Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 275 of 325
Found at i:88330563 original size:17 final size:17
Alignment explanation
Indices: 88330543--88330580 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
88330533 CGAGCTCTGC
88330543 TATATTGCGAGCCCTAT
1 TATATTGCGAGCCCTAT
*
88330560 TATATTGTGAGCCCTAT
1 TATATTGCGAGCCCTAT
88330577 TATA
1 TATA
88330581 CTATGAATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.39
Consensus pattern (17 bp):
TATATTGCGAGCCCTAT
Found at i:88331790 original size:27 final size:27
Alignment explanation
Indices: 88331745--88331810 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
88331735 AATAAGAGAT
** *
88331745 CGTAGGGTAAATTGAGAACTAGCG-ATT
1 CGTAGGGTAGGTTGAGAACTAG-GTATC
* *
88331772 TGTAGGGTAGGTTGTGAACTAGGTATC
1 CGTAGGGTAGGTTGAGAACTAGGTATC
88331799 CGTAGGGTAGGT
1 CGTAGGGTAGGT
88331811 CTCGAGCTAG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
26 1 0.03
27 31 0.97
ACGTcount: A:0.26, C:0.09, G:0.36, T:0.29
Consensus pattern (27 bp):
CGTAGGGTAGGTTGAGAACTAGGTATC
Found at i:88332494 original size:3 final size:3
Alignment explanation
Indices: 88332486--88332541 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
88332476 ATACAAGCAA
* * * * *
88332486 ATG ATG ATG ATG GTG GT- AGTG GTG ATG ATG ACG ATG ATG ATG GTG
1 ATG ATG ATG ATG ATG ATG A-TG ATG ATG ATG ATG ATG ATG ATG ATG
88332531 ATG ATG ATG AT
1 ATG ATG ATG AT
88332542 TCTAAAATGT
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.27, C:0.02, G:0.39, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:88337107 original size:18 final size:18
Alignment explanation
Indices: 88337071--88337249 Score: 238
Period size: 18 Copynumber: 9.9 Consensus size: 18
88337061 AATTATATCT
*
88337071 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
88337090 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
88337108 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
88337126 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
88337143 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
88337161 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
88337178 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
88337196 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
* * *
88337213 TCTAATATTGTATATCACA
1 TCTAAGATTGCA-ATCATA
*
88337232 TTTAAGATTGCATATCAT
1 TCTAAGATTGCA-ATCAT
88337250 TGAAGATTAT
Statistics
Matches: 143, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
17 47 0.33
18 66 0.46
19 30 0.21
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.39
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:88337148 original size:35 final size:35
Alignment explanation
Indices: 88337071--88337241 Score: 261
Period size: 35 Copynumber: 4.8 Consensus size: 35
88337061 AATTATATCT
* *
88337071 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGCA-ATCATATCTAAGATTG-TATCATA
88337108 TCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCAATCATATCTAAGATTGTATCATA
88337143 TCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCAATCATATCTAAGATTGTATCATA
88337178 TCTAAGATTGCAATCATATCTAAGATTGTATCATA
1 TCTAAGATTGCAATCATATCTAAGATTGTATCATA
* * * *
88337213 TCTAATATTGTATATCACATTTAAGATTG
1 TCTAAGATTGCA-ATCATATCTAAGATTG
88337242 CATATCATTG
Statistics
Matches: 127, Mismatches: 6, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
35 86 0.68
36 30 0.24
37 11 0.09
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (35 bp):
TCTAAGATTGCAATCATATCTAAGATTGTATCATA
Found at i:88337187 original size:70 final size:72
Alignment explanation
Indices: 88337071--88337249 Score: 290
Period size: 70 Copynumber: 2.5 Consensus size: 72
88337061 AATTATATCT
88337071 TCTAAGATTGTATATCATATCTAAGATTGCAATCATATCTAAGATTGCAATCATATCTAAGATTG
1 TCTAAGATTGTATATCATATCTAAGATTGCAATCATATCTAAGATTGCAATCATATCTAAGATTG
88337136 TATCATA
66 TATCATA
* *
88337143 TCTAAGATTGCA-ATCATATCTAAGATTG-TATCATATCTAAGATTGCAATCATATCTAAGATTG
1 TCTAAGATTGTATATCATATCTAAGATTGCAATCATATCTAAGATTGCAATCATATCTAAGATTG
88337206 TATCATA
66 TATCATA
* * *
88337213 TCTAATATTGTATATCACATTTAAGATTGCATATCAT
1 TCTAAGATTGTATATCATATCTAAGATTGCA-ATCAT
88337250 TGAAGATTAT
Statistics
Matches: 97, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
70 51 0.53
71 30 0.31
72 11 0.11
73 5 0.05
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.39
Consensus pattern (72 bp):
TCTAAGATTGTATATCATATCTAAGATTGCAATCATATCTAAGATTGCAATCATATCTAAGATTG
TATCATA
Found at i:88337257 original size:53 final size:55
Alignment explanation
Indices: 88337071--88337249 Score: 253
Period size: 53 Copynumber: 3.3 Consensus size: 55
88337061 AATTATATCT
*
88337071 TCTAAGATTGTATATCATATCTAAGATTGCAATCATATCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTG-ATATCATA
88337126 TCTAAGATTG--TATCATATCTAAGATTGCAATCATATCTAAGATTG-TATCATA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGATATCATA
* * *
88337178 TCTAAGATTGCA-ATCATATCTAAGATTG-TATCATATCTAATATTGTATATCACA
1 TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTG-ATATCATA
*
88337232 TTTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
88337250 TGAAGATTAT
Statistics
Matches: 114, Mismatches: 4, Indels: 12
0.88 0.03 0.09
Matches are distributed among these distances:
52 31 0.27
53 51 0.45
54 17 0.15
55 15 0.13
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.39
Consensus pattern (55 bp):
TCTAAGATTGCATATCATATCTAAGATTGCAATCATATCTAAGATTGATATCATA
Found at i:88338192 original size:166 final size:166
Alignment explanation
Indices: 88337918--88338258 Score: 583
Period size: 166 Copynumber: 2.1 Consensus size: 166
88337908 ACACGTGAAA
88337918 GCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAAGATGCCAAACCATCTTGGATCT
1 GCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAAGATGCCAAACCATCTTGGATCT
*
88337983 TGCTTCAGTATAAAAATCTGAAGGCCAGATCTGCTATGTGTCTGCCATTCGTCGAATATGGAGAC
66 TGCTTCAGTATAAAAATCTGAAGGCCAGATCTGCTATGTGTCTGCCATCCGTCGAATATGGAGAC
* *
88338048 ACCAAACTTCGATTTGTTCTCTGACAATACAGAGAT
131 ACCAAAATTCGATTTATTCTCTGACAATACAGAGAT
* * *
88338084 GCCAAATTAGCTGTGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCT
1 GCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAAGATGCCAAACCATCTTGGATCT
* *
88338149 TGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGAC
66 TGCTTCAGTATAAAAATCTGAAGGCCAGATCTGCTATGTGTCTGCCATCCGTCGAATATGGAGAC
* * *
88338214 GCCAAAATTCGATTTATTCTTTGACAATATAGAGAT
131 ACCAAAATTCGATTTATTCTCTGACAATACAGAGAT
88338250 GCCAAATCA
1 GCCAAATCA
88338259 TCTTAGACTT
Statistics
Matches: 163, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
166 163 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (166 bp):
GCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAAGATGCCAAACCATCTTGGATCT
TGCTTCAGTATAAAAATCTGAAGGCCAGATCTGCTATGTGTCTGCCATCCGTCGAATATGGAGAC
ACCAAAATTCGATTTATTCTCTGACAATACAGAGAT
Found at i:88338396 original size:373 final size:372
Alignment explanation
Indices: 88337712--88338465 Score: 1258
Period size: 373 Copynumber: 2.0 Consensus size: 372
88337702 ACACGCGAAA
88337712 GCCAAATCAGCTATGTCTTCGATTTCCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCT
1 GCCAAATCAGCTATGTCTTCGATTTCCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCT
* * ** * *
88337777 GCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATATGTCTGTCCTCCGTTGAATATGGAGACG
66 GCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGCCCTCCGTCGAATATGGAGACG
* * *
88337842 CCAAACTTCTATTTGTTTTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTA
131 CCAAAATTCGATTTATTTTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTA
88337907 AACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAAGATGCCAAACC
196 AACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAAGATGCCAAACC
* *
88337972 ATCTTGGATCTTGCTTCAGTATAAAAATCTGAAGGCCAGATCTGCTATGTGTCTGCCATTCGTCG
261 ATCTTGGATCTTGCTTCAGTATAAAAATCTAAAGGCCAGATCTGCTATGTGTCTGCCATCCGTCG
*
88338037 AATATGGAGACACCAAACTTCGATTTGTTCTCTGACAATACAGAGAT
326 AATATGGAGACACCAAACTTCGATTTGTTCACTGACAATACAGAGAT
* * ** *
88338084 GCCAAATTAGCTGTGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCT
1 GCCAAATCAGCTATGTCTTCGATTTCCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATC-
*
88338149 TGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGAC
65 TGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGCCCTCCGTCGAATATGGAGAC
* *
88338214 GCCAAAATTCGATTTATTCTT-TGACAATATAGAGATGCCAAATCATCTTAGACTTGTTTCAACG
130 GCCAAAATTCGATTTATT-TTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACG
*
88338278 TAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAA
194 TAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAAGATGCCAAA
* *
88338343 CCATCTTGGATCTTGCTTCAGTATAAACATCTAAAGGCCAGATCTGCTATGTGTCTGCCCTCCGT
259 CCATCTTGGATCTTGCTTCAGTATAAAAATCTAAAGGCCAGATCTGCTATGTGTCTGCCATCCGT
* *
88338408 CGAATATGGAGCCGCCAAACTTCGATTTGTTCACTGACAATACAGAGAT
324 CGAATATGGAGACACCAAACTTCGATTTGTTCACTGACAATACAGAGAT
88338457 GCCAAATCA
1 GCCAAATCA
88338466 TCTTAGATTT
Statistics
Matches: 354, Mismatches: 26, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
372 59 0.17
373 293 0.83
374 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (372 bp):
GCCAAATCAGCTATGTCTTCGATTTCCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCT
GCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATATGTCTGCCCTCCGTCGAATATGGAGACG
CCAAAATTCGATTTATTTTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTA
AACACGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAAGATGCCAAACC
ATCTTGGATCTTGCTTCAGTATAAAAATCTAAAGGCCAGATCTGCTATGTGTCTGCCATCCGTCG
AATATGGAGACACCAAACTTCGATTTGTTCACTGACAATACAGAGAT
Found at i:88338448 original size:207 final size:207
Alignment explanation
Indices: 88338084--88338523 Score: 754
Period size: 207 Copynumber: 2.1 Consensus size: 207
88338074 ATACAGAGAT
* *
88338084 GCCAAATTAGCTGTGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCT
1 GCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCT
*
88338149 TGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGAC
66 TGCTTCAGTATAAACATCTAAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGAC
** * *
88338214 GCCAAAATTCGATTTATTCTTTGACAATATAGAGATGCCAAATCATCTTAGACTTGTTTCAACGT
131 GCCAAAATTCGATTTATTCACTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGT
*
88338279 AAACACGTGAAA
196 AAACACATGAAA
88338291 GCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCT
1 GCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCT
*
88338356 TGCTTCAGTATAAACATCTAAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGCC
66 TGCTTCAGTATAAACATCTAAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGAC
* * * *
88338421 GCCAAACTTCGATTTGTTCACTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGT
131 GCCAAAATTCGATTTATTCACTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGT
*
88338486 AAGCACATGAAA
196 AAACACATGAAA
88338498 GCCAAATCAGCTATGTCTTCGATTTG
1 GCCAAATCAGCTATGTCTTCGATTTG
88338524 CTCTCTGTCA
Statistics
Matches: 219, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
207 219 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (207 bp):
GCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCT
TGCTTCAGTATAAACATCTAAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGAC
GCCAAAATTCGATTTATTCACTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGT
AAACACATGAAA
Found at i:88338773 original size:43 final size:42
Alignment explanation
Indices: 88338649--88338775 Score: 111
Period size: 43 Copynumber: 3.0 Consensus size: 42
88338639 CTATACTTTA
* *
88338649 ACCTGTTACCCTACTGCTTAGGGGGTTAAGGCGC--ATCTTCG
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGCGAAT-TTTG
* * * *
88338690 ATCTGCT-CCACTATTGCTTAGGGAGA-TAAGATC-CGTAATTTTG
1 ACCTGTTACC-CTACTGCTTAGGG-GATTAAG-GCGCG-AATTTTG
88338733 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGCTGAATTTTG
1 ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGC-GAATTTTG
88338776 TAATTTTCAA
Statistics
Matches: 66, Mismatches: 10, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
40 2 0.03
41 22 0.33
42 5 0.08
43 32 0.48
44 5 0.08
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.32
Consensus pattern (42 bp):
ACCTGTTACCCTACTGCTTAGGGGATTAAGGCGCGAATTTTG
Found at i:88339630 original size:1 final size:1
Alignment explanation
Indices: 88339624--88339682 Score: 73
Period size: 1 Copynumber: 59.0 Consensus size: 1
88339614 GGCCTCTCTA
* * * **
88339624 TTTTTTTTTTTTCTTTTTTTTTCTTTTTTTTTTCTTTTTTTTTTTTTTTCCTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
88339683 GAAATAGAAG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (1 bp):
T
Found at i:88339652 original size:21 final size:20
Alignment explanation
Indices: 88339624--88339672 Score: 89
Period size: 21 Copynumber: 2.4 Consensus size: 20
88339614 GGCCTCTCTA
88339624 TTTTTTTTTTTTCTTTTTTT
1 TTTTTTTTTTTTCTTTTTTT
88339644 TTCTTTTTTTTTTCTTTTTTT
1 TT-TTTTTTTTTTCTTTTTTT
88339665 TTTTTTTT
1 TTTTTTTT
88339673 CCTTTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 8 0.29
21 20 0.71
ACGTcount: A:0.00, C:0.06, G:0.00, T:0.94
Consensus pattern (20 bp):
TTTTTTTTTTTTCTTTTTTT
Found at i:88342707 original size:25 final size:25
Alignment explanation
Indices: 88342673--88342724 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
88342663 CTGGCAATCA
88342673 CATCATGTATTCCTCCGTAGACTAC
1 CATCATGTATTCCTCCGTAGACTAC
*
88342698 CATCATGTATTCCTCCGTGGACTAC
1 CATCATGTATTCCTCCGTAGACTAC
88342723 CA
1 CA
88342725 GCTTTCTCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.23, C:0.33, G:0.13, T:0.31
Consensus pattern (25 bp):
CATCATGTATTCCTCCGTAGACTAC
Found at i:88345516 original size:35 final size:35
Alignment explanation
Indices: 88345458--88345589 Score: 175
Period size: 35 Copynumber: 3.8 Consensus size: 35
88345448 AATCATATCT
88345458 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTG-AATCATA
88345495 TCTAAGATTG-TATCATATCTAAGATTG---CATA
1 TCTAAGATTGATATCATATCTAAGATTGAATCATA
*
88345526 TCTAAGATTGCA-ATCATATCTAAGATTGTATCATA
1 TCTAAGATTG-ATATCATATCTAAGATTGAATCATA
*
88345561 TCTAAGATTGCATATCACATCTAAGATTG
1 TCTAAGATTG-ATATCATATCTAAGATTG
88345590 CATATCATTG
Statistics
Matches: 88, Mismatches: 1, Indels: 13
0.86 0.01 0.13
Matches are distributed among these distances:
31 14 0.16
32 16 0.18
35 33 0.38
36 15 0.17
37 10 0.11
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.37
Consensus pattern (35 bp):
TCTAAGATTGATATCATATCTAAGATTGAATCATA
Found at i:88345527 original size:14 final size:15
Alignment explanation
Indices: 88345472--88345576 Score: 106
Period size: 17 Copynumber: 6.5 Consensus size: 15
88345462 AGATTGTATA
88345472 TCATATCTAAGATTG
1 TCATATCTAAGATTG
88345487 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
88345505 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
88345522 -CATATCTAAGATTG
1 TCATATCTAAGATTG
88345536 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
88345554 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
88345571 -CATATC
1 TCATATC
88345577 ACATCTAAGA
Statistics
Matches: 81, Mismatches: 2, Indels: 12
0.85 0.02 0.13
Matches are distributed among these distances:
14 20 0.25
17 32 0.40
18 29 0.36
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:88345536 original size:49 final size:49
Alignment explanation
Indices: 88345473--88345576 Score: 208
Period size: 49 Copynumber: 2.1 Consensus size: 49
88345463 GATTGTATAT
88345473 CATATCTAAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTG
1 CATATCTAAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTG
88345522 CATATCTAAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTG
1 CATATCTAAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTG
88345571 CATATC
1 CATATC
88345577 ACATCTAAGA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 55 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (49 bp):
CATATCTAAGATTGCAATCATATCTAAGATTGTATCATATCTAAGATTG
Found at i:88345605 original size:17 final size:17
Alignment explanation
Indices: 88345460--88345597 Score: 87
Period size: 17 Copynumber: 7.9 Consensus size: 17
88345450 TCATATCTTC
*
88345460 TAAGATTGTATATCATA
1 TAAGATTGCATATCATA
88345477 TCTAAGATTGCA-ATCATA
1 --TAAGATTGCATATCATA
88345495 TCTAAGATTG--TATCATA
1 --TAAGATTGCATATCATA
88345512 TCTAAGATTGCATATC---
1 --TAAGATTGCATATCATA
88345528 TAAGATTGCA-ATCATA
1 TAAGATTGCATATCATA
88345544 TCTAAGATTG--TATCATA
1 --TAAGATTGCATATCATA
*
88345561 TCTAAGATTGCATATCACATC
1 --TAAGATTGCATAT--CATA
88345582 TAAGATTGCATATCAT
1 TAAGATTGCATATCAT
88345598 TGAAGATTAT
Statistics
Matches: 104, Mismatches: 2, Indels: 28
0.78 0.01 0.21
Matches are distributed among these distances:
13 3 0.03
14 10 0.10
17 35 0.34
18 24 0.23
19 29 0.28
21 3 0.03
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (17 bp):
TAAGATTGCATATCATA
Found at i:88346413 original size:19 final size:19
Alignment explanation
Indices: 88346376--88346413 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
88346366 CTTTAGGGCT
*
88346376 TTTTTTTAATTGATTCAAA
1 TTTTTTTAATTAATTCAAA
88346395 TTTTTTT-ATTAATTACAAA
1 TTTTTTTAATTAATT-CAAA
88346414 AATATCCACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (19 bp):
TTTTTTTAATTAATTCAAA
Found at i:88346992 original size:6 final size:6
Alignment explanation
Indices: 88346981--88347053 Score: 74
Period size: 6 Copynumber: 11.3 Consensus size: 6
88346971 CTTAAACTAG
*
88346981 AAAAGA AAAAGA AAAAGGGA AAAGGA AAAAGGA AAAAGGA AAAAGGA AAAAGA
1 AAAAGA AAAAGA AAAA--GA AAAAGA AAAA-GA AAAA-GA AAAA-GA AAAAGA
* *
88347034 AAAAGA AAGAGA AAGAGA AA
1 AAAAGA AAAAGA AAAAGA AA
88347054 GTTTTGTGTT
Statistics
Matches: 61, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
6 36 0.59
7 20 0.33
8 5 0.08
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:88347003 original size:7 final size:7
Alignment explanation
Indices: 88346981--88347038 Score: 86
Period size: 7 Copynumber: 8.7 Consensus size: 7
88346971 CTTAAACTAG
88346981 AAAA-GA
1 AAAAGGA
88346987 AAAA-GA
1 AAAAGGA
*
88346993 AAAAGGG
1 AAAAGGA
88347000 AAAAGGA
1 AAAAGGA
88347007 AAAAGGA
1 AAAAGGA
88347014 AAAAGGA
1 AAAAGGA
88347021 AAAAGGA
1 AAAAGGA
88347028 AAAA-GA
1 AAAAGGA
88347034 AAAAG
1 AAAAG
88347039 AAAGAGAAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
6 16 0.33
7 32 0.67
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (7 bp):
AAAAGGA
Found at i:88350185 original size:26 final size:26
Alignment explanation
Indices: 88350156--88350237 Score: 89
Period size: 24 Copynumber: 3.2 Consensus size: 26
88350146 AATTTCATAA
88350156 TTAC-AATATGATATGACTTATCAAAT
1 TTACAAATATGATAT-ACTTATCAAAT
* * *
88350182 TTACAAAAAT-ATATAATT-TCAAAA
1 TTACAAATATGATATACTTATCAAAT
*
88350206 TTACAAATATGGTATAACTTATCAAAT
1 TTACAAATATGATAT-ACTTATCAAAT
88350233 TTACA
1 TTACA
88350238 GCTATCAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
24 14 0.31
25 6 0.13
26 11 0.24
27 14 0.31
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.37
Consensus pattern (26 bp):
TTACAAATATGATATACTTATCAAAT
Found at i:88350208 original size:50 final size:51
Alignment explanation
Indices: 88350134--88350237 Score: 156
Period size: 51 Copynumber: 2.1 Consensus size: 51
88350124 AATTTCTTCA
* * *
88350134 ACAAATATATACAATTTCATAATTAC-AATATGATATGACTTATCAAATTT
1 ACAAAAATATACAATTTCAAAATTACAAATATGATATAACTTATCAAATTT
* *
88350184 ACAAAAATATATAATTTCAAAATTACAAATATGGTATAACTTATCAAATTT
1 ACAAAAATATACAATTTCAAAATTACAAATATGATATAACTTATCAAATTT
88350235 ACA
1 ACA
88350238 GCTATCAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
50 23 0.48
51 25 0.52
ACGTcount: A:0.49, C:0.12, G:0.04, T:0.36
Consensus pattern (51 bp):
ACAAAAATATACAATTTCAAAATTACAAATATGATATAACTTATCAAATTT
Found at i:88352642 original size:23 final size:23
Alignment explanation
Indices: 88352611--88352654 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
88352601 AAGAAAGAAA
*
88352611 GAAGAAAGGAATAAAAAAGGTGG
1 GAAGAAAGGAAAAAAAAAGGTGG
*
88352634 GAAGGAAGGAAAAAAAAAGGT
1 GAAGAAAGGAAAAAAAAAGGT
88352655 TGACGTGTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.34, T:0.07
Consensus pattern (23 bp):
GAAGAAAGGAAAAAAAAAGGTGG
Found at i:88356370 original size:127 final size:125
Alignment explanation
Indices: 88356165--88356510 Score: 410
Period size: 126 Copynumber: 2.7 Consensus size: 125
88356155 GCCAATTTTA
* * * * *
88356165 TAAAACAAAGGTGATGTTTGATGCTTGGAAATTCGGGAAGTCGTGCCC-AACGTGCTGGGTTTCG
1 TAAAA-AAAGGCGATGTTT-ATGTTTGAAAATTCAGGAAATCGTGCCCTAACGTGCTGGGTTTCG
* * *
88356229 ATCTTCCGTTTGTCCAAATAATCAAATATCCCTTTAAAATTTCGTCCACGTTTTCTAAATTT
64 ATTTTCCGTTTGTCCAAATAATCAAATATCCCTTTAAAATTTCGTCCACGTTTTCAAAACTT
88356291 TAAAAGAAAGGCGATGTTTACTGTTTGAAAATTCAGGAAATCGTGCCCTAACGTGCTGGGTTTCG
1 TAAAA-AAAGGCGATGTTTA-TGTTTGAAAATTCAGGAAATCGTGCCCTAACGTGCTGGGTTTCG
* * *
88356356 ATTTTCTGTTTGTCCAAATAATCAAATATCCTTTTAAAATTTCGTCTACGTTTTCAAAACTT
64 ATTTTCCGTTTGTCCAAATAATCAAATATCCCTTTAAAATTTCGTCCACGTTTTCAAAACTT
* * * * * ** *
88356418 CAAAACAAGGCAATGTTCTATGTTTGTAAATCCTA-GAAATCGTGCCCTAACGTATTGGATTTCG
1 TAAAAAAAGGCGATGTT-TATGTTTGAAAATTC-AGGAAATCGTGCCCTAACGTGCTGGGTTTCG
* * *
88356482 ATTTTTCGTTGGACC-AATAAATCAAATAT
64 ATTTTCCGTTTGTCCAAAT-AATCAAATAT
88356511 TCTTTTTGTA
Statistics
Matches: 191, Mismatches: 24, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
125 4 0.02
126 108 0.57
127 79 0.41
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (125 bp):
TAAAAAAAGGCGATGTTTATGTTTGAAAATTCAGGAAATCGTGCCCTAACGTGCTGGGTTTCGAT
TTTCCGTTTGTCCAAATAATCAAATATCCCTTTAAAATTTCGTCCACGTTTTCAAAACTT
Found at i:88369405 original size:6 final size:6
Alignment explanation
Indices: 88369396--88369456 Score: 81
Period size: 6 Copynumber: 10.5 Consensus size: 6
88369386 AAGTTAAAGG
* *
88369396 AAAAAT AAAAAT TAAAAT AAAGAT AAAAAT -AAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
*
88369443 -AAAAT AAAATT AAA
1 AAAAAT AAAAAT AAA
88369457 CATCATCTTC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
5 10 0.21
6 38 0.79
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.20
Consensus pattern (6 bp):
AAAAAT
Found at i:88369417 original size:29 final size:29
Alignment explanation
Indices: 88369397--88369456 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
88369387 AGTTAAAGGA
*
88369397 AAAATAAAAATTAAAATAAAGATAAAAAT
1 AAAATAAAAATAAAAATAAAGATAAAAAT
*
88369426 AAAATAAAAATAAAAATAAA-ATAAAATT
1 AAAATAAAAATAAAAATAAAGATAAAAAT
88369454 AAA
1 AAA
88369457 CATCATCTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 10 0.34
29 19 0.66
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (29 bp):
AAAATAAAAATAAAAATAAAGATAAAAAT
Found at i:88369428 original size:17 final size:17
Alignment explanation
Indices: 88369396--88369456 Score: 95
Period size: 17 Copynumber: 3.5 Consensus size: 17
88369386 AAGTTAAAGG
88369396 AAAAATAAAAATTAAAAT
1 AAAAATAAAAA-TAAAAT
*
88369414 AAAGATAAAAATAAAAT
1 AAAAATAAAAATAAAAT
88369431 AAAAATAAAAATAAAAT
1 AAAAATAAAAATAAAAT
*
88369448 AAAATTAAA
1 AAAAATAAA
88369457 CATCATCTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
17 30 0.75
18 10 0.25
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.20
Consensus pattern (17 bp):
AAAAATAAAAATAAAAT
Found at i:88369456 original size:11 final size:11
Alignment explanation
Indices: 88369397--88369456 Score: 75
Period size: 11 Copynumber: 5.3 Consensus size: 11
88369387 AGTTAAAGGA
88369397 AAAATAAAAATT
1 AAAAT-AAAATT
*
88369409 AAAATAAAGATA
1 AAAATAAA-ATT
*
88369421 AAAATAAAATA
1 AAAATAAAATT
*
88369432 AAAATAAAAAT
1 AAAATAAAATT
88369443 AAAATAAAATT
1 AAAATAAAATT
88369454 AAA
1 AAA
88369457 CATCATCTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
11 28 0.65
12 15 0.35
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (11 bp):
AAAATAAAATT
Found at i:88376055 original size:45 final size:44
Alignment explanation
Indices: 88375948--88376072 Score: 164
Period size: 45 Copynumber: 2.8 Consensus size: 44
88375938 AATTCAAAAC
* * *
88375948 CTTATCTCCCTGAAGTTGCAGTGGACAAGGTTGAAGTGACAGGT
1 CTTATCTCCCTGAAGTTGCAGTGGACCAGATTGAAGTGACAGAT
88375992 CTTATCTCCCTGAAGTTGCAGTGGACCAGATTGAAGAT-AGC-GAAT
1 CTTATCTCCCTGAAGTTGCAGTGGACCAGATTGAAG-TGA-CAG-AT
* *
88376037 CTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAG
1 CTTATCTCCCTGAAGTTGCAGTGGACCAGATTGAAG
88376073 CTATAAATAA
Statistics
Matches: 73, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
44 36 0.49
45 37 0.51
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.28
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGACCAGATTGAAGTGACAGAT
Found at i:88378720 original size:17 final size:17
Alignment explanation
Indices: 88378698--88378743 Score: 92
Period size: 17 Copynumber: 2.7 Consensus size: 17
88378688 TCCAAGATAT
88378698 ATCAATCAAAATCATAA
1 ATCAATCAAAATCATAA
88378715 ATCAATCAAAATCATAA
1 ATCAATCAAAATCATAA
88378732 ATCAATCAAAAT
1 ATCAATCAAAAT
88378744 TTATCCTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.59, C:0.17, G:0.00, T:0.24
Consensus pattern (17 bp):
ATCAATCAAAATCATAA
Found at i:88378738 original size:11 final size:10
Alignment explanation
Indices: 88378698--88378743 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 10
88378688 TCCAAGATAT
88378698 ATCAATCAAA
1 ATCAATCAAA
88378708 ATC-AT--AA
1 ATCAATCAAA
88378715 ATCAATCAAA
1 ATCAATCAAA
88378725 ATC-AT--AA
1 ATCAATCAAA
88378732 ATCAATCAAA
1 ATCAATCAAA
88378742 AT
1 AT
88378744 TTATCCTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
7 10 0.33
8 4 0.13
9 4 0.13
10 12 0.40
ACGTcount: A:0.59, C:0.17, G:0.00, T:0.24
Consensus pattern (10 bp):
ATCAATCAAA
Found at i:88389016 original size:127 final size:126
Alignment explanation
Indices: 88388805--88389126 Score: 405
Period size: 126 Copynumber: 2.5 Consensus size: 126
88388795 GCCGATTTTA
* * * * *
88388805 TAAAACAAAGGTGATGTTTGATGCTTGGAAATTCGGGAAGTCGTGCCC-AACGTGCTGGGTTTCG
1 TAAAACAAAGGCGATGTTT-ATGTTTGAAAATTCGGGAAATCATGCCCTAACGTGCTGGGTTTCG
* * *
88388869 ATCTTCCATTTGTCCAAATAATCAAATATCCCTTTAAAATTTCGTCCATGTTTTCTAAACTT
65 ATTTTCCATTTGTCCAAATAATCAAATATCCCTTTAAAATTTCGTCCACGTTTTCAAAACTT
* *
88388931 TAAAACAAAGGCGATGTTTACTGTTTGAAAATTCGGGAAATTATGCCCTAATGTGCTGGGTTTCG
1 TAAAACAAAGGCGATGTTTA-TGTTTGAAAATTCGGGAAATCATGCCCTAACGTGCTGGGTTTCG
* *
88388996 ATTTTCTATTTGTCCAAATAATCAAATATCCCTTTAAAATTTCGTCTACGTTTTCAAAACTT
65 ATTTTCCATTTGTCCAAATAATCAAATATCCCTTTAAAATTTCGTCCACGTTTTCAAAACTT
* * * * * * * ** *
88389058 CAAAA-TAATGCAATGTTCTATGTTTGTAAATCCGAGAAATCATGCCCTAACGTATTGGATTTCG
1 TAAAACAAAGGCGATGTT-TATGTTTGAAAATTCGGGAAATCATGCCCTAACGTGCTGGGTTTCG
88389122 ATTTT
65 ATTTT
88389127 GCGTTGGACC
Statistics
Matches: 169, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
125 1 0.01
126 90 0.53
127 78 0.46
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.36
Consensus pattern (126 bp):
TAAAACAAAGGCGATGTTTATGTTTGAAAATTCGGGAAATCATGCCCTAACGTGCTGGGTTTCGA
TTTTCCATTTGTCCAAATAATCAAATATCCCTTTAAAATTTCGTCCACGTTTTCAAAACTT
Found at i:88397578 original size:22 final size:22
Alignment explanation
Indices: 88397548--88397594 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
88397538 TATCAAATGT
*
88397548 TATGGATAAAGTATACATATAA
1 TATGAATAAAGTATACATATAA
88397570 TATGAATAAAGTATACATATAA
1 TATGAATAAAGTATACATATAA
88397592 TAT
1 TAT
88397595 TTAATCAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.51, C:0.04, G:0.11, T:0.34
Consensus pattern (22 bp):
TATGAATAAAGTATACATATAA
Found at i:88399554 original size:29 final size:29
Alignment explanation
Indices: 88399513--88399575 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
88399503 TATGGCCTAT
88399513 TAAG-TAATGAAGAGGCTGAGGAGGATGC
1 TAAGTTAATGAAGAGGCTGAGGAGGATGC
88399541 TAAGTTAATGAAGAGGCTGAGGAGGATGC
1 TAAGTTAATGAAGAGGCTGAGGAGGATGC
88399570 TAAGTT
1 TAAGTT
88399576 TGATTAATGC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 4 0.12
29 30 0.88
ACGTcount: A:0.35, C:0.06, G:0.37, T:0.22
Consensus pattern (29 bp):
TAAGTTAATGAAGAGGCTGAGGAGGATGC
Found at i:88402508 original size:104 final size:104
Alignment explanation
Indices: 88402340--88402622 Score: 334
Period size: 104 Copynumber: 2.7 Consensus size: 104
88402330 CTATGTTCTG
* * * * *
88402340 AACTGATGATTAAAGGTTAGCAGAGTTGAGCTCGCAACCTCCAATTATTTGAGTTAGCTGAGTTA
1 AACTGATGATTAAAGGTTAGCTGAGTTAAGCTTGAAACCTCAAATTATTTGAGTTAGCTGAGTTA
* * *
88402405 AGCTCGTAACTCTGAAACAACTTGCAGACCTACGCTCCT
66 AGCTCGCAACTCTGAAACAACTCGCAGACCTACGCTCCC
** *
88402444 AGTTGATGATTAAAGGTTAGCTGAGTTAAGCTTGAAACCTCAAATTATTTGAGTTAGCCGAGTTA
1 AACTGATGATTAAAGGTTAGCTGAGTTAAGCTTGAAACCTCAAATTATTTGAGTTAGCTGAGTTA
* * * *
88402509 AGCTTGCAACTCTGAAACATCTCGCGGACCTACGTTCCC
66 AGCTCGCAACTCTGAAACAACTCGCAGACCTACGCTCCC
* * * * * * * *
88402548 AACTAATGATTAAAGGTTAGTTGAATTAAGC-TCATAACTTCTAGTTATTTGAGTTAGCTAAGTT
1 AACTGATGATTAAAGGTTAGCTGAGTTAAGCTTGA-AACCTCAAATTATTTGAGTTAGCTGAGTT
*
88402612 AAGCTCACAAC
65 AAGCTCGCAAC
88402623 CTAAGTTCTT
Statistics
Matches: 150, Mismatches: 28, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
103 2 0.01
104 148 0.99
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (104 bp):
AACTGATGATTAAAGGTTAGCTGAGTTAAGCTTGAAACCTCAAATTATTTGAGTTAGCTGAGTTA
AGCTCGCAACTCTGAAACAACTCGCAGACCTACGCTCCC
Found at i:88402614 original size:37 final size:37
Alignment explanation
Indices: 88402573--88402643 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
88402563 GTTAGTTGAA
*
88402573 TTAAGCTCATAACTTCT-AGTT-ATTTGAGTTAGCTAAG
1 TTAAGCTCACAAC--CTAAGTTCATTTGAGTTAGCTAAG
*
88402610 TTAAGCTCACAACCTAAGTTCTTTTGAGTTAGCT
1 TTAAGCTCACAACCTAAGTTCATTTGAGTTAGCT
88402644 GATTTAGGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 2 0.07
36 4 0.13
37 24 0.80
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.39
Consensus pattern (37 bp):
TTAAGCTCACAACCTAAGTTCATTTGAGTTAGCTAAG
Found at i:88410934 original size:18 final size:20
Alignment explanation
Indices: 88410902--88410942 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
88410892 TATTAAATCT
*
88410902 TTTAGAACAATTTTAA-ACA
1 TTTAGAACAACTTTAATACA
88410921 TTTA-AACAACTTTAATACA
1 TTTAGAACAACTTTAATACA
88410940 TTT
1 TTT
88410943 TTAAAATCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.41
Consensus pattern (20 bp):
TTTAGAACAACTTTAATACA
Found at i:88412205 original size:370 final size:369
Alignment explanation
Indices: 88411505--88412280 Score: 1182
Period size: 370 Copynumber: 2.1 Consensus size: 369
88411495 GCCCCTGCTT
* * * *
88411505 ACCAAAGATACGTCTTTTCTAAAACATTTTCAAAGTTTTAATACAGTTTTAAAATCATTTAATAA
1 ACCAAAGACACTTCATTTCTAAAACATTTTCAAAGCTTTAATACAGTTTTAAAATCATTTAATAA
88411570 AAATATCATAAAAACAAATTCCAACATTTTTCTAGGCTCAAAGACATTTTAAAACTCATATCAAA
66 AAATATCATAAAAACAAATTCCAACATTTTTCTAGGCTCAAAGACATTTTAAAACTCATATCAAA
*
88411635 TCACCCCTAAGTGTTCGGATATGAAAATTACATAAAATGGACTTCCAATAAATTAAAATGCAATT
131 TCACCCCTAAGTGTTCGGATATGAAAATTACATAAAATGGACTTCCAATAAATTAAAATGCAATC
* * * * **
88411700 AACACACTTTTACATATATTGAAGCAATCCTGATGCAATTTAGGTGGCTATTCCCCCTTCCCGTT
196 AACACAATTTTACATATATTAAAGCAATCCTGATGCAATTTAGGTGGCTAATCCCCCCTCCCCCT
* * * * *
88411765 CAAATGACGTTTTGGCAAAAGCACATCTCTTAAGACAATTTGTCCTCCATCTAGATAGCTAAATT
261 CAAATAACATTTTGGCAAAAACACATCTCTTAAGACAATTTGTCCTCCATATAGATAGCTAAACT
* * * *
88411830 CTGCCATCTAGATGACCTTGCAACTACTAGCCCAAACAACACTA
326 CTGCCATCTAAATGACCCTACAACTACCAGCCCAAACAACACTA
* *
88411874 ACCAAAGACACTTCATTTCTAAAACATTTTCAAAGCTTTAATACATTTTTAAAATCATTTAATTA
1 ACCAAAGACACTTCATTTCTAAAACATTTTCAAAGCTTTAATACAGTTTTAAAATCATTTAATAA
88411939 AAATATCATAAAAACAAATTCCAACA-TTTTCTATGGCTCAAAGACATTTTAAAAAC-CATATCA
66 AAATATCATAAAAACAAATTCCAACATTTTTCTA-GGCTCAAAGACATTTT-AAAACTCATATCA
* * * * *
88412002 AATGACCCCCTAAGTGTTTGGATATGACAATTACATAAAGTGGACTTCCGATAAATTAAAATGCA
129 AATCA-CCCCTAAGTGTTCGGATATGAAAATTACATAAAATGGACTTCCAATAAATTAAAATGCA
* *
88412067 ATCAACACAATTTTACATATGTTAAAGCAATCCTGATGTAATTTAGGTGGCTAATCCCCCCTCCC
193 ATCAACACAATTTTACATATATTAAAGCAATCCTGATGCAATTTAGGTGGCTAATCCCCCCTCCC
* * *
88412132 CCTCAAATAACATTTTGGTAAAAACACATCTCTTAAGACAATTT-TCCTTC-TATATGAATAGTT
258 CCTCAAATAACATTTTGGCAAAAACACATCTCTTAAGACAATTTGTCCTCCATATA-G-ATAGCT
*
88412195 AAACTCTGCCATCTAAATGACCCTACAACTACCAGTCCAAACAACACTA
321 AAACTCTGCCATCTAAATGACCCTACAACTACCAGCCCAAACAACACTA
88412244 ACCAAAGACACTTCATTTCTAAAACATTTTCAAAGCT
1 ACCAAAGACACTTCATTTCTAAAACATTTTCAAAGCT
88412281 CATTTAAACT
Statistics
Matches: 369, Mismatches: 33, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
368 10 0.03
369 118 0.32
370 241 0.65
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.31
Consensus pattern (369 bp):
ACCAAAGACACTTCATTTCTAAAACATTTTCAAAGCTTTAATACAGTTTTAAAATCATTTAATAA
AAATATCATAAAAACAAATTCCAACATTTTTCTAGGCTCAAAGACATTTTAAAACTCATATCAAA
TCACCCCTAAGTGTTCGGATATGAAAATTACATAAAATGGACTTCCAATAAATTAAAATGCAATC
AACACAATTTTACATATATTAAAGCAATCCTGATGCAATTTAGGTGGCTAATCCCCCCTCCCCCT
CAAATAACATTTTGGCAAAAACACATCTCTTAAGACAATTTGTCCTCCATATAGATAGCTAAACT
CTGCCATCTAAATGACCCTACAACTACCAGCCCAAACAACACTA
Found at i:88419194 original size:19 final size:19
Alignment explanation
Indices: 88419172--88419230 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
88419162 AATAAATATT
88419172 AAATATTAAATTTTATAAA
1 AAATATTAAATTTTATAAA
88419191 AAATATT-AATTTTACTAAA
1 AAATATTAAATTTTA-TAAA
* *
88419210 AATTA-AAAATTTTTATAAA
1 AAATATTAAA-TTTTATAAA
88419229 AA
1 AA
88419231 TCATAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 7 0.20
19 23 0.66
20 5 0.14
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (19 bp):
AAATATTAAATTTTATAAA
Found at i:88419238 original size:20 final size:20
Alignment explanation
Indices: 88419200--88419238 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
88419190 AAAATATTAA
*
88419200 TTTTACTAAAAATTAAAAAT
1 TTTTACTAAAAATCAAAAAT
88419220 TTTTA-TAAAAATCATAAAA
1 TTTTACTAAAAATCA-AAAA
88419239 AAATTAACAA
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:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
TTTTACTAAAAATCAAAAAT
Found at i:88419459 original size:10 final size:10
Alignment explanation
Indices: 88419446--88419535 Score: 53
Period size: 10 Copynumber: 9.2 Consensus size: 10
88419436 CTTTATAAAA
88419446 TTTTATAATT
1 TTTTATAATT
88419456 TTTTAT--TT
1 TTTTATAATT
* *
88419464 TTCTAT-ATA
1 TTTTATAATT
88419473 TTTTAT-ATT
1 TTTTATAATT
* * *
88419482 TTTTTTACTA
1 TTTTATAATT
**
88419492 TTTTATAAAA
1 TTTTATAATT
*
88419502 TTTTACAATT
1 TTTTATAATT
88419512 CTTTTATATATT
1 -TTTTATA-ATT
*
88419524 TTTTCTAATT
1 TTTTATAATT
88419534 TT
1 TT
88419536 AATAAGTTTT
Statistics
Matches: 61, Mismatches: 15, Indels: 8
0.73 0.18 0.10
Matches are distributed among these distances:
8 7 0.11
9 13 0.21
10 26 0.43
11 12 0.20
12 3 0.05
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTATAATT
Found at i:88419476 original size:58 final size:57
Alignment explanation
Indices: 88419399--88419518 Score: 143
Period size: 56 Copynumber: 2.1 Consensus size: 57
88419389 TTTTACAAAA
* * *
88419399 TTTATTTTTCTTTACATTTTGTATAATTTTCTTACGGCTTTATAAAATTTTATAATT-T
1 TTTATTTTTCTATACA-TTT-TATAATTTTCTTACGACTTTATAAAATTTTACAATTCT
* * * * *
88419457 TTTATTTTTCTATATATTTTATATTTTTTTTACTATTTTATAAAATTTTACAATTCT
1 TTTATTTTTCTATACATTTTATAATTTTCTTACGACTTTATAAAATTTTACAATTCT
88419514 TTTAT
1 TTTAT
88419519 ATATTTTTTC
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
56 30 0.57
57 9 0.17
58 14 0.26
ACGTcount: A:0.27, C:0.07, G:0.03, T:0.63
Consensus pattern (57 bp):
TTTATTTTTCTATACATTTTATAATTTTCTTACGACTTTATAAAATTTTACAATTCT
Found at i:88419481 original size:19 final size:18
Alignment explanation
Indices: 88419446--88419498 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 18
88419436 CTTTATAAAA
*
88419446 TTTTATA-ATTTTTTATT
1 TTTTATATATTTTATATT
88419463 TTTCTATATATTTTATATT
1 TTT-TATATATTTTATATT
*
88419482 TTTTTTACTATTTTATA
1 TTTTATA-TATTTTATA
88419499 AAATTTTACA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 3 0.10
18 7 0.23
19 21 0.68
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTATATATTTTATATT
Found at i:88424057 original size:22 final size:23
Alignment explanation
Indices: 88424018--88424060 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
88424008 AATCCTTCCC
88424018 CTCTCCCTCCTCTCTCTTTTTCT
1 CTCTCCCTCCTCTCTCTTTTTCT
* *
88424041 CTCTTCCT-CTCTTTCTTTTT
1 CTCTCCCTCCTCTCTCTTTTT
88424061 TTTTTCTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (23 bp):
CTCTCCCTCCTCTCTCTTTTTCT
Found at i:88427006 original size:24 final size:24
Alignment explanation
Indices: 88426979--88427030 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
88426969 TTAGTAAGTC
*
88426979 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
88427003 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
88427027 AAAT
1 AAAT
88427031 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:88428971 original size:24 final size:24
Alignment explanation
Indices: 88428944--88428995 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
88428934 TTAGTAAGTC
*
88428944 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
88428968 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
88428992 AAAT
1 AAAT
88428996 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:88429536 original size:9 final size:9
Alignment explanation
Indices: 88429524--88429564 Score: 55
Period size: 9 Copynumber: 4.2 Consensus size: 9
88429514 TGAAAATATA
88429524 TAAAATTAT
1 TAAAATTAT
88429533 TAAAATTAT
1 TAAAATTAT
88429542 TAAAATATTTAT
1 T-AAA-A-TTAT
88429554 TAAAATTAT
1 TAAAATTAT
88429563 TA
1 TA
88429565 TTTATATATT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
9 16 0.55
10 4 0.14
11 4 0.14
12 5 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (9 bp):
TAAAATTAT
Found at i:88429824 original size:25 final size:24
Alignment explanation
Indices: 88429777--88429824 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
88429767 AATTTATGAA
* * *
88429777 ACTCTTAAAATGTATAAATCTTTT
1 ACTCTAAAAATGCATAAAACTTTT
88429801 ACTCTAAAATATGCATAAAACTTT
1 ACTCTAAAA-ATGCATAAAACTTT
88429825 GGATAAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.40
Consensus pattern (24 bp):
ACTCTAAAAATGCATAAAACTTTT
Found at i:88431958 original size:25 final size:26
Alignment explanation
Indices: 88431930--88431984 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
88431920 AATTTAAATT
*
88431930 ATTTAAAAAATAA-TTTATTTTGATA
1 ATTTAAAAAATAAGTTTATTTTGAAA
* *
88431955 ATTTACAAGATAAGTTTATTTTGAAA
1 ATTTAAAAAATAAGTTTATTTTGAAA
88431981 ATTT
1 ATTT
88431985 TATCATTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 11 0.42
26 15 0.58
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (26 bp):
ATTTAAAAAATAAGTTTATTTTGAAA
Found at i:88435835 original size:21 final size:22
Alignment explanation
Indices: 88435809--88435865 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
88435799 TTAATGAATG
*
88435809 TAAGGGTTCACATA-AATATAT
1 TAAGGGTTCACATAGAATATAC
* * * *
88435830 TAAGGGATCACCTAGCATTTAC
1 TAAGGGTTCACATAGAATATAC
88435852 TAAGGGTTCACATA
1 TAAGGGTTCACATA
88435866 CAAGGGTTCG
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 12 0.43
22 16 0.57
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.30
Consensus pattern (22 bp):
TAAGGGTTCACATAGAATATAC
Found at i:88439319 original size:12 final size:12
Alignment explanation
Indices: 88439302--88439342 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
88439292 AATTTAGATA
88439302 TTATTA-TTATT
1 TTATTAGTTATT
*
88439313 GTTATTAGTCATT
1 -TTATTAGTTATT
88439326 TTATTAGTTATT
1 TTATTAGTTATT
88439338 TTATT
1 TTATT
88439343 TTATTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 22 0.85
13 4 0.15
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.66
Consensus pattern (12 bp):
TTATTAGTTATT
Found at i:88442906 original size:49 final size:49
Alignment explanation
Indices: 88442799--88443115 Score: 282
Period size: 49 Copynumber: 6.7 Consensus size: 49
88442789 GGTACGATAT
* * * * * *
88442799 CGATGCCATGTTCCAAACATGGTCTTACACT-G-GCTCACATATCTAAGT
1 CGATGCCATGTCCCAGACA-GGTCTTACACTAGCTCTCATATATCGAAGC
* *
88442847 CGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCGAAGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATATATCGAAGC
* * * ** *
88442896 CGATGCCATGTCCCAGATAGGTCTTACACTGGCTCTCATCTATCGGTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATATATCGAAGC
** * * *
88442945 CGATGCCATGTCCCAGACAGGTCTT-C-C-A-CTGACACATGTC-AAGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATATATCGAAGC
* *
88442989 CGATGCCATGTCCCAGACAGGTCTTACACTGGCT-TGCATATCTC-AAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCTCT-CATATATCGAA-GC
* * * *
88443038 TGATG-CATGTCTCAGACATGTCTTACACTAGCTCTCATA-AT-GTAGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATATATCGAAGC
*
88443084 CGATG-CATGTCCCAGACATGTCTTACACTAGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGC
88443116 ACACATATCA
Statistics
Matches: 221, Mismatches: 38, Indels: 22
0.79 0.14 0.08
Matches are distributed among these distances:
44 27 0.12
45 8 0.04
46 33 0.15
47 14 0.06
48 57 0.26
49 82 0.37
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATATATCGAAGC
Found at i:88443043 original size:93 final size:93
Alignment explanation
Indices: 88442798--88443112 Score: 268
Period size: 93 Copynumber: 3.3 Consensus size: 93
88442788 GGGTACGATA
* * * *
88442798 TCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCT-AAGTC-GATGCCATGTCCC
1 TCGATGCCATGTCCCAGACA-GGTCTTACACTGGCT-TCATATCTCAAGGCTGATGCCATGTCCC
** *
88442861 AGACAGGTCTTACACTAACTTTCATATATCGAAG
64 AGACAGGTCTT-C-C--ACTGACACATATCGAAG
* * * * *
88442895 CCGATGCCATGTCCCAGATAGGTCTTACACTGGCTCTCATCTATC--GGTGTCGATGCCATGTCC
1 TCGATGCCATGTCCCAGACAGGTCTTACACTGGCT-TCATATCTCAAGG-CT-GATGCCATGTCC
*
88442958 CAGACAGGTCTTCCACTGACACATGTC-AAG
63 CAGACAGGTCTTCCACTGACACATATCGAAG
*
88442988 TCGATGCCATGTCCCAGACAGGTCTTACACTGGCTTGCATATCTCAAGGCTGATG-CATGTCTCA
1 TCGATGCCATGTCCCAGACAGGTCTTACACTGGCTT-CATATCTCAAGGCTGATGCCATGTCCCA
* * * * *
88443052 GACATGTCTTACACTAGCTCTCATAAT-GTAG
65 GACAGGTCTTCCACT-G-ACACAT-ATCGAAG
* *
88443083 CCGATG-CATGTCCCAGACATGTCTTACACT
1 TCGATGCCATGTCCCAGACAGGTCTTACACT
88443113 AGCACACATA
Statistics
Matches: 180, Mismatches: 27, Indels: 25
0.78 0.12 0.11
Matches are distributed among these distances:
92 22 0.12
93 47 0.26
94 37 0.21
95 11 0.06
96 22 0.12
97 17 0.09
98 24 0.13
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (93 bp):
TCGATGCCATGTCCCAGACAGGTCTTACACTGGCTTCATATCTCAAGGCTGATGCCATGTCCCAG
ACAGGTCTTCCACTGACACATATCGAAG
Found at i:88443801 original size:20 final size:20
Alignment explanation
Indices: 88443776--88443814 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
88443766 AAAATTTCAA
88443776 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
88443796 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
88443815 AATAACCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:88448980 original size:10 final size:9
Alignment explanation
Indices: 88448965--88448990 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
88448955 ACTTCACTTG
88448965 AAAAAAAAT
1 AAAAAAAAT
88448974 AAAAAAAAT
1 AAAAAAAAT
88448983 AAAAAAAA
1 AAAAAAAA
88448991 GGAGAGGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:88449844 original size:49 final size:50
Alignment explanation
Indices: 88449764--88449996 Score: 272
Period size: 49 Copynumber: 4.7 Consensus size: 50
88449754 ACCTATTGTG
*
88449764 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * * *
88449814 -GGTCGCATGTGTAGTTCTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * ** * * **
88449864 CGATCATGTGTGTGGTACTAAGTGCAGGCTACTACGTGTATCGGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * *
88449914 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACTGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
88449964 -GGTCGCATGTGTAGTACTAAGTGTAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
88449997 TATGTACCAG
Statistics
Matches: 151, Mismatches: 30, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
49 71 0.47
50 45 0.30
51 35 0.23
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:88449975 original size:101 final size:98
Alignment explanation
Indices: 88449771--88449996 Score: 267
Period size: 101 Copynumber: 2.3 Consensus size: 98
88449761 GTGAGGTCAC
* *
88449771 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTTCTAAGT
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACATGTGTAGTACTAAGT
* *
88449836 GCAGGCTACTATGCGTACCCGATAACTTCGATCA
66 GCAGGCTACTACGCATACCCGATAACTTCGA-CA
* * ** *
88449870 TGTGTGTGGTACTAAGTGCAGGCTACTACGTGTATCGGATGGTTAGGTCACGTGTGTAGTACTAA
1 -GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCACATGTGTAGTACTAA
* ** *
88449935 GTGCAGGCTACTACGTATACTGGATAATTGGTCG-CA
64 GTGCAGGCTACTACGCATACCCGATAACT--TCGACA
*
88449971 -TGTGTAGTACTAAGTGTAGGCTACTA
1 GTGTGTAGTACTAAGTGCAGGCTACTA
88449997 TATGTACCAG
Statistics
Matches: 108, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
99 24 0.22
100 39 0.36
101 42 0.39
103 3 0.03
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (98 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCACATGTGTAGTACTAAGT
GCAGGCTACTACGCATACCCGATAACTTCGACA
Found at i:88450039 original size:150 final size:149
Alignment explanation
Indices: 88449764--88450042 Score: 389
Period size: 150 Copynumber: 1.9 Consensus size: 149
88449754 ACCTATTGTG
*
88449764 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATAATTGGTCGCATGTGTAGT
* * * * ** *
88449829 TCTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCATGTGTGTGGTACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATACGTACCAGATAACTTCGATCA-GAGTGTGAAAATAAGTGCAGGCT
88449894 ACTACGTGTATCGGATGGTT
130 ACTACGTGTATCGGATGGTT
*
88449914 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACTGGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATAATTGGTCGCATGTGTAGT
* * * * * *
88449979 ACTAAGTGTAGGCTACTATATGTACCAGATAGCTTTGGCTACA-AGTGTGAAAATATGTGCAGGC
66 ACTAAGTGCAGGCTACTATACGTACCAGATAAC-TTCGAT-CAGAGTGTGAAAATAAGTGCAGGC
88450043 AACTGAGTAT
Statistics
Matches: 112, Mismatches: 15, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
150 106 0.95
151 4 0.04
152 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (149 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTATACCGGATAATTGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTATACGTACCAGATAACTTCGATCAGAGTGTGAAAATAAGTGCAGGCTA
CTACGTGTATCGGATGGTT
Found at i:88452150 original size:44 final size:44
Alignment explanation
Indices: 88452082--88452983 Score: 504
Period size: 44 Copynumber: 19.7 Consensus size: 44
88452072 GTCATCATGG
* * * *
88452082 CAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGCCA
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCTA
* * * * * *
88452126 CAAATCTTATATCCCTAAAATTGCAATAGAGTAGATTGAAGATA
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCTA
** * * * *
88452170 GCAAATCTTATCTTTCTAAAATTGTAGTAGAGCAGATTAAAGCTA
1 -CAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCTA
* * * * * ** ** *
88452215 TAAACCTTATCTCCTTGAAA-TTACAGTGTAACA-AGTCGAAGTTA
1 CAAATCTTATCTCCCT-AAAGTTGCAGTGGAGTAGA-TTAAAGCTA
* * * * *
88452259 CAAGTCTTATCTCCCTGAAGTAGCAGTGGAGTAGATTGAAGATA
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCTA
* * * **
88452303 GCGAAA-CTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTACAAATTA
1 -C-AAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAG---C----TA
* * * *
88452355 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTGAAGTTA
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCTA
* * * * *
88452399 CAAATCTTATCTCCCTGAAGTTGTAGTAGAGTAAATTTAAA-ATA
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGA-TTAAAGCTA
* * *
88452443 GCAAATCTTATCTCTCTAAAGTTGCAGTAGAGTAGATTGAAGCTA
1 -CAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCTA
* * * *
88452488 CAAATCTTATATCTCTAAAGTTGTAGTGGAGTAGATTGAAGCTA
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCTA
* * *
88452532 CTAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAACGA
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCTA
* * * * * * *
88452576 TAAGTCCTATAC-CACTAAAGTTGCAGTAG-GTCGGATTAAATCTA
1 CAAATCTTAT-CTCCCTAAAGTTGCAGTGGAGT-AGATTAAAGCTA
* * *
88452620 CCATAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAATAGACTAAAGCTACAAGTTA
1 -C--A--AA-TCTTATCTCCCTAAAGTTGCAGTGGAGTAGA-T-----TA-AAGCTA
* * * * *
88452677 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATG
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCTA
** * * * **
88452721 TTAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTA
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCTA
* * *
88452765 CAAGTTATGAGTCTTATTTCCCTAAAGTTGCAGTGGAATAAATTAAAGCTACAAGTTA
1 C-A---A--A-TCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAG---C----TA
* * * * * * *
88452823 CAAATCTTATCTCCTTAAAGTTGTAGTGGAATAGGTTGAAGATG
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCTA
* * * *
88452867 CAAACCTTATTTCCTTAAAGTTGCAGTGGAGTAGATTAAAGCCA
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCTA
* *
88452911 CAAATATTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCAA
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCTA
* *
88452955 CAAATCTTATAC-CTCTGAAGTTGCAGTGG
1 CAAATCTTAT-CTCCCTAAAGTTGCAGTGG
88452984 GTTGGAATGA
Statistics
Matches: 665, Mismatches: 143, Indels: 100
0.73 0.16 0.11
Matches are distributed among these distances:
43 5 0.01
44 372 0.56
45 111 0.17
46 2 0.00
47 1 0.00
48 1 0.00
49 2 0.00
50 26 0.04
51 126 0.19
52 5 0.01
54 3 0.00
56 3 0.00
57 5 0.01
58 3 0.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (44 bp):
CAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGCTA
Found at i:88452652 original size:50 final size:49
Alignment explanation
Indices: 88452630--88452852 Score: 170
Period size: 51 Copynumber: 4.5 Consensus size: 49
88452620 CCATAGCAAG
88452630 TCTTATCTCCCTGAAGTTGCAGTGGAATAGACTAAAGCTACAAGTTACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGG-ATAGACTAAAGCTACAAG-TACAAA
* * * * *
88452681 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG----ATGT--TAA
1 TCTTATCTCCCTGAAGTTGCAGTGGA-TAGACTAAAGCTACAAGTACAAA
* * * * ** *
88452725 TCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTACAAGTTATGAG
1 TCTTATCTCCCTGAAGTTGCAGTGG-ATAGACTAAAGCTACAAG-TACAAA
* * * *
88452776 TCTTATTTCCCTAAAGTTGCAGTGGAATAAATTAAAGCTACAAGTTACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGG-ATAGACTAAAGCTACAAG-TACAAA
* * *
88452827 TCTTATCTCCTTAAAGTTGTAGTGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGA
88452853 ATAGGTTGAA
Statistics
Matches: 142, Mismatches: 21, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
44 34 0.24
45 1 0.01
46 1 0.01
47 2 0.01
48 2 0.01
49 1 0.01
50 2 0.01
51 99 0.70
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (49 bp):
TCTTATCTCCCTGAAGTTGCAGTGGATAGACTAAAGCTACAAGTACAAA
Found at i:88452738 original size:95 final size:95
Alignment explanation
Indices: 88452630--88452801 Score: 263
Period size: 95 Copynumber: 1.8 Consensus size: 95
88452620 CCATAGCAAG
* *
88452630 TCTTATCTCCCTGAAGTTGCAGTGGAATAGACTAAAGCTACAAGTTACAAATCTTATCTCCCTGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGCTACAAGTTACAAATCTTATCTCCCTAA
88452695 AGTTGCAGTGGAGCAGATTGAAGATGTTAA
66 AGTTGCAGTGGAGCAGATTGAAGATGTTAA
* * * ** * *
88452725 TCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTACAAGTTATGAGTCTTATTTCCCTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGCTACAAGTTACAAATCTTATCTCCCTAA
88452790 AGTTGCAGTGGA
66 AGTTGCAGTGGA
88452802 ATAAATTAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
95 68 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (95 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAACAGACTAAAGCTACAAGTTACAAATCTTATCTCCCTAA
AGTTGCAGTGGAGCAGATTGAAGATGTTAA
Found at i:88452853 original size:51 final size:51
Alignment explanation
Indices: 88452723--88452855 Score: 185
Period size: 51 Copynumber: 2.6 Consensus size: 51
88452713 TGAAGATGTT
* * * **
88452723 AATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTAAAGCTACAAGTTATG
1 AATCTTATTTCCCTAAAGTTGTAGTGGAATAAATTAAAGCTACAAGTTACA
* *
88452774 AGTCTTATTTCCCTAAAGTTGCAGTGGAATAAATTAAAGCTACAAGTTACA
1 AATCTTATTTCCCTAAAGTTGTAGTGGAATAAATTAAAGCTACAAGTTACA
* *
88452825 AATCTTATCTCCTTAAAGTTGTAGTGGAATA
1 AATCTTATTTCCCTAAAGTTGTAGTGGAATA
88452856 GGTTGAAGAT
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 71 1.00
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (51 bp):
AATCTTATTTCCCTAAAGTTGTAGTGGAATAAATTAAAGCTACAAGTTACA
Found at i:88455692 original size:24 final size:24
Alignment explanation
Indices: 88455659--88455714 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
88455649 GCCATATGGG
* *
88455659 CGTGTTGTCGCCCGTGTGGTAAGT
1 CGTGTGGTCGCCCATGTGGTAAGT
*
88455683 CGTGTGGTCGCCCATGTGGTAGGT
1 CGTGTGGTCGCCCATGTGGTAAGT
88455707 CGTGTGGT
1 CGTGTGGT
88455715 AGTACACGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.07, C:0.20, G:0.41, T:0.32
Consensus pattern (24 bp):
CGTGTGGTCGCCCATGTGGTAAGT
Found at i:88464286 original size:53 final size:53
Alignment explanation
Indices: 88464206--88464306 Score: 202
Period size: 53 Copynumber: 1.9 Consensus size: 53
88464196 GTACGAACTA
88464206 ATTAAATGTGTGAATAGAATTAGGTAAGTGAAAGATATGTAAATGTTCATCAC
1 ATTAAATGTGTGAATAGAATTAGGTAAGTGAAAGATATGTAAATGTTCATCAC
88464259 ATTAAATGTGTGAATAGAATTAGGTAAGTGAAAGATATGTAAATGTTC
1 ATTAAATGTGTGAATAGAATTAGGTAAGTGAAAGATATGTAAATGTTC
88464307 CTCTGTGATG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.42, C:0.04, G:0.22, T:0.33
Consensus pattern (53 bp):
ATTAAATGTGTGAATAGAATTAGGTAAGTGAAAGATATGTAAATGTTCATCAC
Found at i:88464415 original size:28 final size:28
Alignment explanation
Indices: 88464375--88464428 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
88464365 TGGAAATAGG
88464375 TGTAAAACCACGAGGTTGAGACCCATAA
1 TGTAAAACCACGAGGTTGAGACCCATAA
88464403 TGTAAAACCACGAGGTTGAGACCCAT
1 TGTAAAACCACGAGGTTGAGACCCAT
88464429 GAGATTATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (28 bp):
TGTAAAACCACGAGGTTGAGACCCATAA
Found at i:88467320 original size:12 final size:12
Alignment explanation
Indices: 88467303--88467341 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
88467293 ACTGAAGGAG
88467303 CTTAATTTTTCA
1 CTTAATTTTTCA
**
88467315 CTTAATTTTTTG
1 CTTAATTTTTCA
88467327 CTTAATTTTTCA
1 CTTAATTTTTCA
88467339 CTT
1 CTT
88467342 TTAGTTCCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.15, G:0.03, T:0.62
Consensus pattern (12 bp):
CTTAATTTTTCA
Found at i:88468541 original size:56 final size:56
Alignment explanation
Indices: 88468455--88468564 Score: 220
Period size: 56 Copynumber: 2.0 Consensus size: 56
88468445 ACACTAGGTG
88468455 TTAATTAGAAAGAGATTTCAATTAATCAACCTAGGGTTAGACGTTATTAGTCTCTC
1 TTAATTAGAAAGAGATTTCAATTAATCAACCTAGGGTTAGACGTTATTAGTCTCTC
88468511 TTAATTAGAAAGAGATTTCAATTAATCAACCTAGGGTTAGACGTTATTAGTCTC
1 TTAATTAGAAAGAGATTTCAATTAATCAACCTAGGGTTAGACGTTATTAGTCTC
88468565 GAGAGAGATA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (56 bp):
TTAATTAGAAAGAGATTTCAATTAATCAACCTAGGGTTAGACGTTATTAGTCTCTC
Found at i:88474201 original size:21 final size:22
Alignment explanation
Indices: 88474162--88474207 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
88474152 GTACTTTTTA
* *
88474162 TTTAATTTTCCTTTATTATTAT
1 TTTAATTTTACTTTATTATAAT
*
88474184 TTTAATTTTAGTTT-TTATAAT
1 TTTAATTTTACTTTATTATAAT
88474205 TTT
1 TTT
88474208 TATTGAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTAATTTTACTTTATTATAAT
Found at i:88477728 original size:17 final size:18
Alignment explanation
Indices: 88477706--88477745 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
88477696 ACTCTTACTC
*
88477706 TTTATTTATTTT-TCATG
1 TTTATTTATTTTATCAAG
*
88477723 TTTATTTCTTTTATCAAG
1 TTTATTTATTTTATCAAG
88477741 TTTAT
1 TTTAT
88477746 GTTGTTTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.20, C:0.07, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTATTTATTTTATCAAG
Found at i:88482243 original size:138 final size:138
Alignment explanation
Indices: 88481995--88482261 Score: 417
Period size: 138 Copynumber: 1.9 Consensus size: 138
88481985 ACTTTCTGCC
** * * *
88481995 TATTCATTACAACATTATTTAGTCGTGAAGTCATTTCACTAAAGTATCATGATTGAGCTCTCCAT
1 TATTCATTACAACATTATTTAGTCACGAAGTCATTCCACTAAAATATCATGATTGAACTCTCCAT
* * * *
88482060 TATTATATCCTATCACAAAACTGCTTATCAACTTCTCATCCAATGACTTTGTAATTGTATTACCC
66 TATTATATACTATCACAAAACTGCTAATCAACTTCTCACCCAATGACTTTGTAAGTGTATTACCC
88482125 TAATAGGA
131 TAATAGGA
* *
88482133 TATTCATTACAATATTATTTAGTCACGAAGTTATTCCACTAAAATATCATGATTGAACTCTCCAT
1 TATTCATTACAACATTATTTAGTCACGAAGTCATTCCACTAAAATATCATGATTGAACTCTCCAT
* *
88482198 TATTATATACTATCACGAAACTGCTAATCAACTTCTCACCCAATGACTTTGTAAGTGTGTTACC
66 TATTATATACTATCACAAAACTGCTAATCAACTTCTCACCCAATGACTTTGTAAGTGTATTACC
88482262 ATCATAGTAT
Statistics
Matches: 116, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
138 116 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.37
Consensus pattern (138 bp):
TATTCATTACAACATTATTTAGTCACGAAGTCATTCCACTAAAATATCATGATTGAACTCTCCAT
TATTATATACTATCACAAAACTGCTAATCAACTTCTCACCCAATGACTTTGTAAGTGTATTACCC
TAATAGGA
Found at i:88482536 original size:17 final size:16
Alignment explanation
Indices: 88482504--88482554 Score: 57
Period size: 18 Copynumber: 3.0 Consensus size: 16
88482494 ATTAACTTTT
88482504 TAAAAAATTTTAAAAA
1 TAAAAAATTTTAAAAA
*
88482520 TAAAAAATACTTTAAAAT
1 TAAAAAAT--TTTAAAAA
*
88482538 TATAAAAATTATAAAAA
1 TA-AAAAATTTTAAAAA
88482555 AAACATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 8 0.28
17 6 0.21
18 9 0.31
19 6 0.21
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (16 bp):
TAAAAAATTTTAAAAA
Found at i:88488690 original size:27 final size:27
Alignment explanation
Indices: 88488660--88488713 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
88488650 AAACCCTAGG
88488660 AAAGAGAAAAACATTCAAGCAAGCTTT
1 AAAGAGAAAAACATTCAAGCAAGCTTT
88488687 AAAGAGAAAAACATTCAAGCAAGCTTT
1 AAAGAGAAAAACATTCAAGCAAGCTTT
88488714 CTTGGCTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.52, C:0.15, G:0.15, T:0.19
Consensus pattern (27 bp):
AAAGAGAAAAACATTCAAGCAAGCTTT
Found at i:88489165 original size:21 final size:21
Alignment explanation
Indices: 88489141--88489180 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
88489131 ACCTAAGATG
* *
88489141 TAAATTGAATTCAATTGAGTA
1 TAAAGTGAATTAAATTGAGTA
88489162 TAAAGTGAATTAAATTGAG
1 TAAAGTGAATTAAATTGAG
88489181 GCTAAATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.17, T:0.35
Consensus pattern (21 bp):
TAAAGTGAATTAAATTGAGTA
Found at i:88489186 original size:21 final size:21
Alignment explanation
Indices: 88489141--88489186 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
88489131 ACCTAAGATG
* * *
88489141 TAAATTGAATTCAATTGAGTA
1 TAAAGTGAATTAAATTGAGGA
*
88489162 TAAAGTGAATTAAATTGAGGC
1 TAAAGTGAATTAAATTGAGGA
88489183 TAAA
1 TAAA
88489187 TTCATTTATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.46, C:0.04, G:0.17, T:0.33
Consensus pattern (21 bp):
TAAAGTGAATTAAATTGAGGA
Found at i:88507017 original size:19 final size:19
Alignment explanation
Indices: 88506993--88507030 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
88506983 TCCCAACTAC
88506993 CTCGAAAATCAATAATACA
1 CTCGAAAATCAATAATACA
88507012 CTCGAAAATCAATAATACA
1 CTCGAAAATCAATAATACA
88507031 ACTTCTCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.21, G:0.05, T:0.21
Consensus pattern (19 bp):
CTCGAAAATCAATAATACA
Found at i:88522886 original size:14 final size:14
Alignment explanation
Indices: 88522867--88522897 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
88522857 CTGGCTAGCA
88522867 CCTATGCCCGAAGC
1 CCTATGCCCGAAGC
88522881 CCTATGCCCGAAGC
1 CCTATGCCCGAAGC
88522895 CCT
1 CCT
88522898 CTATCCATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.45, G:0.19, T:0.16
Consensus pattern (14 bp):
CCTATGCCCGAAGC
Found at i:88524311 original size:14 final size:16
Alignment explanation
Indices: 88524282--88524313 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
88524272 AGAGTGTTTA
88524282 AATTCATTTAAAAACC
1 AATTCATTTAAAAACC
88524298 AATTC-TTT-AAAACC
1 AATTCATTTAAAAACC
88524312 AA
1 AA
88524314 AATTGAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (16 bp):
AATTCATTTAAAAACC
Found at i:88527745 original size:38 final size:38
Alignment explanation
Indices: 88527649--88527824 Score: 160
Period size: 38 Copynumber: 4.7 Consensus size: 38
88527639 GTAAATTTTC
* * * **
88527649 AATA-CACCGGCATAAAGCCTACTAGGCACGGAGCCCG
1 AATATCACCGGCACAAAGCCTGCTAGACACATAGCCCG
* ** *
88527686 AATAACACCGAAACAAAGCCTGCTAGACACATAGCCCA
1 AATATCACCGGCACAAAGCCTGCTAGACACATAGCCCG
* *
88527724 AATATCACCGGCACAAAGCCTGCAAGA-AAATAGCCCG
1 AATATCACCGGCACAAAGCCTGCTAGACACATAGCCCG
* * *
88527761 AATATCACTGGCACAAAGCCTGCTAGGCACA-AGGCTCG
1 AATATCACCGGCACAAAGCCTGCTAGACACATA-GCCCG
* * * *
88527799 AATAACACCGGTATAATGCCTGCTAG
1 AATATCACCGGCACAAAGCCTGCTAG
88527825 GCTAAATAAC
Statistics
Matches: 112, Mismatches: 24, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
37 37 0.33
38 75 0.67
ACGTcount: A:0.37, C:0.30, G:0.20, T:0.14
Consensus pattern (38 bp):
AATATCACCGGCACAAAGCCTGCTAGACACATAGCCCG
Found at i:88527766 original size:37 final size:38
Alignment explanation
Indices: 88527680--88527783 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 38
88527670 CTAGGCACGG
* ** * *
88527680 AGCCCGAATAACACCGAAACAAAGCCTGCTAGACACAT
1 AGCCCGAATATCACCGGCACAAAGCCTGCAAGACAAAT
*
88527718 AGCCCAAATATCACCGGCACAAAGCCTGCAAGA-AAAT
1 AGCCCGAATATCACCGGCACAAAGCCTGCAAGACAAAT
*
88527755 AGCCCGAATATCACTGGCACAAAGCCTGC
1 AGCCCGAATATCACCGGCACAAAGCCTGC
88527784 TAGGCACAAG
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
37 30 0.52
38 28 0.48
ACGTcount: A:0.39, C:0.32, G:0.17, T:0.12
Consensus pattern (38 bp):
AGCCCGAATATCACCGGCACAAAGCCTGCAAGACAAAT
Found at i:88528454 original size:10 final size:10
Alignment explanation
Indices: 88528439--88528465 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
88528429 AAGGTACAGG
88528439 CTAGTTGGAC
1 CTAGTTGGAC
88528449 CTAGTTGGAC
1 CTAGTTGGAC
88528459 CTAGTTG
1 CTAGTTG
88528466 TAACGATCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.33
Consensus pattern (10 bp):
CTAGTTGGAC
Found at i:88531480 original size:26 final size:25
Alignment explanation
Indices: 88531451--88531512 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 25
88531441 ACAATATGGG
*
88531451 TTAAAAATAAT-ATTTTATATTTTTAT
1 TTAAAAATAATGA-TGT-TATTTTTAT
88531477 TT-AAAA-AATGATGTTATTTTTAT
1 TTAAAAATAATGATGTTATTTTTAT
88531500 TTAAAAAATAATG
1 TT-AAAAATAATG
88531513 GAATTATTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
23 11 0.35
24 5 0.16
25 9 0.29
26 6 0.19
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (25 bp):
TTAAAAATAATGATGTTATTTTTAT
Found at i:88531520 original size:26 final size:23
Alignment explanation
Indices: 88531468--88531512 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
88531458 TAATATTTTA
*
88531468 TATTTTTATTTAAAAAATGATGT
1 TATTTTTATTTAAAAAATAATGT
88531491 TATTTTTATTTAAAAAATAATG
1 TATTTTTATTTAAAAAATAATG
88531513 GAATTATTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (23 bp):
TATTTTTATTTAAAAAATAATGT
Found at i:88532933 original size:34 final size:34
Alignment explanation
Indices: 88532889--88533002 Score: 122
Period size: 34 Copynumber: 3.4 Consensus size: 34
88532879 ATCAAATACA
* *
88532889 TGTTAAAAGCATGATTATTGCTACCGTATTGATT
1 TGTTATAAGCATGATTATTGCTACTGTATTGATT
* * * * *
88532923 TGTTATAAGCATAATAATTGCTACTATATCGACT
1 TGTTATAAGCATGATTATTGCTACTGTATTGATT
* *
88532957 TGTTATAAGCATG-TTATTGCTATTGTATTGATC
1 TGTTATAAGCATGATTATTGCTACTGTATTGATT
* *
88532990 TATTGTAAGCATG
1 TGTTATAAGCATG
88533003 TCATGTTGCA
Statistics
Matches: 64, Mismatches: 16, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
33 25 0.39
34 39 0.61
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.42
Consensus pattern (34 bp):
TGTTATAAGCATGATTATTGCTACTGTATTGATT
Found at i:88533108 original size:48 final size:48
Alignment explanation
Indices: 88533046--88533220 Score: 230
Period size: 48 Copynumber: 3.7 Consensus size: 48
88533036 AAGGAGGAAA
*
88533046 TAGTCGGTAGTTTATCTGCATGACCAGTGGTTCATCCACAACGTATTT
1 TAGTTGGTAGTTTATCTGCATGACCAGTGGTTCATCCACAACGTATTT
* * * * *
88533094 TAGTTGGCAATTTATCTACATGACCAGTGGTTCGTCCACAATGTATTT
1 TAGTTGGTAGTTTATCTGCATGACCAGTGGTTCATCCACAACGTATTT
* *
88533142 TAGTTGGTAGTTTGTC-G--TGCCCAGTGGTTCATCCACAACGTATTT
1 TAGTTGGTAGTTTATCTGCATGACCAGTGGTTCATCCACAACGTATTT
* * *
88533187 TAGTTAGTAGTTTATCTGCACGACCAGTAGTTCA
1 TAGTTGGTAGTTTATCTGCATGACCAGTGGTTCA
88533221 CCTATAATGT
Statistics
Matches: 106, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
45 39 0.37
46 1 0.01
48 66 0.62
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (48 bp):
TAGTTGGTAGTTTATCTGCATGACCAGTGGTTCATCCACAACGTATTT
Found at i:88538518 original size:40 final size:40
Alignment explanation
Indices: 88538440--88538518 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
88538430 ACACCCCATG
* *
88538440 TGGGGATAAAATCGACCTACCCAGCCCTACATAACAAGTA
1 TGGGGATAAAATCGACCCACCCAGCCCTACACAACAAGTA
* * *
88538480 TGGGGATAAAATCGACCCATCTAGCCCTACACACCAAGT
1 TGGGGATAAAATCGACCCACCCAGCCCTACACAACAAGT
88538519 GGTACTGTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.35, C:0.29, G:0.18, T:0.18
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCACCCAGCCCTACACAACAAGTA
Found at i:88547057 original size:12 final size:12
Alignment explanation
Indices: 88547040--88547069 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
88547030 ACGTGTGTTG
88547040 CACACGACCTAC
1 CACACGACCTAC
*
88547052 CACACGGCCTAC
1 CACACGACCTAC
88547064 CACACG
1 CACACG
88547070 CCTGTATGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.50, G:0.13, T:0.07
Consensus pattern (12 bp):
CACACGACCTAC
Found at i:88548704 original size:20 final size:20
Alignment explanation
Indices: 88548679--88548719 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
88548669 CAATTAAATC
88548679 ATATAATATGAAATAGAATA
1 ATATAATATGAAATAGAATA
88548699 ATATAATATGAAATAGAATA
1 ATATAATATGAAATAGAATA
88548719 A
1 A
88548720 GGTAGGGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (20 bp):
ATATAATATGAAATAGAATA
Found at i:88551171 original size:21 final size:21
Alignment explanation
Indices: 88551147--88551190 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
88551137 CATTGCAAAA
88551147 TTTGGTTGCTAATGCCCATTT
1 TTTGGTTGCTAATGCCCATTT
88551168 TTTGGTTGCTAATGCCCATTT
1 TTTGGTTGCTAATGCCCATTT
88551189 TT
1 TT
88551191 CCAACTCGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.14, C:0.18, G:0.18, T:0.50
Consensus pattern (21 bp):
TTTGGTTGCTAATGCCCATTT
Found at i:88552303 original size:33 final size:33
Alignment explanation
Indices: 88552251--88552333 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 33
88552241 GTAATGCAAC
* * *
88552251 ATAACATGCTTACAACAAATCAATACGGTAGCA
1 ATAACATGCTTATAACAAATCAATACAGTAACA
* **
88552284 ATAACATGCTTATAGCAAATTGATACAGTAACA
1 ATAACATGCTTATAACAAATCAATACAGTAACA
*
88552317 ATTATCATGCTTATAAC
1 A-TAACATGCTTATAAC
88552334 GGATCATCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
33 28 0.68
34 13 0.32
ACGTcount: A:0.43, C:0.18, G:0.11, T:0.28
Consensus pattern (33 bp):
ATAACATGCTTATAACAAATCAATACAGTAACA
Found at i:88554429 original size:21 final size:21
Alignment explanation
Indices: 88554382--88554430 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
88554372 GGGATGCACA
*
88554382 TTCGTGTGGCTAAGGTATATG
1 TTCGTGTGGCTAAGGTACATG
**
88554403 GCCGTGTGGCTGAA-GTACATG
1 TTCGTGTGGCT-AAGGTACATG
88554424 TTCGTGT
1 TTCGTGT
88554431 AGACAGATCG
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.16, C:0.14, G:0.35, T:0.35
Consensus pattern (21 bp):
TTCGTGTGGCTAAGGTACATG
Found at i:88581484 original size:16 final size:15
Alignment explanation
Indices: 88581465--88581503 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 15
88581455 CCAACCTTAA
88581465 TTTTATATTTATAATT
1 TTTTATATTTA-AATT
88581481 TTTTAATATTTAAATT
1 TTTT-ATATTTAAATT
88581497 TATTTAT
1 T-TTTAT
88581504 TATTGTATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTATATTTAAATT
Found at i:88581491 original size:17 final size:16
Alignment explanation
Indices: 88581465--88581507 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
88581455 CCAACCTTAA
88581465 TTTT-ATATTTATAATT
1 TTTTAATATTTA-AATT
88581481 TTTTAATATTTAAATT
1 TTTTAATATTTAAATT
*
88581497 TATTTATTATT
1 T-TTTAATATT
88581508 GTATGTGTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 9 0.38
17 15 0.62
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTAATATTTAAATT
Found at i:88594242 original size:24 final size:25
Alignment explanation
Indices: 88594214--88594261 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
88594204 TATTTAATAT
* *
88594214 ATATAATATATTA-TTATAATAAAA
1 ATATAATATAATAGTTAAAATAAAA
88594238 ATATAATATAATAGTTAAAATAAA
1 ATATAATATAATAGTTAAAATAAA
88594262 TAAAAGAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (25 bp):
ATATAATATAATAGTTAAAATAAAA
Found at i:88594275 original size:18 final size:17
Alignment explanation
Indices: 88594254--88594287 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
88594244 TATAATAGTT
88594254 AAAATAAATAAAAGAAAC
1 AAAATAAA-AAAAGAAAC
*
88594272 AAAATAGAAAAAGAAA
1 AAAATAAAAAAAGAAA
88594288 TAGCAGGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.79, C:0.03, G:0.09, T:0.09
Consensus pattern (17 bp):
AAAATAAAAAAAGAAAC
Found at i:88595861 original size:40 final size:40
Alignment explanation
Indices: 88595816--88595895 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
88595806 TGGTTGAAAG
88595816 ATTGTATTTTAAATTGCTTGCTATTCAAGGTGTGCAGGGT
1 ATTGTATTTTAAATTGCTTGCTATTCAAGGTGTGCAGGGT
*
88595856 ATTGTATTTTAAATTGCTTGCTATTTAAGGTGTGCAGGGT
1 ATTGTATTTTAAATTGCTTGCTATTCAAGGTGTGCAGGGT
88595896 TGCACACAGC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.23, C:0.09, G:0.25, T:0.44
Consensus pattern (40 bp):
ATTGTATTTTAAATTGCTTGCTATTCAAGGTGTGCAGGGT
Found at i:88598103 original size:14 final size:15
Alignment explanation
Indices: 88598069--88598104 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
88598059 TTCCCATTTC
88598069 TTTA-TTTAGCTTTA
1 TTTATTTTAGCTTTA
88598083 TTT-TTTTAG-TTTA
1 TTTATTTTAGCTTTA
88598096 TTTATTTTA
1 TTTATTTTA
88598105 TCATGGGCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 7 0.35
14 13 0.65
ACGTcount: A:0.19, C:0.03, G:0.06, T:0.72
Consensus pattern (15 bp):
TTTATTTTAGCTTTA
Found at i:88598130 original size:19 final size:19
Alignment explanation
Indices: 88598108--88598146 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
88598098 TATTTTATCA
88598108 TGGGCCATTTACT-CTTTTT
1 TGGGCCATTT-CTCCTTTTT
*
88598127 TGGGCCGTTTCTCCTTTTT
1 TGGGCCATTTCTCCTTTTT
88598146 T
1 T
88598147 ATTAATTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.05, C:0.23, G:0.18, T:0.54
Consensus pattern (19 bp):
TGGGCCATTTCTCCTTTTT
Found at i:88599096 original size:13 final size:12
Alignment explanation
Indices: 88599072--88599105 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
88599062 TGTTTAATTA
88599072 TATTAAGATAAT
1 TATTAAGATAAT
88599084 TATTAAGGATAAT
1 TATTAA-GATAAT
*
88599097 TATTTAGAT
1 TATTAAGAT
88599106 TTAAATTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (12 bp):
TATTAAGATAAT
Found at i:88599132 original size:10 final size:10
Alignment explanation
Indices: 88599117--88599178 Score: 61
Period size: 10 Copynumber: 6.1 Consensus size: 10
88599107 TAAATTTAGG
88599117 ATTTATTTTT
1 ATTTATTTTT
*
88599127 ATTTATCTTT
1 ATTTATTTTT
* *
88599137 AATTATGTTT
1 ATTTATTTTT
* *
88599147 AATTATCTTT
1 ATTTATTTTT
*
88599157 ATTTATTTGT
1 ATTTATTTTT
88599167 ATTTATCTTTT
1 ATTTAT-TTTT
88599178 A
1 A
88599179 GAATTTAATT
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
10 39 0.91
11 4 0.09
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:88599147 original size:20 final size:19
Alignment explanation
Indices: 88599123--88599176 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
88599113 TAGGATTTAT
88599123 TTTTATTTATCTTTAATTA
1 TTTTATTTATCTTTAATTA
* *
88599142 TGTTTAATTATCTTTATTTA
1 T-TTTATTTATCTTTAATTA
88599162 TTTGTATTTATCTTT
1 TTT-TATTTATCTTT
88599177 TAGAATTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 3 0.10
20 27 0.90
ACGTcount: A:0.22, C:0.06, G:0.04, T:0.69
Consensus pattern (19 bp):
TTTTATTTATCTTTAATTA
Found at i:88603000 original size:28 final size:28
Alignment explanation
Indices: 88602931--88603000 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
88602921 TTTTTCTTAA
* * *
88602931 TTATTTTTTTGTTCCATTTTATTAGTAT
1 TTATTATTTTATTTCATTTTATTAGTAT
88602959 TTATTATTTTATTTCATTTTATTAGTAT
1 TTATTATTTTATTTCATTTTATTAGTAT
88602987 TTATTATTTTATTT
1 TTATTATTTTATTT
88603001 TATTATTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.70
Consensus pattern (28 bp):
TTATTATTTTATTTCATTTTATTAGTAT
Found at i:88603007 original size:20 final size:20
Alignment explanation
Indices: 88602958--88603021 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 20
88602948 TTTATTAGTA
88602958 TTTATTATTTTATTTCATTTTA-
1 TTTATTA-TTTA-TT-ATTTTAT
*
88602980 -TTAGTATTTATTATTTTAT
1 TTTATTATTTATTATTTTAT
*
88602999 TTTATTATTTATTACTTTAT
1 TTTATTATTTATTATTTTAT
88603019 TTT
1 TTT
88603022 TGGATATTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
18 6 0.16
19 2 0.05
20 24 0.65
21 5 0.14
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.72
Consensus pattern (20 bp):
TTTATTATTTATTATTTTAT
Found at i:88603017 original size:28 final size:28
Alignment explanation
Indices: 88602931--88603019 Score: 99
Period size: 28 Copynumber: 3.2 Consensus size: 28
88602921 TTTTTCTTAA
* * * *
88602931 TTATTTTTTTGTTCCATTTTATTAGTAT
1 TTATTATTTTATTTCATTATATTAGTAT
*
88602959 TTATTATTTTATTTCATTTTATTAGTAT
1 TTATTATTTTATTTCATTATATTAGTAT
* *
88602987 TTATTATTTTATTTTATTAT-TTATTACT
1 TTATTATTTTATTTCATTATATTAGTA-T
88603015 TTATT
1 TTATT
88603020 TTTGGATATT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 5 0.09
28 49 0.91
ACGTcount: A:0.22, C:0.04, G:0.03, T:0.70
Consensus pattern (28 bp):
TTATTATTTTATTTCATTATATTAGTAT
Found at i:88604586 original size:17 final size:17
Alignment explanation
Indices: 88604564--88604598 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
88604554 TTTTAGGGAC
*
88604564 TAAATTGAAGGCAAAAG
1 TAAATTGAAGGAAAAAG
*
88604581 TAAATTTAAGGAAAAAG
1 TAAATTGAAGGAAAAAG
88604598 T
1 T
88604599 GTAAATTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.20, T:0.23
Consensus pattern (17 bp):
TAAATTGAAGGAAAAAG
Found at i:88604754 original size:12 final size:12
Alignment explanation
Indices: 88604737--88604770 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
88604727 TGTTTAATTA
88604737 TATTAAGATAAT
1 TATTAAGATAAT
88604749 TATTAAAGATAAT
1 TATT-AAGATAAT
*
88604762 TATTTAGAT
1 TATTAAGAT
88604771 TTAAATTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.47, C:0.00, G:0.09, T:0.44
Consensus pattern (12 bp):
TATTAAGATAAT
Found at i:88604759 original size:13 final size:13
Alignment explanation
Indices: 88604731--88604765 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
88604721 ATTTAATGTT
*
88604731 TAATTATATTAAGA
1 TAATTAT-TAAAGA
88604745 TAATTATTAAAGA
1 TAATTATTAAAGA
88604758 TAATTATT
1 TAATTATT
88604766 TAGATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.46
Consensus pattern (13 bp):
TAATTATTAAAGA
Found at i:88604797 original size:10 final size:10
Alignment explanation
Indices: 88604782--88604833 Score: 59
Period size: 10 Copynumber: 5.1 Consensus size: 10
88604772 TAAATTTAGG
88604782 ATTTATTTTT
1 ATTTATTTTT
*
88604792 ATTTATCTTT
1 ATTTATTTTT
* *
88604802 AATTATCTTT
1 ATTTATTTTT
*
88604812 ATTTATTTGT
1 ATTTATTTTT
88604822 ATTTATCTTTT
1 ATTTAT-TTTT
88604833 A
1 A
88604834 GAATTTAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
10 31 0.89
11 4 0.11
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:88608751 original size:13 final size:13
Alignment explanation
Indices: 88608728--88608772 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
88608718 ATGAAAAGTG
*
88608728 TATACATAATA-A
1 TATAAATAATATA
88608740 TACTAAATAATATA
1 TA-TAAATAATATA
*
88608754 TATAGATAATATA
1 TATAAATAATATA
88608767 TATAAA
1 TATAAA
88608773 ATGAACATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 2 0.07
13 23 0.82
14 3 0.11
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (13 bp):
TATAAATAATATA
Found at i:88608891 original size:22 final size:22
Alignment explanation
Indices: 88608863--88608908 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
88608853 TATATATATG
88608863 TATTAAAA-TAAATACATAATAA
1 TATTAAAAGTAAATACATAA-AA
*
88608885 TATTAAAAGTATATACATAAAA
1 TATTAAAAGTAAATACATAAAA
88608907 TA
1 TA
88608909 GTTATTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (22 bp):
TATTAAAAGTAAATACATAAAA
Found at i:88608920 original size:23 final size:22
Alignment explanation
Indices: 88608863--88608922 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 22
88608853 TATATATATG
*
88608863 TATTAAAATAAATACATAATAA
1 TATTAAAATATATACATAATAA
88608885 TATTAAAAGTATATACATAA-AA
1 TATTAAAA-TATATACATAATAA
*
88608907 TAGTTATTAATATATA
1 TA-TTA-AAATATATA
88608923 TATACATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
22 12 0.36
23 19 0.58
24 2 0.06
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (22 bp):
TATTAAAATATATACATAATAA
Found at i:88609031 original size:3 final size:3
Alignment explanation
Indices: 88609023--88609064 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
88609013 AAACATATAC
* *
88609023 TAA TAA TAA TTA TTA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
88609065 GATGTATGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:88609314 original size:32 final size:34
Alignment explanation
Indices: 88609254--88609323 Score: 83
Period size: 32 Copynumber: 2.1 Consensus size: 34
88609244 GATAAAATAG
* *
88609254 ATATAATAATATATACATAATATGGTATT-AA-A
1 ATATAATAATATATACATAACATAGTATTCAAGA
*
88609286 ATAT-ATATATATATATATAACATAGTATTCAAGA
1 ATATAATA-ATATATACATAACATAGTATTCAAGA
88609320 ATAT
1 ATAT
88609324 GTACATGAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
31 3 0.09
32 22 0.69
33 2 0.06
34 5 0.16
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (34 bp):
ATATAATAATATATACATAACATAGTATTCAAGA
Found at i:88609404 original size:9 final size:10
Alignment explanation
Indices: 88609390--88609432 Score: 54
Period size: 9 Copynumber: 4.4 Consensus size: 10
88609380 TAACATTAAA
88609390 ATATATA-AT
1 ATATATACAT
*
88609399 ATATATACAAA
1 ATATATAC-AT
88609410 ATATATACA-
1 ATATATACAT
88609419 ATATATACAT
1 ATATATACAT
88609429 ATAT
1 ATAT
88609433 TTAGAAATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
9 16 0.53
10 5 0.17
11 9 0.30
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (10 bp):
ATATATACAT
Found at i:88609404 original size:11 final size:11
Alignment explanation
Indices: 88609390--88609425 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
88609380 TAACATTAAA
*
88609390 ATATATAATAT
1 ATATACAATAT
*
88609401 ATATACAAAAT
1 ATATACAATAT
88609412 ATATACAATAT
1 ATATACAATAT
88609423 ATA
1 ATA
88609426 CATATATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (11 bp):
ATATACAATAT
Found at i:88609410 original size:20 final size:20
Alignment explanation
Indices: 88609387--88609427 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
88609377 AAATAACATT
88609387 AAAATATATA-ATATATATAC
1 AAAATATATACA-ATATATAC
88609407 AAAATATATACAATATATAC
1 AAAATATATACAATATATAC
88609427 A
1 A
88609428 TATATTTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAATATATACAATATATAC
Found at i:88609606 original size:38 final size:38
Alignment explanation
Indices: 88609573--88609657 Score: 118
Period size: 38 Copynumber: 2.2 Consensus size: 38
88609563 TATATAACTA
*
88609573 ATAATATTAAAATATATACATA-ATAATATATATAAAAT
1 ATAATATTAAAA-ACATACATACATAATATATATAAAAT
*
88609611 ATAATATTAAAAACATATATACATAATATATATGAAAAT
1 ATAATATTAAAAACATACATACATAATATATAT-AAAAT
88609650 ATATATAT
1 ATA-ATAT
88609658 AATATAATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
37 7 0.17
38 23 0.55
39 8 0.19
40 4 0.10
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (38 bp):
ATAATATTAAAAACATACATACATAATATATATAAAAT
Found at i:88609608 original size:25 final size:24
Alignment explanation
Indices: 88609554--88609689 Score: 93
Period size: 25 Copynumber: 5.5 Consensus size: 24
88609544 CATATAATAG
*
88609554 TATAAAAGATAT-ATAACTAATA-A
1 TATAAAATATATAATAA-TAATATA
88609577 TATTAAAATATATACATAATAATATA
1 TA-TAAAATATATA-ATAATAATATA
* * *
88609603 TATAAAATATAATATTAAAAACATA
1 TATAAAATAT-ATAATAATAATATA
88609628 TATACATAATATAT-ATGAA-AATATA
1 TATA-A-AATATATAAT-AATAATATA
* *
88609653 TATATAATATAATATTAA-AATATTA
1 TATAAAATAT-ATAATAATAATA-TA
*
88609678 TATAATATATAT
1 TATAAAATATAT
88609690 TTATTAGGAA
Statistics
Matches: 92, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
23 7 0.08
24 19 0.21
25 46 0.50
26 15 0.16
27 5 0.05
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (24 bp):
TATAAAATATATAATAATAATATA
Found at i:88609680 original size:50 final size:48
Alignment explanation
Indices: 88609583--88609689 Score: 137
Period size: 50 Copynumber: 2.2 Consensus size: 48
88609573 ATAATATTAA
*
88609583 AATATATACAT-AATAATATATATAAAATATAATATTAAAAACATATAT
1 AATATATATATGAA-AATATATATAAAATATAATATTAAAAACATATAT
* *
88609631 ACATAATATATATGAAAATATATATATAATATAATATTAAAATA-TTATAT
1 A-AT-ATATATATGAAAATATATATAAAATATAATATTAAAA-ACATATAT
88609681 AATATATAT
1 AATATATAT
88609690 TTATTAGGAA
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
48 7 0.13
49 4 0.08
50 38 0.73
51 3 0.06
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (48 bp):
AATATATATATGAAAATATATATAAAATATAATATTAAAAACATATAT
Found at i:88609759 original size:18 final size:19
Alignment explanation
Indices: 88609730--88609767 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
88609720 TGCTACATAA
88609730 ATATATTAAAAAAATATAC
1 ATATATTAAAAAAATATAC
88609749 ATATA-TAAAAAAATATAC
1 ATATATTAAAAAAATATAC
88609767 A
1 A
88609768 CTAATATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (19 bp):
ATATATTAAAAAAATATAC
Done.