Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 279 of 316
Found at i:92538678 original size:18 final size:17
Alignment explanation
Indices: 92538655--92538774 Score: 141
Period size: 17 Copynumber: 6.9 Consensus size: 17
92538645 AAGATTGTAT
92538655 ATCATATCTAAGATTCCA
1 ATCATATCTAAGATT-CA
**
92538673 ATCATATCTAAGATTGT
1 ATCATATCTAAGATTCA
92538690 ATCATATCTAAGATTGCA
1 ATCATATCTAAGATT-CA
* **
92538708 ATCATAACTAAGATTGT
1 ATCATATCTAAGATTCA
92538725 ATCATATCTAAGATTACA
1 ATCATATCTAAGATT-CA
* **
92538743 ATCATATTTAAGATTGT
1 ATCATATCTAAGATTCA
92538760 ATCATATCTAAGATT
1 ATCATATCTAAGATT
92538775 ACATATCATT
Statistics
Matches: 86, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
17 43 0.50
18 43 0.50
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (17 bp):
ATCATATCTAAGATTCA
Found at i:92538700 original size:35 final size:35
Alignment explanation
Indices: 92538642--92538783 Score: 221
Period size: 35 Copynumber: 4.0 Consensus size: 35
92538632 AATCATATCT
*
92538642 TCTAAGATTGTATATCATATCTAAGATTCCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTACAATCATA
*
92538679 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTACAATCATA
*
92538714 ACTAAGATTGTATCATATCTAAGATTACAATCATA
1 TCTAAGATTGTATCATATCTAAGATTACAATCATA
*
92538749 TTTAAGATTGTATCATATCTAAGATTACATATCAT
1 TCTAAGATTGTATCATATCTAAGATTACA-ATCAT
92538784 TGAAGATTAT
Statistics
Matches: 99, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
35 84 0.85
36 5 0.05
37 10 0.10
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTACAATCATA
Found at i:92539383 original size:83 final size:83
Alignment explanation
Indices: 92539169--92539521 Score: 607
Period size: 83 Copynumber: 4.2 Consensus size: 83
92539159 TTCGATTTGT
* * *
92539169 AAGGATGTCAAATCATCTTGAGTCTGTTTGAGAACATTTGAGAATCATATCTGCAAGGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
*
92539234 CTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
*
92539252 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATGTCTGCAAGGTCCTCG
1 AAGGATGCC-AAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCG
*
92539317 ATTTGTTCCTTGTAAGCAT
65 ATTTGTTCCTTGTAAGCAC
* * *
92539336 AAGGATACCAAACCATCTTGAGTTTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
92539401 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
*
92539419 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
92539484 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
92539502 AAGGATGCCAAACCATCTTG
1 AAGGATGCCAAACCATCTTG
92539522 GATCTGCTTC
Statistics
Matches: 256, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
83 179 0.70
84 77 0.30
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (83 bp):
AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
TTTGTTCCTTGTAAGCAC
Found at i:92539715 original size:83 final size:83
Alignment explanation
Indices: 92539564--92539889 Score: 521
Period size: 83 Copynumber: 3.9 Consensus size: 83
92539554 ATTTGCTATA
* * * * * * *
92539564 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGT-AGACATAAGAATG
1 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAG-CACAAGGATG
*
92539628 CCAAATCATCTTG-GATCTG
65 CCAAACCATCTTGAG-TCTG
* *
92539647 TTTGAGAACATTTGAGAGTCATATCTGTAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATAC
1 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
92539712 CAAACCATCTTGAGTCTG
66 CAAACCATCTTGAGTCTG
92539730 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
92539795 CAAACCATCTTGAGTCTG
66 CAAACCATCTTGAGTCTG
*
92539813 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGT
1 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
92539878 CAAACCATCTTG
66 CAAACCATCTTG
92539890 GATCTGCTTC
Statistics
Matches: 228, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
83 225 0.99
84 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (83 bp):
TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
CAAACCATCTTGAGTCTG
Found at i:92539789 original size:285 final size:285
Alignment explanation
Indices: 92539279--92539806 Score: 907
Period size: 285 Copynumber: 1.9 Consensus size: 285
92539269 CTTGAGTCTG
* ** *
92539279 TTTGAGAACATTTGAGAGTCATGTCTGCAAGGTCCTCGATTTGTTCCTTGTAAGCATAAGGATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCAAGGTCCTCGATTTGTTCCTTGTAAGCATAAGAATAC
*
92539344 CAAACCATCTTGAGTTTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCC
66 CAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCC
*
92539409 TTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCA
131 TTGTAAGCACAAGGATACCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCA
92539474 ATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTATAA
196 ATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTATAA
92539539 ACATCTGAAGGTTAGATTTGCTATA
261 ACATCTGAAGGTTAGATTTGCTATA
* * * * *
92539564 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGT-AGACATAAGAATG
1 TTTGAGAACATCTGAGAGTCAAATCTGCAAGGTCCTCGATTTGTTCCTTGTAAG-CATAAGAATA
* *
92539628 CCAAATCATCTTG-GATCTGTTTGAGAACATTTGAGAGTCATATCTGTAATGTCCTCGATTTGTT
65 CCAAACCATCTTGAG-TCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTT
92539692 CCTTGTAAGCACAAGGATACCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTG
129 CCTTGTAAGCACAAGGATACCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTG
92539757 CAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
194 CAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTG
92539807 AGTCTGTTTG
Statistics
Matches: 228, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
284 3 0.01
285 225 0.99
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (285 bp):
TTTGAGAACATCTGAGAGTCAAATCTGCAAGGTCCTCGATTTGTTCCTTGTAAGCATAAGAATAC
CAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTTGTTCC
TTGTAAGCACAAGGATACCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCA
ATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAGTATAA
ACATCTGAAGGTTAGATTTGCTATA
Found at i:92539943 original size:368 final size:367
Alignment explanation
Indices: 92539207--92540014 Score: 1402
Period size: 368 Copynumber: 2.2 Consensus size: 367
92539197 TGAGAACATT
* * * * * * * *
92539207 TGAGAATCATATCTGCAAGGTCCTCGACTTGTTCCTTGTAAGCACAAGGATGCCTAAACCATCTT
1 TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAA-CACAAGAATGCC-AAATCATCTT
* *
92539272 -GAGTCTGTTTGAGAACATTTGAGAGTCATGTCTGCAAGGTCCTCGATTTGTTCCTTGTAAGCAT
64 GGA-TCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGATTTGTTCCTTGTAAGCAC
*
92539336 AAGGATACCAAACCATCTTGAGTTTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
128 AAGGATACCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
92539401 TTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCA
193 TTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCA
92539466 TATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTT
258 TATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTT
* *
92539531 CAGTATAAACATCTGAAGGTTAGATTTGCTATATTTGAGAACGTC
323 CAGTATAAACATCTGAAGGTTAGATCTGCTATATTTAAGAACGTC
*
92539576 TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAGACATAAGAATGCCAAATCATCTTG
1 TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTA-ACACAAGAATGCCAAATCATCTTG
* *
92539641 GATCTGTTTGAGAACATTTGAGAGTCATATCTGTAATGTCCTCGATTTGTTCCTTGTAAGCACAA
65 GATCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGATTTGTTCCTTGTAAGCACAA
92539706 GGATACCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATT
130 GGATACCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATT
92539771 TGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATA
195 TGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATA
*
92539836 TCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGTCAAACCATCTTGGATCTGCTTCA
260 TCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCA
92539901 GTATAAACATCTGAAGGTTAGATCTGCTATATTTAAGAACGTC
325 GTATAAACATCTGAAGGTTAGATCTGCTATATTTAAGAACGTC
*
92539944 TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTG
1 TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGT-AACACAAGAATGCCAAATCATCTTG
92540009 GATCTG
65 GATCTG
92540015 CTTCAGTATA
Statistics
Matches: 417, Mismatches: 19, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
368 369 0.88
369 47 0.11
370 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (367 bp):
TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAACACAAGAATGCCAAATCATCTTGG
ATCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGATTTGTTCCTTGTAAGCACAAG
GATACCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGATTT
GTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATAT
CTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTGCTTCAG
TATAAACATCTGAAGGTTAGATCTGCTATATTTAAGAACGTC
Found at i:92540028 original size:119 final size:119
Alignment explanation
Indices: 92539825--92540390 Score: 870
Period size: 119 Copynumber: 4.9 Consensus size: 119
92539815 TGAGAACATT
* * * * * *
92539825 TGAGAGTCATATCTGCAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGTCAAACCATCTTG
1 TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTG
92539890 GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTTAAGAACGTC
66 GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTTAAGAACGTC
* *
92539944 TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTG
1 TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTG
** * *
92540009 GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTATTATATTTGAGAACGTT
66 GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTTAAGAACGTC
*
92540063 TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATACCAAATCATCTTG
1 TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTG
92540128 GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTTGAA-AACGTC
66 GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTT-AAGAACGTC
*
92540182 TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACAAAAGAATGCCAAATCATCTTG
1 TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTG
* *
92540247 GA------TC----T--ACATCTGAAGGTTAGATCTGCTATCTTTGAGAACGTC
66 GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTTAAGAACGTC
* *
92540289 TGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTATAAACACAAGAATGCCAAATCATCTTG
1 TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTG
92540354 GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTG
66 GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTG
92540391 TTATCTTCGA
Statistics
Matches: 409, Mismatches: 24, Indels: 28
0.89 0.05 0.06
Matches are distributed among these distances:
106 1 0.00
107 97 0.24
109 1 0.00
113 4 0.01
117 1 0.00
119 304 0.74
120 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (119 bp):
TGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTG
GATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTTAAGAACGTC
Found at i:92540331 original size:107 final size:107
Alignment explanation
Indices: 92540145--92540358 Score: 383
Period size: 107 Copynumber: 2.0 Consensus size: 107
92540135 TTCAGTATAA
*
92540145 ACATCTGAAGGTTAGATCTGCTATATTTGAAAACGTCTGAGAGTCAAATCTGCTATGTCCTCGAT
1 ACATCTGAAGGTTAGATCTGCTATATTTGAAAACGTCTGAGAGTCAAATCTACTATGTCCTCGAT
*
92540210 TTGTTCCTTGTAAACAAAAGAATGCCAAATCATCTTGGATCT
66 TTGTTCCTTATAAACAAAAGAATGCCAAATCATCTTGGATCT
* *
92540252 ACATCTGAAGGTTAGATCTGCTATCTTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGAT
1 ACATCTGAAGGTTAGATCTGCTATATTTGAAAACGTCTGAGAGTCAAATCTACTATGTCCTCGAT
*
92540317 TTGTTCCTTATAAACACAAGAATGCCAAATCATCTTGGATCT
66 TTGTTCCTTATAAACAAAAGAATGCCAAATCATCTTGGATCT
92540359 GCTTCAGTAT
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
107 102 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (107 bp):
ACATCTGAAGGTTAGATCTGCTATATTTGAAAACGTCTGAGAGTCAAATCTACTATGTCCTCGAT
TTGTTCCTTATAAACAAAAGAATGCCAAATCATCTTGGATCT
Found at i:92541436 original size:21 final size:20
Alignment explanation
Indices: 92541411--92541476 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 20
92541401 CACCTTGGCC
92541411 TCTCTATCTTTTTCTTTTTTT
1 TCTCTAT-TTTTTCTTTTTTT
92541432 TCTCTTTATTTTTTTCTCTTTTTCT
1 TCTC--TA-TTTTTTCT-TTTTT-T
*
92541457 TTTCT-TTTTTTCTTTTTTT
1 TCTCTATTTTTTCTTTTTTT
92541476 T
1 T
92541477 TTGAAATAGA
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
19 2 0.05
20 5 0.13
21 12 0.31
23 10 0.26
24 6 0.15
25 4 0.10
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (20 bp):
TCTCTATTTTTTCTTTTTTT
Found at i:92541445 original size:14 final size:13
Alignment explanation
Indices: 92541425--92541472 Score: 62
Period size: 13 Copynumber: 3.6 Consensus size: 13
92541415 TATCTTTTTC
92541425 TTTTTTTTCTCTT
1 TTTTTTTTCTCTT
92541438 TATTTTTTTCTCTT
1 T-TTTTTTTCTCTT
*
92541452 TTTCTTTTCT-TT
1 TTTTTTTTCTCTT
92541464 TTTTCTTTT
1 TTTT-TTTT
92541473 TTTTTTGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 5 0.16
13 13 0.42
14 13 0.42
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTTTTCTCTT
Found at i:92541450 original size:35 final size:33
Alignment explanation
Indices: 92541411--92541478 Score: 84
Period size: 35 Copynumber: 2.0 Consensus size: 33
92541401 CACCTTGGCC
92541411 TCTCTATCT-TTTTCTTTTTTTTCTCTTTATTTTTT
1 TCTCTATCTCTTTTC-TTTTTTTCT-TTT-TTTTTT
* *
92541446 TCTCTTTTTCTTTTCTTTTTTTCTTTTTTTTTT
1 TCTCTATCTCTTTTCTTTTTTTCTTTTTTTTTT
92541479 GAAATAGAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 6 0.20
34 3 0.10
35 16 0.53
36 5 0.17
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (33 bp):
TCTCTATCTCTTTTCTTTTTTTCTTTTTTTTTT
Found at i:92541452 original size:31 final size:32
Alignment explanation
Indices: 92541417--92541478 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
92541407 GGCCTCTCTA
92541417 TCTTTTTC-TTT-TTTTTCTCTTTATTTTTTTC
1 TCTTTTTCTTTTCTTTTTCTCTTT-TTTTTTTC
*
92541448 TCTTTTTCTTTTCTTTTTTTCTTTTTTTTTT
1 TCTTTTTCTTTTCTTTTTCTCTTTTTTTTTT
92541479 GAAATAGAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 8 0.29
32 10 0.36
33 10 0.36
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.84
Consensus pattern (32 bp):
TCTTTTTCTTTTCTTTTTCTCTTTTTTTTTTC
Found at i:92541462 original size:25 final size:22
Alignment explanation
Indices: 92541419--92541476 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
92541409 CCTCTCTATC
92541419 TTTTTCTTTTTTTTCTCTTTATT
1 TTTTTCTTTTTTTTCTCTTT-TT
*
92541442 TTTTTC-TCTTTTTCT-TTTCTT
1 TTTTTCTTTTTTTTCTCTTT-TT
92541463 TTTTTCTTTTTTTT
1 TTTTTCTTTTTTTT
92541477 TTGAAATAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 11 0.35
22 14 0.45
23 6 0.19
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (22 bp):
TTTTTCTTTTTTTTCTCTTTTT
Found at i:92541467 original size:8 final size:8
Alignment explanation
Indices: 92541419--92541475 Score: 50
Period size: 8 Copynumber: 7.6 Consensus size: 8
92541409 CCTCTCTATC
92541419 TTTTTCTT
1 TTTTTCTT
*
92541427 TTTTT-TC
1 TTTTTCTT
* *
92541434 TCTTTATT
1 TTTTTCTT
*
92541442 TTTTTCTC
1 TTTTTCTT
92541450 TTTTTC--
1 TTTTTCTT
92541456 -TTTTCTT
1 TTTTTCTT
92541463 TTTTTCTT
1 TTTTTCTT
92541471 TTTTT
1 TTTTT
92541476 TTTGAAATAG
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
5 5 0.13
7 5 0.13
8 29 0.74
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTCTT
Found at i:92547834 original size:18 final size:17
Alignment explanation
Indices: 92547811--92547930 Score: 150
Period size: 17 Copynumber: 6.9 Consensus size: 17
92547801 AAGATTGTAT
92547811 ATCATATCTAAGATTCCA
1 ATCATATCTAAGATT-CA
**
92547829 ATCATATCTAAGATTGT
1 ATCATATCTAAGATTCA
92547846 ATCATATCTAAGATTGCA
1 ATCATATCTAAGATT-CA
**
92547864 ATCATATCTAAGATTGT
1 ATCATATCTAAGATTCA
92547881 ATCATATCTAAGATTGCA
1 ATCATATCTAAGATT-CA
* **
92547899 ATCATATTTAAGATTGT
1 ATCATATCTAAGATTCA
92547916 ATCATATCTAAGATT
1 ATCATATCTAAGATT
92547931 ACATATCATT
Statistics
Matches: 88, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
17 44 0.50
18 44 0.50
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (17 bp):
ATCATATCTAAGATTCA
Found at i:92547856 original size:35 final size:35
Alignment explanation
Indices: 92547798--92547939 Score: 230
Period size: 35 Copynumber: 4.0 Consensus size: 35
92547788 AATCATATCT
*
92547798 TCTAAGATTGTATATCATATCTAAGATTCCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
92547835 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
92547870 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
92547905 TTTAAGATTGTATCATATCTAAGATTACATATCAT
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCAT
92547940 TGAAGATTAT
Statistics
Matches: 101, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
35 86 0.85
36 5 0.05
37 10 0.10
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:92559862 original size:13 final size:13
Alignment explanation
Indices: 92559840--92559873 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
92559830 CATGCCATAG
*
92559840 GATTTTGAGAAGA
1 GATTTGGAGAAGA
*
92559853 GATTTGGAGATGA
1 GATTTGGAGAAGA
92559866 GATTTGGA
1 GATTTGGA
92559874 TATGCTGATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (13 bp):
GATTTGGAGAAGA
Found at i:92559962 original size:29 final size:28
Alignment explanation
Indices: 92559923--92560006 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
92559913 CACTTTGTGC
92559923 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
* *
92559952 TATTCTGGTGTGTTTGGGAGGATTGTAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
92559980 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
92560007 CTGATGTGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 31 0.63
29 18 0.37
ACGTcount: A:0.18, C:0.04, G:0.32, T:0.46
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:92560241 original size:23 final size:22
Alignment explanation
Indices: 92560211--92560297 Score: 74
Period size: 21 Copynumber: 4.0 Consensus size: 22
92560201 ACTTTACTGA
92560211 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCAC-TTATGTGTCGTATT
* *
92560234 TCAGGCACATTGTGTGTCGCA--
1 TCAGGCAC-TTATGTGTCGTATT
* **
92560255 GCAGGCACCTCGTGTGTC-T-TT
1 TCAGGCA-CTTATGTGTCGTATT
92560276 TCAGGCACTTATGTGTCGTATT
1 TCAGGCACTTATGTGTCGTATT
92560298 CTGATCAGGT
Statistics
Matches: 50, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
20 8 0.16
21 21 0.42
22 3 0.06
23 18 0.36
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.37
Consensus pattern (22 bp):
TCAGGCACTTATGTGTCGTATT
Found at i:92563415 original size:16 final size:17
Alignment explanation
Indices: 92563394--92563427 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
92563384 AATGTTTAGA
92563394 AAAATTA-TTAATTGAG
1 AAAATTAGTTAATTGAG
92563410 AAAATTAGTTTAATTGAG
1 AAAATTAG-TTAATTGAG
92563428 GGGTTAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
18 9 0.56
ACGTcount: A:0.47, C:0.00, G:0.15, T:0.38
Consensus pattern (17 bp):
AAAATTAGTTAATTGAG
Found at i:92566885 original size:27 final size:27
Alignment explanation
Indices: 92566855--92566940 Score: 81
Period size: 27 Copynumber: 3.2 Consensus size: 27
92566845 TTTTGCCAAC
92566855 ACCAAACATGATCTCAGTCTAATCAAA
1 ACCAAACATGATCTCAGTCTAATCAAA
* * *
92566882 ACC-AAC-TCAT-TACA-TCTCATAGCCAAC
1 ACCAAACATGATCT-CAGTCT-A-A-TCAAA
92566909 ACCAAACATGATCTCAGTCTAATCAAA
1 ACCAAACATGATCTCAGTCTAATCAAA
92566936 ACCAA
1 ACCAA
92566941 CTCATTACAT
Statistics
Matches: 45, Mismatches: 6, Indels: 16
0.67 0.09 0.24
Matches are distributed among these distances:
24 4 0.09
25 6 0.13
26 4 0.09
27 17 0.38
28 4 0.09
29 6 0.13
30 4 0.09
ACGTcount: A:0.43, C:0.30, G:0.06, T:0.21
Consensus pattern (27 bp):
ACCAAACATGATCTCAGTCTAATCAAA
Found at i:92566899 original size:30 final size:30
Alignment explanation
Indices: 92566865--92566954 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 30
92566855 ACCAAACATG
92566865 ATCTCAGTCTAATCAAAACCAACTCATTAC
1 ATCTCAGTCTAATCAAAACCAACTCATTAC
** * * *
92566895 ATCTCA---TAGCCAACACCAA-ACA-T-G
1 ATCTCAGTCTAATCAAAACCAACTCATTAC
92566919 ATCTCAGTCTAATCAAAACCAACTCATTAC
1 ATCTCAGTCTAATCAAAACCAACTCATTAC
92566949 ATCTCA
1 ATCTCA
92566955 TACATTCAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
24 6 0.14
25 1 0.02
26 2 0.05
27 20 0.45
28 2 0.05
29 1 0.02
30 12 0.27
ACGTcount: A:0.40, C:0.31, G:0.04, T:0.24
Consensus pattern (30 bp):
ATCTCAGTCTAATCAAAACCAACTCATTAC
Found at i:92566931 original size:54 final size:54
Alignment explanation
Indices: 92566849--92566956 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
92566839 TTTCAATTTT
92566849 GCCAACACCAAACATGATCTCAGTCTAATCAAAACCAACTCATTACATCTCATA
1 GCCAACACCAAACATGATCTCAGTCTAATCAAAACCAACTCATTACATCTCATA
92566903 GCCAACACCAAACATGATCTCAGTCTAATCAAAACCAACTCATTACATCTCATA
1 GCCAACACCAAACATGATCTCAGTCTAATCAAAACCAACTCATTACATCTCATA
92566957 CATTCAAATA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.41, C:0.31, G:0.06, T:0.22
Consensus pattern (54 bp):
GCCAACACCAAACATGATCTCAGTCTAATCAAAACCAACTCATTACATCTCATA
Found at i:92569716 original size:13 final size:13
Alignment explanation
Indices: 92569698--92569725 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
92569688 ATAAAATTGG
92569698 AAAGATGATAAAT
1 AAAGATGATAAAT
92569711 AAAGATGATAAAT
1 AAAGATGATAAAT
92569724 AA
1 AA
92569726 TAAAATAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.14, T:0.21
Consensus pattern (13 bp):
AAAGATGATAAAT
Found at i:92573075 original size:46 final size:45
Alignment explanation
Indices: 92573017--92573192 Score: 137
Period size: 46 Copynumber: 3.8 Consensus size: 45
92573007 GGGTTATTGT
* *
92573017 GAGCTAGTGTAAGACATGTCTGGAACATGCATCGGCCACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTA-GA
* * *
92573063 GAGCCAGTGTAAGACCATATCTGGGACATCGTAT-GG--GCATTGAGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATT-AGA
* * * *
92573108 CGAGTGCTAGTGTAAGACATGTCTGGGACGTGCATCGGCCTC--GAGA
1 -GA--GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTAGA
*
92573154 CGTAAGTCAGTGTAAGACATGTCTGGGACATGCATCGGC
1 -G--AGCCAGTGTAAGACATGTCTGGGACATGCATCGGC
92573193 TATGAGATGT
Statistics
Matches: 105, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
45 6 0.06
46 55 0.52
47 28 0.27
48 15 0.14
49 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.23
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTAGA
Found at i:92576225 original size:16 final size:16
Alignment explanation
Indices: 92576177--92576228 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
92576167 TGTATTTACT
92576177 TATATTTTA-AGTATAA
1 TATATTTTATA-TATAA
*
92576193 GATATTTTATATATAA
1 TATATTTTATATATAA
92576209 TATATTATTATAT-TAA
1 TATATT-TTATATATAA
92576225 TATA
1 TATA
92576229 AATTAATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 25 0.78
17 7 0.22
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (16 bp):
TATATTTTATATATAA
Found at i:92576270 original size:23 final size:23
Alignment explanation
Indices: 92576226--92576270 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
92576216 TTATATTAAT
* *
92576226 ATAAATTAATAATTAAATAAAGC
1 ATAAAATAATAATTAAAGAAAGC
92576249 ATAAAATAATAA-TAAGAGAAAG
1 ATAAAATAATAATTAA-AGAAAG
92576271 AAAAGAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.24
Consensus pattern (23 bp):
ATAAAATAATAATTAAAGAAAGC
Found at i:92579545 original size:27 final size:27
Alignment explanation
Indices: 92579506--92579710 Score: 250
Period size: 27 Copynumber: 7.6 Consensus size: 27
92579496 ATTTTTAGTC
* * *
92579506 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
*
92579533 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
92579560 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
*
92579587 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAA-T
** ** *
92579615 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
92579642 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* *
92579669 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
92579696 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
92579711 GTACAATTTA
Statistics
Matches: 157, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 24 0.15
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:92584548 original size:27 final size:27
Alignment explanation
Indices: 92584518--92584695 Score: 198
Period size: 27 Copynumber: 6.6 Consensus size: 27
92584508 ATATTGAGCC
* * *
92584518 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * *
92584545 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
92584572 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
* * *
92584600 CGCACACTTAGTGCTGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
92584627 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
*
92584654 CGCACACTTAGTGCAACATAGTCATA-T
1 CGCACACTTAGTGCTACATAGTCA-ACT
92584681 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
92584696 GTACAATTTA
Statistics
Matches: 130, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
27 105 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:92584657 original size:82 final size:81
Alignment explanation
Indices: 92584539--92584696 Score: 228
Period size: 82 Copynumber: 1.9 Consensus size: 81
92584529 TGCTATATAA
* *
92584539 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
92584604 CACTTAGTGCTGCATGG
65 CACTTAGTGCTGCATGG
* * ** *
92584621 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCATATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
92584685 CACTTAGTGCTG
65 CACTTAGTGCTG
92584697 TACAATTTAA
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.26
82 50 0.74
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCTGCATGG
Found at i:92585261 original size:13 final size:13
Alignment explanation
Indices: 92585243--92585267 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
92585233 TACTAAATTT
92585243 TCATGGATTCAAG
1 TCATGGATTCAAG
92585256 TCATGGATTCAA
1 TCATGGATTCAA
92585268 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:92586064 original size:21 final size:20
Alignment explanation
Indices: 92586023--92586065 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
92586013 TATTCATCCT
* *
92586023 TTCTTTTCTTTTTAATTCAC
1 TTCTTTTATTTTTAATCCAC
92586043 TTCTTTTATTTTCTAATCCAC
1 TTCTTTTATTTT-TAATCCAC
92586064 TT
1 TT
92586066 ACCAATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.16, C:0.21, G:0.00, T:0.63
Consensus pattern (20 bp):
TTCTTTTATTTTTAATCCAC
Found at i:92590795 original size:27 final size:27
Alignment explanation
Indices: 92590756--92590960 Score: 250
Period size: 27 Copynumber: 7.6 Consensus size: 27
92590746 ATTTTTAGTC
* * *
92590756 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAAAT
*
92590783 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
92590810 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
*
92590837 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAA-T
** ** *
92590865 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAAAT
* **
92590892 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAAAT
* *
92590919 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAAAT
92590946 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
92590961 GTACAATTTA
Statistics
Matches: 157, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 24 0.15
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAAAT
Found at i:92596192 original size:45 final size:45
Alignment explanation
Indices: 92596128--92596221 Score: 188
Period size: 45 Copynumber: 2.1 Consensus size: 45
92596118 ATAGCTTGGC
92596128 TATGGCAATCAATAGAGTCCGTCAAGACATTAAACATGAGAATAT
1 TATGGCAATCAATAGAGTCCGTCAAGACATTAAACATGAGAATAT
92596173 TATGGCAATCAATAGAGTCCGTCAAGACATTAAACATGAGAATAT
1 TATGGCAATCAATAGAGTCCGTCAAGACATTAAACATGAGAATAT
92596218 TATG
1 TATG
92596222 TAAGACCATA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (45 bp):
TATGGCAATCAATAGAGTCCGTCAAGACATTAAACATGAGAATAT
Found at i:92596333 original size:27 final size:28
Alignment explanation
Indices: 92596262--92596333 Score: 85
Period size: 27 Copynumber: 2.6 Consensus size: 28
92596252 AGAGCTCGTC
*
92596262 AGGACAGTAAACAT-GGGATAGTCCACT
1 AGGACAATAAACATGGGGATAGTCCACT
* * **
92596289 AGGAAAATAAACACGGGGA-AGTCCGTT
1 AGGACAATAAACATGGGGATAGTCCACT
92596316 AGGACAATAAACATGGGG
1 AGGACAATAAACATGGGG
92596334 CATGAAGAGT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
27 33 0.89
28 4 0.11
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.15
Consensus pattern (28 bp):
AGGACAATAAACATGGGGATAGTCCACT
Found at i:92610966 original size:30 final size:30
Alignment explanation
Indices: 92610905--92610966 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
92610895 ATATATAAAA
* *
92610905 AATAATAAAACATATAATTTGAAATTAATT
1 AATAATAAAACATATAATATGAAAATAATT
* *
92610935 AATAATAACATATATAATATGTAAAAT-ATT
1 AATAATAAAACATATAATATG-AAAATAATT
92610965 AA
1 AA
92610967 AACAAAAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.35
Consensus pattern (30 bp):
AATAATAAAACATATAATATGAAAATAATT
Found at i:92613844 original size:20 final size:20
Alignment explanation
Indices: 92613816--92613866 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
92613806 ATATAAAATA
*
92613816 ATTACTTTTATAATAATATTT
1 ATTA-TTTTATAAAAATATTT
*
92613837 ATTATTTTAAAAAAATATTT
1 ATTATTTTATAAAAATATTT
* *
92613857 TTTAATTTAT
1 ATTATTTTAT
92613867 CTATTTTATC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTATTTTATAAAAATATTT
Found at i:92615189 original size:5 final size:5
Alignment explanation
Indices: 92615179--92615203 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
92615169 AATTTTCACC
92615179 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
92615204 GAGAAGGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:92615525 original size:87 final size:87
Alignment explanation
Indices: 92615371--92615531 Score: 205
Period size: 87 Copynumber: 1.9 Consensus size: 87
92615361 GATTTCGCCA
* * * * * * *
92615371 TTCCTAGTACTGACATTTCGTGCAGACTTCAAGCCTGCTTGACATGTGTTTCATTTTGGATTGCC
1 TTCCTAGTACTAACATTTCGTGCAGACTTCAAGACTGCTGGACACGTGTTTCACTCTGGATTCCC
*
92615436 TACGGAGCATGCGGTCCTCTTG
66 TACGAAGCATGCGGTCCTCTTG
* ** * *
92615458 TTCCTAGTACTAACATTTTGTGTGGACTTCAGGACTGCTGGACACGTGTTTCACTCTGGGTTCCC
1 TTCCTAGTACTAACATTTCGTGCAGACTTCAAGACTGCTGGACACGTGTTTCACTCTGGATTCCC
92615523 TACGAAGCA
66 TACGAAGCA
92615532 CACGGTCCCC
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
87 61 1.00
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (87 bp):
TTCCTAGTACTAACATTTCGTGCAGACTTCAAGACTGCTGGACACGTGTTTCACTCTGGATTCCC
TACGAAGCATGCGGTCCTCTTG
Found at i:92620057 original size:50 final size:50
Alignment explanation
Indices: 92619982--92620519 Score: 569
Period size: 50 Copynumber: 10.7 Consensus size: 50
92619972 GTGAGTCAAG
* *
92619982 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACA
* * * * *
92620032 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTC-G-TTAACTTCGATCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATT--GTTAGGTCACA
* * * * * *
92620083 TGTGTAGTACTAAATGTAGGCTACTACGTGTATCAGATGGTTAAGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACA
* * *
92620133 TATGCAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACA
* * * * * * *
92620183 TGTGTAGTATTAAGTGCAAGCTACTATGTGTACCCA-ATAGCTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATTG-TTAGGTCACA
* * * *
92620234 TGTGTAGTACCAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACA
* * *
92620284 TGTGTAGTATTAAGTGCAGGCTACTACATGTACCAGATTGTTAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACA
**** * * * * *
92620334 TGTGTAGTACTAAGTGCAGGCTACTATACATACCCGATAGCTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGGTCACA
* * * * **
92620385 TGTATAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACA
*
92620435 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACA
* *
92620485 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
92620520 AAGAGCTTCA
Statistics
Matches: 398, Mismatches: 81, Indels: 18
0.80 0.16 0.04
Matches are distributed among these distances:
49 2 0.01
50 280 0.70
51 115 0.29
52 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACA
Found at i:92620157 original size:101 final size:101
Alignment explanation
Indices: 92619982--92620519 Score: 534
Period size: 101 Copynumber: 5.3 Consensus size: 101
92619972 GTGAGTCAAG
* * * *
92619982 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
* * * *
92620047 GCAGGCTACTATGCGTACTC-GTTAACTTCGATCACA
66 GCAGGCTACTACGCGTACTCAGAT-GCTTAGATCACA
* * * * * *
92620083 TGTGTAGTACTAAATGTAGGCTACTACGTGTATCAGATGGTTAAGTCACGTATGCAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
* * *
92620148 GCAGGCTACTACGTGTAC-CAGATTG-TTAGGTCGCA
66 GCAGGCTACTACGCGTACTCAGA-TGCTTAGATCACA
* * * * * * *
92620183 TGTGTAGTATTAAGTGCAAGCTACTATGTGTACCCA-ATAGCTTCGATCACGTGTGTAGTACCAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGAT-GGTTAGGTCACGTGTGTAGTACTAA
* * * *
92620247 GTGCAGGCTACTACGTGTA-TCAGATGGTTAGGTCACG
64 GTGCAGGCTACTACGCGTACTCAGATGCTTAGATCACA
* * * * *
92620284 TGTGTAGTATTAAGTGCAGGCTACTACATGTACCAGATTGTTAGGTCGCATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
** * * * *
92620349 GCAGGCTACTATACATAC-CCGATAGCTTCGATCACG
66 GCAGGCTACTACGCGTACTCAGAT-GCTTAGATCACA
* * * *
92620385 TGTATAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAGGTCATGTGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
* * *
92620450 GCAGGCTACTACGTGTAC-CAGATTG-TTAGGTCGCA
66 GCAGGCTACTACGCGTACTCAGA-TGCTTAGATCACA
* *
92620485 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
92620520 AAGAGCTTCA
Statistics
Matches: 356, Mismatches: 71, Indels: 21
0.79 0.16 0.05
Matches are distributed among these distances:
100 117 0.33
101 237 0.67
102 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (101 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTCACGTGTGTAGTACTAAGT
GCAGGCTACTACGCGTACTCAGATGCTTAGATCACA
Found at i:92620255 original size:151 final size:151
Alignment explanation
Indices: 92619976--92620528 Score: 872
Period size: 151 Copynumber: 3.7 Consensus size: 151
92619966 TCCGTTGTGA
* *
92619976 GTCAAGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTA
* ** * * * *
92620041 CTAAGTGCAGGCTACTATGCGTACTCGTTAACTTCGATCACATGTGTAGTACTAAATGTAGGCTA
66 CTAAGTGCAGGCTACTATGCGTACCCAATAGCTTCGATCACGTGTGTAGTACTAAGTGCAGGCTA
*
92620106 CTACGTGTATCAGATGGTTAA
131 CTACGTGTATCAGATGGTTAG
* *
92620127 GTCACGTATGCAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTA
* * * *
92620192 TTAAGTGCAAGCTACTATGTGTACCCAATAGCTTCGATCACGTGTGTAGTACCAAGTGCAGGCTA
66 CTAAGTGCAGGCTACTATGCGTACCCAATAGCTTCGATCACGTGTGTAGTACTAAGTGCAGGCTA
92620257 CTACGTGTATCAGATGGTTAG
131 CTACGTGTATCAGATGGTTAG
* *
92620278 GTCACGTGTGTAGTATTAAGTGCAGGCTACTACATGTACCAGATTGTTAGGTCGCATGTGTAGTA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTA
* * * *
92620343 CTAAGTGCAGGCTACTATACATACCCGATAGCTTCGATCACGTGTATAGTACTAAGTGCAGGCTA
66 CTAAGTGCAGGCTACTATGCGTACCCAATAGCTTCGATCACGTGTGTAGTACTAAGTGCAGGCTA
*
92620408 CTATGTGTATCAGATGGTTAG
131 CTACGTGTATCAGATGGTTAG
*
92620429 GTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTA
* *
92620494 CTAAGTGCAGGCTACTATGCGTACCAAAGAGCTTC
66 CTAAGTGCAGGCTACTATGCGTACCCAATAGCTTC
92620529 AGTTACAAGG
Statistics
Matches: 365, Mismatches: 37, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
151 365 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (151 bp):
GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTA
CTAAGTGCAGGCTACTATGCGTACCCAATAGCTTCGATCACGTGTGTAGTACTAAGTGCAGGCTA
CTACGTGTATCAGATGGTTAG
Found at i:92624533 original size:71 final size:71
Alignment explanation
Indices: 92624410--92624541 Score: 160
Period size: 71 Copynumber: 1.9 Consensus size: 71
92624400 ACATAGGTTT
* * * * *
92624410 AGCTCGAACGAGTAACCTGATTTCGTTTTATAGGTTTAGCTCGGACGAGTAACCTGACACTAATA
1 AGCTCGAACGAGCAACCTGAGTTCGTTTTAAAGGTTTAGCCCGGACGAGTAACATGA-ACTAATA
92624475 TATATTC
65 TATATTC
* * *
92624482 AGCTCGAATGAGCAACCTGAGGTT-G-TTTAAAGGTTTATCCCGGACGGGTAACATGAACTA
1 AGCTCGAACGAGCAACCTGA-GTTCGTTTTAAAGGTTTAGCCCGGACGAGTAACATGAACTA
92624542 TACATTACAA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
70 4 0.08
71 26 0.51
72 19 0.37
73 2 0.04
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (71 bp):
AGCTCGAACGAGCAACCTGAGTTCGTTTTAAAGGTTTAGCCCGGACGAGTAACATGAACTAATAT
ATATTC
Found at i:92632527 original size:13 final size:13
Alignment explanation
Indices: 92632501--92632553 Score: 88
Period size: 13 Copynumber: 4.1 Consensus size: 13
92632491 GACGCGATCC
*
92632501 ACACGGGGGTGTG
1 ACACGGGCGTGTG
*
92632514 ACATGGGCGTGTG
1 ACACGGGCGTGTG
92632527 ACACGGGCGTGTG
1 ACACGGGCGTGTG
92632540 ACACGGGCGTGTG
1 ACACGGGCGTGTG
92632553 A
1 A
92632554 GATTAGTGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.17, C:0.19, G:0.47, T:0.17
Consensus pattern (13 bp):
ACACGGGCGTGTG
Found at i:92638271 original size:15 final size:15
Alignment explanation
Indices: 92638251--92638282 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
92638241 CTCTGAAATG
92638251 AATAGTAAATTATAT
1 AATAGTAAATTATAT
92638266 AATAGTAAATTATAT
1 AATAGTAAATTATAT
92638281 AA
1 AA
92638283 ATTAACTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (15 bp):
AATAGTAAATTATAT
Found at i:92644710 original size:69 final size:69
Alignment explanation
Indices: 92644633--92645573 Score: 663
Period size: 69 Copynumber: 13.6 Consensus size: 69
92644623 TTGCTAATTG
** * *
92644633 TGTTGGAGGCTGCAATTTTAATCCTACGAGCCTTATTATGATAGCTGGGAGCTTTGCTCTCGCTA
1 TGTTGGAGGCTGCGGTTTTAATCCTGCGAGCCTTATTATGACAGCTGGGAGCTTTGCTCTCGCTA
*
92644698 ACTG
66 ACTA
* ** * * * * ** *
92644702 TGTTGGAGGAT-ATGATTTAATCCTGTGAGCCTTAGTATGACAACTAAGAGCTTTGCTTTCGCTA
1 TGTTGGAGGCTGCGGTTTTAATCCTGCGAGCCTTATTATGACAGCTGGGAGCTTTGCTCTCGCTA
92644766 ACTA
66 ACTA
* * * * * *
92644770 TGTTGGAGGCTACAGTTTTAATCCCGCAAGCCTTAGTATGACAGTTGGGAGCTTTGCTCTCGCTA
1 TGTTGGAGGCTGCGGTTTTAATCCTGCGAGCCTTATTATGACAGCTGGGAGCTTTGCTCTCGCTA
92644835 ACTA
66 ACTA
* * * * * *
92644839 TGTTAGAGGCTGTGGTTTTAATCCTGCAAGCCTTAGTATGACAGTTGGGAGC-TTGCTCTTGCTA
1 TGTTGGAGGCTGCGGTTTTAATCCTGCGAGCCTTATTATGACAGCTGGGAGCTTTGCTCTCGCTA
**
92644903 ACCG
66 ACTA
* ** * * * * * * * * * * * *
92644907 TGTTGGAGCCTATGATTTTTTATCCTACTAGTCTTGTTATGATAGTTGAGAGCTTTACTTTCGTT
1 TGTTGGAGGCTGCG-GTTTTAATCCTGCGAGCCTTATTATGACAGCTGGGAGCTTTGCTCTCGCT
*
92644972 AACTG
65 AACTA
* * * * *** * * * * * *
92644977 TGTTGAAGGTTACGATTTTAATCCTATAAGCTTTAGTATGATAGCTGGGAGCTTTGATCTCACTG
1 TGTTGGAGGCTGCGGTTTTAATCCTGCGAGCCTTATTATGACAGCTGGGAGCTTTGCTCTCGCTA
92645042 ACTA
66 ACTA
* * * * * * *
92645046 TGTTAGAGGTTGTGGTTTTAATCCTGCGAGCCCTAATT-GGACAGCTGGGAGCTTTGCTATCGTT
1 TGTTGGAGGCTGCGGTTTTAATCCTGCGAG-CCTTATTATGACAGCTGGGAGCTTTGCTCTCGCT
92645110 AACTA
65 AACTA
* * * * * * * * *
92645115 TGTTAGA-GCTACGATTTTAATCCTGCGAGCCTTAGTATGATAGTTGGGAACTTTGCTCTTGTTA
1 TGTTGGAGGCTGCGGTTTTAATCCTGCGAGCCTTATTATGACAGCTGGGAGCTTTGCTCTCGCTA
*
92645179 AATA
66 ACTA
* * * * ** * * * *
92645183 TGTTAGAGGTTGTGGTTTTTTATCCTATGATCCTTATTATAAGAGCTGGGAGCTTTGCTCTCACT
1 TGTTGGAGGCTGCGG-TTTTAATCCTGCGAGCCTTATTATGACAGCTGGGAGCTTTGCTCTCGCT
* *
92645248 AATTG
65 AACTA
* ** * * * *
92645253 TGTTGGAAGCTATGGTTTTTAAT-CTCGCGACCCTT-TATACGACAACTGGGAG-TTCTTCTCTC
1 TGTTGGAGGCTGCGG-TTTTAATCCT-GCGAGCCTTAT-TATGACAGCTGGGAGCTT-TGCTCTC
*
92645315 GCTAATTA
62 GCTAACTA
* * * * * * *
92645323 TGTTGGAAGCTACAGTTTTTATCCTACGAGCCTTATTATGACAGCTGGTAGCTTTTCTCTCGCTA
1 TGTTGGAGGCTGCGGTTTTAATCCTGCGAGCCTTATTATGACAGCTGGGAGCTTTGCTCTCGCTA
92645388 ACTA
66 ACTA
* * ** * ** *
92645392 TGTTAGAGGGTGCAATTTTTTATCCTGCGAGCCTTATTATGACAAATGGGAGCTTTGCTCTTGCT
1 TGTTGGAGGCTGC-GGTTTTAATCCTGCGAGCCTTATTATGACAGCTGGGAGCTTTGCTCTCGCT
*
92645457 AACTG
65 AACTA
* * ** * *
92645462 TGTTGGTGGCTGTGGTTTTAATCCTGCGAGCCTTATTATGACAAATGAGAGCTTTGCTCTTGCTA
1 TGTTGGAGGCTGCGGTTTTAATCCTGCGAGCCTTATTATGACAGCTGGGAGCTTTGCTCTCGCTA
*
92645527 ACTG
66 ACTA
* * * *
92645531 TGTTGGGGGCTACAGTTTTAATCCTGCGAGCCTTAGTATGACA
1 TGTTGGAGGCTGCGGTTTTAATCCTGCGAGCCTTATTATGACA
92645574 CAAATGTCGT
Statistics
Matches: 688, Mismatches: 170, Indels: 28
0.78 0.19 0.03
Matches are distributed among these distances:
67 5 0.01
68 127 0.18
69 369 0.54
70 187 0.27
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (69 bp):
TGTTGGAGGCTGCGGTTTTAATCCTGCGAGCCTTATTATGACAGCTGGGAGCTTTGCTCTCGCTA
ACTA
Found at i:92644960 original size:138 final size:139
Alignment explanation
Indices: 92644620--92645573 Score: 743
Period size: 138 Copynumber: 6.9 Consensus size: 139
92644610 AAGTTTGTAA
* * * *
92644620 CTCTTGCTAATTGTGTTGGAGGC--TGCAATTTTAATCCTACGAGCCTTATTATGATAGCTGGGA
1 CTCTTGCTAACTATGTTGGAGGCTATG-AGTTTTAATCCTACGAGCCTTATTATGACAGCTGGGA
* * * * *
92644683 GCTTTGCTCTCGCTAACTGTGTTGGAGGATA-TGATTTAATCCTGTGAGCCTTAGTATGACAACT
65 GCTTTGCTCTCGCTAACTGTGTTAGAGGCTACGGTTTTAATCCTGCGAGCCTTAGTATGACAACT
**
92644747 AAGAGCTTTG
130 GGGAGCTTTG
* ** * * *
92644757 CT-TTCGCTAACTATGTTGGAGGCTA-CAGTTTTAATCCCGCAAGCCTTAGTATGACAGTTGGGA
1 CTCTT-GCTAACTATGTTGGAGGCTATGAGTTTTAATCCTACGAGCCTTATTATGACAGCTGGGA
* ** * **
92644820 GCTTTGCTCTCGCTAACTATGTTAGAGGCTGTGGTTTTAATCCTGCAAGCCTTAGTATGACAGTT
65 GCTTTGCTCTCGCTAACTGTGTTAGAGGCTACGGTTTTAATCCTGCGAGCCTTAGTATGACAACT
92644885 GGGAGC-TTG
130 GGGAGCTTTG
** * * * * * * * * *
92644894 CTCTTGCTAACCGTGTTGGAGCCTATGATTTTTTATCCTACTAGTCTTGTTATGATAGTTGAGAG
1 CTCTTGCTAACTATGTTGGAGGCTATGAGTTTTAATCCTACGAGCCTTATTATGACAGCTGGGAG
* * * * * *** * * *
92644959 CTTTACTTTCGTTAACTGTGTT-GAAGGTTACGATTTTAATCCTATAAGCTTTAGTATGATAGCT
66 CTTTGCTCTCGCTAACTGTGTTAG-AGGCTACGGTTTTAATCCTGCGAGCCTTAGTATGACAACT
92645023 GGGAGCTTTG
130 GGGAGCTTTG
* ** * * * * * * *
92645033 ATCTCACTGACTATGTTAGAGGTTGTG-GTTTTAATCCTGCGAGCCCTAATT-GGACAGCTGGGA
1 CTCTTGCTAACTATGTTGGAGGCTATGAGTTTTAATCCTACGAG-CCTTATTATGACAGCTGGGA
* * * * * **
92645096 GCTTTGCTATCGTTAACTATGTTAGA-GCTACGATTTTAATCCTGCGAGCCTTAGTATGATAGTT
65 GCTTTGCTCTCGCTAACTGTGTTAGAGGCTACGGTTTTAATCCTGCGAGCCTTAGTATGACAACT
*
92645160 GGGAACTTTG
130 GGGAGCTTTG
* * * * * * * * * *
92645170 CTCTTGTTAAATATGTTAGAGGTTGTG-GTTTTTTATCCTATGATCCTTATTATAAGAGCTGGGA
1 CTCTTGCTAACTATGTTGGAGGCTATGAG-TTTTAATCCTACGAGCCTTATTATGACAGCTGGGA
* * * * * * *
92645234 GCTTTGCTCTCACTAATTGTGTTGGAAGCTATGGTTTTTAAT-CTCGCGACCCTTTA-TACGACA
65 GCTTTGCTCTCGCTAACTGTGTTAGAGGCTACGG-TTTTAATCCT-GCGAGCC-TTAGTATGACA
*
92645297 ACTGGGAG-TTCTT
127 ACTGGGAGCTT-TG
* * * * * *
92645310 CTCTCGCTAATTATGTTGGAAGCTA-CAGTTTTTATCCTACGAGCCTTATTATGACAGCTGGTAG
1 CTCTTGCTAACTATGTTGGAGGCTATGAGTTTTAATCCTACGAGCCTTATTATGACAGCTGGGAG
* * * * ** * * *
92645374 CTTTTCTCTCGCTAACTATGTTAGAGGGTGCAATTTTTTATCCTGCGAGCCTTATTATGACAAAT
66 CTTTGCTCTCGCTAACTGTGTTAGAGGCTAC-GGTTTTAATCCTGCGAGCCTTAGTATGACAACT
92645439 GGGAGCTTTG
130 GGGAGCTTTG
* * * * ** *
92645449 CTCTTGCTAACTGTGTTGGTGGCTGTG-GTTTTAATCCTGCGAGCCTTATTATGACAAATGAGAG
1 CTCTTGCTAACTATGTTGGAGGCTATGAGTTTTAATCCTACGAGCCTTATTATGACAGCTGGGAG
* * * *
92645513 CTTTGCTCTTGCTAACTGTGTTGGGGGCTACAGTTTTAATCCTGCGAGCCTTAGTATGACA
66 CTTTGCTCTCGCTAACTGTGTTAGAGGCTACGGTTTTAATCCTGCGAGCCTTAGTATGACA
92645574 CAAATGTCGT
Statistics
Matches: 633, Mismatches: 161, Indels: 45
0.75 0.19 0.05
Matches are distributed among these distances:
136 2 0.00
137 167 0.26
138 227 0.36
139 187 0.30
140 47 0.07
141 3 0.00
ACGTcount: A:0.22, C:0.18, G:0.23, T:0.37
Consensus pattern (139 bp):
CTCTTGCTAACTATGTTGGAGGCTATGAGTTTTAATCCTACGAGCCTTATTATGACAGCTGGGAG
CTTTGCTCTCGCTAACTGTGTTAGAGGCTACGGTTTTAATCCTGCGAGCCTTAGTATGACAACTG
GGAGCTTTG
Found at i:92656173 original size:38 final size:39
Alignment explanation
Indices: 92656125--92656202 Score: 113
Period size: 38 Copynumber: 2.0 Consensus size: 39
92656115 TCCCTATCCA
* * * *
92656125 TACTTTAAATCTGTTTTATTTTTTAGACTTAATA-TTTT
1 TACTTCAAATCTGTCTCATTTTTTAAACTTAATACTTTT
92656163 TACTTCAAATCTGTCTCATTTTTTAAACTTAATACTTTT
1 TACTTCAAATCTGTCTCATTTTTTAAACTTAATACTTTT
92656202 T
1 T
92656203 GTTCAAACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
38 30 0.86
39 5 0.14
ACGTcount: A:0.27, C:0.13, G:0.04, T:0.56
Consensus pattern (39 bp):
TACTTCAAATCTGTCTCATTTTTTAAACTTAATACTTTT
Found at i:92658896 original size:55 final size:55
Alignment explanation
Indices: 92658835--92658946 Score: 170
Period size: 55 Copynumber: 2.0 Consensus size: 55
92658825 TTATATATGA
* ** *
92658835 GTTAGCATATTTACTTATTTAGTTGTTTCAATTATCTTCTAATTATTGTCACTAT
1 GTTAGCATATTTACTTACTTAGTTACTTCAATTATCTTCTAATTATTATCACTAT
* *
92658890 GTTAGCATCTTTGCTTACTTAGTTACTTCAATTATCTTCTAATTATTATCACTAT
1 GTTAGCATATTTACTTACTTAGTTACTTCAATTATCTTCTAATTATTATCACTAT
92658945 GT
1 GT
92658947 ATTTTGAAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.25, C:0.15, G:0.09, T:0.51
Consensus pattern (55 bp):
GTTAGCATATTTACTTACTTAGTTACTTCAATTATCTTCTAATTATTATCACTAT
Found at i:92664841 original size:19 final size:17
Alignment explanation
Indices: 92664804--92664843 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
92664794 ATGGAAAAAT
*
92664804 AAAGAGAGAAAGTTGAG
1 AAAGAGAGAAAGATGAG
92664821 AAAGAAGAGAAGAGATGAG
1 AAAG-AGAGAA-AGATGAG
92664840 AAAG
1 AAAG
92664844 TTATGGTGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 6 0.30
19 10 0.50
ACGTcount: A:0.57, C:0.00, G:0.35, T:0.07
Consensus pattern (17 bp):
AAAGAGAGAAAGATGAG
Found at i:92665417 original size:12 final size:11
Alignment explanation
Indices: 92665390--92665427 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 11
92665380 GAAAATAATC
*
92665390 AAAATTAA-TC
1 AAAATTAATTA
92665400 AAAATTAATTA
1 AAAATTAATTA
92665411 TAAAATTAATTA
1 -AAAATTAATTA
92665423 AAAAT
1 AAAAT
92665428 CATTATGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
10 8 0.32
11 6 0.24
12 11 0.44
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAATTAATTA
Found at i:92665432 original size:22 final size:22
Alignment explanation
Indices: 92665390--92665433 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
92665380 GAAAATAATC
*
92665390 AAAATTAATCAAAATTAATTAT
1 AAAATTAATCAAAAATAATTAT
* *
92665412 AAAATTAATTAAAAATCATTAT
1 AAAATTAATCAAAAATAATTAT
92665434 GTTAATAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAATTAATCAAAAATAATTAT
Found at i:92667870 original size:43 final size:43
Alignment explanation
Indices: 92667805--92667969 Score: 151
Period size: 43 Copynumber: 3.8 Consensus size: 43
92667795 TATCGAGATA
*
92667805 TGATTACATGTAAGACCTTGTGTGGGACAGTGGCATTTTATTG
1 TGATTACATGTAAGACCCTGTGTGGGACAGTGGCATTTTATTG
* *
92667848 TGATTACATGTAAGACCCTGTGTGGGATAGT-GAATTTGTATTG
1 TGATTACATGTAAGACCCTGTGTGGGACAGTGGCATTT-TATTG
* ** * * *
92667891 CGATTATGTGTAAGACCATGTGTGGGACA-TCGACATCGTTA--G
1 TGATTACATGTAAGACCCTGTGTGGGACAGT-GGCAT-TTTATTG
**
92667933 TCGACTT-TGTGTAAGACCCTGTGTGGGACAGTGGCAT
1 T-GA-TTACATGTAAGACCCTGTGTGGGACAGTGGCAT
92667970 CAATATACGA
Statistics
Matches: 101, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
42 7 0.07
43 86 0.85
44 7 0.07
45 1 0.01
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (43 bp):
TGATTACATGTAAGACCCTGTGTGGGACAGTGGCATTTTATTG
Found at i:92673468 original size:2 final size:2
Alignment explanation
Indices: 92673457--92673485 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
92673447 TAAATATGTT
92673457 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
92673486 AAATGTCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:92676106 original size:20 final size:19
Alignment explanation
Indices: 92676068--92676109 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
92676058 TTATTTTTAC
92676068 TATAAATATTATGTATATA
1 TATAAATATTATGTATATA
92676087 TATAAATGATTTAT-TATATA
1 TATAAAT-A-TTATGTATATA
92676107 TAT
1 TAT
92676110 TATTTTTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.33
20 10 0.48
21 4 0.19
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (19 bp):
TATAAATATTATGTATATA
Found at i:92676184 original size:20 final size:22
Alignment explanation
Indices: 92676155--92676222 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 22
92676145 TATGTTTTAT
92676155 TTATAT-ATTTTA-TA-ATATA
1 TTATATCATTTTACTATATATA
92676174 TTATATCATTTTACTATATATA
1 TTATATCATTTTACTATATATA
* * * *
92676196 TTAT-TCATTATATTATTTTTA
1 TTATATCATTTTACTATATATA
92676217 TTATAT
1 TTATAT
92676223 TTAATGTTAC
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
19 6 0.15
20 6 0.15
21 19 0.46
22 10 0.24
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (22 bp):
TTATATCATTTTACTATATATA
Found at i:92676219 original size:14 final size:14
Alignment explanation
Indices: 92676172--92676223 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
92676162 TTTTATAATA
*
92676172 TATTATATCA-TTT
1 TATTATATTATTTT
*
92676185 TACTATATATATTATT
1 TATTATAT-TATT-TT
*
92676201 CATTATATTATTTT
1 TATTATATTATTTT
92676215 TATTATATT
1 TATTATATT
92676224 TAATGTTACT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 7 0.23
14 11 0.35
15 5 0.16
16 8 0.26
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.62
Consensus pattern (14 bp):
TATTATATTATTTT
Found at i:92688694 original size:39 final size:40
Alignment explanation
Indices: 92688537--92688761 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
92688527 GCTACTCGTT
* *
92688537 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
92688577 CAAATGCCTTTGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
92688617 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
92688657 CAAATGCCTTCGGGA-TTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
92688696 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
92688737 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
92688762 CATCATTCAA
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
38 3 0.02
39 32 0.19
40 117 0.71
41 13 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:92688721 original size:119 final size:120
Alignment explanation
Indices: 92688537--92688761 Score: 296
Period size: 119 Copynumber: 1.9 Consensus size: 120
92688527 GCTACTCGTT
* *
92688537 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTTGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTTCGGACTTAACCCGG
* *
92688602 ATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * **
92688657 CAAATGCCTTCGGGA-TTAGCCCGGA-ATTAGTATCTCGCACAAATGCC-TTCGGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTTCGGA-CTTAACCC
* * *
92688719 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
92688762 CATCATTCAA
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
118 6 0.07
119 62 0.68
120 23 0.25
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTTCGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:92691452 original size:44 final size:44
Alignment explanation
Indices: 92691394--92692402 Score: 1133
Period size: 44 Copynumber: 23.1 Consensus size: 44
92691384 ATAGATCACC
*
92691394 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* * * *
92691438 AATAACAAATTTGGCATCTCTGTATTGTCAGAAAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* * *
92691482 GATAACAGGTTTGGCATCTCTGTATTGACAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* *
92691526 GATGACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAA
1 GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* * * * * * *
92691570 GATAGCAGATTTGACATTTTTGTATTGGCAGAGAGCAGATCAAA
1 GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
*
92691614 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* *
92691658 GATAATAGGTTTGGCGTCTCTGTATTGAT-AGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTG-TCAGAGAGCAGATCGAA
* * *
92691702 GATGGA-AGATTTGGAGTCTCTGTATTGTCAGAGAGCAGATCAAA
1 GAT-AACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* *
92691746 GATAACAGGTTTGGCGTCTCTGTATTGTCAGAGAGCAGATCAAA
1 GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* * * * *
92691790 GATAGCAGATTTGACATTTTTGTATTGGT-AGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATT-GTCAGAGAGCAGATCGAA
*
92691834 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* *
92691878 GATGACAGGTTTGGCGTCTCTGTATTGAT-AGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTG-TCAGAGAGCAGATCGAA
* * * * * *
92691922 GATGGA-AGATTTGGAGTCTCTGTATTGGCAGAGAGGAAACCGAA
1 GAT-AACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
*
92691966 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* ** * * *
92692010 GATAGCAGATTTGGTATTTCTGTATTGACAGAGAGCAGATCAAA
1 GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* * *
92692054 GATAGCAGATTTGGCGTCTCTGTATTGACAGAGAGCATATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* * *
92692098 GATGATAGATTTGGCGTCTCTATATTGTCAGAGAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* * * * * *
92692142 GATAGCAGATTTGACATTTCTGTATTGACAGAGAGCAGATCAAA
1 GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* * * *
92692186 GATAATAGATTTGACGTCTCTGTACTGTCAGAGAGCAGATCAAA
1 GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
** * * * *
92692230 GATAACAGATTTTTCGTCTCTGTATTGACAAAGAACGGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* * * *
92692274 GATAACAGATTT-G-G----TATATTGACAGAGGGCAGATTGAA
1 GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* * * ** *
92692312 TATGACAGATTTGGCATCTCTGTATTAACAGAAAGCAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* * * * *
92692356 GATAGCAGATTTGGAGTATCTGTATTGACAGAG-GATAGATCGAA
1 GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAG-CAGATCGAA
92692400 GAT
1 GAT
92692403 GACAAATTCG
Statistics
Matches: 819, Mismatches: 129, Indels: 34
0.83 0.13 0.03
Matches are distributed among these distances:
38 28 0.03
39 1 0.00
42 1 0.00
43 5 0.01
44 777 0.95
45 7 0.01
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.28
Consensus pattern (44 bp):
GATAACAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
Found at i:92692790 original size:17 final size:17
Alignment explanation
Indices: 92692770--92692802 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
92692760 TTAATAAATT
*
92692770 AAAAATGAAATTAAACG
1 AAAAATAAAATTAAACG
92692787 AAAAATAAAATTAAAC
1 AAAAATAAAATTAAAC
92692803 AGTCCATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.70, C:0.06, G:0.06, T:0.18
Consensus pattern (17 bp):
AAAAATAAAATTAAACG
Found at i:92694085 original size:22 final size:22
Alignment explanation
Indices: 92694059--92694103 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
92694049 TTAATCCTTT
92694059 TTTATATATTGCTAAAT-TTTTA
1 TTTATATATT-CTAAATATTTTA
* *
92694081 TTTATTTATTTTAAATATTTTA
1 TTTATATATTCTAAATATTTTA
92694103 T
1 T
92694104 ATATTACTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTATATATTCTAAATATTTTA
Found at i:92694184 original size:16 final size:16
Alignment explanation
Indices: 92694156--92694252 Score: 74
Period size: 16 Copynumber: 5.9 Consensus size: 16
92694146 TTATTTATCG
92694156 TATATTATTTTATTATT
1 TATATTA-TTTATTATT
92694173 TAT-TTATATTATTATGT
1 TATATTAT-TTATTAT-T
* * * *
92694190 TATGTTGTCTATTATA
1 TATATTATTTATTATT
*
92694206 TATATTATCTATTATT
1 TATATTATTTATTATT
*
92694222 TAT-TTATATT-TTATCA
1 TATATTAT-TTATTAT-T
92694238 TATATTATTTATTAT
1 TATATTATTTATTAT
92694253 GTTGTTTATC
Statistics
Matches: 65, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
15 9 0.14
16 32 0.49
17 21 0.32
18 3 0.05
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (16 bp):
TATATTATTTATTATT
Found at i:92694251 original size:32 final size:32
Alignment explanation
Indices: 92694176--92694277 Score: 102
Period size: 32 Copynumber: 3.2 Consensus size: 32
92694166 TATTATTTAT
*
92694176 TTATATTATTATGTTATGTTGTCTATTAT-ATATA
1 TTAT-TTATTATGTTAT-TTATCT-TTATCATATA
* *
92694210 TTATCTATTAT-TTATTTATATTTTATCATATA
1 TTATTTATTATGTTATTTAT-CTTTATCATATA
* *
92694242 TTATTTATTATGTTGTTTATCTTTATC-TTTA
1 TTATTTATTATGTTATTTATCTTTATCATATA
92694273 TTATT
1 TTATT
92694278 ATAATTTTAA
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
31 15 0.26
32 26 0.45
33 13 0.22
34 4 0.07
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.64
Consensus pattern (32 bp):
TTATTTATTATGTTATTTATCTTTATCATATA
Found at i:92706511 original size:220 final size:219
Alignment explanation
Indices: 92706123--92706560 Score: 761
Period size: 220 Copynumber: 2.0 Consensus size: 219
92706113 AGATCTGACC
* * *
92706123 TTCAGGTGTTTACGCTAAAGCAGATCCAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAAT
1 TTCACGTGTTTACGCTAAAGAAGATCCAAGATGATTTGGCATCTATGTATTGTCAGAGAACAAAT
92706188 CGAAGATAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAGACATAGCAGATCTAA
66 CGAAGATAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAGACATAGCAGATCTAA
*
92706253 CCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTTACAAGGAGC
131 CCTTCGGATGTTTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTTACAAGGAGC
*
92706318 AGATCGAAGACATGGTAGATTTGGCT
196 AGATCGAAG--ATAGTAGATTTGGCT
* *
92706344 TTCACGTGTTTACGCTGAAGAAGATCTAAGATGATTTGGCATCTATGTATTGTCAGAGAACAAAT
1 TTCACGTGTTTACGCTAAAGAAGATCCAAGATGATTTGGCATCTATGTATTGTCAGAGAACAAAT
* *
92706409 CGAATA-AACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTAA
66 CGAAGATAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAGACATAGCAGATCTAA
*
92706473 CCTTCGGATGTTTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTTACAATGAGC
131 CCTTCGGATGTTTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTTACAAGGAGC
92706538 AGATCGAAGATAGTAGATTTGGC
196 AGATCGAAGATAGTAGATTTGGC
92706561 GTCTCTATAT
Statistics
Matches: 207, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
218 13 0.06
220 129 0.62
221 65 0.31
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (219 bp):
TTCACGTGTTTACGCTAAAGAAGATCCAAGATGATTTGGCATCTATGTATTGTCAGAGAACAAAT
CGAAGATAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAGACATAGCAGATCTAA
CCTTCGGATGTTTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTTACAAGGAGC
AGATCGAAGATAGTAGATTTGGCT
Found at i:92707046 original size:44 final size:44
Alignment explanation
Indices: 92706534--92707044 Score: 706
Period size: 44 Copynumber: 11.6 Consensus size: 44
92706524 CGTTTACAAT
* * *
92706534 GAGCAGATCGAAGATAGTAGATTTGGCGTCTCTATATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
* *
92706578 GAGCAGATCGATGATAGCAGATTTGGTATCTCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
*
92706622 GAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
* * *
92706666 GAGTAGATCGAAGATAGCAGATTTGGTATCTCTGTATTGTTAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
* **
92706710 GAGCAGATTGAAGATAG-ATGATTTGGCATC-CTTGCGTT-TACA-A
1 GAGCAGATCGAAGATAGCA-GATTTGGCATCTC-TGTATTGT-CAGA
* *
92706753 GGAGCAGATTGAAGATAGTAGATTTGGCATCTCTGTATTGTCAGA
1 -GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
* *
92706798 GAACAGATCGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
*
92706842 GAGCAGATCGAAGATAGCAGATTTGGTATCTCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
* *
92706886 GAGCAGATCGAAGATAGTAGATTTGGCGTCTCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
* *
92706930 GAGCAGATCGAAGATAGCAGATTTGGTATCTCTGTATTGTCAAA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
* * * *
92706974 GAGTAGATCAAAGATAGCAGATTTGGCGTCTCTGTATTGTTAGA
1 GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
* * *
92707018 GAGCAGAACGAAGATAACAGATCTGGC
1 GAGCAGATCGAAGATAGCAGATTTGGC
92707045 GTTCCTGAGT
Statistics
Matches: 414, Mismatches: 45, Indels: 16
0.87 0.09 0.03
Matches are distributed among these distances:
43 4 0.01
44 406 0.98
45 4 0.01
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.29
Consensus pattern (44 bp):
GAGCAGATCGAAGATAGCAGATTTGGCATCTCTGTATTGTCAGA
Found at i:92707333 original size:17 final size:17
Alignment explanation
Indices: 92707311--92707343 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
92707301 ACAAATATTA
*
92707311 AAAAATGAAATTAAACG
1 AAAAATAAAATTAAACG
92707328 AAAAATAAAATTAAAC
1 AAAAATAAAATTAAAC
92707344 AGTCCATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.70, C:0.06, G:0.06, T:0.18
Consensus pattern (17 bp):
AAAAATAAAATTAAACG
Found at i:92708643 original size:22 final size:22
Alignment explanation
Indices: 92708617--92708661 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
92708607 TTAATCCTTT
92708617 TTTATATATTGCTAAAT-TTTTA
1 TTTATATATT-CTAAATATTTTA
* *
92708639 TTTATTTATTTTAAATATTTTA
1 TTTATATATTCTAAATATTTTA
92708661 T
1 T
92708662 ATATTACTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTATATATTCTAAATATTTTA
Found at i:92708789 original size:29 final size:30
Alignment explanation
Indices: 92708703--92708819 Score: 96
Period size: 33 Copynumber: 3.7 Consensus size: 30
92708693 TATATAAAAA
*
92708703 ATTATTTATCGTATATTATTT-TATTATATAT
1 ATTATTTAT--TATGTTATTTATATTATATAT
*
92708734 -TTATATTATTATGTTATGTTGTCTATTATATAT
1 ATTAT-TTATTATGTTA--TT-TATATTATATAT
*
92708767 ATTATCTATTAT-TTATTTATATTTTATCATAT
1 ATTATTTATTATGTTATTTATA--TTAT-ATAT
*
92708799 ATTATTTATTATGTTGTTTAT
1 ATTATTTATTATGTTATTTAT
92708820 CTCTATCTTT
Statistics
Matches: 71, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
29 9 0.13
30 6 0.08
31 10 0.14
32 19 0.27
33 23 0.32
34 4 0.06
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.62
Consensus pattern (30 bp):
ATTATTTATTATGTTATTTATATTATATAT
Found at i:92713146 original size:37 final size:37
Alignment explanation
Indices: 92713105--92713179 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
92713095 ATTTAATGAA
*
92713105 TGATTAATAGATAATTGAAGTGTATATGATATTGAGT
1 TGATTAATAGATAATTGAAGTGAATATGATATTGAGT
*
92713142 TGATTAATAGATAATTGAAGTGAATGTGATATTGAGT
1 TGATTAATAGATAATTGAAGTGAATATGATATTGAGT
92713179 T
1 T
92713180 ATGAAATGCG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (37 bp):
TGATTAATAGATAATTGAAGTGAATATGATATTGAGT
Found at i:92713192 original size:20 final size:21
Alignment explanation
Indices: 92713164--92713208 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
92713154 AATTGAAGTG
*
92713164 AATGTGATATTGAG-TTATGA
1 AATGCGATATTGAGATTATGA
92713184 AATGCGATATTGAGATTATGA
1 AATGCGATATTGAGATTATGA
92713205 AATG
1 AATG
92713209 TGATCTTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.36
Consensus pattern (21 bp):
AATGCGATATTGAGATTATGA
Found at i:92713311 original size:40 final size:40
Alignment explanation
Indices: 92713256--92713467 Score: 152
Period size: 40 Copynumber: 5.5 Consensus size: 40
92713246 CTGGGTGCAA
92713256 ATATCGT-TGGTTTATCCAACTAGAGCTGGGCTCACTATTT
1 ATATCGTCT-GTTTATCCAACTAGAGCTGGGCTCACTATTT
* *
92713296 ATATCATCTGTTTATCCGACTAGCA-CTGGG-TGCA--A---
1 ATATCGTCTGTTTATCCAACTAG-AGCTGGGCT-CACTATTT
* * *
92713331 ATATTGT-TGGTTTATCTAACTAGAGCTGAGCTCACTATTT
1 ATATCGTCT-GTTTATCCAACTAGAGCTGGGCTCACTATTT
*
92713371 ATATCGTCAGTTTATCCAACTAGCA-CTGGG-TGCA--A---
1 ATATCGTCTGTTTATCCAACTAG-AGCTGGGCT-CACTATTT
*
92713406 ATATCGT-TGGTTTATCCAACTAGAGTTGGGCTCACTATTT
1 ATATCGTCT-GTTTATCCAACTAGAGCTGGGCTCACTATTT
* * *
92713446 ATATCATCGGTTTATCCGACTA
1 ATATCGTCTGTTTATCCAACTA
92713468 ACACTAGGTG
Statistics
Matches: 133, Mismatches: 16, Indels: 46
0.68 0.08 0.24
Matches are distributed among these distances:
34 3 0.02
35 50 0.38
36 2 0.02
37 2 0.02
38 2 0.02
39 2 0.02
40 69 0.52
41 3 0.02
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (40 bp):
ATATCGTCTGTTTATCCAACTAGAGCTGGGCTCACTATTT
Found at i:92713353 original size:35 final size:35
Alignment explanation
Indices: 92713239--92713499 Score: 149
Period size: 35 Copynumber: 7.0 Consensus size: 35
92713229 TGAGTAATGG
*
92713239 ACTAACACTGGGTGCAAATATCGTTGGTTTATCCA
1 ACTAGCACTGGGTGCAAATATCGTTGGTTTATCCA
* *
92713274 ACTAG-AGCTGGGCT-CACTATTTATATCATCT-GTTTATCCG
1 ACTAGCA-CTGGG-TGCA--A---ATATCGT-TGGTTTATCCA
* *
92713314 ACTAGCACTGGGTGCAAATATTGTTGGTTTATCTA
1 ACTAGCACTGGGTGCAAATATCGTTGGTTTATCCA
* **
92713349 ACTAG-AGCTGAGCT-CACTATTTATATCGTCAGTTTATCCA
1 ACTAGCA-CTG-GGTGCA--A---ATATCGTTGGTTTATCCA
92713389 ACTAGCACTGGGTGCAAATATCGTTGGTTTATCCA
1 ACTAGCACTGGGTGCAAATATCGTTGGTTTATCCA
* * * *
92713424 ACTAG-AGTTGGGCT-CACTATTTATATCATCGGTTTATCCG
1 ACTAGCA-CTGGG-TGCA--A---ATATCGTTGGTTTATCCA
* *
92713464 ACTAACACTAGGTGCAAATATCGTTGGTTTATCCA
1 ACTAGCACTGGGTGCAAATATCGTTGGTTTATCCA
92713499 A
1 A
92713500 TTATAGTTGG
Statistics
Matches: 172, Mismatches: 25, Indels: 58
0.67 0.10 0.23
Matches are distributed among these distances:
34 4 0.02
35 76 0.44
36 4 0.02
37 3 0.02
38 3 0.02
39 4 0.02
40 74 0.43
41 4 0.02
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.34
Consensus pattern (35 bp):
ACTAGCACTGGGTGCAAATATCGTTGGTTTATCCA
Found at i:92713364 original size:75 final size:75
Alignment explanation
Indices: 92713238--92713524 Score: 448
Period size: 75 Copynumber: 3.8 Consensus size: 75
92713228 ATGAGTAATG
92713238 GACTAACACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTATTTATATCAT
1 GACTAACACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTATTTATATCAT
*
92713303 CTGTTTATCC
66 CAGTTTATCC
* * * * *
92713313 GACTAGCACTGGGTGCAAATATTGTTGGTTTATCTAACTAGAGCTGAGCTCACTATTTATATCGT
1 GACTAACACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTATTTATATCAT
92713378 CAGTTTATCC
66 CAGTTTATCC
* * *
92713388 AACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGTTGGGCTCACTATTTATATCAT
1 GACTAACACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTATTTATATCAT
*
92713453 CGGTTTATCC
66 CAGTTTATCC
* * * *
92713463 GACTAACACTAGGTGCAAATATCGTTGGTTTATCCAATTATAGTTGGGCTCACTATTTATAT
1 GACTAACACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTATTTATAT
92713525 TTGTCGGTTT
Statistics
Matches: 194, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 194 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (75 bp):
GACTAACACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACTATTTATATCAT
CAGTTTATCC
Found at i:92713779 original size:24 final size:24
Alignment explanation
Indices: 92713752--92713804 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
92713742 TTTACTTATG
*
92713752 TATATACATTTATTCATTTGAAGA
1 TATAAACATTTATTCATTTGAAGA
92713776 TATAAACATTTATTCATTTGAAGA
1 TATAAACATTTATTCATTTGAAGA
92713800 TATAA
1 TATAA
92713805 TATATTCTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.43
Consensus pattern (24 bp):
TATAAACATTTATTCATTTGAAGA
Found at i:92714883 original size:10 final size:10
Alignment explanation
Indices: 92714868--92714917 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
92714858 AAATTTTAGG
92714868 ATTTAT-TTT
1 ATTTATCTTT
92714877 CATTTATCTTT
1 -ATTTATCTTT
*
92714888 AATTATCTTT
1 ATTTATCTTT
92714898 ATTTAT-TTGT
1 ATTTATCTT-T
*
92714908 AATTATCTTT
1 ATTTATCTTT
92714918 TAGAATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 2 0.06
10 27 0.79
11 5 0.15
ACGTcount: A:0.24, C:0.08, G:0.02, T:0.66
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:92714901 original size:20 final size:20
Alignment explanation
Indices: 92714878--92714917 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
92714868 ATTTATTTTC
92714878 ATTTATCTT-TAATTATCTTT
1 ATTTAT-TTGTAATTATCTTT
92714898 ATTTATTTGTAATTATCTTT
1 ATTTATTTGTAATTATCTTT
92714918 TAGAATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.25, C:0.07, G:0.03, T:0.65
Consensus pattern (20 bp):
ATTTATTTGTAATTATCTTT
Found at i:92715674 original size:17 final size:18
Alignment explanation
Indices: 92715642--92715675 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
92715632 TATTCTTCAT
92715642 TTTAATTTTCGTAATTTA
1 TTTAATTTTCGTAATTTA
92715660 TTTAATTTT-GTAATTT
1 TTTAATTTTCGTAATTT
92715676 TTAATTCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TTTAATTTTCGTAATTTA
Found at i:92719017 original size:21 final size:21
Alignment explanation
Indices: 92718991--92719039 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
92718981 AAGAAAAGAC
*
92718991 CACTTTTACGTGCCTATTTGG
1 CACTTTTACGTGCCCATTTGG
*
92719012 CACTTTTACGTTCCCATTTGG
1 CACTTTTACGTGCCCATTTGG
92719033 CACTTTT
1 CACTTTT
92719040 GCATACAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.14, C:0.27, G:0.14, T:0.45
Consensus pattern (21 bp):
CACTTTTACGTGCCCATTTGG
Found at i:92721229 original size:5 final size:5
Alignment explanation
Indices: 92721219--92721283 Score: 66
Period size: 5 Copynumber: 13.4 Consensus size: 5
92721209 GTTTTTATTG
* *
92721219 TTTTA TTTTA TTTTA TTTTTA TTTTTA TTTT- TATT- TTTTA TTTT- TATTA
1 TTTTA TTTTA TTTTA -TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
92721268 TTTTA -TTTA TTTTA TT
1 TTTTA TTTTA TTTTA TT
92721284 AATAAAAATT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
4 13 0.25
5 28 0.54
6 11 0.21
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:92721229 original size:13 final size:12
Alignment explanation
Indices: 92721211--92721280 Score: 74
Period size: 13 Copynumber: 5.8 Consensus size: 12
92721201 GCAACCCAGT
92721211 TTTTATTGTTTTA
1 TTTTATT-TTTTA
*
92721224 TTTTATTTTAT-
1 TTTTATTTTTTA
92721235 TTTTA-TTTTTA
1 TTTTATTTTTTA
92721246 TTTTTATTTTTTA
1 -TTTTATTTTTTA
92721259 TTTTTATTATTTTA
1 -TTTTATT-TTTTA
92721273 -TTTATTTT
1 TTTTATTTT
92721281 ATTAATAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
10 4 0.08
11 7 0.14
12 14 0.27
13 21 0.41
14 5 0.10
ACGTcount: A:0.17, C:0.00, G:0.01, T:0.81
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:92721240 original size:6 final size:6
Alignment explanation
Indices: 92721210--92721280 Score: 76
Period size: 6 Copynumber: 11.7 Consensus size: 6
92721200 GGCAACCCAG
92721210 TTTTTA TTGTTT- TATTTTA -TTTTA TTTTTA TTTTTA TTTTTA TTTTTTA
1 TTTTTA TT-TTTA T-TTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTTTTA
*
92721259 TTTTTA TTATTT- TATTTA TTTT
1 TTTTTA TT-TTTA TTTTTA TTTT
92721281 ATTAATAAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
5 8 0.14
6 35 0.62
7 13 0.23
ACGTcount: A:0.17, C:0.00, G:0.01, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:92722883 original size:10 final size:10
Alignment explanation
Indices: 92722868--92722917 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
92722858 AAATTTTAGG
92722868 ATTTAT-TTT
1 ATTTATCTTT
92722877 CATTTATCTTT
1 -ATTTATCTTT
*
92722888 AATTATCTTT
1 ATTTATCTTT
92722898 ATTTAT-TTGT
1 ATTTATCTT-T
*
92722908 AATTATCTTT
1 ATTTATCTTT
92722918 TAGAATTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 2 0.06
10 27 0.79
11 5 0.15
ACGTcount: A:0.24, C:0.08, G:0.02, T:0.66
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:92722901 original size:20 final size:20
Alignment explanation
Indices: 92722878--92722917 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
92722868 ATTTATTTTC
92722878 ATTTATCTT-TAATTATCTTT
1 ATTTAT-TTGTAATTATCTTT
92722898 ATTTATTTGTAATTATCTTT
1 ATTTATTTGTAATTATCTTT
92722918 TAGAATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.25, C:0.07, G:0.03, T:0.65
Consensus pattern (20 bp):
ATTTATTTGTAATTATCTTT
Found at i:92733754 original size:34 final size:34
Alignment explanation
Indices: 92733688--92733951 Score: 273
Period size: 34 Copynumber: 7.7 Consensus size: 34
92733678 TTTCCTCATT
* * *
92733688 GAAATACCATA-CTACATTTCACAACTCGGTATG
1 GAAATACCATACCTACGTTTCACAGCTCAGTATG
* *
92733721 GAAAACACCATACCTACGTTTCA-TGCTCAGTATG
1 G-AAATACCATACCTACGTTTCACAGCTCAGTATG
** * * *
92733755 GAAAATACCATACCTATATTTCATAACTCAATATAG
1 G-AAATACCATACCTACGTTTCACAGCTCAGTAT-G
* * * *
92733791 GCAATGCCATACCTACGTATCATAGCTCAGTATG
1 GAAATACCATACCTACGTTTCACAGCTCAGTATG
** *
92733825 G-ACGACGTCATACCTACGTTTCACAGCTCGGTATG
1 GAAATAC--CATACCTACGTTTCACAGCTCAGTATG
*
92733860 GAAATACCATACCTACGTTTCACAGCTCGGTATG
1 GAAATACCATACCTACGTTTCACAGCTCAGTATG
* *
92733894 GAATTACCATACCTACGTTTCACAGCTCGGTATG
1 GAAATACCATACCTACGTTTCACAGCTCAGTATG
*
92733928 GAAATTCCATACCTACGTTTCACA
1 GAAATACCATACCTACGTTTCACA
92733952 CTTTGTCTTG
Statistics
Matches: 195, Mismatches: 29, Indels: 13
0.82 0.12 0.05
Matches are distributed among these distances:
33 3 0.02
34 121 0.62
35 66 0.34
36 5 0.03
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.28
Consensus pattern (34 bp):
GAAATACCATACCTACGTTTCACAGCTCAGTATG
Found at i:92733924 original size:68 final size:68
Alignment explanation
Indices: 92733688--92733951 Score: 291
Period size: 69 Copynumber: 3.9 Consensus size: 68
92733678 TTTCCTCATT
* *
92733688 GAAATACCATA-CTACATTTCACAACTCGGTATGGAAAACACCATACCTACGTTTCA-TGCTCAG
1 GAAATACCATACCTACATTTCACAACTCGGTATGG-AAATACCATACCTACGTTTCACAGCTCAG
92733751 TATG
65 TATG
* * ** * * * *
92733755 GAAAATACCATACCTATATTTCATAACTCAATATAGGCAATGCCATACCTACGTATCATAGCTCA
1 G-AAATACCATACCTACATTTCACAACTCGGTAT-GGAAATACCATACCTACGTTTCACAGCTCA
92733820 GTATG
64 GTATG
** * * *
92733825 G-ACGACGTCATACCTACGTTTCACAGCTCGGTATGGAAATACCATACCTACGTTTCACAGCTCG
1 GAAATAC--CATACCTACATTTCACAACTCGGTATGGAAATACCATACCTACGTTTCACAGCTCA
92733889 GTATG
64 GTATG
* * * *
92733894 GAATTACCATACCTACGTTTCACAGCTCGGTATGGAAATTCCATACCTACGTTTCACA
1 GAAATACCATACCTACATTTCACAACTCGGTATGGAAATACCATACCTACGTTTCACA
92733952 CTTTGTCTTG
Statistics
Matches: 165, Mismatches: 25, Indels: 13
0.81 0.12 0.06
Matches are distributed among these distances:
67 1 0.01
68 63 0.38
69 65 0.39
70 36 0.22
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.28
Consensus pattern (68 bp):
GAAATACCATACCTACATTTCACAACTCGGTATGGAAATACCATACCTACGTTTCACAGCTCAGT
ATG
Found at i:92734036 original size:27 final size:27
Alignment explanation
Indices: 92734006--92734071 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
92733996 GATCACTGAA
*
92734006 CACTTTGTCATGTTTGGCACACTTTAT
1 CACTTTGTCATATTTGGCACACTTTAT
92734033 CACTTTGTCATATTTGGCACACTTTAT
1 CACTTTGTCATATTTGGCACACTTTAT
*
92734060 CACTTTGCCATA
1 CACTTTGTCATA
92734072 GCTTAGCTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.42
Consensus pattern (27 bp):
CACTTTGTCATATTTGGCACACTTTAT
Found at i:92737183 original size:18 final size:18
Alignment explanation
Indices: 92737160--92737196 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
92737150 TCTTCAATTT
92737160 TCAATATGATCAATCCAA
1 TCAATATGATCAATCCAA
*
92737178 TCAATATGTTCAATCCAA
1 TCAATATGATCAATCCAA
92737196 T
1 T
92737197 TAAATAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.22, G:0.05, T:0.32
Consensus pattern (18 bp):
TCAATATGATCAATCCAA
Found at i:92749744 original size:44 final size:44
Alignment explanation
Indices: 92749695--92749830 Score: 117
Period size: 42 Copynumber: 3.2 Consensus size: 44
92749685 TTGGAATTGT
92749695 TTTGGCACCATGGTATCTACCTTCTCCATTGTCCCAAATTGTGC
1 TTTGGCACCATGGTATCTACCTTCTCCATTGTCCCAAATTGTGC
* * * * ***
92749739 TTTGGCACTAT--CATGATA-GTT-TCCTGAGTT-T-TGGAATTGT--
1 TTTGGCACCATGGTAT-CTACCTTCTCC--A-TTGTCCCAAATTGTGC
92749779 TTTGGCACCATGGTATCTACCTTCTCCATTGTCCCAAATTGTGC
1 TTTGGCACCATGGTATCTACCTTCTCCATTGTCCCAAATTGTGC
92749823 TTTGGCAC
1 TTTGGCAC
92749831 TATCATTATG
Statistics
Matches: 66, Mismatches: 14, Indels: 24
0.63 0.13 0.23
Matches are distributed among these distances:
40 12 0.18
41 7 0.11
42 20 0.30
43 7 0.11
44 20 0.30
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.39
Consensus pattern (44 bp):
TTTGGCACCATGGTATCTACCTTCTCCATTGTCCCAAATTGTGC
Found at i:92749806 original size:84 final size:84
Alignment explanation
Indices: 92749665--92749836 Score: 344
Period size: 84 Copynumber: 2.0 Consensus size: 84
92749655 AGACATGGAG
92749665 TCATGATAGTTTCCTGAGTTTTGGAATTGTTTTGGCACCATGGTATCTACCTTCTCCATTGTCCC
1 TCATGATAGTTTCCTGAGTTTTGGAATTGTTTTGGCACCATGGTATCTACCTTCTCCATTGTCCC
92749730 AAATTGTGCTTTGGCACTA
66 AAATTGTGCTTTGGCACTA
92749749 TCATGATAGTTTCCTGAGTTTTGGAATTGTTTTGGCACCATGGTATCTACCTTCTCCATTGTCCC
1 TCATGATAGTTTCCTGAGTTTTGGAATTGTTTTGGCACCATGGTATCTACCTTCTCCATTGTCCC
92749814 AAATTGTGCTTTGGCACTA
66 AAATTGTGCTTTGGCACTA
92749833 TCAT
1 TCAT
92749837 TATGGAACAT
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 88 1.00
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.41
Consensus pattern (84 bp):
TCATGATAGTTTCCTGAGTTTTGGAATTGTTTTGGCACCATGGTATCTACCTTCTCCATTGTCCC
AAATTGTGCTTTGGCACTA
Found at i:92753391 original size:24 final size:24
Alignment explanation
Indices: 92753347--92753393 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
92753337 AAATAAAAAA
* *
92753347 ATTTAAATACAATAAATCAAATAC
1 ATTTAAAAACAATAAAACAAATAC
92753371 ATTTAAAAAC-ATAAAAACAAATA
1 ATTTAAAAACAAT-AAAACAAATA
92753394 TTAAAACAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.64, C:0.11, G:0.00, T:0.26
Consensus pattern (24 bp):
ATTTAAAAACAATAAAACAAATAC
Found at i:92753520 original size:28 final size:27
Alignment explanation
Indices: 92753456--92753520 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
92753446 ACACAAATTG
* * *
92753456 AAAATATAATAAAAAGTGATTATATTA
1 AAAATAAAATAAAAAGTAAATATATTA
* *
92753483 AAATTGAAAATAAAATGTAAATATGATTA
1 AAAAT-AAAATAAAAAGTAAATAT-ATTA
92753512 AAAATAAAA
1 AAAATAAAA
92753521 AATATATATA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
27 4 0.13
28 18 0.60
29 8 0.27
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (27 bp):
AAAATAAAATAAAAAGTAAATATATTA
Found at i:92754794 original size:30 final size:30
Alignment explanation
Indices: 92754758--92754814 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
92754748 GGATAAGAGG
*
92754758 GGAGTAAAAGTTTTGGGGGAAAAATAAGGA
1 GGAGTAAAAGTTTTGAGGGAAAAATAAGGA
92754788 GGAGTAAAAGTTTTGAGGGAAAAATAA
1 GGAGTAAAAGTTTTGAGGGAAAAATAA
92754815 AAAGGTTGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.46, C:0.00, G:0.33, T:0.21
Consensus pattern (30 bp):
GGAGTAAAAGTTTTGAGGGAAAAATAAGGA
Found at i:92770139 original size:29 final size:29
Alignment explanation
Indices: 92770107--92770165 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
92770097 CTAAAACATG
92770107 AAAATTAGCTATACTAGCTGAATATTCAT
1 AAAATTAGCTATACTAGCTGAATATTCAT
*
92770136 AAAATTAGCTATGCTAGCTGAATATTCAT
1 AAAATTAGCTATACTAGCTGAATATTCAT
92770165 A
1 A
92770166 CATATTTCCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.34
Consensus pattern (29 bp):
AAAATTAGCTATACTAGCTGAATATTCAT
Found at i:92771360 original size:24 final size:21
Alignment explanation
Indices: 92771320--92771373 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 21
92771310 AAATAAAATA
* *
92771320 ATAAAATAATAATAAATATCTT
1 ATAAAATATTAATAAATAAC-T
92771342 ATTAAAATATTAAATAAATAACT
1 A-TAAAATATT-AATAAATAACT
92771365 ATAAAATAT
1 ATAAAATAT
92771374 CACCAACATC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 9 0.32
23 10 0.36
24 9 0.32
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (21 bp):
ATAAAATATTAATAAATAACT
Found at i:92774006 original size:45 final size:43
Alignment explanation
Indices: 92773944--92774037 Score: 111
Period size: 43 Copynumber: 2.1 Consensus size: 43
92773934 TTTTTTTTCC
* *
92773944 TTTTCTCCTTCCTTTCTCTTCTATCT-TCTCTACTATTCTCTTTTT
1 TTTTCTCCTTCCCTTCTCTT-T-TCTAT-TCTACTAGTCTCTTTTT
92773989 TTTTC-CCTTCTCCTTCTCTTTTCTATTCTACTAGTCTCTTTTT
1 TTTTCTCCTTC-CCTTCTCTTTTCTATTCTACTAGTCTCTTTTT
*
92774032 CTTTCT
1 TTTTCT
92774038 TTTTTACCTT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
43 23 0.53
44 7 0.16
45 13 0.30
ACGTcount: A:0.06, C:0.31, G:0.01, T:0.62
Consensus pattern (43 bp):
TTTTCTCCTTCCCTTCTCTTTTCTATTCTACTAGTCTCTTTTT
Found at i:92776304 original size:26 final size:25
Alignment explanation
Indices: 92776251--92776306 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
92776241 ATATTATTTT
*
92776251 TATTTTTTAAATATTTAAAATATTA
1 TATTTTTTAAATATTTAAAATATCA
92776276 TATTTTTT-AATATTATTAAACATA-CA
1 TATTTTTTAAATA-T-TTAAA-ATATCA
92776302 TATTT
1 TATTT
92776307 AATTATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 4 0.15
25 9 0.33
26 11 0.41
27 3 0.11
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (25 bp):
TATTTTTTAAATATTTAAAATATCA
Found at i:92776916 original size:32 final size:33
Alignment explanation
Indices: 92776880--92776951 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
92776870 AACTTTTATG
92776880 AAATATTTT-TA-AGAAATC-TACCAAACAACAGA
1 AAATATTTTATACAG-AATCAT-CCAAACAACAGA
* *
92776912 AAATATTTTATACAGATTCATCCAAACACCAGA
1 AAATATTTTATACAGAATCATCCAAACAACAGA
92776945 AAATATT
1 AAATATT
92776952 AACTTTTCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
32 9 0.26
33 23 0.66
34 3 0.09
ACGTcount: A:0.50, C:0.17, G:0.06, T:0.28
Consensus pattern (33 bp):
AAATATTTTATACAGAATCATCCAAACAACAGA
Found at i:92783454 original size:18 final size:18
Alignment explanation
Indices: 92783431--92783469 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
92783421 CTATTCAAAT
*
92783431 ATTTATTATTGGAATTT-A
1 ATTTATT-TTGAAATTTGA
92783449 ATTTATTTTGAAATTTGA
1 ATTTATTTTGAAATTTGA
92783467 ATT
1 ATT
92783470 CAAATAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (18 bp):
ATTTATTTTGAAATTTGA
Found at i:92784389 original size:17 final size:16
Alignment explanation
Indices: 92784361--92784398 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
92784351 TTGAATCGAT
92784361 TTTTTTATTTTTAATATA
1 TTTTTTATTTTT-ATA-A
92784379 TTTTTTA-TTTTATAA
1 TTTTTTATTTTTATAA
92784394 TTTTT
1 TTTTT
92784399 AACAATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 6 0.30
16 3 0.15
17 4 0.20
18 7 0.35
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTATTTTTATAA
Found at i:92789746 original size:5 final size:5
Alignment explanation
Indices: 92789736--92789774 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
92789726 GCCTAAGATG
* *
92789736 TGAAT TGAAT TGAAT TGAAT ATGAAT TGTAT TAAAT TGA
1 TGAAT TGAAT TGAAT TGAAT -TGAAT TGAAT TGAAT TGA
92789775 GCTAAATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (5 bp):
TGAAT
Found at i:92790395 original size:25 final size:24
Alignment explanation
Indices: 92790367--92790423 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
92790357 ATGGCTATCT
*
92790367 GGAGCTTCCCAATTAATGGCTCTTC
1 GGAGCTTCCC-ATTAATGGCTCTTA
* * *
92790392 GGAGCTACCCGTTATTGGCTCTTA
1 GGAGCTTCCCATTAATGGCTCTTA
*
92790416 TGAGCTTC
1 GGAGCTTC
92790424 TCGTTATACA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
24 17 0.65
25 9 0.35
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.33
Consensus pattern (24 bp):
GGAGCTTCCCATTAATGGCTCTTA
Found at i:92790420 original size:24 final size:24
Alignment explanation
Indices: 92790383--92790430 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
92790373 TCCCAATTAA
*
92790383 TGGCTCTTCGGAGCTACCCGTTAT
1 TGGCTCTTAGGAGCTACCCGTTAT
* * *
92790407 TGGCTCTTATGAGCTTCTCGTTAT
1 TGGCTCTTAGGAGCTACCCGTTAT
92790431 ACAACCTGGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.12, C:0.25, G:0.23, T:0.40
Consensus pattern (24 bp):
TGGCTCTTAGGAGCTACCCGTTAT
Found at i:92795043 original size:46 final size:46
Alignment explanation
Indices: 92794967--92795152 Score: 160
Period size: 46 Copynumber: 3.8 Consensus size: 46
92794957 TTGCACATAG
92794967 TCACATATCACACACTG-TAGCCATAGCCCAGCCATGGTCTTACACGAA
1 TCACATAT--CACACTGAT-GCCATAGCCCAGCCATGGTCTTACACGAA
* ** *
92795015 TCACATATCACACTGATGCCATATCCCAGATATGGTCTTATACGGAA
1 TCACATATCACACTGATGCCATAGCCCAGCCATGGTCTTACAC-GAA
* * *
92795062 GCACGTAATCACATATCTCTGATGCCATAGCCCAGCTATGGTCTTACAC-AGA
1 TCACAT-ATCAC--A---CTGATGCCATAGCCCAGCCATGGTCTTACACGA-A
* * * *
92795114 TCACATATCACATTGATGCCATGGTCCAACCATGGTCTT
1 TCACATATCACACTGATGCCATAGCCCAGCCATGGTCTT
92795153 TTCCGTCAAT
Statistics
Matches: 113, Mismatches: 16, Indels: 20
0.76 0.11 0.13
Matches are distributed among these distances:
46 51 0.45
47 8 0.07
48 13 0.12
49 1 0.01
50 1 0.01
51 6 0.05
52 5 0.04
53 28 0.25
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.26
Consensus pattern (46 bp):
TCACATATCACACTGATGCCATAGCCCAGCCATGGTCTTACACGAA
Found at i:92796286 original size:23 final size:21
Alignment explanation
Indices: 92796219--92796302 Score: 107
Period size: 21 Copynumber: 4.0 Consensus size: 21
92796209 TGATCAGTAT
*
92796219 ACGACACATAA-GTGCCTGAA
1 ACGACACACAAGGTGCCTGAA
*
92796239 ACGACACACGAGGTGCCTGAA
1 ACGACACACAAGGTGCCTGAA
92796260 ACGACACACAAGGTGCCTGAAA
1 ACGACACACAAGGTGCCTG-AA
* *
92796282 TACGACACATAAAGTGCCTGA
1 -ACGACACACAAGGTGCCTGA
92796303 TCAGTATAGC
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
20 9 0.16
21 27 0.48
22 3 0.05
23 17 0.30
ACGTcount: A:0.38, C:0.26, G:0.23, T:0.13
Consensus pattern (21 bp):
ACGACACACAAGGTGCCTGAA
Found at i:92796299 original size:44 final size:41
Alignment explanation
Indices: 92796219--92796302 Score: 105
Period size: 44 Copynumber: 2.0 Consensus size: 41
92796209 TGATCAGTAT
* * *
92796219 ACGACACATAAGTGCCTGAAACGACACACGAGGTGCCTGAA
1 ACGACACACAAGTGCCTGAAACGACACACAAAGTGCCTGAA
*
92796260 ACGACACACAAGGTGCCTGAAATACGACACATAAAGTGCCTGA
1 ACGACACACAA-GTGCCTG-AA-ACGACACACAAAGTGCCTGA
92796303 TCAGTATAGC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
41 10 0.28
42 7 0.19
43 2 0.06
44 17 0.47
ACGTcount: A:0.38, C:0.26, G:0.23, T:0.13
Consensus pattern (41 bp):
ACGACACACAAGTGCCTGAAACGACACACAAAGTGCCTGAA
Found at i:92796588 original size:29 final size:28
Alignment explanation
Indices: 92796507--92796588 Score: 128
Period size: 28 Copynumber: 2.9 Consensus size: 28
92796497 AACACACCAG
*
92796507 ATAATCCTCCAAAACACACCAGTATCAT
1 ATAATCCTCCAAAACACACCAGAATCAT
* *
92796535 ATAATCCTCCCAAACACACTAGAATCAT
1 ATAATCCTCCAAAACACACCAGAATCAT
92796563 ATAATCCATCCAAAACACACCAGAAT
1 ATAATCC-TCCAAAACACACCAGAAT
92796589 AGCACAAAGT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 32 0.67
29 16 0.33
ACGTcount: A:0.45, C:0.32, G:0.04, T:0.20
Consensus pattern (28 bp):
ATAATCCTCCAAAACACACCAGAATCAT
Found at i:92799498 original size:53 final size:47
Alignment explanation
Indices: 92799410--92799610 Score: 199
Period size: 47 Copynumber: 4.2 Consensus size: 47
92799400 TGGTTGGACC
* * *
92799410 ATGGCAACA-TGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCT
1 ATGGCATCAGTGTGATATGTG-CTTCCGTATAAGACCATAGCTGGGAT
*
92799457 ATGGCATCAGAGAGATGTGATTATGTGCTTCCGTATAAGACCATATCTGGGAT
1 ATGGCATC----AG-TGTGA-TATGTGCTTCCGTATAAGACCATAGCTGGGAT
* * * * *
92799510 ATGGCATCAGTGTGATATATACTACTGTATAAGACCATATCTGGGAT
1 ATGGCATCAGTGTGATATGTGCTTCCGTATAAGACCATAGCTGGGAT
* * * * *
92799557 ATGGCATCAGTGAGATATGTGATT-CGTGTAAGACCATAGCTGAGCT
1 ATGGCATCAGTGTGATATGTGCTTCCGTATAAGACCATAGCTGGGAT
92799603 ATGGCATC
1 ATGGCATC
92799611 GATATGTCAT
Statistics
Matches: 129, Mismatches: 18, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
46 25 0.19
47 54 0.42
48 5 0.04
49 2 0.02
51 1 0.01
53 36 0.28
54 6 0.05
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (47 bp):
ATGGCATCAGTGTGATATGTGCTTCCGTATAAGACCATAGCTGGGAT
Found at i:92799653 original size:49 final size:48
Alignment explanation
Indices: 92799571--92799664 Score: 125
Period size: 49 Copynumber: 1.9 Consensus size: 48
92799561 CATCAGTGAG
*
92799571 ATATGTGATTCGTGTAAGACCATAGCTGAGCTATGGCATCGATATGTC
1 ATATGAGATTCGTGTAAGACCATAGCTGAGCTATGGCATCGATATGTC
* * * * *
92799619 ATATGAGATTACGTGTAAGGCTATAGTTGGGCTATGGTATCGATAT
1 ATATGAGATT-CGTGTAAGACCATAGCTGAGCTATGGCATCGATAT
92799665 ATGAATATGT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
48 9 0.23
49 30 0.77
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.33
Consensus pattern (48 bp):
ATATGAGATTCGTGTAAGACCATAGCTGAGCTATGGCATCGATATGTC
Found at i:92799678 original size:42 final size:42
Alignment explanation
Indices: 92799631--92799731 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 42
92799621 ATGAGATTAC
* * **
92799631 GTGTAAGGCTATAGTTGGGCTATGGTATCGA-TATATGAATAT
1 GTGTAAGACCATAGTTGGGCTATGACATC-ATTATATGAATAT
* *
92799673 GTGTAAGACCATAGCTGGGCTATGACATCATTATGTGAATAT
1 GTGTAAGACCATAGTTGGGCTATGACATCATTATATGAATAT
92799715 GTGTAAGACCATAGTTG
1 GTGTAAGACCATAGTTG
92799732 AACTACGGCA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
41 1 0.02
42 50 0.98
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.33
Consensus pattern (42 bp):
GTGTAAGACCATAGTTGGGCTATGACATCATTATATGAATAT
Found at i:92804983 original size:25 final size:25
Alignment explanation
Indices: 92804955--92805014 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
92804945 CAGACATTAC
* * * *
92804955 GCCACATAGGCTTTACAGGTAAATT
1 GCCACAAAGGATTCACAAGTAAATT
*
92804980 GCCACAAAGGATTCCCAAGTAAATT
1 GCCACAAAGGATTCACAAGTAAATT
*
92805005 GCCACGAAGG
1 GCCACAAAGG
92805015 CACCTATAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (25 bp):
GCCACAAAGGATTCACAAGTAAATT
Found at i:92808274 original size:24 final size:23
Alignment explanation
Indices: 92808246--92808313 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 23
92808236 TACCTCGACT
92808246 ATTGTACTCATCTTCATCTCCACC
1 ATTGT-CTCATCTTCATCTCCACC
* * * *
92808270 CTTGTTTACATATTTATCTCCACC
1 ATTGTCT-CATCTTCATCTCCACC
*
92808294 ATTGGCTTCATCTTCATCTC
1 ATTGTC-TCATCTTCATCTC
92808314 TACTGTCTTC
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
23 1 0.03
24 31 0.94
25 1 0.03
ACGTcount: A:0.19, C:0.32, G:0.06, T:0.43
Consensus pattern (23 bp):
ATTGTCTCATCTTCATCTCCACC
Found at i:92829296 original size:11 final size:11
Alignment explanation
Indices: 92829280--92829330 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
92829270 TAATATATTT
92829280 AAAAATTTATA
1 AAAAATTTATA
*
92829291 AAAAA-TCAT-
1 AAAAATTTATA
*
92829300 -AAAATTATAAA
1 AAAAATT-TATA
92829311 AAAAATTTATA
1 AAAAATTTATA
92829322 AAAAATTTA
1 AAAAATTTA
92829331 AAACTATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
8 4 0.12
9 1 0.03
10 4 0.12
11 17 0.53
12 6 0.19
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (11 bp):
AAAAATTTATA
Found at i:92829333 original size:30 final size:31
Alignment explanation
Indices: 92829280--92829339 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
92829270 TAATATATTT
*
92829280 AAAAATTTATAAAAAATCATAAAATTATAAA
1 AAAAATTTATAAAAAATCATAAAACTATAAA
*
92829311 AAAAATTTATAAAAAAT-TTAAAACTATAA
1 AAAAATTTATAAAAAATCATAAAACTATAA
92829340 TCTTTTATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 10 0.37
31 17 0.63
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (31 bp):
AAAAATTTATAAAAAATCATAAAACTATAAA
Found at i:92829477 original size:13 final size:13
Alignment explanation
Indices: 92829459--92829483 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
92829449 AGACAAAATT
92829459 TTTATAATTTTTG
1 TTTATAATTTTTG
92829472 TTTATAATTTTT
1 TTTATAATTTTT
92829484 TATGATTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
TTTATAATTTTTG
Found at i:92830726 original size:19 final size:21
Alignment explanation
Indices: 92830693--92830731 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
92830683 ATAAATTTGA
*
92830693 TATTTGTTAATATTT-TATTT
1 TATTTGTTAACATTTATATTT
92830713 TATTT-TTAACATTTATATT
1 TATTTGTTAACATTTATATT
92830732 CATTACTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (21 bp):
TATTTGTTAACATTTATATTT
Found at i:92835768 original size:91 final size:89
Alignment explanation
Indices: 92835654--92835824 Score: 306
Period size: 91 Copynumber: 1.9 Consensus size: 89
92835644 GTTGAAGTTA
92835654 TTTTCAAAATTAAAATTTTTGAAAAAATATATTTTTAATTTTGATGGATTGCCATTGGTACCAAA
1 TTTTCAAAATTAAAATTTTTGAAAAAATATATTTTTAATTTTGATGGATTGCCATTGGT-CCAAA
92835719 TCATCGTAAAAAAAAATTTAATTAT
65 TCATCGTAAAAAAAAATTTAATTAT
* *
92835744 TTTTGCAAAATTAAAATTTTTGAAAATATATATTTTTAATTTTGATGGATTGCCATTGGTTCAAA
1 TTTT-CAAAATTAAAATTTTTGAAAAAATATATTTTTAATTTTGATGGATTGCCATTGGTCCAAA
92835809 TCATCGTAAAAAAAAA
65 TCATCGTAAAAAAAAA
92835825 CCTATTTTTT
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
90 24 0.31
91 54 0.69
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.41
Consensus pattern (89 bp):
TTTTCAAAATTAAAATTTTTGAAAAAATATATTTTTAATTTTGATGGATTGCCATTGGTCCAAAT
CATCGTAAAAAAAAATTTAATTAT
Found at i:92835778 original size:16 final size:17
Alignment explanation
Indices: 92835731--92835780 Score: 50
Period size: 16 Copynumber: 2.9 Consensus size: 17
92835721 ATCGTAAAAA
92835731 AAAATTTAATTATTTTTGC
1 AAAA-TTAA-TATTTTTGC
*
92835750 AAAATTAAAATTTTTG-
1 AAAATTAATATTTTTGC
92835766 AAAA-TATATATTTTT
1 AAAATTA-ATATTTTT
92835781 AATTTTGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 2 0.07
16 11 0.39
17 7 0.25
18 4 0.14
19 4 0.14
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (17 bp):
AAAATTAATATTTTTGC
Found at i:92836069 original size:72 final size:72
Alignment explanation
Indices: 92835985--92836129 Score: 290
Period size: 72 Copynumber: 2.0 Consensus size: 72
92835975 TTTTGATTTC
92835985 ATGATTATTTTTCAATTAATTCTTGGAATATATTGTTTTTTAGCTTACGAACACATTGAATTATG
1 ATGATTATTTTTCAATTAATTCTTGGAATATATTGTTTTTTAGCTTACGAACACATTGAATTATG
92836050 TTAGTTT
66 TTAGTTT
92836057 ATGATTATTTTTCAATTAATTCTTGGAATATATTGTTTTTTAGCTTACGAACACATTGAATTATG
1 ATGATTATTTTTCAATTAATTCTTGGAATATATTGTTTTTTAGCTTACGAACACATTGAATTATG
92836122 TTAGTTT
66 TTAGTTT
92836129 A
1 A
92836130 AAAAAGGAAA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.30, C:0.08, G:0.12, T:0.50
Consensus pattern (72 bp):
ATGATTATTTTTCAATTAATTCTTGGAATATATTGTTTTTTAGCTTACGAACACATTGAATTATG
TTAGTTT
Found at i:92839422 original size:12 final size:13
Alignment explanation
Indices: 92839394--92839427 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
92839384 AAATAAATTT
*
92839394 ATTTAATATACTA
1 ATTTAATTTACTA
92839407 ATTTAATTTA-TA
1 ATTTAATTTACTA
92839419 ATTTAATTT
1 ATTTAATTT
92839428 TTACCCTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTTAATTTACTA
Done.