Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 69 of 218
Found at i:20614921 original size:40 final size:40
Alignment explanation
Indices: 20614845--20614926 Score: 114
Period size: 40 Copynumber: 2.0 Consensus size: 40
20614835 AAAATCAATC
*
20614845 AATAAAAAAATAAAATAAAAAAATGAAAATAAAAAAAAGA
1 AATAAAAAAATAAAATAAAAAAATCAAAATAAAAAAAAGA
*
20614885 AATAAAAAAATAAAA-AAATCAAAATCAAAAT-GAAAAAAGA
1 AATAAAAAAATAAAATAAA--AAAATCAAAATAAAAAAAAGA
20614925 AA
1 AA
20614927 AAGAAAAGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
39 3 0.08
40 25 0.66
41 10 0.26
ACGTcount: A:0.80, C:0.02, G:0.05, T:0.12
Consensus pattern (40 bp):
AATAAAAAAATAAAATAAAAAAATCAAAATAAAAAAAAGA
Found at i:20615810 original size:50 final size:51
Alignment explanation
Indices: 20615756--20615851 Score: 149
Period size: 50 Copynumber: 1.9 Consensus size: 51
20615746 GAGAAGGGAT
* *
20615756 CAAGGTGAAAACCCGCAAAGAGCACTTTGATTCCTAAAAA-AAAAAGAGAC
1 CAAGGTGAAAACCCGCAAAGAGCACTTTGAGTCCAAAAAATAAAAAGAGAC
* *
20615806 CAAGGTGAAAACCTGCAAAGGGCACTTTGAGTCCAAAAAATAAAAA
1 CAAGGTGAAAACCCGCAAAGAGCACTTTGAGTCCAAAAAATAAAAA
20615852 TAAATCAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
50 36 0.88
51 5 0.12
ACGTcount: A:0.48, C:0.19, G:0.19, T:0.15
Consensus pattern (51 bp):
CAAGGTGAAAACCCGCAAAGAGCACTTTGAGTCCAAAAAATAAAAAGAGAC
Found at i:20615946 original size:84 final size:84
Alignment explanation
Indices: 20615800--20615973 Score: 330
Period size: 84 Copynumber: 2.1 Consensus size: 84
20615790 TAAAAAAAAA
* *
20615800 AGAGACCAAGGTGAAAACCTGCAAAGGGCACTTTGAGTCCAAAAAATAAAAATAAATCAAAAACA
1 AGAGGCCAAGGTGAAAACCCGCAAAGGGCACTTTGAGTCCAAAAAATAAAAATAAATCAAAAACA
20615865 AAAAAAGAAAAGAAAATGG
66 AAAAAAGAAAAGAAAATGG
20615884 AGAGGCCAAGGTGAAAACCCGCAAAGGGCACTTTGAGTCCAAAAAATAAAAATAAATCAAAAACA
1 AGAGGCCAAGGTGAAAACCCGCAAAGGGCACTTTGAGTCCAAAAAATAAAAATAAATCAAAAACA
20615949 AAAAAAGAAAAGAAAATGG
66 AAAAAAGAAAAGAAAATGG
20615968 AGAGGC
1 AGAGGC
20615974 GCTTTGAGAG
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 88 1.00
ACGTcount: A:0.56, C:0.14, G:0.20, T:0.11
Consensus pattern (84 bp):
AGAGGCCAAGGTGAAAACCCGCAAAGGGCACTTTGAGTCCAAAAAATAAAAATAAATCAAAAACA
AAAAAAGAAAAGAAAATGG
Found at i:20617400 original size:44 final size:44
Alignment explanation
Indices: 20617336--20617634 Score: 395
Period size: 44 Copynumber: 6.8 Consensus size: 44
20617326 ATACCAATTA
* *
20617336 TATCTCCCTAGG-CAGTAGTGGAATAGGTTGAATATTGTAAGTCC
1 TATCTCCCT-GGACAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
20617380 TATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* *
20617424 TATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTATAAGCCC
1 TATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* * *
20617468 TATCTCCCTGGACAACAGTGGAATAGGATGAAGATTGTAAGCCC
1 TATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* ** *
20617512 TATCTCTCTGGACAGCACCGGAATAGGTTAAAGATTGTAAGTCC
1 TATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* *
20617556 TATCTCCCTGGACGGCAGTGGAATAGGTTGAAGATTGT-AGATCA
1 TATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTAAG-TCC
* ** * * *
20617600 TGTCTCCCTAAACAGTAGTGGAATAGATCGAAGAT
1 TATCTCCCTGGACAGCAGTGGAATAGGTTGAAGAT
20617635 GACAAATCTT
Statistics
Matches: 226, Mismatches: 27, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
43 4 0.02
44 222 0.98
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
Found at i:20617712 original size:50 final size:50
Alignment explanation
Indices: 20617637--20618303 Score: 219
Period size: 50 Copynumber: 13.7 Consensus size: 50
20617627 TCGAAGATGA
* * * * *
20617637 CAAATCTTACTTCCCTGGCAGTGCAGTTGAACAGATTGAAGCTACAACGG
1 CAAATCTTACTTCCCTGACAATGCAGTTAAAAAGATTAAAGCTACAACGG
* * *
20617687 CAAATTTTGCTTCCCTGACAATGCAGTTAAAAAGATTAAAGCTACAACAG
1 CAAATCTTACTTCCCTGACAATGCAGTTAAAAAGATTAAAGCTACAACGG
* * * * **** ** ** * * *
20617737 CGAATCTTACCTCTCAGGTGGTGTTGTGGAACAGATTAAAGCCACAAGGG
1 CAAATCTTACTTCCCTGACAATGCAGTTAAAAAGATTAAAGCTACAACGG
** * * *
20617787 TGAATCTTGCTTTCCC-GACATTGCAGTT--AAAGATTAAAGCTACAACAG
1 CAAATCTTAC-TTCCCTGACAATGCAGTTAAAAAGATTAAAGCTACAACGG
* * ** * * ** * *
20617835 CGAATCTTA-TTTCCTGGTAGTGTAGTGGAACAGATTAAAGCCACAACGG
1 CAAATCTTACTTCCCTGACAATGCAGTTAAAAAGATTAAAGCTACAACGG
* * * * *
20617884 CGAATCTTGCTT-CCTCGATATTGCAGTT--AAAGATTAAAGCTACAACAG
1 CAAATCTTACTTCCCT-GACAATGCAGTTAAAAAGATTAAAGCTACAACGG
* * * * ** * * *
20617932 CGAATCTTA-TTTCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAAAGG
1 CAAATCTTACTTCCCTGACAATGCAGTTAAAAAGATTAAAGCTACAACGG
** * * * *
20617981 TGAATCTTGCTTCCCCGACATTGCAGTT--AAAGATTAAAGCTACAACAG
1 CAAATCTTACTTCCCTGACAATGCAGTTAAAAAGATTAAAGCTACAACGG
* * * * * ** * *
20618029 CGAATCTTA-TTTCCTGGCAGTGCAATGGAACAGATTAAAGCCACAACGG
1 CAAATCTTACTTCCCTGACAATGCAGTTAAAAAGATTAAAGCTACAACGG
** * ** *
20618078 TGAATCTTGCTTCCC---CAA--CA-TT--GCAG-TTAAAGCTACAACAG
1 CAAATCTTACTTCCCTGACAATGCAGTTAAAAAGATTAAAGCTACAACGG
* * * * * * ** *
20618119 CGAATATTA-TTTCCTGGA-AGTACAATGGAACAGATTAAAGCTACAACGG
1 CAAATCTTACTTCCCT-GACAATGCAGTTAAAAAGATTAAAGCTACAACGG
** * * * * **
20618168 TGAATCTTGCTTCCCCGACATTGCAGTTAAAAATATTAAAGCTACAACAA
1 CAAATCTTACTTCCCTGACAATGCAGTTAAAAAGATTAAAGCTACAACGG
* * * * ** * *
20618218 CAAATATTA-TTTCCTGGCAGTGCAGTGGAACAGATTAAAGTTACAACGG
1 CAAATCTTACTTCCCTGACAATGCAGTTAAAAAGATTAAAGCTACAACGG
* * * * *
20618267 CGAATCTTATTTCCCCGACATTGCAGTTAAACAGATT
1 CAAATCTTACTTCCCTGACAATGCAGTTAAAAAGATT
20618304 GAAGACAGTA
Statistics
Matches: 447, Mismatches: 144, Indels: 52
0.70 0.22 0.08
Matches are distributed among these distances:
40 4 0.01
41 19 0.04
42 3 0.01
43 1 0.00
44 1 0.00
45 4 0.01
46 5 0.01
47 31 0.07
48 77 0.17
49 133 0.30
50 166 0.37
51 3 0.01
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (50 bp):
CAAATCTTACTTCCCTGACAATGCAGTTAAAAAGATTAAAGCTACAACGG
Found at i:20617874 original size:49 final size:49
Alignment explanation
Indices: 20617639--20618280 Score: 423
Period size: 49 Copynumber: 13.2 Consensus size: 49
20617629 GAAGATGACA
* * * * *
20617639 AATCTTACTTCCCTGGCAGTGCAGTTGAACAGATTGAAGCTACAACGGCA
1 AATCTTA-TTTCCTGGCAGTGCAGTGGAACAGATTAAAGCTACAACAGCG
* * * * * ** *
20617689 AATTTTGCTTCCCTGACAATGCAGTTAAAAAGATTAAAGCTACAACAGCG
1 AATCTT-ATTTCCTGGCAGTGCAGTGGAACAGATTAAAGCTACAACAGCG
** * ** ** * ** *
20617739 AATCTTACCTCTCAGGTGGTGTTGTGGAACAGATTAAAGCCACAAGGGTG
1 AATCTTATTTC-CTGGCAGTGCAGTGGAACAGATTAAAGCTACAACAGCG
* * * * *
20617789 AATCTTGCTTTCCCGACATTGCAGT-TAA-AGATTAAAGCTACAACAGCG
1 AATCTT-ATTTCCTGGCAGTGCAGTGGAACAGATTAAAGCTACAACAGCG
* * * *
20617837 AATCTTATTTCCTGGTAGTGTAGTGGAACAGATTAAAGCCACAACGGCG
1 AATCTTATTTCCTGGCAGTGCAGTGGAACAGATTAAAGCTACAACAGCG
** ** * *
20617886 AATCTTGCTTCCTCGATATTGCAGT-TAA-AGATTAAAGCTACAACAGCG
1 AATCTTATTTCCT-GGCAGTGCAGTGGAACAGATTAAAGCTACAACAGCG
* *
20617934 AATCTTATTTCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAA-AGGTG
1 AATCTTATTTCCTGGCAGTGCAGTGGAACAGATTAAAGCTACAACA-GCG
* * * * * *
20617983 AATCTTGCTTCCCCGACATTGCAGT-TAA-AGATTAAAGCTACAACAGCG
1 AATCTT-ATTTCCTGGCAGTGCAGTGGAACAGATTAAAGCTACAACAGCG
* * * *
20618031 AATCTTATTTCCTGGCAGTGCAATGGAACAGATTAAAGCCACAACGGTG
1 AATCTTATTTCCTGGCAGTGCAGTGGAACAGATTAAAGCTACAACAGCG
** * * *
20618080 AATCTTGCTTCC--CCA--ACA-TTG--CAG-TTAAAGCTACAACAGCG
1 AATCTTATTTCCTGGCAGTGCAGTGGAACAGATTAAAGCTACAACAGCG
* * * * * *
20618121 AATATTATTTCCTGGAAGTACAATGGAACAGATTAAAGCTACAACGGTG
1 AATCTTATTTCCTGGCAGTGCAGTGGAACAGATTAAAGCTACAACAGCG
* * * * * ** * * * *
20618170 AATCTTGCTTCCCCGACATTGCAGTTAAAAATATTAAAGCTACAACAACA
1 AATCTT-ATTTCCTGGCAGTGCAGTGGAACAGATTAAAGCTACAACAGCG
* * *
20618220 AATATTATTTCCTGGCAGTGCAGTGGAACAGATTAAAGTTACAACGGCG
1 AATCTTATTTCCTGGCAGTGCAGTGGAACAGATTAAAGCTACAACAGCG
20618269 AATCTTATTTCC
1 AATCTTATTTCC
20618281 CCGACATTGC
Statistics
Matches: 436, Mismatches: 134, Indels: 45
0.71 0.22 0.07
Matches are distributed among these distances:
41 23 0.05
42 3 0.01
43 1 0.00
44 2 0.00
45 5 0.01
46 2 0.00
47 34 0.08
48 83 0.19
49 147 0.34
50 134 0.31
51 2 0.00
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (49 bp):
AATCTTATTTCCTGGCAGTGCAGTGGAACAGATTAAAGCTACAACAGCG
Found at i:20617891 original size:97 final size:97
Alignment explanation
Indices: 20617639--20618297 Score: 816
Period size: 97 Copynumber: 6.8 Consensus size: 97
20617629 GAAGATGACA
* * * * ** *
20617639 AATCTTACTTCCCTGGCAGTGCAGTTGAACAGATTGAAGCTACAACGGCAAATTTTGC-TTCCCT
1 AATCTTA-TTTCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTTCCC-
*
20617703 GACAATGCAGTTAAAAAGATTAAAGCTACAACAGCG
64 GACATTGCAGTT--AAAGATTAAAGCTACAACAGCG
** * ** ** *
20617739 AATCTTACCTCTCAGGTGGTGTTGTGGAACAGATTAAAGCCACAAGGGTGAATCTTGCTTTCCCG
1 AATCTTATTTC-CTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTTCCCG
20617804 ACATTGCAGTTAAAGATTAAAGCTACAACAGCG
65 ACATTGCAGTTAAAGATTAAAGCTACAACAGCG
* * *
20617837 AATCTTATTTCCTGGTAGTGTAGTGGAACAGATTAAAGCCACAACGGCGAATCTTGC-TTCCTCG
1 AATCTTATTTCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTTCC-CG
*
20617901 ATATTGCAGTTAAAGATTAAAGCTACAACAGCG
65 ACATTGCAGTTAAAGATTAAAGCTACAACAGCG
* *
20617934 AATCTTATTTCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAAAGGTGAATCTTGCTTCCCCGA
1 AATCTTATTTCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGA
20617999 CATTGCAGTTAAAGATTAAAGCTACAACAGCG
66 CATTGCAGTTAAAGATTAAAGCTACAACAGCG
* * *
20618031 AATCTTATTTCCTGGCAGTGCAATGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCAA
1 AATCTTATTTCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGA
20618096 CATTGC------AG-TTAAAGCTACAACAGCG
66 CATTGCAGTTAAAGATTAAAGCTACAACAGCG
* * * * * *
20618121 AATATTATTTCCTGGAAGTACAATGGAACAGATTAAAGCTACAACGGTGAATCTTGCTTCCCCGA
1 AATCTTATTTCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGA
* * *
20618186 CATTGCAGTTAAAAATATTAAAGCTACAACAACA
66 CATTGCAGTT--AAAGATTAAAGCTACAACAGCG
* ** * *
20618220 AATATTATTTCCTGGCAGTGCAGTGGAACAGATTAAAGTTACAACGGCGAATCTT-ATTTCCCCG
1 AATCTTATTTCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTT-CCCG
20618284 ACATTGCAGTTAAA
65 ACATTGCAGTTAAA
20618298 CAGATTGAAG
Statistics
Matches: 497, Mismatches: 48, Indels: 31
0.86 0.08 0.05
Matches are distributed among these distances:
90 83 0.17
91 2 0.00
96 4 0.01
97 233 0.47
98 37 0.07
99 81 0.16
100 52 0.10
101 5 0.01
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (97 bp):
AATCTTATTTCCTGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGA
CATTGCAGTTAAAGATTAAAGCTACAACAGCG
Found at i:20618167 original size:90 final size:90
Alignment explanation
Indices: 20618014--20618297 Score: 379
Period size: 90 Copynumber: 3.1 Consensus size: 90
20618004 CAGTTAAAGA
* *
20618014 TTAAAGCTACAACAGCGAATCTTATTTCCTGGCAGTGCAATGGAACAGATTAAAGCCACAACGGT
1 TTAAAGCTACAACAGCGAATATTATTTCCTGGCAGTGCAATGGAACAGATTAAAGCTACAACGGT
*
20618079 GAATCTTGCTTCCCCAACATTGCAG
66 GAATCTTGCTTCCCCGACATTGCAG
* *
20618104 TTAAAGCTACAACAGCGAATATTATTTCCTGGAAGTACAATGGAACAGATTAAAGCTACAACGGT
1 TTAAAGCTACAACAGCGAATATTATTTCCTGGCAGTGCAATGGAACAGATTAAAGCTACAACGGT
20618169 GAATCTTGCTTCCCCGACATTGCAG
66 GAATCTTGCTTCCCCGACATTGCAG
* * * *
20618194 TTAAAAATATTAAAGCTACAACAACAAATATTATTTCCTGGCAGTGCAGTGGAACAGATTAAAGT
1 ---------TTAAAGCTACAACAGCGAATATTATTTCCTGGCAGTGCAATGGAACAGATTAAAGC
* **
20618259 TACAACGGCGAATCTTATTTCCCCGACATTGCAG
57 TACAACGGTGAATCTTGCTTCCCCGACATTGCAG
20618293 TTAAA
1 TTAAA
20618298 CAGATTGAAG
Statistics
Matches: 171, Mismatches: 14, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
90 90 0.53
99 81 0.47
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (90 bp):
TTAAAGCTACAACAGCGAATATTATTTCCTGGCAGTGCAATGGAACAGATTAAAGCTACAACGGT
GAATCTTGCTTCCCCGACATTGCAG
Found at i:20623441 original size:113 final size:114
Alignment explanation
Indices: 20623242--20623448 Score: 292
Period size: 113 Copynumber: 1.8 Consensus size: 114
20623232 TAATAGTTAC
**
20623242 TAACAAAATAACTTTAAAATAAATTAAAAAAATAATAAAAGACTACATTCATAACCTAACCGATC
1 TAACAAAATAACTTTAAAATAAATTAAAAAAATAATAAAAGACTACATTCATAACCTAACAAATC
20623307 ACCATAAACATTAAACCAAACAAACAATTAACCGAGTCACAAAAATTAA
66 ACCATAAACATTAAACCAAACAAACAATTAACCGAGTCACAAAAATTAA
* * * *
20623356 TAACAAAATGACTTTAAAATAAATT-AAAAATTTATAAAA-ATTTACATTCATAACCTAACAAAT
1 TAACAAAATAACTTTAAAATAAATTAAAAAAATAATAAAAGA-CTACATTCATAACCTAACAAAT
** * * *
20623419 CTTCATCAACATTAAACTAAACAAGCAATT
65 CACCATAAACATTAAACCAAACAAACAATT
20623449 TATAATAGTT
Statistics
Matches: 81, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
112 1 0.01
113 56 0.69
114 24 0.30
ACGTcount: A:0.55, C:0.17, G:0.03, T:0.25
Consensus pattern (114 bp):
TAACAAAATAACTTTAAAATAAATTAAAAAAATAATAAAAGACTACATTCATAACCTAACAAATC
ACCATAAACATTAAACCAAACAAACAATTAACCGAGTCACAAAAATTAA
Found at i:20632164 original size:20 final size:20
Alignment explanation
Indices: 20632141--20632186 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
20632131 TGTTAATATT
*
20632141 TTGTTATTTATTCAAATAGG
1 TTGTTACTTATTCAAATAGG
*
20632161 TTGTTACTTATTTAAATAGG
1 TTGTTACTTATTCAAATAGG
20632181 TTGTTA
1 TTGTTA
20632187 AGCTTTACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.28, C:0.04, G:0.15, T:0.52
Consensus pattern (20 bp):
TTGTTACTTATTCAAATAGG
Found at i:20640221 original size:6 final size:6
Alignment explanation
Indices: 20640210--20640234 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
20640200 TCTGTGTGTT
20640210 GAAAGA GAAAGA GAAAGA GAAAGA G
1 GAAAGA GAAAGA GAAAGA GAAAGA G
20640235 GTGGAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (6 bp):
GAAAGA
Found at i:20646080 original size:24 final size:24
Alignment explanation
Indices: 20646051--20646096 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
20646041 CAAGCCAGGT
*
20646051 ACAAAAAAGAAATAGAAGAAAACA
1 ACAAAAAAGAAATAAAAGAAAACA
*
20646075 ACAAAAAAGAAGTAAAAGAAAA
1 ACAAAAAAGAAATAAAAGAAAA
20646097 GAAATTAAAA
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:0.76, C:0.07, G:0.13, T:0.04
Consensus pattern (24 bp):
ACAAAAAAGAAATAAAAGAAAACA
Found at i:20650217 original size:27 final size:27
Alignment explanation
Indices: 20650162--20650217 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
20650152 TATTTTCTCG
* * ** *
20650162 AAATTTTATTAGGGGTAAAATGGTTAA
1 AAATTTTATCAGAGGTAAAATCATCAA
20650189 AAATTTTATCAGAGGTAAAATCATCAA
1 AAATTTTATCAGAGGTAAAATCATCAA
20650216 AA
1 AA
20650218 TTTATTGAGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.46, C:0.05, G:0.16, T:0.32
Consensus pattern (27 bp):
AAATTTTATCAGAGGTAAAATCATCAA
Found at i:20653435 original size:50 final size:50
Alignment explanation
Indices: 20653336--20653435 Score: 130
Period size: 50 Copynumber: 2.0 Consensus size: 50
20653326 GGACACACCA
* *
20653336 CAGCTCTTATGAGCTTCCCGATACTTAGCTCACATAAGCTTCCTATTATT
1 CAGCTCGTATGAGCTTCCCGATACTTAGCTCACATAAGCTTCCCATTATT
* * * *
20653386 CAGCTCGTATGAGCTTCCCGTTA-TTCAGCTCGCATGAGCTTCCCGTTATT
1 CAGCTCGTATGAGCTTCCCGATACTT-AGCTCACATAAGCTTCCCATTATT
20653436 TAACTCGGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
49 2 0.05
50 41 0.95
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.35
Consensus pattern (50 bp):
CAGCTCGTATGAGCTTCCCGATACTTAGCTCACATAAGCTTCCCATTATT
Found at i:20653442 original size:25 final size:25
Alignment explanation
Indices: 20653344--20653435 Score: 114
Period size: 25 Copynumber: 3.7 Consensus size: 25
20653334 CACAGCTCTT
* *
20653344 ATGAGCTTCCCGATACTT-AGCTCAC
1 ATGAGCTTCCCGTTA-TTCAGCTCGC
* ** *
20653369 ATAAGCTTCCTATTATTCAGCTCGT
1 ATGAGCTTCCCGTTATTCAGCTCGC
20653394 ATGAGCTTCCCGTTATTCAGCTCGC
1 ATGAGCTTCCCGTTATTCAGCTCGC
20653419 ATGAGCTTCCCGTTATT
1 ATGAGCTTCCCGTTATT
20653436 TAACTCGGAA
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
24 2 0.04
25 54 0.96
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATTCAGCTCGC
Found at i:20653449 original size:25 final size:25
Alignment explanation
Indices: 20653372--20653451 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
20653362 AGCTCACATA
** * * *
20653372 AGCTTCCTATTATTCAGCTCGTATG
1 AGCTTCCCGTTATTCAACTCGCAAG
* *
20653397 AGCTTCCCGTTATTCAGCTCGCATG
1 AGCTTCCCGTTATTCAACTCGCAAG
* *
20653422 AGCTTCCCGTTATTTAACTCGGAAG
1 AGCTTCCCGTTATTCAACTCGCAAG
20653447 AGCTT
1 AGCTT
20653452 ATTGTTTATA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.20, C:0.26, G:0.19, T:0.35
Consensus pattern (25 bp):
AGCTTCCCGTTATTCAACTCGCAAG
Found at i:20653450 original size:50 final size:50
Alignment explanation
Indices: 20653346--20653451 Score: 115
Period size: 50 Copynumber: 2.1 Consensus size: 50
20653336 CAGCTCTTAT
* * * *
20653346 GAGCTTCCCGATACTTAGCTCACATAAGCTTCCTATTATTCAGCTCGTAT
1 GAGCTTCCCGATACTTAGCTCACATAAGCTTCCCATTATTCAACTCGGAA
* * * * *
20653396 GAGCTTCCCGTTA-TTCAGCTCGCATGAGCTTCCCGTTATTTAACTCGGAA
1 GAGCTTCCCGATACTT-AGCTCACATAAGCTTCCCATTATTCAACTCGGAA
20653446 GAGCTT
1 GAGCTT
20653452 ATTGTTTATA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
49 2 0.04
50 44 0.96
ACGTcount: A:0.22, C:0.27, G:0.18, T:0.33
Consensus pattern (50 bp):
GAGCTTCCCGATACTTAGCTCACATAAGCTTCCCATTATTCAACTCGGAA
Found at i:20659335 original size:56 final size:56
Alignment explanation
Indices: 20659249--20659362 Score: 210
Period size: 56 Copynumber: 2.0 Consensus size: 56
20659239 GAAAGTTCTT
*
20659249 TGGTTCGATCGTAAAGGAAAGCTGAGTCCGCGATTTATTAGGCCATATGAGATTAC
1 TGGTTCGATCGTAAAGGAAAGCTGAGTCCGCGATTTATTAGGCCATATGAGATGAC
*
20659305 TGGTTCGGTCGTAAAGGAAAGCTGAGTCCGCGATTTATTAGGCCATATGAGATGAC
1 TGGTTCGATCGTAAAGGAAAGCTGAGTCCGCGATTTATTAGGCCATATGAGATGAC
20659361 TG
1 TG
20659363 AGAGAATCAG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (56 bp):
TGGTTCGATCGTAAAGGAAAGCTGAGTCCGCGATTTATTAGGCCATATGAGATGAC
Found at i:20660808 original size:25 final size:25
Alignment explanation
Indices: 20660780--20660849 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
20660770 ACTCAAGTCA
*
20660780 CATGAGCTTCCCGTTATTCGGCTCG
1 CATGAGCTTCCCGTTATTCAGCTCG
20660805 CATGAGCTTCCCGTTATTCAGCTCG
1 CATGAGCTTCCCGTTATTCAGCTCG
*
20660830 CATGAGCTTCTCGTTATTCA
1 CATGAGCTTCCCGTTATTCA
20660850 ACTCAGAAGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.16, C:0.30, G:0.20, T:0.34
Consensus pattern (25 bp):
CATGAGCTTCCCGTTATTCAGCTCG
Found at i:20662880 original size:45 final size:45
Alignment explanation
Indices: 20662756--20662881 Score: 144
Period size: 45 Copynumber: 2.8 Consensus size: 45
20662746 TGTTCTGAGG
* * * **
20662756 ATGCCATAGTATCTTTCAGCCATGGTCTTACACATTCCCAATATA
1 ATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTCCCAATATA
* * * * * *
20662801 ATGCCATAATGTCTTTCAATTATGGTCTTGTTCATTTCCGATTTA
1 ATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTCCCAATATA
*
20662846 TTGCCATAGTGTCTTTCAACTATGGTCTTATTCATT
1 ATGCCATAGTGTCTTTCAACTATGGTCTTATTCATT
20662882 AAAGCTTGGC
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 66 1.00
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (45 bp):
ATGCCATAGTGTCTTTCAACTATGGTCTTATTCATTCCCAATATA
Found at i:20663008 original size:17 final size:17
Alignment explanation
Indices: 20662985--20663033 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
20662975 TTTTATTAAT
20662985 ATTTTAACATATAAAATC
1 ATTTTAA-ATATAAAATC
*
20663003 -TTTTAAAT-TAAAAAC
1 ATTTTAAATATAAAATC
*
20663018 ATTTTAAACATAAAAT
1 ATTTTAAATATAAAAT
20663034 TTCATACTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 6 0.23
16 9 0.35
17 11 0.42
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (17 bp):
ATTTTAAATATAAAATC
Found at i:20666782 original size:15 final size:15
Alignment explanation
Indices: 20666764--20666794 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
20666754 GGTTGGAGCC
20666764 TTAGTCTACTAAGCA
1 TTAGTCTACTAAGCA
20666779 TTAGTCTACTAAGCA
1 TTAGTCTACTAAGCA
20666794 T
1 T
20666795 GTTAGAACGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.35
Consensus pattern (15 bp):
TTAGTCTACTAAGCA
Found at i:20667584 original size:10 final size:11
Alignment explanation
Indices: 20667560--20667602 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
20667550 CCTCTTCCTA
*
20667560 TTTCTTTTGGT
1 TTTCTTTTTGT
20667571 TTTCTTTTTG-
1 TTTCTTTTTGT
*
20667581 TTTCTTTTTCT
1 TTTCTTTTTGT
20667592 TTTCTATTTTG
1 TTTCT-TTTTG
20667603 AAAATAGAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 9 0.33
11 14 0.52
12 4 0.15
ACGTcount: A:0.02, C:0.12, G:0.09, T:0.77
Consensus pattern (11 bp):
TTTCTTTTTGT
Found at i:20667584 original size:21 final size:22
Alignment explanation
Indices: 20667560--20667602 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
20667550 CCTCTTCCTA
*
20667560 TTTCTTTTGGTTTTCT-TTTTG
1 TTTCTTTTGCTTTTCTATTTTG
*
20667581 TTTCTTTTTCTTTTCTATTTTG
1 TTTCTTTTGCTTTTCTATTTTG
20667603 AAAATAGAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.02, C:0.12, G:0.09, T:0.77
Consensus pattern (22 bp):
TTTCTTTTGCTTTTCTATTTTG
Found at i:20668387 original size:18 final size:17
Alignment explanation
Indices: 20668345--20668389 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
20668335 TGTCATTCGT
*
20668345 TTTCAAAACATTATCCA
1 TTTCAAAACATTATCAA
*
20668362 TTTACAAATCATTATTCAA
1 TTT-CAAAACATTA-TCAA
20668381 TTTCAAAAC
1 TTTCAAAAC
20668390 TTTTTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 3 0.13
18 14 0.61
19 6 0.26
ACGTcount: A:0.42, C:0.20, G:0.00, T:0.38
Consensus pattern (17 bp):
TTTCAAAACATTATCAA
Found at i:20673768 original size:17 final size:16
Alignment explanation
Indices: 20673729--20673780 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 16
20673719 TTTTACATGC
20673729 TGTTTTTCTATT-CGG
1 TGTTTTTCTATTGCGG
* *
20673744 TCTTTTTCTGTTGCGTG
1 TGTTTTTCTATTGCG-G
*
20673761 TGTTTTTCTTTTGCAGG
1 TGTTTTTCTATTGC-GG
20673778 TGT
1 TGT
20673781 CAGACGCGTG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
15 10 0.33
16 2 0.07
17 17 0.57
18 1 0.03
ACGTcount: A:0.04, C:0.13, G:0.23, T:0.60
Consensus pattern (16 bp):
TGTTTTTCTATTGCGG
Found at i:20674077 original size:22 final size:22
Alignment explanation
Indices: 20674039--20674084 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
20674029 GGATTTGTAA
* *
20674039 TGGATTTGATTTATTTTGTGTT
1 TGGATTTGATTGATTTTGGGTT
*
20674061 TGGATTTGATTGGTTTTGGGTT
1 TGGATTTGATTGATTTTGGGTT
20674083 TG
1 TG
20674085 TCTCTATTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.11, C:0.00, G:0.30, T:0.59
Consensus pattern (22 bp):
TGGATTTGATTGATTTTGGGTT
Found at i:20677422 original size:25 final size:25
Alignment explanation
Indices: 20677394--20677442 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
20677384 TATAGTCTAT
*
20677394 CTATAGTAGTCTC-AGTATATACTAC
1 CTATAGCAGTCTCAAG-ATATACTAC
*
20677419 CTATAGCAGTTTCAAGATATACTA
1 CTATAGCAGTCTCAAGATATACTA
20677443 TCAAAGACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (25 bp):
CTATAGCAGTCTCAAGATATACTAC
Found at i:20685164 original size:46 final size:47
Alignment explanation
Indices: 20685081--20685191 Score: 154
Period size: 46 Copynumber: 2.4 Consensus size: 47
20685071 ATGGCAAGAA
*
20685081 AATATTATTATA-TTTTTTATTTTAATTAATATAATTATTAAGTTGTT
1 AATATTATTATATTTTTTTACTTT-ATTAATATAATTATTAAGTTGTT
* *
20685128 AATAGTATTATATTTTTTTACTTT-TTAATATCATTATTAAGTTGTT
1 AATATTATTATATTTTTTTACTTTATTAATATAATTATTAAGTTGTT
*
20685174 AATAATTATTGTATTTTT
1 AAT-ATTATTATATTTTT
20685192 AATATTTTAT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
46 24 0.42
47 23 0.40
48 10 0.18
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.59
Consensus pattern (47 bp):
AATATTATTATATTTTTTTACTTTATTAATATAATTATTAAGTTGTT
Found at i:20687013 original size:57 final size:59
Alignment explanation
Indices: 20686927--20687048 Score: 185
Period size: 58 Copynumber: 2.1 Consensus size: 59
20686917 ATAAAAATGG
* * *
20686927 TGAAATTGGAGAAATTGGAAACATTTGGAAATTATTATGGTTTTCT-CCAAAATGAAAA
1 TGAAAATGGAGAAATTGGAAACATTTGGAAATGAATATGGTTTTCTCCCAAAATGAAAA
* *
20686985 TGAAAATGGAGAAA-TGGAATCATTTGGAAATGAATGTGGTTTTCTCCCAAAATGAAAA
1 TGAAAATGGAGAAATTGGAAACATTTGGAAATGAATATGGTTTTCTCCCAAAATGAAAA
20687043 TGAAAA
1 TGAAAA
20687049 ATAAAAATAA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 27 0.47
58 31 0.53
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (59 bp):
TGAAAATGGAGAAATTGGAAACATTTGGAAATGAATATGGTTTTCTCCCAAAATGAAAA
Found at i:20690663 original size:16 final size:16
Alignment explanation
Indices: 20690629--20690663 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
20690619 AATTTAATAC
**
20690629 TTATCTTAATATTTTA
1 TTATCTTAATATTAAA
20690645 TTATCTTAATATTAAA
1 TTATCTTAATATTAAA
20690661 TTA
1 TTA
20690664 AATTAAATAC
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:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (16 bp):
TTATCTTAATATTAAA
Found at i:20690762 original size:58 final size:61
Alignment explanation
Indices: 20690650--20690765 Score: 175
Period size: 61 Copynumber: 2.0 Consensus size: 61
20690640 TTTTATTATC
*
20690650 TTAATATTAAATTAAATTAAATACTTATCTTATAGATAAGTATTCTATTAATTTAATAGAT
1 TTAATATTAAATTAAATTAAATACTTATCTTATAGATAAGTATTATATTAATTTAATAGAT
* * *
20690711 TTAATATTAAATTTAATTTAATATTTATC-T-T-GATAAGTATTATATTAATTTAATA
1 TTAATATTAAATTAAATTAAATACTTATCTTATAGATAAGTATTATATTAATTTAATA
20690766 TTAAAGTGGT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
58 23 0.45
59 1 0.02
60 1 0.02
61 26 0.51
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.49
Consensus pattern (61 bp):
TTAATATTAAATTAAATTAAATACTTATCTTATAGATAAGTATTATATTAATTTAATAGAT
Found at i:20695085 original size:18 final size:19
Alignment explanation
Indices: 20695062--20695099 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
20695052 TGATTTTCTC
*
20695062 AAAATGGAAATG-GAAATG
1 AAAATGAAAATGAGAAATG
20695080 AAAATGAAAATGAGAAATG
1 AAAATGAAAATGAGAAATG
20695099 A
1 A
20695100 TTCATTTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.61, C:0.00, G:0.24, T:0.16
Consensus pattern (19 bp):
AAAATGAAAATGAGAAATG
Found at i:20697530 original size:30 final size:28
Alignment explanation
Indices: 20697494--20697560 Score: 89
Period size: 30 Copynumber: 2.3 Consensus size: 28
20697484 TTATTGATTT
* *
20697494 TTTCAAATTTAATCCAACGACCTATTTTTC
1 TTTCAAATTTAATCAAACGA-CTA-TTTTA
*
20697524 TTTCAAATTTAATCAAATGACTATTTTA
1 TTTCAAATTTAATCAAACGACTATTTTA
20697552 TTTCAAATT
1 TTTCAAATT
20697561 AATAACATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 13 0.38
29 3 0.09
30 18 0.53
ACGTcount: A:0.34, C:0.16, G:0.03, T:0.46
Consensus pattern (28 bp):
TTTCAAATTTAATCAAACGACTATTTTA
Found at i:20698447 original size:20 final size:20
Alignment explanation
Indices: 20698424--20698464 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
20698414 CTATTCAAAC
* *
20698424 AATATTACTTGAATAGTTAT
1 AATATTACATGAATAATTAT
*
20698444 AATATTAGATGAATAATTAT
1 AATATTACATGAATAATTAT
20698464 A
1 A
20698465 TGTCTTTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.02, G:0.10, T:0.41
Consensus pattern (20 bp):
AATATTACATGAATAATTAT
Found at i:20699150 original size:179 final size:180
Alignment explanation
Indices: 20698833--20699193 Score: 654
Period size: 179 Copynumber: 2.0 Consensus size: 180
20698823 CCATGAAGCT
20698833 TTGTCATATTTCTTCGTTTTCTGTTCAATTTGTTGTTCATGTTTCATTCGTGTGTTCAAGATTTT
1 TTGTCATATTTCTTCGTTTTCTGTTCAATTTGTTGTTCATGTTTCATTCGTGTGTTCAAGATTTT
20698898 CCTTACCAAACATTTGTACTATCAATTTTATGGTTATATTATCATGATGACTACTACAATACATG
66 CCTTACCAAACATTTGTACTATCAATTTTATGGTTATATTATCATGATGACTACTACAATACATG
*
20698963 AAAGTGGAACACTAAG-GAAATTGGCTTTAAACTTTTCCAAACTTGATCGG
131 AAAGTGGAACACTAAGAG-AATTGGCTTTAAACTTTGCCAAACTTGATCGG
**
20699013 TTGTCATATTTCTTCGTTTTCTGTTCAATTTGTTGTTCATGTTTCATTCGTGTGTTTGAGATTTT
1 TTGTCATATTTCTTCGTTTTCTGTTCAATTTGTTGTTCATGTTTCATTCGTGTGTTCAAGATTTT
*
20699078 CC-TACCGAACATTTGTACTATCAATTTTATGGTTATATTATCATGATGACTACTACAATACATG
66 CCTTACCAAACATTTGTACTATCAATTTTATGGTTATATTATCATGATGACTACTACAATACATG
*
20699142 AAAGTGGAACACTAAGAGAGTTGGCTTTAAACTTTGCCAAACTTGATCGG
131 AAAGTGGAACACTAAGAGAATTGGCTTTAAACTTTGCCAAACTTGATCGG
20699192 TT
1 TT
20699194 TGATGGTGGA
Statistics
Matches: 175, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
179 109 0.62
180 66 0.38
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (180 bp):
TTGTCATATTTCTTCGTTTTCTGTTCAATTTGTTGTTCATGTTTCATTCGTGTGTTCAAGATTTT
CCTTACCAAACATTTGTACTATCAATTTTATGGTTATATTATCATGATGACTACTACAATACATG
AAAGTGGAACACTAAGAGAATTGGCTTTAAACTTTGCCAAACTTGATCGG
Found at i:20706879 original size:3 final size:3
Alignment explanation
Indices: 20706871--20706911 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
20706861 AAAGAAATTT
20706871 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
20706912 GAGCGGGAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:20707015 original size:12 final size:11
Alignment explanation
Indices: 20706988--20707022 Score: 54
Period size: 10 Copynumber: 3.2 Consensus size: 11
20706978 ATAAATAAAA
20706988 AAGGAAAGGA-
1 AAGGAAAGGAG
20706998 AAGGAAAGGAGG
1 AAGGAAAGGA-G
20707010 AAGGAAAGGAG
1 AAGGAAAGGAG
20707021 AA
1 AA
20707023 ATTGTGTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.43
11 3 0.13
12 10 0.43
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (11 bp):
AAGGAAAGGAG
Found at i:20708983 original size:14 final size:14
Alignment explanation
Indices: 20708957--20708991 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
20708947 GACATTTTTT
*
20708957 TTCTAATGATACTA
1 TTCTAACGATACTA
*
20708971 TTTTAACGATACTA
1 TTCTAACGATACTA
20708985 TTCTAAC
1 TTCTAAC
20708992 ATGTAATTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.43
Consensus pattern (14 bp):
TTCTAACGATACTA
Found at i:20712152 original size:22 final size:21
Alignment explanation
Indices: 20712124--20712175 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
20712114 TAGCTTATCC
* *
20712124 TTCTTTCTTTCTCTTTTTCTTT
1 TTCTTTCTTTC-CCTTTTCTGT
20712146 TTCTTTCTTTCCCTTTTCTGT
1 TTCTTTCTTTCCCTTTTCTGT
20712167 TTCGTTTCT
1 TTC-TTTCT
20712176 AAATTTGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 11 0.41
22 16 0.59
ACGTcount: A:0.00, C:0.25, G:0.04, T:0.71
Consensus pattern (21 bp):
TTCTTTCTTTCCCTTTTCTGT
Found at i:20712648 original size:33 final size:34
Alignment explanation
Indices: 20712565--20712653 Score: 83
Period size: 33 Copynumber: 2.7 Consensus size: 34
20712555 CGTGTCATTA
*
20712565 CACCGCAGTACAACACTCCTCC-CGGTCCGTATC
1 CACCACAGTACAACACTCCTCCTCGGTCCGTATC
* * ** *
20712598 CACCGCATTACTCCACTCCTCCTGGGT-CGTATC
1 CACCACAGTACAACACTCCTCCTCGGTCCGTATC
* * *
20712631 CACTATAGTACAACACTCATCCT
1 CACCACAGTACAACACTCCTCCT
20712654 AGCTCAAGTT
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
33 41 0.93
34 3 0.07
ACGTcount: A:0.22, C:0.42, G:0.12, T:0.24
Consensus pattern (34 bp):
CACCACAGTACAACACTCCTCCTCGGTCCGTATC
Found at i:20713033 original size:49 final size:49
Alignment explanation
Indices: 20712912--20713102 Score: 249
Period size: 49 Copynumber: 3.8 Consensus size: 49
20712902 GTATTTATTT
* *
20712912 AATTAGATTAATTGCAACATTAAAACTTGGAACAAACTTTGTGGTCTGGTCATA
1 AATTAGATTAATTACAACATTAAAACTTGGAACAAAC--T-T--TATGGTCATA
20712966 AATTAGATTAATTACAACATTAAAACTTGGAACAAACTTTATGGTCATA
1 AATTAGATTAATTACAACATTAAAACTTGGAACAAACTTTATGGTCATA
* * **
20713015 AATTAGATTAATTGCAACATTAAAACTTGGAACAAACATTATAAT-ATA
1 AATTAGATTAATTACAACATTAAAACTTGGAACAAACTTTATGGTCATA
* **
20713063 AATTAAATGCATTACAACATTAAAACTTGGAACAAACTTT
1 AATTAGATTAATTACAACATTAAAACTTGGAACAAACTTT
20713103 GCAATATAAA
Statistics
Matches: 126, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
48 38 0.30
49 50 0.40
51 1 0.01
52 1 0.01
54 36 0.29
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.32
Consensus pattern (49 bp):
AATTAGATTAATTACAACATTAAAACTTGGAACAAACTTTATGGTCATA
Found at i:20713083 original size:48 final size:48
Alignment explanation
Indices: 20712963--20713115 Score: 198
Period size: 48 Copynumber: 3.2 Consensus size: 48
20712953 TGGTCTGGTC
* * **
20712963 ATAAATTAGATTAATTACAACATTAAAACTTGGAACAAACTTTATGGT
1 ATAAATTAAATGAATTACAACATTAAAACTTGGAACAAACTTTATAAT
* * * *
20713011 CATAAATTAGATTAATTGCAACATTAAAACTTGGAACAAACATTATAAT
1 -ATAAATTAAATGAATTACAACATTAAAACTTGGAACAAACTTTATAAT
* **
20713060 ATAAATTAAATGCATTACAACATTAAAACTTGGAACAAACTTTGCAAT
1 ATAAATTAAATGAATTACAACATTAAAACTTGGAACAAACTTTATAAT
20713108 ATAAATTA
1 ATAAATTA
20713116 GGTACATTGG
Statistics
Matches: 93, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
48 49 0.53
49 44 0.47
ACGTcount: A:0.48, C:0.12, G:0.08, T:0.31
Consensus pattern (48 bp):
ATAAATTAAATGAATTACAACATTAAAACTTGGAACAAACTTTATAAT
Found at i:20716499 original size:27 final size:26
Alignment explanation
Indices: 20716424--20716499 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 26
20716414 AGGATTTGGT
20716424 ACTGGTGCCGCCTATCAGATAAGGGTC
1 ACTGGTGCCGCCTATCAGAT-AGGGTC
*** *
20716451 ACCAATGTCGCCTATCAGATAGGGATC
1 ACTGGTGCCGCCTATCAGATAGGG-TC
20716478 ACTGGTGCCGCCTATCAGATAG
1 ACTGGTGCCGCCTATCAGATAG
20716500 ACACCATAGC
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 4 0.10
27 36 0.90
ACGTcount: A:0.25, C:0.26, G:0.26, T:0.22
Consensus pattern (26 bp):
ACTGGTGCCGCCTATCAGATAGGGTC
Found at i:20721236 original size:172 final size:172
Alignment explanation
Indices: 20720950--20721295 Score: 683
Period size: 172 Copynumber: 2.0 Consensus size: 172
20720940 TAACAGTAAG
20720950 TCACATTTGGGAAGAAGTAAAGTTTTTAGCTTCATGATTTTCTTAGTTTGTATTGGATTGATGAA
1 TCACATTTGGGAAGAAGTAAAGTTTTTAGCTTCATGATTTTCTTAGTTTGTATTGGATTGATGAA
*
20721015 ATTTCAGCTATGCTGCATTCAAATATTTGTAAAATCTAAATTGAAACTAGTGAAAGTGATAGAGG
66 ATTTCAGCTATGCTGCATTCAAATATTTGTAAAATCTAAATCGAAACTAGTGAAAGTGATAGAGG
20721080 GTTGCGCGCGGACCAAGACCGAGTCGTCAAGTCACGGGAAAC
131 GTTGCGCGCGGACCAAGACCGAGTCGTCAAGTCACGGGAAAC
20721122 TCACATTTGGGAAGAAGTAAAGTTTTTAGCTTCATGATTTTCTTAGTTTGTATTGGATTGATGAA
1 TCACATTTGGGAAGAAGTAAAGTTTTTAGCTTCATGATTTTCTTAGTTTGTATTGGATTGATGAA
20721187 ATTTCAGCTATGCTGCATTCAAATATTTGTAAAATCTAAATCGAAACTAGTGAAAGTGATAGAGG
66 ATTTCAGCTATGCTGCATTCAAATATTTGTAAAATCTAAATCGAAACTAGTGAAAGTGATAGAGG
20721252 GTTGCGCGCGGACCAAGACCGAGTCGTCAAGTCACGGGAAAC
131 GTTGCGCGCGGACCAAGACCGAGTCGTCAAGTCACGGGAAAC
20721294 TC
1 TC
20721296 CTACGAAAGC
Statistics
Matches: 173, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
172 173 1.00
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.31
Consensus pattern (172 bp):
TCACATTTGGGAAGAAGTAAAGTTTTTAGCTTCATGATTTTCTTAGTTTGTATTGGATTGATGAA
ATTTCAGCTATGCTGCATTCAAATATTTGTAAAATCTAAATCGAAACTAGTGAAAGTGATAGAGG
GTTGCGCGCGGACCAAGACCGAGTCGTCAAGTCACGGGAAAC
Found at i:20724383 original size:22 final size:22
Alignment explanation
Indices: 20724356--20724402 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
20724346 TAAAACTTGA
20724356 ATTAAATCCTAAAAAAGTTAGC
1 ATTAAATCCTAAAAAAGTTAGC
20724378 ATTAAATCCTAAAAAAGTTAGC
1 ATTAAATCCTAAAAAAGTTAGC
20724400 ATT
1 ATT
20724403 GTTATGGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.30
Consensus pattern (22 bp):
ATTAAATCCTAAAAAAGTTAGC
Found at i:20733441 original size:14 final size:16
Alignment explanation
Indices: 20733406--20733444 Score: 55
Period size: 14 Copynumber: 2.5 Consensus size: 16
20733396 ATGATAAAAA
20733406 TATAATTTCATTATTT
1 TATAATTTCATTATTT
20733422 TAATAATTT-A-TATTT
1 T-ATAATTTCATTATTT
20733437 TATAATTT
1 TATAATTT
20733445 TTAAAGGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 7 0.32
15 6 0.27
16 2 0.09
17 7 0.32
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
TATAATTTCATTATTT
Found at i:20733485 original size:29 final size:33
Alignment explanation
Indices: 20733436--20733503 Score: 90
Period size: 30 Copynumber: 2.2 Consensus size: 33
20733426 AATTTATATT
*
20733436 TTATAATTTTTAAAGGATT-AAAT-TAA-TTTA
1 TTATTATTTTTAAAGGATTAAAATATAATTTTA
*
20733466 TTATTATTTTTAGAGG-TTAAAATATAATTTTA
1 TTATTATTTTTAAAGGATTAAAATATAATTTTA
20733498 TTATTA
1 TTATTA
20733504 ATTTAAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 2 0.06
30 18 0.55
31 3 0.09
32 10 0.30
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (33 bp):
TTATTATTTTTAAAGGATTAAAATATAATTTTA
Found at i:20734499 original size:22 final size:23
Alignment explanation
Indices: 20734472--20734515 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
20734462 TTAACGAACA
20734472 AAATATATAAATAT-AAATAAAC
1 AAATATATAAATATAAAATAAAC
* *
20734494 AAATATTTATATATAAAATAAA
1 AAATATATAAATATAAAATAAA
20734516 ATATAAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
AAATATATAAATATAAAATAAAC
Found at i:20734517 original size:20 final size:21
Alignment explanation
Indices: 20734471--20734520 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
20734461 ATTAACGAAC
20734471 AAAATATATAAATATAAATAA
1 AAAATATATAAATATAAATAA
* * *
20734492 ACAAATATTTATATATAAA-AT
1 A-AAATATATAAATATAAATAA
20734513 AAAATATA
1 AAAATATA
20734521 AATTGAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 6 0.25
21 3 0.12
22 15 0.62
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
AAAATATATAAATATAAATAA
Found at i:20735149 original size:22 final size:22
Alignment explanation
Indices: 20735124--20735166 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
20735114 TAGTCATATA
20735124 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
20735146 ATAATTTATTATTTTAATAAA
1 ATAAATTATTAATATAATAAA
20735167 ATATTTAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:20735203 original size:13 final size:14
Alignment explanation
Indices: 20735187--20735228 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
20735177 TTTCAATTTT
20735187 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
20735200 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
20735215 ATTTTAAATAATAT
1 ATTTT-AATAATAT
20735229 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:20735213 original size:16 final size:16
Alignment explanation
Indices: 20735191--20735227 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
20735181 AATTTTATTT
20735191 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
20735208 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
20735223 TAATA
1 TAATA
20735228 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:20736712 original size:2 final size:2
Alignment explanation
Indices: 20736705--20736730 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
20736695 TGTCTTTTTA
20736705 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
20736731 TTATTTAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20738542 original size:2 final size:2
Alignment explanation
Indices: 20738535--20738565 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
20738525 TTCAAATCTC
20738535 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20738566 TTTAAGATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:20738824 original size:16 final size:17
Alignment explanation
Indices: 20738803--20738837 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
20738793 ACAAATGAAT
20738803 AATAAAAATAT-ATTTA
1 AATAAAAATATAATTTA
20738819 AATAAAAATATAATTTA
1 AATAAAAATATAATTTA
20738836 AA
1 AA
20738838 ATTAATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AATAAAAATATAATTTA
Found at i:20745721 original size:19 final size:20
Alignment explanation
Indices: 20745697--20745738 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
20745687 ATTAAGTTAA
*
20745697 TTTTAAAGTATTTT-ATTTT
1 TTTTAAAATATTTTAATTTT
20745716 TTTTAAAATATTTTAATTTT
1 TTTTAAAATATTTTAATTTT
20745736 TTT
1 TTT
20745739 GTCGATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
TTTTAAAATATTTTAATTTT
Found at i:20753871 original size:488 final size:488
Alignment explanation
Indices: 20752955--20754409 Score: 2865
Period size: 488 Copynumber: 3.0 Consensus size: 488
20752945 GATGTTCAGC
20752955 TTTAACCTGCTGACATACTAAACACTTTGATACAAACTCAGAAATATCACGTTTCATGCCTGGCC
1 TTTAACCTGCTGACATACTAAACACTTTGATACAAACTCAGAAATATCACGTTTCATGCCTGGCC
20753020 ACCAGTACATCTTCTTCAAATCATTATACATTTTATTATCTCCCGGATGTACGGACATAATACCA
66 ACCAGTACATCTTCTTCAAATCATTATACATTTTATTATCTCCCGGATGTACGGACATAATACCA
20753085 CTGTGTGCCTCGTGTAAAATCTTCTGTACAAGCTCTGAATTCTTTGGTACACATACTCTGCCTCT
131 CTGTGTGCCTCGTGTAAAATCTTCTGTACAAGCTCTGAATTCTTTGGTACACATACTCTGCCTCT
20753150 GAATAATAAACAATCAAGAGTCCCAATCTGAAATTCTGAATCATTACCTGAATCACATTGTACCT
196 GAATAATAAACAATCAAGAGTCCCAATCTGAAATTCTGAATCATTACCTGAATCACATTGTACCT
20753215 ATTTAGCCTGTAGCTTCTCATCATTTTTCTGAGCTTAATATATTTGTTGTAGAAATGTCGGTTTA
261 ATTTAGCCTGTAGCTTCTCATCATTTTTCTGAGCTTAATATATTTGTTGTAGAAATGTCGGTTTA
*
20753280 ACTCTCAACTCAACTACGACTAAACCATCATCAACCAAAGACAATCGGGCATTCATAACTCGTAA
326 ACTCTCAACTCAGCTACGACTAAACCATCATCAACCAAAGACAATCGGGCATTCATAACTCGTAA
20753345 AGCAAACAGAGATTTTCAACTCAGAGCATCAACAACAACATTAGCCTTACCTGGATGATAATCAA
391 AGCAAACAGAGATTTTCAACTCAGAGCATCAACAACAACATTAGCCTTACCTGGATGATAATCAA
20753410 TAATCAAATCATAGTCTTTTATCAACAACAACA
456 TAATCAAATCATAGTCTTTTATCAACAACAACA
20753443 TTTAACCTGCTGACATACTAAACACTTTGATACAAACTCAGAAATATCACGTTTCATGCCTGGCC
1 TTTAACCTGCTGACATACTAAACACTTTGATACAAACTCAGAAATATCACGTTTCATGCCTGGCC
20753508 ACCAGTACATCTTCTTCAAATCATTATACATTTTATTATCTCCCGGATGTACGGACATAATACCA
66 ACCAGTACATCTTCTTCAAATCATTATACATTTTATTATCTCCCGGATGTACGGACATAATACCA
20753573 CTGTGTGCCTCGTGTAAAATCTTCTGTACAAGCTCTGAATTCTTTGGTACACATACTCTGCCTCT
131 CTGTGTGCCTCGTGTAAAATCTTCTGTACAAGCTCTGAATTCTTTGGTACACATACTCTGCCTCT
20753638 GAATAATAAACAATCAAGAGTCCCAATCTGAAATTCTGAATCATTACCTGAATCACATTGTACCT
196 GAATAATAAACAATCAAGAGTCCCAATCTGAAATTCTGAATCATTACCTGAATCACATTGTACCT
* *
20753703 ATTTAGCCTGTAGCTTCTCATCATTTTTCTGAGCTTCATATATTTGTTATAGAAATGTCGGTTTA
261 ATTTAGCCTGTAGCTTCTCATCATTTTTCTGAGCTTAATATATTTGTTGTAGAAATGTCGGTTTA
20753768 ACTCTCAACTCAGCTACGACTAAACCATCATCAACCAAAGACAATCGGGCATTCATAACTCGTAA
326 ACTCTCAACTCAGCTACGACTAAACCATCATCAACCAAAGACAATCGGGCATTCATAACTCGTAA
20753833 AGCAAACAGAGATTTTCAACTCAGAGCATCAACAACAACATTAGCCTTACCTGGATGATAATCAA
391 AGCAAACAGAGATTTTCAACTCAGAGCATCAACAACAACATTAGCCTTACCTGGATGATAATCAA
20753898 TAATCAAATCATAGTCTTTTATCAACAACAACA
456 TAATCAAATCATAGTCTTTTATCAACAACAACA
20753931 TTTAACCTGCTGACATACTAAACACTTTGATACAAACTCAGAAATATCACGTTTCATGCCTGGCC
1 TTTAACCTGCTGACATACTAAACACTTTGATACAAACTCAGAAATATCACGTTTCATGCCTGGCC
*
20753996 ACCAGTACATCTTCTTCAAATCATTATACATTTTATTATCTCCCGAATGTACGGACATAATACCA
66 ACCAGTACATCTTCTTCAAATCATTATACATTTTATTATCTCCCGGATGTACGGACATAATACCA
*
20754061 CTGTGTGCCTCATGTAAAATCTTCTGTACAAGCTCTGAATTCTTTGGTACACATACTCTGCCTCT
131 CTGTGTGCCTCGTGTAAAATCTTCTGTACAAGCTCTGAATTCTTTGGTACACATACTCTGCCTCT
20754126 GAATAATAAACAATCAAGAGTCCCAATCTGAAATTCTGAATCATTACCTGAATCACATTGTACCT
196 GAATAATAAACAATCAAGAGTCCCAATCTGAAATTCTGAATCATTACCTGAATCACATTGTACCT
20754191 ATTTAGCCTGTAGCTTCTCATCATTTTTCTGAGCTTAATATATTTGTTGTAGAAATGTCGGTTTA
261 ATTTAGCCTGTAGCTTCTCATCATTTTTCTGAGCTTAATATATTTGTTGTAGAAATGTCGGTTTA
20754256 ACTCTCAACTCAGCTACGACTAAACCATCATCAACCAAAGACAATCGGGCATTCATAACTCGTAA
326 ACTCTCAACTCAGCTACGACTAAACCATCATCAACCAAAGACAATCGGGCATTCATAACTCGTAA
20754321 AGCAAACAGAGATTTTCAACTCAGAGCATCAACAACAACATTAGCCTTACCTGGATGATAATCAA
391 AGCAAACAGAGATTTTCAACTCAGAGCATCAACAACAACATTAGCCTTACCTGGATGATAATCAA
20754386 TAATCAAATCATAGTCTTTTATCA
456 TAATCAAATCATAGTCTTTTATCA
20754410 GTTCAAGCCA
Statistics
Matches: 960, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
488 960 1.00
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.31
Consensus pattern (488 bp):
TTTAACCTGCTGACATACTAAACACTTTGATACAAACTCAGAAATATCACGTTTCATGCCTGGCC
ACCAGTACATCTTCTTCAAATCATTATACATTTTATTATCTCCCGGATGTACGGACATAATACCA
CTGTGTGCCTCGTGTAAAATCTTCTGTACAAGCTCTGAATTCTTTGGTACACATACTCTGCCTCT
GAATAATAAACAATCAAGAGTCCCAATCTGAAATTCTGAATCATTACCTGAATCACATTGTACCT
ATTTAGCCTGTAGCTTCTCATCATTTTTCTGAGCTTAATATATTTGTTGTAGAAATGTCGGTTTA
ACTCTCAACTCAGCTACGACTAAACCATCATCAACCAAAGACAATCGGGCATTCATAACTCGTAA
AGCAAACAGAGATTTTCAACTCAGAGCATCAACAACAACATTAGCCTTACCTGGATGATAATCAA
TAATCAAATCATAGTCTTTTATCAACAACAACA
Found at i:20766779 original size:27 final size:26
Alignment explanation
Indices: 20766723--20766795 Score: 65
Period size: 27 Copynumber: 2.6 Consensus size: 26
20766713 AAAAGGGTAC
* *
20766723 AAAATATATACATGTACATATATAAA
1 AAAATATATACATATACATAGATAAA
*
20766749 AAAATTATATACATATATATAGATTATAA
1 AAAA-TATATACATATACATAGA-TA-AA
*
20766778 AAAAGATAATTACATATA
1 AAAATAT-A-TACATATA
20766796 ATATAAACAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
26 4 0.11
27 15 0.39
28 4 0.11
29 7 0.18
30 8 0.21
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.33
Consensus pattern (26 bp):
AAAATATATACATATACATAGATAAA
Found at i:20766779 original size:30 final size:31
Alignment explanation
Indices: 20766743--20766800 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
20766733 CATGTACATA
*
20766743 TATAAAAAA-ATTATATACATAT-ATATAGAT
1 TATAAAAAAGATAAT-TACATATAATATAGAT
20766773 TATAAAAAAGATAATTACATATAATATA
1 TATAAAAAAGATAATTACATATAATATA
20766801 AACAAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 16 0.64
31 9 0.36
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.34
Consensus pattern (31 bp):
TATAAAAAAGATAATTACATATAATATAGAT
Found at i:20766866 original size:26 final size:25
Alignment explanation
Indices: 20766837--20766888 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
20766827 AAAATTAATT
20766837 AATTTA-GAAAAATATATATATAAAAA
1 AATTTATGAAAAATA-ATATA-AAAAA
*
20766863 AATTTATGAAGAATAATATAAAAAA
1 AATTTATGAAAAATAATATAAAAAA
20766888 A
1 A
20766889 CATACGTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 6 0.25
26 11 0.46
27 7 0.29
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (25 bp):
AATTTATGAAAAATAATATAAAAAA
Found at i:20766980 original size:17 final size:17
Alignment explanation
Indices: 20766958--20767001 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
20766948 TAGGAAATAA
20766958 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
20766975 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
20766992 -ATATGTATAT
1 AAAATGTATAT
20767002 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:20767138 original size:3 final size:3
Alignment explanation
Indices: 20767130--20767168 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
20767120 GTATATATAG
* *
20767130 TAA TAA TAA TAA TGA TAA TAA TAA CAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
20767169 CTTAATAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:20767534 original size:21 final size:21
Alignment explanation
Indices: 20767485--20767582 Score: 121
Period size: 21 Copynumber: 4.7 Consensus size: 21
20767475 AAATTAAATC
*
20767485 TCTAAGATTACA-AAATCATA
1 TCTAAGATTGCATAAATCATA
20767505 TCTTCTAAGATTGCATAAATCATA
1 ---TCTAAGATTGCATAAATCATA
*
20767529 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATAAATCATA
20767550 TCTAAGATTGCAT--ATCATA
1 TCTAAGATTGCATAAATCATA
*
20767569 TCTAAGATTACATA
1 TCTAAGATTGCATA
20767583 TCCTTGAAGA
Statistics
Matches: 70, Mismatches: 3, Indels: 7
0.88 0.04 0.09
Matches are distributed among these distances:
19 18 0.26
21 33 0.47
23 11 0.16
24 8 0.11
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.36
Consensus pattern (21 bp):
TCTAAGATTGCATAAATCATA
Found at i:20770752 original size:22 final size:23
Alignment explanation
Indices: 20770726--20770774 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
20770716 GAAGTTTCAG
*
20770726 TCTCTAACTTTCACTCAG-ACAA
1 TCTCTAACTTTAACTCAGTACAA
*
20770748 TCTCTAACTTTAACTCAGTACAG
1 TCTCTAACTTTAACTCAGTACAA
20770771 TCTC
1 TCTC
20770775 ATAAAGTACT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.29, C:0.31, G:0.06, T:0.35
Consensus pattern (23 bp):
TCTCTAACTTTAACTCAGTACAA
Found at i:20771184 original size:18 final size:20
Alignment explanation
Indices: 20771161--20771201 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
20771151 ACAACGAAAG
20771161 TTTAGAAA-CC-GTTTATAT
1 TTTAGAAATCCAGTTTATAT
*
20771179 TTTAGAAATCCAGTTTGTAT
1 TTTAGAAATCCAGTTTATAT
20771199 TTT
1 TTT
20771202 TTGAAAACCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 2 0.10
20 10 0.50
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.49
Consensus pattern (20 bp):
TTTAGAAATCCAGTTTATAT
Found at i:20772872 original size:8 final size:8
Alignment explanation
Indices: 20772859--20772892 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
20772849 ATCCCAACTC
20772859 CCCACTAA
1 CCCACTAA
*
20772867 CTCACTAA
1 CCCACTAA
*
20772875 CCCATTAA
1 CCCACTAA
20772883 CCCACTAA
1 CCCACTAA
20772891 CC
1 CC
20772893 AACAACTTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.35, C:0.47, G:0.00, T:0.18
Consensus pattern (8 bp):
CCCACTAA
Found at i:20783357 original size:44 final size:44
Alignment explanation
Indices: 20783303--20783744 Score: 195
Period size: 44 Copynumber: 10.0 Consensus size: 44
20783293 ACCATCTTTG
* *
20783303 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCA
1 ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTCA
* ** * * *
20783347 ATCTATTCCACTGTTGCCCAGGGAGAT-AGA-AT-TACTGGCTTCA
1 ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAAT--CTTCA
* * ** * * **** **
20783390 ATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTTG
1 ATCTACTCCACTAC-TGCTCAGGGAGATAAGATCTGTAATCTTCA
* *
20783435 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCA
1 ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTCA
* ** * * *
20783479 ATCTATTCCACTGTTGCCCAGGGAGAT-AGAAC--TACTGGCTTCA
1 ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAAT--CTTCA
* * ** * * **** **
20783522 ATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTTG
1 ATCTACTCCACTAC-TGCTCAGGGAGATAAGATCTGTAATCTTCA
* *
20783567 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCA
1 ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTCA
* ** * * *
20783611 ATCTATTCCACTGTTGCCCAGGGAGAT-AGA-AT-TACTGGCTTCA
1 ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAAT--CTTCA
* * * ** *
20783654 ATGTACTCCACTGTAAC--CTCAGGGAGGTAAAATCTGCCATCTTCG
1 ATCTACTCCAC--T-ACTGCTCAGGGAGATAAGATCTGTAATCTTCA
* * *
20783699 ATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATCTTCA
1 ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTCA
20783743 AT
1 AT
20783745 TTGTTCAACT
Statistics
Matches: 274, Mismatches: 102, Indels: 44
0.65 0.24 0.10
Matches are distributed among these distances:
41 9 0.03
42 4 0.01
43 57 0.21
44 152 0.55
45 48 0.18
46 1 0.00
47 3 0.01
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (44 bp):
ATCTACTCCACTACTGCTCAGGGAGATAAGATCTGTAATCTTCA
Found at i:20783413 original size:132 final size:132
Alignment explanation
Indices: 20783216--20783744 Score: 961
Period size: 132 Copynumber: 4.0 Consensus size: 132
20783206 ATTTCTTCTG
* * *
20783216 TCTATTCTATTGTTGCCCTA-GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAG
1 TCTATTCCACTGTTGCCC-AGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAG
20783280 GGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTT
65 GGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTT
20783345 CAA
130 CAA
20783348 TCTATTCCACTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGG
1 TCTATTCCACTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGG
20783413 GAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTC
66 GAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTC
20783478 AA
131 AA
*
20783480 TCTATTCCACTGTTGCCCAGGGAGATAGAACTACTGGCTTCAATGTACTCCACTGCAACCTCAGG
1 TCTATTCCACTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGG
20783545 GAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTC
66 GAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTC
20783610 AA
131 AA
*
20783612 TCTATTCCACTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGG
1 TCTATTCCACTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGG
** * *
20783677 GAGGTAAAATCTGCCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTGTAATCTTC
66 GAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTC
20783742 AA
131 AA
20783744 T
1 T
20783745 TTGTTCAACT
Statistics
Matches: 386, Mismatches: 10, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
131 1 0.00
132 385 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (132 bp):
TCTATTCCACTGTTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGCAACCTCAGG
GAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTC
AA
Found at i:20783696 original size:88 final size:89
Alignment explanation
Indices: 20783322--20783726 Score: 227
Period size: 88 Copynumber: 4.6 Consensus size: 89
20783312 ACTACTGCTT
* * * *
20783322 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAAT-TACTGGC
1 AGGGAGATAAAATCTGCAATCTTCAATCTACTCCACTGCTGCCCAGGGAGATAGAATCTACTGGC
* *
20783386 TTCAATGTACTCCACTGCAACCTC
66 TTCAATCTACTCCACTGTAACCTC
* ** * ** * * ** *
20783410 AGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATA-AGATCTGTAAT
1 AGGGAGATAAAATCTGCAATCTTCAATCTACTCCACTGCTGCCCAGGGAGATAGA-ATC--TACT
* **
20783474 --CTTCAATCTATTCCACTGTTGCC-C
63 GGCTTCAATCTACTCCACTGTAACCTC
* * *** * ** * * * ***
20783498 AGGGAGATAGAA-CTACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCAT
1 AGGGAGATAAAATCTGCAATCTTCAATCTACTCCACTGCTGCC-CAGGGAGATAGAATCTACTGG
** * *
20783562 CTTTGATCTGCTCCAC--T-ACTGCTT
65 CTTCAATCTACTCCACTGTAAC--CTC
* * * *
20783586 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCCCAGGGAGATAGAAT-TACTGGC
1 AGGGAGATAAAATCTGCAATCTTCAATCTACTCCACTGCTGCCCAGGGAGATAGAATCTACTGGC
*
20783650 TTCAATGTACTCCACTGTAACCTC
66 TTCAATCTACTCCACTGTAACCTC
* * * * * * **
20783674 AGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGATA
1 AGGGAGATAAAATCTGCAATCTTCAATCTACTCCACTGCTGCCCAGGGAGATA
20783727 AGATCTGTAA
Statistics
Matches: 222, Mismatches: 80, Indels: 30
0.67 0.24 0.09
Matches are distributed among these distances:
85 1 0.00
86 2 0.01
87 34 0.15
88 140 0.63
89 40 0.18
90 2 0.01
91 3 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.28
Consensus pattern (89 bp):
AGGGAGATAAAATCTGCAATCTTCAATCTACTCCACTGCTGCCCAGGGAGATAGAATCTACTGGC
TTCAATCTACTCCACTGTAACCTC
Found at i:20783920 original size:100 final size:100
Alignment explanation
Indices: 20783754--20784822 Score: 1773
Period size: 100 Copynumber: 10.7 Consensus size: 100
20783744 TTTGTTCAAC
* * * * * * *
20783754 TGCAATGTCGGGGAAACCAGATCCGCCGTTGTAGCTTCAATCTGTTCCACCGTACCG-TCAGAGA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAG-GA
*
20783818 AGTAAGATCCGCTGTTGTGGCTTCAATCTTTTTAAT
65 AGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* * *
20783854 TGCAATATCAGGGAAACCAGATCCGCCGTCATAGCTTCAATTTGTTCCACTACACTGCTAAGGAA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
*
20783919 GTAAGATCCGCTGTTGTGGCTTCAATCTTTTTAAT
66 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
20783954 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
*
20784019 GTAAGATCCGCCGTTGTGGCTTCAATTTTTTTAAT
66 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
*
20784054 TGCAATATCAGGGAAACCAGATCCGCTGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
* *
20784119 GTAAGATCCACCGTTGTGGCTTCAATTTTTTTAAT
66 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* *
20784154 TGCAATATCAGGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGTACTGCTAAGGAA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
20784219 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
66 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* * *
20784254 TGCAATATCAGGGACACCAGATCCGCTGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGAAA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
20784319 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
66 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* *
20784354 TGCAATATCAGGGAAACCAGATCCGCTGTCGTAGCTTCAATCCGTTCCACTGCACTGCTAAGGAA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
*
20784419 GTAAGATCCGCCGTTGTGACTTCAATCTTTTTAAT
66 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* * *
20784454 TGCAATATCAGGGAAATCAGATCCGTCGTCGTAGCTTCAATCCGTTCCACTGCACTGCTAAGGAA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
*
20784519 GTAAGATCCGCCGTTGCGGCTTCAATCTTTTTAAT
66 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
*
20784554 TGCAATATCAGGGAAACTAGATCCGCCGTCGTAGCTTCAATAC-GTTCCACTGCACTGCTAAGGA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAAT-CTGTTCCACTGCACTGCTAAGGA
* *
20784618 AGTAAAATCTGCCGTTGTGGCTTCAATCTTTTTAAT
65 AGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
*
20784654 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCCGTTCCACTGCACTGCTAAGGAA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
* *
20784719 GTAAGATCCGTCGTTGTGGCTTCAATCTTGTTAAT
66 GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
* * *
20784754 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTACACTACTAATGAA
1 TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
20784819 GTAA
66 GTAA
20784823 AATCTATGGT
Statistics
Matches: 915, Mismatches: 51, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
99 1 0.00
100 910 0.99
101 4 0.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (100 bp):
TGCAATATCAGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAA
GTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAAT
Found at i:20790644 original size:18 final size:15
Alignment explanation
Indices: 20790609--20790637 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
20790599 ATAATAACAG
20790609 TAATAATAAATAATA
1 TAATAATAAATAATA
20790624 TAATAATAAATAAT
1 TAATAATAAATAAT
20790638 GGTATAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TAATAATAAATAATA
Found at i:20797944 original size:151 final size:149
Alignment explanation
Indices: 20797670--20797964 Score: 371
Period size: 151 Copynumber: 2.0 Consensus size: 149
20797660 TAAATTACAC
* *
20797670 TTTCTTAAAATCAAAACTTTATTTCGAAAAAGTTAAAAAATATCAAAGTTTTATTTTAAAAAATT
1 TTTCTTAAAATCAAAACTTTATTTCGAAAAAGTTAAAAAAGATCAAAATTTTATTTTAAAAAATT
* ** * *** *
20797735 TAAATTTGTTCCTTAAAATGACTAAAAGGCAGATTTTTATTTTAAAAATCTAAACTTTCACTTTT
66 TAAACTTGTTCCTTAAAATGACTAAAAAACAAATTTTTAAAATAAAAATCTAAACTTT--CTCTT
*
20797800 TTTTAAAAACAAATCACTGTT
129 TTTTAAAAAAAAATCACTGTT
* * *
20797821 TTTCTTAAAAATCAAAACTTTATTTC-AAAATAGTTGAAAAAGATCAAAATTTTGTTTT-AAGAA
1 TTTCTT-AAAATCAAAACTTTATTTCGAAAA-AGTTAAAAAAGATCAAAATTTTATTTTAAAAAA
* * *
20797884 TTTAAACTT-TTCTTTTAATATGACTAAAAAATAAATTTTTAAAATAAAAATCTAAACTTTCTCT
64 TTTAAACTTGTTC-CTTAAAATGACTAAAAAACAAATTTTTAAAATAAAAATCTAAACTTTCTCT
20797948 TTTTTAAAAAAAAATCA
128 TTTTTAAAAAAAAATCA
20797965 AAACTTTTCT
Statistics
Matches: 124, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
149 19 0.15
150 3 0.02
151 60 0.48
152 42 0.34
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (149 bp):
TTTCTTAAAATCAAAACTTTATTTCGAAAAAGTTAAAAAAGATCAAAATTTTATTTTAAAAAATT
TAAACTTGTTCCTTAAAATGACTAAAAAACAAATTTTTAAAATAAAAATCTAAACTTTCTCTTTT
TTAAAAAAAAATCACTGTT
Found at i:20800395 original size:17 final size:16
Alignment explanation
Indices: 20800355--20800396 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
20800345 AGATTAAGGG
20800355 AATAAAAAAAATAAAT
1 AATAAAAAAAATAAAT
*
20800371 AATGAAAAGAAATAAAT
1 AAT-AAAAAAAATAAAT
20800388 AAATAAAAA
1 -AATAAAAA
20800397 TAAGCAAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 3 0.14
17 16 0.73
18 3 0.14
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.17
Consensus pattern (16 bp):
AATAAAAAAAATAAAT
Found at i:20800409 original size:27 final size:27
Alignment explanation
Indices: 20800350--20800414 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
20800340 AGAATAGATT
*
20800350 AAGGGAATAAA-AAAAATAAATAATGA
1 AAGGAAATAAATAAAAATAAATAATGA
*
20800376 AAAGAAATAAATAAATAA-AAATAA-GCA
1 AAGGAAATAAATAAA-AATAAATAATG-A
20800403 AAGGAAATAAAT
1 AAGGAAATAAAT
20800415 TGATAAATCA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
26 10 0.30
27 21 0.64
28 2 0.06
ACGTcount: A:0.71, C:0.02, G:0.12, T:0.15
Consensus pattern (27 bp):
AAGGAAATAAATAAAAATAAATAATGA
Found at i:20804450 original size:2 final size:2
Alignment explanation
Indices: 20804443--20804476 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
20804433 TTTACACTTC
20804443 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
20804477 TAAAAAAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:20811682 original size:6 final size:6
Alignment explanation
Indices: 20811671--20811696 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
20811661 AATTGGGAAC
20811671 AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AA
20811697 TAAACAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:20812512 original size:23 final size:23
Alignment explanation
Indices: 20812482--20812537 Score: 112
Period size: 23 Copynumber: 2.4 Consensus size: 23
20812472 CACCAGCCTT
20812482 TACACACCATCTCCGTCCAACCC
1 TACACACCATCTCCGTCCAACCC
20812505 TACACACCATCTCCGTCCAACCC
1 TACACACCATCTCCGTCCAACCC
20812528 TACACACCAT
1 TACACACCAT
20812538 GTGGGGATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.29, C:0.50, G:0.04, T:0.18
Consensus pattern (23 bp):
TACACACCATCTCCGTCCAACCC
Found at i:20820030 original size:14 final size:14
Alignment explanation
Indices: 20820011--20820048 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
20820001 ATTAAGGGTG
20820011 TAAAAATAAATAAA
1 TAAAAATAAATAAA
*
20820025 TAAAAATAAACAAA
1 TAAAAATAAATAAA
*
20820039 T-GAAATAAAT
1 TAAAAATAAAT
20820049 CGATAAACTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (14 bp):
TAAAAATAAATAAA
Found at i:20823533 original size:24 final size:26
Alignment explanation
Indices: 20823490--20823549 Score: 79
Period size: 24 Copynumber: 2.4 Consensus size: 26
20823480 TTTTTTTTCT
**
20823490 TTTTACAATAATTT-GTAAA-AAGAA
1 TTTTACAATAATTTAAAAAATAAGAA
*
20823514 TTTTACAATAATTTAAAAAATAATAA
1 TTTTACAATAATTTAAAAAATAAGAA
20823540 TTTTACAATA
1 TTTTACAATA
20823550 TTTTTAAGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 14 0.45
25 3 0.10
26 14 0.45
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.40
Consensus pattern (26 bp):
TTTTACAATAATTTAAAAAATAAGAA
Found at i:20833076 original size:30 final size:31
Alignment explanation
Indices: 20833022--20833081 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
20833012 AACCTCTCTC
20833022 TATCCACTTTTGATCCACCAACCTCTCTTTA
1 TATCCACTTTTGATCCACCAACCTCTCTTTA
* * *
20833053 TATCTACTTTT-ATCTATCAACCTCTCTTT
1 TATCCACTTTTGATCCACCAACCTCTCTTT
20833082 CTTTGTAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 16 0.62
31 10 0.38
ACGTcount: A:0.22, C:0.32, G:0.02, T:0.45
Consensus pattern (31 bp):
TATCCACTTTTGATCCACCAACCTCTCTTTA
Found at i:20837275 original size:40 final size:40
Alignment explanation
Indices: 20837220--20837295 Score: 152
Period size: 40 Copynumber: 1.9 Consensus size: 40
20837210 GCTCAGCTCG
20837220 AAGGCTCGTTTGAAAATTGAGAGGGTTTGAATAAAAATAT
1 AAGGCTCGTTTGAAAATTGAGAGGGTTTGAATAAAAATAT
20837260 AAGGCTCGTTTGAAAATTGAGAGGGTTTGAATAAAA
1 AAGGCTCGTTTGAAAATTGAGAGGGTTTGAATAAAA
20837296 TAGACCTGAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.39, C:0.05, G:0.26, T:0.29
Consensus pattern (40 bp):
AAGGCTCGTTTGAAAATTGAGAGGGTTTGAATAAAAATAT
Found at i:20838176 original size:16 final size:16
Alignment explanation
Indices: 20838155--20838225 Score: 88
Period size: 16 Copynumber: 4.4 Consensus size: 16
20838145 GTTTGGTTCG
20838155 CTGTAATGGAATAGAA
1 CTGTAATGGAATAGAA
* *
20838171 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAA
* * *
20838187 CTATAATGGAACAGAG
1 CTGTAATGGAATAGAA
*
20838203 GTGTAATGGAATAGAA
1 CTGTAATGGAATAGAA
20838219 CTGTAAT
1 CTGTAAT
20838226 AGTAATTCAA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.41, C:0.07, G:0.25, T:0.27
Consensus pattern (16 bp):
CTGTAATGGAATAGAA
Found at i:20838271 original size:45 final size:44
Alignment explanation
Indices: 20838207--20838299 Score: 143
Period size: 44 Copynumber: 2.1 Consensus size: 44
20838197 ACAGAGGTGT
20838207 AATGGAATAGAACTGTAATAGTAATTCAAT-TGTTTGATTGAATAG
1 AATGGAATAGAACTGTAATAGT-ATTC-ATGTGTTTGATTGAATAG
* *
20838252 AATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAATAG
1 AATGGAATAGAACTGTAATAGTATTCATGTGTTTGATTGAATAG
20838296 AATG
1 AATG
20838300 ATGTTGTAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.49
45 22 0.49
ACGTcount: A:0.37, C:0.04, G:0.23, T:0.37
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCATGTGTTTGATTGAATAG
Found at i:20838515 original size:55 final size:54
Alignment explanation
Indices: 20838406--20838522 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 54
20838396 TATTATTAAT
* *
20838406 ATAAATAATAAATAATTTAATCATATTTGAACATAATTATTATTAAATATAATTTA
1 ATAAA-AATAAATAATTTAATAAAATTTGAACATAATTATTATT-AATATAATTTA
* * * *
20838462 ATAAAAATATATAATTTAATAAAATTCTTAATATAATTATTCTT-ATATGAATTTA
1 ATAAAAATAAATAATTTAATAAAATT-TGAACATAATTATTATTAATAT-AATTTA
*
20838517 CTAAAA
1 ATAAAA
20838523 TCATAATATA
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 4 0.08
55 29 0.56
56 19 0.37
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (54 bp):
ATAAAAATAAATAATTTAATAAAATTTGAACATAATTATTATTAATATAATTTA
Found at i:20841671 original size:25 final size:25
Alignment explanation
Indices: 20841644--20841698 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
20841634 AAAAGAAATG
20841644 AAAGAAAAGATGAAGCTGAGGGCAGA
1 AAAG-AAAGATGAAGCTGAGGGCAGA
***
20841670 AAAGTTTGATGAAGCTGAGGGCAGA
1 AAAGAAAGATGAAGCTGAGGGCAGA
20841695 AAAG
1 AAAG
20841699 TTTCTAACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 22 0.85
26 4 0.15
ACGTcount: A:0.45, C:0.07, G:0.35, T:0.13
Consensus pattern (25 bp):
AAAGAAAGATGAAGCTGAGGGCAGA
Found at i:20841699 original size:25 final size:25
Alignment explanation
Indices: 20841652--20841701 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
20841642 TGAAAGAAAA
20841652 GATGAAGCTGAGGGCAGAAAAGTTT
1 GATGAAGCTGAGGGCAGAAAAGTTT
20841677 GATGAAGCTGAGGGCAGAAAAGTTT
1 GATGAAGCTGAGGGCAGAAAAGTTT
20841702 CTAACTACCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.08, G:0.36, T:0.20
Consensus pattern (25 bp):
GATGAAGCTGAGGGCAGAAAAGTTT
Found at i:20843688 original size:51 final size:51
Alignment explanation
Indices: 20843612--20843713 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 51
20843602 CAACTTAAAC
*
20843612 ACCGAGATGTTCTGTTCTTGGTTTCTTTGTAGGTCTCTTGAATCTTGCTTT
1 ACCGAGATGTTCTGTTCTTGGTTTCTTTGTAGGTCTCTTGAATCTCGCTTT
*
20843663 ACCGAGATGTTCTGTTCTTGGTTTCTTTGTAGGTCTTTTGAATCTCGCTTT
1 ACCGAGATGTTCTGTTCTTGGTTTCTTTGTAGGTCTCTTGAATCTCGCTTT
20843714 CTTTCTTCCA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.49
Consensus pattern (51 bp):
ACCGAGATGTTCTGTTCTTGGTTTCTTTGTAGGTCTCTTGAATCTCGCTTT
Found at i:20844051 original size:21 final size:21
Alignment explanation
Indices: 20843978--20844182 Score: 123
Period size: 21 Copynumber: 9.5 Consensus size: 21
20843968 TGTTACTGAA
20843978 TTTGTTGTTTTAAATCGATTC
1 TTTGTTGTTTTAAATCGATTC
* * *
20843999 TTT-TAT-TCTTTGAATCAATTG
1 TTTGT-TGT-TTTAAATCGATTC
*
20844020 TTTGTTGTTTTAAATTGATTC
1 TTTGTTGTTTTAAATCGATTC
* *
20844041 TTTGCTT-TTTTGAAGCGATTC
1 TTTG-TTGTTTTAAATCGATTC
* * *
20844062 ATGATTTTTGTTTTAAATTGATCC
1 -T--TTGTTGTTTTAAATCGATTC
*
20844086 ATGATTGTTGTTTTAAATCGATTA
1 -T--TTGTTGTTTTAAATCGATTC
* * *
20844110 TTTGCTT-CTTTAAATTGATTTT
1 TTTG-TTGTTTTAAATCGA-TTC
20844132 TTTGTTGTTTTAAATCGATTC
1 TTTGTTGTTTTAAATCGATTC
* * * *
20844153 ATTATT-ATTTGAATCGATTC
1 TTTGTTGTTTTAAATCGATTC
20844173 TTTGTTGTTT
1 TTTGTTGTTT
20844183 AGCTTGATTC
Statistics
Matches: 139, Mismatches: 32, Indels: 26
0.71 0.16 0.13
Matches are distributed among these distances:
20 18 0.13
21 64 0.46
22 22 0.16
23 3 0.02
24 32 0.23
ACGTcount: A:0.21, C:0.08, G:0.14, T:0.57
Consensus pattern (21 bp):
TTTGTTGTTTTAAATCGATTC
Found at i:20847143 original size:29 final size:29
Alignment explanation
Indices: 20847111--20847243 Score: 149
Period size: 29 Copynumber: 4.6 Consensus size: 29
20847101 TCACACGGCT
* *
20847111 GACCACACACCCGTGTGGTGCACATGATC
1 GACCACACGCCCGTGTGGTGCACATGACC
* * * *
20847140 GACCACACGCTCATGTAGTGCACATGACA
1 GACCACACGCCCGTGTGGTGCACATGACC
* * * *
20847169 AACTACATGCCTGTGTGGTGCACATGACC
1 GACCACACGCCCGTGTGGTGCACATGACC
* *
20847198 GACCACACGCCTGTGTGGTGCATATGACC
1 GACCACACGCCCGTGTGGTGCACATGACC
*
20847227 GACCACATGCCCGTGTG
1 GACCACACGCCCGTGTG
20847244 ACGCAGTGTA
Statistics
Matches: 84, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 84 1.00
ACGTcount: A:0.24, C:0.32, G:0.25, T:0.20
Consensus pattern (29 bp):
GACCACACGCCCGTGTGGTGCACATGACC
Found at i:20852158 original size:20 final size:20
Alignment explanation
Indices: 20852135--20852188 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
20852125 AATCTCGAGT
*
20852135 AATTGTTATTAAAATAAGTG
1 AATTGTTATTAAAATAAGTA
*
20852155 AATT-TTACTT--AATTAGTA
1 AATTGTTA-TTAAAATAAGTA
20852173 ATATTGTTATTAAAAT
1 A-ATTGTTATTAAAAT
20852189 TGTGCTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 9
0.71 0.05 0.24
Matches are distributed among these distances:
18 7 0.26
19 8 0.30
20 9 0.33
21 3 0.11
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.46
Consensus pattern (20 bp):
AATTGTTATTAAAATAAGTA
Found at i:20853002 original size:36 final size:36
Alignment explanation
Indices: 20852948--20853017 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
20852938 GAGCACATCA
20852948 GTCAAAATAGATCCGAAAGGTTGCTGAACTGAATTG
1 GTCAAAATAGATCCGAAAGGTTGCTGAACTGAATTG
* ** *
20852984 GTCATAATAGATTTGAAAGGTTGCTGAATTGAAT
1 GTCAAAATAGATCCGAAAGGTTGCTGAACTGAAT
20853018 AGAGTTTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (36 bp):
GTCAAAATAGATCCGAAAGGTTGCTGAACTGAATTG
Found at i:20860140 original size:12 final size:12
Alignment explanation
Indices: 20860123--20860149 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
20860113 GTCTCTTTGC
20860123 AGACTGAATTAT
1 AGACTGAATTAT
20860135 AGACTGAATTAT
1 AGACTGAATTAT
20860147 AGA
1 AGA
20860150 GATGCACATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.07, G:0.19, T:0.30
Consensus pattern (12 bp):
AGACTGAATTAT
Found at i:20861248 original size:22 final size:22
Alignment explanation
Indices: 20861177--20861248 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 22
20861167 TGAATCACGG
* *
20861177 AAATATTTT-TTTTAAAATAGC
1 AAATATTTTAATTTAAAATAGA
* * *
20861198 CAATA-TTTAATTTAAAAAATTA
1 AAATATTTTAATTTAAAATA-GA
*
20861220 AGA-ATTTTAATTTAAAATAGA
1 AAATATTTTAATTTAAAATAGA
20861241 AAATATTT
1 AAATATTT
20861249 GTTGGCACTC
Statistics
Matches: 37, Mismatches: 10, Indels: 7
0.69 0.19 0.13
Matches are distributed among these distances:
20 3 0.08
21 16 0.43
22 18 0.49
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (22 bp):
AAATATTTTAATTTAAAATAGA
Found at i:20863014 original size:122 final size:122
Alignment explanation
Indices: 20862792--20863038 Score: 431
Period size: 122 Copynumber: 2.0 Consensus size: 122
20862782 TCATGCTACC
* * *
20862792 AATGTGGTATGAAAATGCATTGGTCACATACCTGTCGTATGTTTAAGCATTTAGTAAAACTTTAT
1 AATGGGGTATGAAAATGCATTGGTCACATACCTATCGTATGTTTAAGCATTTAGTAAAAATTTAT
* *
20862857 CAAAGCATCCACTAAAACAAAAGGGAAACAATATTGAGATAAATTTCGTTATCCCAA
66 CAAAGCATCCACTAAAACAAAAGGAAAACAATATTGAGACAAATTTCGTTATCCCAA
*
20862914 AATGGGGTATGAAAATGCATTGGTCACGTACCTATCGTATGTTTAAGCATTTAGTAAAAATTTAT
1 AATGGGGTATGAAAATGCATTGGTCACATACCTATCGTATGTTTAAGCATTTAGTAAAAATTTAT
*
20862979 CAAAGCATCCATTAAAACAAAAGGAAAACAATATTGAGACAAATTTCGTTATCCCAA
66 CAAAGCATCCACTAAAACAAAAGGAAAACAATATTGAGACAAATTTCGTTATCCCAA
20863036 AAT
1 AAT
20863039 AATGAAATAG
Statistics
Matches: 118, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
122 118 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (122 bp):
AATGGGGTATGAAAATGCATTGGTCACATACCTATCGTATGTTTAAGCATTTAGTAAAAATTTAT
CAAAGCATCCACTAAAACAAAAGGAAAACAATATTGAGACAAATTTCGTTATCCCAA
Found at i:20864244 original size:27 final size:27
Alignment explanation
Indices: 20864214--20864265 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
20864204 AACCTAGGTG
**
20864214 TAAATTTATTATATATATGATAATAAC
1 TAAATTTAAAATATATATGATAATAAC
*
20864241 TAAATTTAAAATATATATTATAATA
1 TAAATTTAAAATATATATGATAATA
20864266 TGTTTACTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (27 bp):
TAAATTTAAAATATATATGATAATAAC
Found at i:20864387 original size:19 final size:20
Alignment explanation
Indices: 20864360--20864400 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
20864350 ATTAAAAGGA
20864360 AAAGAAAGAAAGAA-AAAGAG
1 AAAGAAAGAAA-AAGAAAGAG
20864380 AAAG-AAGAAAAAGAAAGAG
1 AAAGAAAGAAAAAGAAAGAG
20864399 AA
1 AA
20864401 CCCACAGCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 2 0.10
19 14 0.70
20 4 0.20
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (20 bp):
AAAGAAAGAAAAAGAAAGAG
Found at i:20864400 original size:15 final size:15
Alignment explanation
Indices: 20864359--20864400 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
20864349 AATTAAAAGG
20864359 AAAAGAAAGA-AAGA
1 AAAAGAAAGAGAAGA
20864373 AAAAGAGAA-AGAAGA
1 AAAAGA-AAGAGAAGA
20864388 AAAAGAAAGAGAA
1 AAAAGAAAGAGAA
20864401 CCCACAGCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 9 0.36
15 16 0.64
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
AAAAGAAAGAGAAGA
Found at i:20865137 original size:23 final size:22
Alignment explanation
Indices: 20865110--20865204 Score: 58
Period size: 23 Copynumber: 4.2 Consensus size: 22
20865100 ACTATTGAAT
20865110 TGAAATGAATATATGTGTTAATA
1 TGAAATGAATAT-TGTGTTAATA
*
20865133 TGAAAATTGGATATTG-GTT-ATA
1 TG-AAA-TGAATATTGTGTTAATA
*
20865155 TTG-AATG--TATTGACTATTGAAT-
1 -TGAAATGAATATTG--TGTT-AATA
20865177 TGAAATGAATATATGTGTTAATA
1 TGAAATGAATAT-TGTGTTAATA
20865200 TGAAA
1 TGAAA
20865205 ATTGGATATT
Statistics
Matches: 56, Mismatches: 3, Indels: 26
0.66 0.04 0.31
Matches are distributed among these distances:
18 5 0.09
20 2 0.04
21 6 0.11
22 10 0.18
23 17 0.30
24 8 0.14
25 8 0.14
ACGTcount: A:0.40, C:0.01, G:0.19, T:0.40
Consensus pattern (22 bp):
TGAAATGAATATTGTGTTAATA
Found at i:20865157 original size:67 final size:67
Alignment explanation
Indices: 20865085--20865220 Score: 272
Period size: 67 Copynumber: 2.0 Consensus size: 67
20865075 TGGTAGATAC
20865085 ATATTGAATGTATTGACTATTGAATTGAAATGAATATATGTGTTAATATGAAAATTGGATATTGG
1 ATATTGAATGTATTGACTATTGAATTGAAATGAATATATGTGTTAATATGAAAATTGGATATTGG
20865150 TT
66 TT
20865152 ATATTGAATGTATTGACTATTGAATTGAAATGAATATATGTGTTAATATGAAAATTGGATATTGG
1 ATATTGAATGTATTGACTATTGAATTGAAATGAATATATGTGTTAATATGAAAATTGGATATTGG
20865217 TT
66 TT
20865219 AT
1 AT
20865221 GTCTGAAATG
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 69 1.00
ACGTcount: A:0.38, C:0.01, G:0.19, T:0.42
Consensus pattern (67 bp):
ATATTGAATGTATTGACTATTGAATTGAAATGAATATATGTGTTAATATGAAAATTGGATATTGG
TT
Found at i:20865219 original size:23 final size:23
Alignment explanation
Indices: 20865126--20865219 Score: 60
Period size: 23 Copynumber: 4.2 Consensus size: 23
20865116 GAATATATGT
20865126 GTTAATATGAAAATTGGATATTG
1 GTTAATATGAAAATTGGATATTG
*
20865149 GTT-ATATTGAATGTATT-GACTATT-
1 GTTAATA-TGAA--AATTGGA-TATTG
*
20865173 G--AAT-TG-AAA-TGAATATATG
1 GTTAATATGAAAATTGGATAT-TG
20865192 TGTTAATATGAAAATTGGATATTG
1 -GTTAATATGAAAATTGGATATTG
20865216 GTTA
1 GTTA
20865220 TGTCTGAAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 28
0.62 0.05 0.33
Matches are distributed among these distances:
17 4 0.08
18 3 0.06
20 2 0.04
21 2 0.04
22 6 0.11
23 15 0.28
24 8 0.15
25 13 0.25
ACGTcount: A:0.37, C:0.01, G:0.20, T:0.41
Consensus pattern (23 bp):
GTTAATATGAAAATTGGATATTG
Found at i:20866676 original size:196 final size:198
Alignment explanation
Indices: 20866341--20866735 Score: 760
Period size: 196 Copynumber: 2.0 Consensus size: 198
20866331 TTTTGAGTTG
20866341 TTTAATGCCCGAGCATGTAGGAAATGATAAATTGTTGTTTAAAGCACATTTTAGGTCCACACGGC
1 TTTAATGCCCGAGCATGTAGGAAATGATAAATTGTTGTTTAAAGCACATTTTAGGTCCACACGGC
20866406 TAGGCGTCCGAGGCCATTTCGAAAGGGTACACAACTTGGCACATGGGCGTATGACTTGGCCGTGT
66 TAGGCGTCCGAGGCCATTTCGAAAGGGTACACAACTTGGCACATGGGCGTATGACTTGGCCGTGT
20866471 GACCCAAGTTAGA-GAGTTACATAGGCATAGACACGGGCTGGGACACGGCCGTGTGTCCCTA-TT
131 GACCCAAGTTAGAGGAGTTACATA-GCATAGACACGGGCTGGGACACGGCCGTGTGTCCCTATTT
20866534 CGAA
195 CGAA
20866538 TTTAATGCCCGAGCATGTAGGAAATGATAAATTGTT-TTTAAAGCACATTTTAGGTCCACACGGC
1 TTTAATGCCCGAGCATGTAGGAAATGATAAATTGTTGTTTAAAGCACATTTTAGGTCCACACGGC
20866602 TAGGCGTCCGAGGCCATTTCGAAAGGGTACACAACTTGGCACATGGGCGTATGACTTGGCCGTGT
66 TAGGCGTCCGAGGCCATTTCGAAAGGGTACACAACTTGGCACATGGGCGTATGACTTGGCCGTGT
20866667 GACCCAAGTTAGAGGAGTTACATAGCATAGACACGGGCTGGGACACGGCCGTGTGTCCCTATTTC
131 GACCCAAGTTAGAGGAGTTACATAGCATAGACACGGGCTGGGACACGGCCGTGTGTCCCTATTTC
20866732 GAA
196 GAA
20866735 T
1 T
20866736 GCCCACACGG
Statistics
Matches: 196, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
196 143 0.73
197 53 0.27
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (198 bp):
TTTAATGCCCGAGCATGTAGGAAATGATAAATTGTTGTTTAAAGCACATTTTAGGTCCACACGGC
TAGGCGTCCGAGGCCATTTCGAAAGGGTACACAACTTGGCACATGGGCGTATGACTTGGCCGTGT
GACCCAAGTTAGAGGAGTTACATAGCATAGACACGGGCTGGGACACGGCCGTGTGTCCCTATTTC
GAA
Found at i:20867618 original size:17 final size:18
Alignment explanation
Indices: 20867596--20867632 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
20867586 GTTGAGTTCT
20867596 AATAGCTA-AAGGTATTA
1 AATAGCTATAAGGTATTA
*
20867613 AATAGCTATAAGGTTTTA
1 AATAGCTATAAGGTATTA
20867631 AA
1 AA
20867633 GTGGAAGTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.46, C:0.05, G:0.16, T:0.32
Consensus pattern (18 bp):
AATAGCTATAAGGTATTA
Found at i:20875980 original size:18 final size:18
Alignment explanation
Indices: 20875953--20875987 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20875943 AACACAAACG
*
20875953 AAAAAAAATTGAAAACAT
1 AAAAAAAATTCAAAACAT
*
20875971 AAAAATAATTCAAAACA
1 AAAAAAAATTCAAAACA
20875988 CAATACTTTG
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:0.71, C:0.09, G:0.03, T:0.17
Consensus pattern (18 bp):
AAAAAAAATTCAAAACAT
Found at i:20883507 original size:13 final size:13
Alignment explanation
Indices: 20883483--20883521 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
20883473 ATCTCCTTAC
20883483 ATATA-AGG-TAT
1 ATATATAGGATAT
20883494 ATATATAGGATAT
1 ATATATAGGATAT
20883507 ATATATAGGA-AT
1 ATATATAGGATAT
20883519 ATA
1 ATA
20883522 CTACTTGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 5 0.19
12 8 0.31
13 13 0.50
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.36
Consensus pattern (13 bp):
ATATATAGGATAT
Found at i:20883946 original size:28 final size:30
Alignment explanation
Indices: 20883901--20883956 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
20883891 TTAGTAAATC
*
20883901 TATTTTTATTATT-TTAAATATAAAATATT
1 TATTTTTATTATTATAAAATATAAAATATT
*
20883930 TATTTTTA-TATTATAAAATTTAAAATA
1 TATTTTTATTATTATAAAATATAAAATA
20883957 ATTTTAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (30 bp):
TATTTTTATTATTATAAAATATAAAATATT
Found at i:20884351 original size:16 final size:16
Alignment explanation
Indices: 20884322--20884391 Score: 95
Period size: 16 Copynumber: 4.4 Consensus size: 16
20884312 TTTGGTTCCC
* *
20884322 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
*
20884338 CGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
20884354 TGTAATGGATTAGAGG
1 TGTAATGGAATAGAGG
*
20884370 TGTAATGGAATAGATG
1 TGTAATGGAATAGAGG
20884386 TGTAAT
1 TGTAAT
20884392 AGCAAATCAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.33, C:0.01, G:0.34, T:0.31
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:20884368 original size:32 final size:32
Alignment explanation
Indices: 20884322--20884391 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
20884312 TTTGGTTCCC
*
20884322 TGTATTGGATTAGAGGCGTAATGGAATAGAGG
1 TGTAATGGATTAGAGGCGTAATGGAATAGAGG
* *
20884354 TGTAATGGATTAGAGGTGTAATGGAATAGATG
1 TGTAATGGATTAGAGGCGTAATGGAATAGAGG
20884386 TGTAAT
1 TGTAAT
20884392 AGCAAATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.33, C:0.01, G:0.34, T:0.31
Consensus pattern (32 bp):
TGTAATGGATTAGAGGCGTAATGGAATAGAGG
Found at i:20884639 original size:16 final size:16
Alignment explanation
Indices: 20884602--20884643 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
20884592 TTAATCATAT
*
20884602 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
20884618 TT-AAATATATTATAA
1 TTAAAATATATTATAA
20884633 TTAAAATATAT
1 TTAAAATATAT
20884644 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:20884650 original size:14 final size:15
Alignment explanation
Indices: 20884611--20884652 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
20884601 TTTAAACATA
*
20884611 ATTATTATTAAATAT
1 ATTATAATTAAATAT
20884626 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
20884640 A-TATAATTTAATA
1 ATTATAATTAAATA
20884653 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:20884763 original size:18 final size:17
Alignment explanation
Indices: 20884740--20884776 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
20884730 AATTATTATT
20884740 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
20884756 AAATATATGATTTAATA
1 AAATATATGATTTAATA
20884773 AAAT
1 AAAT
20884777 TCAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:20884848 original size:26 final size:28
Alignment explanation
Indices: 20884819--20884878 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
20884809 ATGAATTTGA
*
20884819 ATAATTTAA-AATAAT-TATTATTACAT
1 ATAATTTAATAATAATATATAATTACAT
*
20884845 ATAATTTAATAATAATATATAATTTCAT
1 ATAATTTAATAATAATATATAATTACAT
*
20884873 AAAATT
1 ATAATT
20884879 CTTGATAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 9 0.31
27 6 0.21
28 14 0.48
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (28 bp):
ATAATTTAATAATAATATATAATTACAT
Found at i:20884888 original size:91 final size:91
Alignment explanation
Indices: 20884793--20885091 Score: 492
Period size: 91 Copynumber: 3.3 Consensus size: 91
20884783 TAATTATAAC
* * *
20884793 TAATAAATTTTCTTATATGAATTTGA-ATAATTTAAAATAATTATTATTACATATAATTTAATAA
1 TAATAAATTTTCTTATATGAATTT-ATACAATTTAAAATAATTAATATTAAATATAATTTAATAA
*
20884857 TAATATATAATTTCATAAAATTCTTGA
65 TGATATATAATTTCATAAAATTCTTGA
* *
20884884 TAATAAATTTGCTTATATGAATTTATACAATTTAAAATTATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
20884949 GATATATAATTTCATAAAATTCTTGA
66 GATATATAATTTCATAAAATTCTTGA
20884975 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
20885040 GATATATAATTTCATAAAATTCTTAA
66 GATATATAATTTCATAAAATTCTTGA
* *
20885066 TTATAAAATGTTCTTATATGAATTTA
1 TAAT-AAATTTTCTTATATGAATTTA
20885092 CTAAAATCAA
Statistics
Matches: 195, Mismatches: 11, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
90 1 0.01
91 174 0.89
92 20 0.10
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
GATATATAATTTCATAAAATTCTTGA
Found at i:20884935 original size:44 final size:44
Alignment explanation
Indices: 20884872--20885026 Score: 134
Period size: 44 Copynumber: 3.5 Consensus size: 44
20884862 TATAATTTCA
* * *
20884872 TAAAATTCTTGATAATAAATTTGCTTATATGAATTTATACAATT
1 TAAAATTATTAATAATAAATTTACTTATATGAATTTATACAATT
* * * * *
20884916 TAAAATTATTAATATTAAATATAATTTAATAATG-ATATATA-ATTT
1 TAAAATTATTAATAATAAAT-TTACTT-AT-ATGAATTTATACAATT
* * *
20884961 CATAAAATTCTTGATAATAAATTTTCTTATATGAATTTATACAATT
1 --TAAAATTATTAATAATAAATTTACTTATATGAATTTATACAATT
* *
20885007 TAAAATAATTAATATTAAAT
1 TAAAATTATTAATAATAAAT
20885027 ATAATTTAAT
Statistics
Matches: 84, Mismatches: 20, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
44 36 0.43
45 14 0.17
46 14 0.17
47 20 0.24
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (44 bp):
TAAAATTATTAATAATAAATTTACTTATATGAATTTATACAATT
Found at i:20898542 original size:34 final size:34
Alignment explanation
Indices: 20898499--20898567 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
20898489 ACTATTAAAG
20898499 TTAGTTTCCAACGATATCAATGATAATTTATTGA
1 TTAGTTTCCAACGATATCAATGATAATTTATTGA
*
20898533 TTAGTTTCCAACGATATCAATGATGATTTATTGA
1 TTAGTTTCCAACGATATCAATGATAATTTATTGA
20898567 T
1 T
20898568 ATCTGATAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (34 bp):
TTAGTTTCCAACGATATCAATGATAATTTATTGA
Found at i:20930296 original size:32 final size:32
Alignment explanation
Indices: 20930245--20930380 Score: 168
Period size: 32 Copynumber: 4.3 Consensus size: 32
20930235 GAATGGCTAC
* * *
20930245 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
*
20930276 AAGCCATCAGTAGTAGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
** * *
20930308 CTGCCATCAGTAATGGTAATATGATTGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
*
20930340 CAA-CCATCAGTAATGGTAATATGATCGGCACA
1 -AAGCCATCAGTAATAGTAATATGATCGGCACA
20930372 AAGCCATCA
1 AAGCCATCA
20930381 ATAGCATCGC
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
31 12 0.13
32 78 0.87
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (32 bp):
AAGCCATCAGTAATAGTAATATGATCGGCACA
Found at i:20930360 original size:64 final size:64
Alignment explanation
Indices: 20930259--20930380 Score: 192
Period size: 64 Copynumber: 1.9 Consensus size: 64
20930249 CATAAGTACA
* **
20930259 GTAATATGATTGGCACAAAGCCATCAGTAGTAGTAATATGATCGGCACACTGCCATCAGTAATG
1 GTAATATGATTGGCACAAAGCCATCAGTAATAGTAATATGATCGGCACAAAGCCATCAGTAATG
*
20930323 GTAATATGATTGGCACACAA-CCATCAGTAATGGTAATATGATCGGCACAAAGCCATCA
1 GTAATATGATTGGCACA-AAGCCATCAGTAATAGTAATATGATCGGCACAAAGCCATCA
20930381 ATAGCATCGC
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
64 51 0.96
65 2 0.04
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (64 bp):
GTAATATGATTGGCACAAAGCCATCAGTAATAGTAATATGATCGGCACAAAGCCATCAGTAATG
Found at i:20930602 original size:24 final size:25
Alignment explanation
Indices: 20930575--20930639 Score: 89
Period size: 24 Copynumber: 2.7 Consensus size: 25
20930565 ACAAATCACA
* *
20930575 GACAAATCAGTCATTTACATC-TCG
1 GACAAATCAATCATTTACATCATAG
*
20930599 GACAAATCATTCATTTACATCATAG
1 GACAAATCAATCATTTACATCATAG
20930624 G-CAAATCAATCATTTA
1 GACAAATCAATCATTTA
20930640 ACCACGAGGG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 34 0.92
25 3 0.08
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (25 bp):
GACAAATCAATCATTTACATCATAG
Found at i:20930688 original size:27 final size:27
Alignment explanation
Indices: 20930658--20930885 Score: 267
Period size: 27 Copynumber: 8.4 Consensus size: 27
20930648 GGGCAAAATA
* *
20930658 GTCACTTTACCCTACAGGGGCATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
20930685 GTCATTTCACCCTACAGGGGCAATACG
1 GTCATTTTACCCTACAGGGGCATTACG
** * *
20930712 ACCATTTTACCCTATAGGGGCAATACG
1 GTCATTTTACCCTACAGGGGCATTACG
** * *
20930739 ACCATTTTACCCTATAGGGGCATTATG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
20930766 GTCATTTTACCCTACAAGGGCATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
* *
20930793 GTCATTTTACCCTATAGGTGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
20930820 GTCATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
20930847 GTTATTTTACCTTACAGGGGCATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
*
20930874 GTCATCTTACCC
1 GTCATTTTACCC
20930886 ATCGAGGGTA
Statistics
Matches: 173, Mismatches: 28, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 173 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:20930906 original size:54 final size:54
Alignment explanation
Indices: 20930664--20930913 Score: 191
Period size: 54 Copynumber: 4.6 Consensus size: 54
20930654 AATAGTCACT
* * * * * * * * *
20930664 TTACCCTACAGGGGCATTATGGTCATTTCACCCTACAGGGGCAATAC-GACCATT
1 TTACCCTATAGGGGCATTACGATTATTTTACCTTACAGGGGCATTACAG-TCATC
* ** * * ** *
20930718 TTACCCTATAGGGGCAATACGACCATTTTACCCTATAGGGGCATTATGGTCATT
1 TTACCCTATAGGGGCATTACGATTATTTTACCTTACAGGGGCATTACAGTCATC
* * * * * * * *
20930772 TTACCCTACAAGGGCATTAC-AGTCATTTTACCCTATAGGTGCATTACGGTCATT
1 TTACCCTATAGGGGCATTACGA-TTATTTTACCTTACAGGGGCATTACAGTCATC
*
20930826 TTACCCTATAGGGGCATTACGGTTATTTTACCTTACAGGGGCATTACAGTCATC
1 TTACCCTATAGGGGCATTACGATTATTTTACCTTACAGGGGCATTACAGTCATC
* * *
20930880 TTACCC-ATCGAGGGTATTTCGATTATTTTACCTT
1 TTACCCTATAG-GGGCATTACGATTATTTTACCTT
20930914 TCGGGGTATT
Statistics
Matches: 163, Mismatches: 29, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
53 4 0.02
54 158 0.97
55 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.33
Consensus pattern (54 bp):
TTACCCTATAGGGGCATTACGATTATTTTACCTTACAGGGGCATTACAGTCATC
Done.