Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 57 of 295
Found at i:16655802 original size:29 final size:29
Alignment explanation
Indices: 16655771--16655857 Score: 122
Period size: 29 Copynumber: 3.0 Consensus size: 29
16655761 AGGGTTTAAG
* *
16655771 GGTTTA-GGGTTAAGGGTTTATGGTTTAG
1 GGTTTAGGGGTTTAGGGTTTATGGTTTAT
* * *
16655799 GGGTTAGGGGTTTAGGGTTAAGGGTTTAT
1 GGTTTAGGGGTTTAGGGTTTATGGTTTAT
16655828 GGTTTAGGGGTTTAGGGTTTATGGTTTAT
1 GGTTTAGGGGTTTAGGGTTTATGGTTTAT
16655857 G
1 G
16655858 TGTGTATTGT
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
28 5 0.10
29 45 0.90
ACGTcount: A:0.16, C:0.00, G:0.41, T:0.43
Consensus pattern (29 bp):
GGTTTAGGGGTTTAGGGTTTATGGTTTAT
Found at i:16655810 original size:36 final size:35
Alignment explanation
Indices: 16655769--16655853 Score: 143
Period size: 36 Copynumber: 2.4 Consensus size: 35
16655759 TTAGGGTTTA
16655769 AGGGTTTAGGGTTAAGGGTTTATGGTTTAGGGGTT
1 AGGGTTTAGGGTTAAGGGTTTATGGTTTAGGGGTT
16655804 AGGGGTTTAGGGTTAAGGGTTTATGGTTTAGGGGTTT
1 A-GGGTTTAGGGTTAAGGGTTTATGGTTTAGGGG-TT
*
16655841 AGGGTTTATGGTT
1 AGGGTTTAGGGTT
16655854 TATGTGTGTA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
35 1 0.02
36 43 0.91
37 3 0.06
ACGTcount: A:0.16, C:0.00, G:0.42, T:0.41
Consensus pattern (35 bp):
AGGGTTTAGGGTTAAGGGTTTATGGTTTAGGGGTT
Found at i:16655857 original size:7 final size:7
Alignment explanation
Indices: 16655759--16655855 Score: 113
Period size: 7 Copynumber: 13.4 Consensus size: 7
16655749 TAGGGTCGGG
16655759 TTAGGGT
1 TTAGGGT
16655766 TTAAGGGT
1 TT-AGGGT
16655774 TTAGGGT
1 TTAGGGT
*
16655781 TAAGGGT
1 TTAGGGT
*
16655788 TTATGGT
1 TTAGGGT
*
16655795 TTAGGGG
1 TTAGGGT
16655802 TTAGGGGT
1 TTA-GGGT
16655810 TTAGGGT
1 TTAGGGT
*
16655817 TAAGGGT
1 TTAGGGT
*
16655824 TTATGGT
1 TTAGGGT
16655831 TTAGGGGT
1 TTA-GGGT
16655839 TTAGGGT
1 TTAGGGT
*
16655846 TTATGGT
1 TTAGGGT
16655853 TTA
1 TTA
16655856 TGTGTGTATT
Statistics
Matches: 76, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
7 57 0.75
8 19 0.25
ACGTcount: A:0.18, C:0.00, G:0.40, T:0.42
Consensus pattern (7 bp):
TTAGGGT
Found at i:16656963 original size:158 final size:158
Alignment explanation
Indices: 16656631--16656983 Score: 405
Period size: 158 Copynumber: 2.2 Consensus size: 158
16656621 AAAATTAAGA
* *
16656631 GATTAGTGGCGTTTTTTAAAAAAACGCCGCAAAAAAACAGTATAGTTGAAAGAAAATGGCATCAT
1 GATTAGCGGCGTTTTTTAAAAAAACGCCGCAAAAAAACAGTATAGTTGAAAGAAAATGGCACCAT
* *
16656696 TTTAGTTGGATAGAGTATTAGTGGCGTTTTGAAAAACGCCGCAACAGAAGTAAAGTGTACTGGAA
66 TTTAGTT-GATAGAGTATTAGTGGAGTTTTGAAAAACGCCGCAAAAGAAGTAAAGTGTACTGGAA
16656761 GCGTCGTCGTTTTAGATGAATATATAGGG
130 GCGTCGTCGTTTTAGATGAATATATAGGG
* * * * * * *
16656790 GATTAGCGGTG-TTTTTATAGAAAACG-C-CATAAAAGATAGTTTAGTTTAAAGAAAATGGCCCC
1 GATTAGCGGCGTTTTTTA-AAAAAACGCCGCA-AAAAAACAGTATAGTTGAAAGAAAATGGCACC
* * * * *
16656852 GTTTTAGTAT-ATGAGGGTATTAGTGGAGCTTTT-AAAAACGCCGCAAAATAATTAAAGTTTACT
64 ATTTTAGT-TGAT-AGAGTATTAGTGGAG-TTTTGAAAAACGCCGCAAAAGAAGTAAAGTGTACT
* *
16656915 GTACA-CGTCGTCGTTTTAGTTGAATATATA-GG
126 GGA-AGCGTCGTCGTTTTAGATGAATATATAGGG
* * *
16656947 GATTAGCGGCGTTTTTTAAATAAATGCCACAAAAAAA
1 GATTAGCGGCGTTTTTTAAAAAAACGCCGCAAAAAAA
16656984 ATTAGTGCTT
Statistics
Matches: 162, Mismatches: 23, Indels: 19
0.79 0.11 0.09
Matches are distributed among these distances:
157 21 0.13
158 117 0.72
159 24 0.15
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.30
Consensus pattern (158 bp):
GATTAGCGGCGTTTTTTAAAAAAACGCCGCAAAAAAACAGTATAGTTGAAAGAAAATGGCACCAT
TTTAGTTGATAGAGTATTAGTGGAGTTTTGAAAAACGCCGCAAAAGAAGTAAAGTGTACTGGAAG
CGTCGTCGTTTTAGATGAATATATAGGG
Found at i:16658062 original size:28 final size:28
Alignment explanation
Indices: 16658026--16658122 Score: 178
Period size: 28 Copynumber: 3.5 Consensus size: 28
16658016 TATCATATGA
16658026 ATCT-TATGGTTTGGGAGTGATAAATAT
1 ATCTGTATGGTTTGGGAGTGATAAATAT
16658053 ATCTGTATGGTTTGGGAGTGATAAATAT
1 ATCTGTATGGTTTGGGAGTGATAAATAT
16658081 ATCTGTATGGTTTGGGAGTGATAAATAT
1 ATCTGTATGGTTTGGGAGTGATAAATAT
16658109 ATCTGTATTGGTTT
1 ATCTGTA-TGGTTT
16658123 TTCCTTGTTT
Statistics
Matches: 68, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
27 4 0.06
28 58 0.85
29 6 0.09
ACGTcount: A:0.27, C:0.04, G:0.27, T:0.42
Consensus pattern (28 bp):
ATCTGTATGGTTTGGGAGTGATAAATAT
Found at i:16658776 original size:8 final size:8
Alignment explanation
Indices: 16658763--16658828 Score: 64
Period size: 8 Copynumber: 8.4 Consensus size: 8
16658753 TGATTATGAT
16658763 AATAGTGG
1 AATAGTGG
16658771 AATAGTGG
1 AATAGTGG
*
16658779 AATAGTGT
1 AATAGTGG
16658787 AAT--TGCG
1 AATAGTG-G
* *
16658794 TATAGTGT
1 AATAGTGG
*
16658802 AATAGTGT
1 AATAGTGG
*
16658810 AATAGTGT
1 AATAGTGG
16658818 AATAGTGG
1 AATAGTGG
16658826 AAT
1 AAT
16658829 TTTTTGATTG
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
6 2 0.04
7 2 0.04
8 43 0.88
9 2 0.04
ACGTcount: A:0.36, C:0.02, G:0.29, T:0.33
Consensus pattern (8 bp):
AATAGTGG
Found at i:16658784 original size:16 final size:16
Alignment explanation
Indices: 16658763--16658828 Score: 82
Period size: 16 Copynumber: 4.2 Consensus size: 16
16658753 TGATTATGAT
*
16658763 AATAGTGGAATAGTGG
1 AATAGTGTAATAGTGG
16658779 AATAGTGTAAT--TGCG
1 AATAGTGTAATAGTG-G
* *
16658794 TATAGTGTAATAGTGT
1 AATAGTGTAATAGTGG
16658810 AATAGTGTAATAGTGG
1 AATAGTGTAATAGTGG
16658826 AAT
1 AAT
16658829 TTTTTGATTG
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
14 2 0.05
15 11 0.26
16 27 0.64
17 2 0.05
ACGTcount: A:0.36, C:0.02, G:0.29, T:0.33
Consensus pattern (16 bp):
AATAGTGTAATAGTGG
Found at i:16658798 original size:23 final size:24
Alignment explanation
Indices: 16658762--16658828 Score: 82
Period size: 23 Copynumber: 2.8 Consensus size: 24
16658752 GTGATTATGA
* *
16658762 TAATAGTGGAATAGTGGAATAGTG
1 TAATAGCGTAATAGTGGAATAGTG
* *
16658786 TAATTGCGT-ATAGTGTAATAGTG
1 TAATAGCGTAATAGTGGAATAGTG
*
16658809 TAATAGTGTAATAGTGGAAT
1 TAATAGCGTAATAGTGGAAT
16658829 TTTTTGATTG
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
23 20 0.57
24 15 0.43
ACGTcount: A:0.36, C:0.01, G:0.28, T:0.34
Consensus pattern (24 bp):
TAATAGCGTAATAGTGGAATAGTG
Found at i:16659611 original size:99 final size:99
Alignment explanation
Indices: 16659487--16659770 Score: 461
Period size: 99 Copynumber: 2.9 Consensus size: 99
16659477 ATGTTTACTT
*
16659487 AAATTAACAAATGCAAATTAAAAGAAAGACTTAACAAGTTTAATGTCATTAATTTAAATATTTTA
1 AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAAGTTTAATGTCATTAATTTAAATATTTTA
*
16659552 TTTTATTTTTATATTACCTAATTTTTAAATTAAC
66 TTTTATTTTTAAATTACCTAATTTTTAAATTAAC
16659586 AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAAGTTTAATGTCATTAATTTAAATATTTTA
1 AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAAGTTTAATGTCATTAATTTAAATATTTTA
16659651 TTTTATTTTTAAATTACCTAATTTTTAAATTAAC
66 TTTTATTTTTAAATTACCTAATTTTTAAATTAAC
** *
16659685 AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAATGTTTAAAAT-ATT--TTGT--CTACTT
1 AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAA-GTTTAATGTCATTAATT-TAAATA-TT
16659745 TTATTTTATTTTTAAATTACCTAATT
63 TTATTTTATTTTTAAATTACCTAATT
16659771 AAATTAAATT
Statistics
Matches: 177, Mismatches: 5, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
96 2 0.01
97 30 0.17
98 1 0.01
99 137 0.77
100 7 0.04
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (99 bp):
AAATTAATAAATGCAAATTAAAAGAAAGACTTAACAAGTTTAATGTCATTAATTTAAATATTTTA
TTTTATTTTTAAATTACCTAATTTTTAAATTAAC
Found at i:16659689 original size:16 final size:16
Alignment explanation
Indices: 16659655--16659689 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
16659645 ATTTTATTTT
* *
16659655 ATTTTTAAATTACCTA
1 ATTTTTAAATTAACAA
16659671 ATTTTTAAATTAACAA
1 ATTTTTAAATTAACAA
16659687 ATT
1 ATT
16659690 AATAAATGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTTTTAAATTAACAA
Found at i:16659799 original size:5 final size:5
Alignment explanation
Indices: 16659791--16659815 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
16659781 GTATTTAAAG
16659791 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
16659816 ATCACGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:16659859 original size:96 final size:96
Alignment explanation
Indices: 16659733--16660189 Score: 772
Period size: 91 Copynumber: 4.9 Consensus size: 96
16659723 GTTTAAAATA
16659733 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
1 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
16659798 TTATTTTATTTTATTTTAATCACGAAAAAAC
66 TTATTTTATTTTATTTTAATCACGAAAAAAC
* *
16659829 TTTTGTCAAATTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
1 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
*
16659894 TTATTTTATTTTATTTTAATCAGGAAAAAA-
66 TTATTTTATTTTATTTTAATCACGAAAAAAC
16659924 -TTTGTCTACTTTTA--TT-TTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
1 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
16659985 TTATTTTATTTTATTTTAATCACGAAAAAAC
66 TTATTTTATTTTATTTTAATCACGAAAAAAC
* *
16660016 CTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAAGTAAATTGTATTTAAA----T-TT
1 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
**
16660076 TTATTTTATTTTATTTTAATCTGGAAAAAAC
66 TTATTTTATTTTATTTTAATCACGAAAAAAC
*
16660107 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAAATAAATTAAATTGTATTTAAAGTTTTATT
1 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
16660172 TTATTTTATTTTATTTTA
66 TTATTTTATTTTATTTTA
16660190 TTTTAATCAT
Statistics
Matches: 339, Mismatches: 12, Indels: 20
0.91 0.03 0.05
Matches are distributed among these distances:
91 159 0.47
92 3 0.01
93 14 0.04
94 12 0.04
95 3 0.01
96 148 0.44
ACGTcount: A:0.33, C:0.06, G:0.05, T:0.56
Consensus pattern (96 bp):
TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
TTATTTTATTTTATTTTAATCACGAAAAAAC
Found at i:16659895 original size:5 final size:5
Alignment explanation
Indices: 16659887--16659911 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
16659877 GTATTTAAAG
16659887 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
16659912 ATCAGGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:16659970 original size:187 final size:185
Alignment explanation
Indices: 16659734--16660189 Score: 765
Period size: 187 Copynumber: 2.4 Consensus size: 185
16659724 TTTAAAATAT
16659734 TTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTT
1 TTTGTCTACTTTTA-TTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTT
*
16659799 TATTTTATTTTATTTTAATCACGAAAAAACTTTTGTCAAATTTTATTTTATTTTTAAATTACCTA
65 TATTTTATTTTATTTTAATCACGAAAAAACCTTTGTCAAATTTTATTTTATTTTTAAATTACCTA
*
16659864 ATTAAATTAAATTGTATTTAAAGTTTTATTTTATTTTATTTTATTTTAATCAGGAAAAAA-
130 ATTAAAGTAAATTGTATTTAAA----T-TTTTATTTTATTTTATTTTAATCAGGAAAAAAC
16659924 TTTGTCTACTTTTA-TT-TTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTT
1 TTTGTCTACTTTTATTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTT
* *
16659987 ATTTTATTTTATTTTAATCACGAAAAAACCTTTGTCTACTTTTATTTTATTTTTAAATTACCTAA
66 ATTTTATTTTATTTTAATCACGAAAAAACCTTTGTCAAATTTTATTTTATTTTTAAATTACCTAA
*
16660052 TTAAAGTAAATTGTATTTAAATTTTTATTTTATTTTATTTTAATCTGGAAAAAAC
131 TTAAAGTAAATTGTATTTAAATTTTTATTTTATTTTATTTTAATCAGGAAAAAAC
*
16660107 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAAATAAATTAAATTGTATTTAAAGTTTTATT
1 -TTTGTCTACTTTTA-TTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
16660172 TTATTTTATTTTATTTTA
64 TTATTTTATTTTATTTTA
16660190 TTTTAATCAT
Statistics
Matches: 255, Mismatches: 6, Indels: 13
0.93 0.02 0.05
Matches are distributed among these distances:
182 31 0.12
183 1 0.00
184 14 0.05
186 2 0.01
187 191 0.75
188 2 0.01
190 14 0.05
ACGTcount: A:0.33, C:0.06, G:0.05, T:0.56
Consensus pattern (185 bp):
TTTGTCTACTTTTATTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTT
ATTTTATTTTATTTTAATCACGAAAAAACCTTTGTCAAATTTTATTTTATTTTTAAATTACCTAA
TTAAAGTAAATTGTATTTAAATTTTTATTTTATTTTATTTTAATCAGGAAAAAAC
Found at i:16659986 original size:5 final size:5
Alignment explanation
Indices: 16659978--16660002 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
16659968 GTATTTAAAG
16659978 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
16660003 ATCACGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:16660121 original size:43 final size:42
Alignment explanation
Indices: 16659983--16660130 Score: 113
Period size: 43 Copynumber: 3.3 Consensus size: 42
16659973 TAAAGTTTTA
* *
16659983 TTTTATTTTATTTTATTTTAATCACGAAAAAACCTTTGTCTAC
1 TTTTATTTTATTTTATTTTAATC-TGAAAAAACTTTTGTCTAC
* * ** *
16660026 TTTTATTTTATTTTTAAATTACCTAAT-T-AAAGTAAA-TTGTATTTAAAT
1 TTTTATTTTA-TTTT--ATT--TTAATCTGAAA--AAACTT-T-TGTCTAC
16660074 TTTTATTTTATTTTATTTTAATCTGGAAAAAACTTTTGTCTAC
1 TTTTATTTTATTTTATTTTAATCT-GAAAAAACTTTTGTCTAC
16660117 TTTTATTTTATTTT
1 TTTTATTTTATTTT
16660131 TAAATTACCT
Statistics
Matches: 80, Mismatches: 12, Indels: 26
0.68 0.10 0.22
Matches are distributed among these distances:
43 31 0.39
44 9 0.11
45 8 0.10
46 7 0.09
47 8 0.10
48 17 0.21
ACGTcount: A:0.30, C:0.08, G:0.05, T:0.57
Consensus pattern (42 bp):
TTTTATTTTATTTTATTTTAATCTGAAAAAACTTTTGTCTAC
Found at i:16660173 original size:5 final size:5
Alignment explanation
Indices: 16660165--16660194 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
16660155 GTATTTAAAG
16660165 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
16660195 ATCATGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:16660399 original size:9 final size:9
Alignment explanation
Indices: 16660387--16660493 Score: 83
Period size: 9 Copynumber: 11.7 Consensus size: 9
16660377 AAATATATAT
*
16660387 CATATTTTA
1 CATAATTTA
16660396 CATAATTTA
1 CATAATTTA
*
16660405 CATAACTTA
1 CATAATTTA
16660414 CATAATATATA
1 CATAAT-T-TA
* *
16660425 AAT-ATATA
1 CATAATTTA
16660433 TCAT-ATCTTA
1 -CATAAT-TTA
16660443 CATAATTTA
1 CATAATTTA
**
16660452 CATAATTCG
1 CATAATTTA
* *
16660461 GATAACTTA
1 CATAATTTA
16660470 CATAATTTA
1 CATAATTTA
*
16660479 CATAACTTA
1 CATAATTTA
16660488 CATAAT
1 CATAAT
16660494 ACATAAATAT
Statistics
Matches: 76, Mismatches: 17, Indels: 10
0.74 0.17 0.10
Matches are distributed among these distances:
8 2 0.03
9 63 0.83
10 7 0.09
11 4 0.05
ACGTcount: A:0.44, C:0.14, G:0.02, T:0.40
Consensus pattern (9 bp):
CATAATTTA
Found at i:16665597 original size:13 final size:14
Alignment explanation
Indices: 16665581--16665609 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
16665571 TTATAAATAT
16665581 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
16665594 TTATAATGGTTTAA
1 TTATAATGGTTTAA
16665608 TT
1 TT
16665610 CGTTGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:16666068 original size:21 final size:21
Alignment explanation
Indices: 16666022--16666090 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
16666012 TAGAGCGGAG
* *
16666022 GCAGCAGAGAGGGAGGAAGCA
1 GCAGCAGCGAGGGAGGCAGCA
16666043 GCAGCAGCGAGGGAGGCAGC-
1 GCAGCAGCGAGGGAGGCAGCA
* *
16666063 GACAGCAGCAAGAGAGGCAG-A
1 G-CAGCAGCGAGGGAGGCAGCA
16666084 GGCAGCA
1 -GCAGCA
16666091 TCAATGGCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 1 0.02
21 39 0.95
22 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.45, T:0.00
Consensus pattern (21 bp):
GCAGCAGCGAGGGAGGCAGCA
Found at i:16666623 original size:43 final size:43
Alignment explanation
Indices: 16666504--16666653 Score: 203
Period size: 43 Copynumber: 3.5 Consensus size: 43
16666494 GCTTGGCGCC
*
16666504 TTTCCCACAAACGCCGCTAAAAGCCATAACTTTTAGCGACGCT
1 TTTCCCACAAACGCCGCTAAAAGCCATGACTTTTAGCGACGCT
* * *
16666547 TTT-CGACAAACGCCGCTAAAAGCCACGACTTTTAGCGGCGCT
1 TTTCCCACAAACGCCGCTAAAAGCCATGACTTTTAGCGACGCT
* * * * *
16666589 TTTCCCATAAATGCCACTAAAATCCATGACTTTTAGTGACGCT
1 TTTCCCACAAACGCCGCTAAAAGCCATGACTTTTAGCGACGCT
*
16666632 TTTCCCACAAATGCCGCTAAAA
1 TTTCCCACAAACGCCGCTAAAA
16666654 ATCTTGGTCC
Statistics
Matches: 92, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 38 0.41
43 54 0.59
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (43 bp):
TTTCCCACAAACGCCGCTAAAAGCCATGACTTTTAGCGACGCT
Found at i:16668307 original size:16 final size:16
Alignment explanation
Indices: 16668286--16668317 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16668276 AAAGGCAAAC
16668286 AAATGAATCTTAAAAA
1 AAATGAATCTTAAAAA
*
16668302 AAATGAGTCTTAAAAA
1 AAATGAATCTTAAAAA
16668318 CTTAATGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.25
Consensus pattern (16 bp):
AAATGAATCTTAAAAA
Found at i:16681277 original size:31 final size:31
Alignment explanation
Indices: 16681239--16681317 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
16681229 TTTAATGGTT
16681239 ACTGGGCTGAAGCCTTTTCATAAATCATATC
1 ACTGGGCTGAAGCCTTTTCATAAATCATATC
16681270 ACTGGGCTGAAGCCTTTTCATAAATCATATC
1 ACTGGGCTGAAGCCTTTTCATAAATCATATC
*
16681301 ATTGGGCTGAAGCCTTT
1 ACTGGGCTGAAGCCTTT
16681318 ACTGTAAACA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (31 bp):
ACTGGGCTGAAGCCTTTTCATAAATCATATC
Found at i:16681388 original size:42 final size:42
Alignment explanation
Indices: 16681341--16681432 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
16681331 TGGCCCTTAG
* ** *
16681341 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
16681383 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
16681425 GCCCATTT
1 GCCCATTT
16681433 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:16681648 original size:26 final size:26
Alignment explanation
Indices: 16681577--16681725 Score: 239
Period size: 26 Copynumber: 5.8 Consensus size: 26
16681567 CCTCTTTAAT
*
16681577 AACTGGGGCA-AAGCCCTTTTTGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
16681602 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
16681627 AACTGGGGCATAAGCCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
16681653 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
16681679 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
16681705 AACTGCGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
16681726 GCACTTCCTC
Statistics
Matches: 117, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
25 32 0.27
26 85 0.73
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:16682596 original size:27 final size:27
Alignment explanation
Indices: 16682502--16682579 Score: 115
Period size: 27 Copynumber: 2.9 Consensus size: 27
16682492 TATTCATCAT
*
16682502 TTTACCATACAGGGG-TATTACGGTCAC
1 TTTACCCTACAGGGGCT-TTACGGTCAC
*
16682529 -TTACCCTACAGGAGCTTTACGGTCAC
1 TTTACCCTACAGGGGCTTTACGGTCAC
16682555 TTTACCCTACAGGGGCTTTACGGTC
1 TTTACCCTACAGGGGCTTTACGGTC
16682580 TTTTTACCTA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
26 22 0.48
27 24 0.52
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (27 bp):
TTTACCCTACAGGGGCTTTACGGTCAC
Found at i:16682670 original size:27 final size:27
Alignment explanation
Indices: 16682617--16682976 Score: 233
Period size: 27 Copynumber: 13.3 Consensus size: 27
16682607 TTTCATCCTA
* * * *
16682617 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
** *
16682644 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *** * *
16682671 CAATGGTATTTCCATAATTTTTAGAAAGT
1 CAAGGGTATTTTGGTAA-TTTTATAAA-C
* * *
16682700 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTATAAAC
* * *
16682727 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
** * * *
16682754 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
16682781 C-AGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTATAAAC
* * * *
16682808 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
** * *
16682835 TGAGGGTATTTCGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * *
16682862 CAGGGGTATTTTAGCAATTTTATAGA-
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
16682888 CTAGGGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTGGTAATTTTA-TAAAC
* *
16682915 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
16682942 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
16682969 CGAGGGTA
1 CAAGGGTA
16682977 AAACAATAAT
Statistics
Matches: 265, Mismatches: 59, Indels: 18
0.77 0.17 0.05
Matches are distributed among these distances:
26 24 0.09
27 214 0.81
28 14 0.05
29 13 0.05
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:16682823 original size:81 final size:80
Alignment explanation
Indices: 16682728--16682962 Score: 337
Period size: 81 Copynumber: 2.9 Consensus size: 80
16682718 TTTGTAAATC
*
16682728 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAG-GGTATTTT
*
16682793 GGTAATTTTACAAACT
65 AGTAATTTTACAAACT
16682809 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCA-GGGTATTTT
* * *
16682874 AGCAATTTTATAGACT
65 AGTAATTTTACAAACT
** * * **
16682890 A-GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACC-AGGGTATTTT
16682954 AGTAATTTT
65 AGTAATTTT
16682963 GTAAATCGAG
Statistics
Matches: 140, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
80 63 0.45
81 76 0.54
82 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (80 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAGGGTATTTTA
GTAATTTTACAAACT
Found at i:16682986 original size:27 final size:27
Alignment explanation
Indices: 16682954--16683057 Score: 154
Period size: 27 Copynumber: 3.9 Consensus size: 27
16682944 AGGGTATTTT
* *
16682954 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
* ** *
16682981 AATAATTCTATAAATTAAGGGTAAAAT
1 AGTAATTCTATAAATCGAGGGTAAAAC
16683008 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
16683035 AGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTATAAATCGAGGGTA
16683058 CTTTGGTAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 67 1.00
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.30
Consensus pattern (27 bp):
AGTAATTCTATAAATCGAGGGTAAAAC
Found at i:16682987 original size:54 final size:54
Alignment explanation
Indices: 16682937--16683071 Score: 171
Period size: 54 Copynumber: 2.5 Consensus size: 54
16682927 GGTAATTTTG
* * *
16682937 TAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAATAATTCTA
1 TAAATCAAGGGTAATTTAGTAATTTTATAAATCGAGGGTAAAACAATAATTCTA
* ** * *
16682991 TAAATTAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTA
1 TAAATCAAGGGTAATTTAGTAATTTTATAAATCGAGGGTAAAACAATAATTCTA
* * *
16683045 TAAATCGAGGGTACTTTGGTAATTTTA
1 TAAATCAAGGGTAATTTAGTAATTTTA
16683072 CAATTTGAGG
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (54 bp):
TAAATCAAGGGTAATTTAGTAATTTTATAAATCGAGGGTAAAACAATAATTCTA
Found at i:16683066 original size:27 final size:27
Alignment explanation
Indices: 16683009--16683071 Score: 54
Period size: 27 Copynumber: 2.3 Consensus size: 27
16682999 GGGTAAAATA
* *****
16683009 GTAATTCTATAAATCGAGGGTAAAACA
1 GTAATTTTATAAATCGAGGGTATTTTG
* *
16683036 GTAATTCTATAAATCGAGGGTACTTTG
1 GTAATTTTATAAATCGAGGGTATTTTG
16683063 GTAATTTTA
1 GTAATTTTA
16683072 CAATTTGAGG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.35
Consensus pattern (27 bp):
GTAATTTTATAAATCGAGGGTATTTTG
Found at i:16684846 original size:122 final size:122
Alignment explanation
Indices: 16684701--16684945 Score: 427
Period size: 122 Copynumber: 2.0 Consensus size: 122
16684691 GTTTGTGGAC
* *
16684701 TAAATTGAAAGATTATGTGATTAAATGAGTTGAATTTGTTATAATATAGATTAAGAAAAGAGGAA
1 TAAATTGAAAGATTATGTGATTAAATGAGTTGAATTTGTTATAATATAGATCAAGAAAAAAGGAA
* * *
16684766 CTTGGATTTAGATCGAGGCAAGAATAAAGTAGTCGACTAATCGACTAGTTTTGTTGT
66 CTCGGATTTAGATCGAGGCAAGAATAAAGTACTCGACTAATCGACTAGTTTCGTTGT
16684823 TAAATTGAAAGATTATGTGATTAAATGAGTTGAATTTGTTATAATATAGATCAAGAAAAAAGGAA
1 TAAATTGAAAGATTATGTGATTAAATGAGTTGAATTTGTTATAATATAGATCAAGAAAAAAGGAA
* *
16684888 CTCGGATTTAGATTGAGGCAAGAATAAAGTACTCGACTAATCGACTGGTTTCGTTGT
66 CTCGGATTTAGATCGAGGCAAGAATAAAGTACTCGACTAATCGACTAGTTTCGTTGT
16684945 T
1 T
16684946 TTTACGTCTG
Statistics
Matches: 116, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
122 116 1.00
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (122 bp):
TAAATTGAAAGATTATGTGATTAAATGAGTTGAATTTGTTATAATATAGATCAAGAAAAAAGGAA
CTCGGATTTAGATCGAGGCAAGAATAAAGTACTCGACTAATCGACTAGTTTCGTTGT
Found at i:16685118 original size:41 final size:41
Alignment explanation
Indices: 16685091--16685209 Score: 184
Period size: 41 Copynumber: 2.9 Consensus size: 41
16685081 CAATATCGAG
*
16685091 ATAGCTTCGGCTATGTAATGCACTTAGTGTACGAGATTATA
1 ATAGCTTCGGCTATGTAATGCACTTAGTGTGCGAGATTATA
* * * *
16685132 ATAACTTTGGCTATGTAATGAACTTAGTGTGTGAGATTATA
1 ATAGCTTCGGCTATGTAATGCACTTAGTGTGCGAGATTATA
*
16685173 ATAGCTTCGGCTATGTAATGCACTGAGTGTGCGAGAT
1 ATAGCTTCGGCTATGTAATGCACTTAGTGTGCGAGAT
16685210 ATCGAGTAAT
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.34
Consensus pattern (41 bp):
ATAGCTTCGGCTATGTAATGCACTTAGTGTGCGAGATTATA
Found at i:16686950 original size:32 final size:32
Alignment explanation
Indices: 16686909--16686971 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
16686899 TTCAAGTTTG
16686909 TTAGTCAAAATCTTAGTTTCATGAGGAATATA
1 TTAGTCAAAATCTTAGTTTCATGAGGAATATA
*
16686941 TTAGTCAAAATTTTAGTTTCATGAGGAATAT
1 TTAGTCAAAATCTTAGTTTCATGAGGAATAT
16686972 TGCTTAGACT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.40
Consensus pattern (32 bp):
TTAGTCAAAATCTTAGTTTCATGAGGAATATA
Found at i:16702098 original size:40 final size:40
Alignment explanation
Indices: 16702034--16702162 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
16702024 ATTATGTTTG
* *
16702034 GCACTTAGTGTGCGTATCGAAATAGCTTCGGCTATATAAA
1 GCACTTAGTGTGCGAATCGGAATAGCTTCGGCTATATAAA
**
16702074 GCACTTAGTGTGCGAATCGGAATAGCTTCGGCTATATATG
1 GCACTTAGTGTGCGAATCGGAATAGCTTCGGCTATATAAA
* * *
16702114 GCACTTAGTGTGAGAGA-CTGAGATAGCTTCAGCTATA-AAA
1 GCACTTAGTGTGCGA-ATCGGA-ATAGCTTCGGCTATATAAA
16702154 GGCACTTAG
1 -GCACTTAG
16702163 CGTGTGAGAT
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
40 54 0.70
41 23 0.30
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (40 bp):
GCACTTAGTGTGCGAATCGGAATAGCTTCGGCTATATAAA
Found at i:16705352 original size:56 final size:56
Alignment explanation
Indices: 16705286--16705440 Score: 204
Period size: 56 Copynumber: 2.8 Consensus size: 56
16705276 TCCCAGACAG
* **
16705286 GGTCTTACTCGTAAACACATATTGGAATCACATATCGATGCCAATGTATTAAACGT
1 GGTCTTACTCGTACACACATATTGGAATCACATATCGATGCCAACATATTAAACGT
* ** *
16705342 GGTCTTACTCGCACACACATATCAGAATCACATATTGATGCCAACATATTAAACGT
1 GGTCTTACTCGTACACACATATTGGAATCACATATCGATGCCAACATATTAAACGT
* * *
16705398 GGCCTTACTTGCT-CACACATATTGAAATCACATATCGATGCCA
1 GGTCTTACTCG-TACACACATATTGGAATCACATATCGATGCCA
16705441 CTGTCCTAGA
Statistics
Matches: 84, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
56 84 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGTACACACATATTGGAATCACATATCGATGCCAACATATTAAACGT
Found at i:16705461 original size:56 final size:56
Alignment explanation
Indices: 16705259--16705461 Score: 162
Period size: 56 Copynumber: 3.6 Consensus size: 56
16705249 ATATGTAATT
* * * * * * *
16705259 ACATATTGATGACACTATCCCAGACAGGGTCTTACTCG-TAAACACATATTGGAATC
1 ACATATCGATGCCACTATCCTAAACATGGTCTTACTCGCT-CACACATATTGAAATC
* * ** * * *
16705315 ACATATCGATGCCAATGTATTAAACGTGGTCTTACTCGCACACACATA-TCAGAATC
1 ACATATCGATGCCACTATCCTAAACATGGTCTTACTCGCTCACACATATTGA-AATC
* * * *
16705371 ACATATTGATGCCAACATAT--TAAACGTGGCCTTACTTGCTCACACATATTGAAATC
1 ACATATCGATGCC-AC-TATCCTAAACATGGTCTTACTCGCTCACACATATTGAAATC
* *
16705427 ACATATCGATGCCACTGTCCTAGACATGGTCTTAC
1 ACATATCGATGCCACTATCCTAAACATGGTCTTAC
16705462 ACGAATCAAA
Statistics
Matches: 114, Mismatches: 26, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
54 2 0.02
55 3 0.03
56 104 0.91
57 3 0.03
58 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.28
Consensus pattern (56 bp):
ACATATCGATGCCACTATCCTAAACATGGTCTTACTCGCTCACACATATTGAAATC
Found at i:16705469 original size:42 final size:43
Alignment explanation
Indices: 16705423--16705518 Score: 117
Period size: 41 Copynumber: 2.3 Consensus size: 43
16705413 CACATATTGA
* *
16705423 AATCACATATCGATG-CCACTGTCCTAGACATGGTCTTACACG-
1 AATCACATATCGATGACCA-TGTCCAACACATGGTCTTACACGT
* * *
16705465 AATCAAATAT-GATGACGATGTCCAACATATGGTCTTACACGT
1 AATCACATATCGATGACCATGTCCAACACATGGTCTTACACGT
16705507 AATCACATATCG
1 AATCACATATCG
16705519 GAAATCCTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
41 24 0.53
42 20 0.44
43 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (43 bp):
AATCACATATCGATGACCATGTCCAACACATGGTCTTACACGT
Found at i:16710603 original size:15 final size:15
Alignment explanation
Indices: 16710583--16710616 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
16710573 AAATTCAGAG
16710583 TTGATTCAAATAATT
1 TTGATTCAAATAATT
*
16710598 TTGATTCAGATAATT
1 TTGATTCAAATAATT
16710613 TTGA
1 TTGA
16710617 ATAAAGCACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (15 bp):
TTGATTCAAATAATT
Found at i:16713147 original size:83 final size:83
Alignment explanation
Indices: 16713022--16713212 Score: 239
Period size: 83 Copynumber: 2.3 Consensus size: 83
16713012 ATGAATCGAT
* *
16713022 TATG-TTTGGCACTTAGTGTGCG-TATCGAAATAGCTTCGGCTATATAAA-GCACTTAGTATGCG
1 TATGATTTGGCACTTAGTGTGTGAGATCGAAATAGCTTCGGCTATA-AAAGGCACTTAGTATGCG
*
16713084 -AATCAGAATAGCTTCGGC
65 AAATCAGAATAGCTTCAGC
* * *
16713102 TAT-ATATATGGCACTTAGTGTGTGAGATTGAGATAGCTTCGGCTATAAAAGGCACTTAGTGTGC
1 TATGAT-T-TGGCACTTAGTGTGTGAGATCGAAATAGCTTCGGCTATAAAAGGCACTTAGTATGC
* *
16713166 GAAATTATAATAGCTTCAGC
64 GAAATCAGAATAGCTTCAGC
*
16713186 TATGCTTTGGCACTTAGTGTGTGAGAT
1 TATGATTTGGCACTTAGTGTGTGAGAT
16713213 ATCGAGTATT
Statistics
Matches: 95, Mismatches: 9, Indels: 11
0.83 0.08 0.10
Matches are distributed among these distances:
80 4 0.04
81 1 0.01
82 18 0.19
83 52 0.55
84 19 0.20
85 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.33
Consensus pattern (83 bp):
TATGATTTGGCACTTAGTGTGTGAGATCGAAATAGCTTCGGCTATAAAAGGCACTTAGTATGCGA
AATCAGAATAGCTTCAGC
Found at i:16713179 original size:41 final size:40
Alignment explanation
Indices: 16713029--16713188 Score: 171
Period size: 40 Copynumber: 3.9 Consensus size: 40
16713019 GATTATGTTT
* *
16713029 GGCACTTAGTGTGCGTATCGAAATAGCTTCGGCTATATAAA
1 GGCACTTAGTGTGCGAAT-TAAATAGCTTCGGCTATATAAA
* * *
16713070 -GCACTTAGTATGCGAATCAGAATAGCTTCGGCTATATATAT
1 GGCACTTAGTGTGCGAATTA-AATAGCTTCGGCTATATA-AA
* *
16713111 GGCACTTAGTGTGTGAGATTGAGATAGCTTCGGCTATA-AAA
1 GGCACTTAGTGTGCGA-ATT-AAATAGCTTCGGCTATATAAA
*
16713152 GGCACTTAGTGTGCGAAATTATAATAGCTTCAGCTAT
1 GGCACTTAGTGTGCG-AATTA-AATAGCTTCGGCTAT
16713189 GCTTTGGCAC
Statistics
Matches: 100, Mismatches: 12, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
39 1 0.01
40 34 0.34
41 32 0.32
42 15 0.15
43 17 0.17
44 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.31
Consensus pattern (40 bp):
GGCACTTAGTGTGCGAATTAAATAGCTTCGGCTATATAAA
Found at i:16718888 original size:23 final size:24
Alignment explanation
Indices: 16718850--16718894 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
16718840 TTTGCTCTTC
*
16718850 TAGCATGAACTTGTCTTACCTTTT
1 TAGCATGAACTCGTCTTACCTTTT
16718874 TAGCAT-AACTCGTCTTACCTT
1 TAGCATGAACTCGTCTTACCTT
16718895 ACCGTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.42
Consensus pattern (24 bp):
TAGCATGAACTCGTCTTACCTTTT
Found at i:16719151 original size:55 final size:53
Alignment explanation
Indices: 16719010--16719217 Score: 222
Period size: 55 Copynumber: 3.8 Consensus size: 53
16719000 ATCCTTTTGA
* * *
16719010 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * * *
16719063 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATAG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G
* ***
16719117 CAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-G
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * *
16719170 AAACCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -AA-CTTACCAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTT
16719218 AAACCCTAAT
Statistics
Matches: 128, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
52 2 0.02
53 45 0.35
54 8 0.06
55 71 0.55
56 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (53 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:16719162 original size:108 final size:110
Alignment explanation
Indices: 16719010--16719210 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
16719000 ATCCTTTTGA
* *
16719010 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
16719073 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGC
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGC
* * * *
16719118 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
16719183 TGCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
16719211 TATCCTTAAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 1 0.01
108 48 0.57
109 7 0.08
110 28 0.33
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGC
Found at i:16737894 original size:43 final size:43
Alignment explanation
Indices: 16737769--16737930 Score: 170
Period size: 43 Copynumber: 3.8 Consensus size: 43
16737759 CGGAAAGCTC
* *
16737769 ATACAATGCCAACATCCTAGATGTGGTCTTACATGT-AATCAA
1 ATACAATGCCAACGTCCTAGACGTGGTCTTACATGTAAATCAA
* **
16737811 ATATCGATGCC-ACTGTCCTAGACAAGGTCTTACATG-AAATCAA
1 ATA-CAATGCCAAC-GTCCTAGACGTGGTCTTACATGTAAATCAA
*
16737854 ATACAATGCCAACGTCCTAGGCGTGGTCTTACATGTAAATCATA
1 ATACAATGCCAACGTCCTAGACGTGGTCTTACATGTAAATCA-A
** * *
16737898 AGT-CAATTTCAATGTCCCAGACGTGGTCTTACA
1 A-TACAATGCCAACGTCCTAGACGTGGTCTTACA
16737931 CGAAAACACA
Statistics
Matches: 99, Mismatches: 14, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
42 30 0.30
43 41 0.41
44 27 0.27
45 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.28
Consensus pattern (43 bp):
ATACAATGCCAACGTCCTAGACGTGGTCTTACATGTAAATCAA
Found at i:16738693 original size:69 final size:69
Alignment explanation
Indices: 16738616--16738753 Score: 267
Period size: 69 Copynumber: 2.0 Consensus size: 69
16738606 ATAGTTGGGT
*
16738616 GAGTTTACGAAAACTCAGTGTGTAATCCCGATAATAAACAAATAGTCGAACATACAGAGAGTAAA
1 GAGTTTACGAAAACTCAGTGTGTAATCCCGATAATAAACAAATAATCGAACATACAGAGAGTAAA
16738681 TACA
66 TACA
16738685 GAGTTTACGAAAACTCAGTGTGTAATCCCGATAATAAACAAATAATCGAACATACAGAGAGTAAA
1 GAGTTTACGAAAACTCAGTGTGTAATCCCGATAATAAACAAATAATCGAACATACAGAGAGTAAA
16738750 TACA
66 TACA
16738754 TTCTGGGCCT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.46, C:0.16, G:0.17, T:0.22
Consensus pattern (69 bp):
GAGTTTACGAAAACTCAGTGTGTAATCCCGATAATAAACAAATAATCGAACATACAGAGAGTAAA
TACA
Found at i:16738793 original size:34 final size:35
Alignment explanation
Indices: 16738755--16738840 Score: 120
Period size: 34 Copynumber: 2.5 Consensus size: 35
16738745 GTAAATACAT
16738755 TCTGGGCCTAAGCCCATGTTAGTAACAGT-AACAG
1 TCTGGGCCTAAGCCCATGTTAGTAACAGTAAACAG
* * * *
16738789 TCTGGGCCTTAGCCTATTTTAGTATCAGTAAACAG
1 TCTGGGCCTAAGCCCATGTTAGTAACAGTAAACAG
*
16738824 TCTGGGCCTAGGCCCAT
1 TCTGGGCCTAAGCCCAT
16738841 CTCAATACAG
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
34 25 0.57
35 19 0.43
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.28
Consensus pattern (35 bp):
TCTGGGCCTAAGCCCATGTTAGTAACAGTAAACAG
Found at i:16739093 original size:22 final size:22
Alignment explanation
Indices: 16739030--16739094 Score: 55
Period size: 22 Copynumber: 2.9 Consensus size: 22
16739020 TTAATAGTAC
16739030 TTGCAGCAGAGCTGCCAGTATAA
1 TTGCAGCAGAGCTGCCAGTAT-A
**
16739053 TTG--GCTTAGAGCTATCAGTGAT-
1 TTGCAGC--AGAGCTGCCAGT-ATA
16739075 TTGCAGCAGAGCTGCCAGTA
1 TTGCAGCAGAGCTGCCAGTA
16739095 CAGTACACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 12
0.67 0.08 0.24
Matches are distributed among these distances:
21 3 0.09
22 13 0.39
23 13 0.39
24 4 0.12
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (22 bp):
TTGCAGCAGAGCTGCCAGTATA
Found at i:16739326 original size:27 final size:27
Alignment explanation
Indices: 16739296--16739390 Score: 145
Period size: 27 Copynumber: 3.5 Consensus size: 27
16739286 GGGCAAAATA
*
16739296 GTCATTTTACCCTATGGGGATATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
16739323 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
16739350 GTTATTTTACCTTATGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
*
16739377 GTCATTTTTCCCTA
1 GTCATTTTACCCTA
16739391 GAAGGGCAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.17, C:0.18, G:0.21, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:16739411 original size:54 final size:54
Alignment explanation
Indices: 16739267--16739412 Score: 136
Period size: 54 Copynumber: 2.7 Consensus size: 54
16739257 AAGGGCAAAA
* * *
16739267 CAGTCA-TTTTGCCTCACAAGGGCAAAATAGTCATTTTACCCTATGGGGATATTT
1 CAGTCATTTTTCCCT-AGAAGGGCAAAATGGTCATTTTACCCTATGGGGATATTT
* * ** ** * * *
16739321 CGGTCATTTTACCCTATG--GGGGTATTTCGGTTATTTTACCTTATGGGGGTATTT
1 CAGTCATTTTTCCCTA-GAAGGGCAAAAT-GGTCATTTTACCCTATGGGGATATTT
16739375 CAGTCATTTTTCCCTAGAAGGGCAAAATGGTCATTTTA
1 CAGTCATTTTTCCCTAGAAGGGCAAAATGGTCATTTTA
16739413 TCGATTAAGG
Statistics
Matches: 68, Mismatches: 19, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
53 6 0.09
54 51 0.75
55 11 0.16
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (54 bp):
CAGTCATTTTTCCCTAGAAGGGCAAAATGGTCATTTTACCCTATGGGGATATTT
Found at i:16739748 original size:68 final size:68
Alignment explanation
Indices: 16739639--16739774 Score: 218
Period size: 68 Copynumber: 2.0 Consensus size: 68
16739629 GGCTTGCTCG
*
16739639 TGCATGGCCCTCGAGCCCCTAGGGCCCACACAACCCATTTTGGCCCATCGTGGCCCAAAATTGGC
1 TGCATGGCCCTCGAGCCCCTAGGGCCCACACAACCCATTTTGGCCCATCGTGGCCCAAAATCGGC
16739704 CTA
66 CTA
* * ** *
16739707 TGCATGGCCCTCGAGCCCGTGGGGCCCACACGGCCCATTTTGGCCCATTGTGGCCCAAAATCGGC
1 TGCATGGCCCTCGAGCCCCTAGGGCCCACACAACCCATTTTGGCCCATCGTGGCCCAAAATCGGC
16739772 CTA
66 CTA
16739775 AGCCCATGAA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 62 1.00
ACGTcount: A:0.18, C:0.38, G:0.25, T:0.19
Consensus pattern (68 bp):
TGCATGGCCCTCGAGCCCCTAGGGCCCACACAACCCATTTTGGCCCATCGTGGCCCAAAATCGGC
CTA
Found at i:16743633 original size:42 final size:42
Alignment explanation
Indices: 16743574--16743660 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
16743564 AAATTTGAAG
16743574 TAAAAATTATGTTTTATTAATATTTTAATGTATGCAGCATGA
1 TAAAAATTATGTTTTATTAATATTTTAATGTATGCAGCATGA
*
16743616 TAAAAATTATGTTTTATTAATATTTTAATGTATTCAGCATGA
1 TAAAAATTATGTTTTATTAATATTTTAATGTATGCAGCATGA
16743658 TAA
1 TAA
16743661 TATGATTGTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.39, C:0.05, G:0.10, T:0.46
Consensus pattern (42 bp):
TAAAAATTATGTTTTATTAATATTTTAATGTATGCAGCATGA
Found at i:16744846 original size:29 final size:28
Alignment explanation
Indices: 16744812--16744868 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 28
16744802 GTGAATTATA
*
16744812 CTGATTTGGCTTCGGGCCATGCATATCAG
1 CTGATTTGGCTTCAGGCCATG-ATATCAG
16744841 CTGATTTGGCTTCAGGCCATGATATCAG
1 CTGATTTGGCTTCAGGCCATGATATCAG
16744869 AACTTCAGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 7 0.26
29 20 0.74
ACGTcount: A:0.19, C:0.23, G:0.26, T:0.32
Consensus pattern (28 bp):
CTGATTTGGCTTCAGGCCATGATATCAG
Found at i:16764589 original size:26 final size:26
Alignment explanation
Indices: 16764560--16764667 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
16764550 TGATACAAAT
16764560 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
16764586 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16764612 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
16764638 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
16764664 TGAT
1 TGAT
16764668 TGGAATTTCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:16765410 original size:26 final size:26
Alignment explanation
Indices: 16765380--16765432 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
16765370 TTTATAGTTT
*
16765380 TACCCTTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
16765406 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
16765432 T
1 T
16765433 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:16768589 original size:29 final size:29
Alignment explanation
Indices: 16768556--16768616 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
16768546 ATTCACACTT
16768556 AAGATTTGGAGACATTACTTGTACGGAGA
1 AAGATTTGGAGACATTACTTGTACGGAGA
*
16768585 AAGATTTGGAGACATTATTTGTACGGAGA
1 AAGATTTGGAGACATTACTTGTACGGAGA
16768614 AAG
1 AAG
16768617 GTGTATCATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.36, C:0.08, G:0.28, T:0.28
Consensus pattern (29 bp):
AAGATTTGGAGACATTACTTGTACGGAGA
Found at i:16772014 original size:26 final size:26
Alignment explanation
Indices: 16771984--16772036 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
16771974 TTTATAGTTT
16771984 TACCCCTAAGAGATAAATT-ACCGAAA
1 TACCCCTAAG-GATAAATTGACCGAAA
* *
16772010 TACCCCTAAGGTTAAATTGACCTAAA
1 TACCCCTAAGGATAAATTGACCGAAA
16772036 T
1 T
16772037 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.42, C:0.23, G:0.11, T:0.25
Consensus pattern (26 bp):
TACCCCTAAGGATAAATTGACCGAAA
Found at i:16774800 original size:47 final size:47
Alignment explanation
Indices: 16774712--16775242 Score: 919
Period size: 47 Copynumber: 11.4 Consensus size: 47
16774702 CAGCCAAGAC
16774712 AGTGTA-ATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
16774757 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
16774804 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
16774851 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
16774898 AGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
16774944 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
16774991 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
16775038 AGTGTATATGTGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
16775084 AGTGTATATATGT-ATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
16775130 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
16775177 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
16775224 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
16775243 TCCCGAAGGG
Statistics
Matches: 465, Mismatches: 16, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
45 18 0.04
46 129 0.28
47 318 0.68
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:16774970 original size:140 final size:141
Alignment explanation
Indices: 16774712--16775242 Score: 919
Period size: 140 Copynumber: 3.8 Consensus size: 141
16774702 CAGCCAAGAC
*
16774712 AGTGTA-ATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
16774775 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
16774840 ATGAATGTGAA
131 ATGAATGTGAA
16774851 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
16774916 GGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
16774980 ATGAATGTGAA
131 ATGAATGTGAA
* *
16774991 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
16775056 GGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGT-ATAAGGCCTAATGGCCGATGTG
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
16775119 ATGAATGTGAA
131 ATGAATGTGAA
* *
16775130 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAG
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * * * * * *
16775195 GGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
16775243 TCCCGAAGGG
Statistics
Matches: 374, Mismatches: 14, Indels: 6
0.95 0.04 0.02
Matches are distributed among these distances:
139 106 0.28
140 218 0.58
141 50 0.13
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (141 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
ATGAATGTGAA
Found at i:16775416 original size:36 final size:37
Alignment explanation
Indices: 16775361--16775438 Score: 122
Period size: 36 Copynumber: 2.1 Consensus size: 37
16775351 CCGAGCTCTA
* *
16775361 AAGACCCGATGACTACGTGTGG-GATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
16775397 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
16775434 AAGAC
1 AAGAC
16775439 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 20 0.53
37 18 0.47
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:16777350 original size:43 final size:43
Alignment explanation
Indices: 16777302--16777404 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
16777292 TTGGTTTTCA
16777302 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
16777345 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
16777388 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
16777405 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:16777421 original size:29 final size:29
Alignment explanation
Indices: 16777386--16777459 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
16777376 GTTGTGAGAT
* *
16777386 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
16777415 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
16777444 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
16777460 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:16777893 original size:40 final size:40
Alignment explanation
Indices: 16777770--16777965 Score: 193
Period size: 40 Copynumber: 4.9 Consensus size: 40
16777760 TCGAATGATG
** *
16777770 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* ** * * *
16777810 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
*
16777850 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
*
16777890 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * * *
16777930 TCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
16777966 CGTGTATTCG
Statistics
Matches: 132, Mismatches: 20, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
39 1 0.01
40 112 0.85
41 19 0.14
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:16777907 original size:80 final size:81
Alignment explanation
Indices: 16777770--16777966 Score: 215
Period size: 80 Copynumber: 2.5 Consensus size: 81
16777760 TCGAATGATG
**
16777770 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAG-GCA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGACCATATCCGGACTAAGATCCGAAGAGCA
* *
16777832 TTGGTGCGAGTTACTAAA
65 TTCGTGCGAGTGA-TAAA
** *
16777850 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TGTATCCGGGCTAAG-TCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGACCATATCCGGACTAAGAT-CCGAAGAGCA
* *
16777913 TTCGTGCTAGTGATATA
65 TTCGTGCGAGTGATAAA
* * * *
16777930 TCCGTGCTAAATCCCGAAGAGCAATCATGCTGGTGAC
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGAC
16777967 GTGTATTCGG
Statistics
Matches: 99, Mismatches: 13, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
79 1 0.01
80 72 0.73
81 20 0.20
82 6 0.06
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGACCATATCCGGACTAAGATCCGAAGAGCAT
TCGTGCGAGTGATAAA
Found at i:16780709 original size:47 final size:47
Alignment explanation
Indices: 16780648--16781087 Score: 731
Period size: 47 Copynumber: 9.4 Consensus size: 47
16780638 CAGCCAAGAC
*
16780648 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
16780695 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
16780742 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
16780789 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
16780836 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
16780883 AGTGCATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
16780930 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
16780977 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
16781024 AGTGTATATA--TGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
16781069 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
16781088 TCCCGAAGGG
Statistics
Matches: 369, Mismatches: 22, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
45 36 0.10
47 333 0.90
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:16781262 original size:37 final size:37
Alignment explanation
Indices: 16781210--16781284 Score: 107
Period size: 37 Copynumber: 2.0 Consensus size: 37
16781200 GCTCTAAAGG
* *
16781210 CCCGATGACTACGTGTGG-GACTTTTGTCCGGGTAAGA
1 CCCGATAACTACGTGTGGAGA-TTATGTCCGGGTAAGA
*
16781247 CCCGATAACTTCGTGTGGAGATTATGTCCGGGTAAGA
1 CCCGATAACTACGTGTGGAGATTATGTCCGGGTAAGA
16781284 C
1 C
16781285 TTCGTAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 32 0.94
38 2 0.06
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (37 bp):
CCCGATAACTACGTGTGGAGATTATGTCCGGGTAAGA
Found at i:16782979 original size:40 final size:40
Alignment explanation
Indices: 16782924--16783004 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
16782914 ACTAAGTTCT
16782924 TATGAACTTAGTCTCTTTTTCTTATTTTCAAGCTTTTAGG
1 TATGAACTTAGTCTCTTTTTCTTATTTTCAAGCTTTTAGG
16782964 TATGAACTTAGTCTCTTTTTCTTATTTTCAAGCTTTTAGG
1 TATGAACTTAGTCTCTTTTTCTTATTTTCAAGCTTTTAGG
16783004 T
1 T
16783005 TGGACAAGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.20, C:0.15, G:0.12, T:0.53
Consensus pattern (40 bp):
TATGAACTTAGTCTCTTTTTCTTATTTTCAAGCTTTTAGG
Found at i:16793186 original size:46 final size:47
Alignment explanation
Indices: 16793053--16793266 Score: 194
Period size: 46 Copynumber: 4.6 Consensus size: 47
16793043 ATACATCGAC
* * * * *
16793053 GCCATGTCCCAGACATGGTCTTACAC-AAGTTCTAGCATATCTATGCTGAT
1 GCCATGTCCCAGACATGGTCTTACACTAA---CTA-CGTCTCGAGGCCGAT
* *
16793103 GCCATGTCCCAGACATGGTCTTACACTGAC-ACATCTCGTA-GCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAACTACGTCTCG-AGGCCGAT
* *
16793149 G-CATGTCCCAGGCAT-GTCTTATACTAACTTACGTCTCGAGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAAC-TACGTCTCGAGGCCGAT
* *
16793195 G-CATGTCCCAGACAT-G-CTTACACTAGCACT-CGTCTCAATGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTA--ACTACGTCTCGAGGCCGAT
16793240 GCCATGTCCCAGACATGGTCTTACACT
1 GCCATGTCCCAGACATGGTCTTACACT
16793267 GGCTCTCATA
Statistics
Matches: 142, Mismatches: 12, Indels: 22
0.81 0.07 0.12
Matches are distributed among these distances:
44 11 0.08
45 36 0.25
46 54 0.38
47 5 0.04
48 9 0.06
50 26 0.18
51 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
GCCATGTCCCAGACATGGTCTTACACTAACTACGTCTCGAGGCCGAT
Found at i:16810715 original size:28 final size:27
Alignment explanation
Indices: 16810683--16810748 Score: 64
Period size: 28 Copynumber: 2.4 Consensus size: 27
16810673 TTGGAAGAAG
*
16810683 TACTG-TATTAGTGGCTTTGCCATGTAAT
1 TACTGCTATTAGTGGCTTTGCCACGT--T
* *
16810711 TACTGCT-CTGGTGGCTTTGCCACGTT
1 TACTGCTATTAGTGGCTTTGCCACGTT
*
16810737 TACTGTTATTAG
1 TACTGCTATTAG
16810749 CAACTTTGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
26 7 0.23
27 2 0.07
28 20 0.67
29 1 0.03
ACGTcount: A:0.17, C:0.18, G:0.23, T:0.42
Consensus pattern (27 bp):
TACTGCTATTAGTGGCTTTGCCACGTT
Found at i:16813003 original size:43 final size:42
Alignment explanation
Indices: 16812890--16813211 Score: 317
Period size: 43 Copynumber: 7.5 Consensus size: 42
16812880 TCGCGGCGTT
* * *
16812890 TTTTATAAAAGCGCCGCTAAAGACCAGGACCTTTAGCGGCGC
1 TTTTATAAAAACGCCGCTATAGACCAGGACTTTTAGCGGCGC
** * * * *
16812932 CCTTAAAAAAATGCCGCTAAAGACCAGGACTTTTAGCGGCGTT
1 TTTTATAAAAACGCCGCTATAGACCAGGACTTTTAGCGGCG-C
* * * * *
16812975 TTTTATAAAAGCGCCGGTAAAGACCAGGACCTTTAGCAGCGC
1 TTTTATAAAAACGCCGCTATAGACCAGGACTTTTAGCGGCGC
* *
16813017 TTTTATAAAAAACGCCGCTATAGACCTGTACTTTTAGCGGCGC
1 TTTTAT-AAAAACGCCGCTATAGACCAGGACTTTTAGCGGCGC
* *
16813060 TTTTGTAAAAAAACGCCGCTATAGACCAAGAAC-TTTAGCGGCGC
1 -TTT-TATAAAAACGCCGCTATAGACC-AGGACTTTTAGCGGCGC
* *
16813104 TTTTATAAAAAATGCCGCTATAGACCTA-TACTTTTAGCGGCGC
1 TTTTAT-AAAAACGCCGCTATAGACC-AGGACTTTTAGCGGCGC
* *
16813147 TTTTTGTAAAAAAACGCCGCTATAGACCAAGAAC-TTTAGCGGCGC
1 --TTT-TATAAAAACGCCGCTATAGACC-AGGACTTTTAGCGGCGC
16813192 TTTTATAAAAAACGCCGCTA
1 TTTTAT-AAAAACGCCGCTA
16813212 ATTTGCCCAG
Statistics
Matches: 233, Mismatches: 35, Indels: 23
0.80 0.12 0.08
Matches are distributed among these distances:
42 47 0.20
43 111 0.48
44 33 0.14
45 38 0.16
46 4 0.02
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (42 bp):
TTTTATAAAAACGCCGCTATAGACCAGGACTTTTAGCGGCGC
Found at i:16813175 original size:88 final size:86
Alignment explanation
Indices: 16812882--16813211 Score: 430
Period size: 87 Copynumber: 3.8 Consensus size: 86
16812872 ACAAAAGTTC
* * * * ** *
16812882 GCGGCGTTTTTTATAAAAGCGCCGCTAAAGACCAGGACCTTTAGCGGCGCCCTTA-AAAAAATGC
1 GCGGCGTTTTTTAAAAAAACGCCGCTAAAGACCAAGAACTTTAGCGGCGCTTTTATAAAAAACGC
* *
16812946 CGCTAAAGACC-AGGACTTTTA
66 CGCTATAGACCTA-TACTTTTA
* * * * * *
16812967 GCGGCGTTTTTTATAAAAGCGCCGGTAAAGACCAGGACCTTTAGCAGCGCTTTTATAAAAAACGC
1 GCGGCGTTTTTTAAAAAAACGCCGCTAAAGACCAAGAACTTTAGCGGCGCTTTTATAAAAAACGC
*
16813032 CGCTATAGACCTGTACTTTTA
66 CGCTATAGACCTATACTTTTA
* * *
16813053 GCGGCGCTTTTGTAAAAAAACGCCGCTATAGACCAAGAACTTTAGCGGCGCTTTTATAAAAAATG
1 GCGGCG-TTTTTTAAAAAAACGCCGCTAAAGACCAAGAACTTTAGCGGCGCTTTTATAAAAAACG
16813118 CCGCTATAGACCTATACTTTTA
65 CCGCTATAGACCTATACTTTTA
*
16813140 GCGGCGCTTTTTGTAAAAAAACGCCGCTATAGACCAAGAACTTTAGCGGCGCTTTTATAAAAAAC
1 GCGGCG-TTTTT-TAAAAAAACGCCGCTAAAGACCAAGAACTTTAGCGGCGCTTTTATAAAAAAC
16813205 GCCGCTA
64 GCCGCTA
16813212 ATTTGCCCAG
Statistics
Matches: 221, Mismatches: 20, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
85 51 0.23
86 31 0.14
87 81 0.37
88 58 0.26
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (86 bp):
GCGGCGTTTTTTAAAAAAACGCCGCTAAAGACCAAGAACTTTAGCGGCGCTTTTATAAAAAACGC
CGCTATAGACCTATACTTTTA
Found at i:16813533 original size:21 final size:21
Alignment explanation
Indices: 16813509--16813556 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
16813499 TCCTGTTCTG
16813509 CTCCGCCTCCCTCGCTGCTGC
1 CTCCGCCTCCCTCGCTGCTGC
16813530 CTCCGCCTCCCTCGCTGCTGC
1 CTCCGCCTCCCTCGCTGCTGC
16813551 CTCCGC
1 CTCCGC
16813557 TTTAAGTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.00, C:0.58, G:0.19, T:0.23
Consensus pattern (21 bp):
CTCCGCCTCCCTCGCTGCTGC
Found at i:16814144 original size:18 final size:18
Alignment explanation
Indices: 16814112--16814149 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
16814102 TACAATATAG
16814112 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTA-TTAA
*
16814131 TAGTAAAAA-GTTATTAA
1 TAGTAAAAATATTATTAA
16814148 TA
1 TA
16814150 CTTGATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAGTAAAAATATTATTAA
Found at i:16823557 original size:10 final size:11
Alignment explanation
Indices: 16823536--16823586 Score: 57
Period size: 12 Copynumber: 4.3 Consensus size: 11
16823526 ACTAAACCAC
16823536 TTTTCATATATA
1 TTTT-ATATATA
16823548 TATTTATATATA
1 T-TTTATATATA
*
16823560 TTTTAAAATAATA
1 TTTT-ATAT-ATA
16823573 TTTTATATATA
1 TTTTATATATA
16823584 TTT
1 TTT
16823587 ATCTTATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
11 9 0.26
12 15 0.44
13 10 0.29
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTATATATA
Found at i:16823595 original size:15 final size:15
Alignment explanation
Indices: 16823575--16823606 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16823565 AAATAATATT
*
16823575 TTATATATATTTATC
1 TTATATACATTTATC
16823590 TTATATACATTTATC
1 TTATATACATTTATC
16823605 TT
1 TT
16823607 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:16824438 original size:14 final size:14
Alignment explanation
Indices: 16824419--16824458 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
16824409 ATTAAACCTG
* *
16824419 CTTAAACCATATAT
1 CTTAAACCATAAAC
16824433 CTTAAACCATAAAC
1 CTTAAACCATAAAC
*
16824447 CTTAAACTATAA
1 CTTAAACCATAA
16824459 TGATAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (14 bp):
CTTAAACCATAAAC
Found at i:16824795 original size:40 final size:41
Alignment explanation
Indices: 16824620--16824835 Score: 339
Period size: 41 Copynumber: 5.3 Consensus size: 41
16824610 ATTAAATTTG
*
16824620 TAGCGGTGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTT
1 TAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTT
16824661 TAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTT
1 TAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTT
* *
16824702 TAGCGGCATTTTACCCAAAGCGCCGCTAATGCTCTGGTTTT
1 TAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTT
* *
16824743 TAGTGGCGTTTTACCCAAAGCGCCGCTAATGCTCTGG-TTT
1 TAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTT
* *
16824783 TAGCGGCGTTTTACCTAAAGCGCCGCTAATGAC-CT-ATTTT
1 TAGCGGCGTTTTACCAAAAGCGCCGCTAATG-CTCTGGTTTT
16824823 TAGCGGCGTTTTA
1 TAGCGGCGTTTTA
16824836 GTAAAAAACG
Statistics
Matches: 165, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
40 50 0.30
41 115 0.70
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.33
Consensus pattern (41 bp):
TAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTT
Found at i:16824865 original size:81 final size:81
Alignment explanation
Indices: 16824615--16824875 Score: 312
Period size: 82 Copynumber: 3.2 Consensus size: 81
16824605 GGGTTATTAA
* *
16824615 ATTTGTAGCGGTGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAA
1 ATTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAA
16824680 GCGCCGCTAATGCTCT
66 GCGCCGCTAATGCTCT
* * * * *
16824696 GGTTTTTAGCGGCATTTTACCCAAAGCGCCGCTAATGCTCTGGTTTTTAGTGGCGTTTTACCCAA
1 -ATTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAA
16824761 AGCGCCGCTAATGCTCT
65 AGCGCCGCTAATGCTCT
** * * **
16824778 GGTTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGAC-CT-ATTTTTAGCGGCGTTTTAGTAAA
1 ATTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATG-CTCTGGTTTTTAGCGGCGTTTTA-CCAA
* ** *
16824841 AAACGCCGCTGTTGTTCT
64 AAGCGCCGCTAATGCTCT
16824859 ATTTTTA-CTGGCGTTTT
1 ATTTTTAGC-GGCGTTTT
16824876 TTTTAGAACG
Statistics
Matches: 155, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
80 17 0.11
81 63 0.41
82 75 0.48
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.35
Consensus pattern (81 bp):
ATTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCAAAA
GCGCCGCTAATGCTCT
Found at i:16827761 original size:13 final size:13
Alignment explanation
Indices: 16827743--16827768 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16827733 AATTTGTGAC
16827743 TAATGTTAAAATG
1 TAATGTTAAAATG
16827756 TAATGTTAAAATG
1 TAATGTTAAAATG
16827769 ATTTGATAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (13 bp):
TAATGTTAAAATG
Found at i:16829760 original size:28 final size:28
Alignment explanation
Indices: 16829722--16829828 Score: 160
Period size: 28 Copynumber: 3.8 Consensus size: 28
16829712 GAATCATTCG
* *
16829722 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
16829750 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
16829778 ATATTTCGTACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
16829806 ATATTTCGTACACTAAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
16829829 ATTTGATTGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:16833196 original size:13 final size:13
Alignment explanation
Indices: 16833178--16833203 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16833168 AATTTGTGAC
16833178 TAATGTTAAAATG
1 TAATGTTAAAATG
16833191 TAATGTTAAAATG
1 TAATGTTAAAATG
16833204 ATTTGATAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (13 bp):
TAATGTTAAAATG
Found at i:16833300 original size:41 final size:41
Alignment explanation
Indices: 16833255--16833379 Score: 241
Period size: 41 Copynumber: 3.0 Consensus size: 41
16833245 AAAGAATGAT
*
16833255 TATGCGAGAATGTTTCATTATGGTATTGATGTAATGAAATG
1 TATGCGAGAATGTTTCATTATGGTATTGAGGTAATGAAATG
16833296 TATGCGAGAATGTTTCATTATGGTATTGAGGTAATGAAATG
1 TATGCGAGAATGTTTCATTATGGTATTGAGGTAATGAAATG
16833337 TATGCGAGAATGTTTCATTATGGTATTGAGGTAATGAAATG
1 TATGCGAGAATGTTTCATTATGGTATTGAGGTAATGAAATG
16833378 TA
1 TA
16833380 GATATATTTA
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
41 83 1.00
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.38
Consensus pattern (41 bp):
TATGCGAGAATGTTTCATTATGGTATTGAGGTAATGAAATG
Found at i:16835510 original size:13 final size:13
Alignment explanation
Indices: 16835492--16835517 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16835482 AATTTGTGAC
16835492 TAATGTTAAAATG
1 TAATGTTAAAATG
16835505 TAATGTTAAAATG
1 TAATGTTAAAATG
16835518 ATTTGATAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (13 bp):
TAATGTTAAAATG
Found at i:16835614 original size:41 final size:41
Alignment explanation
Indices: 16835569--16835652 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
16835559 AAAGAATGAT
16835569 TATGCGAGAATGTTTCATTATGGTATTGAGGTAATGAAATG
1 TATGCGAGAATGTTTCATTATGGTATTGAGGTAATGAAATG
*
16835610 TATGCGAGACTGTTTCATTATGGTATTGAGGTAATGAAATG
1 TATGCGAGAATGTTTCATTATGGTATTGAGGTAATGAAATG
16835651 TA
1 TA
16835653 GATATATTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (41 bp):
TATGCGAGAATGTTTCATTATGGTATTGAGGTAATGAAATG
Found at i:16841355 original size:25 final size:25
Alignment explanation
Indices: 16841327--16841389 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 25
16841317 ATCATAATGG
*
16841327 TTCT-AATAATGAAATGTCATCCTGA
1 TTCTCAATAATGAAATGTCATACT-A
* * *
16841352 TTCTGAA-AAGGATATGTCATACTA
1 TTCTCAATAATGAAATGTCATACTA
16841376 TT-TCAATAATGAAA
1 TTCTCAATAATGAAA
16841390 CATCACTGTG
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
23 3 0.10
24 8 0.27
25 17 0.57
26 2 0.07
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (25 bp):
TTCTCAATAATGAAATGTCATACTA
Found at i:16842484 original size:99 final size:100
Alignment explanation
Indices: 16842299--16842541 Score: 319
Period size: 99 Copynumber: 2.4 Consensus size: 100
16842289 TCTATTGTGA
* * *
16842299 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAAAACTGTGATCACGTGTGTAG
* **
16842364 TACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
66 TACTAAGTGCAGGCTACTACGTGCATCAGATAATT
* * * * * * *
16842399 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACTAGATAA-T-TGGTCATGTGTGTA
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAAAACTGTGATCACGTGTGTA
16842462 GTACTAAGTGCAGGCTACTACGTGCATCAGATAATT
65 GTACTAAGTGCAGGCTACTACGTGCATCAGATAATT
* * *
16842498 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA
16842542 TAGCTTTGGC
Statistics
Matches: 122, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
98 37 0.30
99 45 0.37
100 1 0.01
101 39 0.32
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.29
Consensus pattern (100 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAAAACTGTGATCACGTGTGTAG
TACTAAGTGCAGGCTACTACGTGCATCAGATAATT
Found at i:16842542 original size:49 final size:49
Alignment explanation
Indices: 16842306--16842543 Score: 287
Period size: 49 Copynumber: 4.8 Consensus size: 49
16842296 TGAGGTCGCA
* * * * *
16842306 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACG
* **
16842357 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
* * *
16842407 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACTAGATAATTGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * * *
16842456 TGTGTAGTACTAAGTGCAGGCTACTACGTGCATCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
16842505 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
16842544 GCTTTGGCTA
Statistics
Matches: 160, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
49 83 0.52
50 44 0.28
51 33 0.21
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:16848206 original size:46 final size:46
Alignment explanation
Indices: 16847927--16848290 Score: 206
Period size: 46 Copynumber: 7.7 Consensus size: 46
16847917 GTTATAATGT
* *
16847927 CGATGCCATGTCCCAGACATGGTCTTACACTAGCT-T-ATC-CATCGAGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCA-AG-GC
* ** ***
16847974 CGATGTCATGTCCCAGACATGGTCTTACACT-GACTATCGAAATTGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCTC-ATCTCAAGGC
** * * * *
16848023 CGACACCATGTCCCAGATATGGTCTTACACTAGCTCTTTCATATCTATGC
1 CGA-TGCATGTCCCAGACAT-GTCTTACACTAGCTC--TCATCTCAAGGC
* * * *
16848073 CGATGCCATGTCCCAGACATGATCTTACACT-G-GCACATCTCGTA-CC
1 CGATG-CATGTCCCAGACATG-TCTTACACTAGCTCTCATCTC-AAGGC
* * * **
16848119 CGATGCATGTCCTAGACACGTCTTACGCCGGCT-TACATCTCAAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCAAGGC
* * * *
16848165 CGATGCATGTCCTAGACATATCTTACACTAGCTCTCGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGC
* * * **
16848211 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTCAAGGC
16848259 CGATGCATGTCCCAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
16848291 ACACAAATAT
Statistics
Matches: 248, Mismatches: 49, Indels: 41
0.73 0.14 0.12
Matches are distributed among these distances:
44 7 0.03
45 15 0.06
46 73 0.29
47 60 0.24
48 25 0.10
49 33 0.13
50 33 0.13
51 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAAGGC
Found at i:16857370 original size:44 final size:46
Alignment explanation
Indices: 16857310--16857425 Score: 146
Period size: 44 Copynumber: 2.5 Consensus size: 46
16857300 AAGCTAATGC
* *
16857310 AAGACCTGTCTGGGACATGGCGTCAACTTGTTGTG-TTG-CAGTGT
1 AAGACCTGTCTGGGACATGGCGTCAACTTGATGTGCTAGCCAGTGT
* ** *
16857354 AAGACCTGTCTAGGACATGGTATCGACTTGATGTGCTAGCCAGTGT
1 AAGACCTGTCTGGGACATGGCGTCAACTTGATGTGCTAGCCAGTGT
*
16857400 AAGACCATGTCTGGGACATGACGTCA
1 AAGACC-TGTCTGGGACATGGCGTCA
16857426 GCACCTTATC
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
44 30 0.52
45 2 0.03
46 12 0.21
47 14 0.24
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (46 bp):
AAGACCTGTCTGGGACATGGCGTCAACTTGATGTGCTAGCCAGTGT
Found at i:16865169 original size:49 final size:48
Alignment explanation
Indices: 16865084--16865203 Score: 125
Period size: 49 Copynumber: 2.4 Consensus size: 48
16865074 TGTGTGGCAG
* *
16865084 TGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGCCAA
1 TGTAAGACCTGTCT-GGACATGACATCGACACCGATAGATGAAAGCCAA
* * * ** *
16865133 TGTAAGACCTGTCTAGGACATGACATTGGC-CTCGATATATGAAAGTTAG
1 TGTAAGACCTGTCT-GGACATGACATCGACAC-CGATAGATGAAAGCCAA
16865182 TGTAAGACCTGTCTGAGACATG
1 TGTAAGACCTGTCTG-GACATG
16865204 GCGTCGACTT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
48 2 0.03
49 58 0.97
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (48 bp):
TGTAAGACCTGTCTGGACATGACATCGACACCGATAGATGAAAGCCAA
Found at i:16869954 original size:38 final size:39
Alignment explanation
Indices: 16869912--16870015 Score: 99
Period size: 37 Copynumber: 2.7 Consensus size: 39
16869902 CAAAATAGTG
* *
16869912 GCATGTATTAACATGTGATCAATAATTCA-ATAACAGCA
1 GCATGTATTAACATGCGATCAATAATTCACAGAACAGCA
* * * **
16869950 GCATGCT-TT-ACATGCAATCAATAAAT-ACAGAATAGTG
1 GCATG-TATTAACATGCGATCAATAATTCACAGAACAGCA
*
16869987 GCATGTATTAACATGCGATCAGTAATTCA
1 GCATGTATTAACATGCGATCAATAATTCA
16870016 GTAATGGCAT
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
36 2 0.04
37 26 0.51
38 21 0.41
39 2 0.04
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.29
Consensus pattern (39 bp):
GCATGTATTAACATGCGATCAATAATTCACAGAACAGCA
Found at i:16870057 original size:72 final size:74
Alignment explanation
Indices: 16869898--16870057 Score: 236
Period size: 75 Copynumber: 2.2 Consensus size: 74
16869888 AGTTAGGTAC
* *
16869898 AATACAAAATAGTGGCATGTATTAACATGTGATCAATAATTCAATAACAGCAGCATGCTTTACAT
1 AATACCAAATAGTGGCATGTATTAACATGCGATCAATAATTCAATAACAG-AGCATGCTTTACAT
16869963 GCAATCAATA
65 GCAATCAATA
* * *
16869973 AATA-CAGAATAGTGGCATGTATTAACATGCGATCAGTAATTCAGTAA-TG-GCATGCTTTACAT
1 AATACCA-AATAGTGGCATGTATTAACATGCGATCAATAATTCAATAACAGAGCATGCTTTACAT
16870035 GCAATCAATA
65 GCAATCAATA
16870045 AATACCAAATAGT
1 AATACCAAATAGT
16870058 AAGCATGTTC
Statistics
Matches: 78, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
72 33 0.42
73 2 0.03
74 2 0.03
75 41 0.53
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (74 bp):
AATACCAAATAGTGGCATGTATTAACATGCGATCAATAATTCAATAACAGAGCATGCTTTACATG
CAATCAATA
Found at i:16871002 original size:14 final size:15
Alignment explanation
Indices: 16870968--16871009 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
16870958 CAGAGAGGGA
16870968 GAAAATAGAGAAAACAG
1 GAAAA-AGAG-AAACAG
16870985 GAAAAAGAGAAA-AG
1 GAAAAAGAGAAACAG
*
16870999 GAAAATGAGAA
1 GAAAAAGAGAA
16871010 GGGTGGCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 12 0.50
15 3 0.12
16 4 0.17
17 5 0.21
ACGTcount: A:0.67, C:0.02, G:0.26, T:0.05
Consensus pattern (15 bp):
GAAAAAGAGAAACAG
Found at i:16872863 original size:20 final size:20
Alignment explanation
Indices: 16872819--16872916 Score: 110
Period size: 20 Copynumber: 4.9 Consensus size: 20
16872809 TTTGCATTTT
*
16872819 GGTGCCTCTAATTGCACAATT-
1 GGTGCCTCTGATTGCAC--TTC
* *
16872840 -GTGCCTCTGTTTGTACTTC
1 GGTGCCTCTGATTGCACTTC
16872859 GGTGCCTCTGATTGCACTTC
1 GGTGCCTCTGATTGCACTTC
16872879 GGTGCCTCTGATTGCACTTC
1 GGTGCCTCTGATTGCACTTC
* * *
16872899 AGTGCCCCTGATAGCACT
1 GGTGCCTCTGATTGCACT
16872917 ACGATGCTCC
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
18 2 0.03
20 65 0.97
ACGTcount: A:0.14, C:0.29, G:0.22, T:0.35
Consensus pattern (20 bp):
GGTGCCTCTGATTGCACTTC
Found at i:16875584 original size:23 final size:23
Alignment explanation
Indices: 16875555--16875642 Score: 83
Period size: 23 Copynumber: 3.9 Consensus size: 23
16875545 TGATGAACAA
*
16875555 TAAGCTCTATTGAGCTAAAACGG
1 TAAGCTCTATCGAGCTAAAACGG
* * *
16875578 TAAGCTCTATCAAGCT-GAACAG
1 TAAGCTCTATCGAGCTAAAACGG
16875600 TAAGCTC-ATACGAGCTAAAACGG
1 TAAGCTCTAT-CGAGCTAAAACGG
* *
16875623 TAAACTCCAAT-GAGCTAAAA
1 TAAGCT-CTATCGAGCTAAAA
16875643 AATAGTAAGC
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
21 2 0.04
22 16 0.30
23 32 0.60
24 1 0.02
25 2 0.04
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (23 bp):
TAAGCTCTATCGAGCTAAAACGG
Found at i:16875605 original size:22 final size:22
Alignment explanation
Indices: 16875548--16875606 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
16875538 CCTGAGCTGA
* **
16875548 TGAACAATAAGCTCTATTGAGC
1 TGAACAGTAAGCTCTATCAAGC
* *
16875570 TAAAACGGTAAGCTCTATCAAGC
1 T-GAACAGTAAGCTCTATCAAGC
16875593 TGAACAGTAAGCTC
1 TGAACAGTAAGCTC
16875607 ATACGAGCTA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
22 12 0.41
23 17 0.59
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATCAAGC
Found at i:16875662 original size:25 final size:26
Alignment explanation
Indices: 16875634--16875689 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
16875624 AAACTCCAAT
16875634 GAGCTAAAAAAT-AGTAAGCTCT-TAC
1 GAGCTAAAAAATCAGTAAGCT-TATAC
* * *
16875659 GAGCTGATAAATCGGTAAGCTTATAC
1 GAGCTAAAAAATCAGTAAGCTTATAC
16875685 GAGCT
1 GAGCT
16875690 CGACCAAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 11 0.42
26 15 0.58
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (26 bp):
GAGCTAAAAAATCAGTAAGCTTATAC
Found at i:16879560 original size:40 final size:41
Alignment explanation
Indices: 16879516--16879606 Score: 105
Period size: 40 Copynumber: 2.2 Consensus size: 41
16879506 CGGCTATTTT
16879516 TGGCACTTAATATGCAATAC-AGCATACCTTCAGC-TATAAA
1 TGGCACTTAATATGCAATACGA-CATACCTTCAGCATATAAA
* * * * *
16879556 TGGCACTTAGTGTGCGATTCGACATAGCTTCAGCTATATAAA
1 TGGCACTTAATATGCAATACGACATACCTTCAGC-ATATAAA
16879598 TGGCACTTA
1 TGGCACTTA
16879607 GTGTGCGATT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
40 27 0.63
41 1 0.02
42 15 0.35
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.30
Consensus pattern (41 bp):
TGGCACTTAATATGCAATACGACATACCTTCAGCATATAAA
Found at i:16879604 original size:42 final size:42
Alignment explanation
Indices: 16879538--16879651 Score: 137
Period size: 42 Copynumber: 2.8 Consensus size: 42
16879528 TGCAATACAG
*
16879538 CATACCTTCAGC--TATAAATGGCACTTAGTGTGCGATTCGA
1 CATAGCTTCAGCTATATAAATGGCACTTAGTGTGCGATTCGA
**
16879578 CATAGCTTCAGCTATATAAATGGCACTTAGTGTGCGATTTTA
1 CATAGCTTCAGCTATATAAATGGCACTTAGTGTGCGATTCGA
* * * *
16879620 GATAGCTTCAACTATGTACA--GCACTTAGTGTG
1 CATAGCTTCAGCTATATAAATGGCACTTAGTGTG
16879652 AGAGATATCG
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
40 23 0.35
42 42 0.65
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.32
Consensus pattern (42 bp):
CATAGCTTCAGCTATATAAATGGCACTTAGTGTGCGATTCGA
Found at i:16879673 original size:28 final size:28
Alignment explanation
Indices: 16879641--16879694 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
16879631 CTATGTACAG
*
16879641 CACTTAGTGTGAGAGATATCGAGTATGA
1 CACTTAGTGTGAGAGACATCGAGTATGA
* *
16879669 CACTTAGTGTGCGAGACATTGAGTAT
1 CACTTAGTGTGAGAGACATCGAGTAT
16879695 TCAACGGCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.30
Consensus pattern (28 bp):
CACTTAGTGTGAGAGACATCGAGTATGA
Found at i:16881565 original size:19 final size:19
Alignment explanation
Indices: 16881528--16881565 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
16881518 ATAACATGTT
*
16881528 TTAACTGAATGTTTGATGA
1 TTAACTGAATGTTTAATGA
16881547 TTAA-TGAATGTTTTAATGA
1 TTAACTGAATG-TTTAATGA
16881566 ATTTTTGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.34, C:0.03, G:0.18, T:0.45
Consensus pattern (19 bp):
TTAACTGAATGTTTAATGA
Found at i:16884072 original size:16 final size:17
Alignment explanation
Indices: 16884051--16884091 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
16884041 AAAGGTTAAC
*
16884051 TTTTAAAAAAAAT-ATT
1 TTTTAAAAAAAATAAAT
*
16884067 TTTTAAAAAATATAAAT
1 TTTTAAAAAAAATAAAT
16884084 TTTTAAAA
1 TTTTAAAA
16884092 CATTATTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTTAAAAAAAATAAAT
Found at i:16884672 original size:15 final size:15
Alignment explanation
Indices: 16884652--16884687 Score: 63
Period size: 15 Copynumber: 2.3 Consensus size: 15
16884642 AATTGTTTTG
16884652 ATATGAATCTAGACA
1 ATATGAATCTAGACA
16884667 ATATGAATCTAGACA
1 ATATGAATCTAGACA
16884682 ACTATG
1 A-TATG
16884688 TCTAGATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (15 bp):
ATATGAATCTAGACA
Found at i:16884693 original size:14 final size:14
Alignment explanation
Indices: 16884652--16884693 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
16884642 AATTGTTTTG
16884652 ATATGAATCTAGACA
1 ATATG-ATCTAGACA
16884667 ATATGAATCTAGACA
1 ATATG-ATCTAGACA
16884682 ACTATG-TCTAGA
1 A-TATGATCTAGA
16884694 TTCATTTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.23
15 16 0.62
16 4 0.15
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (14 bp):
ATATGATCTAGACA
Found at i:16884771 original size:20 final size:18
Alignment explanation
Indices: 16884729--16884774 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
16884719 GATTTTTATT
*
16884729 AATTTTTAATTTTTTTAA
1 AATTTTTAATTTATTTAA
16884747 AATTTTTGAACTTTATTTAA
1 AATTTTT-AA-TTTATTTAA
*
16884767 TATTTTTA
1 AATTTTTA
16884775 TAAATTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 7 0.29
19 3 0.12
20 14 0.58
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (18 bp):
AATTTTTAATTTATTTAA
Found at i:16884795 original size:22 final size:21
Alignment explanation
Indices: 16884742--16884800 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
16884732 TTTTAATTTT
*
16884742 TTTAAAATTTT-TGAACTTTA
1 TTTAAAATTTTATAAACTTTA
* *
16884762 TTTAATATTTTTATAAATTTTAA
1 TTTAA-AATTTTATAAACTTT-A
16884785 TTTAAAATTTTATAAA
1 TTTAAAATTTTATAAA
16884801 AATTTAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 5 0.16
21 5 0.16
22 16 0.50
23 6 0.19
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
TTTAAAATTTTATAAACTTTA
Found at i:16884806 original size:23 final size:23
Alignment explanation
Indices: 16884761--16884807 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
16884751 TTTGAACTTT
* *
16884761 ATTTAATATTTTTATAAATTTTA
1 ATTTAAAATTTTTATAAAATTTA
16884784 ATTTAAAA-TTTTATAAAAATTTA
1 ATTTAAAATTTTTAT-AAAATTTA
16884807 A
1 A
16884808 AAAATTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
ATTTAAAATTTTTATAAAATTTA
Found at i:16886793 original size:12 final size:12
Alignment explanation
Indices: 16886776--16886801 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16886766 CGATAGCCTC
16886776 AAGAGATACCTT
1 AAGAGATACCTT
16886788 AAGAGATACCTT
1 AAGAGATACCTT
16886800 AA
1 AA
16886802 TATCGTCTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (12 bp):
AAGAGATACCTT
Found at i:16888237 original size:44 final size:44
Alignment explanation
Indices: 16888187--16888277 Score: 119
Period size: 44 Copynumber: 2.1 Consensus size: 44
16888177 TTTGGCCAAA
* * *
16888187 TAATATTAAAATAACCGGCACTAATCAGATTTTATGTGGGAAAC
1 TAATATTAAAATAACCGACACTAATCAGAGTTTAAGTGGGAAAC
* * * *
16888231 TAATATTAATATAACCTATACTAATCAGAGTTTAAGTGGTAAAC
1 TAATATTAAAATAACCGACACTAATCAGAGTTTAAGTGGGAAAC
16888275 TAA
1 TAA
16888278 AAATAGAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (44 bp):
TAATATTAAAATAACCGACACTAATCAGAGTTTAAGTGGGAAAC
Found at i:16888376 original size:17 final size:17
Alignment explanation
Indices: 16888347--16888379 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
16888337 TAAAAATAAA
16888347 ATTATAAAAATTTATAT
1 ATTATAAAAATTTATAT
16888364 ATTA-AAAACATTTATA
1 ATTATAAAA-ATTTATA
16888380 CCCATAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTATAAAAATTTATAT
Found at i:16892788 original size:20 final size:20
Alignment explanation
Indices: 16892765--16892809 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
16892755 TTTTATAACA
16892765 AAAAATA-ATTTTTTCCTTAT
1 AAAAATATATTTTTTCC-TAT
*
16892785 AAAAA-ATATTTTTTTCTAT
1 AAAAATATATTTTTTCCTAT
16892804 AAAAAT
1 AAAAAT
16892810 TCATGTACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (20 bp):
AAAAATATATTTTTTCCTAT
Found at i:16892790 original size:21 final size:19
Alignment explanation
Indices: 16892764--16892808 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
16892754 ATTTTATAAC
16892764 AAAAAATAATTTTTTCCTTAT
1 AAAAAAT-ATTTTTTCC-TAT
*
16892785 AAAAAATATTTTTTTCTAT
1 AAAAAATATTTTTTCCTAT
16892804 AAAAA
1 AAAAA
16892809 TTCATGTACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.35
20 8 0.35
21 7 0.30
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (19 bp):
AAAAAATATTTTTTCCTAT
Found at i:16892986 original size:26 final size:26
Alignment explanation
Indices: 16892938--16892988 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
16892928 TCCTTCATTA
** **
16892938 GAAAAACTAAATTAAATCTAAAAAAG
1 GAAAAACTAAAGGAAATAAAAAAAAG
16892964 GAAAAACTAAAGGAAATAAAAAAAA
1 GAAAAACTAAAGGAAATAAAAAAAA
16892989 TATTTTTTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.71, C:0.06, G:0.10, T:0.14
Consensus pattern (26 bp):
GAAAAACTAAAGGAAATAAAAAAAAG
Found at i:16896981 original size:67 final size:67
Alignment explanation
Indices: 16896898--16897039 Score: 259
Period size: 67 Copynumber: 2.1 Consensus size: 67
16896888 TTGAATTGTA
16896898 TATTGCTTTAAGGACTTCTGTATTTACTTGTTTGTAACTCAAAA-ATTTTGATTGTACTTATCCA
1 TATTGCTTTAAGGACTTCTGTATTTACTTGTTTGTAACT-AAAACATTTTGATTGTACTTATCCA
16896962 TAG
65 TAG
*
16896965 TATTGCTTTAAGGACTTCTGTATTTACTTGTTTGTAACTAAAACATTTTGATTGTACTTATCTAT
1 TATTGCTTTAAGGACTTCTGTATTTACTTGTTTGTAACTAAAACATTTTGATTGTACTTATCCAT
16897030 AG
66 AG
16897032 TATTGCTT
1 TATTGCTT
16897040 GGATAGTTGT
Statistics
Matches: 73, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
66 4 0.05
67 69 0.95
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (67 bp):
TATTGCTTTAAGGACTTCTGTATTTACTTGTTTGTAACTAAAACATTTTGATTGTACTTATCCAT
AG
Found at i:16903418 original size:26 final size:26
Alignment explanation
Indices: 16903385--16903438 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
16903375 AAAAATTGGG
16903385 TATTAACTAAATACTTTAAGACAAGA
1 TATTAACTAAATACTTTAAGACAAGA
16903411 TATTAACTAAATACTTTAAGACAAGA
1 TATTAACTAAATACTTTAAGACAAGA
16903437 TA
1 TA
16903439 GGGGCAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.31
Consensus pattern (26 bp):
TATTAACTAAATACTTTAAGACAAGA
Found at i:16908286 original size:30 final size:30
Alignment explanation
Indices: 16908250--16908312 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
16908240 ACTTATTTTA
16908250 TTGTTAATTTTCTTATTATTTTAAAGGCAT
1 TTGTTAATTTTCTTATTATTTTAAAGGCAT
* *
16908280 TTGTTAATTTTTTTATTATTTTAGAGGCAT
1 TTGTTAATTTTCTTATTATTTTAAAGGCAT
16908310 TTG
1 TTG
16908313 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.24, C:0.05, G:0.13, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAAAGGCAT
Found at i:16915195 original size:24 final size:25
Alignment explanation
Indices: 16915168--16915245 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 25
16915158 GCCTAGCCTC
16915168 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
* *
16915192 TTTTGATAAACTGGGGCAAAGCCAT
1 TTTTAATAAACTGGGGCAAAGCCCT
*** *
16915217 TTTCGGTAAACTGGGGCATAG-CCT
1 TTTTAATAAACTGGGGCAAAGCCCT
16915241 TTTTA
1 TTTTA
16915246 GCACTTCCTC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
24 11 0.24
25 34 0.76
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:16915203 original size:25 final size:25
Alignment explanation
Indices: 16915175--16915244 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
16915165 CTCTTTTAAT
16915175 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* * *
16915200 AACTGGGGCAAAGCCATTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
16915225 AACTGGGGCATAG-CCTTTTT
1 AACTGGGGCAAAGCCCTTTTT
16915245 AGCACTTCCT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
24 5 0.13
25 34 0.87
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:16916167 original size:27 final size:27
Alignment explanation
Indices: 16916137--16916189 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
16916127 GGGTGTTTTG
*
16916137 GTAAATCTACAAACCAAGGGTATTTCA
1 GTAAATCTACAAACCAAAGGTATTTCA
* * *
16916164 GTAATTTTATAAACCAAAGGTATTTC
1 GTAAATCTACAAACCAAAGGTATTTC
16916190 TATAATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (27 bp):
GTAAATCTACAAACCAAAGGTATTTCA
Found at i:16916195 original size:27 final size:27
Alignment explanation
Indices: 16916147--16916198 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
16916137 GTAAATCTAC
*
16916147 AAACCAAGGGTATTTCAGTAATTTTAT
1 AAACCAAAGGTATTTCAGTAATTTTAT
16916174 AAACCAAAGGTATTTCTA-TAATTTT
1 AAACCAAAGGTATTTC-AGTAATTTT
16916199 TAGAAAGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (27 bp):
AAACCAAAGGTATTTCAGTAATTTTAT
Done.