Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 20 of 259
Found at i:5542948 original size:30 final size:31
Alignment explanation
Indices: 5542880--5542960 Score: 121
Period size: 31 Copynumber: 2.6 Consensus size: 31
5542870 AATTCTGTTA
*
5542880 CTGATTCTGATTCTGATTCTGTCACCTAATT
1 CTGATTCTGATTCTGATTCTGTCACATAATT
*
5542911 CTGATTCTGATTCTGATTCTGTTA-ATAATAT
1 CTGATTCTGATTCTGATTCTGTCACATAAT-T
5542942 -TGATTCTGATTCTGATTCT
1 CTGATTCTGATTCTGATTCT
5542961 AATTCTGATT
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
30 23 0.49
31 24 0.51
ACGTcount: A:0.21, C:0.17, G:0.14, T:0.48
Consensus pattern (31 bp):
CTGATTCTGATTCTGATTCTGTCACATAATT
Found at i:5544963 original size:27 final size:27
Alignment explanation
Indices: 5544933--5545530 Score: 740
Period size: 27 Copynumber: 22.2 Consensus size: 27
5544923 AAAGTATTCC
**
5544933 CGATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
5544960 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** *
5544987 CAATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5545014 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5545041 CAGA-TTACAGAATTACCGTTTTACCAT
1 C-GATTTACAGAATTACCGTTTTACCCT
*
5545068 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** * *
5545095 TGATTTTTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
5545122 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
5545149 C-AGTTTACAAAATTACCATTTTACCAT
1 CGA-TTTACAGAATTACCGTTTTACCCT
5545176 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
5545203 CGATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
5545230 GGATTTACAGAATTACCGTTTTACCTT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
5545257 C-AGTTAACAGAATTACCGTTTTACCAT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
5545284 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
5545311 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
5545338 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
5545365 CAATTTACAGAATTACTG-TTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5545391 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
5545418 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
5545445 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
5545472 C-AGTTTACAAAATTATCGTTTTATCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
5545499 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5545526 TGATT
1 CGATT
5545531 GTGAAATTAC
Statistics
Matches: 487, Mismatches: 73, Indels: 22
0.84 0.13 0.04
Matches are distributed among these distances:
26 31 0.06
27 450 0.92
28 6 0.01
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:5545078 original size:108 final size:108
Alignment explanation
Indices: 5544937--5545530 Score: 840
Period size: 108 Copynumber: 5.5 Consensus size: 108
5544927 TATTCCCGAT
** * *
5544937 TTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTTTAAAATTA
1 TTACAGAATTACCGTTTTACCATCGATTTACAGAATTACCGTTTTACCCTCGATTTTTAAAATTA
*
5545002 CCGTTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCAGA
66 CCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGA
* *
5545045 TTACAGAATTACCGTTTTACCATCGATTTACAGAATTACTGTTTTACCCTTGATTTTTAAAATTA
1 TTACAGAATTACCGTTTTACCATCGATTTACAGAATTACCGTTTTACCCTCGATTTTTAAAATTA
* *
5545110 CCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGT
66 CCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGA
* *
5545153 TTACAAAATTACCATTTTACCATCGATTTACAGAATTACCGTTTTACCCTCGATTTTTAAAATTA
1 TTACAGAATTACCGTTTTACCATCGATTTACAGAATTACCGTTTTACCCTCGATTTTTAAAATTA
* *
5545218 CCGTTTTACCCTGGATTTACAGAATTACCGTTTTACCTTCAG-
66 CCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGA
* *
5545260 TTAACAGAATTACCGTTTTACCATCGATTTACAGAATTACTGTTTTACCCTC-A-GTTTACAGAA
1 TT-ACAGAATTACCGTTTTACCATCGATTTACAGAATTACCGTTTTACCCTCGATTTTTA-A-AA
**
5545323 TTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCA-A
63 TTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGA
* * * *
5545368 TTTACAGAATTACTG-TTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTGTAAAATT
1 -TTACAGAATTACCGTTTTACCATCGATTTACAGAATTACCGTTTTACCCTCGATTTTTAAAATT
* * * *
5545432 ACCGTTTTACCCTTGATTTACAGAATTACTGGTTTACCCTCAGT
65 ACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGA
* * * *
5545476 TTACAAAATTATCGTTTTATCC-TCGATTTACAGAATTACCATTTTACCCTTGATT
1 TTACAGAATTACCGTTTTA-CCATCGATTTACAGAATTACCGTTTTACCCTCGATT
5545531 GTGAAATTAC
Statistics
Matches: 436, Mismatches: 40, Indels: 20
0.88 0.08 0.04
Matches are distributed among these distances:
106 4 0.01
107 91 0.21
108 334 0.77
109 7 0.02
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.40
Consensus pattern (108 bp):
TTACAGAATTACCGTTTTACCATCGATTTACAGAATTACCGTTTTACCCTCGATTTTTAAAATTA
CCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGA
Found at i:5545715 original size:27 final size:27
Alignment explanation
Indices: 5545535--5545729 Score: 223
Period size: 27 Copynumber: 7.2 Consensus size: 27
5545525 TTGATTGTGA
*
5545535 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * * *
5545562 AATTTCTGAAATACCCCTATAGTGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
5545589 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCTTGTAGGGTAG
** *
5545616 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
5545643 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAG
* * *
5545670 AAATACCGAAATACTCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
5545697 AATTACTGAGATACCCTTGT-GAGGTAA
1 AATTACTGAAATACCCTTGTAG-GGTAG
5545724 AATTAC
1 AATTAC
5545730 CATTTTCCCC
Statistics
Matches: 142, Mismatches: 23, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
26 1 0.01
27 141 0.99
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGTAGGGTAG
Found at i:5545966 original size:27 final size:26
Alignment explanation
Indices: 5545928--5546014 Score: 102
Period size: 27 Copynumber: 3.3 Consensus size: 26
5545918 CGGAGAAAGC
5545928 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
5545955 GTTCTGGTGGCTGTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * ** *
5545981 GTATCTGGTGACTCTATCACGATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
5546008 GTTCTGG
1 GTTCTGG
5546015 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 14 0.26
27 39 0.74
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:5546141 original size:6 final size:6
Alignment explanation
Indices: 5546132--5546254 Score: 103
Period size: 6 Copynumber: 20.2 Consensus size: 6
5546122 TTGCATTCAC
* * * *
5546132 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG AT--TCTG
*
5546182 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG
5546230 ATTCTG ATTCTG -TTACTG ATTCTG A
1 ATTCTG ATTCTG ATT-CTG ATTCTG A
5546255 GTCTCATTTT
Statistics
Matches: 95, Mismatches: 10, Indels: 24
0.74 0.08 0.19
Matches are distributed among these distances:
5 7 0.07
6 78 0.82
7 7 0.07
8 3 0.03
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:5546160 original size:25 final size:25
Alignment explanation
Indices: 5546132--5546199 Score: 127
Period size: 25 Copynumber: 2.7 Consensus size: 25
5546122 TTGCATTCAC
*
5546132 ATTCTGATTCTGATTCTGTCACGTA
1 ATTCTGATTCTGATTCTGTCACCTA
5546157 ATTCTGATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTCACCTA
5546182 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
5546200 ATTCTGTTAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTA
Found at i:5546220 original size:30 final size:31
Alignment explanation
Indices: 5546157--5546235 Score: 126
Period size: 30 Copynumber: 2.6 Consensus size: 31
5546147 CTGTCACGTA
5546157 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAATTCTG
*
5546188 ATTCTGATTCTGATTCTGTTA-CTAATAT-TG
1 ATTCTGATTCTGATTCTGTCACCTAAT-TCTG
5546218 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
5546236 ATTCTGTTAC
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
30 25 0.54
31 21 0.46
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTG
Found at i:5548221 original size:27 final size:27
Alignment explanation
Indices: 5548191--5548787 Score: 742
Period size: 27 Copynumber: 22.2 Consensus size: 27
5548181 AAAGTATTCC
**
5548191 CGATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
5548218 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
5548245 C-ATTTTTTAAAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
5548272 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5548299 CAGA-TTACAGAATTACCGTTTTACCAT
1 C-GATTTACAGAATTACCGTTTTACCCT
5548326 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** * *
5548353 TGATTTTTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
5548380 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
5548407 C-AGTTTACAAAATTACCATTTTACCAT
1 CGA-TTTACAGAATTACCGTTTTACCCT
5548434 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
5548461 CGATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
5548488 GGATTTACAGAATTACCGTTTTACCTT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
5548515 C-AGTTAACAGAATTACCGTTTTACCAT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
5548542 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
5548569 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
5548596 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
5548623 CAATTTACAGAA-TACTG-TTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
5548648 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
5548675 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
5548702 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
5548729 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
5548756 CGATTTACAGAATTAGCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5548783 TGATT
1 CGATT
5548788 GTGAAATTAC
Statistics
Matches: 489, Mismatches: 67, Indels: 28
0.84 0.11 0.05
Matches are distributed among these distances:
25 19 0.04
26 15 0.03
27 448 0.92
28 7 0.01
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:5548336 original size:108 final size:107
Alignment explanation
Indices: 5548195--5548782 Score: 826
Period size: 108 Copynumber: 5.5 Consensus size: 107
5548185 TATTCCCGAT
** *
5548195 TTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCATTTTTTAAAATTA
1 TTACAGAATTACCGTTTTACCATCGATTTACAGAATTACCGTTTTACCCTCA-TTTTTAAAATTA
*
5548260 CCGTTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCAGA
65 CCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGA
*
5548303 TTACAGAATTACCGTTTTACCATCGATTTACAGAATTACCGTTTTACCCTTGATTTTTAAAATTA
1 TTACAGAATTACCGTTTTACCATCGATTTACAGAATTACCGTTTTACCC-TCATTTTTAAAATTA
* *
5548368 CCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGT
65 CCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGA
* *
5548411 TTACAAAATTACCATTTTACCATCGATTTACAGAATTACCGTTTTACCCTCGATTTTTAAAATTA
1 TTACAGAATTACCGTTTTACCATCGATTTACAGAATTACCGTTTTACCCTC-ATTTTTAAAATTA
* *
5548476 CCGTTTTACCCTGGATTTACAGAATTACCGTTTTACCTTCAG-
65 CCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGA
* *
5548518 TTAACAGAATTACCGTTTTACCATCGATTTACAGAATTACTGTTTTACCCTCA-GTTTACAGAAT
1 TT-ACAGAATTACCGTTTTACCATCGATTTACAGAATTACCGTTTTACCCTCATTTTTA-A-AAT
**
5548582 TACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCA-A
63 TACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGA
* * *
5548626 TTTACAGAA-TACTG-TTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTGTAAAATT
1 -TTACAGAATTACCGTTTTACCATCGATTTACAGAATTACCGTTTTACCCTC-ATTTTTAAAATT
* * * *
5548689 ACCGTTTTACCCTTGATTTACAGAATTACTGGTTTACCCTCAGT
64 ACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGA
* * * * *
5548733 TTACAAAATTATCGTTTTACCCTCGATTTACAGAATTAGCATTTTACCCT
1 TTACAGAATTACCGTTTTACCATCGATTTACAGAATTACCGTTTTACCCT
5548783 TGATTGTGAA
Statistics
Matches: 431, Mismatches: 37, Indels: 24
0.88 0.08 0.05
Matches are distributed among these distances:
106 86 0.20
107 14 0.03
108 327 0.76
109 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.39
Consensus pattern (107 bp):
TTACAGAATTACCGTTTTACCATCGATTTACAGAATTACCGTTTTACCCTCATTTTTAAAATTAC
CGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGA
Found at i:5548972 original size:27 final size:27
Alignment explanation
Indices: 5548792--5548986 Score: 223
Period size: 27 Copynumber: 7.2 Consensus size: 27
5548782 TTGATTGTGA
*
5548792 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * * *
5548819 AATTTCTGAAATACCCCTATAGTGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
5548846 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCTTGTAGGGTAG
** *
5548873 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
5548900 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAG
* * *
5548927 AAATACCGAAATACTCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
5548954 AATTACTGAGATACCCTTGT-GAGGTAA
1 AATTACTGAAATACCCTTGTAG-GGTAG
5548981 AATTAC
1 AATTAC
5548987 CATTTTCCCC
Statistics
Matches: 142, Mismatches: 23, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
26 1 0.01
27 141 0.99
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGTAGGGTAG
Found at i:5549224 original size:27 final size:26
Alignment explanation
Indices: 5549186--5549271 Score: 109
Period size: 27 Copynumber: 3.2 Consensus size: 26
5549176 CGGAGGAAGC
5549186 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
5549213 GTTCTGGTGGCTGTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * * *
5549239 GTATCTGGTGACTCTGTCACGATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
5549266 GTTCTG
1 GTTCTG
5549272 ACAGCCATGC
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
26 13 0.25
27 40 0.75
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:5549399 original size:6 final size:6
Alignment explanation
Indices: 5549390--5549518 Score: 115
Period size: 6 Copynumber: 21.2 Consensus size: 6
5549380 TTGCATTCAC
* * * *
5549390 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG AT--TCTG
*
5549440 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG
5549488 ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG A
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG A
5549519 GTCTCATTTT
Statistics
Matches: 101, Mismatches: 10, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
5 7 0.07
6 84 0.83
7 7 0.07
8 3 0.03
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:5549418 original size:25 final size:25
Alignment explanation
Indices: 5549390--5549457 Score: 127
Period size: 25 Copynumber: 2.7 Consensus size: 25
5549380 TTGCATTCAC
*
5549390 ATTCTGATTCTGATTCTGTCACGTA
1 ATTCTGATTCTGATTCTGTCACCTA
5549415 ATTCTGATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTCACCTA
5549440 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
5549458 ATTCTGTTAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTA
Found at i:5551487 original size:27 final size:27
Alignment explanation
Indices: 5551457--5552050 Score: 695
Period size: 27 Copynumber: 22.2 Consensus size: 27
5551447 AAAGTATTCC
**
5551457 CGATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
5551484 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** *
5551511 CAATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5551538 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
5551565 C-AGTTTACAGAATTACCATTTTACCAT
1 CGA-TTTACAGAATTACCGTTTTACCCT
5551592 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** * *
5551619 TGATTTTTAAAATTACC-ATTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
5551645 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
5551672 C-AGTTTACAAAATTACCATTTTACCAT
1 CGA-TTTACAGAATTACCGTTTTACCCT
5551699 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** *
5551726 CAATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
5551753 GGATTTACAGAATTACCGTTTTACCTT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
5551780 C-AGTTAACAGAATTACCGTTTTACCAT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
5551807 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
5551834 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
5551861 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
5551888 CAATTTACAGAATTA-C-TGTTA-CCT
1 CGATTTACAGAATTACCGTTTTACCCT
5551912 CGATTTACAGAATTACCG-TTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
5551938 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
5551965 TGATTTATAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
5551992 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
5552019 CGATTTACAGAATTAGCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5552046 TGATT
1 CGATT
5552051 GTGAAATTAC
Statistics
Matches: 479, Mismatches: 73, Indels: 30
0.82 0.13 0.05
Matches are distributed among these distances:
24 17 0.04
25 8 0.02
26 45 0.09
27 404 0.84
28 5 0.01
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:5552235 original size:27 final size:27
Alignment explanation
Indices: 5552055--5552249 Score: 223
Period size: 27 Copynumber: 7.2 Consensus size: 27
5552045 TTGATTGTGA
*
5552055 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * * *
5552082 AATTTCTGAAATACCCCTATAGTGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
5552109 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCTTGTAGGGTAG
** *
5552136 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
5552163 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAG
* * *
5552190 AAATACCGAAATACTCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
5552217 AATTACTGAGATACCCTTGT-GAGGTAA
1 AATTACTGAAATACCCTTGTAG-GGTAG
5552244 AATTAC
1 AATTAC
5552250 CATTTTCCCC
Statistics
Matches: 142, Mismatches: 23, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
26 1 0.01
27 141 0.99
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGTAGGGTAG
Found at i:5552487 original size:27 final size:26
Alignment explanation
Indices: 5552449--5552534 Score: 109
Period size: 27 Copynumber: 3.2 Consensus size: 26
5552439 CGGAGGAAGC
5552449 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
5552476 GTTCTGGTGGCTGTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * * *
5552502 GTATCTGGTGACTCTGTCACGATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
5552529 GTTCTG
1 GTTCTG
5552535 ACAGCCATGC
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
26 13 0.25
27 40 0.75
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:5552662 original size:6 final size:6
Alignment explanation
Indices: 5552653--5552775 Score: 103
Period size: 6 Copynumber: 20.2 Consensus size: 6
5552643 TTGCATTCAC
* * * *
5552653 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG AT--TCTG
*
5552703 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG
5552751 ATTCTG ATTCTG -TTACTG ATTCTG A
1 ATTCTG ATTCTG ATT-CTG ATTCTG A
5552776 GTCTCATTTT
Statistics
Matches: 95, Mismatches: 10, Indels: 24
0.74 0.08 0.19
Matches are distributed among these distances:
5 7 0.07
6 78 0.82
7 7 0.07
8 3 0.03
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:5552681 original size:25 final size:25
Alignment explanation
Indices: 5552653--5552720 Score: 127
Period size: 25 Copynumber: 2.7 Consensus size: 25
5552643 TTGCATTCAC
*
5552653 ATTCTGATTCTGATTCTGTCACGTA
1 ATTCTGATTCTGATTCTGTCACCTA
5552678 ATTCTGATTCTGATTCTGTCACCTA
1 ATTCTGATTCTGATTCTGTCACCTA
5552703 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
5552721 ATTCTGTTAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTCACCTA
Found at i:5552741 original size:30 final size:31
Alignment explanation
Indices: 5552678--5552756 Score: 126
Period size: 30 Copynumber: 2.6 Consensus size: 31
5552668 CTGTCACGTA
5552678 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTCACCTAATTCTG
*
5552709 ATTCTGATTCTGATTCTGTTA-CTAATAT-TG
1 ATTCTGATTCTGATTCTGTCACCTAAT-TCTG
5552739 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
5552757 ATTCTGTTAC
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
30 25 0.54
31 21 0.46
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTG
Found at i:5554745 original size:27 final size:27
Alignment explanation
Indices: 5554715--5555256 Score: 702
Period size: 27 Copynumber: 20.2 Consensus size: 27
5554705 AAAGTATTCC
*
5554715 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
5554742 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
5554769 CGATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
5554796 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** * *
5554823 TGATTTTTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5554850 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
5554877 C-AGTTTACAAAATTACC-ATTTACCAT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
5554903 TGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
5554930 CGATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5554957 CGATTTACAGAATTACCGTTTTACCTT
1 CGATTTACAGAATTACCGTTTTACCCT
5554984 C-AGTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
5555011 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
5555038 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
5555065 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
5555092 CAATTTACAGAATTACTG-TTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
5555118 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
5555145 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
5555172 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
5555199 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
5555226 CGATTTACAGAATTACC-ATTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
5555252 TGATT
1 CGATT
5555257 GTGAAATTAC
Statistics
Matches: 447, Mismatches: 58, Indels: 21
0.85 0.11 0.04
Matches are distributed among these distances:
26 60 0.13
27 384 0.86
28 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:5554950 original size:161 final size:161
Alignment explanation
Indices: 5554734--5555256 Score: 784
Period size: 161 Copynumber: 3.2 Consensus size: 161
5554724 GAATTACTGT
5554734 TTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTTTAAAATTACCGTTTTACCCTCGA
1 TTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTTTAAAATTACCGTTTTACCCTCGA
*
5554799 TTTACAGAATTACCGTTTTACCCTTGATTTTTAAAATTACCATTTTACCCTCGATTTACAGAATT
66 TTTACAGAATTACCGTTTTACCCTTGATTTTTAAAATTACCGTTTTACCCTCGATTTACAGAATT
**
5554864 ACCATTTTACCCTCAGTTTACAAAATTACCA
131 ACTGTTTTACCCTCAGTTTACAAAATTACCA
* *
5554895 TTTACCATTGATTTACAGAATTACCGTTTTACCCTCGATTTTTAAAATTACCGTTTTACCCTCGA
1 TTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTTTAAAATTACCGTTTTACCCTCGA
* *
5554960 TTTACAGAATTACCGTTTTA-CCTTCA-GTTTACAGAATTACCGTTTTACCCTCGATTTACAGAA
66 TTTACAGAATTACCGTTTTACCCTTGATTTTTA-A-AATTACCGTTTTACCCTCGATTTACAGAA
* *
5555023 TTACTGTTTTACCCTCAGTTTACAGAATTACTA
129 TTACTGTTTTACCCTCAGTTTACAAAATTACCA
* ** * *
5555056 TTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTACAGAATTACTG-TTTACCCTCG
1 -TTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTTTAAAATTACCGTTTTACCCTCG
* * *
5555120 ATTTACAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTTGATTTACAGAAT
65 ATTTACAGAATTACCGTTTTACCCTTGATTTTTAAAATTACCGTTTTACCCTCGATTTACAGAAT
* **
5555185 TACTGGTTTACCCTCAGTTTACAAAATTATCGT
130 TACTGTTTTACCCTCAGTTTACAAAATTA-CCA
* *
5555218 TTTACCCTCGATTTACAGAATTACC-ATTTACCCTTGATT
1 TTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATT
5555257 GTGAAATTAC
Statistics
Matches: 328, Mismatches: 28, Indels: 13
0.89 0.08 0.04
Matches are distributed among these distances:
159 4 0.01
160 17 0.05
161 252 0.77
162 52 0.16
163 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (161 bp):
TTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTTTAAAATTACCGTTTTACCCTCGA
TTTACAGAATTACCGTTTTACCCTTGATTTTTAAAATTACCGTTTTACCCTCGATTTACAGAATT
ACTGTTTTACCCTCAGTTTACAAAATTACCA
Found at i:5555438 original size:81 final size:81
Alignment explanation
Indices: 5555261--5555428 Score: 248
Period size: 81 Copynumber: 2.1 Consensus size: 81
5555251 TTGATTGTGA
* * *
5555261 AATTACTAAAATACCCCTGTAGGGTAGAATTTCTGAAATACCCCTATAGTGTAGAATTACTGAAA
1 AATTACCAAAATACCCCTGTAGGGTAGAATTTCTGAAATACCCCTATAGGGTAGAAATACTGAAA
5555326 TACCCTTATAGGATAG
66 TACCCTTATAGGATAG
* *
5555342 AATTACCAAAATACCCCTGTAGGGTAGAATTATC-GAAATACCCTTGTAGGGTAGAAATACTGAA
1 AATTACCAAAATACCCCTGTAGGGTAGAATT-TCTGAAATACCCCTATAGGGTAGAAATACTGAA
* * *
5555406 ATACTCTTGTAGGGTAG
65 ATACCCTTATAGGATAG
5555423 AATTAC
1 AATTAC
5555429 TGAGTTACCC
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
81 76 0.97
82 2 0.03
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACCCCTGTAGGGTAGAATTTCTGAAATACCCCTATAGGGTAGAAATACTGAAA
TACCCTTATAGGATAG
Found at i:5555441 original size:27 final size:27
Alignment explanation
Indices: 5555261--5555455 Score: 214
Period size: 27 Copynumber: 7.2 Consensus size: 27
5555251 TTGATTGTGA
* *
5555261 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * * *
5555288 AATTTCTGAAATACCCCTATAGTGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
5555315 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCTTGTAGGGTAG
** *
5555342 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
5555369 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCTTGTAGGGTAG
* *
5555396 AAATACTGAAATACTCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
** *
5555423 AATTACTGAGTTACCCTTGT-GAGGTAA
1 AATTACTGAAATACCCTTGTAG-GGTAG
5555450 AATTAC
1 AATTAC
5555456 CATTTTTCCC
Statistics
Matches: 142, Mismatches: 23, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
26 1 0.01
27 140 0.99
28 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.29
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGTAGGGTAG
Found at i:5555693 original size:27 final size:26
Alignment explanation
Indices: 5555655--5555741 Score: 102
Period size: 27 Copynumber: 3.3 Consensus size: 26
5555645 CGGAGGAAGC
5555655 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
* *
5555682 GTTCTGGTGGCTGTGCTACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * * *
5555708 GTATCTGGTGACTCTGTCACGATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
5555735 GTTCTGG
1 GTTCTGG
5555742 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 14 0.27
27 38 0.73
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:5555887 original size:25 final size:24
Alignment explanation
Indices: 5555884--5555944 Score: 95
Period size: 25 Copynumber: 2.5 Consensus size: 24
5555874 CTGTCACGTA
* *
5555884 ATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGTCACTAATTCTG
5555908 ATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGTCA-CTAATTCTG
5555933 ATTCTGATTCTG
1 ATTCTGATTCTG
5555945 ATTCTGTTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
24 14 0.41
25 20 0.59
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.48
Consensus pattern (24 bp):
ATTCTGATTCTGTCACTAATTCTG
Found at i:5555893 original size:19 final size:19
Alignment explanation
Indices: 5555869--5555938 Score: 68
Period size: 19 Copynumber: 3.4 Consensus size: 19
5555859 ATTCTGATTT
5555869 TGATTCTGTCACGTAATTC
1 TGATTCTGTCACGTAATTC
* *
5555888 TGATTCTGTTACTGATTCTGATTC
1 TGATTCTGTCAC-G----TAATTC
*
5555912 TGATTCTGTCACCTAATTC
1 TGATTCTGTCACGTAATTC
5555931 TGATTCTG
1 TGATTCTG
5555939 ATTCTGATTC
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
19 24 0.59
20 1 0.02
24 16 0.39
ACGTcount: A:0.19, C:0.20, G:0.16, T:0.46
Consensus pattern (19 bp):
TGATTCTGTCACGTAATTC
Found at i:5555895 original size:6 final size:6
Alignment explanation
Indices: 5555884--5556017 Score: 143
Period size: 6 Copynumber: 22.2 Consensus size: 6
5555874 CTGTCACGTA
* *
5555884 ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG
1 ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
*
5555933 ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG
*
5555981 ATTCTG ATTTTG ATTCTG ATTCTG -TTACTG ATTCTG A
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG A
5556018 GTCTCATTTT
Statistics
Matches: 109, Mismatches: 8, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
5 8 0.07
6 92 0.84
7 7 0.06
8 2 0.02
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:5571224 original size:72 final size:72
Alignment explanation
Indices: 5570980--5571212 Score: 261
Period size: 72 Copynumber: 3.2 Consensus size: 72
5570970 GAAGAGTTTG
* * * * * *
5570980 AAACTGTTGGACCTATC-ACATAATCAAATTACTGGTCCTATTCCTTCTACCCTGTGCAACTTAA
1 AAACAGTTGGACCTATCTAGA-AACCAAATTACTGGTCCTATCCCTTCTACCTTGGGCAACTTAA
* *
5571044 CAAACTTG
65 CCAACTTA
* * *
5571052 AAACAGTTGGACCTATCTGGAAACCAAATTATTGGCCCTATCCCTTCTACCTTGGGCAACTTAAC
1 AAACAGTTGGACCTATCTAGAAACCAAATTACTGGTCCTATCCCTTCTACCTTGGGCAACTTAAC
5571117 CAACTTA
66 CAACTTA
* ** * * * *
5571124 GAATTGTTGAACCTATCTAGAAACCAAATTACTGGTCCTATCCCTTCTGCCTTGGGTAAATTAAC
1 AAACAGTTGGACCTATCTAGAAACCAAATTACTGGTCCTATCCCTTCTACCTTGGGCAACTTAAC
*
5571189 CAATTTA
66 CAACTTA
* *
5571196 AAAGAGTTGGACTTATC
1 AAACAGTTGGACCTATC
5571213 CTTTAATCAA
Statistics
Matches: 133, Mismatches: 27, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
72 132 0.99
73 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (72 bp):
AAACAGTTGGACCTATCTAGAAACCAAATTACTGGTCCTATCCCTTCTACCTTGGGCAACTTAAC
CAACTTA
Found at i:5571647 original size:144 final size:144
Alignment explanation
Indices: 5571387--5571665 Score: 332
Period size: 144 Copynumber: 1.9 Consensus size: 144
5571377 CAATCCCTCA
* * * *
5571387 TGAAATTGGAAACTTAAAGAATTTGGTTGCATTGAATTTAAGTAACAACAATCTCAATCATCGGA
1 TGAAATTGGAAACTTAAAGAATTTGGTTGAATTGAATCTAAGTAAAAACAAGCTCAATCATCGGA
* * * *
5571452 TTCCTCAATCCCTAACTACTTTATCCAAATTGAGCTACTTGTACTTGGATTCAAAT-TTTCTACA
66 TCCCTCAATCACTAACTAATTTATCCAAATTGAGCTACTTGTACTTGGATTCAAATCTTT-TAAA
5571516 AGGTCCAATTCCTAG
130 AGGTCCAATTCCTAG
* * ** *
5571531 TGAAATTGGAAACTTGAAGAATTTGTTTGAATTGAATCTAAGTAAAAACAAGCTCAATGGTTTGG
1 TGAAATTGGAAACTTAAAGAATTTGGTTGAATTGAATCTAAGTAAAAACAAGCTCAAT-CATCGG
* * * * *
5571596 -TCCCTTC-ATCACTAGCTAATTTATCTAGATTGAGCTATTTGTTCCTT-GATTCAAATCTTTTA
65 ATCCC-TCAATCACTAACTAATTTATCCAAATTGAGCTACTTG-TACTTGGATTCAAATCTTTTA
5571658 AAAGGTCC
128 AAAGGTCC
5571666 CTTACCATCT
Statistics
Matches: 113, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
144 101 0.89
145 12 0.11
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (144 bp):
TGAAATTGGAAACTTAAAGAATTTGGTTGAATTGAATCTAAGTAAAAACAAGCTCAATCATCGGA
TCCCTCAATCACTAACTAATTTATCCAAATTGAGCTACTTGTACTTGGATTCAAATCTTTTAAAA
GGTCCAATTCCTAG
Found at i:5575902 original size:21 final size:21
Alignment explanation
Indices: 5575876--5575920 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
5575866 AATGGAGGAA
*
5575876 GTTGAGTAGTTTATCTACACC
1 GTTGAGTAGTTTATCCACACC
* *
5575897 GTTGAGTGGTTTATCCACATC
1 GTTGAGTAGTTTATCCACACC
5575918 GTT
1 GTT
5575921 TTAGCAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (21 bp):
GTTGAGTAGTTTATCCACACC
Found at i:5576108 original size:18 final size:18
Alignment explanation
Indices: 5576085--5576139 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 18
5576075 TTTATTACTG
5576085 GTGGTTTATCCACAATGA
1 GTGGTTTATCCACAATGA
*
5576103 GTGGTTCATCCACAACTATGA
1 GTGGTTTATCCAC-A--ATGA
5576124 GTGGTTTTATCCACAA
1 GTGG-TTTATCCACAA
5576140 CATGGTGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
18 12 0.39
19 2 0.06
21 9 0.29
22 8 0.26
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (18 bp):
GTGGTTTATCCACAATGA
Found at i:5576123 original size:21 final size:22
Alignment explanation
Indices: 5576085--5576140 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
5576075 TTTATTACTG
5576085 GTGGTTT-ATCCAC-A--ATGA
1 GTGGTTTCATCCACAACTATGA
5576103 GTGG-TTCATCCACAACTATGA
1 GTGGTTTCATCCACAACTATGA
*
5576124 GTGGTTTTATCCACAAC
1 GTGGTTTCATCCACAAC
5576141 ATGGTGTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 2 0.06
18 10 0.31
19 1 0.03
21 8 0.25
22 11 0.34
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (22 bp):
GTGGTTTCATCCACAACTATGA
Found at i:5578288 original size:19 final size:20
Alignment explanation
Indices: 5578248--5578289 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
5578238 TTGGTTCATG
5578248 TTTTCAATCTCATATCTCAA
1 TTTTCAATCTCATATCTCAA
5578268 TTTTCAATTCTCA-AT-TCAA
1 TTTTCAA-TCTCATATCTCAA
5578287 TTT
1 TTT
5578290 CTTGTTTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 7 0.33
20 9 0.43
21 5 0.24
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTTCAATCTCATATCTCAA
Found at i:5578479 original size:38 final size:37
Alignment explanation
Indices: 5578413--5578504 Score: 96
Period size: 38 Copynumber: 2.5 Consensus size: 37
5578403 ACCAGTTTGG
*
5578413 CACCCAGTGCCTCATCGGATAGTTCGAAGCAAAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAG-AAAGTTGA
* * *
5578451 CACCCAGTGTCTCATCGGCCTAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGAAAGTTGA
* * *
5578488 TACCTAGTACCTCATCG
1 CACCCAGTGCCTCATCG
5578505 AATCTATCCG
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
37 20 0.44
38 22 0.49
39 3 0.07
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGAAAGTTGA
Found at i:5579533 original size:26 final size:26
Alignment explanation
Indices: 5579496--5579579 Score: 123
Period size: 26 Copynumber: 3.2 Consensus size: 26
5579486 TGATACAAAT
* *
5579496 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
5579522 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
* * *
5579548 TGACAATGGGCTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
5579574 TGATAA
1 TGATAA
5579580 GAATTTCATG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.35, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:5579804 original size:28 final size:28
Alignment explanation
Indices: 5579764--5579826 Score: 126
Period size: 28 Copynumber: 2.2 Consensus size: 28
5579754 TTGAAGGTAA
5579764 GTTCATGGTAGTTGGCTTCTATCTTGAT
1 GTTCATGGTAGTTGGCTTCTATCTTGAT
5579792 GTTCATGGTAGTTGGCTTCTATCTTGAT
1 GTTCATGGTAGTTGGCTTCTATCTTGAT
5579820 GTTCATG
1 GTTCATG
5579827 AGTTCTTCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.14, C:0.14, G:0.25, T:0.46
Consensus pattern (28 bp):
GTTCATGGTAGTTGGCTTCTATCTTGAT
Found at i:5582813 original size:12 final size:12
Alignment explanation
Indices: 5582796--5582822 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
5582786 GGGGAAGAGA
5582796 CCGTGGTCGAGG
1 CCGTGGTCGAGG
5582808 CCGTGGTCGAGG
1 CCGTGGTCGAGG
5582820 CCG
1 CCG
5582823 AGGTAATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.30, G:0.48, T:0.15
Consensus pattern (12 bp):
CCGTGGTCGAGG
Found at i:5587676 original size:26 final size:26
Alignment explanation
Indices: 5587647--5587704 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
5587637 TGATACAAAT
*
5587647 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGCTAGGTAAATGTTCCA
*
5587673 TGATAATGGGCTAGGTAAATGTTTCA
1 TGATAATGGGCTAGGTAAATGTTCCA
5587699 TGATAA
1 TGATAA
5587705 GAATTTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.33, C:0.07, G:0.26, T:0.34
Consensus pattern (26 bp):
TGATAATGGGCTAGGTAAATGTTCCA
Found at i:5591276 original size:23 final size:23
Alignment explanation
Indices: 5591262--5591386 Score: 74
Period size: 26 Copynumber: 4.9 Consensus size: 23
5591252 AAATGACATA
5591262 ATAATATAAAATAAATATAATAT
1 ATAATATAAAATAAATATAATAT
*
5591285 ATAATATAAAAGTATATATGTGAA-A-
1 ATAATATAAAA-TA-A-ATAT-AATAT
*
5591310 ATAATATATAATATATATAAATAATAT
1 ATAATATA-AA-ATA-A-ATATAATAT
5591337 GAGTAATATATAAAATAATTATATAATAT
1 -A-TAATAT--AAAATAA--ATATAATAT
*
5591366 ATAATATAAAAATAAAAATAA
1 ATAATAT-AAAATAAATATAA
5591387 AGCAAATAAC
Statistics
Matches: 83, Mismatches: 6, Indels: 25
0.73 0.05 0.22
Matches are distributed among these distances:
23 11 0.13
24 7 0.08
25 11 0.13
26 21 0.25
27 9 0.11
28 3 0.04
29 18 0.22
30 2 0.02
31 1 0.01
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (23 bp):
ATAATATAAAATAAATATAATAT
Found at i:5591286 original size:7 final size:7
Alignment explanation
Indices: 5591259--5591373 Score: 81
Period size: 7 Copynumber: 17.1 Consensus size: 7
5591249 ATAAAATGAC
5591259 ATAATAAT
1 ATAAT-AT
5591267 ATAA-A-
1 ATAATAT
5591272 ATAA-AT
1 ATAATAT
5591278 ATAATAT
1 ATAATAT
5591285 ATAATAT
1 ATAATAT
5591292 A-AA-AGT
1 ATAATA-T
5591298 AT-ATAT
1 ATAATAT
*
5591304 GTGAA-A-
1 AT-AATAT
5591310 ATAATAT
1 ATAATAT
5591317 ATAATAT
1 ATAATAT
*
5591324 AT-ATAA
1 ATAATAT
5591330 ATAATAT
1 ATAATAT
5591337 GAGTAATAT
1 -A-TAATAT
5591346 ATAA-A-
1 ATAATAT
5591351 ATAATTAT
1 ATAA-TAT
5591359 ATAATAT
1 ATAATAT
5591366 ATAATAT
1 ATAATAT
5591373 A
1 A
5591374 AAAATAAAAA
Statistics
Matches: 88, Mismatches: 4, Indels: 31
0.72 0.03 0.25
Matches are distributed among these distances:
5 12 0.14
6 20 0.23
7 39 0.44
8 11 0.12
9 6 0.07
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (7 bp):
ATAATAT
Found at i:5591323 original size:20 final size:19
Alignment explanation
Indices: 5591259--5591374 Score: 119
Period size: 20 Copynumber: 5.8 Consensus size: 19
5591249 ATAAAATGAC
5591259 ATAATAATATAAAATAA-AT
1 ATAAT-ATATAAAATAATAT
* *
5591278 ATAATATATAATATAAAAGT
1 ATAATATATAAAATAATA-T
*
5591298 AT-ATATGTGAAAATAATAT
1 ATAATATAT-AAAATAATAT
5591317 ATAATATATATAAATAATAT
1 ATAATATATA-AAATAATAT
5591337 GAGTAATATATAAAATAATTAT
1 -A-TAATATATAAAATAA-TAT
*
5591359 ATAATATATAATATAA
1 ATAATATATAAAATAA
5591375 AAATAAAAAT
Statistics
Matches: 83, Mismatches: 6, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
18 10 0.12
19 15 0.18
20 38 0.46
21 8 0.10
22 12 0.14
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.36
Consensus pattern (19 bp):
ATAATATATAAAATAATAT
Found at i:5592191 original size:43 final size:43
Alignment explanation
Indices: 5592092--5592319 Score: 363
Period size: 43 Copynumber: 5.4 Consensus size: 43
5592082 ATTTAAAAAA
*
5592092 AAACGCCGCTAAAGGTCATGACCTTTAGCGGCGCTTTT--CTC
1 AAACGCCGCTAAAGGTCATGACCTATAGCGGCGCTTTTCCCTC
*
5592133 AAACGCCGTTAAAGGTCATGACCTATAGCGGCGCTTTTCCCTC
1 AAACGCCGCTAAAGGTCATGACCTATAGCGGCGCTTTTCCCTC
* *
5592176 AAACGCCGCCAAAGGTCATGACCTATAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGGTCATGACCTATAGCGGCGCTTTTCCCTC
* *
5592219 AAACGCCGCCAAAGGTCATGACCTATAGTGGCGCTTTTCCCTC
1 AAACGCCGCTAAAGGTCATGACCTATAGCGGCGCTTTTCCCTC
* *
5592262 AAACGCCGCTAAAGGTCATGACCTTTAGCGGCGC-TTTCCCAC
1 AAACGCCGCTAAAGGTCATGACCTATAGCGGCGCTTTTCCCTC
5592304 AAACGCCGCTAAAGGT
1 AAACGCCGCTAAAGGT
5592320 AATAAAATTT
Statistics
Matches: 174, Mismatches: 11, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
41 36 0.21
42 23 0.13
43 115 0.66
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.22
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGACCTATAGCGGCGCTTTTCCCTC
Found at i:5593540 original size:17 final size:16
Alignment explanation
Indices: 5593512--5593548 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 16
5593502 TATTGATTAA
5593512 TTTTAAATTTTTTTAT
1 TTTTAAATTTTTTTAT
5593528 TTTTAATATTTTTTTAT
1 TTTTAA-ATTTTTTTAT
5593545 TTTT
1 TTTT
5593549 TCTTTTGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTAAATTTTTTTAT
Found at i:5593571 original size:25 final size:26
Alignment explanation
Indices: 5593512--5593572 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 26
5593502 TATTGATTAA
**
5593512 TTTTAAATTTTTTTATTTTTAATATT
1 TTTTAAATTTTTTTATTTGGAATATT
*
5593538 TTTT-TATTTTTTCT-TTTGGAAT-TT
1 TTTTAAATTTTTT-TATTTGGAATATT
5593562 TTTTAAATTTT
1 TTTTAAATTTT
5593573 GAATATTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
24 6 0.21
25 18 0.62
26 5 0.17
ACGTcount: A:0.21, C:0.02, G:0.03, T:0.74
Consensus pattern (26 bp):
TTTTAAATTTTTTTATTTGGAATATT
Found at i:5593650 original size:15 final size:15
Alignment explanation
Indices: 5593640--5593687 Score: 80
Period size: 15 Copynumber: 3.3 Consensus size: 15
5593630 GTTTTTTTTA
5593640 TTTTTAATTTTTAAT
1 TTTTTAATTTTTAAT
*
5593655 TTTTAAATTTTTAA-
1 TTTTTAATTTTTAAT
5593669 TTTTTAATTTTTAAT
1 TTTTTAATTTTTAAT
5593684 TTTT
1 TTTT
5593688 GAGTTTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 13 0.43
15 17 0.57
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTTAATTTTTAAT
Found at i:5593694 original size:13 final size:14
Alignment explanation
Indices: 5593639--5593701 Score: 65
Period size: 14 Copynumber: 4.5 Consensus size: 14
5593629 CGTTTTTTTT
*
5593639 ATTTTTAATTTTTA
1 ATTTTTAATGTTTA
*
5593653 ATTTTTAAATTTTTA
1 ATTTTT-AATGTTTA
*
5593668 ATTTTTAATTTTTA
1 ATTTTTAATGTTTA
*
5593682 ATTTTTGA-GTTTA
1 ATTTTTAATGTTTA
*
5593695 TTTTTTA
1 ATTTTTA
5593702 TTTCGGTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
13 9 0.20
14 21 0.48
15 14 0.32
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (14 bp):
ATTTTTAATGTTTA
Found at i:5593704 original size:7 final size:7
Alignment explanation
Indices: 5593633--5593687 Score: 92
Period size: 7 Copynumber: 7.7 Consensus size: 7
5593623 TTTTTACGTT
*
5593633 TTTTTTA
1 TTTTTAA
5593640 TTTTTAA
1 TTTTTAA
5593647 TTTTTAA
1 TTTTTAA
5593654 TTTTTAAA
1 TTTTT-AA
5593662 TTTTTAA
1 TTTTTAA
5593669 TTTTTAA
1 TTTTTAA
5593676 TTTTTAA
1 TTTTTAA
5593683 TTTTT
1 TTTTT
5593688 GAGTTTATTT
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
7 39 0.85
8 7 0.15
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (7 bp):
TTTTTAA
Found at i:5594325 original size:9 final size:10
Alignment explanation
Indices: 5594304--5594328 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
5594294 TAACGAGTAT
5594304 AAATTTAAAA
1 AAATTTAAAA
5594314 AAATTTAAAA
1 AAATTTAAAA
5594324 AAATT
1 AAATT
5594329 CTTTAAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
AAATTTAAAA
Found at i:5595061 original size:15 final size:16
Alignment explanation
Indices: 5595043--5595076 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
5595033 AGAAGTTATA
5595043 GTTTAGT-GTTTAGGG
1 GTTTAGTAGTTTAGGG
*
5595058 GTTTAGTATTTTAGGG
1 GTTTAGTAGTTTAGGG
5595074 GTT
1 GTT
5595077 ATAGATTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (16 bp):
GTTTAGTAGTTTAGGG
Found at i:5595062 original size:37 final size:36
Alignment explanation
Indices: 5595015--5595089 Score: 89
Period size: 37 Copynumber: 2.1 Consensus size: 36
5595005 TGTGATGTTT
* *
5595015 TTTAGGGTTTAAG-GTTTTAGAAGTTATAGTTTAGTG
1 TTTAGGGTTT-AGTATTTTAGAAGTTATAGATTAGTG
**
5595051 TTTAGGGGTTTAGTATTTTAGGGGTTATAGATTAGTG
1 TTTA-GGGTTTAGTATTTTAGAAGTTATAGATTAGTG
5595088 TT
1 TT
5595090 CATGTTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
36 6 0.18
37 27 0.82
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (36 bp):
TTTAGGGTTTAGTATTTTAGAAGTTATAGATTAGTG
Found at i:5595185 original size:41 final size:41
Alignment explanation
Indices: 5595128--5595369 Score: 360
Period size: 41 Copynumber: 5.9 Consensus size: 41
5595118 GGGGTTATAT
*
5595128 GACTTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCC
1 GACTTTTAGCGGCGTTTTACCGAAAGCGCCGCTATTGCTCC
*
5595169 GACTTTTAGCGGCGTTTTACCTAAAGCGCCGCTATTGCTCC
1 GACTTTTAGCGGCGTTTTACCGAAAGCGCCGCTATTGCTCC
* *
5595210 GACTTTTAGCGGCGTTTTATCGAAAGCGCCGCTATTGCTTC
1 GACTTTTAGCGGCGTTTTACCGAAAGCGCCGCTATTGCTCC
* *
5595251 GACTTTTAGCGGCGTTTTACCTAAAGCGCCGCTATTGCTCT
1 GACTTTTAGCGGCGTTTTACCGAAAGCGCCGCTATTGCTCC
* * * *
5595292 GACTTCTAGCGGCGTTTTATCGAAAGCGCCACTATTGCTCT
1 GACTTTTAGCGGCGTTTTACCGAAAGCGCCGCTATTGCTCC
* *
5595333 GACTTTTAGCGGCGTTTTA-GGTAAAACGCCGCTATTG
1 GACTTTTAGCGGCGTTTTACCG-AAAGCGCCGCTATTG
5595370 TTCTGTGTTT
Statistics
Matches: 183, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 1 0.01
41 182 0.99
ACGTcount: A:0.19, C:0.26, G:0.24, T:0.32
Consensus pattern (41 bp):
GACTTTTAGCGGCGTTTTACCGAAAGCGCCGCTATTGCTCC
Found at i:5598467 original size:22 final size:23
Alignment explanation
Indices: 5598433--5598481 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
5598423 TACTAACATG
*
5598433 TATATATACTATATATTTTTAT-
1 TATATATACTATACATTTTTATA
*
5598455 TATAT-TACGTATACGTTTTTATA
1 TATATATAC-TATACATTTTTATA
5598478 TATA
1 TATA
5598482 CGCTATGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 3 0.13
22 16 0.70
23 4 0.17
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (23 bp):
TATATATACTATACATTTTTATA
Found at i:5600174 original size:31 final size:32
Alignment explanation
Indices: 5600116--5600179 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
5600106 CATACATTTG
*
5600116 TCATAATTTAATATATTTATTACATAAAAATC
1 TCATAATATAATATATTTATTACATAAAAATC
*
5600148 TCATAATATAAT-TATTTAATTA-ATAAATATC
1 TCATAATATAATATATTT-ATTACATAAAAATC
5600179 T
1 T
5600180 TTTACTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 14 0.48
32 15 0.52
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (32 bp):
TCATAATATAATATATTTATTACATAAAAATC
Found at i:5600457 original size:3 final size:3
Alignment explanation
Indices: 5600449--5600512 Score: 58
Period size: 3 Copynumber: 19.7 Consensus size: 3
5600439 TCAATTTATT
5600449 TAA TAA TAA TAA TAA TAA TTAA TAA TTAA TAA CTAA TATA TAA -ACCA
1 TAA TAA TAA TAA TAA TAA -TAA TAA -TAA TAA -TAA TA-A TAA TA--A
*
5600496 TAA TAA TAA TTA TAA TA
1 TAA TAA TAA TAA TAA TA
5600513 TATTTATATA
Statistics
Matches: 52, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
2 1 0.02
3 37 0.71
4 13 0.25
5 1 0.02
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:5600473 original size:7 final size:7
Alignment explanation
Indices: 5600448--5600486 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
5600438 TTCAATTTAT
5600448 TTAATAA
1 TTAATAA
5600455 -TAATAA
1 TTAATAA
5600461 -TAATAA
1 TTAATAA
5600467 TTAATAA
1 TTAATAA
5600474 TTAATAA
1 TTAATAA
*
5600481 CTAATA
1 TTAATA
5600487 TATAAACCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 12 0.40
7 18 0.60
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (7 bp):
TTAATAA
Found at i:5602122 original size:25 final size:27
Alignment explanation
Indices: 5602085--5602137 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
5602075 TCAAACATAC
5602085 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
5602111 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
5602137 A
1 A
5602138 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:5604846 original size:32 final size:34
Alignment explanation
Indices: 5604810--5604874 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
5604800 TAATAGTGGT
*
5604810 ACTGGGCCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
**
5604842 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATA
5604875 TGGCCCATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 10 0.36
33 5 0.18
34 13 0.46
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (34 bp):
ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
Found at i:5604896 original size:137 final size:136
Alignment explanation
Indices: 5604650--5604935 Score: 509
Period size: 137 Copynumber: 2.1 Consensus size: 136
5604640 CATTGGGCCT
**
5604650 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* *
5604715 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAATATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
5604780 CATATGC
130 CATATGC
*
5604787 AAGCCCATTTGGGTAATAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
*
5604852 AGCCCCTTATTCAGATAACAATATGGCCCATAGGCCCATTTCAAAATACATGCAACATTAATAAC
66 AGCCCCTTATTCAGATAACAATATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
5604917 ATATGC
131 ATATGC
5604923 AAGCCCATTTGGG
1 AAGCCCATTTGGG
5604936 GAGACTACTC
Statistics
Matches: 143, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
136 22 0.15
137 121 0.85
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAATATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:5606622 original size:7 final size:8
Alignment explanation
Indices: 5606610--5606643 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
5606600 ATAATAAAAT
5606610 ATAT-AAA
1 ATATCAAA
5606617 ATAT-AAA
1 ATATCAAA
5606624 ATATCAAA
1 ATATCAAA
5606632 ATATCAAA
1 ATATCAAA
5606640 ATAT
1 ATAT
5606644 TAGAATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 11 0.42
8 15 0.58
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (8 bp):
ATATCAAA
Found at i:5606650 original size:16 final size:15
Alignment explanation
Indices: 5606603--5606650 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
5606593 GATGTGAATA
5606603 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
*
5606619 ATAAAATATCAAAAT
1 ATAAAATATTAAAAT
*
5606634 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
5606650 A
1 A
5606651 ATAATAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 7 0.25
16 21 0.75
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:5606863 original size:22 final size:24
Alignment explanation
Indices: 5606800--5606864 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
5606790 CGTGATAATA
*
5606800 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
5606825 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
5606848 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
5606865 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:5606914 original size:25 final size:25
Alignment explanation
Indices: 5606886--5607019 Score: 86
Period size: 25 Copynumber: 5.6 Consensus size: 25
5606876 GAAAAAATAT
5606886 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * * *
5606911 ATATATAAATAAAATAGTATAAAAT
1 ATATATAAATAATATAATATTAAAG
* *
5606936 ATATATATACGTAATATAGA-ATTTAA-
1 ATATATA-A-ATAATATA-ATATTAAAG
** *
5606962 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
5606984 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
5607007 AAATAT-AATAATA
1 ATATATAAATAATA
5607020 ACAACAAAAA
Statistics
Matches: 84, Mismatches: 17, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
21 4 0.05
22 12 0.14
23 18 0.21
24 5 0.06
25 33 0.39
26 2 0.02
27 10 0.12
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:5606943 original size:29 final size:28
Alignment explanation
Indices: 5606853--5606944 Score: 66
Period size: 29 Copynumber: 3.3 Consensus size: 28
5606843 TATAGTTAAG
* * *
5606853 ATATATACATAAGATAACAT-GTAGAAAAA
1 ATATATATATAA-ATAAAATAGTA-AAAAT
* *
5606882 ATATATATATAAAT--AATA-TAATATT
1 ATATATATATAAATAAAATAGTAAAAAT
* *
5606907 AAAGATATATAAATAAAATAGTATAAAAT
1 ATATATATATAAATAAAATAGTA-AAAAT
5606936 ATATATATA
1 ATATATATA
5606945 CGTAATATAG
Statistics
Matches: 47, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
25 14 0.30
26 4 0.09
27 4 0.09
28 4 0.09
29 21 0.45
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (28 bp):
ATATATATATAAATAAAATAGTAAAAAT
Found at i:5607580 original size:30 final size:30
Alignment explanation
Indices: 5607502--5607732 Score: 313
Period size: 30 Copynumber: 7.7 Consensus size: 30
5607492 TAGGTACAAG
* *
5607502 TGGTGGTGGAGCAA-GTGTGGTTAGTGGAGT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
* ** * *
5607532 AGGTAATGGAGCAA-GTGTGGCTAGTGGATT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
5607562 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
* * *
5607592 TGGTGGTGGAAAAAGAGTGGCTAGTAGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
5607622 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
* *
5607652 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
5607682 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
*
5607712 TGGTGGTGGAAAAGGAGTGGC
1 TGGTGGTGGAAAAGGTGTGGC
5607733 CAGTTGAGAA
Statistics
Matches: 179, Mismatches: 21, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
29 2 0.01
30 177 0.99
ACGTcount: A:0.23, C:0.04, G:0.48, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
Found at i:5607612 original size:60 final size:60
Alignment explanation
Indices: 5607502--5607732 Score: 347
Period size: 60 Copynumber: 3.9 Consensus size: 60
5607492 TAGGTACAAG
* * * ** ** * *
5607502 TGGTGGTGGAGCAA-GTGTGGTTAGTGGAGTAGGTAATGGAGCAAGTGTGGCTAGTGGATT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
*
5607562 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTAGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
5607622 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
*
5607682 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGGAGTGGC
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGC
5607733 CAGTTGAGAA
Statistics
Matches: 158, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
59 2 0.01
60 156 0.99
ACGTcount: A:0.23, C:0.04, G:0.48, T:0.26
Consensus pattern (60 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
Found at i:5608502 original size:14 final size:14
Alignment explanation
Indices: 5608483--5608532 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
5608473 GAGTGGATTT
5608483 TTGAAAAATAGAAA
1 TTGAAAAATAGAAA
5608497 TTGAAAAAATAGAAA
1 TTG-AAAAATAGAAA
**
5608512 TTGAAAAGCAGAAA
1 TTGAAAAATAGAAA
5608526 TT-AAAAA
1 TTGAAAAA
5608533 GACCTCAGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
13 4 0.12
14 14 0.44
15 14 0.44
ACGTcount: A:0.64, C:0.02, G:0.14, T:0.20
Consensus pattern (14 bp):
TTGAAAAATAGAAA
Found at i:5608506 original size:15 final size:15
Alignment explanation
Indices: 5608486--5608518 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
5608476 TGGATTTTTG
5608486 AAAAATAGAAATTGA
1 AAAAATAGAAATTGA
5608501 AAAAATAGAAATTGA
1 AAAAATAGAAATTGA
5608516 AAA
1 AAA
5608519 GCAGAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.70, C:0.00, G:0.12, T:0.18
Consensus pattern (15 bp):
AAAAATAGAAATTGA
Found at i:5608645 original size:73 final size:74
Alignment explanation
Indices: 5608512--5608736 Score: 274
Period size: 75 Copynumber: 3.0 Consensus size: 74
5608502 AAAATAGAAA
* * ** *
5608512 TTGAAAAGCAG-AAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAAATTAAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCTCTCGCAATA
*
5608576 TGGGTTAATTT
64 TGAGTTAATTT
* * * *
5608587 TTGACAAACA-AAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTTTCGCAATATG
1 TTGAAAAACAGAAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
*
5608651 AGTTGATTTT
66 AGTT-AATTT
* * *
5608661 TTGAAAAATAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
*
5608726 AGTTGATTT
66 AGTTAATTT
5608735 TT
1 TT
5608737 TTTTTACGAA
Statistics
Matches: 127, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
73 33 0.26
74 17 0.13
75 77 0.61
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.28
Consensus pattern (74 bp):
TTGAAAAACAGAAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
AGTTAATTT
Found at i:5608890 original size:73 final size:74
Alignment explanation
Indices: 5608759--5608995 Score: 298
Period size: 74 Copynumber: 3.2 Consensus size: 74
5608749 GAAATTGAAG
* * *
5608759 AACAGAAATTGAAAAAACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTT-
1 AACAGAAATTGAAAATACCTCAGCATGT--CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
5608823 AATTTTTGACA
64 ATTTTTTGACA
* * *
5608834 AACAGAAATTGAAATTACCTCAGCATATCCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
5608899 TTTTTGA-A
66 TTTTTGACA
* * * * *
5608907 AAAAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTTACCTCTCGCAATATGAGTTGA
1 AACAGAAA-TTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* *
5608972 TTTTTTTTACG
65 -TTTTTTGACA
5608983 AACAGAAATTGAA
1 AACAGAAATTGAA
5608996 GAACAGAAAT
Statistics
Matches: 139, Mismatches: 19, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
73 39 0.28
74 57 0.41
75 36 0.26
76 7 0.05
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (74 bp):
AACAGAAATTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTGACA
Found at i:5609001 original size:14 final size:14
Alignment explanation
Indices: 5608982--5609009 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5608972 TTTTTTTTAC
5608982 GAACAGAAATTGAA
1 GAACAGAAATTGAA
5608996 GAACAGAAATTGAA
1 GAACAGAAATTGAA
5609010 AAGACCTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GAACAGAAATTGAA
Found at i:5609108 original size:163 final size:163
Alignment explanation
Indices: 5608834--5609139 Score: 454
Period size: 163 Copynumber: 1.9 Consensus size: 163
5608824 ATTTTTGACA
** * * *
5608834 AACAGAAATTGAAATTACCTCAGCATATCCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGAT
1 AACAGAAATTGAAAAGACCTCAGCATAACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
** * * *
5608899 TTTTTGAAAAAAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTTACCTCTCGCAATA
66 TTTTACAAAAAAGAAATTTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACATCTCGCAATA
5608964 TGAGTTGATTTTTTTTACGAACAGAAATTGAAG
131 TGAGTTGATTTTTTTTACGAACAGAAATTGAAG
*
5608997 AACAGAAATTGAAAAGACCTCAGCATGTAAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTTA
1 AACAGAAATTGAAAAGACCTCAGCA--TAACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTA
* * *
5609062 ATTTTTACAAACAA-AAA-TTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACATCTCGCAA
64 ATTTTTACAAAAAAGAAATTTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACATCTCGCAA
5609125 TATGAGTTGATTTTT
129 TATGAGTTGATTTTT
5609140 GAAAAACAGA
Statistics
Matches: 127, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
163 79 0.62
164 3 0.02
165 45 0.35
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.28
Consensus pattern (163 bp):
AACAGAAATTGAAAAGACCTCAGCATAACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTAAT
TTTTACAAAAAAGAAATTTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACATCTCGCAATA
TGAGTTGATTTTTTTTACGAACAGAAATTGAAG
Found at i:5609121 original size:72 final size:74
Alignment explanation
Indices: 5608991--5609213 Score: 299
Period size: 74 Copynumber: 3.0 Consensus size: 74
5608981 CGAACAGAAA
* * * * *
5608991 TTGAAGAACAG-AAATTGAAAAGACCTCAGCATGTAAGCCGAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAAATTAAAAATACCTCAGCGTGT--CCCGAGGCTCAACTCACCTCTCGCAATA
*
5609055 TGAGTTAATTT
64 TGAGTTGATTT
* * * *
5609066 TT-ACAAACA-AAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACATCTCGCAATATG
1 TTGAAAAACAGAAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
5609129 AGTTGATTT
66 AGTTGATTT
* *
5609138 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
5609203 AGTTGATTT
66 AGTTGATTT
5609212 TT
1 TT
5609214 TTTTACGAAC
Statistics
Matches: 131, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
72 38 0.29
73 6 0.05
74 85 0.65
75 2 0.02
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (74 bp):
TTGAAAAACAGAAAATTAAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTT
Found at i:5609216 original size:238 final size:240
Alignment explanation
Indices: 5608507--5609450 Score: 1587
Period size: 238 Copynumber: 4.0 Consensus size: 240
5608497 TTGAAAAAAT
* *
5608507 AGAAATTGAA-AAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTCG
1 AGAAATTGAAGAA-CAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCG
*
5608571 CAATATGGGTTAATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTC
65 CAATATGAGTTAATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTC
* *
5608636 ACCTTTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTTAAAAATACCTCAGCGTGTCCTGA
130 ACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGA
*
5608701 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTACGAAT
195 GGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTTACGAAC
* *
5608748 AGAAATTGAAGAACAGAAATTGAAAAAACCTCAGCATGTGAGCCAAGGCTCAACTCACCTCTCGC
1 AGAAATTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGC
* * *
5608813 AATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCATATCCCGAGGCTCAACTCA
66 AATATGAGTTAATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCA
*
5608878 CCTTTCGCAATATGAGTTGATTTTTTGAAAAA-AGAAATTTAAAAATACCTCAGCGTGTCCTGAG
131 CCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAG
*
5608942 GCTCAACTTACCTCTCGCAATATGAGTTGA-TTTTTTTTACGAAC
196 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAAC
*
5608986 AGAAATTGAAGAACAGAAATTGAAAAGACCTCAGCATGTAAGCCGAGGCTCAACTCACCTCTCGC
1 AGAAATTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGC
5609051 AATATGAGTTAATTTTT-ACAAACAAAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCA
66 AATATGAGTTAATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCA
*
5609115 CATCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAG
131 CCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAG
5609179 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAAC
196 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAAC
*
5609224 AGAAATTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGC
1 AGAAATTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGC
* * **
5609289 AATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCA
66 AATATGAGTTAATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCA
* * * *
5609354 CCTCTCGCAATATGAGTTG-CTTTTTGACAAACAGAAA-TTGAAATTACCTCAGCGTGTCCTGAG
131 CCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAG
* *
5609417 GCTCAACTCACCTCTAGCAATATTAGTTGATTTT
196 GCTCAACTCACCTCTCGCAATATGAGTTGATTTT
5609451 GAAAAACAAA
Statistics
Matches: 667, Mismatches: 31, Indels: 13
0.94 0.04 0.02
Matches are distributed among these distances:
236 11 0.02
237 123 0.18
238 241 0.36
239 78 0.12
240 61 0.09
241 151 0.23
242 2 0.00
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (240 bp):
AGAAATTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGC
AATATGAGTTAATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCA
CCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAG
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACGAAC
Found at i:5609240 original size:14 final size:14
Alignment explanation
Indices: 5609221--5609249 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
5609211 TTTTTTTACG
5609221 AACAGAAATTGAAA
1 AACAGAAATTGAAA
5609235 AACAGAAATTGAAA
1 AACAGAAATTGAAA
5609249 A
1 A
5609250 GACCTCAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:5609294 original size:92 final size:91
Alignment explanation
Indices: 5609138--5609305 Score: 268
Period size: 92 Copynumber: 1.8 Consensus size: 91
5609128 GAGTTGATTT
* *
5609138 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATG
5609203 AGTTGATTTTTTTTTACGAACAGAAA
66 AGTTGATTTTTTTTTACGAACAGAAA
*
5609229 TTGAAAAACAGAAA-TTGAAAAGACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAAT
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGC--GTG-GCCTGAGGCTCAACTCACCTCTCGCAAT
5609292 ATGAGTTGATTTTT
63 ATGAGTTGATTTTT
5609306 GACAAACAGA
Statistics
Matches: 71, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
90 14 0.20
91 14 0.20
92 41 0.58
93 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (91 bp):
TTGAAAAACAGAAATTTAAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTTTTTACGAACAGAAA
Found at i:5609387 original size:73 final size:73
Alignment explanation
Indices: 5609268--5609522 Score: 404
Period size: 73 Copynumber: 3.5 Consensus size: 73
5609258 CATGTGAGCC
5609268 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAG
5609333 CGTGTCTT
66 CGTGTCTT
*
5609341 GAGGCTCAACTCACCTCTCGCAATATGAGTTGCTTTTTGACAAACAGAAATTGAAATTACCTCAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAG
*
5609406 CGTGTCCT
66 CGTGTCTT
* * * * * * * *
5609414 GAGGCTCAACTCACCTCTAGCAATATTAGTTGA-TTTTGAAAAACAAAAATTAAAAGTATCTCAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAG
5609478 CGTGTCTT
66 CGTGTCTT
*
5609486 GAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
5609523 CCTTGAAAAG
Statistics
Matches: 166, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
72 62 0.37
73 104 0.63
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (73 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAG
CGTGTCTT
Found at i:5609504 original size:145 final size:147
Alignment explanation
Indices: 5609229--5609522 Score: 423
Period size: 145 Copynumber: 2.0 Consensus size: 147
5609219 CGAACAGAAA
*
5609229 TTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCA-GTGAGCCGAGGCTCAACTCACCTCTAGCAATAT
* * * * *
5609294 GAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCT
65 GAGTTGATTTTTGAAAAACAAAAATTAAAAGTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
*
5609359 CGCAATATGAGTTGCTTT
130 CGCAATATGAGTTGATTT
* ** *
5609377 TTGACAAACAGAAATTGAAATTACCTCAGC-GTG-TCCTGAGGCTCAACTCACCTCTAGCAATAT
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCAGTGAGCC-GAGGCTCAACTCACCTCTAGCAATAT
* * *
5609440 TAGTTGA-TTTTGAAAAACAAAAATTAAAAGTATCTCAACGTGTCTTGAGGCTCAACTCATCTCT
65 GAGTTGATTTTTGAAAAACAAAAATTAAAAGTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
5609504 CGCAATATGAGTTGATTT
130 CGCAATATGAGTTGATTT
5609522 T
1 T
5609523 CCTTGAAAAG
Statistics
Matches: 131, Mismatches: 14, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
145 70 0.53
146 34 0.26
148 27 0.21
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (147 bp):
TTGAAAAACAGAAATTGAAAAGACCTCAGCAGTGAGCCGAGGCTCAACTCACCTCTAGCAATATG
AGTTGATTTTTGAAAAACAAAAATTAAAAGTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC
GCAATATGAGTTGATTT
Found at i:5617773 original size:12 final size:12
Alignment explanation
Indices: 5617753--5617788 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
5617743 TGGGATATGC
*
5617753 AATGTATGAATG
1 AATGCATGAATG
5617765 AATGCATGAATG
1 AATGCATGAATG
5617777 AATGCATGAATG
1 AATGCATGAATG
5617789 TCAAATGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:5619370 original size:16 final size:17
Alignment explanation
Indices: 5619330--5619370 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
5619320 ATAATGATGT
5619330 GAATAATAAAATATATA
1 GAATAATAAAATATATA
*
5619347 AAAT-ATAAAATAT-TA
1 GAATAATAAAATATATA
5619362 GAATAATAA
1 GAATAATAA
5619371 TAATTAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 5 0.24
16 13 0.62
17 3 0.14
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (17 bp):
GAATAATAAAATATATA
Found at i:5619581 original size:22 final size:24
Alignment explanation
Indices: 5619518--5619582 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
5619508 CGTGATAATA
*
5619518 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
5619543 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
5619566 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
5619583 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:5619621 original size:14 final size:14
Alignment explanation
Indices: 5619594--5619652 Score: 50
Period size: 14 Copynumber: 4.1 Consensus size: 14
5619584 ATAACATGTA
5619594 AAAT-ATATATATAT
1 AAATAATATA-ATAT
5619608 AAATAATATAATATT
1 AAATAATATAATA-T
*
5619623 AAAGATATATAATA-
1 AAATA-ATATAATAT
*
5619637 AAATAGTATAAATAT
1 AAATAATAT-AATAT
5619652 A
1 A
5619653 TATACGTAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
13 3 0.08
14 15 0.41
15 11 0.30
16 8 0.22
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (14 bp):
AAATAATATAATAT
Found at i:5619630 original size:29 final size:31
Alignment explanation
Indices: 5619571--5619647 Score: 79
Period size: 29 Copynumber: 2.5 Consensus size: 31
5619561 TATAGTTAAG
* * *
5619571 ATATATACATAAGATAACATGTAAAATATAT
1 ATATATAAATAATATAACATGTAAAAGATAT
*
5619602 ATATATAAATAATATAATAT-T-AAAGATAT
1 ATATATAAATAATATAACATGTAAAAGATAT
*
5619631 ATA-ATAAAATAGTATAA
1 ATATAT-AAATAATATAA
5619648 ATATATATAC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
28 2 0.05
29 20 0.50
30 1 0.03
31 17 0.43
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (31 bp):
ATATATAAATAATATAACATGTAAAAGATAT
Found at i:5619631 original size:23 final size:24
Alignment explanation
Indices: 5619602--5619731 Score: 87
Period size: 23 Copynumber: 5.5 Consensus size: 24
5619592 TAAAATATAT
5619602 ATATATAAATAATATAATATTAAAG
1 ATATAT-AATAATATAATATTAAAG
* * *
5619627 ATATATAATAAAATAGTA-TAAAT
1 ATATATAATAATATAATATTAAAG
*
5619650 ATATATACGTAATATAGA-ATTTAAA-
1 ATATATA-ATAATATA-ATA-TTAAAG
** *
5619675 ATATA-CCTAATAT-AT-TAAAAG
1 ATATATAATAATATAATATTAAAG
5619696 A-ATATATATAATATAATATT-AAG
1 ATATATA-ATAATATAATATTAAAG
*
5619719 AAATATAATAATA
1 ATATATAATAATA
5619732 ACAAAAAAAA
Statistics
Matches: 82, Mismatches: 12, Indels: 24
0.69 0.10 0.20
Matches are distributed among these distances:
20 7 0.09
21 2 0.02
22 6 0.07
23 29 0.35
24 23 0.28
25 11 0.13
26 4 0.05
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (24 bp):
ATATATAATAATATAATATTAAAG
Found at i:5619631 original size:31 final size:31
Alignment explanation
Indices: 5619571--5619647 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
5619561 TATAGTTAAG
* *
5619571 ATATATACATAAGATAACATGTAAAATATAT
1 ATATATAAATAATATAACATGTAAAATATAT
*
5619602 ATATATAAATAATATAATAT-TAAAGATATAT
1 ATATATAAATAATATAACATGTAAA-ATATAT
*
5619633 A-ATA-AAATAGTATAA
1 ATATATAAATAATATAA
5619648 ATATATATAC
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
29 10 0.24
30 7 0.17
31 24 0.59
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (31 bp):
ATATATAAATAATATAACATGTAAAATATAT
Found at i:5619632 original size:16 final size:16
Alignment explanation
Indices: 5619592--5619636 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
5619582 AGATAACATG
5619592 TAAAATATAT-ATATA
1 TAAAATATATAATATA
5619607 T-AAATAATATAATAT-
1 TAAAAT-ATATAATATA
5619622 TAAAGATATATAATA
1 TAAA-ATATATAATA
5619637 AAATAGTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
14 4 0.15
15 6 0.23
16 14 0.54
17 2 0.08
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (16 bp):
TAAAATATATAATATA
Found at i:5620287 original size:30 final size:30
Alignment explanation
Indices: 5620209--5620382 Score: 228
Period size: 30 Copynumber: 5.8 Consensus size: 30
5620199 TAGGTACAAG
* *
5620209 TGGTGGTGGAGCAA-GTGTGGTTAGTGGAGT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
* ** * *
5620239 AGGTAATGGAGCAA-GTGTGGCTAGTGGATT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
5620269 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
*
5620299 TGGTGGTGGAAAA-GAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
5620328 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
*
5620358 TGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGT
5620383 TGAGAAAAGT
Statistics
Matches: 129, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
29 30 0.23
30 99 0.77
ACGTcount: A:0.22, C:0.04, G:0.48, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
Found at i:5620338 original size:59 final size:59
Alignment explanation
Indices: 5620209--5620382 Score: 242
Period size: 59 Copynumber: 2.9 Consensus size: 59
5620199 TAGGTACAAG
* * * ** * * *
5620209 TGGTGGTGGAGCAA-GTGTGGTTAGTGGAGTAGGTAATGGAGCAAGTGTGGCTAGTGGATT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGTTGGTGGTGGA-AAAGAGTGGCTAGTGGAGT
5620269 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGAGTGGCTAGTGGAGT
5620328 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAA-GAGTGGCTAGT
5620383 TGAGAAAAGT
Statistics
Matches: 104, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
59 61 0.59
60 43 0.41
ACGTcount: A:0.22, C:0.04, G:0.48, T:0.26
Consensus pattern (59 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGAGTGGCTAGTGGAGT
Found at i:5620361 original size:89 final size:90
Alignment explanation
Indices: 5620209--5620382 Score: 244
Period size: 89 Copynumber: 1.9 Consensus size: 90
5620199 TAGGTACAAG
* * * * *
5620209 TGGTGGTGGAGCAAGTGTGGTTAGTGGAGTAGGTAATGGAGCAAGTGTGGCTAGTGGATTTGGTG
1 TGGTGGTGGAGAAAGAGTGGCTAGTGGAGTAGGTAATGGAGAAAGTGTGGCTAGTGGAGTTGGTG
*
5620274 GTGGAAAAGGTGTGGCTAGTGGAGT
66 GTGGAAAAGGAGTGGCTAGTGGAGT
* **
5620299 TGGTGGTGGA-AAAGAGTGGCTAGTGGAGTTGGTGGTGGA-AAAGGTGTGGCTAGTGGAGTTGGT
1 TGGTGGTGGAGAAAGAGTGGCTAGTGGAGTAGGTAATGGAGAAA-GTGTGGCTAGTGGAGTTGGT
5620362 GGTGGAAAAGGAGTGGCTAGT
65 GGTGGAAAAGGAGTGGCTAGT
5620383 TGAGAAAAGT
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
88 2 0.03
89 62 0.84
90 10 0.14
ACGTcount: A:0.22, C:0.04, G:0.48, T:0.26
Consensus pattern (90 bp):
TGGTGGTGGAGAAAGAGTGGCTAGTGGAGTAGGTAATGGAGAAAGTGTGGCTAGTGGAGTTGGTG
GTGGAAAAGGAGTGGCTAGTGGAGT
Found at i:5621216 original size:69 final size:72
Alignment explanation
Indices: 5621075--5622054 Score: 646
Period size: 73 Copynumber: 12.8 Consensus size: 72
5621065 GAAAAGCAAA
* ** * *
5621075 TTAAAAAGACCTCAGCAGTGAGCGAGACTCAACTCACCTCTCGCAATATGAGTT-AATTTTGACA
1 TTAAAAATACCTCAGC-GTGTCCGAG-CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
5621139 AACAGAAA-
64 AACAGAAAT
* * *
5621147 TTGAAATTACCTCAGCGTGTCCGAGCTCAACTCA-CTTTC-CAATATGAGTTGATTTTTGAAAAA
1 TTAAAAATACCTCAGCGTGTCCGAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
5621210 CAGAAAT
66 CAGAAAT
*
5621217 TTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTT
1 TTAAAAATACCTCAGCGTGTCC-GA-GCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTG
**
5621282 ACGAACAGAAAT
61 AAAAACAGAAAT
* * *
5621294 TGAAGAACAGAAATTGAAAAACCTCAGATGTGAGCCGAGGCTCAACTCACCTCTCGCAATATGAG
1 T----TA-A-AAA-T-----ACCTCAG-CGTG-TCCGA-GCTCAACTCACCTCTCGCAATATGAG
* *
5621359 TTAATTTTTGACAAACAGAAA-
51 TTGATTTTTGAAAAACAGAAAT
* * * *
5621380 TTGAAATTACCTCAGCATATCCCGAGGCTCAACTCACCT-TCGCAATATGAGTTGATTTTTTG-A
1 TTAAAAATACCTCAGCGTGT-CCGA-GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAA
5621443 AAACAGAAAT
63 AAACAGAAAT
5621453 TT-AAAATACCTCAGCGTGTCCTGAGGCTCAACT-ACCTCTCGCAATATGAGTTGATTTTTTTAC
1 TTAAAAATACCTCAGCGTGTCC-GA-GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTT--
*
5621516 GAAAGAA-ATTGAAAACAGAAA
60 GAAA-AACA--G-----A-AAT
* * * *
5621537 TTGAAAAGACCTCAGCATGTAAGCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-AATTTTGA
1 TTAAAAATACCTCAGCGTGT---CCGA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
*
5621601 CAAACAGAAA-
62 AAAACAGAAAT
* *
5621611 TTGAAATTACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
1 TTAAAAATACCTCAGCGTGTCCGA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
5621676 ACAGAAAT
65 ACAGAAAT
5621684 TTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTT
1 TTAAAAATACCTCAGCGTGTCC-GA-GCTCAACTCACCTCTCGCAATATGAGTTGA-----TTTT
* **
5621749 TTACGAACAGAAAT
59 TGAAAAACAGAAAT
* * ** * * ** *
5621763 TGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGC-CGAGGCTCAACTCACCTCTCGCAATAT
1 T-TAAAA-A-TACCT---CAG-CGT--G--TCCGAGCTC-A-ACTCA-----CCTCTCGCAATAT
*
5621827 GAGTTGATTTTTGACAAACAGAAA-
48 GAGTTGATTTTTGAAAAACAGAAAT
* * * * *
5621851 TTGAAATTACCTCAGCGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTTGACA
1 TTAAAAATACCTCAGCGTGTC-CGA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
5621916 AACAGAAA-
64 AACAGAAAT
* * * *
5621924 TTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTG-AA
1 TTAAAAATACCTCAGCGTGTCC-GA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
*
5621987 AACA-AAAA
64 AACAGAAAT
* * * * *
5621995 TTAAAAGTATCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT
1 TTAAAAATACCTCAGCGTGTC-CGA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTT
5622055 CCTTGAAAAG
Statistics
Matches: 746, Mismatches: 82, Indels: 160
0.76 0.08 0.16
Matches are distributed among these distances:
68 11 0.01
69 20 0.03
70 32 0.04
71 100 0.13
72 112 0.15
73 145 0.19
74 70 0.09
75 3 0.00
76 4 0.01
77 19 0.03
78 8 0.01
79 21 0.03
80 6 0.01
81 6 0.01
82 7 0.01
83 8 0.01
84 5 0.01
85 23 0.03
86 3 0.00
87 31 0.04
88 26 0.03
89 28 0.04
90 36 0.05
91 2 0.00
94 20 0.03
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (72 bp):
TTAAAAATACCTCAGCGTGTCCGAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
CAGAAAT
Found at i:5621303 original size:14 final size:14
Alignment explanation
Indices: 5621284--5621311 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5621274 TTTTTTTTAC
5621284 GAACAGAAATTGAA
1 GAACAGAAATTGAA
5621298 GAACAGAAATTGAA
1 GAACAGAAATTGAA
5621312 AAACCTCAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GAACAGAAATTGAA
Found at i:5621361 original size:232 final size:236
Alignment explanation
Indices: 5621055--5621983 Score: 1523
Period size: 232 Copynumber: 4.0 Consensus size: 236
5621045 AAATTGAAAA
* *
5621055 AACAGAAATTG-AAA-AGCAAATTAAAAAGACCTCAGCA-GTGAG-CGAGACTCAACTCACCTCT
1 AACAGAAATTGAAAACAG-AAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCT
5621116 CGCAATATGAGTTAATTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCGA-GCTCAACTC
65 CGCAATATGAGTTAATTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCGAGGCTCAACTC
*
5621180 A-CTTTC-CAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAG
130 ACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAG
5621243 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACG
195 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACG
5621285 AACAGAAATTGAAGAACAGAAATTGAAAA-ACCTCAG-ATGTGAGCCGAGGCTCAACTCACCTCT
1 AACAGAAATTGAA-AACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCT
* *
5621348 CGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCAGCATATCCCGAGGCTCAAC
65 CGCAATATGAGTTAA-TTTTGACAAACAGAAATTGAAATTACCTCAGCGTGT-CCGAGGCTCAAC
5621413 TCACCT-TCGCAATATGAGTTGATTTTTTG-AAAACAGAAATTT-AAAATACCTCAGCGTGTCCT
128 TCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCT
5621475 GAGGCTCAACT-ACCTCTCGCAATATGAGTTGA--TTTTTTTACG
192 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACG
*
5621517 AA-AGAAATTGAAAACAGAAATTGAAAAGACCTCAGCATGTAAGCCGAGGCTCAACTCACCTCTC
1 AACAGAAATTGAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTC
5621581 GCAATATGAGTTAATTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCGAGGCTCAACTCA
66 GCAATATGAGTTAATTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCGAGGCTCAACTCA
5621646 CCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGG
131 CCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGG
5621711 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTTACG
196 CTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTTTACG
5621754 AACAGAAATTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCT
1 AACAGAAATTG-AAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCT
* * *
5621819 CGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTTAAC
65 CGCAATATGAGTT-AATTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTC-CGAGGCTCAAC
* * * *
5621884 TCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAA-TTGAAATTACCTCAGCATGTCCTG
128 TCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTG
*
5621948 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
193 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
5621984 GAAAACAAAA
Statistics
Matches: 658, Mismatches: 16, Indels: 42
0.92 0.02 0.06
Matches are distributed among these distances:
230 51 0.08
231 93 0.14
232 128 0.19
233 57 0.09
234 25 0.04
235 43 0.07
236 28 0.04
237 18 0.03
238 12 0.02
239 65 0.10
240 90 0.14
241 48 0.07
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (236 bp):
AACAGAAATTGAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTC
GCAATATGAGTTAATTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCGAGGCTCAACTCA
CCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGG
CTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTACG
Found at i:5621463 original size:72 final size:73
Alignment explanation
Indices: 5621293--5621530 Score: 308
Period size: 72 Copynumber: 3.3 Consensus size: 73
5621283 CGAACAGAAA
*
5621293 TTGAAGAACAGAAATTGAAAA-ACCTCAG-ATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAA-AACAGAAATTGAAAATACCTCAGCATGT--CCCGAGGCTCAACTCACCTCTCGCAATAT
*
5621356 GAGTT-AATTT
63 GAGTTGATTTT
* *
5621366 TTGACAAACAGAAATTGAAATTACCTCAGCATATCCCGAGGCTCAACTCACCT-TCGCAATATGA
1 TTGA-AAACAGAAATTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGA
5621430 GTTGATTTT
65 GTTGATTTT
* * *
5621439 TTGAAAACAGAAATTTAAAATACCTCAGCGTGTCCTGAGGCTCAACT-ACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
5621503 TTGATTTT
66 TTGATTTT
* *
5621511 TTTACGAA-AGAAATTGAAAA
1 TTGA-AAACAGAAATTGAAAA
5621531 CAGAAATTGA
Statistics
Matches: 147, Mismatches: 12, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
71 4 0.03
72 86 0.59
73 46 0.31
74 8 0.05
75 3 0.02
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (73 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCATGTCCCGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTT
Found at i:5621537 original size:13 final size:13
Alignment explanation
Indices: 5621519--5621543 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5621509 TTTTTACGAA
5621519 AGAAATTGAAAAC
1 AGAAATTGAAAAC
5621532 AGAAATTGAAAA
1 AGAAATTGAAAA
5621544 GACCTCAGCA
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:0.64, C:0.04, G:0.16, T:0.16
Consensus pattern (13 bp):
AGAAATTGAAAAC
Found at i:5621568 original size:159 final size:158
Alignment explanation
Indices: 5621366--5621983 Score: 481
Period size: 159 Copynumber: 3.9 Consensus size: 158
5621356 GAGTTAATTT
** *
5621366 TTGACAAACAGAAATTGAAATTACCTCAGCATATCCCGAGGCTCAACTCACCT-TCGCAATATGA
1 TTGACAAACAGAAATTGAAAAGACCTCAGCATAACCCGAGGCTCAACTCACCTCTCGCAATATGA
* *
5621430 GTTGATTTTTTGA-AAACAGAAATTTAAAATACCTCAGCGTGTCCTGAGGCTCAACT-ACCTCTC
66 GTT-A-ATTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCC-GAGGCTCAACTCACCTCTC
5621493 GCAATATGAGTTGATTTTTTTACGAAAGAAA
128 GCAATATGAGTTGATTTTTTTACGAAAGAAA
*
5621524 TTGA-AAACAGAAATTGAAAAGACCTCAGCATGTAAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTGACAAACAGAAATTGAAAAGACCTCAGCA--TAACCCGAGGCTCAACTCACCTCTCGCAATAT
*
5621588 GAGTTAATTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCG
64 GAGTTAATTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCG
5621653 CAATATGAGTTGA--TTTTT------G--A
129 CAATATGAGTTGATTTTTTTACGAAAGAAA
* * * ** *
5621673 ---A-AAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGACAAACAGAAA-TTGAAAAGACCTCAGCATAACCCGAGGCTCAACTCACCTCTCGCAATATG
* * *
5621734 AGTTGATTTTTTTTTTTACGAACAGAAATTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAG
65 AGTT-A------ATTTT--G-AC----------AAACAGAAATTGAAAATACCTCAGC--GTG-T
5621799 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTT----------
107 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTACGAAAGAAA
** * ** ** *
5621837 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGA
1 TTGACAAACAGAAATTGAAAAGACCTCAGCATAACCCGAGGCTCAACTCACCTCTCGCAATATGA
* * * *
5621902 GTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTAG
66 GTT-AATTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCC-GAGGCTCAACTCACCTCTCG
5621967 CAATATGAGTTGATTTT
129 CAATATGAGTTGATTTT
5621984 GAAAACAAAA
Statistics
Matches: 395, Mismatches: 27, Indels: 84
0.78 0.05 0.17
Matches are distributed among these distances:
145 35 0.09
146 45 0.11
147 14 0.04
148 23 0.06
149 1 0.00
151 1 0.00
152 4 0.01
154 1 0.00
155 2 0.01
157 29 0.07
158 23 0.06
159 72 0.18
160 14 0.04
161 5 0.01
165 23 0.06
166 3 0.01
167 56 0.14
168 44 0.11
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.28
Consensus pattern (158 bp):
TTGACAAACAGAAATTGAAAAGACCTCAGCATAACCCGAGGCTCAACTCACCTCTCGCAATATGA
GTTAATTTTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGATTTTTTTACGAAAGAAA
Found at i:5621598 original size:88 final size:85
Alignment explanation
Indices: 5621439--5621598 Score: 241
Period size: 85 Copynumber: 1.8 Consensus size: 85
5621429 AGTTGATTTT
* * *
5621439 TTGAAAACAGAAATTTAAAATACCTCAGCGTGTCCTGAGGCTCAACTACCTCTCGCAATATGAGT
1 TTGAAAACAGAAATTGAAAAGACCTCAGCATGTCCTGAGGCTCAACTACCTCTCGCAATATGAGT
*
5621504 TGATTTTTTTACGAAAGAAA
66 TAATTTTTTTACGAAAGAAA
5621524 TTGAAAACAGAAATTGAAAAGACCTCAGCATGTAAGCC-GAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAACAGAAATTGAAAAGACCTCAGCATGT---CCTGAGGCTCAACT-ACCTCTCGCAATAT
5621588 GAGTTAATTTT
62 GAGTTAATTTT
5621599 GACAAACAGA
Statistics
Matches: 67, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
85 30 0.45
87 11 0.16
88 26 0.39
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.28
Consensus pattern (85 bp):
TTGAAAACAGAAATTGAAAAGACCTCAGCATGTCCTGAGGCTCAACTACCTCTCGCAATATGAGT
TAATTTTTTTACGAAAGAAA
Found at i:5621773 original size:14 final size:14
Alignment explanation
Indices: 5621754--5621782 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
5621744 TTTTTTTACG
5621754 AACAGAAATTGAAA
1 AACAGAAATTGAAA
5621768 AACAGAAATTGAAA
1 AACAGAAATTGAAA
5621782 A
1 A
5621783 GACCTCAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:5621816 original size:94 final size:93
Alignment explanation
Indices: 5621669--5621838 Score: 272
Period size: 94 Copynumber: 1.8 Consensus size: 93
5621659 GAGTTGATTT
* *
5621669 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATG
5621734 AGTTGATTTTTTTTTTTACGAACAGAAA
66 AGTTGATTTTTTTTTTTACGAACAGAAA
*
5621762 TTGAAAAACAGAAA-TTGAAAAGACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAAT
1 TTGAAAAACAGAAATTTAAAAAGACCTCAGC--GTG-GCCTGAGGCTCAACTCACCTCTCGCAAT
5621825 ATGAGTTGATTTTT
63 ATGAGTTGATTTTT
5621839 GACAAACAGA
Statistics
Matches: 71, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
92 14 0.20
93 14 0.20
94 41 0.58
95 2 0.03
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (93 bp):
TTGAAAAACAGAAATTTAAAAAGACCTCAGCGTGGCCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTTTTTTTACGAACAGAAA
Found at i:5621829 original size:168 final size:161
Alignment explanation
Indices: 5621597--5622054 Score: 558
Period size: 144 Copynumber: 2.9 Consensus size: 161
5621587 TGAGTTAATT
*
5621597 TTGACAAACAGAAATTGAAATTACCTCAGCGTGT-CCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGA-AAACAGAAATTGAAA--ACCTCAGCATGTGCCGAGGCTCAACTCACCTCTCGCAATATGA
*
5621661 GTTGATTTTTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTC
63 GTTGATTTTTGAAAAACAGAAA-TTAAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTC
* *
5621726 GCAATATGAGTTGATTTTTTTTTTTACGAACAGAAA
127 GCAATATGAGTTGA-TTTTTTTTTGACAAACAGAAA
5621762 TTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCAATAT
1 TTG-AAAACAGAAATTG-AAA-ACCTCAGCATGT--GCCGAGGCTCAACTCACCTCTCGCAATAT
* * * *
5621827 GAGTTGATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTTAACTCACCTCT
61 GAGTTGATTTTTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCT
5621892 CGCAATATGAGTTGA----TTTTTGACAAACAGAAA
126 CGCAATATGAGTTGATTTTTTTTTGACAAACAGAAA
*
5621924 TT-------GAAATT----ACCTCAGCATGT-CCTGAGGCTCAACTCACCTCTAGCAATATGAGT
1 TTGAAAACAGAAATTGAAAACCTCAGCATGTGCC-GAGGCTCAACTCACCTCTCGCAATATGAGT
* * * * *
5621977 TGA-TTTTG-AAAACAAAAATTAAAAGTATCTCAACGTGTCTTGAGGCTCAACTCATCTCTCGCA
65 TGATTTTTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCA
5622040 ATATGAGTTGATTTT
130 ATATGAGTTGATTTT
5622055 CCTTGAAAAG
Statistics
Matches: 265, Mismatches: 18, Indels: 37
0.83 0.06 0.12
Matches are distributed among these distances:
144 58 0.22
145 7 0.03
146 32 0.12
148 12 0.05
154 6 0.02
162 17 0.06
165 26 0.10
166 4 0.02
167 52 0.20
168 51 0.19
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (161 bp):
TTGAAAACAGAAATTGAAAACCTCAGCATGTGCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAACAGAAATTAAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAA
TATGAGTTGATTTTTTTTTGACAAACAGAAA
Found at i:5630351 original size:12 final size:12
Alignment explanation
Indices: 5630334--5630369 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
5630324 TGGGATATGC
5630334 AATGTATGAATG
1 AATGTATGAATG
5630346 AATGTATGAATG
1 AATGTATGAATG
*
5630358 AATGCATGAATG
1 AATGTATGAATG
5630370 TCAAATGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.03, G:0.25, T:0.31
Consensus pattern (12 bp):
AATGTATGAATG
Found at i:5632156 original size:22 final size:24
Alignment explanation
Indices: 5632093--5632157 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
5632083 CGTGATAATA
*
5632093 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
5632118 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
5632141 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
5632158 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:5632208 original size:25 final size:25
Alignment explanation
Indices: 5632180--5632309 Score: 82
Period size: 23 Copynumber: 5.6 Consensus size: 25
5632170 AAAAATATAT
5632180 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * *
5632205 ATATATACATAAAATAGTA-TAAA-
1 ATATATAAATAATATAATATTAAAG
** *
5632228 ATATATATGTAATATAGA-ATTTAA-
1 ATATATAAATAATATA-ATATTAAAG
** *
5632252 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
5632274 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
5632297 AAATAT-AATAATA
1 ATATATAAATAATA
5632310 ACAAAAAAGG
Statistics
Matches: 82, Mismatches: 16, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
21 4 0.05
22 12 0.15
23 37 0.45
24 13 0.16
25 16 0.20
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:5632876 original size:30 final size:30
Alignment explanation
Indices: 5632798--5633031 Score: 312
Period size: 30 Copynumber: 7.8 Consensus size: 30
5632788 TAGGTACAAG
* *
5632798 TGGTGGTGGAGCAA-GTGTGGTTAGTGGAGT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
* ** * *
5632828 AGGTAATGGAGCAA-GTGTGGCTAGTGGATT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
5632858 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
* * *
5632888 TGGTGGTGGAAAAAGAGTGGCTAGTAGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
5632918 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
*
5632948 TGGTGGTGGAAAA-GAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
5632977 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
* *
5633007 TGGTGGTGAAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGT
5633032 TGAGAAAAGT
Statistics
Matches: 182, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
29 30 0.16
30 152 0.84
ACGTcount: A:0.23, C:0.04, G:0.47, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
Found at i:5633010 original size:119 final size:120
Alignment explanation
Indices: 5632798--5633031 Score: 357
Period size: 119 Copynumber: 2.0 Consensus size: 120
5632788 TAGGTACAAG
* * * * *
5632798 TGGTGGTGGAGCAAGTGTGGTTAGTGGAGTAGGTAATGGAGCAAGTGTGGCTAGTGGATTTGGTG
1 TGGTGGTGGAGAAAGTGTGGCTAGTGGAGTAGGTAATGGAGAAAGAGTGGCTAGTGGAGTTGGTG
5632863 GTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAA-GAGTGGCTAGTAGAGT
66 GTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGT-GAAAAAGGAGTGGCTAGTAGAGT
* **
5632918 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGTTGGTGGTGGA-AAAGAGTGGCTAGTGGAGTTGGT
1 TGGTGGTGGAGAAA-GTGTGGCTAGTGGAGTAGGTAATGGAGAAAGAGTGGCTAGTGGAGTTGGT
5632981 GGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGAAAAAGGAGTGGCTAGT
65 GGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGAAAAAGGAGTGGCTAGT
5633032 TGAGAAAAGT
Statistics
Matches: 104, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
118 6 0.06
119 66 0.63
120 32 0.31
ACGTcount: A:0.23, C:0.04, G:0.47, T:0.26
Consensus pattern (120 bp):
TGGTGGTGGAGAAAGTGTGGCTAGTGGAGTAGGTAATGGAGAAAGAGTGGCTAGTGGAGTTGGTG
GTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGAAAAAGGAGTGGCTAGTAGAGT
Found at i:5635414 original size:18 final size:18
Alignment explanation
Indices: 5635349--5635414 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
5635339 GTAATTTTAA
*
5635349 ATTTCAAAATATTTATAAAA
1 ATTTCAAAA-A-TTATAAAT
* *
5635369 ATTTCAAAATTTATATAT
1 ATTTCAAAAATTATAAAT
* *
5635387 TTTTTAAAAATTATAAAT
1 ATTTCAAAAATTATAAAT
5635405 ATTTCAAAAA
1 ATTTCAAAAA
5635415 ACTTCTAAAA
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
18 28 0.76
20 9 0.24
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTTCAAAAATTATAAAT
Found at i:5635465 original size:7 final size:8
Alignment explanation
Indices: 5635420--5635469 Score: 50
Period size: 8 Copynumber: 6.1 Consensus size: 8
5635410 AAAAAACTTC
5635420 TAAAAAAT
1 TAAAAAAT
5635428 ATAAAAAA-
1 -TAAAAAAT
*
5635436 -AAGAAAGT
1 TAA-AAAAT
5635444 TAAAAAAAT
1 T-AAAAAAT
5635453 TAAAAAAT
1 TAAAAAAT
5635461 TAAAAAAT
1 TAAAAAAT
5635469 T
1 T
5635470 TCTAGAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
6 2 0.06
7 3 0.09
8 16 0.46
9 12 0.34
10 2 0.06
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (8 bp):
TAAAAAAT
Found at i:5636871 original size:13 final size:13
Alignment explanation
Indices: 5636853--5636880 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
5636843 CTTGAACTTA
5636853 AATGGTCAAGTTG
1 AATGGTCAAGTTG
5636866 AATGGTCAAGTTG
1 AATGGTCAAGTTG
5636879 AA
1 AA
5636881 GCTCTAAAAA
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:0.36, C:0.07, G:0.29, T:0.29
Consensus pattern (13 bp):
AATGGTCAAGTTG
Found at i:5638664 original size:14 final size:15
Alignment explanation
Indices: 5638645--5638674 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
5638635 TAAAATAGCA
5638645 ATTACCATA-ATATT
1 ATTACCATATATATT
5638659 ATTACCATATATATT
1 ATTACCATATATATT
5638674 A
1 A
5638675 AAGTCAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.43, C:0.13, G:0.00, T:0.43
Consensus pattern (15 bp):
ATTACCATATATATT
Found at i:5638698 original size:47 final size:47
Alignment explanation
Indices: 5638645--5638802 Score: 212
Period size: 47 Copynumber: 3.3 Consensus size: 47
5638635 TAAAATAGCA
*
5638645 ATTACCATAATATTATTACCATATATATTAAAGTCAATGAAAAGAAC
1 ATTACCATAATATTATTGCCATATATATTAAAGTCAATGAAAAGAAC
* * *
5638692 ATTACCACAATATTATTGCCATATATATTACAGGCAATGAAAAGAAC
1 ATTACCATAATATTATTGCCATATATATTAAAGTCAATGAAAAGAAC
* *
5638739 ATTACCATAATATTATTGCCATATATATTGAAGGT-AATAAAAAGAGTA-
1 ATTACCATAATATTATTGCCATATATATT-AAAGTCAATGAAAAGA--AC
5638787 ATTACCATATATATTA
1 ATTACCATA-ATATTA
5638803 AAATTAATAA
Statistics
Matches: 98, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
47 80 0.82
48 11 0.11
49 7 0.07
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.32
Consensus pattern (47 bp):
ATTACCATAATATTATTGCCATATATATTAAAGTCAATGAAAAGAAC
Found at i:5638834 original size:34 final size:34
Alignment explanation
Indices: 5638757--5638832 Score: 102
Period size: 32 Copynumber: 2.3 Consensus size: 34
5638747 AATATTATTG
* * *
5638757 CCATATATATTGAAGGTAATAAAAAGAGTAATTA
1 CCATATATATTAAAAGTAATAAAAAGAGCAATTA
*
5638791 CCATATATATTAAAATTAAT-AAAA-AGCAATTA
1 CCATATATATTAAAAGTAATAAAAAGAGCAATTA
5638823 CCATATATAT
1 CCATATATAT
5638833 ATATTTAGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
32 17 0.45
33 4 0.11
34 17 0.45
ACGTcount: A:0.51, C:0.09, G:0.08, T:0.32
Consensus pattern (34 bp):
CCATATATATTAAAAGTAATAAAAAGAGCAATTA
Found at i:5643392 original size:18 final size:16
Alignment explanation
Indices: 5643368--5643401 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
5643358 GGCCTTATCA
5643368 CATATATATACACTTT
1 CATATATATACACTTT
5643384 CATATATATACACTTT
1 CATATATATACACTTT
5643400 CA
1 CA
5643402 CATTCATCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (16 bp):
CATATATATACACTTT
Found at i:5643429 original size:65 final size:63
Alignment explanation
Indices: 5643325--5643448 Score: 230
Period size: 65 Copynumber: 1.9 Consensus size: 63
5643315 TTATCACATT
5643325 TATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCATATA
1 TATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACACTTTCATATA
5643390 TATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCA
1 TATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCA
5643449 CATTTATTCA
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
63 15 0.25
65 44 0.75
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (63 bp):
TATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCATATA
Found at i:5644965 original size:56 final size:56
Alignment explanation
Indices: 5644898--5645017 Score: 222
Period size: 56 Copynumber: 2.1 Consensus size: 56
5644888 TATTAGTTTA
*
5644898 TTGCCCATGCTTCTTATTTTATTCTTCTATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
5644954 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
5645010 TTGCCCAT
1 TTGCCCAT
5645018 CATCCCTTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 62 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.46
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:5646330 original size:40 final size:40
Alignment explanation
Indices: 5646285--5646641 Score: 464
Period size: 40 Copynumber: 8.9 Consensus size: 40
5646275 CGAATACACG
* * * *
5646285 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * * ** * * *
5646325 ACACCAACACGAATGCTCTTCGGGGTTTAGCACAGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
5646365 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
5646405 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
5646445 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
5646485 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
5646525 TCACTAGCATAAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
5646565 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * ** *
5646605 GTAACTCGCACAAATGC-CTTCGGGACTTAACCCGGAT
1 -TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
5646642 TTAGTAACTC
Statistics
Matches: 284, Mismatches: 32, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
40 272 0.96
41 12 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:5646435 original size:80 final size:80
Alignment explanation
Indices: 5646298--5646720 Score: 487
Period size: 80 Copynumber: 5.3 Consensus size: 80
5646288 CCAGCATGAT
* * * * * ** * *
5646298 TGCTCTTCGGGACCTAGCCCGGATATAACACCAACACGAATGCTCTTCGGGGTTTAGCACAGATA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
*
5646363 TATCACTAGCACGAA
66 TATCACTAGCACAAA
* *
5646378 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
* **
5646443 CATCACTAGCATGAA
66 TATCACTAGCACAAA
*
5646458 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
* *
5646523 CATCACTAGCATAAA
66 TATCACTAGCACAAA
* * *
5646538 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
* *
5646603 TAGTAACTCGCACAAA
66 TA-TCACTAGCACAAA
* ** * * * *
5646619 TGC-CTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGC-CTTC-GGATCTTAGTCCGGA
1 TGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACGAATGCTCTTCGGGA-CTTAGCCCGGA
*
5646681 TATGGTCACTTAGCACAAA
64 TAT-ATCAC-TAGCACAAA
5646700 -GC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
5646721 CATCATTCGA
Statistics
Matches: 301, Mismatches: 37, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
79 3 0.01
80 265 0.88
81 33 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
TATCACTAGCACAAA
Found at i:5646513 original size:120 final size:120
Alignment explanation
Indices: 5646298--5646720 Score: 494
Period size: 120 Copynumber: 3.5 Consensus size: 120
5646288 CCAGCATGAT
* * * * * * * ** * *
5646298 TGCTCTTCGGGACCTAGCCCGGATATAACACCAACACGAATGCTCTTCGGGGTTTAGCACAGATA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA
* *
5646363 TATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
66 TATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACAAA
5646418 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA
* * *
5646483 CATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATAAA
66 TATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACAAA
*
5646538 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGTTA
1 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA
* * * * ** * * *
5646603 TAGTAACTCGCACAAATGC-CTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAA
66 TA-TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACAAA
* * ** * *
5646659 TGC-CTTCGGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGAACTTAGCCCGGATA-CATCAC-TAGCATGAATGCTCTTCGGGACTTAGCCCGGA
5646721 CATCATTCGA
Statistics
Matches: 263, Mismatches: 36, Indels: 8
0.86 0.12 0.03
Matches are distributed among these distances:
120 226 0.86
121 32 0.12
122 5 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATA
TATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACAAA
Found at i:5646647 original size:40 final size:40
Alignment explanation
Indices: 5646298--5646720 Score: 442
Period size: 40 Copynumber: 10.6 Consensus size: 40
5646288 CCAGCATGAT
* * * * * *
5646298 TGCTCTTCGGGACCTAGCCCGGATATAACACCAACACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACAAA
** * * * *
5646338 TGCTCTTCGGGGTTTAGCACAGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACAAA
* *
5646378 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACAAA
* **
5646418 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACAAA
**
5646458 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACAAA
*
5646498 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATAAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACAAA
* **
5646538 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACAAA
* * * *
5646578 TGCTCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACAAA
* ** * * *
5646619 TGC-CTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATACA-TCACTAGCACAAA
* **
5646659 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA
1 TGCTCTTCGGGA-CTTAGCCCGGATA-CATCAC-TAGCACAAA
5646700 -GC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
5646721 CATCATTCGA
Statistics
Matches: 339, Mismatches: 39, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
39 3 0.01
40 314 0.93
41 22 0.06
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACAAA
Found at i:5649067 original size:47 final size:47
Alignment explanation
Indices: 5649004--5649506 Score: 701
Period size: 47 Copynumber: 10.6 Consensus size: 47
5648994 CCCTTCGGGA
* * *
5649004 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
5649051 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
5649098 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
5649145 CTTATCTCATATATGCA-TGTTCACCTTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
5649192 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
5649239 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
5649288 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * * *
5649335 CTTATCACACATACACA-TGTTCACATTTATCACATTGGTCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
5649382 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
5649431 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
5649480 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
5649507 TATTCAAATA
Statistics
Matches: 416, Mismatches: 32, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
46 2 0.00
47 283 0.68
49 129 0.31
50 2 0.00
ACGTcount: A:0.27, C:0.29, G:0.09, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:5649317 original size:143 final size:143
Alignment explanation
Indices: 5649025--5649506 Score: 733
Period size: 143 Copynumber: 3.4 Consensus size: 143
5649015 TATACACTTC
* * *
5649025 CACATCCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATTGGC
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACACTTTCACATTCATCACATTGGC
* *
5649090 CATTCGGCCTTATCAC--ACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCT
66 CATTCGGCCTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCT
5649152 CATATATGCATGTT
130 CATATATGCATGTT
*
5649166 CACCTTCATCACATTGGCCATTCGGCCTTATCACACATACACA-TGTTCACATTCATCACATTGG
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACACT-TTCACATTCATCACATTGG
5649230 CCATTCGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCT
65 CCATTCGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCT
5649295 CATATATGCATGTT
130 CATATATGCATGTT
*
5649309 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACA-TGTTCACATTTATCACATTGG
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACACT-TTCACATTCATCACATTGG
* * * *
5649373 TCATTCGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
65 CCATTCGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCT
*
5649438 CATATATATACACT-TT
130 C--ATATATGCA-TGTT
* * *
5649454 CACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATT
1 CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACACTTTCACATT
5649507 TATTCAAATA
Statistics
Matches: 317, Mismatches: 16, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
140 1 0.00
141 75 0.24
143 180 0.57
144 1 0.00
145 58 0.18
146 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.33
Consensus pattern (143 bp):
CACATTCATCACATTGGCCATTCGGCCTTATCACACATACACACTTTCACATTCATCACATTGGC
CATTCGGCCTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCTC
ATATATGCATGTT
Found at i:5651019 original size:56 final size:56
Alignment explanation
Indices: 5650952--5651071 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
5650942 TATTAGTTTA
5650952 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
5651008 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
5651064 TTGCCCAT
1 TTGCCCAT
5651072 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Done.