Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 40 of 199
Found at i:11369408 original size:13 final size:13
Alignment explanation
Indices: 11369366--11369402 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
11369356 ACAAAGCTGA
11369366 ATAAGATTAAATC
1 ATAAGATTAAATC
11369379 ATAAGATTAAATC
1 ATAAGATTAAATC
11369392 ATAAGATTAAA
1 ATAAGATTAAA
11369403 ATATAACTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.57, C:0.05, G:0.08, T:0.30
Consensus pattern (13 bp):
ATAAGATTAAATC
Found at i:11371204 original size:39 final size:40
Alignment explanation
Indices: 11371045--11371224 Score: 186
Period size: 40 Copynumber: 4.5 Consensus size: 40
11371035 AGTTATTGTA
* **
11371045 TGAATTCACATACATGCTATTGTTTGTACTTTGGTACCCC
1 TGAATGCACATACATGCTCCTGTTTGTACTTTGGTACCCC
* * *
11371085 TGAATGCACAAACGTGCCCCTGTTTGTACTTTGGTACCCC
1 TGAATGCACATACATGCTCCTGTTTGTACTTTGGTACCCC
* * * * **
11371125 TAAATGCACATACGTGC-CCTTGTTTGTAC-TTCGAATTCC
1 TGAATGCACATACATGCTCC-TGTTTGTACTTTGGTACCCC
* *
11371164 TGAATGCACATACATGCTCCTATTT-TACTTTGGTACTCC
1 TGAATGCACATACATGCTCCTGTTTGTACTTTGGTACCCC
* *
11371203 TGAAGGCATATACATGCTCCTG
1 TGAATGCACATACATGCTCCTG
11371225 AGTTTATTCT
Statistics
Matches: 116, Mismatches: 21, Indels: 7
0.81 0.15 0.05
Matches are distributed among these distances:
38 3 0.03
39 53 0.46
40 60 0.52
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.35
Consensus pattern (40 bp):
TGAATGCACATACATGCTCCTGTTTGTACTTTGGTACCCC
Found at i:11372057 original size:54 final size:54
Alignment explanation
Indices: 11371954--11372057 Score: 122
Period size: 54 Copynumber: 1.9 Consensus size: 54
11371944 CTAGTGTTTT
* *
11371954 AAGTCAATGAGTTACACGGACTGTCACACAGCCTGGCACACGGCAGTGTGTGGC
1 AAGTCAATGAGTTACACGGACTGGCACACAGCCTGGCACACGACAGTGTGTGGC
* * * *
11372008 AAGTCAGA-GAGTTACATGGCCTGGCACACAGTCT-GCGACACGACTGTGTG
1 AAGTCA-ATGAGTTACACGGACTGGCACACAGCCTGGC-ACACGACAGTGTG
11372058 ACCCTACTCA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
53 2 0.05
54 39 0.93
55 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.30, T:0.19
Consensus pattern (54 bp):
AAGTCAATGAGTTACACGGACTGGCACACAGCCTGGCACACGACAGTGTGTGGC
Found at i:11377344 original size:15 final size:16
Alignment explanation
Indices: 11377312--11377346 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
11377302 ATTATCATTC
11377312 CAAGCCCTCCACTTTT
1 CAAGCCCTCCACTTTT
*
11377328 CAAGCCTTCCA-TTTT
1 CAAGCCCTCCACTTTT
11377343 CAAG
1 CAAG
11377347 AACCTAGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.23, C:0.37, G:0.09, T:0.31
Consensus pattern (16 bp):
CAAGCCCTCCACTTTT
Found at i:11380568 original size:2 final size:2
Alignment explanation
Indices: 11380561--11380588 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11380551 ACATATCTAC
11380561 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
11380589 TGGAAGGACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:11382220 original size:6 final size:6
Alignment explanation
Indices: 11382201--11382239 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
11382191 TATAAATGAA
*
11382201 TTCATT TCTCATT TTCATT TTCATT TTCATT TCCATT TT
1 TTCATT T-TCATT TTCATT TTCATT TTCATT TTCATT TT
11382240 GAAAAAACCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.64
Consensus pattern (6 bp):
TTCATT
Found at i:11382343 original size:58 final size:56
Alignment explanation
Indices: 11382212--11382351 Score: 146
Period size: 57 Copynumber: 2.5 Consensus size: 56
11382202 TCATTTCTCA
*
11382212 TTTT-CATTT-TCATTTTCATTTCCATTTTGAAAAAACCAAATTCATTTCCAAATG
1 TTTTCCATTTCTCATTTTCATTTTCATTTTGAAAAAACCAAATTCATTTCCAAATG
* * *
11382266 -ATTCCATTTTCTCCATTTTCATTTTCATTTTGGAGAAAACCATAA-TCATTTCCTGAATG
1 TTTTCCA-TTTCT-CATTTTCATTTTCATTTT-GAAAAAACCA-AATTCATTTCC-AAATG
* *
11382325 TTTTCCATTTCTCTTTTTC-TATTCATT
1 TTTTCCATTTCTCATTTTCATTTTCATT
11382352 CTGTTCATTT
Statistics
Matches: 71, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
53 2 0.03
54 2 0.03
55 3 0.04
56 1 0.01
57 24 0.34
58 23 0.32
59 11 0.15
60 5 0.07
ACGTcount: A:0.26, C:0.20, G:0.05, T:0.49
Consensus pattern (56 bp):
TTTTCCATTTCTCATTTTCATTTTCATTTTGAAAAAACCAAATTCATTTCCAAATG
Found at i:11394132 original size:33 final size:34
Alignment explanation
Indices: 11394078--11394160 Score: 116
Period size: 33 Copynumber: 2.5 Consensus size: 34
11394068 GACATAAAGC
* *
11394078 TTAAC-TTATAATTCAATAATTTAGATTTAATAG
1 TTAACTTTATAATTTAATAATTTAGATTTAATAA
11394111 TTAACTTTATAATTTAA-AATTTAGATTTAATAA
1 TTAACTTTATAATTTAATAATTTAGATTTAATAA
* *
11394144 TGAACTTCATAATTTAA
1 TTAACTTTATAATTTAA
11394161 GCATTAAAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
33 35 0.78
34 10 0.22
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (34 bp):
TTAACTTTATAATTTAATAATTTAGATTTAATAA
Found at i:11403260 original size:12 final size:11
Alignment explanation
Indices: 11403239--11403272 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
11403229 AATACACACA
11403239 AAAAAAAAAATG
1 AAAAAAAAAA-G
11403251 AAAAAGAAAAAG
1 AAAAA-AAAAAG
11403263 AAAAAAAAAA
1 AAAAAAAAAA
11403273 AAAGAGGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.24
12 11 0.52
13 5 0.24
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.03
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:11404448 original size:17 final size:17
Alignment explanation
Indices: 11404426--11404487 Score: 81
Period size: 17 Copynumber: 3.6 Consensus size: 17
11404416 CAAAAACTAT
11404426 GAGCTCACCAAATGTGC
1 GAGCTCACCAAATGTGC
* *
11404443 GAGCTCGCCAAATGTGG
1 GAGCTCACCAAATGTGC
*
11404460 GAGCTCACCAAGAT-CGC
1 GAGCTCACCAA-ATGTGC
11404477 GAGCTCACCAA
1 GAGCTCACCAA
11404488 CATTGTGAGC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
17 37 0.95
18 2 0.05
ACGTcount: A:0.29, C:0.31, G:0.26, T:0.15
Consensus pattern (17 bp):
GAGCTCACCAAATGTGC
Found at i:11404466 original size:34 final size:34
Alignment explanation
Indices: 11404426--11404519 Score: 95
Period size: 34 Copynumber: 2.8 Consensus size: 34
11404416 CAAAAACTAT
* *
11404426 GAGCTCACCAA-ATGTGCGAGCTCGCCAA-ATGTGG
1 GAGCTCACCAAGAT-CGCGAGCTCACCAACAT-TGG
*
11404460 GAGCTCACCAAGATCGCGAGCTCACCAACATTGT
1 GAGCTCACCAAGATCGCGAGCTCACCAACATTGG
* *
11404494 GAGCTTACCAAGCAT-GAGAGCTCACC
1 GAGCTCACCAAG-ATCGCGAGCTCACC
11404520 TGCGAGCTCT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
34 46 0.88
35 6 0.12
ACGTcount: A:0.29, C:0.30, G:0.24, T:0.17
Consensus pattern (34 bp):
GAGCTCACCAAGATCGCGAGCTCACCAACATTGG
Found at i:11404497 original size:17 final size:16
Alignment explanation
Indices: 11404426--11404504 Score: 77
Period size: 17 Copynumber: 4.7 Consensus size: 16
11404416 CAAAAACTAT
11404426 GAGCTCACCAAATGTGC
1 GAGCTCACCAAAT-TGC
* *
11404443 GAGCTCGCCAAATGTGG
1 GAGCTCACCAAAT-TGC
*
11404460 GAGCTCACCAAGATCGC
1 GAGCTCACCAA-ATTGC
*
11404477 GAGCTCACCAACATTGT
1 GAGCTCACCAA-ATTGC
*
11404494 GAGCTTACCAA
1 GAGCTCACCAA
11404505 GCATGAGAGC
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
17 50 0.96
18 2 0.04
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.18
Consensus pattern (16 bp):
GAGCTCACCAAATTGC
Found at i:11408742 original size:16 final size:17
Alignment explanation
Indices: 11408721--11408754 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
11408711 AAGCATGTCC
11408721 ATAGCTAGCCATT-CCA
1 ATAGCTAGCCATTACCA
*
11408737 ATAGCTAGTCATTACCA
1 ATAGCTAGCCATTACCA
11408754 A
1 A
11408755 ATATTTACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.26
Consensus pattern (17 bp):
ATAGCTAGCCATTACCA
Found at i:11411574 original size:17 final size:18
Alignment explanation
Indices: 11411552--11411699 Score: 77
Period size: 17 Copynumber: 8.8 Consensus size: 18
11411542 AACTGCGAAT
* *
11411552 TGCGAGCTCCCCAAATG-
1 TGCGAGCTCACCAAAAGA
11411569 TGCGAGCTCACCAAAAGA
1 TGCGAGCTCACCAAAAGA
*
11411587 TGCGAGCTCACC--ATGA
1 TGCGAGCTCACCAAAAGA
* *
11411603 CTACGAGCTCACC-AGA-A
1 -TGCGAGCTCACCAAAAGA
* *
11411620 T---AACTCACCAAAAAA
1 TGCGAGCTCACCAAAAGA
** *
11411635 TATGAGCTCACCAAATG-
1 TGCGAGCTCACCAAAAGA
11411652 TGCGAGCTCACC--AAGA
1 TGCGAGCTCACCAAAAGA
* * *
11411668 TCGCGAGCTTACCAACA-C
1 T-GCGAGCTCACCAAAAGA
11411686 TGCGAGCTCACCAA
1 TGCGAGCTCACCAA
11411700 GCATGGGAGT
Statistics
Matches: 101, Mismatches: 18, Indels: 24
0.71 0.13 0.17
Matches are distributed among these distances:
13 7 0.07
14 2 0.02
15 4 0.04
16 5 0.05
17 59 0.58
18 23 0.23
19 1 0.01
ACGTcount: A:0.34, C:0.32, G:0.19, T:0.16
Consensus pattern (18 bp):
TGCGAGCTCACCAAAAGA
Found at i:11415070 original size:34 final size:34
Alignment explanation
Indices: 11415032--11415099 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
11415022 AAATGGTTGT
11415032 GGTTCACAATCTGGGGATAGCAGAGCTTTCCAAA
1 GGTTCACAATCTGGGGATAGCAGAGCTTTCCAAA
11415066 GGTTCACAATCTGGGGATAGCAGAGCTTTCCAAA
1 GGTTCACAATCTGGGGATAGCAGAGCTTTCCAAA
11415100 CAACGAATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (34 bp):
GGTTCACAATCTGGGGATAGCAGAGCTTTCCAAA
Found at i:11419261 original size:54 final size:54
Alignment explanation
Indices: 11419202--11419317 Score: 144
Period size: 54 Copynumber: 2.1 Consensus size: 54
11419192 TACTCAGTGA
* * * * *
11419202 GTTACACGGGC-AGAGACATGGGCTGGGACATGGCTGTGTGTCTCTAGTTCGAAT
1 GTTACACGGGCAAG-GACACGGACTGGGACACGACTGTGTGTCCCTAGTTCGAAT
* * *
11419256 GTTACACGGGCAAGGACACGGACTGGGACACGACTGTGTGTCCCTATTTTGATT
1 GTTACACGGGCAAGGACACGGACTGGGACACGACTGTGTGTCCCTAGTTCGAAT
11419310 GTTACACG
1 GTTACACG
11419318 ACCTAATGCA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 51 0.96
55 2 0.04
ACGTcount: A:0.22, C:0.21, G:0.32, T:0.26
Consensus pattern (54 bp):
GTTACACGGGCAAGGACACGGACTGGGACACGACTGTGTGTCCCTAGTTCGAAT
Found at i:11443211 original size:9 final size:10
Alignment explanation
Indices: 11443188--11443213 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
11443178 TACTATTTAA
11443188 AAAAAATAAT
1 AAAAAATAAT
11443198 AAAAAATAAT
1 AAAAAATAAT
11443208 AAAAAA
1 AAAAAA
11443214 ATCCAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (10 bp):
AAAAAATAAT
Found at i:11444238 original size:44 final size:44
Alignment explanation
Indices: 11444190--11444292 Score: 111
Period size: 44 Copynumber: 2.3 Consensus size: 44
11444180 ACTCTACCGT
*
11444190 AACTTTAGGG-GATGAGGTTTGTGGTT-TTTAATCCGCTCCACTGC
1 AACTTTAGGGAGAT-AGGATTG-GGTTCTTTAATCCGCTCCACTGC
* ** *
11444234 AACTTTAGGGAGATAGGATTGGTTTCTTTTGTCTGCTCCACTGC
1 AACTTTAGGGAGATAGGATTGGGTTCTTTAATCCGCTCCACTGC
* *
11444278 AACTTCAGAGAGATA
1 AACTTTAGGGAGATA
11444293 AGATCTGAGC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
43 3 0.06
44 44 0.88
45 3 0.06
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.35
Consensus pattern (44 bp):
AACTTTAGGGAGATAGGATTGGGTTCTTTAATCCGCTCCACTGC
Found at i:11444336 original size:43 final size:42
Alignment explanation
Indices: 11444287--11444557 Score: 169
Period size: 43 Copynumber: 6.3 Consensus size: 42
11444277 CAACTTCAGA
11444287 GAGATAAGATCTGAGCTTTCGATCTACTCCACTACTGCTTAGG
1 GAGATAAGAT-TGAGCTTTCGATCTACTCCACTACTGCTTAGG
* * * *
11444330 GAGATAAGATCT-A-CAATCTTCGACCTACTCCGCTGCTGCTCAGG
1 GAGATAAGAT-TGAGC--T-TTCGATCTACTCCACTACTGCTTAGG
* * *
11444374 GAGATAAG--GGTGCTTTCGATCTGCTCCACTACTG-TGTAGG
1 GAGATAAGATTGAGCTTTCGATCTACTCCACTACTGCT-TAGG
* * * * * * *
11444414 GAGATAAGATCTACAATCTTT-AACCTACTCCGCTGCTGCTCAGG
1 GAGATAAGAT-T--GAGCTTTCGATCTACTCCACTACTGCTTAGG
* * * * *
11444458 GAGATAAGGTTGGTGCTTTCGATCTGCTCCACTACTGTTTAGA
1 GAGATAAGATT-GAGCTTTCGATCTACTCCACTACTGCTTAGG
* ** *
11444501 GAGATAAGATT-AGTTTCTTCTTTCTGCTCCACTACTGCTTAGG
1 GAGATAAGATTGAG-CT-TTCGATCTACTCCACTACTGCTTAGG
11444544 GAGATAAGACTTGA
1 GAGATAAGA-TTGA
11444558 TGCGATCTGC
Statistics
Matches: 170, Mismatches: 41, Indels: 32
0.70 0.17 0.13
Matches are distributed among these distances:
39 1 0.01
40 27 0.16
41 3 0.02
42 6 0.04
43 71 0.42
44 56 0.33
45 6 0.04
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.31
Consensus pattern (42 bp):
GAGATAAGATTGAGCTTTCGATCTACTCCACTACTGCTTAGG
Found at i:11444352 original size:44 final size:44
Alignment explanation
Indices: 11444304--11444767 Score: 220
Period size: 44 Copynumber: 10.8 Consensus size: 44
11444294 GATCTGAGCT
*
11444304 TTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC
* * * * * ** *
11444348 TTCGACCTACTCCGCTGCTGCTCAGGGAGATAAG-GGTGC--T-
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC
11444388 TTCGATCTGCTCCACTACTG-TGTAGGGAGATAAGATCTACAATC
1 TTCGATCTGCTCCACTACTGCT-TAGGGAGATAAGATCTACAATC
** * * * * * * **
11444432 TTTAACCTACTCCGCTGCTGCTCAGGGAGATAAGGT-T--GGTGC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT-C
* * ***
11444474 TTTCGATCTGCTCCACTACTGTTTAGAGAGATAAGAT-TAGTTTC
1 -TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC
** **
11444518 TTCTTTCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGA--
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC
* * * *** **
11444558 TGCGATCTGCTCTACTGCAATTTAGACAGATAAGATCTACAATC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC
* * * * * *****
11444602 TTCAACCTACTCTACTACTGCTTAGGGAGATAAG-GCTGGTGGC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC
** * * * * * **
11444645 TTAAATCTGTTTCACTACTACCTTAGGAAGATAAGAT-TCGCCGTC
1 TTCGATCTGCTCCACTACT-GCTTAGGGAGATAAGATCT-ACAATC
* * *
11444690 TTCGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTGCAATC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC
** * *
11444734 TTTAACCTACTCCACTACTGCTTAGGGAGATAAG
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAG
11444768 GCTTGATATG
Statistics
Matches: 301, Mismatches: 100, Indels: 38
0.69 0.23 0.09
Matches are distributed among these distances:
39 1 0.00
40 52 0.17
41 6 0.02
42 2 0.01
43 79 0.26
44 140 0.47
45 21 0.07
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.30
Consensus pattern (44 bp):
TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC
Found at i:11444404 original size:84 final size:85
Alignment explanation
Indices: 11444301--11444642 Score: 338
Period size: 84 Copynumber: 4.0 Consensus size: 85
11444291 TAAGATCTGA
* *
11444301 GCTTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCGCTGC
1 GCTTTCGATCTGCTCCACTACTG-TTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGC
11444366 TGCTCAGGGAGATAA-G-GGT
65 TGCTCAGGGAGATAAGGTGGT
*
11444385 GCTTTCGATCTGCTCCACTACTGTGTAGGGAGATAAGATCTACAATCTTTAACCTACTCCGCTGC
1 GCTTTCGATCTGCTCCACTACTGT-TAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGC
11444450 TGCTCAGGGAGATAAGGTTGGT
65 TGCTCAGGGAGATAAGG-TGGT
* *** *** * * *
11444472 GCTTTCGATCTGCTCCACTACTGTTTAGAGAGATAAGAT-TAGTTTCTTCTTTCTGCTCCACTAC
1 GCTTTCGATCTGCTCCACTACTG-TTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGC
* *
11444536 TGCTTAGGGAGATAAGACT--T
65 TGCTCAGGGAGATAAG-GTGGT
* * * * ** ** *
11444556 G-ATGCGATCTGCTCTACTGCAAT-TTAGACAGATAAGATCTACAATCTTCAACCTACTCTACTA
1 GCTTTCGATCTGCTCCACT--ACTGTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTG
*
11444619 CTGCTTAGGGAGATAAGGCTGGT
64 CTGCTCAGGGAGATAAGG-TGGT
11444642 G
1 G
11444643 GCTTAAATCT
Statistics
Matches: 216, Mismatches: 30, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
83 29 0.13
84 111 0.51
85 3 0.01
86 33 0.15
87 39 0.18
88 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.31
Consensus pattern (85 bp):
GCTTTCGATCTGCTCCACTACTGTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCT
GCTCAGGGAGATAAGGTGGT
Found at i:11457589 original size:13 final size:13
Alignment explanation
Indices: 11457558--11457583 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11457548 TACAATTTAA
11457558 AAAAATAAAAAAT
1 AAAAATAAAAAAT
11457571 AAAAATAAAAAAT
1 AAAAATAAAAAAT
11457584 CCAAATTACC
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:11465662 original size:21 final size:21
Alignment explanation
Indices: 11465638--11465698 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
11465628 GCCTTATTAG
*
11465638 ATACCACAGAGGCTAACAAAA
1 ATACCACAAAGGCTAACAAAA
*
11465659 ATACCACAAAGGCCATATC-AAA
1 ATACCACAAAGG-C-TAACAAAA
*
11465681 ATACCACATAGGCTAACA
1 ATACCACAAAGGCTAACA
11465699 GAATGTCACA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
20 3 0.09
21 12 0.36
22 15 0.45
23 3 0.09
ACGTcount: A:0.49, C:0.26, G:0.11, T:0.13
Consensus pattern (21 bp):
ATACCACAAAGGCTAACAAAA
Found at i:11465697 original size:43 final size:42
Alignment explanation
Indices: 11465609--11465726 Score: 157
Period size: 42 Copynumber: 2.8 Consensus size: 42
11465599 GCCATAAAAT
* * *
11465609 CTAACAAAATGCCACAAAGGCCTTAT-TAGATACCACAGAGG
1 CTAACAAAATGCCACAAAGGCCATATCAAAATACCACAGAGG
* *
11465650 CTAACAAAAATACCACAAAGGCCATATCAAAATACCACATAGG
1 CTAAC-AAAATGCCACAAAGGCCATATCAAAATACCACAGAGG
* *
11465693 CTAACAGAATGTCACAAAGGCCATATCAAAATAC
1 CTAACAAAATGCCACAAAGGCCATATCAAAATAC
11465727 TCTATAAAGG
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
41 5 0.07
42 45 0.67
43 17 0.25
ACGTcount: A:0.47, C:0.25, G:0.13, T:0.16
Consensus pattern (42 bp):
CTAACAAAATGCCACAAAGGCCATATCAAAATACCACAGAGG
Found at i:11471781 original size:13 final size:13
Alignment explanation
Indices: 11471743--11471786 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
11471733 TGATACTCTA
*
11471743 TTTTCAAGATATG
1 TTTTAAAGATATG
* * *
11471756 TTTTTAGGTTATG
1 TTTTAAAGATATG
11471769 TTTTAAAGATATG
1 TTTTAAAGATATG
11471782 TTTTA
1 TTTTA
11471787 CACGTGCTCC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.27, C:0.02, G:0.16, T:0.55
Consensus pattern (13 bp):
TTTTAAAGATATG
Found at i:11480060 original size:20 final size:20
Alignment explanation
Indices: 11480035--11480074 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
11480025 GCAATTATAC
11480035 CAAATCAATTCATATTTCAT
1 CAAATCAATTCATATTTCAT
11480055 CAAATCAATTCATATTTCAT
1 CAAATCAATTCATATTTCAT
11480075 TTCAATCTAC
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:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (20 bp):
CAAATCAATTCATATTTCAT
Found at i:11480395 original size:42 final size:42
Alignment explanation
Indices: 11480308--11480498 Score: 134
Period size: 42 Copynumber: 4.5 Consensus size: 42
11480298 AATTATGCCA
* ** * * *
11480308 GCACATAAGTGCATCATCGGACGTATCAAAAAAAATATA-TCG
1 GCACATAAGTGCATCATTGGATATACCAAAGAAATTATACT-G
*
11480350 GCACATAAGTGCATCATTGGATATACCAAAGCAATTATACTG
1 GCACATAAGTGCATCATTGGATATACCAAAGAAATTATACTG
** * ** * **
11480392 GCACGCGAAGTGCATCATTGGATAAACTGAAGTAATTATGTTG
1 GCAC-ATAAGTGCATCATTGGATATACCAAAGAAATTATACTG
* *** *
11480435 GCACGTAAGTGCATCATCAAATATACCGAAA-AAATTATACTA
1 GCACATAAGTGCATCATTGGATATACC-AAAGAAATTATACTG
* *
11480477 GCACACACAGTGCATCAATGGA
1 GCACATA-AGTGCATCATTGGA
11480499 CAAACTGAAG
Statistics
Matches: 112, Mismatches: 33, Indels: 7
0.74 0.22 0.05
Matches are distributed among these distances:
42 65 0.58
43 47 0.42
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (42 bp):
GCACATAAGTGCATCATTGGATATACCAAAGAAATTATACTG
Found at i:11480409 original size:43 final size:42
Alignment explanation
Indices: 11480356--11480451 Score: 120
Period size: 43 Copynumber: 2.3 Consensus size: 42
11480346 ATCGGCACAT
*
11480356 AAGTGCATCATTGGATATACCAAAGCAATTATACTGGCACGCG
1 AAGTGCATCATTGGATAAACCAAAGCAATTATACTGGCACG-G
** * ** *
11480399 AAGTGCATCATTGGATAAACTGAAGTAATTATGTTGGCACGT
1 AAGTGCATCATTGGATAAACCAAAGCAATTATACTGGCACGG
11480441 AAGTGCATCAT
1 AAGTGCATCAT
11480452 CAAATATACC
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 11 0.24
43 35 0.76
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (42 bp):
AAGTGCATCATTGGATAAACCAAAGCAATTATACTGGCACGG
Found at i:11480444 original size:85 final size:85
Alignment explanation
Indices: 11480349--11480510 Score: 211
Period size: 85 Copynumber: 1.9 Consensus size: 85
11480339 AAAATATATC
*** * * * *
11480349 GGCACATAAGTGCATCATTGGATATACC-AAAGCAATTATACTGGCACGCGA-AGTGCATCATTG
1 GGCACATAAGTGCATCATCAAATATACCGAAA-AAATTATACTAGCACAC-ACAGTGCATCAATG
*
11480412 GATAAACTGAAGTAATTATGTT
64 GACAAACTGAAGTAATTATGTT
*
11480434 GGCACGTAAGTGCATCATCAAATATACCGAAAAAATTATACTAGCACACACAGTGCATCAATGGA
1 GGCACATAAGTGCATCATCAAATATACCGAAAAAATTATACTAGCACACACAGTGCATCAATGGA
11480499 CAAACTGAAGTA
66 CAAACTGAAGTA
11480511 TAGCTTGTAC
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
84 1 0.02
85 62 0.94
86 3 0.05
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (85 bp):
GGCACATAAGTGCATCATCAAATATACCGAAAAAATTATACTAGCACACACAGTGCATCAATGGA
CAAACTGAAGTAATTATGTT
Found at i:11480481 original size:127 final size:128
Alignment explanation
Indices: 11480252--11480498 Score: 282
Period size: 127 Copynumber: 1.9 Consensus size: 128
11480242 GGCAAGCTGG
** *
11480252 AGCAATTACACTGGCACGCTTAGCACATCATTGGATAAATTGAAATAATTATGCCAGCACATAAG
1 AGCAATTACACTGGCACGCGAAGCACATCATTGGATAAACTGAAATAATTATGCCAGCACATAAG
** * * * * *
11480317 TGCATCATCGGACGTATCAAAAAAAATATATCGGCACATA-AGTGCATCATTGGATATACCAA
66 TGCATCATCAAACATACCAAAAAAAATATATCAGCACACACAGTGCATCAATGGATATACCAA
* ** * *** *
11480379 AGCAATTATACTGGCACGCGAAGTGCATCATTGGATAAACTGAAGTAATTATGTTGGCACGTAAG
1 AGCAATTACACTGGCACGCGAAGCACATCATTGGATAAACTGAAATAATTATGCCAGCACATAAG
* * *
11480444 TGCATCATCAAATATACCGAAAAAATTATA-CTAGCACACACAGTGCATCAATGGA
66 TGCATCATCAAACATACCAAAAAAAATATATC-AGCACACACAGTGCATCAATGGA
11480499 CAAACTGAAG
Statistics
Matches: 97, Mismatches: 21, Indels: 3
0.80 0.17 0.02
Matches are distributed among these distances:
126 1 0.01
127 83 0.86
128 13 0.13
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (128 bp):
AGCAATTACACTGGCACGCGAAGCACATCATTGGATAAACTGAAATAATTATGCCAGCACATAAG
TGCATCATCAAACATACCAAAAAAAATATATCAGCACACACAGTGCATCAATGGATATACCAA
Found at i:11482007 original size:43 final size:42
Alignment explanation
Indices: 11481950--11482189 Score: 241
Period size: 43 Copynumber: 5.6 Consensus size: 42
11481940 CTCTAAATAT
11481950 GGTTGCTAAGTGCTGATTTCACCGTATCTTTGATTGTGAAAGG
1 GGTTGCTAAGTGCTGA-TTCACCGTATCTTTGATTGTGAAAGG
* * * ** * *
11481993 GGTTACTATGTGCTGATTCCCCGTATCACTGAATAT-AAAGG
1 GGTTGCTAAGTGCTGATTCACCGTATCTTTGATTGTGAAAGG
11482034 TGGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTGTGAAAGG
1 -GGTTGCTAAGTGCTGATT-CACCGTATCTTTGATTGTGAAAGG
* * * * ** * *
11482078 GGATGCTATGTGCTGATTCCCCATATCACTGAATAT-AAAGG
1 GGTTGCTAAGTGCTGATTCACCGTATCTTTGATTGTGAAAGG
*
11482119 TGGTTGCTAAGTGCTGATTCCACTGTATCTTTGATTGTGAAAGG
1 -GGTTGCTAAGTGCTGATT-CACCGTATCTTTGATTGTGAAAGG
* * * *
11482163 GTTTGCTATGTGTTGATTCCCCGTATC
1 GGTTGCTAAGTGCTGATTCACCGTATC
11482190 ACTGAATTTA
Statistics
Matches: 155, Mismatches: 36, Indels: 13
0.76 0.18 0.06
Matches are distributed among these distances:
41 10 0.06
42 66 0.43
43 69 0.45
44 10 0.06
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCACCGTATCTTTGATTGTGAAAGG
Found at i:11482048 original size:42 final size:42
Alignment explanation
Indices: 11481908--11482215 Score: 273
Period size: 42 Copynumber: 7.3 Consensus size: 42
11481898 TTCCCCGAGG
* * * * * **
11481908 GGTTGCTAAGTGTTGATTCCCCGAATTATTGACTCTAAATAT
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGAATGTAAAGGT
* * *
11481950 GGTTGCTAAGTGCTGATTTCACCGTATCTTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGA-TTCCCCGTATCATTGAATGT-AAAGGT
* * * *
11481993 GGTTACTATGTGCTGATTCCCCGTATCACTGAATATAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGAATGTAAAGGT
* *
11482035 GGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTATCATTGAATGT-AAAGGT
* * * * *
11482078 GGATGCTATGTGCTGATTCCCCATATCACTGAATATAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGAATGTAAAGGT
* * *
11482120 GGTTGCTAAGTGCTGATTCCACTGTATCTTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTATCATTGAATGT-AAAGGT
* * * * *
11482163 GTTTGCTATGTGTTGATTCCCCGTATCACTGAAT-TTAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCATTGAATGTAAAGGT
11482204 GGTTGCTAAGTG
1 GGTTGCTAAGTG
11482216 TTGAATCCAT
Statistics
Matches: 210, Mismatches: 47, Indels: 19
0.76 0.17 0.07
Matches are distributed among these distances:
40 4 0.02
41 21 0.10
42 87 0.41
43 85 0.40
44 13 0.06
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCCCGTATCATTGAATGTAAAGGT
Found at i:11482048 original size:85 final size:85
Alignment explanation
Indices: 11481905--11482224 Score: 462
Period size: 85 Copynumber: 3.8 Consensus size: 85
11481895 AGATTCCCCG
* * * * * * * ** *
11481905 AGGGGTTGCTAAGTGTTGATTCCCCGAATTATTGACTCTAAATATGGTTGCTAAGTGCTGATTTC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
11481970 ACCGTATCTTTGATTGTGAA
66 ACCGTATCTTTGATTGTGAA
*
11481990 AGGGGTTACTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
11482055 ACCGTATCTTTGATTGTGAA
66 ACCGTATCTTTGATTGTGAA
* *
11482075 AGGGGATGCTATGTGCTGATTCCCCATATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
*
11482140 ACTGTATCTTTGATTGTGAA
66 ACCGTATCTTTGATTGTGAA
* * * * *
11482160 AGGGTTTGCTATGTGTTGATTCCCCGTATCACTGAAT-TTAAGGTGGTTGCTAAGTGTTGAATCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
11482224 A
66 A
11482225 TCGAGTAACG
Statistics
Matches: 213, Mismatches: 22, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
84 25 0.12
85 188 0.88
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (85 bp):
AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
ACCGTATCTTTGATTGTGAA
Found at i:11493163 original size:214 final size:214
Alignment explanation
Indices: 11492768--11493193 Score: 504
Period size: 214 Copynumber: 2.0 Consensus size: 214
11492758 AATATGATGT
* * * * *
11492768 TAGGAACTGCTCCTATCTCAAGTGCCCCTTAAAGAGTAGCCCCTGTATAGTTGAAGTAGTTGAAA
1 TAGGAACTACTCCTATCTCAAGTGCCCCTTAAAGAATAGCCCCTGTAGAGTTGAAGGAGTTAAAA
* * * * * * * *
11492833 ACTCAGCTGCAATAACTATTGGACAAGGGGTTCATCAGACCAAGTGTTTCACTTTGGGGTGCGCC
66 ACTCAACTACAAGAACTACTGGACAAGGGGTTCATCAGACCAAATGTTTCACCTTAGGGTGCACC
* * * * *
11492898 AATACTGTTCATTAAAAAGAATGATGGGACTCTTTGGTTATGTATTGATTACAAG-AAGCTAAA-
131 AATACTATTCATTAAAAAGAAGGATAGGACTCTTTGGTTATGTACTGATTACAAGCAA-ATAAAC
11492961 ATAGGTAACCATAAAGAACGC
195 A-AGGTAACCATAAAGAACGC
* * *
11492982 TAGGAACTACTCCTATCTCAAGTGCGCCTTATAA-AAT-GGCTCTAGTAGAGTTGAAGGAGTTAA
1 TAGGAACTACTCCTATCTCAAGTGCCCCTTA-AAGAATAGCCCCT-GTAGAGTTGAAGGAGTTAA
* * *
11493045 AAACTCAACTACAAGAACTGCTGGATAAGGGGTTCATTAGACCAAATGTTTCACCTTAGGGTGCA
64 AAACTCAACTACAAGAACTACTGGACAAGGGGTTCATCAGACCAAATGTTTCACCTTAGGGTGCA
* * * *
11493110 CCAATGCTATTCGTTAAGAAGAAGGATAGGAC-CTTTCGG-TAGTGTACTGATTACAGGCAAATA
129 CCAATACTATTCATTAAAAAGAAGGATAGGACTCTTT-GGTTA-TGTACTGATTACAAGCAAATA
11493173 AACAAGGTAACCATAAAGAAC
192 AACAAGGTAACCATAAAGAAC
11493194 AAGTATCTGT
Statistics
Matches: 178, Mismatches: 28, Indels: 12
0.82 0.13 0.06
Matches are distributed among these distances:
213 10 0.06
214 163 0.92
215 5 0.03
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (214 bp):
TAGGAACTACTCCTATCTCAAGTGCCCCTTAAAGAATAGCCCCTGTAGAGTTGAAGGAGTTAAAA
ACTCAACTACAAGAACTACTGGACAAGGGGTTCATCAGACCAAATGTTTCACCTTAGGGTGCACC
AATACTATTCATTAAAAAGAAGGATAGGACTCTTTGGTTATGTACTGATTACAAGCAAATAAACA
AGGTAACCATAAAGAACGC
Found at i:11500903 original size:14 final size:14
Alignment explanation
Indices: 11500884--11500915 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
11500874 TATACGTGCA
*
11500884 TGTGGCCTAGTAAT
1 TGTGGCCAAGTAAT
11500898 TGTGGCCAAGTAAT
1 TGTGGCCAAGTAAT
11500912 TGTG
1 TGTG
11500916 ACCCTTCAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.22, C:0.12, G:0.31, T:0.34
Consensus pattern (14 bp):
TGTGGCCAAGTAAT
Found at i:11511885 original size:2 final size:2
Alignment explanation
Indices: 11511878--11511921 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
11511868 TGTATTTTTA
11511878 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11511920 AT
1 AT
11511922 GTAAGGGTGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11518377 original size:4 final size:4
Alignment explanation
Indices: 11518368--11518393 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
11518358 AAAGAAGAAG
11518368 AAGA AAGA AAGA AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AA
11518394 TGTTATGCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:11520462 original size:20 final size:20
Alignment explanation
Indices: 11520437--11520476 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
11520427 TTAATATGAA
* *
11520437 ATTCTTTTATTTAGTATTTT
1 ATTCTTCTATTTAATATTTT
11520457 ATTCTTCTATTTAATATTTT
1 ATTCTTCTATTTAATATTTT
11520477 TTTTTACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.68
Consensus pattern (20 bp):
ATTCTTCTATTTAATATTTT
Found at i:11520981 original size:35 final size:36
Alignment explanation
Indices: 11520927--11520995 Score: 106
Period size: 35 Copynumber: 1.9 Consensus size: 36
11520917 CCATGTATAC
*
11520927 TTCATGTTATTTTTCTTTTGAA-ATTTTATAATTTT
1 TTCAAGTTATTTTTCTTTTGAATATTTTATAATTTT
11520962 TTCAAGTTATTTTAT-TTTTGAATATTTTATAATT
1 TTCAAGTTATTTT-TCTTTTGAATATTTTATAATT
11520996 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
35 19 0.61
36 12 0.39
ACGTcount: A:0.26, C:0.04, G:0.06, T:0.64
Consensus pattern (36 bp):
TTCAAGTTATTTTTCTTTTGAATATTTTATAATTTT
Found at i:11526447 original size:5 final size:5
Alignment explanation
Indices: 11526437--11526461 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11526427 GCATTGAAAC
11526437 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
11526462 CTTAGTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:11532099 original size:22 final size:19
Alignment explanation
Indices: 11532074--11532115 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
11532064 TGATAATCAT
11532074 TAATATATAATTATATCTATTA
1 TAATATAT-ATTA-AT-TATTA
11532096 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
11532115 T
1 T
11532116 CAACTTTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:11532865 original size:25 final size:24
Alignment explanation
Indices: 11532836--11532891 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 24
11532826 TTTCTCCTAA
*
11532836 ATTTTAATTTTATTTAATTATTTAAT
1 ATTTTAA-TTTATTGAATTA-TTAAT
11532862 -TTTTCAATTTATTGAATTATTAAT
1 ATTTT-AATTTATTGAATTATTAAT
11532886 ATTTTA
1 ATTTTA
11532892 TACTAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
24 6 0.22
25 19 0.70
26 2 0.07
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (24 bp):
ATTTTAATTTATTGAATTATTAAT
Found at i:11558412 original size:5 final size:5
Alignment explanation
Indices: 11558404--11558444 Score: 82
Period size: 5 Copynumber: 8.2 Consensus size: 5
11558394 GGGTTTAGTT
11558404 TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC T
1 TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC T
11558445 ATAGATTAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (5 bp):
TTCTC
Found at i:11567977 original size:13 final size:13
Alignment explanation
Indices: 11567959--11567983 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11567949 AGAAAGGTGA
11567959 TTAGGTTTCAATC
1 TTAGGTTTCAATC
11567972 TTAGGTTTCAAT
1 TTAGGTTTCAAT
11567984 TTAAAAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.12, G:0.16, T:0.48
Consensus pattern (13 bp):
TTAGGTTTCAATC
Found at i:11569347 original size:23 final size:23
Alignment explanation
Indices: 11569321--11569436 Score: 151
Period size: 23 Copynumber: 5.0 Consensus size: 23
11569311 ATTCTCTGTC
11569321 AAGCCTATGTGGCGTATTTTGTA
1 AAGCCTATGTGGCGTATTTTGTA
11569344 AAGCCTATGTGGCGTATTTTGTA
1 AAGCCTATGTGGCGTATTTTGTA
** * **
11569367 AAGCCTATGTGGCACATTCTGCC
1 AAGCCTATGTGGCGTATTTTGTA
* * *
11569390 AAGCCTGTGTGGCGTATTCTATA
1 AAGCCTATGTGGCGTATTTTGTA
*
11569413 AAGCCTATGTGGCGTATTTCGTA
1 AAGCCTATGTGGCGTATTTTGTA
11569436 A
1 A
11569437 GGTTGTACGT
Statistics
Matches: 78, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 78 1.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (23 bp):
AAGCCTATGTGGCGTATTTTGTA
Found at i:11573133 original size:27 final size:27
Alignment explanation
Indices: 11573077--11573138 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
11573067 CTCCAAAATA
* *
11573077 GGTAAAATGATCGAAATAACCCTATAG
1 GGTAAAATGATCAAAATAACCCGATAG
* *
11573104 GGTAGAATGATCAAAATACACTCGAT-G
1 GGTAAAATGATCAAAATA-ACCCGATAG
11573131 GGTAAAAT
1 GGTAAAAT
11573139 TACTGAAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 24 0.83
28 5 0.17
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.23
Consensus pattern (27 bp):
GGTAAAATGATCAAAATAACCCGATAG
Found at i:11573147 original size:27 final size:27
Alignment explanation
Indices: 11573117--11573312 Score: 184
Period size: 27 Copynumber: 7.3 Consensus size: 27
11573107 AGAATGATCA
* *
11573117 AAATACACTCGATGGGTAAAATTACTG
1 AAATACCCTCAATGGGTAAAATTACTG
* * *
11573144 AAATACCCCCAATAGGTAAAATTACCG
1 AAATACCCTCAATGGGTAAAATTACTG
*
11573171 AAATACCCCCAATGGGTAAAATTA-TCG
1 AAATACCCTCAATGGGTAAAATTACT-G
* *
11573198 AAATACCCTCAATGGATAAAATTACTA
1 AAATACCCTCAATGGGTAAAATTACTG
**
11573225 AAATACCCTTGATGGGTAAAATTA-TCG
1 AAATACCCTCAATGGGTAAAATTACT-G
* * **
11573252 AAATACCC-CTAAAGGGTAAAATAACCA
1 AAATACCCTC-AATGGGTAAAATTACTG
* * *
11573279 AAATACCCTTAATAGGT-AAATTACCG
1 AAATACCCTCAATGGGTAAAATTACTG
11573305 AAATACCC
1 AAATACCC
11573313 CTATAAGGCA
Statistics
Matches: 138, Mismatches: 25, Indels: 13
0.78 0.14 0.07
Matches are distributed among these distances:
26 16 0.12
27 121 0.88
28 1 0.01
ACGTcount: A:0.44, C:0.20, G:0.13, T:0.23
Consensus pattern (27 bp):
AAATACCCTCAATGGGTAAAATTACTG
Found at i:11573175 original size:54 final size:54
Alignment explanation
Indices: 11573077--11573313 Score: 232
Period size: 54 Copynumber: 4.4 Consensus size: 54
11573067 CTCCAAAATA
* * * * * * * *
11573077 GGTAAAATGATCGAAATA-ACCCTATAGGGTAGAATGATCAAAATACACTCGATG
1 GGTAAAATTATCGAAATACCCCCAATA-GGTAAAATTACCAAAATACCCTCAATG
* *
11573131 GGTAAAATTA-CTGAAATACCCCCAATAGGTAAAATTACCGAAATACCCCCAATG
1 GGTAAAATTATC-GAAATACCCCCAATAGGTAAAATTACCAAAATACCCTCAATG
* * **
11573185 GGTAAAATTATCGAAATACCCTCAAT-GGATAAAATTACTAAAATACCCTTGATG
1 GGTAAAATTATCGAAATACCCCCAATAGG-TAAAATTACCAAAATACCCTCAATG
* * * *
11573239 GGTAAAATTATCGAAATACCCCTAA-AGGGTAAAATAACCAAAATACCCTTAATA
1 GGTAAAATTATCGAAATACCCCCAATA-GGTAAAATTACCAAAATACCCTCAATG
*
11573293 GGT-AAATTACCGAAATACCCC
1 GGTAAAATTATCGAAATACCCC
11573314 TATAAGGCAA
Statistics
Matches: 154, Mismatches: 23, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
53 20 0.13
54 125 0.81
55 9 0.06
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.23
Consensus pattern (54 bp):
GGTAAAATTATCGAAATACCCCCAATAGGTAAAATTACCAAAATACCCTCAATG
Found at i:11573218 original size:81 final size:80
Alignment explanation
Indices: 11573073--11573313 Score: 252
Period size: 81 Copynumber: 3.0 Consensus size: 80
11573063 GAGACTCCAA
* * * * * * *
11573073 AATAGGTAAAATGATCGAAATA-ACCCTATAGGGTAGAATGATCAAAATACACTCGATGGGTAAA
1 AATAGGTAAAATTATCGAAATACCCCCAAT-GGGTAAAATAATCAAAATACCCTCAAT-GGTAAA
11573137 ATTACTGAAATACCCCC
64 ATTACTGAAATACCCCC
* * *
11573154 AATAGGTAAAATTACCGAAATACCCCCAATGGGTAAAATTATCGAAATACCCTCAATGGATAAAA
1 AATAGGTAAAATTATCGAAATACCCCCAATGGGTAAAATAATCAAAATACCCTCAATGG-TAAAA
* **
11573219 TTACTAAAATACCCTT
65 TTACTGAAATACCCCC
* * * * * *
11573235 GATGGGTAAAATTATCGAAATACCCCTAAAGGGTAAAATAACCAAAATACCCTTAATAGGT-AAA
1 AATAGGTAAAATTATCGAAATACCCCCAATGGGTAAAATAATCAAAATACCCTCAAT-GGTAAAA
*
11573299 TTACCGAAATACCCC
65 TTACTGAAATACCCC
11573314 TATAAGGCAA
Statistics
Matches: 133, Mismatches: 24, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
80 17 0.13
81 109 0.82
82 7 0.05
ACGTcount: A:0.44, C:0.19, G:0.14, T:0.23
Consensus pattern (80 bp):
AATAGGTAAAATTATCGAAATACCCCCAATGGGTAAAATAATCAAAATACCCTCAATGGTAAAAT
TACTGAAATACCCCC
Found at i:11574559 original size:9 final size:9
Alignment explanation
Indices: 11574545--11574581 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
11574535 TATAGTTTGA
11574545 TATTCGAAT
1 TATTCGAAT
11574554 TATTCGAAT
1 TATTCGAAT
*
11574563 TATTCGAGT
1 TATTCGAAT
11574572 TATTCGAAT
1 TATTCGAAT
11574581 T
1 T
11574582 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:11576712 original size:22 final size:22
Alignment explanation
Indices: 11576684--11576772 Score: 124
Period size: 22 Copynumber: 4.0 Consensus size: 22
11576674 ATTGAAGAAA
*
11576684 AAGCTCTCATGTTTCACGTACT
1 AAGCTCTCATGTTTAACGTACT
11576706 AAGCTCTCATGTTTAACGTACT
1 AAGCTCTCATGTTTAACGTACT
*
11576728 AAGCTCTCATGTTTAACGAACT
1 AAGCTCTCATGTTTAACGTACT
* * **
11576750 AAACCCTCATGGCTAACGTACT
1 AAGCTCTCATGTTTAACGTACT
11576772 A
1 A
11576773 CAATTATGCC
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 60 1.00
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.31
Consensus pattern (22 bp):
AAGCTCTCATGTTTAACGTACT
Found at i:11588324 original size:15 final size:15
Alignment explanation
Indices: 11588286--11588325 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
11588276 AGAAGAAAAT
*
11588286 GAAAGAAAACAGAGA
1 GAAAGAAAGCAGAGA
*
11588301 CAAAGGAAAGCAGAGA
1 GAAA-GAAAGCAGAGA
11588317 GAAAGAAAG
1 GAAAGAAAG
11588326 TGGAAGCTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.62, C:0.07, G:0.30, T:0.00
Consensus pattern (15 bp):
GAAAGAAAGCAGAGA
Found at i:11589284 original size:14 final size:14
Alignment explanation
Indices: 11589265--11589297 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
11589255 CAATCGAAAG
11589265 CTCTTATTCTCATT
1 CTCTTATTCTCATT
11589279 CTCTTATTCTCATT
1 CTCTTATTCTCATT
11589293 CTCTT
1 CTCTT
11589298 CTACAGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.12, C:0.30, G:0.00, T:0.58
Consensus pattern (14 bp):
CTCTTATTCTCATT
Found at i:11596732 original size:16 final size:16
Alignment explanation
Indices: 11596711--11596741 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
11596701 GCTCGTGTGA
11596711 GCAGCATTGTGTATCT
1 GCAGCATTGTGTATCT
11596727 GCAGCATTGTGTATC
1 GCAGCATTGTGTATC
11596742 CTAACATCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.35
Consensus pattern (16 bp):
GCAGCATTGTGTATCT
Found at i:11596875 original size:13 final size:13
Alignment explanation
Indices: 11596857--11596887 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
11596847 TGTGTAAATG
11596857 GAAATGGATATAT
1 GAAATGGATATAT
*
11596870 GAAATGGCTATAT
1 GAAATGGATATAT
11596883 GAAAT
1 GAAAT
11596888 TAGTCATGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.23, T:0.29
Consensus pattern (13 bp):
GAAATGGATATAT
Found at i:11602878 original size:27 final size:27
Alignment explanation
Indices: 11602848--11602924 Score: 102
Period size: 27 Copynumber: 2.9 Consensus size: 27
11602838 ACAACTCCCG
*
11602848 TGTTTATTGTCTCGAT-GAACTATCTCA
1 TGTTTAATGTCTCG-TCGAACTATCTCA
* * *
11602875 TGTTTAATGTCCCGTCAAACTATCTCG
1 TGTTTAATGTCTCGTCGAACTATCTCA
11602902 TGTTTAATGTCTCGTCGAACTAT
1 TGTTTAATGTCTCGTCGAACTAT
11602925 GAAAGGATGT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.02
27 42 0.98
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.42
Consensus pattern (27 bp):
TGTTTAATGTCTCGTCGAACTATCTCA
Found at i:11603023 original size:45 final size:45
Alignment explanation
Indices: 11602974--11603099 Score: 139
Period size: 45 Copynumber: 2.8 Consensus size: 45
11602964 TCTTGTTTAC
*
11602974 CATGATGCCATAGCATCCTTCAG-TCATGGTCTTACTAAT-TTATAT
1 CATGATGCCATAGCATCCTTCAGCT-ATGGTCTTACTAATCCT-TAT
* * *
11603019 CATGATGTCATAGCATCTTTCAGCTATGGTCTTACTTATCCTTAT
1 CATGATGCCATAGCATCCTTCAGCTATGGTCTTACTAATCCTTAT
* * ** *
11603064 CATGATGCCATAACGTTTTTCAGCTATGATCTTACT
1 CATGATGCCATAGCATCCTTCAGCTATGGTCTTACT
11603100 CATTTTTAGG
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
45 68 0.97
46 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.40
Consensus pattern (45 bp):
CATGATGCCATAGCATCCTTCAGCTATGGTCTTACTAATCCTTAT
Found at i:11604577 original size:30 final size:30
Alignment explanation
Indices: 11604543--11604600 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
11604533 TTTTGAGATG
*
11604543 TAGTTTCTCTACCT-TTTAATTTTAAAAATT
1 TAGTTTCTCAACCTATTTAA-TTTAAAAATT
* *
11604573 TAGTTTTTCAACTTATTTAATTTAAAAA
1 TAGTTTCTCAACCTATTTAATTTAAAAA
11604601 CTAAAATCCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.34, C:0.10, G:0.03, T:0.52
Consensus pattern (30 bp):
TAGTTTCTCAACCTATTTAATTTAAAAATT
Found at i:11604912 original size:21 final size:20
Alignment explanation
Indices: 11604879--11604917 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
11604869 GCCAGGTCGC
* *
11604879 ATAATTATTATCTTTAATCT
1 ATAATTATAATCTATAATCT
11604899 ATAATTTATAATCTATAAT
1 ATAA-TTATAATCTATAAT
11604918 ATAATATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (20 bp):
ATAATTATAATCTATAATCT
Found at i:11606047 original size:12 final size:12
Alignment explanation
Indices: 11606030--11606054 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11606020 CTATATTAAA
11606030 TTTTTATATTAT
1 TTTTTATATTAT
11606042 TTTTTATATTAT
1 TTTTTATATTAT
11606054 T
1 T
11606055 AAAAAAATAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTATATTAT
Found at i:11606301 original size:22 final size:22
Alignment explanation
Indices: 11606276--11606322 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
11606266 AAATGGTAGC
* *
11606276 AAAATAGTGAAAAAA-TAACAAG
1 AAAATAAT-AAAAAAGTAAAAAG
11606298 AAAATAATAAAAAAGTAAAAAG
1 AAAATAATAAAAAAGTAAAAAG
11606320 AAA
1 AAA
11606323 CAAGTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.74, C:0.02, G:0.11, T:0.13
Consensus pattern (22 bp):
AAAATAATAAAAAAGTAAAAAG
Found at i:11607711 original size:5 final size:5
Alignment explanation
Indices: 11607701--11607777 Score: 100
Period size: 5 Copynumber: 15.4 Consensus size: 5
11607691 ACACATATAC
* * * * *
11607701 CATAT CATAT CATAT CATAT CATAG CATAG CATAG CATAG CATAT CATGT
1 CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT CATAT
*
11607751 CATAT CATAT CATAT CTTAT CATAT CA
1 CATAT CATAT CATAT CATAT CATAT CA
11607778 AAAATTTTAG
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 66 1.00
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.35
Consensus pattern (5 bp):
CATAT
Found at i:11613464 original size:24 final size:23
Alignment explanation
Indices: 11613420--11613472 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
11613410 ATTTAAATGT
*
11613420 TAAAT-TT-TTTTAATATTTTAA
1 TAAATATTGTTTTAATATCTTAA
11613441 -AGAATATTGTTTTAATATACTTAA
1 TA-AATATTGTTTTAATAT-CTTAA
11613465 TAAATATT
1 TAAATATT
11613473 TTAAGGTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 1 0.04
21 3 0.12
22 2 0.08
23 9 0.35
24 10 0.38
25 1 0.04
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (23 bp):
TAAATATTGTTTTAATATCTTAA
Found at i:11613510 original size:22 final size:21
Alignment explanation
Indices: 11613485--11613528 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
11613475 AAGGTTATTT
11613485 TATTAATATAAAAAATTAATAA
1 TATTAATATAAAAAATT-ATAA
** *
11613507 TATTTTTATGAAAAATTATAA
1 TATTAATATAAAAAATTATAA
11613528 T
1 T
11613529 CTTTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
TATTAATATAAAAAATTATAA
Found at i:11627594 original size:23 final size:25
Alignment explanation
Indices: 11627551--11627596 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
11627541 AACACAAATT
*
11627551 TTAATTTGTTTATTTTTAAATAATA
1 TTAATTTGTTTATGTTTAAATAATA
11627576 TTAATTT-TTTA-GTTTAAATAA
1 TTAATTTGTTTATGTTTAAATAA
11627597 AAAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 4 0.20
25 7 0.35
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (25 bp):
TTAATTTGTTTATGTTTAAATAATA
Found at i:11628564 original size:35 final size:35
Alignment explanation
Indices: 11628514--11628603 Score: 110
Period size: 35 Copynumber: 2.6 Consensus size: 35
11628504 AATCGACTCA
* * *
11628514 AAAAAGGTTGAGATAGGCCAT-TTTATGCCAACCTT
1 AAAAAGGTTGGGATAGACC-TGTTTAAGCCAACCTT
* *
11628549 AAAAATGTTGGGATAGACCTGTTTAAGGCAACCTT
1 AAAAAGGTTGGGATAGACCTGTTTAAGCCAACCTT
*
11628584 AAAAAGGTTGGGATAAACCT
1 AAAAAGGTTGGGATAGACCT
11628604 TGTCTGAGCC
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
34 1 0.02
35 46 0.98
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (35 bp):
AAAAAGGTTGGGATAGACCTGTTTAAGCCAACCTT
Found at i:11636342 original size:19 final size:19
Alignment explanation
Indices: 11636318--11636360 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
11636308 TTTTTTAAAC
11636318 ATTTTATTACATAAAATAA
1 ATTTTATTACATAAAATAA
11636337 ATTTTATTACATAAAATAA
1 ATTTTATTACATAAAATAA
11636356 ATTTT
1 ATTTT
11636361 TAAACAACTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTTTATTACATAAAATAA
Found at i:11637936 original size:98 final size:98
Alignment explanation
Indices: 11637762--11637958 Score: 367
Period size: 98 Copynumber: 2.0 Consensus size: 98
11637752 ATGTAAGGCA
*
11637762 AATGGCCAACTTTAAACTAAGACCTCATTCAATGGAGATCCACACAAGCCAATAATAAGATTATG
1 AATGACCAACTTTAAACTAAGACCTCATTCAATGGAGATCCACACAAGCCAATAATAAGATTATG
*
11637827 TACATGACAAGAAAAAGAATTCACACATTCCAC
66 TACATGACAAGAAAAAGAATGCACACATTCCAC
11637860 AATGACCAACTTTAAACTAAGACCTCATTCAATGGAGATCCACACAAGCCAATAATAAGATTATG
1 AATGACCAACTTTAAACTAAGACCTCATTCAATGGAGATCCACACAAGCCAATAATAAGATTATG
*
11637925 TACATGACAAGAAAAAGAATGCACATATTCCAC
66 TACATGACAAGAAAAAGAATGCACACATTCCAC
11637958 A
1 A
11637959 TTTGACGAGT
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 96 1.00
ACGTcount: A:0.45, C:0.22, G:0.12, T:0.21
Consensus pattern (98 bp):
AATGACCAACTTTAAACTAAGACCTCATTCAATGGAGATCCACACAAGCCAATAATAAGATTATG
TACATGACAAGAAAAAGAATGCACACATTCCAC
Found at i:11639920 original size:20 final size:19
Alignment explanation
Indices: 11639874--11639923 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
11639864 TAATAAAATT
* *
11639874 TTTTTTTATATATTTTTTA
1 TTTTTTTAAAAATTTTTTA
*
11639893 -TATTTTAAAAATATTTTTA
1 TTTTTTTAAAAAT-TTTTTA
11639912 TTTTTTTAAAAA
1 TTTTTTTAAAAA
11639924 AAATTGGTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 9 0.36
19 6 0.24
20 10 0.40
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTTTTAAAAATTTTTTA
Found at i:11639944 original size:21 final size:21
Alignment explanation
Indices: 11639893--11639946 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
11639883 ATATTTTTTA
* **
11639893 TATTTTAAAAATATTTTTATT
1 TATTTTAAAAAAATTGGTATT
*
11639914 T-TTTTAAAAAAAATTGGTGTT
1 TATTTT-AAAAAAATTGGTATT
11639935 TATTTTAAAAAA
1 TATTTTAAAAAA
11639947 CGGGCCGGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 4 0.15
21 19 0.70
22 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.52
Consensus pattern (21 bp):
TATTTTAAAAAAATTGGTATT
Found at i:11644573 original size:16 final size:17
Alignment explanation
Indices: 11644544--11644576 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11644534 ATTTAATGAT
*
11644544 AAAATTGAGATTTTAAA
1 AAAATTAAGATTTTAAA
11644561 AAAATTAAG-TTTTAAA
1 AAAATTAAGATTTTAAA
11644577 TGAGTCATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (17 bp):
AAAATTAAGATTTTAAA
Found at i:11648336 original size:22 final size:22
Alignment explanation
Indices: 11648280--11648337 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
11648270 ATTCGGTTAA
*
11648280 TCAGTCGGTGG-CTGAATTTAGT
1 TCAGTCGGAGGTC-GAATTTAGT
* * *
11648302 TTAGTTGGTGGTCGAATTTAGT
1 TCAGTCGGAGGTCGAATTTAGT
*
11648324 TCGGTCGGAGGTCG
1 TCAGTCGGAGGTCG
11648338 GTTAATGATA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
22 28 0.97
23 1 0.03
ACGTcount: A:0.16, C:0.12, G:0.36, T:0.36
Consensus pattern (22 bp):
TCAGTCGGAGGTCGAATTTAGT
Found at i:11656440 original size:15 final size:15
Alignment explanation
Indices: 11656398--11656430 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
11656388 CATAAATTAT
11656398 ATTATTTTCATGTTA
1 ATTATTTTCATGTTA
11656413 ATTATTTTCATGTTA
1 ATTATTTTCATGTTA
11656428 ATT
1 ATT
11656431 TTTATTATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.27, C:0.06, G:0.06, T:0.61
Consensus pattern (15 bp):
ATTATTTTCATGTTA
Found at i:11666519 original size:3 final size:3
Alignment explanation
Indices: 11666466--11666503 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
11666456 TTTATAATAC
* *
11666466 TAT TAT TAT TAT TAT TAT TGT TAT TAT TAC TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
11666504 ATATAGGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:11666581 original size:20 final size:20
Alignment explanation
Indices: 11666558--11666628 Score: 70
Period size: 20 Copynumber: 3.2 Consensus size: 20
11666548 TTTATTTTAC
11666558 ATTATTTTATTTTATTATGT
1 ATTATTTTATTTTATTATGT
*
11666578 ATTATTTTGTAATGCTTTTATCATGT
1 ATTA-TTT-T-A---TTTTATTATGT
*
11666604 ATTATTTTATTTTATTATGC
1 ATTATTTTATTTTATTATGT
11666624 ATTAT
1 ATTAT
11666629 CTTAAATATT
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
20 18 0.43
21 3 0.07
22 1 0.02
23 2 0.05
24 1 0.02
25 3 0.07
26 14 0.33
ACGTcount: A:0.25, C:0.04, G:0.07, T:0.63
Consensus pattern (20 bp):
ATTATTTTATTTTATTATGT
Found at i:11670964 original size:40 final size:39
Alignment explanation
Indices: 11670920--11671213 Score: 210
Period size: 40 Copynumber: 7.7 Consensus size: 39
11670910 TTTGGTGGCC
* *
11670920 TTAGCGACGCTTTAATAAAAACGCCGCTATAGATCAAGCA
1 TTAGCGGCGCTTT-TTAAAAACGCCGCTATAGATCAAGCA
11670960 TTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCAAGCA
1 TTAGCGGCGCTTTTT-AAAAACGCCGCTATAGATCAAGCA
11671000 TTAGCGGCGCTTTTTAAAAAGCGCCGCTATAGA-CAGAGCA
1 TTAGCGGCGCTTTTTAAAAA-CGCCGCTATAGATCA-AGCA
* * *
11671040 TTAGCGGCGGTTTTTCAAAAAACGCCGCGA-A-A--AA-AA
1 TTAGCGGCGCTTTTT--AAAAACGCCGCTATAGATCAAGCA
** ** * * * *
11671076 TTTAGCACAACGC-CATT------G-AGCT-TTGGT--GGCA
1 -TTAG--CGGCGCTTTTTAAAAACGCCGCTATAGATCAAGCA
* *
11671107 TTAGCGGCGCTTTTGAAAATCGCCGCTATAGATCAAGCA
1 TTAGCGGCGCTTTTTAAAAACGCCGCTATAGATCAAGCA
11671146 TTAGCGGCGCTTTTTAAAAAGCGCCGCTATAGA-CAGAGCA
1 TTAGCGGCGCTTTTTAAAAA-CGCCGCTATAGATCA-AGCA
11671186 TTAGCGGCGCTTTTTTAAAAAACGCCGC
1 TTAGCGGCGC-TTTTT-AAAAACGCCGC
11671214 AAAAATTATT
Statistics
Matches: 200, Mismatches: 27, Indels: 53
0.71 0.10 0.19
Matches are distributed among these distances:
28 4 0.02
29 3 0.01
30 5 0.03
31 1 0.00
35 1 0.00
36 4 0.02
37 8 0.04
38 3 0.01
39 35 0.17
40 108 0.54
41 18 0.09
42 10 0.05
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (39 bp):
TTAGCGGCGCTTTTTAAAAACGCCGCTATAGATCAAGCA
Found at i:11671287 original size:23 final size:21
Alignment explanation
Indices: 11671251--11671294 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
11671241 GCGGTTTTAT
11671251 CCCCTATCTTTCCCCCCTAAAA
1 CCCCTATCTTT-CCCCCTAAAA
*
11671273 CCCCTAATTTTTCCCCCTAAAA
1 CCCCT-ATCTTTCCCCCTAAAA
11671295 TCGGGATGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.25, C:0.45, G:0.00, T:0.30
Consensus pattern (21 bp):
CCCCTATCTTTCCCCCTAAAA
Found at i:11675099 original size:37 final size:37
Alignment explanation
Indices: 11675056--11675135 Score: 142
Period size: 37 Copynumber: 2.2 Consensus size: 37
11675046 ATCTAAATCC
*
11675056 AAATTCTCAAATTCATATTTCCAAACATAGCATTAGG
1 AAATTCTCAAATTCATATTTCCAAACATAACATTAGG
*
11675093 AAATTCTCAAATTTATATTTCCAAACATAACATTAGG
1 AAATTCTCAAATTCATATTTCCAAACATAACATTAGG
11675130 AAATTC
1 AAATTC
11675136 ATATTTCTGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.34
Consensus pattern (37 bp):
AAATTCTCAAATTCATATTTCCAAACATAACATTAGG
Found at i:11675669 original size:18 final size:18
Alignment explanation
Indices: 11675646--11675705 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
11675636 TATGTATTCT
11675646 AATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
* * **
11675664 AATGTAA-AC-AATTTTCT
1 AATGTAATTCTAA-TATAG
*
11675681 TATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
11675699 AATGTAA
1 AATGTAA
11675706 CTTGTTTTAT
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 2 0.07
17 9 0.31
18 16 0.55
19 2 0.07
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (18 bp):
AATGTAATTCTAATATAG
Found at i:11675981 original size:43 final size:43
Alignment explanation
Indices: 11675880--11676127 Score: 365
Period size: 43 Copynumber: 5.8 Consensus size: 43
11675870 AAGTCATGTT
* * * *
11675880 TTTAGTGGCATTTATGGGAAAAGCGCCGCTAAAGAT-TTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* *
11675922 TTTAGCGGCGTCTGTGGGAAAAGTGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
11675965 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* * *
11676008 TTTAGCGGCGATTGCGGGAAAAGCACCGCTAAAGGT-TGTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCT-TGGTC
* * *
11676051 TTTAGTGGCGTTTGCGAGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
11676094 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
11676128 TTAGCGACGC
Statistics
Matches: 185, Mismatches: 18, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
42 31 0.17
43 153 0.83
44 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:11678051 original size:9 final size:9
Alignment explanation
Indices: 11678040--11678097 Score: 71
Period size: 9 Copynumber: 6.4 Consensus size: 9
11678030 TTTGGTTAAA
*
11678040 AATTAACCA
1 AATTAACCG
*
11678049 AATTAACCT
1 AATTAACCG
*
11678058 AATTACCCG
1 AATTAACCG
*
11678067 AATTAACTG
1 AATTAACCG
*
11678076 AATTACCCG
1 AATTAACCG
11678085 AATTAACCG
1 AATTAACCG
11678094 AATT
1 AATT
11678098 GAATCACTAC
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.43, C:0.22, G:0.07, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:11678362 original size:18 final size:18
Alignment explanation
Indices: 11678339--11678392 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
11678329 AATTTTTATT
11678339 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGGGTA
*
11678357 ATTGGGTTGGGTTGGATA
1 ATTGGGTTGGGTTGGGTA
* *
11678375 CTTGGGTTTGGATTGGGT
1 ATTGGG-TTGGGTTGGGT
11678393 TTAGGTGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 22 0.71
19 9 0.29
ACGTcount: A:0.11, C:0.02, G:0.46, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGGTA
Found at i:11685775 original size:24 final size:24
Alignment explanation
Indices: 11685727--11685780 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
11685717 TGTATAACAA
*
11685727 GAAGCTCATAAGAGCCATAATCGG
1 GAAGCTCATAAGAGCAATAATCGG
*
11685751 GAAGCTCATACGAGTCAATAA-CGG
1 GAAGCTCATAAGAG-CAATAATCGG
*
11685775 GTAGCT
1 GAAGCT
11685781 TCGAAGAGCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 21 0.81
25 5 0.19
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.19
Consensus pattern (24 bp):
GAAGCTCATAAGAGCAATAATCGG
Found at i:11689152 original size:23 final size:23
Alignment explanation
Indices: 11689105--11689154 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
11689095 CCAATGTCAT
*
11689105 TTTTATTTTTATTTTGTTATATA
1 TTTTATTTTTATTTTATTATATA
11689128 TTTTATTTTTACTTTCTATT-T-TA
1 TTTTATTTTTA-TTT-TATTATATA
11689151 TTTT
1 TTTT
11689155 CTTACATGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 17 0.71
24 4 0.17
25 3 0.12
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (23 bp):
TTTTATTTTTATTTTATTATATA
Found at i:11691517 original size:18 final size:19
Alignment explanation
Indices: 11691494--11691531 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
11691484 TTGAAAACTA
*
11691494 CTTTTCTCAACT-CTATTT
1 CTTTTCACAACTGCTATTT
*
11691512 CTTTTCACAATTGCTATTT
1 CTTTTCACAACTGCTATTT
11691531 C
1 C
11691532 AATTTATTCA
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:0.18, C:0.26, G:0.03, T:0.53
Consensus pattern (19 bp):
CTTTTCACAACTGCTATTT
Found at i:11695562 original size:87 final size:87
Alignment explanation
Indices: 11695465--11695698 Score: 405
Period size: 87 Copynumber: 2.7 Consensus size: 87
11695455 GGTTGAGTTC
* * * * *
11695465 TTACTATTAATGAATTCATAGCCAAGAGTTTGGGTGGTCCTATTGAGACAGGCTTAATGACTTCA
1 TTACTCTTAATGAGTTCATATCCTAGAATTTGGGTGGTCCTATTGAGACAGGCTTAATGACTTCA
11695530 CCGACTTGAGAGGTTGATTTTA
66 CCGACTTGAGAGGTTGATTTTA
11695552 TTACTCTTAATGAGTTCATATCCTAGAATTTGGGTGGTCCTATTGAGACAGGCTTAATGACTTCA
1 TTACTCTTAATGAGTTCATATCCTAGAATTTGGGTGGTCCTATTGAGACAGGCTTAATGACTTCA
11695617 CCGACTTGAGAGGTTGATTTTA
66 CCGACTTGAGAGGTTGATTTTA
* *
11695639 TTACTCTTAATGAGTTCATATCCTAGAATTTGGGTGGTCCTATTGAGACAAGCTTGATGA
1 TTACTCTTAATGAGTTCATATCCTAGAATTTGGGTGGTCCTATTGAGACAGGCTTAATGA
11695699 ATCACTGAAT
Statistics
Matches: 140, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 140 1.00
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.36
Consensus pattern (87 bp):
TTACTCTTAATGAGTTCATATCCTAGAATTTGGGTGGTCCTATTGAGACAGGCTTAATGACTTCA
CCGACTTGAGAGGTTGATTTTA
Found at i:11698470 original size:28 final size:28
Alignment explanation
Indices: 11698438--11698493 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
11698428 AAAATGTTCG
11698438 GACTTGTAGATCGGTAACCATGGTTTCT
1 GACTTGTAGATCGGTAACCATGGTTTCT
11698466 GACTTGTAGATCGGTAACCATGGTTTCT
1 GACTTGTAGATCGGTAACCATGGTTTCT
11698494 CCCTACCTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (28 bp):
GACTTGTAGATCGGTAACCATGGTTTCT
Found at i:11701558 original size:22 final size:22
Alignment explanation
Indices: 11701523--11701575 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
11701513 CAGGGGCTAC
* * *
11701523 ATGTCTTGAGACAAAATCCTAT
1 ATGTCTCGAAACAAAAGCCTAT
*
11701545 TTGTCTCGAAACAAAAGCCTAT
1 ATGTCTCGAAACAAAAGCCTAT
*
11701567 ATGCCTCGA
1 ATGTCTCGA
11701576 GACATGGCCT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (22 bp):
ATGTCTCGAAACAAAAGCCTAT
Found at i:11704145 original size:18 final size:16
Alignment explanation
Indices: 11704122--11704157 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
11704112 ATAGGGTTTT
11704122 TAAAAGTATATTACAAAA
1 TAAAAGT-TATTA-AAAA
11704140 TAAAAGTTATTAAAAA
1 TAAAAGTTATTAAAAA
11704156 TA
1 TA
11704158 TATTATATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 5 0.28
18 7 0.39
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.31
Consensus pattern (16 bp):
TAAAAGTTATTAAAAA
Found at i:11707329 original size:24 final size:24
Alignment explanation
Indices: 11707288--11707346 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
11707278 TTTTGCATGT
* * *
11707288 TATTGTCACATAGGGTTCGCATAC
1 TATTGACACATAAGGTTCACATAC
* *
11707312 TATTGACACATAATGTTCACATAG
1 TATTGACACATAAGGTTCACATAC
*
11707336 TATTAACACAT
1 TATTGACACAT
11707347 GGGTTTGCAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.34
Consensus pattern (24 bp):
TATTGACACATAAGGTTCACATAC
Found at i:11707456 original size:34 final size:34
Alignment explanation
Indices: 11707395--11707527 Score: 149
Period size: 34 Copynumber: 3.9 Consensus size: 34
11707385 CTTGCATACT
* * * * * *
11707395 ACCTAGGATCCGCATGACATATTGGCTCGCATAA
1 ACCTAGGGTTCGCATAATATATAGGCTCGCATAG
* *
11707429 ACCTAGGGTTTGCATAATATGTAGGCTCGCATAG
1 ACCTAGGGTTCGCATAATATATAGGCTCGCATAG
* * *
11707463 ACTTAGGGTTCGCATAACATATAGGCTCACATAG
1 ACCTAGGGTTCGCATAATATATAGGCTCGCATAG
**
11707497 ACCTAGGGTTCGCATGGTATATAGGCTCGCA
1 ACCTAGGGTTCGCATAATATATAGGCTCGCA
11707528 CAGGTAGGGC
Statistics
Matches: 81, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 81 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (34 bp):
ACCTAGGGTTCGCATAATATATAGGCTCGCATAG
Found at i:11707475 original size:17 final size:17
Alignment explanation
Indices: 11707455--11707511 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
11707445 ATATGTAGGC
11707455 TCGCATAGACTTAGGGT
1 TCGCATAGACTTAGGGT
*
11707472 TCGCATA-ACATATA-GGC
1 TCGCATAGAC-T-TAGGGT
* *
11707489 TCACATAGACCTAGGGT
1 TCGCATAGACTTAGGGT
11707506 TCGCAT
1 TCGCAT
11707512 GGTATATAGG
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
16 4 0.13
17 23 0.74
18 4 0.13
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (17 bp):
TCGCATAGACTTAGGGT
Found at i:11707788 original size:14 final size:14
Alignment explanation
Indices: 11707697--11707791 Score: 91
Period size: 14 Copynumber: 6.8 Consensus size: 14
11707687 GTGATTTTTA
*
11707697 ACTCGCATGTATTG
1 ACTCGCATATATTG
* *
11707711 ATTCGCTTATATTG
1 ACTCGCATATATTG
*
11707725 ACTCACATATATTG
1 ACTCGCATATATTG
* ** *
11707739 ACTCGTAGGTGTTG
1 ACTCGCATATATTG
*
11707753 ACTCGGATATATTG
1 ACTCGCATATATTG
*
11707767 ATTCGCATATATTG
1 ACTCGCATATATTG
*
11707781 ACTTGCATATA
1 ACTCGCATATA
11707792 CAATAGTTTA
Statistics
Matches: 62, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 62 1.00
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (14 bp):
ACTCGCATATATTG
Found at i:11709326 original size:9 final size:10
Alignment explanation
Indices: 11709306--11709409 Score: 65
Period size: 10 Copynumber: 10.7 Consensus size: 10
11709296 TCTATTCTAG
11709306 AATTAT-AAA
1 AATTATAAAA
11709315 AA-TATAAAA
1 AATTATAAAA
11709324 AATTAT-AAA
1 AATTATAAAA
* *
11709333 AATAATTAAA
1 AATTATAAAA
*
11709343 CATTAT-AAA
1 AATTATAAAA
* *
11709352 AATTATTAGA
1 AATTATAAAA
*
11709362 AATTAATTAAA
1 AATT-ATAAAA
**
11709373 AACAAT-AAA
1 AATTATAAAA
*
11709382 ATTTATAAAA
1 AATTATAAAA
*
11709392 ATTTATAAAA
1 AATTATAAAA
11709402 ATATTATA
1 A-ATTATA
11709410 TTTATATTTT
Statistics
Matches: 76, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
8 3 0.04
9 29 0.38
10 32 0.42
11 12 0.16
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.34
Consensus pattern (10 bp):
AATTATAAAA
Found at i:11709330 original size:10 final size:9
Alignment explanation
Indices: 11709306--11709403 Score: 81
Period size: 9 Copynumber: 10.3 Consensus size: 9
11709296 TCTATTCTAG
11709306 AATTATAAA
1 AATTATAAA
11709315 AA-TATAAAA
1 AATTAT-AAA
11709324 AATTATAAA
1 AATTATAAA
*
11709333 AATAATTAAA
1 AATTA-TAAA
*
11709343 CATTATAAA
1 AATTATAAA
*
11709352 AATTATTAGA
1 AATTA-TAAA
11709362 AATTAATTAAA
1 AATT-A-TAAA
**
11709373 AACAATAAA
1 AATTATAAA
*
11709382 ATTTATAAA
1 AATTATAAA
11709391 AATTTATAAA
1 AA-TTATAAA
11709401 AAT
1 AAT
11709404 ATTATATTTA
Statistics
Matches: 71, Mismatches: 12, Indels: 12
0.75 0.13 0.13
Matches are distributed among these distances:
8 3 0.04
9 34 0.48
10 27 0.38
11 7 0.10
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.33
Consensus pattern (9 bp):
AATTATAAA
Found at i:11709347 original size:19 final size:18
Alignment explanation
Indices: 11709306--11709393 Score: 81
Period size: 19 Copynumber: 4.7 Consensus size: 18
11709296 TCTATTCTAG
*
11709306 AATTATAAAAAT-ATAAAA
1 AATTATAAAAATAAT-TAA
11709324 AATTATAAAAATAATTAA
1 AATTATAAAAATAATTAA
*
11709342 ACATTATAAAAATTATTAGA
1 A-ATTATAAAAATAATTA-A
*
11709362 AATTAATTAAAAACAA-TAA
1 AATT-A-TAAAAATAATTAA
11709381 AATTTATAAAAAT
1 AA-TTATAAAAAT
11709394 TTATAAAAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
18 21 0.36
19 24 0.41
20 7 0.12
21 7 0.12
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.32
Consensus pattern (18 bp):
AATTATAAAAATAATTAA
Found at i:11709714 original size:16 final size:18
Alignment explanation
Indices: 11709681--11709721 Score: 59
Period size: 16 Copynumber: 2.3 Consensus size: 18
11709671 TTCATTGTAT
11709681 ATTTTTTTAAATAATTTTA
1 ATTTTTTTAAAT-ATTTTA
11709700 ATTTTTTT-AAT-TTTTA
1 ATTTTTTTAAATATTTTA
11709716 ATTTTT
1 ATTTTT
11709722 GTTGATGTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 11 0.50
18 3 0.14
19 8 0.36
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTTTTTAAATATTTTA
Found at i:11711635 original size:10 final size:10
Alignment explanation
Indices: 11711620--11711644 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
11711610 TGCAGGTTGA
11711620 TTTTTTTATT
1 TTTTTTTATT
11711630 TTTTTTTATT
1 TTTTTTTATT
11711640 TTTTT
1 TTTTT
11711645 GTAACAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:11716516 original size:16 final size:19
Alignment explanation
Indices: 11716496--11716538 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 19
11716486 ATTTAATATT
11716496 GAAAAAATG-AAAA-AGAA
1 GAAAAAATGTAAAAGAGAA
*
11716513 -AAAAAACGTAAAAGAGAA
1 GAAAAAATGTAAAAGAGAA
11716531 GAAAAAAT
1 GAAAAAAT
11716539 AAATAATTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
16 7 0.33
17 4 0.19
18 4 0.19
19 6 0.29
ACGTcount: A:0.74, C:0.02, G:0.16, T:0.07
Consensus pattern (19 bp):
GAAAAAATGTAAAAGAGAA
Found at i:11716663 original size:18 final size:20
Alignment explanation
Indices: 11716640--11716685 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
11716630 TATCTTAAAC
11716640 TATATTTATT-AAAA-AATA
1 TATATTTATTGAAAATAATA
* *
11716658 TATATTAATTGAAAATGATA
1 TATATTTATTGAAAATAATA
11716678 TATATTTA
1 TATATTTA
11716686 GCATAAGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 9 0.39
19 4 0.17
20 10 0.43
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (20 bp):
TATATTTATTGAAAATAATA
Found at i:11717491 original size:25 final size:24
Alignment explanation
Indices: 11717444--11717491 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
11717434 ACGTGTTTAT
*
11717444 TTTTAAAATTTATTAATTAATATC
1 TTTTAAAATTTATTAAATAATATC
11717468 TTTTATAAATTT-TTAAATATATAT
1 TTTTA-AAATTTATTAAATA-ATAT
11717492 ATTTGTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (24 bp):
TTTTAAAATTTATTAAATAATATC
Found at i:11721816 original size:28 final size:28
Alignment explanation
Indices: 11721749--11721822 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
11721739 TAGGTTTTGT
* * * *
11721749 GTTTCAAGTTTCGATTTTTGAATTTTGG
1 GTTTCAAATTTTGAGTTTTGAATTATGG
* *
11721777 ATTTCAAATTTTGAGTTTTGAGTTATGG
1 GTTTCAAATTTTGAGTTTTGAATTATGG
*
11721805 GTTTCAAATTTTGGGTTT
1 GTTTCAAATTTTGAGTTT
11721823 GATATTTTTG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.20, C:0.05, G:0.22, T:0.53
Consensus pattern (28 bp):
GTTTCAAATTTTGAGTTTTGAATTATGG
Found at i:11721830 original size:14 final size:14
Alignment explanation
Indices: 11721769--11721822 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 14
11721759 TCGATTTTTG
*
11721769 AATTTTGGATTTCA
1 AATTTTGGGTTTCA
* **
11721783 AATTTTGAGTTTTG
1 AATTTTGGGTTTCA
* *
11721797 AGTTATGGGTTTCA
1 AATTTTGGGTTTCA
11721811 AATTTTGGGTTT
1 AATTTTGGGTTT
11721823 GATATTTTTG
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.22, C:0.04, G:0.22, T:0.52
Consensus pattern (14 bp):
AATTTTGGGTTTCA
Found at i:11726350 original size:2 final size:2
Alignment explanation
Indices: 11726343--11726387 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
11726333 CGTGTATGTT
* * *
11726343 TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA TG TA TA AA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11726385 TA T
1 TA T
11726388 TTGTAAGAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
TA
Found at i:11726358 original size:18 final size:18
Alignment explanation
Indices: 11726337--11726387 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
11726327 TATGTACGTG
*
11726337 TATGTTTATATATATATA
1 TATGTATATATATATATA
11726355 TATGTATATATATATATA
1 TATGTATATATATATATA
*
11726373 TATGTATAAATATAT
1 TATGTATATATATAT
11726388 TTGTAAGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (18 bp):
TATGTATATATATATATA
Found at i:11726557 original size:2 final size:2
Alignment explanation
Indices: 11726552--11726594 Score: 77
Period size: 2 Copynumber: 21.0 Consensus size: 2
11726542 AAGTTTTTTA
11726552 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT ACT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
11726595 GTGTATAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 38 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11729165 original size:3 final size:3
Alignment explanation
Indices: 11729157--11729202 Score: 58
Period size: 3 Copynumber: 15.3 Consensus size: 3
11729147 ATATGTAGAT
* *
11729157 ATA ATA ATA ATA ATA ATA TATA AT- ATA ATA ATA AAA ATA AAA ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
11729202 A
1 A
11729203 CAAAATTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 32 0.86
4 3 0.08
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:11729674 original size:22 final size:23
Alignment explanation
Indices: 11729633--11729677 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
11729623 AAATTAAATC
*
11729633 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTACAAAACCATATCT
*
11729656 TCTAAGATTAC-ATACCATATCT
1 TCTAAGATTACAAAACCATATCT
11729678 AAGATTGCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.40, C:0.20, G:0.04, T:0.36
Consensus pattern (23 bp):
TCTAAGATTACAAAACCATATCT
Found at i:11729680 original size:19 final size:19
Alignment explanation
Indices: 11729656--11729709 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 19
11729646 AATCATATCT
11729656 TCTAAGATTACATACCATA
1 TCTAAGATTACATACCATA
* *
11729675 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATACCATA
*
11729696 TCTAAGATTGCATA
1 TCTAAGATTACATA
11729710 TTCTCGAAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 12 0.41
21 17 0.59
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (19 bp):
TCTAAGATTACATACCATA
Found at i:11729697 original size:21 final size:21
Alignment explanation
Indices: 11729671--11729710 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
11729661 GATTACATAC
11729671 CATATCTAAGATTGCATATAT
1 CATATCTAAGATTGCATATAT
11729692 CATATCTAAGATTGCATAT
1 CATATCTAAGATTGCATAT
11729711 TCTCGAAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (21 bp):
CATATCTAAGATTGCATATAT
Found at i:11730893 original size:16 final size:16
Alignment explanation
Indices: 11730874--11730914 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
11730864 AATCTTGTAA
*
11730874 AAAATTCGAGTCCAAT
1 AAAATTCGAGTCCAAC
* *
11730890 AAAATTTGAGTCCGAC
1 AAAATTCGAGTCCAAC
11730906 AAAATTCGA
1 AAAATTCGA
11730915 ACCCATAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.24
Consensus pattern (16 bp):
AAAATTCGAGTCCAAC
Found at i:11731061 original size:20 final size:21
Alignment explanation
Indices: 11731021--11731061 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
11731011 ATTATAATTT
*
11731021 AATAGTATTACTAATACATAA
1 AATAATATTACTAATACATAA
*
11731042 AATAATATTA-TAATATATAA
1 AATAATATTACTAATACATAA
11731062 GTATTACTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (21 bp):
AATAATATTACTAATACATAA
Found at i:11731468 original size:234 final size:232
Alignment explanation
Indices: 11731085--11731650 Score: 676
Period size: 234 Copynumber: 2.4 Consensus size: 232
11731075 TATTAATACA
* * * *
11731085 ATATAACTATTATTATAATA-TTGATTATAAT-AAAGATATAGTATTACATGATA-T-TAATGTT
1 ATATAATTATTATTATATTACAT-ATTATAATAAAAGATATAATATTACATGATATTATAATGTT
11731146 TAATCATTGATGCATATATATAAACTATTAATA--TATTACATGATATGATATAACATTATATAA
65 TAATCATTGATGCATATATATAAACTATTAATATTTATTACATGATATGATATAACATTATATAA
* * *
11731209 TAATGTAGGAAGTCTAACTTTCAAATGTACGAAAAATATAGAGACTTAGAGCATATTTCAACTAG
130 TAATGTAGGAAGTCTAACTTTCAAATGTACGAAAAATATAGAGAATTAAAGCATATTTCAACCAG
11731274 TATAATA-ATAAACAACAATATATAATAAT-ATT-TAT
195 TATAATATATAAACAACAATATATAATAATAATTATAT
*
11731309 GTATAATTATTATTATATTACATATTATAATAAAAGATATAATATTACATGATATTATAATGTTT
1 ATATAATTATTATTATATTACATATTATAATAAAAGATATAATATTACATGATATTATAATGTTT
* * * *
11731374 AATCATTGATGCACAAATATAAACTATTAATATTTTATAAACTATATGATATGATATATCATTAT
66 AATCATTGATGCATATATATAAACTATTAATA-TTTAT----TACATGATATGATATAACATTAT
*
11731439 ATAAT-ATAGTAGGATAG-CTAACTTTCAAATGTACGAAAAATATAGGGAATTAAAGCATATTTC
126 ATAATAAT-GTAGGA-AGTCTAACTTTCAAATGTACGAAAAATATAGAGAATTAAAGCATATTTC
* *
11731502 AACCAGTATAATATATAAACAATAATATATGATAATAATTAATAT
189 AACCAGTATAATATATAAACAACAATATATAATAATAATT-ATAT
* * **
11731547 ATATAATGTGTTACTAT-TATATCATAGAATAACATAAAA-AT-T-ATATTACATGATATTATAA
1 ATATAAT-TATTATTATAT-TA-CATATTAT-A-ATAAAAGATATAATATTACATGATATTATAA
* * * **
11731608 CGTTTAATTATTAATGTGTATATATAAACTATTAATATATTAT
61 TGTTTAATCATTGATGCATATATATAAACTATTAATAT-TTAT
11731651 GTACTACTCT
Statistics
Matches: 292, Mismatches: 27, Indels: 31
0.83 0.08 0.09
Matches are distributed among these distances:
224 25 0.09
225 22 0.08
226 1 0.00
227 38 0.13
230 3 0.01
233 2 0.01
234 87 0.30
235 22 0.08
236 3 0.01
238 11 0.04
239 62 0.21
240 7 0.02
241 3 0.01
242 6 0.02
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.39
Consensus pattern (232 bp):
ATATAATTATTATTATATTACATATTATAATAAAAGATATAATATTACATGATATTATAATGTTT
AATCATTGATGCATATATATAAACTATTAATATTTATTACATGATATGATATAACATTATATAAT
AATGTAGGAAGTCTAACTTTCAAATGTACGAAAAATATAGAGAATTAAAGCATATTTCAACCAGT
ATAATATATAAACAACAATATATAATAATAATTATAT
Found at i:11731866 original size:16 final size:14
Alignment explanation
Indices: 11731829--11731871 Score: 59
Period size: 16 Copynumber: 2.9 Consensus size: 14
11731819 CTCGTAATAT
11731829 ATAAAATATTATTA
1 ATAAAATATTATTA
*
11731843 AAAAAATATTATCTCA
1 ATAAAATATTAT-T-A
11731859 ATAAAATATTATT
1 ATAAAATATTATT
11731872 TTTATTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 11 0.44
15 2 0.08
16 12 0.48
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (14 bp):
ATAAAATATTATTA
Found at i:11740589 original size:24 final size:24
Alignment explanation
Indices: 11740556--11740609 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
11740546 GTATCTTTAA
*
11740556 CTTTGCAATCAAAAGACTTCTAGT
1 CTTTGAAATCAAAAGACTTCTAGT
*
11740580 CTTTGAAATCGAAAGACTTCTAGT
1 CTTTGAAATCAAAAGACTTCTAGT
11740604 CTTTGA
1 CTTTGA
11740610 CTTGTGCACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (24 bp):
CTTTGAAATCAAAAGACTTCTAGT
Found at i:11744347 original size:7 final size:7
Alignment explanation
Indices: 11744335--11744366 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
11744325 ACTTCTGATC
11744335 AGTGACA
1 AGTGACA
11744342 AGTGACA
1 AGTGACA
11744349 AGTGACA
1 AGTGACA
11744356 AGTGACA
1 AGTGACA
11744363 AGTG
1 AGTG
11744367 GTAGGTTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.41, C:0.12, G:0.31, T:0.16
Consensus pattern (7 bp):
AGTGACA
Found at i:11744418 original size:51 final size:51
Alignment explanation
Indices: 11744342--11744455 Score: 201
Period size: 51 Copynumber: 2.2 Consensus size: 51
11744332 ATCAGTGACA
* *
11744342 AGTGACAAGTGACAAGTGACAAGTGGTAGGTTTAGCTACACTTATTTGATC
1 AGTGACAAGTGACAAGTGACAAGTGGTAGCTTTAGCTACACTTATCTGATC
*
11744393 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
1 AGTGACAAGTGACAAGTGACAAGTGGTAGCTTTAGCTACACTTATCTGATC
11744444 AGTGACAAGTGA
1 AGTGACAAGTGA
11744456 TAAATGTGAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.28
Consensus pattern (51 bp):
AGTGACAAGTGACAAGTGACAAGTGGTAGCTTTAGCTACACTTATCTGATC
Found at i:11754611 original size:23 final size:23
Alignment explanation
Indices: 11754580--11754724 Score: 191
Period size: 23 Copynumber: 6.2 Consensus size: 23
11754570 TGGGTATATA
* *
11754580 TATATATGCTATCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
11754603 TATAAATGCTGTCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
*
11754626 TATAAATGCTGCCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
* * *
11754649 TATATATGCTGTCCAATTTGATA
1 TATAAATGCTGTCCAATTTGGTG
*
11754672 TATATATATGCTGTCCAATTGGGTG
1 TATA-A-ATGCTGTCCAATTTGGTG
* *
11754697 TATAAATGCTGTCCGATTTGATG
1 TATAAATGCTGTCCAATTTGGTG
11754720 TATAA
1 TATAA
11754725 GAGATATCCA
Statistics
Matches: 106, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
23 86 0.81
24 1 0.01
25 19 0.18
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (23 bp):
TATAAATGCTGTCCAATTTGGTG
Found at i:11754735 original size:71 final size:69
Alignment explanation
Indices: 11754580--11754735 Score: 179
Period size: 71 Copynumber: 2.2 Consensus size: 69
11754570 TGGGTATATA
* * * * *
11754580 TATATATGCTATCCAATTTGGTGTATAAATGCTGTCCAATTTGGTGTATAAATGCTGCCCAATTT
1 TATATAAGATATCCAATTTGATATATAAATGCTGTCCAATTGGGTGTATAAATGCTGCCCAATTT
*
11754645 GGTG
66 GATG
* * * * *
11754649 TATATATGCTGTCCAATTTGATATATATATATGCTGTCCAATTGGGTGTATAAATGCTGTCCGAT
1 TATATAAGATATCCAATTTGATATATA-A-ATGCTGTCCAATTGGGTGTATAAATGCTGCCCAAT
11754714 TTGATG
64 TTGATG
11754720 TATA-AGAGATATCCAA
1 TATATA-AGATATCCAA
11754736 ATAGGGTAGA
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
69 24 0.32
70 2 0.03
71 48 0.65
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.38
Consensus pattern (69 bp):
TATATAAGATATCCAATTTGATATATAAATGCTGTCCAATTGGGTGTATAAATGCTGCCCAATTT
GATG
Found at i:11755398 original size:35 final size:35
Alignment explanation
Indices: 11755359--11755428 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
11755349 TGAACGGGTG
11755359 GTTTACGGAGTTCGTACGAATGAATCTGGCTGTTA
1 GTTTACGGAGTTCGTACGAATGAATCTGGCTGTTA
11755394 GTTTACGGAGTTCGTACGAATGAATCTGGCTGTTA
1 GTTTACGGAGTTCGTACGAATGAATCTGGCTGTTA
11755429 ATCTCCTTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.23, C:0.14, G:0.29, T:0.34
Consensus pattern (35 bp):
GTTTACGGAGTTCGTACGAATGAATCTGGCTGTTA
Done.