Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 133 of 313
Found at i:43044581 original size:15 final size:15
Alignment explanation
Indices: 43044561--43044591 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
43044551 CATATTTTAA
43044561 GGTTTAGGGAGTATG
1 GGTTTAGGGAGTATG
*
43044576 GGTTTAGGGATTATG
1 GGTTTAGGGAGTATG
43044591 G
1 G
43044592 ATTAGGGGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.45, T:0.35
Consensus pattern (15 bp):
GGTTTAGGGAGTATG
Found at i:43044604 original size:21 final size:22
Alignment explanation
Indices: 43044575--43044632 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
43044565 TAGGGAGTAT
*
43044575 GGGTTTAGGGATTATGGATTAG
1 GGGTTTAGGGATTAAGGATTAG
*
43044597 GGG-TTA-GGATTTAAGGTTTAG
1 GGGTTTAGGGA-TTAAGGATTAG
*
43044618 GGGTTTAGAGATTAA
1 GGGTTTAGGGATTAA
43044633 AAGTTAGGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 3 0.10
21 15 0.50
22 10 0.33
23 2 0.07
ACGTcount: A:0.26, C:0.00, G:0.38, T:0.36
Consensus pattern (22 bp):
GGGTTTAGGGATTAAGGATTAG
Found at i:43044639 original size:22 final size:21
Alignment explanation
Indices: 43044593--43044641 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
43044583 GGATTATGGA
* *
43044593 TTAGGGGTTAGGATTTAAGGT
1 TTAGGGGTTAGGATTAAAAGT
43044614 TTAGGGGTTTAGAGATTAAAAG-
1 TTAGGGG-TTAG-GATTAAAAGT
43044636 TTAGGG
1 TTAGGG
43044642 ATTCAGGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 7 0.29
22 10 0.42
23 7 0.29
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
TTAGGGGTTAGGATTAAAAGT
Found at i:43044866 original size:15 final size:15
Alignment explanation
Indices: 43044809--43044869 Score: 56
Period size: 15 Copynumber: 4.1 Consensus size: 15
43044799 GAGTTCATAT
43044809 TTTAAGGTTTAGGGA
1 TTTAAGGTTTAGGGA
* *
43044824 -GTATGGATTTAGGGA
1 TTTAAGG-TTTAGGGA
*
43044839 -TTANGAG-TTAGGGA
1 TTTAAG-GTTTAGGGA
43044853 TTTAAGGTTTAGGGA
1 TTTAAGGTTTAGGGA
43044868 TT
1 TT
43044870 CAGGGGTCGA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
14 12 0.32
15 24 0.65
16 1 0.03
ACGTcount: A:0.26, C:0.00, G:0.34, T:0.38
Consensus pattern (15 bp):
TTTAAGGTTTAGGGA
Found at i:43045870 original size:291 final size:292
Alignment explanation
Indices: 43045171--43046578 Score: 2263
Period size: 291 Copynumber: 4.9 Consensus size: 292
43045161 ATTTTATAAA
43045171 AAATCAATTTATAAAAAAAATAAAAAATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAAT
1 AAATCAATTTATAAAAAAAATAAAAAATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAAT
* *
43045236 GAAAAAATTTTGCGGCGTTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCAGCGTTTTCCCGA
66 GAAAAAATTTTGCGGCGTTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCCAGA
*
43045301 AAAACGCTGCAAAGAATAAATCAATTTATAAAAAAAATAAAAAATTTTTAGAATAGCAAAACGGC
131 AAAACGCCGCAAAGAATAAATCAATTTATAAAAAAAATAAAAAA--TTTAGAATAGCAAAACGGC
43045366 GTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGTTTTATAAGAAGCGCCGCTAAAGGTAAGCAA
194 GTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGTTTTATAAGAAGCGCCGCTAAAGGTAAGCAA
* *
43045431 TAGCAGCGTTTTCCCGAAAAACGCTGCAAAGAAT
259 TAGCAGCGTTTTCCAGAAAAACGCCGCAAAGAAT
43045465 AAATCAATTTATAAAAAAAATAAAAAATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAAT
1 AAATCAATTTATAAAAAAAATAAAAAATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAAT
* *
43045530 GAAAAAATTTTGCGGCGTTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCATTTTCCCGA
66 GAAAAAATTTTGCGGCGTTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCCAGA
*
43045595 AAAACGCTGCAAAGAATAAATCAATTTATAAAAAAAATAAAAAATTTAGAATAGCAAAACGGCGT
131 AAAACGCCGCAAAGAATAAATCAATTTATAAAAAAAATAAAAAATTTAGAATAGCAAAACGGCGT
* *
43045660 CGTTTTGTTCAAAATG-AAAAATTTTACGGCGTTTTTTAAGAAGCGCCGCTAAAGGTAAGCAATA
196 CGTTTTGTTCAAAATGAAAAAATTTTGCGGCGTTTTATAAGAAGCGCCGCTAAAGGTAAGCAATA
*
43045724 GCGGCGTTTTCCAGAAAAACGCCGCAAAGAAT
261 GCAGCGTTTTCCAGAAAAACGCCGCAAAGAAT
43045756 AAATCAATTTATAAAAAAAATAAAAAATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAAT
1 AAATCAATTTATAAAAAAAATAAAAAATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAAT
* * * * * *
43045821 GAAAAAAATTTACGGTGTTTTATAAGGAGCGCCGCTAAAAGTGAGCAATAGCGGCGTTTTCCAGA
66 GAAAAAATTTTGCGGCGTTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCCAGA
*
43045886 AAAATGCCGCAAAGAATAAATCAATTTAT-AAAAAAATAAAAAAATTTAGAATAGCAAAACGGCG
131 AAAACGCCGCAAAGAATAAATCAATTTATAAAAAAAAT-AAAAAATTTAGAATAGCAAAACGGCG
* * * *
43045950 TCGTTTTGTTCAAAATGAAAAAAATTTACGGTGTTTTATAAGAAGCGCCGCTAAAAGTAAGCAAT
195 TCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGTTTTATAAGAAGCGCCGCTAAAGGTAAGCAAT
* *
43046015 AGCGGCGTTTTCCAGAAAAATGCCGCAAAGAAT
260 AGCAGCGTTTTCCAGAAAAACGCCGCAAAGAAT
* *
43046048 AAATCAATTTAT-AAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGCTCAAAAT
1 AAATCAATTTATAAAAAAAATAAAAAATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAAT
* * * *
43046112 GAAAAAATTTTGCGGCGTTTTTTAAGAAGCGCCGCTAAAGATAAGCAATAGCGGCGTTTTCTATA
66 GAAAAAATTTTGCGGCGTTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCCAGA
* * *
43046177 AAAATGCCGCAAAGAATAAATCAGTTTATAAAAAAATAAAAAAAATTTAGAATAGCAAAACGGCG
131 AAAACGCCGCAAAGAATAAATCAATTTATAAAAAAA-ATAAAAAATTTAGAATAGCAAAACGGCG
*
43046242 TCGTTTTGTTCAAAATGAAAAAATTTTGCGGCATTTTATAAGAAGCGCCGCTAAAGGTAAGCAAT
195 TCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGTTTTATAAGAAGCGCCGCTAAAGGTAAGCAAT
43046307 AGCAGCGTTTT------------CGCAAAGAAT
260 AGCAGCGTTTTCCAGAAAAACGCCGCAAAGAAT
* * *
43046328 AAATTAATTTAT-AAAAAAATAAAAAAATTTTTAGAATAGCAAAATGGCGTCGCTTTGTTCAAAA
1 AAATCAATTTATAAAAAAAAT-AAAAAATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAA
* * *
43046392 TGATAAAATTTTGAGGCGTTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGCTTTCCAG
65 TGAAAAAATTTTGCGGCGTTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCCAG
*
43046457 AAAAACGCCGCAAAGAATAAATCAATTTATAAAAAAATAAAAAAAATTTAGAATAGCAAAACGGC
130 AAAAACGCCGCAAAGAATAAATCAATTTATAAAAAAA-ATAAAAAATTTAGAATAGCAAAACGGC
* *
43046522 GTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGTTTTTTAACAAGCGCCGCTAAAG
194 GTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGTTTTATAAGAAGCGCCGCTAAAG
43046579 AATAAATTAT
Statistics
Matches: 1050, Mismatches: 59, Indels: 23
0.93 0.05 0.02
Matches are distributed among these distances:
280 29 0.03
281 214 0.20
290 8 0.01
291 400 0.38
292 226 0.22
293 1 0.00
294 172 0.16
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.26
Consensus pattern (292 bp):
AAATCAATTTATAAAAAAAATAAAAAATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAAT
GAAAAAATTTTGCGGCGTTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCCAGA
AAAACGCCGCAAAGAATAAATCAATTTATAAAAAAAATAAAAAATTTAGAATAGCAAAACGGCGT
CGTTTTGTTCAAAATGAAAAAATTTTGCGGCGTTTTATAAGAAGCGCCGCTAAAGGTAAGCAATA
GCAGCGTTTTCCAGAAAAACGCCGCAAAGAAT
Found at i:43046157 original size:146 final size:146
Alignment explanation
Indices: 43045171--43046578 Score: 2236
Period size: 147 Copynumber: 9.7 Consensus size: 146
43045161 ATTTTATAAA
*
43045171 AAATCAATTTATAAAAAAAATAAAAAATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAAT
1 AAATCAATTTAT-AAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAAT
* *
43045236 GAAAAAATTTTGCGGCGTTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCAGCGTTTTCCCGA
65 GAAAAAATTTTGCGGCGTTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCCAGA
*
43045301 AAAACGCTGCAAAGAAT
130 AAAACGCCGCAAAGAAT
*
43045318 AAATCAATTTATAAAAAAAATAAAAAATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAAT
1 AAATCAATTTAT-AAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAAT
* *
43045383 GAAAAAATTTTGCGGCGTTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCAGCGTTTTCCCGA
65 GAAAAAATTTTGCGGCGTTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCCAGA
*
43045448 AAAACGCTGCAAAGAAT
130 AAAACGCCGCAAAGAAT
*
43045465 AAATCAATTTATAAAAAAAATAAAAAATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAAT
1 AAATCAATTTAT-AAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAAT
* *
43045530 GAAAAAATTTTGCGGCGTTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCATTTTCCCGA
65 GAAAAAATTTTGCGGCGTTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCCAGA
*
43045595 AAAACGCTGCAAAGAAT
130 AAAACGCCGCAAAGAAT
43045612 AAATCAATTTATAAAAAAA-ATAAAAAA-TTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAAT
1 AAATCAATTTATAAAAAAATA-AAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAAT
* *
43045675 G-AAAAATTTTACGGCGTTTTTTAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCCAGA
65 GAAAAAATTTTGCGGCGTTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCCAGA
43045739 AAAACGCCGCAAAGAAT
130 AAAACGCCGCAAAGAAT
*
43045756 AAATCAATTTATAAAAAAAATAAAAAATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAAT
1 AAATCAATTTAT-AAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAAT
* * * * * *
43045821 GAAAAAAATTTACGGTGTTTTATAAGGAGCGCCGCTAAAAGTGAGCAATAGCGGCGTTTTCCAGA
65 GAAAAAATTTTGCGGCGTTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCCAGA
*
43045886 AAAATGCCGCAAAGAAT
130 AAAACGCCGCAAAGAAT
43045903 AAATCAATTTATAAAAAAATAAAAAAA-TTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATG
1 AAATCAATTTATAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATG
* * * *
43045967 AAAAAAATTTACGGTGTTTTATAAGAAGCGCCGCTAAAAGTAAGCAATAGCGGCGTTTTCCAGAA
66 AAAAAATTTTGCGGCGTTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCCAGAA
*
43046032 AAATGCCGCAAAGAAT
131 AAACGCCGCAAAGAAT
*
43046048 AAATCAATTTATAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGCTCAAAATG
1 AAATCAATTTATAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATG
* * * *
43046113 AAAAAATTTTGCGGCGTTTTTTAAGAAGCGCCGCTAAAGATAAGCAATAGCGGCGTTTTCTATAA
66 AAAAAATTTTGCGGCGTTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCCAGAA
*
43046178 AAATGCCGCAAAGAAT
131 AAACGCCGCAAAGAAT
* *
43046194 AAATCAGTTTATAAAAAAATAAAAAAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATG
1 AAATCAATTTATAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATG
* *
43046259 AAAAAATTTTGCGGCATTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCAGCGTTTT------
66 AAAAAATTTTGCGGCGTTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCCAGAA
43046318 ------CGCAAAGAAT
131 AAACGCCGCAAAGAAT
* * *
43046328 AAATTAATTTATAAAAAAATAAAAAAATTTTTAGAATAGCAAAATGGCGTCGCTTTGTTCAAAAT
1 AAATCAATTTATAAAAAAATAAAAAAA-TTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAAT
* * *
43046393 GATAAAATTTTGAGGCGTTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGCTTTCCAGA
65 GAAAAAATTTTGCGGCGTTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCCAGA
43046458 AAAACGCCGCAAAGAAT
130 AAAACGCCGCAAAGAAT
*
43046475 AAATCAATTTATAAAAAAATAAAAAAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATG
1 AAATCAATTTATAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATG
* *
43046540 AAAAAATTTTGCGGCGTTTTTTAACAAGCGCCGCTAAAG
66 AAAAAATTTTGCGGCGTTTTATAAGAAGCGCCGCTAAAG
43046579 AATAAATTAT
Statistics
Matches: 1189, Mismatches: 53, Indels: 39
0.93 0.04 0.03
Matches are distributed among these distances:
134 35 0.03
135 89 0.07
144 87 0.07
145 193 0.16
146 360 0.30
147 425 0.36
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.26
Consensus pattern (146 bp):
AAATCAATTTATAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATG
AAAAAATTTTGCGGCGTTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTCCAGAA
AAACGCCGCAAAGAAT
Found at i:43046606 original size:98 final size:97
Alignment explanation
Indices: 43046493--43046676 Score: 287
Period size: 98 Copynumber: 1.9 Consensus size: 97
43046483 TTATAAAAAA
** * *
43046493 ATAAAAAAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGTT
1 ATAAAAAAAATTTAGAATAGCAAAACAACGTCGTTTTGTTCAAAATAAAAAAAATTTGCGGCGTT
*
43046558 TTTTAACAAGCGCCGCTAAAGAATAAATTATT
66 TTATAACAAGCGCCGCTAAAGAATAAATTATT
*
43046590 ATAAAAAAAATTTTAGAATAGCAAAACAACGTCGTTTTGTTCAAAATAAAAAAAATTTGCGGTGT
1 ATAAAAAAAA-TTTAGAATAGCAAAACAACGTCGTTTTGTTCAAAATAAAAAAAATTTGCGGCGT
* *
43046655 TTTATAAGAAGCGTCGCTAAAG
65 TTTATAACAAGCGCCGCTAAAG
43046677 GTAAGCAATA
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
97 10 0.13
98 68 0.87
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.29
Consensus pattern (97 bp):
ATAAAAAAAATTTAGAATAGCAAAACAACGTCGTTTTGTTCAAAATAAAAAAAATTTGCGGCGTT
TTATAACAAGCGCCGCTAAAGAATAAATTATT
Found at i:43046631 original size:244 final size:244
Alignment explanation
Indices: 43046346--43046822 Score: 792
Period size: 244 Copynumber: 2.0 Consensus size: 244
43046336 TTATAAAAAA
* *** * * *
43046346 ATAAAAAAATTTTTAGAATAGCAAAATGGCGTCGCTTTGTTCAAAATGATAAAATTTTGAGGCGT
1 ATAAAAAAAATTTTAGAATAGCAAAACAACGTCGCTTTGTTCAAAATAAAAAAAATTTGAGGCGT
43046411 TTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGCTTTCCAGAAAAACGCCGCAAAGAATA
66 TTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGCTTTCCAGAAAAACGCCGCAAAGAATA
*
43046476 AATCAATTTATAAAAAAATAAAAAAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGA
131 AATCAATTTATAAAAAAATAAAAAAAATTTAGAATAGAAAAACGGCGTCGTTTTGTTCAAAATGA
* *
43046541 AAAAATTTTGCGGCGTTTTTTAACAAGCGCCGCTAAAGAATAAATTATT
196 AAAAATTTTGCGACATTTTTTAACAAGCGCCGCTAAAGAATAAATTATT
* * *
43046590 ATAAAAAAAATTTTAGAATAGCAAAACAACGTCGTTTTGTTCAAAATAAAAAAAATTTGCGGTGT
1 ATAAAAAAAATTTTAGAATAGCAAAACAACGTCGCTTTGTTCAAAATAAAAAAAATTTGAGGCGT
* * * *
43046655 TTTATAAGAAGCGTCGCTAAAGGTAAGCAATAGCGGTGTTTTCCAGAAAAACGCCGTAAAGAATA
66 TTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGCTTTCCAGAAAAACGCCGCAAAGAATA
43046720 AATCAATTTATAAAAAAATAAAAAAAATTTAGAATAGAAAAACGGCGTCGTTTTGTTCAAAATGA
131 AATCAATTTATAAAAAAATAAAAAAAATTTAGAATAGAAAAACGGCGTCGTTTTGTTCAAAATGA
*
43046785 AAAAATTTTGCGACATTTTTTAAGAAGCGCCGCTAAAG
196 AAAAATTTTGCGACATTTTTTAACAAGCGCCGCTAAAG
43046823 GTAAGCAATA
Statistics
Matches: 215, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
244 215 1.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (244 bp):
ATAAAAAAAATTTTAGAATAGCAAAACAACGTCGCTTTGTTCAAAATAAAAAAAATTTGAGGCGT
TTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGCTTTCCAGAAAAACGCCGCAAAGAATA
AATCAATTTATAAAAAAATAAAAAAAATTTAGAATAGAAAAACGGCGTCGTTTTGTTCAAAATGA
AAAAATTTTGCGACATTTTTTAACAAGCGCCGCTAAAGAATAAATTATT
Found at i:43046756 original size:146 final size:142
Alignment explanation
Indices: 43046590--43046950 Score: 508
Period size: 146 Copynumber: 2.5 Consensus size: 142
43046580 ATAAATTATT
* * **
43046590 ATAAAAAAAATTTTAGAATAGCAAAACAACGTCGTTTTGTTCAAAATAAAAAAAATTTGCGGTGT
1 ATAAAAAAAA-TTTAGAATAGCAAAACAGCGTCGTTTTGTTCAAAATAAAAAAATTTTGCGGAAT
* * *
43046655 TTTATAAGAAGCGTCGCTAAAGGTAAGCAATAGCGGTGTTTTCCAGAAAAACGCCGTAAAGAATA
65 TTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTT----AAAAACGCCGCAAAGAATA
43046720 AATCAATTTATAAAAAA
126 AATCAATTTATAAAAAA
* * *
43046737 ATAAAAAAAATTTAGAATAGAAAAACGGCGTCGTTTTGTTCAAAATGAAAAAATTTTGC-GACAT
1 ATAAAAAAAATTTAGAATAGCAAAACAGCGTCGTTTTGTTCAAAATAAAAAAATTTTGCGGA-AT
* * *
43046801 TTTTTAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTATAACGCCGCAAAGAATAAATC
65 TTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTAAAAACGCCGCAAAGAATAAATC
43046866 AATTTATAAAAAA
130 AATTTATAAAAAA
* * *
43046879 ATAAAAAAAATTTAAAATAGCAAAACCGGGTCGTTTTGTTCAAAATGAAAAAAATTTTGCGGAAT
1 ATAAAAAAAATTTAGAATAGCAAAACAGCGTCGTTTTGTTCAAAAT-AAAAAAATTTTGCGGAAT
43046944 TTTATAA
65 TTTATAA
43046951 ATAAGCAATA
Statistics
Matches: 192, Mismatches: 19, Indels: 10
0.87 0.09 0.05
Matches are distributed among these distances:
142 75 0.39
143 20 0.10
144 2 0.01
145 1 0.01
146 84 0.44
147 10 0.05
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.27
Consensus pattern (142 bp):
ATAAAAAAAATTTAGAATAGCAAAACAGCGTCGTTTTGTTCAAAATAAAAAAATTTTGCGGAATT
TTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCGGCGTTTTAAAAACGCCGCAAAGAATAAATCA
ATTTATAAAAAA
Found at i:43049932 original size:23 final size:23
Alignment explanation
Indices: 43049902--43050201 Score: 182
Period size: 23 Copynumber: 13.3 Consensus size: 23
43049892 GAAATTTGAT
43049902 AGTGCTGCAAATTGAAGTGTTTA
1 AGTGCTGCAAATTGAAGTGTTTA
*
43049925 AGTGCTGCAAATTGAAGTATTT-
1 AGTGCTGCAAATTGAAGTGTTTA
* *
43049947 AGTTGCTGGAAATTG-AGATGTTTT
1 AG-TGCTGCAAATTGAAG-TGTTTA
* * *
43049971 A-TCGCTG-TAATTGAGGTGTATA
1 AGT-GCTGCAAATTGAAGTGTTTA
* * **
43049993 AATGTTGTTAATTGATA-TGTTTA
1 AGTGCTGCAAATTGA-AGTGTTTA
*
43050016 AGTGCTGCAAATTGAAGTATTT-
1 AGTGCTGCAAATTGAAGTGTTTA
* *
43050038 AGTTGCTGAAAATTG-AGATGTTTT
1 AG-TGCTGCAAATTGAAG-TGTTTA
* * *
43050062 A-TCGCTG-TAATTGAGGTGTATA
1 AGT-GCTGCAAATTGAAGTGTTTA
* *
43050084 AATG-T--TAATTGATA-TGTTTA
1 AGTGCTGCAAATTGA-AGTGTTTA
*
43050104 AGTACTGCAAATTGAAGTGTTTA
1 AGTGCTGCAAATTGAAGTGTTTA
43050127 AGTGCTGCAAATTGAAGTGTTT-
1 AGTGCTGCAAATTGAAGTGTTTA
*
43050149 AGTTGCTGCAAATTG-AGATGTTTT
1 AG-TGCTGCAAATTGAAG-TGTTTA
** *
43050173 A-TCGCTATAAATTGAAGTGTTAA
1 AGT-GCTGCAAATTGAAGTGTTTA
43050196 AGTGCT
1 AGTGCT
43050202 ACTTTCCATT
Statistics
Matches: 220, Mismatches: 31, Indels: 52
0.73 0.10 0.17
Matches are distributed among these distances:
20 14 0.06
21 2 0.01
22 41 0.19
23 157 0.71
24 6 0.03
ACGTcount: A:0.30, C:0.07, G:0.24, T:0.39
Consensus pattern (23 bp):
AGTGCTGCAAATTGAAGTGTTTA
Found at i:43050148 original size:88 final size:89
Alignment explanation
Indices: 43049911--43050141 Score: 369
Period size: 91 Copynumber: 2.6 Consensus size: 89
43049901 TAGTGCTGCA
*
43049911 AATTGA-AGTGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGGAAATTGAGATGTTTTATCG
1 AATTGATA-TGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGAAAATTGAGATGTTTTATCG
43049975 CTGTAATTGAGGTGTATAAATGTTGTT
65 CTGTAATTGAGGTGTATAAA--TTGTT
43050002 AATTGATATGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGAAAATTGAGATGTTTTATCGC
1 AATTGATATGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGAAAATTGAGATGTTTTATCGC
43050067 TGTAATTGAGGTGTATAAA-TGTT
66 TGTAATTGAGGTGTATAAATTGTT
* * *
43050090 AATTGATATGTTTAAGTACTGCAAATTGAAGTGTTTAAG-TGCTGCAAATTGA
1 AATTGATATGTTTAAGTGCTGCAAATTGAAGTATTT-AGTTGCTGAAAATTGA
43050142 AGTGTTTAGT
Statistics
Matches: 134, Mismatches: 4, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
88 50 0.37
89 2 0.01
91 81 0.60
92 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.40
Consensus pattern (89 bp):
AATTGATATGTTTAAGTGCTGCAAATTGAAGTATTTAGTTGCTGAAAATTGAGATGTTTTATCGC
TGTAATTGAGGTGTATAAATTGTT
Found at i:43051157 original size:42 final size:43
Alignment explanation
Indices: 43051096--43051194 Score: 146
Period size: 42 Copynumber: 2.3 Consensus size: 43
43051086 CTTGTTTTTT
* *
43051096 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCG-TAGGGGGAA
1 AAGCGCCGCTAAAGATCTTGGTCTTTAGCGACGTTAGGGGGAA
* *
43051138 AAGCGCCGCTAAAGATCTTGGTCTTTAGCGACGTTTGTGGGAA
1 AAGCGCCGCTAAAGATCTTGGTCTTTAGCGACGTTAGGGGGAA
*
43051181 AAGCGCTGCTAAAG
1 AAGCGCCGCTAAAG
43051195 TTAGCGACGA
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 31 0.61
43 20 0.39
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.23
Consensus pattern (43 bp):
AAGCGCCGCTAAAGATCTTGGTCTTTAGCGACGTTAGGGGGAA
Found at i:43070464 original size:62 final size:62
Alignment explanation
Indices: 43070388--43070512 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
43070378 TAGAGCAGGG
43070388 ACTTAAAGGTCAGAATGCCAAAATTATATGTCCCAAGCATTTAACGATTAGTTTTCTGTAGT
1 ACTTAAAGGTCAGAATGCCAAAATTATATGTCCCAAGCATTTAACGATTAGTTTTCTGTAGT
43070450 ACTTAAAGGTCAGAATGCCAAAATTATATGTCCCAAGCATTTAACGATTAGTTTTCTGTAGT
1 ACTTAAAGGTCAGAATGCCAAAATTATATGTCCCAAGCATTTAACGATTAGTTTTCTGTAGT
43070512 A
1 A
43070513 GTAGTCTTTT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (62 bp):
ACTTAAAGGTCAGAATGCCAAAATTATATGTCCCAAGCATTTAACGATTAGTTTTCTGTAGT
Found at i:43080229 original size:25 final size:25
Alignment explanation
Indices: 43080201--43080252 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
43080191 TAAATAAATA
43080201 AAGGTCTCCTTTCAAATGTGATTAC
1 AAGGTCTCCTTTCAAATGTGATTAC
43080226 AAGGTCTCCTTTCAAATGTGATTAC
1 AAGGTCTCCTTTCAAATGTGATTAC
43080251 AA
1 AA
43080253 AGAAGACAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (25 bp):
AAGGTCTCCTTTCAAATGTGATTAC
Found at i:43083773 original size:104 final size:101
Alignment explanation
Indices: 43083643--43083976 Score: 444
Period size: 105 Copynumber: 3.2 Consensus size: 101
43083633 GAAAAAAGAA
43083643 AAAAAAATGAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAA
1 AAAAAAAT-AAAAAAAA-TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAA
*
43083708 AAAGTATTTTTTTGTGTTAGAATCAGATATAAATATACG
64 AAA-TATTTTTTTGTGTCAGAATCAGATATAAATATACG
*
43083747 AAAAAATTTTAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTTAAAA
1 AAAAAA--ATAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAA-TTAAAA
* ** *
43083812 AAAA-A---ATTCATATCAGAATCAGATATAAATATACG
63 AAAATATTTTTTTGTGTCAGAATCAGATATAAATATACG
* * *
43083847 AAAAAAAT-AAAAAAATTTGGGTGCTGGCTTGTCAATGGCCGGTACCCAGTACAATTTTAAAAAA
1 AAAAAAATAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAA-ATT-AAAAA
*
43083911 AAATTCTTTTTTTTCGTGTCAGAATCAGATATAAATATACG
64 AAA-T-ATTTTTTT-GTGTCAGAATCAGATATAAATATACG
43083952 AAAAAAATAAAAAAAATTTGGGTGC
1 AAAAAAATAAAAAAAATTTGGGTGC
43083977 CAGCACCCAG
Statistics
Matches: 202, Mismatches: 15, Indels: 24
0.84 0.06 0.10
Matches are distributed among these distances:
97 46 0.23
98 9 0.04
100 31 0.15
103 1 0.00
104 48 0.24
105 50 0.25
106 17 0.08
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (101 bp):
AAAAAAATAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAAAAA
ATATTTTTTTGTGTCAGAATCAGATATAAATATACG
Found at i:43084136 original size:187 final size:189
Alignment explanation
Indices: 43083791--43084165 Score: 591
Period size: 188 Copynumber: 2.0 Consensus size: 189
43083781 TCAATGGCCG
*
43083791 GCACCCAGTACAAATTTAAAAAAAAAATTCATATCAGAATCAGATATAAATATACGAAAAAAATA
1 GCACCCAGTACAAATTT-AAAAAAAAATTCATATCAAAATCAGATATAAATATACGAAAAAAATA
* * *
43083856 AAAAAATTTGGGTGCTGGCTTGTCAATGGCCGGTACCCAGTACAATTTTAAAAAAAAATTCTTTT
65 AAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTTAAAAAAAAAATCTTTT
*
43083921 TTTTCGTGTCAGAATCAGATATAAATATACG-AAAAAAATAAAAAAAA-TTTGGGTGCCA
130 TTTTCGTGTCAGAACCAGATATAAATATACGAAAAAAAATAAAAAAAATTTTGGGTGCCA
* *
43083979 GCACCCAGTAC-AATTT-AAAAAAAATTCGTGTCAAAATCAGATATAAATATACGAAAAAAATAA
1 GCACCCAGTACAAATTTAAAAAAAAATTCATATCAAAATCAGATATAAATATACGAAAAAAAT--
*
43084042 AAAAAAATTTAGGGTGTTGGCCTGTCAATGGCCGGCACCCAGTACAATTTTTAAAAAAAAAATC-
64 AAAAAAATTT-GGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAA-TTTTAAAAAAAAAATCT
43084106 TTTTTTT-GTGTCAGAACCAGATATAAATATACGAAAAAAAATAAAAAAAATTTTGGGTGC
127 TTTTTTTCGTGTCAGAACCAGATATAAATATACGAAAAAAAATAAAAAAAATTTTGGGTGC
43084166 TAGCCTGTCA
Statistics
Matches: 173, Mismatches: 8, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
185 42 0.24
187 40 0.23
188 67 0.39
189 24 0.14
ACGTcount: A:0.46, C:0.13, G:0.14, T:0.27
Consensus pattern (189 bp):
GCACCCAGTACAAATTTAAAAAAAAATTCATATCAAAATCAGATATAAATATACGAAAAAAATAA
AAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTTAAAAAAAAAATCTTTTT
TTTCGTGTCAGAACCAGATATAAATATACGAAAAAAAATAAAAAAAATTTTGGGTGCCA
Found at i:43084174 original size:107 final size:108
Alignment explanation
Indices: 43084006--43084209 Score: 331
Period size: 107 Copynumber: 1.9 Consensus size: 108
43083996 AAAAAAATTC
* * *
43084006 GTGTCAAAATCAGATATAAATATACGAAAAAAATAAAAAAAAATTTAGGGTGTTGGCCTGTCAAT
1 GTGTCAAAACCAGATATAAATATACGAAAAAAATAAAAAAAAATTTAGGGTGCTAGCCTGTCAAT
*
43084071 GGCCGGCACCCAGTAC-AATTTTTAAAAAAAAAATCTTTTTTT
66 AGCCGGCACCCAGTACAAATTTTTAAAAAAAAAATCTTTTTTT
* *
43084113 GTGTCAGAACCAGATATAAATATACGAAAAAAA-ATAAAAAAAATTTTGGGTGCTAGCCTGTCAA
1 GTGTCAAAACCAGATATAAATATACGAAAAAAATA-AAAAAAAATTTAGGGTGCTAGCCTGTCAA
43084177 TAGCCGGCACCCAGTACAAATTTTTAAAAAAAA
65 TAGCCGGCACCCAGTACAAATTTTTAAAAAAAA
43084210 TTCTAATTCT
Statistics
Matches: 89, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
106 1 0.01
107 73 0.82
108 15 0.17
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.26
Consensus pattern (108 bp):
GTGTCAAAACCAGATATAAATATACGAAAAAAATAAAAAAAAATTTAGGGTGCTAGCCTGTCAAT
AGCCGGCACCCAGTACAAATTTTTAAAAAAAAAATCTTTTTTT
Found at i:43084412 original size:105 final size:103
Alignment explanation
Indices: 43084215--43084442 Score: 316
Period size: 105 Copynumber: 2.2 Consensus size: 103
43084205 AAAAATTCTA
43084215 ATTCTGACACGAAAAAAAAGAATTTTTTTTAATTTGTACTGGGTGCCGGCCATTGGCAGGGCCGC
1 ATTCTGACACG-AAAAAAAGAATTTTTTTTAATTTGTACTGGGTGCCGGCCA-T-GCAGGGCCGC
* * *
43084280 CCCCCAAAATTTTTTTTATTTTTTTCGTATATTTATATTTG
63 ACCCAAAAATTTTTTTTATTTTTTTCGTATATTTATATCTG
* * *
43084321 ATTCTGACACGAAAAAAATAATTTTTTTTAAATTTGTACTGGGTGCTGGCC-T-CAATGGCCGAC
1 ATTCTGACACGAAAAAAAGAATTTTTTTT-AATTTGTACTGGGTGCCGGCCATGC-AGGGCCG-C
43084384 ACCCAAGAAATTTTTTTTATTTTTTTCGTATATTTATATCTG
63 ACCCAA-AAATTTTTTTTATTTTTTTCGTATATTTATATCTG
*
43084426 ATTCTAACACGAAAAAA
1 ATTCTGACACGAAAAAA
43084443 GAAAAGGAAA
Statistics
Matches: 111, Mismatches: 7, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
102 1 0.01
103 6 0.05
104 6 0.05
105 67 0.60
106 31 0.28
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.39
Consensus pattern (103 bp):
ATTCTGACACGAAAAAAAGAATTTTTTTTAATTTGTACTGGGTGCCGGCCATGCAGGGCCGCACC
CAAAAATTTTTTTTATTTTTTTCGTATATTTATATCTG
Found at i:43084453 original size:59 final size:59
Alignment explanation
Indices: 43084390--43084501 Score: 215
Period size: 59 Copynumber: 1.9 Consensus size: 59
43084380 CGACACCCAA
43084390 GAAATTTTTTTTATTTTTTTCGTATATTTATATCTGATTCTAACACGAAAAAAGAAAAG
1 GAAATTTTTTTTATTTTTTTCGTATATTTATATCTGATTCTAACACGAAAAAAGAAAAG
*
43084449 GAAATTTTTTTTATTTTTTTTGTATATTTATATCTGATTCTAACACGAAAAAA
1 GAAATTTTTTTTATTTTTTTCGTATATTTATATCTGATTCTAACACGAAAAAA
43084502 ATAATTTTTT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 52 1.00
ACGTcount: A:0.36, C:0.08, G:0.09, T:0.47
Consensus pattern (59 bp):
GAAATTTTTTTTATTTTTTTCGTATATTTATATCTGATTCTAACACGAAAAAAGAAAAG
Found at i:43089907 original size:29 final size:28
Alignment explanation
Indices: 43089845--43089907 Score: 65
Period size: 29 Copynumber: 2.2 Consensus size: 28
43089835 ATAAATAATA
* *
43089845 AATAAATATGTATATATACAAAATATGT
1 AATATATATGTATATATACAAAATATGG
*
43089873 ACATATATATGTAGGTATATA-AAATTATGG
1 A-ATATATATGTA--TATATACAAAATATGG
43089903 AATAT
1 AATAT
43089908 GAAAATAATG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
28 1 0.03
29 14 0.48
30 8 0.28
31 6 0.21
ACGTcount: A:0.49, C:0.03, G:0.11, T:0.37
Consensus pattern (28 bp):
AATATATATGTATATATACAAAATATGG
Found at i:43091933 original size:11 final size:11
Alignment explanation
Indices: 43091898--43091954 Score: 57
Period size: 11 Copynumber: 5.4 Consensus size: 11
43091888 AATTGGATTG
43091898 AATTGAATGTA
1 AATTGAATGTA
* *
43091909 ACTTGTAT-TA
1 AATTGAATGTA
43091919 AATTGAATGTA
1 AATTGAATGTA
*
43091930 AATTGTAT-TA
1 AATTGAATGTA
43091940 AATTG-ATGTTA
1 AATTGAATG-TA
43091951 AATT
1 AATT
43091955 CATTTGTATA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
9 2 0.05
10 15 0.39
11 21 0.55
ACGTcount: A:0.40, C:0.02, G:0.14, T:0.44
Consensus pattern (11 bp):
AATTGAATGTA
Found at i:43091943 original size:10 final size:10
Alignment explanation
Indices: 43091888--43091954 Score: 53
Period size: 11 Copynumber: 6.4 Consensus size: 10
43091878 CTAAGATGTG
* *
43091888 AATTGGATTG
1 AATTGTATTA
*
43091898 AATTGAATGTA
1 AATTGTAT-TA
*
43091909 ACTTGTATTA
1 AATTGTATTA
*
43091919 AATTGAATGTA
1 AATTGTAT-TA
43091930 AATTGTATTA
1 AATTGTATTA
*
43091940 AATTGATGTTA
1 AATTG-TATTA
43091951 AATT
1 AATT
43091955 CATTTGTATA
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
10 22 0.48
11 24 0.52
ACGTcount: A:0.39, C:0.01, G:0.16, T:0.43
Consensus pattern (10 bp):
AATTGTATTA
Found at i:43091952 original size:21 final size:21
Alignment explanation
Indices: 43091883--43091954 Score: 92
Period size: 21 Copynumber: 3.4 Consensus size: 21
43091873 TTTGCCTAAG
* * *
43091883 ATGTGAATTGGATTGAATTGA
1 ATGTAAATTGTATTAAATTGA
*
43091904 ATGTAACTTGTATTAAATTGA
1 ATGTAAATTGTATTAAATTGA
43091925 ATGTAAATTGTATTAAATTG-
1 ATGTAAATTGTATTAAATTGA
43091945 ATGTTAAATT
1 ATG-TAAATT
43091955 CATTTGTATA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
20 3 0.07
21 42 0.93
ACGTcount: A:0.38, C:0.01, G:0.18, T:0.43
Consensus pattern (21 bp):
ATGTAAATTGTATTAAATTGA
Found at i:43092323 original size:25 final size:25
Alignment explanation
Indices: 43092295--43092375 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 25
43092285 CTCATAAACA
43092295 TCCCGATATATGGCTCTTTCGAGCT
1 TCCCGATATATGGCTCTTTCGAGCT
* * *
43092320 TCCCGTTATATGGTTCTTGCGAGCT
1 TCCCGATATATGGCTCTTTCGAGCT
* * *
43092345 TCCCGTTA-ATAGCTC-TTCGGAGCA
1 TCCCGATATATGGCTCTTTC-GAGCT
43092369 TCCCGAT
1 TCCCGAT
43092376 TGGCTGTGAT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
23 2 0.04
24 15 0.32
25 30 0.64
ACGTcount: A:0.16, C:0.28, G:0.21, T:0.35
Consensus pattern (25 bp):
TCCCGATATATGGCTCTTTCGAGCT
Found at i:43092457 original size:26 final size:26
Alignment explanation
Indices: 43092412--43092474 Score: 60
Period size: 26 Copynumber: 2.5 Consensus size: 26
43092402 ACACACTGCA
*
43092412 GCTCTTA-TGAGTATCCCGA-TATATG
1 GCTCTTAGTGAGTATCCCGATTA-AAG
*
43092437 GCTCTTAGTGAG-ATTCTCGATTAAAG
1 GCTCTTAGTGAGTA-TCCCGATTAAAG
*
43092463 GCTCTTTGTGAG
1 GCTCTTAGTGAG
43092475 CTTCCTGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
25 8 0.25
26 22 0.69
27 2 0.06
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (26 bp):
GCTCTTAGTGAGTATCCCGATTAAAG
Found at i:43098044 original size:199 final size:198
Alignment explanation
Indices: 43097688--43098102 Score: 546
Period size: 199 Copynumber: 2.1 Consensus size: 198
43097678 AGACTTGGGT
* * * *
43097688 CACACGGCCAAACCACATGCTAGTATGCTAAGCTGTGTGAACATTTTAATTTACTTTAATTAGGT
1 CACACGACCAAACCACATGCCAGTATGCTAAGCTGTGTGAACAATTTAATTTACATTAATTAGGT
* * *
43097753 GTAAGAGCCACATGGTCAAGTCACACGCTCGTGTGCCAGGCCGCGTGCCACATACGACTGAGACA
66 GCAAGAGCCACACGGTCAAGTCACACGCTCGTGTACCAGGCCGCGTGCCACATACGACTGAGACA
43097818 GACGTCCGTGTGCCTGTCCATGTGAAAATACCTGAACATTCTGTTTTGCAATTTTAAAGATACAG
131 GACGTCCGTGTGCCTGTCCA-GTGAAAATACCTGAACATTCTGTTTTGCAATTTTAAAGATACAG
43097883 GGGA
195 GGGA
* * * * * *
43097887 TAGACGACCAAACCACATGCCCGTGTGCTAAGTTGTGTGAATAATTTAATTTACATTAATTAGGT
1 CACACGACCAAACCACATGCCAGTATGCTAAGCTGTGTGAACAATTTAATTTACATTAATTAGGT
* * * ** * *
43097952 GCAGGGGCCACACGGTCAAGTCACATGC-CTGTGTACCAGGTTGTGTGCCATATACGACTGAGAC
66 GCAAGAGCCACACGGTCAAGTCACACGCTC-GTGTACCAGGCCGCGTGCCACATACGACTGAGAC
* * * * *
43098016 AGACGTCTGTGTGCCTGCTCGC-GTGAAAATACTTGAGCATTTTGTTTTGCAATTTTAAAGATAT
130 AGACGTCCGTGTGCCTG-TC-CAGTGAAAATACCTGAACATTCTGTTTTGCAATTTTAAAGATAC
43098080 AGGGGA
193 AGGGGA
*
43098086 CACACGACCAAATCACA
1 CACACGACCAAACCACA
43098103 CTCCCATGTA
Statistics
Matches: 185, Mismatches: 28, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
198 1 0.01
199 181 0.98
200 2 0.01
201 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (198 bp):
CACACGACCAAACCACATGCCAGTATGCTAAGCTGTGTGAACAATTTAATTTACATTAATTAGGT
GCAAGAGCCACACGGTCAAGTCACACGCTCGTGTACCAGGCCGCGTGCCACATACGACTGAGACA
GACGTCCGTGTGCCTGTCCAGTGAAAATACCTGAACATTCTGTTTTGCAATTTTAAAGATACAGG
GGA
Found at i:43099201 original size:24 final size:23
Alignment explanation
Indices: 43099106--43099202 Score: 63
Period size: 24 Copynumber: 4.0 Consensus size: 23
43099096 CAAGCCAAAT
** *
43099106 AACAGAAAGCTCATGTGAGCTTGT
1 AACAGAAAGCTCATGCAAGCTT-A
* * * *
43099130 AACGGAAAGCTTATCCAGGCTTAA
1 AACAGAAAGCTCATGCAAGCTT-A
43099154 TAACAGAAAGCTCAT--AAGATCTTA
1 -AACAGAAAGCTCATGCAAG--CTTA
43099178 AATCAGAAAGCTCATGCAAGCTTA
1 AA-CAGAAAGCTCATGCAAGCTTA
43099202 A
1 A
43099203 GGATAACTCC
Statistics
Matches: 56, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
23 4 0.07
24 34 0.61
25 15 0.27
26 3 0.05
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.23
Consensus pattern (23 bp):
AACAGAAAGCTCATGCAAGCTTA
Found at i:43099201 original size:49 final size:49
Alignment explanation
Indices: 43099087--43099202 Score: 117
Period size: 49 Copynumber: 2.4 Consensus size: 49
43099077 CATAAACGGG
* ** ** * *
43099087 AAGCTCTTCCAAGCCAAATAACAGAAAGCTCATGTGAGCTTGTAACGGA
1 AAGCTCATCCAAGCTTAATAACAGAAAGCTCATAAGAGCTTGAAACAGA
* * *
43099136 AAGCTTATCCAGGCTTAATAACAGAAAGCTCATAAGATCTT-AAATCAGA
1 AAGCTCATCCAAGCTTAATAACAGAAAGCTCATAAGAGCTTGAAA-CAGA
*
43099185 AAGCTCATGCAAGCTTAA
1 AAGCTCATCCAAGCTTAA
43099203 GGATAACTCC
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
48 2 0.04
49 51 0.96
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.22
Consensus pattern (49 bp):
AAGCTCATCCAAGCTTAATAACAGAAAGCTCATAAGAGCTTGAAACAGA
Found at i:43103455 original size:29 final size:29
Alignment explanation
Indices: 43103413--43103470 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
43103403 ACAAACAAAG
*
43103413 AACCAAGTTGGTTTTGACTATTTGACTTA
1 AACCAAGCTGGTTTTGACTATTTGACTTA
43103442 AACCAAGCTGGTTTTGACTATTTGACTTA
1 AACCAAGCTGGTTTTGACTATTTGACTTA
43103471 CTTTTATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.40
Consensus pattern (29 bp):
AACCAAGCTGGTTTTGACTATTTGACTTA
Found at i:43103967 original size:94 final size:95
Alignment explanation
Indices: 43103806--43103994 Score: 299
Period size: 94 Copynumber: 2.0 Consensus size: 95
43103796 TTAGCCTGAG
* *
43103806 TGCTTCCTCTTTCATTGCCTCTGCGTGCTTCCCTTTTTGTTTTTGAAGTTCTAGAGCTGGCAATA
1 TGCTTCCTCTTTCATTCCCTCTGCGCGCTTCCCTTTTTGTTTTTGAAGTTCTAGAGCTGGCAATA
*
43103871 CCATTCTTGCAGTAGGTAC-CTTTTTCTCA
66 CCATTCTTGCAGCAGGTACTCTTTTTCTCA
* * **
43103900 TGCTTCCTCTTTCATTCCCTCTGTGCGCTTCCCTTTTTGTTTTTGAAGTTCTAGAGTTGGTGATA
1 TGCTTCCTCTTTCATTCCCTCTGCGCGCTTCCCTTTTTGTTTTTGAAGTTCTAGAGCTGGCAATA
*
43103965 CCATTCTTGCAGCAGGTACTTTTTTTCTCA
66 CCATTCTTGCAGCAGGTACTCTTTTTCTCA
43103995 ATTATTATAA
Statistics
Matches: 86, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
94 77 0.90
95 9 0.10
ACGTcount: A:0.13, C:0.25, G:0.17, T:0.45
Consensus pattern (95 bp):
TGCTTCCTCTTTCATTCCCTCTGCGCGCTTCCCTTTTTGTTTTTGAAGTTCTAGAGCTGGCAATA
CCATTCTTGCAGCAGGTACTCTTTTTCTCA
Found at i:43110918 original size:16 final size:16
Alignment explanation
Indices: 43110897--43110935 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
43110887 GTTTAGTTCA
43110897 CTGTAATAGAATAGAG
1 CTGTAATAGAATAGAG
**
43110913 CTGTAACGGAATAGAG
1 CTGTAATAGAATAGAG
43110929 CTGTAAT
1 CTGTAAT
43110936 GAAATAAAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.26
Consensus pattern (16 bp):
CTGTAATAGAATAGAG
Found at i:43110941 original size:16 final size:16
Alignment explanation
Indices: 43110897--43110941 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
43110887 GTTTAGTTCA
43110897 CTGTAAT-AGAATAGAG
1 CTGTAATGA-AATAGAG
* *
43110913 CTGTAACGGAATAGAG
1 CTGTAATGAAATAGAG
43110929 CTGTAATGAAATA
1 CTGTAATGAAATA
43110942 AAGTTATAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.42, C:0.09, G:0.24, T:0.24
Consensus pattern (16 bp):
CTGTAATGAAATAGAG
Found at i:43111158 original size:26 final size:25
Alignment explanation
Indices: 43111126--43111205 Score: 76
Period size: 26 Copynumber: 3.2 Consensus size: 25
43111116 GTTATTAAAT
*
43111126 TTTAATAGGATTATTACTAAATATAA
1 TTTAATAAGATTATTA-TAAATATAA
* *
43111152 TTTAATAAGA-AATT-T-AATCATAT
1 TTTAATAAGATTATTATAAAT-ATAA
*
43111175 TTTAATAAAATTATTATTAAATATAA
1 TTTAATAAGATTATTA-TAAATATAA
43111201 TTTAA
1 TTTAA
43111206 CAATAATAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
22 3 0.07
23 13 0.30
24 3 0.07
25 3 0.07
26 18 0.42
27 3 0.07
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.45
Consensus pattern (25 bp):
TTTAATAAGATTATTATAAATATAA
Found at i:43111228 original size:49 final size:48
Alignment explanation
Indices: 43111126--43111229 Score: 111
Period size: 49 Copynumber: 2.1 Consensus size: 48
43111116 GTTATTAAAT
** * * * *
43111126 TTTAATAGGATTATTACTAAATATAATTTAATAAGAAATTTAATCATAT
1 TTTAATAAAATTATTACTAAATATAATTTAACAAAAAATATAA-CATAA
*
43111175 TTTAATAAAATTATTATTAAATATAATTTAACAATAATAATATAA-ATAA
1 TTTAATAAAATTATTACTAAATATAATTTAACAA-AA-AATATAACATAA
43111224 TTTAAT
1 TTTAAT
43111230 CATAAATTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
49 39 0.85
50 1 0.02
51 6 0.13
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (48 bp):
TTTAATAAAATTATTACTAAATATAATTTAACAAAAAATATAACATAA
Found at i:43112964 original size:18 final size:20
Alignment explanation
Indices: 43112941--43112992 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
43112931 TCGTTTTTGG
*
43112941 TTATTTCTCT-TC-CTCTGT
1 TTATTTCTCTCCCTCTCTGT
*
43112959 TTATTTTTCTCCCTCTCTGT
1 TTATTTCTCTCCCTCTCTGT
*
43112979 TTATTTTTCTCCCT
1 TTATTTCTCTCCCT
43112993 TTCTCCAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 9 0.30
19 1 0.03
20 20 0.67
ACGTcount: A:0.06, C:0.29, G:0.04, T:0.62
Consensus pattern (20 bp):
TTATTTCTCTCCCTCTCTGT
Found at i:43112969 original size:20 final size:20
Alignment explanation
Indices: 43112953--43112992 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
43112943 ATTTCTCTTC
43112953 CTCTGTTTATTTTTCTCCCT
1 CTCTGTTTATTTTTCTCCCT
43112973 CTCTGTTTATTTTTCTCCCT
1 CTCTGTTTATTTTTCTCCCT
43112993 TTCTCCAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.05, C:0.30, G:0.05, T:0.60
Consensus pattern (20 bp):
CTCTGTTTATTTTTCTCCCT
Found at i:43130063 original size:18 final size:18
Alignment explanation
Indices: 43130040--43130074 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
43130030 CTTGTGAATC
43130040 ATTAATA-AAAATATTAAT
1 ATTAATATAAAAT-TTAAT
43130058 ATTAATATAAAATTTAA
1 ATTAATATAAAATTTAA
43130075 ATTTATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATTAATATAAAATTTAAT
Found at i:43130662 original size:15 final size:16
Alignment explanation
Indices: 43130642--43130678 Score: 67
Period size: 15 Copynumber: 2.4 Consensus size: 16
43130632 GATTTTTAAT
43130642 ATTTTTTGAATTT-TA
1 ATTTTTTGAATTTATA
43130657 ATTTTTTGAATTTATA
1 ATTTTTTGAATTTATA
43130673 ATTTTT
1 ATTTTT
43130679 AAATTATTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (16 bp):
ATTTTTTGAATTTATA
Found at i:43135442 original size:20 final size:20
Alignment explanation
Indices: 43135405--43135444 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
43135395 AAGTAAGTAC
43135405 CAAAACTTCTCTTCATATTT
1 CAAAACTTCTCTTCATATTT
*
43135425 CAAAAGCTTCT-TTTATATTT
1 CAAAA-CTTCTCTTCATATTT
43135445 ACTATTTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.30, C:0.20, G:0.03, T:0.47
Consensus pattern (20 bp):
CAAAACTTCTCTTCATATTT
Found at i:43144304 original size:5 final size:5
Alignment explanation
Indices: 43144294--43144323 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
43144284 TATATGTGTA
*
43144294 TGGGT TGGGT TGGGT TGAGT TGGGT TGGGT
1 TGGGT TGGGT TGGGT TGGGT TGGGT TGGGT
43144324 ATGGAAAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.03, C:0.00, G:0.57, T:0.40
Consensus pattern (5 bp):
TGGGT
Found at i:43151554 original size:2 final size:2
Alignment explanation
Indices: 43151543--43151572 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
43151533 AATGCAAGGG
43151543 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
43151573 GGCTTAACGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:43153756 original size:23 final size:21
Alignment explanation
Indices: 43153709--43153756 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
43153699 TATTATTTAA
43153709 ATTATTAAATATAATTAAAAT
1 ATTATTAAATATAATTAAAAT
* *
43153730 -TTATTAACTTATCAATTCAAAT
1 ATTATTAA-ATAT-AATTAAAAT
43153752 ATTAT
1 ATTAT
43153757 AATAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 7 0.32
21 3 0.14
22 8 0.36
23 4 0.18
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (21 bp):
ATTATTAAATATAATTAAAAT
Found at i:43170803 original size:22 final size:23
Alignment explanation
Indices: 43170778--43170820 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
43170768 ATATTTTTAA
43170778 ATTTAA-AT-TTAATTATAAAAAC
1 ATTTAAGATATTAATTA-AAAAAC
43170800 ATTTAAGATATTAATTAAAAA
1 ATTTAAGATATTAATTAAAAA
43170821 TGACATGACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.32
23 6 0.32
24 7 0.37
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (23 bp):
ATTTAAGATATTAATTAAAAAAC
Found at i:43184094 original size:25 final size:27
Alignment explanation
Indices: 43184066--43184115 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
43184056 TTATTTCTCA
43184066 AAAAAAAAAACTT-A-CTTTTTAACAC
1 AAAAAAAAAACTTAATCTTTTTAACAC
**
43184091 AAAAAAATTACTTAATCTTTTTAAC
1 AAAAAAAAAACTTAATCTTTTTAAC
43184116 TAAATTTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 11 0.52
26 1 0.05
27 9 0.43
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (27 bp):
AAAAAAAAAACTTAATCTTTTTAACAC
Found at i:43184951 original size:175 final size:175
Alignment explanation
Indices: 43184655--43185005 Score: 648
Period size: 175 Copynumber: 2.0 Consensus size: 175
43184645 GACCTGTAAC
* *
43184655 AACCCTATACCTGGTCTAATCGTACAAACCCAGTATAAGACTATTACATTTGGTGTCAAAACGGT
1 AACCATATACCTGGCCTAATCGTACAAACCCAGTATAAGACTATTACATTTGGTGTCAAAACGGT
*
43184720 TATAGCTAGATATTGTTTAATTACAACATTTATACATAGTATTTTAACTTACCAACCATATTTGC
66 TATAGCTAGATATTGTTTAATTAAAACATTTATACATAGTATTTTAACTTACCAACCATATTTGC
*
43184785 AAACATACGTATAGTTTCATTAATTCATTTCATATATATACCAAA
131 AAACATACGTATAGTTCCATTAATTCATTTCATATATATACCAAA
* *
43184830 AACCATATACCTGGCCTAATCGTACAGACCCGGTATAAGACTATTACATTTGGTGTCAAAACGGT
1 AACCATATACCTGGCCTAATCGTACAAACCCAGTATAAGACTATTACATTTGGTGTCAAAACGGT
43184895 TATAGCTAGATATTGTTTAATTAAAACATTTATACATAGTATTTTAACTTACCAACCATATTTGC
66 TATAGCTAGATATTGTTTAATTAAAACATTTATACATAGTATTTTAACTTACCAACCATATTTGC
43184960 AAACATACGTATAGTTCCATTAATTCATTTCATATATATACCAAA
131 AAACATACGTATAGTTCCATTAATTCATTTCATATATATACCAAA
43185005 A
1 A
43185006 TATTTCAAGT
Statistics
Matches: 170, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
175 170 1.00
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (175 bp):
AACCATATACCTGGCCTAATCGTACAAACCCAGTATAAGACTATTACATTTGGTGTCAAAACGGT
TATAGCTAGATATTGTTTAATTAAAACATTTATACATAGTATTTTAACTTACCAACCATATTTGC
AAACATACGTATAGTTCCATTAATTCATTTCATATATATACCAAA
Found at i:43185464 original size:22 final size:22
Alignment explanation
Indices: 43185439--43185484 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
43185429 TGCACTAATG
* *
43185439 AACAGAGAGCACAGATGTGCTA
1 AACAAAGAGCACAGACGTGCTA
*
43185461 AACAAAGAGCACTGACGTGCTA
1 AACAAAGAGCACAGACGTGCTA
43185483 AA
1 AA
43185485 TATCAGAGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.13
Consensus pattern (22 bp):
AACAAAGAGCACAGACGTGCTA
Found at i:43185503 original size:25 final size:26
Alignment explanation
Indices: 43185466--43185545 Score: 103
Period size: 25 Copynumber: 3.2 Consensus size: 26
43185456 TGCTAAACAA
**
43185466 AGAGCACTGACGTGCTAAAT-ATCAG
1 AGAGCACCAACGTGCTAAATAATCAG
43185491 AGAGCACCAACGTGCT-AATAATCAG
1 AGAGCACCAACGTGCTAAATAATCAG
* *
43185516 AGAGCACCAACGCGCT-AATAATTAG
1 AGAGCACCAACGTGCTAAATAATCAG
43185541 AGAGC
1 AGAGC
43185546 GAGCTAAAGT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 3 0.06
25 47 0.94
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
AGAGCACCAACGTGCTAAATAATCAG
Found at i:43185843 original size:5 final size:5
Alignment explanation
Indices: 43185833--43185863 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
43185823 AGTTCCATAA
*
43185833 TATTT TATTT TACTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT TATTT T
43185864 TAAATAACTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (5 bp):
TATTT
Found at i:43185917 original size:13 final size:14
Alignment explanation
Indices: 43185891--43185919 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
43185881 TAATATAGAC
43185891 ATTTAAATAAAATA
1 ATTTAAATAAAATA
43185905 ATTTAAA-AAAATA
1 ATTTAAATAAAATA
43185918 AT
1 AT
43185920 CTTGTAGTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
ATTTAAATAAAATA
Found at i:43186582 original size:11 final size:11
Alignment explanation
Indices: 43186568--43186605 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
43186558 TCTTTCTTTC
*
43186568 TTTCTCCCCTG
1 TTTCTCCTCTG
*
43186579 TTTCTCCTCTC
1 TTTCTCCTCTG
43186590 TTTCTCCTCTG
1 TTTCTCCTCTG
43186601 TTTCT
1 TTTCT
43186606 TTATTATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.00, C:0.39, G:0.05, T:0.55
Consensus pattern (11 bp):
TTTCTCCTCTG
Found at i:43194447 original size:21 final size:21
Alignment explanation
Indices: 43194414--43194490 Score: 66
Period size: 21 Copynumber: 3.7 Consensus size: 21
43194404 CACAGAAGCA
* *
43194414 CATAAGTGCTAAACGAAAACC
1 CATAAGAGTTAAACGAAAACC
* * * *
43194435 CATAA-AGGTTAAATGGAAGCT
1 CATAAGA-GTTAAACGAAAACC
* *
43194456 CATAAGAGCTGAACGAAAACC
1 CATAAGAGTTAAACGAAAACC
43194477 CATAAGAGTTAAAC
1 CATAAGAGTTAAAC
43194491 TAAAGCTCAA
Statistics
Matches: 40, Mismatches: 14, Indels: 4
0.69 0.24 0.07
Matches are distributed among these distances:
21 39 0.98
22 1 0.03
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.17
Consensus pattern (21 bp):
CATAAGAGTTAAACGAAAACC
Found at i:43194497 original size:42 final size:42
Alignment explanation
Indices: 43194409--43194510 Score: 127
Period size: 42 Copynumber: 2.4 Consensus size: 42
43194399 GGTTGCACAG
* * *
43194409 AAGCACATAAGTGCTAAACGAAAACCCATAAAGGTTAAATGG
1 AAGCTCATAAGAGCTAAACGAAAACCCATAAAGGTTAAATGA
*
43194451 AAGCTCATAAGAGCTGAACGAAAACCCAT-AAGAGTTAAACT-A
1 AAGCTCATAAGAGCTAAACGAAAACCCATAAAG-GTTAAA-TGA
*
43194493 AAGCTCAAAAGAGCTAAA
1 AAGCTCATAAGAGCTAAA
43194511 TTAAAACTCA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
41 3 0.06
42 48 0.92
43 1 0.02
ACGTcount: A:0.49, C:0.18, G:0.18, T:0.16
Consensus pattern (42 bp):
AAGCTCATAAGAGCTAAACGAAAACCCATAAAGGTTAAATGA
Found at i:43194504 original size:21 final size:21
Alignment explanation
Indices: 43194480--43194580 Score: 64
Period size: 21 Copynumber: 4.8 Consensus size: 21
43194470 GAAAACCCAT
43194480 AAGAGTTAAACTAAAGCTCAA
1 AAGAGTTAAACTAAAGCTCAA
* * *
43194501 AAGAGCTAAATTAAAACTCAA
1 AAGAGTTAAACTAAAGCTCAA
* *
43194522 AGGGGTTAAACTGAAA-CTCATA
1 AAGAGTTAAACT-AAAGCTCA-A
* * * *
43194544 TA-AGTT-AATTGAAGCTCAT
1 AAGAGTTAAACTAAAGCTCAA
*
43194563 AAGAGCTAAACTGAAAGC
1 AAGAGTTAAACT-AAAGC
43194581 AAACACGGAA
Statistics
Matches: 57, Mismatches: 17, Indels: 11
0.67 0.20 0.13
Matches are distributed among these distances:
19 3 0.05
20 10 0.18
21 36 0.63
22 8 0.14
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.22
Consensus pattern (21 bp):
AAGAGTTAAACTAAAGCTCAA
Found at i:43196807 original size:22 final size:21
Alignment explanation
Indices: 43196772--43196820 Score: 71
Period size: 22 Copynumber: 2.3 Consensus size: 21
43196762 TTTTAATTAA
*
43196772 ATTTAAATATTTTAAATTTAT
1 ATTTAAATATTTTAAATCTAT
*
43196793 ATTTATATAATTTTAAATCTAT
1 ATTTAAAT-ATTTTAAATCTAT
43196815 ATTTAA
1 ATTTAA
43196821 TTCAGTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTAAATATTTTAAATCTAT
Found at i:43197851 original size:36 final size:38
Alignment explanation
Indices: 43197788--43197866 Score: 99
Period size: 36 Copynumber: 2.1 Consensus size: 38
43197778 TAAAGAAATA
* *
43197788 AATTTAATTAACTTATTTTCATGAAATTATAATTACTT
1 AATTAAATTAACTTATTTTCATCAAATTATAATTACTT
* * *
43197826 AATTAAATTAA-TT-TTTTCTTCAAATTTTAATTATTT
1 AATTAAATTAACTTATTTTCATCAAATTATAATTACTT
43197862 AATTA
1 AATTA
43197867 CTAGTTAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
36 24 0.67
37 2 0.06
38 10 0.28
ACGTcount: A:0.39, C:0.06, G:0.01, T:0.53
Consensus pattern (38 bp):
AATTAAATTAACTTATTTTCATCAAATTATAATTACTT
Found at i:43201366 original size:11 final size:10
Alignment explanation
Indices: 43201334--43201372 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
43201324 CTTTTATTTG
*
43201334 AAATTTTTTA
1 AAATTTATTA
*
43201344 AAAATTATTA
1 AAATTTATTA
43201354 AAATTTATCTA
1 AAATTTAT-TA
43201365 AAATTTAT
1 AAATTTAT
43201373 ATACTTTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 15 0.60
11 10 0.40
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (10 bp):
AAATTTATTA
Found at i:43202079 original size:24 final size:24
Alignment explanation
Indices: 43202051--43202102 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
43202041 TTAGTAGGTG
* *
43202051 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
43202075 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
43202099 AAAT
1 AAAT
43202103 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:43204045 original size:24 final size:24
Alignment explanation
Indices: 43204017--43204068 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
43204007 TTAGTAGGTC
* *
43204017 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
43204041 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
43204065 AAAT
1 AAAT
43204069 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:43205256 original size:30 final size:30
Alignment explanation
Indices: 43205220--43205280 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
43205210 GCGAAAGAGC
* *
43205220 ACCCCCTACATAAAATGGGAATATCTCATT
1 ACCCCCTACAAAAAATGAGAATATCTCATT
43205250 ACCCCCTACAAAAAATGAGAATATCTCATT
1 ACCCCCTACAAAAAATGAGAATATCTCATT
43205280 A
1 A
43205281 AAGTCGCTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.41, C:0.26, G:0.08, T:0.25
Consensus pattern (30 bp):
ACCCCCTACAAAAAATGAGAATATCTCATT
Found at i:43207004 original size:29 final size:27
Alignment explanation
Indices: 43206964--43207031 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
43206954 TTAGTTTTAA
*
43206964 TGTT-CAATTTGGTATCTAGTTTTTTTTT
1 TGTTCCAATTTGGTA-CTAG-ATTTTTTT
* *
43206992 TGTTCCACTTTGGTACTTGATTTTTTT
1 TGTTCCAATTTGGTACTAGATTTTTTT
43207019 TGTTCCAATTTGG
1 TGTTCCAATTTGG
43207032 CACCTAAGTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 19 0.54
28 7 0.20
29 9 0.26
ACGTcount: A:0.13, C:0.12, G:0.16, T:0.59
Consensus pattern (27 bp):
TGTTCCAATTTGGTACTAGATTTTTTT
Found at i:43208866 original size:34 final size:34
Alignment explanation
Indices: 43208823--43208889 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
43208813 TAAGATAATA
43208823 CCTTCCTGTAAACCTTATTGCTTTGGCTGTGTTT
1 CCTTCCTGTAAACCTTATTGCTTTGGCTGTGTTT
*
43208857 CCTTTCTGTAAACCTTATTGCTTTGGCTGTGTT
1 CCTTCCTGTAAACCTTATTGCTTTGGCTGTGTT
43208890 ATCGGTGTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.12, C:0.22, G:0.18, T:0.48
Consensus pattern (34 bp):
CCTTCCTGTAAACCTTATTGCTTTGGCTGTGTTT
Found at i:43214041 original size:2 final size:2
Alignment explanation
Indices: 43214034--43214060 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
43214024 TCTTCGTTTA
43214034 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
43214061 TAGGCACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:43227099 original size:6 final size:6
Alignment explanation
Indices: 43227090--43227115 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
43227080 TTCATTTTTG
43227090 TTTTAT TTTTAT TTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TT
43227116 ATTTGTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:43229639 original size:18 final size:19
Alignment explanation
Indices: 43229601--43229639 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
43229591 TGAAATTATA
*
43229601 TATAAATTTTGATTTAATG
1 TATAAATTTAGATTTAATG
*
43229620 TATAAATTTAG-TTTAGTG
1 TATAAATTTAGATTTAATG
43229638 TA
1 TA
43229640 ATTATATGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (19 bp):
TATAAATTTAGATTTAATG
Found at i:43231379 original size:22 final size:22
Alignment explanation
Indices: 43231354--43231397 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
43231344 GTTGAAGGAC
43231354 CAATAGTGAAAATATTTTAAGG
1 CAATAGTGAAAATATTTTAAGG
*
43231376 CAATAGTGTAAATATTTTAAGG
1 CAATAGTGAAAATATTTTAAGG
43231398 GTGGAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.05, G:0.18, T:0.34
Consensus pattern (22 bp):
CAATAGTGAAAATATTTTAAGG
Found at i:43231804 original size:243 final size:243
Alignment explanation
Indices: 43231376--43231830 Score: 820
Period size: 243 Copynumber: 1.9 Consensus size: 243
43231366 TATTTTAAGG
* * * *
43231376 CAATAGTGTAAATATTTTAAGGGTGGAATAATCTAGAAACTAAGGAAAATGGATGGATTGGGACC
1 CAATAGTGAAAATATTTTAAGGATGGAATAATCTAGAAACTAAGGAAAATGGATGAATTAGGACC
* * *
43231441 AAATTGAATAGATGAATAATTATGAGGGACTAAATTATAATTTTATAAAATTAAGTGATGACTCA
66 AAAATGAATAGATAAAGAATTATGAGGGACTAAATTATAATTTTATAAAATTAAGTGATGACTCA
43231506 AGGATGAAATTTTAAAAGATCATAAAGGGAAAAATGGTCAATTAGAAAGAGAGAGAGAACTCTAG
131 AGGATGAAATTTTAAAAGATCATAAAGGGAAAAATGGTCAATTAGAAAGAGAGAGAGAACTCTAG
43231571 AATGCAATGATGATATCTTAAAGTGTAAATATAAAAAAGTTGAAGGAC
196 AATGCAATGATGATATCTTAAAGTGTAAATATAAAAAAGTTGAAGGAC
* *
43231619 CAATAGTGAAAATATTTTAAGGATGGAATGATCTAGAAATTAAGGAAAATGGATGAATTAGGACC
1 CAATAGTGAAAATATTTTAAGGATGGAATAATCTAGAAACTAAGGAAAATGGATGAATTAGGACC
*
43231684 AAAATGAATAGGTAAAGAATTATGAGGGACTAAATTATAATTTTATAAAATTAAGTGATGACTCA
66 AAAATGAATAGATAAAGAATTATGAGGGACTAAATTATAATTTTATAAAATTAAGTGATGACTCA
43231749 AGGATGAAATTTTAAAAGATCATAAAGGGAAAAATGGTCAATTAGAAAGAGAGAGAGAACTCTAG
131 AGGATGAAATTTTAAAAGATCATAAAGGGAAAAATGGTCAATTAGAAAGAGAGAGAGAACTCTAG
43231814 AATGCAATGATGATATC
196 AATGCAATGATGATATC
43231831 AGAGATATTT
Statistics
Matches: 202, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
243 202 1.00
ACGTcount: A:0.46, C:0.06, G:0.21, T:0.26
Consensus pattern (243 bp):
CAATAGTGAAAATATTTTAAGGATGGAATAATCTAGAAACTAAGGAAAATGGATGAATTAGGACC
AAAATGAATAGATAAAGAATTATGAGGGACTAAATTATAATTTTATAAAATTAAGTGATGACTCA
AGGATGAAATTTTAAAAGATCATAAAGGGAAAAATGGTCAATTAGAAAGAGAGAGAGAACTCTAG
AATGCAATGATGATATCTTAAAGTGTAAATATAAAAAAGTTGAAGGAC
Found at i:43231902 original size:31 final size:32
Alignment explanation
Indices: 43231847--43231927 Score: 96
Period size: 31 Copynumber: 2.6 Consensus size: 32
43231837 ATTTTGATGA
*
43231847 TATTTTA-TAATTATTTAATTAGATA-AATAT
1 TATTTTATTAATTATTTAATGAGATATAATAT
*
43231877 TATTTTATTAA-TATTTTAATGAGATATATTAT
1 TATTTTATTAATTA-TTTAATGAGATATAATAT
*
43231909 TATTTTATTATTTTATTTA
1 TATTTTATTA-ATTATTTA
43231928 GTATATAAGG
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
30 9 0.21
31 14 0.33
32 14 0.33
33 4 0.09
34 2 0.05
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (32 bp):
TATTTTATTAATTATTTAATGAGATATAATAT
Found at i:43231920 original size:29 final size:30
Alignment explanation
Indices: 43231847--43231923 Score: 88
Period size: 29 Copynumber: 2.6 Consensus size: 30
43231837 ATTTTGATGA
* *
43231847 TATTTTATAATTA-TTTAATTAGATAAATAT
1 TATTTTATTATTATTTTAATGAGAT-AATAT
*
43231877 TATTTTATTAATATTTTAATGAGAT-ATAT
1 TATTTTATTATTATTTTAATGAGATAATAT
43231906 TATTATT-TTATTATTTTA
1 TATT-TTATTATTATTTTA
43231924 TTTAGTATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
29 18 0.44
30 13 0.32
31 10 0.24
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (30 bp):
TATTTTATTATTATTTTAATGAGATAATAT
Found at i:43233772 original size:45 final size:46
Alignment explanation
Indices: 43233705--43233792 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
43233695 ATGATGTTAC
* * * *
43233705 GTATTTAATATATTGTT-GAAAAATGGAATGTTGTTAAATTATTAT
1 GTATTTAACATATTGTTAAAAAAATGAAATATTGTTAAATTATTAT
*
43233750 GTATTTAGCATATTGTTAAAAAAATGAAATATTGTTAAATTAT
1 GTATTTAACATATTGTTAAAAAAATGAAATATTGTTAAATTAT
43233793 GAATTGAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 15 0.41
46 22 0.59
ACGTcount: A:0.41, C:0.01, G:0.14, T:0.44
Consensus pattern (46 bp):
GTATTTAACATATTGTTAAAAAAATGAAATATTGTTAAATTATTAT
Found at i:43233883 original size:24 final size:24
Alignment explanation
Indices: 43233851--43233898 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
43233841 TCATTTTGTG
43233851 GCAAAGGATGAATTGACGGCAAAT
1 GCAAAGGATGAATTGACGGCAAAT
43233875 GCAAAGGATGAATTGACGGCAAAT
1 GCAAAGGATGAATTGACGGCAAAT
43233899 TACCCAAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.12, G:0.29, T:0.17
Consensus pattern (24 bp):
GCAAAGGATGAATTGACGGCAAAT
Found at i:43234012 original size:21 final size:21
Alignment explanation
Indices: 43233988--43234054 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
43233978 ACTCATACGA
43233988 GTTTCAGTTTAACCTTTATGG
1 GTTTCAGTTTAACCTTTATGG
* * * *
43234009 GTTTCCGTTCAGCTCTTT-TGA
1 GTTTCAGTTTAAC-CTTTATGG
* * *
43234030 GCTTCAATTTAACCCTTATGG
1 GTTTCAGTTTAACCTTTATGG
43234051 GTTT
1 GTTT
43234055 TCGTTCAGCT
Statistics
Matches: 32, Mismatches: 12, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
20 3 0.09
21 25 0.78
22 4 0.12
ACGTcount: A:0.16, C:0.19, G:0.18, T:0.46
Consensus pattern (21 bp):
GTTTCAGTTTAACCTTTATGG
Found at i:43234054 original size:42 final size:42
Alignment explanation
Indices: 43233990--43234091 Score: 168
Period size: 42 Copynumber: 2.4 Consensus size: 42
43233980 TCATACGAGT
* *
43233990 TTCAGTTTAACCTTTATGGGTTTCCGTTCAGCTCTTTTGAGC
1 TTCAGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTTTAAGC
* *
43234032 TTCAATTTAACCCTTATGGGTTTTCGTTCAGCTCTTTTAAGC
1 TTCAGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTTTAAGC
43234074 TTCAGTTTAACCCTTATG
1 TTCAGTTTAACCCTTATG
43234092 TGTAACAGCC
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.45
Consensus pattern (42 bp):
TTCAGTTTAACCCTTATGGGTTTCCGTTCAGCTCTTTTAAGC
Found at i:43235469 original size:71 final size:72
Alignment explanation
Indices: 43235337--43235488 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 72
43235327 TCATTGGTGG
* * *
43235337 TGCTATGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
43235402 GAGGGGT
66 GAGGGGT
***
43235409 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
43235473 GAGGGGT
66 GAGGGGT
43235480 TGCTAAGTG
1 TGCTAAGTG
43235489 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
71 45 0.61
72 29 0.39
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:43241780 original size:49 final size:49
Alignment explanation
Indices: 43241708--43241809 Score: 195
Period size: 49 Copynumber: 2.1 Consensus size: 49
43241698 CCTATTGATG
*
43241708 TTTATATTATTGATGTTCATTTCGGTGGTTCGATTTCAAATTTTCAATA
1 TTTATATTATTGATGTTCATTTCGGTGGTTCAATTTCAAATTTTCAATA
43241757 TTTATATTATTGATGTTCATTTCGGTGGTTCAATTTCAAATTTTCAATA
1 TTTATATTATTGATGTTCATTTCGGTGGTTCAATTTCAAATTTTCAATA
43241806 TTTA
1 TTTA
43241810 AAATATGATT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.25, C:0.10, G:0.13, T:0.52
Consensus pattern (49 bp):
TTTATATTATTGATGTTCATTTCGGTGGTTCAATTTCAAATTTTCAATA
Found at i:43243508 original size:23 final size:23
Alignment explanation
Indices: 43243482--43243579 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
43243472 ATAAGTGCCA
43243482 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
43243505 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
43243528 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
43243550 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
43243573 CACTGAT
1 CACTGAT
43243580 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:43243547 original size:45 final size:45
Alignment explanation
Indices: 43243489--43243577 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
43243479 CCACACTGAT
* *
43243489 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
43243534 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
43243578 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:43246013 original size:17 final size:17
Alignment explanation
Indices: 43245991--43246026 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
43245981 GTGTTGCATG
43245991 TAATAGTTATTCTTTGA
1 TAATAGTTATTCTTTGA
43246008 TAATAGTTATTCTTTGA
1 TAATAGTTATTCTTTGA
43246025 TA
1 TA
43246027 TCACTAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.53
Consensus pattern (17 bp):
TAATAGTTATTCTTTGA
Found at i:43246958 original size:17 final size:18
Alignment explanation
Indices: 43246922--43246961 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
43246912 TATATTTTCT
* *
43246922 AAATATTAATTATTATAA
1 AAATATTAACTATAATAA
43246940 AAATATT-ACTATAATAA
1 AAATATTAACTATAATAA
43246957 AAATA
1 AAATA
43246962 ATTTCTAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
AAATATTAACTATAATAA
Found at i:43254671 original size:206 final size:205
Alignment explanation
Indices: 43254316--43254726 Score: 759
Period size: 206 Copynumber: 2.0 Consensus size: 205
43254306 GTGACTACCT
*
43254316 AAGTCTTAATATAACTGGCGTTTGCAAAAAAATCTGGTTGGGAATGCTCAAATTCATTGGATGGT
1 AAGTCTTAATATAACTGGCGTTTGCAAAAAAATCTGGTTGGCAATGCTCAAATTCATTGGATGGT
*
43254381 GAACCAGTTTTTTTGTGTAAACTTATGTTTTTCCAGCTCTCATAATGAAAAGTCTTTTCGAAAGT
66 GAACCAGTTTTTTTGTGTAAACTTATGTTTTTCCAGCTCTCAAAATGAAAAGTCTTTTCGAAAGT
*
43254446 TTATGAAGTTTCACGCTGCTAAATCCTCTACTAAAGATATAATGCAAGTTGTGGTTTCTTTATGT
131 TTATGAAGTTTCACGCTGCTAAATCCCCTACTAAAGATATAATGCAAGTTGTGGTTTCTTTATGT
43254511 TCAGTTTCTA
196 TCAGTTTCTA
*
43254521 AAGTCTTAATATAACTGGCGTTTGCGAAAAAATCTGGTTGGCAATGCTCAAATTCATTGGATGGT
1 AAGTCTTAATATAACTGGCGTTTGCAAAAAAATCTGGTTGGCAATGCTCAAATTCATTGGATGGT
* *
43254586 GAACCCGTTTTTTTTGTGTAAACTTGTGTTTTTCCAGCTCTCAAAATGAAAAGTCTTTTCGAAAG
66 GAACCAG-TTTTTTTGTGTAAACTTATGTTTTTCCAGCTCTCAAAATGAAAAGTCTTTTCGAAAG
43254651 TTTATGAAGTTTCACGCTGCTAAATCCCCTACTAAAGATATAATGCAAGTTGTGGTTTCTTTATG
130 TTTATGAAGTTTCACGCTGCTAAATCCCCTACTAAAGATATAATGCAAGTTGTGGTTTCTTTATG
43254716 TTCAGTTTCTA
195 TTCAGTTTCTA
43254727 CTTGCATATT
Statistics
Matches: 199, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
205 69 0.35
206 130 0.65
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.38
Consensus pattern (205 bp):
AAGTCTTAATATAACTGGCGTTTGCAAAAAAATCTGGTTGGCAATGCTCAAATTCATTGGATGGT
GAACCAGTTTTTTTGTGTAAACTTATGTTTTTCCAGCTCTCAAAATGAAAAGTCTTTTCGAAAGT
TTATGAAGTTTCACGCTGCTAAATCCCCTACTAAAGATATAATGCAAGTTGTGGTTTCTTTATGT
TCAGTTTCTA
Found at i:43257034 original size:39 final size:39
Alignment explanation
Indices: 43256977--43257138 Score: 227
Period size: 39 Copynumber: 4.2 Consensus size: 39
43256967 CATGCTTCCA
* * * *
43256977 CAGCAAATGCCTGTGGGCCAGATGAGTTCCATGTATCCT
1 CAGCAAATGCCAGCGGGCCAGATGGGTTCAATGTATCCT
*
43257016 CAGCAAATGCCAACGGGCCAGATGGGTTCAATGTATCCT
1 CAGCAAATGCCAGCGGGCCAGATGGGTTCAATGTATCCT
* *
43257055 CAGCAAGTGCC-GGGGGCCCAGATGGGTTCAATGTATCCT
1 CAGCAAATGCCAGCGGG-CCAGATGGGTTCAATGTATCCT
* *
43257094 CAGCAAATGCCAGCTGGCCAGATGGGTTCGATGTATCCT
1 CAGCAAATGCCAGCGGGCCAGATGGGTTCAATGTATCCT
43257133 CAGCAA
1 CAGCAA
43257139 GTGTATGGCA
Statistics
Matches: 109, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
38 3 0.03
39 103 0.94
40 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.28, T:0.22
Consensus pattern (39 bp):
CAGCAAATGCCAGCGGGCCAGATGGGTTCAATGTATCCT
Found at i:43257113 original size:78 final size:78
Alignment explanation
Indices: 43256977--43257141 Score: 251
Period size: 78 Copynumber: 2.1 Consensus size: 78
43256967 CATGCTTCCA
* * *
43256977 CAGCAAATGCCTGTGGGCCAGATGAGTTCCATGTATCCTCAGCAAATGCCAACGGGCCAGATGGG
1 CAGCAAGTGCCTGGGGGCCAGATGAGTTCAATGTATCCTCAGCAAATGCCAACGGGCCAGATGGG
43257042 TTCAATGTATCCT
66 TTCAATGTATCCT
* * *
43257055 CAGCAAGTGCC-GGGGGCCCAGATGGGTTCAATGTATCCTCAGCAAATGCCAGCTGGCCAGATGG
1 CAGCAAGTGCCTGGGGG-CCAGATGAGTTCAATGTATCCTCAGCAAATGCCAACGGGCCAGATGG
*
43257119 GTTCGATGTATCCT
65 GTTCAATGTATCCT
43257133 CAGCAAGTG
1 CAGCAAGTG
43257142 TATGGCAACC
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
77 4 0.05
78 75 0.95
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.22
Consensus pattern (78 bp):
CAGCAAGTGCCTGGGGGCCAGATGAGTTCAATGTATCCTCAGCAAATGCCAACGGGCCAGATGGG
TTCAATGTATCCT
Found at i:43257158 original size:78 final size:78
Alignment explanation
Indices: 43257002--43257158 Score: 215
Period size: 78 Copynumber: 2.0 Consensus size: 78
43256992 GGCCAGATGA
* *
43257002 GTTCCATGTATCCTCAGCAAATGCCAACGGGCCAGATGGGTTCAATGTATCCTCAGCAAGTGCCG
1 GTTCAATGTATCCTCAGCAAATGCCAACGGGCCAGATGGGTTCAATGTATCCTCAGCAAGTGCAG
*** *
43257067 GGGGCCCAGATGG
66 GGCAACCAAATGG
* * * * *
43257080 GTTCAATGTATCCTCAGCAAATGCCAGCTGGCCAGATGGGTTCGATGTATCCTCAGCAAGTGTAT
1 GTTCAATGTATCCTCAGCAAATGCCAACGGGCCAGATGGGTTCAATGTATCCTCAGCAAGTGCAG
43257145 GGCAACCAAATGG
66 GGCAACCAAATGG
43257158 G
1 G
43257159 AGCATATGGG
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
78 68 1.00
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (78 bp):
GTTCAATGTATCCTCAGCAAATGCCAACGGGCCAGATGGGTTCAATGTATCCTCAGCAAGTGCAG
GGCAACCAAATGG
Found at i:43258231 original size:135 final size:135
Alignment explanation
Indices: 43257989--43258260 Score: 535
Period size: 135 Copynumber: 2.0 Consensus size: 135
43257979 CTAAAAACAA
43257989 TGGGTTTCTTAATAACCTAGTCAAAAAGTCAGGCTATGACTATCATTCAGTTTAGTTGGTTTGGG
1 TGGGTTTCTTAATAACCTAGTCAAAAAGTCAGGCTATGACTATCATTCAGTTTAGTTGGTTTGGG
43258054 TCATAGGGACTGAGCCTAAACTGGGGATATGCATCCGATTTAGTTGGTTTGTTTCATACGGATCA
66 TCATAGGGACTGAGCCTAAACTGGGGATATGCATCCGATTTAGTTGGTTTGTTTCATACGGATCA
43258119 AATCT
131 AATCT
*
43258124 TGGGTTTCTTAATAACCTAGTCAAAAAGTCAGGCTATGACTATCATTCAGTTTAGTTGGTTTGGT
1 TGGGTTTCTTAATAACCTAGTCAAAAAGTCAGGCTATGACTATCATTCAGTTTAGTTGGTTTGGG
43258189 TCATAGGGACTGAGCCTAAACTGGGGATATGCATCCGATTTAGTTGGTTTGTTTCATACGGATCA
66 TCATAGGGACTGAGCCTAAACTGGGGATATGCATCCGATTTAGTTGGTTTGTTTCATACGGATCA
43258254 AATCT
131 AATCT
43258259 TG
1 TG
43258261 AATTGAAGTT
Statistics
Matches: 136, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
135 136 1.00
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (135 bp):
TGGGTTTCTTAATAACCTAGTCAAAAAGTCAGGCTATGACTATCATTCAGTTTAGTTGGTTTGGG
TCATAGGGACTGAGCCTAAACTGGGGATATGCATCCGATTTAGTTGGTTTGTTTCATACGGATCA
AATCT
Found at i:43265079 original size:151 final size:149
Alignment explanation
Indices: 43264876--43265475 Score: 825
Period size: 151 Copynumber: 4.0 Consensus size: 149
43264866 AAATAAATAC
* * * *
43264876 TATTTTCTAATTTTCTAATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTG
1 TATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTG
* ***
43264941 TGTTTTTAAATAAA-TTTAAAAAAATTTC-TTATTTCGGCCCTTTATTCGTATTTTT-TTGGATT
66 T-TTTTTAAATAAATTTTAAAAAAA--TCATTATTTCGGCCCTTTGTTCGTATTTTTCCCAGATT
*
43265003 TTATTACTTTGAATAAAAATATAT
128 TTATTACTTT-AA-AAAAATATAA
*
43265027 TATTTTCGT-ATTTTATTATTTTATATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACT
1 TATTTTC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACT
43265091 GTTTTTTAAATAAATTTTAAAAAAATCATTATTTCGGCCCTTTGTTCGTATTTTTCCACCAGATT
65 GTTTTTTAAATAAATTTTAAAAAAATCATTATTTCGGCCCTTTGTTCGTATTTTT-C-CCAGATT
*
43265156 TTATTACTTTTAAAAAATATAA
128 TTATTACTTTAAAAAAATATAA
43265178 TATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTG
1 TATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTG
* * *
43265243 TTTTTTAAATAAATTTTAAAAAAATCATTACTTCGGCCCCTTGTTCCTATTTTTCCACCAGATTT
66 TTTTTTAAATAAATTTTAAAAAAATCATTATTTCGGCCCTTTGTTCGTATTTTT-C-CCAGATTT
*
43265308 TATTACTTTTAAAAAATATAA
129 TATTACTTTAAAAAAATATAA
* *
43265329 TATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTG
1 TATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTA--C
* * * * *
43265394 TGTTTTTTAAATAAATTTAAAAAAAAAC-TTATTTCGG-CCTATGTTCGTATTTTTTACCGGATT
64 TGTTTTTTAAATAAATTTTAAAAAAATCATTATTTCGGCCCTTTGTTCGTA-TTTTTCCCAGATT
43265457 TTATTACTTTCAATAAAAA
128 TTATTACTTT-AA-AAAAA
43265476 ACACACTAAA
Statistics
Matches: 411, Mismatches: 26, Indels: 23
0.89 0.06 0.05
Matches are distributed among these distances:
149 2 0.00
150 55 0.13
151 294 0.72
152 20 0.05
153 40 0.10
ACGTcount: A:0.32, C:0.10, G:0.08, T:0.51
Consensus pattern (149 bp):
TATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTG
TTTTTTAAATAAATTTTAAAAAAATCATTATTTCGGCCCTTTGTTCGTATTTTTCCCAGATTTTA
TTACTTTAAAAAAATATAA
Found at i:43266786 original size:11 final size:11
Alignment explanation
Indices: 43266770--43266800 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
43266760 TACATCAAAC
*
43266770 TTTAATTTTGA
1 TTTAATTTTAA
43266781 TTTAATTTTAA
1 TTTAATTTTAA
43266792 TTTAATTTT
1 TTTAATTTT
43266801 CATATTTCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (11 bp):
TTTAATTTTAA
Found at i:43271284 original size:19 final size:17
Alignment explanation
Indices: 43271260--43271298 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
43271250 GACCTAATTC
*
43271260 AATTTTACATATAATAAAA
1 AATTTTA-AGATAA-AAAA
43271279 AATTTTAAGATAAAAAA
1 AATTTTAAGATAAAAAA
43271296 AAT
1 AAT
43271299 CCAATTAGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 5 0.26
19 7 0.37
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (17 bp):
AATTTTAAGATAAAAAA
Found at i:43271296 original size:18 final size:19
Alignment explanation
Indices: 43271260--43271297 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
43271250 GACCTAATTC
* *
43271260 AATTTTACATATAATAAAA
1 AATTTTACAGATAAAAAAA
43271279 AATTTTA-AGATAAAAAAA
1 AATTTTACAGATAAAAAAA
43271297 A
1 A
43271298 TCCAATTAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (19 bp):
AATTTTACAGATAAAAAAA
Found at i:43283033 original size:60 final size:59
Alignment explanation
Indices: 43282940--43283053 Score: 185
Period size: 60 Copynumber: 1.9 Consensus size: 59
43282930 TGGTTTTTTC
*
43282940 TTTTCTTTTTTGGTCACCCAATATGAAATGTTACAAAATGGTCA-TACAACTATTAGTAA
1 TTTTCTTTTTTGGTCACCCAATATGAAAAGTTACAAAATGGTCACT-CAACTATTAGTAA
*
43282999 TTTTCTTTTTTGGTCACTCAACTATGAAAAGTTACAAAATGGTCACTCAACTATT
1 TTTTCTTTTTTGGTCACCCAA-TATGAAAAGTTACAAAATGGTCACTCAACTATT
43283054 CAATTGTCTT
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
59 20 0.39
60 30 0.59
61 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.39
Consensus pattern (59 bp):
TTTTCTTTTTTGGTCACCCAATATGAAAAGTTACAAAATGGTCACTCAACTATTAGTAA
Found at i:43283067 original size:59 final size:58
Alignment explanation
Indices: 43282943--43283076 Score: 175
Period size: 60 Copynumber: 2.3 Consensus size: 58
43282933 TTTTTTCTTT
* * *
43282943 TCTTTTTTGGTCACCCAATATGAAATGTTACAAAATGGTCATACAACTATTAGTAATTT
1 TCTTTTTTGGTCACCCAATATGAAAAGTTACAAAATGGTCATACAACTATTA-CAATTG
*
43283002 TCTTTTTTGGTCACTCAACTATGAAAAGTTACAAAATGGTCACT-CAACTATT-CAATTG
1 TCTTTTTTGGTCACCCAA-TATGAAAAGTTACAAAATGGTCA-TACAACTATTACAATTG
*
43283060 TCTTTTTT-GCCACCCAA
1 TCTTTTTTGGTCACCCAA
43283077 CTATCTTGGC
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
57 7 0.10
58 12 0.18
59 17 0.25
60 30 0.45
61 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.38
Consensus pattern (58 bp):
TCTTTTTTGGTCACCCAATATGAAAAGTTACAAAATGGTCATACAACTATTACAATTG
Found at i:43283552 original size:20 final size:20
Alignment explanation
Indices: 43283529--43283566 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
43283519 ATGAATAGGC
43283529 ATGTTGACCAATGACGTGAA
1 ATGTTGACCAATGACGTGAA
**
43283549 ATGTTGACTGATGACGTG
1 ATGTTGACCAATGACGTG
43283567 CTAGATTGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.29
Consensus pattern (20 bp):
ATGTTGACCAATGACGTGAA
Found at i:43283962 original size:16 final size:16
Alignment explanation
Indices: 43283943--43283981 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
43283933 TCCCACGTTA
*
43283943 GGTTTTTGGATTTTAG
1 GGTTTTGGGATTTTAG
* *
43283959 GGTTTAGGGTTTTTAG
1 GGTTTTGGGATTTTAG
43283975 GGTTTTG
1 GGTTTTG
43283982 TATAAAAAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.10, C:0.00, G:0.36, T:0.54
Consensus pattern (16 bp):
GGTTTTGGGATTTTAG
Found at i:43284269 original size:125 final size:124
Alignment explanation
Indices: 43284024--43284296 Score: 413
Period size: 125 Copynumber: 2.2 Consensus size: 124
43284014 GTTTACGTGC
*
43284024 TTTTGCTACAGTAGGTCCTGAAAAAATAATTTCAAGTTGACGTTTCTGAGCAAATAGTATAAAAT
1 TTTTGCTACAGTAGGTCCTGAAAAAATAATTTCAAGTTGACGTTTCTAAGCAAATAGTATAAAAT
* * * *
43284089 CGCTTCTAGCAGGATGTTGTTTGATAAGAATTTGTGAAATCGAGGCTTCGTGGACGCGA
66 CGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGACGCTTCGTGGACGCGA
* * * * *
43284148 TTTTGCTATAGTAGGTCTTGGAAGAAATAATTTCGAGTTGACGTTTCTAAGGAAATAGTATAAAA
1 TTTTGCTACAGTAGGTCCT-GAAAAAATAATTTCAAGTTGACGTTTCTAAGCAAATAGTATAAAA
*
43284213 TCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCG-CGCTCTCGTGGACGCGC
65 TCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGACGCT-TCGTGGACGCGA
43284273 TTTTGCTACAGTAGGTCCTAGAAA
1 TTTTGCTACAGTAGGTCCT-GAAA
43284297 TTGAGAGGAA
Statistics
Matches: 132, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
124 20 0.15
125 112 0.85
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (124 bp):
TTTTGCTACAGTAGGTCCTGAAAAAATAATTTCAAGTTGACGTTTCTAAGCAAATAGTATAAAAT
CGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGACGCTTCGTGGACGCGA
Found at i:43284644 original size:20 final size:20
Alignment explanation
Indices: 43284619--43284657 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
43284609 CAAAAAGAAC
*
43284619 TTGTAAAATTTATTTAAAAA
1 TTGTAAAAATTATTTAAAAA
43284639 TTGTAAAAATTATTTAAAA
1 TTGTAAAAATTATTTAAAA
43284658 TATTAAACAA
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:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
TTGTAAAAATTATTTAAAAA
Found at i:43285424 original size:19 final size:19
Alignment explanation
Indices: 43285395--43285447 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
43285385 TTAATACTTT
*
43285395 TTTTTAC-ATTTTTTTTAA
1 TTTTTACAATTTTTTATAA
* **
43285413 TTTTTATAATTTTCAATAA
1 TTTTTACAATTTTTTATAA
43285432 TTTTTACAATTTTTTA
1 TTTTTACAATTTTTTA
43285448 GATAACTTTT
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
18 6 0.22
19 21 0.78
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTTACAATTTTTTATAA
Found at i:43285445 original size:10 final size:10
Alignment explanation
Indices: 43285379--43285447 Score: 52
Period size: 10 Copynumber: 7.0 Consensus size: 10
43285369 TAAACCGAAG
*
43285379 TAATTTTTAA
1 TAATTTTTTA
* *
43285389 TACTTTTTTT
1 TAATTTTTTA
*
43285399 TACATTTTTTT
1 TA-ATTTTTTA
43285410 TAA-TTTTTA
1 TAATTTTTTA
**
43285419 TAATTTTCAA
1 TAATTTTTTA
43285429 TAA-TTTTTA
1 TAATTTTTTA
*
43285438 CAATTTTTTA
1 TAATTTTTTA
43285448 GATAACTTTT
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
9 14 0.30
10 23 0.50
11 9 0.20
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (10 bp):
TAATTTTTTA
Found at i:43285729 original size:109 final size:108
Alignment explanation
Indices: 43285538--43285752 Score: 358
Period size: 109 Copynumber: 2.0 Consensus size: 108
43285528 CAATGATCGT
* *
43285538 TAACATACCATGCCGTTGGTCAATATGCCATGTCATTGATGACGTGACGCGTTCTCATTGGTTAA
1 TAACATACCATGCCGTTGGTCAATATGCCATGTCATTGATGACGTGACACGTTCTCATTAGTTAA
**
43285603 CTCCTTTTATTTTTAACGTAATTAATTTTTTAGCTACCGAAATA
66 CTCCTTTTATTTTTAACGTAATT-AGCTTTTAGCTACCGAAATA
* *
43285647 TAACATACCATGTCGTTGGTCAATATGCCATGTCATTGATGACGTGACACTTTCTCATTAGTTAA
1 TAACATACCATGCCGTTGGTCAATATGCCATGTCATTGATGACGTGACACGTTCTCATTAGTTAA
*
43285712 CTCCTTTTATTTTTAACGTTATTAGCTTTTAGCTACCGAAA
66 CTCCTTTTATTTTTAACGTAATTAGCTTTTAGCTACCGAAA
43285753 CAATTGTAAT
Statistics
Matches: 99, Mismatches: 7, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
108 16 0.16
109 83 0.84
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.39
Consensus pattern (108 bp):
TAACATACCATGCCGTTGGTCAATATGCCATGTCATTGATGACGTGACACGTTCTCATTAGTTAA
CTCCTTTTATTTTTAACGTAATTAGCTTTTAGCTACCGAAATA
Found at i:43286978 original size:19 final size:19
Alignment explanation
Indices: 43286951--43286988 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
43286941 AGATTATTTG
* *
43286951 AGAATAAAATTAAAGATTA
1 AGAAGAAAATTAAAAATTA
43286970 AGAAGAAAATTAAAAATTA
1 AGAAGAAAATTAAAAATTA
43286989 CGGACCTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.24
Consensus pattern (19 bp):
AGAAGAAAATTAAAAATTA
Found at i:43290922 original size:8 final size:8
Alignment explanation
Indices: 43290906--43290941 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
43290896 AATATTTAAT
43290906 AAAAT-TA
1 AAAATATA
43290913 AAAATATAA
1 AAAATAT-A
43290922 AAAATATA
1 AAAATATA
43290930 AAAATATA
1 AAAATATA
43290938 AAAA
1 AAAA
43290942 AGTATGTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 5 0.19
8 14 0.52
9 8 0.30
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (8 bp):
AAAATATA
Found at i:43290924 original size:9 final size:9
Alignment explanation
Indices: 43290912--43290942 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
43290902 TAATAAAATT
43290912 AAAAATATA
1 AAAAATATA
43290921 AAAAATAT-
1 AAAAATATA
43290929 AAAAATATA
1 AAAAATATA
43290938 AAAAA
1 AAAAA
43290943 GTATGTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAAAATATA
Found at i:43290931 original size:17 final size:16
Alignment explanation
Indices: 43290906--43290942 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 16
43290896 AATATTTAAT
43290906 AAAATTAAAAATATAA
1 AAAATTAAAAATATAA
43290922 AAAATATAAAAATATAA
1 AAAAT-TAAAAATATAA
43290939 AAAA
1 AAAA
43290943 GTATGTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAATTAAAAATATAA
Found at i:43291567 original size:19 final size:19
Alignment explanation
Indices: 43291543--43291603 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
43291533 ATTTAAAATA
43291543 ATTATATTAACAAAATTAT
1 ATTATATTAACAAAATTAT
* *
43291562 ATTATAGTTATCTAAA-TAT
1 ATTATA-TTAACAAAATTAT
* *
43291581 AATTATATTTA-AAATTTAT
1 -ATTATATTAACAAAATTAT
43291600 ATTA
1 ATTA
43291604 CATTTAATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
18 6 0.18
19 14 0.42
20 13 0.39
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (19 bp):
ATTATATTAACAAAATTAT
Found at i:43291617 original size:39 final size:39
Alignment explanation
Indices: 43291536--43291617 Score: 96
Period size: 39 Copynumber: 2.1 Consensus size: 39
43291526 AAGTTAAATT
* *
43291536 TAAA-ATAATTATATTAACAAAATTATATTATAGTTATC
1 TAAATATAATTATATTAACAAAATTATATTACAGTTATA
* * *
43291574 TAAATATAATTATATTTA-AAATTTATATTACATTTAATA
1 TAAATATAATTATATTAACAAAATTATATTACAGTT-ATA
43291613 TAAAT
1 TAAAT
43291618 TGATTTAGAG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
38 18 0.49
39 19 0.51
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (39 bp):
TAAATATAATTATATTAACAAAATTATATTACAGTTATA
Found at i:43293305 original size:53 final size:53
Alignment explanation
Indices: 43293220--43293379 Score: 284
Period size: 53 Copynumber: 3.0 Consensus size: 53
43293210 TTGATTACAT
* * * *
43293220 AGCTTATGGACATGGTCACACTGTTACCATGTATTGTTATCAATGCTCATGGC
1 AGCTTATGGATATAGTTACACTGTTACTATGTATTGTTATCAATGCTCATGGC
43293273 AGCTTATGGATATAGTTACACTGTTACTATGTATTGTTATCAATGCTCATGGC
1 AGCTTATGGATATAGTTACACTGTTACTATGTATTGTTATCAATGCTCATGGC
43293326 AGCTTATGGATATAGTTACACTGTTACTATGTATTGTTATCAATGCTCATGGC
1 AGCTTATGGATATAGTTACACTGTTACTATGTATTGTTATCAATGCTCATGGC
43293379 A
1 A
43293380 TATCTAATTG
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 103 1.00
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (53 bp):
AGCTTATGGATATAGTTACACTGTTACTATGTATTGTTATCAATGCTCATGGC
Found at i:43300409 original size:34 final size:35
Alignment explanation
Indices: 43300354--43300421 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 35
43300344 CAAACATCAG
*
43300354 AAAATATTTTCCAGTAAATCATTTTACAGAAAATT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAATT
* *
43300389 AAAACATTTTCCCG-AAATCATTTTACGGAAAAT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAT
43300422 ATTTTACTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 18 0.60
35 12 0.40
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.34
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAATT
Found at i:43301100 original size:21 final size:21
Alignment explanation
Indices: 43301076--43301119 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
43301066 TATTCAATTG
43301076 TTAGAGCACAATTTCTCAAAA
1 TTAGAGCACAATTTCTCAAAA
*
43301097 TTAGGGCACAATTTCTCAAAA
1 TTAGAGCACAATTTCTCAAAA
43301118 TT
1 TT
43301120 CCAAACATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (21 bp):
TTAGAGCACAATTTCTCAAAA
Found at i:43301410 original size:17 final size:18
Alignment explanation
Indices: 43301376--43301412 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
43301366 AACTATTTCG
43301376 ATATTTTAATAAAATGTA
1 ATATTTTAATAAAATGTA
*
43301394 ATATTTTAA-ACAATGTA
1 ATATTTTAATAAAATGTA
43301411 AT
1 AT
43301413 GCGATTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (18 bp):
ATATTTTAATAAAATGTA
Found at i:43301493 original size:11 final size:11
Alignment explanation
Indices: 43301475--43301507 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
43301465 TACACCAATG
43301475 AATAACAAACA
1 AATAACAAACA
*
43301486 ATTAACAAACA
1 AATAACAAACA
43301497 AAT-ACAAACA
1 AATAACAAACA
43301507 A
1 A
43301508 GCATAACAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 8 0.40
11 12 0.60
ACGTcount: A:0.70, C:0.18, G:0.00, T:0.12
Consensus pattern (11 bp):
AATAACAAACA
Found at i:43327718 original size:30 final size:29
Alignment explanation
Indices: 43327682--43327745 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
43327672 ATTAAACTTT
* *
43327682 AATTTTT-AAATTAGACAAATAAAATAATTA
1 AATTTTTGAAATT-GA-AAATAAAAAAAATA
*
43327712 AATTTTTGAAATTTAAAATAAAAAAAATA
1 AATTTTTGAAATTGAAAATAAAAAAAATA
43327741 AATTT
1 AATTT
43327746 CAAAAATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 17 0.57
30 8 0.27
31 5 0.17
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.38
Consensus pattern (29 bp):
AATTTTTGAAATTGAAAATAAAAAAAATA
Found at i:43332769 original size:4 final size:4
Alignment explanation
Indices: 43332760--43332792 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
43332750 TTAGTAACAA
43332760 AATT AATT AATT AATT AATT AATT AATT AATT A
1 AATT AATT AATT AATT AATT AATT AATT AATT A
43332793 GATGCATGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:43334661 original size:23 final size:23
Alignment explanation
Indices: 43334635--43334732 Score: 153
Period size: 23 Copynumber: 4.3 Consensus size: 23
43334625 ATAAGTGCCA
43334635 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
43334658 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
43334681 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
43334703 CACTGAAATGTAGCCGAAGTTAC
1 CACTGATATGTAGCCGAAGCTAC
43334726 CACTGAT
1 CACTGAT
43334733 CAATAACACT
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
22 20 0.29
23 48 0.71
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:43334700 original size:45 final size:45
Alignment explanation
Indices: 43334642--43334730 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
43334632 CCACACTGAT
* *
43334642 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
*
43334687 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGTTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
43334731 ATCAATAACA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.20
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:43337106 original size:119 final size:118
Alignment explanation
Indices: 43336896--43337128 Score: 378
Period size: 119 Copynumber: 2.0 Consensus size: 118
43336886 GCCTAGATAG
* *
43336896 TCCATCCCGTTCAAAAGAAAAAAATAAAATAAATGCATCAAATCCTACCCTATCTAGTCAAATCA
1 TCCATCCCGTTCAAAAGAAAAAAATAAAATAAATGCAACAAATCCTACCCTATCCAGTCAAATCA
*
43336961 AGAATAGCTGGATACCATCTATTTCTTCTTTTCATTTCCAATGCCCAGCCATA
66 AGAATAGCTGGATACCATCTAATTCTTCTTTTCATTTCCAATGCCCAGCCATA
* * * *
43337014 TCCATCCCGTTCAAAAGAATAAAATAAAAATAAATGCAACTAATCTTACCTTATCCAGTCAAATC
1 TCCATCCCGTTCAAAAGAAAAAAAT-AAAATAAATGCAACAAATCCTACCCTATCCAGTCAAATC
43337079 AAGAATAGCTGGATACCAT-TAAATTCTTCTTTTCATTTCCAATGCCCAGC
65 AAGAATAGCTGGATACCATCT-AATTCTTCTTTTCATTTCCAATGCCCAGC
43337129 ATAATGAATA
Statistics
Matches: 106, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
118 25 0.24
119 81 0.76
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.29
Consensus pattern (118 bp):
TCCATCCCGTTCAAAAGAAAAAAATAAAATAAATGCAACAAATCCTACCCTATCCAGTCAAATCA
AGAATAGCTGGATACCATCTAATTCTTCTTTTCATTTCCAATGCCCAGCCATA
Found at i:43345279 original size:21 final size:21
Alignment explanation
Indices: 43345242--43345285 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
43345232 GTTACACGTG
* *
43345242 TTGCTCAAACTTACACTCCAC
1 TTGCTCAAACGTACACTCAAC
*
43345263 TTGCTCAAACGTGCACTCAAC
1 TTGCTCAAACGTACACTCAAC
43345284 TT
1 TT
43345286 CAGGTCTGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.34, G:0.09, T:0.30
Consensus pattern (21 bp):
TTGCTCAAACGTACACTCAAC
Found at i:43348694 original size:3 final size:3
Alignment explanation
Indices: 43348686--43348715 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
43348676 AGCTTGTATT
43348686 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
43348716 TTTATGTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:43350520 original size:15 final size:17
Alignment explanation
Indices: 43350500--43350532 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
43350490 ATCTTTTTTC
43350500 TTAAATTA-AAA-AAAA
1 TTAAATTATAAATAAAA
43350515 TTAAATTATAAATAAAA
1 TTAAATTATAAATAAAA
43350532 T
1 T
43350533 AATAAATACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 3 0.19
17 5 0.31
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TTAAATTATAAATAAAA
Found at i:43351302 original size:26 final size:25
Alignment explanation
Indices: 43351255--43351305 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
43351245 ATATTATATT
* **
43351255 TTAAATAATTTATTGATGATGTGTC
1 TTAAATAATTTATTAACAATGTGTC
43351280 TTAACATAATTTATTAACAATGTGTC
1 TTAA-ATAATTTATTAACAATGTGTC
43351306 AAATATAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.45
Consensus pattern (25 bp):
TTAAATAATTTATTAACAATGTGTC
Found at i:43351448 original size:13 final size:13
Alignment explanation
Indices: 43351430--43351455 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43351420 TACAATTATA
43351430 ATAAAAATAATAT
1 ATAAAAATAATAT
43351443 ATAAAAATAATAT
1 ATAAAAATAATAT
43351456 GATGATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
ATAAAAATAATAT
Found at i:43352918 original size:16 final size:18
Alignment explanation
Indices: 43352899--43352931 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
43352889 TAATATTGGT
43352899 TTTAAA-TAA-AAAATAA
1 TTTAAAGTAATAAAATAA
43352915 TTTAAAGTAATAAAATA
1 TTTAAAGTAATAAAATA
43352932 GTGTTTATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 3 0.20
18 6 0.40
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (18 bp):
TTTAAAGTAATAAAATAA
Found at i:43357337 original size:15 final size:16
Alignment explanation
Indices: 43357307--43357341 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
43357297 ACTGGTTTTC
*
43357307 TTTATTTTCTAATATT
1 TTTATTTTCAAATATT
43357323 TTTATTTT-AAATATT
1 TTTATTTTCAAATATT
43357338 TTTA
1 TTTA
43357342 ATAAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTATTTTCAAATATT
Found at i:43367428 original size:9 final size:9
Alignment explanation
Indices: 43367412--43367455 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
43367402 TTAATTGAGA
43367412 AATTAATTT
1 AATTAATTT
*
43367421 AGTTAATTT
1 AATTAATTT
*
43367430 AATTAGTTT
1 AATTAATTT
*
43367439 AATTAATTA
1 AATTAATTT
43367448 AATTAATT
1 AATTAATT
43367456 GAATAAATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (9 bp):
AATTAATTT
Done.