Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 197 of 433
Found at i:62096387 original size:65 final size:65
Alignment explanation
Indices: 62096274--62096431 Score: 221
Period size: 65 Copynumber: 2.4 Consensus size: 65
62096264 TCAGGCGAGC
* * * ** *
62096274 CATATCAGAATGCTCAAAAAGAGCTGCGTTTGTGTCTGCAACATATGCAGGATCACAACTGATCA
1 CATAACAGGATGCTCACAAAGAGCTGCGTTTGTGTCCACAACATATGCAGGATCACAACCGATCA
62096339 CATAACAGGATGCTCACAAAGAG-TGGCGTTTGTGTCCACAACATATGCAGGATCACAACCGATC
1 CATAACAGGATGCTCACAAAGAGCT-GCGTTTGTGTCCACAACATATGCAGGATCACAACCGATC
62096403 A
65 A
*
62096404 -ATAAACAGGACGCTCACAAAGAGCTGCG
1 CAT-AACAGGATGCTCACAAAGAGCTGCG
62096432 GTAGTCGCAA
Statistics
Matches: 83, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
64 3 0.04
65 79 0.95
66 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (65 bp):
CATAACAGGATGCTCACAAAGAGCTGCGTTTGTGTCCACAACATATGCAGGATCACAACCGATCA
Found at i:62100237 original size:20 final size:21
Alignment explanation
Indices: 62100202--62100258 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
62100192 TGATACATGG
62100202 GATATGATAT--ACATGA-AT
1 GATATGATATGCACATGATAT
62100220 GATATGATATGCACATGATAT
1 GATATGATATGCACATGATAT
*
62100241 G-TATGAAATGCACATGAT
1 GATATGATATGCACATGAT
62100259 GTAATCATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 10 0.29
20 22 0.63
21 3 0.09
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.32
Consensus pattern (21 bp):
GATATGATATGCACATGATAT
Found at i:62100352 original size:26 final size:25
Alignment explanation
Indices: 62100309--62100403 Score: 122
Period size: 25 Copynumber: 3.8 Consensus size: 25
62100299 AGGAAGTCCA
*
62100309 AAAGGGC-TATGCCCCAGTTTATTGG
1 AAAGGGCTTATGCCCCAGTTTA-CGG
* *
62100334 AAAGGGCTTATGCCTCAGTTTACCG
1 AAAGGGCTTATGCCCCAGTTTACGG
*
62100359 AAAGGGCTTATGCCCCAGTTTACCGA
1 AAAGGGCTTATGCCCCAGTTTA-CGG
62100385 AAAGGGCTT-TGCCCCAGTT
1 AAAGGGCTTATGCCCCAGTT
62100404 ATTAAAAGAG
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
25 39 0.63
26 23 0.37
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.26
Consensus pattern (25 bp):
AAAGGGCTTATGCCCCAGTTTACGG
Found at i:62108301 original size:20 final size:21
Alignment explanation
Indices: 62108265--62108322 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 21
62108255 TTGATACGTG
62108265 GGATATGATAT--ACATGA-A
1 GGATATGATATGCACATGATA
62108283 GGATATGATATGCACATGATA
1 GGATATGATATGCACATGATA
*
62108304 TG-TATGATATGCACATGAT
1 GGATATGATATGCACATGAT
62108323 GTAATCATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
18 11 0.31
20 23 0.64
21 2 0.06
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (21 bp):
GGATATGATATGCACATGATA
Found at i:62108401 original size:26 final size:26
Alignment explanation
Indices: 62108372--62108534 Score: 260
Period size: 26 Copynumber: 6.3 Consensus size: 26
62108362 GAGGAAGTGC
*
62108372 AAAAGGGCTTATGCCCCTGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
62108398 AAAAGGGCTTATACCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
62108424 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
62108450 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
62108476 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
62108502 AAAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
62108525 AAAAGAGGCT
1 AAAAG-GGCT
62108535 AGGCCTCCAG
Statistics
Matches: 129, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
23 5 0.04
24 7 0.05
25 8 0.06
26 109 0.84
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:62110203 original size:30 final size:30
Alignment explanation
Indices: 62110167--62110267 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
62110157 GACAAGATTG
* * *
62110167 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
62110197 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
62110225 GCACTAAGTGTGCGAG-CTAAAAATATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
62110254 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
62110268 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
27 1 0.02
28 22 0.36
29 20 0.33
30 18 0.30
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:62111872 original size:31 final size:31
Alignment explanation
Indices: 62111830--62111893 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
62111820 TCGTTAAACG
*
62111830 AAAGGCGTCGGCCCAATAATATTAAATATGA
1 AAAGGCGTCGGCCCAATAATATGAAATATGA
* * **
62111861 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCGTCGGCCCAATAATATGAAATATGA
62111892 AA
1 AA
62111894 TATGAAATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCGTCGGCCCAATAATATGAAATATGA
Found at i:62111892 original size:7 final size:7
Alignment explanation
Indices: 62111880--62111907 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
62111870 GGCCCAGTGT
62111880 TATGAAA
1 TATGAAA
62111887 TATGAAA
1 TATGAAA
62111894 TATGAAA
1 TATGAAA
62111901 TATGAAA
1 TATGAAA
62111908 AGGCTTCAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (7 bp):
TATGAAA
Found at i:62117992 original size:40 final size:40
Alignment explanation
Indices: 62117896--62118074 Score: 214
Period size: 40 Copynumber: 4.5 Consensus size: 40
62117886 CGAATGATGT
* * * * *
62117896 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* * *
62117937 CCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
62117977 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
62118017 CCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACTATAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
62118057 CCGGGCTATGTCCCGAAG
1 CCGGGTTAAGTCCCGAAG
62118075 ACAATCGAGC
Statistics
Matches: 118, Mismatches: 20, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
40 94 0.80
41 24 0.20
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:62118036 original size:80 final size:81
Alignment explanation
Indices: 62117896--62118074 Score: 261
Period size: 80 Copynumber: 2.2 Consensus size: 81
62117886 CGAATGATGT
* *
62117896 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
*
62117961 GTGCGAGTTACCAAAA
66 GTGCGAATTACCAAAA
* * * *
62117977 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAATTCCCGAAGGCAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* *
62118041 GTGCGAATTACTATAA
66 GTGCGAATTACCAAAA
*
62118057 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
62118075 ACAATCGAGC
Statistics
Matches: 87, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
80 61 0.70
81 26 0.30
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATTACCAAAA
Found at i:62118099 original size:80 final size:80
Alignment explanation
Indices: 62117930--62118114 Score: 212
Period size: 80 Copynumber: 2.3 Consensus size: 80
62117920 GTGCTAAGTG
* * * *
62117930 ACTAAATCCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAG
* * * * *
62117995 GCATTTGTGCGAGTT
66 ACAATCGAGCGAGTC
* * *
62118010 ACTAAATCCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACTATAACCGGGCTATGTCCCGAAG
1 ACTAAATCCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAG
*
62118075 ACAATCGAGCTAGTC
66 ACAATCGAGCGAGTC
* *
62118090 GCTATATCC-GGTTAAATT-CCGAAGG
1 ACTAAATCCGGGTT-AATTCCCGAAGG
62118115 TACGTGATTC
Statistics
Matches: 89, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 11 0.12
80 78 0.88
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (80 bp):
ACTAAATCCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAG
ACAATCGAGCGAGTC
Found at i:62126046 original size:40 final size:40
Alignment explanation
Indices: 62125950--62126128 Score: 214
Period size: 40 Copynumber: 4.5 Consensus size: 40
62125940 CGAATGATGT
* * * * *
62125950 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* * *
62125991 CCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
*
62126031 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
62126071 CCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACTATAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* *
62126111 CCGGGCTATGTCCCGAAG
1 CCGGGTTAAGTCCCGAAG
62126129 ACAATCGAGC
Statistics
Matches: 118, Mismatches: 20, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
40 94 0.80
41 24 0.20
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:62126090 original size:80 final size:81
Alignment explanation
Indices: 62125950--62126128 Score: 261
Period size: 80 Copynumber: 2.2 Consensus size: 81
62125940 CGAATGATGT
* *
62125950 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
*
62126015 GTGCGAGTTACCAAAA
66 GTGCGAATTACCAAAA
* * * *
62126031 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAATTCCCGAAGGCAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
* *
62126095 GTGCGAATTACTATAA
66 GTGCGAATTACCAAAA
*
62126111 CCGGGCTATGTCCCGAAG
1 CCGGGCTAAGTCCCGAAG
62126129 ACAATCGAGC
Statistics
Matches: 87, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
80 61 0.70
81 26 0.30
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGGTCAATTCCCGAAGGCAATT
GTGCGAATTACCAAAA
Found at i:62126153 original size:80 final size:80
Alignment explanation
Indices: 62125984--62126168 Score: 212
Period size: 80 Copynumber: 2.3 Consensus size: 80
62125974 GTGCTAAGTG
* * * *
62125984 ACTAAATCCGGGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAG
1 ACTAAATCCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAG
* * * * *
62126049 GCATTTGTGCGAGTT
66 ACAATCGAGCGAGTC
* * *
62126064 ACTAAATCCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACTATAACCGGGCTATGTCCCGAAG
1 ACTAAATCCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAG
*
62126129 ACAATCGAGCTAGTC
66 ACAATCGAGCGAGTC
* *
62126144 GCTATATCC-GGTTAAATT-CCGAAGG
1 ACTAAATCCGGGTT-AATTCCCGAAGG
62126169 TACGTGATTC
Statistics
Matches: 89, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 11 0.12
80 78 0.88
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (80 bp):
ACTAAATCCGGGTTAATTCCCGAAGGCAATTGTGCGAATTACCAAAACCGGGCTAAGTCCCGAAG
ACAATCGAGCGAGTC
Found at i:62137174 original size:40 final size:40
Alignment explanation
Indices: 62137072--62137255 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
62137062 AAATTGAATG
* * * * * *
62137072 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
62137112 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
62137152 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
62137192 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
62137232 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
62137256 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
39 3 0.03
40 114 0.96
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:62141768 original size:15 final size:16
Alignment explanation
Indices: 62141748--62141777 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
62141738 TGGTGCCTTA
62141748 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
62141763 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
62141778 AGCATGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:62145695 original size:28 final size:28
Alignment explanation
Indices: 62145616--62145699 Score: 96
Period size: 28 Copynumber: 3.0 Consensus size: 28
62145606 GTGAGCATGA
* **
62145616 ATATGAATGTGACTGGGCCTAACAGGCC
1 ATATGAATGTGAATGGGCCTAATGGGCC
* *
62145644 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGA-ATGGGCCTAATGGGCC
* *
62145673 ATATGAATATGAATGGGCTTAATGGGC
1 ATATGAATGTGAATGGGCCTAATGGGC
62145700 TAGATACAGG
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
28 24 0.51
29 23 0.49
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (28 bp):
ATATGAATGTGAATGGGCCTAATGGGCC
Found at i:62153090 original size:29 final size:28
Alignment explanation
Indices: 62153028--62153126 Score: 105
Period size: 28 Copynumber: 3.5 Consensus size: 28
62153018 TCAGCTACAC
* *
62153028 TAGGACAAATTAATT-ACATGTTTAAAA
1 TAGGACACATTAATTAACATGTATAAAA
*
62153055 CTTGGACACATTAATTAACATGTA-ACTAAA
1 -TAGGACACATTAATTAACATGTATA--AAA
*
62153085 TAGGACACATTAA-TAACTTGTATAAAA
1 TAGGACACATTAATTAACATGTATAAAA
*
62153112 TAAGACACATTAATT
1 TAGGACACATTAATT
62153127 CGGTTGGAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
27 15 0.25
28 23 0.38
29 19 0.32
30 3 0.05
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.31
Consensus pattern (28 bp):
TAGGACACATTAATTAACATGTATAAAA
Found at i:62153120 original size:27 final size:27
Alignment explanation
Indices: 62153059--62153125 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 27
62153049 TTAAAACTTG
*
62153059 GACACATTAATTAACATGTAACTAAATAG
1 GACACATTAA-TAACATGTAAC-AAATAA
*
62153088 GACACATTAATAACTTGTATA-AAATAA
1 GACACATTAATAACATGTA-ACAAATAA
62153115 GACACATTAAT
1 GACACATTAAT
62153126 TCGGTTGGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 16 0.46
28 8 0.23
29 11 0.31
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.28
Consensus pattern (27 bp):
GACACATTAATAACATGTAACAAATAA
Found at i:62160994 original size:28 final size:27
Alignment explanation
Indices: 62160924--62161008 Score: 127
Period size: 27 Copynumber: 3.1 Consensus size: 27
62160914 ACTAGAGTAC
*
62160924 CCCTATGTATGTAAAATTACCATTATA
1 CCCTATGTATGCAAAATTACCATTATA
62160951 CCCTATGTATGCAAAATTACCATTATA
1 CCCTATGTATGCAAAATTACCATTATA
*
62160978 CCCTTATGTATGCAAAATGACC-TCTATA
1 CCC-TATGTATGCAAAATTACCAT-TATA
62161006 CCC
1 CCC
62161009 CTAGGGTTAA
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
27 30 0.56
28 24 0.44
ACGTcount: A:0.34, C:0.25, G:0.08, T:0.33
Consensus pattern (27 bp):
CCCTATGTATGCAAAATTACCATTATA
Found at i:62161178 original size:27 final size:28
Alignment explanation
Indices: 62161117--62161206 Score: 103
Period size: 27 Copynumber: 3.2 Consensus size: 28
62161107 AGGAAGCGTC
*
62161117 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* * **
62161145 CTAGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
62161172 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
62161201 CTGGTG
1 CTGGTG
62161207 ACTCTATCAC
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 22 0.44
28 21 0.42
29 7 0.14
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:62161217 original size:29 final size:28
Alignment explanation
Indices: 62161163--62161217 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 28
62161153 CCTGCCACGT
* *
62161163 ATATCTGTTCTGGTGGCACTGCCACAAA
1 ATATCTGTTCTGGTGACACTACCACAAA
* *
62161191 ATATCTGTATCTGGTGACTCTATCACA
1 ATATCTGT-TCTGGTGACACTACCACA
62161218 TTTTCTATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 8 0.36
29 14 0.64
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (28 bp):
ATATCTGTTCTGGTGACACTACCACAAA
Found at i:62162319 original size:11 final size:10
Alignment explanation
Indices: 62162291--62162324 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
62162281 AGCCTGTAAG
62162291 TATTCTGAAT
1 TATTCTGAAT
*
62162301 TTTTCTGAAT
1 TATTCTGAAT
62162311 ATATTCTGAAT
1 -TATTCTGAAT
62162322 TAT
1 TAT
62162325 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:62168769 original size:28 final size:28
Alignment explanation
Indices: 62168729--62168816 Score: 160
Period size: 28 Copynumber: 3.2 Consensus size: 28
62168719 TGTACTAGAG
62168729 TACCCCTATGTATGCAAAATTACCATTA
1 TACCCCTATGTATGCAAAATTACCATTA
62168757 TACCCCTATGTATGCAAAATTACCATTA
1 TACCCCTATGTATGCAAAATTACCATTA
*
62168785 TACCCCTATGTATGCAAAATGACC-TTA
1 TACCCCTATGTATGCAAAATTACCATTA
62168812 TACCC
1 TACCC
62168817 TAGGGTTAAT
Statistics
Matches: 59, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
27 8 0.14
28 51 0.86
ACGTcount: A:0.34, C:0.27, G:0.08, T:0.31
Consensus pattern (28 bp):
TACCCCTATGTATGCAAAATTACCATTA
Found at i:62168963 original size:27 final size:27
Alignment explanation
Indices: 62168923--62169011 Score: 110
Period size: 27 Copynumber: 3.2 Consensus size: 27
62168913 AGGAAGCGTC
62168923 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
62168951 C-GGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
62168977 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
62169006 CTGGTG
1 CTGGTG
62169012 ACTCTGTCAC
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
26 9 0.17
27 27 0.51
28 10 0.19
29 7 0.13
ACGTcount: A:0.20, C:0.25, G:0.24, T:0.31
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:62169022 original size:29 final size:28
Alignment explanation
Indices: 62168933--62169022 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
62168923 CTGGTGGCTA
* * *
62168933 TGCCACAAATTATCTGTTC-GGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
* *
62168960 TGCCAC-ATATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
62168987 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
62169016 TGTCACA
1 TGCCACA
62169023 TTTTCTGTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 10 0.19
27 19 0.36
28 9 0.17
29 15 0.28
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:62172120 original size:47 final size:49
Alignment explanation
Indices: 62171894--62172159 Score: 450
Period size: 49 Copynumber: 5.5 Consensus size: 49
62171884 AGTCTGTACA
*
62171894 TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 TGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
62171943 TGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 TGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
*
62171992 TGAAAGTGTGTATATATGTGATAAGGCCAAATGGCCGATGTGATGAATG
1 TGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
*
62172041 TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 TGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
* *
62172090 TG-AAG-GTGTATATATGTGATAAGGCTTAATGGCCAATGTGATGAATG
1 TGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
*
62172137 TGAAA--GTGTATAAATGTGATAAG
1 TGAAAGTGTGTATATATGTGATAAG
62172160 TCCCGAAGGG
Statistics
Matches: 208, Mismatches: 8, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
47 58 0.28
48 5 0.02
49 145 0.70
ACGTcount: A:0.33, C:0.07, G:0.29, T:0.30
Consensus pattern (49 bp):
TGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
Found at i:62172820 original size:2 final size:2
Alignment explanation
Indices: 62172813--62172840 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
62172803 TATTCGAAGG
62172813 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
62172841 GACAGCCAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:62174387 original size:43 final size:43
Alignment explanation
Indices: 62174168--62174380 Score: 399
Period size: 43 Copynumber: 5.0 Consensus size: 43
62174158 AGAGCAGTTA
*
62174168 TGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTG
1 TGCCGGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTG
62174211 TGCCGGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTG
1 TGCCGGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTG
62174254 TGCCGGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTG
1 TGCCGGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTG
62174297 TGCCGGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTG
1 TGCCGGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTG
* *
62174340 TGCCGGTGATATGTATTCGGGTCTTCGTGCCTAGCAGGCTT
1 TGCCGGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTT
62174381 AATGCCGATG
Statistics
Matches: 167, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 167 1.00
ACGTcount: A:0.13, C:0.23, G:0.32, T:0.31
Consensus pattern (43 bp):
TGCCGGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTG
Found at i:62174482 original size:29 final size:29
Alignment explanation
Indices: 62174440--62174572 Score: 92
Period size: 29 Copynumber: 4.7 Consensus size: 29
62174430 CTTTAACCGA
*
62174440 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTATGTGTGCGAGATCAGTAAATGAG
* ** **
62174469 GCACTGTGTGTGCGA-ATTCCTTAACCGA-
1 GCACTATGTGTGCGAGA-TCAGTAAATGAG
* *
62174497 GCACTATGTGAGCGAGATCGGTAAATGAG
1 GCACTATGTGTGCGAGATCAGTAAATGAG
* * * *** **
62174526 GCACTGTGTATGCGAGTTCTCCAACCGA-
1 GCACTATGTGTGCGAGATCAGTAAATGAG
62174554 GCACTATGTGTGCGAGATC
1 GCACTATGTGTGCGAGATC
62174573 GGTCAGTGGG
Statistics
Matches: 78, Mismatches: 23, Indels: 7
0.72 0.21 0.06
Matches are distributed among these distances:
28 37 0.47
29 41 0.53
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (29 bp):
GCACTATGTGTGCGAGATCAGTAAATGAG
Found at i:62174506 original size:28 final size:28
Alignment explanation
Indices: 62174424--62174568 Score: 89
Period size: 29 Copynumber: 5.1 Consensus size: 28
62174414 ATTACCGTAT
62174424 GAATTCCTTTAACCGAGCACTATGTGTGC
1 GAATTCC-TTAACCGAGCACTATGTGTGC
** ** *
62174453 GAGA-TCAGTAATTGAGGCACTGTGTGTGC
1 GA-ATTCCTTAACCGA-GCACTATGTGTGC
*
62174482 GAATTCCTTAACCGAGCACTATGTGAGC
1 GAATTCCTTAACCGAGCACTATGTGTGC
** ** * *
62174510 GAGA-TCGGTAAATGAGGCACTGTGTATGC
1 GA-ATTCCTTAACCGA-GCACTATGTGTGC
* *
62174539 GAGTT-CTCCAACCGAGCACTATGTGTGC
1 GAATTCCT-TAACCGAGCACTATGTGTGC
62174567 GA
1 GA
62174569 GATCGGTCAG
Statistics
Matches: 83, Mismatches: 26, Indels: 15
0.67 0.21 0.12
Matches are distributed among these distances:
28 39 0.47
29 43 0.52
30 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (28 bp):
GAATTCCTTAACCGAGCACTATGTGTGC
Found at i:62174513 original size:57 final size:57
Alignment explanation
Indices: 62174424--62174572 Score: 219
Period size: 57 Copynumber: 2.6 Consensus size: 57
62174414 ATTACCGTAT
* *
62174424 GAATTCCTTTAACCGAGCACTATGTGTGCGAGATCAGTAATTGAGGCACTGTGTGTGC
1 GAATTCC-TTAACCGAGCACTATGTGTGCGAGATCAGTAAATGAGGCACTGTGTATGC
* *
62174482 GAATTCCTTAACCGAGCACTATGTGAGCGAGATCGGTAAATGAGGCACTGTGTATGC
1 GAATTCCTTAACCGAGCACTATGTGTGCGAGATCAGTAAATGAGGCACTGTGTATGC
* *
62174539 GAGTT-CTCCAACCGAGCACTATGTGTGCGAGATC
1 GAATTCCT-TAACCGAGCACTATGTGTGCGAGATC
62174573 GGTCAGTGGG
Statistics
Matches: 83, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
56 2 0.02
57 74 0.89
58 7 0.08
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (57 bp):
GAATTCCTTAACCGAGCACTATGTGTGCGAGATCAGTAAATGAGGCACTGTGTATGC
Found at i:62174569 original size:28 final size:27
Alignment explanation
Indices: 62174433--62174572 Score: 102
Period size: 28 Copynumber: 5.0 Consensus size: 27
62174423 TGAATTCCTT
*
62174433 TAACCGAGCACTATGTGTGCGAGATCAG
1 TAACCGAGCACTATGTGTGCGAGATC-C
** *
62174461 TAATTGAGGCACTGTGTGTGCGA-ATTCC
1 TAACCGA-GCACTATGTGTGCGAGA-TCC
* *
62174489 TTAACCGAGCACTATGTGAGCGAGATCGG
1 -TAACCGAGCACTATGTGTGCGAGATC-C
** * * *
62174518 TAAATGAGGCACTGTGTATGCGAGTTCTC
1 TAACCGA-GCACTATGTGTGCGAGATC-C
*
62174547 CAACCGAGCACTATGTGTGCGAGATC
1 TAACCGAGCACTATGTGTGCGAGATC
62174573 GGTCAGTGGG
Statistics
Matches: 83, Mismatches: 23, Indels: 12
0.70 0.19 0.10
Matches are distributed among these distances:
28 42 0.51
29 41 0.49
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.25
Consensus pattern (27 bp):
TAACCGAGCACTATGTGTGCGAGATCC
Found at i:62176602 original size:2 final size:2
Alignment explanation
Indices: 62176597--62176627 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
62176587 CATATATAGG
62176597 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
62176628 GTATGCCTTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:62178114 original size:47 final size:49
Alignment explanation
Indices: 62177888--62178153 Score: 441
Period size: 49 Copynumber: 5.5 Consensus size: 49
62177878 AGTCTGTACA
* *
62177888 TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGACGTGATGAATG
1 TGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
62177937 TGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 TGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
*
62177986 TGAAAGTGTGTATATATGTGATAAGGCCAAATGGCCGATGTGATGAATG
1 TGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
*
62178035 TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 TGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
* *
62178084 TG-AAG-GTGTATATATGTGATAAGGCTTAATGGCCAATGTGATGAATG
1 TGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
*
62178131 TGAAA--GTGTATAAATGTGATAAG
1 TGAAAGTGTGTATATATGTGATAAG
62178154 TCCCGAAGGG
Statistics
Matches: 207, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
47 58 0.28
48 5 0.02
49 144 0.70
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
TGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
Found at i:62178815 original size:2 final size:2
Alignment explanation
Indices: 62178808--62178835 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
62178798 TATTCGAAGG
62178808 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
62178836 AGACAGCCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:62185401 original size:46 final size:46
Alignment explanation
Indices: 62185259--62185404 Score: 129
Period size: 46 Copynumber: 3.2 Consensus size: 46
62185249 TTTGTGCGCT
* * * *
62185259 AGTGTAAGACATGTCTGGAACATGTATCAGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGA-GATGAGAGCC
* * ** * *
62185305 AGTGTAAGACCATG--TAGGACATGGCATCGGAAAT-GAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAG-CCTCGAGATGAGAGCC
*
62185351 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGAAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGAGAGCC
62185397 AGTGTAAG
1 AGTGTAAG
62185405 CCAGTGTAAG
Statistics
Matches: 76, Mismatches: 17, Indels: 14
0.71 0.16 0.13
Matches are distributed among these distances:
45 11 0.14
46 53 0.70
47 12 0.16
ACGTcount: A:0.33, C:0.18, G:0.29, T:0.21
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATGAGAGCC
Found at i:62185507 original size:48 final size:45
Alignment explanation
Indices: 62185406--62185523 Score: 159
Period size: 48 Copynumber: 2.6 Consensus size: 45
62185396 CAGTGTAAGC
* *
62185406 CAGTGTAAGA-CATGTCTGGGACATGCATTGGCTACGAGATGTGT
1 CAGTGTAAGACCATGTCTGGGACATGCATCGGCTACGAGAGGTGT
62185450 CAGTGTAAGACCATGTCTGGGACATAGCATCGG-TACGTATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACAT-GCATCGGCTACG---AGAGGTGT
*
62185498 CAGTGTAAGACCATGTGTGGGACATG
1 CAGTGTAAGACCATGTCTGGGACATG
62185524 ACATTAGCAC
Statistics
Matches: 66, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
44 10 0.15
45 18 0.27
46 6 0.09
47 1 0.02
48 31 0.47
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.25
Consensus pattern (45 bp):
CAGTGTAAGACCATGTCTGGGACATGCATCGGCTACGAGAGGTGT
Found at i:62195229 original size:47 final size:49
Alignment explanation
Indices: 62195158--62195476 Score: 265
Period size: 47 Copynumber: 6.7 Consensus size: 49
62195148 TTATTTGTAC
62195158 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-ATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATTATGAGA
** * *
62195204 GCTAGTGTAAGACCATGTCTGGGACAT-GCATTAGCCTCGA-GATGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATTATG-AGA
* * * * * *
62195251 GCCAGTGTAAGA-CATGTTTGGGACAT-GTATCGGCTACGA-GATGTG-
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATTATGAGA
* * *
62195296 TC-AGTGTAAGACCATGTCTGGGACATGGCATCAG-CACGGATATGTGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-GAT-TATGAGA
* * * * *
62195345 GCTAGTGTAAGACCATTTCTAGGACATGGCGTCGGCCTCGATT-TCGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATTAT-GAGA
* * ** *
62195394 GTTAGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGATGGAT-A-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGAT-TATGAGA
*
62195441 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
62195477 ATTATATCCT
Statistics
Matches: 220, Mismatches: 37, Indels: 30
0.77 0.13 0.10
Matches are distributed among these distances:
44 9 0.04
45 16 0.07
46 44 0.20
47 69 0.31
48 14 0.06
49 34 0.15
50 32 0.15
51 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (49 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATTATGAGA
Found at i:62205117 original size:45 final size:44
Alignment explanation
Indices: 62205068--62205234 Score: 132
Period size: 45 Copynumber: 3.8 Consensus size: 44
62205058 AGGATTTTTG
* *
62205068 ATATGTGTTCTCGTGTATGACCCTATCTGGGACATTGGCATCGAT
1 ATATGTGTT-TCGTGTAAGACCCTGTCTGGGACATTGGCATCGAT
* * * *
62205113 ATATGTGATTACGTGTAAGACCATGTTTGGGACATCGGCATCG-T
1 ATATGTG-TTTCGTGTAAGACCCTGTCTGGGACATTGGCATCGAT
* * *
62205157 AT-T-TGATAT-GTGTAAGACCCTGTCAGGGACAGTGGCATCG--
1 ATATGTG-TTTCGTGTAAGACCCTGTCTGGGACATTGGCATCGAT
* * *
62205197 ATATGTGATTACATGTAAGACCAC-GTCTGGGACGTTGG
1 ATATGTG-TTTCGTGTAAGACC-CTGTCTGGGACATTGG
62205235 TGTTGTACGA
Statistics
Matches: 98, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
40 2 0.02
41 27 0.28
42 8 0.08
43 21 0.21
44 4 0.04
45 34 0.35
46 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (44 bp):
ATATGTGTTTCGTGTAAGACCCTGTCTGGGACATTGGCATCGAT
Found at i:62205186 original size:41 final size:41
Alignment explanation
Indices: 62205079--62205229 Score: 144
Period size: 41 Copynumber: 3.5 Consensus size: 41
62205069 TATGTGTTCT
* *
62205079 CGTGTATGACCCTATCTGGGACATTGGCATCGATATATGTGATTA
1 CGTGTAAGACCCTGTCTGGGACA-TGGCATCGATAT-T-TGA-TA
* *
62205124 CGTGTAAGACCATGTTTGGGACATCGGCATCG-TATTTGATA
1 CGTGTAAGACCCTGTCTGGGACAT-GGCATCGATATTTGATA
* * *
62205165 TGTGTAAGACCCTGTCAGGGACAGTGGCATCGATATGTGATTA
1 CGTGTAAGACCCTGTCTGGGACA-TGGCATCGATATTTGA-TA
*
62205208 CATGTAAGACCAC-GTCTGGGAC
1 CGTGTAAGACC-CTGTCTGGGAC
62205230 GTTGGTGTTG
Statistics
Matches: 89, Mismatches: 12, Indels: 12
0.79 0.11 0.11
Matches are distributed among these distances:
41 28 0.31
42 10 0.11
43 20 0.22
44 5 0.06
45 26 0.29
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (41 bp):
CGTGTAAGACCCTGTCTGGGACATGGCATCGATATTTGATA
Found at i:62208439 original size:40 final size:40
Alignment explanation
Indices: 62208394--62208573 Score: 274
Period size: 40 Copynumber: 4.5 Consensus size: 40
62208384 TTCGAATGAT
62208394 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
62208434 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
* *
62208474 ATCCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
* * *
62208514 ATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTACTATA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTA-A
*
62208555 A-CCGGGCT-ATGTCCCGAAG
1 ATCCGGGTTAAT-TCCCGAAG
62208574 ACAATCGAGC
Statistics
Matches: 129, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
39 1 0.01
40 126 0.98
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAATTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:62216202 original size:40 final size:39
Alignment explanation
Indices: 62216157--62216261 Score: 176
Period size: 38 Copynumber: 2.7 Consensus size: 39
62216147 TTCGAATGAT
62216157 ATCCGGGTTAATTCCCGAAGGCATTTGTACGAGTTACTAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTACGAGTTAC-AA
*
62216197 ATCCGGGTTAATTCCCGAAGGCA-TTGTGCGAGTTACAA
1 ATCCGGGTTAATTCCCGAAGGCATTTGTACGAGTTACAA
*
62216235 ATCCGGGTTAAGTCCCGAAGGCATTTG
1 ATCCGGGTTAATTCCCGAAGGCATTTG
62216262 CGCGAATTAC
Statistics
Matches: 62, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
38 24 0.39
39 15 0.24
40 23 0.37
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (39 bp):
ATCCGGGTTAATTCCCGAAGGCATTTGTACGAGTTACAA
Found at i:62216251 original size:38 final size:39
Alignment explanation
Indices: 62216157--62216273 Score: 173
Period size: 38 Copynumber: 3.0 Consensus size: 39
62216147 TTCGAATGAT
*
62216157 ATCCGGGTTAATTCCCGAAGGCATTTGTACGAGTTACTAA
1 ATCCGGGTTAATTCCCGAAGGCA-TTGTGCGAGTTACTAA
62216197 ATCCGGGTTAATTCCCGAAGGCATTGTGCGAGTTAC-AA
1 ATCCGGGTTAATTCCCGAAGGCATTGTGCGAGTTACTAA
* * *
62216235 ATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTACTA
1 ATCCGGGTTAATTCCCGAAGGCA-TTGTGCGAGTTACTA
62216274 TACCGGGCTA
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
38 24 0.34
39 23 0.32
40 24 0.34
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.27
Consensus pattern (39 bp):
ATCCGGGTTAATTCCCGAAGGCATTGTGCGAGTTACTAA
Found at i:62216306 original size:78 final size:78
Alignment explanation
Indices: 62216157--62216307 Score: 180
Period size: 78 Copynumber: 1.9 Consensus size: 78
62216147 TTCGAATGAT
* * * * * *
62216157 ATCCGGGTTAATTCCCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAATTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTTGCACGAATTACTAAATCCGGGCTAATTCCCGAAGACATC
*
62216222 GTGCGAGTTACAA
66 GAGCGAGTTACAA
* * *
62216235 ATCCGGGTTAAGTCCCGAAGGCATTTGCGCGAATTACTATA-CCGGGCT-ATGTCCTGAAGACAA
1 ATCCGGGTTAAGTCCCGAAGGCATTTGCACGAATTACTAAATCCGGGCTAAT-TCCCGAAGAC-A
62216298 TCGAGCGAGT
64 TCGAGCGAGT
62216308 AGTGTATCCG
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
76 2 0.03
77 14 0.23
78 45 0.74
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (78 bp):
ATCCGGGTTAAGTCCCGAAGGCATTTGCACGAATTACTAAATCCGGGCTAATTCCCGAAGACATC
GAGCGAGTTACAA
Found at i:62219384 original size:40 final size:39
Alignment explanation
Indices: 62219318--62219464 Score: 131
Period size: 39 Copynumber: 3.8 Consensus size: 39
62219308 AAATTGAATG
*
62219318 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-TGCTGGAAATT
* * ****
62219357 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-TGCTGGAAATT
* * *
62219397 ACATCCGGGCTAAGACCCGAAGGC-ATTCG-TGCGAGTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTTGCTG-GA-AATT
*
62219436 CTATCCGGGCTAAGACCCGAAGGC-ATTTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTTG
62219465 TGCACGTGAT
Statistics
Matches: 86, Mismatches: 19, Indels: 6
0.77 0.17 0.05
Matches are distributed among these distances:
37 1 0.01
38 2 0.02
39 43 0.50
40 40 0.47
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTTGCTGGAAATT
Found at i:62227349 original size:40 final size:40
Alignment explanation
Indices: 62227283--62227433 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
62227273 AAATTGAATG
* * *
62227283 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
62227322 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
62227362 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
62227402 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
62227434 ACAGTCGATC
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:62234274 original size:40 final size:40
Alignment explanation
Indices: 62234230--62234358 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
62234220 TGCTGGAAAT
* * *
62234230 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
* *
62234270 TATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGAC
* * *
62234310 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGAC
62234350 TATATCCGG
1 TATATCCGG
62234359 TTATATTCCG
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
39 4 0.05
40 71 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGAC
Found at i:62238429 original size:42 final size:42
Alignment explanation
Indices: 62238368--62238448 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
62238358 TAATTATGGA
*
62238368 CACTTAGTATGCAAAATTGAGATACCTTCGGTTATATATTTG
1 CACTTAGTATGCAAAATTGAGATACCTTCGGCTATATATTTG
* * * *
62238410 CACTTAGTGTGCGAGATTGAGATAGCTTCGGCTATATAT
1 CACTTAGTATGCAAAATTGAGATACCTTCGGCTATATAT
62238449 ATACATTGGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (42 bp):
CACTTAGTATGCAAAATTGAGATACCTTCGGCTATATATTTG
Found at i:62238467 original size:48 final size:44
Alignment explanation
Indices: 62238368--62238499 Score: 130
Period size: 48 Copynumber: 3.0 Consensus size: 44
62238358 TAATTATGGA
* * *
62238368 CACTTAGTATGCAAAATTGAGATACCTTCGG-T-TATATATTTG
1 CACTTAGTGTGCGAAATTGAGATAGCTTCGGCTATATATATTTG
*
62238410 CACTTAGTGTGCGAGATTGAGATAGCTTCGGCTATATATATACATTGG
1 CACTTAGTGTGCGAAATTGAGATAGCTTCGGCTATATATAT---TT-G
* *
62238458 CACTTAGTGTACGAAATT-AGTATAGCTACGGCTAT-T-TATTTG
1 CACTTAGTGTGCGAAATTGAG-ATAGCTTCGGCTATATATATTTG
62238500 GTACTAAGTG
Statistics
Matches: 76, Mismatches: 7, Indels: 14
0.78 0.07 0.14
Matches are distributed among these distances:
42 28 0.37
43 3 0.04
44 7 0.09
46 3 0.04
47 5 0.07
48 30 0.39
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.36
Consensus pattern (44 bp):
CACTTAGTGTGCGAAATTGAGATAGCTTCGGCTATATATATTTG
Found at i:62240909 original size:43 final size:42
Alignment explanation
Indices: 62240755--62240925 Score: 168
Period size: 43 Copynumber: 4.0 Consensus size: 42
62240745 GATTACCGAG
* * *
62240755 ATGTGATTACATGTAAGACCATGTCTAGGACATTAGCATTGT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGT
* *
62240797 ATTGTGATTACGTGTAAGACCATATCTGGGACATTGGCATCGTT
1 A-TGTGATTACATGTAAGACCATATCTGGGACATTGGCATTG-T
* * * * *
62240841 ATATGAATT-CGTATAA-ATCCCTATCTGGGACAGTGGCATTGAT
1 ATGTG-ATTACATGTAAGA-CCATATCTGGGACATTGGCATTG-T
* *
62240884 ATGTGATCACATGTAAGACCATATCTGGGATA-TGGCATTGT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGT
62240925 A
1 A
62240926 CAAGCTTAAT
Statistics
Matches: 106, Mismatches: 17, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
41 2 0.02
42 12 0.11
43 86 0.81
44 6 0.06
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGT
Found at i:62242939 original size:46 final size:46
Alignment explanation
Indices: 62242792--62243053 Score: 194
Period size: 46 Copynumber: 5.6 Consensus size: 46
62242782 TTATTTGTGT
* *
62242792 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGA
* * * *
62242838 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGAGA
* * * *
62242886 TCTAGTGTAAGACATGTTTAGGACATGCATCAGCCTCGAGATGTA-A
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGA
** * * *
62242932 GCTAGTGTAAGACATGTCTGGGACATATATAGG-CTACGCGATGTG-
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGAGA
* * * * * *
62242977 TC-AGTTTAAGACCATGTATGGGACATGGCATCGGCATGGATATGTGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGA--TGAGA
62243026 GCTAGTGTAAGACCATGT-TCGGGACATG
1 GCTAGTGTAAGA-CATGTCT-GGGACATG
62243054 GCGCCAGCCT
Statistics
Matches: 166, Mismatches: 36, Indels: 25
0.73 0.16 0.11
Matches are distributed among these distances:
44 8 0.05
45 16 0.10
46 63 0.38
47 28 0.17
48 26 0.16
49 4 0.02
50 21 0.13
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGA
Found at i:62244272 original size:20 final size:21
Alignment explanation
Indices: 62244233--62244272 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
62244223 TCATAGTGAA
*
62244233 CCACACGGGCATGTTGCCCTT
1 CCACACGAGCATGTTGCCCTT
*
62244254 CCACACGAGCGTG-TGCCCT
1 CCACACGAGCATGTTGCCCT
62244273 GTTTTTAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.15, C:0.40, G:0.25, T:0.20
Consensus pattern (21 bp):
CCACACGAGCATGTTGCCCTT
Found at i:62249027 original size:15 final size:15
Alignment explanation
Indices: 62249007--62249075 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
62248997 GTATCTTGGG
62249007 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
62249022 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
62249037 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
62249052 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
62249067 TTTCTTTAT
1 TTTCTTTAT
62249076 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:62249076 original size:30 final size:30
Alignment explanation
Indices: 62248998--62249085 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
62248988 CATAGTATCG
* * * *
62248998 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
62249028 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
62249058 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
62249086 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:62251482 original size:46 final size:45
Alignment explanation
Indices: 62251432--62251607 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
62251422 TGTTTGGGCA
62251432 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
62251478 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
62251525 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
62251571 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62251608 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:62251587 original size:93 final size:93
Alignment explanation
Indices: 62251428--62251599 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
62251418 AGGATGTTTG
* *
62251428 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
62251493 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
62251521 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
62251586 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
62251600 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:62254455 original size:29 final size:29
Alignment explanation
Indices: 62254422--62254524 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
62254412 CCTCCGAACT
** * * *
62254422 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
62254451 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
62254480 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
62254509 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
62254525 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:62256772 original size:15 final size:16
Alignment explanation
Indices: 62256752--62256788 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
62256742 ATATTGTATC
*
62256752 ATATCAAATTCA-CAT
1 ATATCAAATACATCAT
62256767 ATATCAAATACATCAT
1 ATATCAAATACATCAT
62256783 AT-TCAA
1 ATATCAA
62256789 CATTTTATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 15 0.75
16 5 0.25
ACGTcount: A:0.49, C:0.19, G:0.00, T:0.32
Consensus pattern (16 bp):
ATATCAAATACATCAT
Found at i:62262339 original size:40 final size:40
Alignment explanation
Indices: 62262284--62262493 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
62262274 AACATTGGAA
62262284 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
62262324 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
62262364 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
62262404 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
62262443 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
62262484 CTATATCCGG
1 ATATATCCGG
62262494 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:62270474 original size:40 final size:40
Alignment explanation
Indices: 62270419--62270628 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
62270409 AACATTGGAA
62270419 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
62270459 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
62270499 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
62270539 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
62270578 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
62270619 CTATATCCGG
1 ATATATCCGG
62270629 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:62274131 original size:93 final size:93
Alignment explanation
Indices: 62273972--62274279 Score: 474
Period size: 93 Copynumber: 3.3 Consensus size: 93
62273962 ATATTTAAGT
* * *
62273972 TCCGAACTCGTTGAATTGAGTCCGAGTTCGTGAGATTTAACTAGGCATCGGAGCTCATTGAGTTG
1 TCCGAACTCGTTGAATTGAGTCTGAGTTCGTGAGATGTAACTAGGCATCGGAGCTCGTTGAGTTG
*
62274037 AGTCCGAGTTCACTTATGGATGTGAATG
66 AGTCTGAGTTCACTTATGGATGTGAATG
*** *
62274065 TCCGAACTCGTTGAATCCTGTCTGAGTTCGTGAGATGTAACTAGGCATCCGAGCTCGTTGAGTTG
1 TCCGAACTCGTTGAATTGAGTCTGAGTTCGTGAGATGTAACTAGGCATCGGAGCTCGTTGAGTTG
62274130 AGTCTGAGTTCACTTATGGATGTGAATG
66 AGTCTGAGTTCACTTATGGATGTGAATG
* *
62274158 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAGGCATCGGAACTCGTTGAGTTG
1 TCCGAACTCGTTGAATTGAGTCTGAGTTCGTGAGATGTAACTAGGCATCGGAGCTCGTTGAGTTG
*
62274223 AGTCTGAGTTCACTTATGGATGCGAATG
66 AGTCTGAGTTCACTTATGGATGTGAATG
* * *
62274251 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAA-CTCGTTGAATTGAGTCTGAGTTC
62274280 ACTTATGGGC
Statistics
Matches: 197, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
92 4 0.02
93 193 0.98
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (93 bp):
TCCGAACTCGTTGAATTGAGTCTGAGTTCGTGAGATGTAACTAGGCATCGGAGCTCGTTGAGTTG
AGTCTGAGTTCACTTATGGATGTGAATG
Found at i:62274135 original size:47 final size:47
Alignment explanation
Indices: 62273972--62274233 Score: 229
Period size: 47 Copynumber: 5.6 Consensus size: 47
62273962 ATATTTAAGT
* * *
62273972 TCCGAACTCGTTGAATTGAGTCCGAGTTCGTGAGATTTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAGGCA
* * * * * *
62274019 TCGGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--G--
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATGT-AACTAGGCA
* ***
62274065 TCCGAACTCGTTGAATCCTGTCTGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAGGCA
* * *
62274112 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAA-T--G--
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATGT-AACTAGGCA
62274158 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAGGCA
*
62274205 TCGGAACTCGTTGAGTTGAGTCTGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTC
62274234 ACTTATGGAT
Statistics
Matches: 169, Mismatches: 28, Indels: 36
0.73 0.12 0.15
Matches are distributed among these distances:
42 4 0.02
43 12 0.07
45 6 0.04
46 49 0.29
47 77 0.46
48 6 0.04
50 11 0.07
51 4 0.02
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.32
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAGGCA
Found at i:62274172 original size:46 final size:46
Alignment explanation
Indices: 62274029--62274287 Score: 230
Period size: 46 Copynumber: 5.6 Consensus size: 46
62274019 TCGGAGCTCA
*
62274029 TTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAACTCG
1 TTGAGTTGAGTCTGAGTTCACTTATGGATGTGAATGTCCGAACTCG
* *** * * *
62274075 TTGAATCCTGTCTGAGTTC-GTGA--GATGT-AACTAGGCATCCGAGCTCG
1 TTGAGTTGAGTCTGAGTTCACTTATGGATGTGAA-T--G--TCCGAACTCG
62274122 TTGAGTTGAGTCTGAGTTCACTTATGGATGTGAATGTCCGAACTCG
1 TTGAGTTGAGTCTGAGTTCACTTATGGATGTGAATGTCCGAACTCG
* * *
62274168 TTGAGTTGAGTCTGAGTTC-GTGA--GATGT-AACTAGGCATCGGAACTCG
1 TTGAGTTGAGTCTGAGTTCACTTATGGATGTGAA-T--G--TCCGAACTCG
* *
62274215 TTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG-CCCAAGCTCG
1 TTGAGTTGAGTCTGAGTTCACTTATGGATGTGAATGTCCGAA-CTCG
*
62274261 TTGAGTTGAGTCCGAGTTCACTTATGG
1 TTGAGTTGAGTCTGAGTTCACTTATGG
62274288 GCAGGTTACA
Statistics
Matches: 170, Mismatches: 24, Indels: 38
0.73 0.10 0.16
Matches are distributed among these distances:
42 4 0.02
43 12 0.07
45 9 0.05
46 72 0.42
47 52 0.31
48 6 0.04
50 11 0.06
51 4 0.02
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (46 bp):
TTGAGTTGAGTCTGAGTTCACTTATGGATGTGAATGTCCGAACTCG
Found at i:62276333 original size:27 final size:26
Alignment explanation
Indices: 62276303--62276355 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
62276293 GACCAAAATA
*
62276303 CCCCTAAAGGGTAAAATGACTGTTTTG
1 CCCCTAAAGGGT-AAATGACTGATTTG
**
62276330 CCCCTCGAGGGTAAATGACTGATTTG
1 CCCCTAAAGGGTAAATGACTGATTTG
62276356 TTTGTGATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (26 bp):
CCCCTAAAGGGTAAATGACTGATTTG
Found at i:62276687 original size:32 final size:32
Alignment explanation
Indices: 62276642--62276729 Score: 113
Period size: 32 Copynumber: 2.8 Consensus size: 32
62276632 TGATATTGAA
* * *
62276642 ATGGGCTAAGCCCAACTGATACTGGTTCTGAT
1 ATGGGCTAGGCCCAACTGATACTGATTCTGAG
* *
62276674 ATGGGCCAGGCCCAACTGATATTGATTCTGAG
1 ATGGGCTAGGCCCAACTGATACTGATTCTGAG
* *
62276706 ATGGGCTAGGCCCAATTGAGACTG
1 ATGGGCTAGGCCCAACTGATACTG
62276730 TGATGGGTTG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (32 bp):
ATGGGCTAGGCCCAACTGATACTGATTCTGAG
Found at i:62277496 original size:23 final size:23
Alignment explanation
Indices: 62277466--62277554 Score: 78
Period size: 23 Copynumber: 3.9 Consensus size: 23
62277456 CTGATGAACA
*
62277466 GTAAGCTCTATTGAGCTAAAACG
1 GTAAGCTCTATCGAGCTAAAACG
* *
62277489 GTAAGCTCTATCGAGATGAATA--
1 GTAAGCTCTATCGAGCT-AAAACG
*
62277511 GTAAGCTC-ATACGAGCTGAAACG
1 GTAAGCTCTAT-CGAGCTAAAACG
*
62277534 GTAAGCTCCAAT-GAGCTAAAA
1 GTAAGCT-CTATCGAGCTAAAA
62277555 ATAGTAAGCT
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
21 4 0.08
22 13 0.25
23 30 0.57
24 4 0.08
25 2 0.04
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.22
Consensus pattern (23 bp):
GTAAGCTCTATCGAGCTAAAACG
Found at i:62280514 original size:40 final size:40
Alignment explanation
Indices: 62280470--62280633 Score: 258
Period size: 40 Copynumber: 4.1 Consensus size: 40
62280460 CAGGATTTAA
* * *
62280470 CCGGATATAGCT-ACTCGCTCGAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
62280510 CCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
62280550 CCGTATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
62280590 CCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
62280630 CCGG
1 CCGG
62280634 TTATCATTCA
Statistics
Matches: 116, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 115 0.99
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:62281909 original size:6 final size:6
Alignment explanation
Indices: 62281890--62281927 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
62281880 CATGAGAACC
* *
62281890 TTTCTT TTTTTT TTTCTT TTTCTT TCTC-T TTTCTT TTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTT
62281928 TTCATCATCA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:62281921 original size:11 final size:10
Alignment explanation
Indices: 62281890--62281929 Score: 50
Period size: 9 Copynumber: 4.2 Consensus size: 10
62281880 CATGAGAACC
62281890 TTTCTTT-TT
1 TTTCTTTCTT
62281899 TTT-TTTCTT
1 TTTCTTTCTT
62281908 TTTCTTTCTCT
1 TTTCTTTCT-T
62281919 TTTCTTT-TT
1 TTTCTTTCTT
62281928 TT
1 TT
62281930 CATCATCATT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 3 0.11
9 11 0.39
10 6 0.21
11 8 0.29
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:62289157 original size:37 final size:37
Alignment explanation
Indices: 62289107--62289197 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
62289097 TTATTACGAA
62289107 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
62289144 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
62289181 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
62289198 TTTCCAAGTT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 47 0.90
38 5 0.10
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:62289292 original size:48 final size:48
Alignment explanation
Indices: 62289237--62289436 Score: 337
Period size: 48 Copynumber: 4.2 Consensus size: 48
62289227 TGTTACAACA
*
62289237 TTCACATTAGCCATTCGGCTTTACCACAAATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
* *
62289285 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
*
62289333 TTCACATTAGCCCTTCGGCTTTACCACATATACACATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
* * *
62289381 TTCACATTAGCCATTCGGCTTTACCACATATATATATCACACATATGT
1 TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
62289429 TTCACATT
1 TTCACATT
62289437 CATCACATCG
Statistics
Matches: 142, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 142 1.00
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.33
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACACATCACACATATAT
Found at i:62289341 original size:96 final size:96
Alignment explanation
Indices: 62289237--62289436 Score: 373
Period size: 96 Copynumber: 2.1 Consensus size: 96
62289227 TGTTACAACA
62289237 TTCACATTAGCCATTCGGCTTTACCACAAATACACATCACACATATATTTCACATTAGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACAAATACACATCACACATATATTTCACATTAGCCATTCG
62289302 GCTTTACCACATATACATATCACACATATGT
66 GCTTTACCACATATACATATCACACATATGT
* *
62289333 TTCACATTAGCCCTTCGGCTTTACCACATATACACATCACACATATATTTCACATTAGCCATTCG
1 TTCACATTAGCCATTCGGCTTTACCACAAATACACATCACACATATATTTCACATTAGCCATTCG
*
62289398 GCTTTACCACATATATATATCACACATATGT
66 GCTTTACCACATATACATATCACACATATGT
62289429 TTCACATT
1 TTCACATT
62289437 CATCACATCG
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 101 1.00
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.33
Consensus pattern (96 bp):
TTCACATTAGCCATTCGGCTTTACCACAAATACACATCACACATATATTTCACATTAGCCATTCG
GCTTTACCACATATACATATCACACATATGT
Found at i:62289482 original size:49 final size:49
Alignment explanation
Indices: 62289428--62289760 Score: 532
Period size: 49 Copynumber: 6.9 Consensus size: 49
62289418 CACACATATG
*
62289428 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* * *
62289477 CTTCACATTCATCACATCGGCCATTAGG-CTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* *
62289523 TTTCACATTCATCACATTGGACATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
62289572 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* * *
62289621 CTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* *
62289668 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAG
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
62289717 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
62289761 CATCTCCTAC
Statistics
Matches: 261, Mismatches: 18, Indels: 10
0.90 0.06 0.03
Matches are distributed among these distances:
46 34 0.13
47 52 0.20
48 8 0.03
49 167 0.64
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.34
Consensus pattern (49 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
Found at i:62289681 original size:96 final size:96
Alignment explanation
Indices: 62289428--62289762 Score: 523
Period size: 96 Copynumber: 3.5 Consensus size: 96
62289418 CACACATATG
*
62289428 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
* *
62289493 TCGGCCATTAGG-CTTATCAC--ATATATACTC
64 TTGGCCATTAGGCCTTATCACATATATATACAC
* *
62289523 TTTCACATTCATCACATTGGACATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACA--TATATACACTTTCACATTCATCACA
62289588 TTGGCCATTAGGCCTTATCACATATATATACAC
64 TTGGCCATTAGGCCTTATCACATATATATACAC
* *
62289621 CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATT
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATT
* *
62289686 GGCCATTAGGCCTTATCACATGTATATACAG
66 GGCCATTAGGCCTTATCACATATATATACAC
*
62289717 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
62289763 TCTCCTACAT
Statistics
Matches: 221, Mismatches: 14, Indels: 9
0.91 0.06 0.04
Matches are distributed among these distances:
93 1 0.00
95 70 0.32
96 106 0.48
98 44 0.20
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (96 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATT
GGCCATTAGGCCTTATCACATATATATACAC
Found at i:62289728 original size:145 final size:144
Alignment explanation
Indices: 62289427--62289760 Score: 632
Period size: 145 Copynumber: 2.3 Consensus size: 144
62289417 TCACACATAT
*
62289427 GTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCAC
1 GTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCAC
62289492 ATCGGCCATTAGGCTTATCACATATATACTCTTTCACATTCATCACATTGGACATTAGGCCTTAT
66 ATCGGCCATTAGGCTTATCACATATATACTCTTTCACATTCATCACATTGGACATTAGGCCTTAT
62289557 CACATGTATATACA
131 CACATGTATATACA
*
62289571 CTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCAC
1 GTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCAC
*
62289636 ATCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTA
66 ATCGGCCATTAGG-CTTATCACATATATACTCTTTCACATTCATCACATTGGACATTAGGCCTTA
62289701 TCACATGTATATACA
130 TCACATGTATATACA
62289716 GTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
1 GTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
62289761 CATCTCCTAC
Statistics
Matches: 185, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
144 76 0.41
145 109 0.59
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.34
Consensus pattern (144 bp):
GTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCAC
ATCGGCCATTAGGCTTATCACATATATACTCTTTCACATTCATCACATTGGACATTAGGCCTTAT
CACATGTATATACA
Found at i:62297465 original size:18 final size:18
Alignment explanation
Indices: 62297425--62297466 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
62297415 CCATATTGCG
62297425 AGCCCATGTAGGCCCACA
1 AGCCCATGTAGGCCCACA
* *
62297443 CGCCCGTGT-GGCCCACGA
1 AGCCCATGTAGGCCCAC-A
62297461 AGCCCA
1 AGCCCA
62297467 GATATGGCAT
Statistics
Matches: 19, Mismatches: 4, Indels: 2
0.76 0.16 0.08
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.21, C:0.43, G:0.26, T:0.10
Consensus pattern (18 bp):
AGCCCATGTAGGCCCACA
Found at i:62302020 original size:14 final size:15
Alignment explanation
Indices: 62301983--62302024 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
62301973 AAAGACGAAC
62301983 TATATATGTTGAAATG
1 TATATATG-TGAAATG
*
62301999 TATA-ATGTGATA-G
1 TATATATGTGAAATG
62302012 TATATATGTGAAA
1 TATATATGTGAAA
62302025 GCCAAATATG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 5 0.22
14 11 0.48
15 3 0.13
16 4 0.17
ACGTcount: A:0.40, C:0.00, G:0.19, T:0.40
Consensus pattern (15 bp):
TATATATGTGAAATG
Found at i:62302261 original size:41 final size:43
Alignment explanation
Indices: 62302145--62302308 Score: 154
Period size: 45 Copynumber: 3.8 Consensus size: 43
62302135 CATAGGATTT
* * * * *
62302145 TCGATATGTGTTTTCGTGTAAGACCACGTCTGGGACATTGCCA
1 TCGATATGTGATTACGTGTAAGACCATGTCTGGGACAGTGGCA
** *
62302188 TTAATATATACGATTACGTGTAAGACCATGTCTGGGACA-TCGGCA
1 TCGATATGT--GATTACGTGTAAGACCATGTCTGGGACAGT-GGCA
* * *
62302233 TCG-TATTTGATT-CGTGTAAGACCCTGTCTGGGGCAGTGGCA
1 TCGATATGTGATTACGTGTAAGACCATGTCTGGGACAGTGGCA
* **
62302274 TCGATATGTGATTACATGTAAGACCACATCTGGGA
1 TCGATATGTGATTACGTGTAAGACCATGTCTGGGA
62302309 TGTTGGCATT
Statistics
Matches: 97, Mismatches: 18, Indels: 12
0.76 0.14 0.09
Matches are distributed among these distances:
41 28 0.29
42 13 0.13
43 22 0.23
44 5 0.05
45 29 0.30
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
TCGATATGTGATTACGTGTAAGACCATGTCTGGGACAGTGGCA
Found at i:62322696 original size:44 final size:43
Alignment explanation
Indices: 62322626--62322785 Score: 155
Period size: 43 Copynumber: 3.7 Consensus size: 43
62322616 AAAATGTGAA
* *
62322626 CATCGATCTGAGATATCGTGTAAGACCGTGTCTGGGACACAGG
1 CATCGATCTGAGATTTCGTGTAAGACCATGTCTGGGACACAGG
* * *
62322669 CCTCGATTTGAGATTTACGTGTAAGACCATGTCTGGGACATAGG
1 CATCGATCTGAGATTT-CGTGTAAGACCATGTCTGGGACACAGG
* * * *
62322713 CATCGTATCT--GATTTTGTGTAAGACCCTATCTGGGACAGAGG
1 CATCG-ATCTGAGATTTCGTGTAAGACCATGTCTGGGACACAGG
* * * *
62322755 CATTGATAATGA-ATTACATGTAAGACCATGT
1 CATCGAT-CTGAGATTTCGTGTAAGACCATGT
62322786 TGGAACATCG
Statistics
Matches: 94, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
41 2 0.02
42 28 0.30
43 32 0.34
44 29 0.31
45 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (43 bp):
CATCGATCTGAGATTTCGTGTAAGACCATGTCTGGGACACAGG
Found at i:62322746 original size:42 final size:43
Alignment explanation
Indices: 62322626--62322785 Score: 139
Period size: 42 Copynumber: 3.7 Consensus size: 43
62322616 AAAATGTGAA
* *
62322626 CATCGATCTGAGATAT-CGTGTAAGACCGTGTCTGGGACACAGG
1 CATCGATCT-AGATTTACGTGTAAGACCATGTCTGGGACACAGG
* * *
62322669 CCTCGATTTGAGATTTACGTGTAAGACCATGTCTGGGACATAGG
1 CATCGATCT-AGATTTACGTGTAAGACCATGTCTGGGACACAGG
* * * *
62322713 CATCGTATCT-GATTT-TGTGTAAGACCCTATCTGGGACAGAGG
1 CATCG-ATCTAGATTTACGTGTAAGACCATGTCTGGGACACAGG
* * * *
62322755 CATTGAT-AATGAATTACATGTAAGACCATGT
1 CATCGATCTA-GATTTACGTGTAAGACCATGT
62322786 TGGAACATCG
Statistics
Matches: 94, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
41 2 0.02
42 31 0.33
43 29 0.31
44 29 0.31
45 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (43 bp):
CATCGATCTAGATTTACGTGTAAGACCATGTCTGGGACACAGG
Found at i:62328779 original size:11 final size:11
Alignment explanation
Indices: 62328763--62328792 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
62328753 AGGTTAGAAA
62328763 ATTATTTTAAT
1 ATTATTTTAAT
62328774 ATTATTTTAAT
1 ATTATTTTAAT
62328785 ATTATTTT
1 ATTATTTT
62328793 TGGTGTTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
ATTATTTTAAT
Found at i:62329426 original size:24 final size:24
Alignment explanation
Indices: 62329381--62329427 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
62329371 ATGTGGAGGG
*
62329381 AATCAAGGAGAGGATTGGGGAGAA
1 AATCAAGGAGAGGATTAGGGAGAA
*
62329405 AATCAAGGTA-AGGATTATGGAGA
1 AATCAAGG-AGAGGATTAGGGAGA
62329428 GATTTAGGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 19 0.95
25 1 0.05
ACGTcount: A:0.43, C:0.04, G:0.36, T:0.17
Consensus pattern (24 bp):
AATCAAGGAGAGGATTAGGGAGAA
Found at i:62338517 original size:26 final size:26
Alignment explanation
Indices: 62338488--62338538 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
62338478 CTTTATACTG
*
62338488 ATTACTGGCAGCTTTGCTGTGATACC
1 ATTACTGGCAGCTTTGCTGCGATACC
62338514 ATTACTGGCAGCTTTGCTGCGATAC
1 ATTACTGGCAGCTTTGCTGCGATAC
62338539 TGATAGTGCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.33
Consensus pattern (26 bp):
ATTACTGGCAGCTTTGCTGCGATACC
Found at i:62342751 original size:40 final size:40
Alignment explanation
Indices: 62342706--62342872 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
62342696 CGGAATACAA
62342706 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
62342746 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * * *
62342786 CCGGATGTAGCCGCTAGCAC-AATGGCCTTTGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAAT-GCCTTCGGGTCTTAGC
*** ** * *
62342826 CCGGATATAATTTC-AGCAATAACGTCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
62342865 CCGGATAT
1 CCGGATAT
62342873 CATTCAATTG
Statistics
Matches: 104, Mismatches: 20, Indels: 7
0.79 0.15 0.05
Matches are distributed among these distances:
39 29 0.28
40 75 0.72
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:62350239 original size:40 final size:40
Alignment explanation
Indices: 62350184--62350393 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
62350174 AACATTGGAA
62350184 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
62350224 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
62350264 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
62350304 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
62350343 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
62350384 CTATATCCGG
1 ATATATCCGG
62350394 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:62358373 original size:40 final size:40
Alignment explanation
Indices: 62358318--62358527 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
62358308 AACATTGGAA
62358318 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
62358358 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
62358398 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
62358438 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
62358477 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
62358518 CTATATCCGG
1 ATATATCCGG
62358528 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:62362290 original size:43 final size:46
Alignment explanation
Indices: 62362236--62362353 Score: 154
Period size: 45 Copynumber: 2.7 Consensus size: 46
62362226 TGGGCTTCGG
*
62362236 GCCTAGCAGGCTATAATGCCGGTGAAATGA-TA-TCG-GGCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGATTATTCGAGCCTTTGA
* * * *
62362279 GCTTAGTAGGCTATGATACCGGTGAAAT-ATTATTCGAGCCTTTGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGATTATTCGAGCCTTTGA
*
62362324 GCCTAGCAGGCTATAATGTCGGTGAAATGA
1 GCCTAGCAGGCTATAATGCCGGTGAAATGA
62362354 AATGTTATGT
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
42 1 0.02
43 26 0.43
44 3 0.05
45 30 0.49
46 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (46 bp):
GCCTAGCAGGCTATAATGCCGGTGAAATGATTATTCGAGCCTTTGA
Found at i:62362666 original size:38 final size:38
Alignment explanation
Indices: 62362623--62362725 Score: 138
Period size: 38 Copynumber: 2.7 Consensus size: 38
62362613 ATGATATTTG
* *
62362623 TATCCGGCTTAAAGACCGCAGGCTAT-ATGCTGG-AATTA
1 TATCCGGGTTAAATACCGCAGGCT-TCATGCTGGTAA-TA
* *
62362661 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATACCGCAGGCTTCATGCTGGTAATA
62362699 TATCCGGGTTAAATACCGCAGGCTTCA
1 TATCCGGGTTAAATACCGCAGGCTTCA
62362726 AAACAGATTC
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
37 1 0.02
38 54 0.95
39 2 0.04
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.27
Consensus pattern (38 bp):
TATCCGGGTTAAATACCGCAGGCTTCATGCTGGTAATA
Found at i:62369451 original size:43 final size:43
Alignment explanation
Indices: 62369403--62369565 Score: 157
Period size: 43 Copynumber: 3.8 Consensus size: 43
62369393 ATTTCAATAA
* * * *
62369403 GTGATTTCGTGTAAGACCACGTCTAGGACATTGACATTGATAT
1 GTGATTTCATGTAAGACCACGTCTGGGACATTGGCATCGATAT
* * *
62369446 GTGATTTTCATGTGAGACCATGTCTGGGACATCGGCATCG-TAT
1 GTGA-TTTCATGTAAGACCACGTCTGGGACATTGGCATCGATAT
* * * * * * *
62369489 ATGAGTTCGTGTAAGACTATGTTTGGGACAGTGGCATCGATAT
1 GTGATTTCATGTAAGACCACGTCTGGGACATTGGCATCGATAT
* * *
62369532 GTGATTACATGTAAGACCACATCTGGGACGTTGG
1 GTGATTTCATGTAAGACCACGTCTGGGACATTGG
62369566 TGTTATATGA
Statistics
Matches: 93, Mismatches: 25, Indels: 4
0.76 0.20 0.03
Matches are distributed among these distances:
42 28 0.30
43 37 0.40
44 28 0.30
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (43 bp):
GTGATTTCATGTAAGACCACGTCTGGGACATTGGCATCGATAT
Found at i:62379356 original size:42 final size:43
Alignment explanation
Indices: 62379307--62379420 Score: 124
Period size: 43 Copynumber: 2.7 Consensus size: 43
62379297 TATGATTTAC
* * *
62379307 GTGTAAGACCATGTTTGGGACATTGTCATCG-TATTTGATTTT
1 GTGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATTTT
* **
62379349 GTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTAC
1 GTGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATTTT
* * *
62379392 ATGTAAGACCACGTCTAGGAC-GTTGGCAT
1 GTGTAAGACCATGTCTGGGACAG-TGGCAT
62379421 TGTACGAGCT
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
42 28 0.47
43 32 0.53
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATTTT
Found at i:62387672 original size:29 final size:29
Alignment explanation
Indices: 62387640--62387704 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
62387630 TCGCACAACC
* * **
62387640 AGTGCCGTATTTTTCTAGCTTGCACACTT
1 AGTGCCGTATATTTCCAGCACGCACACTT
*
62387669 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCGTATATTTCCAGCACGCACACTT
62387698 AGTGCCG
1 AGTGCCG
62387705 ATCTCGTCAC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.22, C:0.28, G:0.18, T:0.32
Consensus pattern (29 bp):
AGTGCCGTATATTTCCAGCACGCACACTT
Found at i:62392414 original size:71 final size:71
Alignment explanation
Indices: 62392303--62392465 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
62392293 CGATTTGTCT
62392303 CGTAGCTCTCTTGTCTACAT-GTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
62392367 CTTTCA
66 CTTTCA
62392373 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
62392438 CTTTCA
66 CTTTCA
62392444 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
62392466 GATACATCTC
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 20 0.22
71 72 0.78
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:62392503 original size:71 final size:70
Alignment explanation
Indices: 62392303--62392499 Score: 267
Period size: 71 Copynumber: 2.8 Consensus size: 70
62392293 CGATTTGTCT
* * *
62392303 CGTAGCTCTCTTGTCTACAT-GTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
62392367 CTTTCA
65 CTTTCA
* * *
62392373 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
62392438 CTTTCA
65 CTTTCA
* *
62392444 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
62392500 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 5, Indels: 6
0.92 0.04 0.05
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 21 0.17
71 75 0.62
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:62393863 original size:20 final size:20
Alignment explanation
Indices: 62393840--62393909 Score: 52
Period size: 20 Copynumber: 3.2 Consensus size: 20
62393830 TCTCACGAAC
62393840 TCGGACTCAACTCAACGAGT
1 TCGGACTCAACTCAACGAGT
* **
62393860 TCGGA-TGCCATTACATCTCACGAAC
1 TCGGACT--CA--AC-TC-AACGAGT
62393885 TCGGACTCAACTCAACGAGT
1 TCGGACTCAACTCAACGAGT
62393905 TCGGA
1 TCGGA
62393910 TGCTCAACCA
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
19 1 0.03
20 14 0.38
21 4 0.11
22 2 0.05
23 2 0.05
24 4 0.11
25 9 0.24
26 1 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (20 bp):
TCGGACTCAACTCAACGAGT
Found at i:62393889 original size:45 final size:47
Alignment explanation
Indices: 62393789--62393912 Score: 225
Period size: 45 Copynumber: 2.7 Consensus size: 47
62393779 ATCCATAAGT
*
62393789 GAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
62393836 GAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
62393881 GAACTCGGACTCAACTCAACGAGTTCGGATGC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC
62393913 TCAACCATCC
Statistics
Matches: 76, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
45 43 0.57
46 1 0.01
47 32 0.42
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:62404846 original size:14 final size:15
Alignment explanation
Indices: 62404827--62404855 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
62404817 ACTAGGATCA
62404827 ACCCGTATAC-CATC
1 ACCCGTATACACATC
62404841 ACCCGTATACACATC
1 ACCCGTATACACATC
62404856 GGAATATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.31, C:0.41, G:0.07, T:0.21
Consensus pattern (15 bp):
ACCCGTATACACATC
Found at i:62409688 original size:47 final size:47
Alignment explanation
Indices: 62409578--62409800 Score: 204
Period size: 47 Copynumber: 4.8 Consensus size: 47
62409568 TTGTTTGTGA
* * *** * *
62409578 GCTAGTGCAAGA-CATGTCTGGGACAT-GCATCGACCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGA-GATGAGT
* * *
62409624 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGAGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGAGATGAGT
62409672 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTATGAGATGA-T
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCT-TGAGATGAGT
* * * ** *
62409717 ACTTAGTGTAAGACCATATCTGGGACATGGCATCGACTTGAGATTTGA
1 GC-TAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGATGAGT
* * *
62409765 GCCAGTGTAAGACTATGTTTGGGACATGGCATCGGC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
62409801 ACCTTACCCA
Statistics
Matches: 144, Mismatches: 25, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
45 3 0.02
46 35 0.24
47 74 0.51
48 31 0.22
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGATGAGT
Found at i:62409743 original size:94 final size:93
Alignment explanation
Indices: 62409576--62409800 Score: 247
Period size: 94 Copynumber: 2.4 Consensus size: 93
62409566 ATTTGTTTGT
* * * *
62409576 GAGCTAGTGCAAGACATGTCTGGGACATGCATCGACCACATTATGAGAGCCAGTGTAAGACCATG
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATA
*
62409641 TCTAGGACATGGCATCGGCATTGAGACGA
66 TCTAGGACATGGCATCGAC-TTGAGACGA
* * * * *
62409670 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTATGA-GATGATA-CTTAGTGTAAGACCA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCA-CATGATGAGAGC-CAGTGTAAGACCA
* ***
62409733 TATCTGGGACATGGCATCGACTTGAGATTT
64 TATCTAGGACATGGCATCGACTTGAGACGA
* *
62409763 GAGCCAGTGTAAGACTATGTTTGGGACATGGCATCGGC
1 GAGCTAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGC
62409801 ACCTTACCCA
Statistics
Matches: 110, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
93 20 0.18
94 81 0.74
95 9 0.08
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (93 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATA
TCTAGGACATGGCATCGACTTGAGACGA
Found at i:62416638 original size:43 final size:43
Alignment explanation
Indices: 62416590--62416757 Score: 141
Period size: 43 Copynumber: 3.9 Consensus size: 43
62416580 ACCAGGATGT
62416590 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
* *
62416633 GATTACATGTAAGACCATG-CTTGGGACATTGGCATCAT-TAAT-C
1 GATTACATGTAAGACCATGTC-TGGGACATTGGCAT--TGTATTGA
* * * * * *
62416676 GATTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCG-ATATGTA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TG-A
* * * *
62416720 -ATAACATGTAAGACCATATTTGGGATA-TGGCATTGTAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
62416758 GAGCTATATA
Statistics
Matches: 99, Mismatches: 17, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
41 1 0.01
42 9 0.09
43 84 0.85
44 4 0.04
45 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
Found at i:62421312 original size:49 final size:52
Alignment explanation
Indices: 62421240--62421446 Score: 167
Period size: 52 Copynumber: 3.8 Consensus size: 52
62421230 ATTAGTGACT
*
62421240 CAAGTGTGGTGCTATGTGAAGGCCA-CTT-T-GAGAAGAGATAG-CTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCATCTTGTGGAGAA-AGATAGACTTGGTCA
* *
62421289 CAAGTGTGGTACTATGTGAAGGCCATTTTGTGGAGAAAGATAGATTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCATCTTGTGGAGAAAGATAGACTTGGTCA
* *
62421341 CAATTGTGGTACTATGTGTGGTACTATGTGAAGGTCA-CTTTGTGAAGAAAGATA-ACTTTGGTC
1 C---------A--A-GTGTGGTACTATGTGAAGGCCATC-TTGTGGAGAAAGATAGAC-TTGGTC
62421404 A
52 A
*
62421405 CAAGTGTGGTACTATGTGAAGGCCA-CTTTGTGAAGAAAGATA
1 CAAGTGTGGTACTATGTGAAGGCCATC-TTGTGGAGAAAGATA
62421447 CCTTTAACTA
Statistics
Matches: 132, Mismatches: 8, Indels: 33
0.76 0.05 0.19
Matches are distributed among these distances:
49 24 0.18
50 2 0.02
51 7 0.05
52 51 0.39
53 1 0.01
55 1 0.01
61 1 0.01
63 2 0.02
64 43 0.33
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.30
Consensus pattern (52 bp):
CAAGTGTGGTACTATGTGAAGGCCATCTTGTGGAGAAAGATAGACTTGGTCA
Found at i:62421360 original size:12 final size:12
Alignment explanation
Indices: 62421345--62421370 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
62421335 TGGTCACAAT
62421345 TGTGGTACTATG
1 TGTGGTACTATG
62421357 TGTGGTACTATG
1 TGTGGTACTATG
62421369 TG
1 TG
62421371 AAGGTCACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.08, G:0.35, T:0.42
Consensus pattern (12 bp):
TGTGGTACTATG
Found at i:62421393 original size:64 final size:64
Alignment explanation
Indices: 62421292--62421422 Score: 210
Period size: 64 Copynumber: 2.0 Consensus size: 64
62421282 TTGGTCACAA
* * *
62421292 GTGTGGTACTATGTGAAGGCCATTTTGTGGAGAAAGATAGA-TTTGGTCACAATTGTGGTACTAT
1 GTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATA-ACTTTGGTCACAAGTGTGGTACTAT
*
62421356 GTGTGGTACTATGTGAAGGTCACTTTGTGAAGAAAGATAACTTTGGTCACAAGTGTGGTACTAT
1 GTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAACTTTGGTCACAAGTGTGGTACTAT
62421420 GTG
1 GTG
62421423 AAGGCCACTT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
63 1 0.02
64 61 0.98
ACGTcount: A:0.27, C:0.10, G:0.30, T:0.34
Consensus pattern (64 bp):
GTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAACTTTGGTCACAAGTGTGGTACTAT
Found at i:62421434 original size:52 final size:52
Alignment explanation
Indices: 62421356--62421474 Score: 177
Period size: 52 Copynumber: 2.3 Consensus size: 52
62421346 GTGGTACTAT
* **
62421356 GTGTGGTACTATGTGAAGGTCACTTTGTGAAGAAAGATAACTTT-GGTCACAA
1 GTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAACTTTAACT-ACAA
*
62421408 GTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATACCTTTAACTACAA
1 GTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAACTTTAACTACAA
*
62421460 GGGTGGTACTATGTG
1 GTGTGGTACTATGTG
62421475 CGGGCCACCA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
52 60 0.98
53 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (52 bp):
GTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAACTTTAACTACAA
Found at i:62421466 original size:116 final size:113
Alignment explanation
Indices: 62421243--62421474 Score: 313
Period size: 116 Copynumber: 2.0 Consensus size: 113
62421233 AGTGACTCAA
* *
62421243 GTGTGGTGCTATGTGAAGGCCACTTTGAGAAGAGATAGCTTGGTCACAAGTGTGGTACTATGTGA
1 GTGTGGTACTATGTGAAGGCCACTTTGAGAAGAGATAACTTGGTCACAAGTGTGGTACTATGTGA
* * * ** **
62421308 AGGCCATTTTGTGGAGAAAGATAGATTTGGTCACAATTGTGGTACTAT
66 AGGCCACTTTGTGAAGAAAGATACATTTACTCACAAGGGTGGTACTAT
* *
62421356 GTGTGGTACTATGTGAAGGTCACTTTGTGAAGAAAGATAACTTTGGTCACAAGTGTGGTACTATG
1 GTGTGGTACTATGTGAAGGCCACTTTGAGAAG--AGATAAC-TTGGTCACAAGTGTGGTACTATG
*
62421421 TGAAGGCCACTTTGTGAAGAAAGATACCTTTAACT-ACAAGGGTGGTACTAT
63 TGAAGGCCACTTTGTGAAGAAAGATACATTT-ACTCACAAGGGTGGTACTAT
62421472 GTG
1 GTG
62421475 CGGGCCACCA
Statistics
Matches: 103, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
113 29 0.28
115 6 0.06
116 67 0.65
117 1 0.01
ACGTcount: A:0.28, C:0.12, G:0.29, T:0.31
Consensus pattern (113 bp):
GTGTGGTACTATGTGAAGGCCACTTTGAGAAGAGATAACTTGGTCACAAGTGTGGTACTATGTGA
AGGCCACTTTGTGAAGAAAGATACATTTACTCACAAGGGTGGTACTAT
Found at i:62424413 original size:46 final size:48
Alignment explanation
Indices: 62424291--62424420 Score: 155
Period size: 46 Copynumber: 2.8 Consensus size: 48
62424281 TGTAACCCGC
*
62424291 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CCTAGTTACAT
* * *
62424341 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGA-C-ATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTTACAT
62424384 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
62424421 TGCTCAACCA
Statistics
Matches: 70, Mismatches: 5, Indels: 14
0.79 0.06 0.16
Matches are distributed among these distances:
42 1 0.01
43 8 0.11
44 1 0.01
46 29 0.41
47 28 0.40
50 2 0.03
51 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (48 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTTACAT
Found at i:62424439 original size:46 final size:46
Alignment explanation
Indices: 62424296--62424439 Score: 122
Period size: 46 Copynumber: 3.1 Consensus size: 46
62424286 CCCGCCCATA
*
62424296 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC-CT
* * * *
62424345 --CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCCT
62424389 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
62424435 AGTGA
1 AGTGA
62424440 CATGTCACTT
Statistics
Matches: 76, Mismatches: 9, Indels: 23
0.70 0.08 0.21
Matches are distributed among these distances:
44 8 0.11
45 1 0.01
46 33 0.43
47 30 0.39
49 3 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
Found at i:62426837 original size:29 final size:29
Alignment explanation
Indices: 62426798--62426885 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
62426788 CAAAGATAAC
*
62426798 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
62426827 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
62426856 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
62426886 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:62426856 original size:15 final size:15
Alignment explanation
Indices: 62426798--62426876 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
62426788 CAAAGATAAC
*
62426798 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
62426812 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
62426827 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
62426841 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
62426856 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
62426871 AAGAAA
1 AAGAAA
62426877 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:62426885 original size:15 final size:15
Alignment explanation
Indices: 62426809--62426885 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
62426799 AGAAAACCGA
62426809 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
62426824 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
62426838 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
62426852 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
62426868 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
62426883 ATA
1 ATA
62426886 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:62429858 original size:46 final size:45
Alignment explanation
Indices: 62429791--62429963 Score: 199
Period size: 46 Copynumber: 3.8 Consensus size: 45
62429781 TGTAACCCGC
62429791 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGCATTCGCAT
*
62429837 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** * * *
62429883 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTC-ACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
*
62429928 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
62429964 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 14, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
43 1 0.01
44 30 0.28
45 7 0.07
46 39 0.37
47 28 0.26
48 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:62429956 original size:91 final size:92
Alignment explanation
Indices: 62429799--62429967 Score: 286
Period size: 91 Copynumber: 1.8 Consensus size: 92
62429789 GCCCATAAGT
*
62429799 GAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTC-GACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
62429864 CGAGCTCGGATGCCTAGTTACATCTCTC
65 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
62429892 GAACTCGGACTCAACTCAACGAGTTC-ACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
62429956 GAGTTCGGATGC
66 GAGCTCGGATGC
62429968 TCAACCATCT
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
91 47 0.65
93 25 0.35
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTC
Found at i:62431807 original size:179 final size:180
Alignment explanation
Indices: 62431491--62431838 Score: 470
Period size: 179 Copynumber: 1.9 Consensus size: 180
62431481 GCACCACTCC
* *
62431491 CAATGTATGTTTTGGGCCTCGTAGGCCCATATAAGCGATGATATGCATATGTATGAATGGTTTTA
1 CAATGTATGTTTTGGGCCTCGTAGGCCCATATAAGCGACGATATGCATATGTAAGAATGGTTTTA
** **
62431556 AATTGAATGAAATTTTATGACACAATTTTGTATGAATGTTTATGTTAAAGTTTGGTAATCCCTCG
66 AATTGAACAAAATTTTATGACACAATTTTGTATGAATGTTTATGTTAAAGTCCGGTAATCCCTCG
62431621 AACCCTGTCCCGGCATCAGACACGGGTAAGGGGT-TTACACGAACCACACT
131 AACCCTGT-CCGGCATCAGACACGGGTAAGGGGTGTTACACGAACCACACT
* *
62431671 CAATGTATGTTTTGGGCCTCGTAGGCCC-TATAAGGGACGATATGCATGTGTAAGAATGGTTTTA
1 CAATGTATGTTTTGGGCCTCGTAGGCCCATATAAGCGACGATATGCATATGTAAGAATGGTTTTA
* ** * * **
62431735 ACTTGGGCAAAATTTTATGGCCCAATTTTGTATGAATGTTTATGTTTGAGTCCGGTAA-CGCCTC
66 AATTGAACAAAATTTTATGACACAATTTTGTATGAATGTTTATGTTAAAGTCCGGTAATC-CCTC
** * *
62431799 -AGACCCTGTCCGGTGTCGGATACGGGTAAGGGGTGTTACA
130 GA-ACCCTGTCCGGCATCAGACACGGGTAAGGGGTGTTACA
62431839 GTTATAAAGC
Statistics
Matches: 146, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
178 23 0.16
179 95 0.65
180 28 0.19
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (180 bp):
CAATGTATGTTTTGGGCCTCGTAGGCCCATATAAGCGACGATATGCATATGTAAGAATGGTTTTA
AATTGAACAAAATTTTATGACACAATTTTGTATGAATGTTTATGTTAAAGTCCGGTAATCCCTCG
AACCCTGTCCGGCATCAGACACGGGTAAGGGGTGTTACACGAACCACACT
Found at i:62435978 original size:27 final size:27
Alignment explanation
Indices: 62435938--62436051 Score: 142
Period size: 27 Copynumber: 4.2 Consensus size: 27
62435928 AGCATGGCTG
* *
62435938 CCAGAACAGATA-TTGTGACAGAGTCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
*
62435964 CCAGATACAGATA-TTGTGGCAGAGTCA
1 CCAGA-ACAGATATTTGTGGCAGAGCCA
*
62435991 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
* *
62436018 CCAAAAACAGATATTTGTGGCATAGCCA
1 CC-AGAACAGATATTTGTGGCAGAGCCA
62436046 CCAGAA
1 CCAGAA
62436052 TGCTTCCTCC
Statistics
Matches: 80, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
26 12 0.15
27 42 0.52
28 26 0.32
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (27 bp):
CCAGAACAGATATTTGTGGCAGAGCCA
Found at i:62437902 original size:24 final size:23
Alignment explanation
Indices: 62437874--62438034 Score: 178
Period size: 24 Copynumber: 6.7 Consensus size: 23
62437864 GAAATGACTT
*
62437874 TGGCACTATGTGTGTGGACTTGTA
1 TGGCACTATGTGTGCGGA-TTGTA
*
62437898 TGGCACTATGTGTGTGGACTTGTA
1 TGGCACTATGTGTGCGGA-TTGTA
62437922 TGGCACTATGTGTGCGGAATTGTA
1 TGGCACTATGTGTGCGG-ATTGTA
*
62437946 TGGCACTATGTGTGCAGATTTGTA
1 TGGCACTATGTGTGCGGA-TTGTA
*
62437970 TGGCACTATGTGTGCGGATTGGAA
1 TGGCACTATGTGTGCGGATT-GTA
* * * * *
62437994 TGTCAATATGTATGTGGATTACTA
1 TGGCACTATGTGTGCGGATT-GTA
*
62438018 AGGCACTATGTGTGCGG
1 TGGCACTATGTGTGCGG
62438035 GCTAACATGG
Statistics
Matches: 118, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
23 3 0.03
24 114 0.97
25 1 0.01
ACGTcount: A:0.20, C:0.12, G:0.32, T:0.35
Consensus pattern (23 bp):
TGGCACTATGTGTGCGGATTGTA
Found at i:62448510 original size:37 final size:36
Alignment explanation
Indices: 62448460--62448546 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
62448450 TGCGAAGTCT
62448460 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
62448496 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
62448533 TCACCCGGAACATA
1 T-ACCCGG-ACATA
62448547 TTTCCAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:62448676 original size:49 final size:49
Alignment explanation
Indices: 62448615--62448917 Score: 552
Period size: 49 Copynumber: 6.2 Consensus size: 49
62448605 TTTGCCACAT
* * *
62448615 ATATATATACACTTTCACATTCATCACGTCAGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
62448664 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
62448713 ACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
62448762 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
62448811 ACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
62448860 ACATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
62448909 ATATATACA
1 ATATATACA
62448918 TCTCATACAT
Statistics
Matches: 247, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 247 1.00
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.30
Consensus pattern (49 bp):
ATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:62451987 original size:46 final size:45
Alignment explanation
Indices: 62451934--62452109 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
62451924 TATTTGGGCA
62451934 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
62451980 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
62452027 TCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
62452073 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62452110 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.62
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:62452089 original size:93 final size:93
Alignment explanation
Indices: 62451930--62452101 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
62451920 AGGATATTTG
* * *
62451930 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
62451995 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
62452023 GGCATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
62452088 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
62452102 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:62457369 original size:40 final size:40
Alignment explanation
Indices: 62457324--62457453 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
62457314 CGGAATATAA
62457324 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
62457364 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
62457404 CCGGATATAGCCACTTGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
62457444 CCGGATATAA
1 CCGGATATAA
62457454 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTTGCACAAATGCCTTCGGGTCTTAGC
Done.