Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 167 of 770
Found at i:49459675 original size:21 final size:18
Alignment explanation
Indices: 49459637--49459691 Score: 69
Period size: 18 Copynumber: 3.0 Consensus size: 18
49459627 GGAAGAATAA
49459637 AGAAATGAAAAAAAAAAG
1 AGAAATGAAAAAAAAAAG
49459655 AGAATATGAAGAAAAACAAAG
1 AGAA-ATGAA-AAAAA-AAAG
49459676 A-AAA-GAAAAAAAAAAG
1 AGAAATGAAAAAAAAAAG
49459692 TGTTCATTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.12
17 5 0.15
18 7 0.21
19 6 0.18
20 7 0.21
21 5 0.15
ACGTcount: A:0.76, C:0.02, G:0.16, T:0.05
Consensus pattern (18 bp):
AGAAATGAAAAAAAAAAG
Found at i:49460881 original size:29 final size:29
Alignment explanation
Indices: 49460848--49460930 Score: 157
Period size: 29 Copynumber: 2.9 Consensus size: 29
49460838 ATGACGAGAT
49460848 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
49460877 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
*
49460906 TGGCACTAAGTCTGCATGCTGGAAA
1 TGGCACTAAGTGTGCATGCTGGAAA
49460931 AAATACGGCA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:49460970 original size:59 final size:58
Alignment explanation
Indices: 49460844--49460972 Score: 145
Period size: 59 Copynumber: 2.2 Consensus size: 58
49460834 TACGATGACG
* * * *
49460844 AGAT-TGGCACTAAGTGTGCATGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAA
1 AGATATGGCACTAAGTCTGCATGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAA
* **
49460901 ATATATGGCACTAAGTCTGCATGCTGGAAAAAATACGGCACTGGGTGTGCGA-GCTCGAA
1 AGATATGGCACTAAGTCTGCATGCTGG-AAAAATACGGCACTAAGTGTGC-ATGCTCGAA
* *
49460960 GGGTATGGCACTA
1 AGATATGGCACTA
49460973 TGTGTGCGGG
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
57 3 0.05
58 21 0.36
59 34 0.58
60 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.24
Consensus pattern (58 bp):
AGATATGGCACTAAGTCTGCATGCTGGAAAAATACGGCACTAAGTGTGCATGCTCGAA
Found at i:49466893 original size:67 final size:67
Alignment explanation
Indices: 49466785--49466918 Score: 268
Period size: 67 Copynumber: 2.0 Consensus size: 67
49466775 TACCCTTAGG
49466785 GTTTAATTATGAATTTGACACATGGGATTTTGATATACAATATTGATATGATATGCACATGATAT
1 GTTTAATTATGAATTTGACACATGGGATTTTGATATACAATATTGATATGATATGCACATGATAT
49466850 GT
66 GT
49466852 GTTTAATTATGAATTTGACACATGGGATTTTGATATACAATATTGATATGATATGCACATGATAT
1 GTTTAATTATGAATTTGACACATGGGATTTTGATATACAATATTGATATGATATGCACATGATAT
49466917 GT
66 GT
49466919 ATGATATGCA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.34, C:0.07, G:0.18, T:0.40
Consensus pattern (67 bp):
GTTTAATTATGAATTTGACACATGGGATTTTGATATACAATATTGATATGATATGCACATGATAT
GT
Found at i:49466923 original size:20 final size:20
Alignment explanation
Indices: 49466898--49466994 Score: 185
Period size: 20 Copynumber: 4.8 Consensus size: 20
49466888 ACAATATTGA
49466898 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
49466918 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
49466938 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
*
49466958 TACGATATGCACATGATATG
1 TATGATATGCACATGATATG
49466978 TATGATATGCACATGAT
1 TATGATATGCACATGAT
49466995 GTATTCATAA
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 75 1.00
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.34
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:49466924 original size:9 final size:9
Alignment explanation
Indices: 49466910--49466986 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
49466900 TGATATGCAC
49466910 ATGATATGT
1 ATGATATGT
*
49466919 ATGATATGCAC
1 ATGATATG--T
49466930 ATGATATGT
1 ATGATATGT
*
49466939 ATGATATGCAC
1 ATGATATG--T
49466950 ATGATATGT
1 ATGATATGT
* *
49466959 ACGATATGCAC
1 ATGATATG--T
49466970 ATGATATGT
1 ATGATATGT
49466979 ATGATATG
1 ATGATATG
49466987 CACATGATGT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:49467352 original size:32 final size:33
Alignment explanation
Indices: 49467311--49467395 Score: 102
Period size: 38 Copynumber: 2.5 Consensus size: 33
49467301 CGTTTACAGT
49467311 AAAGGCTTCGGCCCA-AT-AATATGAAATATGAA
1 AAAGGCTTCGGCCCATATCAATATGAAATATG-A
49467343 AAAGGCTTCGGCCCAGTGTTATGCAATATGAAATATGA
1 AAAGGCTTCGGCCCA----TAT-CAATATGAAATATGA
49467381 AAAGGCTTCGGCCCA
1 AAAGGCTTCGGCCCA
49467396 GTATATGTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
32 15 0.33
37 2 0.04
38 16 0.35
39 13 0.28
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.22
Consensus pattern (33 bp):
AAAGGCTTCGGCCCATATCAATATGAAATATGA
Found at i:49474252 original size:2 final size:2
Alignment explanation
Indices: 49474245--49474275 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
49474235 CCGAAAACAG
49474245 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
49474276 CTTGTTACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:49482759 original size:16 final size:16
Alignment explanation
Indices: 49482740--49482774 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
49482730 CGAAAAATCG
*
49482740 AAATGCCAAAAAGCTA
1 AAATGCCAAAAAGCCA
49482756 AAATGCCAAAAAGCCA
1 AAATGCCAAAAAGCCA
49482772 AAA
1 AAA
49482775 GTTTGGCTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.60, C:0.20, G:0.11, T:0.09
Consensus pattern (16 bp):
AAATGCCAAAAAGCCA
Found at i:49483067 original size:28 final size:28
Alignment explanation
Indices: 49482996--49483072 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 28
49482986 TGTAAAAGTA
*
49482996 ATTGGGCCTAGTGGGCCATATAGATGTG
1 ATTGGGCCTAGTGGGCCATATAGATGAG
*
49483024 ATTTGGGCCTAATGGGCCATAT-GAATGAG
1 A-TTGGGCCTAGTGGGCCATATAG-ATGAG
*
49483053 ATTGGGCCTAGTGGGTCATA
1 ATTGGGCCTAGTGGGCCATA
49483073 AGCATGTAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
28 19 0.44
29 24 0.56
ACGTcount: A:0.23, C:0.14, G:0.34, T:0.29
Consensus pattern (28 bp):
ATTGGGCCTAGTGGGCCATATAGATGAG
Found at i:49485157 original size:27 final size:26
Alignment explanation
Indices: 49485108--49485243 Score: 112
Period size: 27 Copynumber: 5.1 Consensus size: 26
49485098 AGTGGATAAG
* *
49485108 TTGTAGAATTACCAAAATACCCTTGGT
1 TTGTAAAATTACCAAAATACCC-TGAT
49485135 TTGTAAAATTACC-AAATATCCCTGAT
1 TTGTAAAATTACCAAAATA-CCCTGAT
* ** * *
49485161 TTGTGAAATTACTGAAATAACCTCGAC
1 TTGTAAAATTACCAAAATACCCT-GAT
* ** *
49485188 CTGTAAAATTACTGAAATACCCTCGAC
1 TTGTAAAATTACCAAAATACCCT-GAT
*
49485215 TTGTAAAATTACCAAAGTACCCTCGAT
1 TTGTAAAATTACCAAAATACCCT-GAT
49485242 TT
1 TT
49485244 ACATAATTAC
Statistics
Matches: 92, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
26 22 0.24
27 70 0.76
ACGTcount: A:0.36, C:0.21, G:0.12, T:0.32
Consensus pattern (26 bp):
TTGTAAAATTACCAAAATACCCTGAT
Found at i:49485278 original size:27 final size:27
Alignment explanation
Indices: 49485192--49485279 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 27
49485182 CTCGACCTGT
* * **
49485192 AAAATTACTGAAA-TACCCTCGACTTGT
1 AAAATTAC-CAAAGTACCCTCGATTTAC
49485219 AAAATTACCAAAGTACCCTCGATTTAC
1 AAAATTACCAAAGTACCCTCGATTTAC
* ***
49485246 ATAATTACCATTTTACCCTCGATTTAC
1 AAAATTACCAAAGTACCCTCGATTTAC
49485273 AAAATTA
1 AAAATTA
49485280 TAGACATACC
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
26 3 0.06
27 48 0.94
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.32
Consensus pattern (27 bp):
AAAATTACCAAAGTACCCTCGATTTAC
Found at i:49486609 original size:27 final size:26
Alignment explanation
Indices: 49486565--49486616 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
49486555 CTCGCTGCAA
*
49486565 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
49486592 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
49486617 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:49489866 original size:40 final size:40
Alignment explanation
Indices: 49489757--49489924 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
49489747 TCTTCAGAAT
* * * * *
49489757 TTAG-CCGGATATAACCACAAGCACAATTGCCTTTGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGAC
* * ** * * * *
49489796 TTAACCCGGATTTGGTAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGAC
* *
49489836 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGAAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGAC
*
49489876 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGAC
49489916 TTAGCCCGG
1 TTAGCCCGG
49489925 GTATCATTCA
Statistics
Matches: 106, Mismatches: 22, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
39 3 0.03
40 103 0.97
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGAC
Found at i:49496639 original size:27 final size:27
Alignment explanation
Indices: 49496583--49496755 Score: 141
Period size: 27 Copynumber: 6.4 Consensus size: 27
49496573 AGTGGATAAG
* * *
49496583 TTGTAGAATTACCAAAATACCCTTGGT
1 TTGTAAAATTACCAAAATACCCTCGAT
49496610 TTGTAAAATTACCAAAATATCCCT-GAT
1 TTGTAAAATTACCAAAATA-CCCTCGAT
* ** * *
49496637 TTGTGAAATTACTGAAATAACCTCGAC
1 TTGTAAAATTACCAAAATACCCTCGAT
* ** *
49496664 CTGTAAAATTACTGAAATACCCTCGAC
1 TTGTAAAATTACCAAAATACCCTCGAT
*
49496691 TTGTAAAATTACCAAAGTACCCTCGAT
1 TTGTAAAATTACCAAAATACCCTCGAT
** * ***
49496718 TTACATAATTACCATTTTACCCTCGAT
1 TTGTAAAATTACCAAAATACCCTCGAT
**
49496745 TTACAAAATTA
1 TTGTAAAATTA
49496756 TAGACATACC
Statistics
Matches: 122, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 3 0.02
27 115 0.94
28 4 0.03
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCTCGAT
Found at i:49502516 original size:30 final size:29
Alignment explanation
Indices: 49502482--49502540 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
49502472 ATTTAATACG
49502482 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTT-CCCCTA
* * *
49502512 AACTTTTGCATAATTACACTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTCCCCTA
49502541 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (29 bp):
AACTTTGGAAAAATTACACTTTTCCCCTA
Found at i:49509520 original size:93 final size:92
Alignment explanation
Indices: 49509414--49509583 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 92
49509404 CGCCCTAAGT
* *
49509414 GAACTCGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
49509479 GAGTTCGGATGCCTAGTTACATTTCAC
66 GAGTTCGGATGCCTAGTTACATTTCAC
*
49509506 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTC-GACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
49509571 CGAGTTCGGATGC
65 CGAGTTCGGATGC
49509584 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 6 0.08
93 68 0.92
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCAC
Found at i:49509580 original size:46 final size:46
Alignment explanation
Indices: 49509409--49509580 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
49509399 TAACCCGCCC
* * *
49509409 TAAGTGAACTC-GACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
49509454 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
49509502 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
49509547 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
49509581 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 11, Indels: 19
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 13 0.12
46 49 0.46
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:49510028 original size:30 final size:30
Alignment explanation
Indices: 49509994--49510053 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
49509984 ATTTAATACG
49509994 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
49510024 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
49510054 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:49517501 original size:40 final size:40
Alignment explanation
Indices: 49517365--49517507 Score: 155
Period size: 40 Copynumber: 3.5 Consensus size: 40
49517355 TAGAATGGTG
* *
49517365 TCCGGGCTAAGTCCCGAAGG-ATTTTGTGCTAAGTGACTAAA
1 TCCGGGCTAAGTCCCGAAGGCA-TTTGTGC-GAGTTACTAAA
* *
49517406 TCCGGG-TCAACTCCCGAAGGCATTTGTGCGAGTTACCAAA
1 TCCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
49517446 ACCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
49517486 TCTGGGCTAATTCCCGAGGGCA
1 TCCGGGCTAAGTCCCGAAGGCA
49517508 ACTGTGTGAA
Statistics
Matches: 86, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
40 60 0.70
41 25 0.29
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:49521192 original size:25 final size:25
Alignment explanation
Indices: 49521153--49521223 Score: 101
Period size: 25 Copynumber: 2.9 Consensus size: 25
49521143 TCTCTTTTAA
49521153 TAAA-TGGGGCAAAAGCCCTTTTCGG
1 TAAACTGGGGC-AAAGCCCTTTTCGG
49521178 TAAACTGGGGCAAAGCCCTTTTCGG
1 TAAACTGGGGCAAAGCCCTTTTCGG
* *
49521203 T-AACTGAGGCATAGCCCTTTT
1 TAAACTGGGGCAAAGCCCTTTT
49521224 GCACTTCCTC
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
24 18 0.42
25 19 0.44
26 6 0.14
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (25 bp):
TAAACTGGGGCAAAGCCCTTTTCGG
Found at i:49521213 original size:24 final size:25
Alignment explanation
Indices: 49521164--49521223 Score: 95
Period size: 24 Copynumber: 2.4 Consensus size: 25
49521154 AAATGGGGCA
*
49521164 AAAGCCCTTTTCGGTAAACTGGGGC
1 AAAGCCCTTTTCGGTAAACTGAGGC
49521189 AAAGCCCTTTTCGGT-AACTGAGGC
1 AAAGCCCTTTTCGGTAAACTGAGGC
*
49521213 ATAGCCCTTTT
1 AAAGCCCTTTT
49521224 GCACTTCCTC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
24 18 0.55
25 15 0.45
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.28
Consensus pattern (25 bp):
AAAGCCCTTTTCGGTAAACTGAGGC
Found at i:49521284 original size:11 final size:11
Alignment explanation
Indices: 49521268--49521337 Score: 71
Period size: 9 Copynumber: 6.9 Consensus size: 11
49521258 CATTATGAAT
*
49521268 ATATCATGTGC
1 ATATCATGTAC
49521279 ATATCA--TAC
1 ATATCATGTAC
*
49521288 ATATCATGTGC
1 ATATCATGTAC
49521299 ATATCA--TAC
1 ATATCATGTAC
*
49521308 ATATCATGTTC
1 ATATCATGTAC
49521319 ATATCA--TAC
1 ATATCATGTAC
49521328 ATATCATGTA
1 ATATCATGTA
49521338 TATCATAATC
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
9 24 0.50
11 24 0.50
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.37
Consensus pattern (11 bp):
ATATCATGTAC
Found at i:49521291 original size:20 final size:20
Alignment explanation
Indices: 49521268--49521344 Score: 131
Period size: 20 Copynumber: 4.0 Consensus size: 20
49521258 CATTATGAAT
49521268 ATATCATGTGCATATCATAC
1 ATATCATGTGCATATCATAC
49521288 ATATCATGTGCATATCATAC
1 ATATCATGTGCATATCATAC
*
49521308 ATATCATGTTCATATCATAC
1 ATATCATGTGCATATCATAC
49521328 ATATCATGT--ATATCATA
1 ATATCATGTGCATATCATA
49521345 ATCCCATGTA
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
18 8 0.14
20 48 0.86
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.38
Consensus pattern (20 bp):
ATATCATGTGCATATCATAC
Found at i:49521292 original size:9 final size:9
Alignment explanation
Indices: 49521278--49521344 Score: 62
Period size: 9 Copynumber: 7.0 Consensus size: 9
49521268 ATATCATGTG
49521278 CATATCATA
1 CATATCATA
*
49521287 CATATCATGTG
1 CATATCA--TA
49521298 CATATCATA
1 CATATCATA
*
49521307 CATATCATGTT
1 CATATCA--TA
49521318 CATATCATA
1 CATATCATA
*
49521327 CATATCATG
1 CATATCATA
*
49521336 TATATCATA
1 CATATCATA
49521345 ATCCCATGTA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
9 31 0.66
11 16 0.34
ACGTcount: A:0.37, C:0.19, G:0.06, T:0.37
Consensus pattern (9 bp):
CATATCATA
Found at i:49523982 original size:13 final size:13
Alignment explanation
Indices: 49523964--49523996 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
49523954 CAGTGTTGCA
49523964 CACGGGCTAAGGG
1 CACGGGCTAAGGG
49523977 CACGGGCTAAGGG
1 CACGGGCTAAGGG
49523990 CACGGGC
1 CACGGGC
49523997 GTGTCCCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.21, C:0.27, G:0.45, T:0.06
Consensus pattern (13 bp):
CACGGGCTAAGGG
Found at i:49533308 original size:16 final size:16
Alignment explanation
Indices: 49533287--49533338 Score: 104
Period size: 16 Copynumber: 3.2 Consensus size: 16
49533277 TACCAAAGTG
49533287 GGCCCGTTGGGCCATT
1 GGCCCGTTGGGCCATT
49533303 GGCCCGTTGGGCCATT
1 GGCCCGTTGGGCCATT
49533319 GGCCCGTTGGGCCATT
1 GGCCCGTTGGGCCATT
49533335 GGCC
1 GGCC
49533339 TGTTTTCGGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.06, C:0.33, G:0.38, T:0.23
Consensus pattern (16 bp):
GGCCCGTTGGGCCATT
Found at i:49533312 original size:8 final size:8
Alignment explanation
Indices: 49533287--49533338 Score: 50
Period size: 8 Copynumber: 6.5 Consensus size: 8
49533277 TACCAAAGTG
*
49533287 GGCCCGTT
1 GGCCCATT
*
49533295 GGGCCATT
1 GGCCCATT
*
49533303 GGCCCGTT
1 GGCCCATT
*
49533311 GGGCCATT
1 GGCCCATT
*
49533319 GGCCCGTT
1 GGCCCATT
*
49533327 GGGCCATT
1 GGCCCATT
49533335 GGCC
1 GGCC
49533339 TGTTTTCGGC
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.06, C:0.33, G:0.38, T:0.23
Consensus pattern (8 bp):
GGCCCATT
Found at i:49538887 original size:30 final size:29
Alignment explanation
Indices: 49538793--49538894 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
49538783 TATAGTGAAT
* * *
49538793 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
49538822 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
49538850 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
49538880 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
49538895 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:49545082 original size:30 final size:29
Alignment explanation
Indices: 49544988--49545089 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
49544978 TATAGTGAAT
* * *
49544988 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
49545017 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
49545045 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
49545075 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
49545090 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:49546865 original size:40 final size:40
Alignment explanation
Indices: 49546821--49547122 Score: 288
Period size: 40 Copynumber: 7.5 Consensus size: 40
49546811 GCTCGATTGT
* * * *
49546821 CTTCGGGACATAGCCCGG-TTATAGTGATTTGCACAATTGC
1 CTTCGGGACATAGCCCGGATT-TAGTAACTCGCACAAATGC
*
49546861 CTTCGGGA-ATTAGCCCGGATTTAGTAACTCGCATAAATGC
1 CTTCGGGACA-TAGCCCGGATTTAGTAACTCGCACAAATGC
* * * * * *
49546901 CTTCGGGACTTAACTCGGTTTTGGTAACTCACACAAATGC
1 CTTCGGGACATAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
49546941 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGGATTTAGTAAC-TCGCACAAATGC
* *
49546982 CTTCGGGACTTAGCCCGGATTTAGTAACTCGCATAAATGC
1 CTTCGGGACATAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
49547022 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGGATTTAGTAACTCGCACAAATGC
* * * *
49547062 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGGATTTAGTAAC-TCGCACAAATGC
*
49547103 CTTCGGGACTTAGCCCGGAT
1 CTTCGGGACATAGCCCGGAT
49547123 ATCATTCGAA
Statistics
Matches: 211, Mismatches: 42, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
39 3 0.01
40 146 0.69
41 58 0.27
42 4 0.02
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (40 bp):
CTTCGGGACATAGCCCGGATTTAGTAACTCGCACAAATGC
Found at i:49546998 original size:121 final size:121
Alignment explanation
Indices: 49546859--49547122 Score: 501
Period size: 121 Copynumber: 2.2 Consensus size: 121
49546849 TTGCACAATT
* *
49546859 GCCTTCGGGAATTAGCCCGGATTTAGTAACTCGCATAAATGCCTTCGGGACTTAACTCGGTTTTG
1 GCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCATAAATGCCTTCGGGACTTAACCCGGTTTTG
49546924 GTAACTCACACAAATGCCTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAA
66 GTAACTCACACAAATGCCTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAA
49546980 GCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCATAAATGCCTTCGGGACTTAACCCGGTTTTG
1 GCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCATAAATGCCTTCGGGACTTAACCCGGTTTTG
*
49547045 GTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAA
66 GTAACTCACACAAATGCCTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAA
49547101 GCCTTCGGGACTTAGCCCGGAT
1 GCCTTCGGGACTTAGCCCGGAT
49547123 ATCATTCGAA
Statistics
Matches: 140, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 140 1.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (121 bp):
GCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCATAAATGCCTTCGGGACTTAACCCGGTTTTG
GTAACTCACACAAATGCCTTCGGGAATTGACCCGGATTTAGTCACTTAGCACAAAA
Found at i:49547835 original size:2 final size:2
Alignment explanation
Indices: 49547828--49547853 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
49547818 ATGTGCAAAC
49547828 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
49547854 GCTAGAGCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49551383 original size:47 final size:47
Alignment explanation
Indices: 49551324--49551670 Score: 523
Period size: 47 Copynumber: 7.4 Consensus size: 47
49551314 GATGTACAAG
*
49551324 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* * *
49551371 GTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* *
49551418 GTGTGTATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* *
49551465 GTGCATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* * *
49551512 GTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* * * *
49551559 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* * *
49551606 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
49551653 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
49551671 TCCCGAAGGG
Statistics
Matches: 273, Mismatches: 27, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 273 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
Found at i:49553579 original size:40 final size:40
Alignment explanation
Indices: 49553524--49553795 Score: 465
Period size: 40 Copynumber: 6.8 Consensus size: 40
49553514 CAGTATGTTA
49553524 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
*
49553564 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
* * *
49553604 TATCCGGACTAGGTTCCGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
*
49553644 TATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
*
49553684 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATA
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
*
49553724 TATCCGGGCTAAGTCCCGAAGAGTATTCGTGCTGGTGATG
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
*
49553764 TATCCGGGCTAAGCCCCGAAG-GCATTCGTGCT
1 TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
49553796 TGGACAAAAT
Statistics
Matches: 219, Mismatches: 13, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
39 10 0.05
40 209 0.95
ACGTcount: A:0.21, C:0.22, G:0.31, T:0.26
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGATG
Found at i:49557430 original size:40 final size:40
Alignment explanation
Indices: 49557345--49557495 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
49557335 AATTGAATGA
* * *
49557345 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
49557385 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
49557426 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
49557465 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
49557496 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:49557509 original size:40 final size:40
Alignment explanation
Indices: 49557382--49557511 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
49557372 ATGCTGGAAA
* * * *
49557382 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
49557422 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
49557462 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
49557502 TTATATCCGG
1 TTATATCCGG
49557512 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:49560136 original size:47 final size:47
Alignment explanation
Indices: 49560077--49560707 Score: 983
Period size: 47 Copynumber: 13.4 Consensus size: 47
49560067 GATGTACAAG
* *
49560077 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
49560124 GTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
49560171 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
49560218 GTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
49560265 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
49560312 GTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
49560359 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
49560406 GTGCATATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTG--TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
49560455 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
49560502 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
49560549 GTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* * * * *
49560596 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
* *
49560643 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
49560690 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
49560708 TCCCGAAGGG
Statistics
Matches: 535, Mismatches: 47, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
47 492 0.92
49 43 0.08
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
Found at i:49560238 original size:94 final size:94
Alignment explanation
Indices: 49560077--49560707 Score: 1082
Period size: 94 Copynumber: 6.7 Consensus size: 94
49560067 GATGTACAAG
49560077 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATAAG
1 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATAAG
49560142 GCCGAATGGCCAATGTGATGAATGTGAAA
66 GCCGAATGGCCAATGTGATGAATGTGAAA
49560171 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATAAG
1 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATAAG
49560236 GCCGAATGGCCAATGTGATGAATGTGAAA
66 GCCGAATGGCCAATGTGATGAATGTGAAA
49560265 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATAAG
1 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATAAG
49560330 GCCGAATGGCCAATGTGATGAATGTGAAA
66 GCCGAATGGCCAATGTGATGAATGTGAAA
49560359 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGTGATA
1 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATA--TGTGATA
49560424 AGGCCGAATGGCCAATGTGATGAATGTGAAA
64 AGGCCGAATGGCCAATGTGATGAATGTGAAA
*
49560455 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
1 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATAAG
49560520 GCCGAATGGCCAATGTGATGAATGTGAAA
66 GCCGAATGGCCAATGTGATGAATGTGAAA
* * * * * *
49560549 GTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGAGATAAG
1 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATAAG
* * * * *
49560614 ACCTAATGGCCGATGTGATGGATGTGAAG
66 GCCGAATGGCCAATGTGATGAATGTGAAA
* * * * * *
49560643 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATAAG
49560708 TCCCGAAGGG
Statistics
Matches: 518, Mismatches: 17, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
94 425 0.82
96 93 0.18
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (94 bp):
GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATATGTGATAAG
GCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:49572370 original size:20 final size:21
Alignment explanation
Indices: 49572336--49572374 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
49572326 TTATAATATC
*
49572336 ATAAATAATATGAATAAAAAA
1 ATAAATAATAGGAATAAAAAA
49572357 ATAAA-AATAGGAATAAAA
1 ATAAATAATAGGAATAAAA
49572375 GAAGAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.21
Consensus pattern (21 bp):
ATAAATAATAGGAATAAAAAA
Found at i:49573488 original size:49 final size:48
Alignment explanation
Indices: 49573428--49573537 Score: 134
Period size: 49 Copynumber: 2.3 Consensus size: 48
49573418 AAAAATTTCA
* **
49573428 GCACTATGTGTGCAAGGTTATGCGGCACTATGTGTGC-A-AAAACTAAGTG
1 GCACTATGTGTGCAAGATTACACGGCACTATGTGTGCGAGAAAAC--A-TG
* *
49573477 GCACTATGTGTGCGAGATTACATGGCACTATGTGTGCGAGAAAACATG
1 GCACTATGTGTGCAAGATTACACGGCACTATGTGTGCGAGAAAACATG
49573525 GCACTATGTGTGC
1 GCACTATGTGTGC
49573538 GAATAAGTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
48 15 0.28
49 33 0.61
50 1 0.02
51 5 0.09
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.26
Consensus pattern (48 bp):
GCACTATGTGTGCAAGATTACACGGCACTATGTGTGCGAGAAAACATG
Found at i:49573507 original size:24 final size:24
Alignment explanation
Indices: 49573451--49573539 Score: 119
Period size: 24 Copynumber: 3.7 Consensus size: 24
49573441 AAGGTTATGC
49573451 GGCACTATGTGTGC-A-AAAACTAAGT
1 GGCACTATGTGTGCGAGAAAAC--A-T
**
49573476 GGCACTATGTGTGCGAGATTACAT
1 GGCACTATGTGTGCGAGAAAACAT
49573500 GGCACTATGTGTGCGAGAAAACAT
1 GGCACTATGTGTGCGAGAAAACAT
49573524 GGCACTATGTGTGCGA
1 GGCACTATGTGTGCGA
49573540 ATAAGTAAGA
Statistics
Matches: 58, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
24 39 0.67
25 15 0.26
26 1 0.02
27 3 0.05
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (24 bp):
GGCACTATGTGTGCGAGAAAACAT
Found at i:49573554 original size:49 final size:48
Alignment explanation
Indices: 49573451--49573563 Score: 133
Period size: 49 Copynumber: 2.3 Consensus size: 48
49573441 AAGGTTATGC
* *
49573451 GGCACTATGTGTGCAAAAACTAAGTGGCACTATGTGTGCGAGATTACAT
1 GGCACTATGTGTGCAAAAAC-AAGTGGCACTATGTGTGCGAGATAACAA
*
49573500 GGCACTATGTGTGCGAGAAAAC-A-TGGCACTATGTGTGCGA-ATAAGTAA
1 GGCACTATGTGTGC-A-AAAACAAGTGGCACTATGTGTGCGAGATAA-CAA
49573548 GAGCACTATGTGTGCA
1 G-GCACTATGTGTGCA
49573564 GACTTTCAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
47 3 0.05
48 20 0.35
49 28 0.49
50 1 0.02
51 5 0.09
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (48 bp):
GGCACTATGTGTGCAAAAACAAGTGGCACTATGTGTGCGAGATAACAA
Found at i:49586022 original size:39 final size:40
Alignment explanation
Indices: 49585964--49586143 Score: 159
Period size: 40 Copynumber: 4.5 Consensus size: 40
49585954 AATCAAGCAT
* *
49585964 CTTCGGGT-TTAG-CCGGATATAACCACTCGC-CCAAGGC
1 CTTCGGGTCTTAGCCCGGATATAACCACTAGCACAAAGGC
*** * *
49586001 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACCACTAGCACAAAGGC
* *** *
49586041 CTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACCACTAGCACAAAGGC
* * * ** *
49586081 CTTCGGATCTTAGTCCGGATGTAGTCACTTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAACCAC-TAGCACAAAGGC
*
49586122 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
49586144 CATTCGAGTA
Statistics
Matches: 118, Mismatches: 21, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
37 8 0.07
38 4 0.03
39 14 0.12
40 63 0.53
41 29 0.25
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACCACTAGCACAAAGGC
Found at i:49586126 original size:41 final size:40
Alignment explanation
Indices: 49585999--49586143 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
49585989 CTCGCCCAAG
* * *
49585999 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
*
49586039 GCCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
49586079 GCCTTC-GGATCTTAGTCCGGATGTAGTCACTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAAT
49586120 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
49586144 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:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:49589051 original size:66 final size:64
Alignment explanation
Indices: 49588931--49589061 Score: 235
Period size: 66 Copynumber: 2.0 Consensus size: 64
49588921 TTACAATGAA
49588931 TTTTCAAAGTGGAACAGGGGATCCAGAAACCGTTCTGGCCCTGTTTCACGAGAACTTTAATATC
1 TTTTCAAAGTGGAACAGGGGATCCAGAAACCGTTCTGGCCCTGTTTCACGAGAACTTTAATATC
*
49588995 TTTTCCAAAGTCGGAACAGGGGATCCAGAAACCGTTCTGGCCCTGTTTCACTAGAACTTTAATAT
1 TTTT-CAAAGT-GGAACAGGGGATCCAGAAACCGTTCTGGCCCTGTTTCACGAGAACTTTAATAT
49589060 C
64 C
49589061 T
1 T
49589062 CTTAACATAT
Statistics
Matches: 64, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
64 4 0.06
65 6 0.09
66 54 0.84
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (64 bp):
TTTTCAAAGTGGAACAGGGGATCCAGAAACCGTTCTGGCCCTGTTTCACGAGAACTTTAATATC
Found at i:49590046 original size:79 final size:81
Alignment explanation
Indices: 49589945--49590129 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
49589935 ACGACTCGCT
** * *
49589945 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
49590008 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
49590025 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
49590089 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
49590105 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49590130 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:49590129 original size:40 final size:39
Alignment explanation
Indices: 49589938--49590129 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
49589928 GGATATAACG
* ** * *
49589938 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
49589978 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
49590018 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
49590057 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
49590097 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
49590130 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:49597059 original size:75 final size:78
Alignment explanation
Indices: 49596980--49597159 Score: 231
Period size: 79 Copynumber: 2.3 Consensus size: 78
49596970 AATGTTCGAG
49596980 TGATATCCGGGCTAAGCCCGAAGGCAATTGTG-AAATTGTGACAT-GGGCTAAG-CCCGAAGGCA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGACATCGGGCTAAGTCCCGAAGGCA
49597042 ATTGTGCGAGTTA
66 ATTGTGCGAGTTA
* * * *
49597055 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGACAT-CGGGCTAAGTCCCGAAGGC
* *
49597120 ATTTGTGCGGGTTA
65 AATTGTGCGAGTTA
** * *
49597134 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
49597160 GTTTGAACGA
Statistics
Matches: 90, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
75 32 0.36
76 9 0.10
78 7 0.08
79 33 0.37
80 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.23
Consensus pattern (78 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGACATCGGGCTAAGTCCCGAAGGCA
ATTGTGCGAGTTA
Found at i:49597126 original size:40 final size:39
Alignment explanation
Indices: 49596979--49597128 Score: 216
Period size: 39 Copynumber: 3.9 Consensus size: 39
49596969 TAATGTTCGA
* *
49596979 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTG-AAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
49597017 GTGACAT--GGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
49597054 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
49597093 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
49597129 GGTTACCATA
Statistics
Matches: 100, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
36 24 0.24
37 8 0.08
38 6 0.06
39 45 0.45
40 17 0.17
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:49597144 original size:40 final size:39
Alignment explanation
Indices: 49596980--49597159 Score: 213
Period size: 39 Copynumber: 4.6 Consensus size: 39
49596970 AATGTTCGAG
* * *
49596980 TGATATCCGGGCTAAGCCCGAAGGCAATTGTG-AAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
49597018 TGACAT--GGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
49597055 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
49597094 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
49597134 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
49597160 GTTTGAACGA
Statistics
Matches: 123, Mismatches: 15, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
36 24 0.20
37 8 0.07
38 5 0.04
39 45 0.37
40 41 0.33
ACGTcount: A:0.24, C:0.21, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:49597195 original size:79 final size:79
Alignment explanation
Indices: 49597032--49597197 Score: 174
Period size: 79 Copynumber: 2.1 Consensus size: 79
49597022 ATGGGCTAAG
** * ** *
49597032 CCCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTGTGA
1 CCCGAAGGCAATTGTGCGAGTTACCATAACCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGA
* * *
49597097 TATCCGGGTTAAGT
66 TATCCGGATAAACT
* * * **
49597111 CCCGAAGGCATTTGTGCGGGTTACCATAACCGGGCTATGTCCCGAAGGCGTTTGAACGAGTAGCT
1 CCCGAAGGCAATTGTGCGAGTTACCATAACCGGGCTAAG-CCCGAAGGCAATTGAACGAGTAG-T
49597176 -ATATCCGGATAAACT
64 GATATCCGGATAAACT
49597191 -CCGAAGG
1 CCCGAAGG
49597198 TATGTGATTC
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
79 40 0.56
80 30 0.42
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (79 bp):
CCCGAAGGCAATTGTGCGAGTTACCATAACCGGGCTAAGCCCGAAGGCAATTGAACGAGTAGTGA
TATCCGGATAAACT
Found at i:49601311 original size:79 final size:81
Alignment explanation
Indices: 49601210--49601394 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
49601200 ACGACTCGCT
** * *
49601210 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
49601273 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
49601290 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
49601354 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
49601370 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49601395 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:49601394 original size:40 final size:39
Alignment explanation
Indices: 49601203--49601394 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
49601193 GGATATAACG
* ** * *
49601203 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
49601243 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
49601283 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
49601322 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
49601362 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
49601395 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:49608674 original size:39 final size:40
Alignment explanation
Indices: 49608618--49608761 Score: 193
Period size: 39 Copynumber: 3.6 Consensus size: 40
49608608 ACTCGCCAAG
* * *
49608618 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
*
49608658 GCCTTC-GGACTTAGCCCGGATATAGTTACTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
49608697 GCCTTC-GGATCTTAGTCCGGATGTAGTCACTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAAT
49608738 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
49608762 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 38 0.42
40 23 0.25
41 27 0.30
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:49612297 original size:26 final size:25
Alignment explanation
Indices: 49612134--49612318 Score: 71
Period size: 26 Copynumber: 7.4 Consensus size: 25
49612124 GAACTCTTGA
* *
49612134 TTAATGGCCCTTCGTGAGCTTCCCAT-
1 TTAATGGCTCTTTGTGAGCTT-CC-TG
* * *
49612160 TTAAAGGCTCTTAGTGAGCTTCTTG
1 TTAATGGCTCTTTGTGAGCTTCCTG
** * * *
49612185 ATTAAAAGTTATTTGTGAACTTCCTG
1 -TTAATGGCTCTTTGTGAGCTTCCTG
*
49612211 ATT-ATGGCTC-TTATGAGCTTCCTG
1 -TTAATGGCTCTTTGTGAGCTTCCTG
* * * *
49612235 CTATTGAGCTC--GGATAAGCTTCC--
1 TTAATG-GCTCTTTG-TGAGCTTCCTG
* *
49612258 -TAATAGGCTTTTTGTGAGCTTCTTG
1 TTAAT-GGCTCTTTGTGAGCTTCCTG
*
49612283 ATTAATGGCTCTTTGTGAGTTTCCTG
1 -TTAATGGCTCTTTGTGAGCTTCCTG
49612309 TTATATGGCT
1 TTA-ATGGCT
49612319 TGAGATAGGA
Statistics
Matches: 117, Mismatches: 29, Indels: 26
0.68 0.17 0.15
Matches are distributed among these distances:
22 6 0.05
23 9 0.08
24 16 0.14
25 19 0.16
26 63 0.54
27 4 0.03
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.41
Consensus pattern (25 bp):
TTAATGGCTCTTTGTGAGCTTCCTG
Found at i:49615014 original size:49 final size:49
Alignment explanation
Indices: 49614944--49615250 Score: 555
Period size: 49 Copynumber: 6.3 Consensus size: 49
49614934 CCCTTCGGGA
* *
49614944 CTTATCACAT-T-TATACACTTTCACATTGATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
49614991 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
49615040 CTTATCACATATATACACACTTTCACATTCTTCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
49615089 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
49615138 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
*
49615187 CTTATCACATATATACACACTTTCACATTCTTCACATCGGCCATTAGGC
1 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
49615236 CTTATCACATATATA
1 CTTATCACATATATA
49615251 TATCTCATAC
Statistics
Matches: 253, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
47 10 0.04
48 1 0.00
49 242 0.96
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49620369 original size:6 final size:6
Alignment explanation
Indices: 49620339--49620463 Score: 78
Period size: 6 Copynumber: 20.3 Consensus size: 6
49620329 AAGAAACATT
* * *
49620339 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * *
49620388 ATCAGA ATCAGA ATCAGA ATTAG- GTGACAAA ATTAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA
*
49620437 ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
49620464 GTGAATGTAA
Statistics
Matches: 90, Mismatches: 18, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
5 5 0.06
6 74 0.82
7 8 0.09
8 3 0.03
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:49620397 original size:31 final size:31
Alignment explanation
Indices: 49620360--49620463 Score: 154
Period size: 31 Copynumber: 3.4 Consensus size: 31
49620350 AATCAAAATG
49620360 AGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
* * *
49620391 AGAATCAGAATCAGAATTAGGTGACAAAATT
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
* *
49620422 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
*
49620453 AAAATCAGAAT
1 AGAATCAGAAT
49620464 GTGAATGTAA
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 64 1.00
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATC
Found at i:49620456 original size:37 final size:35
Alignment explanation
Indices: 49620348--49620463 Score: 99
Period size: 31 Copynumber: 3.5 Consensus size: 35
49620338 TATCAGAACT
49620348 AGAATCAAAATGAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAAAAT-AGAATCAGAATCAGAATCAGGT-AC
*
49620385 AGAATC-----AGAATCAGAATCAGAATTAGGT--
1 AGAATCAAAATAGAATCAGAATCAGAATCAGGTAC
*
49620413 -G-A-CAAAATTAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAA-TAGAATCAGAATCAGAATCAGGT-AC
49620447 AGAATCAAAATCAGAAT
1 AGAATCAAAAT-AGAAT
49620464 GTGAATGTAA
Statistics
Matches: 63, Mismatches: 3, Indels: 26
0.68 0.03 0.28
Matches are distributed among these distances:
25 1 0.02
26 1 0.02
27 1 0.02
31 41 0.65
35 1 0.02
36 2 0.03
37 16 0.25
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.19
Consensus pattern (35 bp):
AGAATCAAAATAGAATCAGAATCAGAATCAGGTAC
Found at i:49620645 original size:2 final size:2
Alignment explanation
Indices: 49620638--49620677 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
49620628 ACTAGAACAG
49620638 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
49620678 GTGTGTGTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49620968 original size:27 final size:27
Alignment explanation
Indices: 49620938--49621227 Score: 276
Period size: 27 Copynumber: 11.1 Consensus size: 27
49620928 AACACCTTAG
*
49620938 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
*
49620965 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* *
49620992 GGGTAAAATAGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * *
49621019 GGGT-AAACGGTAATTCTGTAAATCAA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * *
49621045 GGATAAAATAGTAATTTTATAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
*
49621072 GGGTAAAATGGTAATTCTGTAAATC--
1 GGGTAAAATGGTAATTTTGTAAATCGA
*
49621097 --G---AA--GTAATTTTGTAAATCAA
1 GGGTAAAATGGTAATTTTGTAAATCGA
*
49621117 AGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
** * * *
49621144 GGGTAAAACAGTAATTCTATAAATCAA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * **
49621171 GGGTAAAACGGTAATTTTATAAATTTA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * **
49621198 GGGTAAAATAGTAATTCTACAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
49621225 GGG
1 GGG
49621228 CATTTTAGTA
Statistics
Matches: 217, Mismatches: 36, Indels: 20
0.79 0.13 0.07
Matches are distributed among these distances:
18 14 0.06
20 2 0.01
22 1 0.00
23 1 0.00
25 2 0.01
26 22 0.10
27 175 0.81
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (27 bp):
GGGTAAAATGGTAATTTTGTAAATCGA
Found at i:49621006 original size:54 final size:54
Alignment explanation
Indices: 49620938--49621227 Score: 330
Period size: 54 Copynumber: 5.6 Consensus size: 54
49620928 AACACCTTAG
* *
49620938 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGA
* * *
49620992 GGGTAAAATAGTAATTCTGTAAATCGAGGGT-AAACGGTAATTCTGTAAATCAA
1 GGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGA
* * * *
49621045 GGATAAAATAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGTAAATC--
1 GGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGA
* * * * *
49621097 --G----A-AGTAATTTTGTAAATCAAAGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGA
* * * **
49621144 GGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACGGTAATTTTATAAATTTA
1 GGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGA
*
49621198 GGGTAAAATAGTAATTCTACAAATCGAGGG
1 GGGTAAAATAGTAATTCTATAAATCGAGGG
49621228 CATTTTAGTA
Statistics
Matches: 202, Mismatches: 24, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
45 39 0.19
46 1 0.00
49 1 0.00
53 49 0.24
54 112 0.55
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (54 bp):
GGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGA
Found at i:49621080 original size:80 final size:80
Alignment explanation
Indices: 49620938--49621227 Score: 328
Period size: 80 Copynumber: 3.7 Consensus size: 80
49620928 AACACCTTAG
* * ** *
49620938 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATAG
1 GGGTAAAACGGTAATTTTATAAATCAAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAATAG
49621003 TAATTCTGTAAATCGA
66 TAATTCTGTAAATC-A
* * * *
49621019 GGGT-AAACGGTAATTCTGTAAATCAAGGATAAAATAGTAATTTTATAAATCGAGGGTAAAATGG
1 GGGTAAAACGGTAATTTTATAAATCAAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAATAG
49621083 TAATTCTGTAAATC-
66 TAATTCTGTAAATCA
* * * * *
49621097 --G---AA--GTAATTTTGTAAATCAAAGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAG
1 GGGTAAAACGGTAATTTTATAAATCAAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAATAG
*
49621155 TAATTCTATAAATCAA
66 TAATTCTGTAAATC-A
** * *
49621171 GGGTAAAACGGTAATTTTATAAATTTAGGGTAAAATAGTAATTCTACAAATCGAGGG
1 GGGTAAAACGGTAATTTTATAAATCAAGGGTAAAATAGTAATTTTATAAATCGAGGG
49621228 CATTTTAGTA
Statistics
Matches: 175, Mismatches: 25, Indels: 18
0.80 0.11 0.08
Matches are distributed among these distances:
72 61 0.35
74 2 0.01
76 2 0.01
79 2 0.01
80 65 0.37
81 43 0.25
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (80 bp):
GGGTAAAACGGTAATTTTATAAATCAAGGGTAAAATAGTAATTTTATAAATCGAGGGTAAAATAG
TAATTCTGTAAATCA
Found at i:49621105 original size:45 final size:45
Alignment explanation
Indices: 49621054--49621143 Score: 144
Period size: 45 Copynumber: 2.0 Consensus size: 45
49621044 AGGATAAAAT
* *
49621054 AGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGA
1 AGTAATTTTATAAATCAAAGGTAAAATGGTAATTCTGTAAATCGA
* *
49621099 AGTAATTTTGTAAATCAAAGGTAAAATGGTAATTTTGTAAATCGA
1 AGTAATTTTATAAATCAAAGGTAAAATGGTAATTCTGTAAATCGA
49621144 GGGTAAAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.41, C:0.06, G:0.19, T:0.34
Consensus pattern (45 bp):
AGTAATTTTATAAATCAAAGGTAAAATGGTAATTCTGTAAATCGA
Found at i:49621145 original size:72 final size:72
Alignment explanation
Indices: 49621028--49621168 Score: 212
Period size: 72 Copynumber: 2.0 Consensus size: 72
49621018 AGGGTAAACG
** *
49621028 GTAATTCTGTAAATCAAGGATAAAATAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGTA
1 GTAATTCTGTAAATCAAGGATAAAATAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTATA
49621093 AATCGAA
66 AATCGAA
* * *
49621100 GTAATTTTGTAAATCAAAGG-TAAAATGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTAT
1 GTAATTCTGTAAATC-AAGGATAAAATAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTAT
49621164 AAATC
65 AAATC
49621169 AAGGGTAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
72 58 0.94
73 4 0.06
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.33
Consensus pattern (72 bp):
GTAATTCTGTAAATCAAGGATAAAATAGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTATA
AATCGAA
Found at i:49621151 original size:99 final size:98
Alignment explanation
Indices: 49621001--49621186 Score: 264
Period size: 99 Copynumber: 1.9 Consensus size: 98
49620991 AGGGTAAAAT
* * * *
49621001 AGTAATTCTGTAAATCGAGGGTAAACGGTAATTCTGTAAATCAAGGATAAAATAGTAATTTTATA
1 AGTAATTCTGTAAATCAAAGGTAAACGGTAATTCTGTAAATCAAGGATAAAACAGTAATTCTATA
* *
49621066 AATCGAGGGTAAAATGGTAATTCTGTAAATCGA
66 AATCAAGGGTAAAACGGTAATTCTGTAAATCGA
* * * * *
49621099 AGTAATTTTGTAAATCAAAGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTAT
1 AGTAATTCTGTAAATCAAAGGT-AAACGGTAATTCTGTAAATCAAGGATAAAACAGTAATTCTAT
49621164 AAATCAAGGGTAAAACGGTAATT
65 AAATCAAGGGTAAAACGGTAATT
49621187 TTATAAATTT
Statistics
Matches: 76, Mismatches: 11, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
98 19 0.25
99 57 0.75
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.31
Consensus pattern (98 bp):
AGTAATTCTGTAAATCAAAGGTAAACGGTAATTCTGTAAATCAAGGATAAAACAGTAATTCTATA
AATCAAGGGTAAAACGGTAATTCTGTAAATCGA
Found at i:49621201 original size:126 final size:125
Alignment explanation
Indices: 49620975--49621224 Score: 365
Period size: 126 Copynumber: 2.0 Consensus size: 125
49620965 GGGTAAAACG
* * * *
49620975 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAACGGTAATTCTGTAA
1 GTAATTTTGTAAATCAAAGGTAAAATAGTAATTCTGTAAATCGAGGGTAAACAGTAATTCTATAA
* * **
49621040 ATCAAGGATAAAATAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAA
66 ATCAAGGATAAAACAGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTACAAATCGAA
* *
49621100 GTAATTTTGTAAATCAAAGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATA
1 GTAATTTTGTAAATCAAAGGTAAAATAGTAATTCTGTAAATCGAGGGT-AAACAGTAATTCTATA
* * **
49621165 AATCAAGGGTAAAACGGTAATTTTATAAATTTAGGGTAAAATAGTAATTCTACAAATCGA
65 AATCAAGGATAAAACAGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTACAAATCGA
49621225 GGGCATTTTA
Statistics
Matches: 110, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
125 44 0.40
126 66 0.60
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.32
Consensus pattern (125 bp):
GTAATTTTGTAAATCAAAGGTAAAATAGTAATTCTGTAAATCGAGGGTAAACAGTAATTCTATAA
ATCAAGGATAAAACAGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTACAAATCGAA
Found at i:49624613 original size:28 final size:29
Alignment explanation
Indices: 49624581--49624679 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
49624571 ATAATAAGCC
*
49624581 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
49624609 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
49624637 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
49624666 CGCACACTTAGTGC
1 CGCACACTTAGTGC
49624680 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:49632624 original size:28 final size:29
Alignment explanation
Indices: 49632592--49632690 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
49632582 ATAATAAGCC
*
49632592 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
49632620 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
49632648 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
49632677 CGCACACTTAGTGC
1 CGCACACTTAGTGC
49632691 CGAAACCAAC
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:49636677 original size:46 final size:46
Alignment explanation
Indices: 49636624--49636799 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
49636614 TATTTGGGCA
49636624 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
49636670 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
49636717 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
49636763 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49636800 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:49636779 original size:93 final size:93
Alignment explanation
Indices: 49636620--49636791 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
49636610 GGGATATTTG
* *
49636620 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
49636685 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
49636713 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
49636778 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
49636792 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:49639769 original size:15 final size:15
Alignment explanation
Indices: 49639749--49639817 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
49639739 GTATCTTGGG
49639749 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
49639764 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
49639779 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
49639794 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
49639809 TTTCTTTAT
1 TTTCTTTAT
49639818 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:49639818 original size:30 final size:30
Alignment explanation
Indices: 49639740--49639827 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
49639730 CATAGTATCG
* * * *
49639740 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
49639770 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
49639800 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
49639828 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:49642261 original size:46 final size:46
Alignment explanation
Indices: 49642211--49642386 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
49642201 TATTTGGGCA
49642211 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
49642257 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
49642304 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
49642350 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
49642387 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:49642366 original size:93 final size:93
Alignment explanation
Indices: 49642207--49642378 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
49642197 TGGATATTTG
* *
49642207 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
49642272 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
49642300 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
49642365 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
49642379 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:49644127 original size:30 final size:29
Alignment explanation
Indices: 49644086--49644151 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 29
49644076 TGCCTCAAGT
*
49644086 TGCCGAAGCTAGTTTAAATCACACACTTAG
1 TGCCAAAGCTAGTTTAAATCACA-ACTTAG
**
49644116 TGCCAAAGCTAGTTTAAATCGTAACTTAG
1 TGCCAAAGCTAGTTTAAATCACAACTTAG
49644145 TGCCAAA
1 TGCCAAA
49644152 ACTTCCGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 13 0.39
30 20 0.61
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (29 bp):
TGCCAAAGCTAGTTTAAATCACAACTTAG
Found at i:49651412 original size:27 final size:26
Alignment explanation
Indices: 49651374--49651483 Score: 130
Period size: 27 Copynumber: 4.1 Consensus size: 26
49651364 AAGCGTCCTA
*
49651374 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTCTGCCAC-ATTATCTGATCTG
* *
49651401 GTGGCTCTGCCACATATATCTGTTCTA
1 GTGGCTCTGCCACAT-TATCTGATCTG
49651428 GTGGCTCTGCCACGATTATCTGTATCTG
1 GTGGCTCTGCCAC-ATTATCTG-ATCTG
* * *
49651456 GTGACTCTGTCACATTATCTGTTCTG
1 GTGGCTCTGCCACATTATCTGATCTG
49651482 GT
1 GT
49651484 AGCCATGCTG
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 8 0.11
27 48 0.67
28 16 0.22
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGATCTG
Found at i:49651475 original size:54 final size:54
Alignment explanation
Indices: 49651371--49651480 Score: 168
Period size: 54 Copynumber: 2.0 Consensus size: 54
49651361 AGGAAGCGTC
*
49651371 CTAGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTAGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
49651425 CTAGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTAGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
49651479 CT
1 CT
49651481 GGTAGCCATG
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.37
Consensus pattern (54 bp):
CTAGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:49654498 original size:93 final size:93
Alignment explanation
Indices: 49654385--49654556 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
49654375 GCCCATAAGT
* * * *
49654385 GAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
49654450 TGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
49654478 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAATGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
49654543 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
49654557 CAAACATCCT
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:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:49654552 original size:46 final size:46
Alignment explanation
Indices: 49654377--49654552 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
49654367 TGTAACCCGC
* * *
49654377 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
49654423 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
49654469 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
49654516 CCATAAATGAACTTGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
49654553 TGCCCAAACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 67 0.63
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:49656550 original size:15 final size:15
Alignment explanation
Indices: 49656475--49656537 Score: 76
Period size: 15 Copynumber: 4.3 Consensus size: 15
49656465 CAAAGATAAC
*
49656475 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
49656489 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
49656504 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
49656519 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
49656534 AAGA
1 AAGA
49656538 GATTCAGGAT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
14 9 0.22
15 31 0.76
16 1 0.02
ACGTcount: A:0.60, C:0.14, G:0.16, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:49660313 original size:40 final size:40
Alignment explanation
Indices: 49660268--49660435 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
49660258 CGGAATATAA
49660268 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
49660308 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
49660348 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
49660388 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
49660428 CCGGATAT
1 CCGGATAT
49660436 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:49665302 original size:39 final size:40
Alignment explanation
Indices: 49665124--49665306 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
49665114 CCGCACCAAG
* * * * * * * *
49665124 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * *
49665164 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAA-T
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCAC-AATT
*
49665204 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* * * *
49665244 GCCTTCGGGTCTTAACCCGGATATAATTTC-AGCATAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
* *
49665283 GTCTTCGGGGCTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
49665307 CATTCAATTT
Statistics
Matches: 122, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 31 0.25
40 89 0.73
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACTACTAGCACAATT
Found at i:49675796 original size:40 final size:40
Alignment explanation
Indices: 49675699--49675835 Score: 102
Period size: 40 Copynumber: 3.5 Consensus size: 40
49675689 GAATCACGTA
* * * *
49675699 CCTTCGGGAT-TTAA-CCGGATATAGCGACTCGCTCGATTG
1 CCTTCGGG-TCTTAACCCGGTTATAGTGATTCGCACGATTG
* * * *
49675738 TCTTCGGGACCTAGCCCGGTTATAGTGATTCGCACGATTG
1 CCTTCGGGTCTTAACCCGGTTATAGTGATTCGCACGATTG
* * * *
49675778 CCTTCGGGTCTTAACCCGGATT-TGGTAACTT-GCACAAATG
1 CCTTCGGGTCTTAACCCGG-TTATAGTGA-TTCGCACGATTG
*
49675818 CCTTCGGGTCTTAGCCCG
1 CCTTCGGGTCTTAACCCG
49675836 ATATAACAAC
Statistics
Matches: 77, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
39 9 0.12
40 64 0.83
41 4 0.05
ACGTcount: A:0.18, C:0.27, G:0.26, T:0.29
Consensus pattern (40 bp):
CCTTCGGGTCTTAACCCGGTTATAGTGATTCGCACGATTG
Found at i:49675867 original size:77 final size:78
Alignment explanation
Indices: 49675770--49675917 Score: 199
Period size: 77 Copynumber: 1.9 Consensus size: 78
49675760 TAGTGATTCG
* * ** * *
49675770 CACGATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGCCC
1 CACGAATGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCC
49675835 -GATATAACAACT
66 GGATATAACAACT
* * * *
49675847 CACGAATGCCTTCGGGTCTTAGCCCGGATATAATTACTAGCATAATTGCCTTCGGGACTTAGCCC
1 CACGAATGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCC
49675912 GGATAT
66 GGATAT
49675918 CATTCCAATG
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
77 55 0.92
78 5 0.08
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (78 bp):
CACGAATGCCTTCGGGTCTTAACCCGGATATAATAACTAGCACAAATGCCTTCGGGACTTAGCCC
GGATATAACAACT
Found at i:49675908 original size:40 final size:39
Alignment explanation
Indices: 49675769--49675917 Score: 160
Period size: 40 Copynumber: 3.8 Consensus size: 39
49675759 ATAGTGATTC
* * * **
49675769 GCACGATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATAAC-T
* *
49675809 GCACAAATGCCTTCGGGTCTTAGCCC-GATATAACAACT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATAACT
*
49675847 -CACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATTACT
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATAACT
* *
49675885 AGCATAATTGCCTTCGGGACTTAGCCCGGATAT
1 -GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
49675918 CATTCCAATG
Statistics
Matches: 93, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
37 22 0.24
38 13 0.14
39 9 0.10
40 49 0.53
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATAACT
Found at i:49681339 original size:40 final size:40
Alignment explanation
Indices: 49681198--49681381 Score: 180
Period size: 40 Copynumber: 4.7 Consensus size: 40
49681188 TTGAATGACG
* *
49681198 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACTAAA
* * * * *
49681238 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTTACTAAA
*
49681278 TCTGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
* * * * *
49681317 CCCGGGTTAAGTCCCGAAGGCATTTATGCGAGTCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTA-AA
*
49681358 -CCGGGCT-CGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
49681382 AGCGAGTCGT
Statistics
Matches: 117, Mismatches: 22, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
39 47 0.40
40 61 0.52
41 9 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
Found at i:49681364 original size:79 final size:81
Alignment explanation
Indices: 49681198--49681381 Score: 200
Period size: 79 Copynumber: 2.3 Consensus size: 81
49681188 TTGAATGACG
* * *
49681198 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
* *
49681262 CGTGCGAGTTAATAAA
66 CATGCGAGTCAATAAA
* * **
49681278 TCTGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
* *
49681340 TTATGCGAGTCACTATAA
65 TCATGCGAGTCAATA-AA
*
49681358 -CCGGGCT-CGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
49681382 AGCGAGTCGT
Statistics
Matches: 87, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
78 2 0.02
79 66 0.76
80 19 0.22
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CATGCGAGTCAATAAA
Found at i:49684041 original size:42 final size:44
Alignment explanation
Indices: 49683945--49684054 Score: 136
Period size: 42 Copynumber: 2.5 Consensus size: 44
49683935 TTATTATGTC
* *
49683945 AGACCACGTCTAGGACGTTGGCATCGATTTATGATTTACGTGTA
1 AGACCATGTCTAGGACATTGGCATCGATTTATGATTTACGTGTA
* *
49683989 AGACCATGTCTGGGACATTGGCATCG-TATT-TGATTT-CGTTTA
1 AGACCATGTCTAGGACATTGGCATCGAT-TTATGATTTACGTGTA
* *
49684031 AGACCCTGTCTAGGACAGTGGCAT
1 AGACCATGTCTAGGACATTGGCAT
49684055 TGAAATTTGG
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
42 26 0.45
43 7 0.12
44 25 0.43
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (44 bp):
AGACCATGTCTAGGACATTGGCATCGATTTATGATTTACGTGTA
Found at i:49684063 original size:43 final size:43
Alignment explanation
Indices: 49683945--49684089 Score: 134
Period size: 42 Copynumber: 3.4 Consensus size: 43
49683935 TTATTATGTC
* *
49683945 AGACCACGTCTAGGAC-GTTGGCATCGATTTATGATTTACGTGTA
1 AGACCATGTCTAGGACAG-TGGCATCGAATT-TGATTTACGTGTA
* * * *
49683989 AGACCATGTCTGGGACATTGGCATCGTATTTGATTT-CGTTTA
1 AGACCATGTCTAGGACAGTGGCATCGAATTTGATTTACGTGTA
* * * *
49684031 AGACCCTGTCTAGGACAGTGGCATTGAAATTTG-GTTACATGTA
1 AGACCATGTCTAGGACAGTGGCATCG-AATTTGATTTACGTGTA
* *
49684074 AGACCACGTCTGGGAC
1 AGACCATGTCTAGGAC
49684090 GTTGCATTGT
Statistics
Matches: 81, Mismatches: 17, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
42 29 0.36
43 28 0.35
44 24 0.30
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.31
Consensus pattern (43 bp):
AGACCATGTCTAGGACAGTGGCATCGAATTTGATTTACGTGTA
Found at i:49686302 original size:20 final size:21
Alignment explanation
Indices: 49686264--49686303 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
49686254 GCATGACGAT
*
49686264 AAGTTGGGCCTCGATGGGCTG
1 AAGTTGGGCCTCAATGGGCTG
49686285 AAGTTGGGCC-CAATGGGCT
1 AAGTTGGGCCTCAATGGGCT
49686304 TTCGGGCCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.17, C:0.20, G:0.40, T:0.23
Consensus pattern (21 bp):
AAGTTGGGCCTCAATGGGCTG
Found at i:49686680 original size:20 final size:20
Alignment explanation
Indices: 49686655--49686701 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
49686645 GATATGAGAT
*
49686655 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGAAATGC
49686675 ACATGATATGTATGAAATGC
1 ACATGATATGTATGAAATGC
49686695 ACATGAT
1 ACATGAT
49686702 GTAATCATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGAAATGC
Found at i:49686851 original size:25 final size:25
Alignment explanation
Indices: 49686751--49686873 Score: 185
Period size: 26 Copynumber: 4.8 Consensus size: 25
49686741 GAAGAAGTGC
49686751 AAAAGGGCTTATGGCCCAGTTTATTG
1 AAAAGGGCTTAT-GCCCAGTTTATTG
49686777 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCC-AGTTTATTG
49686803 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATG-CCCAGTTTATTG
* *
49686829 AAAAGGGCTTATGCCCAATTTATCG
1 AAAAGGGCTTATGCCCAGTTTATTG
49686854 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATG-CCCAGTT
49686874 ATTAAAGAGG
Statistics
Matches: 91, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
24 2 0.02
25 30 0.33
26 56 0.62
27 3 0.03
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.30
Consensus pattern (25 bp):
AAAAGGGCTTATGCCCAGTTTATTG
Found at i:49694769 original size:20 final size:21
Alignment explanation
Indices: 49694734--49694790 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
49694724 TGATATGTGG
49694734 GATATGATAT--ACATGAT-T
1 GATATGATATGCACATGATAT
49694752 GATATGATATGCACATGATAT
1 GATATGATATGCACATGATAT
*
49694773 G-TATGAAATGCACATGAT
1 GATATGATATGCACATGAT
49694791 GTAATCGTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 10 0.29
20 23 0.66
21 2 0.06
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (21 bp):
GATATGATATGCACATGATAT
Found at i:49694869 original size:26 final size:26
Alignment explanation
Indices: 49694840--49694963 Score: 205
Period size: 26 Copynumber: 4.8 Consensus size: 26
49694830 GAGGAAGTGC
49694840 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
49694866 AAAAGGGCTTATGCCTCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
49694892 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
49694918 AAAAGGGCTTATGCCCCAGTTTACAG
1 AAAAGGGCTTATGCCCCAGTTTATTG
49694944 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
49694964 ATTAAAGAGG
Statistics
Matches: 92, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 10 0.11
26 82 0.89
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.30
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:49695540 original size:20 final size:21
Alignment explanation
Indices: 49695511--49695549 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
49695501 TTTTCTGGGA
*
49695511 TTAATTTATTT-TTAATAACT
1 TTAATCTATTTGTTAATAACT
49695531 TTAATCTATTTGTTAATAA
1 TTAATCTATTTGTTAATAA
49695550 ATAGGCTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (21 bp):
TTAATCTATTTGTTAATAACT
Found at i:49697878 original size:27 final size:27
Alignment explanation
Indices: 49697838--49697978 Score: 155
Period size: 27 Copynumber: 5.2 Consensus size: 27
49697828 AGGAAGCGTC
49697838 CTGGTGGCTATGCCACAATTATCTAAT
1 CTGGTGGCTATGCCACAATTATCTAAT
* *
49697865 CTGGTGGCTCTGCCAC-ATATATCT-GT
1 CTGGTGGCTATGCCACAAT-TATCTAAT
49697891 CCTGGTGGCTATGCCACAATTATCTAAT
1 -CTGGTGGCTATGCCACAATTATCTAAT
* **
49697919 CTGGTGGCTTTGCCAC-ATATATCTGTT
1 CTGGTGGCTATGCCACAAT-TATCTAAT
* *
49697946 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTATGCCACAATTATCT-AAT
49697973 CTGGTG
1 CTGGTG
49697979 ACTTCGTCAC
Statistics
Matches: 97, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
26 10 0.10
27 83 0.86
28 4 0.04
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTATGCCACAATTATCTAAT
Found at i:49697917 original size:54 final size:54
Alignment explanation
Indices: 49697835--49697978 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
49697825 TGGAGGAAGC
49697835 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
*
49697889 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTTTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
* * *
49697943 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCT-AATCTGGTG
49697979 ACTTCGTCAC
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 5 0.06
54 80 0.94
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCT
Found at i:49697989 original size:27 final size:27
Alignment explanation
Indices: 49697838--49697996 Score: 136
Period size: 27 Copynumber: 5.9 Consensus size: 27
49697828 AGGAAGCGTC
*
49697838 CTGGTGGCTAT-GCCACAATTATCT-AAT
1 CTGGTGGCT-TCGCCACAA-TATCTGTAT
*
49697865 CTGGTGGC-TCTGCCACATATATCTGT-C
1 CTGGTGGCTTC-GCCACA-ATATCTGTAT
*
49697892 CTGGTGGCTAT-GCCACAATTATCT-AAT
1 CTGGTGGCT-TCGCCACAA-TATCTGTAT
*
49697919 CTGGTGGCTTTGCCACATATATCTGT-T
1 CTGGTGGCTTCGCCACA-ATATCTGTAT
49697946 CTGGTGGC-TCTGCCACAATATCTGTAT
1 CTGGTGGCTTC-GCCACAATATCTGTAT
* *
49697973 CTGGTGACTTCGTCACAATATCTG
1 CTGGTGGCTTCGCCACAATATCTG
49697997 GCAGCCTCGC
Statistics
Matches: 110, Mismatches: 8, Indels: 28
0.75 0.05 0.19
Matches are distributed among these distances:
25 1 0.01
26 11 0.10
27 93 0.85
28 4 0.04
29 1 0.01
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTTCGCCACAATATCTGTAT
Found at i:49697990 original size:81 final size:80
Alignment explanation
Indices: 49697838--49697995 Score: 205
Period size: 81 Copynumber: 2.0 Consensus size: 80
49697828 AGGAAGCGTC
*
49697838 CTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
49697903 GCCACAATTATCTAAT
66 GCCACAA-TATCTAAT
* ** *
49697919 CTGGTGGCTTTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTAATCTGGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
*
49697982 -TCGTCACAATATCT
64 AT-GCCACAATATCT
49697996 GGCAGCCTCG
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
80 16 0.24
81 52 0.76
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.35
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
GCCACAATATCTAAT
Found at i:49709552 original size:39 final size:39
Alignment explanation
Indices: 49709509--49709647 Score: 242
Period size: 39 Copynumber: 3.6 Consensus size: 39
49709499 GAATTTAAGC
* * *
49709509 CCGGATATAATTCCAGCTCATAGCTTGCGGATCTGAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
49709548 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
49709587 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
1 CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
*
49709626 CCGGATATAATTCTAGCACATA
1 CCGGATATAATTCCAGCACATA
49709648 CAATTATGAT
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 96 1.00
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.24
Consensus pattern (39 bp):
CCGGATATAATTCCAGCACATAGCCTGCGGACCTGAAGT
Found at i:49718164 original size:50 final size:50
Alignment explanation
Indices: 49718025--49718318 Score: 252
Period size: 50 Copynumber: 5.8 Consensus size: 50
49718015 AACTAAAGTT
** * *
49718025 ATCTGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AACA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
* * * * *
49718074 AT-TCGGTATACGTAATAGCCTGCACTTAGTACTAAACACGTGACCTAACC
1 ATCT-GGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
* * * * **
49718124 ATCTGATACACATAGTAGCCTGCACTTAGTACTGCACACGTGA-TTGAAGTT
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCT-AA-CC
* * *** * * * *
49718175 GTCAGGTATGTATAGTAGCCTACACTTAGTACTACATATGCGACCTAACT
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
* *
49718225 ATCTGGTACACGTAGTAGCCTACACTTAGTACTACACATGTGACCTAAAACC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACC
*** *
49718277 ATCTTAAACACATAGTAGCCTGCACATAGTACTACACATGTG
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTG
49718319 TTCTCACAGT
Statistics
Matches: 193, Mismatches: 44, Indels: 13
0.77 0.18 0.05
Matches are distributed among these distances:
48 1 0.01
49 38 0.20
50 79 0.41
51 35 0.18
52 40 0.21
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (50 bp):
ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
Found at i:49718472 original size:13 final size:14
Alignment explanation
Indices: 49718454--49718487 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
49718444 GCCACATCTC
49718454 ATATAATAACA-AA
1 ATATAATAACATAA
49718467 ATATAATAACATAA
1 ATATAATAACATAA
*
49718481 AAATAAT
1 ATATAAT
49718488 CAATTTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (14 bp):
ATATAATAACATAA
Found at i:49723974 original size:20 final size:21
Alignment explanation
Indices: 49723936--49723975 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
49723926 GCATGACGGT
*
49723936 AAGTTGGGCCTCGATGGGCTG
1 AAGTTGGGCCTCAATGGGCTG
49723957 AAGTTGGGCC-CAATGGGCT
1 AAGTTGGGCCTCAATGGGCT
49723976 TTCGGGCCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.17, C:0.20, G:0.40, T:0.23
Consensus pattern (21 bp):
AAGTTGGGCCTCAATGGGCTG
Found at i:49724333 original size:9 final size:10
Alignment explanation
Indices: 49724321--49724377 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
49724311 TATGTGGGAT
49724321 ATGATAT-AC
1 ATGATATGAC
*
49724330 ATGAT-TGAT
1 ATGATATGAC
49724339 ATGATATGCAC
1 ATGATATG-AC
*
49724350 ATGATATG-T
1 ATGATATGAC
49724359 ATGATATGCAC
1 ATGATATG-AC
49724370 ATGATATG
1 ATGATATG
49724378 TATGAATTAC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (10 bp):
ATGATATGAC
Found at i:49724353 original size:20 final size:21
Alignment explanation
Indices: 49724318--49724382 Score: 95
Period size: 20 Copynumber: 3.3 Consensus size: 21
49724308 TGATATGTGG
49724318 GATATGATAT--ACATGAT-T
1 GATATGATATGCACATGATAT
49724336 GATATGATATGCACATGATAT
1 GATATGATATGCACATGATAT
49724357 G-TATGATATGCACATGATAT
1 GATATGATATGCACATGATAT
49724377 G-TATGA
1 GATATGA
49724383 ATTACACATG
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
18 10 0.23
20 32 0.73
21 2 0.05
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.35
Consensus pattern (21 bp):
GATATGATATGCACATGATAT
Found at i:49724355 original size:11 final size:11
Alignment explanation
Indices: 49724339--49724377 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
49724329 CATGATTGAT
49724339 ATGATATGCAC
1 ATGATATGCAC
*
49724350 ATGATATG--T
1 ATGATATGCAC
49724359 ATGATATGCAC
1 ATGATATGCAC
49724370 ATGATATG
1 ATGATATG
49724378 TATGAATTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.33
11 16 0.67
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:49724390 original size:20 final size:20
Alignment explanation
Indices: 49724320--49724394 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
49724310 ATATGTGGGA
49724320 TATGATAT--ACATGAT-TG
1 TATGATATACACATGATATG
*
49724337 ATATGATATGCACATGATATG
1 -TATGATATACACATGATATG
*
49724358 TATGATATGCACATGATATG
1 TATGATATACACATGATATG
49724378 TATGA-ATTACACATGAT
1 TATGATA-TACACATGAT
49724395 GTAATCATAA
Statistics
Matches: 52, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
18 8 0.15
19 1 0.02
20 41 0.79
21 2 0.04
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.36
Consensus pattern (20 bp):
TATGATATACACATGATATG
Found at i:49724476 original size:26 final size:26
Alignment explanation
Indices: 49724444--49724540 Score: 144
Period size: 26 Copynumber: 3.8 Consensus size: 26
49724434 GAGGAAGTGC
49724444 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* *
49724470 AATAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* *
49724496 AAAAGGGCTTATG-CCCAATTTACTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
49724521 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
49724541 ATTAAAGAGG
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
24 2 0.03
25 25 0.40
26 36 0.57
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.31
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:49727572 original size:31 final size:31
Alignment explanation
Indices: 49727529--49727607 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
49727519 TTTAACGATT
49727529 ACTGGGCTGAAGCCTTTTCATAAATCAAATC
1 ACTGGGCTGAAGCCTTTTCATAAATCAAATC
* *
49727560 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCTGAAGCCTTTTCATAAATCAAATC
49727591 ACTGGGCTGAAGCCTTT
1 ACTGGGCTGAAGCCTTT
49727608 ATTGTAAACG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (31 bp):
ACTGGGCTGAAGCCTTTTCATAAATCAAATC
Found at i:49727694 original size:42 final size:42
Alignment explanation
Indices: 49727631--49727722 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
49727621 TGGCCCATAG
* *
49727631 GCCCATTTCAATAACACATGAAATATCAATGAATGTATGCAA
1 GCCCATTTCAATAACAAATGAAATACCAATGAATGTATGCAA
*
49727673 GCCCATTTCAATATCAAATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATAACAAATGAAATACCAATGAATGTATGCAA
49727715 GCCCATTT
1 GCCCATTT
49727723 GGGGAGACTA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (42 bp):
GCCCATTTCAATAACAAATGAAATACCAATGAATGTATGCAA
Found at i:49727898 original size:25 final size:25
Alignment explanation
Indices: 49727870--49727964 Score: 147
Period size: 25 Copynumber: 3.8 Consensus size: 25
49727860 CTCTTTTAAT
*
49727870 AACTGGGGCAAAACCCTTTT-GGATA
1 AACTGGGGCAAAGCCCTTTTCGG-TA
49727895 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
49727920 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
* *
49727945 AACTGGTGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
49727965 AGCACTTCCT
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
25 64 0.97
26 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:49727900 original size:50 final size:50
Alignment explanation
Indices: 49727857--49727964 Score: 132
Period size: 50 Copynumber: 2.2 Consensus size: 50
49727847 CTGGAGGCCT
49727857 AGCCTCTTTT-AAT-AACTGGGGCAAAACCCTTTT-GGATAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCAAAACCCTTTTCGG-TAAACTGGGGCAA
** * * *
49727906 AGCCCTTTTCGGTAAACTGGGGCAAAGCCCTTTTCGGTAAACTGGTGCAT
1 AGCCCTTTTCAATAAACTGGGGCAAAACCCTTTTCGGTAAACTGGGGCAA
49727956 AGCCCTTTT
1 AGCCCTTTT
49727965 AGCACTTCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
48 5 0.10
49 5 0.10
50 39 0.76
51 2 0.04
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (50 bp):
AGCCCTTTTCAATAAACTGGGGCAAAACCCTTTTCGGTAAACTGGGGCAA
Found at i:49728929 original size:54 final size:54
Alignment explanation
Indices: 49728871--49729001 Score: 156
Period size: 54 Copynumber: 2.4 Consensus size: 54
49728861 CATCCTACAA
* * ***
49728871 GGGTATTTTGGTAAATCTACAAATCAAAGGTATTTCTGTAATTTTGTAAA-TCAG
1 GGGTATTTTGGTAAATTTACAAATCAAAGGTATTTCAGTAATTTCACAAACT-AG
* ** *
49728925 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACTAG
1 GGGTATTTTGGTAAATTTACAAATCAAAGGTATTTCAGTAATTTCACAAACTAG
*
49728979 TGGTATTTTGGTAAATTTACAAA
1 GGGTATTTTGGTAAATTTACAAA
49729002 CTAGGGGTGT
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 64 0.98
55 1 0.02
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAAATTTACAAATCAAAGGTATTTCAGTAATTTCACAAACTAG
Found at i:49728948 original size:27 final size:27
Alignment explanation
Indices: 49728871--49729021 Score: 121
Period size: 27 Copynumber: 5.6 Consensus size: 27
49728861 CATCCTACAA
* * *
49728871 GGGTATTTTGGTAAATCTACAAATCAA
1 GGGTATTTTGGTAATTTTACAAATCAG
* **
49728898 AGGTATTTCT-GTAATTTTGTAAATCAG
1 GGGTATTT-TGGTAATTTTACAAATCAG
*
49728925 GGGTATTTTGGTAATTTTACAAAT-TG
1 GGGTATTTTGGTAATTTTACAAATCAG
** *
49728951 AGGGTATTTCAGTAATTTCACAAA-CTAG
1 -GGGTATTTTGGTAATTTTACAAATC-AG
* *
49728979 TGGTATTTTGGTAAATTTACAAA-CTAG
1 GGGTATTTTGGTAATTTTACAAATC-AG
*
49729006 GGGTGTTTTGGTAATT
1 GGGTATTTTGGTAATT
49729022 CTATCCCTAT
Statistics
Matches: 97, Mismatches: 22, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
26 2 0.02
27 93 0.96
28 2 0.02
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCAG
Found at i:49728984 original size:81 final size:81
Alignment explanation
Indices: 49728899--49729091 Score: 178
Period size: 81 Copynumber: 2.4 Consensus size: 81
49728889 ACAAATCAAA
*
49728899 GGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATT-T-TACAAATTGAGGGTATTTCA
1 GGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTCTATACAAATAG-GGGTATTTCA
*
49728962 GTAATTTCACAAACTAG
65 GTAATTTCACAAACGAG
* ** * * **
49728979 TGGTATTT-TGGTAAATTTACAAA-CTAGGGGTGTTTTGGTAATTCTATCCCTATAGGGGTATTT
1 -GGTATTTCT-GTAATTTTGTAAATC-AGGGGTATTTTGGTAATTCTATACAAATAGGGGTATTT
* *
49729042 TAGTAATTTCACAATCGAG
63 CAGTAATTTCACAAACGAG
*** * *
49729061 GGTAAAACGGTAATTTTGTAAATCAAGGGTA
1 GGTATTTCTGTAATTTTGTAAATCAGGGGTA
49729092 AAACAGTAAT
Statistics
Matches: 86, Mismatches: 20, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
80 2 0.02
81 53 0.62
82 26 0.30
83 5 0.06
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (81 bp):
GGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTCTATACAAATAGGGGTATTTCAG
TAATTTCACAAACGAG
Found at i:49729084 original size:27 final size:27
Alignment explanation
Indices: 49729054--49729145 Score: 139
Period size: 27 Copynumber: 3.4 Consensus size: 27
49729044 GTAATTTCAC
*
49729054 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTTTGTA
*
49729081 AATCAAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTTTGTA
* * *
49729108 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTTTGTA
49729135 AATCGAGGGTA
1 AATCGAGGGTA
49729146 CTTTGGTAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTTTGTA
Found at i:49729193 original size:28 final size:27
Alignment explanation
Indices: 49729097--49729193 Score: 74
Period size: 27 Copynumber: 3.5 Consensus size: 27
49729087 GGGTAAAACA
*** *
49729097 GTAATTTTGTAAA-TCGAGGGTAAAATA
1 GTAA-TTTGTAAAGTCGAGGGTACTTTG
*
49729124 GTAATTCTATAAA-TCGAGGGTACTTTG
1 GTAATT-TGTAAAGTCGAGGGTACTTTG
*
49729151 GTAATTTTTACAAGTCGAGGGTA-TTTCG
1 GTAATTTGTA-AAGTCGAGGGTACTTT-G
49729179 GTAATTTGGTAAAGT
1 GTAATTT-GTAAAGT
49729194 AAAGTATTCT
Statistics
Matches: 58, Mismatches: 7, Indels: 9
0.78 0.09 0.12
Matches are distributed among these distances:
26 5 0.09
27 30 0.52
28 21 0.36
29 2 0.03
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.37
Consensus pattern (27 bp):
GTAATTTGTAAAGTCGAGGGTACTTTG
Found at i:49734622 original size:20 final size:21
Alignment explanation
Indices: 49734587--49734643 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
49734577 TGATATGTGG
49734587 GATATGATAT--ACATGAT-T
1 GATATGATATGCACATGATAT
49734605 GATATGATATGCACATGATAT
1 GATATGATATGCACATGATAT
*
49734626 G-TATGAAATGCACATGAT
1 GATATGATATGCACATGAT
49734644 GTAATGATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 10 0.29
20 23 0.66
21 2 0.06
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (21 bp):
GATATGATATGCACATGATAT
Done.