Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 89 of 172
Found at i:25537068 original size:17 final size:18
Alignment explanation
Indices: 25537046--25537081 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
25537036 GTTTTAAATG
25537046 AAACATATCGAAAA-TAA
1 AAACATATCGAAAACTAA
25537063 AAACATATCGAAAACTAA
1 AAACATATCGAAAACTAA
25537081 A
1 A
25537082 TATAACTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.64, C:0.14, G:0.06, T:0.17
Consensus pattern (18 bp):
AAACATATCGAAAACTAA
Found at i:25547426 original size:43 final size:43
Alignment explanation
Indices: 25547324--25547444 Score: 156
Period size: 43 Copynumber: 2.8 Consensus size: 43
25547314 ACAATACCAT
* *
25547324 TGTCCCAGACGTGGTCTTATATGTAATCACATATCGATGCCAC
1 TGTCCCAGACGTGGTCTTACATGTAATCAGATATCGATGCCAC
*
25547367 TGTCCCAAACAG-GGTCTTACATGTAATCAGATATCGATGCCGAC
1 TGTCCCAGAC-GTGGTCTTACATGTAATCAGATATCGATGCC-AC
* * *
25547411 -GTCCCAGACGTGGTCTTACACGAAAACAGATATC
1 TGTCCCAGACGTGGTCTTACATGTAATCAGATATC
25547445 AGAGTCCTAT
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
42 1 0.01
43 64 0.94
44 3 0.04
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (43 bp):
TGTCCCAGACGTGGTCTTACATGTAATCAGATATCGATGCCAC
Found at i:25548372 original size:28 final size:28
Alignment explanation
Indices: 25548332--25548388 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
25548322 TATGTTTGTT
25548332 TTTATTATAATAA-CTTTATAATATATTA
1 TTTATTATAATAACCTTTATAAT-TATTA
*
25548360 TTTATTATTATAACCTTTATAATTATTA
1 TTTATTATAATAACCTTTATAATTATTA
25548388 T
1 T
25548389 AAAAACTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTATTATAATAACCTTTATAATTATTA
Found at i:25548600 original size:14 final size:15
Alignment explanation
Indices: 25548581--25548609 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
25548571 CACGAAACTT
25548581 TCACACAT-ATAAAC
1 TCACACATAATAAAC
25548595 TCACACATAATAAAC
1 TCACACATAATAAAC
25548610 ACAGAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.52, C:0.28, G:0.00, T:0.21
Consensus pattern (15 bp):
TCACACATAATAAAC
Found at i:25549925 original size:20 final size:21
Alignment explanation
Indices: 25549872--25549925 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
25549862 CGAACTCAGA
*
25549872 AGACTCAAGTTTGTCTTTCTT
1 AGACTCAAGCTTGTCTTTCTT
25549893 AGACTCAAGCTTGTCTTTCTT
1 AGACTCAAGCTTGTCTTTCTT
*
25549914 AGAC-CTAGCTTG
1 AGACTCAAGCTTG
25549926 ACCATAGACT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 7 0.23
21 24 0.77
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.41
Consensus pattern (21 bp):
AGACTCAAGCTTGTCTTTCTT
Found at i:25552992 original size:28 final size:30
Alignment explanation
Indices: 25552933--25552993 Score: 72
Period size: 31 Copynumber: 2.1 Consensus size: 30
25552923 AGTTAAATTC
* **
25552933 AAAAACCTATTTTTCTAAATAATAGTTTAAA
1 AAAAACCTATTTATCTAAATAATAG-AAAAA
25552964 AAAAACCTATTTATCTAAATAA-A-AAAAA
1 AAAAACCTATTTATCTAAATAATAGAAAAA
25552992 AA
1 AA
25552994 GATATTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 5 0.19
30 1 0.04
31 21 0.78
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (30 bp):
AAAAACCTATTTATCTAAATAATAGAAAAA
Found at i:25553761 original size:24 final size:24
Alignment explanation
Indices: 25553728--25553803 Score: 91
Period size: 24 Copynumber: 3.2 Consensus size: 24
25553718 TATAACATGG
*
25553728 GGGTTCGCATATATAAGACATATA
1 GGGTTCGCATATATAAAACATATA
* * *
25553752 GGGTTTGCATATA-AAAACTTGTA
1 GGGTTCGCATATATAAAACATATA
* *
25553775 GAGTTCGCATGTATAAAACATATA
1 GGGTTCGCATATATAAAACATATA
25553799 GGGTT
1 GGGTT
25553804 TACATCTATG
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
23 17 0.41
24 24 0.59
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.32
Consensus pattern (24 bp):
GGGTTCGCATATATAAAACATATA
Found at i:25561000 original size:17 final size:19
Alignment explanation
Indices: 25560968--25561012 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 19
25560958 ATTTTCATTT
*
25560968 AATTTTATTATATATTTAA
1 AATTTTATTATATATTAAA
25560987 AATTTTATT-T-TATTAAA
1 AATTTTATTATATATTAAA
25561004 AATGTTTAT
1 AAT-TTTAT
25561013 AAATTTTTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 9 0.38
18 6 0.25
19 9 0.38
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
AATTTTATTATATATTAAA
Found at i:25570408 original size:53 final size:53
Alignment explanation
Indices: 25570314--25570521 Score: 251
Period size: 53 Copynumber: 4.0 Consensus size: 53
25570304 AAATGTTTTT
* * * * * * *
25570314 CATATGATGTCATAACTCACAAGTTATGATCTTATATGATATGATCTTCTTTC
1 CATATGATGCCATAACCCACCAGTTACGGTCTTACACGATATGATCTTCTTTC
* * *
25570367 CATATGATGCCATAACCCACCAGTTACGGTCTGACACGATATGGTCTTTTTTC
1 CATATGATGCCATAACCCACCAGTTACGGTCTTACACGATATGATCTTCTTTC
* * *
25570420 CATATGATGCCATAACTCACCAATTATGGTCTTACACGATATGA---TCTTTC
1 CATATGATGCCATAACCCACCAGTTACGGTCTTACACGATATGATCTTCTTTC
* * *
25570470 CATATGATGCCATAACCCACTAGTTACTGTCTTACACGATATGGTCTTCTTT
1 CATATGATGCCATAACCCACCAGTTACGGTCTTACACGATATGATCTTCTTT
25570522 AGTGCCATGG
Statistics
Matches: 130, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
50 43 0.33
53 87 0.67
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.36
Consensus pattern (53 bp):
CATATGATGCCATAACCCACCAGTTACGGTCTTACACGATATGATCTTCTTTC
Found at i:25570510 original size:103 final size:103
Alignment explanation
Indices: 25570309--25570517 Score: 305
Period size: 103 Copynumber: 2.0 Consensus size: 103
25570299 TCCTTAAATG
* * *
25570309 TTTTTCATATGATGTCATAACTCACAAGTTATGATCTTATATGATATGATCTTCTTTCCATATGA
1 TTTTTCATATGATGCCATAACTCACAAGTTATGATCTTACACGATATGA--TTCTTTCCATATGA
25570374 TGCCATAACCCACCAGTTACGGTCTGACACGATATGGTCT
64 TGCCATAACCCACCAGTTACGGTCTGACACGATATGGTCT
*
25570414 TTTTTCCATATGATGCCATAACTCACCAA-TTATGGTCTTACACGATATGA-TCTTTCCATATGA
1 TTTTT-CATATGATGCCATAACTCA-CAAGTTATGATCTTACACGATATGATTCTTTCCATATGA
* * *
25570477 TGCCATAACCCACTAGTTACTGTCTTACACGATATGGTCT
64 TGCCATAACCCACCAGTTACGGTCTGACACGATATGGTCT
25570517 T
1 T
25570518 CTTTAGTGCC
Statistics
Matches: 95, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
103 51 0.54
105 5 0.05
106 36 0.38
107 3 0.03
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.37
Consensus pattern (103 bp):
TTTTTCATATGATGCCATAACTCACAAGTTATGATCTTACACGATATGATTCTTTCCATATGATG
CCATAACCCACCAGTTACGGTCTGACACGATATGGTCT
Found at i:25584039 original size:42 final size:42
Alignment explanation
Indices: 25583956--25584059 Score: 113
Period size: 42 Copynumber: 2.5 Consensus size: 42
25583946 TGTTTTGAAA
* * *
25583956 CCACACGGGCAGAGGACATGGGCGTGTACCCTGGCCGTGTGAG
1 CCACACCGGCA-AGGACATGGGCATGTACCCTGGCCATGTGAG
* * *
25583999 TCACA-TGAGCAAGGACATGGGCATGT-GCCTAGGCCATGTGAG
1 CCACACCG-GCAAGGACATGGGCATGTACCCT-GGCCATGTGAG
25584041 CCACACCGGCAAGGACATG
1 CCACACCGGCAAGGACATG
25584060 AGCGTGTGTC
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
41 3 0.06
42 40 0.78
43 8 0.16
ACGTcount: A:0.24, C:0.27, G:0.35, T:0.14
Consensus pattern (42 bp):
CCACACCGGCAAGGACATGGGCATGTACCCTGGCCATGTGAG
Found at i:25584526 original size:24 final size:21
Alignment explanation
Indices: 25584473--25584532 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 21
25584463 GTAGGAATAA
*
25584473 CTGCATATGAATCTAATATGTT
1 CTGCATATGAA-CTAAAATGTT
*
25584495 CTGTATATGAACTAGAAATTGCTT
1 CTGCATATGAACTA-AAA-TG-TT
25584519 CTGCATATGTAACT
1 CTGCATATG-AACT
25584533 GGCTTGCTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 3 0.10
22 12 0.39
23 2 0.06
24 10 0.32
25 4 0.13
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (21 bp):
CTGCATATGAACTAAAATGTT
Found at i:25591338 original size:11 final size:11
Alignment explanation
Indices: 25591324--25591364 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
25591314 TGTTTTCTTC
25591324 CTATTTTGCTA
1 CTATTTTGCTA
*
25591335 CTATTTTACTA
1 CTATTTTGCTA
* *
25591346 TTATGTTGCTA
1 CTATTTTGCTA
25591357 CTATTTTG
1 CTATTTTG
25591365 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:25591982 original size:27 final size:27
Alignment explanation
Indices: 25591952--25592011 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
25591942 ATTTTTTTAC
*
25591952 ATTTTA-CCTTTTGAATTTTTTTTGAAT
1 ATTTTATCATTTT-AATTTTTTTTGAAT
* *
25591979 ATTTTATGATTTTTATTTTTTTTGAAT
1 ATTTTATCATTTTAATTTTTTTTGAAT
25592006 -TTTTAT
1 ATTTTAT
25592012 AAGTTTATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 6 0.21
27 19 0.66
28 4 0.14
ACGTcount: A:0.22, C:0.03, G:0.07, T:0.68
Consensus pattern (27 bp):
ATTTTATCATTTTAATTTTTTTTGAAT
Found at i:25592022 original size:27 final size:26
Alignment explanation
Indices: 25591966--25592042 Score: 84
Period size: 27 Copynumber: 2.8 Consensus size: 26
25591956 TACCTTTTGA
* *
25591966 ATTTTTTTTGAATATTTTATGATTTTT
1 ATTTTTTTTGAAT-TTTTATAATTTAT
25591993 ATTTTTTTTGAATTTTTATAAGTTTAT
1 ATTTTTTTTGAATTTTTATAA-TTTAT
25592020 ATTTTCTATTATGAA-TTTTATAA
1 ATTTT-T-TT-TGAATTTTTATAA
25592043 ATTTTTAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
26 7 0.16
27 22 0.50
28 1 0.02
29 10 0.23
30 4 0.09
ACGTcount: A:0.27, C:0.01, G:0.06, T:0.65
Consensus pattern (26 bp):
ATTTTTTTTGAATTTTTATAATTTAT
Found at i:25592059 original size:29 final size:30
Alignment explanation
Indices: 25592001--25592060 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 30
25591991 TTATTTTTTT
* *
25592001 TGAATTTTTATAAGTTTATATTTTCTATTA
1 TGAATTTTTATAAATTTATATTTTCAATTA
*
25592031 TGAA-TTTTATAAATTTTTAATTTT-AATTA
1 TGAATTTTTATAAATTTAT-ATTTTCAATTA
25592060 T
1 T
25592061 TTATTATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (30 bp):
TGAATTTTTATAAATTTATATTTTCAATTA
Found at i:25599815 original size:14 final size:14
Alignment explanation
Indices: 25599796--25599843 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
25599786 ATCAAAACAA
25599796 AAAAGAAGAAAAAG
1 AAAAGAAGAAAAAG
* *
25599810 ATAAGACGACAAAAAG
1 AAAAGA--AGAAAAAG
*
25599826 AAAAAAAGAAAAAG
1 AAAAGAAGAAAAAG
25599840 AAAA
1 AAAA
25599844 AAAAGAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
14 16 0.59
16 11 0.41
ACGTcount: A:0.77, C:0.04, G:0.17, T:0.02
Consensus pattern (14 bp):
AAAAGAAGAAAAAG
Found at i:25599833 original size:8 final size:8
Alignment explanation
Indices: 25599794--25599850 Score: 53
Period size: 8 Copynumber: 7.1 Consensus size: 8
25599784 TAATCAAAAC
25599794 AAAAAAGA
1 AAAAAAGA
25599802 AGAAAAAGA
1 A-AAAAAGA
* * *
25599811 TAAGACGA
1 AAAAAAGA
*
25599819 CAAAAAGA
1 AAAAAAGA
25599827 AAAAAAGA
1 AAAAAAGA
*
25599835 AAAAGA-A
1 AAAAAAGA
25599842 AAAAAAGA
1 AAAAAAGA
25599850 A
1 A
25599851 GAAGAATAAT
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
7 6 0.16
8 25 0.66
9 7 0.18
ACGTcount: A:0.79, C:0.04, G:0.16, T:0.02
Consensus pattern (8 bp):
AAAAAAGA
Found at i:25599847 original size:15 final size:15
Alignment explanation
Indices: 25599820--25599856 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
25599810 ATAAGACGAC
25599820 AAAAAG-AAAAAAAG
1 AAAAAGAAAAAAAAG
25599834 AAAAAGAAAAAAAAG
1 AAAAAGAAAAAAAAG
*
25599849 AAGAAGAA
1 AAAAAGAA
25599857 TAATAAAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAAAAAG
Found at i:25599852 original size:18 final size:18
Alignment explanation
Indices: 25599826--25599872 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
25599816 CGACAAAAAG
25599826 AAAAA-AAGAAAAAGAAA
1 AAAAAGAAGAAAAAGAAA
* * *
25599843 AAAAAGAAGAAGAATAAT
1 AAAAAGAAGAAAAAGAAA
25599861 AAAAAGAAGAAA
1 AAAAAGAAGAAA
25599873 CTATCATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 5 0.20
18 20 0.80
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (18 bp):
AAAAAGAAGAAAAAGAAA
Found at i:25615419 original size:56 final size:56
Alignment explanation
Indices: 25615333--25615452 Score: 224
Period size: 56 Copynumber: 2.1 Consensus size: 56
25615323 TCAAGGGATG
25615333 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAA-AATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAAT-GAAAGAATAAAATAAGAAGC
25615389 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGAAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGAAAGAATAAAATAAGAAGC
25615445 ATGGGCAA
1 ATGGGCAA
25615453 TAAACTAATA
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
55 4 0.06
56 59 0.94
ACGTcount: A:0.46, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGAAAGAATAAAATAAGAAGC
Found at i:25617361 original size:49 final size:47
Alignment explanation
Indices: 25617305--25618150 Score: 1399
Period size: 49 Copynumber: 17.6 Consensus size: 47
25617295 GTATATTTGA
25617305 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
*
25617354 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGAG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
*
25617403 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
25617450 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
*
25617499 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
* *
25617548 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
25617595 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
*
25617644 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAG-CGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
25617690 ATGAATGTGAAAGTGTATATATGTGATAAGG-CTGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCT-AATGGCCGATGTG
25617737 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
25617786 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
*
25617835 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
25617882 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
25617929 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
25617978 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTG
*
25618027 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
25618074 ATGAATGTGAAAGTGTATATATGTGATAAGGCTTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
25618121 ATGAATGTGAAAGTGTATATATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
25618151 TCCCGAAGGG
Statistics
Matches: 763, Mismatches: 23, Indels: 24
0.94 0.03 0.03
Matches are distributed among these distances:
45 2 0.00
46 42 0.06
47 329 0.43
49 388 0.51
50 2 0.00
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
Found at i:25617441 original size:96 final size:95
Alignment explanation
Indices: 25617305--25618150 Score: 1416
Period size: 96 Copynumber: 8.8 Consensus size: 95
25617295 GTATATTTGA
25617305 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-
*
25617370 ATATATATGTGATAAGGCCTAATGGCCGATGAG
64 -TATATATGTGATAAGGCCTAATGGCCGATGTG
*
25617403 ATGAATGTGAAAGTG-TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTA
1 ATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--
25617467 TATATATGTGATAAGGCCTAATGGCCGATGTG
64 TATATATGTGATAAGGCCTAATGGCCGATGTG
*
25617499 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
* *
25617564 ATATATGTGATAAGGCCGAATGGCCAATGTG
65 ATATATGTGATAAGGCCTAATGGCCGATGTG
25617595 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
25617660 ATATATGTGATAAGGCCTAATAG-CGATGTG
65 ATATATGTGATAAGGCCTAATGGCCGATGTG
*
25617690 ATGAATGTGAAAGTG-TATATATGTGATAAGG-CTGAATGGCCAATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTGATATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGTGAAAGTG-
25617753 ATATATATGTGATAAGGCCTAATGGCCGATGTG
64 -TATATATGTGATAAGGCCTAATGGCCGATGTG
25617786 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
25617851 ATATATGTGATAAGGCCTAATAGCCGATGTG
65 ATATATGTGATAAGGCCTAATGGCCGATGTG
* *
25617882 ATGAATGTGAAAGTG-TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 ATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--
25617946 TATATATGTGATAAGGCCTAATGGCCGATGTG
64 TATATATGTGATAAGGCCTAATGGCCGATGTG
25617978 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
25618043 ATATATGTGATAAGGCCTAATAGCCGATGTG
65 ATATATGTGATAAGGCCTAATGGCCGATGTG
*
25618074 ATGAATGTGAAAGTG-TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 ATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
25618138 TATATGTGATAAG
66 TATATGTGATAAG
25618151 TCCCGAAGGG
Statistics
Matches: 714, Mismatches: 21, Indels: 30
0.93 0.03 0.04
Matches are distributed among these distances:
92 2 0.00
93 43 0.06
94 106 0.15
95 44 0.06
96 369 0.52
98 148 0.21
99 2 0.00
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.30
Consensus pattern (95 bp):
ATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
TATATGTGATAAGGCCTAATGGCCGATGTG
Found at i:25617470 original size:145 final size:145
Alignment explanation
Indices: 25617305--25618150 Score: 1494
Period size: 145 Copynumber: 5.9 Consensus size: 145
25617295 GTATATTTGA
25617305 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
25617370 ATATATATGTGATAAGGCCTAATGGCCGATGAGATGAATGTGAAAGTGTATATATGTGATAAGGC
66 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
25617435 CGAATGGCCGATGTG
131 CGAATGGCCGATGTG
25617450 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
25617515 ATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
66 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
*
25617580 CGAATGGCCAATGTG
131 CGAATGGCCGATGTG
25617595 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
25617659 -TATATATGTGATAAGGCCTAATAG-CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
66 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
* *
25617722 TGAATGGCCAATGTG
131 CGAATGGCCGATGTG
25617737 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
25617802 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
66 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
* *
25617867 CTAATAGCCGATGTG
131 CGAATGGCCGATGTG
* *
25617882 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGT
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
25617945 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
66 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAG
*
25618010 GCCTAATGGCCGATGTG
129 GCCGAATGGCCGATGTG
*
25618027 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG-
1 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
*
25618089 -TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
66 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
25618151 TCCCGAAGGG
Statistics
Matches: 680, Mismatches: 16, Indels: 14
0.96 0.02 0.02
Matches are distributed among these distances:
141 15 0.02
142 117 0.17
143 164 0.24
144 23 0.03
145 361 0.53
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.30
Consensus pattern (145 bp):
ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
CGAATGGCCGATGTG
Found at i:25618325 original size:37 final size:37
Alignment explanation
Indices: 25618269--25618347 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
25618259 CCGAGCTCTA
* * *
25618269 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
25618306 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
25618343 AAGAC
1 AAGAC
25618348 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:25635631 original size:52 final size:52
Alignment explanation
Indices: 25635550--25635649 Score: 137
Period size: 52 Copynumber: 1.9 Consensus size: 52
25635540 TCATAATAAT
* *
25635550 ATCACAAATATATATAATTTCTCAGTGCTTCATCCACAAACACCTACTTTAA
1 ATCACAAACATATATAATTTCTCAATGCTTCATCCACAAACACCTACTTTAA
* * ** *
25635602 ATCACAAACATATATTATTTCTTAATGCTTCATCGGCAAATACCTACT
1 ATCACAAACATATATAATTTCTCAATGCTTCATCCACAAACACCTACT
25635650 CGAAACTATT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 41 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (52 bp):
ATCACAAACATATATAATTTCTCAATGCTTCATCCACAAACACCTACTTTAA
Found at i:25651424 original size:60 final size:60
Alignment explanation
Indices: 25651329--25651496 Score: 228
Period size: 60 Copynumber: 2.8 Consensus size: 60
25651319 AGTAGCTTGT
* * * * *
25651329 CTGCATTATTGGTGGCTTGTCAATAATACTAGTAGCTTGTTTACAATATTTACAGTTTAC
1 CTGCATTATTGGTGGCTTGTCCACAATACTGGTAGCTTGTCTACAATATTGACAGTTTAC
* * * *
25651389 CTGCATTACTGTTGGCTTGTCCACAATACTGGTAGCTTGTCTGCAATATTGACAGTTTAT
1 CTGCATTATTGGTGGCTTGTCCACAATACTGGTAGCTTGTCTACAATATTGACAGTTTAC
* * *
25651449 CTGCATTATTGGTGGCTTGTCCACAATACTGATAGCTTATCTGCAATA
1 CTGCATTATTGGTGGCTTGTCCACAATACTGGTAGCTTGTCTACAATA
25651497 CTGGTGGCTT
Statistics
Matches: 95, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 95 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (60 bp):
CTGCATTATTGGTGGCTTGTCCACAATACTGGTAGCTTGTCTACAATATTGACAGTTTAC
Found at i:25651426 original size:20 final size:20
Alignment explanation
Indices: 25651403--25651516 Score: 75
Period size: 20 Copynumber: 5.7 Consensus size: 20
25651393 ATTACTGTTG
25651403 GCTTGTCCACAATACTGGTA
1 GCTTGTCCACAATACTGGTA
** * **
25651423 GCTTGTCTGCAATATTGACA
1 GCTTGTCCACAATACTGGTA
* * ** * * *
25651443 GTTTATCTGCATTATTGGTG
1 GCTTGTCCACAATACTGGTA
*
25651463 GCTTGTCCACAATACTGATA
1 GCTTGTCCACAATACTGGTA
* ** *
25651483 GCTTATCTGCAATACTGGTG
1 GCTTGTCCACAATACTGGTA
25651503 GCTTGTCCACAATA
1 GCTTGTCCACAATA
25651517 TTGATGTGTT
Statistics
Matches: 67, Mismatches: 27, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 67 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (20 bp):
GCTTGTCCACAATACTGGTA
Found at i:25651467 original size:40 final size:40
Alignment explanation
Indices: 25651412--25651520 Score: 146
Period size: 40 Copynumber: 2.7 Consensus size: 40
25651402 GGCTTGTCCA
* ** *
25651412 CAATACTGGTAGCTTGTCTGCAATATTGACAGTTTATCTG
1 CAATACTGGTGGCTTGTCCACAATATTGACAGCTTATCTG
* * * *
25651452 CATTATTGGTGGCTTGTCCACAATACTGATAGCTTATCTG
1 CAATACTGGTGGCTTGTCCACAATATTGACAGCTTATCTG
25651492 CAATACTGGTGGCTTGTCCACAATATTGA
1 CAATACTGGTGGCTTGTCCACAATATTGA
25651521 TGTGTTATTG
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (40 bp):
CAATACTGGTGGCTTGTCCACAATATTGACAGCTTATCTG
Found at i:25651519 original size:60 final size:60
Alignment explanation
Indices: 25651401--25651519 Score: 139
Period size: 60 Copynumber: 2.0 Consensus size: 60
25651391 GCATTACTGT
* * * * ** *
25651401 TGGCTTGTCCACAATACTGGTAGCTTGTCTGCAATATTGACAGTTTATCTGCATTATTGG
1 TGGCTTGTCCACAATACTGATAGCTTATCTGCAATACTGACAGCTTATCCACAATATTGG
*** *
25651461 TGGCTTGTCCACAATACTGATAGCTTATCTGCAATACTGGTGGCTTGTCCACAATATTG
1 TGGCTTGTCCACAATACTGATAGCTTATCTGCAATACTGACAGCTTATCCACAATATTG
25651520 ATGTGTTATT
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
60 48 1.00
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (60 bp):
TGGCTTGTCCACAATACTGATAGCTTATCTGCAATACTGACAGCTTATCCACAATATTGG
Found at i:25659581 original size:27 final size:27
Alignment explanation
Indices: 25659517--25659659 Score: 180
Period size: 27 Copynumber: 5.3 Consensus size: 27
25659507 ACATCTCCTA
** * * *
25659517 GGGGTATAACAGTTATTTTACCATAT-
1 GGGGTATTTCAGTCATTTTACCCTTTG
*
25659543 GGGGTATTTCAGTCATTTTACCTTTTG
1 GGGGTATTTCAGTCATTTTACCCTTTG
*
25659570 GGGGTATTTCAGTCATTTTACCCTTTA
1 GGGGTATTTCAGTCATTTTACCCTTTG
*
25659597 GGGGTATTTTAGTCATTTTACCCTTTG
1 GGGGTATTTCAGTCATTTTACCCTTTG
* *
25659624 GGGGTATTTCAGGCATTTTACCCTCTG
1 GGGGTATTTCAGTCATTTTACCCTTTG
*
25659651 GAGGTATTT
1 GGGGTATTT
25659660 TTGTCGTATT
Statistics
Matches: 103, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
26 21 0.20
27 82 0.80
ACGTcount: A:0.19, C:0.15, G:0.22, T:0.43
Consensus pattern (27 bp):
GGGGTATTTCAGTCATTTTACCCTTTG
Found at i:25676073 original size:17 final size:18
Alignment explanation
Indices: 25676053--25676086 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
25676043 AAAAGGTTTT
*
25676053 TTATTTGAA-AATTTATG
1 TTATTTAAACAATTTATG
25676070 TTATTTAAACAATTTAT
1 TTATTTAAACAATTTAT
25676087 TAAGTTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.53
Consensus pattern (18 bp):
TTATTTAAACAATTTATG
Found at i:25676085 original size:18 final size:17
Alignment explanation
Indices: 25676032--25676086 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 17
25676022 TATGAGTCAA
25676032 ATGTTATTTTAAAAAGGTTT
1 ATGTTA-TTTAAAAA--TTT
*
25676052 -T-TTATTTGAAAATTT
1 ATGTTATTTAAAAATTT
25676067 ATGTTATTTAAACAATTT
1 ATGTTATTTAAA-AATTT
25676085 AT
1 AT
25676087 TAAGTTCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
15 3 0.10
16 1 0.03
17 15 0.50
18 10 0.33
19 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (17 bp):
ATGTTATTTAAAAATTT
Found at i:25678170 original size:20 final size:21
Alignment explanation
Indices: 25678134--25678172 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
25678124 GTTATGGATG
*
25678134 AATATACCTACTTAATGAACA
1 AATATACCTAATTAATGAACA
25678155 AATATA-CTAATTAATGAA
1 AATATACCTAATTAATGAA
25678173 TTGATATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.51, C:0.13, G:0.05, T:0.31
Consensus pattern (21 bp):
AATATACCTAATTAATGAACA
Found at i:25681851 original size:27 final size:27
Alignment explanation
Indices: 25681812--25681879 Score: 100
Period size: 28 Copynumber: 2.5 Consensus size: 27
25681802 GCTTGATGTG
**
25681812 GTAAAACCACCAACAATAAATAATACA
1 GTAAAACTGCCAACAATAAATAATACA
*
25681839 GTAAAACTGCCAAATAATAAATAATACA
1 GTAAAACTGCC-AACAATAAATAATACA
25681867 GTAAAACTGCCAA
1 GTAAAACTGCCAA
25681880 ATAAAAAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 11 0.30
28 26 0.70
ACGTcount: A:0.56, C:0.19, G:0.07, T:0.18
Consensus pattern (27 bp):
GTAAAACTGCCAACAATAAATAATACA
Found at i:25681864 original size:28 final size:28
Alignment explanation
Indices: 25681826--25681891 Score: 123
Period size: 28 Copynumber: 2.4 Consensus size: 28
25681816 AACCACCAAC
25681826 AATAAATAATACAGTAAAACTGCCAAAT
1 AATAAATAATACAGTAAAACTGCCAAAT
25681854 AATAAATAATACAGTAAAACTGCCAAAT
1 AATAAATAATACAGTAAAACTGCCAAAT
*
25681882 AAAAAATAAT
1 AATAAATAAT
25681892 GTGATAAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.61, C:0.12, G:0.06, T:0.21
Consensus pattern (28 bp):
AATAAATAATACAGTAAAACTGCCAAAT
Found at i:25687533 original size:34 final size:34
Alignment explanation
Indices: 25687490--25687558 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
25687480 CAATGGTTTG
25687490 TTTTTCCCCAAAATTTTCCCTTTTCATGTATGCA
1 TTTTTCCCCAAAATTTTCCCTTTTCATGTATGCA
25687524 TTTTTCCCCAAAATTTTCCCTTTTCATGTATGCA
1 TTTTTCCCCAAAATTTTCCCTTTTCATGTATGCA
25687558 T
1 T
25687559 GCATGCAAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.20, C:0.26, G:0.06, T:0.48
Consensus pattern (34 bp):
TTTTTCCCCAAAATTTTCCCTTTTCATGTATGCA
Found at i:25690920 original size:30 final size:30
Alignment explanation
Indices: 25690861--25690951 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
25690851 GAACAGGTAA
* * *
25690861 CTTGATATAAATTTCATCTTGTGTAAGCAAC
1 CTTGATAT-AATGTCAGCTTGTGTGAGCAAC
*
25690892 CTTGATATAATGTCAGCTTGTATGAGCAAC
1 CTTGATATAATGTCAGCTTGTGTGAGCAAC
* * * *
25690922 CCTAATATAATGTAAGATTGTGTGAGCAAC
1 CTTGATATAATGTCAGCTTGTGTGAGCAAC
25690952 TTATTTCACC
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
30 43 0.84
31 8 0.16
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (30 bp):
CTTGATATAATGTCAGCTTGTGTGAGCAAC
Found at i:25700723 original size:20 final size:20
Alignment explanation
Indices: 25700698--25700736 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
25700688 TACTTTCTTC
25700698 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
25700718 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
25700737 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:25701005 original size:49 final size:49
Alignment explanation
Indices: 25700952--25701069 Score: 125
Period size: 50 Copynumber: 2.4 Consensus size: 49
25700942 CAAAGCCATG
*
25700952 TCCCAGACATGGTCTTACATGGGATGTT-TCATGTA-C-TGCAAATGTCATA
1 TCCCAGACATGGTCTTACATGAGA-GTTCTC--GTATCGTGCAAATGTCATA
* * ** *
25701001 TCCCAGATATGGTCTTAGATGAGAGTTCTCGTATCGGTGCCCATGTCATG
1 TCCCAGACATGGTCTTACATGAGAGTTCTCGTATC-GTGCAAATGTCATA
25701051 TCCCAGACATGGTCTTACA
1 TCCCAGACATGGTCTTACA
25701070 GAGGACCTCT
Statistics
Matches: 57, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
47 3 0.05
48 4 0.07
49 23 0.40
50 27 0.47
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (49 bp):
TCCCAGACATGGTCTTACATGAGAGTTCTCGTATCGTGCAAATGTCATA
Found at i:25709801 original size:3 final size:3
Alignment explanation
Indices: 25709793--25709842 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
25709783 ACGCACTTTT
25709793 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
25709841 AG
1 AG
25709843 GGAATGAGTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:25713727 original size:27 final size:27
Alignment explanation
Indices: 25713697--25713794 Score: 115
Period size: 27 Copynumber: 3.6 Consensus size: 27
25713687 CACGTTAGGG
* * *
25713697 AAGAAATGCCTTTGCGATGTAATATGA
1 AAGAAAAGCCTTTGTGGTGTAATATGA
***
25713724 AAGAAAAGCCTTTGTGGCACAATATGA
1 AAGAAAAGCCTTTGTGGTGTAATATGA
**
25713751 AAGAAAAGCCTTTGTGGTGTAATAAAA
1 AAGAAAAGCCTTTGTGGTGTAATATGA
*
25713778 AAGAAATGCCTTTGTGG
1 AAGAAAAGCCTTTGTGG
25713795 CAAACTCTGA
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 59 1.00
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.27
Consensus pattern (27 bp):
AAGAAAAGCCTTTGTGGTGTAATATGA
Found at i:25717801 original size:5 final size:5
Alignment explanation
Indices: 25717791--25717819 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
25717781 TTTTATACTA
25717791 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
25717820 CATTTTTCGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:25721852 original size:13 final size:13
Alignment explanation
Indices: 25721836--25721860 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25721826 AAACTTTTCT
25721836 AAATATATTTTAA
1 AAATATATTTTAA
25721849 AAATATATTTTA
1 AAATATATTTTA
25721861 TTCATACCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AAATATATTTTAA
Found at i:25722853 original size:15 final size:15
Alignment explanation
Indices: 25722835--25722864 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25722825 ACAAATGTAG
25722835 CAATAACAAATACAA
1 CAATAACAAATACAA
*
25722850 CAATAATAAATACAA
1 CAATAACAAATACAA
25722865 TAATGGCATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.17, G:0.00, T:0.17
Consensus pattern (15 bp):
CAATAACAAATACAA
Found at i:25722894 original size:13 final size:14
Alignment explanation
Indices: 25722876--25722920 Score: 58
Period size: 13 Copynumber: 3.3 Consensus size: 14
25722866 AATGGCATAG
25722876 AAATAATATAAAC-
1 AAATAATATAAACA
25722889 AAATAA-ATAAACA
1 AAATAATATAAACA
*
25722902 AAACTAATATAAAAA
1 AAA-TAATATAAACA
25722917 AAAT
1 AAAT
25722921 GACCAACGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 6 0.21
13 9 0.32
14 4 0.14
15 9 0.32
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (14 bp):
AAATAATATAAACA
Found at i:25723335 original size:21 final size:21
Alignment explanation
Indices: 25723311--25723350 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
25723301 AGAAAAATAT
*
25723311 AAATACATGTACATATATAAA
1 AAATACATATACATATATAAA
* *
25723332 AAATAGATATATATATATA
1 AAATACATATACATATATA
25723351 TAGATTATAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (21 bp):
AAATACATATACATATATAAA
Found at i:25723342 original size:31 final size:30
Alignment explanation
Indices: 25723307--25723366 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
25723297 CGTTAGAAAA
*
25723307 ATATAAATACATGTACATATATAAAAAATAG
1 ATATAAATACATATACAT-TATAAAAAATAG
* * *
25723338 ATATATATATATATAGATTATAAAAAATA
1 ATATAAATACATATACATTATAAAAAATA
25723367 ATTACATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.33
Consensus pattern (30 bp):
ATATAAATACATATACATTATAAAAAATAG
Found at i:25724487 original size:45 final size:45
Alignment explanation
Indices: 25724414--25724559 Score: 222
Period size: 45 Copynumber: 3.3 Consensus size: 45
25724404 TGTAATTTCA
* *
25724414 AGGG-GATAAGACTTGCTTTCTTGAGTCTGCTCCACTGCAACTTC
1 AGGGAGATAAGACTCGCTTTCTTGGGTCTGCTCCACTGCAACTTC
* *
25724458 AGGGAGATAAGACTCGCTTTCTTGGGTCTGCTCCACTGCAACCTA
1 AGGGAGATAAGACTCGCTTTCTTGGGTCTGCTCCACTGCAACTTC
* *
25724503 AGGGAGATAAGACTCGCTGTCTTGGGTCTACTCCACTGCAACTTC
1 AGGGAGATAAGACTCGCTTTCTTGGGTCTGCTCCACTGCAACTTC
*
25724548 AGGGATATAAGA
1 AGGGAGATAAGA
25724560 TTCACCATCT
Statistics
Matches: 92, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
44 4 0.04
45 88 0.96
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (45 bp):
AGGGAGATAAGACTCGCTTTCTTGGGTCTGCTCCACTGCAACTTC
Found at i:25724588 original size:90 final size:89
Alignment explanation
Indices: 25724413--25724576 Score: 202
Period size: 90 Copynumber: 1.8 Consensus size: 89
25724403 TTGTAATTTC
* * * * **
25724413 AAGGGGATAAGACTTGCTTTCTTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTT
1 AAGGGGATAAGACTCGCTGTCTTGAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTCACCAT
** **
25724478 CTTGGGTCTGCTCCACTGCAACCT
66 CTTCAGTCTGCTAAACTGCAACCT
* * *
25724502 AAGGGAGATAAGACTCGCTGTCTTGGGTCTACTCCACTGCAACTTCAGGGATATAAGATTCACCA
1 AAGGG-GATAAGACTCGCTGTCTTGAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTCACCA
25724567 TCTTCAGTCT
65 TCTTCAGTCT
25724577 TTTAAATTGC
Statistics
Matches: 63, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
89 5 0.08
90 58 0.92
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.29
Consensus pattern (89 bp):
AAGGGGATAAGACTCGCTGTCTTGAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTCACCAT
CTTCAGTCTGCTAAACTGCAACCT
Found at i:25724718 original size:100 final size:99
Alignment explanation
Indices: 25724574--25724756 Score: 269
Period size: 100 Copynumber: 1.8 Consensus size: 99
25724564 CCATCTTCAG
* **
25724574 TCTTTTAAATTGCAATGTTGGGAAAAAAAATTTGCCGTCGTAGCTTCAAT-TCGTTCCACTACAC
1 TCTTTTAAATTGCAATATTGGGAAAAAAAATTCACCGTCGTAGCTTCAATCT-GTTCCACTACAC
**
25724638 CGCCAGGGAAGTAAGATTCACCGTTGCAGCTTTAA
65 CGCCAGGGAAACAAGATTCACCGTTGCAGCTTTAA
* * *
25724673 TCTTTTTAATTGCAATATTGGGGAAACAAGATTCACCGTCGTAGCTTCAATCTGTTCCACTACAC
1 TCTTTTAAATTGCAATATT-GGGAAAAAAAATTCACCGTCGTAGCTTCAATCTGTTCCACTACAC
25724738 CGCCAGGGAAACAAGATTC
65 CGCCAGGGAAACAAGATTC
25724757 GCCATTGTGG
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
99 17 0.23
100 56 0.76
101 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (99 bp):
TCTTTTAAATTGCAATATTGGGAAAAAAAATTCACCGTCGTAGCTTCAATCTGTTCCACTACACC
GCCAGGGAAACAAGATTCACCGTTGCAGCTTTAA
Found at i:25724747 original size:50 final size:50
Alignment explanation
Indices: 25724608--25724783 Score: 138
Period size: 50 Copynumber: 3.5 Consensus size: 50
25724598 AAAAAATTTG
**
25724608 CCGTCGTAGCTTCAAT-TCGTTCCACTACACCGCCAGGGAAGTAAGATTCA
1 CCGTCGTAGCTTCAATCT-GTTCCACTACACCGCCAGGGAAACAAGATTCA
* * * * ** * * ******
25724658 CCGTTGCAGCTTTAATCTTTTTAATTGCAATATTGGGGAAACAAGATTCA
1 CCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAACAAGATTCA
*
25724708 CCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAACAAGATTCG
1 CCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAACAAGATTCA
* * * **
25724758 CCATTGTGGCTTCAATCCATTCCACT
1 CCGTCGTAGCTTCAATCTGTTCCACT
25724784 GTAATGCCAA
Statistics
Matches: 89, Mismatches: 36, Indels: 2
0.70 0.28 0.02
Matches are distributed among these distances:
50 88 0.99
51 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.28
Consensus pattern (50 bp):
CCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGGGAAACAAGATTCA
Found at i:25725069 original size:43 final size:42
Alignment explanation
Indices: 25725016--25725140 Score: 118
Period size: 43 Copynumber: 3.0 Consensus size: 42
25725006 AAGGTGAGAT
25725016 CTGCTATCTTCAACCTACTCCACTGCTGCTGAGGGAGACAAGG
1 CTGCTATCTTCAACCTACTCCACTGCTGCT-AGGGAGACAAGG
* * * * *
25725059 CTGGTATCTTCGATCTACTTCACTGC--C-A---AGACAAGAT
1 CTGCTATCTTCAACCTACTCCACTGCTGCTAGGGAGACAAG-G
* *
25725096 CTGCTATTTTCAACCTACTCCACTGCTGCTTAGGGAGATAAGG
1 CTGCTATCTTCAACCTACTCCACTGCTGC-TAGGGAGACAAGG
25725139 CT
1 CT
25725141 AAAGTTTCAC
Statistics
Matches: 62, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
36 7 0.11
37 21 0.34
39 2 0.03
41 2 0.03
43 24 0.39
44 6 0.10
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (42 bp):
CTGCTATCTTCAACCTACTCCACTGCTGCTAGGGAGACAAGG
Found at i:25733633 original size:19 final size:20
Alignment explanation
Indices: 25733596--25733633 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
25733586 TTTAAGAAAA
*
25733596 CTTTACTATAAATTAAATTT
1 CTTTACTATAAAGTAAATTT
*
25733616 CTTTAC-ATAAAGTGAATT
1 CTTTACTATAAAGTAAATT
25733634 ACAAATAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (20 bp):
CTTTACTATAAAGTAAATTT
Found at i:25734595 original size:357 final size:358
Alignment explanation
Indices: 25733874--25734595 Score: 1252
Period size: 357 Copynumber: 2.0 Consensus size: 358
25733864 TTTTCATTTG
* *
25733874 CTTCAAAGCACTTGATCCAGATCTCACAATTTTGCAATGTCGTTTCTAACTTTTCTATTCTTTTC
1 CTTC-AAGCACTTGATCCAGATCTCACAATTTTGCAACGTCATTTCTAACTTTTCTATTCTTTTC
*
25733939 TTCATCTCCTCAATCTTGCTCAAGCTTGCCCTCAATTCTATCGCCGAGTTTCAATTTCGATACTG
65 TTCATCTCCTCAATCTTGCTCAAGCTTGCCCTCAATTCTATCGCCAAGTTTCAATTTCGATACTG
*
25734004 ACGAAGGGATCTTTCCAACTCGGTCACCCTGTCCTTTAGCTCACTTTTTTTCTTTTTGGCTTTCT
130 ACAAAGGGATCTTTCCAACTCGGTCACCCTGTCCTTTAGCTCACTTTTTTTCTTTTTGGCTTTCT
25734069 AACAAACTCTTCTCTAAAGCTTCATTTCGTGTCTGAACCTCTTGAAATTTTTGTTCCCATCTATC
195 AACAAACTCTTCTCTAAAGCTTCATTTCGTGTCTGAACCTCTTGAAATTTTTGTTCCCATCTATC
* *
25734134 GACTTTGTCCTTTTCTTCTAGAATTTTTGCTCACCACTGTTCCAAAATTTTTCCCAGCCCAGCAG
260 GACTTTGTCATTTTCTTCTAAAATTTTTGCTCACCACTGTTCCAAAATTTTTCCCAGCCCAGCAG
* *
25734199 TTCTTATTGACAGGCGCAACTTTTTATAATATAC
325 TTCTTATTAACAGGCACAACTTTTTATAATATAC
25734233 CTTCAAGCACTTGATCCAGATCTCACAATTTTGCAACGTCATTTCTAACTCTTT-TATTCTTTTC
1 CTTCAAGCACTTGATCCAGATCTCACAATTTTGCAACGTCATTTCTAACT-TTTCTATTCTTTTC
*
25734297 TTCATCTCCTCAATCTTGCTCAAGCTTGCCCTCAATTCTATCGCCAAGTTTCAATTTTGATACTG
65 TTCATCTCCTCAATCTTGCTCAAGCTTGCCCTCAATTCTATCGCCAAGTTTCAATTTCGATACTG
25734362 ACAAAGGGATCTTTCCAACTCGGTCACCCTGTCCTTTAGCTCAC-TTTTTTCTTTTTGGCTTTCT
130 ACAAAGGGATCTTTCCAACTCGGTCACCCTGTCCTTTAGCTCACTTTTTTTCTTTTTGGCTTTCT
* *
25734426 GACAAACTCTTCTCTAAAGCTTCATTTCGTGTCTGAACCTCTTGAAATTTTTGTTCCCATTTATC
195 AACAAACTCTTCTCTAAAGCTTCATTTCGTGTCTGAACCTCTTGAAATTTTTGTTCCCATCTATC
* *
25734491 GACTTTGTCATTTTCTTCTAAAATTTTTGCTCACCACAT-TTCCGAAGTTTTTCCCAGCCCAGCA
260 GACTTTGTCATTTTCTTCTAAAATTTTTGCTCACCAC-TGTTCCAAAATTTTTCCCAGCCCAGCA
* * *
25734555 GTTCTTATTAACAGGCATAACTTTTTATAATCTGC
324 GTTCTTATTAACAGGCACAACTTTTTATAATATAC
25734590 CTTCAA
1 CTTCAA
25734596 ACTATCCAAC
Statistics
Matches: 345, Mismatches: 16, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
357 177 0.51
358 161 0.47
359 7 0.02
ACGTcount: A:0.22, C:0.27, G:0.11, T:0.41
Consensus pattern (358 bp):
CTTCAAGCACTTGATCCAGATCTCACAATTTTGCAACGTCATTTCTAACTTTTCTATTCTTTTCT
TCATCTCCTCAATCTTGCTCAAGCTTGCCCTCAATTCTATCGCCAAGTTTCAATTTCGATACTGA
CAAAGGGATCTTTCCAACTCGGTCACCCTGTCCTTTAGCTCACTTTTTTTCTTTTTGGCTTTCTA
ACAAACTCTTCTCTAAAGCTTCATTTCGTGTCTGAACCTCTTGAAATTTTTGTTCCCATCTATCG
ACTTTGTCATTTTCTTCTAAAATTTTTGCTCACCACTGTTCCAAAATTTTTCCCAGCCCAGCAGT
TCTTATTAACAGGCACAACTTTTTATAATATAC
Found at i:25737477 original size:15 final size:15
Alignment explanation
Indices: 25737459--25737488 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25737449 ACAAATGTAG
25737459 CAATAACAAATACAA
1 CAATAACAAATACAA
*
25737474 CAATAATAAATACAA
1 CAATAACAAATACAA
25737489 TAATGGCATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.17, G:0.00, T:0.17
Consensus pattern (15 bp):
CAATAACAAATACAA
Found at i:25737518 original size:13 final size:14
Alignment explanation
Indices: 25737499--25737538 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
25737489 TAATGGCATA
25737499 GAAATAATATAAAC
1 GAAATAATATAAAC
25737513 -AAATAA-ATAAAC
1 GAAATAATATAAAC
25737525 GAAACTAATATAAA
1 GAAA-TAATATAAA
25737539 AAAAATGACC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 6 0.26
13 9 0.39
14 3 0.13
15 5 0.22
ACGTcount: A:0.68, C:0.07, G:0.05, T:0.20
Consensus pattern (14 bp):
GAAATAATATAAAC
Found at i:25737917 original size:29 final size:30
Alignment explanation
Indices: 25737881--25737939 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 30
25737871 ATATATATAT
25737881 AAAATATTCCTT-AAAAATATAAATACAGA
1 AAAATATTCCTTAAAAAATATAAATACAGA
*
25737910 AAAATATTCGTTAGAAAAAATATAAATACA
1 AAAATATTCCTT--AAAAAATATAAATACA
25737940 TGTACATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 11 0.42
32 15 0.58
ACGTcount: A:0.59, C:0.08, G:0.05, T:0.27
Consensus pattern (30 bp):
AAAATATTCCTTAAAAAATATAAATACAGA
Found at i:25739533 original size:31 final size:29
Alignment explanation
Indices: 25739498--25739569 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 29
25739488 AATGGCTCAA
25739498 TGACTAAAATGTTACAACACGTT-AACATAAG
1 TGACTAAAATGTT--AACA-GTTAAACATAAG
* *
25739529 TGACTAAAACG-TAACATTTCAAACATAAG
1 TGACTAAAATGTTAACAGTT-AAACATAAG
25739558 TGACTAAAATGT
1 TGACTAAAATGT
25739570 AATCTGAGGG
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
27 2 0.06
28 4 0.11
29 18 0.51
30 1 0.03
31 10 0.29
ACGTcount: A:0.46, C:0.15, G:0.12, T:0.26
Consensus pattern (29 bp):
TGACTAAAATGTTAACAGTTAAACATAAG
Found at i:25742517 original size:21 final size:21
Alignment explanation
Indices: 25742488--25742527 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
25742478 ATTTAGCTTC
*
25742488 AAAGTTCACCTATCTCAAGAA
1 AAAGGTCACCTATCTCAAGAA
* *
25742509 AAAGGTCACTTGTCTCAAG
1 AAAGGTCACCTATCTCAAG
25742528 GCTTAAATAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (21 bp):
AAAGGTCACCTATCTCAAGAA
Found at i:25744982 original size:61 final size:59
Alignment explanation
Indices: 25744872--25745015 Score: 135
Period size: 61 Copynumber: 2.4 Consensus size: 59
25744862 CAATTTTTAT
*** * * * * *
25744872 GAGTTCATTATATATCTATTCTTACTGAATTCACTCATTTAGGCAAACCCTTTTCATTGGA
1 GAGTTCATTATATATCTATTCTTAAACAATTCACTCATTCAAGCAAACCC--CTAATTGCA
* * * **
25744933 GAGTTCATTATATATCTTTTTTTAAACAGTTCACTCATTCAAGTGAACCCCTAATTGCA
1 GAGTTCATTATATATCTATTCTTAAACAATTCACTCATTCAAGCAAACCCCTAATTGCA
* *
25744992 GAGTGCATTATATATCTACTCTTA
1 GAGTTCATTATATATCTATTCTTA
25745016 CAAAGCTTAT
Statistics
Matches: 66, Mismatches: 17, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
59 26 0.39
61 40 0.61
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.40
Consensus pattern (59 bp):
GAGTTCATTATATATCTATTCTTAAACAATTCACTCATTCAAGCAAACCCCTAATTGCA
Found at i:25746821 original size:24 final size:24
Alignment explanation
Indices: 25746789--25746839 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
25746779 TTTATTTTAT
*
25746789 TTGTTATACTATGTTACTGTTAGC
1 TTGTTATACTATATTACTGTTAGC
25746813 TTGTTATACTATATTACTGTTAGC
1 TTGTTATACTATATTACTGTTAGC
25746837 TTG
1 TTG
25746840 CTTGCTAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.12, G:0.16, T:0.51
Consensus pattern (24 bp):
TTGTTATACTATATTACTGTTAGC
Found at i:25754452 original size:20 final size:20
Alignment explanation
Indices: 25754419--25754478 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
25754409 ATCTTTTCTT
* * *
25754419 TATTTAGTTATTATTTTGAA
1 TATTTATTTTTTATTTTAAA
25754439 TATTTATTTTTTATTCTTAAA
1 TATTTATTTTTTATT-TTAAA
*
25754460 TTTCTTATTTTCTTATTTT
1 TAT-TTATTTT-TTATTTT
25754479 CCCCTAAATC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 13 0.39
21 6 0.18
22 9 0.27
23 5 0.15
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.68
Consensus pattern (20 bp):
TATTTATTTTTTATTTTAAA
Found at i:25758093 original size:50 final size:50
Alignment explanation
Indices: 25758007--25758197 Score: 219
Period size: 50 Copynumber: 3.8 Consensus size: 50
25757997 ATTTGGGTAA
* *
25758007 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGCTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATG
** * *
25758057 AGAGCTCCCCCGTAAGACCATGTCTGGGACATGGCA-TGAGCACCGATATA
1 AGAGCTCCCATGTAAGACCATGTCTGGGACATGGCATTG-GCACCGACATG
* * * *
25758107 AGAGCTCCCATGTAAGACCATATCTGGGATATGACATTGGCA--GTACAAG
1 AGAGCTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-ACATG
* *
25758156 A-AACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGC-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
25758198 TGTTATTATC
Statistics
Matches: 119, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
48 3 0.03
49 38 0.32
50 76 0.64
51 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (50 bp):
AGAGCTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATG
Found at i:25771508 original size:25 final size:26
Alignment explanation
Indices: 25771461--25771509 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
25771451 TAATCTCTAT
* *
25771461 TTTTTAAATTTTATAATATATATTTG
1 TTTTAAAATTTTATAATAAATATTTG
25771487 TTTTAAAATTTTATAA-AAATATT
1 TTTTAAAATTTTATAATAAATATT
25771510 AAATACAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (26 bp):
TTTTAAAATTTTATAATAAATATTTG
Found at i:25772841 original size:30 final size:30
Alignment explanation
Indices: 25772807--25772863 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
25772797 AAAATTACAT
25772807 TTTAAACCTCTTAAAAAGAA-GAAAATTTTG
1 TTTAAACC-CTTAAAAAGAATGAAAATTTTG
** *
25772837 TTTAATTCCTTAAAAATAATGAAAATT
1 TTTAAACCCTTAAAAAGAATGAAAATT
25772864 ATATAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 10 0.43
30 13 0.57
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.37
Consensus pattern (30 bp):
TTTAAACCCTTAAAAAGAATGAAAATTTTG
Found at i:25789048 original size:10 final size:12
Alignment explanation
Indices: 25789023--25789048 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
25789013 AGAATAGGAG
25789023 ATATACCTGAAT
1 ATATACCTGAAT
25789035 ATATACCTGAAT
1 ATATACCTGAAT
25789047 AT
1 AT
25789049 GGGGTTGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (12 bp):
ATATACCTGAAT
Found at i:25792797 original size:22 final size:25
Alignment explanation
Indices: 25792770--25792895 Score: 120
Period size: 25 Copynumber: 5.3 Consensus size: 25
25792760 CACTAATGAA
* *
25792770 CAGAGAGCACTAAAGTGCTA-T-A-
1 CAGAGAGCACCAACGTGCTACTAAT
* *
25792792 CAGAGAGCACAAATGTGC---TAAT
1 CAGAGAGCACCAACGTGCTACTAAT
** *
25792814 CAGAGAGCACTGACGTGCTAGTAAT
1 CAGAGAGCACCAACGTGCTACTAAT
*
25792839 CAAAGAGCACCAACGTGCTACTAAT
1 CAGAGAGCACCAACGTGCTACTAAT
*
25792864 CAGAGAGCACCAACGTGCTAATAAT
1 CAGAGAGCACCAACGTGCTACTAAT
*
25792889 TAGAGAG
1 CAGAGAG
25792896 TGCGCTAAAG
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
20 1 0.01
21 1 0.01
22 31 0.36
25 54 0.62
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.17
Consensus pattern (25 bp):
CAGAGAGCACCAACGTGCTACTAAT
Found at i:25793864 original size:5 final size:5
Alignment explanation
Indices: 25793854--25793916 Score: 110
Period size: 5 Copynumber: 12.8 Consensus size: 5
25793844 TTATTTCTTT
*
25793854 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TACAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
25793904 TAT-A TATAA TATA
1 TATAA TATAA TATA
25793917 TAACTTAACT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
4 4 0.07
5 51 0.93
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:25796168 original size:29 final size:28
Alignment explanation
Indices: 25796101--25796168 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
25796091 AACCTCACCT
25796101 TTTATAAAAATTCAAAACCAAAAACATA
1 TTTATAAAAATTCAAAACCAAAAACATA
*
25796129 TATT-TAAAAATT-AAATACACAACAACATA
1 T-TTATAAAAATTCAAA-AC-CAAAAACATA
*
25796158 TTTATACAAAT
1 TTTATAAAAAT
25796169 ACCATATGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
27 3 0.09
28 13 0.38
29 18 0.53
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.29
Consensus pattern (28 bp):
TTTATAAAAATTCAAAACCAAAAACATA
Found at i:25796900 original size:14 final size:14
Alignment explanation
Indices: 25796881--25796921 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
25796871 TGATTAAAGA
*
25796881 TTAATTAATTTAGT
1 TTAATTAATTAAGT
25796895 TTAATTAACTTAAGT
1 TTAATTAA-TTAAGT
*
25796910 TCAATTAATTAA
1 TTAATTAATTAA
25796922 CCATTTAGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (14 bp):
TTAATTAATTAAGT
Found at i:25800114 original size:15 final size:15
Alignment explanation
Indices: 25800094--25800124 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
25800084 AGACCTAGTA
25800094 CTTGTCTTAATCTAT
1 CTTGTCTTAATCTAT
*
25800109 CTTGTCTTGATCTAT
1 CTTGTCTTAATCTAT
25800124 C
1 C
25800125 CCTATAGATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.23, G:0.10, T:0.52
Consensus pattern (15 bp):
CTTGTCTTAATCTAT
Found at i:25803921 original size:12 final size:13
Alignment explanation
Indices: 25803904--25803932 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
25803894 CTCATACATG
25803904 AATAAATAAA-GC
1 AATAAATAAATGC
25803916 AATAAATAAATGC
1 AATAAATAAATGC
25803929 AATA
1 AATA
25803933 GTTATAGCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:25811935 original size:24 final size:24
Alignment explanation
Indices: 25811908--25811953 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
25811898 TATGTTATAT
*
25811908 TTATAATCTATTATTTAGTATAAA
1 TTATAATATATTATTTAGTATAAA
** *
25811932 TTATTTTATATTATTTATTATA
1 TTATAATATATTATTTAGTATA
25811954 CATATACACA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (24 bp):
TTATAATATATTATTTAGTATAAA
Found at i:25812061 original size:23 final size:22
Alignment explanation
Indices: 25812035--25812077 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
25812025 AGTTTAAACC
*
25812035 TTTATCTTATAAATACTAAATCA
1 TTTATATTATAAATA-TAAATCA
*
25812058 TTTATATTTTAAATATAAAT
1 TTTATATTATAAATATAAAT
25812078 ACTAACTTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (22 bp):
TTTATATTATAAATATAAATCA
Found at i:25819701 original size:2 final size:2
Alignment explanation
Indices: 25819696--25819723 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
25819686 GTGTGTGTGC
25819696 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
25819724 AGTAGAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:25820141 original size:18 final size:18
Alignment explanation
Indices: 25820118--25820155 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
25820108 TTGAGGTTGG
25820118 GGATATGGATACGGGTAT
1 GGATATGGATACGGGTAT
* *
25820136 GGATATTGATATGGGTAT
1 GGATATGGATACGGGTAT
25820154 GG
1 GG
25820156 TGGCATGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.26, C:0.03, G:0.39, T:0.32
Consensus pattern (18 bp):
GGATATGGATACGGGTAT
Found at i:25820608 original size:15 final size:15
Alignment explanation
Indices: 25820588--25820624 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 15
25820578 CCTGAGGTAA
25820588 ACCACCGCCATTTTT
1 ACCACCGCCATTTTT
25820603 ACCACCG---TTTTT
1 ACCACCGCCATTTTT
25820615 ACCACCGCCA
1 ACCACCGCCA
25820625 CCTTGATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 6
0.76 0.00 0.24
Matches are distributed among these distances:
12 12 0.63
15 7 0.37
ACGTcount: A:0.22, C:0.43, G:0.08, T:0.27
Consensus pattern (15 bp):
ACCACCGCCATTTTT
Found at i:25820962 original size:15 final size:15
Alignment explanation
Indices: 25820944--25821011 Score: 73
Period size: 15 Copynumber: 4.3 Consensus size: 15
25820934 AACTCATCGC
25820944 CATCATCAAAATCAT
1 CATCATCAAAATCAT
*
25820959 CATCATCAAGATCACAAT
1 CATCATCAAAAT--C-AT
* *
25820977 CATCATCCAAGTCAT
1 CATCATCAAAATCAT
*
25820992 CATCATCATAATCAT
1 CATCATCAAAATCAT
25821007 CATCA
1 CATCA
25821012 CTGAAATCTT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
15 30 0.70
16 1 0.02
17 1 0.02
18 11 0.26
ACGTcount: A:0.41, C:0.29, G:0.03, T:0.26
Consensus pattern (15 bp):
CATCATCAAAATCAT
Found at i:25821236 original size:3 final size:3
Alignment explanation
Indices: 25821228--25821265 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
25821218 CTGACCACCC
*
25821228 TTG TTG TTG TT- TTGG TTG TTG TTC TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TT-G TTG TTG TTG TTG TTG TTG TTG TT
25821266 TCCACCTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.87
4 2 0.06
ACGTcount: A:0.00, C:0.03, G:0.29, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:25821739 original size:12 final size:13
Alignment explanation
Indices: 25821718--25821746 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
25821708 TAGAGAAACA
25821718 AAAAATGAGAGAG
1 AAAAATGAGAGAG
25821731 AAAAA-GAGAGAG
1 AAAAATGAGAGAG
25821743 AAAA
1 AAAA
25821747 TACTTGGATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (13 bp):
AAAAATGAGAGAG
Found at i:25822083 original size:5 final size:5
Alignment explanation
Indices: 25822073--25822099 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
25822063 GCAACAGCAG
25822073 GCAAA GCAAA GCAAA GCAAA GCAAA GC
1 GCAAA GCAAA GCAAA GCAAA GCAAA GC
25822100 TTCACTCTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.56, C:0.22, G:0.22, T:0.00
Consensus pattern (5 bp):
GCAAA
Found at i:25826138 original size:9 final size:9
Alignment explanation
Indices: 25826124--25826148 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
25826114 GAAGAATTAT
25826124 ATTGGTAAA
1 ATTGGTAAA
25826133 ATTGGTAAA
1 ATTGGTAAA
25826142 ATTGGTA
1 ATTGGTA
25826149 TTGCTTGCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (9 bp):
ATTGGTAAA
Found at i:25828002 original size:17 final size:17
Alignment explanation
Indices: 25827982--25828015 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
25827972 GTTTTATTTT
* *
25827982 TTTTCTTTTATATCAAC
1 TTTTCATTTATAACAAC
25827999 TTTTCATTTATAACAAC
1 TTTTCATTTATAACAAC
25828016 AATCATAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.18, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTTCATTTATAACAAC
Found at i:25831636 original size:42 final size:42
Alignment explanation
Indices: 25831584--25831797 Score: 218
Period size: 42 Copynumber: 5.1 Consensus size: 42
25831574 GCCCGAAGGC
* * * * *
25831584 TGAACAGAAGCTCATGAGAGCTAAACAGAAACCCATAATGGT
1 TGAACTGAAGCTCATTAGAGCTGAACGGAAACCCATAAGGGT
* * *
25831626 TGAACTGAAGCTCGTAAGAGCTGAATGGAAACCCATAAGGGT
1 TGAACTGAAGCTCATTAGAGCTGAACGGAAACCCATAAGGGT
* * * *
25831668 TAAACAT-AAGCTCATTAAAGCTAAACGGAAACCCATAAAGGT
1 TGAAC-TGAAGCTCATTAGAGCTGAACGGAAACCCATAAGGGT
* *
25831710 T-AAATAGAAGCTCATTACAGCTGAACGGAAACCCAT-AGGGT
1 TGAACT-GAAGCTCATTAGAGCTGAACGGAAACCCATAAGGGT
* ** * *
25831751 TAAACAAAAGCTCAATAGAGCTGAACGGAAACCCATTAGGGT
1 TGAACTGAAGCTCATTAGAGCTGAACGGAAACCCATAAGGGT
25831793 TGAAC
1 TGAAC
25831798 AAAAACTCAT
Statistics
Matches: 143, Mismatches: 24, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
40 1 0.01
41 34 0.24
42 107 0.75
43 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.18
Consensus pattern (42 bp):
TGAACTGAAGCTCATTAGAGCTGAACGGAAACCCATAAGGGT
Found at i:25831713 original size:21 final size:21
Alignment explanation
Indices: 25831652--25831713 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 21
25831642 AGAGCTGAAT
*
25831652 GGAAACCCATAAGGGTTAAAC
1 GGAAACCCATAAAGGTTAAAC
** * * *
25831673 ATAAGCTCATTAAA-GCTAAAC
1 GGAAACCCA-TAAAGGTTAAAC
25831694 GGAAACCCATAAAGGTTAAA
1 GGAAACCCATAAAGGTTAAA
25831714 TAGAAGCTCA
Statistics
Matches: 28, Mismatches: 11, Indels: 4
0.65 0.26 0.09
Matches are distributed among these distances:
20 4 0.14
21 21 0.75
22 3 0.11
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.18
Consensus pattern (21 bp):
GGAAACCCATAAAGGTTAAAC
Found at i:25831732 original size:84 final size:83
Alignment explanation
Indices: 25831586--25831796 Score: 262
Period size: 84 Copynumber: 2.5 Consensus size: 83
25831576 CCGAAGGCTG
* * * * * * *
25831586 AACAGAAGCTCATGAGAGCTAAACAGAAACCCATAATGGTTGAACTGAAGCTCGTAAGAGCTGAA
1 AACAAAAGCTCATTAGAGCTAAACGGAAACCCATAAAGGTTGAAATGAAGCTCATAACAGCTGAA
*
25831651 TGGAAACCCATAAGGGTTA
66 CGGAAACCCAT-AGGGTTA
* * *
25831670 AACATAAGCTCATTAAAGCTAAACGGAAACCCATAAAGGTT-AAATAGAAGCTCATTACAGCTGA
1 AACAAAAGCTCATTAGAGCTAAACGGAAACCCATAAAGGTTGAAAT-GAAGCTCATAACAGCTGA
25831734 ACGGAAACCCATAGGGTTA
65 ACGGAAACCCATAGGGTTA
* * * *
25831753 AACAAAAGCTCAATAGAGCTGAACGGAAACCCATTAGGGTTGAA
1 AACAAAAGCTCATTAGAGCTAAACGGAAACCCATAAAGGTTGAA
25831797 CAAAAACTCA
Statistics
Matches: 109, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
83 45 0.41
84 64 0.59
ACGTcount: A:0.42, C:0.18, G:0.21, T:0.18
Consensus pattern (83 bp):
AACAAAAGCTCATTAGAGCTAAACGGAAACCCATAAAGGTTGAAATGAAGCTCATAACAGCTGAA
CGGAAACCCATAGGGTTA
Found at i:25831803 original size:21 final size:20
Alignment explanation
Indices: 25831738--25831803 Score: 51
Period size: 21 Copynumber: 3.2 Consensus size: 20
25831728 AGCTGAACGG
*
25831738 AAACCCATAGGGTTAAACAA
1 AAACCCATAGGGTTGAACAA
* * * * **
25831758 AAGCTCAATAGAGCTGAACGG
1 AAAC-CCATAGGGTTGAACAA
25831779 AAACCCATTAGGGTTGAACAA
1 AAACCCA-TAGGGTTGAACAA
25831800 AAAC
1 AAAC
25831804 TCATGCGAGT
Statistics
Matches: 31, Mismatches: 13, Indels: 3
0.66 0.28 0.06
Matches are distributed among these distances:
20 5 0.16
21 26 0.84
ACGTcount: A:0.45, C:0.20, G:0.20, T:0.15
Consensus pattern (20 bp):
AAACCCATAGGGTTGAACAA
Found at i:25832045 original size:45 final size:45
Alignment explanation
Indices: 25831985--25832077 Score: 159
Period size: 45 Copynumber: 2.1 Consensus size: 45
25831975 CTACAAATTC
*
25831985 ATAATTTAACAATATTCCATTTTTCAACAACATGCTAAATACATA
1 ATAATTTAACAATATTCCATTTTTCAACAACATACTAAATACATA
* *
25832030 ATAATTTAACAATATTCTATTTTTCAACAATATACTAAATACATA
1 ATAATTTAACAATATTCCATTTTTCAACAACATACTAAATACATA
25832075 ATA
1 ATA
25832078 TCATTCATCA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.46, C:0.15, G:0.01, T:0.38
Consensus pattern (45 bp):
ATAATTTAACAATATTCCATTTTTCAACAACATACTAAATACATA
Found at i:25837921 original size:21 final size:20
Alignment explanation
Indices: 25837871--25837923 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
25837861 TATTAATCAT
*
25837871 ATTTTATTAAATGAAAATAA
1 ATTTTAATAAATGAAAATAA
*
25837891 ATTTTAATAAAT-AAAATTAC
1 ATTTTAATAAATGAAAA-TAA
25837911 ATTTGTAATAAAT
1 ATTT-TAATAAAT
25837924 TTTATTAGAG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 4 0.14
20 17 0.59
21 8 0.28
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (20 bp):
ATTTTAATAAATGAAAATAA
Found at i:25841786 original size:19 final size:20
Alignment explanation
Indices: 25841742--25841787 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 20
25841732 AAATATTTTT
*
25841742 ATTTATA-TTAACTATTTAA
1 ATTTATATTTAACAATTTAA
*
25841761 A-TGATATTTAA-AATTTAA
1 ATTTATATTTAACAATTTAA
25841779 ATTTATATT
1 ATTTATATT
25841788 ATTATATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
ATTTATATTTAACAATTTAA
Found at i:25842556 original size:16 final size:16
Alignment explanation
Indices: 25842535--25842566 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
25842525 AAAAAATATT
25842535 TATTTAATTTTTATAG
1 TATTTAATTTTTATAG
25842551 TATTTAATTTTTATAG
1 TATTTAATTTTTATAG
25842567 AATATTGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (16 bp):
TATTTAATTTTTATAG
Found at i:25845531 original size:33 final size:34
Alignment explanation
Indices: 25845477--25845541 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
25845467 TAATGGCAGC
*
25845477 TATTCCCAGATTTTTCATTCCAGAAGTCAAAAGA
1 TATTCCCAGATTTTTCATTCCACAAGTCAAAAGA
* *
25845511 TATTCCCAGA-TTTTCCTTCCACAAGTTAAAA
1 TATTCCCAGATTTTTCATTCCACAAGTCAAAA
25845542 AGCTCAACTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 18 0.64
34 10 0.36
ACGTcount: A:0.34, C:0.23, G:0.09, T:0.34
Consensus pattern (34 bp):
TATTCCCAGATTTTTCATTCCACAAGTCAAAAGA
Found at i:25845543 original size:34 final size:34
Alignment explanation
Indices: 25845477--25845543 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
25845467 TAATGGCAGC
* *
25845477 TATTCCCAGATTTTTCATTCCAGAAGTCAAAAGA
1 TATTCCCAGATTTTTCATTCCACAAGTAAAAAGA
*
25845511 TATTCCCAGA-TTTTCCTTCCACAAGTTAAAAAG
1 TATTCCCAGATTTTTCATTCCACAAG-TAAAAAG
25845544 CTCAACTGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 13 0.45
34 16 0.55
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.33
Consensus pattern (34 bp):
TATTCCCAGATTTTTCATTCCACAAGTAAAAAGA
Found at i:25854315 original size:8 final size:8
Alignment explanation
Indices: 25854302--25854327 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
25854292 GAAAGAAGTG
25854302 AAAGGGAA
1 AAAGGGAA
25854310 AAAGGGAA
1 AAAGGGAA
25854318 AAAGGGAA
1 AAAGGGAA
25854326 AA
1 AA
25854328 TTTTCCAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (8 bp):
AAAGGGAA
Found at i:25856178 original size:23 final size:22
Alignment explanation
Indices: 25856135--25856180 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
25856125 AATATTAAAA
*
25856135 ATATATTTTTAGTTTATATTTT
1 ATATATTTTTAGTTTAAATTTT
25856157 ATATATTTTTA-TAATTAAATTTT
1 ATATATTTTTAGT--TTAAATTTT
25856180 A
1 A
25856181 AATTTTGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 1 0.05
22 11 0.52
23 9 0.43
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
ATATATTTTTAGTTTAAATTTT
Found at i:25856422 original size:30 final size:30
Alignment explanation
Indices: 25856360--25856423 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
25856350 ATAAATTTCT
*
25856360 TAATAATATAGTTATAAATTTAAAACATAA
1 TAATAATATAGTTATAAATTTAAAACAAAA
*
25856390 TAAT-ATATAAGTT-TAATTTTAAAATCAAAA
1 TAATAATAT-AGTTATAAATTTAAAA-CAAAA
25856420 TAAT
1 TAAT
25856424 TGATATTAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 14 0.47
30 16 0.53
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (30 bp):
TAATAATATAGTTATAAATTTAAAACAAAA
Found at i:25861211 original size:30 final size:31
Alignment explanation
Indices: 25861172--25861231 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
25861162 GGAGGTAGGA
*
25861172 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
*
25861203 TGGG-AGGGAGTAAAAATTTTAGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
25861232 TAAAAGGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:25874483 original size:11 final size:11
Alignment explanation
Indices: 25874467--25874491 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
25874457 AATCTCTAAT
25874467 TTCTTCAACTC
1 TTCTTCAACTC
25874478 TTCTTCAACTC
1 TTCTTCAACTC
25874489 TTC
1 TTC
25874492 AAGGACCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.36, G:0.00, T:0.48
Consensus pattern (11 bp):
TTCTTCAACTC
Found at i:25891428 original size:8 final size:8
Alignment explanation
Indices: 25891415--25891480 Score: 50
Period size: 8 Copynumber: 8.4 Consensus size: 8
25891405 TAAAAAATAT
25891415 ATATTATA
1 ATATTATA
25891423 ATATTATA
1 ATATTATA
25891431 ATATTAT-
1 ATATTATA
*
25891438 ATCTTA-A
1 ATATTATA
*
25891445 TTATTA-A
1 ATATTATA
*
25891452 GTATATATATT
1 --ATAT-TATA
25891463 ATATTAT-
1 ATATTATA
25891470 ATATTATA
1 ATATTATA
25891478 ATA
1 ATA
25891481 AGTAGATATA
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
7 17 0.36
8 21 0.45
9 7 0.15
10 2 0.04
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (8 bp):
ATATTATA
Found at i:25891465 original size:7 final size:7
Alignment explanation
Indices: 25891412--25891477 Score: 53
Period size: 7 Copynumber: 8.6 Consensus size: 7
25891402 AGTTAAAAAA
25891412 TATATAT
1 TATATAT
25891419 TATAATAT
1 TAT-ATAT
25891427 TATAATAT
1 TAT-ATAT
*
25891435 TATATCT
1 TATATAT
25891442 TA-ATTAT
1 TATA-TAT
25891449 TAAGTATAT
1 T-A-TATAT
25891458 ATATTATAT
1 -TA-TATAT
25891467 TATATAT
1 TATATAT
25891474 TATA
1 TATA
25891478 ATAAGTAGAT
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
6 1 0.02
7 20 0.40
8 18 0.36
9 9 0.18
10 2 0.04
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (7 bp):
TATATAT
Found at i:25891490 original size:30 final size:32
Alignment explanation
Indices: 25891431--25891490 Score: 79
Period size: 30 Copynumber: 1.9 Consensus size: 32
25891421 TAATATTATA
* * *
25891431 ATATTATATCTTAATTATTAAGTATATATATT
1 ATATTATATATTAATTAATAAGTAGATATATT
25891463 ATATTATATATT-A-TAATAAGTAGATATA
1 ATATTATATATTAATTAATAAGTAGATATA
25891491 ATAAATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 13 0.52
31 1 0.04
32 11 0.44
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (32 bp):
ATATTATATATTAATTAATAAGTAGATATATT
Found at i:25892475 original size:40 final size:41
Alignment explanation
Indices: 25892378--25892483 Score: 126
Period size: 41 Copynumber: 2.6 Consensus size: 41
25892368 TGACTTTGAG
* * * * * *
25892378 TCGATGAGACACTGGGCGTCAATTTATTACTTTGGATTAAT
1 TCGATGAGGCACTGGGTGCCAAATTATTACTTCGAATTAAT
25892419 TCGATGAGGCACTGGGTGCCAAATTATTACTTCGAATT-A-
1 TCGATGAGGCACTGGGTGCCAAATTATTACTTCGAATTAAT
*
25892458 TCTGATGAGGCACTGGGTGCTAAATT
1 TC-GATGAGGCACTGGGTGCCAAATT
25892484 GAAAATAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
39 2 0.04
40 23 0.40
41 32 0.56
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (41 bp):
TCGATGAGGCACTGGGTGCCAAATTATTACTTCGAATTAAT
Found at i:25903678 original size:12 final size:12
Alignment explanation
Indices: 25903661--25903710 Score: 59
Period size: 12 Copynumber: 4.1 Consensus size: 12
25903651 TTTTAATAAG
25903661 ATTTAATATTAA
1 ATTTAATATTAA
25903673 ATTTAATATAATAA
1 ATTTAATAT--TAA
25903687 ATATT-ATATT-A
1 AT-TTAATATTAA
25903698 ATTTAATATTAA
1 ATTTAATATTAA
25903710 A
1 A
25903711 GTGATTAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
10 2 0.06
11 8 0.24
12 12 0.36
14 9 0.27
15 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTTAATATTAA
Found at i:25903704 original size:20 final size:21
Alignment explanation
Indices: 25903665--25903705 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
25903655 AATAAGATTT
25903665 AATATTAAATTTAATATAATA
1 AATATTAAATTTAATATAATA
* *
25903686 AATATTATA-TTAATTTAATA
1 AATATTAAATTTAATATAATA
25903706 TTAAAGTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AATATTAAATTTAATATAATA
Found at i:25906072 original size:39 final size:39
Alignment explanation
Indices: 25905970--25906322 Score: 361
Period size: 39 Copynumber: 9.1 Consensus size: 39
25905960 TAGAAATACA
* * *
25905970 GTGATTATTC-GGCTTTGTGCCTAGCACGCTTTGTGCTG
1 GTGATTATTCGGGCTTTGTGCCTAGCAGGCTGTGTGCCG
* * *** *
25906008 GTGATTGTTTGGGAAGTGTGGCTAGCAGGCTGTGTGCCG
1 GTGATTATTCGGGCTTTGTGCCTAGCAGGCTGTGTGCCG
* * * *
25906047 GTGATTATTCAGGCTTTATGCCTAGCAGGCTGTG-ACTAG
1 GTGATTATTCGGGCTTTGTGCCTAGCAGGCTGTGTGC-CG
* * *
25906086 GTCATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCG
1 GTGATTATTCGGGCTTTGTGCCTAGCAGGCTGTGTGCCG
* * *
25906125 GTGATTATTCGGGCTTTGCGCCTAGTAGGCTGTATGCCG
1 GTGATTATTCGGGCTTTGTGCCTAGCAGGCTGTGTGCCG
* * *
25906164 GTGATTATTCGGGCTTTGTGCCTTA-CAGGCTATGAGCAG
1 GTGATTATTCGGGCTTTGTGCC-TAGCAGGCTGTGTGCCG
* * * * * * **
25906203 GTGATTGTTTGGGCTATGTGCCTAGTAGGCTTTTTGCTT
1 GTGATTATTCGGGCTTTGTGCCTAGCAGGCTGTGTGCCG
25906242 GTGATTATTCGGGCTTTGTGCCTAGCAGGCTGTGTGCCG
1 GTGATTATTCGGGCTTTGTGCCTAGCAGGCTGTGTGCCG
* * * *
25906281 GTGATTATTCGGGCTATGTGCTTAACAGGTTGTGTGCCG
1 GTGATTATTCGGGCTTTGTGCCTAGCAGGCTGTGTGCCG
25906320 GTG
1 GTG
25906323 TATTGGAAGT
Statistics
Matches: 251, Mismatches: 59, Indels: 9
0.79 0.18 0.03
Matches are distributed among these distances:
38 11 0.04
39 237 0.94
40 3 0.01
ACGTcount: A:0.14, C:0.18, G:0.33, T:0.35
Consensus pattern (39 bp):
GTGATTATTCGGGCTTTGTGCCTAGCAGGCTGTGTGCCG
Found at i:25906155 original size:117 final size:117
Alignment explanation
Indices: 25905973--25906295 Score: 418
Period size: 117 Copynumber: 2.8 Consensus size: 117
25905963 AAATACAGTG
* * * * *** *
25905973 ATTATTC-GGCTTTGTGCCTAGCACGCTTTGTGCTGGTGATTGTTTGGGAAGTGTGGCTAGCAGG
1 ATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCTGGTGATTATTCGGGCTTTGTGCCTAGCAGG
* *
25906037 CTGTGTGCCGGTGATTATTCAGGCTTTATGCC-TAGCAGGCTGTGA-CTAGGTC
66 CTGTGTGCCGGTGATTATTCGGGCTTTATGCCTTA-CAGGCTATGAGC-AGGTC
* * *
25906089 ATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCCGGTGATTATTCGGGCTTTGCGCCTAGTAGG
1 ATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCTGGTGATTATTCGGGCTTTGTGCCTAGCAGG
* * *
25906154 CTGTATGCCGGTGATTATTCGGGCTTTGTGCCTTACAGGCTATGAGCAGGTG
66 CTGTGTGCCGGTGATTATTCGGGCTTTATGCCTTACAGGCTATGAGCAGGTC
* * * * *
25906206 ATTGTTTGGGCTATGTGCCTAGTAGGCTTTTTGCTTGTGATTATTCGGGCTTTGTGCCTAGCAGG
1 ATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCTGGTGATTATTCGGGCTTTGTGCCTAGCAGG
25906271 CTGTGTGCCGGTGATTATTCGGGCT
66 CTGTGTGCCGGTGATTATTCGGGCT
25906296 ATGTGCTTAA
Statistics
Matches: 179, Mismatches: 25, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
116 7 0.04
117 169 0.94
118 3 0.02
ACGTcount: A:0.14, C:0.18, G:0.33, T:0.36
Consensus pattern (117 bp):
ATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCTGGTGATTATTCGGGCTTTGTGCCTAGCAGG
CTGTGTGCCGGTGATTATTCGGGCTTTATGCCTTACAGGCTATGAGCAGGTC
Found at i:25917248 original size:26 final size:23
Alignment explanation
Indices: 25917218--25917312 Score: 66
Period size: 26 Copynumber: 3.9 Consensus size: 23
25917208 AGACTCACCA
25917218 CAGCTCGTATGAGCTTACCGATATAT
1 CAGCTCGTATGAGCTTACCG-T-T-T
* * *
25917244 CAGCTCTTATAAGCTTACTGTTT
1 CAGCTCGTATGAGCTTACCGTTT
*
25917267 CAGCTCG-ATAGAGCTTACAGTTCTT
1 CAGCTCGTAT-GAGCTTACCG-T-TT
* *
25917292 CAGCTCGAAATAAGCTTACCG
1 CAGCTCG-TATGAGCTTACCG
25917313 ATCATGGCTC
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
22 2 0.04
23 15 0.27
24 2 0.04
25 10 0.18
26 25 0.45
27 2 0.04
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (23 bp):
CAGCTCGTATGAGCTTACCGTTT
Found at i:25922457 original size:14 final size:14
Alignment explanation
Indices: 25922440--25922501 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
25922430 TCATAATGAC
25922440 TAATTAATTTAATT-
1 TAATT-ATTTAATTA
*
25922454 TAATT-TTTGAATTT
1 TAATTATTT-AATTA
*
25922468 TAGTTATTTAATTA
1 TAATTATTTAATTA
*
25922482 TAATTAATTAAATTA
1 TAATT-ATTTAATTA
25922497 TAATT
1 TAATT
25922502 TGAAAATTCT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
12 3 0.08
13 4 0.10
14 17 0.43
15 16 0.40
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
TAATTATTTAATTA
Found at i:25924015 original size:19 final size:19
Alignment explanation
Indices: 25923991--25924034 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
25923981 ATTTAGAAAG
25923991 TTAAAAAATTAGTTTTAGT
1 TTAAAAAATTAGTTTTAGT
25924010 TTAAAAAATTAGTTTTAGT
1 TTAAAAAATTAGTTTTAGT
25924029 TATAAA
1 T-TAAA
25924035 GGTTTGCAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (19 bp):
TTAAAAAATTAGTTTTAGT
Found at i:25936940 original size:25 final size:25
Alignment explanation
Indices: 25936906--25936967 Score: 115
Period size: 25 Copynumber: 2.5 Consensus size: 25
25936896 ATTGAATCCT
25936906 TTAAAAATTATAAAGATATAAACTA
1 TTAAAAATTATAAAGATATAAACTA
*
25936931 TTAAAAATTATAAAGATATAAATTA
1 TTAAAAATTATAAAGATATAAACTA
25936956 TTAAAAATTATA
1 TTAAAAATTATA
25936968 CTTTGCCACT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (25 bp):
TTAAAAATTATAAAGATATAAACTA
Found at i:25939317 original size:103 final size:104
Alignment explanation
Indices: 25939084--25939350 Score: 464
Period size: 103 Copynumber: 2.6 Consensus size: 104
25939074 AGAAAAGAAA
**
25939084 AGGGGTTGCTGTGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
*
25939149 TTGAAATGAAAAGGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
25939189 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
25939254 TGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* **
25939292 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGGGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
25939351 ATAACGGCTA
Statistics
Matches: 156, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
103 87 0.56
104 44 0.28
105 25 0.16
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:25946736 original size:103 final size:103
Alignment explanation
Indices: 25946533--25946797 Score: 442
Period size: 103 Copynumber: 2.6 Consensus size: 103
25946523 TGTATATAAA
** *
25946533 AGGGGTTGCTGTGTGCTGATTCCCCGATTTCATTGGTGGTGCTATGTGCGTATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGTATCCACCATATCTT
**
25946598 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
25946637 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TATCCACCATATCTT
25946702 TGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
25946740 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTATCCACCA
25946798 ATAACGGTAA
Statistics
Matches: 153, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
102 8 0.05
103 99 0.65
104 46 0.30
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTATCCACCATATCTTT
GAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:25953840 original size:16 final size:16
Alignment explanation
Indices: 25953802--25953843 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
25953792 GGTTTTTGGG
*
25953802 AAAAGATAAAATTAAA
1 AAAAAATAAAATTAAA
25953818 AAGAAAATAAAA-TAAA
1 AA-AAAATAAAATTAAA
25953834 TAAAAAATAA
1 -AAAAAATAA
25953844 CAAAAATCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.17
Consensus pattern (16 bp):
AAAAAATAAAATTAAA
Found at i:25967175 original size:26 final size:26
Alignment explanation
Indices: 25967116--25967175 Score: 61
Period size: 26 Copynumber: 2.3 Consensus size: 26
25967106 GGTGGTTTTA
*
25967116 TTATCTTTAAATTTAAACTTTTATTTT
1 TTAT-TTTAAATTTAAACTTTTATTAT
*
25967143 TTCTTTT-AATTTGAAA-TTTTGATTAT
1 TTATTTTAAATTT-AAACTTTT-ATTAT
25967169 TTATTTT
1 TTATTTT
25967176 TATAATATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
25 9 0.32
26 16 0.57
27 3 0.11
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (26 bp):
TTATTTTAAATTTAAACTTTTATTAT
Found at i:25973316 original size:28 final size:28
Alignment explanation
Indices: 25973285--25973363 Score: 106
Period size: 28 Copynumber: 2.8 Consensus size: 28
25973275 AATTTTTGTA
* *
25973285 AAAGGAAATCTTTGTAGTGATCTCCGTT
1 AAAGGAAACCTTTGTGGTGATCTCCGTT
* *
25973313 AAAGGAAACCTTTGTGGCGATCTCTGTT
1 AAAGGAAACCTTTGTGGTGATCTCCGTT
25973341 AAA-GAAAGCCTTTGTGGTGATCT
1 AAAGGAAA-CCTTTGTGGTGATCT
25973364 TTGGTAAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
27 4 0.09
28 41 0.91
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (28 bp):
AAAGGAAACCTTTGTGGTGATCTCCGTT
Found at i:25973371 original size:28 final size:29
Alignment explanation
Indices: 25973294--25973414 Score: 113
Period size: 29 Copynumber: 4.2 Consensus size: 29
25973284 AAAAGGAAAT
* * * *
25973294 CTTTGTAGTGATCTCCGTTAAAGGAAA-C
1 CTTTGTGGTGATCTCTGTTAAAAGAAAGA
* *
25973322 CTTTGTGGCGATCTCTGTT-AAAGAAAGC
1 CTTTGTGGTGATCTCTGTTAAAAGAAAGA
* * *
25973350 CTTTGTGGTGATCTTTGGTAAAAAAAAGA
1 CTTTGTGGTGATCTCTGTTAAAAGAAAGA
* *
25973379 CTTTGTGGCT-ATCTTTGTTAAAAGGAAGA
1 CTTTGTGG-TGATCTCTGTTAAAAGAAAGA
25973408 CTTTGTG
1 CTTTGTG
25973415 ACTATCTCTA
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
27 6 0.08
28 33 0.42
29 38 0.49
30 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (29 bp):
CTTTGTGGTGATCTCTGTTAAAAGAAAGA
Found at i:25973419 original size:29 final size:29
Alignment explanation
Indices: 25973313--25973479 Score: 151
Period size: 29 Copynumber: 5.8 Consensus size: 29
25973303 GATCTCCGTT
* *
25973313 AAAGGAA-ACCTTTGTGGCGATCTCTGTT-
1 AAAGGAAGA-CTTTGTGGCTATCTTTGTTA
* * *
25973341 AAAGAAAGCCTTTGTGG-TGATCTTTGGTA
1 AAAGGAAGACTTTGTGGCT-ATCTTTGTTA
**
25973370 AAAAAAAGACTTTGTGGCTATCTTTGTTA
1 AAAGGAAGACTTTGTGGCTATCTTTGTTA
* * *
25973399 AAAGGAAGACTTTGTGACTATCTCTATTA
1 AAAGGAAGACTTTGTGGCTATCTTTGTTA
* * *
25973428 AAAAGATGTCTTTGTGGCTATCTTTGTTA
1 AAAGGAAGACTTTGTGGCTATCTTTGTTA
** *
25973457 AAAGGGTGCCTTTGTGGCTATCT
1 AAAGGAAGACTTTGTGGCTATCT
25973480 CAGTTAAATG
Statistics
Matches: 113, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
28 21 0.19
29 91 0.81
30 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.37
Consensus pattern (29 bp):
AAAGGAAGACTTTGTGGCTATCTTTGTTA
Found at i:25973497 original size:29 final size:29
Alignment explanation
Indices: 25973304--25973497 Score: 89
Period size: 29 Copynumber: 6.8 Consensus size: 29
25973294 CTTTGTAGTG
* * *
25973304 ATCTCCGTTAAAGGAA-ACCTTTGTGGCG
1 ATCTCAGTTAAAAGAATACCTTTGTGGCT
*
25973332 ATCTCTGTT-AAAGAA-AGCCTTTGTGG-T
1 ATCTCAGTTAAAAGAATA-CCTTTGTGGCT
** * * *
25973359 GATCTTTGGTAAAA-AAAAGACTTTGTGGCT
1 -ATCTCAGTTAAAAGAATA-CCTTTGTGGCT
** * *
25973389 ATCTTTGTTAAAAGGAAGA-CTTTGTGACT
1 ATCTCAGTTAAAA-GAATACCTTTGTGGCT
**
25973418 ATCTCTA-TTAAAA-AGATGTCTTTGTGGCT
1 ATCTC-AGTTAAAAGA-ATACCTTTGTGGCT
** ** *
25973447 ATCTTTGTTAAAAGGGTGCCTTTGTGGCT
1 ATCTCAGTTAAAAGAATACCTTTGTGGCT
*
25973476 ATCTCAGTTAAATGAATACCTT
1 ATCTCAGTTAAAAGAATACCTT
25973498 GGGGCAAGCT
Statistics
Matches: 129, Mismatches: 25, Indels: 23
0.73 0.14 0.13
Matches are distributed among these distances:
27 7 0.05
28 27 0.21
29 91 0.71
30 1 0.01
31 3 0.02
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (29 bp):
ATCTCAGTTAAAAGAATACCTTTGTGGCT
Found at i:25976077 original size:7 final size:7
Alignment explanation
Indices: 25976065--25976091 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
25976055 TCAATAAGGC
25976065 ACAATTT
1 ACAATTT
25976072 ACAATTT
1 ACAATTT
25976079 ACAATTT
1 ACAATTT
25976086 ACAATT
1 ACAATT
25976092 CCATTTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (7 bp):
ACAATTT
Done.