Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 55 of 259
Found at i:17502031 original size:23 final size:24
Alignment explanation
Indices: 17501993--17502037 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
17501983 TTTGCTCTTC
*
17501993 TAGTATGAACTTGTCTTACCTTTT
1 TAGTATGAACTCGTCTTACCTTTT
17502017 TAGTAT-AACTCGTCTTACCTT
1 TAGTATGAACTCGTCTTACCTT
17502038 ACCTTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (24 bp):
TAGTATGAACTCGTCTTACCTTTT
Found at i:17502293 original size:55 final size:54
Alignment explanation
Indices: 17502175--17502360 Score: 236
Period size: 55 Copynumber: 3.4 Consensus size: 54
17502165 CGATGTCTCA
*
17502175 ACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATGCCATGCCTTG
1 ACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTACCAATGCCATGCCTTG
* * * *
17502228 GCATGGTCTTACATGAG-A-CCTTTTCCTTATAGTAACTTATCAATGCCATGTCTTG
1 ACATGGTCTTACATG-GTATCC-TTGCCTTATAG-AACTTACCAATGCCATGCCTTG
*
17502283 ACATGGTCTTACATGGTATCCTTGCCTTAGA-AACCTTACCAATTGCCATGCCTTG
1 ACATGGTCTTACATGGTATCCTTGCCTTATAGAA-CTTACCAA-TGCCATGCCTTG
*
17502338 GCATGGTCTTACATGGTATCCTT
1 ACATGGTCTTACATGGTATCCTT
17502361 AAGCCCTAAT
Statistics
Matches: 114, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
52 2 0.02
53 25 0.22
54 10 0.09
55 75 0.66
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (54 bp):
ACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTACCAATGCCATGCCTTG
Found at i:17513196 original size:16 final size:16
Alignment explanation
Indices: 17513177--17513207 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17513167 CTTCTTCACT
17513177 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
17513193 TACTTACTTACTTAA
1 TACTCACTTACTTAA
17513208 TCAAATTCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:17513213 original size:20 final size:20
Alignment explanation
Indices: 17513174--17513213 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
17513164 AAACTTCTTC
* *
17513174 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
17513194 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
17513214 TCATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:17513324 original size:23 final size:24
Alignment explanation
Indices: 17513286--17513330 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
17513276 TTTGCTCTTC
*
17513286 TAGTATGAACTTGTCTTACCTTTT
1 TAGTATGAACTCGTCTTACCTTTT
17513310 TAGTAT-AACTCGTCTTACCTT
1 TAGTATGAACTCGTCTTACCTT
17513331 ACTTACCTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (24 bp):
TAGTATGAACTCGTCTTACCTTTT
Found at i:17513527 original size:53 final size:54
Alignment explanation
Indices: 17513398--17513652 Score: 258
Period size: 55 Copynumber: 4.8 Consensus size: 54
17513388 ACATGGGTAC
* * * *
17513398 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTAT-C---CCTT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
17513447 CTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
17513500 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * *
17513555 CTTATCAATGCCATGTCTTGACATGGTCTTACATAGTATCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
17513608 CCTTACCAATTGCCACGCCTT-AGCATGATCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGA-CATGGTCTTACATGGTATCCTT
17513653 AAACCATAAT
Statistics
Matches: 172, Mismatches: 22, Indels: 18
0.81 0.10 0.08
Matches are distributed among these distances:
49 35 0.20
50 1 0.01
52 2 0.01
53 50 0.29
54 11 0.06
55 71 0.41
56 2 0.01
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:17513594 original size:108 final size:110
Alignment explanation
Indices: 17513445--17513645 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
17513435 ATCCCTTTGA
* *
17513445 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATAGTATCCTTGCCTTA-GAAACCTCACCAA
* * *
17513508 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCACGCCTTAGCATGATCTTACATGGGACCTTTGCCTTATAGT
* * *
17513553 AACTTATCAATGCCATGTCTTGACATGGTCTTACATAGTATCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATAGTATCCTTGCCTTAGAAACCTCACCAAT
17513618 TGCCACGCCTTAGCATGATCTTACATGG
66 TGCCACGCCTTAGCATGATCTTACATGG
17513646 TATCCTTAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.60
109 7 0.09
110 25 0.30
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGTCTTACATAGTATCCTTGCCTTAGAAACCTCACCAAT
TGCCACGCCTTAGCATGATCTTACATGGGACCTTTGCCTTATAGT
Found at i:17516121 original size:44 final size:43
Alignment explanation
Indices: 17516073--17516155 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 43
17516063 AAATAATTAG
*
17516073 CCGAAGCTATAAT-GATATCGCATACTTAGTGCCATCATATTAAA
1 CCGAAGCTATAATGGA-ATCGCACACTTAGTGCCA-CATATTAAA
**
17516117 CCGAAGCTATCTTGGAATCGCACACTTAGTGCCACATAT
1 CCGAAGCTATAATGGAATCGCACACTTAGTGCCACATAT
17516156 AGCTGTAGCT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
43 5 0.14
44 28 0.80
45 2 0.06
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.28
Consensus pattern (43 bp):
CCGAAGCTATAATGGAATCGCACACTTAGTGCCACATATTAAA
Found at i:17552261 original size:39 final size:38
Alignment explanation
Indices: 17552205--17552342 Score: 136
Period size: 40 Copynumber: 3.6 Consensus size: 38
17552195 CTCAAGTAAT
* * * *
17552205 CTTCGGATTTAG-CCGGATATA-ACTACTTGCACAAGGC
1 CTTCGGGTTTAGCCCGGATATAGTC-ACTAGCACAATGC
* * *
17552242 CTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAATGC
1 CTTCGGGT-TTAGCCCGGATATAGTCACTAGCA-CAATGC
* *
17552282 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGG-TTTAGCCCGGATATAGTCACTAGCAC-AATGC
17552322 CTTCGGGTTTAGCCCGGATAT
1 CTTCGGGTTTAGCCCGGATAT
17552343 CGTAGCAAAT
Statistics
Matches: 82, Mismatches: 13, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
37 7 0.09
38 4 0.05
39 26 0.32
40 45 0.55
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.27
Consensus pattern (38 bp):
CTTCGGGTTTAGCCCGGATATAGTCACTAGCACAATGC
Found at i:17552285 original size:40 final size:40
Alignment explanation
Indices: 17552240--17552342 Score: 154
Period size: 40 Copynumber: 2.6 Consensus size: 40
17552230 CTTGCACAAG
* * *
17552240 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
17552280 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
17552320 GCCTTCGGGT-TTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
17552343 CGTAGCAAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 13 0.23
40 44 0.77
ACGTcount: A:0.20, C:0.26, G:0.27, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:17560289 original size:40 final size:40
Alignment explanation
Indices: 17560243--17560468 Score: 274
Period size: 40 Copynumber: 5.6 Consensus size: 40
17560233 CTTGCGCAAG
* * *
17560243 GCCTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* **
17560283 GCCTTCGGGACTTAGCCCGGATATAGTTGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
17560323 GCCTTCGGGTTTTAGCCCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
17560363 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * * *
17560403 GCCTTCGGATCTTAGTCCGGTTGTAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
17560444 GCCTTCGGGACTTAGCCCGGATATA
1 GCCTTCGGGTCTTAGCCCGGATATA
17560469 ATTCGAATAA
Statistics
Matches: 156, Mismatches: 27, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 126 0.81
41 29 0.19
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:17560338 original size:80 final size:80
Alignment explanation
Indices: 17560207--17560468 Score: 303
Period size: 80 Copynumber: 3.3 Consensus size: 80
17560197 CTCAAGTAAT
* * * * * * *
17560207 CTTCGGGATTTAG-CCGGATATAACTACTTGCGC-AAGGCCTTCGGGTCTTAGCCCGGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGT
*
17560270 CACTAGCATAAATGC
66 CACTAGCACAAATGC
*** * * *
17560285 CTTCGGGACTTAGCCCGGATATAGTTGCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGT
*
17560350 CGCTAGCACAAATGC
66 CACTAGCACAAATGC
* * * * * *
17560365 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTGTAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGT
*
17560430 CACCTAGCACAAAAGC
66 CA-CTAGCACAAATGC
17560446 CTTCGGGACTTAGCCCGGATATA
1 CTTCGGGACTTAGCCCGGATATA
17560469 ATTCGAATAA
Statistics
Matches: 153, Mismatches: 28, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
78 12 0.08
79 15 0.10
80 92 0.60
81 34 0.22
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGT
CACTAGCACAAATGC
Found at i:17563834 original size:21 final size:21
Alignment explanation
Indices: 17563808--17563853 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
17563798 TCCCATACCT
17563808 GTGTGTGAGGGTACCACACCC
1 GTGTGTGAGGGTACCACACCC
*
17563829 GTGTGTGAGGGTACCACACTC
1 GTGTGTGAGGGTACCACACCC
17563850 GTGT
1 GTGT
17563854 ATTGTTGTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.17, C:0.24, G:0.35, T:0.24
Consensus pattern (21 bp):
GTGTGTGAGGGTACCACACCC
Found at i:17566458 original size:27 final size:26
Alignment explanation
Indices: 17566420--17566477 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
17566410 ACATATATAC
*
17566420 ATCTGTTCTAGTGGCCTAGCCACAAT
1 ATCTGTTCTAGTGACCTAGCCACAAT
* * *
17566446 ATCTGTATCTAGTGACTTCGTCACAAT
1 ATCTGT-TCTAGTGACCTAGCCACAAT
17566473 ATCTG
1 ATCTG
17566478 GCAGCCTCGC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 6 0.22
27 21 0.78
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.34
Consensus pattern (26 bp):
ATCTGTTCTAGTGACCTAGCCACAAT
Found at i:17575090 original size:46 final size:46
Alignment explanation
Indices: 17575032--17575209 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
17575022 TAGAATGGTT
17575032 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * * *
17575078 GAGCGTCCGAACTCGTTGAGTTGTGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
* * *
17575124 TAGGCATCTGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
17575171 GAACACCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
17575210 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 66 0.61
47 31 0.28
48 2 0.02
50 4 0.04
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:17575193 original size:93 final size:93
Alignment explanation
Indices: 17575034--17575204 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
17575024 GAATGGTTGA
* **
17575034 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
*
17575099 TGTGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
17575127 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
17575192 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
17575205 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:17575471 original size:19 final size:20
Alignment explanation
Indices: 17575434--17575471 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
17575424 ATAAGGTGGT
17575434 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
17575454 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
17575472 TTGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:17582457 original size:46 final size:47
Alignment explanation
Indices: 17582406--17582581 Score: 166
Period size: 46 Copynumber: 3.8 Consensus size: 47
17582396 GGATGGTTGA
17582406 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGA-
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGAC
* * * * *
17582452 GCATCCGAACTTATTGAGTTGCGTCCGAGTTC-GTGA--GATGTAAC
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGAC
* * * *
17582496 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTTATTTATGGATGCGAAC
1 ---GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTG-AC
* * *
17582547 GC-T-CGAGCTCGTTGAGTTGAGTCCAAGTTCACTTA
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTA
17582582 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 6 0.06
45 2 0.02
46 58 0.55
47 29 0.28
48 4 0.04
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (47 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGAC
Found at i:17582565 original size:93 final size:93
Alignment explanation
Indices: 17582406--17582576 Score: 229
Period size: 93 Copynumber: 1.8 Consensus size: 93
17582396 GGATGGTTGA
* *
17582406 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGAGCATCCGAACTTATTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCATCCGAACTCATTGAGT
* *
17582471 TGCGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCAAGTTCGTGAGATGTAACTAG
* * * * *
17582499 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTTATTTATGGATGCGAACGC-T-CGAGCTCGTTGA
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCG-A-GCATCCGAACTCATTGA
17582562 GTTGAGTCCAAGTTC
64 GTTGAGTCCAAGTTC
17582577 ACTTAGGGGC
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
93 63 0.94
94 2 0.03
95 2 0.03
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCATCCGAACTCATTGAGT
TGAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:17582843 original size:19 final size:20
Alignment explanation
Indices: 17582806--17582843 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
17582796 ATAAGGTGGT
17582806 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
17582826 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
17582844 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:17588570 original size:30 final size:29
Alignment explanation
Indices: 17588521--17588581 Score: 95
Period size: 30 Copynumber: 2.1 Consensus size: 29
17588511 CAAGTAGCCG
17588521 AAGCTAGCTAAATCACACACTTAGTGCCA
1 AAGCTAGCTAAATCACACACTTAGTGCCA
* *
17588550 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-CTAAATCACACACTTAGTGCCA
17588580 AA
1 AA
17588582 ACTTTTGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.24
30 22 0.76
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.23
Consensus pattern (29 bp):
AAGCTAGCTAAATCACACACTTAGTGCCA
Found at i:17594261 original size:48 final size:48
Alignment explanation
Indices: 17594190--17594332 Score: 214
Period size: 48 Copynumber: 3.0 Consensus size: 48
17594180 CATTGGGGAA
* **
17594190 TACATTGATTTGGCTTCGGGCCATGATATTGGTACTTCGGGTGTGAGT
1 TACATTGATTTGGCTTCGGGCCATGATATCGGTACTTCGGGTGCAAGT
* *
17594238 TACATTAATTTGGCTTTGGGCCATGATATCGGTACTTCGGGTGCAAGT
1 TACATTGATTTGGCTTCGGGCCATGATATCGGTACTTCGGGTGCAAGT
* * *
17594286 TACATTGATTTGGCTTCGAGCCATGATATCGGCACTACGGGTGCAAG
1 TACATTGATTTGGCTTCGGGCCATGATATCGGTACTTCGGGTGCAAG
17594333 ACACCAAAAT
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 85 1.00
ACGTcount: A:0.20, C:0.17, G:0.29, T:0.34
Consensus pattern (48 bp):
TACATTGATTTGGCTTCGGGCCATGATATCGGTACTTCGGGTGCAAGT
Found at i:17602720 original size:47 final size:47
Alignment explanation
Indices: 17602666--17602905 Score: 365
Period size: 47 Copynumber: 5.1 Consensus size: 47
17602656 TTAGGATTTT
** * *
17602666 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
17602713 ATGTGATGAATGTGAACATGCATATATGTGAAAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
17602760 ATGTGATGAATGTGAACATGCATATATGTGA-AAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
17602806 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
17602853 ATGTGATGAATATGAACATACATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
17602900 ATGTGA
1 ATGTGA
17602906 AAGATGTATG
Statistics
Matches: 178, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 44 0.25
47 134 0.75
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:17602741 original size:25 final size:25
Alignment explanation
Indices: 17602713--17602790 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
17602703 CGAATGGCCA
17602713 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* * * *
17602738 ATGTGA-AAAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCATAT
17602760 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
17602785 ATGTGA
1 ATGTGA
17602791 AAGGCCGAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 14
0.63 0.13 0.23
Matches are distributed among these distances:
22 7 0.18
23 9 0.24
24 9 0.24
25 13 0.34
ACGTcount: A:0.36, C:0.10, G:0.27, T:0.27
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGCATAT
Found at i:17602818 original size:93 final size:93
Alignment explanation
Indices: 17602666--17602905 Score: 356
Period size: 93 Copynumber: 2.6 Consensus size: 93
17602656 TTAGGATTTT
** * *
17602666 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGTGA-AAGGCCGAATGGCCAATGTGATGAATGTGAACA
17602731 TGCATATATGTGAAAAGGCCGAATGGCCA
65 TGCATATATGTGAAAAGGCCGAATGGCCA
*
17602760 ATGTGATGAATGTGAACATGCATATATGTGAAAGGCCGAATGGCCAATGTGATGAATGTGAGCAT
1 ATGTGATGAATGTGAACATGCATATATGTGAAAGGCCGAATGGCCAATGTGATGAATGTGAACAT
* *
17602825 GCATATGTGTGATAAGGCCGAATGGCCA
66 GCATATATGTGAAAAGGCCGAATGGCCA
* * *
17602853 ATGTGATGAATATGAACATACATATATGTGGTAAA-GCCGAATGGCTAATGTGA
1 ATGTGATGAATGTGAACATGCATATATGT-G-AAAGGCCGAATGGCCAATGTGA
17602906 AAGATGTATG
Statistics
Matches: 134, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
93 86 0.64
94 45 0.34
95 3 0.02
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (93 bp):
ATGTGATGAATGTGAACATGCATATATGTGAAAGGCCGAATGGCCAATGTGATGAATGTGAACAT
GCATATATGTGAAAAGGCCGAATGGCCA
Found at i:17603220 original size:37 final size:37
Alignment explanation
Indices: 17603112--17603220 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
17603102 GGAAATATAT
*
17603112 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
17603149 TCCAGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
17603186 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
17603221 CGTCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:17604814 original size:40 final size:40
Alignment explanation
Indices: 17604491--17604802 Score: 509
Period size: 40 Copynumber: 7.8 Consensus size: 40
17604481 GAGAATTGAG
17604491 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
17604531 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
17604571 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
17604611 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
17604651 AGTGATATATCCGGGCTAAGTCCCGAAAAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
17604691 AGTGATGTATCCAGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
17604731 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
17604771 GGTGTTATATCCGGGCT-AGATCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAG-TCCCGAAGAGCA
17604803 ATCATGCTGG
Statistics
Matches: 255, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 2 0.01
40 253 0.99
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:17608832 original size:47 final size:47
Alignment explanation
Indices: 17608778--17609018 Score: 365
Period size: 47 Copynumber: 5.1 Consensus size: 47
17608768 TTAGGATTTT
** * *
17608778 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
17608825 ATGTGATGAATGTGAACATGCATATATGTGAAAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
17608872 ATGTGATGAATGTGAACATGCATATATGTGAAAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
17608919 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
17608966 ATGTGATGAATATGAACATACATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
17609013 ATGTGA
1 ATGTGA
17609019 AAGATGTATG
Statistics
Matches: 179, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 179 1.00
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:17608853 original size:25 final size:25
Alignment explanation
Indices: 17608825--17608902 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
17608815 CGAATGGCCA
17608825 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* * * *
17608850 ATGTGA-AAAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCATAT
17608872 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
17608897 ATGTGA
1 ATGTGA
17608903 AAAGGCCGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 14
0.63 0.13 0.23
Matches are distributed among these distances:
22 7 0.18
23 9 0.24
24 9 0.24
25 13 0.34
ACGTcount: A:0.36, C:0.10, G:0.27, T:0.27
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGCATAT
Found at i:17609333 original size:37 final size:37
Alignment explanation
Indices: 17609225--17609333 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
17609215 GGAAATATAT
*
17609225 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATA
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTA
*
17609262 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTA
* *
17609299 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
17609334 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTA
Found at i:17612017 original size:21 final size:20
Alignment explanation
Indices: 17611991--17612029 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
17611981 ATGTTTTTTG
17611991 ATGTTTGATGATAGATTATGA
1 ATGTTTGATGATAG-TTATGA
17612012 ATGTTTGATGATAGTTAT
1 ATGTTTGATGATAGTTAT
17612030 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (20 bp):
ATGTTTGATGATAGTTATGA
Found at i:17612039 original size:21 final size:21
Alignment explanation
Indices: 17611991--17612037 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
17611981 ATGTTTTTTG
*
17611991 ATGTTTGATGATAGATTATGA
1 ATGTTTGATGATAGATTATCA
17612012 ATGTTTGATGATAG-TTATACA
1 ATGTTTGATGATAGATTAT-CA
17612033 A-GTTT
1 ATGTTT
17612038 TGTTAAGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (21 bp):
ATGTTTGATGATAGATTATCA
Found at i:17614085 original size:20 final size:20
Alignment explanation
Indices: 17614056--17614094 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17614046 TGATTAGTTG
* *
17614056 TGATTGAATTGTATTTGAAT
1 TGATTAAATTGTATGTGAAT
17614076 TGATTAAATTGTATGTGAA
1 TGATTAAATTGTATGTGAA
17614095 ATGTATGCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
TGATTAAATTGTATGTGAAT
Found at i:17614269 original size:10 final size:10
Alignment explanation
Indices: 17614254--17614281 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
17614244 TCATTGCGAC
17614254 TATATGTGAT
1 TATATGTGAT
17614264 TATATGTGAT
1 TATATGTGAT
17614274 TATATGTG
1 TATATGTG
17614282 GTTAATGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (10 bp):
TATATGTGAT
Found at i:17616616 original size:2 final size:2
Alignment explanation
Indices: 17616611--17616642 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
17616601 CATAATAAGA
*
17616611 AT AT AT AT AT AT AT AA AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17616643 CTAAACTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:17618070 original size:18 final size:18
Alignment explanation
Indices: 17618033--17618082 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
17618023 AAAAAAATGA
*
17618033 AAAAATTAAGAAATTATT
1 AAAAATTAAAAAATTATT
17618051 AAAAATTAAAAAATCT-TT
1 AAAAATTAAAAAAT-TATT
**
17618069 AAATTTTAAAAAAT
1 AAAAATTAAAAAAT
17618083 AAAAATGATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (18 bp):
AAAAATTAAAAAATTATT
Found at i:17618119 original size:20 final size:21
Alignment explanation
Indices: 17618069--17618120 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 21
17618059 AAAAATCTTT
* *
17618069 AAATTTTAAAAAATAAAAATG
1 AAATTTCAAAATATAAAAATG
* *
17618090 -ATTTTGAAAATATAAAAA-G
1 AAATTTCAAAATATAAAAATG
17618109 AAATTTCAAAAT
1 AAATTTCAAAAT
17618121 TCAATGTTAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.31
Consensus pattern (21 bp):
AAATTTCAAAATATAAAAATG
Found at i:17618649 original size:32 final size:32
Alignment explanation
Indices: 17618576--17618661 Score: 86
Period size: 32 Copynumber: 2.6 Consensus size: 32
17618566 ATATATATAT
* *
17618576 ATTTTTTAAAATGAAAAAGTAAAAAAATAGAA
1 ATTTTTTAAAATTAAAAAATAAAAAAATAGAA
* *
17618608 ACTTATTAAAATTAAAAAATAAAAATAA-A-AA
1 ATTTTTTAAAATTAAAAAATAAAAA-AATAGAA
17618639 GATTTTTTAAAAATATAAAAAAT
1 -ATTTTTT-AAAAT-TAAAAAAT
17618662 TCAAAAATTC
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
31 2 0.05
32 27 0.61
33 7 0.16
34 8 0.18
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (32 bp):
ATTTTTTAAAATTAAAAAATAAAAAAATAGAA
Found at i:17624396 original size:13 final size:13
Alignment explanation
Indices: 17624378--17624405 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
17624368 AATATAGGGG
17624378 AAAATGTACCATT
1 AAAATGTACCATT
17624391 AAAATGTACCATT
1 AAAATGTACCATT
17624404 AA
1 AA
17624406 TGAATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (13 bp):
AAAATGTACCATT
Found at i:17632692 original size:38 final size:38
Alignment explanation
Indices: 17632607--17632692 Score: 102
Period size: 38 Copynumber: 2.3 Consensus size: 38
17632597 AGCACATTAT
* *
17632607 TGGCACACAAAGTGCATCTTGACACACGAGGTGCATCG
1 TGGCACACAAAGTGCATCTCGACACACGAGGTGCATCC
** * *
17632645 TGGTGCACAAAGTGCATACTCG-CATACGATGTGCATCC
1 TGGCACACAAAGTGCAT-CTCGACACACGAGGTGCATCC
17632683 TGGCACACAA
1 TGGCACACAA
17632693 TCTGCATCCT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
38 36 0.92
39 3 0.08
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (38 bp):
TGGCACACAAAGTGCATCTCGACACACGAGGTGCATCC
Found at i:17635387 original size:50 final size:50
Alignment explanation
Indices: 17635258--17635539 Score: 235
Period size: 50 Copynumber: 5.6 Consensus size: 50
17635248 ATTGTGGGAG
* * * * *** * *
17635258 CACATGTGTAGTACTATGTGCAGGCTATTATGTGTTTAAGATGGTTTTAGGC
1 CACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAG--TTAGGT
* * *
17635310 CACGTGTGTAGTACTAATTGCAGGCTACTACGTGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGGT
* * * * * * *
17635360 CGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCTGACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGA-TAGTT-AGGT
* * * * *
17635411 CACGTGTGTAGTACTAAATGCATGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGGT
** * *
17635461 CATGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGGT
* * *
17635510 CGCATGTGTAGTACTAAGTTCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAAGCTACTA
17635540 TGCATACCAA
Statistics
Matches: 184, Mismatches: 43, Indels: 9
0.78 0.18 0.04
Matches are distributed among these distances:
49 29 0.16
50 82 0.45
51 37 0.20
52 36 0.20
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGGT
Found at i:17635498 original size:101 final size:101
Alignment explanation
Indices: 17635310--17635498 Score: 297
Period size: 101 Copynumber: 1.9 Consensus size: 101
17635300 GGTTTTAGGC
* *
17635310 CACGTGTGTAGTACTAATTGCAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACT
*
17635375 AAGTGCAAGCTACTATGCGTACCTGACAACTTCAAT
66 AAGTGCAAGCTACTACGCGTACCTGACAACTTCAAT
* * * **
17635411 CACGTGTGTAGTACTAAATGCATGCTACTACGTGTATCAGATGGTTAGGTCATGTGTGTAGTACT
1 CACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACT
*
17635476 AAGTGCAAGCTACTACGTGTACC
66 AAGTGCAAGCTACTACGCGTACC
17635499 GGATTGTTGG
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
101 79 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.30
Consensus pattern (101 bp):
CACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACT
AAGTGCAAGCTACTACGCGTACCTGACAACTTCAAT
Found at i:17635772 original size:16 final size:15
Alignment explanation
Indices: 17635751--17635780 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
17635741 GAATGGAGTA
17635751 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
17635767 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
17635781 TAAAACAGTT
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:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:17637532 original size:40 final size:40
Alignment explanation
Indices: 17637473--17637680 Score: 265
Period size: 40 Copynumber: 5.2 Consensus size: 40
17637463 AGCATATATA
* * * *
17637473 TGCATTCAAAGGTATCGAAGTAGAAACAGTGGCACGTATG
1 TGCATTCAAGGGTACCGAAGTACAAACAGGGGCACGTATG
* *
17637513 TGCATTCAAGGGTACCGAAGTACTAACAAGGGCACGTATG
1 TGCATTCAAGGGTACCGAAGTACAAACAGGGGCACGTATG
* * * *
17637553 TGCTTTCACGGGTACCGAAGTACAAATAGGGGCACGTGTG
1 TGCATTCAAGGGTACCGAAGTACAAACAGGGGCACGTATG
* *
17637593 TACATTCAATGGTACCGAAGTACAAACAGGGGCACGTATG
1 TGCATTCAAGGGTACCGAAGTACAAACAGGGGCACGTATG
* * *
17637633 TTCATTCAAGGGTATCGAAGTACGAAA-AGGGGCACATATG
1 TGCATTCAAGGGTACCGAAGTAC-AAACAGGGGCACGTATG
17637673 TGCATTCA
1 TGCATTCA
17637681 GGCAATAATT
Statistics
Matches: 144, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
40 141 0.98
41 3 0.02
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.22
Consensus pattern (40 bp):
TGCATTCAAGGGTACCGAAGTACAAACAGGGGCACGTATG
Found at i:17643465 original size:46 final size:46
Alignment explanation
Indices: 17643415--17643590 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
17643405 TGGTTGAGCA
*
17643415 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
17643461 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
17643506 CATCCGAACCCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
17643554 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17643591 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:17643525 original size:93 final size:93
Alignment explanation
Indices: 17643412--17643583 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
17643402 GGATGGTTGA
* * *
17643412 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACCCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
17643477 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
17643505 GCATCCGAACCCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACCCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
17643570 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
17643584 CTTATGGGCG
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:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACCCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:17652536 original size:43 final size:42
Alignment explanation
Indices: 17652480--17652587 Score: 128
Period size: 42 Copynumber: 2.5 Consensus size: 42
17652470 ATGCCAACGT
17652480 CCCAGACATGGTCTTACATATAATCAAATATCGATGCC-ACTG
1 CCCAGACATGGTCTTACATATAATCAAATA-CGATGCCGACTG
* * * * * * *
17652522 CCTCAGACAGGGTCTTACAAAAAATTATATACGATGCCGATTT
1 CC-CAGACATGGTCTTACATATAATCAAATACGATGCCGACTG
17652565 CCCAGACATGGTCTTACATATAA
1 CCCAGACATGGTCTTACATATAA
17652588 ATCTCAAGTC
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
42 27 0.50
43 27 0.50
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (42 bp):
CCCAGACATGGTCTTACATATAATCAAATACGATGCCGACTG
Found at i:17652571 original size:42 final size:42
Alignment explanation
Indices: 17652470--17652582 Score: 120
Period size: 43 Copynumber: 2.6 Consensus size: 42
17652460 AGCTCGTACA
* * *
17652470 ATGCCAACGTCCCAGACATGGTCTTACATATAATCAAATATCG
1 ATGCC-ACTTCCCAGACATGGTCTTACAAAAAATCAAATATCG
* * * *
17652513 ATGCCACTGCCTCAGACAGGGTCTTACAAAAAATTATATA-CG
1 ATGCCACTTCC-CAGACATGGTCTTACAAAAAATCAAATATCG
*
17652555 ATGCCGATTTCCCAGACATGGTCTTACA
1 ATGCC-ACTTCCCAGACATGGTCTTACA
17652583 TATAAATCTC
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
42 26 0.45
43 32 0.55
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (42 bp):
ATGCCACTTCCCAGACATGGTCTTACAAAAAATCAAATATCG
Found at i:17656264 original size:43 final size:43
Alignment explanation
Indices: 17656163--17656285 Score: 149
Period size: 43 Copynumber: 2.9 Consensus size: 43
17656153 ATCGAGATGT
* * *
17656163 GATTATGTGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTATGTGTAAGACCATGTTTGGGACATTGGCATCGTAATGA
* * *
17656206 GATTACGTGTTAGACCATGTTTGGGACATTGGCATCGTTAAT-C
1 GATTATGTGTAAGACCATGTTTGGGACATTGGCATCG-TAATGA
* * *
17656249 GATTTTGTGTAAGACCCTGTTTGGGACAGTGGCATCG
1 GATTATGTGTAAGACCATGTTTGGGACATTGGCATCG
17656286 ATATATGATA
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
43 65 0.96
44 3 0.04
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (43 bp):
GATTATGTGTAAGACCATGTTTGGGACATTGGCATCGTAATGA
Found at i:17656317 original size:86 final size:84
Alignment explanation
Indices: 17656163--17656325 Score: 184
Period size: 86 Copynumber: 1.9 Consensus size: 84
17656153 ATCGAGATGT
* * * * * * *
17656163 GATTATGTGTAAGACCATGTCTGGGACATTGGCATTGTATTGAGATTACGTGTTAGACCATGTTT
1 GATTATGTGTAAGACCATGTCTGGGACAGTGGCATCGTATT-AGATAACATGTAAGACCATATCT
17656228 GGGACATTGGCATCGTTAATC
65 GGGACA-TGGCATCGTTAATC
* * *
17656249 GATTTTGTGTAAGACCCTGTTTGGGACAGTGGCATCG-ATATATGATAACATGTAAGACCATATC
1 GATTATGTGTAAGACCATGTCTGGGACAGTGGCATCGTAT-TA-GATAACATGTAAGACCATATC
*
17656313 TGGGATATGGCAT
64 TGGGACATGGCAT
17656326 TGTAGGAGTT
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
85 9 0.14
86 55 0.86
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.33
Consensus pattern (84 bp):
GATTATGTGTAAGACCATGTCTGGGACAGTGGCATCGTATTAGATAACATGTAAGACCATATCTG
GGACATGGCATCGTTAATC
Found at i:17656733 original size:27 final size:27
Alignment explanation
Indices: 17656703--17656880 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
17656693 ATATTGAGTC
* * * *
17656703 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
17656730 CGCACACTTAGTGCTACGTAACCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
17656757 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
17656785 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
17656812 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
17656839 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
17656866 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
17656881 GTACAATTCA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:17656892 original size:82 final size:83
Alignment explanation
Indices: 17656703--17656892 Score: 212
Period size: 82 Copynumber: 2.3 Consensus size: 83
17656693 ATATTGAGTC
* * * * *
17656703 CGCACACTCAGTGCTATATAA-TCAACTCGCACACTTAGTGCTACGTAACCAAATCGCACACTTA
1 CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAACCAAATCGCACACTTA
*
17656767 GTGCTACATAGTCAAACT
66 GTGCAACATAGTCAAACT
* ** **
17656785 CGCACACTTAGTGCCG--C-ATGGTCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACAC
1 CGCACACTTAGTGCTGTACAAT--TCAATTCGCACACTTAGTGCTA-CATAACCAAATCGCACAC
17656846 TTAGTGCAACATAGTCAAA-T
63 TTAGTGCAACATAGTCAAACT
17656866 CGCACACTTAGTGCTGTACAATTCAAT
1 CGCACACTTAGTGCTGTACAATTCAAT
17656893 CCCGCGCACT
Statistics
Matches: 89, Mismatches: 12, Indels: 14
0.77 0.10 0.12
Matches are distributed among these distances:
79 1 0.01
81 17 0.19
82 68 0.76
83 1 0.01
84 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (83 bp):
CGCACACTTAGTGCTGTACAATTCAATTCGCACACTTAGTGCTACATAACCAAATCGCACACTTA
GTGCAACATAGTCAAACT
Found at i:17668985 original size:40 final size:40
Alignment explanation
Indices: 17668915--17669082 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 40
17668905 CGGGGTTTAG
** * *
17668915 CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAAC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * *
17668954 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* * **
17668994 CCGGATATAGTCGCTAGCACAAATGCCTTCGGATCTTAGT
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
* ** * * * *
17669034 CCGGATGTAGTTGCTTAGCACAAAAGCCTTCGAGACTTAGC
1 CCGGATATAGTCAC-TAGCACAAATGCCTTCGGGTCTTAAC
17669075 CCGGATAT
1 CCGGATAT
17669083 CATTCGAGTA
Statistics
Matches: 105, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
39 15 0.14
40 62 0.59
41 28 0.27
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:17669065 original size:41 final size:39
Alignment explanation
Indices: 17668938--17669082 Score: 164
Period size: 40 Copynumber: 3.6 Consensus size: 39
17668928 CTCGCACAAG
* * * * *
17668938 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTC-GGACTTAGCCCGGATATAGTCGCTAGCACAAAT
17668978 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTC-GGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * *
17669018 GCCTTCGGATCTTAGTCCGGATGTAGTTGCTTAGCACAAAA
1 GCCTTCGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
17669059 GCCTTCGAGACTTAGCCCGGATAT
1 GCCTTCG-GACTTAGCCCGGATAT
17669083 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 58 0.64
41 28 0.31
42 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
GCCTTCGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:17677985 original size:39 final size:40
Alignment explanation
Indices: 17677885--17678074 Score: 187
Period size: 40 Copynumber: 4.8 Consensus size: 40
17677875 TCGAATGATG
* * * *
17677885 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTAC-GAGTTACTAAT
* *
17677924 ATCCAGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTACGAGTTACTAAT
* * *
17677965 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAT
*
17678004 TCCGGGTTAAGTCCCGAAGGCATTTG--CGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAT
* *
17678041 TACCGGGCTATGTCCCGAAGGCATTTGAACGAGT
1 T-CCGGGCTAAGTCCCGAAGGCATTTGTACGAGT
17678075 AGCTATATCC
Statistics
Matches: 126, Mismatches: 16, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
37 2 0.02
38 32 0.25
39 34 0.27
40 49 0.39
41 9 0.07
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAT
Found at i:17682106 original size:46 final size:46
Alignment explanation
Indices: 17682039--17682209 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 46
17682029 TGCCCCTAAG
* * *
17682039 TGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGTTAGCATCCATAAA
* * * **
17682085 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACATCTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGATG-TTAGCATCCAT-AAA
* ** * **
17682132 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAGG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGTTAGCATCCATAAA
17682178 TGAACTCGGACTCAACTCAACGAGTTCGGATG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATG
17682210 CTCAACCATC
Statistics
Matches: 101, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
46 65 0.64
47 36 0.36
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGTTAGCATCCATAAA
Found at i:17682150 original size:93 final size:93
Alignment explanation
Indices: 17682040--17682210 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
17682030 GCCCCTAAGT
***
17682040 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
17682105 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * **
17682133 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
17682198 CGAGTTCGGATGC
66 CGAGTTCGGATGC
17682211 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:17682664 original size:30 final size:30
Alignment explanation
Indices: 17682630--17682689 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
17682620 CTTTAATACG
17682630 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
17682660 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
17682690 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:17684404 original size:26 final size:29
Alignment explanation
Indices: 17684355--17684413 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 29
17684345 AGATATAGGG
17684355 GACACACGGCCAAAACACATGCCC-TG-A
1 GACACACGGCCAAAACACATGCCCGTGTA
* *
17684382 GACACACGG-CTAGACACATGCCCGTGTA
1 GACACACGGCCAAAACACATGCCCGTGTA
17684410 GACA
1 GACA
17684414 AAATAAAGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 12 0.43
27 11 0.39
28 5 0.18
ACGTcount: A:0.34, C:0.34, G:0.22, T:0.10
Consensus pattern (29 bp):
GACACACGGCCAAAACACATGCCCGTGTA
Found at i:17685787 original size:11 final size:11
Alignment explanation
Indices: 17685771--17685817 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
17685761 TACGAACTTG
*
17685771 TTCGACCATGA
1 TTCGACAATGA
17685782 TTCGACAATGA
1 TTCGACAATGA
* *
17685793 TTCGACAGTAA
1 TTCGACAATGA
*
17685804 TTC-AAAATGA
1 TTCGACAATGA
17685814 TTCG
1 TTCG
17685818 CTATGATTTG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
10 7 0.24
11 22 0.76
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (11 bp):
TTCGACAATGA
Found at i:17686006 original size:48 final size:48
Alignment explanation
Indices: 17685938--17686069 Score: 192
Period size: 48 Copynumber: 2.8 Consensus size: 48
17685928 GTGCTAGTTA
* * *
17685938 TGCCTTGATTTGGCTGCGGGCCATGTTATAGGCACTTCAAAGGTAAAT
1 TGCCTTGAGTTGGCTTCGGGCCATGGTATAGGCACTTCAAAGGTAAAT
* **
17685986 TGCCTTGAGTTGGCTTCGGGCTATGGTATAGGCACTTCGGAGGTAAAT
1 TGCCTTGAGTTGGCTTCGGGCCATGGTATAGGCACTTCAAAGGTAAAT
* *
17686034 TACCTTGAGTTGGCTTCGGGTCATGGTATAGGCACT
1 TGCCTTGAGTTGGCTTCGGGCCATGGTATAGGCACT
17686070 CTAGGGATAC
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 75 1.00
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (48 bp):
TGCCTTGAGTTGGCTTCGGGCCATGGTATAGGCACTTCAAAGGTAAAT
Found at i:17686085 original size:48 final size:48
Alignment explanation
Indices: 17685940--17686096 Score: 158
Period size: 48 Copynumber: 3.3 Consensus size: 48
17685930 GCTAGTTATG
* * * * * * *
17685940 CCTTGATTTGGCTGCGGGCCATGTTATAGGCACTTCA-AAGGTAAATTG
1 CCTTGAGTTGGCTTCGGGCTATGGTATAGGCACTT-AGGAGATAAATTA
* *
17685988 CCTTGAGTTGGCTTCGGGCTATGGTATAGGCACTTCGGAGGTAAATTA
1 CCTTGAGTTGGCTTCGGGCTATGGTATAGGCACTTAGGAGATAAATTA
**
17686036 CCTTGAGTTGGCTTCGGG-TCATGGTATAGGCACTCTAGG-GATACGTTA
1 CCTTGAGTTGGCTTCGGGCT-ATGGTATAGGCACT-TAGGAGATAAATTA
*
17686084 CCTTGATTTGGCT
1 CCTTGAGTTGGCT
17686097 ACAGGCCATC
Statistics
Matches: 94, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
47 1 0.01
48 90 0.96
49 3 0.03
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.32
Consensus pattern (48 bp):
CCTTGAGTTGGCTTCGGGCTATGGTATAGGCACTTAGGAGATAAATTA
Found at i:17686088 original size:96 final size:97
Alignment explanation
Indices: 17685895--17686118 Score: 222
Period size: 96 Copynumber: 2.3 Consensus size: 97
17685885 TGGAGTATTA
* * *
17685895 AGTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCTAGTTATGCCTTGATTTGGCTGCGGGCC
1 AGTTGGCTTCGGGCCATGATATAGGCACTTCGGGTGCTAATTA-GCCTTGAGTTGGCTGCGGGCC
* *
17685960 ATGTTATAGGCACTTCAAAGGTAAATTGCCTTG
65 ATGGTATAGGCACTTCAAAGGTAAATTACCTTG
* * * *
17685993 AGTTGGCTTCGGGCTATGGTATAGGCACTTCGGAG-G-TAAATTA-CCTTGAGTTGGCTTCGGGT
1 AGTTGGCTTCGGGCCATGATATAGGCACTTCGG-GTGCT-AATTAGCCTTGAGTTGGCTGCGGGC
* * **
17686055 CATGGTATAGGCAC-TCTAGGGATACGTTACCTTG
64 CATGGTATAGGCACTTCAAAGG-TAAATTACCTTG
* * * * *
17686089 ATTTGGCTACAGGCCATCATATAGGTACTT
1 AGTTGGCTTCGGGCCATGATATAGGCACTT
17686119 ATCGATTAAG
Statistics
Matches: 103, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
95 5 0.05
96 61 0.59
97 1 0.01
98 35 0.34
99 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.32
Consensus pattern (97 bp):
AGTTGGCTTCGGGCCATGATATAGGCACTTCGGGTGCTAATTAGCCTTGAGTTGGCTGCGGGCCA
TGGTATAGGCACTTCAAAGGTAAATTACCTTG
Found at i:17694778 original size:17 final size:17
Alignment explanation
Indices: 17694753--17694788 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
17694743 GCTTGTACAT
17694753 AAATAAATAAATAAATA
1 AAATAAATAAATAAATA
* *
17694770 AAATGAATAAATAATTA
1 AAATAAATAAATAAATA
17694787 AA
1 AA
17694789 GGCTCAAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (17 bp):
AAATAAATAAATAAATA
Found at i:17696260 original size:24 final size:24
Alignment explanation
Indices: 17696196--17696260 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 24
17696186 ATGGGAGGTT
*** *
17696196 GGAGTGATTTATGGAGTGTATCAT
1 GGAGTGATTTATGGAGAAAATCAA
* *
17696220 GGAGAGATATTA-AGAGAAAATCAA
1 GGAGTGAT-TTATGGAGAAAATCAA
17696244 GGAGTGATTTATGGAGA
1 GGAGTGATTTATGGAGA
17696261 GATTTAATGA
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
23 3 0.10
24 25 0.81
25 3 0.10
ACGTcount: A:0.37, C:0.03, G:0.32, T:0.28
Consensus pattern (24 bp):
GGAGTGATTTATGGAGAAAATCAA
Found at i:17697720 original size:53 final size:54
Alignment explanation
Indices: 17697591--17697786 Score: 166
Period size: 54 Copynumber: 3.6 Consensus size: 54
17697581 TTTAGACTAT
* * * * ** * *
17697591 CGAAATAACCCTAG-TTTGTAAAATTATCGAAATACCCCCAGTTTGTAAAATTAT
1 CGAAAT-ACCCTCGATTTTTAAAATTACCAAAATACTACCAATTTGTAAAATTAA
* * * * *
17697645 CGAAATGCCC-CCAGTTTATAAAATTACCAAAATA-TTCTAATTTGTAAAATTAA
1 CGAAATACCCTCGA-TTTTTAAAATTACCAAAATACTACCAATTTGTAAAATTAA
* *
17697698 CGAAATACCCTCGATTTTTAAAATTACCAAAATACTACCGATTTGTAGAATT-A
1 CGAAATACCCTCGATTTTTAAAATTACCAAAATACTACCAATTTGTAAAATTAA
* * * *
17697751 CTAAAACACCCTTGATTTTTAAAATTACCGAAATAC
1 C-GAAATACCCTCGATTTTTAAAATTACCAAAATAC
17697787 CCTTGTAGTG
Statistics
Matches: 115, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
53 47 0.41
54 68 0.59
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.32
Consensus pattern (54 bp):
CGAAATACCCTCGATTTTTAAAATTACCAAAATACTACCAATTTGTAAAATTAA
Found at i:17697722 original size:27 final size:27
Alignment explanation
Indices: 17697591--17697815 Score: 138
Period size: 27 Copynumber: 8.4 Consensus size: 27
17697581 TTTAGACTAT
* *
17697591 CGAAATAACCCTAG-TTTGTAAAATTAT
1 CGAAAT-ACCCTCGATTTGTAAAATTAC
* *
17697618 CGAAATACCC-CCAGTTTGTAAAATTAT
1 CGAAATACCCTCGA-TTTGTAAAATTAC
* * *
17697645 CGAAATGCCC-CCAGTTTATAAAATTAC
1 CGAAATACCCTCGA-TTTGTAAAATTAC
* ** * *
17697672 CAAAATATTCT-AATTTGTAAAATTAA
1 CGAAATACCCTCGATTTGTAAAATTAC
*
17697698 CGAAATACCCTCGATTTTTAAAATTAC
1 CGAAATACCCTCGATTTGTAAAATTAC
* * *
17697725 CAAAATACTAC-CGATTTGTAGAATTAC
1 CGAAATAC-CCTCGATTTGTAAAATTAC
** * * *
17697752 TAAAACACCCTTGATTTTTAAAATTAC
1 CGAAATACCCTCGATTTGTAAAATTAC
* * *
17697779 CGAAATACCCTTG-TAGTGTAAAATTTC
1 CGAAATACCCTCGAT-TTGTAAAATTAC
*
17697806 CAAAATACCC
1 CGAAATACCC
17697816 CTATAGGGTA
Statistics
Matches: 156, Mismatches: 35, Indels: 14
0.76 0.17 0.07
Matches are distributed among these distances:
26 25 0.16
27 130 0.83
28 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
CGAAATACCCTCGATTTGTAAAATTAC
Found at i:17697750 original size:80 final size:82
Alignment explanation
Indices: 17697605--17697789 Score: 180
Period size: 80 Copynumber: 2.3 Consensus size: 82
17697595 ATAACCCTAG
* * * * *
17697605 TTTGTAAAATTATCGAAATACCC-CCAGTTTGTAAAATTATCGAAATGCCCCCAGTTTATAAAAT
1 TTTGTAAAATTAACGAAATACCCTCCAGTTTGTAAAATTACCAAAATACACCCAGTTTATAAAAT
* **
17697669 TACCAAAATATTC-TAA
66 TACCAAAACACCCTTAA
* * * * *
17697685 TTTGTAAAATTAACGAAATACCCTCGA-TTTTTAAAATTACCAAAATACTACCGA-TTTGTAGAA
1 TTTGTAAAATTAACGAAATACCCTCCAGTTTGTAAAATTACCAAAATAC-ACCCAGTTTATAAAA
* *
17697748 TTACTAAAACACCCTTGA
65 TTACCAAAACACCCTTAA
* *
17697766 TTTTTAAAATTACCGAAATACCCT
1 TTTGTAAAATTAACGAAATACCCT
17697790 TGTAGTGTAA
Statistics
Matches: 85, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
80 56 0.66
81 29 0.34
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.33
Consensus pattern (82 bp):
TTTGTAAAATTAACGAAATACCCTCCAGTTTGTAAAATTACCAAAATACACCCAGTTTATAAAAT
TACCAAAACACCCTTAA
Found at i:17697826 original size:27 final size:27
Alignment explanation
Indices: 17697770--17697827 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
17697760 CCTTGATTTT
* * * *
17697770 TAAAATTACCGAAATACCCTTGTAGTG
1 TAAAATTACCAAAATACCCCTATAGGG
*
17697797 TAAAATTTCCAAAATACCCCTATAGGG
1 TAAAATTACCAAAATACCCCTATAGGG
17697824 TAAA
1 TAAA
17697828 TGATTGTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCCTATAGGG
Found at i:17708588 original size:40 final size:40
Alignment explanation
Indices: 17708406--17708628 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
17708396 TCCTCGTTCA
* * * * *
17708406 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
17708445 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
17708485 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
17708525 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
17708565 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
17708605 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
17708629 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:17708637 original size:41 final size:41
Alignment explanation
Indices: 17708560--17708637 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
17708550 TTAGTATCTC
* * *
17708560 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
17708601 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
17708638 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:17710517 original size:27 final size:26
Alignment explanation
Indices: 17710487--17710571 Score: 71
Period size: 27 Copynumber: 3.2 Consensus size: 26
17710477 GTGCAAATAG
*
17710487 TATTTACCAATGGCAATGTGCCTATCA
1 TATTTACC-ATGGCAATGTGCCGATCA
* ** *
17710514 TATTTATCCATGACTCTGTGTCGATCA
1 TATTTA-CCATGGCAATGTGCCGATCA
** *
17710541 TATTTACCCATGGCTGTGTGCCGATTA
1 TATTTA-CCATGGCAATGTGCCGATCA
17710568 TATT
1 TATT
17710572 ACCGTCGCTG
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
27 45 0.96
28 2 0.04
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (26 bp):
TATTTACCATGGCAATGTGCCGATCA
Found at i:17710910 original size:27 final size:27
Alignment explanation
Indices: 17710851--17710910 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
17710841 AGATAGGCTA
* ** *
17710851 GGCCCAATTGATTCTGTTATGGGCTGT
1 GGCCCAAATGATAATGTAATGGGCTGT
* *
17710878 GACCCAAATGATAATGTAATGGGCTTT
1 GGCCCAAATGATAATGTAATGGGCTGT
17710905 GGCCCA
1 GGCCCA
17710911 CTTATGCTTT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (27 bp):
GGCCCAAATGATAATGTAATGGGCTGT
Found at i:17722211 original size:43 final size:42
Alignment explanation
Indices: 17722121--17722231 Score: 109
Period size: 43 Copynumber: 2.6 Consensus size: 42
17722111 GATTTACGTG
* ** * * * *
17722121 TAAGACCATTTCTGGGACATCGTCATCATATATGATTTCGTT
1 TAAGACCACTTCTGGGATGTTGGCATCATATATGATTACATT
*
17722163 TAAGACC-CTGTCTGGGACTG-TGGCATCGATATTTGATTACATT
1 TAAGACCACT-TCTGGGA-TGTTGGCATC-ATATATGATTACATT
17722206 TAAGACCACTTCTGGGATGTTGGCAT
1 TAAGACCACTTCTGGGATGTTGGCAT
17722232 TGTATGAGCT
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
41 1 0.02
42 21 0.38
43 32 0.57
44 2 0.04
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (42 bp):
TAAGACCACTTCTGGGATGTTGGCATCATATATGATTACATT
Found at i:17724367 original size:43 final size:43
Alignment explanation
Indices: 17724314--17724396 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
17724304 TTCAAAACAG
17724314 GTAAGAATCATCAAATTTCATACACTCCATGGCCAAATACCAT
1 GTAAGAATCATCAAATTTCATACACTCCATGGCCAAATACCAT
* * * *
17724357 GTAAGCATCATCGAATTTCATACTCTTCATGGCCAAATAC
1 GTAAGAATCATCAAATTTCATACACTCCATGGCCAAATAC
17724397 TATCTCAAAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (43 bp):
GTAAGAATCATCAAATTTCATACACTCCATGGCCAAATACCAT
Found at i:17730720 original size:49 final size:49
Alignment explanation
Indices: 17730660--17731022 Score: 541
Period size: 47 Copynumber: 7.6 Consensus size: 49
17730650 GATAATTGTG
17730660 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
17730707 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
17730756 ATGTGAAAGTGTATATATATATGTGATAAGGTCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
17730807 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
17730854 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
17730903 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
17730950 ATGTGAAAGTG--TATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
17730997 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
17731023 TCCCGAAGGG
Statistics
Matches: 294, Mismatches: 12, Indels: 19
0.90 0.04 0.06
Matches are distributed among these distances:
46 2 0.01
47 141 0.48
48 5 0.02
49 99 0.34
51 47 0.16
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:17730916 original size:96 final size:96
Alignment explanation
Indices: 17730660--17731022 Score: 565
Period size: 96 Copynumber: 3.8 Consensus size: 96
17730650 GATAATTGTG
17730660 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
17730723 ACATGTGATAAGGCCTAATGGCCGATGTGATGA
66 --ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
17730756 ATGTGAAAGTGTATATATATATGTGATAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATGTGAAAGTG--TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
17730821 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
17730854 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
17730919 ATGTGATGAGGCCTAATGGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
17730950 ATGTGAAAGTG--TATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA
1 ATGTGAAAGTGTATATATATGTGATAAG-GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
17731012 AATGTGATAAG
65 TATGTGATAAG
17731023 TCCCGAAGGG
Statistics
Matches: 251, Mismatches: 11, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
93 2 0.01
94 51 0.20
96 99 0.39
97 2 0.01
98 44 0.18
100 53 0.21
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:17733811 original size:42 final size:43
Alignment explanation
Indices: 17733704--17733859 Score: 174
Period size: 43 Copynumber: 3.6 Consensus size: 43
17733694 GATCGTACAG
* * * * *
17733704 TGCCAACATCCTAGGCATGGTCTTTCATGTAATCAAATATCGA
1 TGCCAACGTCCTAGACATGGTCTTACACGAAATCAAATATCGA
*
17733747 TGCC-ACTGTCCTAGACAGGGTCTTACACGAAATCAAATA-CGA
1 TGCCAAC-GTCCTAGACATGGTCTTACACGAAATCAAATATCGA
*
17733789 TGCCAACGTCCTAAACATGGTCTTACACGTAAATACAAA-ATCGA
1 TGCCAACGTCCTAGACATGGTCTTACACG-AAAT-CAAATATCGA
* * *
17733833 TGCCAACGTCCCAGACGTGGCCTTACA
1 TGCCAACGTCCTAGACATGGTCTTACA
17733860 TGATTTCATA
Statistics
Matches: 96, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
42 29 0.30
43 37 0.39
44 30 0.31
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (43 bp):
TGCCAACGTCCTAGACATGGTCTTACACGAAATCAAATATCGA
Found at i:17733858 original size:44 final size:42
Alignment explanation
Indices: 17733704--17733859 Score: 147
Period size: 42 Copynumber: 3.6 Consensus size: 42
17733694 GATCGTACAG
* * * * * *
17733704 TGCCAACATCCTAGGCATGGTCTTTCATGTAATCAAATATCGA
1 TGCCAACGTCCTAGACGTGGTCTTACACGAAATCAAA-ATCGA
17733747 TGCC-ACTGTCCTAGACAG-GGTCTTACACGAAATC-AAATACGA
1 TGCCAAC-GTCCTAGAC-GTGGTCTTACACGAAATCAAAAT-CGA
* *
17733789 TGCCAACGTCCTAAACATGGTCTTACACGTAAATACAAAATCGA
1 TGCCAACGTCCTAGACGTGGTCTTACACG-AAAT-CAAAATCGA
* *
17733833 TGCCAACGTCCCAGACGTGGCCTTACA
1 TGCCAACGTCCTAGACGTGGTCTTACA
17733860 TGATTTCATA
Statistics
Matches: 93, Mismatches: 12, Indels: 15
0.77 0.10 0.12
Matches are distributed among these distances:
41 2 0.02
42 30 0.32
43 30 0.32
44 27 0.29
45 4 0.04
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (42 bp):
TGCCAACGTCCTAGACGTGGTCTTACACGAAATCAAAATCGA
Found at i:17738619 original size:43 final size:43
Alignment explanation
Indices: 17738464--17738620 Score: 140
Period size: 43 Copynumber: 3.7 Consensus size: 43
17738454 CATGTTATCG
* * * *
17738464 TGTAAGACCACGTCTAGGATGTTGGCATCGAGT-TATGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGA-TTACA
* * * * * *
17738508 TGTAAGACCATGTCAGGGACATCGGCATC-ATACTTGATTTCA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
** * *
17738550 TGTAAGACCTTGTCTGGGA-GAGTGGCATCGATATTTGATAACA
1 TGTAAGACCACGTCTGGGACG-TTGGCATCGATATTTGATTACA
17738593 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
17738621 TGTACGAGCT
Statistics
Matches: 88, Mismatches: 21, Indels: 9
0.75 0.18 0.08
Matches are distributed among these distances:
42 27 0.31
43 37 0.42
44 24 0.27
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:17743112 original size:57 final size:58
Alignment explanation
Indices: 17743040--17743150 Score: 143
Period size: 58 Copynumber: 1.9 Consensus size: 58
17743030 AATTTCACAT
* * * * *
17743040 ACCTGTATCTGGCCCATTAAGCCC-AATGATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTCTATATGGCCCATTAAGCCCAAATCACATTCATATAGCCCATTAGGCCCAAATC
* * *
17743097 ACCTCTATATGGCCCATTAGGCCCAAATCACATTTATATAGCCCGTTAGGCCCA
1 ACCTCTATATGGCCCATTAAGCCCAAATCACATTCATATAGCCCATTAGGCCCA
17743151 GTCACATTCA
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
57 21 0.47
58 24 0.53
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (58 bp):
ACCTCTATATGGCCCATTAAGCCCAAATCACATTCATATAGCCCATTAGGCCCAAATC
Found at i:17743114 original size:29 final size:29
Alignment explanation
Indices: 17743049--17743150 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
17743039 TACCTGTATC
* * *
17743049 TGGCCCATTAAGCCC-AATGATAT-TCATA
1 TGGCCCATTAGGCCCAAATCACATCT-ATA
*
17743077 TGGCCCATTAGGCCCAAATCACCTCTATA
1 TGGCCCATTAGGCCCAAATCACATCTATA
*
17743106 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATCTATA
* *
17743135 TAGCCCGTTAGGCCCA
1 TGGCCCATTAGGCCCA
17743151 GTCACATTCA
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
28 14 0.22
29 49 0.77
30 1 0.02
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.25
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATCTATA
Found at i:17751453 original size:43 final size:43
Alignment explanation
Indices: 17751298--17751454 Score: 133
Period size: 43 Copynumber: 3.7 Consensus size: 43
17751288 TGTGTTATCG
* * *
17751298 TGTAAGACCACATCTGGGATGTTGGCATCGACT-TATGATTTACG
1 TGTAAGACCATATCTGGGATGTTGGCATCGA-TATTTGA-TTACA
** * * *
17751342 TGTAAGACCATATCTGGGACATCGGCATC-ATACTTGATTTCA
1 TGTAAGACCATATCTGGGATGTTGGCATCGATATTTGATTACA
* * *
17751384 TGTAAGACGC-TGTCTGAGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGAC-CATATCTGGGA-TGTTGGCATCGATATTTGATTACA
**
17751427 TGTAAGACCAGGTCTGGGATGTTGGCAT
1 TGTAAGACCATATCTGGGATGTTGGCAT
17751455 TGTACAAGCT
Statistics
Matches: 89, Mismatches: 18, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
42 27 0.30
43 37 0.42
44 25 0.28
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATATCTGGGATGTTGGCATCGATATTTGATTACA
Found at i:17756411 original size:40 final size:40
Alignment explanation
Indices: 17756180--17756404 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
17756170 TTGAATGATG
* * * *
17756180 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
17756220 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
17756260 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
17756299 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
17756339 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
17756380 -CCGGGCTATGTCTCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
17756405 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 120 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:17756426 original size:119 final size:119
Alignment explanation
Indices: 17756180--17756437 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
17756170 TTGAATGATG
* *
17756180 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
17756245 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * **
17756299 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * *
17756362 TTGTGCGAGTTACT-ATAACCGGGCTATGTCTCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
17756419 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
17756438 TATGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 84 0.72
120 30 0.26
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:17764687 original size:40 final size:40
Alignment explanation
Indices: 17764456--17764680 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
17764446 TTGAATGATG
* * * *
17764456 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
17764496 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
17764536 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
17764575 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
17764615 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
17764656 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
17764681 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 121 0.74
41 9 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:17764702 original size:119 final size:119
Alignment explanation
Indices: 17764456--17764713 Score: 283
Period size: 119 Copynumber: 2.2 Consensus size: 119
17764446 TTGAATGATG
* *
17764456 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
17764521 GTACGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTACGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * **
17764575 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * *
17764638 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTACGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
17764695 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
17764714 TATGTGATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTACGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:17768112 original size:38 final size:38
Alignment explanation
Indices: 17768056--17768363 Score: 476
Period size: 38 Copynumber: 8.1 Consensus size: 38
17768046 GTATTTGATG
*
17768056 TATATCCGGGTTTTATCCCGCAGGTTTAGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTAGTGCTGGTAT
** **
17768094 TATATCCGGGTTAAATCCCGTTGGCTTAGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTAGTGCTGGTAT
*
17768132 TATATCCGGGTTTTATACCGCAGGCTTAGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTAGTGCTGGTAT
*
17768170 TATATCCGTGTTTTATCCCGCAGGCTTCA-TGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTT-AGTGCTGGTAT
*
17768208 TATATCCGGGTTTTATCCCGCAGGCTTAGTGCTGGTAC
1 TATATCCGGGTTTTATCCCGCAGGCTTAGTGCTGGTAT
* *
17768246 TATATCTGGGTTTTATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTAGTGCTGGTAT
*
17768284 TATATCCGGG-TTTATCCCGCAGGCTTCGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTAGTGCTGGTAT
**
17768321 TATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTAT
1 TATATCCGGGTTTTATCCCGCAGGCTTAGTGCTGGTAT
17768359 TATAT
1 TATAT
17768364 TCGAGCTTAA
Statistics
Matches: 246, Mismatches: 21, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
37 38 0.15
38 207 0.84
39 1 0.00
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.37
Consensus pattern (38 bp):
TATATCCGGGTTTTATCCCGCAGGCTTAGTGCTGGTAT
Found at i:17775257 original size:27 final size:27
Alignment explanation
Indices: 17775220--17775370 Score: 160
Period size: 27 Copynumber: 5.6 Consensus size: 27
17775210 TGAATTGTAC
* *
17775220 AGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
17775246 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
17775274 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
17775302 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
17775329 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
17775356 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
17775371 GACTCAATAT
Statistics
Matches: 108, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
26 1 0.01
27 84 0.78
28 23 0.21
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:17775312 original size:55 final size:54
Alignment explanation
Indices: 17775219--17775370 Score: 171
Period size: 55 Copynumber: 2.8 Consensus size: 54
17775209 TTGAATTGTA
** *
17775219 CAGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGTGCGAATTGACCATG
1 CAGCACTAAGTGTGCGAGTTGAATATGTA-GCACTAAGTGTGCGAATTGACCACG
* * * **
17775273 CGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG
1 CAGCACTAAGTGTGCGAG-TTGAATATGTAGCACTAAGTGTGCGAATTGACCACG
* * * *
17775328 TAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 CAGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCG
17775371 GACTCAATAT
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
54 38 0.46
55 44 0.53
56 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (54 bp):
CAGCACTAAGTGTGCGAGTTGAATATGTAGCACTAAGTGTGCGAATTGACCACG
Found at i:17775361 original size:82 final size:82
Alignment explanation
Indices: 17775220--17775370 Score: 187
Period size: 82 Copynumber: 1.8 Consensus size: 82
17775210 TGAATTGTAC
* * *
17775220 AGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTG
1 AGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGTGCGAATTGACCATACAGCACTAAGTG
17775285 TGCGAGTTTGACTATGT
66 TGCGAGTTTGACTATGT
** * * ** * *
17775302 AGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGTGTGCGAATTGACCATACAGCACTAAGT
17775366 GTGCG
65 GTGCG
17775371 GACTCAATAT
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
81 1 0.02
82 56 0.98
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGTGCGAATTGACCATACAGCACTAAGTG
TGCGAGTTTGACTATGT
Found at i:17779781 original size:27 final size:27
Alignment explanation
Indices: 17779743--17779796 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
17779733 ATGAAGAATA
17779743 ATAAGGTTTAGTCATCAGTCTTTTTCT
1 ATAAGGTTTAGTCATCAGTCTTTTTCT
17779770 ATAAGGTTTAGTCATCAGTCTTTTTCT
1 ATAAGGTTTAGTCATCAGTCTTTTTCT
17779797 CACATCTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.15, G:0.15, T:0.48
Consensus pattern (27 bp):
ATAAGGTTTAGTCATCAGTCTTTTTCT
Found at i:17784537 original size:49 final size:50
Alignment explanation
Indices: 17784481--17784609 Score: 174
Period size: 50 Copynumber: 2.6 Consensus size: 50
17784471 TCAAGTCGAT
17784481 GCCATGTCCCAGACATGGTCTTACACTAACTATCGA-A-A-TCGAGGCCGAC
1 GCCATGTCCCAGACATGGTCTTACACTAACTATC-ACATATTCG-GGCCGAC
* * * * *
17784530 GCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATATTCGTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTAACTATCACATATTCGGGCCGAC
17784580 GCCATGTCCCAGACATGGTCTTACACTAAC
1 GCCATGTCCCAGACATGGTCTTACACTAAC
17784610 ACATCTAGTA
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
48 1 0.01
49 32 0.46
50 34 0.49
51 3 0.04
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACACTAACTATCACATATTCGGGCCGAC
Found at i:17784660 original size:46 final size:47
Alignment explanation
Indices: 17784477--17784793 Score: 219
Period size: 46 Copynumber: 6.7 Consensus size: 47
17784467 TCGATCAAGT
* **
17784477 CGATGCCATGTCCCAGACATGGTCTTACACTAAC-TATCGAAATCG-AGGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTAGCTTA-C-ATCTCGTA-GC
* * *
17784526 CGACGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATATTCGT-GC
1 CGATG-CATGTCCCAGACATGGTCTTACACTAGCT-T-ACAT-CTCGTAGC
* *
17784576 CGATGCCATGTCCCAGACATGGTCTTACACTAAC--ACATCTAGTAGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTAGCTTACATCTCGTAGC
* *
17784622 CGATGCATGTCCCATACAT-GTCTTACACTGGCTTACATCTCG-AGGC
1 CGATGCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCGTA-GC
* * * *
17784668 TGATGCATGTCCCAGACAT-GTCTTACACTAGCTCT-CGTCTC-AATGT
1 CGATGCATGTCCCAGACATGGTCTTACACTAGCT-TACATCTCGTA-GC
* * * * *
17784714 CGATGCCATGTCCTAGACATGGTCTTACACTGGGTCT-CATAAT-GTGGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTAGCT-TACAT-CTCGTAGC
* *
17784762 CGATGCATGTTCCAGACAT-ATCTTACACTAGC
1 CGATGCATGTCCCAGACATGGTCTTACACTAGC
17784794 ACACGAATAA
Statistics
Matches: 219, Mismatches: 34, Indels: 33
0.77 0.12 0.12
Matches are distributed among these distances:
44 11 0.05
45 17 0.08
46 71 0.32
47 26 0.12
48 22 0.10
49 32 0.15
50 34 0.16
51 5 0.02
52 1 0.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (47 bp):
CGATGCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCGTAGC
Found at i:17784739 original size:94 final size:97
Alignment explanation
Indices: 17784477--17784793 Score: 291
Period size: 94 Copynumber: 3.4 Consensus size: 97
17784467 TCGATCAAGT
* * ** * * *
17784477 CGATGCCATGTCCCAGACATGGTCTTACACTAACTATCGAAATCGAGGCCGACGCCATGTCCCAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCG-TCTCAATGCCGATGCCATGTCCCAA
* * *
17784542 ACATGGTCTTACACTAGCTCTCACATATTCGTGC
65 ACATGGTCTTACACTGGCTCT-ACATAATCGGGC
* * * * *
17784576 CGATGCCATGTCCCAGACATGGTCTTACACTA--ACACATCT-AGTAGCCGATG-CATGTCCCAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAAT-GCCGATGCCATGTCCCAA
*
17784637 ACAT-GTCTTACACTGGCT-TACAT-CTCGAGGC
65 ACATGGTCTTACACTGGCTCTACATAATCG-GGC
* * * *
17784668 TGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAATGTCGATGCCATGTCCTAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCCAAA
*
17784731 CATGGTCTTACACTGGGTCT-CATAAT-GTGGC
66 CATGGTCTTACACTGGCTCTACATAATCG-GGC
* *
17784762 CGATG-CATGTTCCAGACAT-ATCTTACACTAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGC
17784794 ACACGAATAA
Statistics
Matches: 181, Mismatches: 28, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
90 11 0.06
91 17 0.09
92 21 0.12
93 15 0.08
94 62 0.34
95 15 0.08
96 7 0.04
97 1 0.01
99 32 0.18
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (97 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAATGCCGATGCCATGTCCCAAA
CATGGTCTTACACTGGCTCTACATAATCGGGC
Found at i:17784786 original size:140 final size:140
Alignment explanation
Indices: 17784532--17784790 Score: 321
Period size: 140 Copynumber: 1.8 Consensus size: 140
17784522 AGGCCGACGC
*
17784532 CATGTCCCAAACATGGTCTTACACTAGCTCTCACATATTCGTGCCGATGCCATGTCCCAGACATG
1 CATGTCCCAAACATGGTCTTACACTAGCTCTCACATAATCGT-CCGATGCCATGTCCCAGACATG
* * *
17784597 GTCTTACACTAACACATCTAGTAGCCGATGCATGTCCCATACATGTCTTACACTGGCTTACATCT
65 GTCTTACACTAACACATATAGTAGCCGATGCATGTCCCAGACATATCTTACACTGGCTTACATCT
17784662 CGAGGCTGATG
130 CGAGGCTGATG
* * *
17784673 CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTC-TCAAT-GT-CGATGCCATGTCCTAGACAT
1 CATGTCCCAAACATGGTCTTACACTAGCTCTC-ACAT-AATCGTCCGATGCCATGTCCCAGACAT
** * * *
17784734 GGTCTTACACTGGGTCTCATA-ATGTGGCCGATGCATGTTCCAGACATATCTTACACT
64 GGTCTTACACT--AACACATATA-GTAGCCGATGCATGTCCCAGACATATCTTACACT
17784791 AGCACACGAA
Statistics
Matches: 101, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
138 30 0.30
139 1 0.01
140 54 0.53
141 16 0.16
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (140 bp):
CATGTCCCAAACATGGTCTTACACTAGCTCTCACATAATCGTCCGATGCCATGTCCCAGACATGG
TCTTACACTAACACATATAGTAGCCGATGCATGTCCCAGACATATCTTACACTGGCTTACATCTC
GAGGCTGATG
Found at i:17789633 original size:49 final size:49
Alignment explanation
Indices: 17789580--17789805 Score: 272
Period size: 49 Copynumber: 4.6 Consensus size: 49
17789570 CTAGTACGCA
*
17789580 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACG
** ** * *
17789629 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTCATTCAGG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCTGGTACACG
* * * *
17789679 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCTGGTACACG
* * * * *
17789730 TAGTAGCCTGCACTTAGTACTACACATGCGGCCAATAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACG
*
17789779 TAGTAGCCTGCGCTTAGTACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
17789806 ATGATCTTAC
Statistics
Matches: 147, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
49 67 0.46
50 46 0.31
51 34 0.23
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACG
Found at i:17792002 original size:30 final size:30
Alignment explanation
Indices: 17791968--17792028 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
17791958 TTCCCGAGCC
*
17791968 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
* * * *
17791998 TAGGGGAAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGAAAAAGTGTAAATATGCAAAAGTT
17792028 T
1 T
17792029 GAATTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAAATATGCAAAAGTT
Found at i:17792799 original size:68 final size:63
Alignment explanation
Indices: 17792689--17792941 Score: 201
Period size: 68 Copynumber: 3.9 Consensus size: 63
17792679 ATACAGATGG
** * * *
17792689 TATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTACAAGAC
1 TATGTAGCTAGGTCACATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTAC--GA-
17792752 ATTA
61 A-TA
*
17792756 TGATGTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGAATA
1 T-ATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTAC-GAATA
* * * * * * *
17792821 TATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGATAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCACATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGA-A
17792886 TA
62 TA
* * *
17792888 AACTG-A-CTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 TA-TGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
17792942 CAAACTATAT
Statistics
Matches: 152, Mismatches: 25, Indels: 22
0.76 0.13 0.11
Matches are distributed among these distances:
62 1 0.01
63 18 0.12
64 24 0.16
65 3 0.02
66 23 0.15
67 33 0.22
68 49 0.32
69 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (63 bp):
TATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAATA
Found at i:17797056 original size:30 final size:30
Alignment explanation
Indices: 17797022--17797118 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
17797012 TAAATTAAAA
*
17797022 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
17797052 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
17797082 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
17797111 ATGAGCTA
1 -TGAGCTA
17797119 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:17799311 original size:12 final size:12
Alignment explanation
Indices: 17799296--17799326 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
17799286 TTCTTTTTGC
17799296 TTTTCAAAGGCT
1 TTTTCAAAGGCT
17799308 TTTTCAAAGGCT
1 TTTTCAAAGGCT
17799320 TTTTCAA
1 TTTTCAA
17799327 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:17799384 original size:5 final size:5
Alignment explanation
Indices: 17799374--17799440 Score: 66
Period size: 5 Copynumber: 13.0 Consensus size: 5
17799364 CTCTTGCCTC
* *
17799374 TCTTT TCTTT TCTTT T-TATT TCATTT TCTTT TCTTC TC-TT GCTTTT
1 TCTTT TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT TC-TTT
17799420 TCTTTT TCTTT TCTTT TCTTT
1 TC-TTT TCTTT TCTTT TCTTT
17799441 GTTTTCTCTT
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
4 3 0.06
5 36 0.68
6 13 0.25
7 1 0.02
ACGTcount: A:0.03, C:0.19, G:0.01, T:0.76
Consensus pattern (5 bp):
TCTTT
Found at i:17799405 original size:26 final size:25
Alignment explanation
Indices: 17799374--17799446 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 25
17799364 CTCTTGCCTC
17799374 TCTTTTCTTTTCTTTTTATTTCATTT
1 TCTTTTCTTTTCTTTTT-TTTCATTT
* * *
17799400 TCTTTTCTTCTCTTGCTTTTTCTTTT
1 TCTTTTCTTTTCTT-TTTTTTCATTT
*
17799426 TCTTTTCTTTTCTTTGTTTTC
1 TCTTTTCTTTTCTTTTTTTTC
17799447 TCTTTACAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
25 5 0.12
26 33 0.82
27 2 0.05
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.75
Consensus pattern (25 bp):
TCTTTTCTTTTCTTTTTTTTCATTT
Found at i:17799450 original size:16 final size:16
Alignment explanation
Indices: 17799376--17799451 Score: 52
Period size: 16 Copynumber: 4.8 Consensus size: 16
17799366 CTTGCCTCTC
*
17799376 TTTTCTTTTCTTTT-T
1 TTTTCTTCTCTTTTCT
* *
17799391 ATTTCATTTTCTTTTC-
1 TTTTC-TTCTCTTTTCT
*
17799407 TTCTCTTGCT-TTTTCT
1 TTTTCTT-CTCTTTTCT
*
17799423 TTTTCTTTTCTTTTCT
1 TTTTCTTCTCTTTTCT
17799439 TTGTT-TTCTCTTT
1 TT-TTCTTCTCTTT
17799452 ACAAGAATGT
Statistics
Matches: 48, Mismatches: 7, Indels: 11
0.73 0.11 0.17
Matches are distributed among these distances:
15 12 0.25
16 34 0.71
17 2 0.04
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (16 bp):
TTTTCTTCTCTTTTCT
Found at i:17802124 original size:30 final size:30
Alignment explanation
Indices: 17802090--17802186 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
17802080 TAAACTAAAA
*
17802090 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
17802120 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
17802150 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
17802179 ATGAGCTA
1 -TGAGCTA
17802187 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:17804865 original size:49 final size:49
Alignment explanation
Indices: 17804804--17805035 Score: 257
Period size: 49 Copynumber: 4.7 Consensus size: 49
17804794 CTGGTACGCA
* *
17804804 TAGTAGCTTGCACTTAGTACTACACATGTGACCAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACG
** * *
17804853 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACGATCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCAGTACACG
* * ** ** *
17804903 TAGTAGCCTGCACTTAGTACTACACACATGATCAAAGTTATCGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCAGTACACG
* * * * * * *
17804954 AAGTAGCCTACACTTAGTACTACACATGCGACCAATAATCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACG
17805003 TAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
17805036 TCACAATAGA
Statistics
Matches: 148, Mismatches: 32, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
49 68 0.46
50 47 0.32
51 33 0.22
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCAGTACACG
Found at i:17807541 original size:49 final size:50
Alignment explanation
Indices: 17807463--17807707 Score: 251
Period size: 49 Copynumber: 4.9 Consensus size: 50
17807453 TCCGTTGTGA
* * *
17807463 GTCACGTGTGTAGTACTAAGTGCAGGCTACTAAGTGTACCGGACAATT-G
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAG
* * * * ** * *
17807512 GTCGCATGTGTAGTACTATGTACAGGCTACTATGCATACCTGATAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TTAG
* * * * **
17807563 ATCACATGTGTAGTAATAAGTGCAGGCTACTACGTGTATCAGATGGTTAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAG
* *
17807613 GACACATGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATT-G
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAG
* * * * *
17807662 GTCGCATGTGTAATACTAAGTGCAGGCTACTATGCGTACCAGATAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA
17807708 CCTTGTCTAC
Statistics
Matches: 157, Mismatches: 37, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
49 77 0.49
50 45 0.29
51 35 0.22
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAG
Found at i:17813602 original size:49 final size:47
Alignment explanation
Indices: 17813419--17813608 Score: 184
Period size: 50 Copynumber: 3.9 Consensus size: 47
17813409 GTGAGTCATG
* * *
17813419 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-AAAACTTCGATCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CCAGATAA-TT-GGTCA
* * * **
17813468 CGTTTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCA
1 --TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT-GGTCA
* *
17813518 TGTGTATAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTTGCA
1 TGTG--TAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGG-T-CA
*
17813569 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA
17813609 CCTTGTCTAC
Statistics
Matches: 117, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
48 3 0.03
49 35 0.30
50 43 0.37
51 36 0.31
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (47 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATTGGTCA
Found at i:17827677 original size:38 final size:38
Alignment explanation
Indices: 17827629--17827704 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
17827619 TTCTGTAGTA
*
17827629 TCCTGCCAATCCTAGAAAACTCTGTATTTCCGACACTG
1 TCCTGCCAATCCTAGAAAACTCCGTATTTCCGACACTG
*
17827667 TCCTGCCAATCCTAGAAAACTCCGTATTTTCGACACTG
1 TCCTGCCAATCCTAGAAAACTCCGTATTTCCGACACTG
17827705 ACCTAGGCGG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.26, C:0.32, G:0.13, T:0.29
Consensus pattern (38 bp):
TCCTGCCAATCCTAGAAAACTCCGTATTTCCGACACTG
Found at i:17831513 original size:27 final size:27
Alignment explanation
Indices: 17831475--17831587 Score: 124
Period size: 27 Copynumber: 4.1 Consensus size: 27
17831465 AACATGGCTG
* *
17831475 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
*
17831501 CCAGATATAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
17831529 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
* *
17831556 CCAGAT-CAAATAATTTGTGGCATAGCCA
1 CCAGATACAGATAA--TGTGGCAGAGCCA
17831584 CCAG
1 CCAG
17831588 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
26 6 0.08
27 36 0.48
28 33 0.44
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:17831530 original size:28 final size:26
Alignment explanation
Indices: 17831482--17831587 Score: 108
Period size: 28 Copynumber: 3.9 Consensus size: 26
17831472 CTGCCAGAAC
* *
17831482 AGATAATGTGACAGAGTCACCAGATA
1 AGATAATGTGGCAGAGCCACCAGATA
17831508 TAGATAATCGTGGCAGAGCCACCAGA-A
1 -AGATAAT-GTGGCAGAGCCACCAGATA
17831535 CAGATATATGTGGCAGAGCCACCAGATCA
1 -AGATA-ATGTGGCAGAGCCACCAGAT-A
*
17831564 A-ATAATTTGTGGCATAGCCACCAG
1 AGATAA--TGTGGCAGAGCCACCAG
17831588 GACGCTTCCT
Statistics
Matches: 69, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
26 1 0.01
27 33 0.48
28 34 0.49
29 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.19
Consensus pattern (26 bp):
AGATAATGTGGCAGAGCCACCAGATA
Found at i:17831558 original size:55 final size:54
Alignment explanation
Indices: 17831475--17831587 Score: 149
Period size: 55 Copynumber: 2.1 Consensus size: 54
17831465 AACATGGCTG
*
17831475 CCAGAACAGATAATGTGACAGAGTCACCAGAT-ATAGATAA-TCGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATCA-A-ATAATTCGTGGCAGAGCCA
* * *
17831529 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAAATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATCAAATAATTCGTGGCAGAGCCA
17831584 CCAG
1 CCAG
17831588 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
54 16 0.31
55 35 0.67
56 1 0.02
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATCAAATAATTCGTGGCAGAGCCA
Found at i:17836337 original size:51 final size:52
Alignment explanation
Indices: 17836237--17836358 Score: 135
Period size: 51 Copynumber: 2.4 Consensus size: 52
17836227 CCCAAATTTT
* * * *
17836237 CTTCATACTTT-ATCCGGA-ATTATTACTTTGTTGTTCTGGCTTCATCAAGAA
1 CTTCATA-TTTCATCCGGATATTATTACTTTATTGCTCTAGCTTCAACAAGAA
* *
17836288 C-TCTATATTTCATCCGGATA-TATTACTTTATTGCTCTAGTTTCAACAAGAG
1 CTTC-ATATTTCATCCGGATATTATTACTTTATTGCTCTAGCTTCAACAAGAA
*
17836339 CTTCATATTTCATCCAGATA
1 CTTCATATTTCATCCGGATA
17836359 ATTTAGTTCT
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
50 5 0.08
51 52 0.87
52 3 0.05
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.42
Consensus pattern (52 bp):
CTTCATATTTCATCCGGATATTATTACTTTATTGCTCTAGCTTCAACAAGAA
Found at i:17836864 original size:23 final size:22
Alignment explanation
Indices: 17836834--17836876 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
17836824 TTCTGTTTCT
17836834 TTTCTTCTTTT-TATTCTTTTTG
1 TTTCTTCTTTTGT-TTCTTTTTG
17836856 TTTCTTTCTTTTGTTTCTTTT
1 TTTC-TTCTTTTGTTTCTTTT
17836877 ATATATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 4 0.21
23 14 0.74
24 1 0.05
ACGTcount: A:0.02, C:0.14, G:0.05, T:0.79
Consensus pattern (22 bp):
TTTCTTCTTTTGTTTCTTTTTG
Found at i:17836869 original size:13 final size:13
Alignment explanation
Indices: 17836851--17836875 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17836841 TTTTTATTCT
17836851 TTTTGTTTCTTTC
1 TTTTGTTTCTTTC
17836864 TTTTGTTTCTTT
1 TTTTGTTTCTTT
17836876 TATATATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.08, T:0.80
Consensus pattern (13 bp):
TTTTGTTTCTTTC
Found at i:17837547 original size:13 final size:14
Alignment explanation
Indices: 17837529--17837557 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
17837519 GATTAACTTC
17837529 ATAAATATTTT-TA
1 ATAAATATTTTCTA
17837542 ATAAATATTTTCTA
1 ATAAATATTTTCTA
17837556 AT
1 AT
17837558 CCATTTTCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
ATAAATATTTTCTA
Found at i:17846481 original size:13 final size:13
Alignment explanation
Indices: 17846463--17846503 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
17846453 TTGAAGCACT
17846463 TCACACGGGCGTG
1 TCACACGGGCGTG
*
17846476 TCACACGAGCGTG
1 TCACACGGGCGTG
*
17846489 TCACACGGGCATG
1 TCACACGGGCGTG
17846502 TC
1 TC
17846504 TCTGTCGGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.20, C:0.32, G:0.32, T:0.17
Consensus pattern (13 bp):
TCACACGGGCGTG
Found at i:17848806 original size:24 final size:24
Alignment explanation
Indices: 17848777--17848835 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
17848767 AACCGAATTT
* * *
17848777 GCACACATAGTG-CTTATTACACTC
1 GCACACATAGTGCCATAGTAAAC-C
17848801 GCACACATAGTGCCATAGTAAACC
1 GCACACATAGTGCCATAGTAAACC
17848825 GCACACATAGT
1 GCACACATAGT
17848836 CATTGGATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 24 0.77
25 7 0.23
ACGTcount: A:0.34, C:0.29, G:0.15, T:0.22
Consensus pattern (24 bp):
GCACACATAGTGCCATAGTAAACC
Found at i:17852976 original size:20 final size:20
Alignment explanation
Indices: 17852951--17852990 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
17852941 ACATGAAATA
17852951 TGCATTCTTTAGATGTAATT
1 TGCATTCTTTAGATGTAATT
*
17852971 TGCATTTTTTAGATGTAATT
1 TGCATTCTTTAGATGTAATT
17852991 CTATATTACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.07, G:0.15, T:0.53
Consensus pattern (20 bp):
TGCATTCTTTAGATGTAATT
Found at i:17856340 original size:18 final size:17
Alignment explanation
Indices: 17856313--17856350 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
17856303 ATTTTACTTT
17856313 TTTTTATTTCTATTTTTA
1 TTTTTATTTCTA-TTTTA
*
17856331 TTTTTGTTTCTATTTTA
1 TTTTTATTTCTATTTTA
17856348 TTT
1 TTT
17856351 CAAATTCCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.13, C:0.05, G:0.03, T:0.79
Consensus pattern (17 bp):
TTTTTATTTCTATTTTA
Done.