Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 98 of 310
Found at i:31460359 original size:22 final size:22
Alignment explanation
Indices: 31460342--31460466 Score: 71
Period size: 22 Copynumber: 5.8 Consensus size: 22
31460332 CCTTAAGCCT
*
31460342 TAACCCCTAAACCATTAACCCA
1 TAACCCATAAACCATTAACCCA
**
31460364 TAACCCATAAACCCCTAA-CCA
1 TAACCCATAAACCATTAACCCA
* *
31460385 CTAACCCAT-AACCCTCAAACCC-
1 -TAACCCATAAACCAT-TAACCCA
* * *
31460407 CAACCCTTAAACCA-TAAGCCA
1 TAACCCATAAACCATTAACCCA
* * * *
31460428 TAA-ACATAATCCCTAAACCCA
1 TAACCCATAAACCATTAACCCA
* *
31460449 TAATCCATAAACCTTTAA
1 TAACCCATAAACCATTAA
31460467 ATAGTAAATC
Statistics
Matches: 75, Mismatches: 21, Indels: 14
0.68 0.19 0.13
Matches are distributed among these distances:
20 10 0.13
21 24 0.32
22 39 0.52
23 2 0.03
ACGTcount: A:0.42, C:0.38, G:0.01, T:0.18
Consensus pattern (22 bp):
TAACCCATAAACCATTAACCCA
Found at i:31460367 original size:7 final size:7
Alignment explanation
Indices: 31460327--31460458 Score: 58
Period size: 7 Copynumber: 18.6 Consensus size: 7
31460317 CCACAAAATA
31460327 ATAACCC
1 ATAACCC
* *
31460334 TTAAGCC
1 ATAACCC
*
31460341 TTAACCC
1 ATAACCC
* *
31460348 CTAAACC
1 ATAACCC
31460355 ATTAACCC
1 A-TAACCC
31460363 ATAACCC
1 ATAACCC
31460370 ATAAACCC
1 AT-AACCC
*
31460378 CTAA-CC
1 ATAACCC
31460384 ACTAACCC
1 A-TAACCC
31460392 ATAACCC
1 ATAACCC
31460399 -TCAAACCC
1 AT--AACCC
*
31460407 -CAACCC
1 ATAACCC
* *
31460413 TTAAACC
1 ATAACCC
*
31460420 ATAAGCC
1 ATAACCC
*
31460427 ATAA-AC
1 ATAACCC
31460433 ATAATCCC
1 ATAA-CCC
31460441 -TAAACCC
1 AT-AACCC
*
31460448 ATAATCC
1 ATAACCC
31460455 ATAA
1 ATAA
31460459 ACCTTTAAAT
Statistics
Matches: 97, Mismatches: 17, Indels: 22
0.71 0.12 0.16
Matches are distributed among these distances:
6 13 0.13
7 60 0.62
8 24 0.25
ACGTcount: A:0.42, C:0.39, G:0.02, T:0.18
Consensus pattern (7 bp):
ATAACCC
Found at i:31462415 original size:14 final size:15
Alignment explanation
Indices: 31462389--31462417 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
31462379 AGGGTTTGAA
31462389 CAAAAATATAGGCCC
1 CAAAAATATAGGCCC
31462404 CAAAAATA-AGGCCC
1 CAAAAATATAGGCCC
31462418 ATTTTCTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.48, C:0.28, G:0.14, T:0.10
Consensus pattern (15 bp):
CAAAAATATAGGCCC
Found at i:31465566 original size:18 final size:17
Alignment explanation
Indices: 31465543--31465577 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
31465533 GAATAGATTT
31465543 TTAATTAAATAAATTTAA
1 TTAATTAAA-AAATTTAA
*
31465561 TTAATTTAAAAATTTAA
1 TTAATTAAAAAATTTAA
31465578 ACCCAAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TTAATTAAAAAATTTAA
Found at i:31468792 original size:24 final size:24
Alignment explanation
Indices: 31468764--31468815 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
31468754 TAAGGTTTGA
31468764 GCTTTGTTGGGTTAAGGGTGGTTG
1 GCTTTGTTGGGTTAAGGGTGGTTG
31468788 GCTTTGTTGGGTTAAGGGTGGTTG
1 GCTTTGTTGGGTTAAGGGTGGTTG
31468812 GCTT
1 GCTT
31468816 GATGTGTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.08, C:0.06, G:0.44, T:0.42
Consensus pattern (24 bp):
GCTTTGTTGGGTTAAGGGTGGTTG
Found at i:31471612 original size:57 final size:56
Alignment explanation
Indices: 31471510--31471622 Score: 145
Period size: 57 Copynumber: 2.0 Consensus size: 56
31471500 TTATTCACAT
* * * * *
31471510 TTTGACAACATAAATATGCGCATTAAGATACATTGTGACAGCAGCTGTAAGTTACA
1 TTTGACAACATAAATATGCACATTAAGAGACATTGTGACAACAGCTATAAATTACA
* * *
31471566 TTTGAACAGCATAAATATGCACATTAAGAGACATTTTGGCAACAGCTATAAATTACA
1 TTTG-ACAACATAAATATGCACATTAAGAGACATTGTGACAACAGCTATAAATTACA
31471623 AGTGCAAATT
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
56 4 0.08
57 44 0.92
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (56 bp):
TTTGACAACATAAATATGCACATTAAGAGACATTGTGACAACAGCTATAAATTACA
Found at i:31472049 original size:18 final size:17
Alignment explanation
Indices: 31472018--31472052 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
31472008 GATTTAAGAT
31472018 TTAAATTTTTTAATTAA
1 TTAAATTTTTTAATTAA
31472035 TTAAATTTATTTAATTAA
1 TTAAATTT-TTTAATTAA
31472053 AAATCTATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTAAATTTTTTAATTAA
Found at i:31472108 original size:11 final size:11
Alignment explanation
Indices: 31472092--31472116 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
31472082 AAGTTGACAC
31472092 TTAATATCTAG
1 TTAATATCTAG
31472103 TTAATATCTAG
1 TTAATATCTAG
31472114 TTA
1 TTA
31472117 CATTTCAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (11 bp):
TTAATATCTAG
Found at i:31474592 original size:170 final size:170
Alignment explanation
Indices: 31474308--31474643 Score: 645
Period size: 170 Copynumber: 2.0 Consensus size: 170
31474298 GCTTGTTAGG
31474308 AACAAGATATCTTGTTCAAAAAATGGTTTATAATGTTATAGGGTGGAATGCACTTAAACCTCTAG
1 AACAAGATATCTTGTTCAAAAAATGGTTTATAATGTTATAGGGTGGAATGCACTTAAACCTCTAG
* *
31474373 ATTGGATATGGGCTACCTTTATGGTGGAAGATTTAATCCTGCTAAATGCAACTATTTGGTTAAGC
66 ATTGGATATGGGCTACCTTTATAGTGGAAGATTTAATCCTGCCAAATGCAACTATTTGGTTAAGC
31474438 TGTTAAGGCTTAGTTGAGTGAGTTTAGTGTAAATATATGT
131 TGTTAAGGCTTAGTTGAGTGAGTTTAGTGTAAATATATGT
*
31474478 AACAAGATATCTTGTTCAAAAAGTGGTTTATAATGTTATAGGGTGGAATGCACTTAAACCTCTAG
1 AACAAGATATCTTGTTCAAAAAATGGTTTATAATGTTATAGGGTGGAATGCACTTAAACCTCTAG
31474543 ATTGGATATGGGCTACCTTTATAGTGGAAGATTTAATCCTGCCAAATGCAACTATTTGGTTAAGC
66 ATTGGATATGGGCTACCTTTATAGTGGAAGATTTAATCCTGCCAAATGCAACTATTTGGTTAAGC
31474608 TGTTAAGGCTTAGTTGAGTGAGTTTAGTGTAAATAT
131 TGTTAAGGCTTAGTTGAGTGAGTTTAGTGTAAATAT
31474644 TTTTTTTAAT
Statistics
Matches: 163, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
170 163 1.00
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.35
Consensus pattern (170 bp):
AACAAGATATCTTGTTCAAAAAATGGTTTATAATGTTATAGGGTGGAATGCACTTAAACCTCTAG
ATTGGATATGGGCTACCTTTATAGTGGAAGATTTAATCCTGCCAAATGCAACTATTTGGTTAAGC
TGTTAAGGCTTAGTTGAGTGAGTTTAGTGTAAATATATGT
Found at i:31485633 original size:7 final size:7
Alignment explanation
Indices: 31485621--31485645 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
31485611 ATTTGCCTAC
31485621 TTTTTTA
1 TTTTTTA
31485628 TTTTTTA
1 TTTTTTA
31485635 TTTTTTA
1 TTTTTTA
31485642 TTTT
1 TTTT
31485646 ATTTTGTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:31503818 original size:41 final size:41
Alignment explanation
Indices: 31503773--31503855 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
31503763 TACATATGTT
31503773 TGTGTTAATTTTTCCGCAAAGAATATGAATGAAAAAGACAA
1 TGTGTTAATTTTTCCGCAAAGAATATGAATGAAAAAGACAA
* *
31503814 TGTGTTAATTTTTCCTCAAAGAATATGAATGAAAGAGACAA
1 TGTGTTAATTTTTCCGCAAAGAATATGAATGAAAAAGACAA
31503855 T
1 T
31503856 CTAAGGTCCT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (41 bp):
TGTGTTAATTTTTCCGCAAAGAATATGAATGAAAAAGACAA
Found at i:31513474 original size:8 final size:8
Alignment explanation
Indices: 31513461--31513488 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
31513451 ACTCTGCAAG
31513461 TTGCCAAC
1 TTGCCAAC
31513469 TTGCCAAC
1 TTGCCAAC
31513477 TTGCCAAC
1 TTGCCAAC
31513485 TTGC
1 TTGC
31513489 ATTGAAACTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.21, C:0.36, G:0.14, T:0.29
Consensus pattern (8 bp):
TTGCCAAC
Found at i:31514485 original size:14 final size:14
Alignment explanation
Indices: 31514468--31514507 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
31514458 TTTTCAGTTT
31514468 TTTATTTTTTTTTC
1 TTTATTTTTTTTTC
* *
31514482 TTTATTATTATTTC
1 TTTATTTTTTTTTC
31514496 TTTATTATTTTT
1 TTTATT-TTTTT
31514508 ATAATATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 18 0.86
15 3 0.14
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTATTTTTTTTTC
Found at i:31514539 original size:13 final size:12
Alignment explanation
Indices: 31514498--31514571 Score: 52
Period size: 13 Copynumber: 6.5 Consensus size: 12
31514488 ATTATTTCTT
31514498 TATTATTTTT-A
1 TATTATTTTTAA
*
31514509 TAATA-TTTTAA
1 TATTATTTTTAA
31514520 -A-TATTTTATAA
1 TATTATTTT-TAA
31514531 TATTATTTTT--
1 TATTATTTTTAA
* *
31514541 TATAATTTTAAA
1 TATTATTTTTAA
*
31514553 TATAAATTTTTAA
1 TAT-TATTTTTAA
31514566 TATTAT
1 TATTAT
31514572 AAAACATTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 15
0.71 0.07 0.21
Matches are distributed among these distances:
9 2 0.04
10 16 0.32
11 8 0.16
12 7 0.14
13 17 0.34
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TATTATTTTTAA
Found at i:31514549 original size:10 final size:10
Alignment explanation
Indices: 31514504--31514534 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
31514494 TCTTTATTAT
31514504 TTTTATAATA
1 TTTTATAATA
31514514 TTTTA-AATA
1 TTTTATAATA
31514523 TTTTATAATA
1 TTTTATAATA
31514533 TT
1 TT
31514535 ATTTTTTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTTATAATA
Found at i:31514574 original size:22 final size:22
Alignment explanation
Indices: 31514507--31514574 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
31514497 TTATTATTTT
*
31514507 TATAATATTTTAAATATTTTATAA
1 TATAA-ATTTTTAATATTTTA-AA
* *
31514531 TAT-TATTTTTTATAATTTTAAA
1 TATAAATTTTTAAT-ATTTTAAA
*
31514553 TATAAATTTTTAATATTATAAA
1 TATAAATTTTTAATATTTTAAA
31514575 ACATTTAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
22 19 0.53
23 14 0.39
24 3 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
TATAAATTTTTAATATTTTAAA
Found at i:31514660 original size:21 final size:19
Alignment explanation
Indices: 31514628--31514671 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
31514618 ATTATTTGTT
* *
31514628 TTTTAATATTTAAATGTATA
1 TTTTAAAATTTAAATAT-TA
31514648 TTTTAAAATTTTAAATATTA
1 TTTTAAAA-TTTAAATATTA
31514668 TTTT
1 TTTT
31514672 TAAAGTTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
TTTTAAAATTTAAATATTA
Found at i:31514672 original size:21 final size:19
Alignment explanation
Indices: 31514627--31514675 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
31514617 TATTATTTGT
*
31514627 TTTTTAATATTTAAATGTA
1 TTTTTAAAATTTAAATGTA
*
31514646 TATTTTAAAATTTTAAATATTA
1 T-TTTTAAAA-TTTAAAT-GTA
31514668 TTTTTAAA
1 TTTTTAAA
31514676 GTTACTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 1 0.04
20 7 0.28
21 14 0.56
22 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTTTAAAATTTAAATGTA
Found at i:31514675 original size:34 final size:34
Alignment explanation
Indices: 31514636--31514729 Score: 97
Period size: 35 Copynumber: 2.8 Consensus size: 34
31514626 TTTTTTAATA
*
31514636 TTTAAATGTATATTTTAAAATTTTAAATATTATT
1 TTTAAATGTATATTTTAAAATTTTAAACATTATT
* * *
31514670 TTTAAA-GT-TACTTTTAAAGATATTCAAACGTTTTT
1 TTTAAATGTATA-TTTTAAA-AT-TTTAAACATTATT
31514705 TTTAAAT-TATA-TTTAAAATTTTAAA
1 TTTAAATGTATATTTTAAAATTTTAAA
31514730 AAAATATATT
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
32 7 0.14
33 11 0.22
34 14 0.28
35 16 0.32
36 2 0.04
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.52
Consensus pattern (34 bp):
TTTAAATGTATATTTTAAAATTTTAAACATTATT
Found at i:31518204 original size:48 final size:48
Alignment explanation
Indices: 31518092--31518306 Score: 183
Period size: 46 Copynumber: 4.6 Consensus size: 48
31518082 TGGTATGTAT
* * * *
31518092 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCAC-ATTACGA-G--A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA--GCGATGCAA
* * *
31518138 GCCAGCGTAAGACTTGTCTGGGACATGCATCGGCCTCGAGCGATGCAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGCGATGCAA
* * * *
31518186 TCTAGTGTAAGACATGTCTGGGACATGCATTGGCATTGAGACGA-G--A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAG-CGATGCAA
* * ** *
31518232 GCTAGTGTAAAACATGTCTGGGACATGCATCAGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGCGATGCAA
* * *
31518280 GCTACTGTAAGACCTGTTTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
31518307 GCGTCAGCTT
Statistics
Matches: 134, Mismatches: 27, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
45 4 0.03
46 67 0.50
47 1 0.01
48 59 0.44
49 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.23
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGCGATGCAA
Found at i:31518254 original size:94 final size:93
Alignment explanation
Indices: 31518092--31518306 Score: 245
Period size: 94 Copynumber: 2.3 Consensus size: 93
31518082 TGGTATGTAT
* * *
31518092 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCACATTACGAGAGCCAGCGTAAGACTTGTCT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-CACATTACGAGAGCCAGCGTAAAACATGTCT
* * *
31518157 GGGACATGCATCGGCCTCGAGCGATGCAA
65 GGGACATGCATCAGCCTCGAGAGATACAA
* * * * *
31518186 TCTAGTGTAAGACATGTCTGGGACATGCAT-TG-GCATTGAGACGAGAGCTAGTGTAAAACATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCACATT---ACGAGAGCCAGCGTAAAACATGT
*
31518249 CTGGGACATGCATCAGCCTCGAGATATACAA
63 CTGGGACATGCATCAGCCTCGAGAGATACAA
* * *
31518280 GCTACTGTAAGACCTGTTTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
31518307 GCGTCAGCTT
Statistics
Matches: 102, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
91 4 0.04
93 1 0.01
94 97 0.95
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.23
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCACATTACGAGAGCCAGCGTAAAACATGTCTG
GGACATGCATCAGCCTCGAGAGATACAA
Found at i:31518429 original size:49 final size:49
Alignment explanation
Indices: 31518324--31518447 Score: 128
Period size: 49 Copynumber: 2.5 Consensus size: 49
31518314 CTTGGTATGT
* *
31518324 GTCAGTGTAAGACTTGTCTGGGACATAGAATCGACACTGATAGATGAGA
1 GTCAGTGTAAGACCTGTCTGGGACATAGAATCGACACTGATAGATGAAA
* * * *
31518373 G-CTAGTGTAAGACCTGTTTGGGACA-CGACATCGGC-CTCGATATATGAAA
1 GTC-AGTGTAAGACCTGTCTGGGACATAGA-ATCGACACT-GATAGATGAAA
**
31518422 GTCAGTGTAAGACCTACCTGGGACAT
1 GTCAGTGTAAGACCTGTCTGGGACAT
31518448 GGCAACGACT
Statistics
Matches: 61, Mismatches: 9, Indels: 9
0.77 0.11 0.11
Matches are distributed among these distances:
48 5 0.08
49 55 0.90
50 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (49 bp):
GTCAGTGTAAGACCTGTCTGGGACATAGAATCGACACTGATAGATGAAA
Found at i:31518431 original size:142 final size:138
Alignment explanation
Indices: 31518189--31518450 Score: 312
Period size: 142 Copynumber: 1.9 Consensus size: 138
31518179 GATGCAATCT
* * * *
31518189 AGTGTAAGACATGTCTGGGACATGCATTGGCATTGAGACGAGAGCTAGTGTAAAACATGTCTGGG
1 AGTGTAAGACATGTCTGGGACATGAATCGACACTGAGACGAGAGCTAGTGTAAAACATGTCTGGG
* ***
31518254 ACATGCATCAGCCTCGAGATATACAAGCTACTGTAAGACCTGTTTGGGACATGGCGTCAGCTTGG
66 ACACGCATCAGCCTCGAGATATACAAGCTACTGTAAGACCTACCTGGGACATGGCGTCAGCTTGG
31518319 TATGTGTC
131 TATGTGTC
* * * * *
31518327 AGTGTAAGACTTGTCTGGGACATAGAATCGACACTGATAGATGAGAGCTAGTGTAAGACCTGTTT
1 AGTGTAAGACATGTCTGGGACAT-GAATCGACACTG--AGACGAGAGCTAGTGTAAAACATGTCT
* * *
31518392 GGGACACGACATCGGCCTCGATATATGA-AAG-TCAGTGTAAGACCTACCTGGGACATGGC
63 GGGACACG-CATCAGCCTCGAGATAT-ACAAGCT-ACTGTAAGACCTACCTGGGACATGGC
31518451 AACGACTTTG
Statistics
Matches: 102, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
138 22 0.22
139 8 0.08
141 31 0.30
142 40 0.39
143 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (138 bp):
AGTGTAAGACATGTCTGGGACATGAATCGACACTGAGACGAGAGCTAGTGTAAAACATGTCTGGG
ACACGCATCAGCCTCGAGATATACAAGCTACTGTAAGACCTACCTGGGACATGGCGTCAGCTTGG
TATGTGTC
Found at i:31528264 original size:48 final size:48
Alignment explanation
Indices: 31528149--31528409 Score: 284
Period size: 48 Copynumber: 5.5 Consensus size: 48
31528139 ATATGTGTTT
* * *
31528149 TAGTGTAAGACATGTCTAGGACATGCATCGGCCAC-ATTACGA-G--AGC
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GA-GATGCAAGC
*
31528195 TAGTGTAAGACATGTCCGGGACATGCATCGGCCTCGAGAGATGCAAGC
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAGATGCAAGC
* * * * * *
31528243 CAATGTAAGACATGTCTGGGACATGCATTGACATTGAGACGA-G--AGC
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGA-GATGCAAGC
* * *
31528289 TAGTGTAAGACATGTCTAGGACATGCACCAGCCTCGAGAGATGCAAGC
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAGATGCAAGC
* * *
31528337 CAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGC
1 TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAGATGCAAGC
* *
31528385 TACTGTAAGACCTGTCTGGGACATG
1 TAGTGTAAGACATGTCTGGGACATG
31528410 GCGTCAGCTT
Statistics
Matches: 178, Mismatches: 29, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
45 4 0.02
46 68 0.38
47 1 0.01
48 103 0.58
49 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (48 bp):
TAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAGATGCAAGC
Found at i:31528313 original size:94 final size:93
Alignment explanation
Indices: 31528152--31528368 Score: 321
Period size: 94 Copynumber: 2.3 Consensus size: 93
31528142 TGTGTTTTAG
* *
31528152 TGTAAGACATGTCTAGGACATGCATCGGCCACATTACGAGAGCTAGTGTAAGACATGTCCGGGAC
1 TGTAAGACATGTCTGGGACATGCATCGG-CACATTACGAGAGCTAGTGTAAGACATGTCCAGGAC
* *
31528217 ATGCATCGGCCTCGAGAGATGCAAGCCAA
65 ATGCACCAGCCTCGAGAGATGCAAGCCAA
* *
31528246 TGTAAGACATGTCTGGGACATGCAT-TG-ACATTGAGACGAGAGCTAGTGTAAGACATGTCTAGG
1 TGTAAGACATGTCTGGGACATGCATCGGCACATT---ACGAGAGCTAGTGTAAGACATGTCCAGG
*
31528309 ACATGCACCAGCCTCGAGAGATGCAAGCCAG
63 ACATGCACCAGCCTCGAGAGATGCAAGCCAA
31528340 TGTAAGACATGTCTGGGACATGCATCGGC
1 TGTAAGACATGTCTGGGACATGCATCGGC
31528369 CTCGAGATAT
Statistics
Matches: 110, Mismatches: 8, Indels: 8
0.87 0.06 0.06
Matches are distributed among these distances:
91 5 0.05
93 1 0.01
94 103 0.94
95 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (93 bp):
TGTAAGACATGTCTGGGACATGCATCGGCACATTACGAGAGCTAGTGTAAGACATGTCCAGGACA
TGCACCAGCCTCGAGAGATGCAAGCCAA
Found at i:31528403 original size:142 final size:140
Alignment explanation
Indices: 31528149--31528409 Score: 373
Period size: 142 Copynumber: 1.9 Consensus size: 140
31528139 ATATGTGTTT
* * * *
31528149 TAGTGTAAGACATGTCTAGGACATGCATCGGCCACATTACGAGAGCTAGTGTAAGACATGTCCGG
1 TAGTGTAAGACATGTCTAGGACATGCACCAGCCACATGACGAGAGCCAGTGTAAGACATGTCCGG
*
31528214 GACATGCATCGGCCTCGAGAGATGCAAGCCAATGTAAGACATGTCTGGGACATGCATTGACATTG
66 GACATGCATCGGCCTCGAGAGATACAAGCCAATGTAAGACATGTCTGGGACATGCATTGACATTG
31528279 AGACGAGAGC
131 AGACGAGAGC
*
31528289 TAGTGTAAGACATGTCTAGGACATGCACCAGCCTCGA-GA-GATGCAAGCCAGTGTAAGACATGT
1 TAGTGTAAGACATGTCTAGGACATGCACCAGCCAC-ATGACGA-G--AGCCAGTGTAAGACATGT
* * * * *
31528352 CTGGGACATGCATCGGCCTCGAGATATACAAGCTACTGTAAGACCTGTCTGGGACATG
62 CCGGGACATGCATCGGCCTCGAGAGATACAAGCCAATGTAAGACATGTCTGGGACATG
31528410 GCGTCAGCTT
Statistics
Matches: 106, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
139 2 0.02
140 34 0.32
141 1 0.01
142 69 0.65
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (140 bp):
TAGTGTAAGACATGTCTAGGACATGCACCAGCCACATGACGAGAGCCAGTGTAAGACATGTCCGG
GACATGCATCGGCCTCGAGAGATACAAGCCAATGTAAGACATGTCTGGGACATGCATTGACATTG
AGACGAGAGC
Found at i:31528531 original size:49 final size:49
Alignment explanation
Indices: 31528150--31528549 Score: 208
Period size: 48 Copynumber: 8.4 Consensus size: 49
31528140 TATGTGTTTT
* * * * *
31528150 AGTGTAAGACATGTCTAGGACAT-GCATCGGCCAC-AT-TACGAGAG-C
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTC
* * * * * *
31528195 TAGTGTAAGACATGTCCGGGACAT-GCATCGGCCTCGAGAGATGCAAGCC
1 -AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTC
* * * * * * * * *
31528244 AATGTAAGACATGTCTGGGACAT-GCATTGACATTG--AGACGAGAG-C
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTC
* * * * * * * *
31528289 TAGTGTAAGACATGTCTAGGACAT-GCACCAGCCTCGAGAGATGCAAGCC
1 -AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTC
* *
31528338 AGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGATAT-ACAAG-C
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGA-AAGTC
* * * * * *
31528385 TACTGTAAGACCTGTCTGGGACATGGCGTCAG-CTTG-T-TGTG--TGTC
1 -AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTC
* * * * * *
31528430 AGTGTAAGACCTGTTTGGGACATGGCATTGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGC-CTCGATATATGAAAGTC
* * *
31528479 AGTGTAAGACCTGTCTGGGATATGACATCGGCCTTGATATATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTC
*
31528528 AGTGTAAGGCCTGTCTGGGACA
1 AGTGTAAGACCTGTCTGGGACA
31528550 CGGTATCAAC
Statistics
Matches: 272, Mismatches: 63, Indels: 35
0.74 0.17 0.09
Matches are distributed among these distances:
44 26 0.10
45 3 0.01
46 68 0.25
47 4 0.01
48 104 0.38
49 67 0.25
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTC
Found at i:31530446 original size:50 final size:50
Alignment explanation
Indices: 31530326--31530646 Score: 362
Period size: 50 Copynumber: 6.5 Consensus size: 50
31530316 TATGTTCTAC
** * * *
31530326 ACATGGTCTTACACTGGCTCAAACATCA---AAGTCGACGCTATGTCCCAG
1 ACATGGTCTTACACTGGCTCTCACAT-ATTGAAGCCGATGCCATGTCCCAG
* * * * *
31530374 ACATGGTCTTACACTGACTCTCACGTATAGAGGCCAATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTCTCACATATTGAAGCCGATGCCATGTCCCAG
* * * * *
31530424 ACATGATCATACACTGGTTCTCACATATTGAAGCCGATGGCATTTCCCAG
1 ACATGGTCTTACACTGGCTCTCACATATTGAAGCCGATGCCATGTCCCAG
*
31530474 ACATGGTCTTACACTGGCTCTCACATATTGAAGCTGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTCTCACATATTGAAGCCGATGCCATGTCCCAG
* * *
31530524 ACATGGTCTTACATTGGTTCTCACATATTGAAGTCGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTCTCACATATTGAAGCCGATGCCATGTCCCAG
* * * ** *
31530574 ACATGGTCTTGCACTGGCTCTC-CTCTATCGGTGCCGATGCCATGTCCCAA
1 ACATGGTCTTACACTGGCTCTCAC-ATATTGAAGCCGATGCCATGTCCCAG
*
31530624 ACATGGTCTTACACTGGCACTCA
1 ACATGGTCTTACACTGGCTCTCA
31530647 TATAACCCTA
Statistics
Matches: 228, Mismatches: 40, Indels: 7
0.83 0.15 0.03
Matches are distributed among these distances:
47 1 0.00
48 22 0.10
49 1 0.00
50 204 0.89
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.27
Consensus pattern (50 bp):
ACATGGTCTTACACTGGCTCTCACATATTGAAGCCGATGCCATGTCCCAG
Found at i:31534172 original size:38 final size:38
Alignment explanation
Indices: 31534123--31534195 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
31534113 TGATATGAAA
31534123 TGTGTAAGACCATAGTTGAAAGATACCATGGCAACCTG
1 TGTGTAAGACCATAGTTGAAAGATACCATGGCAACCTG
*
31534161 TGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 TGTGTAAGACCATAGTTGAAAGATACCATGGCAAC
31534196 ATGACAGAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (38 bp):
TGTGTAAGACCATAGTTGAAAGATACCATGGCAACCTG
Found at i:31534403 original size:46 final size:46
Alignment explanation
Indices: 31534316--31534404 Score: 117
Period size: 46 Copynumber: 1.9 Consensus size: 46
31534306 AGGTAAAATG
* *
31534316 TGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGACATGAAAAGAATAAGACCATAGTTGAAAGACACCATGGCAACA
* * *
31534362 TGACA-GAAAATGAGTAAGACCATAGTTGAACGACACTATGGCA
1 TGACATGAAAA-GAATAAGACCATAGTTGAAAGACACCATGGCA
31534405 TCACGTCAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
45 5 0.14
46 32 0.86
ACGTcount: A:0.44, C:0.16, G:0.22, T:0.18
Consensus pattern (46 bp):
TGACATGAAAAGAATAAGACCATAGTTGAAAGACACCATGGCAACA
Found at i:31534437 original size:165 final size:165
Alignment explanation
Indices: 31534165--31534481 Score: 634
Period size: 165 Copynumber: 1.9 Consensus size: 165
31534155 AACCTGTGTG
31534165 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAACGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAACGA
31534230 CACTATGGCATCACGTCAAAGATAAATAAGACCGTGGATGGGAGACGCTATAACATCTGTTGAAC
66 CACTATGGCATCACGTCAAAGATAAATAAGACCGTGGATGGGAGACGCTATAACATCTGTTGAAC
31534295 AATTGATATTCAGGTAAAATGTGACATGAAAAGAA
131 AATTGATATTCAGGTAAAATGTGACATGAAAAGAA
31534330 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAACGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAACGA
31534395 CACTATGGCATCACGTCAAAGATAAATAAGACCGTGGATGGGAGACGCTATAACATCTGTTGAAC
66 CACTATGGCATCACGTCAAAGATAAATAAGACCGTGGATGGGAGACGCTATAACATCTGTTGAAC
31534460 AATTGATATTCAGGTAAAATGT
131 AATTGATATTCAGGTAAAATGT
31534482 ATCAGATGAC
Statistics
Matches: 152, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
165 152 1.00
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.22
Consensus pattern (165 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAACGA
CACTATGGCATCACGTCAAAGATAAATAAGACCGTGGATGGGAGACGCTATAACATCTGTTGAAC
AATTGATATTCAGGTAAAATGTGACATGAAAAGAA
Found at i:31534710 original size:23 final size:25
Alignment explanation
Indices: 31534665--31534711 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
31534655 AATAAATATA
*
31534665 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
31534690 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
31534712 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:31541796 original size:100 final size:100
Alignment explanation
Indices: 31541669--31541895 Score: 312
Period size: 100 Copynumber: 2.3 Consensus size: 100
31541659 ACGTTAAAGT
* * * * *
31541669 CGATGCCATGTCCCAGACATGGTCTTACATTGACTCTCACATATCGAGGCTGATGCCATGTTCTA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACATATCGAAGCCGATGCCATATCCTA
31541734 GACATGGTCTTACACTAGCTCTCA-CATATTGAAGC
66 GACATGGTCTTACACTAGCTCTCATC-TATTGAAGC
* * * *
31541769 CGATGCCATGTCTCAGACATGGTCTTACACTGGCTCTCACATATTGAAGCCGATGGCATATCCTA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACATATCGAAGCCGATGCCATATCCTA
* * * **
31541834 GACATGGTCTTGCATTGGCTCTCATCTATTGGTGC
66 GACATGGTCTTACACTAGCTCTCATCTATTGAAGC
31541869 CGATGCCATGTCCCAGACATGGTCTTA
1 CGATGCCATGTCCCAGACATGGTCTTA
31541896 GACTAGAACT
Statistics
Matches: 111, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
100 110 0.99
101 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.30
Consensus pattern (100 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACATATCGAAGCCGATGCCATATCCTA
GACATGGTCTTACACTAGCTCTCATCTATTGAAGC
Found at i:31541874 original size:150 final size:148
Alignment explanation
Indices: 31541625--31541901 Score: 342
Period size: 150 Copynumber: 1.9 Consensus size: 148
31541615 AGATGTTGAC
* * * * * *
31541625 GCCATGTCCCGGATATGGTCTTACACTGGTTCATACGTTAAAGTCGATGCCATGTCCCAGACATG
1 GCCATGTCCCAGACATGGTCTTACACTGGTTCACACATTAAAGCCGATGCCATATCCCAGACATG
* * *
31541690 GTCTTACATTGACTCTCACATATCGAGGCTGATGCCATGTTCTAGACATGGTCTTACACTAGCTC
66 GTCTTACATTGACTCTCACATATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC
31541755 TCACATATTGAAGCCGAT
131 TCACATATTGAAGCCGAT
* * * * *
31541773 GCCATGTCTCAGACATGGTCTTACACTGGCTCTCACATATTGAAGCCGATGGCATATCCTAGACA
1 GCCATGTCCCAGACATGGTCTTACACTGG-T-TCACACATTAAAGCCGATGCCATATCCCAGACA
* * * *
31541838 TGGTCTTGCATTGGCTCTCATC-TATTG-GTGCCGATGCCATGTCCCAGACATGGTCTTAGACTA
64 TGGTCTTACATTGACTCTCA-CATATCGAG-GCCGATGCCATGTCCCAGACATGGTCTTACACTA
31541901 G
127 G
31541902 AACTCATATA
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
148 26 0.24
149 2 0.02
150 78 0.73
151 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (148 bp):
GCCATGTCCCAGACATGGTCTTACACTGGTTCACACATTAAAGCCGATGCCATATCCCAGACATG
GTCTTACATTGACTCTCACATATCGAGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC
TCACATATTGAAGCCGAT
Found at i:31541908 original size:50 final size:50
Alignment explanation
Indices: 31541625--31541901 Score: 283
Period size: 50 Copynumber: 5.6 Consensus size: 50
31541615 AGATGTTGAC
* * * * ** * *
31541625 GCCATGTCCCGGATATGGTCTTACACT-GGT-TCATACGTTAAAGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATTGAAGCCGAT
* * * *
31541673 GCCATGTCCCAGACATGGTCTTACA-TTGACTCTCACATATCGAGGCTGAT
1 GCCATGTCCCAGACATGGTCTTACACTAG-CTCTCACATATTGAAGCCGAT
* *
31541723 GCCATGTTCTAGACATGGTCTTACACTAGCTCTCACATATTGAAGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATTGAAGCCGAT
* *
31541773 GCCATGTCTCAGACATGGTCTTACACTGGCTCTCACATATTGAAGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATTGAAGCCGAT
* * * * * * **
31541823 GGCATATCCTAGACATGGTCTTGCATTGGCTCTCATC-TATTGGTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAGCTCTCA-CATATTGAAGCCGAT
*
31541873 GCCATGTCCCAGACATGGTCTTAGACTAG
1 GCCATGTCCCAGACATGGTCTTACACTAG
31541902 AACTCATATA
Statistics
Matches: 188, Mismatches: 36, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
47 1 0.01
48 24 0.13
49 1 0.01
50 159 0.85
51 3 0.02
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATTGAAGCCGAT
Found at i:31548425 original size:18 final size:18
Alignment explanation
Indices: 31548385--31548437 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
31548375 CAGTTACTCT
* * *
31548385 ATAATAGTCAGTTATACA
1 ATAACAGTCAATTATTCA
*
31548403 ATAACAGTCATTTATTCA
1 ATAACAGTCAATTATTCA
* *
31548421 GTAACGGTCAATTATTC
1 ATAACAGTCAATTATTC
31548438 CGTAGCAAAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (18 bp):
ATAACAGTCAATTATTCA
Found at i:31554666 original size:30 final size:30
Alignment explanation
Indices: 31554632--31554704 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
31554622 TGGTTGCTCT
* *
31554632 AGGTGATATGAACACAAAGTGTCCATGTCC
1 AGGTGATATGAACACAAACTGCCCATGTCC
* *
31554662 AGGTGATATAAACTCAAACTGCCCATGTCC
1 AGGTGATATGAACACAAACTGCCCATGTCC
*
31554692 GGGTGATATGAAC
1 AGGTGATATGAAC
31554705 TACTTTGCAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (30 bp):
AGGTGATATGAACACAAACTGCCCATGTCC
Found at i:31557391 original size:24 final size:24
Alignment explanation
Indices: 31557339--31557394 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
31557329 AAAAGGCATA
* *
31557339 GTTATTTTAACAAGTAAATGCTTT
1 GTTATTTTAACAAATAAATGATTT
*
31557363 GTTATTTTAACAAATAAATTATTT
1 GTTATTTTAACAAATAAATGATTT
*
31557387 TTTATTTT
1 GTTATTTT
31557395 TTTCCAATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.54
Consensus pattern (24 bp):
GTTATTTTAACAAATAAATGATTT
Found at i:31557457 original size:23 final size:20
Alignment explanation
Indices: 31557416--31557462 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 20
31557406 TTCAACTTTC
31557416 ATTTTTTTCTCATTTTTTTT
1 ATTTTTTTCTCATTTTTTTT
31557436 ATTTTTTATCCTCTATTTTTTTT
1 ATTTTTT-T-CTC-ATTTTTTTT
31557459 ATTT
1 ATTT
31557463 CTATTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 7 0.29
21 1 0.04
22 3 0.12
23 13 0.54
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.77
Consensus pattern (20 bp):
ATTTTTTTCTCATTTTTTTT
Found at i:31557682 original size:26 final size:26
Alignment explanation
Indices: 31557653--31557705 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
31557643 TAAAAATAAT
*
31557653 AATAAAATAA-AGAAAAAGGACAAAAA
1 AATAAAAAAACAGAAAAAGGA-AAAAA
31557679 AATAAAAAAACAGAAAAAGGAAAAAA
1 AATAAAAAAACAGAAAAAGGAAAAAA
31557705 A
1 A
31557706 TGAAAAACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.79, C:0.04, G:0.11, T:0.06
Consensus pattern (26 bp):
AATAAAAAAACAGAAAAAGGAAAAAA
Found at i:31557686 original size:9 final size:9
Alignment explanation
Indices: 31557637--31557726 Score: 51
Period size: 8 Copynumber: 9.8 Consensus size: 9
31557627 AAAATATTAT
31557637 AAAAAATAA
1 AAAAAATAA
*
31557646 AAATAAT-A
1 AAAAAATAA
*
31557654 ATAAAATAA
1 AAAAAATAA
*
31557663 AGAAAAAGGACA
1 A-AAAAA-TA-A
31557675 AAAAAAT-A
1 AAAAAATAA
*
31557683 AAAAAA-CA
1 AAAAAATAA
* **
31557691 GAAAAAGGA
1 AAAAAATAA
31557700 AAAAAATGAA
1 AAAAAAT-AA
31557710 AAACAAATAA
1 AAA-AAATAA
31557720 AAAAAAT
1 AAAAAAT
31557727 CAGAAAAAGG
Statistics
Matches: 62, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
8 19 0.31
9 18 0.29
10 13 0.21
11 10 0.16
12 2 0.03
ACGTcount: A:0.79, C:0.03, G:0.08, T:0.10
Consensus pattern (9 bp):
AAAAAATAA
Found at i:31557686 original size:27 final size:25
Alignment explanation
Indices: 31557656--31557722 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 25
31557646 AAATAATAAT
*
31557656 AAAATAAAGAAAAAGGACAAAAAAAT-
1 AAAAAAAAGAAAAAGG--AAAAAAATG
31557682 AAAAAAACAGAAAAAGGAAAAAAATG
1 AAAAAAA-AGAAAAAGGAAAAAAATG
*
31557708 AAAAACAAATAAAAA
1 AAAAA-AAAGAAAAA
31557723 AAATCAGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
25 8 0.22
26 17 0.47
27 11 0.31
ACGTcount: A:0.79, C:0.04, G:0.10, T:0.06
Consensus pattern (25 bp):
AAAAAAAAGAAAAAGGAAAAAAATG
Found at i:31557733 original size:38 final size:36
Alignment explanation
Indices: 31557665--31557737 Score: 103
Period size: 36 Copynumber: 2.0 Consensus size: 36
31557655 TAAAATAAAG
31557665 AAAAAGGACAAAAAAATAAAAAAACAGAAAAAGGAA
1 AAAAAGGACAAAAAAATAAAAAAACAGAAAAAGGAA
*
31557701 AAAAATGA-AAAACAAATAAAAAAAATCAGAAAAAGGA
1 AAAAAGGACAAAA-AAAT-AAAAAAA-CAGAAAAAGGA
31557738 CCATAGGCCC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
35 4 0.12
36 11 0.33
37 7 0.21
38 11 0.33
ACGTcount: A:0.77, C:0.05, G:0.12, T:0.05
Consensus pattern (36 bp):
AAAAAGGACAAAAAAATAAAAAAACAGAAAAAGGAA
Found at i:31566321 original size:40 final size:40
Alignment explanation
Indices: 31566262--31566363 Score: 129
Period size: 40 Copynumber: 2.6 Consensus size: 40
31566252 TATTCGAATG
* * *
31566262 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTA-TTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
31566302 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
*
31566342 ATATCC-AGCTAA-ATCCCGAAGG
1 ATATCCGGGCTAAGA-CCCGAAGG
31566364 TACTTGGGTT
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 13 0.23
40 39 0.70
41 3 0.05
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
Found at i:31580169 original size:26 final size:26
Alignment explanation
Indices: 31580140--31580246 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
31580130 TGGTACAAAT
*
31580140 TGATAATGGGTAAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
31580166 TGATAAT-GGATAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
31580191 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
31580217 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
31580243 TGAT
1 TGAT
31580247 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
25 22 0.30
26 52 0.70
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:31580200 original size:51 final size:52
Alignment explanation
Indices: 31580140--31580246 Score: 180
Period size: 51 Copynumber: 2.1 Consensus size: 52
31580130 TGGTACAAAT
31580140 TGATAATGGGTAAGGTAAATGTTCCATGATAATGG-ATAGGTAAATATTCCA
1 TGATAATGGGTAAGGTAAATGTTCCATGATAATGGTATAGGTAAATATTCCA
* * *
31580191 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTAAGGTAAATGTTCCATGATAATGGTATAGGTAAATATTCCA
31580243 TGAT
1 TGAT
31580247 GGGCATTTCA
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
51 34 0.65
52 18 0.35
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.35
Consensus pattern (52 bp):
TGATAATGGGTAAGGTAAATGTTCCATGATAATGGTATAGGTAAATATTCCA
Found at i:31597592 original size:15 final size:15
Alignment explanation
Indices: 31597572--31597601 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
31597562 AATTACCTTT
31597572 TTTTCTTTCTTGTCA
1 TTTTCTTTCTTGTCA
31597587 TTTTCTTTCTTGTCA
1 TTTTCTTTCTTGTCA
31597602 ATAGTATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.20, G:0.07, T:0.67
Consensus pattern (15 bp):
TTTTCTTTCTTGTCA
Found at i:31600120 original size:23 final size:23
Alignment explanation
Indices: 31600090--31600134 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
31600080 AAATTTAGAA
31600090 TCACGTTTTGTTTTAGGTAAAGG
1 TCACGTTTTGTTTTAGGTAAAGG
31600113 TCACGTTTTGTTTTAGGTAAAG
1 TCACGTTTTGTTTTAGGTAAAG
31600135 ACTAACCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.09, G:0.24, T:0.44
Consensus pattern (23 bp):
TCACGTTTTGTTTTAGGTAAAGG
Found at i:31600873 original size:26 final size:26
Alignment explanation
Indices: 31600842--31600949 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
31600832 ATCCATAAAT
*
31600842 TGATAATGTGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
31600868 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
31600894 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
31600920 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
31600946 TGAT
1 TGAT
31600950 GGAAATTTTA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:31604422 original size:14 final size:14
Alignment explanation
Indices: 31604405--31604432 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
31604395 TACCTTTATA
31604405 AACAAAAATTTTGG
1 AACAAAAATTTTGG
31604419 AACAAAAATTTTGG
1 AACAAAAATTTTGG
31604433 TTGAAATAAT
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:0.50, C:0.07, G:0.14, T:0.29
Consensus pattern (14 bp):
AACAAAAATTTTGG
Found at i:31606909 original size:47 final size:48
Alignment explanation
Indices: 31606844--31607110 Score: 189
Period size: 47 Copynumber: 5.7 Consensus size: 48
31606834 TTTGTGTGCT
31606844 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
* *** * * *
31606890 AGTGTAAGACCATGTCTGGGACATGGCAGCGGCGTTGA-AACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CACATTATGAGAGCC
* * * * * * *
31606938 AGTATAAGA-CTTGTTTGGGACAT-GCATCGGCTAC--GA-GATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGA-GAGCC
* * * * *
31606982 AGTGTAAGATCATGTCTGGGACATGGCGTCGGCCTCGATT-TCGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATTAT-GAGAGCC
* * *
31607031 AGTGTAAGACCATGTCCGGGACATGGCATC-G--ACTTTAGGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTA-TGA-GAGCC
*
31607078 AGTGTAAGACCATGTTTGGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
31607111 ATTCTACCCC
Statistics
Matches: 169, Mismatches: 36, Indels: 29
0.72 0.15 0.12
Matches are distributed among these distances:
43 2 0.01
44 11 0.07
45 15 0.09
46 27 0.16
47 57 0.34
48 24 0.14
49 31 0.18
50 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
Found at i:31607094 original size:141 final size:139
Alignment explanation
Indices: 31606844--31607110 Score: 335
Period size: 141 Copynumber: 1.9 Consensus size: 139
31606834 TTTGTGTGCT
*
31606844 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCCGG
* * *
31606909 GACATGGCAGCGGCGTTGAAACGAGAGCTAGTATAAGACTTGTTTGGGACAT-GCATCGGCTACG
66 GACATGGCAGCGACGTTGAAACGAGAGCCAGTATAAGACATGTTTGGGACATGGCATCGGCTACG
31606973 AGATGTGTC
131 AGATGTGTC
* * * *
31606982 AGTGTAAGATCATGTCTGGGACATGGCGTCGGCCTCGATT-TCGATAGTCAGTGTAAGACCATGT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-ATTAT-GAGAGCCAGTGTAAGACCATGT
* * ** *
31607046 CCGGGACATGGCATCGAC-TT-TAGGGATGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCG
62 CCGGGACATGGCAGCGACGTTGAAACGA-GAGCCAGTATAAGA-CATGTTTGGGACATGGCATCG
31607109 GC
125 GC
31607111 ATTCTACCCC
Statistics
Matches: 109, Mismatches: 13, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
138 9 0.08
139 17 0.16
140 24 0.22
141 51 0.47
142 8 0.07
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.24
Consensus pattern (139 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCCGG
GACATGGCAGCGACGTTGAAACGAGAGCCAGTATAAGACATGTTTGGGACATGGCATCGGCTACG
AGATGTGTC
Found at i:31610709 original size:27 final size:27
Alignment explanation
Indices: 31610678--31610751 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 27
31610668 ATATGAATGA
* *
31610678 AAAGTGGTACTTCGATG-TAATATAGTG
1 AAAGTGGCACTTCGATGCAAAT-TAGTG
*
31610705 AAAGTGGCACTTCGGTGCAAATTAGTG
1 AAAGTGGCACTTCGATGCAAATTAGTG
*
31610732 AAAGTGGCACTTCAATGCAA
1 AAAGTGGCACTTCGATGCAA
31610752 CTGATAGTGA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
27 38 0.93
28 3 0.07
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.27
Consensus pattern (27 bp):
AAAGTGGCACTTCGATGCAAATTAGTG
Found at i:31617594 original size:37 final size:36
Alignment explanation
Indices: 31617527--31617602 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
31617517 GATAATCACT
31617527 TTAATATTAAATTAATAAAATACTAATAAAATAATTA
1 TTAATATTAAATTAATAAAATACTAATAAAATAA-TA
* *
31617564 TTAA-ATTAAATTTAATATTAA-ACTATTAAAATAATA
1 TTAATATTAAA-TTAATA-AAATACTAATAAAATAATA
31617600 TTA
1 TTA
31617603 TTTCTGGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 11 0.31
37 22 0.63
38 2 0.06
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (36 bp):
TTAATATTAAATTAATAAAATACTAATAAAATAATA
Found at i:31619239 original size:15 final size:15
Alignment explanation
Indices: 31619215--31619245 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
31619205 TATGCATGCA
*
31619215 AAATATAAAAGACAT
1 AAATACAAAAGACAT
31619230 AAATACAAAAGACAT
1 AAATACAAAAGACAT
31619245 A
1 A
31619246 GTAGTGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.68, C:0.10, G:0.06, T:0.16
Consensus pattern (15 bp):
AAATACAAAAGACAT
Found at i:31622877 original size:17 final size:17
Alignment explanation
Indices: 31622855--31622890 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
31622845 TAGAATTGGG
*
31622855 TTGAGAAATTTATTTAT
1 TTGAGAAATTAATTTAT
31622872 TTGAGAAATTAATTTAT
1 TTGAGAAATTAATTTAT
31622889 TT
1 TT
31622891 AAATTAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (17 bp):
TTGAGAAATTAATTTAT
Found at i:31623164 original size:268 final size:265
Alignment explanation
Indices: 31622485--31623275 Score: 1211
Period size: 262 Copynumber: 3.0 Consensus size: 265
31622475 AAATGGATTT
* *
31622485 AAATTAATTGGTTATGGTGAATCCAATTTAATGT-AAAAAATTAAATATATTTTCTCATAGATTC
1 AAATTAATTGGTTATTGTGAATCTAATTTAATGTAAAAAAATTAAATATATTTTCTCATAGATTC
* *
31622549 TTTTATGGTAAAGTTTCCAAAATTTTAACAGAATTAGAATTAGGTTGAGAAAATTATTTATTTGA
66 TTTTATGGTAAAGTTT-TATAATTTTAACAGAATTAGAATT-GGTTGAGAAAATTATTTATTTGA
*
31622614 TAAATTAATTTATTTAAATTAATTGAGCAGATAATATTTAATTTGGGAAATAGAAAAAACATGTA
129 TAAATTAATTTATTTAAATTAATTGAGCAAATAATATTTAATTTGGGAAATAGAAAAAACATGTA
* *
31622679 TTGGGTTGGAATAAATTATAAAGTGTTGGGTTAAAG-TCTAAGAAGTACATATGATTGGATCCAG
194 TTGGGTTGGAATAAATTATAGAGTGTTGGGTTAAAGTTC-AAGAAGTACATATAATTGGATCCAG
31622743 TACAGGAA
258 TACAGGAA
* * *
31622751 AAAATAATTGGTTATTGTGAAT-TAATGT-A---AAAAAAATTAAATATATTTTCTCATAAATTC
1 AAATTAATTGGTTATTGTGAATCTAATTTAATGTAAAAAAATTAAATATATTTTCTCATAGATTC
* *
31622811 TTTTATGGTAAAGTTTTCATTATTTTAACAGAATTAGAATTGGGTTGAGAAATTTATTTATTTGA
66 TTTTATGGTAAAGTTTT-ATAATTTTAACAGAATTAGAATT-GGTTGAGAAAATTATTTATTTGA
* *
31622876 GAAATTAATTTATTTAAATTAATTGAGAAAATAATATTTAATTTGGGAAATAGAAAAAACATGTA
129 TAAATTAATTTATTTAAATTAATTGAGCAAATAATATTTAATTTGGGAAATAGAAAAAACATGTA
*
31622941 TTGAGTTGGAATAAATTATAGAGTGTTGGGTTAAAGTTCAAGAAGTACATATAATTGGATCCAGT
194 TTGGGTTGGAATAAATTATAGAGTGTTGGGTTAAAGTTCAAGAAGTACATATAATTGGATCCAGT
31623006 ACAGGAA
259 ACAGGAA
*
31623013 AAATTTAATTGGTTATTGTGAATCTAATTTAATGTAAAAAAATTAGATATATTTTCTCATAGATT
1 AAA-TTAATTGGTTATTGTGAATCTAATTTAATGTAAAAAAATTAAATATATTTTCTCATAGATT
*
31623078 CTTTTATGGTAAAGTTGTTATAATTTTAACAGAATTAGAATTGGATTGAGAAAACTATTTATTTG
65 CTTTTATGGTAAAGTT-TTATAATTTTAACAGAATTAGAATTGG-TTGAGAAAATTATTTATTTG
* **
31623143 ATAAATTAATTTATTTAAATTAATTGATCAAATAATATTTAATTTGAAAAATAGAAAAAAAACAT
128 ATAAATTAATTTATTTAAATTAATTGAGCAAATAATATTTAATTTGGGAAATAG--AAAAAACAT
* * * * *
31623208 GTATTGGGTTGGAATAAA-TATAGTGTGTTGGGTTAAAATCCAAGAAGTATATATAATTGGACCC
191 GTATTGGGTTGGAATAAATTATAGAGTGTTGGGTTAAAGTTCAAGAAGTACATATAATTGGATCC
31623272 AGTA
256 AGTA
31623276 TAGCAAAGAC
Statistics
Matches: 478, Mismatches: 34, Indels: 23
0.89 0.06 0.04
Matches are distributed among these distances:
262 219 0.46
263 20 0.04
264 6 0.01
265 5 0.01
266 20 0.04
267 2 0.00
268 133 0.28
269 47 0.10
270 26 0.05
ACGTcount: A:0.41, C:0.05, G:0.16, T:0.38
Consensus pattern (265 bp):
AAATTAATTGGTTATTGTGAATCTAATTTAATGTAAAAAAATTAAATATATTTTCTCATAGATTC
TTTTATGGTAAAGTTTTATAATTTTAACAGAATTAGAATTGGTTGAGAAAATTATTTATTTGATA
AATTAATTTATTTAAATTAATTGAGCAAATAATATTTAATTTGGGAAATAGAAAAAACATGTATT
GGGTTGGAATAAATTATAGAGTGTTGGGTTAAAGTTCAAGAAGTACATATAATTGGATCCAGTAC
AGGAA
Found at i:31625940 original size:35 final size:35
Alignment explanation
Indices: 31625901--31625999 Score: 182
Period size: 35 Copynumber: 2.9 Consensus size: 35
31625891 TATTTCTGTT
31625901 GGACTAGCTCTTATGAGCATTGGTGTGTTTCAGAG
1 GGACTAGCTCTTATGAGCATTGGTGTGTTTCAGAG
*
31625936 GGACTAGCTCTTATGAGAATTGGTGTGTTTCAGAG
1 GGACTAGCTCTTATGAGCATTGGTGTGTTTCAGAG
31625971 GGACTAGCTCTTAT-AGCATTGGTGTGTTT
1 GGACTAGCTCTTATGAGCATTGGTGTGTTT
31626000 TGGAGTGGTT
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
34 14 0.23
35 48 0.77
ACGTcount: A:0.20, C:0.13, G:0.30, T:0.36
Consensus pattern (35 bp):
GGACTAGCTCTTATGAGCATTGGTGTGTTTCAGAG
Found at i:31627413 original size:48 final size:47
Alignment explanation
Indices: 31627297--31627511 Score: 206
Period size: 46 Copynumber: 4.6 Consensus size: 47
31627287 TGATATGTGT
* * * * * *
31627297 GCTAGTGTAACACATGTCTGGGACATGCATTGGCCAC-ATAT-TGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATAT-ACA
* * *
31627343 GCCAGTGTAATACAAGTCTGGGACATGCATCGACCTCGAGATATACCA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATATA-CA
* * *
31627391 GTTAGTGTAAGACATGTCTGGGACATGCATC-AGCATCGAGATGAGA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGA-CCTCGAGAT-ATACA
* *
31627438 -CTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATATAC-A
* *
31627485 GCTACTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
31627512 GCATTGATAC
Statistics
Matches: 139, Mismatches: 21, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
45 2 0.01
46 67 0.48
47 7 0.05
48 61 0.44
49 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGAGATATACA
Found at i:31627456 original size:94 final size:94
Alignment explanation
Indices: 31627297--31627511 Score: 272
Period size: 94 Copynumber: 2.3 Consensus size: 94
31627287 TGATATGTGT
* ** * * *
31627297 GCTAGTGTAACACATGTCTGGGACATGCATTGGCCACATATTGAGAGCCAGTGTAATACAAGTCT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGATTGAGAACCAGTGTAAGACAAGTCT
*
31627362 GGGACATGCATCGACCTCGAGATATACCA
66 GGGACATGCATCGACCTCGAGATATACAA
* * *
31627391 GTTAGTGTAAGACATGTCTGGGACATGCATCAG-CATCGAGA-TGAGAACTAGTGTAAGACATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCA-C-AGATTGAGAACCAGTGTAAGACAAGT
* *
31627454 CTGGGACATGCATTGGCCTCGAGATATACAA
64 CTGGGACATGCATCGACCTCGAGATATACAA
* *
31627485 GCTACTGTAAGACCTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
31627512 GCATTGATAC
Statistics
Matches: 104, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
93 2 0.02
94 100 0.96
95 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACAGATTGAGAACCAGTGTAAGACAAGTCT
GGGACATGCATCGACCTCGAGATATACAA
Found at i:31627547 original size:49 final size:49
Alignment explanation
Indices: 31627492--31627663 Score: 156
Period size: 49 Copynumber: 3.5 Consensus size: 49
31627482 CAAGCTACTG
* *
31627492 TAAGACCTGTCTGGGACATGGCATTGATAC-CGATAGATGAAAGCCGGTA
1 TAAGACCTGTCTGGGACATGGCATCGA-ACTCGATAGATGAAAGCCAGTA
* * * * * * *
31627541 TAAGACCTGTCTAGGACACGGCATCGACCTCGATATATGGAAGTCAGTG
1 TAAGACCTGTCTGGGACATGGCATCGAACTCGATAGATGAAAGCCAGTA
* ** *
31627590 TAAGACCTGTCTGGGACATGGCATC-AACTTTGAT-G-TGTTAGCCA-AA
1 TAAGACCTGTCTGGGACATGGCATCGAAC-TCGATAGATGAAAGCCAGTA
31627636 GTAAGACCATGTCTGGGACATGGCATCG
1 -TAAGACC-TGTCTGGGACATGGCATCG
31627664 GCATCTTATC
Statistics
Matches: 99, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
47 13 0.13
48 21 0.21
49 65 0.66
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.24
Consensus pattern (49 bp):
TAAGACCTGTCTGGGACATGGCATCGAACTCGATAGATGAAAGCCAGTA
Found at i:31632440 original size:27 final size:27
Alignment explanation
Indices: 31632402--31632714 Score: 403
Period size: 27 Copynumber: 11.6 Consensus size: 27
31632392 TTAATTTACC
31632402 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
31632429 AAATCACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
31632456 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
31632483 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
31632510 AAATTACCAAAATACCTCTGATTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
31632537 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
31632564 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
31632591 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
31632618 AAATTATCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
31632645 AAATTACCAAAATACCCCTGATTTCTG
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
31632672 AAATTACTAAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*
31632699 AAATTACCAAAGTACC
1 AAATTACCAAAATACC
31632715 ATTGATTTAC
Statistics
Matches: 245, Mismatches: 39, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
26 4 0.02
27 240 0.98
28 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:31632471 original size:54 final size:54
Alignment explanation
Indices: 31632402--31632772 Score: 458
Period size: 54 Copynumber: 6.9 Consensus size: 54
31632392 TTAATTTACC
* *
31632402 AAATTACCAAAATACCCCTGGTTTGTAAAATCACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* *
31632456 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * *
31632510 AAATTACCAAAATACCTCTGATTTGTAAAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
*
31632564 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* * * * *
31632618 AAATTATCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGATTTCTG
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* ** * * * *
31632672 AAATTACTAAAATA-CCCTCGACTTGTAAAATTACCAAAGTACCATTGATTTACA
1 AAATTACCAAAATACCCCT-GGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
* *** * **
31632726 GAATTACCATTTTA-CCCTCGATTTACAAAATTACCAAAATACCCTTG
1 AAATTACCAAAATACCCCT-GGTTTGTAAAATTACCAAAATACCCTTG
31632773 TAGGGTAGAA
Statistics
Matches: 276, Mismatches: 40, Indels: 2
0.87 0.13 0.01
Matches are distributed among these distances:
53 4 0.01
54 272 0.99
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTATA
Found at i:31632539 original size:81 final size:81
Alignment explanation
Indices: 31632402--31632799 Score: 410
Period size: 81 Copynumber: 4.9 Consensus size: 81
31632392 TTAATTTACC
** * * * * *
31632402 AAATTACCAAAATACCCCTGGTTTGTAAAATCACTAAAATACCCTTGGTTTATAAAATCACCAAA
1 AAATTACCAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTTGATTTGTAAAATTACCAAA
*
31632467 ATACCCCTGGTTTGTA
66 ATACCCCTGGTTTATA
* *
31632483 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCTCTGATTTGTAAAATTACTAA
1 AAATTACCAAAATACCCCTGGTTTACAAAATTACCAAAATACCCT-TGATTTGTAAAATTACCAA
* *
31632547 AATACCCTTTGTTTATA
65 AATACCCCTGGTTTATA
** * *
31632564 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTATCAAA
1 AAATTACCAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTTGATTTGTAAAATTACCAAA
*
31632629 ATACCCCTGGTTTGTA
66 ATACCCCTGGTTTATA
* * * * *
31632645 AAATTACCAAAATACCCCTGATTT-CTGAAATTACTAAAATACCCTCGACTTGTAAAATTACCAA
1 AAATTACCAAAATACCCCTGGTTTAC-AAAATTACCAAAATACCCTTGATTTGTAAAATTACCAA
* ** * *
31632709 AGTACCATTGATTTACA
65 AATACCCCTGGTTTATA
* *** * **
31632726 GAATTACCATTTTA-CCCTCGATTTACAAAATTACCAAAATACCCTTG-TAGGGTAGAAA-TACC
1 AAATTACCAAAATACCCCT-GGTTTACAAAATTACCAAAATACCCTTGAT-TTGTA-AAATTACC
31632788 AAAATACCCCTG
63 AAAATACCCCTG
31632800 TAGGGTAGAA
Statistics
Matches: 262, Mismatches: 48, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
80 7 0.03
81 248 0.95
82 7 0.03
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTTGATTTGTAAAATTACCAAA
ATACCCCTGGTTTATA
Found at i:31632769 original size:27 final size:27
Alignment explanation
Indices: 31632402--31632770 Score: 336
Period size: 27 Copynumber: 13.7 Consensus size: 27
31632392 TTAATTTACC
31632402 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
* * * *
31632429 AAATCACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGGTTTGTA
*
31632456 AAATCACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
* **
31632483 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGGTTTGTA
*
31632510 AAATTACCAAAATA-CCTCTGATTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
* ** *
31632537 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCTCGGTTTGTA
31632564 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
*
31632591 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGGTTTGTA
*
31632618 AAATTATCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GGTTTGTA
* * *
31632645 AAATTACCAAAATACCC-CTGATTTCTG
1 AAATTACCAAAATACCCTC-GGTTTGTA
* **
31632672 AAATTACTAAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGGTTTGTA
* * * * **
31632699 AAATTACCAAAGTACCATTGATTTACA
1 AAATTACCAAAATACCCTCGGTTTGTA
* *** * **
31632726 GAATTACCATTTTACCCTCGATTTACA
1 AAATTACCAAAATACCCTCGGTTTGTA
31632753 AAATTACCAAAATACCCT
1 AAATTACCAAAATACCCT
31632771 TGTAGGGTAG
Statistics
Matches: 281, Mismatches: 52, Indels: 18
0.80 0.15 0.05
Matches are distributed among these distances:
26 3 0.01
27 274 0.98
28 4 0.01
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGGTTTGTA
Found at i:31632787 original size:27 final size:27
Alignment explanation
Indices: 31632754--31632920 Score: 217
Period size: 27 Copynumber: 6.2 Consensus size: 27
31632744 CGATTTACAA
*
31632754 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
*
31632781 AAATACCAAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
**
31632808 AATTACCGCAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * *
31632835 AATTATCACAATACCCCTGTAGGATAG
1 AATTACCAAAATACCCCTGTAGGGTAG
***
31632862 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * *
31632889 AATTACTAAAATACCCCTATAGGGTGG
1 AATTACCAAAATACCCCTGTAGGGTAG
31632916 AATTA
1 AATTA
31632921 TCGAGATACC
Statistics
Matches: 124, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 124 1.00
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.25
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGTAGGGTAG
Found at i:31632812 original size:54 final size:54
Alignment explanation
Indices: 31632754--31632949 Score: 232
Period size: 54 Copynumber: 3.6 Consensus size: 54
31632744 CGATTTACAA
* * *
31632754 AATTACCAAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* * * *
31632808 AATTACCGCAATACCCCTGTAGGGTAGAATTATCACAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
** * * *
31632862 AATTATTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
* * * * *
31632916 AATTATCGAGATA-CCTTGTGGGGTAAAATTACCA
1 AATTACCGAAATACCCCTGTAGGGTAGAATTACCA
31632950 TTTTGCCCCT
Statistics
Matches: 120, Mismatches: 22, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
53 17 0.14
54 103 0.86
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (54 bp):
AATTACCGAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGTAG
Found at i:31633408 original size:22 final size:22
Alignment explanation
Indices: 31633375--31633439 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
31633365 TTAAAGCCTT
* *
31633375 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTATGTGCCAAC
*
31633397 CT-ATATATGGCTCTGTGCCAAC
1 CTGAT-TATGGCTATGTGCCAAC
31633419 CTGATTATGGCTATGTGCCAA
1 CTGATTATGGCTATGTGCCAA
31633440 ACGTATTTGC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 2 0.05
22 34 0.89
23 2 0.05
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTATGTGCCAAC
Found at i:31633628 original size:27 final size:27
Alignment explanation
Indices: 31633598--31633699 Score: 116
Period size: 27 Copynumber: 3.8 Consensus size: 27
31633588 ATTTTGTTAA
* * *
31633598 GTGGCTTTGCCACATTATTTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
31633625 GTGGCTATGCCACAAATATCTG-TTCTG
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* * *
31633652 GTTGCTCTGCCACAATATCTGTATCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
* *
31633679 GTGGCTCTGTCACAATATCTG
1 GTGGCTATGCCACAATATCTG
31633700 ATAACTGAGC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 8 0.12
27 51 0.78
28 6 0.09
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.38
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:31633887 original size:31 final size:31
Alignment explanation
Indices: 31633836--31633938 Score: 125
Period size: 31 Copynumber: 3.3 Consensus size: 31
31633826 TTGCATTCAC
*
31633836 ATTCTGATTTTTTATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
*
31633868 ATTCTGATTTTGATTCTGTTACCTGATAGTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * * * * *
31633899 ATTTTAATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
31633930 ATTCTGATT
1 ATTCTGATT
31633939 CTAATTCTAG
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
31 53 0.88
32 7 0.12
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:31645804 original size:217 final size:223
Alignment explanation
Indices: 31645532--31646003 Score: 632
Period size: 222 Copynumber: 2.1 Consensus size: 223
31645522 ATGAACTTTT
* * *
31645532 TATTTTTGATAGTTTCTATCATTGTTTTCCAAAAACTATAAACCCAAACAGAGAAATTTTAAAAG
1 TATTTTTGATAGTTTCTATAATTTTTTTCCAAAAACTATAAACACAAACAGAGAAATTTTAAAAG
* * **
31645597 -AGAAAAATAGAGTTTTGCAATG-TGGGTATAATCTCTTTTGATG-AAAAAAAACCTAGAAACCC
66 AAAAAAAATAGAGTTTTGAAATGTTGGGTATAATCTCCATTGATGAAAAAAAAACCTAGAAACCC
* * **
31645659 ACCTCAAGATCGCCACGAAGAACACGAAATTCAAACGAATTAATGGCAAAATAAAACAAAGTATA
131 ACCTCAAGATCACCACGAAGAACACAAAATTCAAACGAATTAACAGCAAAATAAAACAAAGTATA
*
31645724 ATAGTC-AAG-AGA-GAATTTTTTTTCC
196 ATAGTCAAAGAAAAGGAATTTTTTTTCC
* * * ** * *
31645749 TATTTTTAATAGTTTCTGTAATTTTTTTCCAGAATTTATAAATACAAAGAGAGAAATTTTAAAAG
1 TATTTTTGATAGTTTCTATAATTTTTTTCCAAAAACTATAAACACAAACAGAGAAATTTTAAAAG
* *
31645814 AAAAAAAAATAGTGTTTTGAAATGTTTGGTATAATCTCCATTGATGAAAAAAAAAACCTAGAAAC
66 -AAAAAAAATAGAGTTTTGAAATGTTGGGTATAATCTCCATTGATG-AAAAAAAAACCTAGAAAC
* * * * *
31645879 CCACCTCAAGATCACTACGAAGAAGACAAAATTGAAATGAATTAACAGCAAAATAAAACAGAGTA
129 CCACCTCAAGATCACCACGAAGAACACAAAATTCAAACGAATTAACAGCAAAATAAAACAAAGTA
*
31645944 TGATAGTCAAAGAAAAGGAATTTTTTTTCC
194 TAATAGTCAAAGAAAAGGAATTTTTTTTCC
*
31645974 TATTTCTGATAGTTTCTATAATTTTTTTCC
1 TATTTTTGATAGTTTCTATAATTTTTTTCC
31646004 CTTTTTCTCT
Statistics
Matches: 217, Mismatches: 30, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
217 55 0.25
219 19 0.09
220 18 0.08
222 80 0.37
223 3 0.01
224 2 0.01
225 40 0.18
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (223 bp):
TATTTTTGATAGTTTCTATAATTTTTTTCCAAAAACTATAAACACAAACAGAGAAATTTTAAAAG
AAAAAAAATAGAGTTTTGAAATGTTGGGTATAATCTCCATTGATGAAAAAAAAACCTAGAAACCC
ACCTCAAGATCACCACGAAGAACACAAAATTCAAACGAATTAACAGCAAAATAAAACAAAGTATA
ATAGTCAAAGAAAAGGAATTTTTTTTCC
Found at i:31655786 original size:8 final size:8
Alignment explanation
Indices: 31655773--31655797 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
31655763 AATATACAAA
31655773 GTATTAAT
1 GTATTAAT
31655781 GTATTAAT
1 GTATTAAT
31655789 GTATTAAT
1 GTATTAAT
31655797 G
1 G
31655798 AATAATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (8 bp):
GTATTAAT
Found at i:31658639 original size:19 final size:19
Alignment explanation
Indices: 31658601--31658639 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
31658591 AAGGCTAAGC
* *
31658601 TAATTAAGGTTAGTTTAAT
1 TAATTAAGGTTAATTAAAT
31658620 TAATTAAGGTTAATTAAAT
1 TAATTAAGGTTAATTAAAT
31658639 T
1 T
31658640 TAAATCTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (19 bp):
TAATTAAGGTTAATTAAAT
Found at i:31661949 original size:22 final size:21
Alignment explanation
Indices: 31661912--31661952 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
31661902 CAAAAAAATC
*
31661912 TGTTGTTTTTTGTTGTTTTAA
1 TGTTATTTTTTGTTGTTTTAA
31661933 TGTTATTTTCTTGTTGTTTT
1 TGTTATTTT-TTGTTGTTTT
31661953 CTCCCTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.07, C:0.02, G:0.17, T:0.73
Consensus pattern (21 bp):
TGTTATTTTTTGTTGTTTTAA
Found at i:31672701 original size:40 final size:40
Alignment explanation
Indices: 31672642--31672853 Score: 277
Period size: 40 Copynumber: 5.3 Consensus size: 40
31672632 CATTTGAATG
*
31672642 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
31672682 TTATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
31672722 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCCAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
31672762 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
31672802 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
31672842 ATATCC-GGCTAA
1 ATATCCGGGCTAA
31672854 ATTCCGAAGA
Statistics
Matches: 154, Mismatches: 15, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
39 7 0.05
40 144 0.94
41 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:31676971 original size:31 final size:33
Alignment explanation
Indices: 31676917--31676981 Score: 98
Period size: 31 Copynumber: 2.0 Consensus size: 33
31676907 AATAAGGAAG
*
31676917 CAAGAGCGGCTGTGTGGCCACCTTTGAGTCCCT
1 CAAGAGCGGCTGTGTGGCCACCTTCGAGTCCCT
*
31676950 CAAGAGCGG-TTTGT-GCCACCTTCGAGTCCCT
1 CAAGAGCGGCTGTGTGGCCACCTTCGAGTCCCT
31676981 C
1 C
31676982 GCAACACCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 17 0.57
32 4 0.13
33 9 0.30
ACGTcount: A:0.15, C:0.32, G:0.28, T:0.25
Consensus pattern (33 bp):
CAAGAGCGGCTGTGTGGCCACCTTCGAGTCCCT
Found at i:31682113 original size:52 final size:52
Alignment explanation
Indices: 31681998--31682176 Score: 208
Period size: 52 Copynumber: 3.5 Consensus size: 52
31681988 GCTAGTGACT
* * *
31681998 CAAGTGTAGTACTTTGTGAAGGCCA-TTT-TG-AGAAGAGATAGC-TTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAA-AGATAGCTTTGGACA
31682047 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGACA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGACA
* * * *
31682099 CAAGTGTTGTACTATGGGAAGGCCAATTTGTGAAG-AAGGTAGCTTT-GACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGAC-A
* *
31682150 CAAGGGGTGGTACTATGTGCAGGCCAC
1 CAA-GTGTGGTACTATGTGAAGGCCAC
31682177 CAGGCATCTG
Statistics
Matches: 112, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
49 23 0.21
50 6 0.05
51 23 0.21
52 60 0.54
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.27
Consensus pattern (52 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGACA
Found at i:31688567 original size:21 final size:21
Alignment explanation
Indices: 31688536--31688605 Score: 104
Period size: 21 Copynumber: 3.3 Consensus size: 21
31688526 CGGTGCACAT
*
31688536 GCCCGTGTGATAAAGGGACAC
1 GCCCGTGTGATCAAGGGACAC
**
31688557 GCCTTTGTGATCAAGGGACAC
1 GCCCGTGTGATCAAGGGACAC
*
31688578 GCCCGTGTGATCAAGGGAGAC
1 GCCCGTGTGATCAAGGGACAC
31688599 GCCCGTG
1 GCCCGTG
31688606 CTTCATGTCG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.23, C:0.26, G:0.34, T:0.17
Consensus pattern (21 bp):
GCCCGTGTGATCAAGGGACAC
Found at i:31688760 original size:27 final size:27
Alignment explanation
Indices: 31688730--31688786 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
31688720 CGGCCAAGAT
* *
31688730 ACACGCCCGTGTT-TTAGGCCTTGTAGC
1 ACACACCCGTGTTCTGA-GCCTTGTAGC
*
31688757 ACACACGCGTGTTCTGAGCCTTGTAGC
1 ACACACCCGTGTTCTGAGCCTTGTAGC
31688784 ACA
1 ACA
31688787 TACGGTTGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 24 0.92
28 2 0.08
ACGTcount: A:0.19, C:0.30, G:0.25, T:0.26
Consensus pattern (27 bp):
ACACACCCGTGTTCTGAGCCTTGTAGC
Found at i:31700293 original size:18 final size:18
Alignment explanation
Indices: 31700267--31700301 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
31700257 TCGTAACATT
*
31700267 GTGTTGTTTGGAAAACAA
1 GTGTCGTTTGGAAAACAA
*
31700285 GTGTCGTTTTGAAAACA
1 GTGTCGTTTGGAAAACA
31700302 CGTCTTAAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.34
Consensus pattern (18 bp):
GTGTCGTTTGGAAAACAA
Found at i:31700942 original size:26 final size:26
Alignment explanation
Indices: 31700870--31701162 Score: 369
Period size: 26 Copynumber: 11.3 Consensus size: 26
31700860 CTGGAGGCCT
*
31700870 AGCCTCTTTT-AAT-AACTGGGGCAGA
1 AGCC-CTTTTCAATAAACTGGGGCATA
** * *
31700895 AGCCC-TTTCGGTAATCTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
31700920 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
** * *
31700946 AGCCCTTTTCGGTAAACTAGGGCGTA
1 AGCCCTTTTCAATAAACTGGGGCATA
* *
31700972 AACCCTTTTCAATAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
31700998 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
** * *
31701024 AGCCCTTTTCGGTAAACTAGGGCGTA
1 AGCCCTTTTCAATAAACTGGGGCATA
* *
31701050 AACCCTTTTCAATAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
31701076 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
31701102 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
31701128 AGCCCTTTTCGGTAAACTAGGGG-ATA
1 AGCCCTTTTCAATAAACT-GGGGCATA
31701154 AGCCCTTTT
1 AGCCCTTTT
31701163 GCACTTCCTC
Statistics
Matches: 233, Mismatches: 31, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
23 3 0.01
24 2 0.01
25 18 0.08
26 206 0.88
27 4 0.02
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:31700998 original size:78 final size:78
Alignment explanation
Indices: 31700910--31701162 Score: 434
Period size: 78 Copynumber: 3.2 Consensus size: 78
31700900 TTTCGGTAAT
31700910 CTAGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCGTAAAC
1 CTAGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCGTAAAC
31700975 CCTTTTCAATAAA
66 CCTTTTCAATAAA
31700988 CTAGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCGTAAAC
1 CTAGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCGTAAAC
31701053 CCTTTTCAATAAA
66 CCTTTTCAATAAA
** * * *
31701066 CTAGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGC
1 CTAGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCGTAAAC
**
31701131 CCTTTTCGGTAAA
66 CCTTTTCAATAAA
*
31701144 CTAGGGGATAAGCCCTTTT
1 CTAGGGCATAAGCCCTTTT
31701163 GCACTTCCTC
Statistics
Matches: 167, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 167 1.00
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (78 bp):
CTAGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCGTAAAC
CCTTTTCAATAAA
Found at i:31701237 original size:20 final size:20
Alignment explanation
Indices: 31701212--31701286 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
31701202 TTATGAATAC
*
31701212 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
31701232 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
31701252 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
31701272 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
31701287 TCCCACGTAT
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
18 8 0.15
20 43 0.81
21 2 0.04
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:31701243 original size:11 final size:11
Alignment explanation
Indices: 31701212--31701267 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
31701202 TTATGAATAC
31701212 ATCATGTGCAT
1 ATCATGTGCAT
* *
31701223 TTCA--TACAT
1 ATCATGTGCAT
31701232 ATCATGTGCAT
1 ATCATGTGCAT
*
31701243 ATCA--TACAT
1 ATCATGTGCAT
31701252 ATCATGTGCAT
1 ATCATGTGCAT
31701263 ATCAT
1 ATCAT
31701268 ATCAATCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:31701284 original size:9 final size:10
Alignment explanation
Indices: 31701229--31701285 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
31701219 GCATTTCATA
31701229 CATATCATGT
1 CATATCATGT
*
31701239 GCATATCAT-A
1 -CATATCATGT
31701249 CATATCATGT
1 CATATCATGT
*
31701259 GCATATCATAT
1 -CATATCATGT
31701270 CA-ATCATGT
1 CATATCATGT
31701279 -ATATCAT
1 CATATCAT
31701286 ATCCCACGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (10 bp):
CATATCATGT
Found at i:31701342 original size:25 final size:25
Alignment explanation
Indices: 31701314--31701361 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
31701304 ATAATTAAAC
* * *
31701314 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATAGTCATTTTTA
31701339 CCTAGGGGCAAAATAGTCATTTT
1 CCTAGGGGCAAAATAGTCATTTT
31701362 CATACTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATAGTCATTTTTA
Found at i:31709186 original size:26 final size:26
Alignment explanation
Indices: 31709114--31709250 Score: 154
Period size: 26 Copynumber: 5.3 Consensus size: 26
31709104 CTGGAGGCCT
*
31709114 AGCCTCTTTT-AAT-AACTAGGGCAGA
1 AGCC-CTTTTCAATAAACTAGGGCATA
** *
31709139 AGCCC-TTTCGGTAATCTAGGGCATA
1 AGCCCTTTTCAATAAACTAGGGCATA
** *
31709164 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTAGGGCATA
*
31709190 AGCCCTTTTCAAAAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTAGGGCATA
**
31709216 AGCCCTTTTCAATAAACCGGGGCATA
1 AGCCCTTTTCAATAAACTAGGGCATA
31709242 AGCCCTTTT
1 AGCCCTTTT
31709251 GCACTTCCTC
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
23 3 0.03
24 2 0.02
25 19 0.20
26 72 0.75
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTAGGGCATA
Found at i:31709325 original size:20 final size:20
Alignment explanation
Indices: 31709300--31709356 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
31709290 TTTTGAATAC
31709300 ATCATGTGCATATCATA-CA
1 ATCATGTGCATATCATATCA
31709319 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
31709340 ATCATGT--ATATCATATC
1 ATCATGTGCATATCATATC
31709357 CCACGTATCA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.28
20 24 0.67
21 2 0.06
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:31709338 original size:5 final size:5
Alignment explanation
Indices: 31709308--31709356 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
31709298 ACATCATGTG
* *
31709308 CATAT CATA- CATAT CATGT GCATAT CATAT CA-AT CATGT -ATAT CATAT
1 CATAT CATAT CATAT CATAT -CATAT CATAT CATAT CATAT CATAT CATAT
31709356 C
1 C
31709357 CCACGTATCA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
4 11 0.31
5 21 0.58
6 4 0.11
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (5 bp):
CATAT
Found at i:31709352 original size:9 final size:10
Alignment explanation
Indices: 31709300--31709353 Score: 51
Period size: 9 Copynumber: 5.5 Consensus size: 10
31709290 TTTTGAATAC
31709300 ATCATGTGCAT
1 ATCATGT-CAT
*
31709311 ATCAT-ACAT
1 ATCATGTCAT
31709320 ATCATGTGCAT
1 ATCATGT-CAT
*
31709331 ATCATATCA-
1 ATCATGTCAT
31709340 ATCATGT-AT
1 ATCATGTCAT
31709349 ATCAT
1 ATCAT
31709354 ATCCCACGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
8 1 0.03
9 19 0.53
10 2 0.06
11 14 0.39
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (10 bp):
ATCATGTCAT
Found at i:31713365 original size:12 final size:12
Alignment explanation
Indices: 31713347--31713376 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
31713337 CATTTTCATT
31713347 ATTTTTCTTTTG
1 ATTTTTCTTTTG
*
31713359 GTTTTTCTTTTG
1 ATTTTTCTTTTG
31713371 ATTTTT
1 ATTTTT
31713377 TTTAGAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.07, G:0.10, T:0.77
Consensus pattern (12 bp):
ATTTTTCTTTTG
Found at i:31719360 original size:59 final size:59
Alignment explanation
Indices: 31719292--31719405 Score: 176
Period size: 59 Copynumber: 1.9 Consensus size: 59
31719282 AGCCTGCACA
* *
31719292 TAGTACTACACATGCGACCAATTATCCAGAACACG-AAGTAGCTTGCACTTAGTACCACT
1 TAGTACTACACACGCGACCAATTATCCAGAACACGTAA-TAGCCTGCACTTAGTACCACT
* *
31719351 TAGTACTACACACGTGACCAATTATCCAGTACACGTAATAGCCTGCACTTAGTAC
1 TAGTACTACACACGCGACCAATTATCCAGAACACGTAATAGCCTGCACTTAGTAC
31719406 TACACACGTG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
59 48 0.96
60 2 0.04
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (59 bp):
TAGTACTACACACGCGACCAATTATCCAGAACACGTAATAGCCTGCACTTAGTACCACT
Found at i:31719512 original size:51 final size:49
Alignment explanation
Indices: 31719347--31719512 Score: 206
Period size: 50 Copynumber: 3.3 Consensus size: 49
31719337 CACTTAGTAC
* *
31719347 CACTTAGTACTACACACGTGACCAATTATCCAGTACACGTAATAGCCTG
1 CACTTAGTACTACACACGTGACCAATTATCCGGTACACGTAGTAGCCTG
** * * *
31719396 CACTTAGTACTACACACGTGACCTAACCATCTGATACATGTAGTAGCCTG
1 CACTTAGTACTACACACGTGACC-AATTATCCGGTACACGTAGTAGCCTG
* * * *
31719446 CACTTAGTACTACACACGTGATCACAGTTTTCGGGTACACATAGTAGCCTG
1 CACTTAGTACTACACACGTGA-C-CAATTATCCGGTACACGTAGTAGCCTG
31719497 CACTTAGTACTACACA
1 CACTTAGTACTACACA
31719513 TGCGACCTCC
Statistics
Matches: 99, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 23 0.23
50 40 0.40
51 35 0.35
52 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (49 bp):
CACTTAGTACTACACACGTGACCAATTATCCGGTACACGTAGTAGCCTG
Found at i:31724517 original size:30 final size:29
Alignment explanation
Indices: 31724483--31724547 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 29
31724473 ATGAATTGAA
*
31724483 AGCTTTGGCATTAAGTGTGCGATTTAAACT
1 AGCTTTGGCACTAAGTGTGCGATTT-AACT
*
31724513 AGCTTTTGCACTAAGTGTGCGATTTAACT
1 AGCTTTGGCACTAAGTGTGCGATTTAACT
31724542 AGCTTT
1 AGCTTT
31724548 AGCTACTTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
29 10 0.30
30 23 0.70
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (29 bp):
AGCTTTGGCACTAAGTGTGCGATTTAACT
Found at i:31730967 original size:29 final size:29
Alignment explanation
Indices: 31730925--31730997 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 29
31730915 GGCCTAATCT
* * *
31730925 CATTTATATGGCCCATCAAGCCTAATTCA
1 CATTCATATAGCCCATCAAGCCCAATTCA
* *
31730954 CATTCTTATAGCCCATCAGGCCCAATTCA
1 CATTCATATAGCCCATCAAGCCCAATTCA
* *
31730983 TATTCATATGGCCCA
1 CATTCATATAGCCCA
31730998 GATCACATGC
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.29, C:0.30, G:0.11, T:0.30
Consensus pattern (29 bp):
CATTCATATAGCCCATCAAGCCCAATTCA
Found at i:31731101 original size:9 final size:9
Alignment explanation
Indices: 31731089--31731134 Score: 56
Period size: 9 Copynumber: 4.9 Consensus size: 9
31731079 AGTCCATCGG
31731089 GCCCATTTA
1 GCCCATTTA
31731098 GCCCATTTCA
1 GCCCATTT-A
*
31731108 GCCCGTTTA
1 GCCCATTTA
*
31731117 GCCCATTTC
1 GCCCATTTA
31731126 GTCCCATTT
1 G-CCCATTT
31731135 GGCCAATTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
9 17 0.53
10 15 0.47
ACGTcount: A:0.15, C:0.37, G:0.13, T:0.35
Consensus pattern (9 bp):
GCCCATTTA
Found at i:31731116 original size:19 final size:19
Alignment explanation
Indices: 31731089--31731134 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
31731079 AGTCCATCGG
31731089 GCCCATTTAGCCCATTTCA
1 GCCCATTTAGCCCATTTCA
*
31731108 GCCCGTTTAGCCCATTTC-
1 GCCCATTTAGCCCATTTCA
31731126 GTCCCATTT
1 G-CCCATTT
31731135 GGCCAATTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 1 0.04
19 23 0.96
ACGTcount: A:0.15, C:0.37, G:0.13, T:0.35
Consensus pattern (19 bp):
GCCCATTTAGCCCATTTCA
Found at i:31734833 original size:49 final size:49
Alignment explanation
Indices: 31734780--31735004 Score: 267
Period size: 49 Copynumber: 4.5 Consensus size: 49
31734770 CTGGTACGCA
31734780 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
** * *
31734829 TAGTAGCCTGCACTTAGTACTACACACATG-G-CCTAACCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACT--ACACATGCGACC-AATTATCCGGTACATG
* * * * * *
31734879 TAGTAGCCTTCACTTAGTACTACACACGTGATCGAAGTTATCGGGTAC-TCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCGGTACAT-G
*
31734930 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
*
31734979 TAGTAGCCTACACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
31735005 CGTGACCTCA
Statistics
Matches: 147, Mismatches: 20, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
48 6 0.04
49 59 0.40
50 39 0.27
51 43 0.29
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATG
Found at i:31734949 original size:101 final size:98
Alignment explanation
Indices: 31734780--31735011 Score: 281
Period size: 100 Copynumber: 2.3 Consensus size: 98
31734770 CTGGTACGCA
* * * *
31734780 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATGTAGTAGCCTGCACTTA
1 TAGTAGCCTACACTTAGTACTACACACGTGACCAATTATCCGGTACATATAGTAGCCTGCACTTA
* *
31734845 GTACTACACACATG-G-CCTAACCATCTGATACATG
66 GTACT--ACACATGCGACC-AACCATCCGATACACG
* * *
31734879 TAGTAGCCTTCACTTAGTACTACACACGTGATCGAAGTTATCGGGTAC-TCATAGTAGCCTGCAC
1 TAGTAGCCTACACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACAT-ATAGTAGCCTGCAC
** *
31734943 TTAGTACTACACATGCGACCAATTATCCGGTACACG
63 TTAGTACTACACATGCGACCAACCATCCGATACACG
31734979 TAGTAGCCTACACTTAGTACTACACACGTGACC
1 TAGTAGCCTACACTTAGTACTACACACGTGACC
31735012 TCACAATAGA
Statistics
Matches: 115, Mismatches: 13, Indels: 10
0.83 0.09 0.07
Matches are distributed among these distances:
99 36 0.31
100 46 0.40
101 33 0.29
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (98 bp):
TAGTAGCCTACACTTAGTACTACACACGTGACCAATTATCCGGTACATATAGTAGCCTGCACTTA
GTACTACACATGCGACCAACCATCCGATACACG
Found at i:31735288 original size:27 final size:27
Alignment explanation
Indices: 31735258--31735311 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
31735248 TCATACAACC
* *
31735258 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
31735285 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
31735312 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:31737179 original size:108 final size:109
Alignment explanation
Indices: 31736989--31737205 Score: 409
Period size: 108 Copynumber: 2.0 Consensus size: 109
31736979 TACTCTTTTA
31736989 GTTTACTACTCACTATCACATTTTCCTTATTTTTCTTGAAACACATTACCCTTCATACCACAGTG
1 GTTTACTACTCACTATCACATTTTCCTTATTTTTCTTGAAACACATTACCCTTCATACCACAGTG
*
31737054 CATTACTGAAAATTAGGAAATCTTTACTCAATGCAGATTAGTCC
66 CATTACTGAAAATTAGGAAATCTTTACCCAATGCAGATTAGTCC
31737098 GTTTACTACTCACTATCACATTTTCCTTA-TTTTCTTGAAACACATTACCCTTCATACCACAGTG
1 GTTTACTACTCACTATCACATTTTCCTTATTTTTCTTGAAACACATTACCCTTCATACCACAGTG
*
31737162 CATTGCTGAAAATTAGGAAATCTTTACCCAATGCAGATTAGTCC
66 CATTACTGAAAATTAGGAAATCTTTACCCAATGCAGATTAGTCC
31737206 AGTTCAGACG
Statistics
Matches: 106, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
108 77 0.73
109 29 0.27
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.36
Consensus pattern (109 bp):
GTTTACTACTCACTATCACATTTTCCTTATTTTTCTTGAAACACATTACCCTTCATACCACAGTG
CATTACTGAAAATTAGGAAATCTTTACCCAATGCAGATTAGTCC
Found at i:31745516 original size:40 final size:40
Alignment explanation
Indices: 31745457--31745538 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
31745447 GAGATGGTGG
*
31745457 AACTATGTGAGATAGGCATAAAACTATAGCGAACAAAATA
1 AACTATGTGAGATACGCATAAAACTATAGCGAACAAAATA
* *
31745497 AACTATGTGAGATACGCATAAAATTGTAGCGAACAAAATA
1 AACTATGTGAGATACGCATAAAACTATAGCGAACAAAATA
31745537 AA
1 AA
31745539 ACCATATCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.50, C:0.12, G:0.17, T:0.21
Consensus pattern (40 bp):
AACTATGTGAGATACGCATAAAACTATAGCGAACAAAATA
Found at i:31748260 original size:42 final size:42
Alignment explanation
Indices: 31748201--31748286 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
31748191 CCTCGATCTA
31748201 AATCTGAATTCCTCCTTTCTTGATCTATATGTTTTCAAAATT
1 AATCTGAATTCCTCCTTTCTTGATCTATATGTTTTCAAAATT
31748243 AATCTGAATTCCTCCTTTCTTGATCTATATGTTTTCAAAATT
1 AATCTGAATTCCTCCTTTCTTGATCTATATGTTTTCAAAATT
31748285 AA
1 AA
31748287 CCCTTTTATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.47
Consensus pattern (42 bp):
AATCTGAATTCCTCCTTTCTTGATCTATATGTTTTCAAAATT
Found at i:31753536 original size:16 final size:16
Alignment explanation
Indices: 31753517--31753562 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
31753507 TTGAAATACC
* *
31753517 GAAATGTCGAAATGTG
1 GAAATGCCGAAAAGTG
* *
31753533 GAAATACCGAAAAGTT
1 GAAATGCCGAAAAGTG
31753549 GAAATGCCGAAAAG
1 GAAATGCCGAAAAG
31753563 CTGAAAGTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.26, T:0.17
Consensus pattern (16 bp):
GAAATGCCGAAAAGTG
Found at i:31753536 original size:24 final size:24
Alignment explanation
Indices: 31753509--31753554 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
31753499 GACAAAAGTT
*
31753509 GAAATACCGAAATGTCGAAATGTG
1 GAAATACCGAAAAGTCGAAATGTG
*
31753533 GAAATACCGAAAAGTTGAAATG
1 GAAATACCGAAAAGTCGAAATG
31753555 CCGAAAAGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.20
Consensus pattern (24 bp):
GAAATACCGAAAAGTCGAAATGTG
Found at i:31753560 original size:24 final size:24
Alignment explanation
Indices: 31753509--31753560 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
31753499 GACAAAAGTT
* **
31753509 GAAATACCGAAATGTCGAAATGTG
1 GAAATACCGAAAAGTCGAAATGCC
*
31753533 GAAATACCGAAAAGTTGAAATGCC
1 GAAATACCGAAAAGTCGAAATGCC
31753557 GAAA
1 GAAA
31753561 AGCTGAAAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.13, G:0.23, T:0.17
Consensus pattern (24 bp):
GAAATACCGAAAAGTCGAAATGCC
Found at i:31753567 original size:16 final size:16
Alignment explanation
Indices: 31753533--31753568 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
31753523 TCGAAATGTG
*
31753533 GAAATACCGAAAAGTT
1 GAAATACCGAAAAGCT
*
31753549 GAAATGCCGAAAAGCT
1 GAAATACCGAAAAGCT
31753565 GAAA
1 GAAA
31753569 GTTTGGCTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.50, C:0.14, G:0.22, T:0.14
Consensus pattern (16 bp):
GAAATACCGAAAAGCT
Found at i:31753892 original size:28 final size:29
Alignment explanation
Indices: 31753778--31753892 Score: 146
Period size: 29 Copynumber: 4.0 Consensus size: 29
31753768 GTAAGCATGA
* *
31753778 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
31753806 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
31753835 ATAT-ATAGGTGATTTGGGCCTAATGGGCC
1 ATATGA-ATGTGATTTGGGCCTAATGGGCC
* *
31753864 ATATGAATGTGA-TTGGGCTTAATGAGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
31753892 A
1 A
31753893 GATACAGGTA
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
28 27 0.35
29 49 0.64
30 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.29
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:31768375 original size:27 final size:27
Alignment explanation
Indices: 31768340--31768451 Score: 131
Period size: 27 Copynumber: 4.1 Consensus size: 27
31768330 AGCATGGCTT
* *
31768340 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
*
31768366 CCAGATACAGATAATCGTGGTAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
*
31768394 CCAG-GACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
*
31768421 CCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGATACAGATAA-TGTGGCAGAGCCA
31768448 CCAG
1 CCAG
31768452 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
26 6 0.08
27 53 0.72
28 15 0.20
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:31768447 original size:54 final size:54
Alignment explanation
Indices: 31768340--31768454 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
31768330 AGCATGGCTT
* * *
31768340 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGTAGAGCCA
1 CCAGGACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
31768394 CCAGGACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGGACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
31768448 CCAGGAC
1 CCAGGAC
31768455 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.17
Consensus pattern (54 bp):
CCAGGACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:31768897 original size:8 final size:8
Alignment explanation
Indices: 31768870--31768900 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
31768860 TCGAAATACT
31768870 GGCTTTTC
1 GGCTTTTC
*
31768878 GGCATTTC
1 GGCTTTTC
31768886 GGCTTTTC
1 GGCTTTTC
31768894 GGCTTTT
1 GGCTTTT
31768901 GCCTATCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.03, C:0.23, G:0.26, T:0.48
Consensus pattern (8 bp):
GGCTTTTC
Found at i:31770525 original size:46 final size:46
Alignment explanation
Indices: 31770469--31770827 Score: 682
Period size: 46 Copynumber: 7.8 Consensus size: 46
31770459 TGGTTGAGCA
31770469 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
31770515 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
31770561 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
31770607 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
31770653 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
31770699 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
31770745 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
31770791 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31770828 GCGGATTACA
Statistics
Matches: 309, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 309 1.00
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:31779085 original size:38 final size:38
Alignment explanation
Indices: 31779029--31779105 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
31779019 TGGCCTTGCT
* *
31779029 CGTGTGGCCCACAAGGCCTAGCCCAAAACCTACACGCC
1 CGTGTGGCACACAAGGCCTAGCCCAAAAACTACACGCC
* *
31779067 CGTGTGGCACACACGGCCTAGCCCAAAAATTACACGCC
1 CGTGTGGCACACAAGGCCTAGCCCAAAAACTACACGCC
31779105 C
1 C
31779106 AACTTGGCCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.27, C:0.40, G:0.21, T:0.12
Consensus pattern (38 bp):
CGTGTGGCACACAAGGCCTAGCCCAAAAACTACACGCC
Found at i:31782382 original size:34 final size:34
Alignment explanation
Indices: 31782333--31782455 Score: 165
Period size: 34 Copynumber: 3.6 Consensus size: 34
31782323 ATGTAATCTG
* * *
31782333 GGCCTAAGCACATTTCAGTCTCAGTAGCAGTTCA
1 GGCCTTAGCCCATTTCAGTTTCAGTAGCAGTTCA
* *
31782367 AGCCTTAGCCCATTTCAGTTTCAGTAGCAGTTCG
1 GGCCTTAGCCCATTTCAGTTTCAGTAGCAGTTCA
* * *
31782401 GGTCTTAGCCCATTTTAGTTTCAGTAGCAGTTCT
1 GGCCTTAGCCCATTTCAGTTTCAGTAGCAGTTCA
*
31782435 GGTCTTAGCCCATTTCAGTTT
1 GGCCTTAGCCCATTTCAGTTT
31782456 TATTATCAGA
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 79 1.00
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.35
Consensus pattern (34 bp):
GGCCTTAGCCCATTTCAGTTTCAGTAGCAGTTCA
Found at i:31794761 original size:36 final size:37
Alignment explanation
Indices: 31794686--31794764 Score: 124
Period size: 37 Copynumber: 2.2 Consensus size: 37
31794676 AAAAGAAAGT
* **
31794686 AAAAGAAGGAAATAAAACAAAAGAATTGGGAATGATG
1 AAAATAAGGAAATAAAACAAAAGAATCAGGAATGATG
31794723 AAAATAAGGAAATAAAACAAAA-AATCAGGAATGATG
1 AAAATAAGGAAATAAAACAAAAGAATCAGGAATGATG
31794759 AAAATA
1 AAAATA
31794765 GCTAAAGTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
36 18 0.46
37 21 0.54
ACGTcount: A:0.63, C:0.04, G:0.19, T:0.14
Consensus pattern (37 bp):
AAAATAAGGAAATAAAACAAAAGAATCAGGAATGATG
Found at i:31797668 original size:23 final size:23
Alignment explanation
Indices: 31797637--31797746 Score: 98
Period size: 23 Copynumber: 4.8 Consensus size: 23
31797627 GCTGATGAAT
**
31797637 AGTAAGCTCTATTGAGCTGAAAC
1 AGTAAGCTCTAACGAGCTGAAAC
*
31797660 GGTAAGCTCTAACGAGCTG-AAC
1 AGTAAGCTCTAACGAGCTGAAAC
**
31797682 AGTAAGCTC-ATACGAGCTGAATT
1 AGTAAGCTCTA-ACGAGCTGAAAC
* * * *
31797705 GGTAAGCTCCAATGAGCTAAAAAC
1 AGTAAGCTCTAACGAGCT-GAAAC
*
31797729 AGTAAGCTCTTACGAGCT
1 AGTAAGCTCTAACGAGCT
31797747 AATATATCGG
Statistics
Matches: 68, Mismatches: 15, Indels: 7
0.76 0.17 0.08
Matches are distributed among these distances:
21 1 0.01
22 19 0.28
23 31 0.46
24 17 0.25
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (23 bp):
AGTAAGCTCTAACGAGCTGAAAC
Found at i:31797688 original size:45 final size:46
Alignment explanation
Indices: 31797632--31797746 Score: 128
Period size: 45 Copynumber: 2.5 Consensus size: 46
31797622 CCTGAGCTGA
* * *
31797632 TGAATAGTAAGCTCTAT-TGAGCTGAAACGGTAAGCTCTAACGAGC
1 TGAACAGTAAGCTCTATACGAGCTGAAACGGTAAGCTCCAACGAGC
** *
31797677 TGAACAGTAAGCTC-ATACGAGCTGAATTGGTAAGCTCCAATGAGC
1 TGAACAGTAAGCTCTATACGAGCTGAAACGGTAAGCTCCAACGAGC
*
31797722 TAAAAACAGTAAGCTCT-TACGAGCT
1 T--GAACAGTAAGCTCTATACGAGCT
31797747 AATATATCGG
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
44 2 0.03
45 37 0.63
47 20 0.34
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (46 bp):
TGAACAGTAAGCTCTATACGAGCTGAAACGGTAAGCTCCAACGAGC
Found at i:31800274 original size:65 final size:65
Alignment explanation
Indices: 31800170--31800301 Score: 219
Period size: 65 Copynumber: 2.0 Consensus size: 65
31800160 TGTTATTGAA
* **
31800170 ATTGAGAAATTGATTTGTACTATTGTTTGAGCATTACTCACCTGTTGTGAGTTGTGATTAACAGG
1 ATTGAGAAATTGATTTGTACTATTGTTTGAGCATTACTCACCTGCTGTGAACTGTGATTAACAGG
* *
31800235 ATTGAGAAATTGATTTGTATTATTGTTTGAGCATTACTCACTTGCTGTGAACTGTGATTAACAGG
1 ATTGAGAAATTGATTTGTACTATTGTTTGAGCATTACTCACCTGCTGTGAACTGTGATTAACAGG
31800300 AT
1 AT
31800302 CTCTGTTAGT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 62 1.00
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (65 bp):
ATTGAGAAATTGATTTGTACTATTGTTTGAGCATTACTCACCTGCTGTGAACTGTGATTAACAGG
Found at i:31805209 original size:25 final size:25
Alignment explanation
Indices: 31805162--31805209 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
31805152 TTCCTTATAA
* **
31805162 ACTTTAAATTAGTAATTCTATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
31805187 ACTTTAAATTAGGAATTAGATTA
1 ACTTTAAATTAGGAATTAGATTA
31805210 AGATTTTCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.40, C:0.06, G:0.12, T:0.42
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGATTAGG
Found at i:31809864 original size:25 final size:25
Alignment explanation
Indices: 31809830--31809880 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
31809820 TTCCTTATAA
**
31809830 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
31809855 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
31809880 A
1 A
31809881 TTTTCCTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGATTAGG
Done.