indices: 48776805--48776900 Score: 105
Period size: 31 Copynumber: 3.3 Consensus size: 31
48776795 TTGCATTCAC
* *
48776805 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
*
48776836 ATTCTGATTCTAATTCTGTCACCT-A-A-T-
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
* *
48776863 -TT-TGATTCTGACTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
48776892 ATTCTGATT
1 ATTCTGATT
48776901 TTCATTTTGA
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
25 18 0.34
26 3 0.06
28 2 0.04
29 1 0.02
30 3 0.06
31 26 0.49
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:48776897 original size:25 final size:25
Alignment explanation
Indices: 48776833--48776898 Score: 96
Period size: 25 Copynumber: 2.6 Consensus size: 25
48776823 TTACCTGATA
* *
48776833 CTGATTCTGATTCTAATTCTGTCAC
1 CTGATTCTGATTCTGACTCTGTCAC
* *
48776858 CTAATTTTGATTCTGACTCTGTCAC
1 CTGATTCTGATTCTGACTCTGTCAC
48776883 CTGATTCTGATTCTGA
1 CTGATTCTGATTCTGA
48776899 TTTTCATTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.44
Consensus pattern (25 bp):
CTGATTCTGATTCTGACTCTGTCAC
Found at i:48778849 original size:73 final size:73
Alignment explanation
Indices: 48778762--48778908 Score: 294
Period size: 73 Copynumber: 2.0 Consensus size: 73
48778752 CAAATCTAAG
48778762 CTAAACCTGGTGAGTTGATTTAGTATGTTTTAAATGTAAAGTTCCGGTAATATCTCGAATCCTAT
1 CTAAACCTGGTGAGTTGATTTAGTATGTTTTAAATGTAAAGTTCCGGTAATATCTCGAATCCTAT
48778827 CCTGATAA
66 CCTGATAA
48778835 CTAAACCTGGTGAGTTGATTTAGTATGTTTTAAATGTAAAGTTCCGGTAATATCTCGAATCCTAT
1 CTAAACCTGGTGAGTTGATTTAGTATGTTTTAAATGTAAAGTTCCGGTAATATCTCGAATCCTAT
48778900 CCTGATAA
66 CCTGATAA
48778908 C
1 C
48778909 GGATACAGGT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.37
Consensus pattern (73 bp):
CTAAACCTGGTGAGTTGATTTAGTATGTTTTAAATGTAAAGTTCCGGTAATATCTCGAATCCTAT
CCTGATAA
Found at i:48779347 original size:20 final size:20
Alignment explanation
Indices: 48779310--48779348 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
48779300 TATAGATAAA
*
48779310 TTACTGTTATTACTGATGAG
1 TTACTGTTATTACGGATGAG
48779330 TTACTAGTTA-TACGGATGA
1 TTACT-GTTATTACGGATGA
48779349 ACTATTAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (20 bp):
TTACTGTTATTACGGATGAG
Found at i:48782211 original size:47 final size:48
Alignment explanation
Indices: 48782108--48782231 Score: 150
Period size: 47 Copynumber: 2.6 Consensus size: 48
48782098 ATCTCATGTT
* *
48782108 AATGCCATGTCCAATACATGGTCTTACACTAACTATCATCTCGTAGCC
1 AATGCCATGTCCCAGACATGGTCTTACACTAACTATCATCTCGTAGCC
48782156 AATG-CATGTCCCAGACAT-GTCTTACACTAGCACT-T-ATCTCGATA-CC
1 AATGCCATGTCCCAGACATGGTCTTACACTA--ACTATCATCTCG-TAGCC
* *
48782202 GATGCCATGTCCCAGACATGGTCTTTCACT
1 AATGCCATGTCCCAGACATGGTCTTACACT
48782232 GGCTCTCATA
Statistics
Matches: 67, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
46 22 0.33
47 29 0.43
48 16 0.24
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.29
Consensus pattern (48 bp):
AATGCCATGTCCCAGACATGGTCTTACACTAACTATCATCTCGTAGCC
Found at i:48786221 original size:12 final size:12
Alignment explanation
Indices: 48786204--48786229 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48786194 AATTTCACTG
48786204 ACGTACAATTCA
1 ACGTACAATTCA
48786216 ACGTACAATTCA
1 ACGTACAATTCA
48786228 AC
1 AC
48786230 TAACTTATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.27, G:0.08, T:0.23
Consensus pattern (12 bp):
ACGTACAATTCA
Found at i:48788849 original size:39 final size:38
Alignment explanation
Indices: 48788745--48788849 Score: 110
Period size: 34 Copynumber: 2.8 Consensus size: 38
48788735 CATTTCTATT
*
48788745 ACTGTTATTGAAATGGGCTAAGGCCCACACTGATACTG
1 ACTGTTATTGAAATGGGCTAAGGCCCAAACTGATACTG
* * * *
48788783 A--G--ATTGTAATGGGCTGAGGCCCTAACTGGTACTAG
1 ACTGTTATTGAAATGGGCTAAGGCCCAAACTGATACT-G
* *
48788818 ACTGTTACTGAAATGGGCTTAGGCCCAAACTG
1 ACTGTTATTGAAATGGGCTAAGGCCCAAACTG
48788850 TATTTGCCTA
Statistics
Matches: 53, Mismatches: 9, Indels: 9
0.75 0.13 0.13
Matches are distributed among these distances:
34 26 0.49
35 2 0.04
36 1 0.02
37 1 0.02
38 1 0.02
39 22 0.42
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.26
Consensus pattern (38 bp):
ACTGTTATTGAAATGGGCTAAGGCCCAAACTGATACTG
Found at i:48791498 original size:7 final size:7
Alignment explanation
Indices: 48791486--48791513 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
48791476 GGCCCAGTGT
48791486 TATGAAA
1 TATGAAA
48791493 TATGAAA
1 TATGAAA
48791500 TATGAAA
1 TATGAAA
48791507 TATGAAA
1 TATGAAA
48791514 AGGCTTCGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (7 bp):
TATGAAA
Found at i:48802197 original size:18 final size:18
Alignment explanation
Indices: 48802170--48802204 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
48802160 CGTTCACATT
*
48802170 TTTTTCATTTTTACTTTA
1 TTTTTAATTTTTACTTTA
48802188 TTTTTAATTTTTACTTT
1 TTTTTAATTTTTACTTT
48802205 TAAAGATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.09, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTAATTTTTACTTTA
Found at i:48805605 original size:16 final size:15
Alignment explanation
Indices: 48805584--48805613 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
48805574 CTATTAGAGA
48805584 AAAATAAATGAATAAT
1 AAAATAAAT-AATAAT
48805600 AAAATAAATAATAA
1 AAAATAAATAATAA
48805614 CAATAACAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (15 bp):
AAAATAAATAATAAT
Found at i:48806303 original size:24 final size:24
Alignment explanation
Indices: 48806271--48806333 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
48806261 AGGAGTAATA
* * * *
48806271 AATAAATAATATGAACAATAAACG
1 AATAAATAACATAAAAAACAAACG
*
48806295 AATAAATAACATAAAAAACAAATG
1 AATAAATAACATAAAAAACAAACG
48806319 AATAAATAAC-TAAAA
1 AATAAATAACATAAAA
48806334 TAAGAAAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 5 0.15
24 29 0.85
ACGTcount: A:0.68, C:0.08, G:0.05, T:0.19
Consensus pattern (24 bp):
AATAAATAACATAAAAAACAAACG
Found at i:48807771 original size:17 final size:18
Alignment explanation
Indices: 48807725--48807771 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
48807715 AGTATAATGA
*
48807725 GCCCATATGCCCGTGTGG
1 GCCCACATGCCCGTGTGG
* *
48807743 GCCTACACGCCCGTGT-G
1 GCCCACATGCCCGTGTGG
48807760 GCCCACATGCCC
1 GCCCACATGCCC
48807772 AAATTGACCT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.13, C:0.43, G:0.28, T:0.17
Consensus pattern (18 bp):
GCCCACATGCCCGTGTGG
Found at i:48809664 original size:24 final size:24
Alignment explanation
Indices: 48809618--48809664 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
48809608 ATTGGAAATA
* *
48809618 AATTTTATTTTTCAATTTTTTTAT
1 AATTTTATTTATCAATTTATTTAT
48809642 AATTTTA-TTATCAATTTGATTTA
1 AATTTTATTTATCAATTT-ATTTA
48809665 GGTACATGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (24 bp):
AATTTTATTTATCAATTTATTTAT
Found at i:48810676 original size:22 final size:19
Alignment explanation
Indices: 48810630--48810690 Score: 52
Period size: 19 Copynumber: 3.1 Consensus size: 19
48810620 TCAATAATTC
48810630 TTATTTTATATTTTTAAAA
1 TTATTTTATATTTTTAAAA
* *
48810649 TGATTTTATATGTATTTTAAAG
1 TTATTTTATA--T-TTTTAAAA
*
48810671 TTATTTT-TACTTTTTTAAA
1 TTATTTTATA-TTTTTAAAA
48810690 T
1 T
48810691 ATAAATTATT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
19 16 0.48
20 1 0.03
21 3 0.09
22 13 0.39
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.62
Consensus pattern (19 bp):
TTATTTTATATTTTTAAAA
Found at i:48811391 original size:20 final size:20
Alignment explanation
Indices: 48811334--48811401 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 20
48811324 TTTAAATAAA
* *
48811334 TAAATTTT-AAATTTTTAGG
1 TAAATTTTGAAAATTTTACG
* *
48811353 TAAACTTTGAAAGA-GTTACG
1 TAAATTTTGAAA-ATTTTACG
*
48811373 TAAATTTTGAAAATTTTACC
1 TAAATTTTGAAAATTTTACG
48811393 TAAACTTTT
1 TAAA-TTTT
48811402 TAGATGAGAA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
19 8 0.21
20 26 0.68
21 4 0.11
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.44
Consensus pattern (20 bp):
TAAATTTTGAAAATTTTACG
Found at i:48811479 original size:26 final size:26
Alignment explanation
Indices: 48811449--48811500 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
48811439 AATAAATAAT
*
48811449 ATTATCATCAATATAAATATTATTTA
1 ATTATCATCAAGATAAATATTATTTA
* *
48811475 ATTATCATTAAGATAAATATTGTTTA
1 ATTATCATCAAGATAAATATTATTTA
48811501 TGTCAATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (26 bp):
ATTATCATCAAGATAAATATTATTTA
Found at i:48813937 original size:20 final size:19
Alignment explanation
Indices: 48813912--48813951 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
48813902 TATAAATATT
48813912 TTAATTTTAAATTTATAAAA
1 TTAA-TTTAAATTTATAAAA
**
48813932 TTAATTTATTTTTATAAAA
1 TTAATTTAAATTTATAAAA
48813951 T
1 T
48813952 GATAACATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTAATTTAAATTTATAAAA
Found at i:48820255 original size:10 final size:10
Alignment explanation
Indices: 48820240--48820288 Score: 70
Period size: 10 Copynumber: 5.3 Consensus size: 10
48820230 ATTTTATCAT
48820240 AAAAATATTA
1 AAAAATATTA
48820250 AAAAATATT-
1 AAAAATATTA
48820259 AAAAAT-TTA
1 AAAAATATTA
48820268 AAAAATATT-
1 AAAAATATTA
48820277 -AAAATATTA
1 AAAAATATTA
48820286 AAA
1 AAA
48820289 TTGATATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
8 10 0.29
9 12 0.34
10 13 0.37
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
AAAAATATTA
Found at i:48820268 original size:18 final size:19
Alignment explanation
Indices: 48820239--48820288 Score: 86
Period size: 18 Copynumber: 2.7 Consensus size: 19
48820229 TATTTTATCA
48820239 TAAAAATATTAAAAAATAT
1 TAAAAATATTAAAAAATAT
48820258 TAAAAAT-TTAAAAAATAT
1 TAAAAATATTAAAAAATAT
48820276 T-AAAATATTAAAA
1 TAAAAATATTAAAA
48820289 TTGATATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
17 5 0.17
18 18 0.60
19 7 0.23
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAAATATTAAAAAATAT
Found at i:48820343 original size:30 final size:29
Alignment explanation
Indices: 48820304--48820372 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 29
48820294 ATAAACTTAT
48820304 AATT-TAAAAAAATC-ATACAACCTTATAAAA
1 AATTATAAAAAAATCAATA-AA--TTATAAAA
*
48820334 AA-TATAAAAAGATCTAATAAATTATAAAA
1 AATTATAAAAAAATC-AATAAATTATAAAA
48820363 AATTATAAAA
1 AATTATAAAA
48820373 TTAATAAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
29 11 0.32
30 18 0.53
31 2 0.06
32 3 0.09
ACGTcount: A:0.64, C:0.07, G:0.01, T:0.28
Consensus pattern (29 bp):
AATTATAAAAAAATCAATAAATTATAAAA
Found at i:48820367 original size:10 final size:10
Alignment explanation
Indices: 48820326--48820372 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
48820316 TCATACAACC
48820326 TTATAAAAAA
1 TTATAAAAAA
48820336 -TATAAAAAGA
1 TTATAAAAA-A
* *
48820346 -TCTAATAAA
1 TTATAAAAAA
48820355 TTATAAAAAA
1 TTATAAAAAA
48820365 TTATAAAA
1 TTATAAAA
48820373 TTAATAAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
9 9 0.29
10 22 0.71
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:48820415 original size:11 final size:10
Alignment explanation
Indices: 48820388--48820422 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
48820378 AAAACGTATT
48820388 TAAAATTTTA
1 TAAAATTTTA
48820398 TAAAATTTTA
1 TAAAATTTTA
* *
48820408 TAAAAATTCA
1 TAAAATTTTA
48820418 TAAAA
1 TAAAA
48820423 CTCATAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (10 bp):
TAAAATTTTA
Done.