Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 205 of 226
Found at i:61340769 original size:31 final size:31
Alignment explanation
Indices: 61340713--61340772 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
61340703 ATTGTTGACT
*
61340713 TTTTTTTTTTAAAGTTGATGGTCAAATTTGA
1 TTTTTTTTTTAAAGTTGATGATCAAATTTGA
*
61340744 TTTTTTTTTTAAATTTGA-GAATCAAATTT
1 TTTTTTTTTTAAAGTTGATG-ATCAAATTT
61340773 AGCTCAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 1 0.04
31 25 0.96
ACGTcount: A:0.28, C:0.03, G:0.12, T:0.57
Consensus pattern (31 bp):
TTTTTTTTTTAAAGTTGATGATCAAATTTGA
Found at i:61343472 original size:210 final size:210
Alignment explanation
Indices: 61343084--61343490 Score: 573
Period size: 210 Copynumber: 1.9 Consensus size: 210
61343074 AAGACTGCTC
* * * * * * **
61343084 AGATTTCCAATTGAAATAGGTAGCTCTTTAATGCCCGTCCCATCTAAATAAAGCTCTAGCAGGCA
1 AGATTTCCAATCGAAATAGGTAACTCTTTAATGCCCGTCCCATCAAAACAAAGCTCCAACAAACA
* *
61343149 TTCCATTTTGCCATCAATCTCTGGAAAGCTTTTAAGATTGGAGCAACCTGAAAGAATTAACTTTT
66 TTCCATTTTCCCATCAATCTCTGGAAAGCTTTCAAGATTGGAGCAACCTGAAAGAATTAACTTTT
* * * *
61343214 CAAGAGATCCCATTCCAATTTTGATTGGAAGACTCCTAAGACTTTTGCAGTCTTTTAAATTCAAA
131 CAAGAGATCCCATACCAACTTTGATTGGAAAACTCCTAAGACTTTTGCAGCCTTTTAAATTCAAA
61343279 AGTTCAAGTCTTCTG
196 AGTTCAAGTCTTCTG
* ***
61343294 AGATTTCCGATCGAAGA-AGGTAACTCTTTAATGTTTGTCCCATCAAAACAAAGCTCCAACAAAC
1 AGATTTCCAATCGAA-ATAGGTAACTCTTTAATGCCCGTCCCATCAAAACAAAGCTCCAACAAAC
* *
61343358 ATTCCATTTTCCCATCAATCTCTGGAAAGCTTTCAAGTTTTGAGCAACCTGAAAGAATTAACTTT
65 ATTCCATTTTCCCATCAATCTCTGGAAAGCTTTCAAGATTGGAGCAACCTGAAAGAATTAACTTT
* * * * *
61343423 TCAAGAGATTCCATACCAACTTTGGTTGGAAAACTCCTCATATTTTTGCAGCCTTTTAAATTCAA
130 TCAAGAGATCCCATACCAACTTTGATTGGAAAACTCCTAAGACTTTTGCAGCCTTTTAAATTCAA
61343488 AAG
195 AAG
61343491 CTTAAGCCTT
Statistics
Matches: 171, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
210 170 0.99
211 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.32
Consensus pattern (210 bp):
AGATTTCCAATCGAAATAGGTAACTCTTTAATGCCCGTCCCATCAAAACAAAGCTCCAACAAACA
TTCCATTTTCCCATCAATCTCTGGAAAGCTTTCAAGATTGGAGCAACCTGAAAGAATTAACTTTT
CAAGAGATCCCATACCAACTTTGATTGGAAAACTCCTAAGACTTTTGCAGCCTTTTAAATTCAAA
AGTTCAAGTCTTCTG
Found at i:61349146 original size:41 final size:41
Alignment explanation
Indices: 61349089--61349271 Score: 296
Period size: 41 Copynumber: 4.5 Consensus size: 41
61349079 GACTTTTCGG
61349089 GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCT
1 GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCT
61349130 GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCT
1 GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCT
* * *
61349171 GGGATTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGTTTT
1 GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCT
* *
61349212 GGGATTTAGTGGCGTTTTTA-GTAAAGCGCCGCTAATGTTCT
1 GGGCTTTAGCGGCGTTTTTATGT-AAGCGCCGCTAATGTTCT
*
61349253 GGGCTTTAGCGGCATTTTT
1 GGGCTTTAGCGGCGTTTTT
61349272 GTTGATGCGC
Statistics
Matches: 132, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
40 1 0.01
41 131 0.99
ACGTcount: A:0.16, C:0.17, G:0.29, T:0.38
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCT
Found at i:61349728 original size:23 final size:23
Alignment explanation
Indices: 61349702--61349782 Score: 71
Period size: 23 Copynumber: 3.5 Consensus size: 23
61349692 ATAGTATGTA
61349702 GTTTAAGGGTTTTATAGTTTAAG
1 GTTTAAGGGTTTTATAGTTTAAG
*
61349725 GTTTAA-TGTTTACTATAGTATGT-A-
1 GTTTAAGGGTTT--TATAGT-T-TAAG
* *
61349749 GTTTAAGGGTTTCATAGTTTATG
1 GTTTAAGGGTTTTATAGTTTAAG
61349772 GTTT-AGGGTTT
1 GTTTAAGGGTTT
61349783 GTTATATTGG
Statistics
Matches: 47, Mismatches: 4, Indels: 15
0.71 0.06 0.23
Matches are distributed among these distances:
21 1 0.02
22 12 0.26
23 15 0.32
24 12 0.26
25 6 0.13
26 1 0.02
ACGTcount: A:0.23, C:0.02, G:0.25, T:0.49
Consensus pattern (23 bp):
GTTTAAGGGTTTTATAGTTTAAG
Found at i:61352374 original size:47 final size:47
Alignment explanation
Indices: 61352305--61352424 Score: 231
Period size: 47 Copynumber: 2.6 Consensus size: 47
61352295 TTAATGTAAT
61352305 TATTTTGCTGATGTTTAAGGAAATTGTTGGTTCTATTTATAAAACTG
1 TATTTTGCTGATGTTTAAGGAAATTGTTGGTTCTATTTATAAAACTG
*
61352352 TATTTTGCTGATGTTTAAGGAAATTGTTGGTTCTATTTATAAAATTG
1 TATTTTGCTGATGTTTAAGGAAATTGTTGGTTCTATTTATAAAACTG
61352399 TATTTTGCTGATGTTTAAGGAAATTG
1 TATTTTGCTGATGTTTAAGGAAATTG
61352425 CTGATGCTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.28, C:0.05, G:0.20, T:0.47
Consensus pattern (47 bp):
TATTTTGCTGATGTTTAAGGAAATTGTTGGTTCTATTTATAAAACTG
Found at i:61352390 original size:22 final size:22
Alignment explanation
Indices: 61352318--61352390 Score: 53
Period size: 22 Copynumber: 3.2 Consensus size: 22
61352308 TTTGCTGATG
61352318 TTTAAGGAAATTGTTGGTTCTA
1 TTTAAGGAAATTGTTGGTTCTA
* *
61352340 TTTATA--AAACTGTAT-TTTGCTGA
1 TTTA-AGGAAATTGT-TGGTT-CT-A
61352363 TGTTTAAGGAAATTGTTGGTTCTA
1 --TTTAAGGAAATTGTTGGTTCTA
61352387 TTTA
1 TTTA
61352391 TAAAATTGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 18
0.63 0.07 0.30
Matches are distributed among these distances:
21 8 0.21
22 11 0.29
23 2 0.05
24 2 0.05
25 7 0.18
26 8 0.21
ACGTcount: A:0.27, C:0.05, G:0.19, T:0.48
Consensus pattern (22 bp):
TTTAAGGAAATTGTTGGTTCTA
Found at i:61352551 original size:12 final size:12
Alignment explanation
Indices: 61352534--61352558 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
61352524 AACTAGAGGC
61352534 ATTCGTATGTCT
1 ATTCGTATGTCT
61352546 ATTCGTATGTCT
1 ATTCGTATGTCT
61352558 A
1 A
61352559 AGTATATCAT
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:0.20, C:0.16, G:0.16, T:0.48
Consensus pattern (12 bp):
ATTCGTATGTCT
Found at i:61353765 original size:29 final size:29
Alignment explanation
Indices: 61353723--61353780 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
61353713 TAAATCTTCT
61353723 TCCATTTGTCAACTATTTCATTTCCAAAA
1 TCCATTTGTCAACTATTTCATTTCCAAAA
61353752 TCCATTTGTCAACTATTTCATTTCCAAAA
1 TCCATTTGTCAACTATTTCATTTCCAAAA
61353781 ATATATTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (29 bp):
TCCATTTGTCAACTATTTCATTTCCAAAA
Found at i:61353930 original size:16 final size:16
Alignment explanation
Indices: 61353911--61353959 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
61353901 TAAAGTTCAA
* *
61353911 ATTTCATAACTTACGT
1 ATTTCATAATTTACAT
61353927 ATTTTACATAATTTACAT
1 A-TTT-CATAATTTACAT
*
61353945 AATTCATAATTTACA
1 ATTTCATAATTTACA
61353960 AAATTTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 12 0.43
17 5 0.18
18 11 0.39
ACGTcount: A:0.39, C:0.14, G:0.02, T:0.45
Consensus pattern (16 bp):
ATTTCATAATTTACAT
Found at i:61353941 original size:9 final size:9
Alignment explanation
Indices: 61353910--61353966 Score: 57
Period size: 9 Copynumber: 6.7 Consensus size: 9
61353900 TTAAAGTTCA
61353910 AATTT-CAT
1 AATTTACAT
* *
61353918 AACTTACGT
1 AATTTACAT
*
61353927 ATTTTACAT
1 AATTTACAT
61353936 AATTTACAT
1 AATTTACAT
61353945 AA-TT-CAT
1 AATTTACAT
*
61353952 AATTTACAA
1 AATTTACAT
61353961 AATTTA
1 AATTTA
61353967 AATATATAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
7 5 0.13
8 8 0.21
9 26 0.67
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (9 bp):
AATTTACAT
Found at i:61353964 original size:16 final size:16
Alignment explanation
Indices: 61353933--61353964 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
61353923 ACGTATTTTA
*
61353933 CATAATTTACATAATT
1 CATAATTTACAAAATT
61353949 CATAATTTACAAAATT
1 CATAATTTACAAAATT
61353965 TAAATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (16 bp):
CATAATTTACAAAATT
Found at i:61354091 original size:12 final size:12
Alignment explanation
Indices: 61354059--61354128 Score: 72
Period size: 12 Copynumber: 6.0 Consensus size: 12
61354049 CATAATATCC
*
61354059 TAACTTACATAG
1 TAACTTACATAA
* *
61354071 TATCGTACATAA
1 TAACTTACATAA
61354083 TAACTTACA-AA
1 TAACTTACATAA
61354094 -AACTTACATAA
1 TAACTTACATAA
*
61354105 TAACCTACATAA
1 TAACTTACATAA
* *
61354117 TACCTTATATAA
1 TAACTTACATAA
61354129 CAATACATAA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
10 8 0.17
11 4 0.09
12 35 0.74
ACGTcount: A:0.47, C:0.19, G:0.03, T:0.31
Consensus pattern (12 bp):
TAACTTACATAA
Found at i:61354196 original size:9 final size:9
Alignment explanation
Indices: 61354182--61354833 Score: 679
Period size: 9 Copynumber: 71.8 Consensus size: 9
61354172 CACAAAAACA
61354182 ATAACTTAC
1 ATAACTTAC
61354191 ATAACTTAC
1 ATAACTTAC
*
61354200 ATAAACTTGC
1 AT-AACTTAC
* *
61354210 ATAAATTAA
1 ATAACTTAC
*
61354219 ATAACTTGC
1 ATAACTTAC
* *
61354228 ATAAATTAA
1 ATAACTTAC
61354237 ATAACTTAC
1 ATAACTTAC
61354246 ATAACTTAC
1 ATAACTTAC
*
61354255 ATAACCTAC
1 ATAACTTAC
61354264 ATAACTTAC
1 ATAACTTAC
*
61354273 ATAAATTA-
1 ATAACTTAC
61354281 AGTAACTTTAC
1 A-TAAC-TTAC
**
61354292 GGAACTTAC
1 ATAACTTAC
61354301 ATAACTTAC
1 ATAACTTAC
*
61354310 ATAACCTAC
1 ATAACTTAC
61354319 ATAACTTAC
1 ATAACTTAC
* *
61354328 GTAAATTA-
1 ATAACTTAC
61354336 AGTAACTTAC
1 A-TAACTTAC
61354346 ATAACTTAC
1 ATAACTTAC
*
61354355 ATAACCTAC
1 ATAACTTAC
* * *
61354364 ATAAGTAAA
1 ATAACTTAC
61354373 ATAACTTAC
1 ATAACTTAC
61354382 ATAACTTAC
1 ATAACTTAC
*
61354391 ATAACCTAC
1 ATAACTTAC
61354400 ATAACTTAC
1 ATAACTTAC
61354409 ATAACTTAC
1 ATAACTTAC
*
61354418 ATAAACTTGC
1 AT-AACTTAC
* *
61354428 ATAAATTAA
1 ATAACTTAC
61354437 ATAACTTAC
1 ATAACTTAC
*
61354446 ATAACGTAC
1 ATAACTTAC
* *
61354455 ATAAATTAA
1 ATAACTTAC
61354464 ATAACTTAC
1 ATAACTTAC
61354473 ATAACTTAC
1 ATAACTTAC
*
61354482 ATAAATTA-
1 ATAACTTAC
61354490 AGTAACTTAC
1 A-TAACTTAC
61354500 ATAACTTAC
1 ATAACTTAC
61354509 ATAAACTTGA-
1 AT-AACTT-AC
* *
61354519 ATAAATTAA
1 ATAACTTAC
61354528 ATAACTTAC
1 ATAACTTAC
* *
61354537 GTAAATTA-
1 ATAACTTAC
61354545 AGTAACTTAC
1 A-TAACTTAC
61354555 ATAACTTAC
1 ATAACTTAC
*
61354564 ATAACCTAC
1 ATAACTTAC
* * *
61354573 ATAAGTAAA
1 ATAACTTAC
61354582 ATAACTTAC
1 ATAACTTAC
61354591 ATAACTTAC
1 ATAACTTAC
*
61354600 ATAACCTAC
1 ATAACTTAC
61354609 ATAACTTAC
1 ATAACTTAC
* *
61354618 GTAAATTA-
1 ATAACTTAC
61354626 AGTAACTTAC
1 A-TAACTTAC
61354636 ATAACTTAC
1 ATAACTTAC
*
61354645 ATAACCTAC
1 ATAACTTAC
* * *
61354654 ATAAGTAAA
1 ATAACTTAC
61354663 ATAACTTAC
1 ATAACTTAC
61354672 ATAACTTAC
1 ATAACTTAC
*
61354681 ATAACCTAC
1 ATAACTTAC
61354690 ATAACTTAC
1 ATAACTTAC
61354699 ATAACTTAC
1 ATAACTTAC
*
61354708 ATAAACTTGC
1 AT-AACTTAC
* *
61354718 ATAAATTAA
1 ATAACTTAC
61354727 ATAACTTAC
1 ATAACTTAC
61354736 ATAACTTAC
1 ATAACTTAC
*
61354745 ATAACGTAC
1 ATAACTTAC
* *
61354754 ATAAATTAA
1 ATAACTTAC
61354763 ATAACTTAC
1 ATAACTTAC
61354772 ATAACTTAC
1 ATAACTTAC
*
61354781 ATAAATTA-
1 ATAACTTAC
61354789 AGTAACTTAC
1 A-TAACTTAC
61354799 ATAACTTAC
1 ATAACTTAC
*
61354808 ATAAACTTGC
1 AT-AACTTAC
* *
61354818 ATAAATTAA
1 ATAACTTAC
61354827 ATAACTT
1 ATAACTT
61354834 GGTCTTTTTC
Statistics
Matches: 523, Mismatches: 100, Indels: 40
0.79 0.15 0.06
Matches are distributed among these distances:
8 4 0.01
9 468 0.89
10 50 0.10
11 1 0.00
ACGTcount: A:0.48, C:0.18, G:0.03, T:0.31
Consensus pattern (9 bp):
ATAACTTAC
Found at i:61357268 original size:66 final size:66
Alignment explanation
Indices: 61357198--61357332 Score: 225
Period size: 66 Copynumber: 2.0 Consensus size: 66
61357188 GACCACAGTT
* * *
61357198 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAGAGCAGATGCGGCAGCGAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCAGATGCGGCAGCCAGAGAAGC
61357263 A
66 A
* *
61357264 GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCTGATGCGGCATCCAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCAGATGCGGCAGCCAGAGAAGC
61357329 A
66 A
61357330 GAG
1 GAG
61357333 CAGAACAGAA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.41, C:0.19, G:0.27, T:0.14
Consensus pattern (66 bp):
GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCAGATGCGGCAGCCAGAGAAGC
A
Found at i:61357355 original size:66 final size:65
Alignment explanation
Indices: 61357198--61357358 Score: 191
Period size: 66 Copynumber: 2.4 Consensus size: 65
61357188 GACCACAGTT
* * * *
61357198 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAGAGCAGATGCGGCAGCGAGAGAAGC
1 GAGG-TCAAAAGAAATACGAAGAACTCCAGCGACAACTTAAAGCAGATGCGGCAGCCAGAGAAGC
61357263 A
65 A
* * *
61357264 GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCTGATGCGGCATCCAGAGAAGC
1 GAGG-TCAAAAGAAATACGAAGAACTCCAGCGACAACTTAAAGCAGATGCGGCAGCCAGAGAAGC
61357329 A
65 A
*
61357330 GA-G-CAGAACAGAAAGTACGACGAACTCCA
1 GAGGTCA-AA-AGAAA-TACGAAGAACTCCA
61357359 ACAACAGCTT
Statistics
Matches: 85, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
63 2 0.02
64 2 0.02
65 6 0.07
66 75 0.88
ACGTcount: A:0.42, C:0.20, G:0.25, T:0.13
Consensus pattern (65 bp):
GAGGTCAAAAGAAATACGAAGAACTCCAGCGACAACTTAAAGCAGATGCGGCAGCCAGAGAAGCA
Found at i:61357665 original size:43 final size:43
Alignment explanation
Indices: 61357613--61357793 Score: 224
Period size: 43 Copynumber: 4.2 Consensus size: 43
61357603 AACCCCAAAA
* *
61357613 TTAGTGGCGTTT-TTTAAAAAAGCGCCGCTAAAGAACAT-TAGCT
1 TTAGCGGCGTTTGTTT-AAAAAGCGCCGCTAAAGAACATGT-TCT
*
61357656 TTAGCGGCGTTTGTGTT-AGAAGCGCCGCTAAAGAACATGTTCT
1 TTAGCGGCGTTTGT-TTAAAAAGCGCCGCTAAAGAACATGTTCT
* * * *
61357699 TTAGCGGCGTTTGTGTAGAAAGCACCGCTGAAGAACATGTTCT
1 TTAGCGGCGTTTGTTTAAAAAGCGCCGCTAAAGAACATGTTCT
* * *
61357742 TCAGCGGCGTTTGTGTAGAAAGCGCCGCTAAAGAACATGTTCT
1 TTAGCGGCGTTTGTTTAAAAAGCGCCGCTAAAGAACATGTTCT
61357785 TTAGCGGCG
1 TTAGCGGCG
61357794 CTTTTAAAAA
Statistics
Matches: 122, Mismatches: 12, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
42 1 0.01
43 117 0.96
44 2 0.02
45 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (43 bp):
TTAGCGGCGTTTGTTTAAAAAGCGCCGCTAAAGAACATGTTCT
Found at i:61357765 original size:86 final size:86
Alignment explanation
Indices: 61357631--61357793 Score: 258
Period size: 86 Copynumber: 1.9 Consensus size: 86
61357621 GTTTTTTAAA
* *
61357631 AAAGCGCCGCTAAAGAACATTAGCTTTAGCGGCGTTTGTGTTAGAAGCGCCGCTAAAGAACATGT
1 AAAGCACCGCTAAAGAACATTAGCTTCAGCGGCGTTTGTGTTAGAAGCGCCGCTAAAGAACATGT
61357696 TCTTTAGCGGCGTTTGTGTAG
66 TCTTTAGCGGCGTTTGTGTAG
* *
61357717 AAAGCACCGCTGAAGAACATGT-TCTTCAGCGGCGTTTGTG-TAGAAAGCGCCGCTAAAGAACAT
1 AAAGCACCGCTAAAGAACAT-TAGCTTCAGCGGCGTTTGTGTTAG-AAGCGCCGCTAAAGAACAT
61357780 GTTCTTTAGCGGCG
64 GTTCTTTAGCGGCG
61357794 CTTTTAAAAA
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
85 3 0.04
86 67 0.94
87 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (86 bp):
AAAGCACCGCTAAAGAACATTAGCTTCAGCGGCGTTTGTGTTAGAAGCGCCGCTAAAGAACATGT
TCTTTAGCGGCGTTTGTGTAG
Found at i:61358568 original size:16 final size:16
Alignment explanation
Indices: 61358547--61358577 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61358537 ATCATCATCA
*
61358547 TTATTTTGCTTCGTAT
1 TTATTTTACTTCGTAT
61358563 TTATTTTACTTCGTA
1 TTATTTTACTTCGTA
61358578 GCCCTCGCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.13, G:0.10, T:0.61
Consensus pattern (16 bp):
TTATTTTACTTCGTAT
Found at i:61360482 original size:41 final size:41
Alignment explanation
Indices: 61360425--61360507 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
61360415 AATGAACTCA
61360425 AACCAAAAAACAAAGGCAACATCAAAGCCATAGAATTTGTC
1 AACCAAAAAACAAAGGCAACATCAAAGCCATAGAATTTGTC
61360466 AACCAAAAAACAAAGGCAACATCAAAGCCATAGAATTTGTC
1 AACCAAAAAACAAAGGCAACATCAAAGCCATAGAATTTGTC
61360507 A
1 A
61360508 TTCCTCTTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.52, C:0.22, G:0.12, T:0.14
Consensus pattern (41 bp):
AACCAAAAAACAAAGGCAACATCAAAGCCATAGAATTTGTC
Found at i:61373101 original size:18 final size:18
Alignment explanation
Indices: 61373078--61373119 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
61373068 TTAATTACAG
*
61373078 TAATTAATAAAATAAATA
1 TAATTAATAAAATAAAAA
*
61373096 TAATTAATGAAATAAAAA
1 TAATTAATAAAATAAAAA
61373114 TAATTA
1 TAATTA
61373120 GATGTACATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (18 bp):
TAATTAATAAAATAAAAA
Found at i:61378948 original size:210 final size:210
Alignment explanation
Indices: 61378586--61378985 Score: 579
Period size: 210 Copynumber: 1.9 Consensus size: 210
61378576 AAGACTGCTC
* * * * **
61378586 AGATTTCCGATTGAAATAGGTAGCTCTTTAATGCCCGTCCCATCTAAATAAAGCTCTAGCAGGCA
1 AGATTTCCGATCGAAATAGGTAGCTCTTTAATGCCCGTCCCATCTAAACAAAGCTCCAACAAACA
* *
61378651 TTCCATTTTGCCATCAATCTCTGGAAAGCTTTTAAGATTGGAGCAACCTGAAAGAATTAACTTTT
66 TTCCATTTTCCCATCAATCTCTGGAAAGCTTTGAAGATTGGAGCAACCTGAAAGAATTAACTTTT
* * * *
61378716 CAAGAGATTCCATTCCAATTTTGATTGGAAGACTCCTAAGACTTTTGCAGTCTTTTAAATTCAAT
131 CAAGAGATTCCATACCAATTTTGATTGGAAAACTCCTAAGACTTTTGCAGCCTCTTAAATTCAAT
61378781 AGTTCAAGTCTTCTG
196 AGTTCAAGTCTTCTG
***
61378796 AGATTTCCGATCGAAGA-AGGTAGCTCTTTAATGTTTGTCCCATC-AAGACAAAGCTCCAACAAA
1 AGATTTCCGATCGAA-ATAGGTAGCTCTTTAATGCCCGTCCCATCTAA-ACAAAGCTCCAACAAA
* *
61378859 CATTCCATTTTCCCATCAATCTCTGGAAAGCTTTGAAGTTTTGAGCAACCTGAAAGAATTAACTT
64 CATTCCATTTTCCCATCAATCTCTGGAAAGCTTTGAAGATTGGAGCAACCTGAAAGAATTAACTT
* * * *
61378924 TTCAAGAGGTTCCATACCAATTTTGGTTGGAAAACTCCTCAGATTTTTGCAGCCTCTTAAAT
129 TTCAAGAGATTCCATACCAATTTTGATTGGAAAACTCCTAAGACTTTTGCAGCCTCTTAAAT
61378986 CCAAAAGCTT
Statistics
Matches: 167, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
209 2 0.01
210 164 0.98
211 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (210 bp):
AGATTTCCGATCGAAATAGGTAGCTCTTTAATGCCCGTCCCATCTAAACAAAGCTCCAACAAACA
TTCCATTTTCCCATCAATCTCTGGAAAGCTTTGAAGATTGGAGCAACCTGAAAGAATTAACTTTT
CAAGAGATTCCATACCAATTTTGATTGGAAAACTCCTAAGACTTTTGCAGCCTCTTAAATTCAAT
AGTTCAAGTCTTCTG
Found at i:61388961 original size:3 final size:3
Alignment explanation
Indices: 61388953--61389024 Score: 58
Period size: 3 Copynumber: 24.3 Consensus size: 3
61388943 AAAATGTATT
* ** *
61388953 TAA TAA TAA TAA TAA TAA TAG TTT TAA TAA CAA TATA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
* * *
61388999 -AA -AA CAA CAA TAA TAA CAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
61389025 TATTATTTAT
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
2 4 0.07
3 50 0.88
4 3 0.05
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:61389029 original size:3 final size:3
Alignment explanation
Indices: 61389023--61389060 Score: 60
Period size: 3 Copynumber: 12.7 Consensus size: 3
61389013 AACAATAATA
61389023 ATT ATT ATT -TAT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT AT
61389061 ACTCCTCAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 1 0.03
3 31 0.94
4 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:61393146 original size:210 final size:210
Alignment explanation
Indices: 61392758--61393146 Score: 564
Period size: 210 Copynumber: 1.9 Consensus size: 210
61392748 CAATTGAAAT
* * * * ** *
61392758 AGGTAGCTCTTTAATGCCCGTCCCATCTAAATAAAGCTCTAGCAGGCATTCCATTTTTCCATCAA
1 AGGTAGCTCTTTAATGCCCGTCCCATCAAAACAAAGCTCCAACAAACATTCCATTTTCCCATCAA
*
61392823 TCTCTGGAAAGCTTTCAAGATTTGAGCAACCTGAAAGAATTAACTTTTCAAGAGATTCCATTCCA
66 TCTCTGGAAAGCTTTCAAGATTTGAGCAACCTGAAAGAATTAACCTTTCAAGAGATTCCATTCCA
* * * * **
61392888 ATTTTGATTGGAAGACCTTTAAGACTTTTGCAGTCTTTTAAATTCAAAACTTTAAGTCTTTTGAG
131 ATTCTGATTGGAAAACCTCTAAGACTTTTGCAGCCTCCTAAATTCAAAACTTTAAGTCTTTTGAG
61392953 ACTTCCGATAAAAGA
196 ACTTCCGATAAAAGA
***
61392968 AGGTAGCTCTTTAATGTTTGTCCCATCAAAACAAAGCTCCAACAAACATTCCATTTTCCCATCAA
1 AGGTAGCTCTTTAATGCCCGTCCCATCAAAACAAAGCTCCAACAAACATTCCATTTTCCCATCAA
* *
61393033 TCTCTGGAAAGCTTTCAAGTTTTGAGCAACCTGAAAGAGTTAACCTTTCAAGAGATTCCATTCCA
66 TCTCTGGAAAGCTTTCAAGATTTGAGCAACCTGAAAGAATTAACCTTTCAAGAGATTCCATTCCA
* * *
61393098 ATTCTGGTTGGAAAA-CTCCTCAGACTTTTGCAGCCTCCTAACTTCAAAA
131 ATTCTGATTGGAAAACCT-CTAAGACTTTTGCAGCCTCCTAAATTCAAAA
61393147 GCTTAAGCCT
Statistics
Matches: 156, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
209 2 0.01
210 154 0.99
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.32
Consensus pattern (210 bp):
AGGTAGCTCTTTAATGCCCGTCCCATCAAAACAAAGCTCCAACAAACATTCCATTTTCCCATCAA
TCTCTGGAAAGCTTTCAAGATTTGAGCAACCTGAAAGAATTAACCTTTCAAGAGATTCCATTCCA
ATTCTGATTGGAAAACCTCTAAGACTTTTGCAGCCTCCTAAATTCAAAACTTTAAGTCTTTTGAG
ACTTCCGATAAAAGA
Found at i:61404125 original size:25 final size:25
Alignment explanation
Indices: 61404097--61404152 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
61404087 ATACGTTTAT
61404097 ATATAA-CA-AATATTAAATAAGAATA
1 ATATAAGCATAATATT--ATAAGAATA
* *
61404122 ATATAAGCATAATGTTATATGAATA
1 ATATAAGCATAATATTATAAGAATA
61404147 ATATAA
1 ATATAA
61404153 TAAGAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 20 0.74
26 2 0.07
27 5 0.19
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.32
Consensus pattern (25 bp):
ATATAAGCATAATATTATAAGAATA
Found at i:61406457 original size:2 final size:2
Alignment explanation
Indices: 61406452--61406482 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
61406442 CGTTTTTTCC
61406452 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
61406483 AGAGACATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:61407665 original size:67 final size:69
Alignment explanation
Indices: 61407594--61407734 Score: 171
Period size: 69 Copynumber: 2.1 Consensus size: 69
61407584 AATTTTTTTT
* * * *
61407594 AAAAAAAGTAATTAA-ACACCT-CTAT-TTTTTTCCACTCAATTGAGCATTTGAACTTTCAAAAT
1 AAAAAAAGCAATTAAGAC-CCTGCTATCTTTTTTCCACTCAATTGAGAACTTGAAATTTCAAAAT
*
61407656 GCTTC
65 GCATC
* * * *
61407661 AAAAAAAGCAATTAAGTCCCTGCTTTCTTTTTTTCACTCAATTGGGAACTTGAAATTTCAAAATG
1 AAAAAAAGCAATTAAGACCCTGCTATCTTTTTTCCACTCAATTGAGAACTTGAAATTTCAAAATG
61407726 CATC
66 CATC
61407730 AAAAA
1 AAAAA
61407735 GACCCTCAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
67 17 0.27
68 4 0.06
69 41 0.66
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.34
Consensus pattern (69 bp):
AAAAAAAGCAATTAAGACCCTGCTATCTTTTTTCCACTCAATTGAGAACTTGAAATTTCAAAATG
CATC
Found at i:61407808 original size:18 final size:19
Alignment explanation
Indices: 61407785--61407824 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
61407775 TTATTAAGAA
61407785 TTAGAAAA-ATAATAAATT
1 TTAGAAAACATAATAAATT
* *
61407803 TTAGAAAACTTATTAAATT
1 TTAGAAAACATAATAAATT
61407822 TTA
1 TTA
61407825 ATACAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.40
Consensus pattern (19 bp):
TTAGAAAACATAATAAATT
Found at i:61407871 original size:30 final size:29
Alignment explanation
Indices: 61407835--61407937 Score: 86
Period size: 30 Copynumber: 3.5 Consensus size: 29
61407825 ATACAAATAT
*
61407835 AAAAAATT-TAAAATTTATTAAAAATTAGAA
1 AAAAAATTATAAAATTT-TTAAAAA-TAAAA
* **
61407865 AAAAAA-TATAAAAATCGTAAAAA-AATAA
1 AAAAAATTATAAAATTTTTAAAAATAA-AA
* * *
61407893 AAAAAATTGTAAAATTTTATAAAAATCATA
1 AAAAAATTATAAAATTTT-TAAAAATAAAA
61407923 AAAAAATTATAAAAT
1 AAAAAATTATAAAAT
61407938 GCATCAAAAA
Statistics
Matches: 57, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
27 1 0.02
28 8 0.14
29 14 0.25
30 33 0.58
31 1 0.02
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (29 bp):
AAAAAATTATAAAATTTTTAAAAATAAAA
Found at i:61407876 original size:20 final size:19
Alignment explanation
Indices: 61407853--61407896 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
61407843 TAAAATTTAT
61407853 TAAAAATTAGAAAAAAAATA
1 TAAAAA-TAGAAAAAAAATA
* *
61407873 TAAAAATCGTAAAAAAATA
1 TAAAAATAGAAAAAAAATA
61407892 -AAAAA
1 TAAAAA
61407897 AATTGTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 5 0.23
19 11 0.50
20 6 0.27
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (19 bp):
TAAAAATAGAAAAAAAATA
Found at i:61407897 original size:20 final size:19
Alignment explanation
Indices: 61407864--61407929 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
61407854 AAAAATTAGA
*
61407864 AAAAAAATATAAAAATCGT
1 AAAAAAATAAAAAAATCGT
*
61407883 AAAAAAATAAAAAAAATTGT
1 AAAAAAAT-AAAAAAATCGT
*** * *
61407903 AAAATTTTATAAAAATCAT
1 AAAAAAATAAAAAAATCGT
61407922 AAAAAAAT
1 AAAAAAAT
61407930 TATAAAATGC
Statistics
Matches: 35, Mismatches: 11, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
19 21 0.60
20 14 0.40
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (19 bp):
AAAAAAATAAAAAAATCGT
Found at i:61407897 original size:39 final size:39
Alignment explanation
Indices: 61407854--61407929 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
61407844 AAAATTTATT
*
61407854 AAAAATTAGAAAAAAAATATAAAAATCGTAAAAAAATAAA
1 AAAAATT-GAAAAAAAATATAAAAATCATAAAAAAATAAA
* ***
61407894 AAAAATTGTAAAATTTTATAAAAATCATAAAAAAAT
1 AAAAATTGAAAAAAAATATAAAAATCATAAAAAAAT
61407930 TATAAAATGC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
39 24 0.77
40 7 0.23
ACGTcount: A:0.70, C:0.03, G:0.04, T:0.24
Consensus pattern (39 bp):
AAAAATTGAAAAAAAATATAAAAATCATAAAAAAATAAA
Found at i:61407947 original size:20 final size:20
Alignment explanation
Indices: 61407853--61407936 Score: 71
Period size: 20 Copynumber: 4.2 Consensus size: 20
61407843 TAAAATTTAT
* * *
61407853 TAAAAATTAGAAAAAAAATA
1 TAAAAATCATAAAAAAATTA
* *
61407873 TAAAAATCGTAAAAAAATAA
1 TAAAAATCATAAAAAAATTA
* ** **
61407893 AAAAAATTGT-AAAATTTTA
1 TAAAAATCATAAAAAAATTA
61407912 TAAAAATCATAAAAAAATTA
1 TAAAAATCATAAAAAAATTA
61407932 TAAAA
1 TAAAA
61407937 TGCATCAAAA
Statistics
Matches: 48, Mismatches: 15, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
19 13 0.27
20 35 0.73
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (20 bp):
TAAAAATCATAAAAAAATTA
Found at i:61408189 original size:23 final size:21
Alignment explanation
Indices: 61408142--61408192 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 21
61408132 TTCTTACAAT
*
61408142 TTTAATATTTTTTTATAAACT
1 TTTAATATTTTTTTATAAACA
61408163 TTTAATATTTGATTTTATTAAA-A
1 TTTAATATTT--TTTTA-TAAACA
61408186 TTTAATA
1 TTTAATA
61408193 ACATTTATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 10 0.38
23 12 0.46
24 4 0.15
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTAATATTTTTTTATAAACA
Found at i:61408418 original size:90 final size:94
Alignment explanation
Indices: 61408264--61408488 Score: 219
Period size: 90 Copynumber: 2.3 Consensus size: 94
61408254 ATTGCTTCCT
* *
61408264 TTTTCTTTTTCTTTTTAAATTTTGATGGTCTTTTTAATGCATTTTGAAAGTTCAAGTACCTAATT
1 TTTT-TTTTT-TTTTTAAA-TTTGA-GGGCTTTTGAATGCATTTTGAAAGTTCAAGTACCTAATT
* *
61408329 G-GT-AAAAAAAAA-GTA-TGGG-CTTAATTG-
62 GAGTGAAAAAAAAAGGAAGAGGGACTTAATTGC
* ***
61408356 TTTTTTTTTTTTTTAAGATTTGAGGGCATTTTGAATGCATTTTGAAAGTTGAAGTGTTTAATTGA
1 TTTTTTTTTTTTTTAA-ATTTGAGGGC-TTTTGAATGCATTTTGAAAGTTCAAGTACCTAATTGA
61408421 GTGGCAAAAAAAAAGGAAGAGGGACTTAATTGC
64 GT-G-AAAAAAAAAGGAAGAGGGACTTAATTGC
**
61408454 TTTTTTATTTTATTTTAAAATTTGAGAACTTTTGA
1 TTTTTT-TTTT-TTTT-AAATTTGAGGGCTTTTGA
61408489 CACCCTTAAA
Statistics
Matches: 110, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
89 3 0.03
90 43 0.39
91 8 0.07
92 4 0.04
94 9 0.08
95 2 0.02
96 3 0.03
97 8 0.07
98 6 0.05
99 10 0.09
100 12 0.11
101 2 0.02
ACGTcount: A:0.30, C:0.06, G:0.18, T:0.46
Consensus pattern (94 bp):
TTTTTTTTTTTTTTAAATTTGAGGGCTTTTGAATGCATTTTGAAAGTTCAAGTACCTAATTGAGT
GAAAAAAAAAGGAAGAGGGACTTAATTGC
Found at i:61409679 original size:17 final size:16
Alignment explanation
Indices: 61409649--61409691 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
61409639 TATATTTTTC
61409649 TTATAAAAATATAAAA
1 TTATAAAAATATAAAA
*
61409665 TTATAAAATTCATAAAA
1 TTATAAAAAT-ATAAAA
*
61409682 ATATACAAAA
1 TTATA-AAAA
61409692 ACTTAACATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 9 0.41
17 10 0.45
18 3 0.14
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (16 bp):
TTATAAAAATATAAAA
Found at i:61410859 original size:26 final size:24
Alignment explanation
Indices: 61410830--61410893 Score: 58
Period size: 24 Copynumber: 2.6 Consensus size: 24
61410820 AAAATACATG
61410830 TATATATTATAAAGA-ATGCATAAACA
1 TATATATTATAAA-ATATG-A-AAACA
* * *
61410856 TATAGACTATAAAATATGAAAATA
1 TATATATTATAAAATATGAAAACA
*
61410880 TAAATATTATAAAA
1 TATATATTATAAAA
61410894 ATATAAATGT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
24 15 0.48
25 2 0.06
26 14 0.45
ACGTcount: A:0.58, C:0.05, G:0.06, T:0.31
Consensus pattern (24 bp):
TATATATTATAAAATATGAAAACA
Found at i:61410879 original size:8 final size:7
Alignment explanation
Indices: 61410849--61410944 Score: 52
Period size: 8 Copynumber: 12.4 Consensus size: 7
61410839 TAAAGAATGC
61410849 ATAAACAT
1 ATAAA-AT
* *
61410857 ATAGACT
1 ATAAAAT
61410864 ATAAAAT
1 ATAAAAT
61410871 ATGAAAAT
1 AT-AAAAT
61410879 ATAAATATT
1 ATAAA-A-T
61410888 ATAAAAAT
1 AT-AAAAT
61410896 ATAAATGTAT
1 ATAAA---AT
61410906 ATAAAAT
1 ATAAAAT
61410913 ATAAAAACT
1 AT-AAAA-T
*
61410922 ATGAAA-
1 ATAAAAT
61410928 ATAAAAT
1 ATAAAAT
61410935 A-AAATAT
1 ATAAA-AT
61410942 ATA
1 ATA
61410945 CATACTATGT
Statistics
Matches: 70, Mismatches: 6, Indels: 24
0.70 0.06 0.24
Matches are distributed among these distances:
6 8 0.11
7 22 0.31
8 23 0.33
9 7 0.10
10 10 0.14
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.29
Consensus pattern (7 bp):
ATAAAAT
Found at i:61410896 original size:17 final size:17
Alignment explanation
Indices: 61410874--61410935 Score: 65
Period size: 17 Copynumber: 3.7 Consensus size: 17
61410864 ATAAAATATG
*
61410874 AAAATATAAATATTATA
1 AAAATATAAATACTATA
*
61410891 AAAATATAAAT-GTATA
1 AAAATATAAATACTATA
* *
61410907 TAAAATATAAAAACTATG
1 -AAAATATAAATACTATA
61410925 AAAATA-AAATA
1 AAAATATAAATA
61410936 AAATATATAC
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
16 8 0.21
17 27 0.71
18 3 0.08
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.29
Consensus pattern (17 bp):
AAAATATAAATACTATA
Found at i:61410942 original size:34 final size:35
Alignment explanation
Indices: 61410864--61410942 Score: 90
Period size: 34 Copynumber: 2.3 Consensus size: 35
61410854 CATATAGACT
* *
61410864 ATAAAATATGAAAATATAAATATTATAAAAATATAA
1 ATAAAATAT-AAAATATAAAAACTATAAAAATATAA
** *
61410900 AT-GTATATAAAATATAAAAACTATGAAAATA-AA
1 ATAAAATATAAAATATAAAAACTATAAAAATATAA
61410933 ATAAAATATA
1 ATAAAATATA
61410943 TACATACTAT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
33 4 0.11
34 25 0.71
35 4 0.11
36 2 0.06
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (35 bp):
ATAAAATATAAAATATAAAAACTATAAAAATATAA
Found at i:61412917 original size:18 final size:18
Alignment explanation
Indices: 61412896--61412938 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
61412886 ACATTATCAT
61412896 TTATTTTTATTAAACTTA
1 TTATTTTTATTAAACTTA
61412914 TTATTTTTATTAAACTTA
1 TTATTTTTATTAAACTTA
61412932 TTATTTT
1 TTATTTT
61412939 CACTGCCCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (18 bp):
TTATTTTTATTAAACTTA
Found at i:61416092 original size:47 final size:47
Alignment explanation
Indices: 61416023--61416116 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
61416013 TCAGCAAAGT
*
61416023 CATGTCAAGCATATCCGATTGTCCATCATGATGAGTTAGTTGGAATC
1 CATGTCAAACATATCCGATTGTCCATCATGATGAGTTAGTTGGAATC
*
61416070 CATGTCAAACATATCCGATTGTCCATCATGATGAGTTGGTTGGAATC
1 CATGTCAAACATATCCGATTGTCCATCATGATGAGTTAGTTGGAATC
61416117 AGTCTATGCT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (47 bp):
CATGTCAAACATATCCGATTGTCCATCATGATGAGTTAGTTGGAATC
Found at i:61426014 original size:3 final size:3
Alignment explanation
Indices: 61426006--61426040 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
61425996 AATATTGAGG
61426006 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
61426041 GAAGTTGGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:61428516 original size:10 final size:10
Alignment explanation
Indices: 61428501--61428525 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
61428491 AAGACCCTAC
61428501 AAAATTTTCA
1 AAAATTTTCA
61428511 AAAATTTTCA
1 AAAATTTTCA
61428521 AAAAT
1 AAAAT
61428526 ACAATTAAGC
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:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAATTTTCA
Found at i:61428567 original size:10 final size:10
Alignment explanation
Indices: 61428552--61428613 Score: 51
Period size: 9 Copynumber: 6.4 Consensus size: 10
61428542 TCTTTAACAA
61428552 AAAAAATTAT
1 AAAAAATTAT
61428562 AAAAAA-TA-
1 AAAAAATTAT
*
61428570 AAAAAA-TGT
1 AAAAAATTAT
**
61428579 AAAATTTTAT
1 AAAAAATTAT
61428589 -AAAAATTAT
1 AAAAAATTAT
61428598 AAAAAGAATTAT
1 -AAAA-AATTAT
61428610 AAAA
1 AAAA
61428614 TGCATCAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
8 7 0.17
9 13 0.32
10 8 0.20
11 7 0.17
12 6 0.15
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.27
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:61429558 original size:3 final size:3
Alignment explanation
Indices: 61429552--61429583 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
61429542 TATTATTATT
61429552 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
61429584 TTATTATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
ATC
Found at i:61431146 original size:23 final size:22
Alignment explanation
Indices: 61431093--61431153 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 22
61431083 ATTGATTTTA
* *
61431093 TTTCTTTTATTTTTAGTTTTCTT
1 TTTCTATT-TTTTTAGTTCTCTT
61431116 TTTCTATTTTTTTAGTTGCTCTAT
1 TTTCTATTTTTTTAGTT-CTCT-T
*
61431140 TTT-TATTTTCTTAG
1 TTTCTATTTTTTTAG
61431154 ACTTTTCTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 9 0.27
23 20 0.61
24 4 0.12
ACGTcount: A:0.11, C:0.10, G:0.07, T:0.72
Consensus pattern (22 bp):
TTTCTATTTTTTTAGTTCTCTT
Found at i:61432792 original size:9 final size:9
Alignment explanation
Indices: 61432778--61432814 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
61432768 TATAGTTTGA
61432778 TATTCGAAT
1 TATTCGAAT
61432787 TATTCGAAT
1 TATTCGAAT
*
61432796 TATTCGAGT
1 TATTCGAAT
61432805 TATTCGAAT
1 TATTCGAAT
61432814 T
1 T
61432815 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:61432885 original size:9 final size:9
Alignment explanation
Indices: 61432868--61432898 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
61432858 TCGAGTTGAT
61432868 TCGAATAAC
1 TCGAATAAC
*
61432877 TCGATTAAC
1 TCGAATAAC
61432886 TCGAATAAC
1 TCGAATAAC
61432895 TCGA
1 TCGA
61432899 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:61438324 original size:65 final size:65
Alignment explanation
Indices: 61438233--61438362 Score: 251
Period size: 65 Copynumber: 2.0 Consensus size: 65
61438223 AGCTCCAATG
61438233 TTGCACTTCAAGCAGTGTTGCTGCTGTTTCTGAGTTGAGTTACTGTTGGTTGTTTGTTGCACTGC
1 TTGCACTTCAAGCAGTGTTGCTGCTGTTTCTGAGTTGAGTTACTGTTGGTTGTTTGTTGCACTGC
*
61438298 TTGCACTTCAAGCAGTGTTGCTGCTGTTTCTGAGTTGAGTTATTGTTGGTTGTTTGTTGCACTGC
1 TTGCACTTCAAGCAGTGTTGCTGCTGTTTCTGAGTTGAGTTACTGTTGGTTGTTTGTTGCACTGC
61438363 AGGCCAAAGT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.12, C:0.16, G:0.28, T:0.44
Consensus pattern (65 bp):
TTGCACTTCAAGCAGTGTTGCTGCTGTTTCTGAGTTGAGTTACTGTTGGTTGTTTGTTGCACTGC
Found at i:61454119 original size:24 final size:22
Alignment explanation
Indices: 61454092--61454136 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
61454082 GCACTCATTT
61454092 TACTATATCAATATTTAAAACAAA
1 TACTATAT-AAT-TTTAAAACAAA
* *
61454116 TACTTTATTATTTTAAAACAA
1 TACTATATAATTTTAAAACAA
61454137 TAAAAACTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 10 0.53
23 2 0.11
24 7 0.37
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (22 bp):
TACTATATAATTTTAAAACAAA
Found at i:61463392 original size:18 final size:17
Alignment explanation
Indices: 61463369--61463402 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
61463359 CCGAATATAG
61463369 CTTTCTTCTACTTTTTCC
1 CTTTCTT-TACTTTTTCC
*
61463387 CTTTCTTTTCTTTTTC
1 CTTTCTTTACTTTTTC
61463403 TTATGATAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.68
Consensus pattern (17 bp):
CTTTCTTTACTTTTTCC
Found at i:61466555 original size:25 final size:25
Alignment explanation
Indices: 61466521--61466586 Score: 132
Period size: 25 Copynumber: 2.6 Consensus size: 25
61466511 ATCAATATTT
61466521 AAAATAAACACTTTATTATTTTTTA
1 AAAATAAACACTTTATTATTTTTTA
61466546 AAAATAAACACTTTATTATTTTTTA
1 AAAATAAACACTTTATTATTTTTTA
61466571 AAAATAAACACTTTAT
1 AAAATAAACACTTTAT
61466587 AAATATAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (25 bp):
AAAATAAACACTTTATTATTTTTTA
Found at i:61467593 original size:28 final size:28
Alignment explanation
Indices: 61467562--61467621 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
61467552 TATTTTTGAA
* * *
61467562 TTAGAATTTTGAGTTTAGCGTTTAATGT
1 TTAGAATTTGGAGTTTAGAGTTTAAGGT
* * *
61467590 TTAGAGTTTGGGGTTTGGAGTTTAAGGT
1 TTAGAATTTGGAGTTTAGAGTTTAAGGT
61467618 TTAG
1 TTAG
61467622 GGTTTAGTAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.22, C:0.02, G:0.30, T:0.47
Consensus pattern (28 bp):
TTAGAATTTGGAGTTTAGAGTTTAAGGT
Found at i:61467605 original size:14 final size:14
Alignment explanation
Indices: 61467574--61467627 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 14
61467564 AGAATTTTGA
* *
61467574 GTTTAGCGTTTAAT
1 GTTTAGAGTTTAAG
**
61467588 GTTTAGAGTTTGGG
1 GTTTAGAGTTTAAG
*
61467602 GTTTGGAGTTTAAG
1 GTTTAGAGTTTAAG
*
61467616 GTTTAGGGTTTA
1 GTTTAGAGTTTA
61467628 GTATTTAAGA
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.19, C:0.02, G:0.33, T:0.46
Consensus pattern (14 bp):
GTTTAGAGTTTAAG
Found at i:61467687 original size:7 final size:7
Alignment explanation
Indices: 61467675--61467776 Score: 75
Period size: 7 Copynumber: 14.7 Consensus size: 7
61467665 AATATCTATA
61467675 TTTAGGG
1 TTTAGGG
61467682 TTTAGGG
1 TTTAGGG
* *
61467689 TGTA-TG
1 TTTAGGG
*
61467695 TTTATGG
1 TTTAGGG
* *
61467702 TTTAAGA
1 TTTAGGG
61467709 TTTAGGG
1 TTTAGGG
61467716 TTTAGGG
1 TTTAGGG
61467723 TTTTAGGG
1 -TTTAGGG
*
61467731 TTTAGTG
1 TTTAGGG
*
61467738 TTTAGTG
1 TTTAGGG
*
61467745 TTTACGG
1 TTTAGGG
* *
61467752 TGTA-TG
1 TTTAGGG
61467758 TTT-GTGG
1 TTTAG-GG
61467765 TTTAGGG
1 TTTAGGG
61467772 TTTAG
1 TTTAG
61467777 TATTTAAGAT
Statistics
Matches: 75, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
6 7 0.09
7 60 0.80
8 8 0.11
ACGTcount: A:0.16, C:0.01, G:0.34, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:61467729 original size:15 final size:15
Alignment explanation
Indices: 61467709--61467740 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
61467699 TGGTTTAAGA
61467709 TTTAGGGTTTAGGGT
1 TTTAGGGTTTAGGGT
*
61467724 TTTAGGGTTTAGTGT
1 TTTAGGGTTTAGGGT
61467739 TT
1 TT
61467741 AGTGTTTACG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.34, T:0.53
Consensus pattern (15 bp):
TTTAGGGTTTAGGGT
Found at i:61467767 original size:49 final size:49
Alignment explanation
Indices: 61467675--61467774 Score: 123
Period size: 49 Copynumber: 2.0 Consensus size: 49
61467665 AATATCTATA
* *
61467675 TTTAGGGTTTAGGGTGTATGTTTATGGTTTAAGATTTAGGGTTTAGGGT
1 TTTAGGGTTTAGGGTGTATGTTTACGGTGTAAGATTTAGGGTTTAGGGT
* * *
61467724 TTTAGGGTTTAGTGTTTAGTGTTTACGGTGTATG-TTT-GTGGTTTAGGGT
1 TTTAGGGTTTAGGGTGTA-TGTTTACGGTGTAAGATTTAG-GGTTTAGGGT
61467773 TT
1 TT
61467775 AGTATTTAAG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
48 1 0.02
49 31 0.70
50 12 0.27
ACGTcount: A:0.15, C:0.01, G:0.34, T:0.50
Consensus pattern (49 bp):
TTTAGGGTTTAGGGTGTATGTTTACGGTGTAAGATTTAGGGTTTAGGGT
Found at i:61467777 original size:34 final size:33
Alignment explanation
Indices: 61467675--61467776 Score: 104
Period size: 34 Copynumber: 3.2 Consensus size: 33
61467665 AATATCTATA
* * *
61467675 TTTAGGGTTTAGGGTGTATGTTTATGGTTTAAGA
1 TTTAGGGTTTA-GGTGTATGTTTGTGGTTTAGGG
* *
61467709 TTTAGGGTTTAGG-GT-T-TTAG-GGTTTAGTG
1 TTTAGGGTTTAGGTGTATGTTTGTGGTTTAGGG
*
61467738 TTTAGTGTTTACGGTGTATGTTTGTGGTTTAGGG
1 TTTAGGGTTTA-GGTGTATGTTTGTGGTTTAGGG
61467772 TTTAG
1 TTTAG
61467777 TATTTAAGAT
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
29 16 0.29
30 4 0.07
31 3 0.05
32 3 0.05
33 5 0.09
34 24 0.44
ACGTcount: A:0.16, C:0.01, G:0.34, T:0.49
Consensus pattern (33 bp):
TTTAGGGTTTAGGTGTATGTTTGTGGTTTAGGG
Found at i:61467809 original size:149 final size:150
Alignment explanation
Indices: 61467615--61467928 Score: 515
Period size: 156 Copynumber: 2.1 Consensus size: 150
61467605 TGGAGTTTAA
61467615 GGTTTAGGGTTTAGTATTTAAGATTCTTTTTAATTACTTTTGTCCCCTATAATATCTATATTTAG
1 GGTTTAGGGTTTAGTATTTAAGATTCTTTTTAATTACTTTTGTCCCCTATAATATCTATATTTAG
* *
61467680 GGTTTAGGGTGTATGTTTA-T-GGTTTAAGATTTAGGGTTTAGGGTTTTAGGGTTTAGTGTTTAG
66 GGTTTAGGGTGTATGTTTAGTAGGTTTAAGATTTAAGGTTTAGGGTTTTAGGGTTTAGAGTTTAG
61467743 TGTTTACGGTGTATGTTTGT
131 TGTTTACGGTGTATGTTTGT
61467763 GGTTTAGGGTTTAGTATTTAAGATTCTTTTTTAATTACTTTTGTCCCCTATAATATCTATATTTA
1 GGTTTAGGGTTTAGTATTTAAGATTC-TTTTTAATTACTTTTGTCCCCTATAATATCTATATTTA
*
61467828 GGGTTTAGGGTGTATGTTTACGGTTTGAGGTTTAAGGTTTAAGGTTTAGGGTTTTAGGGTTTAGA
65 GGGTTTAGGGTGTATGTTTA--G--T-AGGTTTAAGATTTAAGGTTTAGGGTTTTAGGGTTTAGA
*
61467893 GTTTAGTGTTTAGGGTGTATGTTTGT
125 GTTTAGTGTTTACGGTGTATGTTTGT
*
61467919 GGTTTTGGGT
1 GGTTTAGGGT
61467929 CTTGGGTTTA
Statistics
Matches: 153, Mismatches: 5, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
148 26 0.17
149 58 0.38
154 1 0.01
156 68 0.44
ACGTcount: A:0.19, C:0.05, G:0.26, T:0.49
Consensus pattern (150 bp):
GGTTTAGGGTTTAGTATTTAAGATTCTTTTTAATTACTTTTGTCCCCTATAATATCTATATTTAG
GGTTTAGGGTGTATGTTTAGTAGGTTTAAGATTTAAGGTTTAGGGTTTTAGGGTTTAGAGTTTAG
TGTTTACGGTGTATGTTTGT
Found at i:61467836 original size:7 final size:7
Alignment explanation
Indices: 61467824--61468007 Score: 83
Period size: 7 Copynumber: 26.0 Consensus size: 7
61467814 AATATCTATA
61467824 TTTAGGG
1 TTTAGGG
61467831 TTTAGGG
1 TTTAGGG
* *
61467838 TGTA-TG
1 TTTAGGG
*
61467844 TTTACGG
1 TTTAGGG
61467851 TTT-GAGG
1 TTTAG-GG
*
61467858 TTTAAGG
1 TTTAGGG
*
61467865 TTTAAGG
1 TTTAGGG
61467872 TTTAGGG
1 TTTAGGG
61467879 TTTTAGGG
1 -TTTAGGG
*
61467887 TTTAGAG
1 TTTAGGG
*
61467894 TTTAGTG
1 TTTAGGG
61467901 TTTAGGG
1 TTTAGGG
* *
61467908 TGTA-TG
1 TTTAGGG
61467914 TTT-GTGG
1 TTTAG-GG
*
61467921 TTTTGGG
1 TTTAGGG
61467928 TCTT-GGG
1 T-TTAGGG
61467935 TTTAGGG
1 TTTAGGG
* **
61467942 ATTAATG
1 TTTAGGG
61467949 TTTAGAGG
1 TTTAG-GG
*
61467957 TATAGAGG
1 TTTAG-GG
*
61467965 -CTAGGG
1 TTTAGGG
**
61467971 TTTAAAG
1 TTTAGGG
* *
61467978 TTTATGA
1 TTTAGGG
61467985 TTTAAGGG
1 TTT-AGGG
61467993 TTTTAGGG
1 -TTTAGGG
61468001 TTTAGGG
1 TTTAGGG
61468008 GGTTTTTGGT
Statistics
Matches: 134, Mismatches: 30, Indels: 26
0.71 0.16 0.14
Matches are distributed among these distances:
6 11 0.08
7 96 0.72
8 24 0.18
9 3 0.02
ACGTcount: A:0.19, C:0.02, G:0.35, T:0.44
Consensus pattern (7 bp):
TTTAGGG
Found at i:61467888 original size:22 final size:21
Alignment explanation
Indices: 61467856--61467908 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
61467846 TACGGTTTGA
*
61467856 GGTTTAAGGTTTA-AGGTTTAG
1 GGTTTAGGGTTTAGA-GTTTAG
61467877 GGTTTTAGGGTTTAGAGTTTAG
1 GG-TTTAGGGTTTAGAGTTTAG
*
61467899 TGTTTAGGGT
1 GGTTTAGGGT
61467909 GTATGTTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 10 0.36
22 17 0.61
23 1 0.04
ACGTcount: A:0.19, C:0.00, G:0.36, T:0.45
Consensus pattern (21 bp):
GGTTTAGGGTTTAGAGTTTAG
Found at i:61467974 original size:70 final size:70
Alignment explanation
Indices: 61467826--61467974 Score: 151
Period size: 70 Copynumber: 2.1 Consensus size: 70
61467816 TATCTATATT
* * *
61467826 TAGGGTTTAGGGTGTATGTTTACGGTTTGAGGTTTAAGGTTTAAGGTTTAGGGTTTTAGGGTTTA
1 TAGGGTTTAGGGTGTATGTTTACGGTTTGAGGTTTAAGGTTTAAGGATTAAGGTTTTAGGGTATA
**
61467891 GAGTT
66 GAGGC
* ** * * *
61467896 TAGTGTTTAGGGTGTATGTTTGTGGTTTTG-GGTCTT-GGGTTTAGGGATTAATG-TTTAGAGGT
1 TAGGGTTTAGGGTGTATGTTTACGG-TTTGAGGT-TTAAGGTTTAAGGATTAAGGTTTTAG-GGT
61467958 ATAGAGGC
63 ATAGAGGC
61467966 TAGGGTTTA
1 TAGGGTTTA
61467975 AAGTTTATGA
Statistics
Matches: 64, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
69 5 0.08
70 53 0.83
71 6 0.09
ACGTcount: A:0.18, C:0.02, G:0.36, T:0.44
Consensus pattern (70 bp):
TAGGGTTTAGGGTGTATGTTTACGGTTTGAGGTTTAAGGTTTAAGGATTAAGGTTTTAGGGTATA
GAGGC
Found at i:61468463 original size:39 final size:39
Alignment explanation
Indices: 61468407--61468484 Score: 113
Period size: 41 Copynumber: 2.0 Consensus size: 39
61468397 CATTATATTC
*
61468407 AATTTTAAAATTGAACAATT-AAATAATGTCATATTAAA
1 AATTTTAAAATTGAACAATTAAAAAAATGTCATATTAAA
*
61468445 AATTTTAAAAATTTAACAATTAAAAAAAATGTCATATTAA
1 AATTTT-AAAATTGAACAATT-AAAAAAATGTCATATTAA
61468485 TGTATCAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
38 6 0.17
39 13 0.37
41 16 0.46
ACGTcount: A:0.55, C:0.05, G:0.04, T:0.36
Consensus pattern (39 bp):
AATTTTAAAATTGAACAATTAAAAAAATGTCATATTAAA
Found at i:61468807 original size:124 final size:124
Alignment explanation
Indices: 61468583--61468981 Score: 482
Period size: 125 Copynumber: 3.2 Consensus size: 124
61468573 ATCGTTAGCA
* * * **
61468583 GCGTTTTTCAT-AGAAACGCCACAAAAGGTAAACAATAGTGGCGTTTGGACTAAAAATGCCGCAA
1 GCGTTTTTC-TCAAAAACGCCGCAAAAGGTAAGCAATAGTGGCGTTTGTTCTAAAAATGCCGCAA
* * * *
61468647 CAATGTATTAAAAATTATACAAAATGGCGCCGTTTGGTTATTGGAATTTGATTTTTAGTG
65 CAATGTATTAAAAATTGTACAAAATGGCGCCATTTGGTTATAGGAATTTAATTTTTAGTG
* * *
61468707 GCGTTTTTCTCCAAAACGCCGCAAAAGGTATGCAATAGTGGCGTTTGTTCTAAAAACGCCGCAAC
1 GCGTTTTTCTCAAAAACGCCGCAAAAGGTAAGCAATAGTGGCGTTTGTTCTAAAAATGCCGCAAC
* * *
61468772 AATGTATTAAAAAGTGTACAAAATGACGCCATTTGGTTACAGGAATTTAACTTTTTAGTG
66 AATGTATTAAAAATTGTACAAAATGGCGCCATTTGGTTATAGGAATTTAA-TTTTTAGTG
* * * ** *
61468832 GCATTTTTCTCAAAAATGCCGCAAAAGGTAAGCATTAGCAGTGTTT-TGTCTAAAAATGCCGCAA
1 GCGTTTTTCTCAAAAACGCCGCAAAAGGTAAGCAATAGTGGCGTTTGT-TCTAAAAATGCCGCAA
* * *
61468896 CAATGTATTAAAAATTGTACAAAACGGCGCCATTTTGTT-TCAGGAAATTAATTTTGTAGTG
65 CAATGTATTAAAAATTGTACAAAATGGCGCCATTTGGTTAT-AGGAATTTAATTTT-TAGTG
* *
61468957 TCGTTTTTGCT-GAAAACGCCGCAAA
1 GCGTTTTT-CTCAAAAACGCCGCAAA
61468982 TATTTCAATA
Statistics
Matches: 235, Mismatches: 34, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
123 1 0.00
124 103 0.44
125 129 0.55
126 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.31
Consensus pattern (124 bp):
GCGTTTTTCTCAAAAACGCCGCAAAAGGTAAGCAATAGTGGCGTTTGTTCTAAAAATGCCGCAAC
AATGTATTAAAAATTGTACAAAATGGCGCCATTTGGTTATAGGAATTTAATTTTTAGTG
Found at i:61471890 original size:5 final size:5
Alignment explanation
Indices: 61471880--61471904 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
61471870 AATGAGAACG
61471880 ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA
61471905 CCATTGGATG
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:61481134 original size:24 final size:24
Alignment explanation
Indices: 61481106--61481190 Score: 71
Period size: 24 Copynumber: 3.3 Consensus size: 24
61481096 AAAAATTAAA
*
61481106 TTAGGGTATTATGTTTTTAATTGT
1 TTAGGGTATTAGGTTTTTAATTGT
* * **
61481130 TTAGGGTTTTAAGGTTTATGAAAAATTAAA
1 TTAGGGTATT-AGGTTT-T---TAATT-GT
61481160 TTAGGGTATTAGGTTTTTAATTGT
1 TTAGGGTATTAGGTTTTTAATTGT
61481184 TTAGGGT
1 TTAGGGT
61481191 TTCTGGGCTT
Statistics
Matches: 46, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
24 16 0.35
25 9 0.20
26 1 0.02
28 1 0.02
29 10 0.22
30 9 0.20
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (24 bp):
TTAGGGTATTAGGTTTTTAATTGT
Found at i:61481149 original size:54 final size:54
Alignment explanation
Indices: 61481090--61481258 Score: 203
Period size: 54 Copynumber: 2.9 Consensus size: 54
61481080 TTGATTAGGT
*
61481090 TTTATGAAAAATTAAATTAGGGTATTATGTTTTTAATTGTTTAGGGTTTTAAGG
1 TTTATGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGGTTTTAAGG
61481144 TTTATGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGGTTTCTGGGCTTGATTAGGG
1 TTTATGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGG--T-T----TT-A--A-GG
* * *
61481209 TTTAAGAAAAATTAAATCAAGGTATTAGGTTTTTAATTGTTTAGGGTTTT
1 TTTATGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGGTTTT
61481259 GGGGTTTGAT
Statistics
Matches: 100, Mismatches: 4, Indels: 18
0.82 0.03 0.15
Matches are distributed among these distances:
54 45 0.45
56 1 0.01
57 1 0.01
58 2 0.02
61 2 0.02
62 2 0.02
63 1 0.01
64 1 0.01
65 45 0.45
ACGTcount: A:0.30, C:0.02, G:0.22, T:0.46
Consensus pattern (54 bp):
TTTATGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGGTTTTAAGG
Found at i:61481218 original size:65 final size:65
Alignment explanation
Indices: 61481142--61481310 Score: 259
Period size: 65 Copynumber: 2.6 Consensus size: 65
61481132 AGGGTTTTAA
*
61481142 GGTTTATGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGGTTTCT-GGGCTTGATTA
1 GGTTTAAGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGGTTT-TGGGGCTTGATTA
61481206 G
65 G
* * *
61481207 GGTTTAAGAAAAATTAAATCAAGGTATTAGGTTTTTAATTGTTTAGGGTTTTGGGGTTTGATTAG
1 GGTTTAAGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGGTTTTGGGGCTTGATTAG
* * *
61481272 GGTTTAGGAAAATTTAAATTAGGGTATTAAGTTTTTAAT
1 GGTTTAAGAAAAATTAAATTAGGGTATTAGGTTTTTAAT
61481311 AGGACTGAAG
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
64 1 0.01
65 93 0.99
ACGTcount: A:0.30, C:0.02, G:0.25, T:0.44
Consensus pattern (65 bp):
GGTTTAAGAAAAATTAAATTAGGGTATTAGGTTTTTAATTGTTTAGGGTTTTGGGGCTTGATTAG
Found at i:61484361 original size:18 final size:17
Alignment explanation
Indices: 61484338--61484371 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
61484328 CCGAATATAG
61484338 CTTTCTTCTACTTTTTCC
1 CTTTCTT-TACTTTTTCC
*
61484356 CTTTCTTTTCTTTTTC
1 CTTTCTTTACTTTTTC
61484372 TTATGATAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.68
Consensus pattern (17 bp):
CTTTCTTTACTTTTTCC
Found at i:61488597 original size:3 final size:3
Alignment explanation
Indices: 61488589--61488631 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
61488579 TTAACAATTG
*
61488589 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-C ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
61488632 TTATTTTACC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 1 0.03
3 36 0.97
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:61491187 original size:5 final size:5
Alignment explanation
Indices: 61491177--61491201 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
61491167 TTTTGTCTTA
61491177 TATTT TATTT TATTT TATTT TATTT
1 TATTT TATTT TATTT TATTT TATTT
61491202 AGGCTACAGA
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):
TATTT
Found at i:61498429 original size:21 final size:21
Alignment explanation
Indices: 61498397--61498437 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
61498387 GAACATTTGG
61498397 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
61498418 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
61498438 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:61501638 original size:38 final size:38
Alignment explanation
Indices: 61501564--61501638 Score: 91
Period size: 38 Copynumber: 1.9 Consensus size: 38
61501554 TTTACTTTTT
**
61501564 TAAAATTATTAAAATATGTAAATTTATAAATTTATTTAA
1 TAAAATTATTAAAATA-GTAAATTTATAAAAATATTTAA
61501603 TAAAA-TATTAAAATA-TAAATTTATACTAAAATATTT
1 TAAAATTATTAAAATAGTAAATTTATA--AAAATATTT
61501639 TTTTCTTTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
36 10 0.31
38 17 0.53
39 5 0.16
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (38 bp):
TAAAATTATTAAAATAGTAAATTTATAAAAATATTTAA
Found at i:61501673 original size:20 final size:21
Alignment explanation
Indices: 61501636--61501682 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
61501626 TACTAAAATA
*
61501636 TTTTTTTCTTTAGCCATCAATG
1 TTTTTTTCTTTA-CCATCAACG
*
61501658 TTTTTTTCTTT-TCATCAACG
1 TTTTTTTCTTTACCATCAACG
61501678 TTTTT
1 TTTTT
61501683 ATTTTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 12 0.52
22 11 0.48
ACGTcount: A:0.15, C:0.17, G:0.06, T:0.62
Consensus pattern (21 bp):
TTTTTTTCTTTACCATCAACG
Found at i:61512812 original size:22 final size:24
Alignment explanation
Indices: 61512770--61512813 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
61512760 ACACACAGCA
61512770 TCTGGATTGAACCAGCATTTTTCT
1 TCTGGATTGAACCAGCATTTTTCT
*
61512794 TCTGGA-TG-ACCAGCCTTTTT
1 TCTGGATTGAACCAGCATTTTT
61512814 GCAGTGCTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 2 0.11
24 6 0.32
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (24 bp):
TCTGGATTGAACCAGCATTTTTCT
Found at i:61518491 original size:15 final size:15
Alignment explanation
Indices: 61518471--61518508 Score: 60
Period size: 14 Copynumber: 2.5 Consensus size: 15
61518461 GTTTATATAT
61518471 GTTTTATGATTTAGG
1 GTTTTATGATTTAGG
61518486 GTTTTA-GATTTAGG
1 GTTTTATGATTTAGG
61518500 GTTTATATG
1 GTTT-TATG
61518509 TTCTATGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 12 0.57
15 8 0.38
16 1 0.05
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.53
Consensus pattern (15 bp):
GTTTTATGATTTAGG
Found at i:61521674 original size:18 final size:18
Alignment explanation
Indices: 61521651--61521695 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
61521641 AAACAATTTT
61521651 TAAATTATATAACTTACA
1 TAAATTATATAACTTACA
61521669 TAAATTATATAACTTACA
1 TAAATTATATAACTTACA
*
61521687 TAACTTATA
1 TAAATTATA
61521696 AATATTTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAATTATATAACTTACA
Found at i:61521680 original size:9 final size:9
Alignment explanation
Indices: 61521655--61521695 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
61521645 AATTTTTAAA
61521655 TTATATAAC
1 TTATATAAC
* *
61521664 TTACATAAA
1 TTATATAAC
61521673 TTATATAAC
1 TTATATAAC
*
61521682 TTACATAAC
1 TTATATAAC
61521691 TTATA
1 TTATA
61521696 AATATTTATA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.41
Consensus pattern (9 bp):
TTATATAAC
Found at i:61521737 original size:17 final size:18
Alignment explanation
Indices: 61521717--61521750 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
61521707 ACATTTTTAA
61521717 TATATATTTTT-AAAATC
1 TATATATTTTTCAAAATC
*
61521734 TATATTTTTTTCAAAAT
1 TATATATTTTTCAAAAT
61521751 TTATCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
TATATATTTTTCAAAATC
Found at i:61521891 original size:9 final size:9
Alignment explanation
Indices: 61521876--61521926 Score: 66
Period size: 9 Copynumber: 5.7 Consensus size: 9
61521866 ACTAGCATAG
61521876 CTTATATAA
1 CTTATATAA
*
61521885 ATTATATAA
1 CTTATATAA
*
61521894 CTTACATAA
1 CTTATATAA
*
61521903 ATTATATAA
1 CTTATATAA
*
61521912 CTTACATAA
1 CTTATATAA
61521921 CTTATA
1 CTTATA
61521927 AATATTTATA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (9 bp):
CTTATATAA
Found at i:61521902 original size:18 final size:18
Alignment explanation
Indices: 61521876--61521926 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
61521866 ACTAGCATAG
*
61521876 CTTATATAAATTATATAA
1 CTTACATAAATTATATAA
61521894 CTTACATAAATTATATAA
1 CTTACATAAATTATATAA
*
61521912 CTTACATAACTTATA
1 CTTACATAAATTATA
61521927 AATATTTATA
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:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (18 bp):
CTTACATAAATTATATAA
Found at i:61521919 original size:231 final size:232
Alignment explanation
Indices: 61521651--61522086 Score: 829
Period size: 231 Copynumber: 1.9 Consensus size: 232
61521641 AAACAATTTT
61521651 TAAATTATATAACTTACATAAATTATATAACTTACATAACTTATAAATATTTATATACATTTTTA
1 TAAATTATATAACTTACATAAATTATATAACTTACATAACTTATAAATATTTATATACATTTTTA
* *
61521716 ATATATATTTTTAAAATCTATATTTTTTTCAAAATTTATCAATCATAGCATAACTTACATAACTC
66 ATATAAATTTTTAAAATCTATATTTTTTTCAAAATTTATCAAGCATAGCATAACTTACATAACTC
61521781 AAATTTATCAATCATATCAT-AACTTATATATAAACTTACATAATACATAACTTAAATAACATAC
131 AAATTTATCAATCATATCATAAACTTATATATAAACTTACATAATACATAACTTAAATAACATAC
61521845 AATACATAAACTTATATATAAACTAGCATAGCTTATA
196 AATACATAAACTTATATATAAACTAGCATAGCTTATA
61521882 TAAATTATATAACTTACATAAATTATATAACTTACATAACTTATAAATATTTATATACATTTTTA
1 TAAATTATATAACTTACATAAATTATATAACTTACATAACTTATAAATATTTATATACATTTTTA
61521947 ATATAAATTTTTAAAATCTATATTTTTTTCAAAATTTATCAAGCATAGCATAACTTACATAACTC
66 ATATAAATTTTTAAAATCTATATTTTTTTCAAAATTTATCAAGCATAGCATAACTTACATAACTC
*
61522012 AAATTTATCAATCATATCATAAACTTATATATAAACTTGCATAATACATAACTTAAATAACATAC
131 AAATTTATCAATCATATCATAAACTTATATATAAACTTACATAATACATAACTTAAATAACATAC
*
61522077 AATACTTAAA
196 AATACATAAA
61522087 TAACTTACAT
Statistics
Matches: 200, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
231 148 0.74
232 52 0.26
ACGTcount: A:0.46, C:0.13, G:0.01, T:0.40
Consensus pattern (232 bp):
TAAATTATATAACTTACATAAATTATATAACTTACATAACTTATAAATATTTATATACATTTTTA
ATATAAATTTTTAAAATCTATATTTTTTTCAAAATTTATCAAGCATAGCATAACTTACATAACTC
AAATTTATCAATCATATCATAAACTTATATATAAACTTACATAATACATAACTTAAATAACATAC
AATACATAAACTTATATATAAACTAGCATAGCTTATA
Found at i:61521956 original size:13 final size:13
Alignment explanation
Indices: 61521923--61521960 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
61521913 TTACATAACT
*
61521923 TATAAATATTT-A
1 TATAAATTTTTAA
*
61521935 TATACATTTTTAA
1 TATAAATTTTTAA
61521948 TATAAATTTTTAA
1 TATAAATTTTTAA
61521961 AATCTATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 9 0.41
13 13 0.59
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (13 bp):
TATAAATTTTTAA
Found at i:61522098 original size:9 final size:9
Alignment explanation
Indices: 61522056--61522355 Score: 279
Period size: 9 Copynumber: 32.9 Consensus size: 9
61522046 ACTTGCATAA
61522056 TACATAACT
1 TACATAACT
* *
61522065 TAAATAACA
1 TACATAACT
61522074 TACA-ATACT
1 TACATA-ACT
*
61522083 TAAATAACT
1 TACATAACT
61522092 TACATAA--
1 TACATAACT
61522099 TACATAACTT
1 TACATAAC-T
61522109 AGTACATAACT
1 --TACATAACT
*
61522120 TACATAATTTT
1 TACATAA--CT
*
61522131 TTC-TAAATTGCT
1 TACAT-AA---CT
61522143 TACATAACT
1 TACATAACT
61522152 TACATAACT
1 TACATAACT
*
61522161 TACATAAAT
1 TACATAACT
*
61522170 TAAATAACT
1 TACATAACT
61522179 TACATAACT
1 TACATAACT
*
61522188 TAAATAACT
1 TACATAACT
*
61522197 TACATATCT
1 TACATAACT
61522206 TACATAACT
1 TACATAACT
*
61522215 TACATAAAT
1 TACATAACT
*
61522224 TAAATAACT
1 TACATAACT
*
61522233 TACATAAAT
1 TACATAACT
*
61522242 TAAATAACT
1 TACATAACT
*
61522251 TACATAAAT
1 TACATAACT
*
61522260 TAAATAACT
1 TACATAACT
61522269 TACATAACT
1 TACATAACT
*
61522278 TAAATAACT
1 TACATAACT
*
61522287 TACATATCT
1 TACATAACT
61522296 TACATAACT
1 TACATAACT
*
61522305 TACATAAAT
1 TACATAACT
*
61522314 TAAATAACT
1 TACATAACT
* *
61522323 TAAATAAAT
1 TACATAACT
61522332 TACATAACT
1 TACATAACT
61522341 TACATAA--
1 TACATAACT
61522348 TACATAAC
1 TACATAAC
61522356 CTTCCTTACT
Statistics
Matches: 237, Mismatches: 41, Indels: 27
0.78 0.13 0.09
Matches are distributed among these distances:
7 14 0.06
8 1 0.00
9 199 0.84
10 2 0.01
11 6 0.03
12 14 0.06
13 1 0.00
ACGTcount: A:0.49, C:0.16, G:0.01, T:0.35
Consensus pattern (9 bp):
TACATAACT
Found at i:61523890 original size:9 final size:9
Alignment explanation
Indices: 61523878--61523932 Score: 74
Period size: 9 Copynumber: 6.1 Consensus size: 9
61523868 ATAAACTTGC
61523878 ATAACTTAT
1 ATAACTTAT
*
61523887 ATAAATTAT
1 ATAACTTAT
*
61523896 ATAACTTAC
1 ATAACTTAT
*
61523905 ATAAATTAT
1 ATAACTTAT
*
61523914 ATAACTTAC
1 ATAACTTAT
61523923 ATAACTTAT
1 ATAACTTAT
61523932 A
1 A
61523933 AATATTTATA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 38 1.00
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (9 bp):
ATAACTTAT
Found at i:61523901 original size:18 final size:18
Alignment explanation
Indices: 61523878--61523932 Score: 92
Period size: 18 Copynumber: 3.1 Consensus size: 18
61523868 ATAAACTTGC
*
61523878 ATAACTTATATAAATTAT
1 ATAACTTACATAAATTAT
61523896 ATAACTTACATAAATTAT
1 ATAACTTACATAAATTAT
*
61523914 ATAACTTACATAACTTAT
1 ATAACTTACATAAATTAT
61523932 A
1 A
61523933 AATATTTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAACTTACATAAATTAT
Found at i:61523907 original size:27 final size:27
Alignment explanation
Indices: 61523865--61523930 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
61523855 TATAAACTTA
* *
61523865 TATATAAACTTGCATAACTTATATAAAT
1 TATAT-AACTTACATAAATTATATAAAT
*
61523893 TATATAACTTACATAAATTATATAACT
1 TATATAACTTACATAAATTATATAAAT
*
61523920 TACATAACTTA
1 TATATAACTTA
61523931 TAAATATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 29 0.85
28 5 0.15
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (27 bp):
TATATAACTTACATAAATTATATAAAT
Found at i:61523974 original size:17 final size:18
Alignment explanation
Indices: 61523954--61523987 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
61523944 ACATTTTTAA
61523954 TATATATTTTT-AAAATC
1 TATATATTTTTCAAAATC
*
61523971 TATATTTTTTTCAAAAT
1 TATATATTTTTCAAAAT
61523988 TTATCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
TATATATTTTTCAAAATC
Found at i:61524175 original size:17 final size:18
Alignment explanation
Indices: 61524143--61524176 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
61524133 TGATTGATAA
61524143 ATTTTGAAAAAAATATAG
1 ATTTTGAAAAAAATATAG
*
61524161 ATTTT-AAAAATATATA
1 ATTTTGAAAAAAATATA
61524177 TTAAAAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
ATTTTGAAAAAAATATAG
Found at i:61524214 original size:9 final size:9
Alignment explanation
Indices: 61524198--61524250 Score: 61
Period size: 9 Copynumber: 5.9 Consensus size: 9
61524188 TATAAATATT
61524198 TATAAGTTA
1 TATAAGTTA
*
61524207 TGTAAGTTA
1 TATAAGTTA
*
61524216 TATAATTTA
1 TATAAGTTA
*
61524225 TGTAAGTTA
1 TATAAGTTA
*
61524234 TATAATTTA
1 TATAAGTTA
*
61524243 TTTAAGTT
1 TATAAGTT
61524251 TTGCAAGTTT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (9 bp):
TATAAGTTA
Found at i:61524225 original size:18 final size:18
Alignment explanation
Indices: 61524198--61524250 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
61524188 TATAAATATT
*
61524198 TATAAGTTATGTAAGTTA
1 TATAATTTATGTAAGTTA
61524216 TATAATTTATGTAAGTTA
1 TATAATTTATGTAAGTTA
*
61524234 TATAATTTATTTAAGTT
1 TATAATTTATGTAAGTT
61524251 TTGCAAGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (18 bp):
TATAATTTATGTAAGTTA
Found at i:61524258 original size:27 final size:27
Alignment explanation
Indices: 61524201--61524265 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
61524191 AAATATTTAT
* * *
61524201 AAGTTATGTAAGTTATATAATTTATGT
1 AAGTTATATAAGTTATATAAGTTATGC
* * *
61524228 AAGTTATATAATTTATTTAAGTTTTGC
1 AAGTTATATAAGTTATATAAGTTATGC
61524255 AAGTTTATATA
1 AAG-TTATATA
61524266 TAAGTTTATG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
27 24 0.77
28 7 0.23
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.49
Consensus pattern (27 bp):
AAGTTATATAAGTTATATAAGTTATGC
Found at i:61524666 original size:24 final size:24
Alignment explanation
Indices: 61524639--61524690 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
61524629 TTAGTAAGTC
*
61524639 AAATAAACTATACTAATAAATGTT
1 AAATAAACTATACTAATAAATATT
* *
61524663 AAATACATTATACTAATAAATATT
1 AAATAAACTATACTAATAAATATT
61524687 AAAT
1 AAAT
61524691 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.35
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATATT
Found at i:61526635 original size:24 final size:24
Alignment explanation
Indices: 61526608--61526659 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
61526598 TTAGTAAGTC
*
61526608 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
61526632 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
61526656 AAAT
1 AAAT
61526660 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:61526827 original size:9 final size:9
Alignment explanation
Indices: 61526811--61526865 Score: 74
Period size: 9 Copynumber: 6.1 Consensus size: 9
61526801 TATAAATATT
61526811 TATAAGTTA
1 TATAAGTTA
*
61526820 TGTAAGTTA
1 TATAAGTTA
*
61526829 TATAATTTA
1 TATAAGTTA
*
61526838 TGTAAGTTA
1 TATAAGTTA
*
61526847 TATAATTTA
1 TATAAGTTA
61526856 TATAAGTTA
1 TATAAGTTA
61526865 T
1 T
61526866 GCAAGTTTAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 38 1.00
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (9 bp):
TATAAGTTA
Found at i:61526838 original size:18 final size:18
Alignment explanation
Indices: 61526811--61526865 Score: 92
Period size: 18 Copynumber: 3.1 Consensus size: 18
61526801 TATAAATATT
*
61526811 TATAAGTTATGTAAGTTA
1 TATAATTTATGTAAGTTA
61526829 TATAATTTATGTAAGTTA
1 TATAATTTATGTAAGTTA
*
61526847 TATAATTTATATAAGTTA
1 TATAATTTATGTAAGTTA
61526865 T
1 T
61526866 GCAAGTTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (18 bp):
TATAATTTATGTAAGTTA
Found at i:61526846 original size:27 final size:27
Alignment explanation
Indices: 61526813--61526878 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
61526803 TAAATATTTA
* *
61526813 TAAGTTATGTAAGTTATATAATTTATG
1 TAAGTTATATAAGTTATATAAGTTATG
*
61526840 TAAGTTATATAATTTATATAAGTTATG
1 TAAGTTATATAAGTTATATAAGTTATG
*
61526867 CAAGTTTATATA
1 TAAG-TTATATA
61526879 TAAGTTTATG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 27 0.79
28 7 0.21
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.47
Consensus pattern (27 bp):
TAAGTTATATAAGTTATATAAGTTATG
Found at i:61526968 original size:17 final size:18
Alignment explanation
Indices: 61526936--61526969 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
61526926 TGATTGATAA
61526936 ATTTTGAAAAAAATATAG
1 ATTTTGAAAAAAATATAG
*
61526954 ATTTT-AAAAATATATA
1 ATTTTGAAAAAAATATA
61526970 TTAAAAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
ATTTTGAAAAAAATATAG
Found at i:61527007 original size:9 final size:9
Alignment explanation
Indices: 61526993--61527027 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
61526983 TAAATATTTA
61526993 TAAGTTATG
1 TAAGTTATG
*
61527002 TAAGTTATA
1 TAAGTTATG
*
61527011 TAATTTATG
1 TAAGTTATG
61527020 TAAGTTAT
1 TAAGTTAT
61527028 ATAATTTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (9 bp):
TAAGTTATG
Found at i:61527018 original size:18 final size:18
Alignment explanation
Indices: 61526991--61527035 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
61526981 TATAAATATT
*
61526991 TATAAGTTATGTAAGTTA
1 TATAATTTATGTAAGTTA
61527009 TATAATTTATGTAAGTTA
1 TATAATTTATGTAAGTTA
61527027 TATAATTTA
1 TATAATTTA
61527036 AAAATTGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (18 bp):
TATAATTTATGTAAGTTA
Found at i:61538571 original size:26 final size:26
Alignment explanation
Indices: 61538541--61538594 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
61538531 GTCTTGTTAC
61538541 TTAGTTGGATTTGAACTAAGTTGTCA
1 TTAGTTGGATTTGAACTAAGTTGTCA
*
61538567 TTAGTTTGATTTGAACTAAGTTGTCA
1 TTAGTTGGATTTGAACTAAGTTGTCA
61538593 TT
1 TT
61538595 GTACTTGATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.07, G:0.20, T:0.46
Consensus pattern (26 bp):
TTAGTTGGATTTGAACTAAGTTGTCA
Found at i:61543304 original size:5 final size:5
Alignment explanation
Indices: 61543294--61543318 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
61543284 AAGAACGATT
61543294 TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA
61543319 AAATGTAATG
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:61543327 original size:15 final size:15
Alignment explanation
Indices: 61543294--61543327 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
61543284 AAGAACGATT
*
61543294 TAATATAATATAATA
1 TAATATAATAAAATA
*
61543309 TAATATAATAAAATG
1 TAATATAATAAAATA
61543324 TAAT
1 TAAT
61543328 GTACCATTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (15 bp):
TAATATAATAAAATA
Found at i:61543797 original size:48 final size:48
Alignment explanation
Indices: 61543715--61543808 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 48
61543705 TTTCTTGGCT
* *
61543715 TAAAAACGCCTAAGTCAGCCTAACTTCCACCAATAATGGATTCAACCG
1 TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
61543763 TAAAAACGCCTAAGTCAG-CTCAAC-TCGCAACAATAAAGGATTCAAC
1 TAAAAACGCCTAAGTCAGCCT-AACTTC-CAACAATAAAGGATTCAAC
61543809 AGAATTCCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
47 4 0.10
48 38 0.90
ACGTcount: A:0.40, C:0.28, G:0.13, T:0.19
Consensus pattern (48 bp):
TAAAAACGCCTAAGTCAGCCTAACTTCCAACAATAAAGGATTCAACCG
Found at i:61557113 original size:4 final size:4
Alignment explanation
Indices: 61557104--61557157 Score: 51
Period size: 4 Copynumber: 13.5 Consensus size: 4
61557094 CAACCTAATT
*
61557104 TTTA TTTA TTTA TTT- TTTC TTTA CTTTA TTTA -TTA CTTTA TTT- TATTA
1 TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA -TTTA TTTA T-TTA
61557152 TTTA TT
1 TTTA TT
61557158 ACTTATTTGG
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
3 7 0.16
4 28 0.65
5 8 0.19
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:61558217 original size:19 final size:18
Alignment explanation
Indices: 61558192--61558248 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
61558182 TTCTTAAAGC
61558192 ATAAAAATATAAATAATAA
1 ATAAAAATATAAATAA-AA
*
61558211 ATCAAAATCA-AAATAAAA
1 ATAAAAAT-ATAAATAAAA
*
61558229 ATAAAAAAATAAAATAAAA
1 ATAAAAATAT-AAATAAAA
61558248 A
1 A
61558249 AATTATAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.03
18 8 0.25
19 22 0.69
20 1 0.03
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (18 bp):
ATAAAAATATAAATAAAA
Found at i:61558235 original size:6 final size:6
Alignment explanation
Indices: 61558192--61558248 Score: 60
Period size: 6 Copynumber: 9.2 Consensus size: 6
61558182 TTCTTAAAGC
* * * *
61558192 ATAAAA ATATAA ATAATAA ATCAAA ATCAAA ATAAAA ATAAAA AAATAAA
1 ATAAAA ATAAAA ATAA-AA ATAAAA ATAAAA ATAAAA ATAAAA ATA-AAA
61558242 ATAAAA A
1 ATAAAA A
61558249 AATTATAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
6 33 0.77
7 10 0.23
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (6 bp):
ATAAAA
Found at i:61558242 original size:25 final size:25
Alignment explanation
Indices: 61558192--61558248 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
61558182 TTCTTAAAGC
* *
61558192 ATAAAAATATAAATAATAAATCAAA
1 ATAAAAATAAAAATAAAAAATCAAA
*
61558217 ATCAAAATAAAAATAAAAAAAT-AAA
1 ATAAAAATAAAAAT-AAAAAATCAAA
61558242 ATAAAAA
1 ATAAAAA
61558249 AATTATAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 21 0.78
26 6 0.22
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (25 bp):
ATAAAAATAAAAATAAAAAATCAAA
Found at i:61558246 original size:13 final size:13
Alignment explanation
Indices: 61558194--61558251 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
61558184 CTTAAAGCAT
61558194 AAAAATATAAAT-A
1 AAAAATA-AAATAA
* *
61558207 ATAAATCAAAATCA
1 AAAAAT-AAAATAA
*
61558221 AAATA-AAAATAA
1 AAAAATAAAATAA
61558233 AAAAATAAAATAA
1 AAAAATAAAATAA
61558246 AAAAAT
1 AAAAAT
61558252 TATAATTTGG
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
12 10 0.27
13 22 0.59
14 5 0.14
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (13 bp):
AAAAATAAAATAA
Found at i:61568038 original size:18 final size:19
Alignment explanation
Indices: 61568015--61568050 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
61568005 GAATTATTTT
61568015 AGTTTACTTTT-TTTATTG
1 AGTTTACTTTTGTTTATTG
61568033 AGTTTACTTTTGTTTATT
1 AGTTTACTTTTGTTTATT
61568051 AATTTTAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.17, C:0.06, G:0.11, T:0.67
Consensus pattern (19 bp):
AGTTTACTTTTGTTTATTG
Found at i:61568057 original size:19 final size:18
Alignment explanation
Indices: 61568015--61568057 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
61568005 GAATTATTTT
*
61568015 AGTTTACTTTTTTTATTG
1 AGTTTACTTTTTTTATTA
61568033 AGTTTACTTTTGTTTATTA
1 AGTTTACTTTT-TTTATTA
*
61568052 ATTTTA
1 AGTTTA
61568058 ATCAAATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.21, C:0.05, G:0.09, T:0.65
Consensus pattern (18 bp):
AGTTTACTTTTTTTATTA
Found at i:61590029 original size:31 final size:32
Alignment explanation
Indices: 61589994--61590053 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 32
61589984 TTTTAGCTAG
* *
61589994 ATTTGGCCATTAACCTTTT-AAAAAGAGTCAA
1 ATTTGACCATCAACCTTTTAAAAAAGAGTCAA
* *
61590025 ATTTGACTATCAATCTTTTAAAAAAGAGT
1 ATTTGACCATCAACCTTTTAAAAAAGAGT
61590054 TGAAGTAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 15 0.62
32 9 0.38
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (32 bp):
ATTTGACCATCAACCTTTTAAAAAAGAGTCAA
Found at i:61595264 original size:24 final size:25
Alignment explanation
Indices: 61595219--61595271 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
61595209 AACTGATAAG
* *
61595219 TTTGGCATGTATATGTCATTTTGGT
1 TTTGGCATGTAAATGTCATTTTGGA
**
61595244 TTTGGCATG-AAATGTTGTTTTGGA
1 TTTGGCATGTAAATGTCATTTTGGA
61595268 TTTG
1 TTTG
61595272 AGGTACTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.17, C:0.06, G:0.26, T:0.51
Consensus pattern (25 bp):
TTTGGCATGTAAATGTCATTTTGGA
Found at i:61596161 original size:11 final size:11
Alignment explanation
Indices: 61596133--61596166 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
61596123 TGACCCACCC
61596133 ATATTAATTTT
1 ATATTAATTTT
61596144 GATATTAATTTT
1 -ATATTAATTTT
61596156 ATATT-ATTTT
1 ATATTAATTTT
61596166 A
1 A
61596167 AAATATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 6 0.27
11 5 0.23
12 11 0.50
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (11 bp):
ATATTAATTTT
Found at i:61596325 original size:30 final size:30
Alignment explanation
Indices: 61596289--61596351 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
61596279 ACTTAATAAG
*
61596289 CAAATGTCTCTAAAATATTAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
61596319 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
61596349 CAA
1 CAA
61596352 TAAAATAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.56, C:0.13, G:0.03, T:0.29
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:61603179 original size:26 final size:24
Alignment explanation
Indices: 61603131--61603176 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
61603121 AATAAATTAT
*
61603131 ATATATAAATAGATTTAAAAGAAG
1 ATATATAAACAGATTTAAAAGAAG
*
61603155 ATATATAAACATATTTAAAAGA
1 ATATATAAACAGATTTAAAAGA
61603177 GAATTTAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.30
Consensus pattern (24 bp):
ATATATAAACAGATTTAAAAGAAG
Found at i:61603470 original size:28 final size:25
Alignment explanation
Indices: 61603430--61603491 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
61603420 AATCATAGAC
* *
61603430 GATAAATTTTAAA-ATAATAATACAT
1 GATAAA-TTTAAATAAAAAAATACAT
*
61603455 GATGAATTTAAATAAAAAAATACAT
1 GATAAATTTAAATAAAAAAATACAT
61603480 GATAAATTTAAA
1 GATAAATTTAAA
61603492 ATATGTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 6 0.19
25 26 0.81
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.32
Consensus pattern (25 bp):
GATAAATTTAAATAAAAAAATACAT
Found at i:61603506 original size:22 final size:23
Alignment explanation
Indices: 61603478--61603560 Score: 98
Period size: 22 Copynumber: 3.7 Consensus size: 23
61603468 AAAAAAATAC
*
61603478 ATGATAAATTTAAAAT-ATGTTT
1 ATGATAAATTTAAAATAATATTT
*
61603500 ATGATAAATTTAAAATAATAATAT
1 ATGATAAATTTAAAATAAT-ATTT
* *
61603524 ATTATAAA-TTAAAATAATATTG
1 ATGATAAATTTAAAATAATATTT
*
61603546 ATGATAATTTTAAAA
1 ATGATAAATTTAAAA
61603561 ATATATTAAG
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
22 24 0.47
23 18 0.35
24 9 0.18
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (23 bp):
ATGATAAATTTAAAATAATATTT
Found at i:61603551 original size:46 final size:47
Alignment explanation
Indices: 61603430--61603561 Score: 133
Period size: 46 Copynumber: 2.8 Consensus size: 47
61603420 AATCATAGAC
* *
61603430 GATAAATTTTAAAATAATAATACATGATGAATTTAAATAAAAAAATACAT
1 GATAAA-TTTAAAATAAT-ATTCATGATAAATTTAAA-AAAAAAATACAT
* * * * *
61603480 GATAAATTTAAAAT-ATGTTTATGATAAATTTAAAATAATAATATAT
1 GATAAATTTAAAATAATATTCATGATAAATTTAAAAAAAAAATACAT
* * *
61603526 TATAAA-TTAAAATAATATTGATGATAATTTTAAAAA
1 GATAAATTTAAAATAATATTCATGATAAATTTAAAAA
61603562 TATATTAAGC
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
45 7 0.10
46 32 0.46
47 14 0.20
48 2 0.03
49 8 0.12
50 6 0.09
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (47 bp):
GATAAATTTAAAATAATATTCATGATAAATTTAAAAAAAAAATACAT
Done.