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 175 of 356
Found at i:57036122 original size:41 final size:43
Alignment explanation
Indices: 57036051--57036144 Score: 120
Period size: 41 Copynumber: 2.2 Consensus size: 43
57036041 CGACCTCAAG
* * *
57036051 TCGATGAGGCACTATATGTGTCGTAATATTGCTTCGGA-TAATT
1 TCGATGAGGCAC-ATATGTGTCATAATATTGCTTCAGATTAAAT
*
57036094 TCGATGAGGCAC-TATGTGTCATATTATTGCTTCAGATTAAAT
1 TCGATGAGGCACATATGTGTCATAATATTGCTTCAGATTAAAT
*
57036136 CCGATGAGG
1 TCGATGAGG
57036145 TATTGAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
41 21 0.47
42 12 0.27
43 12 0.27
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (43 bp):
TCGATGAGGCACATATGTGTCATAATATTGCTTCAGATTAAAT
Found at i:57041477 original size:27 final size:27
Alignment explanation
Indices: 57041446--57041623 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
57041436 TAAACTGTAC
57041446 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
57041473 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57041499 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
57041527 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
57041555 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57041582 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
57041609 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57041624 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:57041560 original size:82 final size:81
Alignment explanation
Indices: 57041447--57041602 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
57041437 AAACTGTACA
* *
57041447 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
57041511 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
57041528 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
57041593 TGCGAGTTGA
65 TGCGAATTGA
57041603 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:57041614 original size:82 final size:81
Alignment explanation
Indices: 57041443--57041623 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
57041433 GATTAAACTG
* *
57041443 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
57041508 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
57041524 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
57041588 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
57041606 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
57041624 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:57049450 original size:27 final size:27
Alignment explanation
Indices: 57049419--57049595 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
57049409 TAAATTGTAC
*
57049419 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
57049446 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
57049472 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
57049500 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* *
57049528 AGCACTAAGTGTGCG-ATTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
57049554 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
57049581 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57049596 GACTCAATAT
Statistics
Matches: 126, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
26 23 0.18
27 81 0.64
28 22 0.17
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:57049565 original size:81 final size:81
Alignment explanation
Indices: 57049420--57049574 Score: 233
Period size: 81 Copynumber: 1.9 Consensus size: 81
57049410 AAATTGTACA
* *
57049420 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
57049485 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* *
57049501 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCG-ATTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
*
57049564 GTGCGAGTTGA
64 GTGCGAATTGA
57049575 TTATATAGCA
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
80 1 0.01
81 41 0.61
82 25 0.37
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:57049586 original size:81 final size:81
Alignment explanation
Indices: 57049416--57049595 Score: 229
Period size: 81 Copynumber: 2.2 Consensus size: 81
57049406 GATTAAATTG
* *
57049416 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
57049481 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * *
57049497 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCG-ATTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
57049560 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
57049578 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
57049596 GACTCAATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
80 1 0.01
81 58 0.69
82 25 0.30
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:57052275 original size:42 final size:43
Alignment explanation
Indices: 57052167--57052279 Score: 140
Period size: 43 Copynumber: 2.7 Consensus size: 43
57052157 AACATATACA
* *
57052167 ATGCCACCGTCCCAGACATGGTCTTACATGTAATAAAACATCG
1 ATGCCACTGTCCCAGACATGGTCTTACATGAAATAAAACATCG
* * * * *
57052210 ATGCCACTGTCCCAGATAGGGTCTTACATGAAATCAGATAT-G
1 ATGCCACTGTCCCAGACATGGTCTTACATGAAATAAAACATCG
57052252 ATGCCGA-TGTCCCAGACATGGTCTTACA
1 ATGCC-ACTGTCCCAGACATGGTCTTACA
57052280 CGTAAAATAG
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
42 25 0.42
43 35 0.58
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACATGGTCTTACATGAAATAAAACATCG
Found at i:57057916 original size:58 final size:58
Alignment explanation
Indices: 57057826--57057948 Score: 167
Period size: 58 Copynumber: 2.1 Consensus size: 58
57057816 AATCACCAGC
* * * * *
57057826 TATACTTGAAAAAATTTTGAAAGATAACCAACTGGGGATGTGAATCTATGAGTTTTTT
1 TATACTTGAAAAAATTCTGAAAGATAACCAACTAGGGATGTGAATCCATGAGCTGTTT
* *
57057884 TATACTT-AAGAAAATTCTGAGAGATAACCAACTAGGGATGTGAATCCGTGAGCTGTTT
1 TATACTTGAA-AAAATTCTGAAAGATAACCAACTAGGGATGTGAATCCATGAGCTGTTT
57057942 TATACTT
1 TATACTT
57057949 CCTTAAAATT
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
57 2 0.04
58 55 0.96
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.34
Consensus pattern (58 bp):
TATACTTGAAAAAATTCTGAAAGATAACCAACTAGGGATGTGAATCCATGAGCTGTTT
Found at i:57058133 original size:71 final size:69
Alignment explanation
Indices: 57057974--57058145 Score: 193
Period size: 71 Copynumber: 2.4 Consensus size: 69
57057964 AAATAACACG
* *
57057974 GCTGGGAGTTTTTAACTTTCGCTAACTATGTTAGAGGCAGTAGTTTTTATCCTACAAGCCTTAAT
1 GCTGGGAG-CTTT-ACTTTCGCTAACTATGTTAAAGGCAGTAGTTTTTATCCTACAAGCCTTAAT
57058039 ATGACA
64 ATGACA
* * * * * * * * *
57058045 ACTTGGAGCTTTGCTTTCACTAACTATGTTAAAGGCTATGGT-TTTTTTATTCTATAAGTCTTAG
1 GCTGGGAGCTTTACTTTCGCTAACTATGTTAAAGGC-A--GTAGTTTTTATCCTACAAGCCTTAA
57058109 TATGACA
63 TATGACA
57058116 GCTGGGAGCTTTACTTTCGCTAACTATGTT
1 GCTGGGAGCTTTACTTTCGCTAACTATGTT
57058146 GGAGGCTTCG
Statistics
Matches: 83, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
69 21 0.25
70 4 0.05
71 56 0.67
72 2 0.02
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.40
Consensus pattern (69 bp):
GCTGGGAGCTTTACTTTCGCTAACTATGTTAAAGGCAGTAGTTTTTATCCTACAAGCCTTAATAT
GACA
Found at i:57058152 original size:71 final size:71
Alignment explanation
Indices: 57057974--57058337 Score: 244
Period size: 70 Copynumber: 5.2 Consensus size: 71
57057964 AAATAACACG
* * *
57057974 GCTGGGAGTTTTTAACTTTCGCTAACTATGTTAGAGGC-A--GTAGTTTTTATCCTACAAGCCTT
1 GCTGGGAG-CTTT-ACTTTCGCTAACTATGTTAGAGGCTATGGT-TTTTTTATTCTACAAGCCTT
*
57058036 AATATGACA
63 AGTATGACA
* * * * * * *
57058045 ACTTGGAGCTTTGCTTTCACTAACTATGTTAAAGGCTATGGTTTTTTTATTCTATAAGTCTTAGT
1 GCTGGGAGCTTTACTTTCGCTAACTATGTTAGAGGCTATGGTTTTTTTATTCTACAAGCCTTAGT
57058110 ATGACA
66 ATGACA
* * * * *
57058116 GCTGGGAGCTTTACTTTCGCTAACTATGTTGGAGGCT-TCGATTTTTTA-TCTTACGATCCTTAG
1 GCTGGGAGCTTTACTTTCGCTAACTATGTTAGAGGCTATGGTTTTTTTATTC-TACAAGCCTTAG
*
57058179 TATGATA
65 TATGACA
* * * * * * * * * * *
57058186 GATGGGAGTTTTGCTCTT-GCTAACTGTATTTGAGACTGTGG-TTTTTTATACTGCGAGCCTTAG
1 GCTGGGAGCTTTACT-TTCGCTAACTATGTTAGAGGCTATGGTTTTTTTATTCTACAAGCCTTAG
*
57058249 AATGACA
65 TATGACA
** * * * * * *
57058256 ATTGGGAGCTTTTCTTTCGCTAACTATGTTGGAGGTTACGAG--TTTTTA-TCTTGCGAGCCTTA
1 GCTGGGAGCTTTACTTTCGCTAACTATGTTAGAGGCTATG-GTTTTTTTATTC-TACAAGCCTTA
57058318 GTATGACA
64 GTATGACA
**
57058326 ATTGGGAGCTTT
1 GCTGGGAGCTTT
57058338 GTTCTCACCA
Statistics
Matches: 233, Mismatches: 50, Indels: 21
0.77 0.16 0.07
Matches are distributed among these distances:
69 26 0.11
70 138 0.59
71 67 0.29
72 2 0.01
ACGTcount: A:0.23, C:0.15, G:0.22, T:0.40
Consensus pattern (71 bp):
GCTGGGAGCTTTACTTTCGCTAACTATGTTAGAGGCTATGGTTTTTTTATTCTACAAGCCTTAGT
ATGACA
Found at i:57058208 original size:70 final size:70
Alignment explanation
Indices: 57058017--57058465 Score: 335
Period size: 70 Copynumber: 6.4 Consensus size: 70
57058007 GAGGCAGTAG
* * * * * **
57058017 TTTTTATCCTACAAGCCTTAATATGACAACTT-GGAGCTTTGCT-TTCACTAACTATGTTAAAGG
1 TTTTTATCTTACGAGCCTTAGTATGACAA-TTGGGAGCTTTGCTCTT-GCTAACTGTGTTGGAGG
* *
57058080 CTATGGTT
64 CT-TCGAT
* ** * *
57058088 TTTTTATTCTATA--AGTCTTAGTATGACAGCTGGGAGCTTTACT-TTCGCTAACTATGTTGGAG
1 TTTTTA-TCT-TACGAGCCTTAGTATGACAATTGGGAGCTTTGCTCTT-GCTAACTGTGTTGGAG
57058150 GCTTCGAT
63 GCTTCGAT
* * * * * *
57058158 TTTTTATCTTACGATCCTTAGTATGATAGA-TGGGAGTTTTGCTCTTGCTAACTGTATTTGAGAC
1 TTTTTATCTTACGAGCCTTAGTATGACA-ATTGGGAGCTTTGCTCTTGCTAACTGTGTTGGAGGC
*
57058222 TGT-GGT
65 T-TCGAT
* * * *
57058228 TTTTTATAC-TGCGAGCCTTAGAATGACAATTGGGAGCTTTTCT-TTCGCTAACTATGTTGGAGG
1 TTTTTAT-CTTACGAGCCTTAGTATGACAATTGGGAGCTTTGCTCTT-GCTAACTGTGTTGGAGG
*
57058291 -TTACGAG
64 CTT-CGAT
* * ** * * *
57058298 TTTTTATCTTGCGAGCCTTAGTATGACAATTGGGAGCTTTGTTCTCACCAATTGTGTTGAAGGCT
1 TTTTTATCTTACGAGCCTTAGTATGACAATTGGGAGCTTTGCTCTTGCTAACTGTGTTGGAGGCT
*
57058363 ATAG-T
66 -TCGAT
* * * * * * *
57058368 TTTTTATCCTACGAGCCTTAATATGATAATTAGGAGCTTTGCTCTCGCTAACCGTGATGGAGGCT
1 TTTTTATCTTACGAGCCTTAGTATGACAATTGGGAGCTTTGCTCTTGCTAACTGTGTTGGAGGCT
*
57058433 GCGAT
66 TCGAT
57058438 TTTTTATCTTACGAGCCTTAGTATGACA
1 TTTTTATCTTACGAGCCTTAGTATGACA
57058466 TAAATGTTGT
Statistics
Matches: 298, Mismatches: 62, Indels: 37
0.75 0.16 0.09
Matches are distributed among these distances:
68 3 0.01
69 9 0.03
70 226 0.76
71 55 0.18
72 3 0.01
73 2 0.01
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (70 bp):
TTTTTATCTTACGAGCCTTAGTATGACAATTGGGAGCTTTGCTCTTGCTAACTGTGTTGGAGGCT
TCGAT
Found at i:57058248 original size:140 final size:140
Alignment explanation
Indices: 57057988--57058465 Score: 455
Period size: 140 Copynumber: 3.4 Consensus size: 140
57057978 GGAGTTTTTA
* * * * * *
57057988 ACTTTCGCTAACTATGTTAGAGGC--AGTAGTTTTTATCCTACAAGCCTTAATATGACAACTT-G
1 ACTTTCGCTAACTATGTTGGAGGCTTCG-ATTTTTTATCTTACGAGCCTTAGTATGACAA-TTGG
* * * * * * * ** *
57058050 GAGCTTTGCTTTCACTAACTATGTTAAAGGCTATGGTTTTTTTATTCTATAAGTCTTAGTATGAC
64 GAGCTTTGCTCTCACCAACTGTGTTGAAGACTATAG-TTTTTTATACTACGAGCCTTAGTATGAC
**
57058115 AGCTGGGAGCTTT
128 AATTGGGAGCTTT
* *
57058128 ACTTTCGCTAACTATGTTGGAGGCTTCGATTTTTTATCTTACGATCCTTAGTATGATAGA-TGGG
1 ACTTTCGCTAACTATGTTGGAGGCTTCGATTTTTTATCTTACGAGCCTTAGTATGACA-ATTGGG
* ** * * * * * *
57058192 AGTTTTGCTCTTGCTAACTGTATTTG-AGACTGTGGTTTTTTATACTGCGAGCCTTAGAATGACA
65 AGCTTTGCTCTCACCAACTGT-GTTGAAGACTATAGTTTTTTATACTACGAGCCTTAGTATGACA
57058256 ATTGGGAGCTTT
129 ATTGGGAGCTTT
* * *
57058268 TCTTTCGCTAACTATGTTGGAGG-TTACGAGTTTTTATCTTGCGAGCCTTAGTATGACAATTGGG
1 ACTTTCGCTAACTATGTTGGAGGCTT-CGATTTTTTATCTTACGAGCCTTAGTATGACAATTGGG
* * * * * *
57058332 AGCTTTGTTCTCACCAATTGTGTTGAAGGCTATAGTTTTTTATCCTACGAGCCTTAATATGATAA
65 AGCTTTGCTCTCACCAACTGTGTTGAAGACTATAGTTTTTTATACTACGAGCCTTAGTATGACAA
*
57058397 TTAGGAGCTTT
130 TTGGGAGCTTT
* * ** * *
57058408 GCTCTCGCTAACCGTGATGGAGGCTGCGATTTTTTATCTTACGAGCCTTAGTATGACA
1 ACTTTCGCTAACTATGTTGGAGGCTTCGATTTTTTATCTTACGAGCCTTAGTATGACA
57058466 TAAATGTTGT
Statistics
Matches: 275, Mismatches: 54, Indels: 18
0.79 0.16 0.05
Matches are distributed among these distances:
139 6 0.02
140 215 0.78
141 50 0.18
142 4 0.01
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (140 bp):
ACTTTCGCTAACTATGTTGGAGGCTTCGATTTTTTATCTTACGAGCCTTAGTATGACAATTGGGA
GCTTTGCTCTCACCAACTGTGTTGAAGACTATAGTTTTTTATACTACGAGCCTTAGTATGACAAT
TGGGAGCTTT
Found at i:57058856 original size:24 final size:24
Alignment explanation
Indices: 57058818--57058863 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
57058808 CAAGACTTAA
57058818 CCTGTTGACCACCTAATTAGCTAG
1 CCTGTTGACCACCTAATTAGCTAG
* *
57058842 CCTGTTGGCCTCCTAATTAGCT
1 CCTGTTGACCACCTAATTAGCT
57058864 TCCTCATTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.20, C:0.30, G:0.17, T:0.33
Consensus pattern (24 bp):
CCTGTTGACCACCTAATTAGCTAG
Found at i:57061689 original size:20 final size:19
Alignment explanation
Indices: 57061656--57061706 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
57061646 AAAAAGAGCA
57061656 AAAGAAAAAAGAAAGAAAAC
1 AAAGAAAAAAGAAA-AAAAC
* *
57061676 AAAG-AAAGAGGAAAAAA-
1 AAAGAAAAAAGAAAAAAAC
*
57061693 AAATAAAAAAGAAA
1 AAAGAAAAAAGAAA
57061707 CATTCAGCCA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
17 3 0.12
18 11 0.44
19 7 0.28
20 4 0.16
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (19 bp):
AAAGAAAAAAGAAAAAAAC
Found at i:57063482 original size:7 final size:7
Alignment explanation
Indices: 57063470--57063496 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
57063460 TGAATCTGTT
57063470 AACCCTA
1 AACCCTA
57063477 AACCCTA
1 AACCCTA
57063484 AACCCTA
1 AACCCTA
57063491 AACCCT
1 AACCCT
57063497 GCTAGTGAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.44, G:0.00, T:0.15
Consensus pattern (7 bp):
AACCCTA
Found at i:57064759 original size:41 final size:40
Alignment explanation
Indices: 57064625--57064768 Score: 173
Period size: 41 Copynumber: 3.5 Consensus size: 40
57064615 ATAACGGCGT
* *
57064625 TTTTGGTAAAACGCCGCTAAAAACAAAGCAATAGCGGCG-
1 TTTTGGTAAAACGCCGCTAAAGACAAAGCAATAGCGGTGC
* * *
57064664 TTTTAGTAAAAAACGCCGCTAAAGACAAGAGCACTAGCAGTGC
1 TTTTGGT--AAAACGCCGCTAAAGACAA-AGCAATAGCGGTGC
* *
57064707 TTTTGATAAAACGCCGCTAAAGATCAAAGCATTAGCGGTGC
1 TTTTGGTAAAACGCCGCTAAAGA-CAAAGCAATAGCGGTGC
*
57064748 TTTTGGTAAAACGCCACTAAA
1 TTTTGGTAAAACGCCGCTAAA
57064769 AGTCATATAA
Statistics
Matches: 89, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
39 6 0.07
41 65 0.73
42 13 0.15
43 5 0.06
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.22
Consensus pattern (40 bp):
TTTTGGTAAAACGCCGCTAAAGACAAAGCAATAGCGGTGC
Found at i:57064949 original size:14 final size:14
Alignment explanation
Indices: 57064927--57065004 Score: 56
Period size: 14 Copynumber: 5.7 Consensus size: 14
57064917 TTAATTATCA
* *
57064927 TTATAGTTTAAGGT
1 TTATGGTTTAAGAT
57064941 TTATGGTTTAAGAT
1 TTATGGTTTAAGAT
* *
57064955 ATATGGGTTTAAGCT
1 TTAT-GGTTTAAGAT
57064970 TTATGAG-TT-A-A-
1 TTATG-GTTTAAGAT
*
57064981 CTATGGTTTAAGAT
1 TTATGGTTTAAGAT
*
57064995 ATATGGTTTA
1 TTATGGTTTA
57065005 GGGTTTAAAG
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
10 1 0.02
11 6 0.12
12 1 0.02
13 2 0.04
14 27 0.54
15 13 0.26
ACGTcount: A:0.29, C:0.03, G:0.22, T:0.46
Consensus pattern (14 bp):
TTATGGTTTAAGAT
Found at i:57066603 original size:7 final size:7
Alignment explanation
Indices: 57066587--57066660 Score: 66
Period size: 7 Copynumber: 10.9 Consensus size: 7
57066577 TGGGGATATA
*
57066587 GTTTATG
1 GTTTAGG
57066594 GTTTAGG
1 GTTTAGG
57066601 GTTT-GTG
1 GTTTAG-G
*
57066608 GTTTAAG
1 GTTTAGG
*
57066615 G-AT-GG
1 GTTTAGG
57066620 GTTTAGG
1 GTTTAGG
*
57066627 GCTTAGG
1 GTTTAGG
57066634 G-TTAGG
1 GTTTAGG
57066640 GTTTAGG
1 GTTTAGG
57066647 GTTTTAGG
1 G-TTTAGG
57066655 GTTTAG
1 GTTTAG
57066661 AGTATAATTT
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
5 2 0.04
6 9 0.16
7 37 0.67
8 7 0.13
ACGTcount: A:0.15, C:0.01, G:0.41, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:57066609 original size:14 final size:13
Alignment explanation
Indices: 57066593--57066658 Score: 55
Period size: 13 Copynumber: 4.9 Consensus size: 13
57066583 TATAGTTTAT
57066593 GGTTTAGGGTTTG
1 GGTTTAGGGTTTG
* *
57066606 TGGTTTAAGG-ATG
1 -GGTTTAGGGTTTG
*
57066619 GGTTTAGGGCTTAG
1 GGTTTAGGG-TTTG
57066633 GG-TTAGGGTTTAG
1 GGTTTAGGGTTT-G
57066646 GGTTTTAGGGTTT
1 GG-TTTAGGGTTT
57066659 AGAGTATAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
12 10 0.24
13 11 0.27
14 11 0.27
15 9 0.22
ACGTcount: A:0.14, C:0.02, G:0.42, T:0.42
Consensus pattern (13 bp):
GGTTTAGGGTTTG
Found at i:57066643 original size:20 final size:21
Alignment explanation
Indices: 57066618--57066657 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
57066608 GTTTAAGGAT
57066618 GGGTTTAGGG-CTTAGGGTTA
1 GGGTTTAGGGTCTTAGGGTTA
*
57066638 GGGTTTAGGGTTTTAGGGTT
1 GGGTTTAGGGTCTTAGGGTT
57066658 TAGAGTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.12, C:0.03, G:0.45, T:0.40
Consensus pattern (21 bp):
GGGTTTAGGGTCTTAGGGTTA
Found at i:57067578 original size:43 final size:44
Alignment explanation
Indices: 57067531--57067628 Score: 119
Period size: 44 Copynumber: 2.3 Consensus size: 44
57067521 AAACTCGAAA
* * *
57067531 TCCCTAACATTTT-CCCAAATCCCCTATTTTCCCCATAGTCATT
1 TCCCTAACATTTTCCCCAAACCCCCCATTTTCCCCATACTCATT
* * **
57067574 TCCCTTACATTTTCCCCAAACCCCCCCTTTTCCCCATACTTTTT
1 TCCCTAACATTTTCCCCAAACCCCCCATTTTCCCCATACTCATT
57067618 TCCCTAA-ATTT
1 TCCCTAACATTT
57067629 GTTCCCCATC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 16 0.35
44 30 0.65
ACGTcount: A:0.20, C:0.40, G:0.01, T:0.39
Consensus pattern (44 bp):
TCCCTAACATTTTCCCCAAACCCCCCATTTTCCCCATACTCATT
Found at i:57071292 original size:23 final size:23
Alignment explanation
Indices: 57071258--57071307 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
57071248 AACATTAATC
57071258 AAATGTAAGAATTGCAGCCCTTT
1 AAATGTAAGAATTGCAGCCCTTT
*
57071281 AAATGTATGAATTGCAGCCCTTT
1 AAATGTAAGAATTGCAGCCCTTT
57071304 AAAT
1 AAAT
57071308 AAACTTGAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (23 bp):
AAATGTAAGAATTGCAGCCCTTT
Found at i:57071853 original size:241 final size:241
Alignment explanation
Indices: 57071430--57071916 Score: 911
Period size: 241 Copynumber: 2.0 Consensus size: 241
57071420 ATGAATTAAT
*
57071430 TTTATTACCATGTAGCTTGCTTGTCCGTTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
*
57071495 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGTTGGAAACCTGACAGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACAGGTTGCCTTATATCGAG
* *
57071560 CTGTAAGATATAATGGATCCTCTCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTCTAACAACGCCACGTATGATGAATCTTAAAAAATTC
57071625 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
57071671 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
*
57071736 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACAGGTTGCCTTATATCGAG
*
57071801 CTGTAAGATATAATGGATCCTCCCTAGGTCTAACAATGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTCTAACAACGCCACGTATGATGAATCTTAAAAAATTC
*
57071866 AAAAAGACTTGAAAGAAGTTCTATCGAGCTCATTTACTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
57071912 TTTAT
1 TTTAT
57071917 ATAACCTTAA
Statistics
Matches: 239, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
241 239 1.00
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (241 bp):
TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
ATTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACAGGTTGCCTTATATCGAG
CTGTAAGATATAATGGATCCTCCCTAGGTCTAACAACGCCACGTATGATGAATCTTAAAAAATTC
AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
Found at i:57072381 original size:9 final size:9
Alignment explanation
Indices: 57072358--57072485 Score: 121
Period size: 9 Copynumber: 13.6 Consensus size: 9
57072348 ATTGATCATT
*
57072358 ACTTAAATA
1 ACTTACATA
*
57072367 AATTACATA
1 ACTTACATA
57072376 ACTTACATA
1 ACTTACATA
* *
57072385 ACTCATATA
1 ACTTACATA
57072394 ACTTACATA
1 ACTTACATA
* *
57072403 ATTTACAAA
1 ACTTACATA
57072412 ACAAGTTACATA
1 AC---TTACATA
*
57072424 ACTCACATA
1 ACTTACATA
57072433 ACTTACATA
1 ACTTACATA
*
57072442 ATTTACATA
1 ACTTACATA
57072451 ACTTACATA
1 ACTTACATA
*
57072460 ACGTACATAACA
1 ACTTACAT---A
57072472 ACTTACATA
1 ACTTACATA
57072481 ACTTA
1 ACTTA
57072486 ACTAATACAT
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
9 80 0.83
12 16 0.17
ACGTcount: A:0.48, C:0.20, G:0.02, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:57072426 original size:39 final size:36
Alignment explanation
Indices: 57072358--57072481 Score: 140
Period size: 39 Copynumber: 3.3 Consensus size: 36
57072348 ATTGATCATT
* * *
57072358 ACTTAAATAAATTACATAACTTACATAACTCATATA
1 ACTTACATAATTTACAAAACTTACATAACTCATATA
*
57072394 ACTTACATAATTTACAAAACAAGTTACATAACTCACATA
1 ACTTACATAATTTACAAAAC---TTACATAACTCATATA
* *
57072433 ACTTACATAATTTACATAACTTACATAACGTACATAACA
1 ACTTACATAATTTACAAAACTTACATAAC-T-CAT-ATA
57072472 ACTTACATAA
1 ACTTACATAA
57072482 CTTAACTAAT
Statistics
Matches: 75, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
36 26 0.35
37 1 0.01
38 2 0.03
39 46 0.61
ACGTcount: A:0.48, C:0.19, G:0.02, T:0.31
Consensus pattern (36 bp):
ACTTACATAATTTACAAAACTTACATAACTCATATA
Found at i:57072459 original size:57 final size:57
Alignment explanation
Indices: 57072371--57072483 Score: 163
Period size: 57 Copynumber: 2.0 Consensus size: 57
57072361 TAAATAAATT
* ** *
57072371 ACATAACTTACATAACTCATATAACTTACATAATTTACAAAACAAGTTACATAACTC
1 ACATAACTTACATAACTCACATAACTTACATAACGTACAAAACAACTTACATAACTC
* * *
57072428 ACATAACTTACATAATTTACATAACTTACATAACGTACATAACAACTTACATAACT
1 ACATAACTTACATAACTCACATAACTTACATAACGTACAAAACAACTTACATAACT
57072484 TAACTAATAC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (57 bp):
ACATAACTTACATAACTCACATAACTTACATAACGTACAAAACAACTTACATAACTC
Found at i:57078404 original size:42 final size:42
Alignment explanation
Indices: 57078331--57078433 Score: 127
Period size: 42 Copynumber: 2.4 Consensus size: 42
57078321 ACTGGGCAAA
* *
57078331 TTAGCGGTGTTTTTTATAAAAGCGCCACTAAAGGTTC-CGATCT
1 TTAGCGGCGTTTTTTA-AAAAGCGCCACTAAAAG-TCACGATCT
* * *
57078374 TTAGCGGCGGTTTTTAAAAAGCGCCGCTAAAAGTCATGATCT
1 TTAGCGGCGTTTTTTAAAAAGCGCCACTAAAAGTCACGATCT
*
57078416 TTAGTGGCGTTTTTTAAA
1 TTAGCGGCGTTTTTTAAA
57078434 CAAACATCGC
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 2 0.04
42 36 0.69
43 14 0.27
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (42 bp):
TTAGCGGCGTTTTTTAAAAAGCGCCACTAAAAGTCACGATCT
Found at i:57079721 original size:234 final size:234
Alignment explanation
Indices: 57079308--57079734 Score: 728
Period size: 234 Copynumber: 1.8 Consensus size: 234
57079298 AAGTGTACCA
*
57079308 ATCCCTCTAATTCATCCTTCTTCTGATGAAGAGTACCGGGGGTGGCTTGGGTAAGATCCCAAGGC
1 ATCCCTCTAATTCATCCTTCTTCTAATGAAGAGTACCGGGGGTGGCTTGGGTAAGATCCCAAGGC
* * * *
57079373 TCTTGACTTGAGTGAGAATGTAGGCTCGGGTAGTGTTTAAGGGGGTGTAAGCTTCAAATCTTCCC
66 TCTTGACTTGAATGAGAATATAGGCTCGGGTAGCGTTTAAGGGGGTGTAAGCTTCAAATATTCCC
* *
57079438 TGAGGAGCATATCTTCTGGTGTGGTCTTACTAAAGTCTTAAGGGAGCCCTGAGTGTGTCACCTTG
131 TGAGGAACATATCTTCTGGTGTGGTCTTACTAAAGTCTTAAGAGAGCCCTGAGTGTGTCACCTTG
57079503 GGCCTGAATCTTCTGTAGCCTATCGAGTAAACTGCACCG
196 GGCCTGAATCTTCTGTAGCCTATCGAGTAAACTGCACCG
*
57079542 ATCCCTCTAATTCATCCTTCTTCTAATGAAGAGTATCGGGGGTGGCTTGGGTAAGATCCCAAGGC
1 ATCCCTCTAATTCATCCTTCTTCTAATGAAGAGTACCGGGGGTGGCTTGGGTAAGATCCCAAGGC
* * * *
57079607 TCTTGACTTGAATGAGAATATAGGTTTGGGTAGCGTTTAAGGGTGTGTAAGCTTCAAATATTCCT
66 TCTTGACTTGAATGAGAATATAGGCTCGGGTAGCGTTTAAGGGGGTGTAAGCTTCAAATATTCCC
* *
57079672 TGAGGAACATATCTTCTGGTGTGTTCTTACTAAAGTCTTAAGAGAGCCCTGAGTGTGTTACCT
131 TGAGGAACATATCTTCTGGTGTGGTCTTACTAAAGTCTTAAGAGAGCCCTGAGTGTGTCACCT
57079735 GACTCTTCTA
Statistics
Matches: 179, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
234 179 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (234 bp):
ATCCCTCTAATTCATCCTTCTTCTAATGAAGAGTACCGGGGGTGGCTTGGGTAAGATCCCAAGGC
TCTTGACTTGAATGAGAATATAGGCTCGGGTAGCGTTTAAGGGGGTGTAAGCTTCAAATATTCCC
TGAGGAACATATCTTCTGGTGTGGTCTTACTAAAGTCTTAAGAGAGCCCTGAGTGTGTCACCTTG
GGCCTGAATCTTCTGTAGCCTATCGAGTAAACTGCACCG
Found at i:57081310 original size:26 final size:26
Alignment explanation
Indices: 57081281--57081343 Score: 99
Period size: 26 Copynumber: 2.4 Consensus size: 26
57081271 ACCTTGACTT
57081281 GCGAGCTAGGTCATTGGCTTTGCCTC
1 GCGAGCTAGGTCATTGGCTTTGCCTC
* * *
57081307 GCGAGTTGGGTCTTTGGCTTTGCCTC
1 GCGAGCTAGGTCATTGGCTTTGCCTC
57081333 GCGAGCTAGGT
1 GCGAGCTAGGT
57081344 TCATGAGCTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.10, C:0.24, G:0.35, T:0.32
Consensus pattern (26 bp):
GCGAGCTAGGTCATTGGCTTTGCCTC
Found at i:57087174 original size:30 final size:30
Alignment explanation
Indices: 57087117--57087174 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
57087107 TTTTCGAGTA
* **
57087117 TAGGGGTAAAATGGTCATTTTGTCAAAGTT
1 TAGGGGCAAAATGGTCATTTTACCAAAGTT
57087147 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
57087175 ATGTGAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.10, G:0.26, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTT
Found at i:57093806 original size:30 final size:30
Alignment explanation
Indices: 57093770--57093826 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
57093760 TTTGATTTTC
* *
57093770 AAGTCTAGGGGTAAAATGGTCATTTTGTGA
1 AAGTCTAAGGGCAAAATGGTCATTTTGTGA
*
57093800 AAGTCTAAGGGCAAAATTGTCATTTTG
1 AAGTCTAAGGGCAAAATGGTCATTTTG
57093827 CCCAATAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.33
Consensus pattern (30 bp):
AAGTCTAAGGGCAAAATGGTCATTTTGTGA
Found at i:57094262 original size:48 final size:46
Alignment explanation
Indices: 57094164--57094434 Score: 209
Period size: 48 Copynumber: 5.8 Consensus size: 46
57094154 TTTGTGTAGC
* *
57094164 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTA-TGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG---CATTAGAGAGAGCT
*
57094210 AGTGTAAGACCATGTCTGGGACATGGAATCGGCATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATT-AGA-GAGAGCT
* * * * * *
57094258 AGTGTAAGA-CATGTTTGGGATA-AGTATCGG--TTACA-AGATGTGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAGAGAGA-G-CT
* *
57094301 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGTATAGAG-GTGCC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCA--T-TAGAGAGAGCT
* * * *
57094350 AGTGTAAGACCATGTCTAGGACATGGCATCAGCATAGATATGTGAGAGAT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAT---TA-GAGAGAGCT
57094400 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
57094435 CATACCATAT
Statistics
Matches: 180, Mismatches: 25, Indels: 36
0.75 0.10 0.15
Matches are distributed among these distances:
41 3 0.02
42 1 0.01
43 3 0.02
44 11 0.06
45 15 0.08
46 23 0.13
47 25 0.14
48 56 0.31
49 2 0.01
50 37 0.21
51 4 0.02
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAGAGAGAGCT
Found at i:57096380 original size:31 final size:31
Alignment explanation
Indices: 57096342--57096404 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
57096332 AATAGTTTGT
*
57096342 TTCTTCATTTGGACTGCTCTAAAATAAAGAC
1 TTCTTCATTTGAACTGCTCTAAAATAAAGAC
57096373 TTCTTCATTTGAACTGCTCTAAAATAAAGAC
1 TTCTTCATTTGAACTGCTCTAAAATAAAGAC
57096404 T
1 T
57096405 CATTACAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (31 bp):
TTCTTCATTTGAACTGCTCTAAAATAAAGAC
Found at i:57097133 original size:21 final size:21
Alignment explanation
Indices: 57097107--57097150 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
57097097 TTTTCAAAGC
57097107 TGTACAGGTCAAATGCCCGTG
1 TGTACAGGTCAAATGCCCGTG
57097128 TGTACAGGTCAAATGCCCGTG
1 TGTACAGGTCAAATGCCCGTG
57097149 TG
1 TG
57097151 AACACACGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.25
Consensus pattern (21 bp):
TGTACAGGTCAAATGCCCGTG
Found at i:57098477 original size:42 final size:44
Alignment explanation
Indices: 57098406--57098509 Score: 108
Period size: 42 Copynumber: 2.4 Consensus size: 44
57098396 TCTTGCATGT
*
57098406 AATCAAATATCGATGCCACTGTCCTAGACAGGGTCTTACACG-A
1 AATCAAATATCGATGCCACTGTCCTAGACAGAGTCTTACACGTA
* * * *
57098449 AATCAAATA-CGATGCCGATTTTCC-AGACATAGTCTTACATGTA
1 AATCAAATATCGATGCC-ACTGTCCTAGACAGAGTCTTACACGTA
*
57098492 AATCATAA-GTCGATGCCA
1 AATCA-AATATCGATGCCA
57098510 ACATCCCAGA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
42 21 0.41
43 21 0.41
44 9 0.18
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (44 bp):
AATCAAATATCGATGCCACTGTCCTAGACAGAGTCTTACACGTA
Found at i:57098495 original size:43 final size:42
Alignment explanation
Indices: 57098395--57098531 Score: 118
Period size: 43 Copynumber: 3.2 Consensus size: 42
57098385 CCTAGACGTG
* * **
57098395 GTCTTGCATGT-AATCAAATATCGATGCCACTGTCCTAGACAGG
1 GTCTTACATGTAAATCAAATA-CGATGCCACTTTCC-AGACATA
* *
57098438 GTCTTACACG-AAATCAAATACGATGCCGATTTTCCAGACATA
1 GTCTTACATGTAAATCAAATACGATGCC-ACTTTCCAGACATA
* * *
57098480 GTCTTACATGTAAATCATAAGT-CGATGCCAACATCCCAGACGTA
1 GTCTTACATGTAAATCA-AA-TACGATGCC-ACTTTCCAGACATA
57098524 GTCTTACA
1 GTCTTACA
57098532 CGAAAACACA
Statistics
Matches: 77, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
42 21 0.27
43 28 0.36
44 27 0.35
45 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (42 bp):
GTCTTACATGTAAATCAAATACGATGCCACTTTCCAGACATA
Found at i:57104237 original size:25 final size:25
Alignment explanation
Indices: 57104208--57104258 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
57104198 AAGAATAATT
*
57104208 TGAATATTTGATATTGCCTAATAAA
1 TGAATATCTGATATTGCCTAATAAA
* *
57104233 TGAATATCTGATATTGCTTAGTAAA
1 TGAATATCTGATATTGCCTAATAAA
57104258 T
1 T
57104259 CTCAAGCCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.41
Consensus pattern (25 bp):
TGAATATCTGATATTGCCTAATAAA
Found at i:57108238 original size:28 final size:30
Alignment explanation
Indices: 57108200--57108304 Score: 99
Period size: 31 Copynumber: 3.5 Consensus size: 30
57108190 GACTTAAAAT
57108200 ATAAAAAAAAAC-TT-AACAACTTAGTGAC
1 ATAAAAAAAAACTTTGAACAACTTAGTGAC
* * *
57108228 TTAAATAAAAACTTTTGAACAATTTAGTGAC
1 ATAAAAAAAAAC-TTTGAACAACTTAGTGAC
* *
57108259 ATAAACAAAAAATTTTGAAC-AGTTCAGTGAC
1 ATAAA-AAAAAACTTTGAACAACTT-AGTGAC
**
57108290 ATAAATGAAAACTTT
1 ATAAAAAAAAACTTT
57108305 CAAATAATTC
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
28 10 0.16
30 12 0.19
31 35 0.56
32 5 0.08
ACGTcount: A:0.50, C:0.11, G:0.10, T:0.29
Consensus pattern (30 bp):
ATAAAAAAAAACTTTGAACAACTTAGTGAC
Found at i:57108249 original size:31 final size:31
Alignment explanation
Indices: 57108214--57108304 Score: 112
Period size: 31 Copynumber: 2.9 Consensus size: 31
57108204 AAAAAAACTT
*
57108214 AACAACTTAGTGACTTAAATAAAAACTTTTG
1 AACAACTTAGTGACATAAATAAAAACTTTTG
* * *
57108245 AACAATTTAGTGACATAAACAAAAAATTTTG
1 AACAACTTAGTGACATAAATAAAAACTTTTG
* *
57108276 AAC-AGTTCAGTGACATAAATGAAAACTTT
1 AACAACTT-AGTGACATAAATAAAAACTTT
57108305 CAAATAATTC
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
30 3 0.06
31 48 0.94
ACGTcount: A:0.47, C:0.12, G:0.11, T:0.30
Consensus pattern (31 bp):
AACAACTTAGTGACATAAATAAAAACTTTTG
Found at i:57111448 original size:40 final size:40
Alignment explanation
Indices: 57111364--57111584 Score: 202
Period size: 40 Copynumber: 5.5 Consensus size: 40
57111354 TTGAATGCTG
* * * *
57111364 TCCGGGCTAAGTTCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
** *
57111403 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
57111444 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
57111484 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAT
**
57111524 TCCGGGTTAAGTCCCGAAGGCA-TTGTATGAGTTACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
57111562 AACCGGGCTATGTCCCGAAGGCA
1 -TCCGGGTTAAGTCCCGAAGGCA
57111585 CTTGAACGAG
Statistics
Matches: 152, Mismatches: 22, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 29 0.19
40 112 0.74
41 10 0.07
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:57128478 original size:40 final size:40
Alignment explanation
Indices: 57128394--57128577 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
57128384 TTGAATGCTG
* * * *
57128394 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
**
57128433 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
57128474 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
57128514 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
57128554 TCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
57128578 GTATGAGTTA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
39 2 0.02
40 113 0.90
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:57128531 original size:80 final size:81
Alignment explanation
Indices: 57128394--57128574 Score: 230
Period size: 80 Copynumber: 2.3 Consensus size: 81
57128384 TTGAATGCTG
* *
57128394 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
57128458 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
57128474 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
57128535 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
57128554 TCCGGGTTAAGTCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
57128575 ATTGTATGAG
Statistics
Matches: 90, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 4 0.04
80 77 0.86
81 9 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:57133750 original size:49 final size:49
Alignment explanation
Indices: 57133684--57133970 Score: 397
Period size: 49 Copynumber: 6.0 Consensus size: 49
57133674 ATGATAGTAA
57133684 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
*
57133733 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
* *
57133780 GGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
* * * * *
57133829 GGCCGAGTGGCCAACGTGATGAATGTGAAAGTG--TATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
* *
57133876 GGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
* * * * *
57133925 GGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
57133971 AGTCCCGAAG
Statistics
Matches: 209, Mismatches: 25, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
47 92 0.44
48 1 0.00
49 116 0.56
ACGTcount: A:0.30, C:0.10, G:0.32, T:0.28
Consensus pattern (49 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
Found at i:57133848 original size:96 final size:96
Alignment explanation
Indices: 57133681--57133972 Score: 512
Period size: 96 Copynumber: 3.0 Consensus size: 96
57133671 GAAATGATAG
* * * * *
57133681 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCA
*
57133746 ATGTGATGAATGTGAAAGTGTATATATGTGA
66 ACGTGATGAATGTGAAAGTGTATATATGTGA
57133777 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCA
57133842 ACGTGATGAATGTGAAAGTGTATATATGTGA
66 ACGTGATGAATGTGAAAGTGTATATATGTGA
57133873 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCA
* *
57133938 ACGTGATGGATGTGAAAGTGTATAAATGTGA
66 ACGTGATGAATGTGAAAGTGTATATATGTGA
57133969 TAAG
1 TAAG
57133973 TCCCGAAGGG
Statistics
Matches: 188, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
96 188 1.00
ACGTcount: A:0.31, C:0.10, G:0.32, T:0.28
Consensus pattern (96 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCA
ACGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:57136384 original size:42 final size:43
Alignment explanation
Indices: 57136327--57136439 Score: 131
Period size: 42 Copynumber: 2.7 Consensus size: 43
57136317 CACATGTATC
* * *
57136327 GCATCCATTATGAACTCGGACCACTCAACGAGCCCGGATGCTT
1 GCATCCATAATGAACTCAGACCACTCAACAAGCCCGGATGCTT
*
57136370 GCATCCA-AATGAACTCAGACCACTCAACAAGCTCGGATGC-T
1 GCATCCATAATGAACTCAGACCACTCAACAAGCCCGGATGCTT
* ** * *
57136411 ACATATATCATGAACCCAGACCACTCAAC
1 GCATCCATAATGAACTCAGACCACTCAAC
57136440 GAGTTCAGAC
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
41 5 0.08
42 48 0.80
43 7 0.12
ACGTcount: A:0.33, C:0.33, G:0.16, T:0.19
Consensus pattern (43 bp):
GCATCCATAATGAACTCAGACCACTCAACAAGCCCGGATGCTT
Found at i:57139850 original size:46 final size:45
Alignment explanation
Indices: 57139780--57140028 Score: 345
Period size: 46 Copynumber: 5.4 Consensus size: 45
57139770 TACCATAATG
* *
57139780 TCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCA-TTTCTGTCATGTTGCCATGGTA
* *
57139826 TCTTTCAACCATGGTCTTATTCATTTCTTGTCACGTTGCCATAGTA
1 TCTTTCAACCATGGTCTTATTCATTTC-TGTCATGTTGCCATGGTA
* *
57139872 TCTTTCAACCATAGTCTTATTCATTTCCTTTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTT-CTGTCATGTTGCCATGGTA
57139918 TCTTTCAACCATGGTCTTATTCATTTCTTGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTATTCATTTC-TGTCATGTTGCCATGGTA
* * * * *
57139964 TCTTTCAAGCATGGTCTTATTCATTTCTCATCATATCGCCATAGTA
1 TCTTTCAACCATGGTCTTATTCATTTCT-GTCATGTTGCCATGGTA
*
57140010 TCTTTCAACTATGGTCTTA
1 TCTTTCAACCATGGTCTTA
57140029 CACATTTCAA
Statistics
Matches: 182, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
45 6 0.03
46 175 0.96
47 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.45
Consensus pattern (45 bp):
TCTTTCAACCATGGTCTTATTCATTTCTGTCATGTTGCCATGGTA
Found at i:57140028 original size:138 final size:138
Alignment explanation
Indices: 57139780--57140028 Score: 392
Period size: 138 Copynumber: 1.8 Consensus size: 138
57139770 TACCATAATG
*
57139780 TCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
** * *
57139845 TTCATTTCTTGTCACGTTGCCATAGTATCTTTCAACCATAGTCTTATTCATTTCCTTTCATGTTG
66 TTCATTTCTCATCACATCGCCATAGTATCTTTCAACCATAGTCTTATTCATTTCCTTTCATGTTG
57139910 CCATGGTA
131 CCATGGTA
* *
57139918 TCTTTCAACCATGGTCTTATTCA-TTTCTTGTCATGTTGCCATGGTATCTTTCAAGCATGGTCTT
1 TCTTTCAACCATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAACCATGGTCTT
* * *
57139982 ATTCATTTCTCATCATATCGCCATAGTATCTTTCAACTATGGTCTTA
65 ATTCATTTCTCATCACATCGCCATAGTATCTTTCAACCATAGTCTTA
57140029 CACATTTCAA
Statistics
Matches: 100, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
137 4 0.04
138 96 0.96
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.45
Consensus pattern (138 bp):
TCTTTCAACCATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
TTCATTTCTCATCACATCGCCATAGTATCTTTCAACCATAGTCTTATTCATTTCCTTTCATGTTG
CCATGGTA
Found at i:57140068 original size:45 final size:45
Alignment explanation
Indices: 57140019--57140168 Score: 192
Period size: 45 Copynumber: 3.3 Consensus size: 45
57140009 ATCTTTCAAC
* * * *
57140019 TATGGTCTTACACATTTCAATCGCGATGCCATAGAGCCTTTCAGT
1 TATGGTCTTACTCATCTCAATCGTGATGCCATAGCGCCTTTCAGT
** *
57140064 TATGGTCTTACTTGTCTGAATCGTGATGCCATAGCGCCTTTCAGT
1 TATGGTCTTACTCATCTCAATCGTGATGCCATAGCGCCTTTCAGT
** * * *
57140109 TATGGTCTTACTTGTCTGAATCGTGATGCCATAGCGTCTTTCAGC
1 TATGGTCTTACTCATCTCAATCGTGATGCCATAGCGCCTTTCAGT
57140154 TATGGTCTTACTCAT
1 TATGGTCTTACTCAT
57140169 TTCTGGTATG
Statistics
Matches: 94, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 94 1.00
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (45 bp):
TATGGTCTTACTCATCTCAATCGTGATGCCATAGCGCCTTTCAGT
Found at i:57140181 original size:45 final size:46
Alignment explanation
Indices: 57139780--57140188 Score: 282
Period size: 46 Copynumber: 9.0 Consensus size: 46
57139770 TACCATAATG
* *
57139780 TCTTTCAACTATGGTCTTACTCATTTTCT-GTCATGTTGCCATGGTA
1 TCTTTCAACTATGGTCTTACTCA-TTTCTGGTCATGATGCCATAGTA
* * * * *
57139826 TCTTTCAACCATGGTCTTATTCATTTCTTGTCACGTTGCCATAGTA
1 TCTTTCAACTATGGTCTTACTCATTTCTGGTCATGATGCCATAGTA
* * * * * *
57139872 TCTTTCAACCATAGTCTTATTCATTTCCT-TTCATGTTGCCATGGTA
1 TCTTTCAACTATGGTCTTACTCATTT-CTGGTCATGATGCCATAGTA
* * * * *
57139918 TCTTTCAACCATGGTCTTATTCATTTCTTGTCATGTTGCCATGGTA
1 TCTTTCAACTATGGTCTTACTCATTTCTGGTCATGATGCCATAGTA
* **
57139964 TCTTTCAAGC-ATGGTCTTATTCATTTCTCATCAT-ATCGCCATAGTA
1 TCTTTCAA-CTATGGTCTTACTCATTTCTGGTCATGAT-GCCATAGTA
* ** **
57140010 TCTTTCAACTATGGTCTTACACATTTC-AATCGCGATGCCATAG-A
1 TCTTTCAACTATGGTCTTACTCATTTCTGGTCATGATGCCATAGTA
* ** * * * **
57140054 GCCTTTCAGTTATGGTCTTACT--TGTCTGAATCGTGATGCCATAGCG
1 -TCTTTCAACTATGGTCTTACTCATTTCTG-GTCATGATGCCATAGTA
* ** * * * **
57140100 CCTTTCAGTTATGGTCTTACT--TGTCTGAATCGTGATGCCATAGCG
1 TCTTTCAACTATGGTCTTACTCATTTCTG-GTCATGATGCCATAGTA
* *
57140145 TCTTTCAGCTATGGTCTTACTCATTTCTGGT-ATGATGTCATAGT
1 TCTTTCAACTATGGTCTTACTCATTTCTGGTCATGATGCCATAGT
57140189 CCAACTATGG
Statistics
Matches: 316, Mismatches: 34, Indels: 27
0.84 0.09 0.07
Matches are distributed among these distances:
43 3 0.01
44 1 0.00
45 124 0.39
46 180 0.57
47 8 0.03
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.42
Consensus pattern (46 bp):
TCTTTCAACTATGGTCTTACTCATTTCTGGTCATGATGCCATAGTA
Found at i:57141912 original size:8 final size:8
Alignment explanation
Indices: 57141899--57141923 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
57141889 ATATATATTG
57141899 AATAAAAT
1 AATAAAAT
57141907 AATAAAAT
1 AATAAAAT
57141915 AATAAAAT
1 AATAAAAT
57141923 A
1 A
57141924 TCATTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:57142928 original size:10 final size:10
Alignment explanation
Indices: 57142903--57142935 Score: 50
Period size: 9 Copynumber: 3.3 Consensus size: 10
57142893 AAATTGATTC
57142903 TTATAATTTT
1 TTATAATTTT
57142913 TT-TAATTTT
1 TTATAATTTT
57142922 TTATAATTTAT
1 TTATAATTT-T
57142933 TTA
1 TTA
57142936 CTTTGAAGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.43
10 8 0.38
11 4 0.19
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TTATAATTTT
Found at i:57143377 original size:23 final size:23
Alignment explanation
Indices: 57143347--57143392 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
57143337 TATAATTCCT
*
57143347 TTGTGAACAAACTCTGGACAAAA
1 TTGTGAACAAACTCTGAACAAAA
57143370 TTGTGAACAAACTCTGAACAAAA
1 TTGTGAACAAACTCTGAACAAAA
57143393 GAAGTTGATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.17, G:0.15, T:0.22
Consensus pattern (23 bp):
TTGTGAACAAACTCTGAACAAAA
Found at i:57149538 original size:13 final size:12
Alignment explanation
Indices: 57149515--57149577 Score: 55
Period size: 12 Copynumber: 5.4 Consensus size: 12
57149505 AATAATTTTA
57149515 TATTAAAATTAT
1 TATTAAAATTAT
57149527 TATT-AAA-TAT
1 TATTAAAATTAT
57149537 TATTAATAATTA-
1 TATTAA-AATTAT
*
57149549 TATTAAGAA-TGT
1 TATTAA-AATTAT
57149561 TATT-AAATTAT
1 TATTAAAATTAT
57149572 ATATTA
1 -TATTA
57149578 TTTTATAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 13
0.72 0.05 0.23
Matches are distributed among these distances:
10 9 0.22
11 8 0.20
12 22 0.54
13 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (12 bp):
TATTAAAATTAT
Found at i:57149542 original size:22 final size:23
Alignment explanation
Indices: 57149515--57149577 Score: 69
Period size: 22 Copynumber: 2.7 Consensus size: 23
57149505 AATAATTTTA
57149515 TATTAAAATTATTATTA-AATAT
1 TATTAAAATTATTATTAGAATAT
*
57149537 TATTAATAATTA-TATTAAGAATGT
1 TATTAA-AATTATTATT-AGAATAT
57149561 TATT-AAATTATATATTA
1 TATTAAAATTAT-TATTA
57149578 TTTTATAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
22 15 0.43
23 8 0.23
24 12 0.34
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (23 bp):
TATTAAAATTATTATTAGAATAT
Found at i:57149570 original size:29 final size:27
Alignment explanation
Indices: 57149538--57149626 Score: 74
Period size: 29 Copynumber: 3.1 Consensus size: 27
57149528 ATTAAATATT
57149538 ATTAATAATTATATTAAGAATGTTATTAA
1 ATTAATAATTATATTAA-AAT-TTATTAA
* *
57149567 ATT-ATATATTATTTTATAAATTGTATTTA
1 ATTAATA-ATTATATTA-AAATT-TATTAA
* *
57149596 A-TAATAATTATGTTAAAATATGATTAA
1 ATTAATAATTATATTAAAAT-TTATTAA
57149623 ATTA
1 ATTA
57149627 TTTATTTTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
27 9 0.18
28 16 0.33
29 23 0.47
30 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (27 bp):
ATTAATAATTATATTAAAATTTATTAA
Found at i:57149584 original size:34 final size:33
Alignment explanation
Indices: 57149507--57149584 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 33
57149497 TTCTTAATAA
57149507 TAATTTTATATTAAAATTATTATTAAATATTAT
1 TAATTTTATATTAAAATTATTATTAAATATTAT
* *
57149540 TAATAATTATATTAAGAA-TGTTATTAAATTATATAT
1 TAAT-TTTATATTAA-AATTATTATTAAA-TAT-TAT
57149576 T-ATTTTATA
1 TAATTTTATA
57149585 AATTGTATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
33 4 0.11
34 23 0.61
35 7 0.18
36 4 0.11
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (33 bp):
TAATTTTATATTAAAATTATTATTAAATATTAT
Found at i:57149690 original size:25 final size:26
Alignment explanation
Indices: 57149641--57149691 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
57149631 TTTTTTATTT
*
57149641 TTATTAAAATATATTTAACAATAATC
1 TTATTAAAATATATATAACAATAATC
*
57149667 TTATTAAAATTTA-ATAACAATAATC
1 TTATTAAAATATATATAACAATAATC
57149692 ATCTACCTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (26 bp):
TTATTAAAATATATATAACAATAATC
Found at i:57149821 original size:44 final size:46
Alignment explanation
Indices: 57149761--57149852 Score: 116
Period size: 44 Copynumber: 2.0 Consensus size: 46
57149751 TATTACAACA
57149761 TCTATTCCATTCAACCAAACACAAGAATT-CT-ATTACAGCTCTAT
1 TCTATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTAT
* * *** *
57149805 TCTATTTCATTTAACCAAACAGTTGAATTATTGATTACAGCTCTAT
1 TCTATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTAT
57149851 TC
1 TC
57149853 CATTACATCT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
44 24 0.60
45 1 0.03
46 15 0.38
ACGTcount: A:0.34, C:0.23, G:0.07, T:0.37
Consensus pattern (46 bp):
TCTATTCCATTCAACCAAACACAAGAATTACTGATTACAGCTCTAT
Found at i:57149859 original size:16 final size:16
Alignment explanation
Indices: 57149838--57149892 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
57149828 TGAATTATTG
57149838 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
* *
57149854 ATTACATCTCTATTCA
1 ATTACAGCTCTATTCC
* *
57149870 ATTACAACCCTATTCC
1 ATTACAGCTCTATTCC
57149886 ATTACAG
1 ATTACAG
57149893 TGAACCAAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.31, C:0.29, G:0.04, T:0.36
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:57152313 original size:59 final size:60
Alignment explanation
Indices: 57152224--57152341 Score: 152
Period size: 59 Copynumber: 2.0 Consensus size: 60
57152214 TTAAAAATAT
* *
57152224 AAAAAATTTAAAATTTACTAAAAATTAGTAAAAAAATTAT-AAAATATATAGAAATATTG
1 AAAAAATTTAAAATTTACTAAAAATCAGTAAAAAAATTATAAAAATATAAAGAAATATTG
* *
57152283 AAAAAATTATAAAATTT--TATAAAGTCAGTAAGAAAATTATGAAAAATATAAAGAAATAT
1 AAAAAATT-TAAAATTTACTA-AAAATCAGTAAAAAAATTAT-AAAAATATAAAGAAATAT
57152342 AAAATTAGTA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
58 2 0.04
59 25 0.49
60 8 0.16
61 16 0.31
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.31
Consensus pattern (60 bp):
AAAAAATTTAAAATTTACTAAAAATCAGTAAAAAAATTATAAAAATATAAAGAAATATTG
Found at i:57152437 original size:29 final size:29
Alignment explanation
Indices: 57152397--57152465 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
57152387 TTTATAATTT
*
57152397 AAATTAATAAAAAATATAAAAATTGTA-AAA
1 AAATT-ATAAAAAATATAAAAA-TATAGAAA
* *
57152427 AAATTATAAAATATATAGAAATATAGAAA
1 AAATTATAAAAAATATAAAAATATAGAAA
57152456 AAATTATAAA
1 AAATTATAAA
57152466 GTTTTATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
28 3 0.09
29 27 0.77
30 5 0.14
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (29 bp):
AAATTATAAAAAATATAAAAATATAGAAA
Found at i:57152463 original size:170 final size:171
Alignment explanation
Indices: 57152242--57152566 Score: 514
Period size: 170 Copynumber: 1.9 Consensus size: 171
57152232 TAAAATTTAC
*
57152242 TAAAAATTAGTAAAAAAATTATAAAATATATAGAAATATTGAAAAAATTATAAAATTTTATAAAG
1 TAAAAATTAGTAAAAAAATTATAAAATATATAGAAATATAGAAAAAATTATAAAATTTTATAAAG
*
57152307 TCAGTAAGAAAATTATGAAAAATA-TAAAGAAATATAAAATTAGTAAAATAA-A-ATAAAATTAA
66 T-AGTAAGAAAATTAT-AAAAAAAGTAAAGAAATATAAAATTAGTAAAA-AATATATAAAATTAA
*
57152369 TAGTACCTAAAGAAACATTTTATAATTTAAATTAATAAAAAATA
128 TAGTACCAAAAGAAACATTTTATAATTTAAATTAATAAAAAATA
*
57152413 TAAAAATT-GTAAAAAAATTATAAAATATATAGAAATATAGAAAAAATTATAAAGTTTTATAAAG
1 TAAAAATTAGTAAAAAAATTATAAAATATATAGAAATATAGAAAAAATTATAAAATTTTATAAAG
* * * *
57152477 TAGTAAGAAAATTATAAAAAAAGTAAAGAAATATAAAATTTGTAAAAAATATGTAAAATTTATCG
66 TAGTAAGAAAATTATAAAAAAAGTAAAGAAATATAAAATTAGTAAAAAATATATAAAATTAATAG
*
57152542 TACCAAAAGAAACATTTTATGATTT
131 TACCAAAAGAAACATTTTATAATTT
57152567 TTCTATAAAT
Statistics
Matches: 142, Mismatches: 9, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
168 8 0.06
169 38 0.27
170 88 0.62
171 8 0.06
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (171 bp):
TAAAAATTAGTAAAAAAATTATAAAATATATAGAAATATAGAAAAAATTATAAAATTTTATAAAG
TAGTAAGAAAATTATAAAAAAAGTAAAGAAATATAAAATTAGTAAAAAATATATAAAATTAATAG
TACCAAAAGAAACATTTTATAATTTAAATTAATAAAAAATA
Found at i:57152785 original size:11 final size:10
Alignment explanation
Indices: 57152722--57152866 Score: 66
Period size: 10 Copynumber: 15.5 Consensus size: 10
57152712 GTTTGATATA
57152722 TTTTATAATTT
1 TTTTATAA-TT
*
57152733 TTTTATGA-T
1 TTTTATAATT
**
57152742 TTTTATAAAA
1 TTTTATAATT
* * *
57152752 TATTACAAAT
1 TTTTATAATT
57152762 TTTTAT-ATT
1 TTTTATAATT
57152771 TTTTATAACTT
1 TTTTATAA-TT
57152782 TTTTATAA--
1 TTTTATAATT
57152790 TTTTA-AA-T
1 TTTTATAATT
57152798 TTTTA-AATAT
1 TTTTATAAT-T
*
57152808 TTTTATTAA-A
1 TTTTA-TAATT
*
57152818 TTTAATAA-T
1 TTTTATAATT
57152827 TTTTATAATT
1 TTTTATAATT
* *
57152837 TTAT-TGA--
1 TTTTATAATT
57152844 TTTT-T-ATT
1 TTTTATAATT
57152852 TTTTATAATT
1 TTTTATAATT
57152862 TTTTA
1 TTTTA
57152867 CCACATGTTA
Statistics
Matches: 105, Mismatches: 16, Indels: 27
0.71 0.11 0.18
Matches are distributed among these distances:
6 1 0.01
7 6 0.06
8 16 0.15
9 29 0.28
10 34 0.32
11 17 0.16
12 2 0.02
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (10 bp):
TTTTATAATT
Found at i:57152865 original size:18 final size:18
Alignment explanation
Indices: 57152759--57152866 Score: 66
Period size: 18 Copynumber: 5.9 Consensus size: 18
57152749 AAATATTACA
57152759 AATTTTTATATTTTTTAT
1 AATTTTTATATTTTTTAT
*
57152777 AACTTTTT-TATAATTTTA-
1 AA-TTTTTATAT-TTTTTAT
*
57152795 AATTTTTAAATATTTTTATT
1 AATTTTTATAT-TTTTTA-T
* * *
57152815 AAATTTAATAATTTTTAT
1 AATTTTTATATTTTTTAT
57152833 AA-TTTTAT-TGATTTTTAT
1 AATTTTTATAT--TTTTTAT
57152851 --TTTTTATAATTTTTTA
1 AATTTTTAT-ATTTTTTA
57152867 CCACATGTTA
Statistics
Matches: 71, Mismatches: 9, Indels: 21
0.70 0.09 0.21
Matches are distributed among these distances:
17 22 0.31
18 25 0.35
19 17 0.24
20 7 0.10
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (18 bp):
AATTTTTATATTTTTTAT
Found at i:57152865 original size:27 final size:27
Alignment explanation
Indices: 57152759--57152866 Score: 98
Period size: 27 Copynumber: 3.9 Consensus size: 27
57152749 AAATATTACA
57152759 AATTTTTATATTTTTTATAACTTTTTTA-T
1 AATTTTTA-A-TTTTTATAA-TTTTTTATT
*
57152788 AATTTTAAATTTTTA-AATATTTTTATT
1 AATTTTTAATTTTTATAAT-TTTTTATT
*
57152815 AAATTTAATAATTTTTATAA--TTTTATT
1 -AATTT-TTAATTTTTATAATTTTTTATT
* *
57152842 GATTTTTATTTTTTATAATTTTTTA
1 AATTTTTAATTTTTATAATTTTTTA
57152867 CCACATGTTA
Statistics
Matches: 66, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
25 12 0.18
26 12 0.18
27 19 0.29
28 6 0.09
29 15 0.23
30 2 0.03
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.66
Consensus pattern (27 bp):
AATTTTTAATTTTTATAATTTTTTATT
Found at i:57153157 original size:93 final size:89
Alignment explanation
Indices: 57152969--57153502 Score: 538
Period size: 86 Copynumber: 6.0 Consensus size: 89
57152959 TCAAAGGACA
* * * *
57152969 TTTTTTATGCATTTTGACAGTTTAAGTACCCGATTGAGTGC---AAAAAAA-A-GGGCTTAATTT
1 TTTTTTATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAAACAGGGGCTTAATTG
*
57153029 CAATTTTTTGAAAAAAATTGAGGGTC
66 C-TTTTTTTGAAAAAAATTGAGGG-C
* * *
57153055 TTTTTTATGCATTTTGACAGTTCAAGTACCCAATTAAGTGCAAAAAGAAAAAGCATGGGCTTAAT
1 TTTTTTATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAA-AAAAA-CAGGGGCTTAAT
*
57153120 TGCTTTATTTTGAAAAAAATTGACGGTC
64 TGCTTT-TTTTGAAAAAAATTGA-GGGC
* * *
57153148 TTTTTTATGCA-TTTGAAAGTTCAAGTACTCGATTGAGT--AAAAAAGAAAGCAGGGGCTTAATT
1 TTTTTTATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAA-AAAACAGGGGCTTAATT
* * *
57153210 GC-TTTTTTG-AAAAATTTGAAAGCC
65 GCTTTTTTTGAAAAAAATTG-AGGGC
* * * **
57153234 TTTTTTATACATTTT-AAAATTTAAGTACCCAATTGAGTG-AAAAAAAAAACAATGGCTTAATTG
1 TTTTTTATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAAACAGGGGCTTAATTG
57153297 CTTTATTTTGAAAAAAAAATTGAGGGC
66 CTTT-TTTTG--AAAAAAATTGAGGGC
* *
57153324 ATTTTTTATGCATTTTGAAAGTTCAAGTATCCAATTGAGTACAAAAAAAAACAAAGCAGGGGCTT
1 -TTTTTTATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGC--AAAAAAA-AAA-CAGGGGCTT
**
57153389 AATTGCTTTTCTTTG-AAAATTTTGAGGGC
61 AATTGCTTTT-TTTGAAAAAAATTGAGGGC
* * * * *
57153418 ATTTTTATGCATTTTAAAAGTTTAAGTACCCAATTGAGTGGAAAAAAAAAACAAAGGG-TTAATT
1 TTTTTTATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAAAC-AGGGGCTTAATT
*
57153482 GTTTTTTTTGAAAAAAATTGA
65 GCTTTTTTTGAAAAAAATTGA
57153503 AGACCTTTTA
Statistics
Matches: 375, Mismatches: 45, Indels: 53
0.79 0.10 0.11
Matches are distributed among these distances:
86 93 0.25
87 17 0.05
88 11 0.03
89 37 0.10
90 23 0.06
91 29 0.08
92 46 0.12
93 74 0.20
94 14 0.04
95 7 0.02
96 4 0.01
97 20 0.05
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (89 bp):
TTTTTTATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAAACAGGGGCTTAATTG
CTTTTTTTGAAAAAAATTGAGGGC
Found at i:57153225 original size:178 final size:175
Alignment explanation
Indices: 57152967--57153502 Score: 590
Period size: 178 Copynumber: 3.0 Consensus size: 175
57152957 AGTCAAAGGA
* * * ** *
57152967 CATTTTTTATGCATTTTGACAGTTTAAGTACCCGATTGAGTGCAAAAAAA--A-GGGCTTAATTT
1 CATTTTTTATGCATTTTGAAAGTTCAAGTACTCGATTGAGTAAAAAAAAAGCAGGGGCTTAATTG
* * *
57153029 CAATTTTTTGAAAAAAATTGAGGGTCTTTTTTATGCATTTTGACAGTTCAAGTACCCAATTAAGT
66 C-ATTTTTTG--AAAAATTGAGGG-CTTTTTTATGCATTTT-AAAGTTTAAGTACCCAATTGAGT
*
57153094 GCAAAAAGAAAAAGC-ATGGGCTTAATTGCTTTATTTTGAAAAAAATTGACGGT
126 G-AAAAA-AAAAA-CAATGGGCTTAATTGCTTTATTTTGAAAAAAATTGA-GGG
57153147 C-TTTTTTATGCA-TTTGAAAGTTCAAGTACTCGATTGAGTAAAAAAGAAAGCAGGGGCTTAATT
1 CATTTTTTATGCATTTTGAAAGTTCAAGTACTCGATTGAGTAAAAAA-AAAGCAGGGGCTTAATT
* * * *
57153210 GC-TTTTTTGAAAAATTTGAAAGCCTTTTTTATACATTTTAAAATTTAAGTACCCAATTGAGTGA
65 GCATTTTTTGAAAAA-TTG-AGGGCTTTTTTATGCATTTTAAAGTTTAAGTACCCAATTGAGTGA
57153274 AAAAAAAAACAAT-GGCTTAATTGCTTTATTTTGAAAAAAAAATTGAGGG
128 AAAAAAAAACAATGGGCTTAATTGCTTTATTTTG--AAAAAAATTGAGGG
*
57153323 CATTTTTTATGCATTTTGAAAGTTCAAGTA-TCCAATTGAGTACAAAAAAAAACAAAGCAGGGGC
1 CATTTTTTATGCATTTTGAAAGTTCAAGTACT-CGATTGAGT-----AAAAAA-AAAGCAGGGGC
* * *
57153387 TTAATTGCTTTTCTTTGAAAATTTTGAGGGCATTTTTATGCATTTTAAAAGTTTAAGTACCCAAT
59 TTAATTGCATTT-TTTGAAAA-ATTGAGGGCTTTTTTATGCATTTT-AAAGTTTAAGTACCCAAT
* *
57153452 TGAGTGGAAAAAAAAAACAAAGGG-TTAATTG-TTTTTTTTGAAAAAAATTGA
121 TGAGT-GAAAAAAAAAACAATGGGCTTAATTGCTTTATTTTGAAAAAAATTGA
57153503 AGACCTTTTA
Statistics
Matches: 309, Mismatches: 24, Indels: 43
0.82 0.06 0.11
Matches are distributed among these distances:
175 21 0.07
176 10 0.03
177 28 0.09
178 77 0.25
179 32 0.10
180 10 0.03
181 1 0.00
182 11 0.04
183 36 0.12
184 19 0.06
185 41 0.13
186 21 0.07
187 2 0.01
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.35
Consensus pattern (175 bp):
CATTTTTTATGCATTTTGAAAGTTCAAGTACTCGATTGAGTAAAAAAAAAGCAGGGGCTTAATTG
CATTTTTTGAAAAATTGAGGGCTTTTTTATGCATTTTAAAGTTTAAGTACCCAATTGAGTGAAAA
AAAAAACAATGGGCTTAATTGCTTTATTTTGAAAAAAATTGAGGG
Found at i:57154488 original size:6 final size:6
Alignment explanation
Indices: 57154477--57154501 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
57154467 AAACTTTGCT
57154477 ATCACC ATCACC ATCACC ATCACC A
1 ATCACC ATCACC ATCACC ATCACC A
57154502 ATAAAATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.48, G:0.00, T:0.16
Consensus pattern (6 bp):
ATCACC
Found at i:57157681 original size:21 final size:21
Alignment explanation
Indices: 57157657--57157701 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
57157647 AAACCAACTC
*
57157657 ATATTTTTTCTA-GCCCAACAA
1 ATATTTTTCCTATGCCCAA-AA
57157678 ATA-TTTTCCTATGCCCAAAA
1 ATATTTTTCCTATGCCCAAAA
57157698 ATAT
1 ATAT
57157702 GATTTATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.36, C:0.22, G:0.04, T:0.38
Consensus pattern (21 bp):
ATATTTTTCCTATGCCCAAAA
Found at i:57162700 original size:15 final size:17
Alignment explanation
Indices: 57162675--57162706 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
57162665 TAGGTTATTG
57162675 GATCAAAATGAA-AATT
1 GATCAAAATGAACAATT
57162691 GATC-AAATGAACAATT
1 GATCAAAATGAACAATT
57162707 AAAATGATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.25
Consensus pattern (17 bp):
GATCAAAATGAACAATT
Found at i:57165242 original size:26 final size:26
Alignment explanation
Indices: 57165213--57165294 Score: 164
Period size: 26 Copynumber: 3.2 Consensus size: 26
57165203 TGATACAAAT
57165213 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
57165239 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
57165265 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
57165291 TGAT
1 TGAT
57165295 GGAAATTTCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:57166792 original size:54 final size:53
Alignment explanation
Indices: 57166710--57166818 Score: 164
Period size: 54 Copynumber: 2.0 Consensus size: 53
57166700 TGGAGGAAGC
* * * *
57166710 GTCCTGGTGGCTATGCCACAATTATCTGATTTAGTGGCTCTGCCACATATATCT
1 GTCCTAGTGGCTATGCCACAATAATCTGATCTAGTAGCTCTGCCACA-ATATCT
*
57166764 GTCCTAGTGGCTATGCCACAATAATCTGATCTGGTAGCTCTGCCACAATATCT
1 GTCCTAGTGGCTATGCCACAATAATCTGATCTAGTAGCTCTGCCACAATATCT
57166817 GT
1 GT
57166819 ATCTGGTGAC
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
53 8 0.16
54 42 0.84
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (53 bp):
GTCCTAGTGGCTATGCCACAATAATCTGATCTAGTAGCTCTGCCACAATATCT
Found at i:57166823 original size:27 final size:26
Alignment explanation
Indices: 57166713--57166844 Score: 124
Period size: 27 Copynumber: 4.9 Consensus size: 26
57166703 AGGAAGCGTC
57166713 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCACAA-TATCTGAT
* * *
57166740 TTAGTGGCTCTGCCACATATATCTG-T
1 CTGGTGGCTATGCCACA-ATATCTGAT
*
57166766 CCTAGTGGCTATGCCACAATAATCTGAT
1 -CTGGTGGCTATGCCACAAT-ATCTGAT
* *
57166794 CTGGTAGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTATGCCACAATATCTG-AT
* *
57166821 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTAT-GCCACAATATCTG
57166845 GCAGTCTAGC
Statistics
Matches: 88, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
26 9 0.10
27 77 0.88
28 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (26 bp):
CTGGTGGCTATGCCACAATATCTGAT
Found at i:57166838 original size:54 final size:53
Alignment explanation
Indices: 57166710--57166844 Score: 139
Period size: 54 Copynumber: 2.5 Consensus size: 53
57166700 TGGAGGAAGC
* * * *
57166710 GTCCTGGTGGCTATGCCACAATTATCTGATTTAGTGGCTCTGCCACATATATCT
1 GTCCTAGTGACTATGCCACAA-TATCTGATCTAGTAGCTCTGCCACATATATCT
* *
57166764 GTCCTAGTGGCTATGCCACAATAATCTGATCTGGTAGCTCTGCCACA-ATATCT
1 GTCCTAGTGACTATGCCACAAT-ATCTGATCTAGTAGCTCTGCCACATATATCT
* * *
57166817 GTATCTGGTGACT-TCGTCACAATATCTG
1 GT-CCTAGTGACTAT-GCCACAATATCTG
57166845 GCAGTCTAGC
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
53 15 0.21
54 55 0.79
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.33
Consensus pattern (53 bp):
GTCCTAGTGACTATGCCACAATATCTGATCTAGTAGCTCTGCCACATATATCT
Found at i:57167742 original size:75 final size:75
Alignment explanation
Indices: 57167660--57167809 Score: 291
Period size: 75 Copynumber: 2.0 Consensus size: 75
57167650 AAAACACTAA
*
57167660 GTAAGTTTTTCTGGATCAACAATATAAAATGTTTTGAACGCTTCGATGTGGCATGTCGGATCCGG
1 GTAAGTTTTTCTAGATCAACAATATAAAATGTTTTGAACGCTTCGATGTGGCATGTCGGATCCGG
57167725 TCATAACCTC
66 TCATAACCTC
57167735 GTAAGTTTTTCTAGATCAACAATATAAAATGTTTTGAACGCTTCGATGTGGCATGTCGGATCCGG
1 GTAAGTTTTTCTAGATCAACAATATAAAATGTTTTGAACGCTTCGATGTGGCATGTCGGATCCGG
57167800 TCATAACCTC
66 TCATAACCTC
57167810 TGGGCCGGGT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (75 bp):
GTAAGTTTTTCTAGATCAACAATATAAAATGTTTTGAACGCTTCGATGTGGCATGTCGGATCCGG
TCATAACCTC
Found at i:57172221 original size:26 final size:26
Alignment explanation
Indices: 57172192--57172299 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
57172182 TGATACAAAT
*
57172192 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
57172218 TGATAATGGGTTAGATAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
57172244 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
57172270 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
57172296 TGAT
1 TGAT
57172300 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:57173934 original size:27 final size:27
Alignment explanation
Indices: 57173894--57174034 Score: 146
Period size: 27 Copynumber: 5.2 Consensus size: 27
57173884 AGGAAGCGTC
*
57173894 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
57173921 TTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
57173947 CCTAGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
** *
57173975 CTGGTGATTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
57174002 CTGGTGGCTCCGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
57174029 CTGGTG
1 CTGGTG
57174035 ACTTCGTCAC
Statistics
Matches: 93, Mismatches: 14, Indels: 14
0.77 0.12 0.12
Matches are distributed among these distances:
26 11 0.12
27 78 0.84
28 4 0.04
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:57173973 original size:54 final size:54
Alignment explanation
Indices: 57173891--57174037 Score: 215
Period size: 54 Copynumber: 2.7 Consensus size: 54
57173881 TGGAGGAAGC
* *
57173891 GTCCTGGTGGCTATGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCT
* *
57173945 GTCCTAGTGGCTATGCCACAATTATCTGATCTGGTGATTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCT
* **
57173999 GTTCTGGTGGCTCCGCCACAA-TATCTGTATCTGGTGACT
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACT
57174038 TCGTCACAAT
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 6 0.07
54 77 0.93
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:57174045 original size:27 final size:27
Alignment explanation
Indices: 57173959--57174052 Score: 113
Period size: 27 Copynumber: 3.5 Consensus size: 27
57173949 TAGTGGCTAT
57173959 GCCACAATTATCTG-ATCTGGTGA-TTC
1 GCCACAA-TATCTGTATCTGGTGACTTC
* *
57173985 TGCCACATATATCTGT-TCTGGTGGCTCC
1 -GCCACA-ATATCTGTATCTGGTGACTTC
57174013 GCCACAATATCTGTATCTGGTGACTTC
1 GCCACAATATCTGTATCTGGTGACTTC
*
57174040 GTCACAATATCTG
1 GCCACAATATCTG
57174053 GCAGCCTCGC
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
26 8 0.14
27 47 0.81
28 3 0.05
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (27 bp):
GCCACAATATCTGTATCTGGTGACTTC
Found at i:57174046 original size:81 final size:80
Alignment explanation
Indices: 57173904--57174052 Score: 180
Period size: 81 Copynumber: 1.9 Consensus size: 80
57173894 CTGGTGGCTA
* *
57173904 TGCCACAATTATCTGATTTGGTGGCTCTGCCACATATATCTGTCCTAGTGGCTATGCCACAATTA
1 TGCCACAATTATCTGATTTGGTGGCTCCGCCACATATATCTGTCCTAGTGACTATGCCACAA-TA
57173969 TCTGATCTGGTGATTC
65 TCTGATCTGGTGATTC
* * *
57173985 TGCCAC-ATATATCTG-TTCTGGTGGCTCCGCCACA-ATATCTGTATCTGGTGACT-TCGTCACA
1 TGCCACAAT-TATCTGATT-TGGTGGCTCCGCCACATATATCTGT-CCTAGTGACTAT-GCCACA
57174046 ATATCTG
62 ATATCTG
57174053 GCAGCCTCGC
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
80 19 0.32
81 40 0.68
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (80 bp):
TGCCACAATTATCTGATTTGGTGGCTCCGCCACATATATCTGTCCTAGTGACTATGCCACAATAT
CTGATCTGGTGATTC
Found at i:57175735 original size:34 final size:34
Alignment explanation
Indices: 57175692--57175777 Score: 118
Period size: 34 Copynumber: 2.5 Consensus size: 34
57175682 TACATTGTAT
* *
57175692 TCTGGTGTGTTGGTTGGTCTAGCTTATACGAGCA
1 TCTGGTGTGTTGGTTGGTCTAGCTCATACAAGCA
*
57175726 TCTGGTGTGTTGGTTGGTCTAGCTCATTCAAGCA
1 TCTGGTGTGTTGGTTGGTCTAGCTCATACAAGCA
* * *
57175760 TATGGTGTGCTGGATGGT
1 TCTGGTGTGTTGGTTGGT
57175778 TAACCGTGTA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.14, C:0.14, G:0.34, T:0.38
Consensus pattern (34 bp):
TCTGGTGTGTTGGTTGGTCTAGCTCATACAAGCA
Found at i:57177115 original size:28 final size:28
Alignment explanation
Indices: 57177052--57177177 Score: 107
Period size: 28 Copynumber: 4.5 Consensus size: 28
57177042 TTTTCCACAA
* * *
57177052 AGGCTTCTATTTTCTTAGATTGCCTCTA-
1 AGGCTTCCATTTTCTTAGATTACC-ATAC
57177080 AGGCTTCCATTTTCTTAGATTACCATAC
1 AGGCTTCCATTTTCTTAGATTACCATAC
* * * *
57177108 AGGTTTCCA--TT-TTAGATACACCACAA
1 AGGCTTCCATTTTCTTAGAT-TACCATAC
*
57177134 AGACTTCCATTTTCTTAGAAGATTACCATAC
1 AGGCTTCCATTTTCTT---AGATTACCATAC
57177165 AGGCTTCCATTTT
1 AGGCTTCCATTTT
57177178 AGATACACCA
Statistics
Matches: 77, Mismatches: 13, Indels: 13
0.75 0.13 0.13
Matches are distributed among these distances:
25 6 0.08
26 14 0.18
27 2 0.03
28 32 0.42
29 2 0.03
31 17 0.22
32 4 0.05
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.39
Consensus pattern (28 bp):
AGGCTTCCATTTTCTTAGATTACCATAC
Found at i:57177141 original size:26 final size:26
Alignment explanation
Indices: 57177112--57177203 Score: 94
Period size: 26 Copynumber: 3.3 Consensus size: 26
57177102 CCATACAGGT
57177112 TTCCATTTTAGATACACCACAAAGAC
1 TTCCATTTTAGATACACCACAAAGAC
* * * * *
57177138 TTCCATTTTCTTAGAAGATTACCATACAGGC
1 TTCCA--TT-TTAG-ATA-CACCACAAAGAC
57177169 TTCCATTTTAGATACACCACAAAGAC
1 TTCCATTTTAGATACACCACAAAGAC
57177195 TTCCATTTT
1 TTCCATTTT
57177204 CTTATATTGC
Statistics
Matches: 51, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
26 22 0.43
27 2 0.04
28 6 0.12
29 6 0.12
30 2 0.04
31 13 0.25
ACGTcount: A:0.33, C:0.25, G:0.09, T:0.34
Consensus pattern (26 bp):
TTCCATTTTAGATACACCACAAAGAC
Found at i:57177173 original size:57 final size:55
Alignment explanation
Indices: 57177083--57177207 Score: 216
Period size: 57 Copynumber: 2.3 Consensus size: 55
57177073 GCCTCTAAGG
*
57177083 CTTCCATTTTCTT-AGATTACCATACAGGTTTCCATTTTAGATACACCACAAAGA
1 CTTCCATTTTCTTAAGATTACCATACAGGCTTCCATTTTAGATACACCACAAAGA
57177137 CTTCCATTTTCTTAGAAGATTACCATACAGGCTTCCATTTTAGATACACCACAAAGA
1 CTTCCATTTTCTT--AAGATTACCATACAGGCTTCCATTTTAGATACACCACAAAGA
57177194 CTTCCATTTTCTTA
1 CTTCCATTTTCTTA
57177208 TATTGCAACA
Statistics
Matches: 67, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
54 13 0.19
55 1 0.01
57 53 0.79
ACGTcount: A:0.30, C:0.25, G:0.09, T:0.36
Consensus pattern (55 bp):
CTTCCATTTTCTTAAGATTACCATACAGGCTTCCATTTTAGATACACCACAAAGA
Found at i:57177452 original size:40 final size:40
Alignment explanation
Indices: 57177398--57177473 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
57177388 CGTTTGAATG
*
57177398 AAAAACGCAGCTAAAGAACGAGCATTAGCGGTGCTTCTTA
1 AAAAACGCAGCTAAAGAACGAGCATTAGCGGCGCTTCTTA
57177438 AAAAACGCCA-CTAAAGAACGAGCATTAGCGGCGCTT
1 AAAAACG-CAGCTAAAGAACGAGCATTAGCGGCGCTT
57177474 TTTGCTTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
40 32 0.94
41 2 0.06
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (40 bp):
AAAAACGCAGCTAAAGAACGAGCATTAGCGGCGCTTCTTA
Found at i:57177763 original size:154 final size:156
Alignment explanation
Indices: 57177538--57177943 Score: 446
Period size: 154 Copynumber: 2.6 Consensus size: 156
57177528 AATTCAGCGG
* *** * ** *
57177538 CTTTAGCGGCGCTTTACAAAAAACGCTGCAAAA-AATTTAACACAACGCCGTCGTTTTGTATTGA
1 CTTTAGCGACGCTTTTTGAAAAACGCCGCAAAAGAATTTTGCAAAACGCCGTCGTTTTGTATTGA
* * *
57177602 GCCTTTAGTGGCTTTAGCGGCGCTTTTTAGAAACGCCGTTAAAG-TTTGAGTATTAGCGGCA-CT
66 GCTTTTAGTGGCTTTAGCGGCGCTTTTTAGAAACGCCGCTAAAGATCT-AGTATTAGCGGCATCT
** *
57177665 TTTTAAAAAACGCCACTA-ATGCTTGAT
130 TTTTAAAAAACGCCACTATA-GCTACAC
* * * * *
57177692 CTTTAGCGACG-TTTTTTAAAAACGCCGCAAAAGAATTTTGCAAAATGCCGTTGTTTTTTATTAA
1 CTTTAGCGACGCTTTTTGAAAAACGCCGCAAAAGAATTTTGCAAAACGCCGTCGTTTTGTATTGA
* * * *
57177756 GCTTTTAGTGGCTTTAGCGGTGCCTTTTAAAAACGCCGCTAAAGATCTAGTATTAGCGGCATTTT
66 GCTTTTAGTGGCTTTAGCGGCGCTTTTTAGAAACGCCGCTAAAGATCTAGTATTAGCGGCATCTT
** * *
57177821 TTTATGAAACGCCGCTATAGGTACAC
131 TTTAAAAAACGCCACTATAGCTACAC
* * * * *
57177847 CTTTAGCGGCGCTTTTTGAAAAATGCCGCTAAAGAATTTTGCAAAACGCCATCATTTTGTATTGA
1 CTTTAGCGACGCTTTTTGAAAAACGCCGCAAAAGAATTTTGCAAAACGCCGTCGTTTTGTATTGA
* *
57177912 GCTTTTAGTTGCTTTAGCGGCTCTTTTT-GAAA
66 GCTTTTAGTGGCTTTAGCGGCGCTTTTTAGAAA
57177944 AACGGCACAA
Statistics
Matches: 206, Mismatches: 41, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
153 17 0.08
154 86 0.42
155 34 0.17
156 69 0.33
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (156 bp):
CTTTAGCGACGCTTTTTGAAAAACGCCGCAAAAGAATTTTGCAAAACGCCGTCGTTTTGTATTGA
GCTTTTAGTGGCTTTAGCGGCGCTTTTTAGAAACGCCGCTAAAGATCTAGTATTAGCGGCATCTT
TTTAAAAAACGCCACTATAGCTACAC
Found at i:57178228 original size:7 final size:7
Alignment explanation
Indices: 57178202--57178312 Score: 82
Period size: 7 Copynumber: 15.6 Consensus size: 7
57178192 GTTTAAGGGT
57178202 GGTTTAA
1 GGTTTAA
* **
57178209 GGGTTGG
1 GGTTTAA
57178216 GGTTTAA
1 GGTTTAA
57178223 GGTTT-A
1 GGTTTAA
57178229 GGTGTTAA
1 GGT-TTAA
*
57178237 GGGTTAA
1 GGTTTAA
*
57178244 GGGTTTAG
1 -GGTTTAA
57178252 GGTTTAA
1 GGTTTAA
57178259 GGTTT-A
1 GGTTTAA
* *
57178265 TGTTTTA
1 GGTTTAA
*
57178272 GGATTTAT
1 GG-TTTAA
*
57178280 GGTTTAG
1 GGTTTAA
57178287 GGTTTAA
1 GGTTTAA
*
57178294 GGATTAA
1 GGTTTAA
57178301 GAGTTTAA
1 G-GTTTAA
57178309 GGTT
1 GGTT
57178313 AAGATTAATT
Statistics
Matches: 80, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
6 9 0.11
7 52 0.65
8 19 0.24
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (7 bp):
GGTTTAA
Found at i:57178316 original size:14 final size:13
Alignment explanation
Indices: 57178158--57178315 Score: 68
Period size: 14 Copynumber: 11.4 Consensus size: 13
57178148 AGTTACTATT
*
57178158 TTAAGGTTTATGG
1 TTAAGGTTTAAGG
* *
57178171 ATTATGAGTTTAGAGA
1 -TTAAG-GTTTA-AGG
*
57178187 TTATGGTTTAAGG
1 TTAAGGTTTAAGG
*
57178200 GT--GGTTTAAGGG
1 TTAAGGTTTAA-GG
**
57178212 TTGGGGTTTAAGG
1 TTAAGGTTTAAGG
*
57178225 TTTAGGTGTTAAGGG
1 TTAAGGT-TTAA-GG
*
57178240 TTAAGGGTTTAGGG
1 TTAA-GGTTTAAGG
* *
57178254 TTTAAGGTTTATGT
1 -TTAAGGTTTAAGG
* *
57178268 TTTAGGATTTATGG
1 TTAAGG-TTTAAGG
*
57178282 TTTAGGGTTTAAGG
1 -TTAAGGTTTAAGG
57178296 ATTAAGAGTTTAAGG
1 -TTAAG-GTTTAAGG
57178311 TTAAG
1 TTAAG
57178316 ATTAATTAGT
Statistics
Matches: 113, Mismatches: 19, Indels: 24
0.72 0.12 0.15
Matches are distributed among these distances:
11 7 0.06
12 3 0.03
13 15 0.13
14 50 0.44
15 34 0.30
16 4 0.04
ACGTcount: A:0.25, C:0.00, G:0.34, T:0.42
Consensus pattern (13 bp):
TTAAGGTTTAAGG
Found at i:57178496 original size:15 final size:15
Alignment explanation
Indices: 57178476--57178514 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
57178466 TACTATTTTA
57178476 AGGTTTATGGATTAT
1 AGGTTTATGGATTAT
*
57178491 AGGTTTAGGGATTAT
1 AGGTTTATGGATTAT
57178506 A-GTTTATGG
1 AGGTTTATGG
57178515 TTTAAGGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.44
Consensus pattern (15 bp):
AGGTTTATGGATTAT
Found at i:57178497 original size:22 final size:21
Alignment explanation
Indices: 57178472--57178521 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
57178462 GAGTTACTAT
* *
57178472 TTTAAGGTTTATGGATTATAGG
1 TTTAAGGATTATAGATTAT-GG
* *
57178494 TTTAGGGATTATAGTTTATGG
1 TTTAAGGATTATAGATTATGG
57178515 TTTAAGG
1 TTTAAGG
57178522 GTTGGGGTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (21 bp):
TTTAAGGATTATAGATTATGG
Found at i:57178779 original size:27 final size:28
Alignment explanation
Indices: 57178748--57178808 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 28
57178738 TTTAGTTCGA
* * *
57178748 GGTTTGTGGTTTAAGGGT-AGAGTTTAG
1 GGTTTATGGATTAAGGGTAAAAGTTTAG
*
57178775 GGTTTATGGATTAAGTGTAAAAGTTTAG
1 GGTTTATGGATTAAGGGTAAAAGTTTAG
57178803 GGTTTA
1 GGTTTA
57178809 AGGAAGATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.25, C:0.00, G:0.34, T:0.41
Consensus pattern (28 bp):
GGTTTATGGATTAAGGGTAAAAGTTTAG
Found at i:57180748 original size:26 final size:26
Alignment explanation
Indices: 57180700--57180749 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
57180690 TAATACGGTG
* *
57180700 TTAAAAATACATACATCATATAGTTA
1 TTAAAAATACATACATAAGATAGTTA
* *
57180726 TTAAAAATATATATATAAGATAGT
1 TTAAAAATACATACATAAGATAGT
57180750 ACAAAAACAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (26 bp):
TTAAAAATACATACATAAGATAGTTA
Found at i:57180911 original size:25 final size:26
Alignment explanation
Indices: 57180852--57180911 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
57180842 AAAAGGATAG
*
57180852 ATATATAATATAGTATGAAAAATATAT
1 ATATATAAGATAG-ATGAAAAATATAT
* * *
57180879 GTACATAAGATA-ATGTAAAATATAT
1 ATATATAAGATAGATGAAAAATATAT
57180904 ATATATAA
1 ATATATAA
57180912 TATATATAAC
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
25 18 0.67
27 9 0.33
ACGTcount: A:0.55, C:0.02, G:0.08, T:0.35
Consensus pattern (26 bp):
ATATATAAGATAGATGAAAAATATAT
Found at i:57180926 original size:13 final size:13
Alignment explanation
Indices: 57180852--57180919 Score: 50
Period size: 13 Copynumber: 5.2 Consensus size: 13
57180842 AAAAGGATAG
57180852 ATATATAATATAGT
1 ATATATAATATA-T
*
57180866 ATGA-AAAATATAT
1 AT-ATATAATATAT
* * *
57180879 GTACATAAGATA-
1 ATATATAATATAT
* *
57180891 ATGTAAAATATAT
1 ATATATAATATAT
57180904 ATATATAATATAT
1 ATATATAATATAT
57180917 ATA
1 ATA
57180920 ACTAATAATA
Statistics
Matches: 40, Mismatches: 11, Indels: 7
0.69 0.19 0.12
Matches are distributed among these distances:
12 8 0.20
13 22 0.55
14 9 0.22
15 1 0.03
ACGTcount: A:0.54, C:0.01, G:0.07, T:0.37
Consensus pattern (13 bp):
ATATATAATATAT
Found at i:57184719 original size:105 final size:105
Alignment explanation
Indices: 57184588--57184943 Score: 592
Period size: 105 Copynumber: 3.4 Consensus size: 105
57184578 GCCGCTAAAG
* * *
57184588 TTTTATTTTA-TTTT-AATTACCTAATTAAATTAAATTATATTTAAAGTTTTATTTTAAATATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAAGTAAATTGTATTTAAACTTTTATTTTAAATATTT
57184651 TATTTTATTTTAATTTAATCACGAAAAATATTTTGTCTAC
66 TATTTTATTTTAATTTAATCACGAAAAATATTTTGTCTAC
*
57184691 TTTTATTTTATTTTTAAATTAACTAATTAAAGTAAATTGTATTTAAACTTTTATTTTAAATATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAAGTAAATTGTATTTAAACTTTTATTTTAAATATTT
* *
57184756 TATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTAT
66 TATTTTATTTTAATTTAATCACGAAAAATATTTTGTCTAC
*
57184796 TTTTATTTTATTTTTAAATTATCTAATTAAAGTAAATTGTATTTAAACTTTTATTTTAAATATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAAGTAAATTGTATTTAAACTTTTATTTTAAATATTT
* *
57184861 TATTTTAATTTAATTTAATCA-AAAAAATATTTTGTCTAC
66 TATTTTATTTTAATTTAATCACGAAAAATATTTTGTCTAC
* *
57184900 TTTTATTTTATTTTCAAATTACCTAATTAAATTAAATTGTATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAAGTAAATTGTATTT
57184944 TTAAATATTG
Statistics
Matches: 237, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
103 10 0.04
104 61 0.26
105 166 0.70
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (105 bp):
TTTTATTTTATTTTTAAATTACCTAATTAAAGTAAATTGTATTTAAACTTTTATTTTAAATATTT
TATTTTATTTTAATTTAATCACGAAAAATATTTTGTCTAC
Found at i:57184741 original size:48 final size:48
Alignment explanation
Indices: 57184689--57184853 Score: 141
Period size: 48 Copynumber: 3.2 Consensus size: 48
57184679 TATTTTGTCT
*
57184689 ACTTTTATTTTATTTTTAAATTAACTAATTAAAGTAAATTGTATTTAA
1 ACTTTTATTTTATTTTTAAATTATCTAATTAAAGTAAATTGTATTTAA
** * * * * * * **
57184737 ACTTTTATTTTAAATATTTTATTTTATTTTATTTTAATCACGAAAAATATTTTGTCT
1 ACTTTTATTTT--AT-TTTTAAATTA-TCTA-ATTAA--A-GTAAATTGTATT-TAA
*
57184794 ATTTTTATTTTATTTTTAAATTATCTAATTAAAGTAAATTGTATTTAA
1 ACTTTTATTTTATTTTTAAATTATCTAATTAAAGTAAATTGTATTTAA
57184842 ACTTTTATTTTA
1 ACTTTTATTTTA
57184854 AATATTTTAT
Statistics
Matches: 85, Mismatches: 23, Indels: 18
0.67 0.18 0.14
Matches are distributed among these distances:
48 23 0.27
49 8 0.09
50 3 0.04
51 8 0.09
52 6 0.07
53 7 0.08
54 8 0.09
55 3 0.04
56 8 0.09
57 11 0.13
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (48 bp):
ACTTTTATTTTATTTTTAAATTATCTAATTAAAGTAAATTGTATTTAA
Found at i:57185229 original size:9 final size:9
Alignment explanation
Indices: 57185217--57185326 Score: 74
Period size: 9 Copynumber: 13.0 Consensus size: 9
57185207 ATATTATATC
57185217 TTACATAAT
1 TTACATAAT
57185226 TTACATAAT
1 TTACATAAT
*
57185235 TTACATAAC
1 TTACATAAT
57185244 TTACATAA-
1 TTACATAAT
57185252 -TACATAA-
1 TTACATAAT
*
57185259 ATACAT-A-
1 TTACATAAT
57185266 -TA-AT-AT
1 TTACATAAT
57185272 CTTACATAAT
1 -TTACATAAT
*
57185282 TTACATAAG
1 TTACATAAT
* * * *
57185291 ATAAACAAC
1 TTACATAAT
*
57185300 TTAGATAAT
1 TTACATAAT
*
57185309 TTACATAAC
1 TTACATAAT
57185318 TTACATAAT
1 TTACATAAT
57185327 ACATAAATAT
Statistics
Matches: 82, Mismatches: 13, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
5 3 0.04
6 2 0.02
7 8 0.10
8 7 0.09
9 60 0.73
10 2 0.02
ACGTcount: A:0.48, C:0.14, G:0.02, T:0.36
Consensus pattern (9 bp):
TTACATAAT
Found at i:57185301 original size:56 final size:56
Alignment explanation
Indices: 57185197--57185308 Score: 161
Period size: 56 Copynumber: 2.0 Consensus size: 56
57185187 AATCCCATCA
* * ** * *
57185197 ACATAAATATATATTATATCTTACATAATTTACATAATTTACATAACTTACATAAT
1 ACATAAATACATATAATATCTTACATAATTTACATAAGATAAACAACTTACATAAT
*
57185253 ACATAAATACATATAATATCTTACATAATTTACATAAGATAAACAACTTAGATAAT
1 ACATAAATACATATAATATCTTACATAATTTACATAAGATAAACAACTTACATAAT
57185309 TTACATAACT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.37
Consensus pattern (56 bp):
ACATAAATACATATAATATCTTACATAATTTACATAAGATAAACAACTTACATAAT
Found at i:57190348 original size:13 final size:14
Alignment explanation
Indices: 57190332--57190360 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
57190322 TTATAAATAT
57190332 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
57190345 TTATAATGGTTTAA
1 TTATAATGGTTTAA
57190359 TT
1 TT
57190361 CGTTGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:57191121 original size:31 final size:31
Alignment explanation
Indices: 57191079--57191175 Score: 149
Period size: 31 Copynumber: 3.1 Consensus size: 31
57191069 TTGTATTTTT
*
57191079 ATGCTACATTTGTTGTATTTGGTTGGGTTCA
1 ATGCTATATTTGTTGTATTTGGTTGGGTTCA
*
57191110 ATGCTATATTTGCTGTATTTGGTTGGGTTCA
1 ATGCTATATTTGTTGTATTTGGTTGGGTTCA
* * *
57191141 ATGCTATATTTGTTGTTTTTGGTTGGATTTA
1 ATGCTATATTTGTTGTATTTGGTTGGGTTCA
57191172 ATGC
1 ATGC
57191176 AAGAAGGGTT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 60 1.00
ACGTcount: A:0.16, C:0.08, G:0.25, T:0.51
Consensus pattern (31 bp):
ATGCTATATTTGTTGTATTTGGTTGGGTTCA
Found at i:57191295 original size:43 final size:43
Alignment explanation
Indices: 57191248--57191428 Score: 263
Period size: 43 Copynumber: 4.2 Consensus size: 43
57191238 TAACAAAAGT
* * * *
57191248 GCCGCTAAAAGCCATGACTTTTAGCGGCGCTTTTCCCATAAAC
1 GCCGCTAAAGGCCATGACTTTTAGCGGTGCCTTTCCCACAAAC
** *
57191291 GCCGCTAAAGGCCATGACTTTTAGTTGTACCTTTCCCACAAAC
1 GCCGCTAAAGGCCATGACTTTTAGCGGTGCCTTTCCCACAAAC
*
57191334 GCCGCTAAAGGCCATGACTTTTAGCTGTGCCTTTCCCACAAAC
1 GCCGCTAAAGGCCATGACTTTTAGCGGTGCCTTTCCCACAAAC
* *
57191377 GCCGCTAAAGGCCATGACTTTTAGCGGTGCTTTTCCCATAAAC
1 GCCGCTAAAGGCCATGACTTTTAGCGGTGCCTTTCCCACAAAC
*
57191420 GCCGTTAAA
1 GCCGCTAAA
57191429 AGTCATAATC
Statistics
Matches: 125, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 125 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (43 bp):
GCCGCTAAAGGCCATGACTTTTAGCGGTGCCTTTCCCACAAAC
Found at i:57195231 original size:42 final size:42
Alignment explanation
Indices: 57195172--57195276 Score: 174
Period size: 42 Copynumber: 2.5 Consensus size: 42
57195162 TCCATACGGG
* *
57195172 CAGAGACACGGGCGTGTGTCTCAGCCGTGTGTGACACATGGC
1 CAGAGACACGGCCGTGTGTCTCAGCCGTATGTGACACATGGC
*
57195214 CAGAGACACGGCCGTGTGTTTCAGCCGTATGTGACACATGGC
1 CAGAGACACGGCCGTGTGTCTCAGCCGTATGTGACACATGGC
57195256 CAGATGACACGGCCGTGTGTC
1 CAGA-GACACGGCCGTGTGTC
57195277 CCCTGTATCT
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
42 43 0.74
43 15 0.26
ACGTcount: A:0.20, C:0.27, G:0.33, T:0.20
Consensus pattern (42 bp):
CAGAGACACGGCCGTGTGTCTCAGCCGTATGTGACACATGGC
Found at i:57198336 original size:23 final size:25
Alignment explanation
Indices: 57198305--57198436 Score: 80
Period size: 24 Copynumber: 5.2 Consensus size: 25
57198295 TATACTTAAC
57198305 ATATATATAAAAAACAATAAAA-A-A
1 ATATATATAAAAAA-AATAAAATATA
*
57198329 ATAT-TATATAATAAAATAAAATATA
1 ATATATATA-AAAAAAATAAAATATA
*
57198354 A-ATATATAAAAAATATAATAGATATA
1 ATATATATAAAAAAAATAA-A-ATATA
* ** *
57198380 ATATA-A-AATAACATGTAAAAAAT-
1 ATATATATAA-AAAAAATAAAATATA
*
57198403 ATATATATAAATAATTAATAAATATATA
1 ATATATATAAA-AA-AAATAAA-ATATA
57198431 ATATAT
1 ATATAT
57198437 GTGAAAATAT
Statistics
Matches: 83, Mismatches: 11, Indels: 24
0.70 0.09 0.20
Matches are distributed among these distances:
23 16 0.19
24 24 0.29
25 13 0.16
26 18 0.22
27 6 0.07
28 6 0.07
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (25 bp):
ATATATATAAAAAAAATAAAATATA
Found at i:57198349 original size:20 final size:20
Alignment explanation
Indices: 57198326--57198382 Score: 55
Period size: 22 Copynumber: 2.8 Consensus size: 20
57198316 AAACAATAAA
57198326 AAAATATTATATAATAAAAT
1 AAAATATTATATAATAAAAT
57198346 AAAATATAAATATATAA-AAAAT
1 AAAATAT---TATATAATAAAAT
* *
57198368 ATAATA-GATATAATA
1 AAAATATTATATAATA
57198383 TAAAATAACA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
18 6 0.19
19 1 0.03
20 7 0.23
22 10 0.32
23 7 0.23
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (20 bp):
AAAATATTATATAATAAAAT
Found at i:57198417 original size:36 final size:37
Alignment explanation
Indices: 57198320--57198436 Score: 102
Period size: 38 Copynumber: 3.1 Consensus size: 37
57198310 TATAAAAAAC
*
57198320 AATA-AAAAAATAT-TATAT-AATAAAATAAAATATA
1 AATATAAAAAATATATATATAAATAATATAAAATATA
57198354 AATATATAAAAA-ATATA-ATAGATATAATATAAAATA-A
1 AATATA-AAAAATATATATATA-A-ATAATATAAAATATA
* *
57198391 CATGTAAAAAATATATATATAAATAATTAATAAATATATA
1 AATATAAAAAATATATATATAAATAA-T-ATAAA-ATATA
57198431 ATATAT
1 A-ATAT
57198437 GTGAAAATAT
Statistics
Matches: 65, Mismatches: 5, Indels: 19
0.73 0.06 0.21
Matches are distributed among these distances:
34 4 0.06
35 5 0.08
36 16 0.25
37 13 0.20
38 20 0.31
39 3 0.05
40 1 0.02
41 3 0.05
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (37 bp):
AATATAAAAAATATATATATAAATAATATAAAATATA
Found at i:57200400 original size:119 final size:118
Alignment explanation
Indices: 57200189--57200612 Score: 614
Period size: 119 Copynumber: 3.5 Consensus size: 118
57200179 GTTTCTTAAA
** *
57200189 AATACCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGATTAGATCCGCTATATCTGAG
1 AATACCAAATCATCTTGGATCTGCTTCAGTATAAATGTCTGAAG-TTAGATCTGCTATATCTGAG
* *
57200254 GACATCTGAGAGTCAAATCTACTATGTCCTCGATTTATTTCTTGTAAACACAAG
65 AACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAG
57200308 AATACCAAATCATCTTGGATCTGCTTCAGTATAAATGTCTGAAGTCTAGATCTGCTATATCTGAG
1 AATACCAAATCATCTTGGATCTGCTTCAGTATAAATGTCTGAAGT-TAGATCTGCTATATCTGAG
57200373 AACATCTGAGAGTCAAATCTACTATGTCCTCAATTTGTTTGATTTGTTTCTTGTAAACACAAG
65 AACATCTGAGAGTCAAATCTACTATGTCCTC---------GATTTGTTTCTTGTAAACACAAG
* * * *
57200436 AATACCAAATTATCTTGGATCTGCTTCAGTATAAATGTCTGAAGGTTAGATCTGTTATATTTGAT
1 AATACCAAATCATCTTGGATCTGCTTCAGTATAAATGTCTGAA-GTTAGATCTGCTATATCTGAG
* *
57200501 AACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAG
65 AACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAG
* *
57200555 AATACCAAATCATCTTGGATCTGCTTTAGCATAAATGTCTGAAGTCTAGATCTGCTAT
1 AATACCAAATCATCTTGGATCTGCTTCAGTATAAATGTCTGAAGT-TAGATCTGCTAT
57200613 CTTCAATTTG
Statistics
Matches: 278, Mismatches: 15, Indels: 24
0.88 0.05 0.08
Matches are distributed among these distances:
118 3 0.01
119 163 0.59
128 110 0.40
129 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (118 bp):
AATACCAAATCATCTTGGATCTGCTTCAGTATAAATGTCTGAAGTTAGATCTGCTATATCTGAGA
ACATCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTTCTTGTAAACACAAG
Found at i:57211467 original size:20 final size:21
Alignment explanation
Indices: 57211442--57211484 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
57211432 GTACTAGGTA
57211442 GATAAAAA-AATGAATAC-TAC
1 GATAAAAAGAAT-AATACATAC
57211462 GATAAAAAGAATAATACATAC
1 GATAAAAAGAATAATACATAC
57211483 GA
1 GA
57211485 AGCAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.60, C:0.09, G:0.12, T:0.19
Consensus pattern (21 bp):
GATAAAAAGAATAATACATAC
Found at i:57211506 original size:35 final size:35
Alignment explanation
Indices: 57211460--57211530 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
57211450 AATGAATACT
57211460 ACGATAAAAAGAATAATACATACGAAGCAAAAAAA
1 ACGATAAAAAGAATAATACATACGAAGCAAAAAAA
57211495 ACGATAAAAAGAATAATACATACGAAGCAAAAAAA
1 ACGATAAAAAGAATAATACATACGAAGCAAAAAAA
57211530 A
1 A
57211531 TGCAAACAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.66, C:0.11, G:0.11, T:0.11
Consensus pattern (35 bp):
ACGATAAAAAGAATAATACATACGAAGCAAAAAAA
Found at i:57214923 original size:47 final size:47
Alignment explanation
Indices: 57214864--57215163 Score: 465
Period size: 47 Copynumber: 6.4 Consensus size: 47
57214854 GATGTACAAG
* * *
57214864 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
57214911 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
57214958 GTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
57215005 GTGTATATATGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * ** * *
57215052 GTGTATATATGAGATAAGACCTAATGGCTGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
57215099 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
57215146 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
57215164 TCCCGAAGGG
Statistics
Matches: 230, Mismatches: 23, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 230 1.00
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:57217069 original size:40 final size:40
Alignment explanation
Indices: 57217009--57217282 Score: 451
Period size: 40 Copynumber: 6.9 Consensus size: 40
57216999 TTCAGTATGT
*
57217009 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCAGGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
* * * *
57217049 TATATCTGGACTAGGCCCCGAAGAGCATTCGTGCTGGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
*
57217089 TGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
57217129 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
*
57217169 TGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
*
57217209 TATATCCGGGCTAAGTCCCAAAGAGCATTCGTGCTGGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
* *
57217249 TGTATCCGGGCTAAGCCCCGAAG-GCATTCGTGCT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
57217283 TGGACAAAAT
Statistics
Matches: 217, Mismatches: 17, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
39 11 0.05
40 206 0.95
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.24
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGA
Found at i:57221278 original size:47 final size:47
Alignment explanation
Indices: 57221219--57221518 Score: 447
Period size: 47 Copynumber: 6.4 Consensus size: 47
57221209 GATGTACAAG
* * * **
57221219 GTGTGTATATGTGATAAGGTCTAATGGCTGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
57221266 GTGTATATATGTGATAAGGCCGAATGGTCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
57221313 GTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
57221360 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * * * *
57221407 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAT
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
57221454 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
57221501 GTGTATAAATGAGATAAG
1 GTGTATATATGTGATAAG
57221519 TCCCGAAGGG
Statistics
Matches: 229, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 229 1.00
ACGTcount: A:0.33, C:0.07, G:0.31, T:0.29
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:57222847 original size:17 final size:17
Alignment explanation
Indices: 57222794--57222856 Score: 51
Period size: 17 Copynumber: 3.6 Consensus size: 17
57222784 ATATATTTAT
57222794 ATATATATAAT-TAATAAA
1 ATATA-ATAATAT-ATAAA
*
57222812 TATATAAT-ATATGTGAAA
1 -ATATAATAATATAT-AAA
57222830 ATATAATAATATATAAA
1 ATATAATAATATATAAA
*
57222847 A-ACAATAATA
1 ATATAATAATA
57222857 ATTTGAGGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
16 8 0.21
17 14 0.37
18 11 0.29
19 5 0.13
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (17 bp):
ATATAATAATATATAAA
Found at i:57230630 original size:15 final size:16
Alignment explanation
Indices: 57230610--57230644 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
57230600 GCACAGTATG
57230610 ATAATTTTAT-ATTTT
1 ATAATTTTATAATTTT
57230625 ATAATTTTATAATTTT
1 ATAATTTTATAATTTT
57230641 ATAA
1 ATAA
57230645 CAGTTTACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATAATTTTATAATTTT
Found at i:57230633 original size:8 final size:8
Alignment explanation
Indices: 57230610--57230644 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
57230600 GCACAGTATG
57230610 ATAATTTT
1 ATAATTTT
57230618 AT-ATTTT
1 ATAATTTT
57230625 ATAATTTT
1 ATAATTTT
57230633 ATAATTTT
1 ATAATTTT
57230641 ATAA
1 ATAA
57230645 CAGTTTACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.27
8 19 0.73
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
ATAATTTT
Found at i:57236382 original size:21 final size:21
Alignment explanation
Indices: 57236341--57236383 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
57236331 TCGATTTGTA
*
57236341 AAAATTATAAAATTCATGTTT
1 AAAATTATAAAATTAATGTTT
*
57236362 AAAATTATGAAA-TAATGGTTT
1 AAAATTATAAAATTAAT-GTTT
57236383 A
1 A
57236384 TTTAGGTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (21 bp):
AAAATTATAAAATTAATGTTT
Found at i:57236815 original size:38 final size:38
Alignment explanation
Indices: 57236764--57236918 Score: 222
Period size: 38 Copynumber: 4.1 Consensus size: 38
57236754 CGAATTATAT
** *
57236764 TGTTATTCAGGCTTCATGCCTAGCAGACTTAGTG-TCGG
1 TGTTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCT-GG
*
57236802 TGTTATTCGGGCTTTGTGCCTAGCAGGCTTAGTGCTGG
1 TGTTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCTGG
* * *
57236840 TGTTATTCGGGCTTTGTGCCTAGAAGGCTTAGTGCTGA
1 TGTTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCTGG
*
57236878 TGTTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCCGG
1 TGTTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCTGG
57236916 TGT
1 TGT
57236919 ATTAAAAGTT
Statistics
Matches: 106, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
38 105 0.99
39 1 0.01
ACGTcount: A:0.14, C:0.19, G:0.31, T:0.36
Consensus pattern (38 bp):
TGTTATTCAGGCTTTGTGCCTAGCAGGCTTAGTGCTGG
Found at i:57240414 original size:40 final size:40
Alignment explanation
Indices: 57240331--57240713 Score: 556
Period size: 40 Copynumber: 9.6 Consensus size: 40
57240321 TTGAATGCTG
* * * * * *
57240331 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
57240371 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
57240411 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
57240451 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
57240491 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
57240531 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
57240571 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
57240611 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
57240651 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
57240690 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
57240714 TGAACGAGGA
Statistics
Matches: 321, Mismatches: 19, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
39 35 0.11
40 278 0.87
41 8 0.02
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:57248486 original size:40 final size:40
Alignment explanation
Indices: 57248403--57248785 Score: 556
Period size: 40 Copynumber: 9.6 Consensus size: 40
57248393 TTGAATGCTG
* * * * * *
57248403 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
57248443 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
57248483 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
57248523 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
57248563 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
57248603 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
57248643 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
57248683 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
57248723 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
57248762 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
57248786 TGAACGAGGA
Statistics
Matches: 321, Mismatches: 19, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
39 35 0.11
40 278 0.87
41 8 0.02
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:57250567 original size:48 final size:48
Alignment explanation
Indices: 57250496--57250786 Score: 345
Period size: 48 Copynumber: 6.1 Consensus size: 48
57250486 CACACCCTAG
* *
57250496 GTGCCAATATCATGGCCTGAAGCCAAATCAATG-AAGCTCGAACCCAAA
1 GTGCTAATATCATGGCCTGAAGCCAAATCAATGTAA-CTCGAACCCGAA
*
57250544 GTGCCAATATCATGGCCTGAAGCCAAATCAATGTAACTC-ACACCCGAA
1 GTGCTAATATCATGGCCTGAAGCCAAATCAATGTAACTCGA-ACCCGAA
* * *
57250592 GTGCTAATAGCATGG-CTCGAAGCCAAATCAATGTAACTCGCACCCAAA
1 GTGCTAATATCATGGCCT-GAAGCCAAATCAATGTAACTCGAACCCGAA
* * * * * *
57250640 GTGCTAATATCATGGCCTAAACCCAAATCGATGCAACTTGTACCCGAA
1 GTGCTAATATCATGGCCTGAAGCCAAATCAATGTAACTCGAACCCGAA
** * * *
57250688 GTGCTAATATCAAAGCCCGAAGCCAAATCAAAGTAACTCGCACCCGAA
1 GTGCTAATATCATGGCCTGAAGCCAAATCAATGTAACTCGAACCCGAA
** * *
57250736 GTGCTAATATCATGGCCCAAAGCCAAATCAATGTAACTCGCATCCGAA
1 GTGCTAATATCATGGCCTGAAGCCAAATCAATGTAACTCGAACCCGAA
57250784 GTG
1 GTG
57250787 AAGCCAAATC
Statistics
Matches: 210, Mismatches: 28, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
47 3 0.01
48 203 0.97
49 4 0.02
ACGTcount: A:0.36, C:0.27, G:0.18, T:0.19
Consensus pattern (48 bp):
GTGCTAATATCATGGCCTGAAGCCAAATCAATGTAACTCGAACCCGAA
Done.