Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002772.1 Hibiscus syriacus cultivar Beakdansim tig00005712_pilon, whole genome shotgun sequence
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: 622842
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 2 of 3
Found at i:312498 original size:20 final size:19
Alignment explanation
Indices: 312438--312499 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
312428 TAGAAATTTA
*
312438 ATTTTATATCA-TATAAATT
1 ATTTTATAT-ATTATTAATT
*
312457 ATTTTATATATTATTAA-A
1 ATTTTATATATTATTAATT
312475 ATTTTATAT-TTATTTTAATT
1 ATTTTATATATTA--TTAATT
312495 ATTTT
1 ATTTT
312500 GATTTGAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 3 0.08
18 10 0.28
19 18 0.50
20 5 0.14
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTATATATTATTAATT
Found at i:312989 original size:31 final size:31
Alignment explanation
Indices: 312952--313011 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
312942 TAGTTGTATG
* *
312952 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATCTCAGTATTGCAAAACTAA
312983 AATTATTTAAATCTCAGTATTGCAAAACT
1 AATTATTTAAATCTCAGTATTGCAAAACT
313012 CTTTTAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (31 bp):
AATTATTTAAATCTCAGTATTGCAAAACTAA
Found at i:317832 original size:10 final size:10
Alignment explanation
Indices: 317817--317891 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
317807 CATTTAATAA
317817 ATAAACGAAC
1 ATAAACGAAC
317827 ATAAACGAAC
1 ATAAACGAAC
317837 ----ACGAAC
1 ATAAACGAAC
317843 ATAAACGAAC
1 ATAAACGAAC
** *
317853 ACGAAC-ATAA
1 ATAAACGA-AC
317863 ATGAACACGAAC
1 AT-AA-ACGAAC
317875 ATAAACGAAC
1 ATAAACGAAC
317885 ATAAACG
1 ATAAACG
317892 TTGGAGACCC
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 35 0.69
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.57, C:0.21, G:0.12, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:317842 original size:16 final size:16
Alignment explanation
Indices: 317821--317885 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
317811 TAATAAATAA
317821 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
317837 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
317853 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
317869 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
317885 A
1 A
317886 TAAACGTTGG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.57, C:0.23, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:318653 original size:14 final size:14
Alignment explanation
Indices: 318636--318691 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
318626 AATGAACATA
318636 AACGAACATAATCG
1 AACGAACATAATCG
318650 AACGAACAT-A---
1 AACGAACATAATCG
* *
318660 AACAAACATAACCG
1 AACGAACATAATCG
318674 AACGAACATAATCG
1 AACGAACATAATCG
318688 AACG
1 AACG
318692 TTCACGAACG
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
10 8 0.23
11 1 0.03
13 1 0.03
14 25 0.71
ACGTcount: A:0.54, C:0.23, G:0.12, T:0.11
Consensus pattern (14 bp):
AACGAACATAATCG
Found at i:318656 original size:24 final size:24
Alignment explanation
Indices: 318616--318690 Score: 98
Period size: 24 Copynumber: 3.1 Consensus size: 24
318606 GATTGAGTTA
*
318616 AACATAAAT-GAATGAACATAAACG
1 AACAT-AATCGAACGAACATAAACG
*
318640 AACATAATCGAACGAACATAAACA
1 AACATAATCGAACGAACATAAACG
* *
318664 AACATAACCGAACGAACATAATCG
1 AACATAATCGAACGAACATAAACG
318688 AAC
1 AAC
318691 GTTCACGAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
23 3 0.07
24 42 0.93
ACGTcount: A:0.56, C:0.20, G:0.11, T:0.13
Consensus pattern (24 bp):
AACATAATCGAACGAACATAAACG
Found at i:319702 original size:40 final size:40
Alignment explanation
Indices: 319658--319758 Score: 159
Period size: 41 Copynumber: 2.5 Consensus size: 40
319648 TTCTCTTGAA
319658 CATGAATATAATTTTCATTTAATCG-AAAATACCCTAAATC
1 CATGAATATAATTTT-ATTTAATCGAAAAATACCCTAAATC
*
319698 CATGAATATAATTTATATTTAATTGAAAAATACCCTAAATC
1 CATGAATATAATTT-TATTTAATCGAAAAATACCCTAAATC
*
319739 CATGAATATAATCTTATTTA
1 CATGAATATAATTTTATTTA
319759 GTTGTATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
40 28 0.49
41 29 0.51
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.38
Consensus pattern (40 bp):
CATGAATATAATTTTATTTAATCGAAAAATACCCTAAATC
Found at i:320545 original size:26 final size:27
Alignment explanation
Indices: 320490--320567 Score: 85
Period size: 26 Copynumber: 3.0 Consensus size: 27
320480 ATTTGATTTT
* *
320490 AATTTTAATATTACTTTTTTAA-A-TA
1 AATTATAATATTAATTTTTTAATATTA
320515 AATTA-AATATTAATTTTTTAATATTA
1 AATTATAATATTAATTTTTTAATATTA
*
320541 TATTATAGATATTAA--TTTTAATATTA
1 AATTATA-ATATTAATTTTTTAATATTA
320567 A
1 A
320568 TTTTTAGATA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
24 15 0.33
25 5 0.11
26 17 0.38
27 1 0.02
28 7 0.16
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (27 bp):
AATTATAATATTAATTTTTTAATATTA
Found at i:320575 original size:26 final size:26
Alignment explanation
Indices: 320521--320603 Score: 77
Period size: 26 Copynumber: 3.2 Consensus size: 26
320511 AATAAATTAA
*
320521 ATATTAATTTTTTAATATT-ATATTATAG
1 ATATTAA--TTTTAATATTAAT-TTTTAG
320549 ATATTAATTTTAATATTAATTTTTAG
1 ATATTAATTTTAATATTAATTTTTAG
*
320575 ATA--AA-TTAAATATTAATTTTTTA-
1 ATATTAATTTTAATATTAA-TTTTTAG
320598 ATATTA
1 ATATTA
320604 TATTATAGAT
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
23 13 0.27
24 8 0.16
25 1 0.02
26 18 0.37
27 2 0.04
28 7 0.14
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.55
Consensus pattern (26 bp):
ATATTAATTTTAATATTAATTTTTAG
Found at i:320589 original size:63 final size:64
Alignment explanation
Indices: 320469--320613 Score: 235
Period size: 63 Copynumber: 2.3 Consensus size: 64
320459 GTATATTTAA
* *
320469 TTTT-ATATTATATT-T-GATTTTAATTTTAATATTACTTTTTTAAATAAATTAAATATTAATT
1 TTTTAATATTATATTATAGATATTAATTTTAATATTACATTTTTAAATAAATTAAATATTAATT
*
320530 TTTTAATATTATATTATAGATATTAATTTTAATATTA-ATTTTTAGATAAATTAAATATTAATT
1 TTTTAATATTATATTATAGATATTAATTTTAATATTACATTTTTAAATAAATTAAATATTAATT
320593 TTTTAATATTATATTATAGAT
1 TTTTAATATTATATTATAGAT
320614 CATATAAAAT
Statistics
Matches: 78, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
61 4 0.05
62 10 0.13
63 46 0.59
64 18 0.23
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.57
Consensus pattern (64 bp):
TTTTAATATTATATTATAGATATTAATTTTAATATTACATTTTTAAATAAATTAAATATTAATT
Found at i:321167 original size:31 final size:31
Alignment explanation
Indices: 321130--321189 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
321120 TAGTTGTATG
* *
321130 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATCTCAGTATTGCAAAACTAA
321161 AATTATTTAAATCTCAGTATTGCAAAACT
1 AATTATTTAAATCTCAGTATTGCAAAACT
321190 CTTTTAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (31 bp):
AATTATTTAAATCTCAGTATTGCAAAACTAA
Found at i:322053 original size:40 final size:40
Alignment explanation
Indices: 322009--322109 Score: 159
Period size: 41 Copynumber: 2.5 Consensus size: 40
321999 TTCTCTTGAA
322009 CATGAATATAATTTTCATTTAATCG-AAAATACCCTAAATC
1 CATGAATATAATTTT-ATTTAATCGAAAAATACCCTAAATC
*
322049 CATGAATATAATTTATATTTAATTGAAAAATACCCTAAATC
1 CATGAATATAATTT-TATTTAATCGAAAAATACCCTAAATC
*
322090 CATGAATATAATCTTATTTA
1 CATGAATATAATTTTATTTA
322110 GTTGGTTTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
40 28 0.49
41 29 0.51
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.38
Consensus pattern (40 bp):
CATGAATATAATTTTATTTAATCGAAAAATACCCTAAATC
Found at i:323799 original size:17 final size:17
Alignment explanation
Indices: 323777--323810 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
323767 AACTACAGGC
323777 ATGTCTGTCAGCTGCCA
1 ATGTCTGTCAGCTGCCA
323794 ATGTCTGTCAGCTGCCA
1 ATGTCTGTCAGCTGCCA
323811 TCGATCACTG
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:0.18, C:0.29, G:0.24, T:0.29
Consensus pattern (17 bp):
ATGTCTGTCAGCTGCCA
Found at i:324977 original size:23 final size:23
Alignment explanation
Indices: 324951--325015 Score: 112
Period size: 23 Copynumber: 2.8 Consensus size: 23
324941 TGTTCTCTGC
324951 CTTTGTGGCATGTTTTTCTTTGT
1 CTTTGTGGCATGTTTTTCTTTGT
*
324974 CTTTGTGGCATGTTTTTGTTTGT
1 CTTTGTGGCATGTTTTTCTTTGT
*
324997 CTTTGTGACATGTTTTTCT
1 CTTTGTGGCATGTTTTTCT
325016 CTGCCTTTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.06, C:0.12, G:0.22, T:0.60
Consensus pattern (23 bp):
CTTTGTGGCATGTTTTTCTTTGT
Found at i:325023 original size:23 final size:23
Alignment explanation
Indices: 324931--325023 Score: 102
Period size: 23 Copynumber: 4.2 Consensus size: 23
324921 TTAATTATGT
324931 CTTTGTGACATG---TTCTCTGC
1 CTTTGTGACATGTTTTTCTCTGC
* * *
324951 CTTTGTGGCATGTTTTTCTTTGT
1 CTTTGTGACATGTTTTTCTCTGC
* * * *
324974 CTTTGTGGCATGTTTTTGTTTGT
1 CTTTGTGACATGTTTTTCTCTGC
324997 CTTTGTGACATGTTTTTCTCTGC
1 CTTTGTGACATGTTTTTCTCTGC
325020 CTTT
1 CTTT
325024 TAGTAGCTTA
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
20 11 0.18
23 51 0.82
ACGTcount: A:0.06, C:0.17, G:0.20, T:0.56
Consensus pattern (23 bp):
CTTTGTGACATGTTTTTCTCTGC
Found at i:326202 original size:151 final size:151
Alignment explanation
Indices: 325928--326234 Score: 535
Period size: 151 Copynumber: 2.0 Consensus size: 151
325918 TGTCTCTCAA
* *
325928 ATTTTCCCACACCCAGTAGCTTTTAACCAAATTCCAGTCAACTACACTACCAAATAAGCCAGCAG
1 ATTTTCCCACACCCAATAGCTTTTAACCAAATTCCAGTCAACTAAACTACCAAATAAGCCAGCAG
* *
325993 ACTACATTCTAAGCTTAAACAGCTTCCTCAAGATCCAGCTGAGCTGAGGCTTATAACCAGCTTCC
66 ACTACATTCTAAGCTTAAACAACTTCCTCAAGATCCAACTGAGCTGAGGCTTATAACCAGCTTCC
326058 TCTATTCTATGCAATATCTTT
131 TCTATTCTATGCAATATCTTT
*
326079 ATTTTCCCACACCCAATAGCTTTTAACCAAATTCCAGTCAACTAAACTGCCAAATAAGCCAGCAG
1 ATTTTCCCACACCCAATAGCTTTTAACCAAATTCCAGTCAACTAAACTACCAAATAAGCCAGCAG
*
326144 ACT-CTATTCTAAGCTTAAACAACTTCCTCAAGATCCAACTGAGTTGAGGCTTATAACCAGCTTC
66 ACTAC-ATTCTAAGCTTAAACAACTTCCTCAAGATCCAACTGAGCTGAGGCTTATAACCAGCTTC
*
326208 CTCTATTTTATGCAATATCTTT
130 CTCTATTCTATGCAATATCTTT
326230 ATTTT
1 ATTTT
326235 ATTTGAGTTT
Statistics
Matches: 148, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
150 1 0.01
151 147 0.99
ACGTcount: A:0.32, C:0.28, G:0.10, T:0.30
Consensus pattern (151 bp):
ATTTTCCCACACCCAATAGCTTTTAACCAAATTCCAGTCAACTAAACTACCAAATAAGCCAGCAG
ACTACATTCTAAGCTTAAACAACTTCCTCAAGATCCAACTGAGCTGAGGCTTATAACCAGCTTCC
TCTATTCTATGCAATATCTTT
Found at i:334807 original size:43 final size:43
Alignment explanation
Indices: 334738--335100 Score: 279
Period size: 43 Copynumber: 8.3 Consensus size: 43
334728 ATTTTATGAA
* * * *
334738 ATTGTAAAAAATTAGAGGCCTTAATTATAAAGGTAGAAATTGAT
1 ATTG-AAAAAATTAGGGGCCTCAATTATAAAGGTAGAAAGTGAG
* * * *
334782 ATTGAAAAAAATAGGGGCCTCAATTATAAATGTA-TAACTGAG
1 ATTGAAAAAATTAGGGGCCTCAATTATAAAGGTAGAAAGTGAG
* ** * * *
334824 ATCGAAAATTCTTAGGGGCTTCAATTAGAAAGTTAGAAAGTGAG
1 ATTGAAAA-AATTAGGGGCCTCAATTATAAAGGTAGAAAGTGAG
* *** * * *
334868 ATTAAAAAAACTTAAGGGTTTATTTAATTATAAAGTTAAAAAAGTGAG
1 ATTGAAAAAA-TT-AGGG--GCCTCAATTATAAAGGT-AGAAAGTGAG
* * *
334916 ATT-AAAAAATTAGGGGCCTCAATTATAAATGTAGAAATTGAT
1 ATTGAAAAAATTAGGGGCCTCAATTATAAAGGTAGAAAGTGAG
* *
334958 ATTGAAAAAATATAGAGGCCTTAATTGA-AAAGGTAGAAAGTGAG
1 ATTGAAAAAAT-TAGGGGCCTCAATT-ATAAAGGTAGAAAGTGAG
*** * *
335002 ATTGAAAAAACTTAAAAGTCTCAATTATAAAGTTA-AAAGTGAG
1 ATTGAAAAAA-TTAGGGGCCTCAATTATAAAGGTAGAAAGTGAG
* * *
335045 ATT-ACAAAATTAGGGGCCTCAATTATAAAGGTAAAAAATG-G
1 ATTGAAAAAATTAGGGGCCTCAATTATAAAGGTAGAAAGTGAG
335086 ATTGAAAAAAATTAG
1 ATTG-AAAAAATTAG
335101 AAATTTCAAT
Statistics
Matches: 251, Mismatches: 53, Indels: 31
0.75 0.16 0.09
Matches are distributed among these distances:
41 23 0.09
42 32 0.13
43 84 0.33
44 69 0.27
45 10 0.04
46 2 0.01
47 19 0.08
48 12 0.05
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (43 bp):
ATTGAAAAAATTAGGGGCCTCAATTATAAAGGTAGAAAGTGAG
Found at i:335096 original size:129 final size:131
Alignment explanation
Indices: 334760--335101 Score: 356
Period size: 134 Copynumber: 2.6 Consensus size: 131
334750 TAGAGGCCTT
* * * * * * * *
334760 AATTATAAAGGTAGAAATTGATATTGAAAAAAATAGGGGCCTCAATTATAAATGT-ATAACTGAG
1 AATTATAAAGTTAAAAAGTGAGATT-AAAAAATTAGGGGCCTCAATTATAAAGGTAAAAAATGAG
* ** * * **
334824 ATCGAAAATTCTTAG-GGGCTTCAATT-AGAAAGTTAGAAAGTGAGATTAAAAAAACTTAAGGGT
65 ATTGAAAA-AATTAGAGGCCTT-AATTGA-AAAGGTAGAAAGTGAGATTAAAAAAACTTAAAAG-
* *
334887 TTATTT
126 TTACTC
* * * *
334893 AATTATAAAGTTAAAAAAGTGAGATTAAAAAATTAGGGGCCTCAATTATAAATGTAGAAATTGAT
1 AATTATAAAGTT-AAAAAGTGAGATTAAAAAATTAGGGGCCTCAATTATAAAGGTAAAAAATGAG
*
334958 ATTGAAAAAATATAGAGGCCTTAATTGAAAAGGTAGAAAGTGAGATTGAAAAAACTTAAAAG-T-
65 ATTGAAAAAAT-TAGAGGCCTTAATTGAAAAGGTAGAAAGTGAGATTAAAAAAACTTAAAAGTTA
335021 CTC
129 CTC
*
335024 AATTATAAAGTT-AAAAGTGAGATTACAAAATTAGGGGCCTCAATTATAAAGGTAAAAAATG-GA
1 AATTATAAAGTTAAAAAGTGAGATTAAAAAATTAGGGGCCTCAATTATAAAGGTAAAAAATGAGA
335087 TTGAAAAAAATTAGA
66 TTG-AAAAAATTAGA
335102 AATTTCAATT
Statistics
Matches: 179, Mismatches: 24, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
128 8 0.04
129 52 0.29
131 13 0.07
132 1 0.01
133 40 0.22
134 59 0.33
135 6 0.03
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (131 bp):
AATTATAAAGTTAAAAAGTGAGATTAAAAAATTAGGGGCCTCAATTATAAAGGTAAAAAATGAGA
TTGAAAAAATTAGAGGCCTTAATTGAAAAGGTAGAAAGTGAGATTAAAAAAACTTAAAAGTTACT
C
Found at i:335123 original size:84 final size:86
Alignment explanation
Indices: 334964--335123 Score: 202
Period size: 84 Copynumber: 1.9 Consensus size: 86
334954 TGATATTGAA
* * * *
334964 AAAATATAGAGGCCTTAATTGAAAAGGTAGAAAGTGAGATTGAAAAAACTTAAAAGTCTCAATTA
1 AAAATATAGAGGCCTCAATTGAAAAGGTAAAAAATGAGATTGAAAAAAATTAAAAGTCTCAATTA
**
335029 TAAAGTTAAAAGTGAGATTAC
66 TAAAAATAAAAGTGAGATTAC
* *
335050 AAAAT-TAGGGGCCTCAATT-ATAAAGGTAAAAAATG-GATTGAAAAAAATTAGAAA-TTTCAAT
1 AAAATATAGAGGCCTCAATTGA-AAAGGTAAAAAATGAGATTGAAAAAAATTA-AAAGTCTCAAT
335111 TATAAAAATAAAA
64 TATAAAAATAAAA
335124 AGTTAAATTG
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
84 32 0.50
85 27 0.42
86 5 0.08
ACGTcount: A:0.52, C:0.06, G:0.16, T:0.26
Consensus pattern (86 bp):
AAAATATAGAGGCCTCAATTGAAAAGGTAAAAAATGAGATTGAAAAAAATTAAAAGTCTCAATTA
TAAAAATAAAAGTGAGATTAC
Found at i:339510 original size:2 final size:2
Alignment explanation
Indices: 339503--339529 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
339493 TGAAAGGTGA
339503 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
339530 AAATTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:342335 original size:59 final size:58
Alignment explanation
Indices: 342272--342395 Score: 140
Period size: 59 Copynumber: 2.1 Consensus size: 58
342262 GGGTAAAATA
* * *
342272 TATAAATAGTCTCTCAATTATAAGATGTTATTTTTTTAAGTTTTTTAACTATTGAAAGT
1 TATAAATA-TCTCTCAATTATAAGATGTTATTTTATTAAGTCTTTTAACTATTAAAAGT
* * * * * * *
342331 TATAAAATATTTTTCAATTATAGGATGTTGTTTTATTGAGTCTTTTGATTATTAAAAGT
1 TAT-AAATATCTCTCAATTATAAGATGTTATTTTATTAAGTCTTTTAACTATTAAAAGT
342390 TATAAA
1 TATAAA
342396 ATGGGCATCT
Statistics
Matches: 54, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
58 3 0.06
59 46 0.85
60 5 0.09
ACGTcount: A:0.35, C:0.05, G:0.11, T:0.49
Consensus pattern (58 bp):
TATAAATATCTCTCAATTATAAGATGTTATTTTATTAAGTCTTTTAACTATTAAAAGT
Found at i:342396 original size:59 final size:59
Alignment explanation
Indices: 342285--342397 Score: 154
Period size: 59 Copynumber: 1.9 Consensus size: 59
342275 AAATAGTCTC
* * *
342285 TCAATTATAAGATGTTATTTTTTTAAGTTTTTTAACTATTGAAAGTTATAAAATATTTT
1 TCAATTATAAGATGTTATTTTATTAAGTCTTTTAACTATTAAAAGTTATAAAATATTTT
* * * * *
342344 TCAATTATAGGATGTTGTTTTATTGAGTCTTTTGATTATTAAAAGTTATAAAAT
1 TCAATTATAAGATGTTATTTTATTAAGTCTTTTAACTATTAAAAGTTATAAAAT
342398 GGGCATCTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
59 46 1.00
ACGTcount: A:0.35, C:0.04, G:0.12, T:0.50
Consensus pattern (59 bp):
TCAATTATAAGATGTTATTTTATTAAGTCTTTTAACTATTAAAAGTTATAAAATATTTT
Found at i:347544 original size:44 final size:44
Alignment explanation
Indices: 347494--347607 Score: 126
Period size: 43 Copynumber: 2.6 Consensus size: 44
347484 CCTCGATTCG
*
347494 TCCATCACATAAGGAGTTGGATCAACATCAACT-TTTTGCTCA-AT
1 TCCATCACATAAGGAGATGGATCAACATC-ACTCTTTTG-TCAGAT
* * * *
347538 TCCATCACATGAGGAGAT-GATCATCGTCACTCTTTTGTTAGAT
1 TCCATCACATAAGGAGATGGATCAACATCACTCTTTTGTCAGAT
* *
347581 TCCATCATATAAGGAGGTGGATCAACA
1 TCCATCACATAAGGAGATGGATCAACA
347608 CAATCATATG
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
42 5 0.09
43 30 0.53
44 22 0.39
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.31
Consensus pattern (44 bp):
TCCATCACATAAGGAGATGGATCAACATCACTCTTTTGTCAGAT
Found at i:347773 original size:20 final size:20
Alignment explanation
Indices: 347748--347785 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
347738 TTTAGTTATA
347748 AAAAAATTG-AAAAAAAAATC
1 AAAAAA-TGCAAAAAAAAATC
347768 AAAAAATGCAAAAAAAAA
1 AAAAAATGCAAAAAAAAA
347786 AAGAGAGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.79, C:0.05, G:0.05, T:0.11
Consensus pattern (20 bp):
AAAAAATGCAAAAAAAAATC
Found at i:347943 original size:32 final size:30
Alignment explanation
Indices: 347902--347964 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 30
347892 AATGAAAAGA
* *
347902 GGTTCAGATATATATATAGCAGATCATTGAGT
1 GGTTCAGATATATAGA-A-CAGATCATCGAGT
347934 GGTTCAGATATATAGAACAGATCATCGAGT
1 GGTTCAGATATATAGAACAGATCATCGAGT
347964 G
1 G
347965 AAAGGTCGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 13 0.45
31 1 0.03
32 15 0.52
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (30 bp):
GGTTCAGATATATAGAACAGATCATCGAGT
Found at i:347947 original size:30 final size:31
Alignment explanation
Indices: 347902--347964 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 31
347892 AATGAAAAGA
* * *
347902 GGTTCAGATATATATATAGCAGATCATTGAGT
1 GGTTCAGA-ATATATAGAACAGATCATCGAGT
347934 GGTTCAG-ATATATAGAACAGATCATCGAGT
1 GGTTCAGAATATATAGAACAGATCATCGAGT
347964 G
1 G
347965 AAAGGTCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 21 0.75
32 7 0.25
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (31 bp):
GGTTCAGAATATATAGAACAGATCATCGAGT
Found at i:350939 original size:19 final size:19
Alignment explanation
Indices: 350892--350942 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
350882 ACATCGAATG
*
350892 CATTTTATGCATCGATGCA
1 CATTTCATGCATCGATGCA
**
350911 CATACCATGCATCGATGCA
1 CATTTCATGCATCGATGCA
*
350930 CATTTGATGCATC
1 CATTTCATGCATC
350943 CAGTGCATTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.31
Consensus pattern (19 bp):
CATTTCATGCATCGATGCA
Found at i:352925 original size:164 final size:164
Alignment explanation
Indices: 352654--352950 Score: 594
Period size: 164 Copynumber: 1.8 Consensus size: 164
352644 GAGGAAGAAA
352654 ATTCAAACGAACCAAAAGAGAAGGACCCGATCATTTGCTATGAATGCAAAAAGTTGGGGCATGTC
1 ATTCAAACGAACCAAAAGAGAAGGACCCGATCATTTGCTATGAATGCAAAAAGTTGGGGCATGTC
352719 AAATATGATTGCCTACAATTGAAGAGAAAGAGTCAATCAAAGAATAAGCACAAGGCTCTTGTGGC
66 AAATATGATTGCCTACAATTGAAGAGAAAGAGTCAATCAAAGAATAAGCACAAGGCTCTTGTGGC
352784 TACCGATGAAGCCGACAAGAAGCAAACTTGTGCT
131 TACCGATGAAGCCGACAAGAAGCAAACTTGTGCT
352818 ATTCAAACGAACCAAAAGAGAAGGACCCGATCATTTGCTATGAATGCAAAAAGTTGGGGCATGTC
1 ATTCAAACGAACCAAAAGAGAAGGACCCGATCATTTGCTATGAATGCAAAAAGTTGGGGCATGTC
352883 AAATATGATTGCCTACAATTGAAGAGAAAGAGTCAATCAAAGAATAAGCACAAGGCTCTTGTGGC
66 AAATATGATTGCCTACAATTGAAGAGAAAGAGTCAATCAAAGAATAAGCACAAGGCTCTTGTGGC
352948 TAC
131 TAC
352951 ATGGAGCGAT
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
164 133 1.00
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.21
Consensus pattern (164 bp):
ATTCAAACGAACCAAAAGAGAAGGACCCGATCATTTGCTATGAATGCAAAAAGTTGGGGCATGTC
AAATATGATTGCCTACAATTGAAGAGAAAGAGTCAATCAAAGAATAAGCACAAGGCTCTTGTGGC
TACCGATGAAGCCGACAAGAAGCAAACTTGTGCT
Found at i:360171 original size:19 final size:20
Alignment explanation
Indices: 360147--360199 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
360137 AATGCATTTT
*
360147 ATGCATCGATGCAC-ATACC
1 ATGCATCGATGCACAAGACC
360166 ATGCATCGATGCACAAGACC
1 ATGCATCGATGCACAAGACC
360186 ATGCATCGATGCAC
1 ATGCATCGATGCAC
360200 TCAGGCTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 14 0.44
20 18 0.56
ACGTcount: A:0.32, C:0.30, G:0.19, T:0.19
Consensus pattern (20 bp):
ATGCATCGATGCACAAGACC
Found at i:360194 original size:84 final size:83
Alignment explanation
Indices: 360082--360244 Score: 215
Period size: 84 Copynumber: 1.9 Consensus size: 83
360072 TTTCAAAGTG
* *
360082 ATGCACCGATGCACCAAACCATGCATCGATGCAC-CATGGAATTAATT-GAACATTGAATGCATT
1 ATGCACCGATGCACCAAACCATGCATCGATGCACTCA-GG-ATT-ATTAAAACATCGAATGCATT
360145 TTATGCATCGATGCACATACC
63 TTATGCATCGATGCACATACC
* * *
360166 ATGCATCGATGCA-CAAGACCATGCATCGATGCACTCAGGCTTTTTCAAAACATCGAATGCATTT
1 ATGCACCGATGCACCAA-ACCATGCATCGATGCACTCAGGATTATT-AAAACATCGAATGCATTT
360230 TATGCATCGATGCAC
64 TATGCATCGATGCAC
360245 TCTTAGTGCA
Statistics
Matches: 70, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
82 2 0.03
83 5 0.07
84 61 0.87
85 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (83 bp):
ATGCACCGATGCACCAAACCATGCATCGATGCACTCAGGATTATTAAAACATCGAATGCATTTTA
TGCATCGATGCACATACC
Found at i:376588 original size:30 final size:31
Alignment explanation
Indices: 376523--376590 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
376513 GAGTGATGAT
* * *
376523 TTTGTTACAAATCAATAACGTTAGTGACCAT
1 TTTGTTACAAATCAATAACATTAGTAACCAC
* *
376554 TTTGTTACAAA-CGATAACATTAGTAACTAC
1 TTTGTTACAAATCAATAACATTAGTAACCAC
376584 TTTGTTA
1 TTTGTTA
376591 TTTTTAGAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 21 0.66
31 11 0.34
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (31 bp):
TTTGTTACAAATCAATAACATTAGTAACCAC
Found at i:404127 original size:30 final size:30
Alignment explanation
Indices: 404083--404141 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
404073 GATTTATTTA
* *
404083 GTGACCAAATTATAAA-TTTGGTAAAGTTTG
1 GTGACCAAAGTATAAACTTT-GAAAAGTTTG
*
404113 GTGACTAAAGTATAAACTTTGAAAAGTTT
1 GTGACCAAAGTATAAACTTTGAAAAGTTT
404142 AGGGGCTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.36
Consensus pattern (30 bp):
GTGACCAAAGTATAAACTTTGAAAAGTTTG
Found at i:405112 original size:9 final size:9
Alignment explanation
Indices: 405098--405158 Score: 54
Period size: 9 Copynumber: 6.9 Consensus size: 9
405088 AATTCCATTC
405098 CTGGAATTA
1 CTGGAATTA
*
405107 CTGGAATTT
1 CTGGAATTA
*
405116 CTTGAATTTA
1 CTGGAA-TTA
* *
405126 -TAGAATTT
1 CTGGAATTA
*
405134 CTGGAATTT
1 CTGGAATTA
405143 CTGGAATTA
1 CTGGAATTA
405152 -TGGAATT
1 CTGGAATT
405159 TTTGGTATTT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
8 9 0.21
9 32 0.74
10 2 0.05
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.43
Consensus pattern (9 bp):
CTGGAATTA
Found at i:405132 original size:27 final size:26
Alignment explanation
Indices: 405101--405158 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
405091 TCCATTCCTG
*
405101 GAATTACTGGAATTTCTTGAATTTATA
1 GAATTACTGGAATTTCTGGAA-TTATA
* *
405128 GAATTTCTGGAATTTCTGGAATTATG
1 GAATTACTGGAATTTCTGGAATTATA
405154 GAATT
1 GAATT
405159 TTTGGTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (26 bp):
GAATTACTGGAATTTCTGGAATTATA
Found at i:405149 original size:18 final size:18
Alignment explanation
Indices: 405098--405159 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 18
405088 AATTCCATTC
*
405098 CTGGAATTACTGGAATTT
1 CTGGAATTTCTGGAATTT
* * *
405116 CTTGAATTTATAGAATTT
1 CTGGAATTTCTGGAATTT
405134 CTGGAATTTCTGGAA-TT
1 CTGGAATTTCTGGAATTT
*
405151 ATGGAATTT
1 CTGGAATTT
405160 TTGGTATTTA
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
17 10 0.28
18 26 0.72
ACGTcount: A:0.29, C:0.08, G:0.19, T:0.44
Consensus pattern (18 bp):
CTGGAATTTCTGGAATTT
Found at i:406350 original size:20 final size:20
Alignment explanation
Indices: 406284--406359 Score: 82
Period size: 20 Copynumber: 3.6 Consensus size: 20
406274 AAATGCCTGA
*
406284 GGGTATCGGTACCTAAGTAGG
1 GGGTATCGATACCT-AGTAGG
406305 GGGTATCGATACC-ATGTCATGG
1 GGGTATCGATACCTA-GT-A-GG
*
406327 GGGTATCGATACCTACTAGG
1 GGGTATCGATACCTAGTAGG
*
406347 GGGTATCGGTACC
1 GGGTATCGATACC
406360 ATCCGAGCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
19 1 0.02
20 16 0.33
21 14 0.29
22 16 0.33
23 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.34, T:0.25
Consensus pattern (20 bp):
GGGTATCGATACCTAGTAGG
Found at i:406426 original size:20 final size:20
Alignment explanation
Indices: 406401--406454 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
406391 AATGTTCATA
406401 GGGGTATCGGTACCCTATAG
1 GGGGTATCGGTACCCTATAG
406421 GGGGTATCGGTACCCTATAG
1 GGGGTATCGGTACCCTATAG
*
406441 GGGGTATCGATACC
1 GGGGTATCGGTACC
406455 ATCCGAGCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.20, C:0.20, G:0.35, T:0.24
Consensus pattern (20 bp):
GGGGTATCGGTACCCTATAG
Found at i:406488 original size:95 final size:97
Alignment explanation
Indices: 406304--406536 Score: 364
Period size: 95 Copynumber: 2.4 Consensus size: 97
406294 ACCTAAGTAG
* * * *
406304 GGGGTATCGATACCATGTCATGGGGGTATCGATA-CCTACTAGGGGGTATCGGTACCATCCGAGC
1 GGGGTATCGGTACCCTAT-ATGGGGGTATCGATACCCTACTAGGGGGTATCGATACCATCCGAGC
*
406368 ATTCTGTTATTTCTCGGAAATAAAATGTTCATA
65 ATTCTGTTATTTCTCGGAAACAAAATGTTCATA
*
406401 GGGGTATCGGTACCCTATA-GGGGGTATCGGTACCCTA-TAGGGGGTATCGATACCATCCGAGCA
1 GGGGTATCGGTACCCTATATGGGGGTATCGATACCCTACTAGGGGGTATCGATACCATCCGAGCA
*
406464 TTCTGTTATTTCTCGGAACCAAAATGTTCATA
66 TTCTGTTATTTCTCGGAAACAAAATGTTCATA
*
406496 GGGGTATCGGTACCCTATATGGGGGTATCGATACCATACTA
1 GGGGTATCGGTACCCTATATGGGGGTATCGATACCCTACTA
406537 AATAAAACTT
Statistics
Matches: 124, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
95 86 0.69
96 21 0.17
97 17 0.14
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.29
Consensus pattern (97 bp):
GGGGTATCGGTACCCTATATGGGGGTATCGATACCCTACTAGGGGGTATCGATACCATCCGAGCA
TTCTGTTATTTCTCGGAAACAAAATGTTCATA
Found at i:409144 original size:19 final size:20
Alignment explanation
Indices: 409120--409225 Score: 108
Period size: 21 Copynumber: 5.1 Consensus size: 20
409110 CCTAAACCGA
409120 CAGGGGGTATCGATACCA-T
1 CAGGGGGTATCGATACCATT
409139 CAGGGGGTATCGATACCA-T
1 CAGGGGGTATCGATACCATT
*
409158 CAGGGGGGTTTCGATACTCATT
1 CA-GGGGGTATCGATAC-CATT
*
409180 CAAAGAGGGTATCGATACCTATT
1 C--AGGGGGTATCGATACC-ATT
**
409203 CAATGGGTATCGATACCTATT
1 CAGGGGGTATCGATACC-ATT
409224 CA
1 CA
409226 AAGAGGGTCG
Statistics
Matches: 76, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
19 21 0.28
20 13 0.17
21 22 0.29
22 3 0.04
23 16 0.21
24 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (20 bp):
CAGGGGGTATCGATACCATT
Found at i:409226 original size:44 final size:44
Alignment explanation
Indices: 409123--409241 Score: 121
Period size: 44 Copynumber: 2.9 Consensus size: 44
409113 AAACCGACAG
* *
409123 GGGGTATCGATACC-A-TC--AGGGGGTATCGATACC-ATCAGG
1 GGGGTATCGATACCTATTCAAAGAGGGTATCGATACCTATCAGA
*
409162 GGGGTTTCGATA-CTCATTCAAAGAGGGTATCGATACCTATTCA-A
1 GGGGTATCGATACCT-ATTCAAAGAGGGTATCGATACCTA-TCAGA
*
409206 TGGGTATCGATACCTATTCAAAGAGGG--TCGATACCT
1 GGGGTATCGATACCTATTCAAAGAGGGTATCGATACCT
409242 GTATCAGGGG
Statistics
Matches: 67, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
38 1 0.01
39 11 0.16
40 1 0.01
41 2 0.03
42 9 0.13
43 15 0.22
44 23 0.34
45 5 0.07
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (44 bp):
GGGGTATCGATACCTATTCAAAGAGGGTATCGATACCTATCAGA
Found at i:409236 original size:21 final size:21
Alignment explanation
Indices: 409168--409241 Score: 80
Period size: 21 Copynumber: 3.4 Consensus size: 21
409158 CAGGGGGGTT
409168 TCGATA-CTCATTCAAAGAGGG
1 TCGATACCT-ATTCAAAGAGGG
* *
409189 TATCGATACCTATTCAATG-GGTA
1 --TCGATACCTATTCAAAGAGG-G
409212 TCGATACCTATTCAAAGAGGG
1 TCGATACCTATTCAAAGAGGG
409233 TCGATACCT
1 TCGATACCT
409242 GTATCAGGGG
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
21 25 0.57
22 4 0.09
23 13 0.30
24 2 0.05
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (21 bp):
TCGATACCTATTCAAAGAGGG
Found at i:413197 original size:23 final size:23
Alignment explanation
Indices: 413171--413234 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
413161 CAGCTCATAT
413171 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* *
413194 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
413217 AATTGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
413235 TATAATAATG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.27, C:0.27, G:0.28, T:0.19
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:413374 original size:103 final size:103
Alignment explanation
Indices: 413242--413467 Score: 425
Period size: 103 Copynumber: 2.2 Consensus size: 103
413232 CCATATAATA
* *
413242 ATGTCCCAAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAGGGATCAAGTATGTG
1 ATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTG
413307 TCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
66 TCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
413345 ATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTG
1 ATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTG
413410 TCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
66 TCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
*
413448 ATGTCCTGAAGGACCACATA
1 ATGTCCCGAAGGACCACATA
413468 GACCCTCGAC
Statistics
Matches: 120, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 120 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (103 bp):
ATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTG
TCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
Found at i:418997 original size:23 final size:23
Alignment explanation
Indices: 418967--419030 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
418957 CAGCTCATAT
*
418967 AATTGCACTGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* *
418990 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCACGTAG
*
419013 AATTGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
419031 TATAATAATG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.27, C:0.25, G:0.28, T:0.20
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:419161 original size:103 final size:103
Alignment explanation
Indices: 419030--419263 Score: 416
Period size: 103 Copynumber: 2.3 Consensus size: 103
419020 CCGTAGTGCC
*
419030 ATATA-ATAATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAGGGATC
1 ATATATAT-ATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATC
*
419094 AAGTATGTGTCTCACCAGACTTCACACATGTTTCAAAGA
65 AAGTATGTGTCTCACCAGACTTCACACATGTTCCAAAGA
*
419133 ATATATATATGTCCCGAAAGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCA
1 ATATATATATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCA
419198 AGTATGTGTCTCACCAGACTTCACACATGTTCCAAAGA
66 AGTATGTGTCTCACCAGACTTCACACATGTTCCAAAGA
*
419236 ATACATATATGTCCCGAAGGACCACATA
1 ATATATATATGTCCCGAAGGACCACATA
419264 GACCCTCGAC
Statistics
Matches: 125, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
103 123 0.98
104 2 0.02
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (103 bp):
ATATATATATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCA
AGTATGTGTCTCACCAGACTTCACACATGTTCCAAAGA
Found at i:420149 original size:64 final size:64
Alignment explanation
Indices: 419998--420154 Score: 153
Period size: 64 Copynumber: 2.5 Consensus size: 64
419988 TAATGAAGGT
** * ** *
419998 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAATGCATTCGATGTTTGTTTATTACTGGG
1 ATGCATCGATGCACTACCAATGCATCGATGCATAAAATGCATTCGATGTTTGTTTATTAAAGAG
* * *
420062 ATGCATCGATGCA-TGCCTTATGCATCGATGCACT-AATTGCATTCGATGTATT-TATT-TTAAA
1 ATGCATCGATGCACTACC-AATGCATCGATGCA-TAAAATGCATTCGATGT-TTGT-TTATTAAA
420123 -AG
62 GAG
420125 AGTGCATCGATGCACTACCAATGCATCGAT
1 A-TGCATCGATGCACTACCAATGCATCGAT
420155 ACACCTTCAA
Statistics
Matches: 77, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
63 4 0.05
64 65 0.84
65 8 0.10
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACTACCAATGCATCGATGCATAAAATGCATTCGATGTTTGTTTATTAAAGAG
Found at i:423442 original size:21 final size:20
Alignment explanation
Indices: 423418--423493 Score: 82
Period size: 20 Copynumber: 3.6 Consensus size: 20
423408 AAATATCTGA
*
423418 GGGTATCGGTACCTAAGTAGG
1 GGGTATCGATACCTAA-TAGG
423439 GGGTATCGATACC-ATATCATGG
1 GGGTATCGATACCTA-AT-A-GG
*
423461 GGGTATCGATACCTACTAGG
1 GGGTATCGATACCTAATAGG
*
423481 GGGTATCGGTACC
1 GGGTATCGATACC
423494 ATCTGAGCAT
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
20 16 0.33
21 15 0.31
22 16 0.33
23 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (20 bp):
GGGTATCGATACCTAATAGG
Found at i:423465 original size:22 final size:21
Alignment explanation
Indices: 423418--423495 Score: 81
Period size: 21 Copynumber: 3.7 Consensus size: 21
423408 AAATATCTGA
* *
423418 GGGTATCGGTACC-TAAGTAGG
1 GGGTATCGATACCAT-ACTAGG
423439 GGGTATCGATACCATA-TCATGG
1 GGGTATCGATACCATACT-A-GG
423461 GGGTATCGATACC-TACTAGG
1 GGGTATCGATACCATACTAGG
*
423481 GGGTATCGGTACCAT
1 GGGTATCGATACCAT
423496 CTGAGCATTC
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
20 15 0.30
21 18 0.36
22 17 0.34
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (21 bp):
GGGTATCGATACCATACTAGG
Found at i:423482 original size:42 final size:42
Alignment explanation
Indices: 423410--423495 Score: 120
Period size: 42 Copynumber: 2.0 Consensus size: 42
423400 CGACCGTTAA
* *
423410 ATATCTGAGGGTATCGGTACCTAAGTAGGGGGTATCGATACC
1 ATATCTGAGGGTATCGATACCTAACTAGGGGGTATCGATACC
* *
423452 ATATCATGGGGGTATCGATACCT-ACTAGGGGGTATCGGTACC
1 ATATC-TGAGGGTATCGATACCTAACTAGGGGGTATCGATACC
423494 AT
1 AT
423496 CTGAGCATTC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 24 0.62
43 15 0.38
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (42 bp):
ATATCTGAGGGTATCGATACCTAACTAGGGGGTATCGATACC
Found at i:423585 original size:76 final size:75
Alignment explanation
Indices: 423455--423647 Score: 291
Period size: 76 Copynumber: 2.5 Consensus size: 75
423445 CGATACCATA
* * **
423455 TCATGGGGGTATCGATA-CCTACTAGGGGGTATCGGTACCATCTGAGCATTCTGTTATTTCTCGG
1 TCATAGGGGTATCGGTACCCTA-TAGGGGGTATCGGTACCATCCAAGCATTCTGTTATTTCTC-G
423519 AAA-CAAAATGT
64 AAACCAAAATGT
423530 TCATAGGGGTATCGGTACCCTATAGGGGGGTATCGGTACCATCCAAGCATTCTGTTATTTCTCGA
1 TCATAGGGGTATCGGTACCCTATA-GGGGGTATCGGTACCATCCAAGCATTCTGTTATTTCTCGA
423595 AACCAAAATGT
65 AACCAAAATGT
*
423606 TCATAGGGGTATCGGTACCCTATATGGGGGTATCGATACCAT
1 TCATAGGGGTATCGGTACCCTATA-GGGGGTATCGGTACCAT
423648 ACTAAATAAA
Statistics
Matches: 109, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
75 21 0.19
76 88 0.81
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (75 bp):
TCATAGGGGTATCGGTACCCTATAGGGGGTATCGGTACCATCCAAGCATTCTGTTATTTCTCGAA
ACCAAAATGT
Found at i:423664 original size:76 final size:75
Alignment explanation
Indices: 423508--423665 Score: 203
Period size: 76 Copynumber: 2.1 Consensus size: 75
423498 GAGCATTCTG
*
423508 TTATTTCTCGGAAACAAAATGTTCATAGGGGTATCGGTACCCTATAGGGGGGTATCGGTACCATC
1 TTATTTCTCGGAAACAAAATGTTCATAGGGGTATCGGTACCCTATAGGGGGGTATCGATACCATC
****
423573 CAAGCATTCTG
66 CAA-CATAAAC
*
423584 TTATTTCTC-GAAACCAAAATGTTCATAGGGGTATCGGTACCCTATATGGGGGTATCGATACCAT
1 TTATTTCTCGGAAA-CAAAATGTTCATAGGGGTATCGGTACCCTATAGGGGGGTATCGATACCAT
*
423648 ACTAA-ATAAAAC
65 -CCAACAT-AAAC
423660 TTATTT
1 TTATTT
423666 TTGGCTCGAA
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
75 6 0.08
76 63 0.88
77 3 0.04
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (75 bp):
TTATTTCTCGGAAACAAAATGTTCATAGGGGTATCGGTACCCTATAGGGGGGTATCGATACCATC
CAACATAAAC
Found at i:424421 original size:33 final size:32
Alignment explanation
Indices: 424383--424448 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 32
424373 AAAAGGGATC
424383 TATGAGATCATACAAGAATGTTATACAA-TGATG
1 TATGAGATCATACAAGAATG--ATACAAGTGATG
424416 TATGAGATCATACAAGAATGATACAAGTGATG
1 TATGAGATCATACAAGAATGATACAAGTGATG
424448 T
1 T
424449 GAACTGTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
31 6 0.19
32 6 0.19
33 20 0.62
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.29
Consensus pattern (32 bp):
TATGAGATCATACAAGAATGATACAAGTGATG
Found at i:424581 original size:38 final size:37
Alignment explanation
Indices: 424530--424644 Score: 113
Period size: 38 Copynumber: 3.0 Consensus size: 37
424520 CGAGGGTTGC
* *
424530 ATCCTTTGGGATGACAGGTCCTCCGGAACACAGATTAT
1 ATCCTTCGGGATGATAGGTCCTCCGG-ACACAGATTAT
* * * * *
424568 ATCCTTCGGGATGATAGGTCTTACGGGACATAGATGAC
1 ATCCTTCGGGATGATAGGTCCT-CCGGACACAGATTAT
* * *
424606 ATCCTGCGGGATGATAGGTCCTTCAGGACACAGTTTAT
1 ATCCTTCGGGATGATAGGTCC-TCCGGACACAGATTAT
424644 A
1 A
424645 CGAGCTGTGG
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
38 57 0.93
39 4 0.07
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (37 bp):
ATCCTTCGGGATGATAGGTCCTCCGGACACAGATTAT
Found at i:424759 original size:12 final size:12
Alignment explanation
Indices: 424742--424785 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
424732 TATCAGTACT
*
424742 ATACATGGGCTA
1 ATACATGGACTA
*
424754 ATACATTGACTA
1 ATACATGGACTA
*
424766 ATACATGGAATA
1 ATACATGGACTA
424778 ATACATGG
1 ATACATGG
424786 GATTATAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (12 bp):
ATACATGGACTA
Found at i:426395 original size:38 final size:38
Alignment explanation
Indices: 426344--426456 Score: 163
Period size: 38 Copynumber: 3.0 Consensus size: 38
426334 GAGTCGAGGG
* * *
426344 TTACATCCTTCGGGATGACAGGTCCTCCGGGACACAGA
1 TTACATCCTTCGGGATGATAGGTCCTACAGGACACAGA
*
426382 TTACATCCTTCGGGATGATAGGTCCTACAGGACATAGA
1 TTACATCCTTCGGGATGATAGGTCCTACAGGACACAGA
* * *
426420 TGACATCCTGCGGGATGATAGGTCCTTCAGGACACAG
1 TTACATCCTTCGGGATGATAGGTCCTACAGGACACAG
426457 TTTATACGAG
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 67 1.00
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (38 bp):
TTACATCCTTCGGGATGATAGGTCCTACAGGACACAGA
Found at i:426577 original size:12 final size:12
Alignment explanation
Indices: 426560--426601 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
426550 TATCAGTACT
*
426560 ATACATGGGCTA
1 ATACATGGACTA
*
426572 ATACATTGACTA
1 ATACATGGACTA
426584 ATACATGGACTA
1 ATACATGGACTA
426596 ATACAT
1 ATACAT
426602 AGGATTATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (12 bp):
ATACATGGACTA
Found at i:428217 original size:38 final size:38
Alignment explanation
Indices: 428166--428278 Score: 163
Period size: 38 Copynumber: 3.0 Consensus size: 38
428156 GAGTCGAGGG
* *
428166 TTACATCCTTCGGGATGACAGGTCCTCCGGGACACAGA
1 TTACATCCTTCGGGATGATAGGTCCTACGGGACACAGA
*
428204 TTACATCCTTCGGGATGATAGGTCCTACGGGACATAGA
1 TTACATCCTTCGGGATGATAGGTCCTACGGGACACAGA
* * * *
428242 TGACATCCTGCGGGATGATAGGTCATTCGGGACACAG
1 TTACATCCTTCGGGATGATAGGTCCTACGGGACACAG
428279 TTTATACGAG
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 67 1.00
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (38 bp):
TTACATCCTTCGGGATGATAGGTCCTACGGGACACAGA
Found at i:428399 original size:12 final size:12
Alignment explanation
Indices: 428382--428425 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
428372 TATCAGTACT
*
428382 ATACATGGGCTA
1 ATACATGGACTA
*
428394 ATACATTGACTA
1 ATACATGGACTA
428406 ATACATGGACTA
1 ATACATGGACTA
428418 ATACATGG
1 ATACATGG
428426 GATTATAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (12 bp):
ATACATGGACTA
Found at i:430937 original size:10 final size:9
Alignment explanation
Indices: 430922--430955 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
430912 CCTAAGAGCT
430922 AAAAAAAGAG
1 AAAAAAA-AG
430932 AAAAAAAAG
1 AAAAAAAAG
430941 AATAAAAAAG
1 AA-AAAAAAG
430951 AAAAA
1 AAAAA
430956 GAAAAAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 7 0.30
10 16 0.70
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:430937 original size:12 final size:11
Alignment explanation
Indices: 430922--430972 Score: 59
Period size: 12 Copynumber: 4.5 Consensus size: 11
430912 CCTAAGAGCT
*
430922 AAAAAAAGAGA
1 AAAAAAAGAAA
430933 AAAAAAAG-AA
1 AAAAAAAGAAA
*
430943 TAAAAAAGAAA
1 AAAAAAAGAAA
430954 AAGAAAAAGAATA
1 AA-AAAAAGAA-A
430967 AAAAAA
1 AAAAAA
430973 TTTGAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 8 0.24
11 11 0.32
12 12 0.35
13 3 0.09
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (11 bp):
AAAAAAAGAAA
Found at i:430949 original size:22 final size:23
Alignment explanation
Indices: 430921--430972 Score: 81
Period size: 21 Copynumber: 2.3 Consensus size: 23
430911 GCCTAAGAGC
*
430921 TAAAAAAAGAGAAA-AAAAAGAA
1 TAAAAAAAGAAAAAGAAAAAGAA
430943 T-AAAAAAGAAAAAGAAAAAGAA
1 TAAAAAAAGAAAAAGAAAAAGAA
430965 TAAAAAAA
1 TAAAAAAA
430973 TTTGAAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 11 0.41
22 10 0.37
23 6 0.22
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.06
Consensus pattern (23 bp):
TAAAAAAAGAAAAAGAAAAAGAA
Found at i:430972 original size:11 final size:11
Alignment explanation
Indices: 430921--430972 Score: 63
Period size: 11 Copynumber: 4.7 Consensus size: 11
430911 GCCTAAGAGC
430921 TAAAAAAAGAGA
1 TAAAAAAAGA-A
430933 -AAAAAAAGAA
1 TAAAAAAAGAA
430943 T-AAAAAAGAA
1 TAAAAAAAGAA
*
430953 AAAGAAAAAGAA
1 TAA-AAAAAGAA
430965 TAAAAAAA
1 TAAAAAAA
430973 TTTGAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
10 10 0.29
11 15 0.43
12 10 0.29
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.06
Consensus pattern (11 bp):
TAAAAAAAGAA
Found at i:430993 original size:13 final size:14
Alignment explanation
Indices: 430977--431010 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
430967 AAAAAATTTG
430977 AAAAAATG-AATGA
1 AAAAAATGAAATGA
430990 AAAAAATGAAAATGA
1 AAAAAATG-AAATGA
431005 AAAAAA
1 AAAAAA
431011 AAGATGAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.42
15 11 0.58
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (14 bp):
AAAAAATGAAATGA
Found at i:431011 original size:19 final size:19
Alignment explanation
Indices: 430979--431017 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
430969 AAAATTTGAA
**
430979 AAAATGAATGAAAAAAATG
1 AAAATGAAAAAAAAAAATG
*
430998 AAAATGAAAAAAAAAGATG
1 AAAATGAAAAAAAAAAATG
431017 A
1 A
431018 GATGAGAGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (19 bp):
AAAATGAAAAAAAAAAATG
Found at i:440410 original size:17 final size:16
Alignment explanation
Indices: 440379--440412 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
440369 CACGTGAGGA
440379 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
440395 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
440412 T
1 T
440413 ACTGTCTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:440921 original size:30 final size:30
Alignment explanation
Indices: 440878--440945 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
440868 ATTTATTTAA
* *
440878 TGACCAAATTATAAATTTGGTAAAGTTTGG
1 TGACCAAAGTATAAATTTGGAAAAGTTTGG
* *
440908 TGACTAAAGTATAAATTTTGAAAAGTTTAGG
1 TGACCAAAGTATAAATTTGGAAAAGTTT-GG
440939 T-ACCAAA
1 TGACCAAA
440946 ATGTATTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 29 0.91
31 3 0.09
ACGTcount: A:0.41, C:0.07, G:0.18, T:0.34
Consensus pattern (30 bp):
TGACCAAAGTATAAATTTGGAAAAGTTTGG
Found at i:442186 original size:9 final size:9
Alignment explanation
Indices: 442169--442204 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
442159 ACCATAATAA
442169 CTGGAATTT
1 CTGGAATTT
*
442178 CTTGAATTT
1 CTGGAATTT
442187 CTGGAATTT
1 CTGGAATTT
*
442196 CTGGTATTT
1 CTGGAATTT
442205 AAAATGTAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.19, C:0.11, G:0.19, T:0.50
Consensus pattern (9 bp):
CTGGAATTT
Found at i:443325 original size:38 final size:38
Alignment explanation
Indices: 443233--443343 Score: 132
Period size: 38 Copynumber: 2.9 Consensus size: 38
443223 TTCGAGGGCT
* * * * * *
443233 ACATCCTTCGGGATGACAGGTTCTCCGAGACACATATT
1 ACATCCTTCGGGATGATAGGTCCTACGGGACACAGATG
*
443271 ACATCCTTCGGGATGATAGGTCCTACGGGAAACAGATG
1 ACATCCTTCGGGATGATAGGTCCTACGGGACACAGATG
* * *
443309 ACATCCTACGGGATGATAGGACCTTCGGGACACAG
1 ACATCCTTCGGGATGATAGGTCCTACGGGACACAG
443344 TTTATACGAG
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 62 1.00
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (38 bp):
ACATCCTTCGGGATGATAGGTCCTACGGGACACAGATG
Found at i:443464 original size:12 final size:12
Alignment explanation
Indices: 443447--443485 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
443437 TATCAGTACT
443447 ATACATGGGCTA
1 ATACATGGGCTA
*
443459 ATACATTGGCTA
1 ATACATGGGCTA
*
443471 ATACATGGACTA
1 ATACATGGGCTA
443483 ATA
1 ATA
443486 GATGAGATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.28
Consensus pattern (12 bp):
ATACATGGGCTA
Found at i:448930 original size:21 final size:21
Alignment explanation
Indices: 448892--448932 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
448882 AAAAAATAAC
*
448892 CTAAAACATTATTATTTTTAT
1 CTAAAACATAATTATTTTTAT
448913 CTAAAACATCAATT-TTTTTA
1 CTAAAACAT-AATTATTTTTA
448933 ATATTTTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (21 bp):
CTAAAACATAATTATTTTTAT
Found at i:451269 original size:50 final size:50
Alignment explanation
Indices: 451210--451308 Score: 180
Period size: 50 Copynumber: 2.0 Consensus size: 50
451200 GGTAAGGTTT
*
451210 GAAATTTATGAACCAAGAGATGAAAACTAATGAAAAAGGGATCAGAAGAA
1 GAAATTTATGAACCAAGAGATAAAAACTAATGAAAAAGGGATCAGAAGAA
*
451260 GAAATTTATGAACTAAGAGATAAAAACTAATGAAAAAGGGATCAGAAGA
1 GAAATTTATGAACCAAGAGATAAAAACTAATGAAAAAGGGATCAGAAGA
451309 GAGTGGATAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.55, C:0.07, G:0.21, T:0.17
Consensus pattern (50 bp):
GAAATTTATGAACCAAGAGATAAAAACTAATGAAAAAGGGATCAGAAGAA
Found at i:453062 original size:14 final size:14
Alignment explanation
Indices: 453043--453086 Score: 70
Period size: 14 Copynumber: 3.0 Consensus size: 14
453033 TAACAGACTT
453043 GTCTGTTTTCTACA
1 GTCTGTTTTCTACA
453057 GTCTGTTTTCTACACA
1 GTCTGTTTTCT--ACA
453073 GTCTGTTTTCTACA
1 GTCTGTTTTCTACA
453087 TGGTATCAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 14 0.50
16 14 0.50
ACGTcount: A:0.16, C:0.23, G:0.14, T:0.48
Consensus pattern (14 bp):
GTCTGTTTTCTACA
Found at i:453075 original size:16 final size:16
Alignment explanation
Indices: 453043--453086 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
453033 TAACAGACTT
453043 GTCTGTTTTCT--ACA
1 GTCTGTTTTCTACACA
453057 GTCTGTTTTCTACACA
1 GTCTGTTTTCTACACA
453073 GTCTGTTTTCTACA
1 GTCTGTTTTCTACA
453087 TGGTATCAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 11 0.39
16 17 0.61
ACGTcount: A:0.16, C:0.23, G:0.14, T:0.48
Consensus pattern (16 bp):
GTCTGTTTTCTACACA
Found at i:454902 original size:51 final size:51
Alignment explanation
Indices: 454843--454939 Score: 167
Period size: 51 Copynumber: 1.9 Consensus size: 51
454833 TCAGGGGGAG
* * *
454843 AGTTACAAGGAATTTCAGCCTGTTCAAACCTATATTTCTTTACAGCCTATT
1 AGTTACAAGGAATTTCAACATGTTCAAACCGATATTTCTTTACAGCCTATT
454894 AGTTACAAGGAATTTCAACATGTTCAAACCGATATTTCTTTACAGC
1 AGTTACAAGGAATTTCAACATGTTCAAACCGATATTTCTTTACAGC
454940 TTATCCTTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (51 bp):
AGTTACAAGGAATTTCAACATGTTCAAACCGATATTTCTTTACAGCCTATT
Found at i:457203 original size:16 final size:16
Alignment explanation
Indices: 457174--457214 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
457164 CAGACTTGTT
457174 TGTTTTCT--ACAGTC
1 TGTTTTCTACACAGTC
457188 TGTTTTCTACACAGTC
1 TGTTTTCTACACAGTC
457204 TGTTTTCTACA
1 TGTTTTCTACA
457215 AAAACAACAG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.32
16 17 0.68
ACGTcount: A:0.17, C:0.22, G:0.12, T:0.49
Consensus pattern (16 bp):
TGTTTTCTACACAGTC
Found at i:459844 original size:4 final size:4
Alignment explanation
Indices: 459835--459861 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
459825 CAATGCATGT
459835 ATAA ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATA
459862 CATAGTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:461820 original size:21 final size:21
Alignment explanation
Indices: 461791--461843 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
461781 ATTCTGACTA
*
461791 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGACTTTCCAAAT
* *
461812 TCGCGTTGCGACTTTCCTAAT
1 TCGCATTGCGACTTTCCAAAT
*
461833 TCGCAATGCGA
1 TCGCATTGCGA
461844 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGACTTTCCAAAT
Found at i:461858 original size:20 final size:20
Alignment explanation
Indices: 461833--461945 Score: 208
Period size: 20 Copynumber: 5.7 Consensus size: 20
461823 CTTTCCTAAT
461833 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
461853 TCGCAATGTGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
461873 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
461893 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
461913 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
461933 TCGCAACGCGAAT
1 TCGCAATGCGAAT
461946 CTGACTATCG
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 90 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:462167 original size:22 final size:21
Alignment explanation
Indices: 462142--462207 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 21
462132 GGCGACATCC
462142 GTCCACATCTCCGACGAAATCA
1 GTCC-CATCTCCGACGAAATCA
*
462164 GTCCCCATCTCCGACGATATCA
1 GT-CCCATCTCCGACGAAATCA
* *
462186 GTCTCCATCTCCGGCAAAATCA
1 GTC-CCATCTCCGACGAAATCA
462208 TTCACGATCA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
21 1 0.03
22 35 0.92
23 2 0.05
ACGTcount: A:0.27, C:0.38, G:0.14, T:0.21
Consensus pattern (21 bp):
GTCCCATCTCCGACGAAATCA
Found at i:462583 original size:20 final size:20
Alignment explanation
Indices: 462558--462610 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
462548 TGATTTTCAT
462558 TTCGCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCAAA
**
462578 TTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATAGTCAAA
*
462598 TTCGTGTTGCGAT
1 TTCGCGTTGCGAT
462611 TTTAAGTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (20 bp):
TTCGCGTTGCGATAGTCAAA
Found at i:464525 original size:20 final size:20
Alignment explanation
Indices: 464500--464654 Score: 111
Period size: 20 Copynumber: 7.6 Consensus size: 20
464490 AGAATAGTTT
464500 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
464520 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* * *
464540 ACTATCGCAACGAGAGAATCG
1 ACTATCGCAATGCGAAAAT-G
* *
464561 -CAATGCGAAAT--GAAAATCG
1 ACTAT-CGCAATGCGAAAAT-G
* *
464580 CAACAACATCGCAACGCGAAAATG
1 --AC--TATCGCAATGCGAAAATG
*
464604 ACTATCGAAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
* **
464624 ACTA-CGTAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
464643 ACTATCGCAATG
1 ACTATCGCAATG
464655 AAAGAATCGC
Statistics
Matches: 108, Mismatches: 17, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
19 23 0.21
20 64 0.59
21 5 0.05
22 3 0.03
23 4 0.04
24 3 0.03
25 6 0.06
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.18
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:464756 original size:20 final size:20
Alignment explanation
Indices: 464699--464765 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
464689 GATTCTCTCG
464699 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
**
464719 TTATGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
464739 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
464759 TTGCGAT
1 TTGCGAT
464766 TTTAAGTTTC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:465346 original size:42 final size:42
Alignment explanation
Indices: 465276--465367 Score: 105
Period size: 42 Copynumber: 2.2 Consensus size: 42
465266 TCCTCTATCG
* *
465276 TTCAAGAGGCCCCTATCATCCCTCAAGA-GTCCCCTCCCACCA
1 TTCAAGAGGCCACTATCATCCCTCAAGAGGT-CCCTCCCAACA
* ** *
465318 TTCAAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCAACA
1 TTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCAACA
*
465360 TTCTAGAG
1 TTCAAGAG
465368 CCCGATTCAC
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 40 0.95
43 2 0.05
ACGTcount: A:0.25, C:0.36, G:0.17, T:0.22
Consensus pattern (42 bp):
TTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCAACA
Found at i:466918 original size:14 final size:14
Alignment explanation
Indices: 466899--466947 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 14
466889 GGAAATGACT
466899 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
466913 ATCGCAATGCGAAATGAA
1 ATCGCAA--CGAGA-G-A
466931 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
466945 ATC
1 ATC
466948 ACAATGCGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 11 0.38
15 1 0.03
16 8 0.28
17 1 0.03
18 8 0.28
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.12
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:466937 original size:32 final size:32
Alignment explanation
Indices: 466879--466973 Score: 118
Period size: 32 Copynumber: 2.8 Consensus size: 32
466869 AAAACAGACT
* *
466879 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGA-AATCGCAACGAGAGA
466913 ATCGCAATGCGAAATGAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAATCGCAACGAGAGA
* *
466945 ATCACAATGCGAAAATGAAAATAGCAACG
1 ATCGCAATGCG-AAATG-AAATCGCAACG
466974 CGAAACTAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
32 24 0.44
33 12 0.22
34 19 0.35
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (32 bp):
ATCGCAATGCGAAATGAAATCGCAACGAGAGA
Found at i:467013 original size:20 final size:19
Alignment explanation
Indices: 466984--467050 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 19
466974 CGAAACTAAA
*
466984 TTCGCGTTGCGATTTTCATT
1 TTCGCATTGCGATTTTCA-T
467004 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
467020 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
467037 TTCGCATTGCGATT
1 TTCGCATTGCGATT
467051 CTCTCATTGC
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
14 6 0.15
16 7 0.18
17 4 0.10
18 3 0.08
19 8 0.21
20 11 0.28
ACGTcount: A:0.12, C:0.22, G:0.19, T:0.46
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:467031 original size:34 final size:34
Alignment explanation
Indices: 466988--467083 Score: 140
Period size: 33 Copynumber: 2.9 Consensus size: 34
466978 ACTAAATTCG
466988 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
467022 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
* ** * *
467055 CATTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
467084 AGTCAATTCC
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 30 0.54
34 26 0.46
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.43
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
Found at i:467082 original size:20 final size:20
Alignment explanation
Indices: 467057--467123 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
467047 GATTCTCTCA
467057 TTGCGATAGTCATTTCCGCG
1 TTGCGATAGTCATTTCCGCG
*
467077 TTGCGATAGTCAATTCCGCG
1 TTGCGATAGTCATTTCCGCG
*
467097 TTGCGATAGTCATTTCCGTG
1 TTGCGATAGTCATTTCCGCG
467117 TTGCGAT
1 TTGCGAT
467124 TTCCGCGTTG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCATTTCCGCG
Found at i:467127 original size:14 final size:14
Alignment explanation
Indices: 467108--467137 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
467098 TGCGATAGTC
*
467108 ATTTCCGTGTTGCG
1 ATTTCCGCGTTGCG
467122 ATTTCCGCGTTGCG
1 ATTTCCGCGTTGCG
467136 AT
1 AT
467138 AGTCAAATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.23, G:0.27, T:0.40
Consensus pattern (14 bp):
ATTTCCGCGTTGCG
Found at i:468025 original size:20 final size:20
Alignment explanation
Indices: 468002--468072 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
467992 ATAGTCAGAA
* **
468002 TCGCGTTGCGATTTATATAT
1 TCGCATTGCGATTTACGTAT
468022 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
468042 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
468062 TCGCATTGCGA
1 TCGCATTGCGA
468073 ATTAGGAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAT
Found at i:468030 original size:40 final size:40
Alignment explanation
Indices: 467959--468134 Score: 101
Period size: 40 Copynumber: 4.3 Consensus size: 40
467949 GCAAATTCAA
* *
467959 AATCGAGTTGCGAATTTA-AAATTCAGTATTGCGATAGTCAG
1 AATCGCGTTGCG-ATTTATAAATTC-GCATTGCGATAGTCAG
* *
468000 AATCGCGTTGCGATTTATATATTCGCATTGCGAT--TTACG
1 AATCGCGTTGCGATTTATAAATTCGCATTGCGATAGTCA-G
* * *** * *
468039 TATTCGCATTGCGATTTACGTATTCGCATTGCGAATTAG-GAA
1 -AATCGCGTTGCGATTTATAAATTCGCATTGCG-A-TAGTCAG
*** * *
468081 AATCGCAACGCGAATTTGTAAAATT-GCAATGCGATAGTCAG
1 AATCGCGTTGCG-ATTTAT-AAATTCGCATTGCGATAGTCAG
468122 AATCGCGTTGCGA
1 AATCGCGTTGCGA
468135 ATCTGGAAAC
Statistics
Matches: 102, Mismatches: 23, Indels: 21
0.70 0.16 0.14
Matches are distributed among these distances:
38 2 0.02
39 1 0.01
40 46 0.45
41 37 0.36
42 12 0.12
43 4 0.04
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (40 bp):
AATCGCGTTGCGATTTATAAATTCGCATTGCGATAGTCAG
Found at i:468093 original size:21 final size:21
Alignment explanation
Indices: 468069--468114 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
468059 TATTCGCATT
468069 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * * *
468090 GCGAATTTGTAAAATTGCAAT
1 GCGAATTAGGAAAATCGCAAC
468111 GCGA
1 GCGA
468115 TAGTCAGAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:468925 original size:24 final size:24
Alignment explanation
Indices: 468853--468929 Score: 66
Period size: 24 Copynumber: 3.1 Consensus size: 24
468843 CTTATATATG
*
468853 AATTATTTCAATTTAAACTATAAT
1 AATTATATCAATTTAAACTATAAT
* ** *
468877 AAATTCAAAAAAATATTATTA-TATAAT
1 -AATT-ATATCAAT-TTA-AACTATAAT
468904 AATTATATCAATTTAAACTATAAT
1 AATTATATCAATTTAAACTATAAT
468928 AA
1 AA
468930 AAATATAAGC
Statistics
Matches: 39, Mismatches: 9, Indels: 9
0.68 0.16 0.16
Matches are distributed among these distances:
23 1 0.03
24 11 0.28
25 9 0.23
26 8 0.21
27 9 0.23
28 1 0.03
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.40
Consensus pattern (24 bp):
AATTATATCAATTTAAACTATAAT
Found at i:471563 original size:12 final size:12
Alignment explanation
Indices: 471548--471572 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
471538 ACTGAGTGAC
471548 CGAGTTGAAAAA
1 CGAGTTGAAAAA
471560 CGAGTTGAAAAA
1 CGAGTTGAAAAA
471572 C
1 C
471573 CTGGTCTTCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.12, G:0.24, T:0.16
Consensus pattern (12 bp):
CGAGTTGAAAAA
Found at i:471834 original size:35 final size:35
Alignment explanation
Indices: 471790--471907 Score: 146
Period size: 35 Copynumber: 3.3 Consensus size: 35
471780 GGTAACCAAC
471790 TTTGAAAAAATAGTTTTTAAAGTTTGGTAAATGTTT
1 TTTG-AAAAATAGTTTTTAAAGTTTGGTAAATGTTT
* * **
471826 TTTTAAAAATGGTTTACAAAGTTTGGTAAATGTTT
1 TTTGAAAAATAGTTTTTAAAGTTTGGTAAATGTTT
**
471861 CTTTGAAAAATAGTTTTTCAAAGTTTGGTCGATGTTT
1 -TTTGAAAAATAGTTTTT-AAAGTTTGGTAAATGTTT
*
471898 GTTGAAAAAT
1 TTTGAAAAAT
471908 GATAATGTGA
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
35 28 0.41
36 25 0.36
37 16 0.23
ACGTcount: A:0.34, C:0.03, G:0.18, T:0.45
Consensus pattern (35 bp):
TTTGAAAAATAGTTTTTAAAGTTTGGTAAATGTTT
Found at i:476430 original size:21 final size:20
Alignment explanation
Indices: 476406--476469 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
476396 AACTTTGAAA
476406 AAATGATTTTCAAAGTTTGGT
1 AAATG-TTTTCAAAGTTTGGT
*
476427 AAATG-TTTC----TTT-GA
1 AAATGTTTTCAAAGTTTGGT
476441 AAATGGTTTTCAAAGTTTGGT
1 AAAT-GTTTTCAAAGTTTGGT
476462 AAATGTTT
1 AAATGTTT
476470 CTTTGAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 15
0.67 0.04 0.29
Matches are distributed among these distances:
14 5 0.15
15 4 0.12
16 4 0.12
19 4 0.12
20 7 0.21
21 10 0.29
ACGTcount: A:0.31, C:0.05, G:0.19, T:0.45
Consensus pattern (20 bp):
AAATGTTTTCAAAGTTTGGT
Found at i:476444 original size:35 final size:36
Alignment explanation
Indices: 476398--476519 Score: 167
Period size: 35 Copynumber: 3.4 Consensus size: 36
476388 TGGTAACCAA
476398 CTTTGAAAAAATGATTTTCAAAGTTTGGTAAATGTTT
1 CTTTG-AAAAATGATTTTCAAAGTTTGGTAAATGTTT
*
476435 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGATTTTCAAAGTTTGGTAAATGTTT
* *
476470 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAAT-GATTTTCAAAGTTTGGTAAATGTTT
* *
476507 -GTCGAAAAATGAT
1 CTTTGAAAAATGAT
476520 AATGAGATAA
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
35 36 0.47
36 13 0.17
37 28 0.36
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.43
Consensus pattern (36 bp):
CTTTGAAAAATGATTTTCAAAGTTTGGTAAATGTTT
Found at i:496398 original size:6 final size:6
Alignment explanation
Indices: 496387--496415 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
496377 TAGGAACCAT
496387 CTCAGG CTCAGG CTCAGG CTCAGG CTCAG
1 CTCAGG CTCAGG CTCAGG CTCAGG CTCAG
496416 TCGACTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.34, G:0.31, T:0.17
Consensus pattern (6 bp):
CTCAGG
Found at i:497446 original size:19 final size:20
Alignment explanation
Indices: 497412--497450 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 20
497402 AACCAATGAC
497412 TGAAAAATAAAAATACTTAAT
1 TGAAAAAT-AAAATACTTAAT
497433 TGAAAAAT-AAATACTTAA
1 TGAAAAATAAAATACTTAA
497451 ATTGTACTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
21 8 0.44
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (20 bp):
TGAAAAATAAAATACTTAAT
Found at i:498324 original size:29 final size:29
Alignment explanation
Indices: 498282--498345 Score: 128
Period size: 29 Copynumber: 2.2 Consensus size: 29
498272 GTAGTTGAAA
498282 ATTGTTGAAGTTGTTTTAATTTTAAGAAG
1 ATTGTTGAAGTTGTTTTAATTTTAAGAAG
498311 ATTGTTGAAGTTGTTTTAATTTTAAGAAG
1 ATTGTTGAAGTTGTTTTAATTTTAAGAAG
498340 ATTGTT
1 ATTGTT
498346 TTGTCGAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (29 bp):
ATTGTTGAAGTTGTTTTAATTTTAAGAAG
Found at i:500008 original size:61 final size:60
Alignment explanation
Indices: 499858--500023 Score: 176
Period size: 61 Copynumber: 2.8 Consensus size: 60
499848 GAACATATGA
* * * * * *
499858 ATAATCAGATGATCATTTTGTAACTTTTAATAATC--ATGAACTCAACGAAACAACACCCT
1 ATAATCAGAAGGTTATTTTGTAACTTTTAATAGTCGAAGGAA-TCAACAAAACAACACCCT
**
499917 ATTGTCAGAAGGTTATTTTGTAACTTTTAATAGTCGAAGGAATCAACAAAACAACACCCT
1 ATAATCAGAAGGTTATTTTGTAACTTTTAATAGTCGAAGGAATCAACAAAACAACACCCT
* * * *
499977 AATAATTA-AAGGATTATTTTATAACTTTTAATAGTTGAAGGACTCAA
1 -ATAATCAGAAGG-TTATTTTGTAACTTTTAATAGTCGAAGGAATCAA
500024 TAGAGAAACA
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
59 29 0.33
60 21 0.24
61 39 0.44
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (60 bp):
ATAATCAGAAGGTTATTTTGTAACTTTTAATAGTCGAAGGAATCAACAAAACAACACCCT
Found at i:501784 original size:23 final size:22
Alignment explanation
Indices: 501728--501785 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
501718 TTCTTCCCTG
501728 CATCAACAGTGACTCACAAATC
1 CATCAACAGTGACTCACAAATC
*
501750 CATCAACAGTGACTCACCAATC
1 CATCAACAGTGACTCACAAATC
501772 CATCAAACAGTGAC
1 CATC-AACAGTGAC
501786 CCAGATCCTA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 25 0.74
23 9 0.26
ACGTcount: A:0.40, C:0.33, G:0.10, T:0.17
Consensus pattern (22 bp):
CATCAACAGTGACTCACAAATC
Found at i:505340 original size:31 final size:32
Alignment explanation
Indices: 505304--505365 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
505294 ATTTTACATG
*
505304 TACTAACTTATTT-TTCTCTTTTGTTTGTGTA
1 TACTAACTTATTTCTTCTCTTTTCTTTGTGTA
505335 TACTAACTTATTTCTTCTCTTTTCTTTGTGT
1 TACTAACTTATTTCTTCTCTTTTCTTTGTGT
505366 CATTTTGTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 13 0.45
32 16 0.55
ACGTcount: A:0.15, C:0.16, G:0.08, T:0.61
Consensus pattern (32 bp):
TACTAACTTATTTCTTCTCTTTTCTTTGTGTA
Found at i:507324 original size:18 final size:20
Alignment explanation
Indices: 507301--507342 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
507291 AACAAAGAGA
507301 AAAGAGCA-A-AGAAAAAAC
1 AAAGAGCAGAGAGAAAAAAC
*
507319 AAAGAGCAGAGAGAAAAATC
1 AAAGAGCAGAGAGAAAAAAC
507339 AAAG
1 AAAG
507343 CAAAAACAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
19 1 0.05
20 12 0.57
ACGTcount: A:0.67, C:0.10, G:0.21, T:0.02
Consensus pattern (20 bp):
AAAGAGCAGAGAGAAAAAAC
Found at i:507368 original size:10 final size:11
Alignment explanation
Indices: 507298--507392 Score: 72
Period size: 11 Copynumber: 8.6 Consensus size: 11
507288 CAAAACAAAG
507298 AGAAAAGAGCAA
1 AGAAAA-AGCAA
*
507310 AGAAAAAACAA
1 AGAAAAAGCAA
** *
507321 AG-AGCAG-AG
1 AGAAAAAGCAA
*
507330 AGAAAAATCAA
1 AGAAAAAGCAA
507341 AGCAAAAA-CAA
1 AG-AAAAAGCAA
*
507352 AGAAAAATCAA
1 AGAAAAAGCAA
507363 AGAAAAAGAGCAA
1 AG-AAAA-AGCAA
507376 AG-AAAAGCAA
1 AGAAAAAGCAA
507386 AGAAAAA
1 AGAAAAA
507393 AAAGAACAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
9 3 0.05
10 16 0.24
11 26 0.39
12 15 0.23
13 6 0.09
ACGTcount: A:0.71, C:0.09, G:0.18, T:0.02
Consensus pattern (11 bp):
AGAAAAAGCAA
Found at i:508519 original size:4 final size:4
Alignment explanation
Indices: 508510--508551 Score: 61
Period size: 4 Copynumber: 11.0 Consensus size: 4
508500 AAAAGTATAC
*
508510 ACAT ACAT ACAT ACAT GCAT ACAT ACAT AC-- ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
508552 GATACCTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
4 32 0.94
ACGTcount: A:0.48, C:0.26, G:0.02, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:508532 original size:16 final size:14
Alignment explanation
Indices: 508506--508551 Score: 74
Period size: 14 Copynumber: 3.1 Consensus size: 14
508496 CAAGAAAAGT
508506 ATACACATACATAC
1 ATACACATACATAC
508520 ATACATGCATACATAC
1 ATACA--CATACATAC
508536 ATACACATACATAC
1 ATACACATACATAC
508550 AT
1 AT
508552 GATACCTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 16 0.53
16 14 0.47
ACGTcount: A:0.48, C:0.26, G:0.02, T:0.24
Consensus pattern (14 bp):
ATACACATACATAC
Found at i:509144 original size:105 final size:102
Alignment explanation
Indices: 509014--509252 Score: 279
Period size: 105 Copynumber: 2.3 Consensus size: 102
509004 TGAGAATTTT
* * *
509014 AAAACAAATTGCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTTGAATTTAATTCAC-
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTAATTCACA
*
509078 TAAAAACAAAATTAATCTCACCTT-AGATTGTTGTTTCTTTC-
66 T-AAAACAAAATTAATCTCA-CTTGAGATCG-T-TTTC--TCA
* * **
509119 AAAACAAATTTCGTCTCGCTTGAGACCTTTTCCCTTTGAGATCCAAATTTCGAATTTGTTTCACA
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTAATTCACA
* * *
509184 TTAAACAAAGTTGATCTCACTTGAGATCGTTTTCTCA
66 TAAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
*
509221 AAAACAAACTTT-GTCTCGCTTGAGACAATTTC
1 AAAACAAA-TTTCGTCTCGCTTGAGACATTTTC
509253 TCTAAAAACA
Statistics
Matches: 117, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
101 2 0.02
102 26 0.22
103 7 0.06
104 4 0.03
105 77 0.66
106 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (102 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATACAAATTTCGAATTTAATTCACA
TAAAACAAAATTAATCTCACTTGAGATCGTTTTCTCA
Found at i:509243 original size:36 final size:36
Alignment explanation
Indices: 509198--509317 Score: 113
Period size: 36 Copynumber: 3.4 Consensus size: 36
509188 ACAAAGTTGA
**
509198 TCTCACTTGAGATCGTTTTCTC-AAAAACAAACTTTG
1 TCTCACTTGAGA-CAATTTCTCTAAAAACAAACTTTG
* *
509234 TCTCGCTTGAGACAATTTCTCTAAAAACAAATTTTG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
* * * *
509270 TCTCATTTGAGACTATATCT-T-AAAGCAAA-TTTCG
1 TCTCACTTGAGACAATTTCTCTAAAAACAAACTTT-G
*
509304 TCTCGCTTGAGACA
1 TCTCACTTGAGACA
509318 TCATTTTCTC
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
33 3 0.04
34 19 0.27
35 8 0.11
36 40 0.57
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (36 bp):
TCTCACTTGAGACAATTTCTCTAAAAACAAACTTTG
Found at i:509630 original size:29 final size:28
Alignment explanation
Indices: 509570--509725 Score: 244
Period size: 28 Copynumber: 5.6 Consensus size: 28
509560 TCTTTTGAGA
*
509570 AAAAAAATCTTTGAGTTTGTTCCTCTTG
1 AAAAAAATCTTTGAGTTTGTTCCTTTTG
*
509598 AAAAAAATCTTTGAGTTTGTTCCTCTTG
1 AAAAAAATCTTTGAGTTTGTTCCTTTTG
509626 AAAAAAATCTTTGAGTTTGTTCCTTTTG
1 AAAAAAATCTTTGAGTTTGTTCCTTTTG
*
509654 AATAAAAATCTTGGAGTTTGTTCCTTTTG
1 AA-AAAAATCTTTGAGTTTGTTCCTTTTG
*
509683 AATAAAAATCTTTGAG-TTGTTTCTTTTG
1 AA-AAAAATCTTTGAGTTTGTTCCTTTTG
509711 -AAAAAATCTTTGAGT
1 AAAAAAATCTTTGAGT
509726 CTATTTATTT
Statistics
Matches: 122, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
26 13 0.11
27 1 0.01
28 68 0.56
29 40 0.33
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (28 bp):
AAAAAAATCTTTGAGTTTGTTCCTTTTG
Found at i:509671 original size:57 final size:56
Alignment explanation
Indices: 509570--509725 Score: 244
Period size: 57 Copynumber: 2.8 Consensus size: 56
509560 TCTTTTGAGA
*
509570 AAAAAAATCTTTGAGTTTGTTCCTCTTGAAAAAAATCTTTGAGTTTGTTCCTCTTG
1 AAAAAAATCTTTGAGTTTGTTCCTTTTGAAAAAAATCTTTGAGTTTGTTCCTCTTG
* *
509626 AAAAAAATCTTTGAGTTTGTTCCTTTTGAATAAAAATCTTGGAGTTTGTTCCTTTTG
1 AAAAAAATCTTTGAGTTTGTTCCTTTTGAA-AAAAATCTTTGAGTTTGTTCCTCTTG
*
509683 AATAAAAATCTTTGAG-TTGTTTCTTTTG-AAAAAATCTTTGAGT
1 AA-AAAAATCTTTGAGTTTGTTCCTTTTGAAAAAAATCTTTGAGT
509726 CTATTTATTT
Statistics
Matches: 93, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
55 13 0.14
56 30 0.32
57 37 0.40
58 13 0.14
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (56 bp):
AAAAAAATCTTTGAGTTTGTTCCTTTTGAAAAAAATCTTTGAGTTTGTTCCTCTTG
Found at i:509814 original size:52 final size:53
Alignment explanation
Indices: 509736--509835 Score: 168
Period size: 52 Copynumber: 1.9 Consensus size: 53
509726 CTATTTATTT
509736 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTG-AAAAATCTTTAAGTC
1 TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTGAAAAAATCTTTAAGTC
*
509788 TGAAACAAAGTTTTGTCTCAT-TTGAGACAATTTTGTGAAAAAATCTTT
1 TGAAACAAAGTTTTGTCTC-TCTTGAGACAATTTCGTGAAAAAATCTTT
509836 GAGATTGTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
52 34 0.76
53 11 0.24
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (53 bp):
TGAAACAAAGTTTTGTCTCTCTTGAGACAATTTCGTGAAAAAATCTTTAAGTC
Found at i:509890 original size:29 final size:30
Alignment explanation
Indices: 509826--509889 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
509816 AATTTTGTGA
*
509826 AAAAATCTTTGAGATTGTTTCTTTTGAAAC
1 AAAAATCTTTGAGATTGTTTCTTTGGAAAC
*
509856 AAAAATCTTTGAGTTTGTTTCTTTGGAAAC
1 AAAAATCTTTGAGATTGTTTCTTTGGAAAC
509886 AAAA
1 AAAA
509890 TTTTGTCTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (30 bp):
AAAAATCTTTGAGATTGTTTCTTTGGAAAC
Found at i:510979 original size:28 final size:28
Alignment explanation
Indices: 510908--510989 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
510898 TAAAAATATC
* * *
510908 ATCTTTGAGTTTATTTTTCTTGAAACAA
1 ATCTTTGAATTTGTTTCTCTTGAAACAA
** *
510936 ATCTTTGGGTTTGTTTCTTTTGAAACAA
1 ATCTTTGAATTTGTTTCTCTTGAAACAA
510964 ATCTTT-AATTTGGTTTCTCTTGAAAC
1 ATCTTTGAATTT-GTTTCTCTTGAAAC
510990 CATAACTCCT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
27 3 0.07
28 43 0.93
ACGTcount: A:0.24, C:0.12, G:0.13, T:0.50
Consensus pattern (28 bp):
ATCTTTGAATTTGTTTCTCTTGAAACAA
Found at i:511076 original size:40 final size:40
Alignment explanation
Indices: 511018--511346 Score: 160
Period size: 40 Copynumber: 7.7 Consensus size: 40
511008 CCAGCCGTCC
* *
511018 TCATCATGTAGGAACCGTGTCATCCCCAGACCAGATCTCT
1 TCATCACGTAGGAGCCGTGTCATCCCCAGACCAGATCTCT
* ** * *
511058 TCATCACGTAGGAGCCGTGTCAACCATAGATAACCAG-CCGTCC
1 TCATCACGTAGGAGCCGTGTCATCCCCAG---ACCAGATC-TCT
* * * *
511101 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTAGGAGCCGTGTCATC-CC--CAGA---CCAGATCTCT
* * *
511147 TCATCACGTATGAGCCGTGTCATTCCCTGACCAGATCTCT
1 TCATCACGTAGGAGCCGTGTCATCCCCAGACCAGATCTCT
* * * *
511187 TCATCACGTAGGAGCCGTGTCAACCACAGATAACCAG-CCGTCC
1 TCATCACGTAGGAGCCGTGTCATCCCCAG---ACCAGATC-TCT
* * * *
511230 TCATCACGTAGGAACCGTGTTATCGCCCTTCCTAAAGATGGTCAGAACTCT
1 TCATCACGTAGGAGCCGTGTCAT---CC--CC---AGA---CCAGATCTCT
* * *
511281 TCATCACGTATGAGTCGTGTCATCCCCCGACCAGATCTCT
1 TCATCACGTAGGAGCCGTGTCATCCCCAGACCAGATCTCT
* * *
511321 TCATCGCGTATGAGTCGTGTCA-CCCC
1 TCATCACGTAGGAGCCGTGTCATCCCC
511347 TAGATAACCA
Statistics
Matches: 220, Mismatches: 42, Indels: 55
0.69 0.13 0.17
Matches are distributed among these distances:
39 4 0.02
40 86 0.39
42 2 0.01
43 60 0.27
44 1 0.00
45 2 0.01
46 33 0.15
47 1 0.00
48 4 0.02
51 26 0.12
52 1 0.00
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (40 bp):
TCATCACGTAGGAGCCGTGTCATCCCCAGACCAGATCTCT
Found at i:511167 original size:89 final size:83
Alignment explanation
Indices: 511008--511168 Score: 223
Period size: 83 Copynumber: 1.9 Consensus size: 83
510998 CTAAAGATGG
* *
511008 CCAGCCGTCCTCATCATGTAGGAACCGTGTCATCCCCAGACCAGATCTCTTCATCACGTAGGAGC
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGAACTCTTCATCACGTAGGAGC
511073 CGTGTCAACCATAGATAA
66 CGTGTCAACCATAGATAA
* *
511091 CCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCATCACGT
1 CCAGCCGTCCTCATCACGTAGGAACCGTGTCATC-CC--CAGA---CCAGAACTCTTCATCACGT
*
511156 ATGAGCCGTGTCA
60 AGGAGCCGTGTCA
511169 TTCCCTGACC
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
83 32 0.48
84 2 0.03
86 3 0.04
89 30 0.45
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.24
Consensus pattern (83 bp):
CCAGCCGTCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGAACTCTTCATCACGTAGGAGC
CGTGTCAACCATAGATAA
Found at i:511341 original size:134 final size:131
Alignment explanation
Indices: 511018--511428 Score: 567
Period size: 134 Copynumber: 3.1 Consensus size: 131
511008 CCAGCCGTCC
* * *
511018 TCATCATGTAGGAACCGTGTCATCCCCAGACCAGATCTCTTCATCACGTAGGAGCCGTGTCAACC
1 TCATCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCTTCATCACGTAGGAGCCGTGTCAACC
* *
511083 ATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTT--TAGATGGCCAGAACTC
66 ACAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCCCCTTCCTAGATGGCCAGAACTC
511146 T
131 T
* *
511147 TCATCACGTATGAGCCGTGTCATTCCCTGACCAGATCTCTTCATCACGTAGGAGCCGTGTCAACC
1 TCATCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCTTCATCACGTAGGAGCCGTGTCAACC
*
511212 ACAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCGCCCTTCCTAAAGATGGTCAGAA
66 ACAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATC-CCCTTCCT--AGATGGCCAGAA
511277 CTCT
128 CTCT
* * * * *
511281 TCATCACGTATGAGTCGTGTCATCCCCCGACCAGATCTCTTCATCGCGTATGAGTCGTGTC-ACC
1 TCATCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCTTCATCACGTAGGAGCCGTGTCAACC
* * * * * * *
511345 CCTAGATAACCAGTCGTCCTCATCACGTAGGAACCGAGTTATCACCCTCCCTTAGACGACCCGAA
66 AC-AGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATC-CCCTTCC-TAGATGGCCAGAA
511410 CTCT
128 CTCT
511414 TCATCACGTATGAGC
1 TCATCACGTATGAGC
511429 AATGTCGTCC
Statistics
Matches: 251, Mismatches: 24, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
129 101 0.40
130 4 0.02
132 1 0.00
133 30 0.12
134 114 0.45
135 1 0.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.25
Consensus pattern (131 bp):
TCATCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCTTCATCACGTAGGAGCCGTGTCAACC
ACAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCCCCTTCCTAGATGGCCAGAACTC
T
Found at i:511881 original size:23 final size:22
Alignment explanation
Indices: 511825--511882 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
511815 TTCTTCCCTG
511825 CATCAACAGTGACTCACAAATC
1 CATCAACAGTGACTCACAAATC
*
511847 CATCAACAGTGACTCACCAATC
1 CATCAACAGTGACTCACAAATC
511869 CATCAAACAGTGAC
1 CATC-AACAGTGAC
511883 CCAGATCCTA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 25 0.74
23 9 0.26
ACGTcount: A:0.40, C:0.33, G:0.10, T:0.17
Consensus pattern (22 bp):
CATCAACAGTGACTCACAAATC
Found at i:515110 original size:60 final size:59
Alignment explanation
Indices: 514952--515119 Score: 176
Period size: 60 Copynumber: 2.8 Consensus size: 59
514942 AAACTATATC
* ** * * ** *
514952 TCTCATTTTAAATTAGTTGTTAAATTTTTAAATATTCCAATTTCATCCTTAAATCATGAA
1 TCTCATTCTAAATTAGTCCTTAAACTTTT-AATATTCGAATTTCATCCCAAAAACATGAA
* * *
515012 TCTCATTCTAAATTAGTCTTTCAACTTTTTAACATTCGAATTTCATCCCAAAAACATGAA
1 TCTCATTCTAAATTAGTCCTTAAAC-TTTTAATATTCGAATTTCATCCCAAAAACATGAA
* * *
515072 TTTCATTCTAAATTAGTCCCTAAACTTTTAGATTTTCG-ATTTCATCCC
1 TCTCATTCTAAATTAGTCCTTAAACTTTTA-ATATTCGAATTTCATCCC
515120 CAAATTTATC
Statistics
Matches: 90, Mismatches: 16, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
59 15 0.17
60 71 0.79
61 4 0.04
ACGTcount: A:0.32, C:0.19, G:0.05, T:0.43
Consensus pattern (59 bp):
TCTCATTCTAAATTAGTCCTTAAACTTTTAATATTCGAATTTCATCCCAAAAACATGAA
Found at i:516577 original size:23 final size:23
Alignment explanation
Indices: 516545--516590 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
516535 TGATTATTTT
516545 AAAT-ATTTTTAAATTTAATAATA
1 AAATAATTTTTAAATTT-ATAATA
*
516568 AAATAATTTTTATATTTATAATA
1 AAATAATTTTTAAATTTATAATA
516591 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
AAATAATTTTTAAATTTATAATA
Done.