Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 101 of 211
Found at i:31747871 original size:10 final size:10
Alignment explanation
Indices: 31747856--31747881 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
31747846 GTAATTTTAA
31747856 ATATTATATC
1 ATATTATATC
31747866 ATATTATATC
1 ATATTATATC
31747876 ATATTA
1 ATATTA
31747882 ATCTACTTCA
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:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (10 bp):
ATATTATATC
Found at i:31750882 original size:21 final size:21
Alignment explanation
Indices: 31750858--31750903 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
31750848 CATTAGTTTT
31750858 ATAATTATAATTAA-TAAGCAA
1 ATAATTAT-ATTAATTAAGCAA
*
31750879 ATAATTATCTTAATTAAGCAA
1 ATAATTATATTAATTAAGCAA
31750900 ATAA
1 ATAA
31750904 AACATGATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.54, C:0.07, G:0.04, T:0.35
Consensus pattern (21 bp):
ATAATTATATTAATTAAGCAA
Found at i:31751542 original size:72 final size:72
Alignment explanation
Indices: 31751448--31751605 Score: 201
Period size: 72 Copynumber: 2.2 Consensus size: 72
31751438 AAAATAAGCA
** * * * * * *
31751448 TTAGCGGCGTTTTCCATAAAGCGCCGC-AAAATACCTAATCCCAACGACGCCGTTTTTCGAGCTT
1 TTAGCGGCGTTTTTAAAAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTCT-GAGCTT
31751512 TCGGGGAT
65 TCGGGGAT
* *
31751520 TTAGCGGCGTTTTTAAAAAAGCGTCACAAAAAAACGTAAGCCCAACGACGCCATTTCTGAGCTTT
1 TTAGCGGCGTTTTTAAAAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTCTGAGCTTT
31751585 CGGGGAT
66 CGGGGAT
*
31751592 TTAGCAGCGTTTTT
1 TTAGCGGCGTTTTT
31751606 GGGTAAGCGC
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
72 49 0.66
73 25 0.34
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (72 bp):
TTAGCGGCGTTTTTAAAAAAGCGCCACAAAAAAACCTAAGCCCAACGACGCCATTTCTGAGCTTT
CGGGGAT
Found at i:31751805 original size:73 final size:74
Alignment explanation
Indices: 31751648--31751837 Score: 215
Period size: 74 Copynumber: 2.6 Consensus size: 74
31751638 GGTGTTTACG
* * * *
31751648 GTAAAGCGTCGCAAAGAA-ACATAAGCCCAACGACGCCGTTTTCTGAGGTTTTCGCGGATTTAGC
1 GTAAAGCGCCGCAAA-AATACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTTCGCGAATTTAGC
31751712 GGCGTTTTTA
65 GGCGTTTTTA
* * * * * * * * *
31751722 GTTAAGCGCCGTAAAAATACTTAAGCCTAACGATGCTGTTTTTTGAGCTTTTGGC-AATTTAGTG
1 GTAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTTCGCGAATTTAGCG
31751786 GCGTTTTTTA
66 GCG-TTTTTA
*
31751796 G-AAAGCGCCGCAAAAATACCTAAGCCCAACAACGCCGTTTTC
1 GTAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTC
31751838 GGGGGATTTA
Statistics
Matches: 94, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
73 45 0.48
74 49 0.52
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (74 bp):
GTAAAGCGCCGCAAAAATACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTTCGCGAATTTAGCG
GCGTTTTTA
Found at i:31752560 original size:6 final size:6
Alignment explanation
Indices: 31752549--31752587 Score: 60
Period size: 6 Copynumber: 6.2 Consensus size: 6
31752539 TAAGGTTTAG
31752549 GGGTTA GGGTTA GGGTTA GGGTTAA GGGTTA GGGGTTA G
1 GGGTTA GGGTTA GGGTTA GGGTT-A GGGTTA -GGGTTA G
31752588 AAGTTAACAG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 19 0.61
7 12 0.39
ACGTcount: A:0.18, C:0.00, G:0.51, T:0.31
Consensus pattern (6 bp):
GGGTTA
Found at i:31753877 original size:11 final size:11
Alignment explanation
Indices: 31753863--31753978 Score: 119
Period size: 11 Copynumber: 11.4 Consensus size: 11
31753853 AAAATTAAAA
31753863 AAAAATATTTT
1 AAAAATATTTT
31753874 AAAAATATTTT
1 AAAAATATTTT
31753885 --AAA-A--TT
1 AAAAATATTTT
31753891 AAAAATATTTT
1 AAAAATATTTT
31753902 AAAAATATTTT
1 AAAAATATTTT
31753913 AAAAATATTTT
1 AAAAATATTTT
31753924 AAAAATATTTT
1 AAAAATATTTT
31753935 --AAA-A--TT
1 AAAAATATTTT
**
31753941 AAAAA-ATTAAA
1 AAAAATATT-TT
31753952 AAAAAGTATTTT
1 AAAAA-TATTTT
31753964 AAAAATATTTT
1 AAAAATATTTT
31753975 AAAA
1 AAAA
31753979 TTAAAAAAAT
Statistics
Matches: 89, Mismatches: 4, Indels: 24
0.76 0.03 0.21
Matches are distributed among these distances:
6 4 0.04
8 9 0.10
9 7 0.08
11 61 0.69
12 5 0.06
13 3 0.03
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:31753895 original size:39 final size:39
Alignment explanation
Indices: 31753850--31754025 Score: 142
Period size: 39 Copynumber: 4.2 Consensus size: 39
31753840 CATTTTTATT
31753850 TTAAAAATTAAAAAAAAATATTTTAAAAATATTTTAAAA
1 TTAAAAATTAAAAAAAAATATTTTAAAAATATTTTAAAA
31753889 TTAAAAATATTTTAAAAATATTTTAAAAATATTTTAAAAATATTTT-AAA
1 TT-AAAA-A--TT--AAA-A----AAAAATATTTTAAAAATATTTTAAAA
* * *
31753938 ATTAAAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAA
1 TTAAA--AATTAAAAAAAAATATTTTAAAAATATTTTAAAA
* * *
31753979 TTAAAAA--AATTAAAAAAGTATGTAAAAAATATTTTAAAA
1 TTAAAAATTAA--AAAAAAATATTTTAAAAATATTTTAAAA
31754018 TTAAAAAT
1 TTAAAAAT
31754026 ATATATTTAT
Statistics
Matches: 113, Mismatches: 7, Indels: 33
0.74 0.05 0.22
Matches are distributed among these distances:
37 2 0.02
39 37 0.33
40 25 0.22
41 7 0.06
43 2 0.02
44 1 0.01
45 6 0.05
46 1 0.01
47 2 0.02
48 2 0.02
49 5 0.04
50 23 0.20
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (39 bp):
TTAAAAATTAAAAAAAAATATTTTAAAAATATTTTAAAA
Found at i:31753901 original size:50 final size:50
Alignment explanation
Indices: 31753846--31753945 Score: 157
Period size: 50 Copynumber: 2.0 Consensus size: 50
31753836 GGCCCATTTT
31753846 TATTTTAAAAAT-TAAAAAAAAATATTTTAAAAATATTTTAAAATTAAAAA
1 TATTTTAAAAATAT-AAAAAAAATATTTTAAAAATATTTTAAAATTAAAAA
***
31753896 TATTTTAAAAATATTTTAAAAATATTTTAAAAATATTTTAAAATTAAAAA
1 TATTTTAAAAATATAAAAAAAATATTTTAAAAATATTTTAAAATTAAAAA
31753946 ATTAAAAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 45 0.98
51 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (50 bp):
TATTTTAAAAATATAAAAAAAATATTTTAAAAATATTTTAAAATTAAAAA
Found at i:31753956 original size:50 final size:49
Alignment explanation
Indices: 31753863--31754017 Score: 197
Period size: 50 Copynumber: 3.1 Consensus size: 49
31753853 AAAATTAAAA
*
31753863 AAAAATATTTTAAAAATATTTTAAAATTAAAAATATTTTAAAAATATTTT
1 AAAAATATTTTAAAAATATTTTAAAATTAAAAA-ATTTAAAAAATATTTT
*
31753913 AAAAATATTTTAAAAATATTTTAAAATTAAAAAATTAAAAAAAAGTATTTT
1 AAAAATATTTTAAAAATATTTTAAAATTAAAAAATT-TAAAAAA-TATTTT
***
31753964 AAAAATATTTT-AAAAT-TAAAAAAATTAAAAAAGTATGTAAAAAATATTTT
1 AAAAATATTTTAAAAATATTTTAAAATTAAAAAA-T-T-TAAAAAATATTTT
31754014 AAAA
1 AAAA
31754018 TTAAAAATAT
Statistics
Matches: 94, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
49 16 0.17
50 54 0.57
51 24 0.26
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (49 bp):
AAAAATATTTTAAAAATATTTTAAAATTAAAAAATTTAAAAAATATTTT
Found at i:31753962 original size:90 final size:90
Alignment explanation
Indices: 31753852--31754017 Score: 271
Period size: 90 Copynumber: 1.8 Consensus size: 90
31753842 TTTTTATTTT
* * * *
31753852 AAAAATTAAAAAAAAATATTTTAAAAATATTTTAAAATTAAAAATATTTTAAAAA-TATTTTAAA
1 AAAAATTAAAAAAAAATATTTTAAAAATATTTTAAAATTAAAAA-AATTAAAAAAGTATGTAAAA
31753916 AATATTTTAAAAATATTTTAAAATTA
65 AATATTTTAAAAATATTTTAAAATTA
*
31753942 AAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAATTAAAAAAATTAAAAAAGTATGTAAAAA
1 AAAAATTAAAAAAAAATATTTTAAAAATATTTTAAAATTAAAAAAATTAAAAAAGTATGTAAAAA
31754007 ATATTTTAAAA
66 ATATTTTAAAA
31754018 TTAAAAATAT
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
89 8 0.11
90 62 0.89
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (90 bp):
AAAAATTAAAAAAAAATATTTTAAAAATATTTTAAAATTAAAAAAATTAAAAAAGTATGTAAAAA
ATATTTTAAAAATATTTTAAAATTA
Found at i:31754027 original size:17 final size:17
Alignment explanation
Indices: 31753872--31753905 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
31753862 AAAAAATATT
31753872 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
31753889 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
31753906 ATATTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:31754894 original size:23 final size:23
Alignment explanation
Indices: 31754864--31754908 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
31754854 GTGAAACGAC
31754864 GTCGTTTCTATACCGTGTTTTAT
1 GTCGTTTCTATACCGTGTTTTAT
*
31754887 GTCGTTTCTGTACCGTGTTTTA
1 GTCGTTTCTATACCGTGTTTTA
31754909 ACTTATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.11, C:0.18, G:0.20, T:0.51
Consensus pattern (23 bp):
GTCGTTTCTATACCGTGTTTTAT
Found at i:31756191 original size:25 final size:25
Alignment explanation
Indices: 31756156--31756207 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
31756146 TATCATAACT
*
31756156 TATATATAAACTTACATAA-TATATA
1 TATATAGAAACTTACATAACT-TATA
*
31756181 TATATAGAAACTTGCATAACTTATA
1 TATATAGAAACTTACATAACTTATA
31756206 TA
1 TA
31756208 ATAACATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (25 bp):
TATATAGAAACTTACATAACTTATA
Found at i:31756207 original size:21 final size:21
Alignment explanation
Indices: 31756149--31756207 Score: 55
Period size: 25 Copynumber: 2.6 Consensus size: 21
31756139 TAATATATAT
*
31756149 CATAACTTATATATAAACTTA
1 CATAACTTATATAGAAACTTA
* *
31756170 CATAATATATATATATAGAAACTTG
1 CAT-A-A-CT-TATATAGAAACTTA
31756195 CATAACTTATATA
1 CATAACTTATATA
31756208 ATAACATAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
21 9 0.30
22 2 0.07
23 2 0.07
24 2 0.07
25 15 0.50
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.37
Consensus pattern (21 bp):
CATAACTTATATAGAAACTTA
Found at i:31756227 original size:29 final size:29
Alignment explanation
Indices: 31756195--31756288 Score: 79
Period size: 27 Copynumber: 3.2 Consensus size: 29
31756185 TAGAAACTTG
31756195 CATAACTTATATAATAACATAATAATTAA
1 CATAACTTATATAATAACATAATAATTAA
* *
31756224 CAT-AC-AATATAGA-AACATATATAGAAACTT-G
1 CATAACTTATATA-ATAACATA-AT---AA-TTAA
*
31756255 CATAACTTATATAATAACATAATAACTAA
1 CATAACTTATATAATAACATAATAATTAA
31756284 CATAA
1 CATAA
31756289 TACATAACCT
Statistics
Matches: 50, Mismatches: 5, Indels: 20
0.67 0.07 0.27
Matches are distributed among these distances:
27 11 0.22
28 6 0.12
29 10 0.20
31 5 0.10
32 7 0.14
33 11 0.22
ACGTcount: A:0.54, C:0.13, G:0.03, T:0.30
Consensus pattern (29 bp):
CATAACTTATATAATAACATAATAATTAA
Found at i:31756301 original size:9 final size:9
Alignment explanation
Indices: 31756276--31756532 Score: 291
Period size: 9 Copynumber: 29.7 Consensus size: 9
31756266 TAATAACATA
*
31756276 ATAACTAAC
1 ATAACTTAC
31756285 ATAA--TAC
1 ATAACTTAC
*
31756292 ATAACCTAC
1 ATAACTTAC
31756301 ATAACTTAC
1 ATAACTTAC
* *
31756310 ATAAATTAA
1 ATAACTTAC
31756319 ATAACTTAC
1 ATAACTTAC
31756328 ATAACTTAC
1 ATAACTTAC
*
31756337 ATAACTTAA
1 ATAACTTAC
31756346 ATAACTTAC
1 ATAACTTAC
31756355 ATAA--TAC
1 ATAACTTAC
*
31756362 ATAACCTAC
1 ATAACTTAC
*
31756371 CTAACTTAC
1 ATAACTTAC
* *
31756380 ATTATTTAC
1 ATAACTTAC
31756389 ATAA--TAC
1 ATAACTTAC
** *
31756396 ATTGCCTAC
1 ATAACTTAC
31756405 ATAACTTAC
1 ATAACTTAC
* *
31756414 ATAAATTAA
1 ATAACTTAC
31756423 ATAACTTAC
1 ATAACTTAC
31756432 ATAACTTAC
1 ATAACTTAC
31756441 ATAACTTAC
1 ATAACTTAC
* *
31756450 ATAAATTAA
1 ATAACTTAC
31756459 ATAACTTAC
1 ATAACTTAC
31756468 ATAACTTAC
1 ATAACTTAC
*
31756477 ATAACTTAA
1 ATAACTTAC
31756486 ATAACTTAC
1 ATAACTTAC
31756495 ATAACTTAC
1 ATAACTTAC
31756504 ATAA--TAC
1 ATAACTTAC
31756511 ATAA--TAC
1 ATAACTTAC
31756518 ATAACTTAC
1 ATAACTTAC
31756527 ATAACT
1 ATAACT
31756533 CATTTATGGT
Statistics
Matches: 211, Mismatches: 29, Indels: 16
0.82 0.11 0.06
Matches are distributed among these distances:
7 32 0.15
9 179 0.85
ACGTcount: A:0.48, C:0.19, G:0.00, T:0.32
Consensus pattern (9 bp):
ATAACTTAC
Found at i:31760202 original size:28 final size:27
Alignment explanation
Indices: 31760169--31760267 Score: 119
Period size: 28 Copynumber: 3.6 Consensus size: 27
31760159 TAATGAGATT
31760169 AGCACTAAGTGTGCGAGTTTAATTGAA
1 AGCACTAAGTGTGCGAGTTTAATTGAA
* **
31760196 ATGCACTAAGTGTGCGAGTATAAGGGTAA
1 A-GCACTAAGTGTGCGAGTTTAATTG-AA
*
31760225 AGCACTAAGTGTGCGAGTTTGATT-ATTA
1 AGCACTAAGTGTGCGAGTTTAATTGA--A
31760253 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
31760268 TACTTATTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
26 1 0.02
27 1 0.02
28 56 0.92
29 3 0.05
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.28
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTTAATTGAA
Found at i:31761301 original size:22 final size:24
Alignment explanation
Indices: 31761253--31761696 Score: 186
Period size: 24 Copynumber: 18.5 Consensus size: 24
31761243 CCAAATTTGA
31761253 TGTCCATTTTGAGTGTATTGATGC
1 TGTCCATTTTGAGTGTATTGATGC
* *
31761277 TGTCCATTTT-AATGTA-TAATGC
1 TGTCCATTTTGAGTGTATTGATGC
31761299 TGTCCAATTTTGAGTGTATTGATGC
1 TGTCC-ATTTTGAGTGTATTGATGC
* * *
31761324 TGCCCATTTT-AATGTA-TAATGC
1 TGTCCATTTTGAGTGTATTGATGC
*
31761346 TATCCAATTTTGAGTGTATTGATGC
1 TGTCC-ATTTTGAGTGTATTGATGC
* * *
31761371 TGTCCATGCTGTTCAAT-T-TTGAGTGTAT
1 TGTCCAT--T-TTGAGTGTATTGA-TG--C
* * ** * * *
31761399 TGATGC-TGTCCATTTTAATGTATAATGC
1 TG-TCCATTTTGAGTGT-A--T-TGATGC
31761427 TGTCCAATTTTGAGTGTATTGATGC
1 TGTCC-ATTTTGAGTGTATTGATGC
* *
31761452 TGTCCATTTT-AATGTA-TAATGC
1 TGTCCATTTTGAGTGTATTGATGC
31761474 TGTCCAATTTTGAGTGTATTGATGC
1 TGTCC-ATTTTGAGTGTATTGATGC
* * *
31761499 TGTCCATTTT-AATATA-TAATGC
1 TGTCCATTTTGAGTGTATTGATGC
* * * *
31761521 TGTCCAATTGTGAGTATATTTAAGC
1 TGTCC-ATTTTGAGTGTATTGATGC
* * *
31761546 TGTCTAATTTGA-TGTA-TAATGC
1 TGTCCATTTTGAGTGTATTGATGC
* * * *
31761568 TGTCCAATTGTGAGTATATTTAAGC
1 TGTCC-ATTTTGAGTGTATTGATGC
* * *
31761593 TGTCTAATTTGA-TGTA-TAATGC
1 TGTCCATTTTGAGTGTATTGATGC
* * * *
31761615 TGTCCAATTTTGGGTATATTTAAGC
1 TGTCC-ATTTTGAGTGTATTGATGC
* * *
31761640 TGTCTAATTTGA-TGTA-TAATGC
1 TGTCCATTTTGAGTGTATTGATGC
**
31761662 TGTCCATTTTGAGCATATT-ATTGC
1 TGTCCATTTTGAGTGTATTGA-TGC
*
31761686 TGTCCAATTTG
1 TGTCCATTTTG
31761697 TTGAATAATT
Statistics
Matches: 310, Mismatches: 74, Indels: 72
0.68 0.16 0.16
Matches are distributed among these distances:
22 68 0.22
23 60 0.19
24 82 0.26
25 70 0.23
26 6 0.02
27 6 0.02
28 6 0.02
29 7 0.02
30 3 0.01
31 2 0.01
ACGTcount: A:0.24, C:0.13, G:0.19, T:0.44
Consensus pattern (24 bp):
TGTCCATTTTGAGTGTATTGATGC
Found at i:31761312 original size:47 final size:47
Alignment explanation
Indices: 31761253--31761377 Score: 225
Period size: 47 Copynumber: 2.7 Consensus size: 47
31761243 CCAAATTTGA
31761253 TGTCC-ATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGC
1 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGC
*
31761299 TGTCCAATTTTGAGTGTATTGATGCTGCCCATTTTAATGTATAATGC
1 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGC
*
31761346 TATCCAATTTTGAGTGTATTGATGCTGTCCAT
1 TGTCCAATTTTGAGTGTATTGATGCTGTCCAT
31761378 GCTGTTCAAT
Statistics
Matches: 75, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
46 5 0.07
47 70 0.93
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.44
Consensus pattern (47 bp):
TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGC
Found at i:31761370 original size:94 final size:94
Alignment explanation
Indices: 31761253--31761715 Score: 517
Period size: 94 Copynumber: 5.1 Consensus size: 94
31761243 CCAAATTTGA
*
31761253 TGTCC-ATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGAGTGTA
1 TGTCCAATTTTGAGTGTATTGATGCTGTCCAATTTAATGTATAATGCTGTCCAATTTTGAGTGTA
*
31761317 TTGATGCTGCCCATTTTAATGTATAATGC
66 TTGATGCTGTCCATTTTAATGTATAATGC
* *
31761346 TATCCAATTTTGAGTGTATTGATGCTGTCC-------------ATGCTGTTCAATTTTGAGTGTA
1 TGTCCAATTTTGAGTGTATTGATGCTGTCCAATTTAATGTATAATGCTGTCCAATTTTGAGTGTA
31761398 TTGATGCTGTCCATTTTAATGTATAATGC
66 TTGATGCTGTCCATTTTAATGTATAATGC
*
31761427 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGAGTGTA
1 TGTCCAATTTTGAGTGTATTGATGCTGTCCAATTTAATGTATAATGCTGTCCAATTTTGAGTGTA
*
31761492 TTGATGCTGTCCATTTTAATATATAATGC
66 TTGATGCTGTCCATTTTAATGTATAATGC
* * * * * * * *
31761521 TGTCCAATTGTGAGTATATTTAAGCTGTCTAATTTGATGTATAATGCTGTCCAATTGTGAGTATA
1 TGTCCAATTTTGAGTGTATTGATGCTGTCCAATTTAATGTATAATGCTGTCCAATTTTGAGTGTA
* * * * *
31761586 TTTAAGCTGTCTAATTTGATGTATAATGC
66 TTGATGCTGTCCATTTTAATGTATAATGC
* * * * * * **
31761615 TGTCCAATTTTGGGTATATTTAAGCTGTCTAATTTGATGTATAATGCTGTCC-ATTTTGAGCATA
1 TGTCCAATTTTGAGTGTATTGATGCTGTCCAATTTAATGTATAATGCTGTCCAATTTTGAGTGTA
* ** *
31761679 TT-ATTGCTGTCCAATTTGTTGAATAATTGC
66 TTGA-TGCTGTCCATTTTAATGTATAA-TGC
31761709 TGTCCAA
1 TGTCCAA
31761716 AACAGAGTTG
Statistics
Matches: 325, Mismatches: 29, Indels: 31
0.84 0.08 0.08
Matches are distributed among these distances:
81 78 0.24
92 1 0.00
93 34 0.10
94 212 0.65
ACGTcount: A:0.24, C:0.13, G:0.19, T:0.44
Consensus pattern (94 bp):
TGTCCAATTTTGAGTGTATTGATGCTGTCCAATTTAATGTATAATGCTGTCCAATTTTGAGTGTA
TTGATGCTGTCCATTTTAATGTATAATGC
Found at i:31761433 original size:81 final size:81
Alignment explanation
Indices: 31761295--31761458 Score: 301
Period size: 81 Copynumber: 2.0 Consensus size: 81
31761285 TTAATGTATA
31761295 ATGCTGTCCAATTTTGAGTGTATTGATGCTGCCCATTTTAATGTATAATGCTATCCAATTTTGAG
1 ATGCTGTCCAATTTTGAGTGTATTGATGCTGCCCATTTTAATGTATAATGCTATCCAATTTTGAG
31761360 TGTATTGATGCTGTCC
66 TGTATTGATGCTGTCC
* * *
31761376 ATGCTGTTCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGAG
1 ATGCTGTCCAATTTTGAGTGTATTGATGCTGCCCATTTTAATGTATAATGCTATCCAATTTTGAG
31761441 TGTATTGATGCTGTCC
66 TGTATTGATGCTGTCC
31761457 AT
1 AT
31761459 TTTAATGTAT
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.43
Consensus pattern (81 bp):
ATGCTGTCCAATTTTGAGTGTATTGATGCTGCCCATTTTAATGTATAATGCTATCCAATTTTGAG
TGTATTGATGCTGTCC
Found at i:31761435 original size:128 final size:128
Alignment explanation
Indices: 31761258--31761505 Score: 478
Period size: 128 Copynumber: 1.9 Consensus size: 128
31761248 TTTGATGTCC
31761258 ATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGAGTGTATTGATG
1 ATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGAGTGTATTGATG
31761323 CTGCCCATTTTAATGTATAATGCTATCCAATTTTGAGTGTATTGATGCTGTCCATGCTGTTCA
66 CTGCCCATTTTAATGTATAATGCTATCCAATTTTGAGTGTATTGATGCTGTCCATGCTGTTCA
31761386 ATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGAGTGTATTGATG
1 ATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGAGTGTATTGATG
* *
31761451 CTGTCCATTTTAATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCAT
66 CTGCCCATTTTAATGTATAATGCTATCCAATTTTGAGTGTATTGATGCTGTCCAT
31761506 TTTAATATAT
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 118 1.00
ACGTcount: A:0.23, C:0.13, G:0.20, T:0.44
Consensus pattern (128 bp):
ATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGAGTGTATTGATG
CTGCCCATTTTAATGTATAATGCTATCCAATTTTGAGTGTATTGATGCTGTCCATGCTGTTCA
Found at i:31761445 original size:47 final size:47
Alignment explanation
Indices: 31761376--31761715 Score: 414
Period size: 47 Copynumber: 7.2 Consensus size: 47
31761366 GATGCTGTCC
* * * *
31761376 ATGCTGTTCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATA
1 ATGCTGTCCAATTTTGAGTATATTGATGCTGTCCAATTTGATGTATA
* * *
31761423 ATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATA
1 ATGCTGTCCAATTTTGAGTATATTGATGCTGTCCAATTTGATGTATA
* * * *
31761470 ATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATATATA
1 ATGCTGTCCAATTTTGAGTATATTGATGCTGTCCAATTTGATGTATA
* * * *
31761517 ATGCTGTCCAATTGTGAGTATATTTAAGCTGTCTAATTTGATGTATA
1 ATGCTGTCCAATTTTGAGTATATTGATGCTGTCCAATTTGATGTATA
* * * *
31761564 ATGCTGTCCAATTGTGAGTATATTTAAGCTGTCTAATTTGATGTATA
1 ATGCTGTCCAATTTTGAGTATATTGATGCTGTCCAATTTGATGTATA
* * * *
31761611 ATGCTGTCCAATTTTGGGTATATTTAAGCTGTCTAATTTGATGTATA
1 ATGCTGTCCAATTTTGAGTATATTGATGCTGTCCAATTTGATGTATA
* * *
31761658 ATGCTGTCC-ATTTTGAGCATATT-ATTGCTGTCCAATTTGTTGAATA
1 ATGCTGTCCAATTTTGAGTATATTGA-TGCTGTCCAATTTGATGTATA
31761704 ATTGCTGTCCAA
1 A-TGCTGTCCAA
31761716 AACAGAGTTG
Statistics
Matches: 272, Mismatches: 18, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
45 1 0.00
46 30 0.11
47 240 0.88
48 1 0.00
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (47 bp):
ATGCTGTCCAATTTTGAGTATATTGATGCTGTCCAATTTGATGTATA
Found at i:31761641 original size:25 final size:25
Alignment explanation
Indices: 31761378--31761695 Score: 157
Period size: 25 Copynumber: 13.5 Consensus size: 25
31761368 TGCTGTCCAT
* * * *
31761378 GCTGTTCAATTTTGAGTGTATTGAT
1 GCTGTCCAATTTTGAGTATATTTAA
* *
31761403 GCTGTCC-ATTTTAATGTATA---AT
1 GCTGTCCAATTTTGA-GTATATTTAA
* * *
31761425 GCTGTCCAATTTTGAGTGTATTGAT
1 GCTGTCCAATTTTGAGTATATTTAA
* *
31761450 GCTGTCC-ATTTTAATGTATA---AT
1 GCTGTCCAATTTTGA-GTATATTTAA
* * *
31761472 GCTGTCCAATTTTGAGTGTATTGAT
1 GCTGTCCAATTTTGAGTATATTTAA
*
31761497 GCTGTCC-ATTTT-A--ATATATAA
1 GCTGTCCAATTTTGAGTATATTTAA
*
31761518 TGCTGTCCAATTGTGAGTATATTTAA
1 -GCTGTCCAATTTTGAGTATATTTAA
* *
31761544 GCTGTCTAA-TTTGATGTATA---AT
1 GCTGTCCAATTTTGA-GTATATTTAA
*
31761566 GCTGTCCAATTGTGAGTATATTTAA
1 GCTGTCCAATTTTGAGTATATTTAA
* *
31761591 GCTGTCTAA-TTTGATGTATA---AT
1 GCTGTCCAATTTTGA-GTATATTTAA
*
31761613 GCTGTCCAATTTTGGGTATATTTAA
1 GCTGTCCAATTTTGAGTATATTTAA
* *
31761638 GCTGTCTAA-TTTGATGTATA---AT
1 GCTGTCCAATTTTGA-GTATATTTAA
* *
31761660 GCTGTCC-ATTTTGAGCATA-TTATT
1 GCTGTCCAATTTTGAGTATATTTA-A
31761684 GCTGTCCAATTT
1 GCTGTCCAATTT
31761696 GTTGAATAAT
Statistics
Matches: 230, Mismatches: 32, Indels: 62
0.71 0.10 0.19
Matches are distributed among these distances:
21 9 0.04
22 73 0.32
23 26 0.11
24 38 0.17
25 77 0.33
26 7 0.03
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (25 bp):
GCTGTCCAATTTTGAGTATATTTAA
Found at i:31766224 original size:27 final size:27
Alignment explanation
Indices: 31766193--31766370 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
31766183 TAAATTGTAC
31766193 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
31766220 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31766246 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
31766274 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
31766302 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31766329 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
31766356 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31766371 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:31766307 original size:82 final size:81
Alignment explanation
Indices: 31766194--31766349 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
31766184 AAATTGTACA
* *
31766194 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
31766258 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
31766275 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
31766340 TGCGAGTTGA
65 TGCGAATTGA
31766350 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:31766361 original size:82 final size:81
Alignment explanation
Indices: 31766190--31766370 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
31766180 GATTAAATTG
* *
31766190 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
31766255 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
31766271 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
31766335 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
31766353 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
31766371 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:31774332 original size:27 final size:27
Alignment explanation
Indices: 31774298--31774476 Score: 198
Period size: 27 Copynumber: 6.6 Consensus size: 27
31774288 TTAATTGTAC
31774298 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
31774325 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31774351 ATGCACTAAGTTGTGCGAATTGACCATGC
1 A-GCACTAAG-TGTGCGATTTGACTATGT
*
31774380 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
31774408 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
31774435 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
31774462 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31774477 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 84 0.65
28 45 0.35
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:31774366 original size:55 final size:55
Alignment explanation
Indices: 31774298--31774476 Score: 193
Period size: 55 Copynumber: 3.3 Consensus size: 55
31774288 TTAATTGTAC
*
31774298 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGA-AATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGAATGAATATGT
* * ** ** *
31774351 ATGCACTAAGTTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
1 A-GCACTAAG-TGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGAATGAATATGT
* * * * *
31774408 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGAATGAATATGT
*
31774462 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
31774477 GACTCAATAT
Statistics
Matches: 106, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
53 1 0.01
54 30 0.28
55 59 0.56
56 15 0.14
57 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAGAATGAATATGT
Found at i:31779609 original size:28 final size:27
Alignment explanation
Indices: 31779547--31779620 Score: 85
Period size: 28 Copynumber: 2.7 Consensus size: 27
31779537 TAATGAGATT
* **
31779547 AGCACTAAGTGTGCGAGTTTAATTGAA
1 AGCACTAAGTGTGCGAGTATAAGGGAA
**
31779574 ATATACTAAGTGTGCGAGTATAAGGGTAA
1 A-GCACTAAGTGTGCGAGTATAAGGG-AA
31779603 AGCACTAAGTGTGCGAGT
1 AGCACTAAGTGTGCGAGT
31779621 TTGATTATTA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
27 1 0.03
28 34 0.89
29 3 0.08
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.27
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTATAAGGGAA
Found at i:31780688 original size:47 final size:47
Alignment explanation
Indices: 31780629--31780753 Score: 234
Period size: 47 Copynumber: 2.7 Consensus size: 47
31780619 CCAAATTTGA
31780629 TGTCC-ATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGC
1 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGC
*
31780675 TGTCCAATTTTGAGTGTATTGATGCTGCCCATTTTAATGTATAATGC
1 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGC
31780722 TGTCCAATTTTGAGTGTATTGATGCTGTCCAT
1 TGTCCAATTTTGAGTGTATTGATGCTGTCCAT
31780754 GCTGTTCAAT
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
46 5 0.07
47 71 0.93
ACGTcount: A:0.22, C:0.14, G:0.20, T:0.44
Consensus pattern (47 bp):
TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGC
Found at i:31780740 original size:94 final size:94
Alignment explanation
Indices: 31780629--31781091 Score: 517
Period size: 94 Copynumber: 5.1 Consensus size: 94
31780619 CCAAATTTGA
*
31780629 TGTCC-ATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGAGTGTA
1 TGTCCAATTTTGAGTGTATTGATGCTGTCCAATTTAATGTATAATGCTGTCCAATTTTGAGTGTA
*
31780693 TTGATGCTGCCCATTTTAATGTATAATGC
66 TTGATGCTGTCCATTTTAATGTATAATGC
*
31780722 TGTCCAATTTTGAGTGTATTGATGCTGTCC-------------ATGCTGTTCAATTTTGAGTGTA
1 TGTCCAATTTTGAGTGTATTGATGCTGTCCAATTTAATGTATAATGCTGTCCAATTTTGAGTGTA
31780774 TTGATGCTGTCCATTTTAATGTATAATGC
66 TTGATGCTGTCCATTTTAATGTATAATGC
* *
31780803 TGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTGTAATGCTGTCCAATTTTGAGTGTA
1 TGTCCAATTTTGAGTGTATTGATGCTGTCCAATTTAATGTATAATGCTGTCCAATTTTGAGTGTA
*
31780868 TTGATGCTGTCCATTTTAATATATAATGC
66 TTGATGCTGTCCATTTTAATGTATAATGC
* * * * * * * *
31780897 TGTCCAATTGTGAGTATATTTAAGCTGTCTAATTTGATGTATAATGCTGTCCAATTGTGAGTATA
1 TGTCCAATTTTGAGTGTATTGATGCTGTCCAATTTAATGTATAATGCTGTCCAATTTTGAGTGTA
* * * * *
31780962 TTTAAGCTGTCTAATTTGATGTATAATGC
66 TTGATGCTGTCCATTTTAATGTATAATGC
* * * * * * **
31780991 TGTCCAATTTTGGGTATATTTAAGCTGTCTAATTTGATGTATAATGCTGTCC-ATTTTGAGCATA
1 TGTCCAATTTTGAGTGTATTGATGCTGTCCAATTTAATGTATAATGCTGTCCAATTTTGAGTGTA
* ** *
31781055 TT-ATTGCTGTCCAATTTGTTGAATAATTGC
66 TTGA-TGCTGTCCATTTTAATGTATAA-TGC
31781085 TGTCCAA
1 TGTCCAA
31781092 AACAGAGTTG
Statistics
Matches: 326, Mismatches: 28, Indels: 31
0.85 0.07 0.08
Matches are distributed among these distances:
81 79 0.24
92 1 0.00
93 35 0.11
94 211 0.65
ACGTcount: A:0.24, C:0.13, G:0.19, T:0.44
Consensus pattern (94 bp):
TGTCCAATTTTGAGTGTATTGATGCTGTCCAATTTAATGTATAATGCTGTCCAATTTTGAGTGTA
TTGATGCTGTCCATTTTAATGTATAATGC
Found at i:31780764 original size:34 final size:34
Alignment explanation
Indices: 31780718--31780787 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
31780708 TTAATGTATA
31780718 ATGCTGTCCAATTTTGAGTGTATTGATGCTGTCC
1 ATGCTGTCCAATTTTGAGTGTATTGATGCTGTCC
*
31780752 ATGCTGTTCAATTTTGAGTGTATTGATGCTGTCC
1 ATGCTGTCCAATTTTGAGTGTATTGATGCTGTCC
31780786 AT
1 AT
31780788 TTTAATGTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.19, C:0.16, G:0.23, T:0.43
Consensus pattern (34 bp):
ATGCTGTCCAATTTTGAGTGTATTGATGCTGTCC
Found at i:31780805 original size:22 final size:22
Alignment explanation
Indices: 31780777--31780902 Score: 144
Period size: 22 Copynumber: 5.5 Consensus size: 22
31780767 GAGTGTATTG
31780777 ATGCTGTCCATTTTAATGTATA
1 ATGCTGTCCATTTTAATGTATA
* *
31780799 ATGCTGTCCAATTTTGAGTGTATTG
1 ATGCTGTCC-ATTTT-AATGTA-TA
*
31780824 ATGCTGTCCATTTTAATGTGTA
1 ATGCTGTCCATTTTAATGTATA
* *
31780846 ATGCTGTCCAATTTTGAGTGTATTG
1 ATGCTGTCC-ATTTT-AATGTA-TA
*
31780871 ATGCTGTCCATTTTAATATATA
1 ATGCTGTCCATTTTAATGTATA
31780893 ATGCTGTCCA
1 ATGCTGTCCA
31780903 ATTGTGAGTA
Statistics
Matches: 87, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
22 30 0.34
23 18 0.21
24 19 0.22
25 20 0.23
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.44
Consensus pattern (22 bp):
ATGCTGTCCATTTTAATGTATA
Found at i:31780806 original size:81 final size:81
Alignment explanation
Indices: 31780671--31780834 Score: 310
Period size: 81 Copynumber: 2.0 Consensus size: 81
31780661 TTAATGTATA
31780671 ATGCTGTCCAATTTTGAGTGTATTGATGCTGCCCATTTTAATGTATAATGCTGTCCAATTTTGAG
1 ATGCTGTCCAATTTTGAGTGTATTGATGCTGCCCATTTTAATGTATAATGCTGTCCAATTTTGAG
31780736 TGTATTGATGCTGTCC
66 TGTATTGATGCTGTCC
* *
31780752 ATGCTGTTCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGAG
1 ATGCTGTCCAATTTTGAGTGTATTGATGCTGCCCATTTTAATGTATAATGCTGTCCAATTTTGAG
31780817 TGTATTGATGCTGTCC
66 TGTATTGATGCTGTCC
31780833 AT
1 AT
31780835 TTTAATGTGT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.43
Consensus pattern (81 bp):
ATGCTGTCCAATTTTGAGTGTATTGATGCTGCCCATTTTAATGTATAATGCTGTCCAATTTTGAG
TGTATTGATGCTGTCC
Found at i:31780811 original size:128 final size:128
Alignment explanation
Indices: 31780634--31780881 Score: 478
Period size: 128 Copynumber: 1.9 Consensus size: 128
31780624 TTTGATGTCC
31780634 ATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGAGTGTATTGATG
1 ATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGAGTGTATTGATG
31780699 CTGCCCATTTTAATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCATGCTGTTCA
66 CTGCCCATTTTAATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCATGCTGTTCA
31780762 ATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGAGTGTATTGATG
1 ATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGAGTGTATTGATG
* *
31780827 CTGTCCATTTTAATGTGTAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCAT
66 CTGCCCATTTTAATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCAT
31780882 TTTAATATAT
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
128 118 1.00
ACGTcount: A:0.22, C:0.13, G:0.21, T:0.44
Consensus pattern (128 bp):
ATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGAGTGTATTGATG
CTGCCCATTTTAATGTATAATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCATGCTGTTCA
Found at i:31780821 original size:47 final size:47
Alignment explanation
Indices: 31780752--31781091 Score: 405
Period size: 47 Copynumber: 7.2 Consensus size: 47
31780742 GATGCTGTCC
* * * *
31780752 ATGCTGTTCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTATA
1 ATGCTGTCCAATTTTGAGTATATTGATGCTGTCCAATTTGATGTATA
* * * *
31780799 ATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATGTGTA
1 ATGCTGTCCAATTTTGAGTATATTGATGCTGTCCAATTTGATGTATA
* * * *
31780846 ATGCTGTCCAATTTTGAGTGTATTGATGCTGTCCATTTTAATATATA
1 ATGCTGTCCAATTTTGAGTATATTGATGCTGTCCAATTTGATGTATA
* * * *
31780893 ATGCTGTCCAATTGTGAGTATATTTAAGCTGTCTAATTTGATGTATA
1 ATGCTGTCCAATTTTGAGTATATTGATGCTGTCCAATTTGATGTATA
* * * *
31780940 ATGCTGTCCAATTGTGAGTATATTTAAGCTGTCTAATTTGATGTATA
1 ATGCTGTCCAATTTTGAGTATATTGATGCTGTCCAATTTGATGTATA
* * * *
31780987 ATGCTGTCCAATTTTGGGTATATTTAAGCTGTCTAATTTGATGTATA
1 ATGCTGTCCAATTTTGAGTATATTGATGCTGTCCAATTTGATGTATA
* * *
31781034 ATGCTGTCC-ATTTTGAGCATATT-ATTGCTGTCCAATTTGTTGAATA
1 ATGCTGTCCAATTTTGAGTATATTGA-TGCTGTCCAATTTGATGTATA
31781080 ATTGCTGTCCAA
1 A-TGCTGTCCAA
31781092 AACAGAGTTG
Statistics
Matches: 270, Mismatches: 20, Indels: 5
0.92 0.07 0.02
Matches are distributed among these distances:
45 1 0.00
46 30 0.11
47 238 0.88
48 1 0.00
ACGTcount: A:0.25, C:0.12, G:0.19, T:0.44
Consensus pattern (47 bp):
ATGCTGTCCAATTTTGAGTATATTGATGCTGTCCAATTTGATGTATA
Found at i:31784562 original size:21 final size:21
Alignment explanation
Indices: 31784536--31784604 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
31784526 CTACAACTTA
* *
31784536 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGAG
*
31784557 AAGCAGAGGCTACAGCGAGAG
1 AAGCAGAGGCTGCAGCGAGAG
* *
31784578 AAGCAGAGGTTGCAGAGAGAG
1 AAGCAGAGGCTGCAGCGAGAG
31784599 AAGCAG
1 AAGCAG
31784605 CAAGAGAAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.36, C:0.16, G:0.43, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGAG
Found at i:31785229 original size:127 final size:126
Alignment explanation
Indices: 31785098--31785351 Score: 334
Period size: 127 Copynumber: 2.0 Consensus size: 126
31785088 TACCAAGCGT
* * *
31785098 CGCTAAAGAATATGATCTTTAGCG-GTGTTTTAGTCTAAGCGCCGCTAAAGAACATGATCTTTAG
1 CGCTAAAGAACATGATCTTTAGCGAGTCTTTT--TCTAAGCGCCGCTAAAGAACATGACCTTTAG
* * * *
31785162 CGGCGTTTTTCTTC-ATGCGCCGCTAAAGAACAAGATCTTTAGCGGCGTCTTTTTTT-TAAACGC
64 CGGCATTTTT-TTCGAAGCGCCGCTAAAGAACAAGACCTTTAGCAGCGT-TTTTTTTGTAAACGC
* *
31785225 CGCTAAAGAACATGATCTTTAGTGACGTCTTTTTTTAAGCGCCGCTAAAGAACATGACCTTTAGC
1 CGCTAAAGAACATGATCTTTAGCGA-GTCTTTTTCTAAGCGCCGCTAAAGAACATGACCTTTAGC
* * *
31785290 GGCATTTTTTTCGAAGTGCCGCTAAAGAATATGACCTTTAGCAGCGTTTTTTTTGTAAACGC
65 GGCATTTTTTTCGAAGCGCCGCTAAAGAACAAGACCTTTAGCAGCGTTTTTTTTGTAAACGC
31785352 TGCAAACGTT
Statistics
Matches: 111, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
126 10 0.09
127 95 0.86
129 6 0.05
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (126 bp):
CGCTAAAGAACATGATCTTTAGCGAGTCTTTTTCTAAGCGCCGCTAAAGAACATGACCTTTAGCG
GCATTTTTTTCGAAGCGCCGCTAAAGAACAAGACCTTTAGCAGCGTTTTTTTTGTAAACGC
Found at i:31785342 original size:42 final size:42
Alignment explanation
Indices: 31785050--31785342 Score: 329
Period size: 42 Copynumber: 7.0 Consensus size: 42
31785040 TTTGTGAAGA
* * * * * *
31785050 AAGCGCAGCTAAAGAACATGATCTATAGTGGCATTTTTTACC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
* * * **
31785092 AAGCGTCGCTAAAGAATATGATCTTTAGCGGTGTTTTAGTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
31785134 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTCTTC-
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT-TTCT
* * *
31785176 ATGCGCCGCTAAAGAACAAGATCTTTAGCGGCGTCTTTTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGT-TTTTTTCT
* * *
31785219 AAACGCCGCTAAAGAACATGATCTTTAGTGACGTCTTTTTT-T
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGT-TTTTTTCT
* * *
31785261 AAGCGCCGCTAAAGAACATGACCTTTAGCGGCATTTTTTTCG
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
* * * *
31785303 AAGTGCCGCTAAAGAATATGACCTTTAGCAGCGTTTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT
31785343 TGTAAACGCT
Statistics
Matches: 213, Mismatches: 34, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
41 6 0.03
42 165 0.77
43 42 0.20
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
Found at i:31788728 original size:7 final size:7
Alignment explanation
Indices: 31788716--31788750 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
31788706 CCCCAACATA
31788716 ATTACAG
1 ATTACAG
31788723 ATTACAG
1 ATTACAG
31788730 ATTACAG
1 ATTACAG
31788737 ATTACAG
1 ATTACAG
31788744 A-TACAG
1 ATTACAG
31788750 A
1 A
31788751 AATGTCATGC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 6 0.21
7 22 0.79
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.26
Consensus pattern (7 bp):
ATTACAG
Found at i:31791054 original size:552 final size:552
Alignment explanation
Indices: 31789268--31793128 Score: 6182
Period size: 552 Copynumber: 7.0 Consensus size: 552
31789258 GTCAAAAATC
* ** * * * * *
31789268 AATCATAATTCATGATTAAATTGAAGCCACCAAAATCGAAAACAGTCCAATTCAAACCTTCATCA
1 AATCATAATTCATGATCAAACCGAAACCACCAAAACCGACAATAGTCCAATTCAAACTTTCATCA
* * * * * *
31789333 CTTACCCCAACACTCCAAACAATTTCGATTACGATTCCATGATAAGAGAGCCCCTTTCTTCCCAA
66 CTTACCCCAACACTCCGAACGATTTCGATTACGATTCCACGAGAGGAGAGCCCCTTTCTTCCCGA
* *
31789398 TTCACTGCTGCCAAAACTCGAAATCAACAACGGAAAGAAAAGAATAGCATCGATTTGAACAGTTA
131 TTCACTGCTGCCAAAACTCGAAATCAACAATGGAAAGAAAAGAATAGCATTGATTTGAACAGTTA
* * * * **
31789463 AAACGATTACCTCAACCCACACGAAAACACCCTTTACACTTACCAAACCGCGCAAGAAAAGTAAA
196 AAACGGTTACCCCAACCCACACGAAAACACCCTTTACACTTACCAAACCGCGCAAGGACAGCGAA
** * *
31789528 GAACTGAAAACCAAAATTGAATGATAGAATTGCGATGGAATTTCAAAAGTGAGGAAACAAAAAGA
261 GAACTGAAAACTGAAATTGAATGATAGAATTGCGATGGAATTTCAAAAGTAACGAAACAAAAAGA
* * * *
31789593 ATTTTGCCAGAACACAAAAAAATAAATGTCATAAATTTTGGGAGTTTCTAGAGAGAGAAAAATAA
326 ATTTTGCCAGAACACAAAAAAATGAATGTAAAAAATTTTGGGAGTTTCTAGAGAGAGAAAAATAT
*
31789658 ATATCAAAAAGAAAAAATAATATGATTATACCCAAATCCCTCAAATTTCTCCCAACTAACCCACT
391 ATATCAAAAAGAAAAAATAATATGATTATACCCAAATCCCTCGAATTTCTCCCAACTAACCCACT
* *
31789723 AACAAACCACTTACTCAGAATCTCAATTTCTTTAAAACTCTAACACACAACCGACCAAAAATTAA
456 AACAAACCACTTACTCAGAATCTCAACTTCTTTAAAACTCTAACACACAACCGAGCAAAAATTAA
* **
31789788 CACCCTTGCTCCTATAGAGATTCGAACACAGG
521 CACCCTCGCTCCCGTAGAGATTCGAACACAGG
* * * * *
31789820 AATCATAATTCATGATTAAACCGACACCACCAAAATCGACAACAGTCCGATTCAAACCTTT-ATC
1 AATCATAATTCATGATCAAACCGAAACCACCAAAACCGACAATAGTCCAATTCAAA-CTTTCATC
* * *
31789884 ACATACCCCAACACTCCGAATGATTTCAATTACGATTCCACGAGAGGAGAGCCCCTTTCTTCCCG
65 ACTTACCCCAACACTCCGAACGATTTCGATTACGATTCCACGAGAGGAGAGCCCCTTTCTTCCCG
* * *
31789949 ATTCACTGCTGCCAAAACTTGAAATCAACAATGGAAAGAAAAGAATAGCATTGACTTGACCAGTT
130 ATTCACTGCTGCCAAAACTCGAAATCAACAATGGAAAGAAAAGAATAGCATTGATTTGAACAGTT
*
31790014 AAAACGGTTACCCCAACCCACACGAAAACACCCTTTACACTTACCAAACCGCGCAAAGACAGCGA
195 AAAACGGTTACCCCAACCCACACGAAAACACCCTTTACACTTACCAAACCGCGCAAGGACAGCGA
* * *
31790079 AGAACTGAAAACTAAAATTGAATGATAGAATTGAGATGGAATTTCAAAAGTAAGGAAACAAAAAG
260 AGAACTGAAAACTGAAATTGAATGATAGAATTGCGATGGAATTTCAAAAGTAACGAAACAAAAAG
** *
31790144 AATTTTGCCAGAACA-AAAAATAATGAATGCCAAAAATTTTGGGAGTTTCTAGAGAGAGAGAAA-
325 AATTTTGCCAGAACACAAAAA-AATGAATGTAAAAAATTTTGGGAGTTTCTAGAGAGAGAAAAAT
31790207 A-ATATCAAAAAGAAATAAATAATATGATTATACCCAAATCCCTCGAATTTCTCCCAACTAACCC
389 ATATATCAAAAAGAAA-AAATAATATGATTATACCCAAATCCCTCGAATTTCTCCCAACTAACCC
* *
31790271 ACTAACAAACCACTTACTCAGAATCTCAACTTCTTTAAAATTCTAACACACGACCGAGCAAAAAT
453 ACTAACAAACCACTTACTCAGAATCTCAACTTCTTTAAAACTCTAACACACAACCGAGCAAAAAT
* *
31790336 TAACACCCTCGCTCCTGTAGAGATTCGAACATAGG
518 TAACACCCTCGCTCCCGTAGAGATTCGAACACAGG
*
31790371 AATCATAATTCATGATCAAACCGAAACCACCAAAACCGACAATAGTCCTATTCAAACTTTCATCA
1 AATCATAATTCATGATCAAACCGAAACCACCAAAACCGACAATAGTCCAATTCAAACTTTCATCA
*
31790436 CTTACCCCAACACTCCGAACGATTTCGATTATGATTCCACGAGAGGAGAGCCCCTTTCTTCCCGA
66 CTTACCCCAACACTCCGAACGATTTCGATTACGATTCCACGAGAGGAGAGCCCCTTTCTTCCCGA
* *
31790501 TTCACTGCTGCCAAAACTCGAAATCAACAATGGAAAGAAAAGAATAGCATTGTTTTGATCAGTTA
131 TTCACTGCTGCCAAAACTCGAAATCAACAATGGAAAGAAAAGAATAGCATTGATTTGAACAGTTA
* ** *
31790566 AAACAGTTACCCCAACCCACACGAAAACACTTTTTACACTTGCCAAACCGCGCAAGGACAGCGAA
196 AAACGGTTACCCCAACCCACACGAAAACACCCTTTACACTTACCAAACCGCGCAAGGACAGCGAA
*
31790631 GAACTGAAAACTGAAATTGAATGATAGAATTGCGATGGAATTTCAAAAGTAAGGAAACAAAAAGA
261 GAACTGAAAACTGAAATTGAATGATAGAATTGCGATGGAATTTCAAAAGTAACGAAACAAAAAGA
31790696 ATTTTGCCAGAACACAAAAAAATGAATGTAAAAAATTTTGGGAGTTTCTAGAGAGAGAAAAATAT
326 ATTTTGCCAGAACACAAAAAAATGAATGTAAAAAATTTTGGGAGTTTCTAGAGAGAGAAAAATAT
31790761 ATATCAAAAAGAAAAAATAATATGATTATACCCAAATCCCTCGAATTTCTCCCAACTAACCCACT
391 ATATCAAAAAGAAAAAATAATATGATTATACCCAAATCCCTCGAATTTCTCCCAACTAACCCACT
* *
31790826 AACAAACCACTTACTTAGAATCTCAACTTCTTTAAAACTCTAACACACAACCGAGAAAAAATTAA
456 AACAAACCACTTACTCAGAATCTCAACTTCTTTAAAACTCTAACACACAACCGAGCAAAAATTAA
31790891 -AGCCCTCGCTCCCGTAGAGATTCGAACACAGG
521 CA-CCCTCGCTCCCGTAGAGATTCGAACACAGG
*
31790923 AATCACAATTCATGATCAAACCGAAACCACCAAAACCGACAATAGTCCAATTCAAACTTTCATCA
1 AATCATAATTCATGATCAAACCGAAACCACCAAAACCGACAATAGTCCAATTCAAACTTTCATCA
31790988 CTTACCCCAACACTCCGAACGATTTCGATTACGATTCCACGAGAGGAGAGCCCCTTTCTTCCCGA
66 CTTACCCCAACACTCCGAACGATTTCGATTACGATTCCACGAGAGGAGAGCCCCTTTCTTCCCGA
* *
31791053 TTCACTGCTGCCAAAACTCAAAATCAACAATGGAAAGAAAAGAATCGCATTGATTTGAACAGTTA
131 TTCACTGCTGCCAAAACTCGAAATCAACAATGGAAAGAAAAGAATAGCATTGATTTGAACAGTTA
* * * *
31791118 AAATGGTTACCCCAACCCACACGAAAAAACCCTTTACACTTACCAAACTGCGAAAGGACAGCGAA
196 AAACGGTTACCCCAACCCACACGAAAACACCCTTTACACTTACCAAACCGCGCAAGGACAGCGAA
* * * * *
31791183 AAACTGAAAACTGAAATTGAATAACAGAATTGTGATGGAATTTCAAAAGTAACGATACAAAAAGA
261 GAACTGAAAACTGAAATTGAATGATAGAATTGCGATGGAATTTCAAAAGTAACGAAACAAAAAGA
*
31791248 ATTTTGCCAGAGCACAAAAAAATGAATGTAAAAAATTTTGGGAGTTTCTAGAGAGAGAAAAATAT
326 ATTTTGCCAGAACACAAAAAAATGAATGTAAAAAATTTTGGGAGTTTCTAGAGAGAGAAAAATAT
31791313 ATATCAAAAAGAAAAAATAATATGATTATACCCAAATCCCTCGAATTTCTCCCAACTAACCCACT
391 ATATCAAAAAGAAAAAATAATATGATTATACCCAAATCCCTCGAATTTCTCCCAACTAACCCACT
* *
31791378 AACAAACCACTTACTTAGAATCTCAACTTCTTTAAAACTCTAACACACAACCGAGAAAAAATTAA
456 AACAAACCACTTACTCAGAATCTCAACTTCTTTAAAACTCTAACACACAACCGAGCAAAAATTAA
31791443 -AGCCCTCGCTCCCGTAGAGATTCGAACACAGG
521 CA-CCCTCGCTCCCGTAGAGATTCGAACACAGG
*
31791475 AATCACAATTCATGATCAAACCGAAACCACCAAAACCGACAATAGTCCAATTCAAACTTTCATCA
1 AATCATAATTCATGATCAAACCGAAACCACCAAAACCGACAATAGTCCAATTCAAACTTTCATCA
31791540 CTTACCCCAACACTCCGAACGATTTCGATTACGATTCCACGAGAGGAGAGCCCCTTTCTTCCCGA
66 CTTACCCCAACACTCCGAACGATTTCGATTACGATTCCACGAGAGGAGAGCCCCTTTCTTCCCGA
* *
31791605 TTCACTGCTGCCAAAACTCAAAATCAACAATGGAAAGAAAAGAATCGCATTGATTTGAACAGTTA
131 TTCACTGCTGCCAAAACTCGAAATCAACAATGGAAAGAAAAGAATAGCATTGATTTGAACAGTTA
* * * * *
31791670 AAATGGTTACCCCAACCCACACGAAAAAACCCTTTACACTTACCAAACTGCGAAAGGAGAGCGAA
196 AAACGGTTACCCCAACCCACACGAAAACACCCTTTACACTTACCAAACCGCGCAAGGACAGCGAA
* * * *
31791735 AAACTGAAAACTGAAATTGAATAACAGAATTGCGATGGAATTTCAAAAGTAACGATACAAAAAGA
261 GAACTGAAAACTGAAATTGAATGATAGAATTGCGATGGAATTTCAAAAGTAACGAAACAAAAAGA
*
31791800 ATTTTGCCAGAGCACAAAAAAATGAATGTAAAAAATTTTGGGAGTTTCTAGAGAGAGAAAAATAT
326 ATTTTGCCAGAACACAAAAAAATGAATGTAAAAAATTTTGGGAGTTTCTAGAGAGAGAAAAATAT
31791865 ATATCAAAAAGAAAAAAATAATATGATTATACCCAAATCCCTCGAATTTCTCCCAACTAACCCAC
391 ATATCAAAAAG-AAAAAATAATATGATTATACCCAAATCCCTCGAATTTCTCCCAACTAACCCAC
* *
31791930 TAACAAACCACTTACTCAGAATCTCAACTTCTTTAAAATTCTAACACACGACCGAGCAAAAATTA
455 TAACAAACCACTTACTCAGAATCTCAACTTCTTTAAAACTCTAACACACAACCGAGCAAAAATTA
*
31791995 ACACCCTCGCTCCTGTAGAGATTCGAACACAGG
520 ACACCCTCGCTCCCGTAGAGATTCGAACACAGG
31792028 AATCATAATTCATGATCAAACCGAAACCACCAAAACCGACAATAGTCCAATTCAAACTTTCATCA
1 AATCATAATTCATGATCAAACCGAAACCACCAAAACCGACAATAGTCCAATTCAAACTTTCATCA
31792093 CTTACCCCAACACTCCGAACGATTTCGATTACGATTCCACGAGAGGAGAGCCCCTTTCTTCCCGA
66 CTTACCCCAACACTCCGAACGATTTCGATTACGATTCCACGAGAGGAGAGCCCCTTTCTTCCCGA
* * * *
31792158 TTCACTGCTGCAAAAACTCAAAATCAACAACGGAAAGAAAAGAATAGCATTGATTTGAACTGTTA
131 TTCACTGCTGCCAAAACTCGAAATCAACAATGGAAAGAAAAGAATAGCATTGATTTGAACAGTTA
* *
31792223 AGACGGTTACCCCAACCCACACGAAAACACCCTTTACACTTACCAAACCGCGCAAGGACAGCAAA
196 AAACGGTTACCCCAACCCACACGAAAACACCCTTTACACTTACCAAACCGCGCAAGGACAGCGAA
31792288 GAACTGAAAACTGAAATTGAATGATAGAATTGCGATGGAATTTCAAAAGTAACGAAACAAAAAGA
261 GAACTGAAAACTGAAATTGAATGATAGAATTGCGATGGAATTTCAAAAGTAACGAAACAAAAAGA
31792353 ATTTTGCCAGAACACAAAAAAATGAATGTAAAAAATTTTGGGAGTTTCT--AGAGAGAAAAATAT
326 ATTTTGCCAGAACACAAAAAAATGAATGTAAAAAATTTTGGGAGTTTCTAGAGAGAGAAAAATAT
31792416 ATATCAAAAAGAAAAAAATAATATGATTATACCCAAATCCCTCGAATTTCTCCCAACTAACCCAC
391 ATATCAAAAAG-AAAAAATAATATGATTATACCCAAATCCCTCGAATTTCTCCCAACTAACCCAC
* * **
31792481 TAACAAACCACTTACTCAGAATCTGAACTCCCCTAAAACTCTAACACACAACCGAGCAAAAATTA
455 TAACAAACCACTTACTCAGAATCTCAACTTCTTTAAAACTCTAACACACAACCGAGCAAAAATTA
*
31792546 ACACCCTCGCTCCCGTAGAGATTCGAACACAAG
520 ACACCCTCGCTCCCGTAGAGATTCGAACACAGG
* * * * *
31792579 AATCATAATTCATGATTAAACCGAAACCACCAAAATCGATAACAGTCCAATTCAAACCTTCATCA
1 AATCATAATTCATGATCAAACCGAAACCACCAAAACCGACAATAGTCCAATTCAAACTTTCATCA
** *
31792644 CTTACCCCAACACTCCGAATAATTTCAATTACGATTCCACGAGAGGAGAGCCCCTTTCTTCCCGA
66 CTTACCCCAACACTCCGAACGATTTCGATTACGATTCCACGAGAGGAGAGCCCCTTTCTTCCCGA
* * *
31792709 TTCACTACTGCCAAAACTCGAAATCAACAACGGAAAGAAAAGAATAGCATTGATTTGAACAATTA
131 TTCACTGCTGCCAAAACTCGAAATCAACAATGGAAAGAAAAGAATAGCATTGATTTGAACAGTTA
* * *
31792774 AAACGATTACCCCAACCCACACGAAAACACCCTTTACACTTACCAAACCGCGCAAAGACATCGAA
196 AAACGGTTACCCCAACCCACACGAAAACACCCTTTACACTTACCAAACCGCGCAAGGACAGCGAA
* * * * * ** *
31792839 GAACT-AAAAATCAGAATTGAATTACAAAATTGTAATGGAATTTCAAAAGTAAAGAAACAAAAAT
261 GAACTGAAAACTGA-AATTGAATGATAGAATTGCGATGGAATTTCAAAAGTAACGAAACAAAAA-
* * *
31792903 AAATTTT-CCAGAACACAAAAAAATGAACGTAAAAAATTTTGGGAGTTT-TCGAAGAGAGAAAAA
324 GAATTTTGCCAGAACACAAAAAAATGAATGTAAAAAATTTTGGGAGTTTCTAG-AGAGAGAAAAA
* * *
31792966 -A-ATATCAAAAAGAAAAAAATAATATGATTATACCCAAATCCCTCGAAGTTCTCCCCACTAACT
388 TATATATCAAAAAG-AAAAAATAATATGATTATACCCAAATCCCTCGAATTTCTCCCAACTAACC
* * ** * * *
31793029 CACTAACAAACCACTTACTCAGAATCTGAACTCCCCTAAAACTCTTAACACACAACCAAGGAGAA
452 CACTAACAAACCACTTACTCAGAATCTCAACTTCTTTAAAACTC-TAACACACAACCGAGCAAAA
* * *
31793094 ATTAACACCCTTGTTCCCATAGAGATTCGAACACA
516 ATTAACACCCTCGCTCCCGTAGAGATTCGAACACA
31793129 AGACCTCCAA
Statistics
Matches: 3130, Mismatches: 163, Indels: 32
0.94 0.05 0.01
Matches are distributed among these distances:
550 25 0.01
551 1102 0.35
552 1473 0.47
553 529 0.17
554 1 0.00
ACGTcount: A:0.42, C:0.24, G:0.13, T:0.22
Consensus pattern (552 bp):
AATCATAATTCATGATCAAACCGAAACCACCAAAACCGACAATAGTCCAATTCAAACTTTCATCA
CTTACCCCAACACTCCGAACGATTTCGATTACGATTCCACGAGAGGAGAGCCCCTTTCTTCCCGA
TTCACTGCTGCCAAAACTCGAAATCAACAATGGAAAGAAAAGAATAGCATTGATTTGAACAGTTA
AAACGGTTACCCCAACCCACACGAAAACACCCTTTACACTTACCAAACCGCGCAAGGACAGCGAA
GAACTGAAAACTGAAATTGAATGATAGAATTGCGATGGAATTTCAAAAGTAACGAAACAAAAAGA
ATTTTGCCAGAACACAAAAAAATGAATGTAAAAAATTTTGGGAGTTTCTAGAGAGAGAAAAATAT
ATATCAAAAAGAAAAAATAATATGATTATACCCAAATCCCTCGAATTTCTCCCAACTAACCCACT
AACAAACCACTTACTCAGAATCTCAACTTCTTTAAAACTCTAACACACAACCGAGCAAAAATTAA
CACCCTCGCTCCCGTAGAGATTCGAACACAGG
Found at i:31800703 original size:16 final size:15
Alignment explanation
Indices: 31800676--31800715 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
31800666 AAAGCACAAC
* *
31800676 AATAATAAGAATAAG
1 AATAAAAAGAATAAA
31800691 AATAAGAAAGAATAAA
1 AATAA-AAAGAATAAA
31800707 AATAAAAAG
1 AATAAAAAG
31800716 TGTTAGTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.15
Consensus pattern (15 bp):
AATAAAAAGAATAAA
Found at i:31805296 original size:24 final size:26
Alignment explanation
Indices: 31805266--31805323 Score: 93
Period size: 24 Copynumber: 2.3 Consensus size: 26
31805256 TTGTATAACG
31805266 GGAAGCTCATAAGAGCC-ATAT-TCA
1 GGAAGCTCATAAGAGCCAATATATCA
*
31805290 GGAAGCTCATACGAGCCAATATATCA
1 GGAAGCTCATAAGAGCCAATATATCA
31805316 GGAAGCTC
1 GGAAGCTC
31805324 CAGATAGCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 16 0.52
25 4 0.13
26 11 0.35
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
GGAAGCTCATAAGAGCCAATATATCA
Found at i:31805332 original size:26 final size:25
Alignment explanation
Indices: 31805279--31805408 Score: 88
Period size: 25 Copynumber: 5.2 Consensus size: 25
31805269 AGCTCATAAG
* *
31805279 AGCCATAT-TCAGGAAGCT-CATACG
1 AGCCATATATCAGGAAGCTCCAGA-T
31805303 AGCCAATATATCAGGAAGCTCCAGAT
1 AGCC-ATATATCAGGAAGCTCCAGAT
* *
31805329 AGCCAT-TAATCGGGAAGCTCCGGAT
1 AGCCATAT-ATCAGGAAGCTCCAGAT
* * * * **
31805354 AGGCATATATCGGGAAGTTCAAGCG
1 AGCCATATATCAGGAAGCTCCAGAT
* * *
31805379 AGCCA-ATATCAGAAAGCTCCGGAA
1 AGCCATATATCAGGAAGCTCCAGAT
31805403 AGCCAT
1 AGCCAT
31805409 TAATCGGGAA
Statistics
Matches: 82, Mismatches: 18, Indels: 11
0.74 0.16 0.10
Matches are distributed among these distances:
24 22 0.27
25 42 0.51
26 15 0.18
27 3 0.04
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (25 bp):
AGCCATATATCAGGAAGCTCCAGAT
Found at i:31805349 original size:25 final size:25
Alignment explanation
Indices: 31805316--31805419 Score: 86
Period size: 25 Copynumber: 4.2 Consensus size: 25
31805306 CAATATATCA
31805316 GGAAGCTCCAGATAGCCATTAATCG
1 GGAAGCTCCAGATAGCCATTAATCG
* *
31805341 GGAAGCTCCGGATAGGCA-TATATCG
1 GGAAGCTCCAGATAGCCATTA-ATCG
* * ** * *
31805366 GGAAGTTCAAGCGAGCCAAT-ATCA
1 GGAAGCTCCAGATAGCCATTAATCG
* * *
31805390 GAAAGCTCCGGAAAGCCATTAATCG
1 GGAAGCTCCAGATAGCCATTAATCG
31805415 GGAAG
1 GGAAG
31805420 TTTCGAAGAA
Statistics
Matches: 58, Mismatches: 18, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
24 18 0.31
25 39 0.67
26 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.28, T:0.17
Consensus pattern (25 bp):
GGAAGCTCCAGATAGCCATTAATCG
Found at i:31805435 original size:74 final size:76
Alignment explanation
Indices: 31805264--31805448 Score: 207
Period size: 74 Copynumber: 2.5 Consensus size: 76
31805254 GGTTGTATAA
** *
31805264 CGGGAAGCTCATAAGAGCCATAT-TCAGGAAGCTCATACGAGCCAATATATCAGGAAGCTCCAGA
1 CGGGAAGCTCCGAAGAGCCATATATCAGGAAGCTCATACGAGCCAATATATCAGAAAGCTCCAGA
*
31805328 TAGCCATTAAT
66 AAGCCATTAAT
* * * * * *
31805339 CGGGAAGCTCCGGATAGGCATATATCGGGAAGTTCA-AGCGAGCC-A-ATATCAGAAAGCTCCGG
1 CGGGAAGCTCCGAAGAGCCATATATCAGGAAGCTCATA-CGAGCCAATATATCAGAAAGCTCCAG
31805401 AAAGCCATTAAT
65 AAAGCCATTAAT
* * * *
31805413 CGGGAAGTTTCGAAGAACCATATATCAGGACGCTCA
1 CGGGAAGCTCCGAAGAGCCATATATCAGGAAGCTCA
31805449 AAAGAGTTGC
Statistics
Matches: 89, Mismatches: 19, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
74 53 0.60
75 20 0.22
76 16 0.18
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (76 bp):
CGGGAAGCTCCGAAGAGCCATATATCAGGAAGCTCATACGAGCCAATATATCAGAAAGCTCCAGA
AAGCCATTAAT
Found at i:31814544 original size:59 final size:59
Alignment explanation
Indices: 31814481--31814594 Score: 219
Period size: 59 Copynumber: 1.9 Consensus size: 59
31814471 AATTAGGGTC
31814481 TAGGGTTACTTGAGTAATTTAATTAAAATTTTTTAAAAAATTAGATTAGGGTTTAAATT
1 TAGGGTTACTTGAGTAATTTAATTAAAATTTTTTAAAAAATTAGATTAGGGTTTAAATT
*
31814540 TAGGGTTACTTGAGTAATTTAATTAAATTTTTTTAAAAAATTAGATTAGGGTTTA
1 TAGGGTTACTTGAGTAATTTAATTAAAATTTTTTAAAAAATTAGATTAGGGTTTA
31814595 GAGTTAAGGG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.38, C:0.02, G:0.16, T:0.45
Consensus pattern (59 bp):
TAGGGTTACTTGAGTAATTTAATTAAAATTTTTTAAAAAATTAGATTAGGGTTTAAATT
Found at i:31814647 original size:96 final size:97
Alignment explanation
Indices: 31814544--31814732 Score: 265
Period size: 97 Copynumber: 2.0 Consensus size: 97
31814534 TAAATTTAGG
* * **
31814544 GTTACTTGAGTAATTTAATTA-AATTTTTTTAAAAAATTAGATTAGGGTTTAGAGTTAAGGGTTT
1 GTTACTTGAGTAAATTAATTATAAATTTTAAAAAAAATTAGATTAGGGTTTAGAGTTAAGGGTTT
* *
31814608 TTA-TGAAAAAATCAAATAAATTAGGGTTCAGT
66 TAAGT-AAAAAATCAAATAAATTAAGGTTCAGT
* * *
31814640 GTTACTTGAGTAAATTAATTATAAATTTTAAAAAAAATTAGATTAGGGTTTAGGGTTTATGGTTT
1 GTTACTTGAGTAAATTAATTATAAATTTTAAAAAAAATTAGATTAGGGTTTAGAGTTAAGGGTTT
*
31814705 TAAGTAAAAACTCAAATAAATTAAGGTT
66 TAAGTAAAAAATCAAATAAATTAAGGTT
31814733 TGAGGTTTAG
Statistics
Matches: 81, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
96 20 0.25
97 60 0.74
98 1 0.01
ACGTcount: A:0.40, C:0.03, G:0.17, T:0.40
Consensus pattern (97 bp):
GTTACTTGAGTAAATTAATTATAAATTTTAAAAAAAATTAGATTAGGGTTTAGAGTTAAGGGTTT
TAAGTAAAAAATCAAATAAATTAAGGTTCAGT
Found at i:31815708 original size:21 final size:21
Alignment explanation
Indices: 31815684--31815728 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
31815674 TTGTCCAGCT
* * *
31815684 TCCGGCGGGGGTTGTGGTTGC
1 TCCGGCGGGGATTATGGTTCC
31815705 TCCGGCGGGGATTATGGTTCC
1 TCCGGCGGGGATTATGGTTCC
31815726 TCC
1 TCC
31815729 CGTAAGGGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.04, C:0.24, G:0.42, T:0.29
Consensus pattern (21 bp):
TCCGGCGGGGATTATGGTTCC
Found at i:31816013 original size:18 final size:18
Alignment explanation
Indices: 31815987--31816029 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
31815977 GACTAGAAAA
* * *
31815987 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
31816005 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
31816023 AGGATAC
1 AGGATAC
31816030 GCACCTGGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:31816136 original size:30 final size:30
Alignment explanation
Indices: 31816102--31816163 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
31816092 TGACTATGTC
* * *
31816102 GGTGCTGTTGCTGAGCCTGGTGATTGTATG
1 GGTGCTGATGATGAGCCAGGTGATTGTATG
* *
31816132 GGTGCTGATGATGGGCCAGGTGATTGTCTG
1 GGTGCTGATGATGAGCCAGGTGATTGTATG
31816162 GG
1 GG
31816164 CCTCGTTGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.11, C:0.13, G:0.44, T:0.32
Consensus pattern (30 bp):
GGTGCTGATGATGAGCCAGGTGATTGTATG
Found at i:31817789 original size:10 final size:10
Alignment explanation
Indices: 31817746--31817793 Score: 51
Period size: 11 Copynumber: 4.5 Consensus size: 10
31817736 TTTTTAAATA
*
31817746 AGAATTTGAG
1 AGAAATTGAG
*
31817756 AGGAATTTGAG
1 A-GAAATTGAG
31817767 AGAAGATTAGAG
1 AGAA-ATT-GAG
31817779 AGAAATTGAG
1 AGAAATTGAG
31817789 AGAAA
1 AGAAA
31817794 GGATTTAGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
10 12 0.35
11 15 0.44
12 7 0.21
ACGTcount: A:0.48, C:0.00, G:0.31, T:0.21
Consensus pattern (10 bp):
AGAAATTGAG
Found at i:31818749 original size:123 final size:124
Alignment explanation
Indices: 31818530--31818809 Score: 474
Period size: 123 Copynumber: 2.3 Consensus size: 124
31818520 TTATTTCGAG
*
31818530 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACCAGGATACAATTTTAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCTTCTACCAGGATACAATTTAAGAAGAAATTGT
*
31818594 GAAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAAT-ATTTTTT
65 GAAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAAATTTTT
* * *
31818653 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACTAGGATGCTATTTAAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATACAATTTAAGAAGAAATTGTG
*
31818718 AAATCGTGCCCTCGTGGATGCGATTTCGCTACAGTTGGTCATGTAAGAAATAAAATTTTT
66 AAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAAT-AAATTTTT
31818778 TTGACGTTTCTGAGCAAATAGTATAAAATCGC
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGC
31818810 GCCCTCGTGG
Statistics
Matches: 148, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
123 109 0.74
124 1 0.01
125 38 0.26
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATACAATTTAAGAAGAAATTGTG
AAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAAATTTTT
Found at i:31819447 original size:25 final size:25
Alignment explanation
Indices: 31819397--31819452 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
31819387 CTTTTATACC
*
31819397 AAATAATAAATTAATAATTATCTAA
1 AAATAATAAATTAATAAATATCTAA
*
31819422 AAATACATAAA-TAA-AAATATCT-T
1 AAATA-ATAAATTAATAAATATCTAA
31819445 AAATAATA
1 AAATAATA
31819453 TTTAAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 3 0.11
23 5 0.18
24 7 0.25
25 8 0.29
26 5 0.18
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (25 bp):
AAATAATAAATTAATAAATATCTAA
Found at i:31819636 original size:22 final size:21
Alignment explanation
Indices: 31819611--31819661 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
31819601 TAATATGGAT
31819611 TTGAGAGATTTTTAGAAGGAAA
1 TTGAGAGA-TTTTAGAAGGAAA
*
31819633 TTGAGAGGATTTTGGAAGGAAA
1 TTGAGA-GATTTTAGAAGGAAA
*
31819655 TTAAGAG
1 TTGAGAG
31819662 TTTCAGAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 1 0.04
22 23 0.88
23 2 0.08
ACGTcount: A:0.39, C:0.00, G:0.31, T:0.29
Consensus pattern (21 bp):
TTGAGAGATTTTAGAAGGAAA
Found at i:31819696 original size:22 final size:22
Alignment explanation
Indices: 31819666--31819712 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
31819656 TAAGAGTTTC
31819666 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
* *
31819688 AGAGGATTTTGGAAGTAAATTG
1 AGAGAATTTTGGAAGGAAATTG
31819710 AGA
1 AGA
31819713 TAGGATTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.32, T:0.28
Consensus pattern (22 bp):
AGAGAATTTTGGAAGGAAATTG
Found at i:31826195 original size:41 final size:41
Alignment explanation
Indices: 31826138--31826297 Score: 184
Period size: 41 Copynumber: 3.9 Consensus size: 41
31826128 CTTTTGAGGT
* *
31826138 TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTTAGGGC
1 TTTAGAGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
* *
31826179 TTTAGAGGCGTTTTTGAGGAAGCGCCGCTAATGATCAGGGC
1 TTTAGAGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
* *
31826220 TTTAGCGGCGTTTTTTAAGGAAA-CGCCGCTAATGCTCAGGGC
1 TTTAGAGGCG-TTTTTGA-GAAAGCGCCGCTAATGCTCAGGGC
*
31826262 TTTAGCA-GCGTTTTT-A-AAGTAGCGCCACTAATGCTC
1 TTTAG-AGGCGTTTTTGAGAA--AGCGCCGCTAATGCTC
31826298 TATTTTTAAC
Statistics
Matches: 103, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
38 2 0.02
40 2 0.02
41 64 0.62
42 32 0.31
43 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (41 bp):
TTTAGAGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGC
Found at i:31826248 original size:42 final size:41
Alignment explanation
Indices: 31826138--31826276 Score: 199
Period size: 41 Copynumber: 3.4 Consensus size: 41
31826128 CTTTTGAGGT
*
31826138 TTTAGCGGCGTTTTTGA-GAAAGCGCCGCTAATGCTTAGGGC
1 TTTAGCGGCGTTTTTGAGGAAA-CGCCGCTAATGCTCAGGGC
* * *
31826179 TTTAGAGGCGTTTTTGAGGAAGCGCCGCTAATGATCAGGGC
1 TTTAGCGGCGTTTTTGAGGAAACGCCGCTAATGCTCAGGGC
*
31826220 TTTAGCGGCGTTTTTTAAGGAAACGCCGCTAATGCTCAGGGC
1 TTTAGCGGCG-TTTTTGAGGAAACGCCGCTAATGCTCAGGGC
*
31826262 TTTAGCAGCGTTTTT
1 TTTAGCGGCGTTTTT
31826277 AAAGTAGCGC
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
41 47 0.54
42 40 0.46
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAGGAAACGCCGCTAATGCTCAGGGC
Found at i:31826276 original size:83 final size:82
Alignment explanation
Indices: 31826138--31826340 Score: 227
Period size: 83 Copynumber: 2.5 Consensus size: 82
31826128 CTTTTGAGGT
* * * * *
31826138 TTTAGCGGCG-TTTTTGAGAAAGCGCCGCTAATGCTTAGGGCTTTAGAGGCGTTTTTGAGGAAGC
1 TTTAGCGGCGTTTTTTAAGAAACCGCCGCTAATGCTCAGGGCTTTAGAGGCGTTTTTAAAGAAGC
*
31826202 GCCGCTAATGATC-AGGGC
66 GCCACTAATGATCTA--GC
*
31826220 TTTAGCGGCGTTTTTTAAGGAAA-CGCCGCTAATGCTCAGGGCTTTAGCA-GCGTTTTTAAAGTA
1 TTTAGCGGCGTTTTTTAA-GAAACCGCCGCTAATGCTCAGGGCTTTAG-AGGCGTTTTTAAAGAA
* **
31826283 GCGCCACTAATGCTCTATT
64 GCGCCACTAATGATCTAGC
* *
31826302 TTTAACGGCGTTTTCTAA-AAACCGCCGCTAATGCTCAGG
1 TTTAGCGGCGTTTTTTAAGAAACCGCCGCTAATGCTCAGG
31826341 AATTTAAAAT
Statistics
Matches: 105, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
80 3 0.03
81 17 0.16
82 26 0.25
83 53 0.50
84 6 0.06
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.30
Consensus pattern (82 bp):
TTTAGCGGCGTTTTTTAAGAAACCGCCGCTAATGCTCAGGGCTTTAGAGGCGTTTTTAAAGAAGC
GCCACTAATGATCTAGC
Found at i:31827332 original size:14 final size:15
Alignment explanation
Indices: 31827315--31827347 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
31827305 TATGGATTAT
31827315 GGTTTAAGGGTT-GG
1 GGTTTAAGGGTTAGG
*
31827329 GGTTTAAGGTTTAGG
1 GGTTTAAGGGTTAGG
31827344 GGTT
1 GGTT
31827348 AGAGATTAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.15, C:0.00, G:0.45, T:0.39
Consensus pattern (15 bp):
GGTTTAAGGGTTAGG
Found at i:31827375 original size:14 final size:15
Alignment explanation
Indices: 31827338--31827373 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
31827328 GGGTTTAAGG
31827338 TTTAGGGGTTAGAGA
1 TTTAGGGGTTAGAGA
*
31827353 -TTAGGGGTTAGGGA
1 TTTAGGGGTTAGAGA
31827367 TTTAGGG
1 TTTAGGG
31827374 TTTATGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.22, C:0.00, G:0.44, T:0.33
Consensus pattern (15 bp):
TTTAGGGGTTAGAGA
Found at i:31827913 original size:20 final size:20
Alignment explanation
Indices: 31827890--31827955 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
31827880 TATATAAAAA
31827890 TTTTAAAATTTATCTAATTC
1 TTTTAAAATTTATCTAATTC
*
31827910 TTTT-AAATATTA-CTTAAAT-
1 TTTTAAAAT-TTATC-TAATTC
*
31827929 TTTCAAAATTTATCTAATTC
1 TTTTAAAATTTATCTAATTC
31827949 TTTTAAA
1 TTTTAAA
31827956 TATTACTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
19 15 0.41
20 22 0.59
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTTAAAATTTATCTAATTC
Found at i:31827917 original size:19 final size:19
Alignment explanation
Indices: 31827890--31827956 Score: 66
Period size: 19 Copynumber: 3.4 Consensus size: 19
31827880 TATATAAAAA
31827890 TTTTAAAATTTATCTAATTC
1 TTTT-AAATTTATCTAATTC
31827910 TTTTAAATATTA-CTTAAATT-
1 TTTTAAAT-TTATC-T-AATTC
**
31827930 TTCAAAATTTATCTAATTC
1 TTTTAAATTTATCTAATTC
31827949 TTTTAAAT
1 TTTTAAAT
31827957 ATTACTTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
18 4 0.11
19 15 0.39
20 15 0.39
21 4 0.11
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTTAAATTTATCTAATTC
Found at i:31827939 original size:39 final size:39
Alignment explanation
Indices: 31827887--31827980 Score: 181
Period size: 39 Copynumber: 2.4 Consensus size: 39
31827877 AATTATATAA
31827887 AAATTTT-AAAATTTATCTAATTCTTTTAAATATTACTT
1 AAATTTTCAAAATTTATCTAATTCTTTTAAATATTACTT
31827925 AAATTTTCAAAATTTATCTAATTCTTTTAAATATTACTT
1 AAATTTTCAAAATTTATCTAATTCTTTTAAATATTACTT
31827964 AAATTTTCAAAATTTAT
1 AAATTTTCAAAATTTAT
31827981 TTATTTAAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 7 0.13
39 48 0.87
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (39 bp):
AAATTTTCAAAATTTATCTAATTCTTTTAAATATTACTT
Found at i:31832253 original size:43 final size:42
Alignment explanation
Indices: 31832206--31832679 Score: 488
Period size: 43 Copynumber: 11.1 Consensus size: 42
31832196 CTTTTAATGA
* * * *
31832206 CGTTTGTGATAAAAGTGCCGCTAAAGATCATGTTCTTTAGCGG
1 CGTTTGTGGT-AAAGCGTCGCTAAAGGTCATGTTCTTTAGCGG
* * ** * *
31832249 CGTTTGTGGGTAAATCGCCTTTAAAAGTAAT-TT-TTTAGCGG
1 CGTTTGT-GGTAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGG
* *
31832290 CGTTTGTGGGTAAAGCGCCGCTAAAGGTCATGTTCTTTAGTGG
1 CGTTTGT-GGTAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGG
* ** * *
31832333 CGTTTTTTGGTAAAGTATTGCTAAAGGTCATATTCTTTAGCGG
1 CG-TTTGTGGTAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGG
*
31832376 CGTTTGTGAGTAAAGCGTCGCTTAAGGTCA--TTCTTTAGCGG
1 CGTTTGTG-GTAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGG
*
31832417 CGTTTGTGAGTAAAGCGTCGCTTAAGGTCATGTTCTTTAGCGG
1 CGTTTGTG-GTAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGG
* *
31832460 TGTTTGTGGGTAAAGCGTCGCTAAAGGTCATGTTCTTTAGCAG
1 CGTTTGT-GGTAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGG
* * *
31832503 CATTTTTGAGTAAAGCGTCACTAAAGGTCATGTTCTTTAGCGG
1 CGTTTGTG-GTAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGG
* ** * *
31832546 CGTTTTTAATTAAAGCGTCGTTAAAGGTCATGTTCTTTAGCAG
1 CGTTTGT-GGTAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGG
* * * *
31832589 CGTTTCTAGGTAAAACGCCGCTAAATGTCATGTTCTTTAGCGG
1 CGTTTGT-GGTAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGG
* * * *
31832632 CGTTTCTAGGTAAAGCGCCACTAAAGATCATGTTCTTTAGCGG
1 CGTTTGT-GGTAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGG
31832675 CGTTT
1 CGTTT
31832680 TTTCACATAA
Statistics
Matches: 369, Mismatches: 52, Indels: 20
0.84 0.12 0.05
Matches are distributed among these distances:
41 75 0.20
42 10 0.03
43 277 0.75
44 7 0.02
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (42 bp):
CGTTTGTGGTAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGG
Found at i:31832413 original size:127 final size:128
Alignment explanation
Indices: 31832224--31832679 Score: 522
Period size: 127 Copynumber: 3.6 Consensus size: 128
31832214 ATAAAAGTGC
* * * * ** * * *
31832224 CGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGGGTAAATCGCCTTTAAAAGT-AATTTTTTAGC
1 CGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGAGTAAAGCGTCACTAAAGGTCAGTTCTTTAGC
* * * * * **
31832288 GGCGTTTGTGGGTAAAGCGCCGCTAAAGGTCATGTTCTTTAGTGGCGTTTTTTGGTAAAGTAT
66 GGCGTTTGTGAGTAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGGCGTTTCTAGGTAAAGCGT
* * * *
31832351 TGCTAAAGGTCATATTCTTTAGCGGCGTTTGTGAGTAAAGCGTCGCTTAAGGTCA-TTCTTTAGC
1 CGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGAGTAAAGCGTCACTAAAGGTCAGTTCTTTAGC
* * * *
31832415 GGCGTTTGTGAGTAAAGCGTCGCTTAAGGTCATGTTCTTTAGCGGTGTTTGTGGGTAAAGCGT
66 GGCGTTTGTGAGTAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGGCGTTTCTAGGTAAAGCGT
* * *
31832478 CGCTAAAGGTCATGTTCTTTAGCAGCATTTTTGAGTAAAGCGTCACTAAAGGTCATGTTCTTTAG
1 CGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGAGTAAAGCGTCACTAAAGGTCA-GTTCTTTAG
* * * * * * *
31832543 CGGCGTTTTTAATTAAAGCGTCGTTAAAGGTCATGTTCTTTAGCAGCGTTTCTAGGTAAAACGC
65 CGGCGTTTGTGAGTAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGGCGTTTCTAGGTAAAGCGT
* * * *
31832607 CGCTAAATGTCATGTTCTTTAGCGGCGTTTCT-AGGTAAAGCGCCACTAAAGATCATGTTCTTTA
1 CGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGA-GTAAAGCGTCACTAAAGGTCA-GTTCTTTA
31832671 GCGGCGTTT
64 GCGGCGTTT
31832680 TTTCACATAA
Statistics
Matches: 281, Mismatches: 44, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
127 153 0.54
128 2 0.01
129 126 0.45
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (128 bp):
CGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGAGTAAAGCGTCACTAAAGGTCAGTTCTTTAGC
GGCGTTTGTGAGTAAAGCGTCGCTAAAGGTCATGTTCTTTAGCGGCGTTTCTAGGTAAAGCGT
Found at i:31834111 original size:14 final size:14
Alignment explanation
Indices: 31834092--31834126 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
31834082 AACAATATAA
*
31834092 AAAACTTGTGTGAT
1 AAAACTTGTATGAT
*
31834106 AAAACTTGTATGTT
1 AAAACTTGTATGAT
31834120 AAAACTT
1 AAAACTT
31834127 ATGTAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (14 bp):
AAAACTTGTATGAT
Found at i:31839503 original size:25 final size:26
Alignment explanation
Indices: 31839450--31839504 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
31839440 AGCTTTTCTA
* *
31839450 AGCTAAAATAACGGTAAGCTCCTCCG
1 AGCTAAAATAACGGTAAGCTCATACG
* *
31839476 AGCT-AAATAATGGTAAGCTCATATG
1 AGCTAAAATAACGGTAAGCTCATACG
31839501 AGCT
1 AGCT
31839505 GAGTATCGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (26 bp):
AGCTAAAATAACGGTAAGCTCATACG
Found at i:31851485 original size:9 final size:9
Alignment explanation
Indices: 31851471--31851549 Score: 76
Period size: 9 Copynumber: 9.0 Consensus size: 9
31851461 TACAGATTAG
31851471 CATAACTTA
1 CATAACTTA
*
31851480 CATAACTCA
1 CATAACTTA
31851489 CATAACTTA
1 CATAACTTA
31851498 CATAACTTA
1 CATAACTTA
31851507 CATAA--TA
1 CATAACTTA
*
31851514 CATAA-ATA
1 CATAACTTA
* *
31851522 TAT-ATTATA
1 CATAACT-TA
31851531 TCATAACTTA
1 -CATAACTTA
31851541 CATAACTTA
1 CATAACTTA
31851550 ATTATACTTA
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
7 8 0.14
8 4 0.07
9 41 0.69
10 4 0.07
11 2 0.03
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (9 bp):
CATAACTTA
Found at i:31855310 original size:44 final size:43
Alignment explanation
Indices: 31855212--31855336 Score: 128
Period size: 44 Copynumber: 2.9 Consensus size: 43
31855202 AGCTCATTCA
* * * * * * *
31855212 ATGCCAACGACCCAGATGTGGTCTTACATGTAATTACATATCG
1 ATGCCAATGTCCCAGACGGGGTCTTACACGTAATCACAAATCG
*
31855255 ATGCCACTGTCCCAGA-GAGGGTCTTACACGTAAATCACAAATCG
1 ATGCCAATGTCCCAGACG-GGGTCTTACACGT-AATCACAAATCG
*
31855299 ATGCCAATGTCCCAGACGTGGTCTTACACGATAA-CACA
1 ATGCCAATGTCCCAGACGGGGTCTTACACG-TAATCACA
31855337 CAACGGAATC
Statistics
Matches: 69, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
42 1 0.01
43 28 0.41
44 38 0.55
45 2 0.03
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.23
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGGGGTCTTACACGTAATCACAAATCG
Found at i:31856871 original size:175 final size:175
Alignment explanation
Indices: 31856574--31856936 Score: 627
Period size: 175 Copynumber: 2.1 Consensus size: 175
31856564 TATTTTTGCA
* * *
31856574 ATGTCGAAGAAAGCGAAGTGTTCTGCATGGTGTTAAAGGATATAAAGGTCCCAAATGCGTATGCA
1 ATGTC-AAGAAAGAGAAGTGTTCTGCATGGTGTTAAAGGATATAAAGGTCCCAAATGCATATACA
*
31856639 TCAAATATATCTCAATGTGTGAGTCTTAGAGATCGAAGATTATATTCCTTAAAATCACATGATTA
65 TCAAATATATCTCAATGTGTGAGTCTTAGAGATCGAAGACTATATTCCTTAAAATCACATGATTA
*
31856704 TCACATCTTCATGCAAGATTTACTGCCAGTTGCTTTACGGTGTTGT
130 TCACATCTTCATGCAAGATTTACTGCCAGTTGCTTTACGATGTTGT
* *
31856750 ATGTCAAGAAAGAGAAGTGTTCTGCATGGTGTTGAAGGATATAAAGGTCCCAGATGCATATACAT
1 ATGTCAAGAAAGAGAAGTGTTCTGCATGGTGTTAAAGGATATAAAGGTCCCAAATGCATATACAT
31856815 CAAATATATCTCAATGTGTGAGTCTTAGAGATCGAAGACTATATTCCTTAAAATCACATGATTAT
66 CAAATATATCTCAATGTGTGAGTCTTAGAGATCGAAGACTATATTCCTTAAAATCACATGATTAT
* *
31856880 CACATCTTCATGCAAGATTTATTGCCAGTTGTTTTACGATGTTGT
131 CACATCTTCATGCAAGATTTACTGCCAGTTGCTTTACGATGTTGT
*
31856925 ATGTCAAAAAAG
1 ATGTCAAGAAAG
31856937 TTGACGTCTT
Statistics
Matches: 177, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
175 172 0.97
176 5 0.03
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (175 bp):
ATGTCAAGAAAGAGAAGTGTTCTGCATGGTGTTAAAGGATATAAAGGTCCCAAATGCATATACAT
CAAATATATCTCAATGTGTGAGTCTTAGAGATCGAAGACTATATTCCTTAAAATCACATGATTAT
CACATCTTCATGCAAGATTTACTGCCAGTTGCTTTACGATGTTGT
Found at i:31860829 original size:175 final size:175
Alignment explanation
Indices: 31860533--31861047 Score: 831
Period size: 175 Copynumber: 3.0 Consensus size: 175
31860523 TTTGTGAAAG
* *
31860533 AAGCGCCGCTAAAGGTCATGTTCTTTAGCACGATTAAGATAAAAGCGCCGCTAAAGGTCATGCTC
1 AAGCACCGCTAAAGGTCATGTTCTTTAGCGCGATTAAGATAAAAGCGCCGCTAAAGGTCATGCTC
* *
31860598 TATAGCAGCGTTTATGTGAAGAAAAAGTCACAAAATTTAGCGACATTGTTTATAGCGGCGTTTTT
66 TATAGCAGCGTTTATGTGAAGAAAACGTCGCAAAATTTAGCGACATTGTTTATAGCGGCGTTTTT
*
31860663 TACGGCGCTTGTGAAAGCACCGCAAATACTTTTAGTGACGCCTAA
131 TGCGGCGCTTGTGAAAGCACCGCAAATACTTTTAGTGACGCCTAA
31860708 AAGCACCGCTAAAGGTCATGTTCTTTAGCGCGATTAAGATAAAAGCGCCGCTAAAGGTCATGCTC
1 AAGCACCGCTAAAGGTCATGTTCTTTAGCGCGATTAAGATAAAAGCGCCGCTAAAGGTCATGCTC
* *
31860773 TATAGCATCGTTTATGTGAAGAAAACGTTGCAAAATTTAGCGACATTGTTTATAGCGGCGTTTTT
66 TATAGCAGCGTTTATGTGAAGAAAACGTCGCAAAATTTAGCGACATTGTTTATAGCGGCGTTTTT
31860838 TGCGGCGCTTGTGAAAGCACCGCAAATAC-TTT--T-A-G-C---
131 TGCGGCGCTTGTGAAAGCACCGCAAATACTTTTAGTGACGCCTAA
31860874 --G-A-CGCTAAAGGTCATGTTCTTTAGCGCGATTAAGATAAAAGCGCCGCTAAAGGTCATGCTC
1 AAGCACCGCTAAAGGTCATGTTCTTTAGCGCGATTAAGATAAAAGCGCCGCTAAAGGTCATGCTC
* * *
31860935 TATAGCAGCGTTTATGTGAAGAAAACGCCGCAAAATTTAGCGACATTGTCTATAGCGGTGTTTTT
66 TATAGCAGCGTTTATGTGAAGAAAACGTCGCAAAATTTAGCGACATTGTTTATAGCGGCGTTTTT
* *
31861000 TGCGACGCTTGTGAAAGCACCGCAAATACTTTTAGCGACGCCTAA
131 TGCGGCGCTTGTGAAAGCACCGCAAATACTTTTAGTGACGCCTAA
31861045 AAG
1 AAG
31861048 TGCCGTTATA
Statistics
Matches: 315, Mismatches: 14, Indels: 24
0.89 0.04 0.07
Matches are distributed among these distances:
162 147 0.47
163 4 0.01
164 1 0.00
166 1 0.00
167 1 0.00
168 1 0.00
169 1 0.00
170 1 0.00
171 1 0.00
172 1 0.00
173 1 0.00
174 3 0.01
175 152 0.48
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (175 bp):
AAGCACCGCTAAAGGTCATGTTCTTTAGCGCGATTAAGATAAAAGCGCCGCTAAAGGTCATGCTC
TATAGCAGCGTTTATGTGAAGAAAACGTCGCAAAATTTAGCGACATTGTTTATAGCGGCGTTTTT
TGCGGCGCTTGTGAAAGCACCGCAAATACTTTTAGTGACGCCTAA
Found at i:31860981 original size:162 final size:162
Alignment explanation
Indices: 31860714--31861045 Score: 601
Period size: 162 Copynumber: 2.0 Consensus size: 162
31860704 CTAAAAGCAC
31860714 CGCTAAAGGTCATGTTCTTTAGCGCGATTAAGATAAAAGCGCCGCTAAAGGTCATGCTCTATAGC
1 CGCTAAAGGTCATGTTCTTTAGCGCGATTAAGATAAAAGCGCCGCTAAAGGTCATGCTCTATAGC
* ** * *
31860779 ATCGTTTATGTGAAGAAAACGTTGCAAAATTTAGCGACATTGTTTATAGCGGCGTTTTTTGCGGC
66 AGCGTTTATGTGAAGAAAACGCCGCAAAATTTAGCGACATTGTCTATAGCGGCGTTTTTTGCGAC
31860844 GCTTGTGAAAGCACCGCAAATACTTTTAGCGA
131 GCTTGTGAAAGCACCGCAAATACTTTTAGCGA
31860876 CGCTAAAGGTCATGTTCTTTAGCGCGATTAAGATAAAAGCGCCGCTAAAGGTCATGCTCTATAGC
1 CGCTAAAGGTCATGTTCTTTAGCGCGATTAAGATAAAAGCGCCGCTAAAGGTCATGCTCTATAGC
*
31860941 AGCGTTTATGTGAAGAAAACGCCGCAAAATTTAGCGACATTGTCTATAGCGGTGTTTTTTGCGAC
66 AGCGTTTATGTGAAGAAAACGCCGCAAAATTTAGCGACATTGTCTATAGCGGCGTTTTTTGCGAC
31861006 GCTTGTGAAAGCACCGCAAATACTTTTAGCGA
131 GCTTGTGAAAGCACCGCAAATACTTTTAGCGA
31861038 CGCCTAAA
1 CG-CTAAA
31861046 AGTGCCGTTA
Statistics
Matches: 163, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
162 158 0.97
163 5 0.03
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (162 bp):
CGCTAAAGGTCATGTTCTTTAGCGCGATTAAGATAAAAGCGCCGCTAAAGGTCATGCTCTATAGC
AGCGTTTATGTGAAGAAAACGCCGCAAAATTTAGCGACATTGTCTATAGCGGCGTTTTTTGCGAC
GCTTGTGAAAGCACCGCAAATACTTTTAGCGA
Found at i:31862480 original size:16 final size:15
Alignment explanation
Indices: 31862458--31862500 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
31862448 TACTATTAAT
31862458 TTAAAATTTTATAAA
1 TTAAAATTTTATAAA
*
31862473 TTATAAATGGTT-TAAA
1 TTA-AAAT-TTTATAAA
31862489 TTAAAATTTTAT
1 TTAAAATTTTAT
31862501 TATTTTAGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
14 2 0.09
15 8 0.35
16 11 0.48
17 2 0.09
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.49
Consensus pattern (15 bp):
TTAAAATTTTATAAA
Found at i:31868419 original size:18 final size:18
Alignment explanation
Indices: 31868398--31868433 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
31868388 TTTCTTTTGA
31868398 ATCACTC-TCTCTTTTTTT
1 ATCACTCATCT-TTTTTTT
31868416 ATCACTCATCTTTTTTTT
1 ATCACTCATCTTTTTTTT
31868434 TTCTTCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.14, C:0.25, G:0.00, T:0.61
Consensus pattern (18 bp):
ATCACTCATCTTTTTTTT
Found at i:31880082 original size:41 final size:40
Alignment explanation
Indices: 31880012--31880198 Score: 164
Period size: 40 Copynumber: 4.6 Consensus size: 40
31880002 ACTCAATGTT
* *
31880012 TCGCACACTAAATGCCATCGCATAGCCGAAGCTATT-ATAA
1 TCGCACACTAAGTGCCAT-ACATAGCCGAAGCTATTCATAA
* * *
31880052 TCCCGCACACTAAGTGCCTTACATAGCCGAAGCTGTATCAGT-C
1 T--CGCACACTAAGTGCCATACATAGCCGAAGCTAT-TCA-TAA
* * * **
31880095 TCGTACACTTAGTGCCATATATAGCCGAAGCTATTCCCAA
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATTCATAA
* * *
31880135 TCGCACGCTAAGTGCCATAAATAGCGGAAGCTATCTCA-AA
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTAT-TCATAA
* *
31880175 TCGCACACTAAGTGCTAAACATAG
1 TCGCACACTAAGTGCCATACATAG
31880199 TCGATTAAGC
Statistics
Matches: 117, Mismatches: 23, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
40 54 0.46
41 44 0.38
42 16 0.14
43 2 0.02
44 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATACATAGCCGAAGCTATTCATAA
Found at i:31882734 original size:358 final size:358
Alignment explanation
Indices: 31882073--31882788 Score: 1360
Period size: 358 Copynumber: 2.0 Consensus size: 358
31882063 ACTTTTTTGA
*
31882073 GCTTTGCAAATCTGCTGCATAAATAACGATCTTGCTTTCAACTCAGCTATAATCGAGCCATCATC
1 GCTTTGCAAATCTGCTGCATAAATAACGATCTTGCTTCCAACTCAGCTATAATCGAGCCATCATC
31882138 AGATAGAGCCAACTGAGTATTCATTACCTGTAGAACAAACAAAAATTTCAACTTAAAGCATCAGC
66 AGATAGAGCCAACTGAGTATTCATTACCTGTAGAACAAACAAAAATTTCAACTTAAAGCATCAGC
31882203 AACAACATTGGCGTTTCCTGGATGGTAGTCAATCACTAGCTCATAATCTTTTTTTAACAATTCCA
131 AACAACATTGGCGTTTCCTGGATGGTAGTCAATCACTAGCTCATAATCTTTTTTTAACAATTCCA
*
31882268 ACCATCTTCGCTGTCGTATATTTAGATCTTTCTGAGTCATCAAATATTTTAAGCTCTTGTGATCA
196 ACCATCTTCGCTGTCGTATATTTAGATCTTTCTCAGTCATCAAATATTTTAAGCTCTTGTGATCA
31882333 GAATAAACATGACATTTCTGACTGAACAAATAGTGGCGCTAAATCTTCAACGCGAACACGATAGC
261 GAATAAACATGACATTTCTGACTGAACAAATAGTGGCGCTAAATCTTCAACGCGAACACGATAGC
31882398 TGCTAATTCCAAATCGTGCGTCGAGTAATTCTT
326 TGCTAATTCCAAATCGTGCGTCGAGTAATTCTT
31882431 GCTTTGCAAATCTGCTGCATAAATAACGATCTTGCTTCCAACTCAGCTATAATCGAGCCATCATC
1 GCTTTGCAAATCTGCTGCATAAATAACGATCTTGCTTCCAACTCAGCTATAATCGAGCCATCATC
31882496 AGATAGAGCCAACTGAGTATTCATTACCTGTAGAACAAACAAAAATTTCAACTTAAAGCATCAGC
66 AGATAGAGCCAACTGAGTATTCATTACCTGTAGAACAAACAAAAATTTCAACTTAAAGCATCAGC
31882561 AACAACATTGGCGTTTCCTGGATGGTAGTCAATCACTAGCTCATAATCTTTTTTTAACAATTCCA
131 AACAACATTGGCGTTTCCTGGATGGTAGTCAATCACTAGCTCATAATCTTTTTTTAACAATTCCA
* *
31882626 ACCATCTTCGTTGTCGTATATTTAGATCTTTTTCAGTCATCAAATATTTTAAGCTCTTGTGATCA
196 ACCATCTTCGCTGTCGTATATTTAGATCTTTCTCAGTCATCAAATATTTTAAGCTCTTGTGATCA
* * *
31882691 GAATAAACATGACATTTTTGACTGAACAAATAGTGGTGCTAAATCTTCGACGCGAACACGATAGC
261 GAATAAACATGACATTTCTGACTGAACAAATAGTGGCGCTAAATCTTCAACGCGAACACGATAGC
*
31882756 TGCTAATTCCAAATTGTGCGTCGAGTAATTCTT
326 TGCTAATTCCAAATCGTGCGTCGAGTAATTCTT
31882789 TTCATGCTGC
Statistics
Matches: 350, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
358 350 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (358 bp):
GCTTTGCAAATCTGCTGCATAAATAACGATCTTGCTTCCAACTCAGCTATAATCGAGCCATCATC
AGATAGAGCCAACTGAGTATTCATTACCTGTAGAACAAACAAAAATTTCAACTTAAAGCATCAGC
AACAACATTGGCGTTTCCTGGATGGTAGTCAATCACTAGCTCATAATCTTTTTTTAACAATTCCA
ACCATCTTCGCTGTCGTATATTTAGATCTTTCTCAGTCATCAAATATTTTAAGCTCTTGTGATCA
GAATAAACATGACATTTCTGACTGAACAAATAGTGGCGCTAAATCTTCAACGCGAACACGATAGC
TGCTAATTCCAAATCGTGCGTCGAGTAATTCTT
Found at i:31887173 original size:41 final size:40
Alignment explanation
Indices: 31887103--31887280 Score: 200
Period size: 40 Copynumber: 4.4 Consensus size: 40
31887093 ACTCAATGTT
* *
31887103 TCGCACACTAAATGCCATCGCATAGCCGAAGCTATT-ATAA
1 TCGCACACTAAGTGCCAT-ACATAGCCGAAGCTATTCATAA
* *
31887143 TCCCGCACACTAAGTGCCTTACATAGCCGAAGCTATATCAGT-C
1 T--CGCACACTAAGTGCCATACATAGCCGAAGCTAT-TCA-TAA
* **
31887186 TCGCACACTAAGTGCCATATATAGCCGAAGCTATTCCCAA
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATTCATAA
* *
31887226 TCGCACACTAAGTGCCATAAATAGCTGAAGCTATCTCA-AA
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTAT-TCATAA
31887266 TCGCACACTAAGTGC
1 TCGCACACTAAGTGC
31887281 TAAACATGGT
Statistics
Matches: 119, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
40 52 0.44
41 48 0.40
42 16 0.13
43 2 0.02
44 1 0.01
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATACATAGCCGAAGCTATTCATAA
Found at i:31887250 original size:81 final size:81
Alignment explanation
Indices: 31887103--31887280 Score: 216
Period size: 81 Copynumber: 2.2 Consensus size: 81
31887093 ACTCAATGTT
* * * * *
31887103 TCGCACACTAAATGCCATCGCATAGCCGAAGCTATTATAATCCCGCACACTAAGTGCCTTACATA
1 TCGCACACTAAGTGCCATCACATAGCCGAAGCTATTACAAT-CCGCACACTAAGTGCCATAAATA
**
31887168 GCCGAAGCTATATCAGTC
65 GCCGAAGCTATATCA-AA
* *
31887186 TCGCACACTAAGTGCCAT-ATATAGCCGAAGCTATTCCCAAT-CGCACACTAAGTGCCATAAATA
1 TCGCACACTAAGTGCCATCACATAGCCGAAGCTATT-ACAATCCGCACACTAAGTGCCATAAATA
* *
31887249 GCTGAAGCTATCTCAAA
65 GCCGAAGCTATATCAAA
31887266 TCGCACACTAAGTGC
1 TCGCACACTAAGTGC
31887281 TAAACATGGT
Statistics
Matches: 83, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
80 15 0.18
81 33 0.40
82 15 0.18
83 20 0.24
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (81 bp):
TCGCACACTAAGTGCCATCACATAGCCGAAGCTATTACAATCCGCACACTAAGTGCCATAAATAG
CCGAAGCTATATCAAA
Found at i:31889224 original size:24 final size:24
Alignment explanation
Indices: 31889190--31889237 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
31889180 ATTCTTTGTC
* *
31889190 CTTTTTCATTTTTTTTCTTTTTAA
1 CTTTTTCATTTATTTACTTTTTAA
*
31889214 CTTTTTTATTTATTTACTTTTTAA
1 CTTTTTCATTTATTTACTTTTTAA
31889238 GATTTTCTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (24 bp):
CTTTTTCATTTATTTACTTTTTAA
Found at i:31889243 original size:24 final size:25
Alignment explanation
Indices: 31889191--31889243 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
31889181 TTCTTTGTCC
* *
31889191 TTTTTCATTTTTTTTCTTTTTAAC-
1 TTTTTCATTTATTTACTTTTTAACA
* *
31889215 TTTTTTATTTATTTACTTTTTAAGA
1 TTTTTCATTTATTTACTTTTTAACA
31889240 TTTT
1 TTTT
31889244 CTTTACTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.17, C:0.08, G:0.02, T:0.74
Consensus pattern (25 bp):
TTTTTCATTTATTTACTTTTTAACA
Found at i:31889352 original size:22 final size:23
Alignment explanation
Indices: 31889316--31889366 Score: 70
Period size: 22 Copynumber: 2.2 Consensus size: 23
31889306 TATATACTAG
31889316 AAATGTTTTATAATATGA-TTTTTA
1 AAAT-TTTTATAATAT-ATTTTTTA
31889340 AAATTTTTA-AATATATTTTTTA
1 AAATTTTTATAATATATTTTTTA
31889362 AAATT
1 AAATT
31889367 ATTTTTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
21 1 0.04
22 16 0.62
23 5 0.19
24 4 0.15
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (23 bp):
AAATTTTTATAATATATTTTTTA
Found at i:31889378 original size:14 final size:13
Alignment explanation
Indices: 31889343--31889378 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
31889333 ATTTTTAAAA
*
31889343 TTTTTAAATATAT
1 TTTTTAAAAATAT
*
31889356 TTTTTAAAATTAT
1 TTTTTAAAAATAT
31889369 TTTTTAAAAA
1 TTTTTAAAAA
31889379 ACGTTTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TTTTTAAAAATAT
Found at i:31889427 original size:19 final size:19
Alignment explanation
Indices: 31889392--31889433 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
31889382 TTTAAATGTT
* *
31889392 ATTTTTAAAATTTTAAATA
1 ATTTTTAAAATTATAAAAA
31889411 ATTTTTAATAA-TATAAAAA
1 ATTTTTAA-AATTATAAAAA
31889430 ATTT
1 ATTT
31889434 AAAATATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 18 0.90
20 2 0.10
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTTTAAAATTATAAAAA
Found at i:31889515 original size:21 final size:21
Alignment explanation
Indices: 31889478--31889548 Score: 81
Period size: 21 Copynumber: 3.3 Consensus size: 21
31889468 ATTTATTATT
*
31889478 TATTTTATAATATTTTAAATGTA
1 TATTTTA-AA-ATTTTAAATATA
31889501 TATTTTAAAATTTTAAATATA
1 TATTTTAAAATTTTAAATATA
**
31889522 TATTTATTTAATTTTAAATATA
1 TATTT-TAAAATTTTAAATATA
31889544 -ATTTT
1 TATTTT
31889549 TTAAATTATG
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
20 1 0.02
21 20 0.45
22 16 0.36
23 7 0.16
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (21 bp):
TATTTTAAAATTTTAAATATA
Found at i:31889537 original size:22 final size:21
Alignment explanation
Indices: 31889489--31889552 Score: 85
Period size: 21 Copynumber: 3.0 Consensus size: 21
31889479 ATTTTATAAT
* **
31889489 ATTTTAAATGTATATTTTAAA
1 ATTTTAAATATATATTTTTTA
31889510 ATTTTAAATATATATTTATTTA
1 ATTTTAAATATATATTT-TTTA
31889532 ATTTTAAATATA-ATTTTTTA
1 ATTTTAAATATATATTTTTTA
31889552 A
1 A
31889553 ATTATGATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
20 5 0.13
21 20 0.51
22 14 0.36
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTTTAAATATATATTTTTTA
Found at i:31889564 original size:15 final size:15
Alignment explanation
Indices: 31889533--31889572 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
31889523 ATTTATTTAA
31889533 TTTTAAA-TATAATT
1 TTTTAAATTATAATT
*
31889547 TTTTAAATTATGATT
1 TTTTAAATTATAATT
31889562 TTTTAAATTAT
1 TTTTAAATTAT
31889573 TTTTAAAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 7 0.29
15 17 0.71
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (15 bp):
TTTTAAATTATAATT
Found at i:31889708 original size:18 final size:19
Alignment explanation
Indices: 31889670--31889711 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
31889660 GAAAAAAATA
*
31889670 AAAAAGGATTTATTTGTTT
1 AAAAAGGATTTAGTTGTTT
31889689 AAAAAGGATTTAGTTG-TT
1 AAAAAGGATTTAGTTGTTT
31889707 AAAAA
1 AAAAA
31889712 TATGGTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.45, C:0.00, G:0.17, T:0.38
Consensus pattern (19 bp):
AAAAAGGATTTAGTTGTTT
Found at i:31889765 original size:29 final size:29
Alignment explanation
Indices: 31889733--31889788 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
31889723 AAATATATAT
*
31889733 ATATTAAAAAAGTAAAAATTTATATTAAA
1 ATATTAAAAAAGTAAAAATATATATTAAA
* *
31889762 ATATTAAAATATTAAAAATATATATTA
1 ATATTAAAAAAGTAAAAATATATATTA
31889789 TAACTTATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (29 bp):
ATATTAAAAAAGTAAAAATATATATTAAA
Found at i:31889782 original size:9 final size:8
Alignment explanation
Indices: 31889754--31889778 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
31889744 GTAAAAATTT
31889754 ATATTAAA
1 ATATTAAA
31889762 ATATTAAA
1 ATATTAAA
31889770 ATATTAAA
1 ATATTAAA
31889778 A
1 A
31889779 ATATATATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
ATATTAAA
Found at i:31889976 original size:7 final size:7
Alignment explanation
Indices: 31889964--31889994 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
31889954 TTATTTATAG
31889964 TTTTTAT
1 TTTTTAT
31889971 TTTTTAT
1 TTTTTAT
31889978 TTTTTAT
1 TTTTTAT
31889985 TTTTTAT
1 TTTTTAT
31889992 TTT
1 TTT
31889995 ATAGTTATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (7 bp):
TTTTTAT
Found at i:31897394 original size:21 final size:20
Alignment explanation
Indices: 31897370--31897422 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
31897360 CTTTAAAAAT
*
31897370 AATTTAAAAAATTATATTTAA
1 AATTTAAAAAATTAT-TTAAA
31897391 AA-TTAAAAAA-TATTTAAA
1 AATTTAAAAAATTATTTAAA
31897409 ATATTATAAAAAAT
1 A-ATT-TAAAAAAT
31897423 AATAAGTTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
18 5 0.19
19 4 0.15
20 9 0.33
21 9 0.33
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTTAAAAAATTATTTAAA
Found at i:31897568 original size:4 final size:4
Alignment explanation
Indices: 31897559--31897615 Score: 57
Period size: 4 Copynumber: 14.5 Consensus size: 4
31897549 TAAAACCAAT
**
31897559 AATA AATA AATA AATA AAGG AA-A AATA AATA AA-A AACTTA AA-A AATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AA--TA AATA AATA
31897606 AATA AATA AA
1 AATA AATA AA
31897616 AAACTTAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
3 8 0.18
4 34 0.76
6 3 0.07
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (4 bp):
AATA
Found at i:31897640 original size:24 final size:25
Alignment explanation
Indices: 31897578--31897641 Score: 96
Period size: 24 Copynumber: 2.6 Consensus size: 25
31897568 ATAAATAAAG
31897578 GAAAAATAAATAAAAAACTTAAAAA
1 GAAAAATAAATAAAAAACTTAAAAA
*
31897603 -ATAAATAAATAAAAAACTTAAAAA
1 GAAAAATAAATAAAAAACTTAAAAA
*
31897627 GAAAAACAAA-AAAAA
1 GAAAAATAAATAAAAA
31897642 GGGAAAGGAC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
24 28 0.80
25 7 0.20
ACGTcount: A:0.78, C:0.05, G:0.03, T:0.14
Consensus pattern (25 bp):
GAAAAATAAATAAAAAACTTAAAAA
Found at i:31897724 original size:8 final size:8
Alignment explanation
Indices: 31897707--31897745 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
31897697 TATCTGTTTC
31897707 AATAGGCA
1 AATAGGCA
*
31897715 AATAGACA
1 AATAGGCA
31897723 AATAGGCA
1 AATAGGCA
*
31897731 GATAGGCA
1 AATAGGCA
31897739 AATAGGC
1 AATAGGC
31897746 TACTGTCTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.49, C:0.13, G:0.26, T:0.13
Consensus pattern (8 bp):
AATAGGCA
Found at i:31900218 original size:16 final size:16
Alignment explanation
Indices: 31900197--31900227 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31900187 TTATAATATA
31900197 AAATATAATAATAGTT
1 AAATATAATAATAGTT
*
31900213 AAATATAATAGTAGT
1 AAATATAATAATAGT
31900228 ACATTATACA
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:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (16 bp):
AAATATAATAATAGTT
Found at i:31901042 original size:114 final size:114
Alignment explanation
Indices: 31900888--31901520 Score: 579
Period size: 115 Copynumber: 5.6 Consensus size: 114
31900878 GTATATTAGA
* * * * * *
31900888 ATTAGTGGCGCTTATT-AGAAGTGCCGAAAAAAATCTTAACCAAAACGCAGCGTTTTGGTCTCGA
1 ATTAGCGGCGCTTTTTGAGAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGA
* * *
31900952 TGTATAATACAATTAGTGGCGTTA-GGGAAAAACGCCGCTAAAGCATAAC
66 TGTATACTAGAATTAGTGGCGTTACGAG-AAAACGCCGCTAAAGCATAAC
* * * * *
31901001 ATTAGTGGCGATTTTTTAGAAGCGCCGCAAAATATCTTAACCAAAACACAGAG--TTGGTCTTGA
1 ATTAGCGGCGCTTTTTGAGAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGA
* ** *
31901064 AGTATACTAGAATTAGTGGCGAAAAC-AGAAAACGCCGCTAAAGCGT-AC
66 TGTATACTAGAATTAGTGGCG-TTACGAGAAAACGCCGCTAAAGCATAAC
* * * * * * * *
31901112 TATTAACGGCGCGTTTGGAGAAGCGCCGCTAAATTTTGTTAACCAAAACTCAACGTTTTGGTCTT
1 -ATTAGCGGCGCTTTTTGAGAAGCGCCGC-AAAATATCTTAACCAAAACGCAGCGTTTTGGTCTT
* * ** **
31901177 GATGTATACTATAATTAGTGGCGCTTACTAGAAAACGCCGCTAAATAATAGT
64 GATGTATACTAGAATTAGTGGCG-TTACGAGAAAACGCCGCTAAAGCATAAC
** * * * *
31901229 ATTAGCGGCGCTTTGCGATAAGCGCCACAAGATATGC--ACACCAAAACGCAGAG-TTTGGTCTT
1 ATTAGCGGCGCTTTTTGAGAAGCGCCGCAAAATAT-CTTA-ACCAAAACGCAGCGTTTTGGTCTT
* * * * *
31901291 GAGGTATATTAGAATTAGTGGCGCTTATGGGAAAACGCCGCTATAGCAT-AC
64 GATGTATACTAGAATTAGTGGCG-TTACGAGAAAACGCCGCTAAAGCATAAC
* * ** **
31901342 TATTAGCGGCGCGTTTTT-AGAAGCGCCGCAAAATATATTAACTAAAACGTTGCGTTTAAGTCTT
1 -ATTAGCGGCGC-TTTTTGAGAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTT
* * * **
31901406 AATGTATACTGGAATTAGTGGCGTTCACGAGAAATCGCCGCTAAAGCATATT
64 GATGTATACTAGAATTAGTGGCGTT-ACGAGAAAACGCCGCTAAAGCATAAC
*
31901458 ATTAGCGGCGCTTTTTGGGAAGCGCCGCAAAATATCTTAACCAAAACGCA-CAGTTTTGGTCTT
1 ATTAGCGGCGCTTTTTGAGAAGCGCCGCAAAATATCTTAACCAAAACGCAGC-GTTTTGGTCTT
31901521 AACCATGCAT
Statistics
Matches: 410, Mismatches: 90, Indels: 38
0.76 0.17 0.07
Matches are distributed among these distances:
111 2 0.00
112 66 0.16
113 35 0.09
114 125 0.30
115 143 0.35
116 39 0.10
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (114 bp):
ATTAGCGGCGCTTTTTGAGAAGCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGA
TGTATACTAGAATTAGTGGCGTTACGAGAAAACGCCGCTAAAGCATAAC
Found at i:31901483 original size:229 final size:227
Alignment explanation
Indices: 31900923--31901520 Score: 621
Period size: 229 Copynumber: 2.6 Consensus size: 227
31900913 GAAAAAAATC
* * ** ** * * *
31900923 TTAACCAAAACGCAGCGTTTTGGTCTCGATGTATAATACAATTAGTGGCGTTA-GGGAAAAACGC
1 TTAACCAAAACTCAACGTTTAAGTCTTAATGTATACTAGAATTAGTGGCGTTACGAG-AAAACGC
* * * * *
31900987 CGCTAAAGCATAACATTAGTGGCGATTTTTTAGAAGCGCCGCAAAATATCTTAACCAAAACACAG
65 CGCTAAAGCATAATATTAGCGGCGCTTTTTGAGAAGCGCCGCAAAATATC-TAACCAAAACGCAG
*
31901052 AG-TTGGTCTTGAAGTATACTAGAATTAGTGGCGAAAACAGAAAACGCCGCTAAAGCGTACTATT
129 AGTTTGGTCTTGAAGTATACTAGAATTAGTGGCGAAAACAGAAAACGCCGCTAAAGCATACTATT
* * *
31901116 AACGGCGCGTTTGGAGAAGCGCCGCTAAATTTTG
194 AACGGCGCGTTTGGAGAAGCGCCGCTAAAATATA
** * * *
31901150 TTAACCAAAACTCAACGTTTTGGTCTTGATGTATACTATAATTAGTGGCGCTTACTAGAAAACGC
1 TTAACCAAAACTCAACGTTTAAGTCTTAATGTATACTAGAATTAGTGGCG-TTACGAGAAAACGC
** * ** * * *
31901215 CGCTAAATAATAGTATTAGCGGCGCTTTGCGATAAGCGCCACAAGATATGC-ACACCAAAACGCA
65 CGCTAAAGCATAATATTAGCGGCGCTTTTTGAGAAGCGCCGCAAAATAT-CTA-ACCAAAACGCA
* * ** *** *
31901279 GAGTTTGGTCTTGAGGTATATTAGAATTAGTGGCGCTTATGGGAAAACGCCGCTATAGCATACTA
128 GAGTTTGGTCTTGAAGTATACTAGAATTAGTGGCG-AAAACAGAAAACGCCGCTAAAGCATACTA
* **
31901344 TTAGCGGCGCGTTTTTAGAAGCGCCGC-AAAATATA
192 TTAACGGCGCGTTTGGAGAAGCGCCGCTAAAATATA
* ** * *
31901379 TTAACTAAAACGT-TGCGTTTAAGTCTTAATGTATACTGGAATTAGTGGCGTTCACGAGAAATCG
1 TTAACCAAAAC-TCAACGTTTAAGTCTTAATGTATACTAGAATTAGTGGCGTT-ACGAGAAAACG
* *
31901443 CCGCTAAAGCATATTATTAGCGGCGCTTTTTGGGAAGCGCCGCAAAATATCTTAACCAAAACGCA
64 CCGCTAAAGCATAATATTAGCGGCGCTTTTTGAGAAGCGCCGCAAAATATC-TAACCAAAACGCA
*
31901508 CAGTTTTGGTCTT
128 GAG-TTTGGTCTT
31901521 AACCATGCAT
Statistics
Matches: 305, Mismatches: 55, Indels: 19
0.80 0.15 0.05
Matches are distributed among these distances:
227 46 0.15
228 63 0.21
229 139 0.46
230 57 0.19
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (227 bp):
TTAACCAAAACTCAACGTTTAAGTCTTAATGTATACTAGAATTAGTGGCGTTACGAGAAAACGCC
GCTAAAGCATAATATTAGCGGCGCTTTTTGAGAAGCGCCGCAAAATATCTAACCAAAACGCAGAG
TTTGGTCTTGAAGTATACTAGAATTAGTGGCGAAAACAGAAAACGCCGCTAAAGCATACTATTAA
CGGCGCGTTTGGAGAAGCGCCGCTAAAATATA
Found at i:31902781 original size:83 final size:83
Alignment explanation
Indices: 31902688--31902868 Score: 199
Period size: 83 Copynumber: 2.2 Consensus size: 83
31902678 AACTTTTCCA
** ** * * *
31902688 AATGCGGCGCCGTTTCAGTGTTGGCAAA-AATTTTATAGTGGCGTTTT-TTAAGGGAAACGCCGC
1 AATGCGGCGCCGTTTCAGTACTGAAAAATAATTTAATAGTGGCGTTTTGTT-A-GAAAACGCCAC
*
31902751 AATAAT-TAATTAAA-TTTCCC
64 AATAATAT-A-TAAACTTCCCC
* *
31902771 TATGCGGCGCCGTTTCTGTACTGAAAAATAATTTAATAGTGGCGTTTTGTTAGAAAACGCCACAA
1 AATGCGGCGCCGTTTCAGTACTGAAAAATAATTTAATAGTGGCGTTTTGTTAGAAAACGCCACAA
*
31902836 TTATATATAAACTTCCCC
66 TAATATATAAACTTCCCC
31902854 AATGCGGCGCCGTTT
1 AATGCGGCGCCGTTT
31902869 ATGAACTTCA
Statistics
Matches: 82, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
82 4 0.05
83 56 0.68
84 20 0.24
85 2 0.02
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (83 bp):
AATGCGGCGCCGTTTCAGTACTGAAAAATAATTTAATAGTGGCGTTTTGTTAGAAAACGCCACAA
TAATATATAAACTTCCCC
Found at i:31905259 original size:23 final size:22
Alignment explanation
Indices: 31905215--31905272 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 22
31905205 AAATTGATAT
*
31905215 TACATAACTTACATAACCTACA
1 TACATAACTTACATAACATACA
31905237 TACATAAACTTACAT---ATA-A
1 TACAT-AACTTACATAACATACA
*
31905256 TACATAACTTATATAAC
1 TACATAACTTACATAAC
31905273 TTAAATTTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
18 8 0.27
19 6 0.20
20 2 0.07
22 5 0.17
23 9 0.30
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (22 bp):
TACATAACTTACATAACATACA
Found at i:31905357 original size:12 final size:12
Alignment explanation
Indices: 31905340--31905710 Score: 94
Period size: 12 Copynumber: 30.7 Consensus size: 12
31905330 TACATAACCA
*
31905340 ACATAATGACTT
1 ACATAATAACTT
*
31905352 ACATAATAACCT
1 ACATAATAACTT
31905364 ACATAATAACTT
1 ACATAATAACTT
*
31905376 ACTTAATAA--T
1 ACATAATAACTT
* *
31905386 ACATAACATACAT
1 ACATAATA-ACTT
* *
31905399 AAATTAAATAAGTT
1 ACA-T-AATAACTT
**
31905413 ACATAATACACAAAA
1 ACATAATA-AC--TT
*
31905428 ACA-AAAAACTT
1 ACATAATAACTT
31905439 AC---ATAACTT
1 ACATAATAACTT
* *
31905448 ACATAATATCCT
1 ACATAATAACTT
31905460 ACATAATAACTT
1 ACATAATAACTT
31905472 ACATAATAA--T
1 ACATAATAACTT
* *
31905482 ACATACCCT-ACAT
1 ACATA--ATAACTT
* *
31905495 AAATTAAATAAGTT
1 ACA-T-AATAACTT
**
31905509 ACATAATACACAA
1 ACATAATA-ACTT
* * *
31905522 AAACAAAAACTT
1 ACATAATAACTT
31905534 AC---ATAACTT
1 ACATAATAACTT
* *
31905543 ACATAATATCCT
1 ACATAATAACTT
31905555 ACATAATAACTT
1 ACATAATAACTT
31905567 ACATAATAA--T
1 ACATAATAACTT
* * *
31905577 ACATACTTACAT
1 ACATAATAACTT
* *
31905589 AAATTAAATAAGTT
1 ACA-T-AATAACTT
**
31905603 ACATAATACACAA
1 ACATAATA-ACTT
* * *
31905616 AAACAAAAACTT
1 ACATAATAACTT
* *
31905628 ACATAACTTACAT
1 ACATAA-TAACTT
31905641 A-ATACATAACTT
1 ACATA-ATAACTT
31905653 ACATAACCT-ACTT
1 ACATAA--TAACTT
31905666 A-ATACATAACTT
1 ACATA-ATAACTT
*
31905678 ACATAATACAC-A
1 ACATAATA-ACTT
*
31905690 ACTTACATAACTT
1 ACATA-ATAACTT
31905703 ACATAATA
1 ACATAATA
31905711 CATAATTTAC
Statistics
Matches: 252, Mismatches: 69, Indels: 76
0.63 0.17 0.19
Matches are distributed among these distances:
9 16 0.06
10 21 0.08
11 5 0.02
12 131 0.52
13 52 0.21
14 20 0.08
15 7 0.03
ACGTcount: A:0.52, C:0.18, G:0.01, T:0.28
Consensus pattern (12 bp):
ACATAATAACTT
Found at i:31905391 original size:95 final size:95
Alignment explanation
Indices: 31905348--31905683 Score: 538
Period size: 96 Copynumber: 3.6 Consensus size: 95
31905338 CAACATAATG
* * *
31905348 ACTTACATAATAACCTACATAATAACTTACTTAATAATACATAACATACATAAATTAAATAAGTT
1 ACTTACATAATATCCTACATAATAACTTACATAATAATACATAACTTACATAAATTAAATAAGTT
31905413 ACATAATACACAAAAACAAAAAACTTACATA
66 ACATAATACACAAAAAC-AAAAACTTACATA
* *
31905444 ACTTACATAATATCCTACATAATAACTTACATAATAATACATACCCTACATAAATTAAATAAGTT
1 ACTTACATAATATCCTACATAATAACTTACATAATAATACATAACTTACATAAATTAAATAAGTT
31905509 ACATAATACACAAAAACAAAAACTTACATA
66 ACATAATACACAAAAACAAAAACTTACATA
31905539 ACTTACATAATATCCTACATAATAACTTACATAATAATACAT-ACTTACATAAATTAAATAAGTT
1 ACTTACATAATATCCTACATAATAACTTACATAATAATACATAACTTACATAAATTAAATAAGTT
31905603 ACATAATACACAAAAACAAAAACTTACATA
66 ACATAATACACAAAAACAAAAACTTACATA
* * *
31905633 ACTTACATAATA-CATAACTTACATAACCTAC-T--TAATACATAACTTACATAA
1 ACTTACATAATATCCT-ACATA-ATAACTTACATAATAATACATAACTTACATAA
31905684 TACACAACTT
Statistics
Matches: 228, Mismatches: 9, Indels: 9
0.93 0.04 0.04
Matches are distributed among these distances:
92 8 0.04
93 12 0.05
94 67 0.29
95 63 0.28
96 78 0.34
ACGTcount: A:0.53, C:0.18, G:0.01, T:0.28
Consensus pattern (95 bp):
ACTTACATAATATCCTACATAATAACTTACATAATAATACATAACTTACATAAATTAAATAAGTT
ACATAATACACAAAAACAAAAACTTACATA
Found at i:31905418 original size:9 final size:9
Alignment explanation
Indices: 31905385--31905785 Score: 106
Period size: 9 Copynumber: 44.8 Consensus size: 9
31905375 TACTTAATAA
31905385 TACATAACA-
1 TACATAA-AT
31905394 TACATAAAT
1 TACATAAAT
* *
31905403 TAAATAAGT
1 TACATAAAT
31905412 TACAT-AA-
1 TACATAAAT
*
31905419 TACACAAA-
1 TACATAAAT
* *
31905427 AACAAAAAACT
1 TAC-ATAAA-T
*
31905438 TACATAACT
1 TACATAAAT
31905447 TACATAATAT
1 TACATAA-AT
31905457 CCTACATAATAACT
1 --TACAT-A-AA-T
*
31905471 TACATAATAA
1 TACATAA-AT
***
31905481 TACATACCC
1 TACATAAAT
31905490 TACATAAAT
1 TACATAAAT
* *
31905499 TAAATAAGT
1 TACATAAAT
31905508 TACAT-AA-
1 TACATAAAT
*
31905515 TACACAAA-
1 TACATAAAT
* *
31905523 AACAAAAACT
1 TACATAAA-T
*
31905533 TACATAACT
1 TACATAAAT
31905542 TACATAATAT
1 TACATAA-AT
31905552 CCTACATAATAACT
1 --TACAT-A-AA-T
*
31905566 TACATAATAA
1 TACATAA-AT
*
31905576 TACAT-ACT
1 TACATAAAT
31905584 TACATAAAT
1 TACATAAAT
* *
31905593 TAAATAAGT
1 TACATAAAT
31905602 TACAT-AA-
1 TACATAAAT
*
31905609 TACACAAA-
1 TACATAAAT
* *
31905617 AACAAAAACT
1 TACATAAA-T
*
31905627 TACATAACT
1 TACATAAAT
31905636 TACAT-AA-
1 TACATAAAT
*
31905643 TACATAACT
1 TACATAAAT
**
31905652 TACATAACC
1 TACATAAAT
*
31905661 TAC-TTAA-
1 TACATAAAT
*
31905668 TACATAACT
1 TACATAAAT
31905677 TACAT-AA-
1 TACATAAAT
* *
31905684 TACACAACT
1 TACATAAAT
*
31905693 TACATAACT
1 TACATAAAT
31905702 TACAT-AA-
1 TACATAAAT
*
31905709 TACATAATT
1 TACATAAAT
*
31905718 TACATAACT
1 TACATAAAT
*
31905727 TACATAAGT
1 TACATAAAT
*
31905736 TTCAT-AA-
1 TACATAAAT
* *
31905743 TACACAACT
1 TACATAAAT
* *
31905752 TACACAACT
1 TACATAAAT
*
31905761 TACATAACT
1 TACATAAAT
*
31905770 TACATAACT
1 TACATAAAT
31905779 TACATAA
1 TACATAA
31905786 CTTATTCCTA
Statistics
Matches: 292, Mismatches: 64, Indels: 72
0.68 0.15 0.17
Matches are distributed among these distances:
7 32 0.11
8 41 0.14
9 157 0.54
10 28 0.10
11 6 0.02
12 20 0.07
13 4 0.01
14 4 0.01
ACGTcount: A:0.51, C:0.19, G:0.01, T:0.29
Consensus pattern (9 bp):
TACATAAAT
Found at i:31905644 original size:34 final size:34
Alignment explanation
Indices: 31905560--31905776 Score: 192
Period size: 34 Copynumber: 6.4 Consensus size: 34
31905550 ATCCTACATA
* * * *
31905560 ATAACTTACATAATAATACATACTTACATAAATTAA
1 ATAACTTACATAAT-ACACA-ACTTACACAACTTAC
* ** *
31905596 ATAAGTTACATAATACACAA-AAACAAAAACTTAC
1 ATAACTTACATAATACACAACTTAC-ACAACTTAC
* * *
31905630 ATAACTTACATAATACATAACTTACATAACCTAC
1 ATAACTTACATAATACACAACTTACACAACTTAC
* *
31905664 TTAA--TACATAACTTACATAA--TACACAACTTAC
1 ATAACTTACATAA--TACACAACTTACACAACTTAC
* * *
31905696 ATAACTTACATAATACATAATTTACATAACTTAC
1 ATAACTTACATAATACACAACTTACACAACTTAC
* *
31905730 ATAAGTTTCATAATACACAACTTACACAACTTAC
1 ATAACTTACATAATACACAACTTACACAACTTAC
31905764 ATAACTTACATAA
1 ATAACTTACATAA
31905777 CTTACATAAC
Statistics
Matches: 148, Mismatches: 25, Indels: 18
0.77 0.13 0.09
Matches are distributed among these distances:
32 27 0.18
33 2 0.01
34 100 0.68
35 6 0.04
36 13 0.09
ACGTcount: A:0.50, C:0.19, G:0.01, T:0.30
Consensus pattern (34 bp):
ATAACTTACATAATACACAACTTACACAACTTAC
Found at i:31905648 original size:16 final size:17
Alignment explanation
Indices: 31905627--31905789 Score: 160
Period size: 16 Copynumber: 9.6 Consensus size: 17
31905617 AACAAAAACT
31905627 TACATAACTTACATAA-
1 TACATAACTTACATAAC
31905643 TACATAACTTACATAACC
1 TACATAACTTACATAA-C
*
31905661 TACTTAA--TACATAAC
1 TACATAACTTACATAAC
*
31905676 TTACATAA--TACACAAC
1 -TACATAACTTACATAAC
31905692 TTACATAACTTACATAA-
1 -TACATAACTTACATAAC
*
31905709 TACATAATTTACATAAC
1 TACATAACTTACATAAC
* *
31905726 TTACATAAGTTTCATAA-
1 -TACATAACTTACATAAC
* *
31905743 TACACAACTTACACAAC
1 TACATAACTTACATAAC
31905760 TTACATAACTTACATAAC
1 -TACATAACTTACATAAC
31905778 TTACATAACTTA
1 -TACATAACTTA
31905790 TTCCTAAATC
Statistics
Matches: 125, Mismatches: 13, Indels: 16
0.81 0.08 0.10
Matches are distributed among these distances:
15 1 0.01
16 71 0.57
18 53 0.42
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (17 bp):
TACATAACTTACATAAC
Found at i:31905651 original size:25 final size:26
Alignment explanation
Indices: 31905576--31905789 Score: 196
Period size: 25 Copynumber: 8.4 Consensus size: 26
31905566 TACATAATAA
* *
31905576 TACAT-ACTTACATAAATTAAATAAGT
1 TACATAACTTACAT-AATTACATAACT
* ** *
31905602 TACATAA--TACACAAAAACAAAAACT
1 TACATAACTTACATAATTAC-ATAACT
31905627 TACATAACTTACATAA-TACATAACT
1 TACATAACTTACATAATTACATAACT
* *
31905652 TACATAACCTACTTAA-TACATAACT
1 TACATAACTTACATAATTACATAACT
*
31905677 TACATAA--TACACAACTTACATAACT
1 TACATAACTTACATAA-TTACATAACT
31905702 TACATAA--TACATAATTTACATAACT
1 TACATAACTTACATAA-TTACATAACT
* * *
31905727 TACATAAGTTTCATAA-TACACAACT
1 TACATAACTTACATAATTACATAACT
*
31905752 TACACAACTTACATAACTTACATAACT
1 TACATAACTTACATAA-TTACATAACT
31905779 TACATAACTTA
1 TACATAACTTA
31905790 TTCCTAAATC
Statistics
Matches: 156, Mismatches: 22, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
23 5 0.03
24 3 0.02
25 110 0.71
26 7 0.04
27 31 0.20
ACGTcount: A:0.49, C:0.20, G:0.01, T:0.30
Consensus pattern (26 bp):
TACATAACTTACATAATTACATAACT
Found at i:31905786 original size:9 final size:9
Alignment explanation
Indices: 31905529--31905789 Score: 200
Period size: 9 Copynumber: 30.7 Consensus size: 9
31905519 CAAAAACAAA
31905529 AACTTACAT
1 AACTTACAT
31905538 AACTTACAT
1 AACTTACAT
*
31905547 AA--TATCCT
1 AACTTA-CAT
*
31905555 -ACATA-AT
1 AACTTACAT
31905562 AACTTACAT
1 AACTTACAT
31905571 AA-TAATACAT
1 AACT--TACAT
31905581 -ACTTACAT
1 AACTTACAT
* *
31905589 AAATTAAAT
1 AACTTACAT
*
31905598 AAGTTACAT
1 AACTTACAT
*
31905607 AA--TACAC
1 AACTTACAT
** *
31905614 AA-AAACAAA
1 AACTTAC-AT
31905623 AACTTACAT
1 AACTTACAT
31905632 AACTTACAT
1 AACTTACAT
31905641 AA--TACAT
1 AACTTACAT
31905648 AACTTACAT
1 AACTTACAT
* *
31905657 AACCTACTT
1 AACTTACAT
31905666 AA--TACAT
1 AACTTACAT
31905673 AACTTACAT
1 AACTTACAT
*
31905682 AA--TACAC
1 AACTTACAT
31905689 AACTTACAT
1 AACTTACAT
31905698 AACTTACAT
1 AACTTACAT
31905707 AA--TACAT
1 AACTTACAT
*
31905714 AATTTACAT
1 AACTTACAT
31905723 AACTTACAT
1 AACTTACAT
* *
31905732 AAGTTTCAT
1 AACTTACAT
*
31905741 AA--TACAC
1 AACTTACAT
*
31905748 AACTTACAC
1 AACTTACAT
31905757 AACTTACAT
1 AACTTACAT
31905766 AACTTACAT
1 AACTTACAT
31905775 AACTTACAT
1 AACTTACAT
31905784 AACTTA
1 AACTTA
31905790 TTCCTAAATC
Statistics
Matches: 206, Mismatches: 24, Indels: 44
0.75 0.09 0.16
Matches are distributed among these distances:
7 41 0.20
8 14 0.07
9 143 0.69
10 8 0.04
ACGTcount: A:0.49, C:0.20, G:0.01, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:31907281 original size:42 final size:42
Alignment explanation
Indices: 31907222--31907306 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
31907212 ATTTGGTTGG
31907222 AGTACCAAGGGTCGTTATGCGTGTCCTTGTTGTGCTGCACAA
1 AGTACCAAGGGTCGTTATGCGTGTCCTTGTTGTGCTGCACAA
31907264 AGTACCAAGGGTCGTTATGCGTGTCCTTGTTGTGCTGCACAA
1 AGTACCAAGGGTCGTTATGCGTGTCCTTGTTGTGCTGCACAA
31907306 A
1 A
31907307 CATGTTCGCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (42 bp):
AGTACCAAGGGTCGTTATGCGTGTCCTTGTTGTGCTGCACAA
Found at i:31911297 original size:21 final size:21
Alignment explanation
Indices: 31911271--31911315 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
31911261 AACTTAAAGT
*
31911271 AGAGGCGGAAGCGAGGGAAGC
1 AGAGGCGGAAGCGAGAGAAGC
* * *
31911292 AGAGGCTGCAGTGAGAGAAGC
1 AGAGGCGGAAGCGAGAGAAGC
31911313 AGA
1 AGA
31911316 AGTTCAAAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.13, G:0.47, T:0.04
Consensus pattern (21 bp):
AGAGGCGGAAGCGAGAGAAGC
Found at i:31911854 original size:84 final size:84
Alignment explanation
Indices: 31911754--31911941 Score: 229
Period size: 84 Copynumber: 2.2 Consensus size: 84
31911744 AAAGCGCCGT
* * *
31911754 TAAAGAACATGTTCTTTAGCAGTGCA-TATACACAAACACCGCTAAAGAACATGATCTTTAGCGG
1 TAAAGAACATGTTCTTTAGCAG-GCACTAGAAAAAAACACCGCTAAAGAACATGATCTTTAGCGG
31911818 CGCTTA-ATAAAAAACACCAC
65 CGCTTAGA-AAAAAACACCAC
* * * * *
31911838 TAAAGATCATGTTCTTTAG-TGGCACTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGG
1 TAAAGAACATGTTCTTTAGCAGGCAC-TAGAAAAAAACACCGCTAAAGAACATGATCTTTAGCGG
**
31911902 CGCTTAGAAAAAAATGCCAC
65 CGCTTAGAAAAAAACACCAC
*
31911922 TAAAGAACATGATCTTTAGC
1 TAAAGAACATGTTCTTTAGC
31911942 GGCGTTTTTG
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
82 3 0.03
83 1 0.01
84 83 0.94
85 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.25
Consensus pattern (84 bp):
TAAAGAACATGTTCTTTAGCAGGCACTAGAAAAAAACACCGCTAAAGAACATGATCTTTAGCGGC
GCTTAGAAAAAAACACCAC
Found at i:31911942 original size:42 final size:42
Alignment explanation
Indices: 31911754--31911945 Score: 206
Period size: 42 Copynumber: 4.6 Consensus size: 42
31911744 AAAGCGCCGT
* * * * * * * * *
31911754 TAAAGAACATGTTCTTTAGCAGTGCATATACACAAACACCGC
1 TAAAGAACATGATCTTTAGCGGCGCTTAGAAAAAAACGCCAC
*
31911796 TAAAGAACATGATCTTTAGCGGCGCTTA-ATAAAAAACACCAC
1 TAAAGAACATGATCTTTAGCGGCGCTTAGA-AAAAAACGCCAC
* * * * *
31911838 TAAAGATCATGTTCTTTAGTGGCACTTAGAAAAAAACGCCGC
1 TAAAGAACATGATCTTTAGCGGCGCTTAGAAAAAAACGCCAC
* * *
31911880 TAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAATGCCAC
1 TAAAGAACATGATCTTTAGCGGCGCTTAGAAAAAAACGCCAC
31911922 TAAAGAACATGATCTTTAGCGGCG
1 TAAAGAACATGATCTTTAGCGGCG
31911946 TTTTTGTTTG
Statistics
Matches: 129, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
41 1 0.01
42 127 0.98
43 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (42 bp):
TAAAGAACATGATCTTTAGCGGCGCTTAGAAAAAAACGCCAC
Found at i:31912160 original size:30 final size:31
Alignment explanation
Indices: 31912093--31912175 Score: 100
Period size: 30 Copynumber: 2.7 Consensus size: 31
31912083 TTATAATCTA
*
31912093 ATATTATAGTAATAGTTATATATGTATTAAT
1 ATATTTTAGTAATAGTTATATATGTATTAAT
31912124 AT-TTTTAGTAATAGTTATATAT-TA-TAAT
1 ATATTTTAGTAATAGTTATATATGTATTAAT
* *
31912152 ATTATTTTATGTATTAGTAATATA
1 A-TATTTTA-GTAATAGTTATATA
31912176 CTAACTTAGT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
28 5 0.11
29 3 0.07
30 24 0.52
31 14 0.30
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (31 bp):
ATATTTTAGTAATAGTTATATATGTATTAAT
Found at i:31912349 original size:16 final size:17
Alignment explanation
Indices: 31912328--31912362 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
31912318 TATAATTATA
31912328 ATATTAAA-AATATTTT
1 ATATTAAATAATATTTT
31912344 ATATTAAATTAATATTTT
1 ATATTAAA-TAATATTTT
31912362 A
1 A
31912363 AAAAATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
18 9 0.53
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATATTAAATAATATTTT
Found at i:31916400 original size:25 final size:25
Alignment explanation
Indices: 31916371--31916439 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 25
31916361 TACCTATTCT
*
31916371 AGCTCTTAAGAGCTTACCGATACTC
1 AGCTCGTAAGAGCTTACCGATACTC
* * * *
31916396 AGCTCGTATGAGATTACCGTTATTC
1 AGCTCGTAAGAGCTTACCGATACTC
* *
31916421 AGCTCGGAAGACCTTACCG
1 AGCTCGTAAGAGCTTACCG
31916440 TTTATCACTC
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (25 bp):
AGCTCGTAAGAGCTTACCGATACTC
Found at i:31917127 original size:21 final size:21
Alignment explanation
Indices: 31917102--31917144 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
31917092 TGGTGTATGG
31917102 TGGCCATGTGAATTTTTTTTT
1 TGGCCATGTGAATTTTTTTTT
31917123 TGGCCATGTGAATTTTTTTTT
1 TGGCCATGTGAATTTTTTTTT
31917144 T
1 T
31917145 CTGAATTGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.09, G:0.19, T:0.58
Consensus pattern (21 bp):
TGGCCATGTGAATTTTTTTTT
Found at i:31925874 original size:61 final size:61
Alignment explanation
Indices: 31925781--31925906 Score: 146
Period size: 61 Copynumber: 2.1 Consensus size: 61
31925771 AATTTTTTTA
* * * * * *
31925781 TTTTTAGAGTTAGGACTAAATTGATAAATTTTGTAAATATTAAGGG-TCAAATTTATTGAAT
1 TTTTTAGAATTAGAACTAAAATAACAAATTTTGTAAACATTAAGGGCT-AAATTTATTGAAT
* * * *
31925842 TTTTTAGAATTAGAACTAAAATAACAAGTTTTGTGAACATTGAGGGCTAAATTTGTTGAAT
1 TTTTTAGAATTAGAACTAAAATAACAAATTTTGTAAACATTAAGGGCTAAATTTATTGAAT
31925903 TTTT
1 TTTT
31925907 AACATAATTT
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
61 53 0.98
62 1 0.02
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.42
Consensus pattern (61 bp):
TTTTTAGAATTAGAACTAAAATAACAAATTTTGTAAACATTAAGGGCTAAATTTATTGAAT
Found at i:31926605 original size:22 final size:21
Alignment explanation
Indices: 31926562--31926638 Score: 100
Period size: 22 Copynumber: 3.6 Consensus size: 21
31926552 TTTCACAAAC
31926562 AAATTCTCTCAATTTCTTCAA
1 AAATTCTCTCAATTTCTTCAA
*
31926583 AAATTCTCTCAATTCCCTTCAA
1 AAATTCTCTCAATT-TCTTCAA
* *
31926605 AATTTCTCTCAATTTTCTTCCA
1 AAATTCTCTCAA-TTTCTTCAA
*
31926627 AAATTATCTCAA
1 AAATTCTCTCAA
31926639 ACTCTCAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
21 14 0.29
22 32 0.67
23 2 0.04
ACGTcount: A:0.32, C:0.26, G:0.00, T:0.42
Consensus pattern (21 bp):
AAATTCTCTCAATTTCTTCAA
Found at i:31926667 original size:30 final size:30
Alignment explanation
Indices: 31926610--31926668 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
31926600 TTCAAAATTT
* * *
31926610 CTCTCAATTTTCTTCCAAAATTATCTCAAA
1 CTCTCAAATTCCTTCCAAAATCATCTCAAA
*
31926640 CTCTCAAATTCCTTCCAAAATCCTCTCAA
1 CTCTCAAATTCCTTCCAAAATCATCTCAA
31926669 TTTCCTTCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (30 bp):
CTCTCAAATTCCTTCCAAAATCATCTCAAA
Found at i:31926679 original size:21 final size:22
Alignment explanation
Indices: 31926640--31926681 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
31926630 TTATCTCAAA
31926640 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
31926662 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
31926682 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Done.