Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 43 of 316
Found at i:12389523 original size:14 final size:14
Alignment explanation
Indices: 12389488--12389524 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
12389478 GATTCAAGGT
*
12389488 TTAGGGATTATGGA
1 TTAGGGGTTATGGA
12389502 TTAGGGGTTATGGA
1 TTAGGGGTTATGGA
*
12389516 TTATGGGTT
1 TTAGGGGTT
12389525 TAGGTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.22, C:0.00, G:0.38, T:0.41
Consensus pattern (14 bp):
TTAGGGGTTATGGA
Found at i:12389694 original size:23 final size:23
Alignment explanation
Indices: 12389664--12389713 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
12389654 GATTAATGTA
* *
12389664 TATG-GTTAAGAGTTTTAGGGTT
1 TATGAGTTAAGACTTTAAGGGTT
**
12389686 TATGAGTTACTACTTTAAGGGTT
1 TATGAGTTAAGACTTTAAGGGTT
12389709 TATGA
1 TATGA
12389714 ATTATGGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.26, C:0.04, G:0.26, T:0.44
Consensus pattern (23 bp):
TATGAGTTAAGACTTTAAGGGTT
Found at i:12389789 original size:50 final size:51
Alignment explanation
Indices: 12389700--12389798 Score: 130
Period size: 50 Copynumber: 2.0 Consensus size: 51
12389690 AGTTACTACT
* * *
12389700 TTAAGGGTTTATGAATTATGGTTTCAGGGCTGGGGTTTAAGGTTTATGGGG
1 TTAAGGGTTTACGAATTATGGTTTCAGGGCTAGGATTTAAGGTTTATGGGG
* *
12389751 TTAAGGG-TTACGAGTTATGG-TTCAGGGTTTAGGATTTAAGGTTTATGG
1 TTAAGGGTTTACGAATTATGGTTTCAGGG-CTAGGATTTAAGGTTTATGG
12389799 TTTAGGGTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
49 7 0.17
50 28 0.67
51 7 0.17
ACGTcount: A:0.21, C:0.04, G:0.35, T:0.39
Consensus pattern (51 bp):
TTAAGGGTTTACGAATTATGGTTTCAGGGCTAGGATTTAAGGTTTATGGGG
Found at i:12389814 original size:15 final size:14
Alignment explanation
Indices: 12389765--12389824 Score: 77
Period size: 14 Copynumber: 4.2 Consensus size: 14
12389755 GGGTTACGAG
*
12389765 TTATGGTTCAGGGT
1 TTATGGTTTAGGGT
*
12389779 TTA-GGATTTAAGGT
1 TTATGG-TTTAGGGT
12389793 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
12389807 TCTATGGTTTAGGGT
1 T-TATGGTTTAGGGT
12389822 TTA
1 TTA
12389825 GGGATTAAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
13 2 0.05
14 22 0.55
15 16 0.40
ACGTcount: A:0.18, C:0.03, G:0.32, T:0.47
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:12389822 original size:22 final size:21
Alignment explanation
Indices: 12389765--12389827 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
12389755 GGGTTACGAG
* *
12389765 TTATGGTTCAGGGTTTAGGAT
1 TTATGGTTTAGGGTTTAGGGT
* *
12389786 TTAAGGTTTATGGTTTAGGGT
1 TTATGGTTTAGGGTTTAGGGT
12389807 TCTATGGTTTAGGGTTTAGGG
1 T-TATGGTTTAGGGTTTAGGG
12389828 ATTAAAGGAT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
21 18 0.51
22 17 0.49
ACGTcount: A:0.17, C:0.03, G:0.35, T:0.44
Consensus pattern (21 bp):
TTATGGTTTAGGGTTTAGGGT
Found at i:12389827 original size:7 final size:7
Alignment explanation
Indices: 12389769--12389827 Score: 64
Period size: 7 Copynumber: 8.3 Consensus size: 7
12389759 TACGAGTTAT
*
12389769 GGTTCAG
1 GGTTTAG
12389776 GGTTTAG
1 GGTTTAG
* *
12389783 GATTTAA
1 GGTTTAG
*
12389790 GGTTTAT
1 GGTTTAG
12389797 GGTTTAG
1 GGTTTAG
*
12389804 GGTTCTAT
1 GGTT-TAG
12389812 GGTTTAG
1 GGTTTAG
12389819 GGTTTAG
1 GGTTTAG
12389826 GG
1 GG
12389828 ATTAAAGGAT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
7 37 0.86
8 6 0.14
ACGTcount: A:0.17, C:0.03, G:0.37, T:0.42
Consensus pattern (7 bp):
GGTTTAG
Found at i:12389988 original size:13 final size:14
Alignment explanation
Indices: 12389964--12390000 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
12389954 GAAAAAAATG
12389964 AAATTATTTAGATT
1 AAATTATTTAGATT
12389978 AAATT-TTTAGATT
1 AAATTATTTAGATT
*
12389991 AAACTATTTA
1 AAATTATTTA
12390001 AGAGATAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (14 bp):
AAATTATTTAGATT
Found at i:12390079 original size:19 final size:19
Alignment explanation
Indices: 12390057--12390096 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
12390047 AATTGATAAC
*
12390057 AAATAAAAATTAAATACAA
1 AAATAAAAATGAAATACAA
*
12390076 AAATAAAAATGAAATATAA
1 AAATAAAAATGAAATACAA
12390095 AA
1 AA
12390097 TGGAGATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (19 bp):
AAATAAAAATGAAATACAA
Found at i:12390381 original size:19 final size:18
Alignment explanation
Indices: 12390359--12390406 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
12390349 CCCGTAATAG
*
12390359 ATTTTCCCCAATTCACTAT
1 ATTTTCCCCAA-TCACTAA
*
12390378 A-TTTCCCCTAATCTCTAA
1 ATTTTCCCC-AATCACTAA
12390396 ATTTTCCCCAA
1 ATTTTCCCCAA
12390407 AATCCCTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.40
Consensus pattern (18 bp):
ATTTTCCCCAATCACTAA
Found at i:12390551 original size:20 final size:20
Alignment explanation
Indices: 12390526--12390564 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
12390516 ATGAAGGTTC
*
12390526 AGTTTTCTTGTTATGTCATT
1 AGTTTTCTTGTTATATCATT
12390546 AGTTTTCTTGTTATATCAT
1 AGTTTTCTTGTTATATCAT
12390565 CCAACCCCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.10, G:0.13, T:0.59
Consensus pattern (20 bp):
AGTTTTCTTGTTATATCATT
Found at i:12393121 original size:104 final size:105
Alignment explanation
Indices: 12392904--12393474 Score: 968
Period size: 104 Copynumber: 5.4 Consensus size: 105
12392894 ATTTTAAATG
* *
12392904 TTTTATTTTATTTTTAAATTACTTAATTAAATTAAATCGTATTTAAAGTTTTATTTTAAATATAT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTT--A-A-A-
* * *
12392969 TATTTTATTTTATTTTATTTTAATTATGAAAAATGTTTTGTCTAC
61 TATTTTATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTAC
*
12393014 TTTTATTTTATTTTTAAATTACCTAATCAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
*
12393079 TA-TTTATTTTATTTTAATCACAAAAAATATTTTGTCTAC
66 TATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTAC
12393118 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
*
12393183 TATTTTATTTTATTTTAATCATGAAAAATATTTTGTCTAC
66 TATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTAC
* *
12393223 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATAGTATTTAAAGTTTTATTTTAAAT-GTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
12393287 TATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTAC
66 TATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTAC
*
12393327 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT-GTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
*
12393391 TATTTTATTTTATTTTAATCACAAAAAATATTTTGTCTAC
66 TATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTAC
12393431 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTT
12393475 TTAAATGTTG
Statistics
Matches: 445, Mismatches: 15, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
104 286 0.64
105 102 0.23
106 1 0.00
107 1 0.00
108 1 0.00
110 54 0.12
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (105 bp):
TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
TATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTAC
Found at i:12393269 original size:209 final size:209
Alignment explanation
Indices: 12392904--12393474 Score: 975
Period size: 209 Copynumber: 2.7 Consensus size: 209
12392894 ATTTTAAATG
* *
12392904 TTTTATTTTATTTTTAAATTACTTAATTAAATTAAATCGTATTTAAAGTTTTATTTTAAATATAT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTT--A-A-A-
* *
12392969 TATTTTATTTTATTTTATTTTAATTATGAAAAATGTTTTGTCTACTTTTATTTTATTTTTAAATT
61 TATTTTATTTTATTTTATTTTAATCATGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATT
* *
12393034 ACCTAATCAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT-TATTTATTTTATTTTAATC
126 ACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATGTTTAT-TTTATTTTATTTTAATC
12393098 ACAAAAAATATTTTGTCTAC
190 ACAAAAAATATTTTGTCTAC
12393118 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
12393183 TATTTTATTTTATTTTAATCATGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTA
66 TATTTTATTTTATTTTAATCATGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTA
* *
12393248 ATTAAATTAAATAGTATTTAAAGTTTTATTTTAAATGTTTATTTTATTTTATTTTAATCACGAAA
131 ATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATGTTTATTTTATTTTATTTTAATCACAAAA
12393313 AATATTTTGTCTAC
196 AATATTTTGTCTAC
*
12393327 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAAT-GTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
**
12393391 TATTTTATTTTATTTTAATCACAAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTA
66 TATTTTATTTTATTTTAATCATGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTA
12393456 ATTAAATTAAATTGTATTT
131 ATTAAATTAAATTGTATTT
12393475 TTAAATGTTG
Statistics
Matches: 344, Mismatches: 12, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
208 83 0.24
209 202 0.59
210 2 0.01
211 1 0.00
212 1 0.00
214 55 0.16
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (209 bp):
TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
TATTTTATTTTATTTTAATCATGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTA
ATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATGTTTATTTTATTTTATTTTAATCACAAAA
AATATTTTGTCTAC
Found at i:12393282 original size:13 final size:12
Alignment explanation
Indices: 12393264--12393304 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
12393254 TTAAATAGTA
12393264 TTTAAAGTTTTAT
1 TTTAAA-TTTTAT
12393277 TTTAAATGTTTAT
1 TTTAAAT-TTTAT
12393290 TTT--ATTTTAT
1 TTTAAATTTTAT
12393300 TTTAA
1 TTTAA
12393305 TCACGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
10 8 0.32
11 2 0.08
12 1 0.04
13 14 0.56
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (12 bp):
TTTAAATTTTAT
Found at i:12393347 original size:313 final size:318
Alignment explanation
Indices: 12392904--12393474 Score: 1010
Period size: 313 Copynumber: 1.8 Consensus size: 318
12392894 ATTTTAAATG
* *
12392904 TTTTATTTTATTTTTAAATTACTTAATTAAATTAAATCGTATTTAAAGTTTTATTTTAAATATAT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATAGTATTTAAAGTTTTATTTT-AATATAT
* * * *
12392969 TATTTTATTTTATTTTATTTTAATTATGAAAAATGTTTTGTCTACTTTTATTTTATTTTTAAATT
65 TAGTTTATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATT
*
12393034 ACCTAATCAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT-TATTTATTTTATTTTAATC
130 ACCTAATCAAATTAAATTGTATTTAAAGTTTTATTTTAAATGTTTAT-TTTATTTTATTTTAATC
12393098 ACAAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTA
194 ACAAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTA
12393163 AAGTTTTATTTTAAATATTTTATTTTATTTTATTTTAATCATGAAAAATATTTTGTCTAC
259 AAGTTTTATTTTAAATATTTTATTTTATTTTATTTTAATCATGAAAAATATTTTGTCTAC
12393223 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATAGTATTTAAAGTTTTATTTT-A-A-A-T
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATAGTATTTAAAGTTTTATTTTAATATATT
12393284 -GTTTATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTA
66 AGTTTATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTA
*
12393348 CCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATGTTTATTTTATTTTATTTTAATCAC
131 CCTAATCAAATTAAATTGTATTTAAAGTTTTATTTTAAATGTTTATTTTATTTTATTTTAATCAC
12393413 AAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTT
196 AAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTT
12393475 TTAAATGTTG
Statistics
Matches: 243, Mismatches: 8, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
313 183 0.75
314 2 0.01
315 1 0.00
316 1 0.00
317 1 0.00
319 55 0.23
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (318 bp):
TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATAGTATTTAAAGTTTTATTTTAATATATT
AGTTTATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTA
CCTAATCAAATTAAATTGTATTTAAAGTTTTATTTTAAATGTTTATTTTATTTTATTTTAATCAC
AAAAAATATTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAA
GTTTTATTTTAAATATTTTATTTTATTTTATTTTAATCATGAAAAATATTTTGTCTAC
Found at i:12393386 original size:13 final size:12
Alignment explanation
Indices: 12393358--12393408 Score: 54
Period size: 13 Copynumber: 4.3 Consensus size: 12
12393348 CCTAATTAAA
*
12393358 TTAAATTGTA-T
1 TTAAATTTTATT
12393369 TTAAAGTTTTATT
1 TTAAA-TTTTATT
12393382 TTAAATGTTTATT
1 TTAAAT-TTTATT
12393395 TT--ATTTTATT
1 TTAAATTTTATT
12393405 TTAA
1 TTAA
12393409 TCACAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
10 8 0.24
11 7 0.21
12 5 0.15
13 14 0.41
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (12 bp):
TTAAATTTTATT
Found at i:12393711 original size:9 final size:9
Alignment explanation
Indices: 12393697--12393750 Score: 72
Period size: 9 Copynumber: 6.0 Consensus size: 9
12393687 ATATCGTATC
12393697 TTACATAAT
1 TTACATAAT
12393706 TTACATAAT
1 TTACATAAT
* * *
12393715 TCAGATAAC
1 TTACATAAT
12393724 TTACATAAT
1 TTACATAAT
*
12393733 TTACATAAC
1 TTACATAAT
12393742 TTACATAAT
1 TTACATAAT
12393751 ACATAAATAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 37 1.00
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.39
Consensus pattern (9 bp):
TTACATAAT
Found at i:12393749 original size:27 final size:27
Alignment explanation
Indices: 12393696--12393785 Score: 89
Period size: 27 Copynumber: 3.4 Consensus size: 27
12393686 TATATCGTAT
*
12393696 CTTACATAATTTACATAA-TTCAGATAA
1 CTTACATAATTTACATAACTT-ACATAA
12393723 CTTACATAATTTACATAACTTACATAA
1 CTTACATAATTTACATAACTTACATAA
* * * *
12393750 --TACATAA-ATATATATCATATCATAA
1 CTTACATAATTTACATAACTTA-CATAA
12393775 CTTACATAATT
1 CTTACATAATT
12393786 AATTATACTT
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
24 8 0.15
25 12 0.23
27 30 0.58
28 2 0.04
ACGTcount: A:0.46, C:0.16, G:0.01, T:0.38
Consensus pattern (27 bp):
CTTACATAATTTACATAACTTACATAA
Found at i:12398809 original size:13 final size:14
Alignment explanation
Indices: 12398793--12398821 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
12398783 TTATAAATAT
12398793 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
12398806 TTATAATGGTTTAA
1 TTATAATGGTTTAA
12398820 TT
1 TT
12398822 TGTCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:12399565 original size:30 final size:31
Alignment explanation
Indices: 12399509--12399577 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 31
12399499 TGATTGCATT
*
12399509 TTTTATGCTAAATTTGCTAATTTTGGTTGCA
1 TTTTATGCTAAATTTACTAATTTTGGTTGCA
* * *
12399540 TTTTATGCTATATTTACT-GTTTTGGTTGGA
1 TTTTATGCTAAATTTACTAATTTTGGTTGCA
*
12399570 TTTAATGC
1 TTTTATGC
12399578 AGGAAGGGCT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
30 17 0.52
31 16 0.48
ACGTcount: A:0.20, C:0.09, G:0.17, T:0.54
Consensus pattern (31 bp):
TTTTATGCTAAATTTACTAATTTTGGTTGCA
Found at i:12403332 original size:29 final size:29
Alignment explanation
Indices: 12403300--12403358 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
12403290 AGTGCCCATG
12403300 TACATAGGCTTACGTGAAGTATTGATCAT
1 TACATAGGCTTACGTGAAGTATTGATCAT
12403329 TACATAGGCTTACGTGAAGTATTGATCAT
1 TACATAGGCTTACGTGAAGTATTGATCAT
12403358 T
1 T
12403359 CTCATTTGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.36
Consensus pattern (29 bp):
TACATAGGCTTACGTGAAGTATTGATCAT
Found at i:12409052 original size:46 final size:45
Alignment explanation
Indices: 12408947--12409232 Score: 201
Period size: 46 Copynumber: 6.6 Consensus size: 45
12408937 TTTTAATCCA
* * *
12408947 CTCCACTGTAA-CTTCAGGGAGATAGGA--T-AGTGTCTTCGATCTG
1 CTCCACTGTAATC-TCAGGGAGATAAGATCTGAAT-TCTTTGATCTG
* * *
12408990 CTCCGCTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTG-AATTCTTTGATCTG
* * * *
12409036 TTCCACTGTAATCTCAGGGAGATAAGACCTG-A---TGTGATCTT
1 CTCCACTGTAATCTCAGGGAGATAAGATCTGAATTCTTTGATCTG
* * * * *
12409077 CTCTACTGTAA-CTTTAGAGAGATAAGATC------CTTTAATCCG
1 CTCCACTGTAATC-TCAGGGAGATAAGATCTGAATTCTTTGATCTG
* * * *
12409116 CTCCATTGTAATCTCAAGGAGATAGGAT-T-ACTATCTTTGATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTGAAT-TCTTTGATCTG
* *
12409160 CTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATCTG-AATTCTTTGATCTG
*
12409206 TTCCACTGTAATCTCAGGGAGATAAGA
1 CTCCACTGTAATCTCAGGGAGATAAGA
12409233 CCTGTATTAT
Statistics
Matches: 189, Mismatches: 37, Indels: 31
0.74 0.14 0.12
Matches are distributed among these distances:
39 25 0.13
40 2 0.01
41 28 0.15
43 23 0.12
44 34 0.18
45 2 0.01
46 71 0.38
47 4 0.02
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (45 bp):
CTCCACTGTAATCTCAGGGAGATAAGATCTGAATTCTTTGATCTG
Found at i:12409202 original size:170 final size:170
Alignment explanation
Indices: 12408862--12409236 Score: 513
Period size: 170 Copynumber: 2.2 Consensus size: 170
12408852 TTTCAATCCA
* * * * *
12408862 TTCCACTG-CATCTTCAGGGAAATAAGACTTAATGCGACCTACTCTGCTGTAACCTCAGAGAGAT
1 TTCCACTGTAATC-TCAGGGAGATAAGACCTGATGCGACCTACTCTACTGTAACCTCAGAGAGAT
* * *
12408926 AAGATCCTTTATTTTAATCCACTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGC
65 AAGATCC----TTTTAATCCACTCCACTGTAACTTCAAGGAGATAGGATACTATCTTCGATCTGC
12408991 TCCGCTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTG
126 TCCGCTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTG
* * * * *
12409036 TTCCACTGTAATCTCAGGGAGATAAGACCTGATGTGATCTTCTCTACTGTAACTTTAGAGAGATA
1 TTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGACCTACTCTACTGTAACCTCAGAGAGATA
* * *
12409101 AGATCC-TTTAATCCGCTCCATTGTAA-TCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCC
66 AGATCCTTTTAATCCACTCCACTGTAACT-TCAAGGAGATAGGA-TACTATCTTCGATCTGCTCC
*
12409164 GCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTG
129 GCTGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTG
12409206 TTCCACTGTAATCTCAGGGAGATAAGACCTG
1 TTCCACTGTAATCTCAGGGAGATAAGACCTG
12409237 TATTATGAAC
Statistics
Matches: 181, Mismatches: 17, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
168 1 0.01
169 31 0.17
170 89 0.49
174 57 0.31
175 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.31
Consensus pattern (170 bp):
TTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGACCTACTCTACTGTAACCTCAGAGAGATA
AGATCCTTTTAATCCACTCCACTGTAACTTCAAGGAGATAGGATACTATCTTCGATCTGCTCCGC
TGTAACCTCAGGGAGATAAGATCTGAAATTCTTTGGTCTG
Found at i:12421204 original size:12 final size:12
Alignment explanation
Indices: 12421171--12421222 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
12421161 TAGGTTACGA
* *
12421171 GTTATGGTTCGG
1 GTTATGTTTAGG
*
12421183 GTTA-GATTTAAG
1 GTTATG-TTTAGG
12421195 GTTATGTTTAGG
1 GTTATGTTTAGG
12421207 GTTTATGTTTAGG
1 G-TTATGTTTAGG
12421220 GTT
1 GTT
12421223 TAGGGATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
11 1 0.03
12 19 0.58
13 13 0.39
ACGTcount: A:0.17, C:0.02, G:0.33, T:0.48
Consensus pattern (12 bp):
GTTATGTTTAGG
Found at i:12421214 original size:13 final size:13
Alignment explanation
Indices: 12421196--12421224 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
12421186 AGATTTAAGG
12421196 TTATGTTTAGGGT
1 TTATGTTTAGGGT
12421209 TTATGTTTAGGGT
1 TTATGTTTAGGGT
12421222 TTA
1 TTA
12421225 GGGATTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.28, T:0.55
Consensus pattern (13 bp):
TTATGTTTAGGGT
Found at i:12421381 original size:13 final size:14
Alignment explanation
Indices: 12421357--12421393 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
12421347 TGAAAAAATG
12421357 AAATTATTTAGATT
1 AAATTATTTAGATT
12421371 AAATT-TTTAGATT
1 AAATTATTTAGATT
*
12421384 AAACTATTTA
1 AAATTATTTA
12421394 AGAGATATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (14 bp):
AAATTATTTAGATT
Found at i:12421469 original size:19 final size:19
Alignment explanation
Indices: 12421447--12421486 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
12421437 AATTGATAAC
*
12421447 AAATAAAAATTAAATACAA
1 AAATAAAAATGAAATACAA
*
12421466 AAATAAAAATGAAATATAA
1 AAATAAAAATGAAATACAA
12421485 AA
1 AA
12421487 TGGAGATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (19 bp):
AAATAAAAATGAAATACAA
Found at i:12421760 original size:19 final size:18
Alignment explanation
Indices: 12421738--12421785 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
12421728 CCCGTAATAG
*
12421738 ATTTTCCCCAATTCACTAT
1 ATTTTCCCCAA-TCACTAA
*
12421757 A-TTTCCCCTAATCTCTAA
1 ATTTTCCCC-AATCACTAA
12421775 ATTTTCCCCAA
1 ATTTTCCCCAA
12421786 AATCCCTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.40
Consensus pattern (18 bp):
ATTTTCCCCAATCACTAA
Found at i:12421925 original size:20 final size:20
Alignment explanation
Indices: 12421900--12421938 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
12421890 ATGAAGGTTC
*
12421900 AGTTTTCTTGTTATGTCATT
1 AGTTTTCTTGTTATATCATT
12421920 AGTTTTCTTGTTATATCAT
1 AGTTTTCTTGTTATATCAT
12421939 CCAACCCCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.10, G:0.13, T:0.59
Consensus pattern (20 bp):
AGTTTTCTTGTTATATCATT
Found at i:12424614 original size:13 final size:12
Alignment explanation
Indices: 12424596--12424636 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
12424586 TTAAATAGTA
12424596 TTTAAAGTTTTAT
1 TTTAAA-TTTTAT
12424609 TTTAAATGTTTAT
1 TTTAAAT-TTTAT
12424622 TTT--ATTTTAT
1 TTTAAATTTTAT
12424632 TTTAA
1 TTTAA
12424637 TCACGAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
10 8 0.32
11 2 0.08
12 1 0.04
13 14 0.56
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (12 bp):
TTTAAATTTTAT
Found at i:12424673 original size:103 final size:103
Alignment explanation
Indices: 12424243--12424701 Score: 698
Period size: 103 Copynumber: 4.4 Consensus size: 103
12424233 ATTTTAAATG
* *
12424243 TTTTA-TTTA-TTTTAAATTACTTAATTAAATTAAATCGTATTTAAAGTTTTATTTAAATATATA
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTT---TA-A-A
* * *
12424306 TTATTTATTTTATTTATTTTAATTATGAAAAATGTTTTGTCTAC
61 -TATTTATTTTATTTATTTTAATCACGAAAAATATTTTGTCTAC
*
12424350 TTTTATTTTATTTTTAAATTACCTAATCAAATTAAATTGTATTT-AAGTTTTATTTTAAATATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
12424414 -TATTTATTTATTTTAATCAC-AAAAATATTTTGTCTAC
66 AT-TTTATTTATTTTAATCACGAAAAATATTTTGTCTAC
12424451 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATA-TT
*
12424516 TATTTTATTTTATTTTAATCATGAAAAATATTTTGTCTAC
65 TATTTTA-TTTATTTTAATCACGAAAAATATTTTGTCTAC
* *
12424556 TTTTATTTTA-TTTTAAATTACCTAATTAAATTAAATAGTATTTAAAGTTTTATTTTAAATGTTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
12424620 ATTTTATTTTATTTTAATCACGAAAAATATTTTGTCTAC
66 ATTTTA-TTTATTTTAATCACGAAAAATATTTTGTCTAC
12424659 -TTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTT
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTT
12424702 TTAAATGTTG
Statistics
Matches: 331, Mismatches: 12, Indels: 22
0.91 0.03 0.06
Matches are distributed among these distances:
101 60 0.18
102 47 0.14
103 81 0.24
104 64 0.19
105 29 0.09
107 5 0.02
108 15 0.05
109 30 0.09
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (103 bp):
TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTT
ATTTTATTTATTTTAATCACGAAAAATATTTTGTCTAC
Found at i:12424938 original size:9 final size:9
Alignment explanation
Indices: 12424924--12424977 Score: 72
Period size: 9 Copynumber: 6.0 Consensus size: 9
12424914 GTATCGTATC
12424924 TTACATAAT
1 TTACATAAT
12424933 TTACATAAT
1 TTACATAAT
* * *
12424942 TCAGATAAC
1 TTACATAAT
12424951 TTACATAAT
1 TTACATAAT
*
12424960 TTACATAAC
1 TTACATAAT
12424969 TTACATAAT
1 TTACATAAT
12424978 ACATAAATAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 37 1.00
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.39
Consensus pattern (9 bp):
TTACATAAT
Found at i:12424976 original size:27 final size:27
Alignment explanation
Indices: 12424923--12425010 Score: 85
Period size: 27 Copynumber: 3.3 Consensus size: 27
12424913 TGTATCGTAT
*
12424923 CTTACATAATTTACATAA-TTCAGATAA
1 CTTACATAATTTACATAACTT-ACATAA
12424950 CTTACATAATTTACATAACTTACATAA
1 CTTACATAATTTACATAACTTACATAA
* * * *
12424977 --TACATAA-ATATATATCATATCATAA
1 CTTACATAATTTACATAACTTA-CATAA
12425002 CTTACATAA
1 CTTACATAA
12425011 CTTAATTATA
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
24 8 0.15
25 12 0.23
27 30 0.58
28 2 0.04
ACGTcount: A:0.47, C:0.16, G:0.01, T:0.36
Consensus pattern (27 bp):
CTTACATAATTTACATAACTTACATAA
Found at i:12430026 original size:13 final size:14
Alignment explanation
Indices: 12430010--12430038 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
12430000 TTATAAATAT
12430010 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
12430023 TTATAATGGTTTAA
1 TTATAATGGTTTAA
12430037 TT
1 TT
12430039 TGTCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:12430790 original size:30 final size:31
Alignment explanation
Indices: 12430734--12430802 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 31
12430724 TGATTGCATT
*
12430734 TTTTATGCTAAATTTGCTAATTTTGGTTGCA
1 TTTTATGCTAAATTTACTAATTTTGGTTGCA
* * *
12430765 TTTTATGCTATATTTACT-GTTTTGGTTGGA
1 TTTTATGCTAAATTTACTAATTTTGGTTGCA
*
12430795 TTTAATGC
1 TTTTATGC
12430803 AGGAAGGGCT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
30 17 0.52
31 16 0.48
ACGTcount: A:0.20, C:0.09, G:0.17, T:0.54
Consensus pattern (31 bp):
TTTTATGCTAAATTTACTAATTTTGGTTGCA
Found at i:12430990 original size:43 final size:43
Alignment explanation
Indices: 12430811--12430992 Score: 217
Period size: 43 Copynumber: 4.3 Consensus size: 43
12430801 GCAGGAAGGG
* * *
12430811 CTTTTAGCCAGCGCTTTTACCACAAACGCCGCTAAAA-TCATGA
1 CTTTTAG-CGGCGCTTTTCCCACAAACGCCGCTAAAAGCCATGA
* ** **
12430854 CTTTTAGTGGTTCTTTTCTTAC-AACGCCGCTAAAAGCCATGA
1 CTTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCATGA
* * *
12430896 CTTTTAGAGGCGCTTTTCCCATAAACGCTG-TGAAAAGCCATGA
1 CTTTTAGCGGCGCTTTTCCCACAAACGCCGCT-AAAAGCCATGA
*
12430939 CTTTTAGCGGCGCTTTTCCCACAAACACCGCTAAAAGCCATGA
1 CTTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCATGA
12430982 CTTTTAGCGGC
1 CTTTTAGCGGC
12430993 ATTTTTTTAG
Statistics
Matches: 116, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
41 13 0.11
42 30 0.26
43 72 0.62
44 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (43 bp):
CTTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAAGCCATGA
Found at i:12431351 original size:20 final size:21
Alignment explanation
Indices: 12431323--12431363 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
12431313 CAACTCTTAA
*
12431323 ATTATTATTTAATTA-AAATT
1 ATTAATATTTAATTATAAATT
*
12431343 ATTAATATTTATTTATAAATT
1 ATTAATATTTAATTATAAATT
12431364 TTCTGTTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTAATATTTAATTATAAATT
Found at i:12437785 original size:11 final size:11
Alignment explanation
Indices: 12437764--12437794 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
12437754 ATGGAAATAA
12437764 ATTAGTTATATT
1 ATTA-TTATATT
12437776 ATTATTATATT
1 ATTATTATATT
12437787 ATTATTAT
1 ATTATTAT
12437795 TTAAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (11 bp):
ATTATTATATT
Found at i:12437990 original size:75 final size:77
Alignment explanation
Indices: 12437848--12437991 Score: 222
Period size: 78 Copynumber: 1.9 Consensus size: 77
12437838 GTAACCAAAA
* * *
12437848 TTTGAGAATATTATTTAATTGTATTCTAAAAATAATAATATATAATAAATTCAAGAAAAAACTAA
1 TTTGAAAATATTATTCAATTGTATTCT-AAAATAATAATATATAATAAATTAAAGAAAAAACTAA
12437913 AAAAAATCCGATT
65 AAAAAATCCGATT
*
12437926 TTTGAAAATGTTATTCAATTGTATTCT-AAA-AATAATATATAATAAATTAAAG-AAAAACTAAA
1 TTTGAAAATATTATTCAATTGTATTCTAAAATAATAATATATAATAAATTAAAGAAAAAACTAAA
12437988 AAAA
66 AAAA
12437992 CCCAACTTCC
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
74 14 0.23
75 21 0.34
76 3 0.05
78 24 0.39
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (77 bp):
TTTGAAAATATTATTCAATTGTATTCTAAAATAATAATATATAATAAATTAAAGAAAAAACTAAA
AAAAATCCGATT
Found at i:12438009 original size:75 final size:77
Alignment explanation
Indices: 12437858--12438009 Score: 186
Period size: 75 Copynumber: 2.0 Consensus size: 77
12437848 TTTGAGAATA
* * * *
12437858 TTATTTAATTGTATTCTAAAAATAATAATATATAATAAATTCAAGAAAAAACTAAAAAAAATCCG
1 TTATTCAATTGTATTCT-AAAATAATAATATATAATAAATTAAAGAAAAAACTAAAAAAAACCCA
* **
12437923 ATTTTTGAAAATG
65 ATTCTAAAAAATG
12437936 TTATTCAATTGTATTCT-AAA-AATAATATATAATAAATTAAAG-AAAAACT-AAAAAAACCCAA
1 TTATTCAATTGTATTCTAAAATAATAATATATAATAAATTAAAGAAAAAACTAAAAAAAACCCAA
12437997 CTTCCTAAAAAAT
66 -TT-CTAAAAAAT
12438010 TACAATAATA
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
73 10 0.15
74 9 0.14
75 27 0.42
76 3 0.05
78 16 0.25
ACGTcount: A:0.54, C:0.09, G:0.05, T:0.32
Consensus pattern (77 bp):
TTATTCAATTGTATTCTAAAATAATAATATATAATAAATTAAAGAAAAAACTAAAAAAAACCCAA
TTCTAAAAAATG
Found at i:12438534 original size:17 final size:19
Alignment explanation
Indices: 12438512--12438548 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
12438502 CGTCAGAGTT
12438512 GGAAGCTAAG-AA-AGAGG
1 GGAAGCTAAGTAACAGAGG
12438529 GGAAGCTAAGTAACAGAGG
1 GGAAGCTAAGTAACAGAGG
12438548 G
1 G
12438549 AATACTTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.56
18 2 0.11
19 6 0.33
ACGTcount: A:0.43, C:0.08, G:0.41, T:0.08
Consensus pattern (19 bp):
GGAAGCTAAGTAACAGAGG
Found at i:12441019 original size:12 final size:12
Alignment explanation
Indices: 12441002--12441026 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12440992 ATATATTGAG
12441002 AATGGCAAATTT
1 AATGGCAAATTT
12441014 AATGGCAAATTT
1 AATGGCAAATTT
12441026 A
1 A
12441027 TGTTTAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (12 bp):
AATGGCAAATTT
Found at i:12448956 original size:7 final size:7
Alignment explanation
Indices: 12448937--12449025 Score: 76
Period size: 7 Copynumber: 12.3 Consensus size: 7
12448927 ACTAAACACC
12448937 ATTAAAA
1 ATTAAAA
12448944 ATTTAAAA
1 A-TTAAAA
12448952 ATTAAAA
1 ATTAAAA
*
12448959 ATTTAGAA
1 A-TTAAAA
12448967 ATT---A
1 ATTAAAA
*
12448971 ACTAAACA
1 ATTAAA-A
12448979 CCATTAAAA
1 --ATTAAAA
12448988 ATTAAAA
1 ATTAAAA
12448995 ATTAAAA
1 ATTAAAA
12449002 ATTAAAA
1 ATTAAAA
12449009 ATTAAAA
1 ATTAAAA
*
12449016 TCTTAAAA
1 -ATTAAAA
12449024 AT
1 AT
12449026 ATAATATATA
Statistics
Matches: 68, Mismatches: 5, Indels: 18
0.75 0.05 0.20
Matches are distributed among these distances:
4 3 0.04
7 39 0.57
8 20 0.29
9 1 0.01
10 5 0.07
ACGTcount: A:0.63, C:0.06, G:0.01, T:0.30
Consensus pattern (7 bp):
ATTAAAA
Found at i:12448957 original size:15 final size:14
Alignment explanation
Indices: 12448937--12449025 Score: 76
Period size: 15 Copynumber: 6.1 Consensus size: 14
12448927 ACTAAACACC
12448937 ATTAAAAATTTAAAA
1 ATTAAAAA-TTAAAA
*
12448952 ATTAAAAATTTAGAA
1 ATTAAAAA-TTAAAA
*
12448967 ATT---AACTAAACA
1 ATTAAAAATTAAA-A
12448979 CCATTAAAAATTAAAA
1 --ATTAAAAATTAAAA
12448995 ATTAAAAATTAAAA
1 ATTAAAAATTAAAA
*
12449009 ATTAAAATCTTAAAA
1 ATTAAAA-ATTAAAA
12449024 AT
1 AT
12449026 ATAATATATA
Statistics
Matches: 62, Mismatches: 5, Indels: 14
0.77 0.06 0.17
Matches are distributed among these distances:
11 3 0.05
12 3 0.05
14 24 0.39
15 25 0.40
16 1 0.02
17 6 0.10
ACGTcount: A:0.63, C:0.06, G:0.01, T:0.30
Consensus pattern (14 bp):
ATTAAAAATTAAAA
Found at i:12448967 original size:44 final size:42
Alignment explanation
Indices: 12448917--12449013 Score: 167
Period size: 44 Copynumber: 2.3 Consensus size: 42
12448907 GAAGTTAGTG
12448917 TTAGAAATTAACTAAACACCATTAAAAATTTAAAAATTAAAAA
1 TTAGAAATTAACTAAACACCATTAAAAA-TTAAAAATTAAAAA
12448960 TTTAGAAATTAACTAAACACCATTAAAAATTAAAAATTAAAAA
1 -TTAGAAATTAACTAAACACCATTAAAAATTAAAAATTAAAAA
*
12449003 TTAAAAATTAA
1 TTAGAAATTAA
12449014 AATCTTAAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
42 10 0.19
43 14 0.27
44 28 0.54
ACGTcount: A:0.61, C:0.08, G:0.02, T:0.29
Consensus pattern (42 bp):
TTAGAAATTAACTAAACACCATTAAAAATTAAAAATTAAAAA
Found at i:12452214 original size:98 final size:98
Alignment explanation
Indices: 12452108--12452287 Score: 279
Period size: 98 Copynumber: 1.8 Consensus size: 98
12452098 TATGAAATTA
* *
12452108 TTAAGAGCATTTAATAAGCTCAACCTCTGAGTTTTATAATTCGATGAATTCATCAAGTCTGTCTC
1 TTAAGAGCATTTAATAAGCTCAACCTCTCAGTTTTATAATTCAATGAATTCATCAAGTCTGTCTC
12452173 AATAAAACCACCCAAACACTGGAATTAAATTCT
66 AATAAAACCACCCAAACACTGGAATTAAATTCT
* * * *
12452206 TTAAGAGCATTTAATATGCTCAACCTTTCAGTTTTATAATTCAATTAATTCATTAAGTCTGTCTC
1 TTAAGAGCATTTAATAAGCTCAACCTCTCAGTTTTATAATTCAATGAATTCATCAAGTCTGTCTC
* **
12452271 ACTAGGACCACCCAAAC
66 AATAAAACCACCCAAAC
12452288 TCTAGGCTAT
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
98 73 1.00
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (98 bp):
TTAAGAGCATTTAATAAGCTCAACCTCTCAGTTTTATAATTCAATGAATTCATCAAGTCTGTCTC
AATAAAACCACCCAAACACTGGAATTAAATTCT
Found at i:12453681 original size:16 final size:17
Alignment explanation
Indices: 12453653--12453696 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 17
12453643 CACGATTAGC
12453653 AGGGAAAGAAAGAAGGAAAA
1 AGGGAAAGAAA-AA-G-AAA
12453673 AGGGAAAGAAAAAGAAA
1 AGGGAAAGAAAAAGAAA
12453690 AGGGAAA
1 AGGGAAA
12453697 ATTAGGGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.42
18 1 0.04
19 2 0.08
20 11 0.46
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (17 bp):
AGGGAAAGAAAAAGAAA
Found at i:12456260 original size:26 final size:26
Alignment explanation
Indices: 12456231--12456308 Score: 77
Period size: 26 Copynumber: 3.0 Consensus size: 26
12456221 ATTCGCTCAT
* *
12456231 GGTCCTTCGACCAACTCAAAC-TCAAG
1 GGTCCTCCAACCAACTCAAACGT-AAG
*
12456257 GGTCCTCCAAGCAACTCAAACGTAAG
1 GGTCCTCCAACCAACTCAAACGTAAG
* ** *
12456283 GGTCCTCTAACCCCCTCAAACTTAAG
1 GGTCCTCCAACCAACTCAAACGTAAG
12456309 CTTACTAGAC
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 42 0.98
27 1 0.02
ACGTcount: A:0.31, C:0.35, G:0.15, T:0.19
Consensus pattern (26 bp):
GGTCCTCCAACCAACTCAAACGTAAG
Found at i:12457389 original size:38 final size:38
Alignment explanation
Indices: 12457310--12457389 Score: 90
Period size: 39 Copynumber: 2.1 Consensus size: 38
12457300 TAGTAGAGGA
* * ** *
12457310 TTTTCCTTAACAGAAAATATTCTACAACAGTCAAAGGT
1 TTTTCCTCAACAAAAAATATTCTACAACAGAAAAAGAT
*
12457348 TTTTCCTCAATCAAAAAATATTCTACAACA-AAAAATAT
1 TTTTCCTCAA-CAAAAAATATTCTACAACAGAAAAAGAT
12457386 TTTT
1 TTTT
12457390 AAAAAATATT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
38 17 0.49
39 18 0.51
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.35
Consensus pattern (38 bp):
TTTTCCTCAACAAAAAATATTCTACAACAGAAAAAGAT
Found at i:12462468 original size:49 final size:49
Alignment explanation
Indices: 12462396--12462493 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
12462386 GTTTTTCATT
12462396 CTTTATATCCTAGATCTATTTTCCATGCAATCATGTTCTGGTTTCGTGA
1 CTTTATATCCTAGATCTATTTTCCATGCAATCATGTTCTGGTTTCGTGA
12462445 CTTTATATCCTAGATCTATTTTCCATGCAATCATGTTCTGGTTTCGTGA
1 CTTTATATCCTAGATCTATTTTCCATGCAATCATGTTCTGGTTTCGTGA
12462494 TGTCGATGAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.45
Consensus pattern (49 bp):
CTTTATATCCTAGATCTATTTTCCATGCAATCATGTTCTGGTTTCGTGA
Found at i:12464890 original size:31 final size:31
Alignment explanation
Indices: 12464852--12464913 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
12464842 CATAACTTCG
12464852 TAACATGTTTCATTCACTCTCTATTAATAAT
1 TAACATGTTTCATTCACTCTCTATTAATAAT
*
12464883 TAACATGTTTCATTCACTCTCTATTAGTAAT
1 TAACATGTTTCATTCACTCTCTATTAATAAT
12464914 CATCAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.19, G:0.05, T:0.45
Consensus pattern (31 bp):
TAACATGTTTCATTCACTCTCTATTAATAAT
Found at i:12464964 original size:26 final size:26
Alignment explanation
Indices: 12464935--12464987 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
12464925 TATATTAAAT
12464935 AATTTTTTATTTAATATTTAATATAC
1 AATTTTTTATTTAATATTTAATATAC
12464961 AATTTTTTATTTAATATTTAATATAC
1 AATTTTTTATTTAATATTTAATATAC
12464987 A
1 A
12464988 TATAATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.57
Consensus pattern (26 bp):
AATTTTTTATTTAATATTTAATATAC
Found at i:12468124 original size:23 final size:23
Alignment explanation
Indices: 12468098--12468147 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
12468088 ACCTTAGAAT
*
12468098 TAACAACTCTATAACAGACTT-GC
1 TAAC-ACTCTATAACAAACTTGGC
* *
12468121 TAACAGTCTGTAACAAACTTGGC
1 TAACACTCTATAACAAACTTGGC
12468144 TAAC
1 TAAC
12468148 TCTTAACTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (23 bp):
TAACACTCTATAACAAACTTGGC
Found at i:12473004 original size:28 final size:29
Alignment explanation
Indices: 12472973--12473034 Score: 79
Period size: 34 Copynumber: 2.0 Consensus size: 29
12472963 CCTCTCCCAT
12472973 GGGATAACTGCAACCCTAAAGTTAAACTGGGAG
1 GGGATAACTGCAACCCTAAAGTTAAACT----G
12473006 AGGGATAACTGCAACCCTAAAGTTAAACT
1 -GGGATAACTGCAACCCTAAAGTTAAACT
12473035 CCCAAATACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.19
Consensus pattern (29 bp):
GGGATAACTGCAACCCTAAAGTTAAACTG
Found at i:12480453 original size:3 final size:3
Alignment explanation
Indices: 12480445--12480487 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
12480435 ATGTTATGTC
* *
12480445 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG CAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
12480488 GTAAATATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:12480624 original size:23 final size:23
Alignment explanation
Indices: 12480596--12480649 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
12480586 AAAGTAAAAA
*
12480596 AATAATAGTAATACATTAATAAG
1 AATAATAGTAATACATTAATAAC
* * *
12480619 AATAATAATAGTATATTAATAAC
1 AATAATAGTAATACATTAATAAC
12480642 AATAATAG
1 AATAATAG
12480650 AAAATAATGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.31
Consensus pattern (23 bp):
AATAATAGTAATACATTAATAAC
Found at i:12480837 original size:3 final size:3
Alignment explanation
Indices: 12480566--12480807 Score: 65
Period size: 3 Copynumber: 81.7 Consensus size: 3
12480556 TGATGATAGC
* * * * *
12480566 AAT AGT AAT AAT -GT AAT AAT AA- AGT AA- AAA AAT AAT AGT AAT ACATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-A-T
* * * * *
12480613 AAT AAG AAT AAT AAT AGT -AT ATT AAT AAC AAT AAT AGAA AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * * * * *
12480658 GAC GA- AAT AAT AAT AAT AAT AAT AA- ACT AA- AGAGT ACT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-A-T AAT AAT AAT
* * * * *
12480702 ACT AAC AAT AAT -AT AAAT AAT AAT GAA- AAC AAC AAG AGA- AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT -AAT AAT AAT AAT A-AT AAT AAT
* * * * * ** *
12480747 AAC AAT AA- CAG AAT AAA AAT AAT GAT AAT AAT AAT AAT AGC AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
12480794 AAT AAA AAT AAT AA
1 AAT AAT AAT AAT AA
12480808 ATAAATATAA
Statistics
Matches: 172, Mismatches: 48, Indels: 38
0.67 0.19 0.15
Matches are distributed among these distances:
2 14 0.08
3 146 0.85
4 9 0.05
5 3 0.02
ACGTcount: A:0.63, C:0.05, G:0.07, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:12481602 original size:22 final size:22
Alignment explanation
Indices: 12481577--12481623 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
12481567 GCCCCCTATT
*
12481577 TACAAACGGTTC-TCCCCTAAAA
1 TACAAACGATTCTTCCCC-AAAA
*
12481599 TACAATCGATTCTTCCCCAAAA
1 TACAAACGATTCTTCCCCAAAA
12481621 TAC
1 TAC
12481624 CATCGATCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.36, C:0.32, G:0.06, T:0.26
Consensus pattern (22 bp):
TACAAACGATTCTTCCCCAAAA
Found at i:12482664 original size:134 final size:134
Alignment explanation
Indices: 12482416--12483159 Score: 1276
Period size: 134 Copynumber: 5.5 Consensus size: 134
12482406 TACTGTTGCC
* * *
12482416 CAGGGAGATAGAATTA-CTGGCTTTAATGTACTCCA-TCGTAATCAGGGAGGTAAAATCCGCCAT
1 CAGGGAGATAGAATTATC-GGCTTCAATGTACTCCACT-GTAGTCAGGGAGGTAAAATCTGCCAT
* * * * *
12482479 CTTCGACCTGCTTCGCTGCCAAATACAGGAAGGTAAGATCTGCAATGTTCAATCTATTCCACTAC
64 CTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGC
12482544 CAAATA
129 CAAATA
*
12482550 CAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCT
1 CAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCT
* *
12482615 TCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGTAATCTTCAATCTATTCCACTGCCA
66 TTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCA
12482680 AATA
131 AATA
* *
12482684 CCGGGAGATAGAATTATCGGCTTCAATGTACTTCACTGTAGTCAGGGAGGTAAAATCTGCCATCT
1 CAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCT
12482749 TTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCA
66 TTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCA
12482814 AATA
131 AATA
12482818 CAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCT
1 CAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCT
12482883 TTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCA
66 TTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCA
12482948 AATA
131 AATA
12482952 CAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCT
1 CAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCT
12483017 TTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCA
66 TTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCA
12483082 AATA
131 AATA
* * * * *
12483086 TAGGGAGATAGAATTATCAGCTTCAATGTACTCCAATGTGGTCACATGGAGGTAAAATCTGCCAT
1 CAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGT--CAGGGAGGTAAAATCTGCCAT
12483151 CTTTGATCT
64 CTTTGATCT
12483160 TCAATCTATT
Statistics
Matches: 585, Mismatches: 21, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
134 554 0.95
135 2 0.00
136 29 0.05
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (134 bp):
CAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCT
TTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCA
AATA
Found at i:12482855 original size:45 final size:46
Alignment explanation
Indices: 12482526--12483120 Score: 184
Period size: 46 Copynumber: 13.3 Consensus size: 46
12482516 ATCTGCAATG
* * * *
12482526 TTCAATCTATTCCACTACCAAATACAGGGAGATAGAGT-TATCGGC
1 TTCAATCTACTCCACTGCCAAATACAGGGAGATAGAATCTATCAGC
* * * * * ** *
12482571 TTCAATGTACTCCACTG--TAGT-CAGGGAGGTAAAATCTGCCATC
1 TTCAATCTACTCCACTGCCAAATACAGGGAGATAGAATCTATCAGC
* * * * * * * *
12482614 TTCGATCTGCTTCGCTGCCAAATACAGGAAGGCA-AG-ATCTGTAATC
1 TTCAATCTACTCCACTGCCAAATACAGGGA-G-ATAGAATCTATCAGC
* * *
12482660 TTCAATCTATTCCACTGCCAAATACCGGGAGATAGAAT-TATCGGC
1 TTCAATCTACTCCACTGCCAAATACAGGGAGATAGAATCTATCAGC
* * * * * * ** *
12482705 TTCAATGTACTTCACTG--TAGT-CAGGGAGGTAAAATCTGCCATC
1 TTCAATCTACTCCACTGCCAAATACAGGGAGATAGAATCTATCAGC
** * * * * * *
12482748 TTTGATCTGCTTCGCTGCCAAATACAGGAAGGCA-AG-ATCT-GCAATC
1 TTCAATCTACTCCACTGCCAAATACAGGGA-G-ATAGAATCTATC-AGC
* *
12482794 TTCAATCTATTCCACTGCCAAATACAGGGAGATAGAAT-TATCGGC
1 TTCAATCTACTCCACTGCCAAATACAGGGAGATAGAATCTATCAGC
* * * * * ** *
12482839 TTCAATGTACTCCACTG--TAGT-CAGGGAGGTAAAATCTGCCATC
1 TTCAATCTACTCCACTGCCAAATACAGGGAGATAGAATCTATCAGC
** * * * * * *
12482882 TTTGATCTGCTTCGCTGCCAAATACAGGAAGGCA-AG-ATCT-GCAATC
1 TTCAATCTACTCCACTGCCAAATACAGGGA-G-ATAGAATCTATC-AGC
* *
12482928 TTCAATCTATTCCACTGCCAAATACAGGGAGATAGAAT-TATCGGC
1 TTCAATCTACTCCACTGCCAAATACAGGGAGATAGAATCTATCAGC
* * * * * ** *
12482973 TTCAATGTACTCCACTG--TAGT-CAGGGAGGTAAAATCTGCCATC
1 TTCAATCTACTCCACTGCCAAATACAGGGAGATAGAATCTATCAGC
** * * * * * *
12483016 TTTGATCTGCTTCGCTGCCAAATACAGGAAGGCA-AG-ATCT-GCAATC
1 TTCAATCTACTCCACTGCCAAATACAGGGA-G-ATAGAATCTATC-AGC
* *
12483062 TTCAATCTATTCCACTGCCAAATATAGGGAGATAGAAT-TATCAGC
1 TTCAATCTACTCCACTGCCAAATACAGGGAGATAGAATCTATCAGC
*
12483107 TTCAATGTACTCCA
1 TTCAATCTACTCCA
12483121 ATGTGGTCAC
Statistics
Matches: 378, Mismatches: 134, Indels: 76
0.64 0.23 0.13
Matches are distributed among these distances:
42 46 0.12
43 66 0.17
44 4 0.01
45 103 0.27
46 151 0.40
47 8 0.02
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.27
Consensus pattern (46 bp):
TTCAATCTACTCCACTGCCAAATACAGGGAGATAGAATCTATCAGC
Found at i:12483330 original size:44 final size:43
Alignment explanation
Indices: 12483237--12483818 Score: 517
Period size: 44 Copynumber: 13.2 Consensus size: 43
12483227 GGGAGGTAAA
* * * * *
12483237 ATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAG
1 ATCTGCTATCTTCGATCTACTTC-C-ACC-AATATAGGAAGACAAG
* * * * *
12483283 ATCTGCAATCTTCGATCTACTTCACGCCAATACATGAAGATAAG
1 ATCTGCTATCTTCGATCTACTTC-CACCAATATAGGAAGACAAG
* * * *
12483327 ATCTGCTTTCTGCGATCTACTTCGCCACCAGTATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTT--CCACCAATATAGGAAGACAAG
* *
12483372 ATCTGC-ATCGTCGATCCACTTCCTACCAATATAGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAAG
* * * *
12483415 ACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTC-CACCAATATAGGAAGACAAG
* * *
12483459 ATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTT--CCACCAATATAGGAAGACAAG
* * *
12483504 ATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAAG
* * * * *
12483547 ATCTGCTACCTTCGATCTTCTTCACGCCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTC-CACCAATATAGGAAGACAAG
* * * *
12483591 ATCTGCTTTCTGCGATCTATTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTT--CCACCAATATAGGAAGACAAG
* * * *
12483636 ATCTGC-ATCTTGGATCTACTTCCTATCAATATAGGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAAG
* * *
12483679 ACCTGCTATCTTCGATCTACTT-CATGCCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCCA--CCAATATAGGAAGACAAG
* * *
12483723 ATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTT--CCACCAATATAGGAAGACAAG
* * *
12483768 ATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAAGACAAG
12483811 ATCTGCTA
1 ATCTGCTA
12483819 CCTAGTGTTT
Statistics
Matches: 431, Mismatches: 84, Indels: 44
0.77 0.15 0.08
Matches are distributed among these distances:
42 9 0.02
43 87 0.20
44 218 0.51
45 90 0.21
46 25 0.06
47 2 0.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (43 bp):
ATCTGCTATCTTCGATCTACTTCCACCAATATAGGAAGACAAG
Found at i:12483807 original size:132 final size:132
Alignment explanation
Indices: 12483285--12483818 Score: 933
Period size: 132 Copynumber: 4.0 Consensus size: 132
12483275 AAGGCAAGAT
* *
12483285 CTGCAATCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGCTTTCTGCGATCTACTTC
1 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
* * * *
12483350 GCCACCAGTATGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGACAAG
66 GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGG
12483415 AC
131 AC
12483417 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
1 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
12483482 GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGG
66 GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGG
*
12483547 AT
131 AC
* * *
12483549 CTGCTACCTTCGATCTTCTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTATTTC
1 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
* * *
12483614 GCCACCAATATGGGAAGACAAGATCTGCATCTTGGATCTACTTCCTATCAATATAGGAAGATAGG
66 GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGG
12483679 AC
131 AC
*
12483681 CTGCTATCTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
1 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
12483746 GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGG
66 GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGG
*
12483811 AT
131 AC
12483813 CTGCTA
1 CTGCTA
12483819 CCTAGTGTTT
Statistics
Matches: 380, Mismatches: 22, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 380 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (132 bp):
CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGG
AC
Found at i:12491159 original size:3 final size:3
Alignment explanation
Indices: 12491151--12491196 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
12491141 ATGTTATGTC
* *
12491151 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG CAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
12491197 GTAAATATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:12491286 original size:3 final size:3
Alignment explanation
Indices: 12491275--12491517 Score: 58
Period size: 3 Copynumber: 81.7 Consensus size: 3
12491265 TGATGATAGC
* * * * * *
12491275 AAT AGT AAT AAT -GT AAT AAT AA- AGT AAA AAA AAT AAT AGT AAT ACATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-A-T
* * * * *
12491323 AAT AAG AAT AAT AAT AGT -AT ATT AAT AAC AAT AAT AGAA AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * * * * *
12491368 GAC GA- AAT AAT AAT AAT AAT AAT AA- ACT AA- AGAGT ACT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-A-T AAT AAT AAT
* * * * *
12491412 ACT AAC AAT AAT -AT AAAT AAT AAT GAA- AAC AAC AAG AGA- AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT -AAT AAT AAT AAT A-AT AAT AAT
* * * * * ** *
12491457 AAC AAT AA- CAG AAT AAA AAT AAT GAT AAT AAT AAT AAT AGC AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
12491504 AAT AA- AATT AAT AA
1 AAT AAT AA-T AAT AA
12491518 ATAAATATAA
Statistics
Matches: 173, Mismatches: 47, Indels: 40
0.67 0.18 0.15
Matches are distributed among these distances:
2 14 0.08
3 145 0.84
4 11 0.06
5 3 0.02
ACGTcount: A:0.63, C:0.05, G:0.07, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:12491332 original size:23 final size:23
Alignment explanation
Indices: 12491306--12491359 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
12491296 AAGTAAAAAA
*
12491306 AATAATAGTAATACATTAATAAG
1 AATAATAGTAATACATTAATAAC
* * *
12491329 AATAATAATAGTATATTAATAAC
1 AATAATAGTAATACATTAATAAC
12491352 AATAATAG
1 AATAATAG
12491360 AAAATAATGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.31
Consensus pattern (23 bp):
AATAATAGTAATACATTAATAAC
Found at i:12492335 original size:23 final size:23
Alignment explanation
Indices: 12492305--12492369 Score: 114
Period size: 23 Copynumber: 2.9 Consensus size: 23
12492295 CAAACGGTTC
12492305 TCCCCTAAAATACAATCGATTCT
1 TCCCCTAAAATACAATCGATTCT
12492328 TCCCCTAAAATACAATCGATTCT
1 TCCCCTAAAATACAATCGATTCT
*
12492351 TCCCC-AAAATACCATCGAT
1 TCCCCTAAAATACAATCGAT
12492370 CCCCCCTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
22 13 0.32
23 28 0.68
ACGTcount: A:0.35, C:0.32, G:0.05, T:0.28
Consensus pattern (23 bp):
TCCCCTAAAATACAATCGATTCT
Found at i:12497767 original size:17 final size:17
Alignment explanation
Indices: 12497745--12497777 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12497735 CTCCGATTAC
12497745 AAAAAACAAAATTTAAA
1 AAAAAACAAAATTTAAA
*
12497762 AAAAAACAATATTTAA
1 AAAAAACAAAATTTAA
12497778 TAGTATTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAAAACAAAATTTAAA
Found at i:12506874 original size:24 final size:24
Alignment explanation
Indices: 12506845--12506901 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
12506835 ATTAGGAGGA
* * *
12506845 GGAGGTGGTGGAGGGTTTGGTGGT
1 GGAGGTGGAGGAGGGCTAGGTGGT
12506869 GGAGGTGGAGGAGGGCTAGGTGGT
1 GGAGGTGGAGGAGGGCTAGGTGGT
*
12506893 GGAGCTGGA
1 GGAGGTGGA
12506902 TTTGGTGGGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.14, C:0.04, G:0.61, T:0.21
Consensus pattern (24 bp):
GGAGGTGGAGGAGGGCTAGGTGGT
Found at i:12506960 original size:18 final size:18
Alignment explanation
Indices: 12506923--12506966 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
12506913 CGCTGGTGCT
* *
12506923 GGTGGTGGCCTTGGTCGA
1 GGTGGTGGACTTGGACGA
*
12506941 GGTGGTGGACTTGGAGGA
1 GGTGGTGGACTTGGACGA
*
12506959 GGAGGTGG
1 GGTGGTGG
12506967 TGGAGGGTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.11, C:0.09, G:0.57, T:0.23
Consensus pattern (18 bp):
GGTGGTGGACTTGGACGA
Found at i:12506998 original size:18 final size:20
Alignment explanation
Indices: 12506956--12507010 Score: 69
Period size: 18 Copynumber: 2.8 Consensus size: 20
12506946 TGGACTTGGA
*
12506956 GGAGGAGGTGGTGGAGGGTTC
1 GGAGGAGGTGGTGG-TGGTTC
12506977 GGAGGAGGTGGTGGTGG-T-
1 GGAGGAGGTGGTGGTGGTTC
*
12506995 GGAGTAGGTGGTGGTG
1 GGAGGAGGTGGTGGTG
12507011 CTGGTGGTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
18 15 0.47
19 1 0.03
20 2 0.06
21 14 0.44
ACGTcount: A:0.13, C:0.02, G:0.64, T:0.22
Consensus pattern (20 bp):
GGAGGAGGTGGTGGTGGTTC
Found at i:12507032 original size:24 final size:24
Alignment explanation
Indices: 12506941--12507029 Score: 81
Period size: 24 Copynumber: 3.7 Consensus size: 24
12506931 CCTTGGTCGA
** *
12506941 GGTGGTGGACTTGGAGGAGGAGGT
1 GGTGGTGGGTTTGGAGGAGGTGGT
* *
12506965 GGTGGAGGGTTCGGAGGAGGTGGT
1 GGTGGTGGGTTTGGAGGAGGTGGT
* * * *
12506989 GGTGGTGGAG-TAGGTGGTGGTGCT
1 GGTGGTGG-GTTTGGAGGAGGTGGT
12507013 GGTGGTGGGTTTGGAGG
1 GGTGGTGGGTTTGGAGG
12507030 TGGAGCAGGA
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
23 1 0.02
24 49 0.96
25 1 0.02
ACGTcount: A:0.11, C:0.03, G:0.61, T:0.25
Consensus pattern (24 bp):
GGTGGTGGGTTTGGAGGAGGTGGT
Found at i:12507075 original size:18 final size:18
Alignment explanation
Indices: 12507024--12507094 Score: 72
Period size: 18 Copynumber: 3.9 Consensus size: 18
12507014 GTGGTGGGTT
**
12507024 TGGAGGTGGAGCAGGAGC
1 TGGAGGTGGAGGTGGAGC
* *
12507042 AGGAGCTGGAGGTGGA-C
1 TGGAGGTGGAGGTGGAGC
* *
12507059 TAGGTGGTGGTGGTGGAGC
1 T-GGAGGTGGAGGTGGAGC
12507078 TGGAGGTGGAGGTGGAG
1 TGGAGGTGGAGGTGGAG
12507095 GCGGCTTCGG
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
17 1 0.02
18 38 0.93
19 2 0.05
ACGTcount: A:0.18, C:0.07, G:0.58, T:0.17
Consensus pattern (18 bp):
TGGAGGTGGAGGTGGAGC
Found at i:12507085 original size:12 final size:12
Alignment explanation
Indices: 12507024--12507095 Score: 57
Period size: 12 Copynumber: 6.5 Consensus size: 12
12507014 GTGGTGGGTT
12507024 TGGAGGTGGAGC
1 TGGAGGTGGAGC
* **
12507036 AGGAGCAGGAGC
1 TGGAGGTGGAGC
12507048 TGGAGGTGGA-C
1 TGGAGGTGGAGC
12507059 T--AGGT-G-G-
1 TGGAGGTGGAGC
*
12507066 TGGTGGTGGAGC
1 TGGAGGTGGAGC
*
12507078 TGGAGGTGGAGG
1 TGGAGGTGGAGC
12507090 TGGAGG
1 TGGAGG
12507096 CGGCTTCGGT
Statistics
Matches: 45, Mismatches: 9, Indels: 12
0.68 0.14 0.18
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 7 0.16
10 1 0.02
11 3 0.07
12 32 0.71
ACGTcount: A:0.18, C:0.07, G:0.58, T:0.17
Consensus pattern (12 bp):
TGGAGGTGGAGC
Found at i:12507085 original size:15 final size:15
Alignment explanation
Indices: 12507042--12507089 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
12507032 GAGCAGGAGC
12507042 AGGAGCTGGAGGTGG
1 AGGAGCTGGAGGTGG
** * *
12507057 ACTAGGTGGTGGTGG
1 AGGAGCTGGAGGTGG
*
12507072 TGGAGCTGGAGGTGG
1 AGGAGCTGGAGGTGG
12507087 AGG
1 AGG
12507090 TGGAGGCGGC
Statistics
Matches: 23, Mismatches: 10, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.17, C:0.06, G:0.58, T:0.19
Consensus pattern (15 bp):
AGGAGCTGGAGGTGG
Found at i:12507148 original size:30 final size:30
Alignment explanation
Indices: 12507103--12507182 Score: 106
Period size: 30 Copynumber: 2.7 Consensus size: 30
12507093 AGGCGGCTTC
* *
12507103 GGTGGAGGAGGTGGGTTTGGCGGTGGAGCT
1 GGTGCAGGTGGTGGGTTTGGCGGTGGAGCT
* *
12507133 GGTGCAGGTGGTGGGTTCGGTGGTGGAGCT
1 GGTGCAGGTGGTGGGTTTGGCGGTGGAGCT
* *
12507163 GGTGCAGGTAGTGGGCTTGG
1 GGTGCAGGTGGTGGGTTTGG
12507183 AGGAGGACTG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.09, C:0.09, G:0.57, T:0.25
Consensus pattern (30 bp):
GGTGCAGGTGGTGGGTTTGGCGGTGGAGCT
Found at i:12508212 original size:12 final size:12
Alignment explanation
Indices: 12508195--12508224 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
12508185 CCCTACACGT
12508195 CCGTGTGCTAGG
1 CCGTGTGCTAGG
*
12508207 CCGTGTGTTAGG
1 CCGTGTGCTAGG
12508219 CCGTGT
1 CCGTGT
12508225 AACTCACTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.23, G:0.40, T:0.30
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:12513261 original size:19 final size:19
Alignment explanation
Indices: 12513237--12513274 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
12513227 AAGTTAATAA
12513237 CAAATTTGATTACGGTGGG
1 CAAATTTGATTACGGTGGG
12513256 CAAATTTGATTACGGTGGG
1 CAAATTTGATTACGGTGGG
12513275 TGACAGTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.32, T:0.32
Consensus pattern (19 bp):
CAAATTTGATTACGGTGGG
Found at i:12513372 original size:31 final size:31
Alignment explanation
Indices: 12513334--12513407 Score: 130
Period size: 31 Copynumber: 2.4 Consensus size: 31
12513324 AAATATATTA
12513334 GATTTGATTCGAACTGAATTCTATCTCACTT
1 GATTTGATTCGAACTGAATTCTATCTCACTT
12513365 GATTTGATTCGAACTGAATTCTATCTCACTT
1 GATTTGATTCGAACTGAATTCTATCTCACTT
* *
12513396 GACTCGATTCGA
1 GATTTGATTCGA
12513408 TAAAATTTCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (31 bp):
GATTTGATTCGAACTGAATTCTATCTCACTT
Found at i:12513812 original size:17 final size:16
Alignment explanation
Indices: 12513767--12513815 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
12513757 CATTCACTCC
* *
12513767 TTTTTCTTTTTCTTTT
1 TTTTTGTTTTACTTTT
12513783 TTTTTGTTTTACTTTGT
1 TTTTTGTTTTACTTT-T
12513800 TTTTT-TTTCTACTTTT
1 TTTTTGTTT-TACTTTT
12513816 AAAAATTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 17 0.59
17 12 0.41
ACGTcount: A:0.04, C:0.10, G:0.04, T:0.82
Consensus pattern (16 bp):
TTTTTGTTTTACTTTT
Found at i:12519999 original size:19 final size:19
Alignment explanation
Indices: 12519975--12520012 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
12519965 AAGTTAATAA
12519975 CAAATTTGATTACGGTGGG
1 CAAATTTGATTACGGTGGG
12519994 CAAATTTGATTACGGTGGG
1 CAAATTTGATTACGGTGGG
12520013 TGACAGTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.32, T:0.32
Consensus pattern (19 bp):
CAAATTTGATTACGGTGGG
Found at i:12520110 original size:31 final size:31
Alignment explanation
Indices: 12520072--12520145 Score: 130
Period size: 31 Copynumber: 2.4 Consensus size: 31
12520062 AAATATATTA
12520072 GATTTGATTCGAACTGAATTCTATCTCACTT
1 GATTTGATTCGAACTGAATTCTATCTCACTT
12520103 GATTTGATTCGAACTGAATTCTATCTCACTT
1 GATTTGATTCGAACTGAATTCTATCTCACTT
* *
12520134 GACTCGATTCGA
1 GATTTGATTCGA
12520146 TAAAATTTCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (31 bp):
GATTTGATTCGAACTGAATTCTATCTCACTT
Found at i:12520524 original size:17 final size:18
Alignment explanation
Indices: 12520504--12520552 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
12520494 CATTCACTCC
*
12520504 TTTTTCTTTTTCTTT-TT
1 TTTTTCTTTTACTTTGTT
*
12520521 TTTTTGTTTTACTTTGTT
1 TTTTTCTTTTACTTTGTT
*
12520539 TTTTT-TTCTACTTT
1 TTTTTCTTTTACTTT
12520553 TAAAAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 21 0.75
18 7 0.25
ACGTcount: A:0.04, C:0.10, G:0.04, T:0.82
Consensus pattern (18 bp):
TTTTTCTTTTACTTTGTT
Found at i:12526715 original size:19 final size:19
Alignment explanation
Indices: 12526693--12526745 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
12526683 TAGTTAATAA
12526693 CAAATTTGATTACGGTGGG
1 CAAATTTGATTACGGTGGG
12526712 CAAATTTGATTAC-GT-GG
1 CAAATTTGATTACGGTGGG
12526729 C-AATTTGATTACGGTGG
1 CAAATTTGATTACGGTGG
12526746 TGACAGTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
16 11 0.34
17 5 0.16
18 3 0.09
19 13 0.41
ACGTcount: A:0.26, C:0.11, G:0.28, T:0.34
Consensus pattern (19 bp):
CAAATTTGATTACGGTGGG
Found at i:12526843 original size:31 final size:31
Alignment explanation
Indices: 12526805--12526878 Score: 130
Period size: 31 Copynumber: 2.4 Consensus size: 31
12526795 AAATATATTA
12526805 GATTTGATTCGAACTGAATTCTATCTCACTT
1 GATTTGATTCGAACTGAATTCTATCTCACTT
12526836 GATTTGATTCGAACTGAATTCTATCTCACTT
1 GATTTGATTCGAACTGAATTCTATCTCACTT
* *
12526867 GACTCGATTCGA
1 GATTTGATTCGA
12526879 TAAAATTTCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (31 bp):
GATTTGATTCGAACTGAATTCTATCTCACTT
Found at i:12527255 original size:17 final size:18
Alignment explanation
Indices: 12527235--12527283 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
12527225 CATTCACTCC
*
12527235 TTTTTCTTTTTCTTT-TT
1 TTTTTCTTTTACTTTGTT
*
12527252 TTTTTGTTTTACTTTGTT
1 TTTTTCTTTTACTTTGTT
*
12527270 TTTTT-TTCTACTTT
1 TTTTTCTTTTACTTT
12527284 TAAAATTATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 21 0.75
18 7 0.25
ACGTcount: A:0.04, C:0.10, G:0.04, T:0.82
Consensus pattern (18 bp):
TTTTTCTTTTACTTTGTT
Found at i:12527699 original size:15 final size:16
Alignment explanation
Indices: 12527679--12527708 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12527669 TTTAAAATTA
12527679 TATTT-ATATTTTTTT
1 TATTTAATATTTTTTT
12527694 TATTTAATATTTTTT
1 TATTTAATATTTTTT
12527709 ATTCATTAAA
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TATTTAATATTTTTTT
Found at i:12527708 original size:14 final size:15
Alignment explanation
Indices: 12527679--12527711 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
12527669 TTTAAAATTA
*
12527679 TATTTATATTTTTTT
1 TATTTATATATTTTT
12527694 TATTTA-ATATTTTT
1 TATTTATATATTTTT
12527708 TATT
1 TATT
12527712 CATTAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TATTTATATATTTTT
Found at i:12533393 original size:19 final size:19
Alignment explanation
Indices: 12533369--12533406 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
12533359 AAGTTAATAA
12533369 CAAATTTGATTACGGTGGG
1 CAAATTTGATTACGGTGGG
12533388 CAAATTTGATTACGGTGGG
1 CAAATTTGATTACGGTGGG
12533407 TGACAGTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.32, T:0.32
Consensus pattern (19 bp):
CAAATTTGATTACGGTGGG
Found at i:12533504 original size:31 final size:31
Alignment explanation
Indices: 12533466--12533539 Score: 130
Period size: 31 Copynumber: 2.4 Consensus size: 31
12533456 AAATATATTA
12533466 GATTTGATTCGAACTGAATTCTATCTCACTT
1 GATTTGATTCGAACTGAATTCTATCTCACTT
12533497 GATTTGATTCGAACTGAATTCTATCTCACTT
1 GATTTGATTCGAACTGAATTCTATCTCACTT
* *
12533528 GACTCGATTCGA
1 GATTTGATTCGA
12533540 TAAAATTTCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (31 bp):
GATTTGATTCGAACTGAATTCTATCTCACTT
Found at i:12533924 original size:18 final size:19
Alignment explanation
Indices: 12533898--12533938 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
12533888 CATTCACTCC
*
12533898 TTTTCTTTTTCTTT-TTTT
1 TTTTCTTTTACTTTGTTTT
*
12533916 TTTTGTTTTACTTTGTTTT
1 TTTTCTTTTACTTTGTTTT
12533935 TTTT
1 TTTT
12533939 TCTACTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.02, C:0.07, G:0.05, T:0.85
Consensus pattern (19 bp):
TTTTCTTTTACTTTGTTTT
Found at i:12533944 original size:17 final size:18
Alignment explanation
Indices: 12533908--12533946 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
12533898 TTTTCTTTTT
* *
12533908 CTTTTTTTTTTTGTTTTA
1 CTTTGTTTTTTTGTTCTA
12533926 CTTTGTTTTTTT-TTCTA
1 CTTTGTTTTTTTGTTCTA
12533943 CTTT
1 CTTT
12533947 TAAAAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.05, C:0.10, G:0.05, T:0.79
Consensus pattern (18 bp):
CTTTGTTTTTTTGTTCTA
Found at i:12540130 original size:19 final size:19
Alignment explanation
Indices: 12540108--12540164 Score: 114
Period size: 19 Copynumber: 3.0 Consensus size: 19
12540098 TAGTTAATAA
12540108 CAAATTTGATTACGGTGGG
1 CAAATTTGATTACGGTGGG
12540127 CAAATTTGATTACGGTGGG
1 CAAATTTGATTACGGTGGG
12540146 CAAATTTGATTACGGTGGG
1 CAAATTTGATTACGGTGGG
12540165 TGACAGTGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 38 1.00
ACGTcount: A:0.26, C:0.11, G:0.32, T:0.32
Consensus pattern (19 bp):
CAAATTTGATTACGGTGGG
Found at i:12540262 original size:31 final size:31
Alignment explanation
Indices: 12540224--12540297 Score: 130
Period size: 31 Copynumber: 2.4 Consensus size: 31
12540214 AAATATATTA
12540224 GATTTGATTCGAACTGAATTCTATCTCACTT
1 GATTTGATTCGAACTGAATTCTATCTCACTT
12540255 GATTTGATTCGAACTGAATTCTATCTCACTT
1 GATTTGATTCGAACTGAATTCTATCTCACTT
* *
12540286 GACTCGATTCGA
1 GATTTGATTCGA
12540298 TAAAATTTCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (31 bp):
GATTTGATTCGAACTGAATTCTATCTCACTT
Found at i:12540676 original size:17 final size:18
Alignment explanation
Indices: 12540656--12540704 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
12540646 CATTCACTCC
*
12540656 TTTTTCTTTTTCTTT-TT
1 TTTTTCTTTTACTTTGTT
*
12540673 TTTTTGTTTTACTTTGTT
1 TTTTTCTTTTACTTTGTT
*
12540691 TTTTT-TTCTACTTT
1 TTTTTCTTTTACTTT
12540705 TAAAAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 21 0.75
18 7 0.25
ACGTcount: A:0.04, C:0.10, G:0.04, T:0.82
Consensus pattern (18 bp):
TTTTTCTTTTACTTTGTT
Found at i:12546897 original size:19 final size:19
Alignment explanation
Indices: 12546873--12546910 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
12546863 AAGTTAATAA
12546873 CAAATTTGATTACGGTGGG
1 CAAATTTGATTACGGTGGG
12546892 CAAATTTGATTACGGTGGG
1 CAAATTTGATTACGGTGGG
12546911 TGACAGTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.32, T:0.32
Consensus pattern (19 bp):
CAAATTTGATTACGGTGGG
Found at i:12547008 original size:31 final size:31
Alignment explanation
Indices: 12546970--12547043 Score: 130
Period size: 31 Copynumber: 2.4 Consensus size: 31
12546960 AAATATATTA
12546970 GATTTGATTCGAACTGAATTCTATCTCACTT
1 GATTTGATTCGAACTGAATTCTATCTCACTT
12547001 GATTTGATTCGAACTGAATTCTATCTCACTT
1 GATTTGATTCGAACTGAATTCTATCTCACTT
* *
12547032 GACTCGATTCGA
1 GATTTGATTCGA
12547044 TAAAATTTCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (31 bp):
GATTTGATTCGAACTGAATTCTATCTCACTT
Found at i:12547423 original size:17 final size:18
Alignment explanation
Indices: 12547403--12547451 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
12547393 CATTCACTCC
*
12547403 TTTTTCTTTTTCTTT-TT
1 TTTTTCTTTTACTTTGTT
*
12547420 TTTTTGTTTTACTTTGTT
1 TTTTTCTTTTACTTTGTT
*
12547438 TTTTT-TTCTACTTT
1 TTTTTCTTTTACTTT
12547452 TAAAAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 21 0.75
18 7 0.25
ACGTcount: A:0.04, C:0.10, G:0.04, T:0.82
Consensus pattern (18 bp):
TTTTTCTTTTACTTTGTT
Found at i:12559371 original size:5 final size:5
Alignment explanation
Indices: 12559361--12559393 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
12559351 GTTATTGTGA
12559361 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
12559394 GAACACACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:12563805 original size:5 final size:5
Alignment explanation
Indices: 12563795--12563828 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
12563785 CCAATTTATA
12563795 AAAAT AAAAT AAAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAA
12563829 GAACACACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:12563808 original size:11 final size:11
Alignment explanation
Indices: 12563792--12563828 Score: 67
Period size: 11 Copynumber: 3.5 Consensus size: 11
12563782 ATACCAATTT
12563792 ATAAAAATAAA
1 ATAAAAATAAA
12563803 ATAAAAATAAA
1 ATAAAAATAAA
12563814 AT-AAAATAAA
1 ATAAAAATAAA
12563824 ATAAA
1 ATAAA
12563829 GAACACACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 10 0.40
11 15 0.60
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
ATAAAAATAAA
Found at i:12564550 original size:38 final size:40
Alignment explanation
Indices: 12564488--12564572 Score: 120
Period size: 39 Copynumber: 2.2 Consensus size: 40
12564478 CGTTTGAATG
*
12564488 AAAAACGCCGCTAAAGAACAAGCATTAGCGGCGCTT-TTA
1 AAAAACGCCGCTAAAGAACAAGCATTAGCAGCGCTTATTA
* * *
12564527 AAAAATGCCGCTAAAG-TCGAGCATTAGCAGCGCTTATTA
1 AAAAACGCCGCTAAAGAACAAGCATTAGCAGCGCTTATTA
12564566 AAAAACG
1 AAAAACG
12564573 TCACTATAGG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 16 0.40
39 24 0.60
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (40 bp):
AAAAACGCCGCTAAAGAACAAGCATTAGCAGCGCTTATTA
Found at i:12565079 original size:15 final size:14
Alignment explanation
Indices: 12565061--12565095 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
12565051 ATTATTTTAA
*
12565061 GGTTTATGGATTAT
1 GGTTTAGGGATTAT
12565075 GGGTTTAGGGATTAT
1 -GGTTTAGGGATTAT
12565090 GGTTTA
1 GGTTTA
12565096 AGGGTGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:12565081 original size:22 final size:22
Alignment explanation
Indices: 12565022--12565100 Score: 54
Period size: 22 Copynumber: 3.6 Consensus size: 22
12565012 ATTTACAGTA
*
12565022 TATGG-TTAAGGGTTTAATGTT
1 TATGGATTAAGGGTTTAAGGTT
****
12565043 TAT-GAGTTATTATTTTAAGGTT
1 TATGGA-TTAAGGGTTTAAGGTT
* * *
12565065 TATGGATTATGGGTTTAGGGAT
1 TATGGATTAAGGGTTTAAGGTT
*
12565087 TATGGTTTAAGGGT
1 TATGGATTAAGGGT
12565101 GGTTTAAGGG
Statistics
Matches: 43, Mismatches: 12, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
20 1 0.02
21 3 0.07
22 37 0.86
23 2 0.05
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (22 bp):
TATGGATTAAGGGTTTAAGGTT
Found at i:12565117 original size:25 final size:25
Alignment explanation
Indices: 12565076--12565123 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
12565066 ATGGATTATG
12565076 GGTTTAGGGATTATGGTTTAAGGGT
1 GGTTTAGGGATTATGGTTTAAGGGT
*
12565101 GGTTTAAGGG-TTGTGGTTTAAGG
1 GGTTT-AGGGATTATGGTTTAAGG
12565124 TTTAAGTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.19, C:0.00, G:0.42, T:0.40
Consensus pattern (25 bp):
GGTTTAGGGATTATGGTTTAAGGGT
Found at i:12565190 original size:7 final size:7
Alignment explanation
Indices: 12565180--12565214 Score: 61
Period size: 7 Copynumber: 4.9 Consensus size: 7
12565170 AAGATTTATA
12565180 GTTTAGG
1 GTTTAGG
12565187 GTTTAGG
1 GTTTAGG
12565194 GTTTAGG
1 GTTTAGG
12565201 AGTTTAGG
1 -GTTTAGG
12565209 GTTTAG
1 GTTTAG
12565215 ATTAATTAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 20 0.74
8 7 0.26
ACGTcount: A:0.17, C:0.00, G:0.40, T:0.43
Consensus pattern (7 bp):
GTTTAGG
Found at i:12565207 original size:15 final size:14
Alignment explanation
Indices: 12565180--12565214 Score: 61
Period size: 15 Copynumber: 2.4 Consensus size: 14
12565170 AAGATTTATA
12565180 GTTTAGGGTTTAGG
1 GTTTAGGGTTTAGG
12565194 GTTTAGGAGTTTAGG
1 GTTTAGG-GTTTAGG
12565209 GTTTAG
1 GTTTAG
12565215 ATTAATTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.17, C:0.00, G:0.40, T:0.43
Consensus pattern (14 bp):
GTTTAGGGTTTAGG
Found at i:12565331 original size:14 final size:14
Alignment explanation
Indices: 12565314--12565345 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
12565304 ATCATTATAG
*
12565314 TTTAGGGTTTATGA
1 TTTAGGGTATATGA
12565328 TTTAGGGTATATGA
1 TTTAGGGTATATGA
12565342 TTTA
1 TTTA
12565346 TAGTTTAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (14 bp):
TTTAGGGTATATGA
Found at i:12565394 original size:15 final size:15
Alignment explanation
Indices: 12565376--12565423 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
12565366 ATTATTTTAA
12565376 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
12565391 GGTTTAGGGATTAT-
1 GGTTTATGGATTATG
* *
12565405 GGTTTATGGTTTAAG
1 GGTTTATGGATTATG
12565420 GGTT
1 GGTT
12565424 GGGGATTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:12565396 original size:22 final size:21
Alignment explanation
Indices: 12565371--12565420 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
12565361 GAGTTATTAT
*
12565371 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAT-GG
* *
12565393 TTTAGGGATTATGGTTTATGG
1 TTTAAGGATTATGGATTATGG
12565414 TTTAAGG
1 TTTAAGG
12565421 GTTGGGGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (21 bp):
TTTAAGGATTATGGATTATGG
Found at i:12565434 original size:14 final size:14
Alignment explanation
Indices: 12565415--12565452 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
12565405 GGTTTATGGT
12565415 TTAAGGGTT-GGGG
1 TTAAGGGTTAGGGG
*
12565428 ATTAAGGCTTAGGGG
1 -TTAAGGGTTAGGGG
12565443 TTAAGGGTTA
1 TTAAGGGTTA
12565453 AGTGTTAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 17 0.81
15 4 0.19
ACGTcount: A:0.24, C:0.03, G:0.42, T:0.32
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:12565446 original size:28 final size:28
Alignment explanation
Indices: 12565397--12565451 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
12565387 TATGGGTTTA
* * * *
12565397 GGGATTATGGTTTATGGTTTAAGGGTTG
1 GGGATTAAGGCTTAGGGGTTAAGGGTTG
12565425 GGGATTAAGGCTTAGGGGTTAAGGGTT
1 GGGATTAAGGCTTAGGGGTTAAGGGTT
12565452 AAGTGTTAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.20, C:0.02, G:0.42, T:0.36
Consensus pattern (28 bp):
GGGATTAAGGCTTAGGGGTTAAGGGTTG
Found at i:12572498 original size:10 final size:10
Alignment explanation
Indices: 12572483--12572507 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
12572473 TTTTATGACC
12572483 TTTATAATAT
1 TTTATAATAT
12572493 TTTATAATAT
1 TTTATAATAT
12572503 TTTAT
1 TTTAT
12572508 TTTTTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTATAATAT
Found at i:12573866 original size:26 final size:26
Alignment explanation
Indices: 12573830--12573884 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
12573820 ACCCAAGACG
12573830 AATGCACTTAATCATGTTTTTTTATT
1 AATGCACTTAATCATGTTTTTTTATT
12573856 AATGCACTTAATCATGTTTTTTTATT
1 AATGCACTTAATCATGTTTTTTTATT
12573882 AAT
1 AAT
12573885 CGTTATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.29, C:0.11, G:0.07, T:0.53
Consensus pattern (26 bp):
AATGCACTTAATCATGTTTTTTTATT
Found at i:12574220 original size:17 final size:17
Alignment explanation
Indices: 12574198--12574234 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
12574188 CGAAATAATA
12574198 AAAATAAAAATAAAAAT
1 AAAATAAAAATAAAAAT
12574215 AAAATAAAAATAAAAAT
1 AAAATAAAAATAAAAAT
12574232 AAA
1 AAA
12574235 GAATGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAATAAAAATAAAAAT
Found at i:12574245 original size:6 final size:6
Alignment explanation
Indices: 12574194--12574244 Score: 77
Period size: 6 Copynumber: 8.5 Consensus size: 6
12574184 GCTACGAAAT
*
12574194 AATAAA AATAAA AATAAA AAT-AA AATAAA AATAAA AATAAA GAATGAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA -AATAAA
12574242 AAT
1 AAT
12574245 GGGCCATTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
5 5 0.12
6 32 0.76
7 5 0.12
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (6 bp):
AATAAA
Found at i:12574553 original size:31 final size:30
Alignment explanation
Indices: 12574511--12574568 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
12574501 AAAAAAATTA
*
12574511 TTTTTTAAAAATATTATAAAAATAAACCAAT
1 TTTTTTAAAAAT-TTACAAAAATAAACCAAT
* *
12574542 TTTTTTGAAAATTTACAAGAATAAACC
1 TTTTTTAAAAATTTACAAAAATAAACC
12574569 TTAAAAAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 13 0.54
31 11 0.46
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.38
Consensus pattern (30 bp):
TTTTTTAAAAATTTACAAAAATAAACCAAT
Found at i:12575219 original size:18 final size:19
Alignment explanation
Indices: 12575188--12575226 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
12575178 TGATATATCT
12575188 TTTTTAAATATTTACT-TA
1 TTTTTAAATATTTACTATA
12575206 TTTTT-AATATTTTACTATA
1 TTTTTAAATA-TTTACTATA
12575225 TT
1 TT
12575227 CATTAATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 11 0.58
19 4 0.21
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTTAAATATTTACTATA
Found at i:12575529 original size:15 final size:15
Alignment explanation
Indices: 12575499--12575527 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
12575489 ACTATTAGTA
12575499 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
12575514 ATTTTTT-AATATTT
1 ATTTTTTAAATATTT
12575528 TACCATACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:12576434 original size:62 final size:62
Alignment explanation
Indices: 12576364--12576488 Score: 241
Period size: 62 Copynumber: 2.0 Consensus size: 62
12576354 ACATGAAAAT
12576364 ACACTTTCAACATATGAAATTACAAAGCTACATAAAGTAAACAAATAGCTTGAAAAGATGAC
1 ACACTTTCAACATATGAAATTACAAAGCTACATAAAGTAAACAAATAGCTTGAAAAGATGAC
*
12576426 ACACTTTCAACATATGAAATTACAAAGCTACGTAAAGTAAACAAATAGCTTGAAAAGATGAC
1 ACACTTTCAACATATGAAATTACAAAGCTACATAAAGTAAACAAATAGCTTGAAAAGATGAC
12576488 A
1 A
12576489 AACATTTATT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.50, C:0.16, G:0.12, T:0.22
Consensus pattern (62 bp):
ACACTTTCAACATATGAAATTACAAAGCTACATAAAGTAAACAAATAGCTTGAAAAGATGAC
Found at i:12576773 original size:10 final size:10
Alignment explanation
Indices: 12576752--12576794 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
12576742 ATACTAATCC
*
12576752 ATACATACAT
1 ATACATATAT
*
12576762 ATACATTTAT
1 ATACATATAT
*
12576772 ATATATATAT
1 ATACATATAT
*
12576782 ATAGATATAT
1 ATACATATAT
12576792 ATA
1 ATA
12576795 TGATGGGTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (10 bp):
ATACATATAT
Found at i:12577257 original size:26 final size:26
Alignment explanation
Indices: 12577228--12577281 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
12577218 GAGTCAGAGT
12577228 AGCATAGACTTGTAATACTTGGATTC
1 AGCATAGACTTGTAATACTTGGATTC
*
12577254 AGCATAGACTTGTATTACTTGGATTC
1 AGCATAGACTTGTAATACTTGGATTC
12577280 AG
1 AG
12577282 ATGTGTTAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (26 bp):
AGCATAGACTTGTAATACTTGGATTC
Done.