Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 4 of 127
Found at i:671593 original size:110 final size:110
Alignment explanation
Indices: 671396--671604 Score: 364
Period size: 110 Copynumber: 1.9 Consensus size: 110
671386 TAAACTAAAT
* * *
671396 CTTATATCTTATAACTCTGGAGTCGGCTACATGAAAGGCCGAAAAACATAATCCTGTAGGGTCAT
1 CTTATATCTTATAACTCTGGAGTCGGCTACATGAAAGGCCAAAAAACATAATCATGTAGGGCCAT
* *
671461 GTTTCTAACTACATTGTCTAAAAATTTTTAAAGGAAGAACCAAGC
66 ATTTCTAACTACATTGTATAAAAATTTTTAAAGGAAGAACCAAGC
*
671506 CTTATATCTTATAACTCTGGAGTCGGCTACATGAAAGGCCAAAAAAGATAATCATGTAGGGCCAT
1 CTTATATCTTATAACTCTGGAGTCGGCTACATGAAAGGCCAAAAAACATAATCATGTAGGGCCAT
671571 ATTTCTAACTACATTGTATAAAAATTTTTAAAGG
66 ATTTCTAACTACATTGTATAAAAATTTTTAAAGG
671605 GAGACCTCAA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
110 93 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (110 bp):
CTTATATCTTATAACTCTGGAGTCGGCTACATGAAAGGCCAAAAAACATAATCATGTAGGGCCAT
ATTTCTAACTACATTGTATAAAAATTTTTAAAGGAAGAACCAAGC
Found at i:672869 original size:16 final size:18
Alignment explanation
Indices: 672850--672886 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
672840 TTCTCTTATA
672850 TTTTT-ATTTTT-ATTTT
1 TTTTTCATTTTTCATTTT
*
672866 TTTTTCTTTTTTCATTTT
1 TTTTTCATTTTTCATTTT
672884 TTT
1 TTT
672887 CATATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 5 0.28
17 5 0.28
18 8 0.44
ACGTcount: A:0.08, C:0.05, G:0.00, T:0.86
Consensus pattern (18 bp):
TTTTTCATTTTTCATTTT
Found at i:686023 original size:21 final size:22
Alignment explanation
Indices: 685980--686023 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
685970 CCTGTTCAAG
* * *
685980 TTTTTCCTTCTTCAGCTTCTTC
1 TTTTTCCTTCTCCAACTTATTC
686002 TTTTT-CTTCTCCAACTTATTC
1 TTTTTCCTTCTCCAACTTATTC
686023 T
1 T
686024 GAATGTGCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.09, C:0.30, G:0.02, T:0.59
Consensus pattern (22 bp):
TTTTTCCTTCTCCAACTTATTC
Found at i:688916 original size:21 final size:22
Alignment explanation
Indices: 688890--688930 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
688880 TGGATGAAAA
688890 TGTACTT-TGATTT-CATGGTTG
1 TGTACTTGT-ATTTGCATGGTTG
688911 TGTACTTGTATTTGCATGGT
1 TGTACTTGTATTTGCATGGT
688931 ATTTATATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.15, C:0.10, G:0.24, T:0.51
Consensus pattern (22 bp):
TGTACTTGTATTTGCATGGTTG
Found at i:696888 original size:19 final size:20
Alignment explanation
Indices: 696846--696889 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
696836 TTTATATTAT
* *
696846 ATTATCATATTATATTTAAA
1 ATTATCAAATTATATTGAAA
*
696866 ATTATCAAATT-TATTGAAG
1 ATTATCAAATTATATTGAAA
696885 ATTAT
1 ATTAT
696890 ATTTTCTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (20 bp):
ATTATCAAATTATATTGAAA
Found at i:697471 original size:12 final size:13
Alignment explanation
Indices: 697454--697482 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
697444 TGCGACTGAA
697454 AAAAAATTTTA-T
1 AAAAAATTTTATT
697466 AAAAAATTTTATT
1 AAAAAATTTTATT
697479 AAAA
1 AAAA
697483 TTAATTTTTA
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAAAAATTTTATT
Found at i:700131 original size:25 final size:24
Alignment explanation
Indices: 700077--700131 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
700067 AACACAAATT
*
700077 TAAAAAAATCAATTTAAAATTTTA
1 TAAAAAAATCAATTTAAAATTTGA
**
700101 -ACAAAAAATTTATTTATAAATTTGA
1 TA-AAAAAATCAATTTA-AAATTTGA
700126 TAAAAA
1 TAAAAA
700132 TTAATATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 1 0.04
24 12 0.48
25 11 0.44
26 1 0.04
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (24 bp):
TAAAAAAATCAATTTAAAATTTGA
Found at i:700196 original size:17 final size:16
Alignment explanation
Indices: 700155--700201 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
700145 ATATATCAAC
*
700155 ATAAATTATTA-TTTA
1 ATAAATTAATATTTTA
*
700170 ATAATTTTAATATTTTA
1 ATAA-ATTAATATTTTA
700187 TATAAATTAATATTT
1 -ATAAATTAATATTT
700202 AGTACTATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 4 0.15
16 5 0.19
17 13 0.50
18 4 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATAAATTAATATTTTA
Found at i:700201 original size:33 final size:35
Alignment explanation
Indices: 700132--700213 Score: 96
Period size: 33 Copynumber: 2.4 Consensus size: 35
700122 TTGATAAAAA
*
700132 TTAATATATTTTAATATATCAACATAAATTATTAT
1 TTAATATATTTTAATATATCAACATAAATTAATAT
** *
700167 TTAATA-ATTTTAATAT-TTTATATAAATTAATAT
1 TTAATATATTTTAATATATCAACATAAATTAATAT
*
700200 TTAGTACTATTTTA
1 TTAATA-TATTTTA
700214 TATTAATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
33 18 0.45
34 10 0.25
35 12 0.30
ACGTcount: A:0.43, C:0.04, G:0.01, T:0.52
Consensus pattern (35 bp):
TTAATATATTTTAATATATCAACATAAATTAATAT
Found at i:700223 original size:33 final size:31
Alignment explanation
Indices: 700132--700223 Score: 76
Period size: 33 Copynumber: 2.7 Consensus size: 31
700122 TTGATAAAAA
* *
700132 TTAATATATTTTAATATATCAACATAAATTATTAT
1 TTAATA-ATTTT-ATAT-T-AATATAAATTAATAT
*
700167 TTAATAATTTTAATATTTTATATAAATTAATAT
1 TTAATAATTTT-ATA-TTAATATAAATTAATAT
*
700200 TTAGTACTATTTTATATTAATATA
1 TTAATA--ATTTTATATTAATATA
700224 TGAATACACA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
33 24 0.49
34 13 0.27
35 12 0.24
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.52
Consensus pattern (31 bp):
TTAATAATTTTATATTAATATAAATTAATAT
Found at i:700878 original size:15 final size:14
Alignment explanation
Indices: 700855--700906 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
700845 ACTCAAATAT
*
700855 AAATTTAATAATTTA
1 AAATATAATAA-TTA
700870 AAATATAATACATTA
1 AAATATAATA-ATTA
*
700885 ATATGAT-ATAATTA
1 AAAT-ATAATAATTA
700899 AAATATAA
1 AAATATAA
700907 AAATAATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
13 2 0.06
14 8 0.26
15 18 0.58
16 3 0.10
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (14 bp):
AAATATAATAATTA
Found at i:700970 original size:29 final size:29
Alignment explanation
Indices: 700908--700971 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 29
700898 AAAATATAAA
700908 AATA-ATATAATTCAAAATTTTAATAATT
1 AATATATATAATTCAAAATTTTAATAATT
* *
700936 ATTATATATAAATTTAATAATTTTAA-AA-T
1 AATATATAT-AATTCAA-AATTTTAATAATT
700965 AATATAT
1 AATATAT
700972 TTTATATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
28 3 0.10
29 11 0.37
30 8 0.27
31 8 0.27
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (29 bp):
AATATATATAATTCAAAATTTTAATAATT
Found at i:701016 original size:13 final size:12
Alignment explanation
Indices: 700989--701032 Score: 54
Period size: 13 Copynumber: 3.7 Consensus size: 12
700979 TTTTATATTC
700989 AATATAAATTAT
1 AATATAAATTAT
*
701001 AATATATAATTTT
1 AATATA-AATTAT
*
701014 AATATAAA-AAT
1 AATATAAATTAT
701025 AATATAAA
1 AATATAAA
701033 AATAAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 9 0.32
12 8 0.29
13 11 0.39
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
AATATAAATTAT
Found at i:701027 original size:11 final size:11
Alignment explanation
Indices: 701013--701037 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
701003 TATATAATTT
701013 TAATATAAAAA
1 TAATATAAAAA
701024 TAATATAAAAA
1 TAATATAAAAA
701035 TAA
1 TAA
701038 AATTTTATAT
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATATAAAAA
Found at i:701042 original size:30 final size:30
Alignment explanation
Indices: 701008--701071 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
700998 TATAATATAT
701008 AATTTTA-ATATAAAAATAATATAAAAATAA
1 AATTTTATAT-TAAAAATAATATAAAAATAA
* * * *
701038 AATTTTATATTATATATAATATAAATATAT
1 AATTTTATATTAAAAATAATATAAAAATAA
701068 AATT
1 AATT
701072 CATCAAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 27 0.93
31 2 0.07
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (30 bp):
AATTTTATATTAAAAATAATATAAAAATAA
Found at i:701662 original size:11 final size:11
Alignment explanation
Indices: 701646--701676 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
701636 AATAATTTTG
701646 TTTATTTATTA
1 TTTATTTATTA
701657 TTTATTTATTA
1 TTTATTTATTA
*
701668 TTTGTTTAT
1 TTTATTTAT
701677 AATAATATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (11 bp):
TTTATTTATTA
Found at i:701806 original size:18 final size:17
Alignment explanation
Indices: 701783--701830 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
701773 ATTTGTTTTA
701783 TTATAATTTATTTATTAT
1 TTATAATTTATTTATT-T
*
701801 TTATAAATATATTTATTT
1 TTAT-AATTTATTTATTT
*
701819 ATATATATTTAT
1 TTATA-ATTTAT
701831 GAATATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 1 0.04
18 13 0.52
19 11 0.44
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTATAATTTATTTATTT
Found at i:701815 original size:12 final size:12
Alignment explanation
Indices: 701798--701840 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
701788 ATTTATTTAT
701798 TATTTATAAATA
1 TATTTATAAATA
*
701810 TATTTATTTATATA
1 TATTTA--TAAATA
*
701824 TATTTATGAATA
1 TATTTATAAATA
701836 TATTT
1 TATTT
701841 GTTTAATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 15 0.58
14 11 0.42
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (12 bp):
TATTTATAAATA
Found at i:701818 original size:16 final size:14
Alignment explanation
Indices: 701797--701830 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 14
701787 AATTTATTTA
701797 TTATTTATAAATATAT
1 TTATTTAT--ATATAT
701813 TTATTTATATATAT
1 TTATTTATATATAT
701827 TTAT
1 TTAT
701831 GAATATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.56
16 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTATTTATATATAT
Found at i:701827 original size:26 final size:26
Alignment explanation
Indices: 701788--701849 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
701778 TTTTATTATA
*
701788 ATTTATTTATTATTTATAAATATATTT
1 ATTTATATA-TATTTATAAATATATTT
*
701815 ATTTATATATATTTATGAATATATTT
1 ATTTATATATATTTATAAATATATTT
*
701841 GTTTA-ATAT
1 ATTTATATAT
701850 TTACTAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
25 4 0.12
26 20 0.62
27 8 0.25
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (26 bp):
ATTTATATATATTTATAAATATATTT
Found at i:706317 original size:55 final size:55
Alignment explanation
Indices: 706247--706357 Score: 186
Period size: 55 Copynumber: 2.0 Consensus size: 55
706237 GAGACGTTTA
* *
706247 TATTTTTCTTCTTTGGCTTTTAGTGAAGCAGACTTTCTTTTAGGTACATAGAGTC
1 TATTTTTATTCTTTGGCTTTTAGTGAAGCAAACTTTCTTTTAGGTACATAGAGTC
* *
706302 TATTTTTATTGTTTGGCTTTTAGTGAAGCAAACTTTCTTTTAGGTACATGGAGTC
1 TATTTTTATTCTTTGGCTTTTAGTGAAGCAAACTTTCTTTTAGGTACATAGAGTC
706357 T
1 T
706358 TTTCCACAAC
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.21, C:0.13, G:0.19, T:0.48
Consensus pattern (55 bp):
TATTTTTATTCTTTGGCTTTTAGTGAAGCAAACTTTCTTTTAGGTACATAGAGTC
Found at i:707337 original size:13 final size:13
Alignment explanation
Indices: 707319--707357 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
707309 TTTGATTTGA
707319 ATTAAATTTAAAT
1 ATTAAATTTAAAT
* *
707332 ATTAAATATATAT
1 ATTAAATTTAAAT
707345 ATTAAATTTAAAT
1 ATTAAATTTAAAT
707358 CGAATTTCGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATTAAATTTAAAT
Found at i:707466 original size:16 final size:17
Alignment explanation
Indices: 707429--707465 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
707419 TAATTTAAAT
707429 TTTTATAAAAAAAATTA
1 TTTTATAAAAAAAATTA
* *
707446 TTTTATACAAAAATTTA
1 TTTTATAAAAAAAATTA
707463 TTT
1 TTT
707466 ACATATATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTTATAAAAAAAATTA
Found at i:715083 original size:31 final size:31
Alignment explanation
Indices: 715036--715100 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
715026 TTTTTGAATA
*
715036 TATAAATCAAGGCCTCACTCCTTACCAATTT
1 TATAAATCAAGACCTCACTCCTTACCAATTT
* *
715067 TATAGATCAAGACCTCACTCCTTATCAATTT
1 TATAAATCAAGACCTCACTCCTTACCAATTT
715098 TAT
1 TAT
715101 CAACCTTGGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.35
Consensus pattern (31 bp):
TATAAATCAAGACCTCACTCCTTACCAATTT
Found at i:715964 original size:6 final size:6
Alignment explanation
Indices: 715958--715992 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
715948 CAAGAGTTGG
* *
715958 TCCTGG TCCTGC TCCTGC TCCTGC TCCTGG TCCTG
1 TCCTGC TCCTGC TCCTGC TCCTGC TCCTGC TCCTG
715993 TTCCAGCTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.43, G:0.23, T:0.34
Consensus pattern (6 bp):
TCCTGC
Found at i:715979 original size:12 final size:12
Alignment explanation
Indices: 715958--715992 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
715948 CAAGAGTTGG
715958 TCCTGGTCCTGC
1 TCCTGGTCCTGC
*
715970 TCCTGCTCCTGC
1 TCCTGGTCCTGC
715982 TCCTGGTCCTG
1 TCCTGGTCCTG
715993 TTCCAGCTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.00, C:0.43, G:0.23, T:0.34
Consensus pattern (12 bp):
TCCTGGTCCTGC
Found at i:724258 original size:2 final size:2
Alignment explanation
Indices: 724253--724291 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
724243 AAATAGAAGG
*
724253 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA TA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
724292 TTAAATGATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.49, T:0.03
Consensus pattern (2 bp):
GA
Found at i:735116 original size:2 final size:2
Alignment explanation
Indices: 735109--735138 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
735099 TTTAGTTGTA
*
735109 AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
735139 TACAACTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:735605 original size:2 final size:2
Alignment explanation
Indices: 735598--735632 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
735588 CCATGTTAGC
735598 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
735633 TAGATAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:737681 original size:2 final size:2
Alignment explanation
Indices: 737674--737699 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
737664 GAAATGAATG
737674 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
737700 TTATCAGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:747531 original size:168 final size:167
Alignment explanation
Indices: 747253--747588 Score: 645
Period size: 168 Copynumber: 2.0 Consensus size: 167
747243 GCATATCTTA
747253 ACCAAACCTTTTGCATGGGCTCGCCACGTACGACGAGTCTGGCATGTTTAATAAAACAGTGCTAT
1 ACCAAACCTTTTGCATGGGCTCGCCACGTACGACGAGTCTGGCATGTTTAATAAAACAGTGCTAT
*
747318 TCCATTTGCATCAATGCCAAGTTAAATAATACATAGAATTTGCCTTTTCATAAAAATAATAAAAA
66 TCCATTTGCAACAATGCCAAGTTAAATAATACATAGAATTTGCC-TTTCATAAAAATAATAAAAA
747383 ATCATACATGCATCATCATCATCATTCGTACAAAAGAT
130 ATCATACATGCATCATCATCATCATTCGTACAAAAGAT
*
747421 ACCAAACCTTTTGCATGGGCTCGCCAGGTACGACGAGTCTGGCATGTTTAATAAAACAGTGCTAT
1 ACCAAACCTTTTGCATGGGCTCGCCACGTACGACGAGTCTGGCATGTTTAATAAAACAGTGCTAT
747486 TCCATTTGCAACAATGCCAAGTTAAATAATACATAGAATTTGCCTTTCATAAAAATAATAAAAAA
66 TCCATTTGCAACAATGCCAAGTTAAATAATACATAGAATTTGCCTTTCATAAAAATAATAAAAAA
747551 TCATACATGCATCATCATCATCATTCGTACAAAAGAT
131 TCATACATGCATCATCATCATCATTCGTACAAAAGAT
747588 A
1 A
747589 ACAGACCCAA
Statistics
Matches: 166, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
167 59 0.36
168 107 0.64
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.29
Consensus pattern (167 bp):
ACCAAACCTTTTGCATGGGCTCGCCACGTACGACGAGTCTGGCATGTTTAATAAAACAGTGCTAT
TCCATTTGCAACAATGCCAAGTTAAATAATACATAGAATTTGCCTTTCATAAAAATAATAAAAAA
TCATACATGCATCATCATCATCATTCGTACAAAAGAT
Found at i:749759 original size:17 final size:17
Alignment explanation
Indices: 749726--749771 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
749716 TGAATCGCAT
* *
749726 AAAATAAAATAATATTA
1 AAAATAAAATTAGATTA
*
749743 TAAATAAAATTAGATTA
1 AAAATAAAATTAGATTA
749760 AATAATAAAATT
1 AA-AATAAAATT
749772 TTATTTATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATAAAATTAGATTA
Found at i:762795 original size:168 final size:167
Alignment explanation
Indices: 762517--762852 Score: 645
Period size: 168 Copynumber: 2.0 Consensus size: 167
762507 GCATATCTTA
762517 ACCAAACCTTTTGCATGGGCTCGCCACGTACGACGAGTCTGGCATGTTTAATAAAACAGTGCTAT
1 ACCAAACCTTTTGCATGGGCTCGCCACGTACGACGAGTCTGGCATGTTTAATAAAACAGTGCTAT
*
762582 TCCATTTGCATCAATGCCAAGTTAAATAATACATAGAATTTGCCTTTTCATAAAAATAATAAAAA
66 TCCATTTGCAACAATGCCAAGTTAAATAATACATAGAATTTGCC-TTTCATAAAAATAATAAAAA
762647 ATCATACATGCATCATCATCATCATTCGTACAAAAGAT
130 ATCATACATGCATCATCATCATCATTCGTACAAAAGAT
*
762685 ACCAAACCTTTTGCATGGGCTCGCCAGGTACGACGAGTCTGGCATGTTTAATAAAACAGTGCTAT
1 ACCAAACCTTTTGCATGGGCTCGCCACGTACGACGAGTCTGGCATGTTTAATAAAACAGTGCTAT
762750 TCCATTTGCAACAATGCCAAGTTAAATAATACATAGAATTTGCCTTTCATAAAAATAATAAAAAA
66 TCCATTTGCAACAATGCCAAGTTAAATAATACATAGAATTTGCCTTTCATAAAAATAATAAAAAA
762815 TCATACATGCATCATCATCATCATTCGTACAAAAGAT
131 TCATACATGCATCATCATCATCATTCGTACAAAAGAT
762852 A
1 A
762853 ACAGACCCAA
Statistics
Matches: 166, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
167 59 0.36
168 107 0.64
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.29
Consensus pattern (167 bp):
ACCAAACCTTTTGCATGGGCTCGCCACGTACGACGAGTCTGGCATGTTTAATAAAACAGTGCTAT
TCCATTTGCAACAATGCCAAGTTAAATAATACATAGAATTTGCCTTTCATAAAAATAATAAAAAA
TCATACATGCATCATCATCATCATTCGTACAAAAGAT
Found at i:765019 original size:17 final size:17
Alignment explanation
Indices: 764986--765031 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
764976 TGAATCGCAT
* *
764986 AAAATAAAATAATATTA
1 AAAATAAAATTAGATTA
*
765003 TAAATAAAATTAGATTA
1 AAAATAAAATTAGATTA
765020 AATAATAAAATT
1 AA-AATAAAATT
765032 TTATTTATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATAAAATTAGATTA
Found at i:777260 original size:14 final size:15
Alignment explanation
Indices: 777243--777272 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
777233 TTATTTAACC
777243 ATAAATTC-AATTCA
1 ATAAATTCAAATTCA
777257 ATAAATTCAAATTCA
1 ATAAATTCAAATTCA
777272 A
1 A
777273 GTATCATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAAATTCAAATTCA
Found at i:779252 original size:27 final size:28
Alignment explanation
Indices: 779210--779292 Score: 78
Period size: 34 Copynumber: 2.8 Consensus size: 28
779200 GAGGCCAATG
**
779210 CATATTCCATGGAGAAAAAAAAAACATT
1 CATATTCCATAAAGAAAAAAAAAACATT
*
779238 -ATATTCCATATAGAAAACAAAATACTAAACATT
1 CATATTCCATA-A-AGAA-AAAA-A--AAACATT
779271 CATATTCCATAAAGAAAAAAAA
1 CATATTCCATAAAGAAAAAAAA
779293 TCATATTCCA
Statistics
Matches: 44, Mismatches: 4, Indels: 14
0.71 0.06 0.23
Matches are distributed among these distances:
27 9 0.20
28 1 0.02
29 3 0.07
30 5 0.11
31 5 0.11
32 3 0.07
33 8 0.18
34 10 0.23
ACGTcount: A:0.57, C:0.14, G:0.06, T:0.23
Consensus pattern (28 bp):
CATATTCCATAAAGAAAAAAAAAACATT
Found at i:779293 original size:33 final size:33
Alignment explanation
Indices: 779231--779293 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 33
779221 GAGAAAAAAA
*
779231 AAACATTATATTCCATATAGAAAACAAAATACT
1 AAACATTATATTCCATAAAGAAAACAAAATACT
779264 AAACATTCATATTCCATAAAGAAAA-AAAAT
1 AAACATT-ATATTCCATAAAGAAAACAAAAT
779294 CATATTCCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
33 12 0.43
34 16 0.57
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (33 bp):
AAACATTATATTCCATAAAGAAAACAAAATACT
Found at i:779311 original size:23 final size:24
Alignment explanation
Indices: 779270--779321 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
779260 TACTAAACAT
779270 TCATATTCCATAAAGAAAA-AAAA
1 TCATATTCCATAAAGAAAATAAAA
**
779293 TCATATTCCATAACTAAAATAAAA
1 TCATATTCCATAAAGAAAATAAAA
779317 T-ATAT
1 TCATAT
779322 AAAAGTCTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.56, C:0.13, G:0.02, T:0.29
Consensus pattern (24 bp):
TCATATTCCATAAAGAAAATAAAA
Found at i:779374 original size:97 final size:95
Alignment explanation
Indices: 779272--779464 Score: 314
Period size: 97 Copynumber: 2.0 Consensus size: 95
779262 CTAAACATTC
*
779272 ATATTCCATAAAGAAAAAAAATCATATTCCATAACTAAAATAAAATATATAAAAGTCTCCATATA
1 ATATTCCATAAAGAAAAAAAATCATATTCCATAAATAAAATAAAATATATAAAAGTCT-C-TATA
*
779337 TAATAAAACTAGTAAATTAGAGAAAATAAAAT
64 TAATAAAACTACTAAATTAGAGAAAATAAAAT
* * * *
779369 ATATTCCATAGAGAAAAGACATCATATTCCATAAATAAAATAAAATATATAGAAGTCTCTATATA
1 ATATTCCATAAAGAAAAAAAATCATATTCCATAAATAAAATAAAATATATAAAAGTCTCTATATA
779434 ATAAAACTACTAAATTAGAGAAAATAAAAT
66 ATAAAACTACTAAATTAGAGAAAATAAAAT
779464 A
1 A
779465 GATAGTATTC
Statistics
Matches: 90, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
95 36 0.40
96 1 0.01
97 53 0.59
ACGTcount: A:0.56, C:0.10, G:0.06, T:0.27
Consensus pattern (95 bp):
ATATTCCATAAAGAAAAAAAATCATATTCCATAAATAAAATAAAATATATAAAAGTCTCTATATA
ATAAAACTACTAAATTAGAGAAAATAAAAT
Found at i:779380 original size:23 final size:23
Alignment explanation
Indices: 779354--779418 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 23
779344 ACTAGTAAAT
779354 TAGAGAAAATAAAATATATTCCA
1 TAGAGAAAATAAAATATATTCCA
* *
779377 TAGAGAAAA-GACATCATATTCCA
1 TAGAGAAAATAAAAT-ATATTCCA
* *
779400 TAAATAAAATAAAATATAT
1 TAGAGAAAATAAAATATAT
779419 AGAAGTCTCT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
22 3 0.09
23 28 0.82
24 3 0.09
ACGTcount: A:0.57, C:0.09, G:0.08, T:0.26
Consensus pattern (23 bp):
TAGAGAAAATAAAATATATTCCA
Found at i:780031 original size:21 final size:22
Alignment explanation
Indices: 780001--780052 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
779991 GATATTTTTA
780001 AATA-TTTATA-TTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
780021 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
780043 AATATTTTAT
1 AATATTTTAT
780053 TAATTCGGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.13
21 6 0.20
22 20 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:780548 original size:19 final size:20
Alignment explanation
Indices: 780511--780554 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
780501 TCGAATCGAA
*
780511 TTATATATTTTTCTTAATTT
1 TTATATATTTTTCTAAATTT
780531 TTATATATTTTT-TAAATTT
1 TTATATATTTTTCTAAATTT
780550 TTATA
1 TTATA
780555 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (20 bp):
TTATATATTTTTCTAAATTT
Found at i:780699 original size:21 final size:23
Alignment explanation
Indices: 780675--780725 Score: 79
Period size: 21 Copynumber: 2.3 Consensus size: 23
780665 AATTTAATTC
*
780675 AATTTAGTTCGAA-TCAAAT-AA
1 AATTTAATTCGAATTCAAATCAA
780696 AATTTAATTCGAATTCAAATCAA
1 AATTTAATTCGAATTCAAATCAA
780719 AATTTAA
1 AATTTAA
780726 AATTTTATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 12 0.44
22 6 0.22
23 9 0.33
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.35
Consensus pattern (23 bp):
AATTTAATTCGAATTCAAATCAA
Found at i:781600 original size:16 final size:16
Alignment explanation
Indices: 781581--781614 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
781571 TGAATCATCA
781581 TAAATTTAAATTATTT
1 TAAATTTAAATTATTT
**
781597 TAAATTTCGATTATTT
1 TAAATTTAAATTATTT
781613 TA
1 TA
781615 TATTAGTGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (16 bp):
TAAATTTAAATTATTT
Found at i:784246 original size:12 final size:12
Alignment explanation
Indices: 784229--784265 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
784219 TGATGTGCTT
784229 CATAGCCAAGCA
1 CATAGCCAAGCA
784241 CATAGCCAAGCA
1 CATAGCCAAGCA
784253 CATAGCCAAGCA
1 CATAGCCAAGCA
784265 C
1 C
784266 CTTTTCAGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.41, C:0.35, G:0.16, T:0.08
Consensus pattern (12 bp):
CATAGCCAAGCA
Found at i:787341 original size:27 final size:27
Alignment explanation
Indices: 787310--787362 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
787300 AATCATAGCC
*
787310 ATTTATCTTCTATTTGTAACATTTGTA
1 ATTTATCTTCTATTTATAACATTTGTA
* *
787337 ATTTATCTTGTATTTATAGCATTTGT
1 ATTTATCTTCTATTTATAACATTTGT
787363 TCAAATCATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.25, C:0.09, G:0.09, T:0.57
Consensus pattern (27 bp):
ATTTATCTTCTATTTATAACATTTGTA
Found at i:790053 original size:29 final size:29
Alignment explanation
Indices: 790011--790068 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
790001 GTGTGAGGAC
790011 GAGAAAGGTAATAAACCATAAACAAAAAA
1 GAGAAAGGTAATAAACCATAAACAAAAAA
790040 GAGAAAGGTAATAAACCATAAACAAAAAA
1 GAGAAAGGTAATAAACCATAAACAAAAAA
790069 AAAAACAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.66, C:0.10, G:0.14, T:0.10
Consensus pattern (29 bp):
GAGAAAGGTAATAAACCATAAACAAAAAA
Found at i:790123 original size:23 final size:23
Alignment explanation
Indices: 790086--790131 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
790076 GAGGCCAATG
* *
790086 CATATTGCATGGAGAAAAAAAAT
1 CATATTCCATAGAGAAAAAAAAT
*
790109 CATATTCCATAGAGAAAACAAAT
1 CATATTCCATAGAGAAAAAAAAT
790132 TACTTGACCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.52, C:0.13, G:0.13, T:0.22
Consensus pattern (23 bp):
CATATTCCATAGAGAAAAAAAAT
Found at i:791874 original size:20 final size:20
Alignment explanation
Indices: 791849--791893 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
791839 GGAGGAAAGA
791849 TTTACAAATCCCAGTTCAGT
1 TTTACAAATCCCAGTTCAGT
791869 TTTACAAATCCCAGTTCAGT
1 TTTACAAATCCCAGTTCAGT
791889 TTTAC
1 TTTAC
791894 TGAATTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (20 bp):
TTTACAAATCCCAGTTCAGT
Found at i:792456 original size:10 final size:10
Alignment explanation
Indices: 792426--792466 Score: 55
Period size: 10 Copynumber: 3.9 Consensus size: 10
792416 TTATTTTTTA
792426 ATATAAATAT
1 ATATAAATAT
*
792436 AAAATTAAATAT
1 -ATA-TAAATAT
792448 ATATAAATAT
1 ATATAAATAT
792458 ATATAAATA
1 ATATAAATA
792467 AAATTAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
10 16 0.59
11 4 0.15
12 7 0.26
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATATAAATAT
Found at i:792952 original size:17 final size:18
Alignment explanation
Indices: 792913--792953 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
792903 TTTACAAAAT
792913 TTTAA-AAAATATATAAAA
1 TTTAATAAAATATAT-AAA
*
792931 GTTAATAAAATATAT-AA
1 TTTAATAAAATATATAAA
792948 TTTAAT
1 TTTAAT
792954 TAGGTTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 7 0.35
18 4 0.20
19 9 0.45
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (18 bp):
TTTAATAAAATATATAAA
Found at i:793997 original size:16 final size:16
Alignment explanation
Indices: 793976--794007 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
793966 GTATATGCTT
*
793976 AAAATATTTCAAATTC
1 AAAATAATTCAAATTC
793992 AAAATAATTCAAATTC
1 AAAATAATTCAAATTC
794008 TTATGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAATAATTCAAATTC
Found at i:794022 original size:16 final size:16
Alignment explanation
Indices: 794003--794041 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
793993 AAATAATTCA
*
794003 AATTCTTATGAATTTG
1 AATTATTATGAATTTG
*
794019 AATTATTTTGAATTTG
1 AATTATTATGAATTTG
*
794035 AAATATT
1 AATTATT
794042 TTTAAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.51
Consensus pattern (16 bp):
AATTATTATGAATTTG
Found at i:794042 original size:16 final size:16
Alignment explanation
Indices: 794011--794043 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
794001 CAAATTCTTA
*
794011 TGAATTTGAATTATTT
1 TGAATTTGAAATATTT
794027 TGAATTTGAAATATTT
1 TGAATTTGAAATATTT
794043 T
1 T
794044 TAAATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.55
Consensus pattern (16 bp):
TGAATTTGAAATATTT
Found at i:794228 original size:16 final size:16
Alignment explanation
Indices: 794189--794228 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
794179 TTCATGTAAT
* **
794189 TTTAAATAATTTTTGA
1 TTTAAATTATTTTAAA
794205 TTTAAATTATTTTAAA
1 TTTAAATTATTTTAAA
794221 TTTAAATT
1 TTTAAATT
794229 TTTGATTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
TTTAAATTATTTTAAA
Found at i:795149 original size:16 final size:17
Alignment explanation
Indices: 795130--795167 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
795120 AATTATCTTT
*
795130 ATTTAAA-ATTTATATG
1 ATTTAAATATTTATATA
795146 ATTTAAATTATTTATATA
1 ATTTAAA-TATTTATATA
795164 ATTT
1 ATTT
795168 TTAAGAAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 7 0.37
18 12 0.63
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
ATTTAAATATTTATATA
Found at i:799430 original size:18 final size:18
Alignment explanation
Indices: 799407--799442 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
799397 TGGTAAATTA
799407 ACTCATTATTACTTCATC
1 ACTCATTATTACTTCATC
799425 ACTCATTATTACTTCATC
1 ACTCATTATTACTTCATC
799443 CTCTGCTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.44
Consensus pattern (18 bp):
ACTCATTATTACTTCATC
Found at i:805226 original size:32 final size:32
Alignment explanation
Indices: 805190--805251 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
805180 CTGAATGATA
*
805190 GTGCATCATAAGGGTCATTAAACCATAAGCCT
1 GTGCATAATAAGGGTCATTAAACCATAAGCCT
* *
805222 GTGCATAATAATGGTCATTAAATCATAAGC
1 GTGCATAATAAGGGTCATTAAACCATAAGC
805252 TTGGCTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (32 bp):
GTGCATAATAAGGGTCATTAAACCATAAGCCT
Found at i:805715 original size:7 final size:7
Alignment explanation
Indices: 805682--805751 Score: 53
Period size: 7 Copynumber: 10.3 Consensus size: 7
805672 ATAAGTTCAT
805682 TTTA-TA
1 TTTATTA
805688 TTTA-TA
1 TTTATTA
805694 TTTA-TA
1 TTTATTA
805700 -TT-TTA
1 TTTATTA
805705 -TTATTA
1 TTTATTA
805711 TTTATTAA
1 TTTATT-A
805719 TATATATTA
1 T-T-TATTA
805728 TTTATTA
1 TTTATTA
805735 TTTATCTA
1 TTTAT-TA
*
805743 TTAATTA
1 TTTATTA
805750 TT
1 TT
805752 AATATGTATT
Statistics
Matches: 56, Mismatches: 1, Indels: 13
0.80 0.01 0.19
Matches are distributed among these distances:
5 6 0.11
6 15 0.27
7 19 0.34
8 9 0.16
9 3 0.05
10 4 0.07
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (7 bp):
TTTATTA
Found at i:805737 original size:35 final size:36
Alignment explanation
Indices: 805692--805776 Score: 108
Period size: 35 Copynumber: 2.5 Consensus size: 36
805682 TTTATATTTA
*
805692 TATTTA-TATTTTAT-TATTATTTATTAATATATAT
1 TATTTATTATTTTATCTATTAATTATTAATATATAT
*
805726 TATTTATTA-TTTATCTATTAATTATTAATATGTAT
1 TATTTATTATTTTATCTATTAATTATTAATATATAT
805761 T-TTT-TTGATTTTATCT
1 TATTTATT-ATTTTATCT
805777 TGATTGATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
33 2 0.04
34 15 0.33
35 28 0.62
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (36 bp):
TATTTATTATTTTATCTATTAATTATTAATATATAT
Found at i:806244 original size:33 final size:33
Alignment explanation
Indices: 806198--806264 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
806188 ATTTTGTTTA
*
806198 GAGAGAAAGAGGAGAAAAAGGAAGAAGAGAAGG
1 GAGAGAAAAAGGAGAAAAAGGAAGAAGAGAAGG
806231 GAGAGAAAAAGGAGAAAAAGGAAGAAGAGAAGG
1 GAGAGAAAAAGGAGAAAAAGGAAGAAGAGAAGG
806264 G
1 G
806265 GAAATGAAGC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (33 bp):
GAGAGAAAAAGGAGAAAAAGGAAGAAGAGAAGG
Found at i:806556 original size:9 final size:10
Alignment explanation
Indices: 806538--806566 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
806528 GTTTTTTTTC
806538 TTATTTATTA
1 TTATTTATTA
806548 TTA-TTATTA
1 TTATTTATTA
806557 TTATTTATTA
1 TTATTTATTA
806567 GATTAGAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTATTTATTA
Found at i:806796 original size:59 final size:58
Alignment explanation
Indices: 806624--806802 Score: 247
Period size: 59 Copynumber: 3.1 Consensus size: 58
806614 TTTTTTAATG
* * * *
806624 ATTTTC-TTAAAATAAAATTCTAAAAAAAATATTTTCGAGCGAAAAGTTGAAAGTATCA
1 ATTTTCTTTAAAATAAATTTTTAAAAAAAATATTTTTGAG-GAAAAGTTAAAAGTATCA
* * *
806682 ATTTTTCTTGAAAAT-AATTTTT-TAAAAAATATTTTTGAGGAAAAGGTAAAAGTATCA
1 A-TTTTCTTTAAAATAAATTTTTAAAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCA
806739 ATTTTCTTTAAAAATAAATTTTTAAAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCA
1 ATTTTCTTT-AAAATAAATTTTTAAAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCA
806798 ATTTT
1 ATTTT
806803 TTTCGAAATT
Statistics
Matches: 106, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
56 7 0.07
57 22 0.21
58 23 0.22
59 48 0.45
60 6 0.06
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (58 bp):
ATTTTCTTTAAAATAAATTTTTAAAAAAAATATTTTTGAGGAAAAGTTAAAAGTATCA
Found at i:806857 original size:116 final size:116
Alignment explanation
Indices: 806624--806873 Score: 267
Period size: 116 Copynumber: 2.2 Consensus size: 116
806614 TTTTTTAATG
* *
806624 ATTTTCTT-AAAATAAAATTCTAAAAAAAATATTTTCGAGCGAAAAGTTGAAAGTATCAATTTTT
1 ATTTTCTTAAAAATAAATTTCTAAAAAAAATATTTTCGAGCGAAAAGTTAAAAGTATCAATTTTT
** * * * * *
806688 CTTGAAAATAATTTTTTAAAAAATATTTTTGAGGAAAAGGTAAAAGTATCA
66 CTTGAAAATAAAGTTTCAAAAAACATTTTCGAGGAAAAAGTAAAAGTACCA
* *
806739 ATTTTCTTTAAAAATAAATTTTTAAAAAAAATATTTTTGAG-GAAAAGTTAAAAGTATCAATTTT
1 ATTTTC-TTAAAAATAAATTTCTAAAAAAAATATTTTCGAGCGAAAAGTTAAAAGTATCAATTTT
* * ** *
806803 T-TTCGAAATTAAAGTTTCAGAAAAACA-TTTCG-GGAAAAAATTGGAAGTGCCA
65 TCTT-GAAAATAAAGTTTCA-AAAAACATTTTCGAGG-AAAAAGTAAAAGTACCA
*
806855 ATTTTCCTTAAAAAAAAAT
1 ATTTT-CTTAAAAATAAAT
806874 CGTTTTGAGA
Statistics
Matches: 112, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
115 10 0.09
116 67 0.60
117 35 0.31
ACGTcount: A:0.46, C:0.07, G:0.11, T:0.36
Consensus pattern (116 bp):
ATTTTCTTAAAAATAAATTTCTAAAAAAAATATTTTCGAGCGAAAAGTTAAAAGTATCAATTTTT
CTTGAAAATAAAGTTTCAAAAAACATTTTCGAGGAAAAAGTAAAAGTACCA
Found at i:817381 original size:16 final size:15
Alignment explanation
Indices: 817360--817409 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
817350 AAAAAAAATG
*
817360 AAAAAAATGAAATGA
1 AAAAAAATGAAAAGA
817375 AAAAAAATGAAAAGAA
1 AAAAAAATGAAAAG-A
*
817391 AAAAAAAAGAAAA-A
1 AAAAAAATGAAAAGA
817405 AAAAA
1 AAAAA
817410 GGGAATGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
14 6 0.19
15 13 0.41
16 13 0.41
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (15 bp):
AAAAAAATGAAAAGA
Found at i:817398 original size:11 final size:11
Alignment explanation
Indices: 817384--817410 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
817374 AAAAAAAATG
817384 AAAAGAAAAAA
1 AAAAGAAAAAA
817395 AAAAGAAAAAA
1 AAAAGAAAAAA
817406 AAAAG
1 AAAAG
817411 GGAATGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAA
Found at i:817407 original size:14 final size:14
Alignment explanation
Indices: 817348--817409 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
817338 TATTATGCTT
*
817348 AAAAAAAAAATGAA
1 AAAAAAAAAAAGAA
** *
817362 AAAAATGAAATGAA
1 AAAAAAAAAAAGAA
*
817376 AAAAAATGAAAAGAA
1 AAAAAA-AAAAAGAA
817391 AAAAAAAAGAAA-AA
1 AAAAAAAA-AAAGAA
817405 AAAAA
1 AAAAA
817410 GGGAATGAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
14 25 0.61
15 16 0.39
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (14 bp):
AAAAAAAAAAAGAA
Found at i:817421 original size:15 final size:15
Alignment explanation
Indices: 817355--817396 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
817345 CTTAAAAAAA
817355 AAATG-AAAAAAATG
1 AAATGAAAAAAAATG
817369 AAATGAAAAAAAATG
1 AAATGAAAAAAAATG
*
817384 AAAAGAAAAAAAA
1 AAATGAAAAAAAA
817397 AAGAAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 5 0.19
15 21 0.81
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.10
Consensus pattern (15 bp):
AAATGAAAAAAAATG
Found at i:818472 original size:44 final size:44
Alignment explanation
Indices: 818413--818626 Score: 297
Period size: 44 Copynumber: 4.9 Consensus size: 44
818403 TCAAGGAGCA
* * *
818413 ATTTATTTTTTTAAAGTCGTTGAGCCTCTGTTTATAGGAGCTTT
1 ATTTATTTTTCTAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
*
818457 ATTTATTTTTCTAAAGTCGTGGAGCCTCTGATTAGAGGAGCTTT
1 ATTTATTTTTCTAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
*
818501 ATTTATTTTT-TCAAAGTCGTTGAGCCTCTGATTAGAGTAGCTTT
1 ATTTATTTTTCT-AAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
* * *
818545 ATTTATTTTTC-AAAGTTGTTGAGCCTCTGATTAGAGAAGTTTT
1 ATTTATTTTTCTAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
* * * *
818588 GTTTATTTTTCCAAAGTCGTTGAGTCTCTGCTTAGAGGA
1 ATTTATTTTTCTAAAGTCGTTGAGCCTCTGATTAGAGGA
818627 ACTTAATCAA
Statistics
Matches: 153, Mismatches: 14, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
43 40 0.26
44 113 0.74
ACGTcount: A:0.22, C:0.13, G:0.20, T:0.45
Consensus pattern (44 bp):
ATTTATTTTTCTAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
Found at i:818593 original size:87 final size:88
Alignment explanation
Indices: 818413--818626 Score: 313
Period size: 87 Copynumber: 2.4 Consensus size: 88
818403 TCAAGGAGCA
* * *
818413 ATTTATTTTTTTAAAGTCGTTGAGCCTCTGTTTATAGGAGCTTTATTTATTTTTCTAAAGTCGTG
1 ATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTATTTATTTTTCTAAAGTCGTG
*
818478 GAGCCTCTGATTAGAGGAGCTTT
66 GAGCCTCTGATTAGAGAAGCTTT
* * *
818501 ATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGTAGCTTTATTTATTTTTC-AAAGTTGTT
1 ATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTATTTATTTTTCTAAAGTCGTG
*
818565 GAGCCTCTGATTAGAGAAGTTTT
66 GAGCCTCTGATTAGAGAAGCTTT
* * * *
818588 GTTTATTTTTCCAAAGTCGTTGAGTCTCTGCTTAGAGGA
1 ATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGA
818627 ACTTAATCAA
Statistics
Matches: 113, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
87 62 0.55
88 51 0.45
ACGTcount: A:0.22, C:0.13, G:0.20, T:0.45
Consensus pattern (88 bp):
ATTTATTTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTTATTTATTTTTCTAAAGTCGTG
GAGCCTCTGATTAGAGAAGCTTT
Found at i:819776 original size:19 final size:19
Alignment explanation
Indices: 819752--819798 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
819742 TGAGGAAAAA
*
819752 TTGAAAGTATCAATTTTCC
1 TTGAAAATATCAATTTTCC
819771 TTGAAAATATCAATTTTCC
1 TTGAAAATATCAATTTTCC
819790 TTGAAAATA
1 TTGAAAATA
819799 ATTTTCTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (19 bp):
TTGAAAATATCAATTTTCC
Found at i:819951 original size:59 final size:58
Alignment explanation
Indices: 819771--820027 Score: 279
Period size: 58 Copynumber: 4.4 Consensus size: 58
819761 TCAATTTTCC
* * *
819771 TTGAAAATATCAATTTTCCTTGAAAAT-AATTTTCTAAAAAATATTTTTGAGGAAAAG
1 TTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCTAAAAAATATTTTTGAGGAAAAG
* * * *
819828 GTAAAAGTATTAATTTTTCTTAAAAATAAAATTTT-TAAAAAATATTTTTGAAGAAAAG
1 TTGAAAGTATCAATTTTTCTTAAAAAT-AAATTTTCTAAAAAATATTTTTGAGGAAAAG
* * *
819886 TTGAAAGTATCAATTTTTCTTAAAAATAAATTTTTTTAAAAAATGTCTTT-AGGGAAAAG
1 TTGAAAGTATCAATTTTTCTTAAAAATAAA-TTTTCTAAAAAATATTTTTGA-GGAAAAG
* ** * * * * *
819945 TTGAAAGTATCAATTTTTATCGAAATTAAAGTTTCAAAAAAATATTTTGGA-GAAAAA
1 TTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCTAAAAAATATTTTTGAGGAAAAG
* *
820002 ATGAAAGTACCAATTTTTCTTAAAAA
1 TTGAAAGTATCAATTTTTCTTAAAAA
820028 AAAAAACGTT
Statistics
Matches: 164, Mismatches: 30, Indels: 12
0.80 0.15 0.06
Matches are distributed among these distances:
57 49 0.30
58 64 0.39
59 51 0.31
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (58 bp):
TTGAAAGTATCAATTTTTCTTAAAAATAAATTTTCTAAAAAATATTTTTGAGGAAAAG
Found at i:820742 original size:2 final size:2
Alignment explanation
Indices: 820731--820766 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
820721 GCTTCCTGCG
820731 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
820767 GGAAGAACAG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:829387 original size:112 final size:112
Alignment explanation
Indices: 829206--829407 Score: 298
Period size: 112 Copynumber: 1.8 Consensus size: 112
829196 TGACGTAGTA
* * *
829206 TTTCAAGATGTCTGAAAAAAGTATGTCCAGTATATCTATGCCTAAGTTTAAGATTTCGTTATTTG
1 TTTCAAGATGTCTGAAAAAAGTAAGTCCAATATATCTATACCTAAGTTTAAGATTTCGTTATTTG
*
829271 ATGAAAATAGTAATTTCATGTTATGGCCAAGAGATTGTGAAGCAATG
66 ATGAAAAGAGTAATTTCATGTTATGGCCAAGAGATTGTGAAGCAATG
* * * * * *
829318 TTTCAAGATGTTTGAAGAAAA-TAAGTCTAATATGTCTATACCTTAGTTTGAGATTTTGTTATTT
1 TTTCAAGATGTCTGAA-AAAAGTAAGTCCAATATATCTATACCTAAGTTTAAGATTTCGTTATTT
829382 GATGAAAAGAGTAATTTCATGTTATG
65 GATGAAAAGAGTAATTTCATGTTATG
829408 ACAAAGTAAG
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
112 75 0.95
113 4 0.05
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.39
Consensus pattern (112 bp):
TTTCAAGATGTCTGAAAAAAGTAAGTCCAATATATCTATACCTAAGTTTAAGATTTCGTTATTTG
ATGAAAAGAGTAATTTCATGTTATGGCCAAGAGATTGTGAAGCAATG
Found at i:835465 original size:2 final size:2
Alignment explanation
Indices: 835458--835492 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
835448 TTAATTACTT
835458 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
835493 TAAATGTAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:836650 original size:22 final size:23
Alignment explanation
Indices: 836605--836652 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
836595 GAGACCTGCA
*
836605 TTAATTTAAAAATATTATTTATT
1 TTAATTTAAAAATATTATTGATT
*
836628 TTAATTTAAAAATTTTA-TGATT
1 TTAATTTAAAAATATTATTGATT
836650 TTA
1 TTA
836653 TTTCACAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
TTAATTTAAAAATATTATTGATT
Found at i:837137 original size:22 final size:22
Alignment explanation
Indices: 837112--837179 Score: 52
Period size: 23 Copynumber: 3.0 Consensus size: 22
837102 TCATTTGTAG
837112 ATATCTATATTTAATTTATAAA
1 ATATCTATATTTAATTTATAAA
*
837134 ATAT-TATTTTTTTAATTTA-AAA
1 ATATCTA--TATTTAATTTATAAA
* *
837156 ATCTC-ATAATTTTATTTCATAAA
1 ATATCTAT-ATTTAATTT-ATAAA
837179 A
1 A
837180 AATATTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 11
0.71 0.08 0.22
Matches are distributed among these distances:
20 1 0.03
21 9 0.25
22 12 0.33
23 14 0.39
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (22 bp):
ATATCTATATTTAATTTATAAA
Found at i:837590 original size:31 final size:32
Alignment explanation
Indices: 837541--837617 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 32
837531 ATAAAGAATA
* * *
837541 TTTTATTTTT-GTTTTTAAATTTTATA-TTAT
1 TTTTATTTTTATTTTTTAAAATTTAAATTTAT
837571 TTTTATTTTTATTTTTTAAAATTTAAATTTAT
1 TTTTATTTTTATTTTTTAAAATTTAAATTTAT
**
837603 AATTA-TTTTATTTTT
1 TTTTATTTTTATTTTT
837618 ATAGATATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
30 10 0.25
31 23 0.57
32 7 0.17
ACGTcount: A:0.27, C:0.00, G:0.01, T:0.71
Consensus pattern (32 bp):
TTTTATTTTTATTTTTTAAAATTTAAATTTAT
Found at i:837715 original size:23 final size:23
Alignment explanation
Indices: 837674--837735 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
837664 AAAAATTTAA
*
837674 AAAATATTAATTT-TAATTAATTT
1 AAAATAATAATTTATAATT-ATTT
837697 AAAATAATAATTTAT-ATTATTT
1 AAAATAATAATTTATAATTATTT
*
837719 AATAAAAATATATTTAT
1 AA-AATAATA-ATTTAT
837736 TAAATATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 6 0.18
23 21 0.62
24 7 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
AAAATAATAATTTATAATTATTT
Found at i:837722 original size:20 final size:19
Alignment explanation
Indices: 837698--837746 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
837688 AATTAATTTA
*
837698 AAATAATAATTTATATTATT
1 AAATAATAATATAT-TTATT
* *
837718 TAATAAAAATATATTTATT
1 AAATAATAATATATTTATT
837737 AAATATATAA
1 AAATA-ATAA
837747 AAATATATAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AAATAATAATATATTTATT
Found at i:838386 original size:6 final size:6
Alignment explanation
Indices: 838375--838399 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
838365 GTGGAGCGCC
838375 TTCGTG TTCGTG TTCGTG TTCGTG T
1 TTCGTG TTCGTG TTCGTG TTCGTG T
838400 CGGTGTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.32, T:0.52
Consensus pattern (6 bp):
TTCGTG
Found at i:840056 original size:16 final size:16
Alignment explanation
Indices: 840035--840066 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
840025 CAAAAAGAAG
840035 AATCCTAAGCATGCGT
1 AATCCTAAGCATGCGT
840051 AATCCTAAGCATGCGT
1 AATCCTAAGCATGCGT
840067 CATAAATTCA
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:0.25, G:0.19, T:0.25
Consensus pattern (16 bp):
AATCCTAAGCATGCGT
Found at i:840711 original size:32 final size:36
Alignment explanation
Indices: 840675--840760 Score: 101
Period size: 37 Copynumber: 2.5 Consensus size: 36
840665 TATATTATTT
*
840675 TTATTTTTATTTTT-TA-AAATTTAA-ATTTAT-AA
1 TTATTTTTATTTTTATAGAAATTTAATATATATAAA
*
840707 TTA-TTTTATTTTTATAGATATTTAATATATATAAA
1 TTATTTTTATTTTTATAGAAATTTAATATATATAAA
*
840742 TAATTTTTTATTTTTATAG
1 TTA-TTTTTATTTTTATAG
840761 TTTTAAAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
31 10 0.22
32 5 0.11
33 7 0.16
34 5 0.11
35 4 0.09
37 14 0.31
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (36 bp):
TTATTTTTATTTTTATAGAAATTTAATATATATAAA
Found at i:840817 original size:23 final size:22
Alignment explanation
Indices: 840776--840822 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
840766 AAAAATTTTA
*
840776 AAAATATTAATTTTAATTAATTT
1 AAAATAATAATTTTAATT-ATTT
840799 AAAATAATAA-TTTATATTATTT
1 AAAATAATAATTTTA-ATTATTT
840821 AA
1 AA
840823 TAAAAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AAAATAATAATTTTAATTATTT
Found at i:840830 original size:23 final size:23
Alignment explanation
Indices: 840787--840835 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 23
840777 AAATATTAAT
*
840787 TTTAATTAATTTAAAATAATA-A
1 TTTAATTAATTTAAAAAAATATA
840809 TTTATATT-ATTTAATAAAAATATA
1 TTTA-ATTAATTTAA-AAAAATATA
840833 TTT
1 TTT
840836 GTTAAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 10 0.43
23 9 0.39
24 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TTTAATTAATTTAAAAAAATATA
Found at i:842003 original size:11 final size:11
Alignment explanation
Indices: 841987--842016 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
841977 TGATTTAAAA
841987 ATGAGATCAAG
1 ATGAGATCAAG
841998 ATGAGATCAAG
1 ATGAGATCAAG
*
842009 ATAAGATC
1 ATGAGATC
842017 GAGAGACTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.47, C:0.10, G:0.23, T:0.20
Consensus pattern (11 bp):
ATGAGATCAAG
Found at i:843816 original size:16 final size:16
Alignment explanation
Indices: 843797--843835 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
843787 TATAAATATT
843797 TAAAAATATTATTAT-A
1 TAAAAATA-TATTATAA
*
843813 TAAATATATATTATAA
1 TAAAAATATATTATAA
843829 TAAAAAT
1 TAAAAAT
843836 TAAATAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAAAAATATATTATAA
Found at i:843835 original size:18 final size:18
Alignment explanation
Indices: 843802--843861 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
843792 ATATTTAAAA
* *
843802 ATATTATTATATAAATAT
1 ATATTATAATAAAAATAT
*
843820 ATATTATAATAAAAATTAA
1 ATATTATAATAAAAA-TAT
843839 ATAATTA-AATTAAAAA-AT
1 AT-ATTATAA-TAAAAATAT
843857 ATATT
1 ATATT
843862 TTTATATAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
17 3 0.09
18 16 0.46
19 6 0.17
20 10 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATTATAATAAAAATAT
Found at i:845983 original size:748 final size:751
Alignment explanation
Indices: 844816--846189 Score: 2204
Period size: 748 Copynumber: 1.8 Consensus size: 751
844806 AATTTAAGTG
* * *
844816 ATTATGTTTTAAAAATTATTTATTTAAAAATATCTTAATAAAATTTATTTAAATTGATATATAAT
1 ATTATGTTTTAAAAATTACTTATTTAAAAATATCTTAATAAAATTTATTTAAATTAACATATAAT
* * * * *
844881 AACGATAAAATTTAATGGTATCTTATAATTGAAAAATTGGTTGTATATACATAATTCTTGTAAGC
66 AACGATAAAATTTAATGATATCTTACAACTGAAAAATTGGTTGTATATACACAATTCTTGCAAGC
**
844946 ATAATCTTTATTCTTAAAAATATTAATTAAATATAAACGATAAAAAAATTTTTACTTAAAAATTA
131 ATAATCTCCATTCTTAAAAATATTAATTAAATATAAACGATAAAAAAATTTTTACTTAAAAATTA
* *
845011 ATTACTAATTTTATTATAATTTAAATTTGATCAAAATTTAATGTAAGTTAACTACAAAATAATAC
196 ATTACTAATTTTACTATAATTTAAATCTGATCAAAATTTAATGTAAGTTAACTACAAAATAATAC
* * * *
845076 TTTATTTTTAAATTAAATATTCTTATATGATTTATTTTTAAATTAGTTTTTTAAATATATTTTAA
261 TTTATTTTTAAATTAAATACTCTTATATGATTTATTTTTAAATGAATTTTTTAAATATATTTGAA
* * *
845141 AAGATATATATTATACTATTACTCTTTAATAAAATCTAAATGAAATGAGATATATATTTAATATT
326 AAGATATATATTATACTACTACTCTCTAATAAAATCTAAATGAAATAAGATATATATTTAATATT
845206 TTAATTTCATTCAAATTAAATAAAAAAATCTAAAATTCCACGTTATAATTTCAAATGGATTAGAT
391 TTAATTTCATTCAAATTAAATAAAAAAATCTAAAATTCCACGTTATAATTTCAAATGGATTAGAT
*
845271 TTTTTTAA-T-TTTTTTTCAACCGCACACAAAAACAAAGCAAGCACGTGAAAAAGTATGCTC-TT
456 TTTTTTAATTATTTTTTTCAACCGCACACAAAAACAAAGCAAGCACGTGAAAAAATATGCTCTTT
*
845333 TTGTCTTTTTGGTTGATGCAAAATCTGGCAAATCAGACTGAGGACACTATTCCGGAAAAGTAGAT
521 TTGGCTTTTTGGTTGATGCAAAATCTGGCAAATCAGACTGAGGACACTATTCCGGAAAAGTAGAT
845398 AGACTTGGCCAAGTCTTCTTTGGCCAGACTTTCCATTAAAAGGCAAATGATGCATTACCAAGCTC
586 AGACTTGGCCAAGTCTTCTTTGGCCAGACTTTCCATTAAAAGGCAAATGATGCATTACCAAGCTC
845463 GTCCGATACATTGAAAATTAATTTGTAGTTATGATAAAATATTAATAATAATTAAACTTACTTTC
651 GTCCGATACATTGAAAATTAATTTGTAGTTATGATAAAATATTAATAATAATTAAACTTACTTTC
845528 AATCGAAAAAAATAAAAAAAAATAAATATCCAAATA
716 AATCGAAAAAAATAAAAAAAAATAAATATCCAAATA
* * *
845564 ATTATGTTTTAAAAGTTACTTATTTAAAAATATTTTAATAAATTTTATTTAAATTAACATATAAT
1 ATTATGTTTTAAAAATTACTTATTTAAAAATATCTTAATAAAATTTATTTAAATTAACATATAAT
* *
845629 AATGATAAAATTTAATGATATCTTACAACT-AAAAATTGAGTT-TGATATACACGATTCTTGCAA
66 AACGATAAAATTTAATGATATCTTACAACTGAAAAATTG-GTTGT-ATATACACAATTCTTGCAA
* ** * ** *
845692 GCATAATCTCCATTCTTAAGAATATTAATTAAATATAAGTGATAAGAATTTTTTTACTTAGAAAT
129 GCATAATCTCCATTCTTAAAAATATTAATTAAATATAAACGATAAAAAAATTTTTACTTAAAAAT
* *
845757 TAATTACTAATTTTACTATAATTTAAATCTGATCTAAATTTAATGTAA-TTCAATTACAAAATAA
194 TAATTACTAATTTTACTATAATTTAAATCTGATCAAAATTTAATGTAAGTT-AACTACAAAATAA
* *
845821 TACTTTATTTTTAAATTAAGTACTCTTATATGCTTT-TTTTTAAATGAATTTTTTAAATATATTT
258 TACTTTATTTTTAAATTAAATACTCTTATATGATTTATTTTTAAATGAATTTTTTAAATATATTT
*
845885 GAAAAGATATATATTATACTACTACTCTCTAATAAAATTTAAATGAAATAAGATATATATTTAAT
323 GAAAAGATATATATTATACTACTACTCTCTAATAAAATCTAAATGAAATAAGATATATATTTAAT
*
845950 ATTTTAATTTCATTCAAATTAAATAAGAAAAATCTAAAATTCCACGTTATAATTTCGAATGGATT
388 ATTTTAATTTCATTCAAATTAAATAA-AAAAATCTAAAATTCCACGTTATAATTTCAAATGGATT
* *
846015 AGATTTTTTTAATTTTTTCTATTTTTTTCAACCGCACACAAAAACAGAGTAAGCACGTGAAAAAA
452 AGATTTTTTTAA-----T-TATTTTTTTCAACCGCACACAAAAACAAAGCAAGCACGTGAAAAAA
* * *
846080 TATGCTCTTTTTGGCTTTTTGGTTGATGCAATATCTGGCAAATCAGACTGAGGACCCTATTCCTG
511 TATGCTCTTTTTGGCTTTTTGGTTGATGCAAAATCTGGCAAATCAGACTGAGGACACTATTCCGG
*
846145 AAAAGTAGGTAGACTTGGCCAAGTCTTCTTTGGCCAGACTTTCCA
576 AAAAGTAGATAGACTTGGCCAAGTCTTCTTTGGCCAGACTTTCCA
846190 ATTAGGCAGC
Statistics
Matches: 568, Mismatches: 45, Indels: 17
0.90 0.07 0.03
Matches are distributed among these distances:
747 123 0.22
748 299 0.53
755 1 0.00
756 48 0.08
757 97 0.17
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (751 bp):
ATTATGTTTTAAAAATTACTTATTTAAAAATATCTTAATAAAATTTATTTAAATTAACATATAAT
AACGATAAAATTTAATGATATCTTACAACTGAAAAATTGGTTGTATATACACAATTCTTGCAAGC
ATAATCTCCATTCTTAAAAATATTAATTAAATATAAACGATAAAAAAATTTTTACTTAAAAATTA
ATTACTAATTTTACTATAATTTAAATCTGATCAAAATTTAATGTAAGTTAACTACAAAATAATAC
TTTATTTTTAAATTAAATACTCTTATATGATTTATTTTTAAATGAATTTTTTAAATATATTTGAA
AAGATATATATTATACTACTACTCTCTAATAAAATCTAAATGAAATAAGATATATATTTAATATT
TTAATTTCATTCAAATTAAATAAAAAAATCTAAAATTCCACGTTATAATTTCAAATGGATTAGAT
TTTTTTAATTATTTTTTTCAACCGCACACAAAAACAAAGCAAGCACGTGAAAAAATATGCTCTTT
TTGGCTTTTTGGTTGATGCAAAATCTGGCAAATCAGACTGAGGACACTATTCCGGAAAAGTAGAT
AGACTTGGCCAAGTCTTCTTTGGCCAGACTTTCCATTAAAAGGCAAATGATGCATTACCAAGCTC
GTCCGATACATTGAAAATTAATTTGTAGTTATGATAAAATATTAATAATAATTAAACTTACTTTC
AATCGAAAAAAATAAAAAAAAATAAATATCCAAATA
Found at i:848667 original size:2 final size:2
Alignment explanation
Indices: 848660--848687 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
848650 CCATTAAAGC
848660 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
848688 TACTTAGTTA
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:857870 original size:34 final size:31
Alignment explanation
Indices: 857829--857908 Score: 90
Period size: 34 Copynumber: 2.5 Consensus size: 31
857819 AAAAAATTTA
* *
857829 TTTAAAAAAAGAAAAATTTTAAAATA-TATGTAAT
1 TTTAAAAAAA-AAAAAATTCAAAA-AGTATG--AT
857863 TTTAAAAAAAATAAAAATTCAAAAAGTATGAT
1 TTTAAAAAAAA-AAAAATTCAAAAAGTATGAT
857895 TTTAAAAAAAAAAA
1 TTTAAAAAAAAAAA
857909 TCAAAATATG
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
31 3 0.07
32 13 0.31
33 2 0.05
34 24 0.57
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (31 bp):
TTTAAAAAAAAAAAAATTCAAAAAGTATGAT
Found at i:857922 original size:27 final size:27
Alignment explanation
Indices: 857868--857929 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 27
857858 GTAATTTTAA
857868 AAAAAATAAAAATTCAAAAAGTATGATTTT
1 AAAAAA-AAAAATTCAAAAAGTATGA--TT
857898 AAAAAAAAAAA-TC-AAAA-TATGGATT
1 AAAAAAAAAAATTCAAAAAGTAT-GATT
857923 AAAAAAA
1 AAAAAAA
857930 GAATATATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
25 9 0.29
26 3 0.10
27 6 0.19
28 2 0.06
29 5 0.16
30 6 0.19
ACGTcount: A:0.68, C:0.03, G:0.06, T:0.23
Consensus pattern (27 bp):
AAAAAAAAAAATTCAAAAAGTATGATT
Found at i:860839 original size:37 final size:37
Alignment explanation
Indices: 860762--860839 Score: 86
Period size: 38 Copynumber: 2.1 Consensus size: 37
860752 TAAAATAAAA
* * * *
860762 TTTTAATCTTACTAAACGATTGGAGGATTCAAATGCC
1 TTTTAATCTTACCAAACGATTAGAGGATTCAAACGAC
* *
860799 TTTTAAATCTTACCAAACTATTAGAGGATT-TAACGAC
1 TTTT-AATCTTACCAAACGATTAGAGGATTCAAACGAC
860836 TTTT
1 TTTT
860840 TTTCCAAAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
37 12 0.35
38 22 0.65
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.38
Consensus pattern (37 bp):
TTTTAATCTTACCAAACGATTAGAGGATTCAAACGAC
Found at i:864945 original size:12 final size:11
Alignment explanation
Indices: 864928--864977 Score: 64
Period size: 12 Copynumber: 4.3 Consensus size: 11
864918 ATGGAAAATG
*
864928 AAAAAAATAGA
1 AAAAAAAAAGA
864939 AAAAAAAAATGA
1 AAAAAAAAA-GA
864951 AAAAAAAAAGA
1 AAAAAAAAAGA
864962 AACAAGAAAAAGA
1 AA-AA-AAAAAGA
864975 AAA
1 AAA
864978 TATGAAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
11 12 0.34
12 14 0.40
13 9 0.26
ACGTcount: A:0.84, C:0.02, G:0.10, T:0.04
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:864946 original size:13 final size:12
Alignment explanation
Indices: 864928--864977 Score: 59
Period size: 13 Copynumber: 4.1 Consensus size: 12
864918 ATGGAAAATG
864928 AAAAAAATAGAAA
1 AAAAAAAT-GAAA
864941 AAAAAAATGAAA
1 AAAAAAATGAAA
864953 AAAAAAA-GAAA
1 AAAAAAATGAAA
864964 CAAGAAAAA-GAAA
1 -AA-AAAAATGAAA
864977 A
1 A
864978 TATGAAAATG
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
11 4 0.11
12 14 0.40
13 17 0.49
ACGTcount: A:0.84, C:0.02, G:0.10, T:0.04
Consensus pattern (12 bp):
AAAAAAATGAAA
Found at i:864959 original size:18 final size:19
Alignment explanation
Indices: 864931--864977 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
864921 GAAAATGAAA
*
864931 AAAATAGAAAAA-AAAAATG
1 AAAA-AGAAAAAGAAAAAAG
*
864950 AAAAA-AAAAAGAAACAAG
1 AAAAAGAAAAAGAAAAAAG
864968 AAAAAGAAAA
1 AAAAAGAAAA
864978 TATGAAAATG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 5 0.21
18 11 0.46
19 8 0.33
ACGTcount: A:0.83, C:0.02, G:0.11, T:0.04
Consensus pattern (19 bp):
AAAAAGAAAAAGAAAAAAG
Found at i:867071 original size:22 final size:22
Alignment explanation
Indices: 867046--867090 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
867036 CAATACGAAA
*
867046 ACAAATTTAACTCAAAAGACTT
1 ACAAATTTAACCCAAAAGACTT
* *
867068 ACAAATTTTACCCGAAAGACTT
1 ACAAATTTAACCCAAAAGACTT
867090 A
1 A
867091 GAGACTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.47, C:0.20, G:0.07, T:0.27
Consensus pattern (22 bp):
ACAAATTTAACCCAAAAGACTT
Found at i:868098 original size:228 final size:229
Alignment explanation
Indices: 867561--868225 Score: 858
Period size: 228 Copynumber: 2.9 Consensus size: 229
867551 ATGAAATTTC
* * * *
867561 TTTCTTCTATACATCACCTTATCTCAATCTAAAACCAATTTTAAAGCAATTTATCTTTTTCAATT
1 TTTCTTCTATACATCATCTTATCTCAATTTAAAACCAATTTTAAAGTAATTTATCTTTTTTAATT
* * * * * *
867626 TATTTGGAGTAAACATGAGTACTTATATTTATCACAACTTTTGAAAATATTATTTAATAT-TTTA
66 TATTTGCAGTTAACATGAGTATTTAAATTTATCATAACTTTTAAAAATATTATTTAATATCTTT-
* * * * *
867690 AATATTTTTGATAAATAATCATTGCATTATCTTCAGTTTTTAAATATATTTCAC-AAAGAAAACG
130 AATATTTTTTATAAATAATCCTTACATTATCTTCAGCTTTTAAATATATTTCACAAAAGAATA--
* *
867754 TGAAAATATATATAAATACCAGAACAACTTTAGAAAAG
193 TGAAAA-AAATATAAATACCAAAACAACTTTAGAAAAG
* * * *
867792 TTTCTTTTATATATCATCTCATCTCAATTTAAAACCAATTGTAAAGTAATTTATCTTTTTTAATT
1 TTTCTTCTATACATCATCTTATCTCAATTTAAAACCAATTTTAAAGTAATTTATCTTTTTTAATT
* * *
867857 TATTTACAGTTAACATGAGTATTTAAATTTATTATAA-TTTTAAAATATATTATTTAATATCTCT
66 TATTTGCAGTTAACATGAGTATTTAAATTTATCATAACTTTTAAAA-ATATTATTTAATATCTTT
* * * *
867921 AATTTTTTTTATAAATAATCCTTACATTATCTTTAGCGTTTAAATATATTTTACAAAAGAATAT-
130 AATATTTTTTATAAATAATCCTTACATTATCTTCAGCTTTTAAATATATTTCACAAAAGAATATG
*
867985 AAAAAAATATAAATACCAAAATAA-TTTCA-AGAAAG
195 AAAAAAATATAAATACCAAAACAACTTT-AGA-AAAG
* * *
868020 TTT-TTCCTATACGTTATCTTATCTCGATTTAAAACCAATTTTAAAGTAATTTATCTTTTTTAAT
1 TTTCTT-CTATACATCATCTTATCTCAATTTAAAACCAATTTTAAAGTAATTTATCTTTTTTAAT
* *
868084 TTATCTGTAGTTAACATGAGTATTTAAATTTATCATAACTTTTAAAAATATTATTTAATATCTTT
65 TTATTTGCAGTTAACATGAGTATTTAAATTTATCATAACTTTTAAAAATATTATTTAATATCTTT
* * * *
868149 AATATTTTTTATAAATAATTCTTACATTATCTTCAACTTTTAAATATATTTCACAAGAAAAATGT
130 AATATTTTTTATAAATAATCCTTACATTATCTTCAGCTTTTAAATATATTTCACAA-AAGAATAT
868214 GAAAAAAATATA
194 GAAAAAAATATA
868226 TATAAATACC
Statistics
Matches: 376, Mismatches: 49, Indels: 19
0.85 0.11 0.04
Matches are distributed among these distances:
227 6 0.02
228 177 0.47
229 18 0.05
230 19 0.05
231 147 0.39
232 9 0.02
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.44
Consensus pattern (229 bp):
TTTCTTCTATACATCATCTTATCTCAATTTAAAACCAATTTTAAAGTAATTTATCTTTTTTAATT
TATTTGCAGTTAACATGAGTATTTAAATTTATCATAACTTTTAAAAATATTATTTAATATCTTTA
ATATTTTTTATAAATAATCCTTACATTATCTTCAGCTTTTAAATATATTTCACAAAAGAATATGA
AAAAAATATAAATACCAAAACAACTTTAGAAAAG
Found at i:868472 original size:43 final size:43
Alignment explanation
Indices: 868390--868475 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
868380 CTTTTTATGA
* *
868390 TAGGTACTATTTCACTAAACATATTATTTACTTATTCAAGTAG
1 TAGGTACTATTTCACTAAACATATTATTCACTCATTCAAGTAG
*
868433 TAGGTATTATTTCA-TCAAACATATTATTCACTCCA-TCAAGTAG
1 TAGGTACTATTTCACT-AAACATATTATTCACT-CATTCAAGTAG
868476 GAATTTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 1 0.03
43 36 0.95
44 1 0.03
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.40
Consensus pattern (43 bp):
TAGGTACTATTTCACTAAACATATTATTCACTCATTCAAGTAG
Found at i:869655 original size:31 final size:31
Alignment explanation
Indices: 869620--869680 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
869610 CAAATAGTCT
869620 CTATATTCATACGAAATTTGAAATTCAATTC
1 CTATATTCATACGAAATTTGAAATTCAATTC
* *
869651 CTATATTCATATGAAATTTGAAATTTAATT
1 CTATATTCATACGAAATTTGAAATTCAATT
869681 ATTGTACTCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (31 bp):
CTATATTCATACGAAATTTGAAATTCAATTC
Found at i:869771 original size:16 final size:16
Alignment explanation
Indices: 869742--869775 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
869732 TTAAATTTTT
* *
869742 TTAAATTTTCAAAATA
1 TTAAAATTTAAAAATA
869758 TTAAAATTTAAAAATA
1 TTAAAATTTAAAAATA
869774 TT
1 TT
869776 TTAATTCCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATTTAAAAATA
Found at i:870040 original size:21 final size:21
Alignment explanation
Indices: 870016--870065 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
870006 TAATAACATG
870016 AAATTAATAGCAAAA-TTATT-A
1 AAATTAATA--AAAATTTATTGA
*
870037 AAATAAATAAAAATTTATTGA
1 AAATTAATAAAAATTTATTGA
870058 AAA-TAATA
1 AAATTAATA
870066 TAACTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 4 0.16
20 9 0.36
21 12 0.48
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (21 bp):
AAATTAATAAAAATTTATTGA
Found at i:870065 original size:20 final size:19
Alignment explanation
Indices: 870027--870068 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
870017 AATTAATAGC
870027 AAAATTATTAAAATAAATA
1 AAAATTATTAAAATAAATA
870046 AAAATTTATTGAAAATAATATA
1 AAAA-TTATT-AAAATAA-ATA
870068 A
1 A
870069 CTTAAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.20
20 5 0.25
21 7 0.35
22 4 0.20
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAATTATTAAAATAAATA
Found at i:870152 original size:17 final size:17
Alignment explanation
Indices: 870130--870162 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
870120 ATTTTTAAAA
870130 TAATTA-AATAATTTTCT
1 TAATTATAA-AATTTTCT
870147 TAATTATAAAATTTTC
1 TAATTATAAAATTTTC
870163 ATATTTTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (17 bp):
TAATTATAAAATTTTCT
Found at i:871490 original size:23 final size:23
Alignment explanation
Indices: 871464--871523 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 23
871454 TGGATGTTAC
871464 AAAATTATATTTTTTAA-ATATTT
1 AAAATTATATTTTTTAATAT-TTT
*
871487 AAAA-TACTTATTTTTTTATATTTT
1 AAAATTA--TATTTTTTAATATTTT
871511 AAAATTAT-TTTTT
1 AAAATTATATTTTT
871524 ATGATTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
22 7 0.22
23 5 0.16
24 16 0.50
25 4 0.12
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
AAAATTATATTTTTTAATATTTT
Found at i:871498 original size:24 final size:22
Alignment explanation
Indices: 871471--871524 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 22
871461 TACAAAATTA
871471 TATTTTTTAAATATTTAAAATACT
1 TATTTTTTAAATATTTAAAA-A-T
* *
871495 TATTTTTT-TATATTTTAAAAT
1 TATTTTTTAAATATTTAAAAAT
871516 TATTTTTTA
1 TATTTTTTA
871525 TGATTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 9 0.33
22 1 0.04
23 9 0.33
24 8 0.30
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
TATTTTTTAAATATTTAAAAAT
Found at i:874534 original size:80 final size:80
Alignment explanation
Indices: 874396--874565 Score: 259
Period size: 80 Copynumber: 2.1 Consensus size: 80
874386 AAAAACACCA
* * * * *
874396 TTCAACAAACTATTTAGCATATGATTTAGCCCTCCAATATCATACAATATCATTCAGCAAAATAA
1 TTCAGCAAACTATTCAGCATATGATTCAACCCTCCAATATCATACAATACCATTCAGCAAAATAA
874461 TATCAAACAACAAGG
66 TATCAAACAACAAGG
*
874476 TTCAGCAAACTATTCAGCATATGATTCAACCCTTCAATATCATACAATACCATTCAGCAAAATAA
1 TTCAGCAAACTATTCAGCATATGATTCAACCCTCCAATATCATACAATACCATTCAGCAAAATAA
* *
874541 TATTAGACAACAAGG
66 TATCAAACAACAAGG
*
874556 TTTAGCAAAC
1 TTCAGCAAAC
874566 CATAATATTT
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (80 bp):
TTCAGCAAACTATTCAGCATATGATTCAACCCTCCAATATCATACAATACCATTCAGCAAAATAA
TATCAAACAACAAGG
Found at i:877796 original size:12 final size:12
Alignment explanation
Indices: 877779--877825 Score: 76
Period size: 12 Copynumber: 3.9 Consensus size: 12
877769 ATTCAAATAC
*
877779 ACCATTCAGTAA
1 ACCATTCAGCAA
877791 ACCATTCAGCAA
1 ACCATTCAGCAA
877803 ACCATTCAGCAA
1 ACCATTCAGCAA
*
877815 ACGATTCAGCA
1 ACCATTCAGCA
877826 TATGATTCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.40, C:0.30, G:0.11, T:0.19
Consensus pattern (12 bp):
ACCATTCAGCAA
Found at i:877832 original size:12 final size:12
Alignment explanation
Indices: 877794--877840 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
877784 TCAGTAAACC
* *
877794 ATTCAGCAAACC
1 ATTCAGCATACG
*
877806 ATTCAGCAAACG
1 ATTCAGCATACG
*
877818 ATTCAGCATATG
1 ATTCAGCATACG
877830 ATTCAGCATAC
1 ATTCAGCATAC
877841 CAATATCATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.23
Consensus pattern (12 bp):
ATTCAGCATACG
Found at i:877837 original size:24 final size:24
Alignment explanation
Indices: 877647--877825 Score: 76
Period size: 25 Copynumber: 7.2 Consensus size: 24
877637 CACACCCTTT
*
877647 AGCAAACCATTCA-AAAACATCATTC
1 AGCAAACCATTCAGCAAAC--CATTC
* **
877672 AGCAAACCATTCAGCATATGATTC
1 AGCAAACCATTCAGCAAACCATTC
* * *
877696 AACATACCAATATCA-TATAATTCCATTC
1 AGCAAACC-AT-TCAGCA-AA--CCATTC
* *****
877724 AGCAAACCAATCAGCAATGTGCTC
1 AGCAAACCATTCAGCAAACCATTC
* * *
877748 AGACACACCCTTCAACAAACCATTC
1 AG-CAAACCATTCAGCAAACCATTC
* *
877773 A-AATACACCATTCAGTAAACCATTC
1 AGCA-A-ACCATTCAGCAAACCATTC
*
877798 AGCAAACCATTCAGCAAACGATTC
1 AGCAAACCATTCAGCAAACCATTC
877822 AGCA
1 AGCA
877826 TATGATTCAG
Statistics
Matches: 107, Mismatches: 36, Indels: 23
0.64 0.22 0.14
Matches are distributed among these distances:
23 1 0.01
24 35 0.33
25 48 0.45
26 11 0.10
27 2 0.02
28 10 0.09
ACGTcount: A:0.42, C:0.29, G:0.08, T:0.21
Consensus pattern (24 bp):
AGCAAACCATTCAGCAAACCATTC
Found at i:878879 original size:187 final size:186
Alignment explanation
Indices: 878655--879976 Score: 1137
Period size: 187 Copynumber: 7.0 Consensus size: 186
878645 ACTAAAAAAC
* * *
878655 GCCTTTAATAATCTCAAATATTTGTAAAAAAAAATTATTAAAGACGTTTGTTTTCAAAAAATACC
1 GCCTTTAATAATCTCAAATATTT-TTAAAAAAAATTATTAAAGGCGTTTGTTTTGAAAAAATACC
* * * * ** * * *
878720 TTCAAAAATTATATAAAAAAATTAAAATGAATTAGTGATGACATTTTTTTAGAATAAACACATTC
65 TTCAATAATTATGTACAAAAATTAAAATGAATTAGTGAAGGTATTTTTCTAGAATAAACGCCTTC
* * * *
878785 ATTAACCGTATTAAAATTTGAGCAGTGAAATATTTAAGGTATTTTTCACTAGAAAAT
130 ACTAACCGTCTTAAAATTTGAGCAGTGAAATATTGAAGGTATTTTTCACTAGAAGAT
* * * * * *
878842 ACCTTTAATAATCCCAAATATTTTTAAAAAGAAATTATTGAAGGCATTTGTTTTGAAAAAACACA
1 GCCTTTAATAATCTCAAATATTTTTAAAAA-AAATTATTAAAGGCGTTTGTTTTGAAAAAATACC
* * * * *
878907 TTCAATAATTATGTAC-AAAATTAAAAAGAAATTATTGAAGATATTTTTCTAAAATAAACGCTTT
65 TTCAATAATTATGTACAAAAATTAAAATG-AATTAGTGAAGGTATTTTTCTAGAATAAACGCCTT
* ***
878971 CACTAACTGTCTTAAAATTTGAGTGCTAGT---ATATTGAAGACGTTTTTCACTAGAAGAT
129 CACTAACCGTCTTAAAATTTGA--GC-AGTGAAATATTGAAGGTATTTTTCACTAGAAGAT
* * * ** *
879029 GCTTTTAACAATCTCAAAAATTTTTAAAAAGAAATTATTAAAGGTATTTGTTCTT-AAAAAATGC
1 GCCTTTAATAATCTCAAATATTTTTAAAAA-AAATTATTAAAGGCGTTTGTT-TTGAAAAAATAC
* * *
879093 CTTCAATAATTATGTGCATAAATT-AAATGGAATCAGTGAAGGTATTTTTCTAGAATAAACGCCT
64 CTTCAATAATTATGTACAAAAATTAAAAT-GAATTAGTGAAGGTATTTTTCTAGAATAAACGCCT
* * *
879157 TCACTAATCATCTTAAAATTTGAGTAGTGAAATATTGAAGGTATTTTTCACTAGAAG-T
128 TCACTAACCGTCTTAAAATTTGAGCAGTGAAATATTGAAGGTATTTTTCACTAGAAGAT
* * * * * * *
879215 GCTTTTAATAATC-CTAAAAATTTTTAAAAAAATTTATTGAAGGTGTTTGTTATGAAAAAACACC
1 GCCTTTAATAATCTC-AAATATTTTTAAAAAAAATTATTAAAGGCGTTTGTTTTGAAAAAATACC
** * * * * * *
879279 TTCAATAATTATGTATTAAATTTAAAAAGAATTATTGAAGGTATTTTTTTGGAATAAATGCCTTC
65 TTCAATAATTATGTACAAAAATTAAAATGAATTAGTGAAGGTATTTTTCTAGAATAAACGCCTTC
** * *
879344 ACTAACTATCTTAAAATTTGAGTGCTAGT---ATATTAAAGGTATTTTTTTTACTAGAAGACGCC
130 ACTAACCGTCTTAAAATTTGA--GC-AGTGAAATATTGAAGGTA--TTTTTCACTAG-A-A-G--
879406 TTTAAT
185 ----AT
* * *
879412 AAAACGCTTTTAATAATCTCAAAAATTTTTAAAAAAATATTATTAAAGGTGTTTGTTCTT-AAAA
1 -----GCCTTTAATAATCTCAAATATTTTTAAAAAAA-ATTATTAAAGGCGTTTGTT-TTGAAAA
* * * * * *
879476 AATACCTTCAATACTTATGTACATAAATT-AAATGGAATCAGTGAAGATGTTTTTCTAGAATCAA
59 AATACCTTCAATAATTATGTACAAAAATTAAAAT-GAATTAGTGAAGGTATTTTTCTAGAATAAA
* * * * * * * * * * * *
879540 TGCCTTTACTAACCATATTAAAATTTAAGTAATTAAATATTGAAAGCATTTTTCATTGGAAGAT
123 CGCCTTCACTAACCGTCTTAAAATTTGAGCAGTGAAATATTGAAGGTATTTTTCACTAGAAGAT
* * * *
879604 GCCTTTAATAATCTCAAATATTTTTAAAAAGAAATTATTGAAGGCATTTGTTCTGAAAATATACC
1 GCCTTTAATAATCTCAAATATTTTTAAAAA-AAATTATTAAAGGCGTTTGTTTTGAAAAAATACC
* * * * * *
879669 TTCAATAATTATGTACAAAATTTAAAAAGAATTATTGAAGGCATTTTTCTAGAATAAATGCCTTT
65 TTCAATAATTATGTACAAAAATTAAAATGAATTAGTGAAGGTATTTTTCTAGAATAAACGCCTTC
** * * ** * * *
879734 ACTAATTGTTTTAAAATTTGAG-TGTCGGTACATTGAAGGTGTTTTTCACTAGAAGAC
130 ACTAACCGTCTTAAAATTTGAGCAGT-GAAATATTGAAGGTATTTTTCACTAGAAGAT
* * * * *
879791 GCCTTTAATAATCCCAAATTTTTTTTAAAAAAAATTATTGAAA-GCGTTTGTTCTAAAAAAATAT
1 GCCTTTAATAATCTCAAA-TATTTTTAAAAAAAATTATT-AAAGGCGTTTGTTTTGAAAAAATAC
* * *
879855 CTTCAATAATTATGTACATAAATT-AAATGGAATCAGTGAAGGTATTTTTTTAGAATAAACGCCT
64 CTTCAATAATTATGTACAAAAATTAAAAT-GAATTAGTGAAGGTATTTTTCTAGAATAAACGCCT
* * * * * * * *
879919 TCACTAATCGTCTAAAAATTTAAGTAGTGAAATATTAAAAGCATTTTACACTAGAAGA
128 TCACTAACCGTCTTAAAATTTGAGCAGTGAAATATTGAAGGTATTTTTCACTAGAAGA
879977 CACCTTCAAT
Statistics
Matches: 918, Mismatches: 168, Indels: 98
0.78 0.14 0.08
Matches are distributed among these distances:
184 4 0.00
185 108 0.12
186 53 0.06
187 562 0.61
188 32 0.03
189 3 0.00
190 4 0.00
192 2 0.00
197 1 0.00
198 1 0.00
199 1 0.00
200 3 0.00
201 9 0.01
202 33 0.04
203 101 0.11
204 1 0.00
ACGTcount: A:0.41, C:0.10, G:0.12, T:0.37
Consensus pattern (186 bp):
GCCTTTAATAATCTCAAATATTTTTAAAAAAAATTATTAAAGGCGTTTGTTTTGAAAAAATACCT
TCAATAATTATGTACAAAAATTAAAATGAATTAGTGAAGGTATTTTTCTAGAATAAACGCCTTCA
CTAACCGTCTTAAAATTTGAGCAGTGAAATATTGAAGGTATTTTTCACTAGAAGAT
Found at i:879189 original size:374 final size:372
Alignment explanation
Indices: 878658--879988 Score: 1515
Period size: 374 Copynumber: 3.5 Consensus size: 372
878648 AAAAAACGCC
* * **
878658 TTTAATAATCTCAAATATTTGTAAAAAAAAATTATTAAAGACGTTTGTT-TTCAAAAAATACCTT
1 TTTAATAATCTCAAAAATTT-TTAAAAAAAATTATTAAAGGTGTTTGTTCTT-AAAAAATACCTT
* * * * * * * * * *
878722 CAAAAATTATATAAAAAAATTAAAAT-GAATTAGTGATGACATTTTTTTAGAATAAACACATTCA
64 CAATAATTATGTACATAAATT-AAATGGAATCAGTGAAGATATTTTTCTAGAATAAACGCCTTCA
* * * * * * *
878786 TTAACCGTATTAAAATTTGAGCAGTGAAATATTTAAGGTATTTTTCACTAGAAAATACCTTTAAT
128 CTAACCATATTAAAATTTAAGTAGTGAAATATTGAAAGCATTTTTCACTAGAAAATACCTTTAAT
* *
878851 AATCCCAAATATTTTTAAAAAGAAATTATTGAAGGCATTTGTTTTGAAAAAACACATTCAATAAT
193 AATCCCAAATATTTTTAAAAAGAAATTATTGAAGGCATTTGTTATGAAAAAACACCTTCAATAAT
* * *
878916 TATGTACAAAATTAAAAAGAAATTATTGAAGATATTTTTCTAAAATAAACGCTTTCACTAACTGT
258 TATGTACAAAATTAAAAAG-AATTATTGAAGGTATTTTTCTAGAATAAATGCTTTCACTAACTGT
*
878981 CTTAAAATTTGAGTGCTAGTATATTGAAGACGTTTTTCACTAGAAGATGCT
322 CTTAAAATTTGAGTGCTAGTATATTGAAGATGTTTTTCACTAGAAGATGCT
* * *
879032 TTTAACAATCTCAAAAATTTTTAAAAAGAAATTATTAAAGGTATTTGTTCTTAAAAAATGCCTTC
1 TTTAATAATCTCAAAAATTTTTAAAAA-AAATTATTAAAGGTGTTTGTTCTTAAAAAATACCTTC
* *
879097 AATAATTATGTGCATAAATTAAATGGAATCAGTGAAGGTATTTTTCTAGAATAAACGCCTTCACT
65 AATAATTATGTACATAAATTAAATGGAATCAGTGAAGATATTTTTCTAGAATAAACGCCTTCACT
* * * * * * * *
879162 AATCATCTTAAAATTTGAGTAGTGAAATATTGAAGGTATTTTTCACTAG-AAGTGCTTTTAATAA
130 AACCATATTAAAATTTAAGTAGTGAAATATTGAAAGCATTTTTCACTAGAAAATACCTTTAATAA
* * * **
879226 TCCTAAAAATTTTTAAAAA-AATTTATTGAAGGTGTTTGTTATGAAAAAACACCTTCAATAATTA
195 TCCCAAATATTTTTAAAAAGAAATTATTGAAGGCATTTGTTATGAAAAAACACCTTCAATAATTA
* * * * * *
879290 TGTATTAAATTTAAAAAGAATTATTGAAGGTATTTTTTTGGAATAAATGCCTTCACTAACTATCT
260 TGTA-CAAAATTAAAAAGAATTATTGAAGGTATTTTTCTAGAATAAATGCTTTCACTAACTGTCT
* * *
879355 TAAAATTTGAGTGCTAGTATATTAAAGGTATTTTTTTTACTAGAAGACGCCTTTAATAAAACGCT
324 TAAAATTTGAGTGCTAGTATATTGAA-G-ATGTTTTTCACTAG-A-A-G------AT-----GCT
879420 TTTAATAATCTCAAAAATTTTTAAAAAAATATTATTAAAGGTGTTTGTTCTTAAAAAATACCTTC
1 TTTAATAATCTCAAAAATTTTTAAAAAAA-ATTATTAAAGGTGTTTGTTCTTAAAAAATACCTTC
* * * * *
879485 AATACTTATGTACATAAATTAAATGGAATCAGTGAAGATGTTTTTCTAGAATCAATGCCTTTACT
65 AATAATTATGTACATAAATTAAATGGAATCAGTGAAGATATTTTTCTAGAATAAACGCCTTCACT
* * * * * *
879550 AACCATATTAAAATTTAAGTAATTAAATATTGAAAGCATTTTTCATTGGAAGATGCCTTTAATAA
130 AACCATATTAAAATTTAAGTAGTGAAATATTGAAAGCATTTTTCACTAGAAAATACCTTTAATAA
* * * *
879615 TCTCAAATATTTTTAAAAAGAAATTATTGAAGGCATTTGTTCTGAAAATATACCTTCAATAATTA
195 TCCCAAATATTTTTAAAAAGAAATTATTGAAGGCATTTGTTATGAAAAAACACCTTCAATAATTA
* * *
879680 TGTACAAAATTTAAAAAGAATTATTGAAGGCATTTTTCTAGAATAAATGCCTTT-ACTAATTGTT
260 TGTACAAAA-TTAAAAAGAATTATTGAAGGTATTTTTCTAGAATAAATG-CTTTCACTAACTGTC
* * * * *
879744 TTAAAATTTGAGTG-TCGGTACATTGAAGGTGTTTTTCACTAGAAGACGCC
323 TTAAAATTTGAGTGCT-AGTATATTGAAGATGTTTTTCACTAGAAGATGCT
* ** * * *
879794 TTTAATAATCCCAAATTTTTTTTAAAAAAAATTATTGAAA-GCGTTTGTTCTAAAAAAATATCTT
1 TTTAATAATCTCAAA-AATTTTTAAAAAAAATTATT-AAAGGTGTTTGTTCTTAAAAAATACCTT
* *
879858 CAATAATTATGTACATAAATTAAATGGAATCAGTGAAGGTATTTTTTTAGAATAAACGCCTTCAC
64 CAATAATTATGTACATAAATTAAATGGAATCAGTGAAGATATTTTTCTAGAATAAACGCCTTCAC
* * * * * * * * *
879923 TAATCGTCTAAAAATTTAAGTAGTGAAATATTAAAAGCATTTTACACTAGAAGACACCTTCAATA
129 TAACCATATTAAAATTTAAGTAGTGAAATATTGAAAGCATTTTTCACTAGAAAATACCTTTAATA
879988 A
194 A
879989 ATTCTTTCAA
Statistics
Matches: 807, Mismatches: 122, Indels: 56
0.82 0.12 0.06
Matches are distributed among these distances:
372 109 0.14
373 51 0.06
374 304 0.38
375 18 0.02
376 1 0.00
377 1 0.00
379 1 0.00
383 2 0.00
385 1 0.00
386 1 0.00
387 3 0.00
388 171 0.21
389 33 0.04
390 108 0.13
391 3 0.00
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.37
Consensus pattern (372 bp):
TTTAATAATCTCAAAAATTTTTAAAAAAAATTATTAAAGGTGTTTGTTCTTAAAAAATACCTTCA
ATAATTATGTACATAAATTAAATGGAATCAGTGAAGATATTTTTCTAGAATAAACGCCTTCACTA
ACCATATTAAAATTTAAGTAGTGAAATATTGAAAGCATTTTTCACTAGAAAATACCTTTAATAAT
CCCAAATATTTTTAAAAAGAAATTATTGAAGGCATTTGTTATGAAAAAACACCTTCAATAATTAT
GTACAAAATTAAAAAGAATTATTGAAGGTATTTTTCTAGAATAAATGCTTTCACTAACTGTCTTA
AAATTTGAGTGCTAGTATATTGAAGATGTTTTTCACTAGAAGATGCT
Found at i:879756 original size:575 final size:577
Alignment explanation
Indices: 878845--879925 Score: 1392
Period size: 575 Copynumber: 1.9 Consensus size: 577
878835 AGAAAATACC
* *
878845 TTTAATAATCCCAAATATTTTTAAAAAGAAATTATTGAAGGCATTTGTTTTGAAAAAACACATTC
1 TTTAATAATCCCAAAAATTTTTAAAAAGAAATTATTAAAGGCATTTGTTTTGAAAAAACACATTC
* *
878910 AATAATTATGTACAAAATTAAAAAGAAATTATTGAAGATATTTTTCTAAAATAAACGCTTTCACT
66 AATAATTATGTACAAAATTAAAAAGAAATCAGTGAAGATATTTTTCTAAAATAAACGCTTTCACT
** * * * * * *
878975 AACTGTCTTAAAATTTGAGTGCTAGTATATTGAAGACGTTTTTCACTAGAAGATGCTTTTAACAA
131 AACCATATTAAAATTTAAGTACTAGAATATTGAAGACATTTTTCACTAGAAGATGCCTTTAACAA
* * *
879040 TCTCAAAAATTTTTAAAAAGAAATTATTAAAGGTATTTGTTCTTAAAAAATGCCTTCAATAATTA
196 TCTCAAAAATTTTTAAAAAGAAATTATTAAAGGCATTTGTTCTGAAAAAATACCTTCAATAATTA
* ** *
879105 TGTGCATAAATTAAATGGAATCAGTGAAGGTATTTTTCTAGAATAAACGCCTTCACTAATCATCT
261 TGTACATAAATTAAAAAGAATCAGTGAAGGCATTTTTCTAGAATAAACGCCTTCACTAATCATCT
* * * *
879170 TAAAATTTGAGTAGT-GAAATATTGAAGGTATTTTTCACTAGAAG-TGCTTTTAATAATCCTAAA
326 TAAAATTTGAGT-GTCGAAACATTGAAGGTATTTTTCACTAGAAGACGCCTTTAATAATCCCAAA
* * * * *
879233 -AATTTTTAAAAAAATTTATTGAAGGTGTTTGTTATGAAAAAACACCTTCAATAATTATGTA-TT
390 TAATTTTTAAAAAAAATTATTGAAAGCGTTTGTTATAAAAAAACACCTTCAATAATTATGTACAT
* * * *
879296 AAATTTAAAAAGAATTATTGAAGGTATTTTTTTGGAATAAATGCCTTCACTAACTATCTTAAAAT
455 AAA-TTAAAAAGAATCAGTGAAGGTATTTTTTTAGAATAAACGCCTTCACTAACTATCTTAAAAT
879361 TTGAGTGCTAGTATATTAAAGGTATTTTTTTTACTAGAAGACGCCTTTAATAAAACGCT
519 TTGAGTGCTAGTATATTAAAGGTATTTTTTTTACTAGAAGACGCCTTTAATAAAACGCT
* ** * *
879420 TTTAATAATCTCAAAAATTTTTAAAAA-AATATTATTAAAGGTGTTTGTTCTT-AAAAAATACCT
1 TTTAATAATCCCAAAAATTTTTAAAAAGAA-ATTATTAAAGGCATTTGTT-TTGAAAAAACACAT
* * * * * * *
879483 TCAATACTTATGTACATAAATT-AAATGGAATCAGTGAAGATGTTTTTCTAGAATCAATGCCTTT
64 TCAATAATTATGTACA-AAATTAAAAAGAAATCAGTGAAGATATTTTTCTAAAATAAACG-CTTT
* * *
879547 -ACTAACCATATTAAAATTTAAGTAATTA-AATATTGAA-AGCATTTTTCATTGGAAGATGCCTT
127 CACTAACCATATTAAAATTTAAGT-ACTAGAATATTGAAGA-CATTTTTCACTAGAAGATGCCTT
* * * *
879609 TAATAATCTCAAATATTTTTAAAAAGAAATTATTGAAGGCATTTGTTCTGAAAATATACCTTCAA
190 TAACAATCTCAAAAATTTTTAAAAAGAAATTATTAAAGGCATTTGTTCTGAAAAAATACCTTCAA
* * * *
879674 TAATTATGTACA-AAATTTAAAAAGAATTATTGAAGGCATTTTTCTAGAATAAATGCCTTTACTA
255 TAATTATGTACATAAA-TTAAAAAGAATCAGTGAAGGCATTTTTCTAGAATAAACGCCTTCACTA
** * ** *
879738 ATTGTTTTAAAATTTGAGTGTCGGTACATTGAAGGTGTTTTTCACTAGAAGACGCCTTTAATAAT
319 ATCATCTTAAAATTTGAGTGTCGAAACATTGAAGGTATTTTTCACTAGAAGACGCCTTTAATAAT
** * * *
879803 CCCAAATTTTTTTTAAAAAAAATTATTGAAAGCGTTTGTTCTAAAAAAATATCTTCAATAATTAT
384 CCCAAATAATTTTTAAAAAAAATTATTGAAAGCGTTTGTTATAAAAAAACACCTTCAATAATTAT
**
879868 GTACATAAATTAAATGGAATCAGTGAAGGTATTTTTTTAGAATAAACGCCTTCACTAA
449 GTACATAAATTAAAAAGAATCAGTGAAGGTATTTTTTTAGAATAAACGCCTTCACTAA
879926 TCGTCTAAAA
Statistics
Matches: 427, Mismatches: 68, Indels: 20
0.83 0.13 0.04
Matches are distributed among these distances:
574 8 0.02
575 291 0.68
576 29 0.07
577 95 0.22
578 4 0.01
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (577 bp):
TTTAATAATCCCAAAAATTTTTAAAAAGAAATTATTAAAGGCATTTGTTTTGAAAAAACACATTC
AATAATTATGTACAAAATTAAAAAGAAATCAGTGAAGATATTTTTCTAAAATAAACGCTTTCACT
AACCATATTAAAATTTAAGTACTAGAATATTGAAGACATTTTTCACTAGAAGATGCCTTTAACAA
TCTCAAAAATTTTTAAAAAGAAATTATTAAAGGCATTTGTTCTGAAAAAATACCTTCAATAATTA
TGTACATAAATTAAAAAGAATCAGTGAAGGCATTTTTCTAGAATAAACGCCTTCACTAATCATCT
TAAAATTTGAGTGTCGAAACATTGAAGGTATTTTTCACTAGAAGACGCCTTTAATAATCCCAAAT
AATTTTTAAAAAAAATTATTGAAAGCGTTTGTTATAAAAAAACACCTTCAATAATTATGTACATA
AATTAAAAAGAATCAGTGAAGGTATTTTTTTAGAATAAACGCCTTCACTAACTATCTTAAAATTT
GAGTGCTAGTATATTAAAGGTATTTTTTTTACTAGAAGACGCCTTTAATAAAACGCT
Found at i:879787 original size:388 final size:384
Alignment explanation
Indices: 879029--879975 Score: 1231
Period size: 388 Copynumber: 2.5 Consensus size: 384
879019 ACTAGAAGAT
* *
879029 GCTTTTAACAATCTCAAAAATTTTTAAAAAGAAATTATTAAAGGTATTTGTTCTTAAAAAATGCC
1 GCTTTTAA-AATCTCAAAAATTTTTAAAAA-AAATTATTAAAGGTGTTTGTTCTTAAAAAATACC
*
879094 TTCAATAATTATGTGCATAAATTAAATGGAATCAGTGAAGGTATTTTTCTAGAATAAACGCCTTC
64 TTCAATAATTATGTACATAAATTAAATGGAATCAGTGAAGGTATTTTTCTAGAATAAACGCCTTC
* * * *
879159 ACTAATCATCTTAAAATTTGAGTAGTGAAATATTGAAGGTATTTTTCACTAGAAGTGCTTTTAAT
129 ACTAATCATCTTAAAATTTAAGTAGTGAAATATTGAAAGCATTTTTCACTAGAAGTGCCTTTAAT
* **
879224 AATCCTAAAAATTTTTAAAAAAATTTATTGAAGGTGTTTGTTATGAAAAAACACCTTCAATAATT
194 AATCCTAAAAATTTTTAAAAAAAATTATTGAAGGCATTTGTTATGAAAAAACACCTTCAATAATT
** * * *
879289 ATGTATTAAATTTAAAAAGAATTATTGAAGGTATTTTTTTGGAATAAATGCCTTCACTAACTATC
259 ATGTACAAAATTTAAAAAGAATTATTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAACTATC
* * *
879354 TTAAAATTTGAGTGCTAGTATATTAAAGGTATTTTTTTTACTAGAAGACGCCTTTAATAAAAC
324 TTAAAATTTGAGTGCTAGTACATTAAAGG-ATGTTTTTCACTAGAAGACGCCTTTAAT-AAAC
879417 GCTTTTAATAATCTCAAAAATTTTTAAAAAAATATTATTAAAGGTGTTTGTTCTTAAAAAATACC
1 GCTTTTAA-AATCTCAAAAATTTTTAAAAAAA-ATTATTAAAGGTGTTTGTTCTTAAAAAATACC
* * * * * *
879482 TTCAATACTTATGTACATAAATTAAATGGAATCAGTGAAGATGTTTTTCTAGAATCAATGCCTTT
64 TTCAATAATTATGTACATAAATTAAATGGAATCAGTGAAGGTATTTTTCTAGAATAAACGCCTTC
* * * * * *
879547 ACTAACCATATTAAAATTTAAGTAATTAAATATTGAAAGCATTTTTCATTGGAAGATGCCTTTAA
129 ACTAATCATCTTAAAATTTAAGTAGTGAAATATTGAAAGCATTTTTCACTAGAAG-TGCCTTTAA
* * * *
879612 TAAT-CTCAAATATTTTTAAAAAGAAATTATTGAAGGCATTTGTTCTGAAAATATACCTTCAATA
193 TAATCCT-AAAAATTTTTAAAAA-AAATTATTGAAGGCATTTGTTATGAAAAAACACCTTCAATA
* *
879676 ATTATGTACAAAATTTAAAAAGAATTATTGAAGGCATTTTTCTAGAATAAATGCCTTTACTAATT
256 ATTATGTACAAAATTTAAAAAGAATTATTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAACT
* * * * *
879741 GTTTTAAAATTTGAGTG-TCGGTACATTGAAGG-TGTTTTTCACTAGAAGACGCCTTTAATAATC
321 ATCTTAAAATTTGAGTGCT-AGTACATTAAAGGATGTTTTTCACTAGAAGACGCCTTTAATAAAC
* * * * *
879804 -C----CAAAT-T-----TTTTTTAAAAAAAATTATTGAAA-GCGTTTGTTCTAAAAAAATATCT
1 GCTTTTAAAATCTCAAAAATTTTTAAAAAAAATTATT-AAAGGTGTTTGTTCTTAAAAAATACCT
*
879857 TCAATAATTATGTACATAAATTAAATGGAATCAGTGAAGGTATTTTTTTAGAATAAACGCCTTCA
65 TCAATAATTATGTACATAAATTAAATGGAATCAGTGAAGGTATTTTTCTAGAATAAACGCCTTCA
* * * *
879922 CTAATCGTCTAAAAATTTAAGTAGTGAAATATTAAAAGCATTTTACACTAGAAG
130 CTAATCATCTTAAAATTTAAGTAGTGAAATATTGAAAGCATTTTTCACTAGAAG
879976 ACACCTTCAA
Statistics
Matches: 489, Mismatches: 64, Indels: 26
0.84 0.11 0.04
Matches are distributed among these distances:
374 128 0.26
375 15 0.03
380 1 0.00
381 3 0.01
382 1 0.00
386 1 0.00
387 5 0.01
388 190 0.39
389 27 0.06
390 118 0.24
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (384 bp):
GCTTTTAAAATCTCAAAAATTTTTAAAAAAAATTATTAAAGGTGTTTGTTCTTAAAAAATACCTT
CAATAATTATGTACATAAATTAAATGGAATCAGTGAAGGTATTTTTCTAGAATAAACGCCTTCAC
TAATCATCTTAAAATTTAAGTAGTGAAATATTGAAAGCATTTTTCACTAGAAGTGCCTTTAATAA
TCCTAAAAATTTTTAAAAAAAATTATTGAAGGCATTTGTTATGAAAAAACACCTTCAATAATTAT
GTACAAAATTTAAAAAGAATTATTGAAGGCATTTTTCTAGAATAAATGCCTTCACTAACTATCTT
AAAATTTGAGTGCTAGTACATTAAAGGATGTTTTTCACTAGAAGACGCCTTTAATAAAC
Found at i:898242 original size:13 final size:14
Alignment explanation
Indices: 898217--898245 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
898207 TATACAATCA
898217 AATCAAGTACTCAT
1 AATCAAGTACTCAT
898231 AATCAA-TACTCAT
1 AATCAAGTACTCAT
898244 AA
1 AA
898246 GACATTCTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.48, C:0.21, G:0.03, T:0.28
Consensus pattern (14 bp):
AATCAAGTACTCAT
Found at i:898576 original size:52 final size:51
Alignment explanation
Indices: 898494--898596 Score: 136
Period size: 52 Copynumber: 2.0 Consensus size: 51
898484 TCAAGCATAT
898494 AAACTTACCTATTAAGAATCTCATTCCTCTTATAATTCTTCTTCTGCAAGTC
1 AAACTTACCTATTAAGAATCTCATTCCTCTTATAATT-TTCTTCTGCAAGTC
** * * *
898546 AAACTTATTTATTAAGAAT-TCTTTTTCTCTTATAATTTTTTTCTGCAAGTC
1 AAACTTACCTATTAAGAATCTC-ATTCCTCTTATAATTTTCTTCTGCAAGTC
898597 TTTTTGTCCA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
51 15 0.33
52 30 0.67
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (51 bp):
AAACTTACCTATTAAGAATCTCATTCCTCTTATAATTTTCTTCTGCAAGTC
Found at i:900790 original size:16 final size:17
Alignment explanation
Indices: 900765--900800 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
900755 TAAACTACTA
*
900765 AAAAATAATAAATAATT
1 AAAAATAATAAATAAAT
900782 AAAAA-AATAAATAAAT
1 AAAAATAATAAATAAAT
900798 AAA
1 AAA
900801 TTATTATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAAATAATAAATAAAT
Found at i:902764 original size:12 final size:12
Alignment explanation
Indices: 902749--902773 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
902739 ATTCTCCCTC
902749 TTTTTCTCTGTG
1 TTTTTCTCTGTG
902761 TTTTTCTCTGTG
1 TTTTTCTCTGTG
902773 T
1 T
902774 CTGTCTCCTC
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:0.00, C:0.16, G:0.16, T:0.68
Consensus pattern (12 bp):
TTTTTCTCTGTG
Found at i:907244 original size:6 final size:6
Alignment explanation
Indices: 907235--907268 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
907225 GGCCGTGGCC
907235 GTCACT GTCACCT -TCACT GTCACT GTCACT GTCA
1 GTCACT GTCA-CT GTCACT GTCACT GTCACT GTCA
907269 GTGTGGTCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 2 0.08
6 22 0.85
7 2 0.08
ACGTcount: A:0.18, C:0.35, G:0.15, T:0.32
Consensus pattern (6 bp):
GTCACT
Found at i:911390 original size:2 final size:2
Alignment explanation
Indices: 911365--911436 Score: 81
Period size: 2 Copynumber: 36.0 Consensus size: 2
911355 GCTCAGACCA
* * *
911365 AT AT AC AT AT AC AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
911407 AT AC AC AT AT AC AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
911437 GTGTGTGTGT
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.49, C:0.08, G:0.01, T:0.42
Consensus pattern (2 bp):
AT
Done.