Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 198 of 255
Found at i:65961670 original size:40 final size:40
Alignment explanation
Indices: 65961566--65961789 Score: 237
Period size: 40 Copynumber: 5.7 Consensus size: 40
65961556 GCACCTAGTT
*
65961566 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
65961606 C-AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
65961645 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * *
65961685 CAAATGCCTTC-GGATCTTAGTCCGGATAT-GCATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
65961724 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
65961765 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
65961790 CATCATTCAA
Statistics
Matches: 166, Mismatches: 12, Indels: 12
0.87 0.06 0.06
Matches are distributed among these distances:
39 75 0.45
40 80 0.48
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:65961677 original size:79 final size:78
Alignment explanation
Indices: 65961566--65961789 Score: 256
Period size: 79 Copynumber: 2.8 Consensus size: 78
65961556 GCACCTAGTT
* * *
65961566 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCACAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCACAATGCCTTCGGGACTTAGCCCG
* *
65961629 GATTTAGTAACTCGCA
64 GATAT-GCAACTCGCA
* *
65961645 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCAC-AATGCCTTCGGGA-CTTAGCCCG
*
65961709 GATATGCATCTCGCA
64 GATATGCAACTCGCA
* * * * *
65961724 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAAC-TCGCACAATGCCTTCGGGACTTAGCCCGG
65961789 A
65 A
65961790 CATCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.02
79 91 0.73
80 30 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACAATGCCTTCGGGACTTAGCCCGGA
TATGCAACTCGCA
Found at i:65969683 original size:80 final size:80
Alignment explanation
Indices: 65969569--65969793 Score: 278
Period size: 80 Copynumber: 2.8 Consensus size: 80
65969559 GCTCCTCGTT
* *
65969569 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCG
*
65969633 GATTTAGTAACTCGCA
65 GAATTAGTAACTCGCA
* *
65969649 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* *
65969713 AATTAGTATCTCGTA
66 AATTAGTAACTCGCA
* * * * * *
65969728 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCATAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCC
65969791 GGA
64 GGA
65969794 CACCATTCAA
Statistics
Matches: 126, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
78 3 0.02
79 56 0.44
80 65 0.52
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGTAACTCGCA
Found at i:65969777 original size:119 final size:120
Alignment explanation
Indices: 65969571--65969793 Score: 283
Period size: 119 Copynumber: 1.9 Consensus size: 120
65969561 TCCTCGTTCA
*
65969571 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
65969636 TTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * * **
65969691 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGTACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * * *
65969753 ATATGGTCACTTAGCATAAA-GCCTTCGGGACTTAGCCCGGA
64 ATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAACCCGGA
65969794 CACCATTCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 4 0.05
119 65 0.74
120 19 0.22
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:65969793 original size:40 final size:39
Alignment explanation
Indices: 65969569--65969793 Score: 231
Period size: 40 Copynumber: 5.6 Consensus size: 39
65969559 GCTCCTCGTT
* *
65969569 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAA-GCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
65969609 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAA-GCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
65969649 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAA-GCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
65969689 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGTA
1 -CAAAGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
65969728 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAA-GCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
*
65969769 TAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
65969794 CACCATTCAA
Statistics
Matches: 159, Mismatches: 18, Indels: 16
0.82 0.09 0.08
Matches are distributed among these distances:
38 5 0.03
39 26 0.16
40 115 0.72
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAAGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:65982968 original size:73 final size:69
Alignment explanation
Indices: 65982886--65983031 Score: 193
Period size: 69 Copynumber: 2.1 Consensus size: 69
65982876 TCACCAGATA
* * * *
65982886 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATACGTGGCGAAGCCACCAGATTGCAGC
1 CAGATATTGTGACGAAGCCACCAGAACAG--ATATATATA--TGGCGAAGCCACCAGATTGCAAC
65982951 GAGGCTGC
62 GAGGCTGC
* * *
65982959 CAGATATTGTGACGAAGTCACTAGAACAGATATATATATGGCGAGGCCACCAGATTGCAACGAGG
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATATATGGCGAAGCCACCAGATTGCAACGAGG
65983024 CTGC
66 CTGC
65983028 CAGA
1 CAGA
65983032 ACTCTTCTTC
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
69 33 0.50
71 9 0.14
73 24 0.36
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.19
Consensus pattern (69 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATATATGGCGAAGCCACCAGATTGCAACGAGG
CTGC
Found at i:65985700 original size:22 final size:21
Alignment explanation
Indices: 65985646--65985700 Score: 51
Period size: 22 Copynumber: 2.6 Consensus size: 21
65985636 TATTGACCTT
65985646 TTTTA-GTTTTTTTTTAAAGA
1 TTTTATGTTTTTTTTTAAAGA
* * *
65985666 TTGTAT-TAATTTTTTTGAATGA
1 TTTTATGT--TTTTTTTTAAAGA
65985688 TTTTATGTTTTTT
1 TTTTATGTTTTTT
65985701 AGGAGTAAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 7
0.71 0.11 0.18
Matches are distributed among these distances:
20 5 0.19
21 5 0.19
22 16 0.59
23 1 0.04
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.67
Consensus pattern (21 bp):
TTTTATGTTTTTTTTTAAAGA
Found at i:65987890 original size:59 final size:59
Alignment explanation
Indices: 65987818--65987935 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
65987808 AACACATGTT
65987818 ATGGACACCCTTTAACTATTGTATAATTTTTTCTTTAGTTCTAGTCTTTAGTATGGTCA
1 ATGGACACCCTTTAACTATTGTATAATTTTTTCTTTAGTTCTAGTCTTTAGTATGGTCA
65987877 ATGGACACCCTTTAACTATTGTATAATTTTTTCTTTAGTTCTAGTCTTTAGTATGGTCA
1 ATGGACACCCTTTAACTATTGTATAATTTTTTCTTTAGTTCTAGTCTTTAGTATGGTCA
65987936 TTCTCGCAAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.24, C:0.15, G:0.14, T:0.47
Consensus pattern (59 bp):
ATGGACACCCTTTAACTATTGTATAATTTTTTCTTTAGTTCTAGTCTTTAGTATGGTCA
Found at i:65991603 original size:9 final size:9
Alignment explanation
Indices: 65991589--65991622 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
65991579 GTAAAAAGAA
65991589 ATTTTGTGT
1 ATTTTGTGT
65991598 ATTTTGTGT
1 ATTTTGTGT
*
65991607 ATTTT-TTT
1 ATTTTGTGT
65991615 ATTTTGTG
1 ATTTTGTG
65991623 AATTAAGGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.12, C:0.00, G:0.18, T:0.71
Consensus pattern (9 bp):
ATTTTGTGT
Found at i:65992087 original size:44 final size:42
Alignment explanation
Indices: 65992034--65992133 Score: 112
Period size: 44 Copynumber: 2.3 Consensus size: 42
65992024 CGATATGTGT
** *
65992034 TTTCGTGTAAGACCACATCTGGGACATTGGCATTG-ACTTTTGA
1 TTTCGTGTAAGACCACATCTGGGACATCAGCATTGTA--ATTGA
* **
65992077 TTTACGTGTAAAACCATGTCTGGGACATCAGCATTGTAATTGA
1 TTT-CGTGTAAGACCACATCTGGGACATCAGCATTGTAATTGA
65992120 TTTCGTGTAAGACC
1 TTTCGTGTAAGACC
65992134 CTGTTTGGGA
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
42 10 0.21
43 10 0.21
44 27 0.56
45 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (42 bp):
TTTCGTGTAAGACCACATCTGGGACATCAGCATTGTAATTGA
Found at i:65994014 original size:33 final size:33
Alignment explanation
Indices: 65993977--65994039 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
65993967 CAAAGTCACT
65993977 CCTATTCTGTTGTTTGACAGATTCAACCTTACC
1 CCTATTCTGTTGTTTGACAGATTCAACCTTACC
*
65994010 CCTATTCTGTTGTTTGACGGATTCAACCTT
1 CCTATTCTGTTGTTTGACAGATTCAACCTT
65994040 TCTTTACTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.19, C:0.25, G:0.14, T:0.41
Consensus pattern (33 bp):
CCTATTCTGTTGTTTGACAGATTCAACCTTACC
Found at i:65995106 original size:45 final size:45
Alignment explanation
Indices: 65995001--65995355 Score: 245
Period size: 45 Copynumber: 8.0 Consensus size: 45
65994991 CATCCATTAT
* * * * * * *
65995001 GAACTTAGACCGACTCAACAAGCTTGAATGC-TCGCATCA-ATAAT
1 GAACTTGGACCAACTCAACGAGCTCGAATGCTTCACAT-ATATCAC
* * *
65995045 GAACTTGGACCAACTCAATGAGCTTGAATGCTTCAAATATATCAC
1 GAACTTGGACCAACTCAACGAGCTCGAATGCTTCACATATATCAC
* * * * * *
65995090 AAACTTGGACCAACTCAACAAGTTCAAAT-TTATTACATATATCAC
1 GAACTTGGACCAACTCAACGAGCTCGAATGCT-TCACATATATCAC
* * * ** * *
65995135 GAACTCGGACCAACTCAACGAGCTCGAATTC-TCGCATCCATAAT
1 GAACTTGGACCAACTCAACGAGCTCGAATGCTTCACATATATCAC
* * * *
65995179 GAACTCGGACTAACTCAATGAGCTCGGATGCTTCACATATATCAC
1 GAACTTGGACCAACTCAACGAGCTCGAATGCTTCACATATATCAC
* * * * *
65995224 GAACTTGGACCAACTCAACAAGTTCAGATTTC-TCACATATATCAT
1 GAACTTGGACCAACTCAACGAGCTC-GAATGCTTCACATATATCAC
** ** * * ** * *
65995269 GAACTCAGACCAACTCAATAAGCTCGGATGC-TCGCATCCATAAT
1 GAACTTGGACCAACTCAACGAGCTCGAATGCTTCACATATATCAC
* *
65995313 GAACTCGGACCAACTCAACGAGCTCGGATGCTTCACATATATC
1 GAACTTGGACCAACTCAACGAGCTCGAATGCTTCACATATATC
65995356 CAAACATTAA
Statistics
Matches: 239, Mismatches: 65, Indels: 13
0.75 0.21 0.04
Matches are distributed among these distances:
44 103 0.43
45 133 0.56
46 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (45 bp):
GAACTTGGACCAACTCAACGAGCTCGAATGCTTCACATATATCAC
Found at i:65995241 original size:134 final size:134
Alignment explanation
Indices: 65995001--65995360 Score: 533
Period size: 134 Copynumber: 2.7 Consensus size: 134
65994991 CATCCATTAT
* * * * *
65995001 GAACTTAGACCGACTCAACAAGCTTGAATGCTCGCATCAATAATGAACTTGGACCAACTCAATGA
1 GAACTCAGACCAACTCAACAAGCTCGAATGCTCGCATCCATAATGAACTCGGACCAACTCAATGA
* * * *
65995066 GCTTGAATGCTTCAAATATATCACAAACTTGGACCAACTCAACAAGTTCAAATTTATTACATATA
66 GCTCGGATGCTTCACATATATCACAAACTTGGACCAACTCAACAAGTTCAAATTTATCACATATA
65995131 TCAC
131 TCAC
* * * *
65995135 GAACTCGGACCAACTCAACGAGCTCGAATTCTCGCATCCATAATGAACTCGGACTAACTCAATGA
1 GAACTCAGACCAACTCAACAAGCTCGAATGCTCGCATCCATAATGAACTCGGACCAACTCAATGA
* * *
65995200 GCTCGGATGCTTCACATATATCACGAACTTGGACCAACTCAACAAGTTCAGATTTCTCACATATA
66 GCTCGGATGCTTCACATATATCACAAACTTGGACCAACTCAACAAGTTCAAATTTATCACATATA
*
65995265 TCAT
131 TCAC
* * *
65995269 GAACTCAGACCAACTCAATAAGCTCGGATGCTCGCATCCATAATGAACTCGGACCAACTCAACGA
1 GAACTCAGACCAACTCAACAAGCTCGAATGCTCGCATCCATAATGAACTCGGACCAACTCAATGA
65995334 GCTCGGATGCTTCACATATATC-CAAAC
66 GCTCGGATGCTTCACATATATCACAAAC
65995361 ATTAAAAACA
Statistics
Matches: 201, Mismatches: 25, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
133 4 0.02
134 197 0.98
ACGTcount: A:0.35, C:0.27, G:0.14, T:0.24
Consensus pattern (134 bp):
GAACTCAGACCAACTCAACAAGCTCGAATGCTCGCATCCATAATGAACTCGGACCAACTCAATGA
GCTCGGATGCTTCACATATATCACAAACTTGGACCAACTCAACAAGTTCAAATTTATCACATATA
TCAC
Found at i:65995354 original size:89 final size:89
Alignment explanation
Indices: 65994999--65995355 Score: 279
Period size: 89 Copynumber: 4.0 Consensus size: 89
65994989 CGCATCCATT
* * * * * *
65994999 ATGAACTTAGACCGACTCAACAAGCTTGAATGCTCGCATCA-ATAATGAACTTGGACCAACTCAA
1 ATGAACTCAGACCAACTCAACAAGCTCGAATGCTCACAT-ATATAACGAACTCGGACCAACTCAA
* * *
65995063 TGAGCTTGAATGCTTCAAATATATC
65 CGAGCTCGAATGCTTCACATATATC
** ** * * ** * *
65995088 ACAAACTTGGACCAACTCAACAAGTTCAAATTTATTACATATATCACGAACTCGGACCAACTCAA
1 ATGAACTCAGACCAACTCAACAAGCTCGAA-TGCTCACATATATAACGAACTCGGACCAACTCAA
* * ** *
65995153 CGAGCTCGAATTC-TCGCATCCATA
65 CGAGCTCGAATGCTTCACATATATC
* * ** * * *
65995177 ATGAACTCGGACTAACTCAATGAGCTCGGATGCTTCACATATATCACGAACTTGGACCAACTCAA
1 ATGAACTCAGACCAACTCAACAAGCTCGAATGC-TCACATATATAACGAACTCGGACCAACTCAA
* * * *
65995242 CAAGTTCAGATTTC-TCACATATATC
65 CGAGCTC-GAATGCTTCACATATATC
* * * ** *
65995267 ATGAACTCAGACCAACTCAATAAGCTCGGATGCTCGCATCCATAATGAACTCGGACCAACTCAAC
1 ATGAACTCAGACCAACTCAACAAGCTCGAATGCTCACATATATAACGAACTCGGACCAACTCAAC
*
65995332 GAGCTCGGATGCTTCACATATATC
66 GAGCTCGAATGCTTCACATATATC
65995356 CAAACATTAA
Statistics
Matches: 207, Mismatches: 56, Indels: 10
0.76 0.21 0.04
Matches are distributed among these distances:
88 4 0.02
89 126 0.61
90 77 0.37
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (89 bp):
ATGAACTCAGACCAACTCAACAAGCTCGAATGCTCACATATATAACGAACTCGGACCAACTCAAC
GAGCTCGAATGCTTCACATATATC
Found at i:65996017 original size:20 final size:20
Alignment explanation
Indices: 65995992--65996030 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
65995982 CACAATTCAA
65995992 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
65996012 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
65996031 AATAATCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:66007223 original size:19 final size:19
Alignment explanation
Indices: 66007199--66007236 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
66007189 TTGTAATTTA
*
66007199 AATTTTTATTTTCTTTTCT
1 AATTTTTATTTTATTTTCT
*
66007218 AATTTTTCTTTTATTTTCT
1 AATTTTTATTTTATTTTCT
66007237 TCTGACAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.74
Consensus pattern (19 bp):
AATTTTTATTTTATTTTCT
Found at i:66014917 original size:15 final size:15
Alignment explanation
Indices: 66014897--66014927 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
66014887 TTAGATTTGG
66014897 TGAATTTGATGCTCC
1 TGAATTTGATGCTCC
66014912 TGAATTTGATGCTCC
1 TGAATTTGATGCTCC
66014927 T
1 T
66014928 AATCCTTTAA
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:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (15 bp):
TGAATTTGATGCTCC
Found at i:66019183 original size:50 final size:50
Alignment explanation
Indices: 66019108--66019223 Score: 196
Period size: 50 Copynumber: 2.3 Consensus size: 50
66019098 CTAAGCTAAA
* *
66019108 TGATCTTGTATATTCGGCCATATAGGTATGTACATATTTGATGTTATATT
1 TGATCTTGTATATTCGGCCATATAGGTATGTACATATGTGATCTTATATT
*
66019158 TGATCTTGTATATTCGGTCATATAGGTATGTACATATGTGATCTTATATT
1 TGATCTTGTATATTCGGCCATATAGGTATGTACATATGTGATCTTATATT
*
66019208 GGATCTTGTATATTCG
1 TGATCTTGTATATTCG
66019224 ACCAGATGAG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 62 1.00
ACGTcount: A:0.25, C:0.10, G:0.19, T:0.46
Consensus pattern (50 bp):
TGATCTTGTATATTCGGCCATATAGGTATGTACATATGTGATCTTATATT
Found at i:66022126 original size:46 final size:46
Alignment explanation
Indices: 66022073--66022248 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
66022063 CGGTTGAGCA
* *
66022073 TCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
66022119 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
66022166 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
66022212 CCCGAGCTCATTGATTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
66022249 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.57
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:66022231 original size:93 final size:93
Alignment explanation
Indices: 66022070--66022241 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
66022060 GGACGGTTGA
* * *
66022070 GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
*
66022135 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
66022163 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGATT
1 GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
66022228 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
66022242 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:66029692 original size:46 final size:46
Alignment explanation
Indices: 66029639--66029814 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
66029629 CGGTTGAGCA
*
66029639 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
66029685 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
*
66029732 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
66029778 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
66029815 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 63 0.58
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:66029795 original size:93 final size:93
Alignment explanation
Indices: 66029636--66029807 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
66029626 GGACGGTTGA
* * *
66029636 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
66029701 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
66029729 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
66029794 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
66029808 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:66038226 original size:5 final size:5
Alignment explanation
Indices: 66038216--66038244 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
66038206 ATGCTCGTGA
66038216 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
66038245 ATAACAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:66039963 original size:17 final size:17
Alignment explanation
Indices: 66039930--66039972 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
66039920 TAAGTTAACT
*
66039930 AATGAATTGATTATTTA
1 AATGAATTGAATATTTA
*
66039947 AATGAATTGAA-ATTTT
1 AATGAATTGAATATTTA
*
66039963 AATTAATTGA
1 AATGAATTGA
66039973 CACGATACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (17 bp):
AATGAATTGAATATTTA
Found at i:66044393 original size:196 final size:196
Alignment explanation
Indices: 66044065--66044442 Score: 530
Period size: 196 Copynumber: 1.9 Consensus size: 196
66044055 ACAACCCGGT
* * * *
66044065 TTAGACCTTAGTCGGAACAGTGGTTTCGGGACCACAAATTTGAGTCAGAAAAATATTTTAATATT
1 TTAGACCCTAGTCAGAACAGTGGTTTCGAGACCAAAAATTTGAGTCAGAAAAATATTTTAATATT
* * * * *
66044130 ATATTCCATGCTTAAAGTATGTGAATTGATATGTGTGAAAGTTTCGTATGAAAATCTTATCGTTT
66 ATATTCCATGCCTAAAGTATGTGAATTGACATGTGTGAAAGTTTCGTATAAAAATCTAAACGTTT
*
66044195 GTGTGCTCAATTTG-TAAAAAGGACTTAATCACGTAAAATGCAAAAGTGACTTTGTAACAGTCAG
131 GTGTGCTCAATTTGAT-AAAAGGACCTAATCACGTAAAATGCAAAAGTGACTTTGTAACAGTCAG
66044259 GG
195 GG
* *
66044261 TTAGACCCTAGTCAGAATAGTGGTTTCGAGACCAAAAATTTGAGTTAGAAAAATATTTTAATATT
1 TTAGACCCTAGTCAGAACAGTGGTTTCGAGACCAAAAATTTGAGTCAGAAAAATATTTTAATATT
* * **
66044326 ATTTTCCGTGCCTATAA-TATGTGAATT-AGCATGTGTGAATTTTTCGTATAAAAAT-TAAACTG
66 ATATTCCATGCCTA-AAGTATGTGAATTGA-CATGTGTGAAAGTTTCGTATAAAAATCTAAAC-G
* *
66044388 TTTGTGTGCTCAATTTGATAAAAGGACCTAATCGCGTAAAATGTAAAAGTGACTT
128 TTTGTGTGCTCAATTTGATAAAAGGACCTAATCACGTAAAATGCAAAAGTGACTT
66044443 GCTATTTGTT
Statistics
Matches: 160, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
195 4 0.03
196 153 0.96
197 3 0.02
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.35
Consensus pattern (196 bp):
TTAGACCCTAGTCAGAACAGTGGTTTCGAGACCAAAAATTTGAGTCAGAAAAATATTTTAATATT
ATATTCCATGCCTAAAGTATGTGAATTGACATGTGTGAAAGTTTCGTATAAAAATCTAAACGTTT
GTGTGCTCAATTTGATAAAAGGACCTAATCACGTAAAATGCAAAAGTGACTTTGTAACAGTCAGG
G
Found at i:66045631 original size:43 final size:44
Alignment explanation
Indices: 66045486--66045642 Score: 207
Period size: 43 Copynumber: 3.6 Consensus size: 44
66045476 TGTGTTTTCT
*
66045486 TGTAAGACCACATCTGGGACATTGGCATCGA-ATTATGATTTACG
1 TGTAAGACCACATCTGGGACGTTGGCATCGATATT-TGATTTACG
*
66045530 TGTAAGACCACATCTAGGACGTTGGCATCG-TATTTGATTT-CG
1 TGTAAGACCACATCTGGGACGTTGGCATCGATATTTGATTTACG
** *
66045572 TGTAAGACCTTATCTGGGACAG-TGGCATCGATATTTG-TTTACA
1 TGTAAGACCACATCTGGGAC-GTTGGCATCGATATTTGATTTACG
*
66045615 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACATCTGGGACGTTGGCAT
66045643 TGTACGAGCT
Statistics
Matches: 99, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
42 31 0.31
43 37 0.37
44 31 0.31
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (44 bp):
TGTAAGACCACATCTGGGACGTTGGCATCGATATTTGATTTACG
Found at i:66045642 original size:85 final size:86
Alignment explanation
Indices: 66045481--66045642 Score: 238
Period size: 86 Copynumber: 1.9 Consensus size: 86
66045471 CAATATGTGT
* * *
66045481 TTTCTTGTAAGACCACATCTGGGACATTGGCATCGAATTATGATTTACGTGTAAGACCACATCTA
1 TTTCGTGTAAGACCACATCTGGGACAGTGGCATCGAATTATGATTTACATGTAAGACCACATCTA
66045546 GGACGTTGGCATCGTATTTGA
66 GGACGTTGGCATCGTATTTGA
** *
66045567 TTTCGTGTAAGACCTTATCTGGGACAGTGGCATCGATATT-TG-TTTACATGTAAGACCACGTCT
1 TTTCGTGTAAGACCACATCTGGGACAGTGGCATCGA-ATTATGATTTACATGTAAGACCACATCT
*
66045630 GGGACGTTGGCAT
65 AGGACGTTGGCAT
66045643 TGTACGAGCT
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
85 31 0.46
86 34 0.50
87 3 0.04
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.33
Consensus pattern (86 bp):
TTTCGTGTAAGACCACATCTGGGACAGTGGCATCGAATTATGATTTACATGTAAGACCACATCTA
GGACGTTGGCATCGTATTTGA
Found at i:66048168 original size:40 final size:40
Alignment explanation
Indices: 66048101--66048413 Score: 538
Period size: 40 Copynumber: 7.8 Consensus size: 40
66048091 ATTACCACAA
* * * ** *
66048101 GCACAATTGCCTTTGGGTCTTAACCCGGGCATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
66048141 GCACGAATGCCTTCGGGCCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
66048181 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
66048221 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
66048261 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
66048301 GCACAAA-GCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
66048340 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
66048380 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAT
66048414 TCAAATGCTC
Statistics
Matches: 260, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
39 39 0.15
40 221 0.85
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:66048364 original size:119 final size:120
Alignment explanation
Indices: 66048101--66048413 Score: 538
Period size: 119 Copynumber: 2.6 Consensus size: 120
66048091 ATTACCACAA
* * * ** * * *
66048101 GCACAATTGCCTTTGGGTCTTAACCCGGGCATAGCAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
*
66048166 CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAATTC
66 CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
66048221 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
66048286 CGGATATATCAACTCGCACAAA-GCCTTCGGGTCTTAGCCCGGATATATCAACTC
66 CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
66048340 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
66048405 CGGATATAT
66 CGGATATAT
66048414 TCAAATGCTC
Statistics
Matches: 184, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
119 105 0.57
120 79 0.43
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (120 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
CGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:66057596 original size:39 final size:39
Alignment explanation
Indices: 66057455--66057583 Score: 174
Period size: 39 Copynumber: 3.3 Consensus size: 39
66057445 TAGTACTCAT
* *
66057455 ACAATGCCTTCGGGACTTAACCCGGATTTAA-AACTCGC
1 ACAAAGCCTTCGGGACTTAACCCGGAATTAATAACTCGC
* * *
66057493 ACGAATGCCTTCGGGAC-TAACCCGGAATTAGTATCTCGC
1 AC-AAAGCCTTCGGGACTTAACCCGGAATTAATAACTCGC
66057532 -CAAAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGC
1 ACAAA-GCCTTCGGGACTTAACCCGGAATTAATAACTCGC
66057571 ACAAAGCCTTCGG
1 ACAAAGCCTTCGG
66057584 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 6, Indels: 9
0.84 0.06 0.09
Matches are distributed among these distances:
37 2 0.03
38 26 0.32
39 48 0.60
40 4 0.05
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (39 bp):
ACAAAGCCTTCGGGACTTAACCCGGAATTAATAACTCGC
Found at i:66072498 original size:46 final size:46
Alignment explanation
Indices: 66072431--66072652 Score: 227
Period size: 46 Copynumber: 4.8 Consensus size: 46
66072421 TATTTGGGCA
*
66072431 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
66072477 TCCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
66072524 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
66072570 TCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
66072615 ACCCAAGCTCATTGAGTTGAGTCCAAGTTCGCTTATGG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
66072653 GCAGGTTACA
Statistics
Matches: 145, Mismatches: 23, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
43 6 0.04
45 6 0.04
46 98 0.68
47 28 0.19
48 3 0.02
50 4 0.03
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:66072586 original size:93 final size:93
Alignment explanation
Indices: 66072427--66072598 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
66072417 CAGATATTTG
* *
66072427 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGTCCGAACTCGTTGAG
66072492 TTGAGTCCAAGTTCGTGAGATGTAACTA
66 TTGAGTCCAAGTTCGTGAGATGTAACTA
* * *
66072520 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGTCCGAACTCGTTGAG
*
66072585 TTGAGTCCGAGTTC
66 TTGAGTCCAAGTTC
66072599 ACTTATGGAT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACAAACGTCCGAACTCGTTGAG
TTGAGTCCAAGTTCGTGAGATGTAACTA
Found at i:66074259 original size:21 final size:21
Alignment explanation
Indices: 66074235--66074286 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
66074225 AAGCCTTAGT
66074235 ATAACCATCTAAAGTAGCCCA
1 ATAACCATCTAAAGTAGCCCA
*
66074256 ATAATCATCTAAAGTAGCCCA
1 ATAACCATCTAAAGTAGCCCA
* *
66074277 CTAACTATCT
1 ATAACCATCT
66074287 TCAGTATATC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (21 bp):
ATAACCATCTAAAGTAGCCCA
Found at i:66075727 original size:29 final size:29
Alignment explanation
Indices: 66075663--66075758 Score: 115
Period size: 29 Copynumber: 3.3 Consensus size: 29
66075653 AAGTCTACAT
* * **
66075663 ACATGCATATGGCCCACTAAG-CTTAATC
1 ACATTCATATGGCCCATTAAGCCCAAATC
*
66075691 TCATTCATATGGCCCATT-AGACCCAAATC
1 ACATTCATATGGCCCATTAAG-CCCAAATC
*
66075720 ACATTCATACGGCCCATTAAGCCCAAATC
1 ACATTCATATGGCCCATTAAGCCCAAATC
66075749 ACATTCATAT
1 ACATTCATAT
66075759 ACATATTTTC
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
27 2 0.04
28 15 0.26
29 38 0.67
30 2 0.04
ACGTcount: A:0.33, C:0.30, G:0.10, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAAGCCCAAATC
Found at i:66083130 original size:17 final size:17
Alignment explanation
Indices: 66083108--66083144 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
66083098 GGACTCACAG
*
66083108 TTTCATTACTAAAGTTA
1 TTTCATTACTAAAATTA
66083125 TTTCATTACTAAAATTA
1 TTTCATTACTAAAATTA
66083142 TTT
1 TTT
66083145 TTAGATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.35, C:0.11, G:0.03, T:0.51
Consensus pattern (17 bp):
TTTCATTACTAAAATTA
Found at i:66083379 original size:28 final size:28
Alignment explanation
Indices: 66083339--66083395 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
66083329 TTAACATCTT
66083339 ATCATTGGTACAATCTAGTTATAGGAAA
1 ATCATTGGTACAATCTAGTTATAGGAAA
66083367 ATCATTGGTACAATCTAGTTATAGGAAA
1 ATCATTGGTACAATCTAGTTATAGGAAA
66083395 A
1 A
66083396 GTTGATGGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.32
Consensus pattern (28 bp):
ATCATTGGTACAATCTAGTTATAGGAAA
Found at i:66088679 original size:26 final size:26
Alignment explanation
Indices: 66088650--66088701 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
66088640 CAAGAGATTG
66088650 ATTAATTTAATAAGTATGTATGAGCA
1 ATTAATTTAATAAGTATGTATGAGCA
66088676 ATTAATTTAATAAGTATGTATGAGCA
1 ATTAATTTAATAAGTATGTATGAGCA
66088702 GTAGTTAGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.04, G:0.15, T:0.38
Consensus pattern (26 bp):
ATTAATTTAATAAGTATGTATGAGCA
Found at i:66095726 original size:3 final size:3
Alignment explanation
Indices: 66095713--66095741 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
66095703 CTTTTTCTTC
66095713 ATT ATT A-T ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
66095742 TAAGAGTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:66101654 original size:20 final size:20
Alignment explanation
Indices: 66101631--66101668 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
66101621 GTGGGGGTTA
66101631 ACACACCCATGTGAAAGGGC
1 ACACACCCATGTGAAAGGGC
* *
66101651 ACACGCCCGTGTGAAAGG
1 ACACACCCATGTGAAAGG
66101669 AGGCATGCGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.29, G:0.29, T:0.11
Consensus pattern (20 bp):
ACACACCCATGTGAAAGGGC
Found at i:66104706 original size:50 final size:50
Alignment explanation
Indices: 66104652--66104899 Score: 259
Period size: 50 Copynumber: 5.0 Consensus size: 50
66104642 TAAGATGGTT
* *
66104652 TTAGGTCACGTGTGTAGTACTAAGTGAAGGCTACTATATGTACCAGATAG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATACGTACCAGATAG
* * * * * * *
66104702 TTAGGCCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGACAAC
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATACGTACCAGA-TAG
* * * * *
66104753 TTCGATCACGTTTGTAGTACTAAGTGCAGGCTAC--TACGTATCAGATGG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATACGTACCAGATAG
* * * * *
66104801 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCGGATTG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATACGTACCAGATAG
* * * *
66104851 TT-GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTAGATAG
1 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATACGTACCAGATAG
66104900 CTTCGGTTAC
Statistics
Matches: 158, Mismatches: 37, Indels: 7
0.78 0.18 0.03
Matches are distributed among these distances:
48 31 0.20
49 46 0.29
50 52 0.33
51 29 0.18
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATACGTACCAGATAG
Found at i:66104942 original size:148 final size:149
Alignment explanation
Indices: 66104652--66104942 Score: 370
Period size: 148 Copynumber: 2.0 Consensus size: 149
66104642 TAAGATGGTT
*
66104652 TTAGGTCACGTGTGTAGTACTAAGTGAAGGCTACTATATGTACCAGATAGTTAGGCCGCATGTGT
1 TTAGGTCACGTGTGTAGTACTAAGTGAAGGCTACTACATGTACCAGATAGTTAGGCCGCATGTGT
* ****
66104717 AGTACTAAGTGCAGGCTACTATGCGTACCCGACAACTTCGATCACGTTTGTAGTACTAAGTGCAG
66 AGTACTAAGTGCAGGCTACTATGCGTACCAGACAACTTCGATCACAAGGGTAGTACTAAGTGCAG
* *
66104782 GCTACTACGTATCAGATGG
131 GCAACCACGTATCAGATGG
* * * * *
66104801 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCGGATTGTT-GGTCGCATGTGT
1 TTAGGTCACGTGTGTAGTACTAAGTGAAGGCTACTACATGTACCAGATAGTTAGGCCGCATGTGT
* * * * * * *
66104865 AGTACTAAGTGCAGGCTACTATGCGTACTAGATAGCTTCGGTTACAAGGGTGGTAAC-ATGTGCA
66 AGTACTAAGTGCAGGCTACTATGCGTACCAGACAACTTCGATCACAAGGGTAGT-ACTAAGTGCA
*
66104929 GGCAACCATGTATC
130 GGCAACCACGTATC
66104943 GTTATTATTC
Statistics
Matches: 120, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
148 71 0.59
149 49 0.41
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (149 bp):
TTAGGTCACGTGTGTAGTACTAAGTGAAGGCTACTACATGTACCAGATAGTTAGGCCGCATGTGT
AGTACTAAGTGCAGGCTACTATGCGTACCAGACAACTTCGATCACAAGGGTAGTACTAAGTGCAG
GCAACCACGTATCAGATGG
Found at i:66112065 original size:15 final size:15
Alignment explanation
Indices: 66112045--66112076 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
66112035 CATTTCACTA
*
66112045 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
66112060 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
66112075 TT
1 TT
66112077 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:66115423 original size:13 final size:13
Alignment explanation
Indices: 66115407--66115441 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
66115397 CAACACACAC
66115407 GCCCGTGTGGCTA
1 GCCCGTGTGGCTA
66115420 GCCCGTGTGGCTA
1 GCCCGTGTGGCTA
66115433 GCCCGTGTG
1 GCCCGTGTG
66115442 CCCTAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.06, C:0.31, G:0.40, T:0.23
Consensus pattern (13 bp):
GCCCGTGTGGCTA
Found at i:66117691 original size:42 final size:42
Alignment explanation
Indices: 66117580--66117776 Score: 232
Period size: 42 Copynumber: 4.7 Consensus size: 42
66117570 CACCATACCA
* * * **
66117580 ATGCCATATCCCAAATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCAAATCG
* * * *
66117622 ATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTCACATCA
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCAAATCG
* * *
66117665 ATGTCATATCCCAGATATGGTCTTACACGAAGTCTCAAATTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCAAATCG
* * * *
66117707 ATGTCATATCCCAGATATAGTCTTACACGAAGTCTCAAATTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCAAATCG
*
66117749 ATGACATATCCCAGATATGGTCTTACAC
1 ATGCCATATCCCAGATATGGTCTTACAC
66117777 AGTCTTAGTA
Statistics
Matches: 136, Mismatches: 18, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
42 103 0.76
43 33 0.24
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCAAATCG
Found at i:66118694 original size:31 final size:31
Alignment explanation
Indices: 66118651--66118734 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
66118641 TTAGTCTTGA
*
66118651 CATAT-ACTGGGCCAAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
*
66118681 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
66118712 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
66118735 ACTGTAAATA
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
30 5 0.10
31 46 0.90
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTCCATAAAT
Found at i:66119060 original size:24 final size:26
Alignment explanation
Indices: 66118997--66119065 Score: 99
Period size: 25 Copynumber: 2.8 Consensus size: 26
66118987 CTCTTTTAAT
66118997 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTCTGATA
*
66119022 AACTGGGGCAAAGCCCTTTTC-GGTA
1 AACTGGGGCAAAGCCCTTTTCTGATA
*
66119047 AAC-GGGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
66119066 AGCACTTCCT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
24 15 0.37
25 22 0.54
26 4 0.10
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.23
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTCTGATA
Found at i:66120142 original size:110 final size:107
Alignment explanation
Indices: 66119970--66120210 Score: 259
Period size: 110 Copynumber: 2.2 Consensus size: 107
66119960 ATTTCATCCT
* * ***
66119970 ACAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATT
1 ACAAGGGTATTTTGGTAATTCTACAAACCAAGGGTATTTCAGTAATTTCACAAACCAATGGTATT
* * * **
66120035 TCTATAATTTTTAGAAAGTCAAGGGTATTTCT-ATAATTTTGTAA
66 TCGATAA-TTTTACAAACT-AAGGGTATTT-TGATAATTTTACAA
* *** * *
66120079 ATCAAGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACACACCAGTGGTAT
1 A-CAAGGGTATTTTGGTAATTCTACAAACCAAGGGTATTTCAGTAATTTCACAAACCAATGGTAT
* * *
66120144 TTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAA
65 TTCGATAATTTTACAAACTAAGGGTATTTTGATAATTTTACAA
66120187 ACTAAGGGTATTTTGGTAATTCTA
1 AC-AAGGGTATTTTGGTAATTCTA
66120211 TCCTACAGGG
Statistics
Matches: 109, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
107 2 0.02
108 39 0.36
109 10 0.09
110 58 0.53
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (107 bp):
ACAAGGGTATTTTGGTAATTCTACAAACCAAGGGTATTTCAGTAATTTCACAAACCAATGGTATT
TCGATAATTTTACAAACTAAGGGTATTTTGATAATTTTACAA
Found at i:66120143 original size:54 final size:54
Alignment explanation
Indices: 66119944--66120240 Score: 167
Period size: 54 Copynumber: 5.5 Consensus size: 54
66119934 TTTTACCTAT
* * ** * * *
66119944 TAGGGGTATTTTAGTCATTTCATCCTAC-AAGGGTGTTTTGGTAAATCTACAAAC
1 TAGGGGTATTTCAGTAATTTCA-CAAACTAAGGGTATTTTGGTAATTTTACAAAC
* * *** * * * * *
66119998 CAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT-ATAATTTTTAGAAAG
1 TAGGGGTATTTCAGTAATTTCACAAACTAAGGGTATTT-TGGTAA-TTTTACAAAC
* ***
66120053 TCAAGGGTATTTCTA-TAATTTTGTAAA-TCAAGGGTATTTTGGTAATTTTACAAA-
1 T-AGGGGTATTTC-AGTAATTTCACAAACT-AAGGGTATTTTGGTAATTTTACAAAC
* * * *
66120107 TTGAGGGTATTTCAGTAATTTCACACAC-CAGTGGTATTTCGGTAATTTTACAAAC
1 TAG-GGGTATTTCAGTAATTTCACAAACTAAG-GGTATTTTGGTAATTTTACAAAC
** * * **
66120162 TAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTCTATCCTAC
1 TAGGGGTATTTCAGTAATTTCACAAACTAAGGGTATTTTGGTAATTTTA-CAAAC
* *
66120217 -AGGGGTATTTTAGTGATTTCACAA
1 TAGGGGTATTTCAGTAATTTCACAA
66120241 TCGAGGGTAA
Statistics
Matches: 187, Mismatches: 42, Indels: 28
0.73 0.16 0.11
Matches are distributed among these distances:
53 5 0.03
54 123 0.66
55 23 0.12
56 35 0.19
57 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.39
Consensus pattern (54 bp):
TAGGGGTATTTCAGTAATTTCACAAACTAAGGGTATTTTGGTAATTTTACAAAC
Found at i:66120200 original size:27 final size:27
Alignment explanation
Indices: 66119972--66120207 Score: 165
Period size: 27 Copynumber: 8.7 Consensus size: 27
66119962 TTCATCCTAC
* * * *
66119972 AAGGGTGTTTTGGTAAATCTACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
** ** *
66119999 AAGGGTATTTCAGTAATTTTGTAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
* * * *
66120026 AATGGTATTTCT-ATAATTTTTAGAAAGT
1 AAGGGTATTT-TGGTAA-TTTTACAAACT
* **
66120054 CAAGGGTATTTCT-ATAATTTTGTAAA-T
1 -AAGGGTATTT-TGGTAATTTTACAAACT
*
66120081 CAAGGGTATTTTGGTAATTTTACAAATT
1 -AAGGGTATTTTGGTAATTTTACAAACT
* ** * *
66120109 GAGGGTATTTCAGTAATTTCACACAC-
1 AAGGGTATTTTGGTAATTTTACAAACT
* *
66120135 CAGTGGTATTTCGGTAATTTTACAAACT
1 AAG-GGTATTTTGGTAATTTTACAAACT
*
66120163 AGGGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
66120190 AAGGGTATTTTGGTAATT
1 AAGGGTATTTTGGTAATT
66120208 CTATCCTACA
Statistics
Matches: 168, Mismatches: 34, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
26 3 0.02
27 134 0.80
28 16 0.10
29 15 0.09
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTACAAACT
Found at i:66120222 original size:27 final size:27
Alignment explanation
Indices: 66120084--66120227 Score: 123
Period size: 27 Copynumber: 5.3 Consensus size: 27
66120074 TGTAAATCAA
* *
66120084 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTCTACAAACTAG
** * *
66120110 AGGGTATTTCAGTAATT-TCACACACCAG
1 -GGGTATTTTGGTAATTCT-ACAAACTAG
* * *
66120138 TGGTATTTCGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTCTACAAACTAG
* *
66120165 GGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTCTACAAACTAG
**
66120192 GGGTATTTTGGTAATTCTATCCTAC-AG
1 GGGTATTTTGGTAATTCTA-CAAACTAG
66120219 GGGTATTTT
1 GGGTATTTT
66120228 AGTGATTTCA
Statistics
Matches: 97, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
26 1 0.01
27 91 0.94
28 5 0.05
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTCTACAAACTAG
Found at i:66120273 original size:27 final size:27
Alignment explanation
Indices: 66120239--66120436 Score: 254
Period size: 27 Copynumber: 7.3 Consensus size: 27
66120229 GTGATTTCAC
* *
66120239 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
66120266 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTCTGTA
* *
66120293 AATCGATGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
66120320 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* *
66120347 AATCGAGGGTAAAATGATAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* * * *
66120374 AATCGAGGGTGAAACGATAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
**
66120401 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAATGGTAATTCTGTA
66120428 AATCGAGGG
1 AATCGAGGG
66120437 CATTTCAGTA
Statistics
Matches: 151, Mismatches: 18, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
26 1 0.01
27 149 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTGTA
Found at i:66120355 original size:81 final size:81
Alignment explanation
Indices: 66120239--66120436 Score: 299
Period size: 81 Copynumber: 2.4 Consensus size: 81
66120229 GTGATTTCAC
* * * * *
66120239 AATCGAGGGTAAAACGGTAATTTTGTAAA-CTGAGGGTAAAATGGTAATTTTGTAAATCGATGGT
1 AATCGAGGGTAAAATGGTAATTCTATAAATC-GAGGGTAAAATGATAATTTTGTAAATCGAGGGT
* *
66120303 AAAACGGTAATTCTGTA
65 AAAACGATAATTCTATA
*
66120320 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGATAATTTTGTAAATCGAGGGTG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGATAATTTTGTAAATCGAGGGTA
66120385 AAACGATAATTCTATA
66 AAACGATAATTCTATA
*
66120401 AATCGAGGGTAAAATGGTAATTCTACAAATCGAGGG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGG
66120437 CATTTCAGTA
Statistics
Matches: 107, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
81 106 0.99
82 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGATAATTTTGTAAATCGAGGGTA
AAACGATAATTCTATA
Found at i:66125887 original size:43 final size:43
Alignment explanation
Indices: 66125839--66125954 Score: 146
Period size: 43 Copynumber: 2.7 Consensus size: 43
66125829 TGTGGTTACA
* *
66125839 TGTAAGACCATGTCTGGGACATTGGCATTG-T-ATTGATATTATG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTAATTGAT-TT-CG
* *
66125882 TGTAAGATCATGTCTAGGACATTGGCATCGTTAATTGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTTAATTGATTTCG
* *
66125925 TGTAAGACCCTGTCTGGGACAATGGCATCG
1 TGTAAGACCATGTCTGGGACATTGGCATCG
66125955 ATATGTGATA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
43 54 0.86
44 3 0.05
45 6 0.10
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTTAATTGATTTCG
Found at i:66125972 original size:43 final size:42
Alignment explanation
Indices: 66125836--66125975 Score: 138
Period size: 43 Copynumber: 3.3 Consensus size: 42
66125826 AGATGTGGTT
*
66125836 ACATGTAAGACCATGTCTGGGACATTGGCATTG-TATTGATA
1 ACATGTAAGACCATGTCTGGGACATTGGCATCGATATTGATA
** * * * *
66125877 TTATGTGTAAGATCATGTCTAGGACATTGGCATCGTTAATTGATT
1 --ACATGTAAGACCATGTCTGGGACATTGGCATCGAT-ATTGATA
* * * *
66125922 TCGTGTAAGACCCTGTCTGGGACAATGGCATCGATATGTGATA
1 ACATGTAAGACCATGTCTGGGACATTGGCATCGATAT-TGATA
66125965 ACATGTAAGAC
1 ACATGTAAGAC
66125976 TATATCTCGG
Statistics
Matches: 78, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
42 2 0.03
43 69 0.88
44 1 0.01
45 6 0.08
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (42 bp):
ACATGTAAGACCATGTCTGGGACATTGGCATCGATATTGATA
Found at i:66128212 original size:41 final size:40
Alignment explanation
Indices: 66128085--66128229 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
66128075 CTCGCACAAG
* * * * *
66128085 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
66128125 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
66128165 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
66128206 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
66128230 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:66129468 original size:37 final size:37
Alignment explanation
Indices: 66129422--66129495 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
66129412 CAAGAACTCC
66129422 TTCCTCCTTCCTTAGAATTTTCGGCCAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAGAAATGAA
66129459 TTCCTCCTTCCTTAGAATTTTCGGCCAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAGAAATGAA
66129496 AAAGGATGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (37 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAGAAATGAA
Found at i:66145542 original size:50 final size:51
Alignment explanation
Indices: 66145422--66145547 Score: 177
Period size: 51 Copynumber: 2.5 Consensus size: 51
66145412 TAAGTGGCAT
**
66145422 GTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGATCACGA
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTGAGATCACGA
* *
66145473 GTGTAGTACTAAGTGCAGGCTACTATGTGTA-TCAGATGA-TGAGGTCACGTA
1 GTGTAGTACTAAGTGCAGGCTACTATGCGTACTCA-ATGACTGAGATCACG-A
66145524 -TGTAGTACTAAGTGCAGGCTACTA
1 GTGTAGTACTAAGTGCAGGCTACTA
66145548 CATGTGCCGA
Statistics
Matches: 69, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
50 34 0.49
51 35 0.51
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (51 bp):
GTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTGAGATCACGA
Found at i:66145723 original size:27 final size:26
Alignment explanation
Indices: 66145693--66145745 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
66145683 GGGGAAAATC
66145693 TATAAAGTGGTAATATGTG-AAAGTTAT
1 TATAAAGT-G-AATATGTGCAAAGTTAT
* *
66145720 TATAAGGTGAATATGTGCAAATTTAT
1 TATAAAGTGAATATGTGCAAAGTTAT
66145746 GTTTATGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 8 0.35
26 8 0.35
27 7 0.30
ACGTcount: A:0.40, C:0.02, G:0.21, T:0.38
Consensus pattern (26 bp):
TATAAAGTGAATATGTGCAAAGTTAT
Found at i:66152947 original size:50 final size:49
Alignment explanation
Indices: 66152872--66153198 Score: 320
Period size: 50 Copynumber: 6.5 Consensus size: 49
66152862 TGAATACACG
* * *
66152872 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATACT-ATTATGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCA-A-TGATTAGGTCACA
* * *
66152922 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACTCAATGACTTCGATCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAATGA-TTAGGTCACA
* * *
66152973 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTG-TTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCA-A-TGATTAGGTCACA
* ** * *
66153023 TGTGTAGTACTAAGTGCAGGCTACTATGCATACTCAATGACTTCGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAATGA-TTAGGTCACA
* * *
66153074 TGTGTTGTACTAAGTGTAGGCTACTACGTGTATCAGATGATGAGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCA-ATGATTAGGTCACA
* * * *
66153124 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTG-TT-GATCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATC--AATGATTAGGTCACA
* *
66153173 TGTGTAGTATTATGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
66153199 TGCATATCAG
Statistics
Matches: 229, Mismatches: 37, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
49 32 0.14
50 112 0.49
51 82 0.36
52 3 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAATGATTAGGTCACA
Found at i:66153047 original size:101 final size:101
Alignment explanation
Indices: 66152872--66153156 Score: 446
Period size: 101 Copynumber: 2.8 Consensus size: 101
66152862 TGAATACACG
* *
66152872 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTATTATGTCGCATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGTCGCATGTGTAGTACTAAGT
66152937 GCAGGCTACTACGCGTACTCAATGACTTCGATCACA
66 GCAGGCTACTACGCGTACTCAATGACTTCGATCACA
66152973 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGTCGCATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGTCGCATGTGTAGTACTAAGT
* * * *
66153038 GCAGGCTACTATGCATACTCAATGACTTCGGTCACG
66 GCAGGCTACTACGCGTACTCAATGACTTCGATCACA
* * * * *
66153074 TGTGTTGTACTAAGTGTAGGCTACTACGTGTATCAGA-TGATGAGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTG-TTAAGTCGCATGTGTAGTACTAAG
*
66153138 TGCAGGCTACTACGTGTAC
65 TGCAGGCTACTACGCGTAC
66153157 CGGATTGTTG
Statistics
Matches: 169, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
100 2 0.01
101 167 0.99
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (101 bp):
TGTGTAGTACTAAGTGTAGGCTACTACGTGTATCATACTGTTAAGTCGCATGTGTAGTACTAAGT
GCAGGCTACTACGCGTACTCAATGACTTCGATCACA
Found at i:66157482 original size:46 final size:48
Alignment explanation
Indices: 66157425--66157555 Score: 173
Period size: 46 Copynumber: 2.8 Consensus size: 48
66157415 GATGTTGAGC
*
66157425 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-ATG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACAGG
* * *
66157472 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAC-AGG
66157517 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
66157556 GCGGGTTACA
Statistics
Matches: 71, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
43 6 0.08
45 4 0.06
46 29 0.41
47 29 0.41
48 2 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (48 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACAGG
Found at i:66165268 original size:41 final size:41
Alignment explanation
Indices: 66165214--66165295 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
66165204 TGTATGTGGT
66165214 CCCAGGAGCATTAGTGCCCAAGAAGTTATGATTATTACGTC
1 CCCAGGAGCATTAGTGCCCAAGAAGTTATGATTATTACGTC
*
66165255 CCCATGAGCATTAGTGCCCAAGAAGTTATGATTATTACGTC
1 CCCAGGAGCATTAGTGCCCAAGAAGTTATGATTATTACGTC
66165296 ACTTTTATTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (41 bp):
CCCAGGAGCATTAGTGCCCAAGAAGTTATGATTATTACGTC
Found at i:66167753 original size:68 final size:66
Alignment explanation
Indices: 66167666--66167832 Score: 160
Period size: 67 Copynumber: 2.5 Consensus size: 66
66167656 CATCATGTGT
* * * *
66167666 ACAAGAGAGCTACAAGATATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTACAAG--A-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
66167729 TGTAG
62 TGTAG
*** * *
66167734 ACAAGAGAGCTATGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACAAGATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
66167799 AG
65 AG
* * *
66167801 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTC
1 ACAAGAGAGCTACAAGATATATGTAGCTAGGTC
66167833 ATATGGGTGG
Statistics
Matches: 83, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
64 24 0.29
65 3 0.04
66 12 0.14
67 31 0.37
68 13 0.16
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (66 bp):
ACAAGAGAGCTACAAGATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:66171382 original size:15 final size:15
Alignment explanation
Indices: 66171362--66171392 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
66171352 ATTTCACTAC
*
66171362 TATGTCTTTTGTATT
1 TATGTCTTTTATATT
66171377 TATGTCTTTTATATT
1 TATGTCTTTTATATT
66171392 T
1 T
66171393 TGCATGCACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.06, G:0.10, T:0.68
Consensus pattern (15 bp):
TATGTCTTTTATATT
Found at i:66180368 original size:21 final size:21
Alignment explanation
Indices: 66180342--66180385 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
66180332 TTAGACATGT
*
66180342 TTGTCATAATGAACAAATATA
1 TTGTCACAATGAACAAATATA
66180363 TTGTCACAATGAACAAATATA
1 TTGTCACAATGAACAAATATA
66180384 TT
1 TT
66180386 CTTGATCTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.34
Consensus pattern (21 bp):
TTGTCACAATGAACAAATATA
Found at i:66186430 original size:30 final size:30
Alignment explanation
Indices: 66186396--66186456 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
66186386 TCCTTAACTC
66186396 AAACTTTTGCAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * *
66186426 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
66186456 A
1 A
66186457 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:66198922 original size:31 final size:31
Alignment explanation
Indices: 66198846--66198919 Score: 100
Period size: 31 Copynumber: 2.4 Consensus size: 31
66198836 TCAAGTTATC
66198846 TTAAATATTAAAATAAAAATAAAAATTTAGAA
1 TTAAATA-TAAAATAAAAATAAAAATTTAGAA
66198878 TTAAA-ACTAAAATAAATAATAAAAA-TTAG-A
1 TTAAATA-TAAAATAAA-AATAAAAATTTAGAA
66198908 TTAAATATAAAA
1 TTAAATATAAAA
66198920 ATATCAATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
30 11 0.28
31 15 0.38
32 13 0.33
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (31 bp):
TTAAATATAAAATAAAAATAAAAATTTAGAA
Found at i:66203812 original size:28 final size:29
Alignment explanation
Indices: 66203763--66203822 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 29
66203753 CCCCATATTT
* *
66203763 ATCCCTAAACGCTAAAAATTAAACCCT-G
1 ATCCCCAAACGCCAAAAATTAAACCCTAG
** *
66203791 ATCCCCAAACGCCAAACCTTAAATCCTAG
1 ATCCCCAAACGCCAAAAATTAAACCCTAG
66203820 ATC
1 ATC
66203823 ATAAATCCTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 22 0.85
29 4 0.15
ACGTcount: A:0.40, C:0.33, G:0.07, T:0.20
Consensus pattern (29 bp):
ATCCCCAAACGCCAAAAATTAAACCCTAG
Found at i:66204007 original size:494 final size:494
Alignment explanation
Indices: 66203075--66204199 Score: 2106
Period size: 494 Copynumber: 2.3 Consensus size: 494
66203065 TTTTAAGTTT
* *
66203075 TTTATTTTTGATTTAATCATAGACATTTTAAAAAATAAATACATCAATATATTTTTATATTGAAT
1 TTTAATTTTGATTTAATCATACACATTTTAAAAAATAAATACATCAATATATTTTTATATTGAAT
*
66203140 AAATATAAATATTTATGTATGCAATAAATAAATATAAAATGATGTTATATCAATAATTGTGTTAA
66 AAATATAAATATTTATGTATGCAATATATAAATATAAAATGATGTTATATCAATAATTGTGTTAA
* *
66203205 TAATTTACAAGAACTAGATCAAATTAAAGTTCATATATACAATTTTACCCTGATCCCTATATTTA
131 TAATTTACAAGAACTAGATCAAATTAAAGTTCATATATACAATTGTACCCTGATCCCCATATTTA
66203270 TCCCTAAAAGCTAAAAATTAAACCCTAATCCCCAAACACCAAACCTTAAATCCTAGATCATAAAT
196 TCCCTAAAAGCTAAAAATTAAACCCTAATCCCCAAACACCAAACCTTAAATCCTAGATCATAAAT
* *
66203335 TCTAAACCCCAAAATAATGAACATTATATCATAACCCCTATCCTCTAAACTCTAAACCATAAAAC
261 CCTAAACCCCAAAATAATGAACATTATATCATAACCCCTATCCCCTAAACTCTAAACCATAAAAC
*
66203400 ATAAATCATAAACCCTTAACCCCAACCCTTAAACCATAATTAGATATTTAATTATATGTACACAC
326 ATAAACCATAAACCCTTAACCCCAACCCTTAAACCATAATTAGATATTTAATTATATGTACACAC
66203465 CTAAATTTTGATAGAGATACATCTCAGAATTATATATGAATTTCGATTTAATATGTAATTGTAGA
391 CTAAATTTTGATAGAGATACATCTCAGAATTATATATGAATTTCGATTTAATATGTAATTGTAGA
*
66203530 TGTGAAATTCTAATTGTGGTTTAAATGTATAATTGAAAC
456 TGTAAAATTCTAATTGTGGTTTAAATGTATAATTGAAAC
66203569 TTTAATTTTGATTTAATCATACACATTTTAAAAAATAAATACATCAATATATTTTTATATTGAAT
1 TTTAATTTTGATTTAATCATACACATTTTAAAAAATAAATACATCAATATATTTTTATATTGAAT
66203634 AAATATAAATATTTATGTATGCAATATATAAATATAAAATGATGTTATATCAATAATTGTGTTAA
66 AAATATAAATATTTATGTATGCAATATATAAATATAAAATGATGTTATATCAATAATTGTGTTAA
* *
66203699 TAATTTACAAGAACTAGATCCAATTAAAGTTTATATATACAATTGTACCCTGATCCCCATATTTA
131 TAATTTACAAGAACTAGATCAAATTAAAGTTCATATATACAATTGTACCCTGATCCCCATATTTA
* * *
66203764 TCCCTAAACGCTAAAAATTAAACCCTGATCCCCAAACGCCAAACCTTAAATCCTAGATCATAAAT
196 TCCCTAAAAGCTAAAAATTAAACCCTAATCCCCAAACACCAAACCTTAAATCCTAGATCATAAAT
66203829 CCTAAACCCCAAAATAATGAACATTATATCATAACCCCTATCCCCTAAACTCTAAACCATAAAAC
261 CCTAAACCCCAAAATAATGAACATTATATCATAACCCCTATCCCCTAAACTCTAAACCATAAAAC
66203894 ATAAACCATAAACCCTTAACCCCAACCCTTAAACCATAATTAGATATTTAATTATATGTACACAC
326 ATAAACCATAAACCCTTAACCCCAACCCTTAAACCATAATTAGATATTTAATTATATGTACACAC
*
66203959 CTAAATTTTGATAGAGATACATCTCAGAATTATATATGAATTTCGATTTAATGTGTAATTGTAGA
391 CTAAATTTTGATAGAGATACATCTCAGAATTATATATGAATTTCGATTTAATATGTAATTGTAGA
66204024 TGTAAAATTCTAATTGTGGTTTAAATGTATAATTGAAAC
456 TGTAAAATTCTAATTGTGGTTTAAATGTATAATTGAAAC
66204063 TTTAATTTTGATTTAATCATACACATTTTAAAAAATAAATACATCAATATATTTTTATATTGAAT
1 TTTAATTTTGATTTAATCATACACATTTTAAAAAATAAATACATCAATATATTTTTATATTGAAT
*
66204128 AAATATAAATATTTATGTATGCAATATATAAATATAAAATGATGTTATATCAATAATTGTGTTCA
66 AAATATAAATATTTATGTATGCAATATATAAATATAAAATGATGTTATATCAATAATTGTGTTAA
66204193 TAATTTA
131 TAATTTA
66204200 TGCTTTTGGG
Statistics
Matches: 615, Mismatches: 16, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
494 615 1.00
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.35
Consensus pattern (494 bp):
TTTAATTTTGATTTAATCATACACATTTTAAAAAATAAATACATCAATATATTTTTATATTGAAT
AAATATAAATATTTATGTATGCAATATATAAATATAAAATGATGTTATATCAATAATTGTGTTAA
TAATTTACAAGAACTAGATCAAATTAAAGTTCATATATACAATTGTACCCTGATCCCCATATTTA
TCCCTAAAAGCTAAAAATTAAACCCTAATCCCCAAACACCAAACCTTAAATCCTAGATCATAAAT
CCTAAACCCCAAAATAATGAACATTATATCATAACCCCTATCCCCTAAACTCTAAACCATAAAAC
ATAAACCATAAACCCTTAACCCCAACCCTTAAACCATAATTAGATATTTAATTATATGTACACAC
CTAAATTTTGATAGAGATACATCTCAGAATTATATATGAATTTCGATTTAATATGTAATTGTAGA
TGTAAAATTCTAATTGTGGTTTAAATGTATAATTGAAAC
Found at i:66204554 original size:41 final size:40
Alignment explanation
Indices: 66204496--66204587 Score: 105
Period size: 41 Copynumber: 2.3 Consensus size: 40
66204486 CCTCTATCTA
** *
66204496 TAGCGGCGTTTTTCCAAAAGCACCACTATTG-TTCAGTTTT
1 TAGCGGCGTTTGACCAAAAACACCACTATTGCTT-AGTTTT
* *
66204536 TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCTTAGTTTT
1 TAGCGGCGTTT-GACCAAAAACACCACTATTGCTTAGTTTT
*
66204577 TTGCGGCGTTT
1 TAGCGGCGTTT
66204588 TATTACAAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
40 11 0.25
41 31 0.70
42 2 0.05
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.36
Consensus pattern (40 bp):
TAGCGGCGTTTGACCAAAAACACCACTATTGCTTAGTTTT
Found at i:66204651 original size:12 final size:12
Alignment explanation
Indices: 66204634--66204659 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
66204624 TTTTTTACCC
66204634 AAACGCCACTAA
1 AAACGCCACTAA
66204646 AAACGCCACTAA
1 AAACGCCACTAA
66204658 AA
1 AA
66204660 CCCTATTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.31, G:0.08, T:0.08
Consensus pattern (12 bp):
AAACGCCACTAA
Found at i:66207323 original size:36 final size:36
Alignment explanation
Indices: 66207283--66207355 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
66207273 CTAAAACAAC
66207283 TAACAAATTAACCATTCATGAAATAACTTCTTGTAT
1 TAACAAATTAACCATTCATGAAATAACTTCTTGTAT
*
66207319 TAACAAATTAGCCATTCATGAAATAACTTCTTGTAT
1 TAACAAATTAACCATTCATGAAATAACTTCTTGTAT
66207355 T
1 T
66207356 CATATAACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.37
Consensus pattern (36 bp):
TAACAAATTAACCATTCATGAAATAACTTCTTGTAT
Found at i:66208039 original size:46 final size:46
Alignment explanation
Indices: 66207989--66208158 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 46
66207979 CTCTATATGT
66207989 GCCGATGCATGTCCCAAGCATGTCTTACACTGGCTTACATCTCGAG
1 GCCGATGCATGTCCCAAGCATGTCTTACACTGGCTTACATCTCGAG
* * * * * *
66208035 GCCGATACGTGTCCCAA-CATGTCTTACACTAGCTCT-CGTCTCAAT
1 GCCGATGCATGTCCCAAGCATGTCTTACACTGGCT-TACATCTCGAG
* * * *
66208080 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGGTCACATCTTGAG
1 GCCGATG-CATGTCCCAAGCAT-GTCTTACACTGGCTTACATCTCGAG
*
66208128 GCCAATGCATGTCCC-AGACATGTCTTACACT
1 GCCGATGCATGTCCCAAG-CATGTCTTACACT
66208159 AGCGCACAAA
Statistics
Matches: 101, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
45 28 0.28
46 36 0.36
47 14 0.14
48 23 0.23
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.26
Consensus pattern (46 bp):
GCCGATGCATGTCCCAAGCATGTCTTACACTGGCTTACATCTCGAG
Found at i:66208107 original size:93 final size:92
Alignment explanation
Indices: 66207988--66208161 Score: 260
Period size: 93 Copynumber: 1.9 Consensus size: 92
66207978 CCTCTATATG
* * * *
66207988 TGCCGATGCATGTCCCAAGCATGTCTTACACTGGCTTACATCTCGAGGCCGATACGTGTCCCA-A
1 TGCCGATGCATGTCCCAAACATGTCTTACACTGGCTCACATCTCGAGGCCAATACATGTCCCAGA
66208052 CATGTCTTACACTAGCTCTCGTCTCAA
66 CATGTCTTACACTAGCTCTCGTCTCAA
* * *
66208079 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGGTCACATCTTGAGGCCAATGCATGTCCCA
1 TGCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCTCACATCTCGAGGCCAATACATGTCCCA
66208144 GACATGTCTTACACTAGC
64 GACATGTCTTACACTAGC
66208162 GCACAAATGA
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
91 8 0.11
92 13 0.18
93 35 0.48
94 17 0.23
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (92 bp):
TGCCGATGCATGTCCCAAACATGTCTTACACTGGCTCACATCTCGAGGCCAATACATGTCCCAGA
CATGTCTTACACTAGCTCTCGTCTCAA
Found at i:66215021 original size:49 final size:50
Alignment explanation
Indices: 66214956--66215084 Score: 167
Period size: 50 Copynumber: 2.6 Consensus size: 50
66214946 TTAAGTCGAT
*
66214956 GCCATGTCCCAAACATGGTCTTACACTGACTATTGA-A-ATC-GAGGCCGAC
1 GCCATGTCCCAAACATGGTCTTACACTGACT-TTCACATATCTG-GGCCGAC
* * *
66215005 GCCATGTCCCAGACATGGTCTTACACT-AGCTTTCACATATCTGTGCCGAT
1 GCCATGTCCCAAACATGGTCTTACACTGA-CTTTCACATATCTGGGCCGAC
66215055 GCCATGTCCCAAACATGGTCTTACACTGAC
1 GCCATGTCCCAAACATGGTCTTACACTGAC
66215085 ACCTCTATAT
Statistics
Matches: 70, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
48 4 0.06
49 29 0.41
50 35 0.50
51 2 0.03
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (50 bp):
GCCATGTCCCAAACATGGTCTTACACTGACTTTCACATATCTGGGCCGAC
Found at i:66215081 original size:99 final size:96
Alignment explanation
Indices: 66214903--66215084 Score: 267
Period size: 96 Copynumber: 1.9 Consensus size: 96
66214893 AAGGTGTAAT
* *
66214903 GCCGATGCCATGTCCCAGACAAGGTCTTACACTGGCTCATCCATTAAGTCGATGCCATGTCCCAA
1 GCCGACGCCATGTCCCAGACAAGGTCTTACACTAGCTCATCCATTAAGTCGATGCCATGTCCCAA
66214968 ACATGGTCTTACACTGACTATTGAAATCGAG
66 ACATGGTCTTACACTGACTATTGAAATCGAG
* * **
66214999 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCT-TTCACATATCTGTGCCGATGCCATGTC
1 GCCGACGCCATGTCCCAGACAAGGTCTTACACTAGCTCATC-CAT-TAAGT--CGATGCCATGTC
66215063 CCAAACATGGTCTTACACTGAC
62 CCAAACATGGTCTTACACTGAC
66215085 ACCTCTATAT
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
95 2 0.03
96 37 0.49
97 3 0.04
99 34 0.45
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (96 bp):
GCCGACGCCATGTCCCAGACAAGGTCTTACACTAGCTCATCCATTAAGTCGATGCCATGTCCCAA
ACATGGTCTTACACTGACTATTGAAATCGAG
Found at i:66215147 original size:46 final size:48
Alignment explanation
Indices: 66214903--66215267 Score: 279
Period size: 47 Copynumber: 7.7 Consensus size: 48
66214893 AAGGTGTAAT
* * *
66214903 GCCGATGCCATGTCCCAGACAAGGTCTTACACTGGC-T-CATC-CATTAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTC--GAG
* * * ** **
66214950 GTCGATGCCATGTCCCAAACATGGTCTTACACTGACTATTGAAATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACATCTCGAG
* * * *
66214999 GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTTTCACATATCTG-T
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TT-ACATCTC-GAG
* * * **
66215049 GCCGATGCCATGTCCCAAACATGGTCTTACACTGAC--ACCTCTATATG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGA-G
*
66215096 TGCCGATG-CATGTCCTAGACAT-GTCTTACACTGGCTTACATCTCGAG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAG
* * * * * * *
66215143 GCCGATG-CGTGTCCCAGACAT-ATCTTACACTAGCTCT-CGTTTCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACATCTCGAG
* * * *
66215189 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATCTTGAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAG
66215237 GCCGATG-CATGTCCCAGACAT-GTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
66215268 AGCGCACAAA
Statistics
Matches: 250, Mismatches: 52, Indels: 33
0.75 0.16 0.10
Matches are distributed among these distances:
46 69 0.28
47 71 0.28
48 36 0.14
49 34 0.14
50 38 0.15
51 2 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAG
Found at i:66215211 original size:140 final size:143
Alignment explanation
Indices: 66214900--66215267 Score: 392
Period size: 140 Copynumber: 2.6 Consensus size: 143
66214890 CATAAGGTGT
* * * * *
66214900 AATGCCGATGCCATGTCCCAGACAAGGTCTTACACTGGCTCATCCATTAAGT--CGATGCCATGT
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGACACAT-CA-TATGTGCCGATG-CATGT
* ** *
66214963 CCCAAACATGGTCTTACACTGACTATTGAAATCGAGGCCGACGCCATGTCCCAGACATGGTCTTA
63 CCCAGACAT-GTCTTACACTGACTATACAAATCGAGGCCGACGCCATGTCCCAGACATGATCTTA
66215028 CACTAGCTTTCACATATC
127 CACTAGC-TTCACATATC
** *
66215046 TGTGCCGATGCCATGTCCCAAACATGGTCTTACACTGACACCTCTATATGTGCCGATGCATGTCC
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGACACATC-ATATGTGCCGATGCATGTCC
* * ** * *
66215111 TAGACATGTCTTACACTGGCT-TACATCTCGAGGCCGATG-CGTGTCCCAGACAT-ATCTTACAC
65 CAGACATGTCTTACACTGACTATACAAATCGAGGCCGACGCCATGTCCCAGACATGATCTTACAC
* * *
66215173 TAGC-TCTCGTTTC
130 TAGCTTCACATATC
* *
66215186 AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATC-T-TGACGCCGATGCATGT
1 AATGCCGATGCCATGTCCCAAACATGGTCTTACACT-G-ACACATCATATG-TGCCGATGCATGT
66215249 CCCAGACATGTCTTACACT
63 CCCAGACATGTCTTACACT
66215268 AGCGCACAAA
Statistics
Matches: 189, Mismatches: 27, Indels: 18
0.81 0.12 0.08
Matches are distributed among these distances:
139 2 0.01
140 71 0.38
141 1 0.01
142 17 0.09
143 13 0.07
144 13 0.07
145 18 0.10
146 49 0.26
147 5 0.03
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (143 bp):
AATGCCGATGCCATGTCCCAAACATGGTCTTACACTGACACATCATATGTGCCGATGCATGTCCC
AGACATGTCTTACACTGACTATACAAATCGAGGCCGACGCCATGTCCCAGACATGATCTTACACT
AGCTTCACATATC
Found at i:66229511 original size:43 final size:43
Alignment explanation
Indices: 66229391--66229547 Score: 131
Period size: 43 Copynumber: 3.7 Consensus size: 43
66229381 TACACATACA
* * * *
66229391 ATGCCAATGTCCCAGACGTGGTCTTACAT-TTAACCAAATATCA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAAATCAAATAT-G
* * * * * *
66229434 ATGCCACTATCCTAGATAGGGTCTTACACG-AAATCAAATATG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAAATCAAATATG
* *
66229476 ATGCCGATGTCCCAGACATGGTCTTACATGTAAATCATAAGT-CG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAAATCA-AA-TATG
* **
66229520 ATGCCAACGTCCCAGATGTGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
66229548 CGAGAACACA
Statistics
Matches: 88, Mismatches: 22, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
42 23 0.26
43 37 0.42
44 27 0.31
45 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAAATCAAATATG
Found at i:66235624 original size:15 final size:15
Alignment explanation
Indices: 66235592--66235620 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
66235582 TTTTTCAGTT
66235592 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
66235607 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
66235621 ATTTTCGTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:66251788 original size:40 final size:40
Alignment explanation
Indices: 66251625--66251785 Score: 207
Period size: 40 Copynumber: 4.0 Consensus size: 40
66251615 CGCGTCATAA
* * * *
66251625 CCAAAGCTATCTCAAATCACACATTAAGTGCCATATGTAG
1 CCAAAGCTATCTCGAATCGCACACTAAGTGCCATATATAG
*
66251665 CCAAAGCTATCTCGATCTCGCA-ACTAAGTGCCATATATAG
1 CCAAAGCTATCTCGA-ATCGCACACTAAGTGCCATATATAG
* *
66251705 CCAAAGCTATGTCGAATCTCACACTAAGTGCCATATATAG
1 CCAAAGCTATCTCGAATCGCACACTAAGTGCCATATATAG
** * *
66251745 CTGAAGCTATATCGAATCGCACACTAGGTGCCATATATAG
1 CCAAAGCTATCTCGAATCGCACACTAAGTGCCATATATAG
66251785 C
1 C
66251786 TGATTTGTCA
Statistics
Matches: 106, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 4 0.04
40 98 0.92
41 4 0.04
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (40 bp):
CCAAAGCTATCTCGAATCGCACACTAAGTGCCATATATAG
Found at i:66263006 original size:24 final size:24
Alignment explanation
Indices: 66262974--66263024 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
66262964 AAGTCTGTCA
*
66262974 GGATAGGATTTAGGAGTTGATAAG
1 GGATAGGATTTAGGAGTAGATAAG
66262998 GGATAGGATTTAGGAGTAGATAAG
1 GGATAGGATTTAGGAGTAGATAAG
66263022 GGA
1 GGA
66263025 GGAAATCTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.39, T:0.25
Consensus pattern (24 bp):
GGATAGGATTTAGGAGTAGATAAG
Found at i:66264481 original size:27 final size:26
Alignment explanation
Indices: 66264441--66264552 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
66264431 AGGAAGCGTC
*
66264441 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
66264468 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
66264495 ATGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
66264523 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
66264549 CTGG
1 CTGG
66264553 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 7 0.10
27 50 0.69
28 15 0.21
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:66264545 original size:54 final size:54
Alignment explanation
Indices: 66264442--66264548 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 54
66264432 GGAAGCGTCC
*
66264442 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTA
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTA
* * * *
66264496 TGGTGGTTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 TGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
66264549 CTGGCAGCCA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 29 0.62
55 18 0.38
ACGTcount: A:0.18, C:0.21, G:0.22, T:0.38
Consensus pattern (54 bp):
TGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTA
Found at i:66266061 original size:43 final size:43
Alignment explanation
Indices: 66265891--66266062 Score: 120
Period size: 43 Copynumber: 4.0 Consensus size: 43
66265881 ACATAGGATC
* *
66265891 CGATATGTG-TTATCATGTAAGACCACATTTAGGACGTTGGCAT
1 CGATATTTGATTA-CATGTAAGACCACATCTAGGACGTTGGCAT
* * ** ** * * **
66265934 CGACT-TATGATTTACGTGTAAGATTATGTCTGGGACATCAGCAT
1 CGA-TATTTGA-TTACATGTAAGACCACATCTAGGACGTTGGCAT
* *
66265978 CG-TATTTGATTTCGTGTAAGACC-CTATCTAGGACAG-TGGCAT
1 CGATATTTGATTACATGTAAGACCAC-ATCTAGGAC-GTTGGCAT
* *
66266020 CGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATTTGATTACATGTAAGACCACATCTAGGACGTTGGCAT
66266063 TGTACGAGCT
Statistics
Matches: 95, Mismatches: 25, Indels: 18
0.69 0.18 0.13
Matches are distributed among these distances:
42 26 0.27
43 42 0.44
44 24 0.25
45 3 0.03
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (43 bp):
CGATATTTGATTACATGTAAGACCACATCTAGGACGTTGGCAT
Found at i:66266177 original size:19 final size:19
Alignment explanation
Indices: 66266153--66266208 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
66266143 GAAATTCAAT
66266153 GTTTGAGAATAAAAGGTAC
1 GTTTGAGAATAAAAGGTAC
* * *
66266172 GTTTGA-AATGAAA-TTCAAT
1 GTTTGAGAATAAAAGGT--AC
66266191 GTTTGAGAATAAAAGGTA
1 GTTTGAGAATAAAAGGTA
66266209 AGTATATGAG
Statistics
Matches: 28, Mismatches: 5, Indels: 8
0.68 0.12 0.20
Matches are distributed among these distances:
17 1 0.04
18 6 0.21
19 14 0.50
20 6 0.21
21 1 0.04
ACGTcount: A:0.43, C:0.04, G:0.23, T:0.30
Consensus pattern (19 bp):
GTTTGAGAATAAAAGGTAC
Found at i:66271749 original size:13 final size:14
Alignment explanation
Indices: 66271731--66271763 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
66271721 AATCAAAAAC
*
66271731 AAACATATCAATA-
1 AAACATATAAATAT
66271744 AAACATATAAATAT
1 AAACATATAAATAT
66271758 AAACAT
1 AAACAT
66271764 GGTCGAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (14 bp):
AAACATATAAATAT
Found at i:66273045 original size:43 final size:43
Alignment explanation
Indices: 66272990--66273281 Score: 264
Period size: 43 Copynumber: 6.9 Consensus size: 43
66272980 ATATCGTACA
* *
66272990 ATGCCAAC-GTCCCAAACGTGGTCTTACATGTAGTCACATATCG
1 ATGCC-ACTGTCCCAAACGTGGTCTTACACGTAATCACATATCG
* ** *
66273033 ATGCCACTGTCCCTAACAAGGTCTTACACG-AATCAAATA-CG
1 ATGCCACTGTCCCAAACGTGGTCTTACACGTAATCACATATCG
* * * *
66273074 ATGCTGA-TGTCTCAGACATGGTCTTACACGTAATCACATATCG
1 ATGC-CACTGTCCCAAACGTGGTCTTACACGTAATCACATATCG
* *
66273117 ATGCCACTGTCCTAGACAG-GGTCTTACACGTAATCACATATCG
1 ATGCCACTGTCCCAAAC-GTGGTCTTACACGTAATCACATATCG
* *
66273160 ATGCCACTGTCCTAGATA-G-GGTCTTACACG-AATCAAATA-CG
1 ATGCCACTGTCCCA-A-ACGTGGTCTTACACGTAATCACATATCG
* * * *
66273201 ATGTCGA-TGTCCCAAACATGGTTTTACACGTAATCACATATTG
1 ATG-CCACTGTCCCAAACGTGGTCTTACACGTAATCACATATCG
* *
66273244 ATGACAAC-GTCCCAAACGTGGTCTTACATGTAATCACA
1 ATG-CCACTGTCCCAAACGTGGTCTTACACGTAATCACA
66273282 CATCAAAATC
Statistics
Matches: 206, Mismatches: 29, Indels: 28
0.78 0.11 0.11
Matches are distributed among these distances:
39 1 0.00
40 1 0.00
41 46 0.22
42 37 0.18
43 120 0.58
45 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGCCACTGTCCCAAACGTGGTCTTACACGTAATCACATATCG
Found at i:66273220 original size:127 final size:127
Alignment explanation
Indices: 66272994--66273281 Score: 413
Period size: 127 Copynumber: 2.3 Consensus size: 127
66272984 CGTACAATGC
*
66272994 CAACGTCCCAAACGTGGTCTTACATGTAGTCACATATCGATGCCACTGTCCCTAACAAGGTCTTA
1 CAACGTCCCAAACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCTAACAAGGTCTTA
* *
66273059 CACGAATCAAATACGATGCTGATGTCTCAGACATGGTCTTACACGTAATCACATATCGATG-
66 CACGAATCAAATACGATGCTGATGTCCCAAACATGGTCTTACACGTAATCACATATCGATGA
* * * * * *
66273120 CCACTGTCCTAGACAG-GGTCTTACACGTAATCACATATCGATGCCACTGT-CCTAGATAGGGTC
1 CAAC-GTCCCAAAC-GTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCTA-ACAAGGTC
* *
66273183 TTACACGAATCAAATACGATG-TCGATGTCCCAAACATGGTTTTACACGTAATCACATATTGATG
63 TTACACGAATCAAATACGATGCT-GATGTCCCAAACATGGTCTTACACGTAATCACATATCGATG
66273247 A
127 A
66273248 CAACGTCCCAAACGTGGTCTTACATGTAATCACA
1 CAACGTCCCAAACGTGGTCTTACATGTAATCACA
66273282 CATCAAAATC
Statistics
Matches: 141, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
126 9 0.06
127 128 0.91
128 4 0.03
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (127 bp):
CAACGTCCCAAACGTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCTAACAAGGTCTTA
CACGAATCAAATACGATGCTGATGTCCCAAACATGGTCTTACACGTAATCACATATCGATGA
Found at i:66273267 original size:84 final size:85
Alignment explanation
Indices: 66272994--66273281 Score: 293
Period size: 84 Copynumber: 3.4 Consensus size: 85
66272984 CGTACAATGC
* * *
66272994 CAACGTCCCAAACGTGGTCTTACATGTAGTCACATATCGATGCCACTGTCCCTAACAAGGTCTTA
1 CAACGTCCCAAACGTGGTCTTACACGTAATCACATATCGATGCCACTGTCCCAAACAAGGTCTTA
*
66273059 CACG-AATCAAATA-CGATG
66 CACGTAATCACATATCGATG
* * * * * * * *
66273077 CTGATGTCTCAGACATGGTCTTACACGTAATCACATATCGATGCCACTGTCCTAGACAGGGTCTT
1 C-AACGTCCCAAACGTGGTCTTACACGTAATCACATATCGATGCCACTGTCCCAAACAAGGTCTT
66273142 ACACGTAATCACATATCGATG
65 ACACGTAATCACATATCGATG
* * * * *
66273163 CCACTGTCCTAGATA-G-GGTCTTACACG-AATCAAATA-CGATGTCGA-TGTCCCAAACATGGT
1 CAAC-GTCCCA-A-ACGTGGTCTTACACGTAATCACATATCGATG-CCACTGTCCCAAACAAGGT
* *
66273223 TTTACACGTAATCACATATTGATG
62 CTTACACGTAATCACATATCGATG
*
66273247 ACAACGTCCCAAACGTGGTCTTACATGTAATCACA
1 -CAACGTCCCAAACGTGGTCTTACACGTAATCACA
66273282 CATCAAAATC
Statistics
Matches: 165, Mismatches: 29, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
82 1 0.01
83 3 0.02
84 111 0.67
85 28 0.17
86 21 0.13
88 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (85 bp):
CAACGTCCCAAACGTGGTCTTACACGTAATCACATATCGATGCCACTGTCCCAAACAAGGTCTTA
CACGTAATCACATATCGATG
Found at i:66276229 original size:44 final size:42
Alignment explanation
Indices: 66276084--66276250 Score: 140
Period size: 43 Copynumber: 3.9 Consensus size: 42
66276074 CGAAAGCTCC
* ***
66276084 TACAATGCCAACGTCCCAGACGTGGTCTTACATGCAATCAAA
1 TACAATGCCAACGTCCCAGACATGGTCTTACACAAAATCAAA
** * *
66276126 TATTGATTCC-ACTGTCCCAGACAGGGTCTTACACAAAATCAAA
1 TA-CAATGCCAAC-GTCCCAGACATGGTCTTACACAAAATCAAA
* * * *
66276169 TACAATGCCGATGTCCCGGACATGGTATTACACATAAATCATAA
1 TACAATGCCAACGTCCCAGACATGGTCTTACACA-AAATCA-AA
* *
66276213 GT-CGATGCCAACGTCCCAGACGTGGTCTTACACGAAAA
1 -TACAATGCCAACGTCCCAGACATGGTCTTACAC-AAAA
66276251 CACATATCGG
Statistics
Matches: 97, Mismatches: 21, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
42 27 0.28
43 38 0.39
44 30 0.31
45 2 0.02
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (42 bp):
TACAATGCCAACGTCCCAGACATGGTCTTACACAAAATCAAA
Found at i:66276319 original size:32 final size:32
Alignment explanation
Indices: 66276281--66276345 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
66276271 ATGACATATG
*
66276281 TATCCTAACTATTCCTATGATTCATACGGGGC
1 TATCCTAACTATTCCTATGATTCATAAGGGGC
66276313 TATCCTAACTATTCCTATGATTCATAAGGGGC
1 TATCCTAACTATTCCTATGATTCATAAGGGGC
66276345 T
1 T
66276346 TTTCGGACAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.35
Consensus pattern (32 bp):
TATCCTAACTATTCCTATGATTCATAAGGGGC
Found at i:66278590 original size:24 final size:24
Alignment explanation
Indices: 66278490--66278590 Score: 148
Period size: 24 Copynumber: 4.2 Consensus size: 24
66278480 AAGTCTATCA
*
66278490 GGAGAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
66278514 GGATAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
66278538 GGATAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
66278562 AGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
66278586 GGAGA
1 GGAGA
66278591 ACAGTGTTGG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 71 1.00
ACGTcount: A:0.34, C:0.02, G:0.40, T:0.25
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:66280023 original size:27 final size:26
Alignment explanation
Indices: 66279985--66280093 Score: 119
Period size: 27 Copynumber: 4.0 Consensus size: 26
66279975 AAGCGTCCTA
*
66279985 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTCTGCCAC-ATTATCTGATCTG
* *
66280012 GTGGCTCTGCCATATATATCTGTTCTG
1 GTGGCTCTGCCACAT-TATCTGATCTG
*
66280039 GTGGCTCTACCACGATTATCTGTATCTG
1 GTGGCTCTGCCAC-ATTATCTG-ATCTG
* * *
66280067 GTGACTCTGTCACATTATCTGTTCTG
1 GTGGCTCTGCCACATTATCTGATCTG
66280093 G
1 G
66280094 CAGCCATGCT
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 7 0.10
27 46 0.67
28 16 0.23
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGATCTG
Found at i:66280086 original size:54 final size:54
Alignment explanation
Indices: 66279985--66280093 Score: 148
Period size: 54 Copynumber: 2.0 Consensus size: 54
66279975 AAGCGTCCTA
* * *
66279985 GTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCATATATATCTGTTCTG
1 GTGGCTATACCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTCTG
* * *
66280039 GTGGCTCTACCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTTCTG
1 GTGGCTATACCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTTCTG
66280093 G
1 G
66280094 CAGCCATGCT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
54 31 0.65
55 17 0.35
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (54 bp):
GTGGCTATACCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTCTG
Found at i:66281591 original size:20 final size:21
Alignment explanation
Indices: 66281566--66281604 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
66281556 CCGAATGTAC
66281566 TTTTCATATACA-CATATAAT
1 TTTTCATATACATCATATAAT
*
66281586 TTTTCATTTACATCATATA
1 TTTTCATATACATCATATA
66281605 TGATTTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTTCATATACATCATATAAT
Found at i:66281943 original size:43 final size:42
Alignment explanation
Indices: 66281776--66281933 Score: 144
Period size: 43 Copynumber: 3.7 Consensus size: 42
66281766 ATATTGTACA
* * * *
66281776 ATGCCAACGTCCCAAACGTGGTCTTTCATGCTATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AATCACATATCG
* *
66281819 ATGCC-AC-TGCCCTAGACAG-GGTCTTACACGAATTAAATA-CG
1 ATGCCAACGT-CCC-AGAC-GTGGTCTTACACGAATCACATATCG
* * **
66281860 ATGCCGATGTCCCAGATATGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AATCACATATCG
*
66281903 ATGCCAACGTCCCATACGTGGTCTTACACGA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGA
66281934 GAATACATAT
Statistics
Matches: 91, Mismatches: 16, Indels: 17
0.73 0.13 0.14
Matches are distributed among these distances:
41 22 0.24
42 23 0.25
43 45 0.49
44 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAATCACATATCG
Found at i:66296003 original size:17 final size:17
Alignment explanation
Indices: 66295981--66296019 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
66295971 AGGCTGTGTG
*
66295981 GGCCCTACGGGCTCGTA
1 GGCCCTACGAGCTCGTA
*
66295998 GGCCCTACGAGCTCGTG
1 GGCCCTACGAGCTCGTA
66296015 GGCCC
1 GGCCC
66296020 CACATGGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.10, C:0.38, G:0.36, T:0.15
Consensus pattern (17 bp):
GGCCCTACGAGCTCGTA
Found at i:66301960 original size:12 final size:13
Alignment explanation
Indices: 66301924--66301961 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
66301914 AAATATTTGA
66301924 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
66301937 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
66301951 CTTG-TCTTAAT
1 CTTGTTCTTAAT
66301962 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:66307304 original size:43 final size:43
Alignment explanation
Indices: 66307180--66307349 Score: 136
Period size: 43 Copynumber: 4.0 Consensus size: 43
66307170 ATATAGCTCG
* * **
66307180 TACAATGCC-ATATCCCAGATATGGTCTTAC-CTGTTATCAC-A
1 TACAATGCCAATGTCCCAGACATGGTCTTACAC-GAAATCACAA
* * * *
66307221 TATCGATG-CAACTGTCCCAGACAGGGTCTTATACGAAATCA-TA
1 TA-CAATGCCAA-TGTCCCAGACATGGTCTTACACGAAATCACAA
* **
66307264 TAACGATGCCAATGTCCTGGACATGGTCTTACAC-AGAATCACAA
1 T-ACAATGCCAATGTCCCAGACATGGTCTTACACGA-AATCACAA
* *
66307308 TACAATGCCAATGTCCCAGACATGGTCCTACATGAAATCACA
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGAAATCACA
66307350 TCTCGCTAAT
Statistics
Matches: 102, Mismatches: 17, Indels: 18
0.74 0.12 0.13
Matches are distributed among these distances:
41 3 0.03
42 6 0.06
43 85 0.83
44 8 0.08
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAA
Found at i:66309218 original size:44 final size:41
Alignment explanation
Indices: 66309167--66309289 Score: 156
Period size: 44 Copynumber: 2.9 Consensus size: 41
66309157 CGATATGTGT
*
66309167 TTTCGTGTAAGACCATGTCTAGGACATTGGCATCGACTTATGA
1 TTTCGTGTAAGACCATGTCTGGGACATTGGCATCGA-TT-TGA
* *
66309210 TTTACGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGA
1 TTT-CGTGTAAGACCATGTCTGGGACATTGGCATCG-ATTTGA
* * *
66309253 TTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCGAT
1 TTTCGTGTAAGACCATGTCTGGGACATTGGCATCGAT
66309290 ATTTGTTTAC
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
41 2 0.03
42 27 0.39
43 9 0.13
44 31 0.44
45 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.33
Consensus pattern (41 bp):
TTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATTTGA
Found at i:66309273 original size:42 final size:43
Alignment explanation
Indices: 66309170--66309328 Score: 175
Period size: 43 Copynumber: 3.7 Consensus size: 43
66309160 TATGTGTTTT
* * *
66309170 CGTGTAAGACCATGTCTAGGACATTGGCATCG-ACTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGTA-TT-TGATTTA
66309214 CGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTT-
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTTA
*
66309256 CGTGTAAGACC-CTGTCTGGGATAG-TGGCATCGATATTTG-TTTA
1 CGTGTAAGACCAC-GTCTGGGA-CGTTGGCATCG-TATTTGATTTA
* * *
66309299 CATATAAGACCACGTCTGGGATGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
66309329 TGTACGAGCT
Statistics
Matches: 101, Mismatches: 7, Indels: 15
0.82 0.06 0.12
Matches are distributed among these distances:
41 1 0.01
42 31 0.31
43 36 0.36
44 32 0.32
45 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.32
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGTATTTGATTTA
Found at i:66315563 original size:43 final size:43
Alignment explanation
Indices: 66315502--66315897 Score: 546
Period size: 43 Copynumber: 9.2 Consensus size: 43
66315492 ACATTTTTTA
* *
66315502 GTTGGCATTGATATGTGATTACGTGTAAGACCACGTTTGGGAT
1 GTTGGCATTGATATGTGATTACGTGTAAGACCACGTCTGGGAC
*
66315545 GTTGGCAGTGATATGTGATTACGTGTAAGACCACGTCTGGGAC
1 GTTGGCATTGATATGTGATTACGTGTAAGACCACGTCTGGGAC
* *
66315588 ATTGGCATTGATATCTGATTACGTGTAAGACCACGTCTGGGAC
1 GTTGGCATTGATATGTGATTACGTGTAAGACCACGTCTGGGAC
* * *
66315631 ATTGGCATTGATATGTGATTACATGTAAGACCACGTTTGGGAC
1 GTTGGCATTGATATGTGATTACGTGTAAGACCACGTCTGGGAC
*
66315674 GTTGGCATTAATATGTGATTACGTGTAAGACCACGTCTGGGAC
1 GTTGGCATTGATATGTGATTACGTGTAAGACCACGTCTGGGAC
** * * *
66315717 GTTGGCATCAATATGTGATTACATGTAAGACCATGTCTAGGAC
1 GTTGGCATTGATATGTGATTACGTGTAAGACCACGTCTGGGAC
* *
66315760 GTTGGCATTGATATGTGATTACGTGTAAGACCACATCTAGGAC
1 GTTGGCATTGATATGTGATTACGTGTAAGACCACGTCTGGGAC
* *
66315803 GTTGGCATTGATATGTGATTAAGTGTAAGACC-CTGTCTGAGAC
1 GTTGGCATTGATATGTGATTACGTGTAAGACCAC-GTCTGGGAC
* * * *
66315846 AG-TGGCATCGATATAT-ATTACATGTAAGACCACGTTTGGGAC
1 -GTTGGCATTGATATGTGATTACGTGTAAGACCACGTCTGGGAC
*
66315888 ATTGGCATTG
1 GTTGGCATTG
66315898 TACGATATGT
Statistics
Matches: 315, Mismatches: 34, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
42 28 0.09
43 286 0.91
44 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (43 bp):
GTTGGCATTGATATGTGATTACGTGTAAGACCACGTCTGGGAC
Found at i:66317840 original size:40 final size:40
Alignment explanation
Indices: 66317643--66317826 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
66317633 TGAATGATGT
* * * * *
66317643 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAACTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
66317683 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
66317723 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
66317761 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
66317802 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
66317827 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 78 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:66317848 original size:79 final size:79
Alignment explanation
Indices: 66317698--66317849 Score: 202
Period size: 79 Copynumber: 1.9 Consensus size: 79
66317688 CTAAGATCCG
* **
66317698 AAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATC
1 AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATC
66317763 CGGGTTAAGTCCCA
66 CGGGTTAAGTCCCA
* * *
66317777 AAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTAT
1 AAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTAA
66317840 ATCC-GGTTAA
63 ATCCGGGTTAA
66317850 ATTCCGAAGG
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 37 0.58
80 25 0.39
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAAATC
CGGGTTAAGTCCCA
Found at i:66325832 original size:79 final size:81
Alignment explanation
Indices: 66325696--66325880 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
66325686 TTGAATGATG
*
66325696 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
66325760 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
66325775 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
66325837 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
66325855 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
66325881 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:66325894 original size:40 final size:40
Alignment explanation
Indices: 66325697--66325880 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
66325687 TGAATGATGT
* * * *
66325697 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
66325737 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
66325777 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
66325815 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
66325856 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
66325881 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:66325902 original size:79 final size:79
Alignment explanation
Indices: 66325749--66325903 Score: 208
Period size: 79 Copynumber: 2.0 Consensus size: 79
66325739 GGACTAAGAT
* **
66325749 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
66325814 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
66325828 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
*
66325891 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
66325904 ATTTCGAAGG
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 40 0.60
80 25 0.37
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:66332239 original size:46 final size:46
Alignment explanation
Indices: 66332187--66332365 Score: 202
Period size: 46 Copynumber: 4.0 Consensus size: 46
66332177 AGTGTGCTCT
* * * *
66332187 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCACGACAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
66332233 CTGATATG--A-GTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
66332276 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** * * *
66332322 ATGACAAAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
66332366 TCACGTCAAA
Statistics
Matches: 116, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
43 38 0.33
44 1 0.01
45 1 0.01
46 76 0.66
ACGTcount: A:0.41, C:0.16, G:0.23, T:0.20
Consensus pattern (46 bp):
CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:66332671 original size:23 final size:25
Alignment explanation
Indices: 66332626--66332672 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
66332616 AATAAATATA
*
66332626 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
66332651 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
66332673 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:66336294 original size:21 final size:22
Alignment explanation
Indices: 66336252--66336294 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
66336242 TAAACGAAGT
* *
66336252 ACAATATTATTTAACTACATAA
1 ACAATATAATTTAACTAAATAA
66336274 ACAATATAATTT-ACTAAATAA
1 ACAATATAATTTAACTAAATAA
66336295 TTACATGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
ACAATATAATTTAACTAAATAA
Found at i:66339847 original size:61 final size:58
Alignment explanation
Indices: 66339743--66339854 Score: 152
Period size: 61 Copynumber: 1.9 Consensus size: 58
66339733 ATAATATATA
* **
66339743 TAATATAATATATGCATGACTTAAATGAAGCTAAATGGAATATATATGCATAATGCAT
1 TAATATAATATATGCATGACTTAAATGAAGCAAAACAGAATATATATGCATAATGCAT
**
66339801 TAATATATATATATGCGCATGACTTAAATGAAGCAAAACATTATATATATGCAT
1 TAATATA-ATATAT--GCATGACTTAAATGAAGCAAAACAGAATATATATGCAT
66339855 TAATATTAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
58 7 0.15
59 6 0.13
61 33 0.72
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (58 bp):
TAATATAATATATGCATGACTTAAATGAAGCAAAACAGAATATATATGCATAATGCAT
Found at i:66339864 original size:36 final size:36
Alignment explanation
Indices: 66339824--66339896 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
66339814 TGCGCATGAC
* *
66339824 TTAAATGAAGCAAAACATTATATATATGCATTAATA
1 TTAAATGAAGCAAAACAGTATACATATGCATTAATA
*
66339860 TTAAATGAAGCTAAACAGTATACATATGCATTAATA
1 TTAAATGAAGCAAAACAGTATACATATGCATTAATA
66339896 T
1 T
66339897 ATATATATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.33
Consensus pattern (36 bp):
TTAAATGAAGCAAAACAGTATACATATGCATTAATA
Found at i:66340013 original size:43 final size:42
Alignment explanation
Indices: 66339939--66340019 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 42
66339929 CCTGCTAATT
*
66339939 ATGGTATATATATGCAATTATGCATGACTTAAATGAAGTTAA
1 ATGGAATATATATGCAATTATGCATGACTTAAATGAAGTTAA
66339981 ATGGAATATATATGC-ATTATGCGCATGACTTAAATGAAG
1 ATGGAATATATATGCAATTAT--GCATGACTTAAATGAAG
66340020 CAAAACATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
41 5 0.14
42 14 0.39
43 17 0.47
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.33
Consensus pattern (42 bp):
ATGGAATATATATGCAATTATGCATGACTTAAATGAAGTTAA
Found at i:66340033 original size:43 final size:42
Alignment explanation
Indices: 66339942--66340077 Score: 115
Period size: 43 Copynumber: 3.3 Consensus size: 42
66339932 GCTAATTATG
** **
66339942 GTATATATATGCAATTATGCATGACTTAAATGAAGTTAAATG
1 GTATATATATGCAATTATGCATGACTTAAATGAAGCAAAACA
*
66339984 GAATATATATGC-ATTATGCGCATGACTTAAATGAAGCAAAACA
1 GTATATATATGCAATTAT--GCATGACTTAAATGAAGCAAAACA
* *
66340027 TTATATATATATGC-ATTA---AT-A-TTAAATGAAGCTAAACA
1 --GTATATATATGCAATTATGCATGACTTAAATGAAGCAAAACA
*
66340065 GTATACATATGCA
1 GTATATATATGCA
66340078 TTAATATATA
Statistics
Matches: 79, Mismatches: 10, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
36 10 0.13
38 16 0.20
39 1 0.01
40 2 0.03
41 5 0.06
42 11 0.14
43 20 0.25
45 14 0.18
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.32
Consensus pattern (42 bp):
GTATATATATGCAATTATGCATGACTTAAATGAAGCAAAACA
Found at i:66340082 original size:36 final size:37
Alignment explanation
Indices: 66340010--66340084 Score: 107
Period size: 36 Copynumber: 2.0 Consensus size: 37
66340000 TGCGCATGAC
*
66340010 TTAAATGAAGCAAAACATTATATATATATGCATTAATA
1 TTAAATGAAGCAAAACA-TATATACATATGCATTAATA
* *
66340048 TTAAATGAAGCTAAACA-GTATACATATGCATTAATA
1 TTAAATGAAGCAAAACATATATACATATGCATTAATA
66340084 T
1 T
66340085 ATATAAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 18 0.53
38 16 0.47
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.33
Consensus pattern (37 bp):
TTAAATGAAGCAAAACATATATACATATGCATTAATA
Found at i:66340147 original size:45 final size:45
Alignment explanation
Indices: 66340086--66340176 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
66340076 CATTAATATA
* **
66340086 TATAAATATGCTTGACTTAAATGAAGTTAAACCTGCTAATAATGG
1 TATAAATATGCATGACTTAAATGAAACTAAACCTGCTAATAATGG
*
66340131 TATATATATGCATGACTTAAATGAAACTAAACCTGCTAATAATGG
1 TATAAATATGCATGACTTAAATGAAACTAAACCTGCTAATAATGG
66340176 T
1 T
66340177 TAATTTAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (45 bp):
TATAAATATGCATGACTTAAATGAAACTAAACCTGCTAATAATGG
Found at i:66340276 original size:16 final size:16
Alignment explanation
Indices: 66340255--66340285 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
66340245 CAAGACAGGT
*
66340255 AGAAACATGGAAACTC
1 AGAAACATAGAAACTC
66340271 AGAAACATAGAAACT
1 AGAAACATAGAAACT
66340286 TTGATTAGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.16, G:0.16, T:0.13
Consensus pattern (16 bp):
AGAAACATAGAAACTC
Found at i:66340698 original size:21 final size:22
Alignment explanation
Indices: 66340647--66340699 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
66340637 ACAACTGACA
66340647 GTGGTTGTGGCTTGTGGAACCT
1 GTGGTTGTGGCTTGTGGAACCT
*
66340669 -TGTTTGTGGCTTGTGGAA-CT
1 GTGGTTGTGGCTTGTGGAACCT
*
66340689 GTGGTCGTGGC
1 GTGGTTGTGGC
66340700 CTCGTGGGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 2 0.07
21 25 0.93
ACGTcount: A:0.08, C:0.13, G:0.42, T:0.38
Consensus pattern (22 bp):
GTGGTTGTGGCTTGTGGAACCT
Found at i:66340866 original size:35 final size:36
Alignment explanation
Indices: 66340803--66340873 Score: 126
Period size: 35 Copynumber: 2.0 Consensus size: 36
66340793 TAAAGAAGAA
66340803 AGGAAAAATTGGGGAAGGGGGTGGGAATTTGGAACG
1 AGGAAAAATTGGGGAAGGGGGTGGGAATTTGGAACG
*
66340839 AGGAAAAATTGGGGGA-GGGGTGGGAATTTGGAACG
1 AGGAAAAATTGGGGAAGGGGGTGGGAATTTGGAACG
66340874 GTAGAACGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 19 0.56
36 15 0.44
ACGTcount: A:0.32, C:0.03, G:0.48, T:0.17
Consensus pattern (36 bp):
AGGAAAAATTGGGGAAGGGGGTGGGAATTTGGAACG
Done.