Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 287 of 290
Found at i:99078738 original size:104 final size:106
Alignment explanation
Indices: 99078628--99078829 Score: 246
Period size: 106 Copynumber: 1.9 Consensus size: 106
99078618 TGTCTAGGCT
* * * * * *
99078628 GTGTAACTCACTGTTTATGATTTAGGACCACACGGCCAGGGACA-TCG-GCGTGTGCCCAGGCCG
1 GTGTAACTCACTATTTATAATTTAAGACCACACAGACAGGGAAATTCGTGCGTGTGCCCAGGCCG
* * * *
99078691 TGTGAGCTACACGGGTAAGGACATGGGCATGTATCCAAGTC
66 TGTAAGCCACACGGGCAAGGACATGGGAATGTATCCAAGTC
* * * * *
99078732 GTGTAACTCACTATTTATAATTTAAGATCACACAGATAGGGAAATTGGTGTGTGTGCCCAGGTCG
1 GTGTAACTCACTATTTATAATTTAAGACCACACAGACAGGGAAATTCGTGCGTGTGCCCAGGCCG
*
99078797 TGTAAGCCACACGGGCAAGGATATGGGAATGTA
66 TGTAAGCCACACGGGCAAGGACATGGGAATGTA
99078830 CCTAGGCCGT
Statistics
Matches: 80, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
104 36 0.45
105 2 0.03
106 42 0.52
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (106 bp):
GTGTAACTCACTATTTATAATTTAAGACCACACAGACAGGGAAATTCGTGCGTGTGCCCAGGCCG
TGTAAGCCACACGGGCAAGGACATGGGAATGTATCCAAGTC
Found at i:99078895 original size:42 final size:42
Alignment explanation
Indices: 99078791--99078899 Score: 137
Period size: 42 Copynumber: 2.6 Consensus size: 42
99078781 GTGTGTGCCC
* *
99078791 AGGTCGTGTAAGCCACACGGGCAAGGATATGGGAATGTACCT
1 AGGTCGTGTAAGCCACACAGGCAAGGATATGAGAATGTACCT
* * * * **
99078833 AGGCCGTGTGAGCTAAACAGGCAAGGATATGAGCGTGTACCT
1 AGGTCGTGTAAGCCACACAGGCAAGGATATGAGAATGTACCT
*
99078875 AGGTCTTGTAAGCCACACAGGCAAG
1 AGGTCGTGTAAGCCACACAGGCAAG
99078900 AACATAGACA
Statistics
Matches: 54, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.29, C:0.20, G:0.32, T:0.18
Consensus pattern (42 bp):
AGGTCGTGTAAGCCACACAGGCAAGGATATGAGAATGTACCT
Found at i:99080390 original size:21 final size:20
Alignment explanation
Indices: 99080356--99080409 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
99080346 GTTATAACTT
*
99080356 TATTCATTTATATAAATATTTTA
1 TATT-ATTT-TATAAA-ATTATA
*
99080379 TATTTTTTTAT-AAATTATA
1 TATTATTTTATAAAATTATA
99080398 TATTATTTTATA
1 TATTATTTTATA
99080410 TATGATAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 15 0.56
20 2 0.07
21 3 0.11
22 3 0.11
23 4 0.15
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
TATTATTTTATAAAATTATA
Found at i:99080411 original size:21 final size:21
Alignment explanation
Indices: 99080362--99080411 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
99080352 ACTTTATTCA
*
99080362 TTTATATAAATATTTTATATTT
1 TTTATAT-AATATTATATATTT
99080384 TTT-TATAA-ATTATATATTAT
1 TTTATATAATATTATATATT-T
99080404 TTTATATA
1 TTTATATA
99080412 TGATAATCGG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 9 0.36
20 6 0.24
21 7 0.28
22 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTATATAATATTATATATTT
Found at i:99083963 original size:6 final size:6
Alignment explanation
Indices: 99083952--99083979 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
99083942 GTAAAACATA
99083952 ATAATT ATAATT ATAATT ATAATT ATAA
1 ATAATT ATAATT ATAATT ATAATT ATAA
99083980 AAAGTCACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
ATAATT
Found at i:99090841 original size:21 final size:21
Alignment explanation
Indices: 99090817--99090881 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
99090807 AAGTCTAGCT
99090817 GAAGCACATAAGTGCTAAACA
1 GAAGCACATAAGTGCTAAACA
** *
99090838 GAAGC-CCGAAG-GCT-AACT
1 GAAGCACATAAGTGCTAAACA
*
99090856 GAAGCACATAAGTGCTAAACG
1 GAAGCACATAAGTGCTAAACA
99090877 GAAGC
1 GAAGC
99090882 CCGAAGGCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 8 0.23
19 7 0.20
20 7 0.20
21 13 0.37
ACGTcount: A:0.42, C:0.22, G:0.25, T:0.12
Consensus pattern (21 bp):
GAAGCACATAAGTGCTAAACA
Found at i:99090858 original size:39 final size:39
Alignment explanation
Indices: 99090799--99090899 Score: 175
Period size: 39 Copynumber: 2.6 Consensus size: 39
99090789 ATCGCGATCT
* *
99090799 GAAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACA
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACA
*
99090838 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACG
1 GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACA
99090877 GAAGCCCGAAGGCTAACTGAAGC
1 GAAGCCCGAAGGCTAACTGAAGC
99090900 TCATCAGAGC
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.38, C:0.24, G:0.26, T:0.13
Consensus pattern (39 bp):
GAAGCCCGAAGGCTAACTGAAGCACATAAGTGCTAAACA
Found at i:99094714 original size:53 final size:53
Alignment explanation
Indices: 99094652--99094760 Score: 209
Period size: 53 Copynumber: 2.1 Consensus size: 53
99094642 AGCTTTACTT
99094652 AAAATTTAAAAGACTAAAATATTTACTTAAGACCTAACACGGGTACAACCGTC
1 AAAATTTAAAAGACTAAAATATTTACTTAAGACCTAACACGGGTACAACCGTC
*
99094705 AAAATTTAAAAGACTAAAATATTTACTTAAGACCTAACACGGGTACAACTGTC
1 AAAATTTAAAAGACTAAAATATTTACTTAAGACCTAACACGGGTACAACCGTC
99094758 AAA
1 AAA
99094761 TGGGCAAGAA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.47, C:0.17, G:0.11, T:0.25
Consensus pattern (53 bp):
AAAATTTAAAAGACTAAAATATTTACTTAAGACCTAACACGGGTACAACCGTC
Found at i:99100704 original size:19 final size:19
Alignment explanation
Indices: 99100676--99100712 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
99100666 CTAGTTTTTT
99100676 TTTTAAGAAAATCTTAAAA
1 TTTTAAGAAAATCTTAAAA
* *
99100695 TTTTATGAAAATTTTAAA
1 TTTTAAGAAAATCTTAAA
99100713 TAATTTTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (19 bp):
TTTTAAGAAAATCTTAAAA
Found at i:99105040 original size:31 final size:25
Alignment explanation
Indices: 99104983--99105030 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
99104973 TATTTTACGA
99104983 TTGAGAATGCTTATTATTGTACTAT
1 TTGAGAATGCTTATTATTGTACTAT
99105008 TTGAGAATGCTTATTATTGTACT
1 TTGAGAATGCTTATTATTGTACT
99105031 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.08, G:0.17, T:0.48
Consensus pattern (25 bp):
TTGAGAATGCTTATTATTGTACTAT
Found at i:99106103 original size:101 final size:101
Alignment explanation
Indices: 99105928--99106126 Score: 371
Period size: 101 Copynumber: 2.0 Consensus size: 101
99105918 TCAAGCATCT
* * *
99105928 TTTAAAGAGAAGGGAAAGAATATGGAGACAAATTTTATATGTCAAGATGATGAAATGGAGGTAAA
1 TTTAAAGAGAAGGGAAAGAATATGGAGACAAATTTTATATGCCAAGATGATGAAATGGACGCAAA
99105993 AGATGAAAATATTCACTATGATACTAAAACTGATCC
66 AGATGAAAATATTCACTATGATACTAAAACTGATCC
99106029 TTTAAAGAGAAGGGAAAGAATATGGAGACAAATTTTATATGCCAAGATGATGAAATGGACGCAAA
1 TTTAAAGAGAAGGGAAAGAATATGGAGACAAATTTTATATGCCAAGATGATGAAATGGACGCAAA
99106094 AGATGAAAATATTCACTATGATACTAAAACTGA
66 AGATGAAAATATTCACTATGATACTAAAACTGA
99106127 CCATGCCTAC
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 95 1.00
ACGTcount: A:0.46, C:0.09, G:0.21, T:0.25
Consensus pattern (101 bp):
TTTAAAGAGAAGGGAAAGAATATGGAGACAAATTTTATATGCCAAGATGATGAAATGGACGCAAA
AGATGAAAATATTCACTATGATACTAAAACTGATCC
Found at i:99107123 original size:12 final size:12
Alignment explanation
Indices: 99107106--99107130 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
99107096 TTTTGGGTTA
99107106 TGGTCTTGTGAG
1 TGGTCTTGTGAG
99107118 TGGTCTTGTGAG
1 TGGTCTTGTGAG
99107130 T
1 T
99107131 TGCTTATCTA
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:0.08, C:0.08, G:0.40, T:0.44
Consensus pattern (12 bp):
TGGTCTTGTGAG
Found at i:99124801 original size:6 final size:6
Alignment explanation
Indices: 99124785--99124814 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
99124775 TAAACTAAAA
99124785 TATAGTT TATATT TATATT TATATT TATAT
1 TATA-TT TATATT TATATT TATATT TATAT
99124815 AATCAATGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (6 bp):
TATATT
Found at i:99126050 original size:20 final size:20
Alignment explanation
Indices: 99126007--99126060 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
99125997 GGTGTGGGTT
* *
99126007 AAAAATATGATTTAATAATA
1 AAAAATATAATGTAATAATA
*
99126027 ATAATATATATAATGTAATCATA
1 A-AA-A-ATATAATGTAATAATA
99126050 AAAAATATAAT
1 AAAAATATAAT
99126061 TGGCGATACG
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
20 8 0.29
21 3 0.11
22 3 0.11
23 14 0.50
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (20 bp):
AAAAATATAATGTAATAATA
Found at i:99126203 original size:11 final size:11
Alignment explanation
Indices: 99126121--99126204 Score: 66
Period size: 11 Copynumber: 7.3 Consensus size: 11
99126111 AAAATGTAAT
99126121 ATAAATATATA
1 ATAAATATATA
*
99126132 AGAAATATAATA
1 ATAAATAT-ATA
*
99126144 GATATAATATAAA
1 -ATA-AATATATA
99126157 ATAACATATA-A
1 ATAA-ATATATA
99126168 A-ACAATATATA
1 ATA-AATATATA
99126179 TATAAATA-ATTA
1 -ATAAATATA-TA
99126191 ATAAATATATA
1 ATAAATATATA
99126202 ATA
1 ATA
99126205 TATGTGAAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
10 6 0.10
11 25 0.42
12 19 0.32
13 5 0.08
14 5 0.08
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (11 bp):
ATAAATATATA
Found at i:99127914 original size:26 final size:26
Alignment explanation
Indices: 99127878--99127933 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
99127868 AAATAGTACT
99127878 ACTTAGTTCCTAGACAATTGTATTTG
1 ACTTAGTTCCTAGACAATTGTATTTG
99127904 ACTTAGTTCCTAGACAATTGTATTTG
1 ACTTAGTTCCTAGACAATTGTATTTG
99127930 ACTT
1 ACTT
99127934 TGGATCACAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (26 bp):
ACTTAGTTCCTAGACAATTGTATTTG
Found at i:99129460 original size:17 final size:17
Alignment explanation
Indices: 99129438--99129474 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
99129428 TTGTTTTTAT
*
99129438 TTTTTACAGTGAATTAA
1 TTTTTACAGTAAATTAA
*
99129455 TTTTTAGAGTAAATTAA
1 TTTTTACAGTAAATTAA
99129472 TTT
1 TTT
99129475 GTTTCACTTA
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:0.35, C:0.03, G:0.11, T:0.51
Consensus pattern (17 bp):
TTTTTACAGTAAATTAA
Found at i:99129532 original size:15 final size:15
Alignment explanation
Indices: 99129505--99129552 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
99129495 ATTTGAAAGG
*
99129505 TAAATTAATTTTTTA
1 TAAATTAAATTTTTA
*
99129520 TACATTAAATTTTTGAA
1 TAAATTAAATTTTT--A
99129537 TAAATTAAATTATTTA
1 TAAATTAAATT-TTTA
99129553 GTTGAGATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 12 0.44
16 1 0.04
17 11 0.41
18 3 0.11
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (15 bp):
TAAATTAAATTTTTA
Found at i:99129533 original size:17 final size:17
Alignment explanation
Indices: 99129505--99129547 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
99129495 ATTTGAAAGG
*
99129505 TAAATT-AATTTTT-TA
1 TAAATTAAATTTTTGAA
*
99129520 TACATTAAATTTTTGAA
1 TAAATTAAATTTTTGAA
99129537 TAAATTAAATT
1 TAAATTAAATT
99129548 ATTTAGTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 5 0.22
16 7 0.30
17 11 0.48
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (17 bp):
TAAATTAAATTTTTGAA
Found at i:99129734 original size:27 final size:28
Alignment explanation
Indices: 99129667--99129735 Score: 72
Period size: 27 Copynumber: 2.5 Consensus size: 28
99129657 TAAAAATAAA
99129667 TAATTTTTTAT-TAAAATGAATAATTTTTT
1 TAATTTTTTATATAAAAT--ATAATTTTTT
**
99129696 TAATTTAATATATAAAAT-TAATTTTATT
1 TAATTTTTTATATAAAATATAATTTT-TT
99129724 T-ATTTTTTATAT
1 TAATTTTTTATAT
99129736 TTAAAAGATA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
27 16 0.47
28 3 0.09
29 9 0.26
30 6 0.18
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (28 bp):
TAATTTTTTATATAAAATATAATTTTTT
Found at i:99134217 original size:21 final size:20
Alignment explanation
Indices: 99134192--99134248 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
99134182 GTTGGGGTCT
*
99134192 ACACGCCCATGTGAGGGTCAC
1 ACACGCCCGTGTGAGGG-CAC
* *
99134213 ACACGCTCGTGTGGAGGGGAC
1 ACACGCCCGTGT-GAGGGCAC
99134234 ACACGCCCGTGTGAG
1 ACACGCCCGTGTGAG
99134249 CAGCCCGTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 3 0.10
21 23 0.74
22 5 0.16
ACGTcount: A:0.21, C:0.30, G:0.35, T:0.14
Consensus pattern (20 bp):
ACACGCCCGTGTGAGGGCAC
Found at i:99139098 original size:25 final size:25
Alignment explanation
Indices: 99139066--99139128 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
99139056 TCTTATAAAC
*
99139066 ATATTTAATTTTTTTATTAATTATT
1 ATATTTAATTTTATTATTAATTATT
* *
99139091 ATATTTAATTTTATTATTAGTTGTT
1 ATATTTAATTTTATTATTAATTATT
* *
99139116 TTATTTTATTTTA
1 ATATTTAATTTTA
99139129 GAAATCATTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (25 bp):
ATATTTAATTTTATTATTAATTATT
Found at i:99139108 original size:13 final size:13
Alignment explanation
Indices: 99139067--99139108 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
99139057 CTTATAAACA
*
99139067 TATTTAATTTTTT
1 TATTTAATTTTAT
99139080 TA-TTAATTATTA-
1 TATTTAATT-TTAT
99139092 TATTTAATTTTAT
1 TATTTAATTTTAT
99139105 TATT
1 TATT
99139109 AGTTGTTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TATTTAATTTTAT
Found at i:99140288 original size:9 final size:9
Alignment explanation
Indices: 99140274--99140298 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
99140264 ATAGACTAAT
99140274 AAAAATTTA
1 AAAAATTTA
99140283 AAAAATTTA
1 AAAAATTTA
99140292 AAAAATT
1 AAAAATT
99140299 AGAAATACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
AAAAATTTA
Found at i:99141173 original size:33 final size:33
Alignment explanation
Indices: 99141110--99141175 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
99141100 GCCCATGTCG
**
99141110 ATTCAAGTTCGAGAAAGCTCGAGCTTGAGAAAA
1 ATTCAAGTTCGAGAAAGCTCGAGCCCGAGAAAA
99141143 ATTCAAGTT-GAGAAAAGC-CTGAGCCCGAGAAAA
1 ATTCAAGTTCGAG-AAAGCTC-GAGCCCGAGAAAA
99141176 TCTAAGCTCG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 4 0.14
33 25 0.86
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.18
Consensus pattern (33 bp):
ATTCAAGTTCGAGAAAGCTCGAGCCCGAGAAAA
Found at i:99147863 original size:26 final size:26
Alignment explanation
Indices: 99147832--99147887 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
99147822 TGAAATGCCC
99147832 ATCATGGAACATTTACCTAAACC-ATT
1 ATCATGGAACATTTACCT-AACCAATT
99147858 ATCATGGAACATTTACCTAACCAATT
1 ATCATGGAACATTTACCTAACCAATT
99147884 ATCA
1 ATCA
99147888 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 4 0.14
26 25 0.86
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCAATT
Found at i:99149823 original size:10 final size:10
Alignment explanation
Indices: 99149804--99149853 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
99149794 TTAAATTCTA
99149804 AAAGATAAAT
1 AAAGATAAAT
99149814 ACAA-ATAAAT
1 A-AAGATAAAT
99149824 AAAGATAAAT
1 AAAGATAAAT
99149834 AAAGATAAAT
1 AAAGATAAAT
99149844 GAAA-ATAAAT
1 -AAAGATAAAT
99149854 CCTAAAATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 2 0.05
10 30 0.81
11 5 0.14
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:99150070 original size:17 final size:18
Alignment explanation
Indices: 99150039--99150072 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
99150029 ATTTCACGCT
99150039 TTTTGCCCTTAAATTTAC
1 TTTTGCCCTTAAATTTAC
*
99150057 TTTTG-CCTTCAATTTA
1 TTTTGCCCTTAAATTTA
99150073 GTCCCTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.21, C:0.21, G:0.06, T:0.53
Consensus pattern (18 bp):
TTTTGCCCTTAAATTTAC
Found at i:99150674 original size:96 final size:96
Alignment explanation
Indices: 99150513--99150689 Score: 246
Period size: 96 Copynumber: 1.8 Consensus size: 96
99150503 TTTACTTTCA
* * * *
99150513 CTTAGGAAAATATTGAACCTTTTGATGCGAAGAGAGATGACAGCCAAGCACCCCACCCCCATTAC
1 CTTAAGAAAATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGAACCCCACCCCCATTAC
99150578 TCAGCCCAACACATTCCTAATTTTTATTTTT
66 TCAGCCCAACACATTCCTAATTTTTATTTTT
* * * ***
99150609 CTTAAGAACATATCGAACCTTTTGACGTGAAGAGAGATGACAGCCAAGAACCTCACCCTGGTTAC
1 CTTAAGAAAATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGAACCCCACCCCCATTAC
* *
99150674 TCAGTCCAACTCATTC
66 TCAGCCCAACACATTC
99150690 TTAAAAATTA
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
96 69 1.00
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (96 bp):
CTTAAGAAAATATCGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGAACCCCACCCCCATTAC
TCAGCCCAACACATTCCTAATTTTTATTTTT
Found at i:99154499 original size:17 final size:18
Alignment explanation
Indices: 99154477--99154510 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
99154467 AATCGAATTG
99154477 AAATTGTG-AAATTAAAT
1 AAATTGTGAAAATTAAAT
99154494 AAATTGTGAAAATTAAA
1 AAATTGTGAAAATTAAA
99154511 ATGGAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (18 bp):
AAATTGTGAAAATTAAAT
Found at i:99160907 original size:42 final size:41
Alignment explanation
Indices: 99160857--99160983 Score: 134
Period size: 42 Copynumber: 3.0 Consensus size: 41
99160847 CTTCATTTTC
* *
99160857 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAG-CCAACTATGGTCTTACACATATTCACAT-A
* * *
99160900 T-GATGCCATAGCGCAGCTATGGTTTTACACATATTCATATA
1 TCGATGCCATAGC-CAACTATGGTCTTACACATATTCACATA
*
99160941 TCGATGCCATAGCCGACCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCC-AACTATGGTCTTACAC-ATATTCACATA
99160982 TC
1 TC
99160984 TCACTGATGC
Statistics
Matches: 72, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
41 11 0.15
42 59 0.82
43 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (41 bp):
TCGATGCCATAGCCAACTATGGTCTTACACATATTCACATA
Found at i:99161134 original size:31 final size:31
Alignment explanation
Indices: 99161098--99161180 Score: 139
Period size: 31 Copynumber: 2.7 Consensus size: 31
99161088 TTGTAACTGA
* *
99161098 AGCTACCACTATTCACTGATCAGGTAGTCGG
1 AGCTACCACTTTTCACTGATCAGGTAGCCGG
*
99161129 TGCTACCACTTTTCACTGATCAGGTAGCCGG
1 AGCTACCACTTTTCACTGATCAGGTAGCCGG
99161160 AGCTACCACTTTTCACTGATC
1 AGCTACCACTTTTCACTGATC
99161181 GTCTTGATGT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 48 1.00
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (31 bp):
AGCTACCACTTTTCACTGATCAGGTAGCCGG
Found at i:99161558 original size:42 final size:42
Alignment explanation
Indices: 99161508--99161634 Score: 136
Period size: 42 Copynumber: 3.0 Consensus size: 42
99161498 CTTCATTTTC
* *
99161508 TCGATGCCATAGTTC-AACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAG-CCGAACTATGGTCTTACACATATTCACAT-A
* * * *
99161551 T-GATGCCATAGCCTAGCTATGGTTTTACACATATTCATATA
1 TCGATGCCATAGCCGAACTATGGTCTTACACATATTCACATA
*
99161592 TCGATGCCATAGCCGACCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCGAACTATGGTCTTACAC-ATATTCACATA
99161633 TC
1 TC
99161635 TCACTGATGC
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
41 11 0.15
42 59 0.82
43 2 0.03
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGCCGAACTATGGTCTTACACATATTCACATA
Found at i:99161772 original size:651 final size:651
Alignment explanation
Indices: 99160530--99161831 Score: 2579
Period size: 651 Copynumber: 2.0 Consensus size: 651
99160520 CTGGTTTTGG
99160530 GTCTTGATGTAAGCCCGGGCAAAAATGGGCCATTACATCAATAACTGTTATTTTCATGAATTCCG
1 GTCTTGATGTAAGCCCGGGCAAAAATGGGCCATTACATCAATAACTGTTATTTTCATGAATTCCG
99160595 AGTTCAATCTCATAATTATTTGTCTCGTGTTCAATTTATTCCATATCGCAATTTTATTCATTTAA
66 AGTTCAATCTCATAATTATTTGTCTCGTGTTCAATTTATTCCATATCGCAATTTTATTCATTTAA
99160660 ACATTTGAATTATCAATACATATGGACAGTACATTCAAGATGAACAATTATATAATCACAAATGA
131 ACATTTGAATTATCAATACATATGGACAGTACATTCAAGATGAACAATTATATAATCACAAATGA
99160725 ACTCATTTATCAACCAAGTTCTATACTCGTATCTTATCAACTCGTACTTCCTTGTATCACATAAT
196 ACTCATTTATCAACCAAGTTCTATACTCGTATCTTATCAACTCGTACTTCCTTGTATCACATAAT
99160790 TCCATGTAACACTTACCAAACTTTGTCAAATTAGTGAACGTCTTACGGAATTGAGCACTTCATTT
261 TCCATGTAACACTTACCAAACTTTGTCAAATTAGTGAACGTCTTACGGAATTGAGCACTTCATTT
99160855 TCTCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAATGATGCCATAGCGCAGCTAT
326 TCTCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAATGATGCCATAGCGCAGCTAT
99160920 GGTTTTACACATATTCATATATCGATGCCATAGCCGACCTATGGTCTTACACGAATCACATATCT
391 GGTTTTACACATATTCATATATCGATGCCATAGCCGACCTATGGTCTTACACGAATCACATATCT
99160985 CACTGATGCCATATCCCTGATATGGTCTTATACAGTAGCATATATCACACCGATGCCATATCCCA
456 CACTGATGCCATATCCCTGATATGGTCTTATACAGTAGCATATATCACACCGATGCCATATCCCA
*
99161050 GATATGGTCTTATACGTAAATCACTTGTCACTTGTCTCTTGTAACTGAAGCTACCACTATTCACT
521 GATATGGTCTTATACGGAAATCACTTGTCACTTGTCTCTTGTAACTGAAGCTACCACTATTCACT
99161115 GATCAGGTAGTCGGTGCTACCACTTTTCACTGATCAGGTAGCCGGAGCTACCACTTTTCACTGAT
586 GATCAGGTAGTCGGTGCTACCACTTTTCACTGATCAGGTAGCCGGAGCTACCACTTTTCACTGAT
99161180 C
651 C
99161181 GTCTTGATGTAAGCCCGGGCAAAAATGGGCCATTACATCAATAACTGTTATTTTCATGAATTCCG
1 GTCTTGATGTAAGCCCGGGCAAAAATGGGCCATTACATCAATAACTGTTATTTTCATGAATTCCG
99161246 AGTTCAATCTCATAATTATTTGTCTCGTGTTCAATTTATTCCATATCGCAATTTTATTCATTTAA
66 AGTTCAATCTCATAATTATTTGTCTCGTGTTCAATTTATTCCATATCGCAATTTTATTCATTTAA
99161311 ACATTTGAATTATCAATACATATGGACAGTACATTCAAGATGAACAATTATATAATCACAAATGA
131 ACATTTGAATTATCAATACATATGGACAGTACATTCAAGATGAACAATTATATAATCACAAATGA
99161376 ACTCATTTATCAACCAAGTTCTATACTCGTATCTTATCAACTCGTACTTCCTTGTATCACATAAT
196 ACTCATTTATCAACCAAGTTCTATACTCGTATCTTATCAACTCGTACTTCCTTGTATCACATAAT
99161441 TCCATGTAACACTTACCAAACTTTGTCAAATTAGTGAACGTCTTACGGAATTGAGCACTTCATTT
261 TCCATGTAACACTTACCAAACTTTGTCAAATTAGTGAACGTCTTACGGAATTGAGCACTTCATTT
99161506 TCTCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAATGATGCCATAGC-CTAGCTA
326 TCTCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAATGATGCCATAGCGC-AGCTA
99161570 TGGTTTTACACATATTCATATATCGATGCCATAGCCGACCTATGGTCTTACACGAATCACATATC
390 TGGTTTTACACATATTCATATATCGATGCCATAGCCGACCTATGGTCTTACACGAATCACATATC
99161635 TCACTGATGCCATATCCCTGATATGGTCTTATACAGTAGCATATATCACACCGATGCCATATCCC
455 TCACTGATGCCATATCCCTGATATGGTCTTATACAGTAGCATATATCACACCGATGCCATATCCC
99161700 AGATATGGTCTTATACGGAAATCACTTGTCACTTGTCTCTTGTAACTGAAGCTACCACTATTCAC
520 AGATATGGTCTTATACGGAAATCACTTGTCACTTGTCTCTTGTAACTGAAGCTACCACTATTCAC
99161765 TGATCAGGTAGTCGGTGCTACCACTTTTCACTGATCAGGTAGCCGGAGCTACCACTTTTCACTGA
585 TGATCAGGTAGTCGGTGCTACCACTTTTCACTGATCAGGTAGCCGGAGCTACCACTTTTCACTGA
99161830 TC
650 TC
99161832 AGGTAGCAGA
Statistics
Matches: 649, Mismatches: 1, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
650 1 0.00
651 648 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.34
Consensus pattern (651 bp):
GTCTTGATGTAAGCCCGGGCAAAAATGGGCCATTACATCAATAACTGTTATTTTCATGAATTCCG
AGTTCAATCTCATAATTATTTGTCTCGTGTTCAATTTATTCCATATCGCAATTTTATTCATTTAA
ACATTTGAATTATCAATACATATGGACAGTACATTCAAGATGAACAATTATATAATCACAAATGA
ACTCATTTATCAACCAAGTTCTATACTCGTATCTTATCAACTCGTACTTCCTTGTATCACATAAT
TCCATGTAACACTTACCAAACTTTGTCAAATTAGTGAACGTCTTACGGAATTGAGCACTTCATTT
TCTCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAATGATGCCATAGCGCAGCTAT
GGTTTTACACATATTCATATATCGATGCCATAGCCGACCTATGGTCTTACACGAATCACATATCT
CACTGATGCCATATCCCTGATATGGTCTTATACAGTAGCATATATCACACCGATGCCATATCCCA
GATATGGTCTTATACGGAAATCACTTGTCACTTGTCTCTTGTAACTGAAGCTACCACTATTCACT
GATCAGGTAGTCGGTGCTACCACTTTTCACTGATCAGGTAGCCGGAGCTACCACTTTTCACTGAT
C
Found at i:99161785 original size:31 final size:31
Alignment explanation
Indices: 99161749--99161858 Score: 175
Period size: 31 Copynumber: 3.5 Consensus size: 31
99161739 TTGTAACTGA
* *
99161749 AGCTACCACTATTCACTGATCAGGTAGTCGG
1 AGCTACCACTTTTCACTGATCAGGTAGCCGG
*
99161780 TGCTACCACTTTTCACTGATCAGGTAGCCGG
1 AGCTACCACTTTTCACTGATCAGGTAGCCGG
* *
99161811 AGCTACCACTTTTCACTGATCAGGTAGCAGA
1 AGCTACCACTTTTCACTGATCAGGTAGCCGG
99161842 AGCTACCACTTTTCACT
1 AGCTACCACTTTTCACT
99161859 TGTCATTTGT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 73 1.00
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (31 bp):
AGCTACCACTTTTCACTGATCAGGTAGCCGG
Found at i:99161940 original size:50 final size:51
Alignment explanation
Indices: 99161834--99161962 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
99161824 CACTGATCAG
* * *
99161834 GTAGCAGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
99161885 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
99161935 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
99161963 TGCCATGGTC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:99176349 original size:18 final size:18
Alignment explanation
Indices: 99176326--99176369 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
99176316 TTTTTTCTTT
99176326 AATTT-AATATTAATATAA
1 AATTTAAAT-TTAATATAA
* *
99176344 AATTTAAATTTATTATTA
1 AATTTAAATTTAATATAA
99176362 AATTTAAA
1 AATTTAAA
99176370 AAATCATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 20 0.87
19 3 0.13
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
AATTTAAATTTAATATAA
Found at i:99184195 original size:35 final size:35
Alignment explanation
Indices: 99184153--99184221 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
99184143 TCGAGGATCG
*
99184153 CATATCTTTGAAGATCCCCTTCCATATTTGCCAAC
1 CATATCTTTGAAGATCACCTTCCATATTTGCCAAC
* *
99184188 CATATCTTTGAAGATTACTTTCCATATTTGCCAA
1 CATATCTTTGAAGATCACCTTCCATATTTGCCAA
99184222 GCTTCGGAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.28, C:0.26, G:0.09, T:0.38
Consensus pattern (35 bp):
CATATCTTTGAAGATCACCTTCCATATTTGCCAAC
Found at i:99188697 original size:85 final size:85
Alignment explanation
Indices: 99188551--99188721 Score: 225
Period size: 85 Copynumber: 2.0 Consensus size: 85
99188541 TAAGATTCAC
* * * *
99188551 TTTCACAATAGATAAGACAATGTAAAAAATAAGGTCAAAATCCAGTTTCGGATGATCTTGTGACA
1 TTTCACAATAGATAAGACAATGTAAAAAATAAGATCAAAATCCAATTTCAGATAATCTTGTGACA
99188616 TACCTACAACAACACAAGTA
66 TACCTACAACAACACAAGTA
* * * * * * * *
99188636 TTTCACCATAGGTAATACAATGTCAAAGATAAGATCAACATCCAATTTCAGATAATTTTGTGACG
1 TTTCACAATAGATAAGACAATGTAAAAAATAAGATCAAAATCCAATTTCAGATAATCTTGTGACA
*
99188701 TACCTGCAACAACACAAGTA
66 TACCTACAACAACACAAGTA
99188721 T
1 T
99188722 GTGGAACGTC
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
85 73 1.00
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (85 bp):
TTTCACAATAGATAAGACAATGTAAAAAATAAGATCAAAATCCAATTTCAGATAATCTTGTGACA
TACCTACAACAACACAAGTA
Found at i:99189473 original size:13 final size:13
Alignment explanation
Indices: 99189455--99189491 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
99189445 ATATGCCAAA
99189455 GTTGAAACCGAGG
1 GTTGAAACCGAGG
99189468 GTTGAAACCGAGG
1 GTTGAAACCGAGG
99189481 GTTGAAACCGA
1 GTTGAAACCGA
99189492 AGAATGCCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.35, T:0.16
Consensus pattern (13 bp):
GTTGAAACCGAGG
Found at i:99193951 original size:10 final size:11
Alignment explanation
Indices: 99193929--99193967 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
99193919 AAATTAGTTG
99193929 TTAAATTTTAAA
1 TTAAA-TTTAAA
99193941 TTAAA-TTAAA
1 TTAAATTTAAA
99193951 TTAAATTTCAAA
1 TTAAATTT-AAA
99193963 TTAAA
1 TTAAA
99193968 ATATTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 10 0.40
11 2 0.08
12 13 0.52
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:99195586 original size:22 final size:23
Alignment explanation
Indices: 99195554--99195610 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
99195544 AAAGGGGGGG
*
99195554 ATCGATGGTATTTTGAGGA-AGA
1 ATCGATTGTATTTTGAGGAGAGA
*
99195576 ATCGATTGTATTTTGGGGAGAGA
1 ATCGATTGTATTTTGAGGAGAGA
**
99195599 AGAGATTGTATT
1 ATCGATTGTATT
99195611 AGAGGGGGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 17 0.57
23 13 0.43
ACGTcount: A:0.30, C:0.04, G:0.32, T:0.35
Consensus pattern (23 bp):
ATCGATTGTATTTTGAGGAGAGA
Found at i:99195605 original size:23 final size:22
Alignment explanation
Indices: 99195561--99195610 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
99195551 GGGATCGATG
**
99195561 GTATTTTGAGGAAGAATCGATT
1 GTATTTTGAGGAAGAAGAGATT
*
99195583 GTATTTTGGGGAGAGAAGAGATT
1 GTATTTTGAGGA-AGAAGAGATT
99195606 GTATT
1 GTATT
99195611 AGAGGGGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.30, C:0.02, G:0.32, T:0.36
Consensus pattern (22 bp):
GTATTTTGAGGAAGAAGAGATT
Found at i:99196321 original size:79 final size:79
Alignment explanation
Indices: 99196206--99196351 Score: 249
Period size: 79 Copynumber: 1.8 Consensus size: 79
99196196 ATAAAGTATG
* *
99196206 GTTTTAATTAATAATAAAAACAAAATAGTATTGGGGAATGGTTTTAATTAATAATAAAAACAAAA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATAGTTTTAATTAATAAT-AAAACAAAA
99196271 TAGTATAAGGGAATA
65 TAGTATAAGGGAATA
*
99196286 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGGAGTAGTTTTAATTAATAATAAAACAAAAT
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATAGTTTTAATTAATAATAAAACAAAAT
99196350 AG
66 AG
99196352 CATGGGGGAG
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
78 12 0.19
79 36 0.57
80 15 0.24
ACGTcount: A:0.51, C:0.03, G:0.15, T:0.32
Consensus pattern (79 bp):
GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATAGTTTTAATTAATAATAAAACAAAAT
AGTATAAGGGAATA
Found at i:99196362 original size:39 final size:40
Alignment explanation
Indices: 99196206--99196360 Score: 242
Period size: 39 Copynumber: 3.9 Consensus size: 40
99196196 ATAAAGTATG
* *
99196206 GTTTTAATTAATAATAAAAACAAAATAGTATTGGGGAATG
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
**
99196246 GTTTTAATTAATAATAAAAACAAAATAGTATAAGGGAATA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
*
99196286 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGGAGTA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
*
99196325 GTTTTAATTAATAAT-AAAACAAAATAGCATGGGGGA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGA
99196361 GTGAAATCAA
Statistics
Matches: 108, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 56 0.52
40 52 0.48
ACGTcount: A:0.49, C:0.03, G:0.17, T:0.30
Consensus pattern (40 bp):
GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
Found at i:99196390 original size:30 final size:30
Alignment explanation
Indices: 99196355--99196414 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
99196345 AAAATAGCAT
99196355 GGGGGAGTGAAATCAACTTTTTTGCTTGGG
1 GGGGGAGTGAAATCAACTTTTTTGCTTGGG
*
99196385 GGGGGAGTGGAATCAACTTTTTTGCTTGGG
1 GGGGGAGTGAAATCAACTTTTTTGCTTGGG
99196415 ACCATGCATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.18, C:0.10, G:0.38, T:0.33
Consensus pattern (30 bp):
GGGGGAGTGAAATCAACTTTTTTGCTTGGG
Found at i:99211180 original size:205 final size:203
Alignment explanation
Indices: 99210800--99211585 Score: 1234
Period size: 205 Copynumber: 3.8 Consensus size: 203
99210790 TAGGCCGCAG
* * * *
99210800 CATAACAGATCTGGCCTTCAGATGTTATACTGAAGCAGATCCAAGATGGCTTGGTATCCTTGTGT
1 CATAGCAGATCTCGCCTTCAGATGTT-TACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGT
*
99210865 TTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATG-AAGCAAATCT
65 TTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGA-GAAAGCAAATCT
*
99210929 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
129 AAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
99210994 AGAGCAGACA
194 AGAGCAGACA
99211004 CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAGCAGATCTCGCCTTCAGATG-TTT-ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
99211069 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAGCAAATCT
64 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAGCAAATCT
99211134 AAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
129 AAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
99211199 AGAGCAGACA
194 AGAGCAGACA
99211209 CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAGCAGATCTCGCCTTCAGATG-TTT-ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
99211274 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAGCAAATCT
64 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAGCAAATCT
* *
99211339 AAGATAATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCATTTTGATGG
129 AAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGG
*
99211404 AGAGCAAACA
194 AGAGCAGACA
* * * *
99211414 CATAGCAGATCTCACCTTCAGATGTTTATGCTGAAGCGGATCTAAGATGGTTTGGCATCCTTATG
1 CATAGCAGATCTCGCCTTCAGATGTTTA--CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
* * * * * * ** *
99211479 CTTACAAGGAGCAAATCGAA-TCATAGTTGATTTAGCTTTCACGTGCTTACGTTAAAGCAAATTT
64 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAGCAAATCT
* * * * * *
99211543 AAGATGATTTGGCATCTCTGTATTGTTAGGGAACAAATCGAAG
129 AAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAG
99211586 AAATAGATTT
Statistics
Matches: 548, Mismatches: 29, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
203 1 0.00
204 100 0.18
205 447 0.82
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (203 bp):
CATAGCAGATCTCGCCTTCAGATGTTTACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTT
TACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGAGAAAGCAAATCTAA
GATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAG
AGCAGACA
Found at i:99211743 original size:44 final size:44
Alignment explanation
Indices: 99211620--99211990 Score: 319
Period size: 44 Copynumber: 8.5 Consensus size: 44
99211610 AGACGGGGGG
* * * **
99211620 CAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTAAA
1 CAGATCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
**
99211664 GCAGATCGAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAA
1 -CAGATCGAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGGAA
* * * * * **
99211708 CAGATTGAAGATAGCAGATCTGACATTCCTTTGCTTACAGTAAA
1 CAGATCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
**
99211752 GCAGATCGAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAA
1 -CAGATCGAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGGAA
* * * *
99211796 CA-AGTTGAAAAAAGCAGATTTGGCATCCCTGTGCTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
* * * * *
99211840 CAGATCGAATATAGCAGATCTGACATTCCTGTGCTTACAGTGAAA
1 CAGATCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAG-GGAA
** *
99211885 CAGATCGAAGATTTCAG--CATGGCATCCCTGTGTTTATAGGGAA
1 CAGATCGAAGATAGCAGATC-TGGCATCCCTGTGCTTATAGGGAA
* * *
99211928 CA-AGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAA
1 CAGA-TCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
*
99211972 CAAATCGAAGA-AGCAGATC
1 CAGATCGAAGATAGCAGATC
99211991 AAAGAACTCA
Statistics
Matches: 258, Mismatches: 53, Indels: 32
0.75 0.15 0.09
Matches are distributed among these distances:
42 2 0.01
43 49 0.19
44 158 0.61
45 49 0.19
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.26
Consensus pattern (44 bp):
CAGATCGAAGATAGCAGATCTGGCATCCCTGTGCTTATAGGGAA
Found at i:99211783 original size:132 final size:131
Alignment explanation
Indices: 99211684--99211990 Score: 501
Period size: 132 Copynumber: 2.3 Consensus size: 131
99211674 GATTTCAGCA
* *
99211684 TGGCATCCCTGTGCTTATAGGGAACAGATTGAAGATAGCAGATCTGACATTCCTTTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
* *
99211749 -AAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAAAGCAG
66 GAAA-CAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAG
99211813 ATT
130 A-T
*
99211816 TGGCATCCCTGTGCTTATAGGGAACAGATCGAATATAGCAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
*
99211881 GAAACAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGA
66 GAAACAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGA
99211946 TT
131 -T
* *
99211948 TGGCATCCCTGTGTTTATAGGGAACAAATCGAAGA-AGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATC
99211991 AAAGAACTCA
Statistics
Matches: 165, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
131 8 0.05
132 154 0.93
133 3 0.02
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.26
Consensus pattern (131 bp):
TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
GAAACAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAGATAGCAGA
T
Found at i:99212917 original size:20 final size:20
Alignment explanation
Indices: 99212892--99212930 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
99212882 TTTTTTTGTT
*
99212892 GTTTTTTTCTTAAAAAAAAG
1 GTTTTTTTCATAAAAAAAAG
*
99212912 GTTTTTTTGATAAAAAAAA
1 GTTTTTTTCATAAAAAAAA
99212931 AGAGAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.44
Consensus pattern (20 bp):
GTTTTTTTCATAAAAAAAAG
Found at i:99212966 original size:40 final size:40
Alignment explanation
Indices: 99212921--99213051 Score: 133
Period size: 40 Copynumber: 3.3 Consensus size: 40
99212911 GGTTTTTTTG
* *
99212921 ATAAAAA-AAAAGAGAAAAT-AAAGTATGGTTTTAATTAATA
1 ATAAAAACAAAAGAG--AATGAAAGAATAGTTTTAATTAATA
* * *
99212961 ATAAAAACAAAATAGTATGAGAGAATAGTTTTAATTAATA
1 ATAAAAACAAAAGAGAATGAAAGAATAGTTTTAATTAATA
* * * **
99213001 ATAAAAACAAAATAGTACGGGAGAATAGTTTTAATTAATA
1 ATAAAAACAAAAGAGAATGAAAGAATAGTTTTAATTAATA
99213041 AT-AAAACAAAA
1 ATAAAAACAAAA
99213052 TAGTATGGAG
Statistics
Matches: 82, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
39 11 0.13
40 65 0.79
41 6 0.07
ACGTcount: A:0.58, C:0.03, G:0.12, T:0.27
Consensus pattern (40 bp):
ATAAAAACAAAAGAGAATGAAAGAATAGTTTTAATTAATA
Found at i:99213074 original size:40 final size:41
Alignment explanation
Indices: 99212948--99213064 Score: 195
Period size: 40 Copynumber: 2.9 Consensus size: 41
99212938 ATAAAGTATG
99212948 GTTTTAATTAATAATAAAAACAAAATAGTATGA-GAGAATA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGAGGAGAATA
*
99212988 GTTTTAATTAATAATAAAAACAAAATAGTACG-GGAGAATA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGAGGAGAATA
99213028 GTTTTAATTAATAAT-AAAACAAAATAGTATGGAGGAG
1 GTTTTAATTAATAATAAAAACAAAATAGTAT-GAGGAG
99213065 GGTATTTTAA
Statistics
Matches: 72, Mismatches: 2, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
39 14 0.19
40 54 0.75
41 4 0.06
ACGTcount: A:0.52, C:0.03, G:0.15, T:0.29
Consensus pattern (41 bp):
GTTTTAATTAATAATAAAAACAAAATAGTATGAGGAGAATA
Found at i:99223254 original size:25 final size:26
Alignment explanation
Indices: 99223212--99223260 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
99223202 ATTATTATTA
*
99223212 AAAGTAAAGTAAATAG-AAAGAAAAT
1 AAAGTAAAGTAAAAAGAAAAGAAAAT
99223237 AAAGTAAAG-AACAAAGAAAAGAAA
1 AAAGTAAAGTAA-AAAGAAAAGAAA
99223261 CAGAATAGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 2 0.10
25 12 0.57
26 7 0.33
ACGTcount: A:0.71, C:0.02, G:0.16, T:0.10
Consensus pattern (26 bp):
AAAGTAAAGTAAAAAGAAAAGAAAAT
Found at i:99234142 original size:25 final size:26
Alignment explanation
Indices: 99234100--99234148 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
99234090 ATTATTATTA
*
99234100 AAAGTAAAGTAAATAG-AAAGAAAAT
1 AAAGTAAAGTAAAAAGAAAAGAAAAT
99234125 AAAGTAAAG-AACAAAGAAAAGAAA
1 AAAGTAAAGTAA-AAAGAAAAGAAA
99234149 CAGAATAGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 2 0.10
25 12 0.57
26 7 0.33
ACGTcount: A:0.71, C:0.02, G:0.16, T:0.10
Consensus pattern (26 bp):
AAAGTAAAGTAAAAAGAAAAGAAAAT
Found at i:99242487 original size:21 final size:22
Alignment explanation
Indices: 99242463--99242503 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
99242453 AATAAAGAAT
99242463 AAATTAATTTA-TTTTATTAAA
1 AAATTAATTTATTTTTATTAAA
*
99242484 AAATTTATTTATTTTTATTA
1 AAATTAATTTATTTTTATTA
99242504 CTTAGAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
AAATTAATTTATTTTTATTAAA
Found at i:99243531 original size:14 final size:15
Alignment explanation
Indices: 99243509--99243542 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
99243499 TTTGATAAAC
* *
99243509 TGAAAAATTAAGTGT
1 TGAAAATTTAAGTAT
99243524 TGAAAATTTAAGTAT
1 TGAAAATTTAAGTAT
99243539 TGAA
1 TGAA
99243543 TTTTTAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.35
Consensus pattern (15 bp):
TGAAAATTTAAGTAT
Found at i:99246388 original size:15 final size:15
Alignment explanation
Indices: 99246370--99246398 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
99246360 ATATATAAAA
99246370 AATAAATATTTATCT
1 AATAAATATTTATCT
99246385 AATAAATATTTATC
1 AATAAATATTTATC
99246399 AAAGCTAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (15 bp):
AATAAATATTTATCT
Found at i:99246588 original size:21 final size:21
Alignment explanation
Indices: 99246564--99246608 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
99246554 CCTAAATCCC
*
99246564 GAACCCTAAATCAT-GAACCTT
1 GAACCCAAAAT-ATCGAACCTT
*
99246585 GAACGCAAAATATCGAACCTT
1 GAACCCAAAATATCGAACCTT
99246606 GAA
1 GAA
99246609 TATCAAACCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.42, C:0.24, G:0.13, T:0.20
Consensus pattern (21 bp):
GAACCCAAAATATCGAACCTT
Found at i:99246708 original size:21 final size:21
Alignment explanation
Indices: 99246684--99246734 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
99246674 TCAAACCTCA
* *
99246684 AACCTTGAACACC-AAATCATG
1 AACCTTAAAC-CCTAAACCATG
99246705 AACCTTAAACCCTAAACCATG
1 AACCTTAAACCCTAAACCATG
99246726 AACC-TAAAC
1 AACCTTAAAC
99246735 TCAGAACATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.45, C:0.31, G:0.06, T:0.18
Consensus pattern (21 bp):
AACCTTAAACCCTAAACCATG
Found at i:99246906 original size:21 final size:21
Alignment explanation
Indices: 99246882--99246931 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
99246872 TTGAGGTTCG
99246882 AGATTTAAGGTTCTAAATTCA
1 AGATTTAAGGTTCTAAATTCA
* **
99246903 AGATTTGAGGTTCTTGATTCA
1 AGATTTAAGGTTCTAAATTCA
99246924 AGATTTAA
1 AGATTTAA
99246932 AGTAAAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.40
Consensus pattern (21 bp):
AGATTTAAGGTTCTAAATTCA
Found at i:99247123 original size:19 final size:21
Alignment explanation
Indices: 99247101--99247149 Score: 75
Period size: 19 Copynumber: 2.4 Consensus size: 21
99247091 AAGCCCCCCC
99247101 AAAAAACCTAA-CCCCC-AAA
1 AAAAAACCTAACCCCCCTAAA
99247120 AAAAAACCTAACTCCCCCTAAA
1 AAAAAACCTAAC-CCCCCTAAA
99247142 AAAAAACC
1 AAAAAACC
99247150 AAGAAACCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 11 0.41
21 5 0.19
22 11 0.41
ACGTcount: A:0.57, C:0.35, G:0.00, T:0.08
Consensus pattern (21 bp):
AAAAAACCTAACCCCCCTAAA
Found at i:99249670 original size:12 final size:12
Alignment explanation
Indices: 99249653--99249688 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
99249643 ATTCATTTGA
99249653 CATTCATGCATT
1 CATTCATGCATT
99249665 CATTCATGCATT
1 CATTCATGCATT
*
99249677 CATTCATACATT
1 CATTCATGCATT
99249689 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:99263554 original size:72 final size:71
Alignment explanation
Indices: 99263437--99263631 Score: 255
Period size: 72 Copynumber: 2.7 Consensus size: 71
99263427 GAGTTAAGCC
* * * *
99263437 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTGTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGAT
*
99263502 GAGGTAT
65 GAGGTAA
**
99263509 TTTTAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGAT
1 TTTTAATTTTTGT-TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGAT
99263574 GAGGTAA
65 GAGGTAA
* * * *
99263581 TTTCAATTTCTGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 TTTTAATTTTTGTTT-TTAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
99263632 ACCTTTTAAT
Statistics
Matches: 107, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
71 2 0.02
72 74 0.69
73 31 0.29
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (71 bp):
TTTTAATTTTTGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATG
AGGTAA
Found at i:99263840 original size:88 final size:85
Alignment explanation
Indices: 99263635--99263862 Score: 240
Period size: 88 Copynumber: 2.6 Consensus size: 85
99263625 GGGTTGAACC
** * *
99263635 TTTTAATTTCGACTTTTTTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACG
1 TTTTAATTTTTAC-TTTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACG
* *
99263700 CCGAAGTATTTTCAATTTTTG
65 CCGAAGTATTTTCAAATTCTG
* ** ** * *
99263721 TTTTCATTATTATGTTTTTGAAAGAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGTCA
1 TTTTAATT-TT-TACTTTTCCAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCA
* *
99263786 CATGTCGAGGTATTTTCAAATTCTG
63 C--GCCGAAGTATTTTCAAATTCTG
* *
99263811 TTTTTAATTTTTACTTTTCCAAAACCAACTCATATTGCGAGAGGTGGGTTGA
1 -TTTTAATTTTTACTTTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGA
99263863 ACCTTTTAAT
Statistics
Matches: 114, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
86 7 0.06
87 7 0.06
88 66 0.58
89 7 0.06
90 20 0.18
91 7 0.06
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.39
Consensus pattern (85 bp):
TTTTAATTTTTACTTTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGC
CGAAGTATTTTCAAATTCTG
Found at i:99263904 original size:55 final size:55
Alignment explanation
Indices: 99263812--99263972 Score: 272
Period size: 55 Copynumber: 2.9 Consensus size: 55
99263802 CAAATTCTGT
* *
99263812 TTTTAATTTTTACTT-TTCCAA-AACCAACTCATATTGCGAGAGGTGGGTTGAACC
1 TTTTAATTTCTACTTATT-CAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACC
99263866 TTTTAATTTCTACTTATTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACC
1 TTTTAATTTCTACTTATTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACC
*
99263921 TTTTAATTTCTACTTATTCAAGAATCAACTCATATTGCGAGAGGTGAGTTGA
1 TTTTAATTTCTACTTATTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
99263973 GCCTCGGGTC
Statistics
Matches: 102, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
54 17 0.17
55 85 0.83
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.37
Consensus pattern (55 bp):
TTTTAATTTCTACTTATTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACC
Found at i:99264017 original size:14 final size:14
Alignment explanation
Indices: 99263998--99264024 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
99263988 TCGAGGTATT
99263998 TTCAAATTCTGTTA
1 TTCAAATTCTGTTA
99264012 TTCAAATTCTGTT
1 TTCAAATTCTGTT
99264025 TTTAATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.15, G:0.07, T:0.52
Consensus pattern (14 bp):
TTCAAATTCTGTTA
Found at i:99264115 original size:14 final size:14
Alignment explanation
Indices: 99264096--99264130 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
99264086 CGCTGAGGTA
* *
99264096 TTTTCAATTTCTGC
1 TTTTCAATTCCTAC
99264110 TTTTCAATTCCTAC
1 TTTTCAATTCCTAC
99264124 TTTTCAA
1 TTTTCAA
99264131 AAAAATCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.20, C:0.23, G:0.03, T:0.54
Consensus pattern (14 bp):
TTTTCAATTCCTAC
Found at i:99264160 original size:89 final size:86
Alignment explanation
Indices: 99264012--99264249 Score: 320
Period size: 89 Copynumber: 2.7 Consensus size: 86
99264002 AATTCTGTTA
* * * * *
99264012 TTCAAATTCTGTTTTTAATTTTTACTT-TTCCAAAACCAACTCATATTGCGAGAGGTGAGTTGAG
1 TTCAATTTCTGTTTTCAATTTAT-CTTGTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
99264076 CCTCAGGGCACGCTGAGGTATT
65 CCTCAGGGCACGCTGAGGTATT
99264098 TTCAATTTCTGCTTTTCAATTCCTA-CTT-TTCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
1 TTCAATTTCTG-TTTTCAATT--TATCTTGTTC--AAAAATCAACTCATATTGCGAGAGGTGAGT
*
99264161 TGAGCCTCAGGTCACGCTGAGGTATT
61 TGAGCCTCAGGGCACGCTGAGGTATT
* * *
99264187 TTCAATTTCTGTTTTCAATTTATGTTGTTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 TTCAATTTCTGTTTTCAATTTATCTTGTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
99264250 ACCTTTTAAT
Statistics
Matches: 136, Mismatches: 9, Indels: 14
0.86 0.06 0.09
Matches are distributed among these distances:
86 43 0.32
87 16 0.12
88 12 0.09
89 65 0.48
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (86 bp):
TTCAATTTCTGTTTTCAATTTATCTTGTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
CTCAGGGCACGCTGAGGTATT
Found at i:99264203 original size:13 final size:13
Alignment explanation
Indices: 99264185--99264218 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
99264175 CGCTGAGGTA
*
99264185 TTTTCAATTTCTG
1 TTTTCAATTTATG
99264198 TTTTCAATTTATG
1 TTTTCAATTTATG
99264211 TTGTTCAA
1 TT-TTCAA
99264219 GAATCAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:99264465 original size:72 final size:72
Alignment explanation
Indices: 99264267--99264641 Score: 484
Period size: 72 Copynumber: 5.1 Consensus size: 72
99264257 AATTTCTACT
* ** * * *
99264267 TTTTCAAAA-TCAGCTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTT
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACGTTGAGGTATTT
99264330 TCAATTTCTG
63 TCAATTTCTG
99264340 TCTTTCAAAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
1 T-TTTC------AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
*
99264405 AATTTCAATTTCTG
59 ATTTTCAATTTCTG
*
99264419 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
99264484 ATTTCTG
66 ATTTCTG
99264491 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
1 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
99264556 ATTTCTG
66 ATTTCTG
* ** * * ***
99264563 CTTCTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACAGAGGTATTTTC
1 -TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
*
99264628 CATTTCTG
65 AATTTCTG
99264636 TTTTCA
1 TTTTCA
99264642 TTATTATGTT
Statistics
Matches: 274, Mismatches: 18, Indels: 21
0.88 0.06 0.07
Matches are distributed among these distances:
72 143 0.52
73 64 0.23
74 4 0.01
78 4 0.01
79 24 0.09
80 4 0.01
81 30 0.11
82 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.34
Consensus pattern (72 bp):
TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
ATTTCTG
Found at i:99264515 original size:144 final size:145
Alignment explanation
Indices: 99264257--99264641 Score: 524
Period size: 145 Copynumber: 2.6 Consensus size: 145
99264247 TGAACCTTTT
* * *
99264257 AATTTCTACTTTTTCAAAA-TCAGCTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGC
1 AATTTCTGC-TTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGC
99264320 TGAGGTATTTTCAATTTCTGTCTTTCAAAAAAAAAATTCAACTCATATTGCGAGAAATGAGTTGA
62 TGAGGTATTTTCAATTTCTGT-TTTC------AAAATTCAACTCATATTGCGAGAAATGAGTTGA
99264385 GCCTCAAGACACGTTGAGGTAATTTC
120 GCCTCAAGACACGTTGAGGTAATTTC
** * *
99264411 AATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 AATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
*
99264475 GTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
66 GTATTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
*
99264540 CGTTGAGGTATTTTC
131 CGTTGAGGTAATTTC
* * * *
99264555 AATTTCTGCTTCTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACAGAG
1 AATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
*
99264620 GTATTTTCCATTTCTGTTTTCA
66 GTATTTTCAATTTCTGTTTTCA
99264642 TTATTATGTT
Statistics
Matches: 209, Mismatches: 19, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
144 66 0.32
145 68 0.33
150 4 0.02
151 24 0.11
152 9 0.04
153 30 0.14
154 8 0.04
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (145 bp):
AATTTCTGCTTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
GTATTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
CGTTGAGGTAATTTC
Found at i:99265042 original size:72 final size:73
Alignment explanation
Indices: 99264841--99265191 Score: 440
Period size: 72 Copynumber: 4.7 Consensus size: 73
99264831 GAGTTAAGCC
* * ** * *
99264841 TTTT-AATTTTTGTTTTTC-AAAACTCAACTCATATTGCGAGAAATGAGTTAAGCCTCAAGACAT
1 TTTTCAATTTCTG-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACAC
99264904 GCTGAGGTA
65 GCTGAGGTA
* **
99264913 TTTTCAATTTTTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA
1 TTTTCAATTTCTG-TTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
99264978 CGCTGAGGTA
64 CGCTGAGGTA
* * **
99264988 ATTTCAATTTCTGTTTTC-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
1 TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
*
99265052 TTGAGGTA
66 CTGAGGTA
* *
99265060 TTTTCAATTTCTGTTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCA
1 TTTTCAATTTCTGTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---A
*
99265124 CATGCTGAGGTA
62 CACGCTGAGGTA
99265136 TTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTTTCAATTTCTGT-TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
99265192 TTCAGATCAC
Statistics
Matches: 246, Mismatches: 24, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
72 69 0.28
73 15 0.06
74 39 0.16
75 58 0.24
76 25 0.10
77 40 0.16
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (73 bp):
TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
CTGAGGTA
Found at i:99265217 original size:423 final size:424
Alignment explanation
Indices: 99264411--99265217 Score: 1106
Period size: 423 Copynumber: 1.9 Consensus size: 424
99264401 AGGTAATTTC
* * *
99264411 AATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 AATTTCTGTTTTCAAAACTCAACTCATATTGCGAGAAATGAGTTAAGCCTCAAGACACGCTGAGG
*
99264476 TAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
66 TAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
* * **
99264541 GTTGAGGTATTTTCAATTTCTGCTTCTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCT
131 GCTGAGGTAATTTCAATTTCTGCTTCTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT
* * *
99264606 CAGGTCACACAGAGGTATTTTCCATTTCTGTTTTCATTATTATGTTTTTGAAAGAATCAACTCAT
196 CAAGACACACAGAGGTATTTTCAATTTCTGTTTTC--TA-TA------T-AAAGAATCAACTCAT
*
99264671 ATTGCGAAAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGCGTTTTCAATTTCTGTCTTTCAAAG
251 ATTGCGAAAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGCATTTTCAATTTCTGTCTTTCAAAG
* * *
99264736 AAAAATTAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTTAGTTTA
316 AAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAACACACACTGAGGTATTTTTAGTTTA
99264801 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTT
381 TGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTT
* *
99264845 AATTTTTGTTTTTCAAAACTCAACTCATATTGCGAGAAATGAGTTAAGCCTCAAGACATGCTGAG
1 AATTTCTG-TTTTCAAAACTCAACTCATATTGCGAGAAATGAGTTAAGCCTCAAGACACGCTGAG
* * ** **
99264910 GTATTTTCAATTTTTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
65 GTAATTTCAATTTCTG-TTTTC--AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG
*
99264975 ACACGCTGAGGTAATTTCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGA
127 ACACGCTGAGGTAATTTCAATTTCTGCTTCTCAAAATTCAACTCATATTGCGAGAAATGAGTTGA
*** *
99265039 GCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTC-A-A-AAA-AATCAACTTATATTGCG
192 GCCTCAAGACACACAGAGGTATTTTCAATTTCTGTTTTCTATATAAAGAATCAACTCATATTGCG
* *
99265100 AGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAATTTCTGTCTTTC-AA-AAAAAT
257 AAAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGCATTTTCAATTTCTGTCTTTCAAAGAAAAAT
* ** * *
99265163 CAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGTGGTATTTTT
322 CAACTCATATTACGAGAAATGAGTTGAGCCTCA-A-CACACACTGAGGTATTTTT
99265218 TTCAATTTAT
Statistics
Matches: 332, Mismatches: 35, Indels: 23
0.85 0.09 0.06
Matches are distributed among these distances:
421 34 0.10
422 3 0.01
423 84 0.25
424 3 0.01
432 1 0.00
434 8 0.02
435 66 0.20
436 5 0.02
437 68 0.20
438 60 0.18
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.35
Consensus pattern (424 bp):
AATTTCTGTTTTCAAAACTCAACTCATATTGCGAGAAATGAGTTAAGCCTCAAGACACGCTGAGG
TAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
GCTGAGGTAATTTCAATTTCTGCTTCTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCT
CAAGACACACAGAGGTATTTTCAATTTCTGTTTTCTATATAAAGAATCAACTCATATTGCGAAAG
GTGAGTTGAGCCTCGGTTCACATGCTGAGGCATTTTCAATTTCTGTCTTTCAAAGAAAAATCAAC
TCATATTACGAGAAATGAGTTGAGCCTCAACACACACTGAGGTATTTTTAGTTTATGTTTTAAAT
TGACTCATATTGCGAGAGGTGAGTTAAGCCTTTT
Found at i:99272511 original size:22 final size:23
Alignment explanation
Indices: 99272486--99272531 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
99272476 CAACCAAACT
99272486 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
99272508 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
99272531 A
1 A
99272532 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:99272537 original size:23 final size:23
Alignment explanation
Indices: 99272493--99272537 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
99272483 ACTAATTCAA
*
99272493 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
99272516 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
99272538 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:99276134 original size:34 final size:33
Alignment explanation
Indices: 99276076--99276186 Score: 116
Period size: 34 Copynumber: 3.3 Consensus size: 33
99276066 TTCTAATATG
* * * *
99276076 ATATTACATTCTAATTTGACATATGCTTATGGAA
1 ATATGACATTCTGATTCGATATATG-TTATGGAA
*
99276110 ATATGACATTCTGATTCGATATATGTTTTCGGAA
1 ATATGACATTCTGATTCGATATATGTTAT-GGAA
* *
99276144 ATATGACATTTTGA-TCTGATATATGTTTATGGTA
1 ATATGACATTCTGATTC-GATATATG-TTATGGAA
99276178 ATATGACAT
1 ATATGACAT
99276187 GTTGATATGA
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
33 5 0.08
34 58 0.88
35 3 0.05
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.42
Consensus pattern (33 bp):
ATATGACATTCTGATTCGATATATGTTATGGAA
Found at i:99276192 original size:34 final size:32
Alignment explanation
Indices: 99276091--99276199 Score: 121
Period size: 34 Copynumber: 3.2 Consensus size: 32
99276081 ACATTCTAAT
* *
99276091 TTGACATATGCTTATGGAAATATGACATTCTGA
1 TTGATATATGTTTATGGAAATATGACATT-TGA
99276124 TTCGATATATGTTT-TCGGAAATATGACATTTTGA
1 TT-GATATATGTTTAT-GGAAATATGACA-TTTGA
*
99276158 TCTGATATATGTTTATGGTAATATGACATGTTGA
1 T-TGATATATGTTTATGGAAATATGACAT-TTGA
99276192 TATGATAT
1 T-TGATAT
99276200 TTATATATGT
Statistics
Matches: 66, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
33 4 0.06
34 58 0.88
35 4 0.06
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.42
Consensus pattern (32 bp):
TTGATATATGTTTATGGAAATATGACATTTGA
Found at i:99279200 original size:26 final size:26
Alignment explanation
Indices: 99279164--99279247 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
99279154 CATGAAATTC
99279164 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
99279190 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
99279216 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
99279242 TTATCA
1 TTATCA
99279248 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:99279700 original size:16 final size:16
Alignment explanation
Indices: 99279681--99279711 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
99279671 AAATTGAACC
99279681 TTAGTTTCTTGATTCG
1 TTAGTTTCTTGATTCG
99279697 TTAGTTTCTTGATTC
1 TTAGTTTCTTGATTC
99279712 TCTTATATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.13, G:0.16, T:0.58
Consensus pattern (16 bp):
TTAGTTTCTTGATTCG
Found at i:99285484 original size:20 final size:20
Alignment explanation
Indices: 99285459--99285497 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
99285449 TTAAGGTAAG
99285459 ATCCCTTGTTTAAATGAGAA
1 ATCCCTTGTTTAAATGAGAA
99285479 ATCCCTTGTTTAAATGAGA
1 ATCCCTTGTTTAAATGAGA
99285498 TGAATTGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (20 bp):
ATCCCTTGTTTAAATGAGAA
Found at i:99286667 original size:21 final size:21
Alignment explanation
Indices: 99286641--99286680 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
99286631 GTTTTATATT
*
99286641 ATTTTTAGTTGTTTTAAGTTA
1 ATTTTTAGTTATTTTAAGTTA
99286662 ATTTTTAGTTATTTTAAGT
1 ATTTTTAGTTATTTTAAGT
99286681 AATAGATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.62
Consensus pattern (21 bp):
ATTTTTAGTTATTTTAAGTTA
Found at i:99287220 original size:15 final size:15
Alignment explanation
Indices: 99287202--99287231 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
99287192 TGTTTCAATG
99287202 TTTGTTATAAATTAA
1 TTTGTTATAAATTAA
99287217 TTTGTTATAAATTAA
1 TTTGTTATAAATTAA
99287232 CCATTGAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (15 bp):
TTTGTTATAAATTAA
Found at i:99292707 original size:17 final size:17
Alignment explanation
Indices: 99292687--99292785 Score: 117
Period size: 17 Copynumber: 5.6 Consensus size: 17
99292677 CAATGATATG
*
99292687 CAATCTTAGATACGATA
1 CAATCTTAGATATGATA
* *
99292704 CAATCTTAAATATGATTG
1 CAATCTTAGATATGA-TA
99292722 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
99292739 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
*
99292757 CAATATTAGATATGATATA
1 CAATCTTAGATATG--ATA
99292776 CAATCTTAGA
1 CAATCTTAGA
99292786 AGATATGATT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
17 29 0.42
18 29 0.42
19 10 0.14
20 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:99292725 original size:35 final size:35
Alignment explanation
Indices: 99292679--99292783 Score: 156
Period size: 35 Copynumber: 2.9 Consensus size: 35
99292669 ATAATCTTCA
*
99292679 ATGATATGCAATCTTAGATACGATACAATCTTAAAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAAAT
*
99292715 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAAAT
*
99292750 ATGATTGCAATATTAGATATGATATACAATCTTA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTA
99292784 GAAGATATGA
Statistics
Matches: 64, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
35 48 0.75
36 5 0.08
37 11 0.17
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.36
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAAAT
Found at i:99292727 original size:18 final size:18
Alignment explanation
Indices: 99292687--99292785 Score: 130
Period size: 18 Copynumber: 5.6 Consensus size: 18
99292677 CAATGATATG
*
99292687 CAATCTTAGATACGA-TA
1 CAATCTTAGATATGATTA
* *
99292704 CAATCTTAAATATGATTG
1 CAATCTTAGATATGATTA
99292722 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTA
*
99292739 CAATCTTAGATATGATTG
1 CAATCTTAGATATGATTA
*
99292757 CAATATTAGATATGATATA
1 CAATCTTAGATATGAT-TA
99292776 CAATCTTAGA
1 CAATCTTAGA
99292786 AGATATGATT
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
17 29 0.41
18 31 0.44
19 10 0.14
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (18 bp):
CAATCTTAGATATGATTA
Found at i:99296867 original size:35 final size:35
Alignment explanation
Indices: 99296828--99296896 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
99296818 AGGTGTTAGA
**
99296828 ACGTTTGTAGGCAGTCAACTAGTACGAGCGGTGGT
1 ACGTTTGTAGGCAGTCAACTAGTAAAAGCGGTGGT
99296863 ACGTTTGTAGGCAGTCAACTAGTAAAAGCGGTGG
1 ACGTTTGTAGGCAGTCAACTAGTAAAAGCGGTGG
99296897 CCTCTTACGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (35 bp):
ACGTTTGTAGGCAGTCAACTAGTAAAAGCGGTGGT
Found at i:99297743 original size:16 final size:17
Alignment explanation
Indices: 99297724--99297784 Score: 63
Period size: 16 Copynumber: 3.6 Consensus size: 17
99297714 TAATCACAAT
99297724 AATATTAAATTAATAT-
1 AATATTAAATTAATATA
* * *
99297740 AATATT-TATCAAAATA
1 AATATTAAATTAATATA
99297756 AATATTAAATTAAATATTA
1 AATATTAAATT-AATA-TA
99297775 AATATTAAAT
1 AATATTAAAT
99297785 CTTATTAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
15 6 0.17
16 12 0.34
17 2 0.06
18 3 0.09
19 12 0.34
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
AATATTAAATTAATATA
Found at i:99304764 original size:3 final size:3
Alignment explanation
Indices: 99304756--99304782 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
99304746 CACCCTCCAA
99304756 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
99304783 TAAAAAACCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:99306324 original size:24 final size:24
Alignment explanation
Indices: 99306297--99306348 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
99306287 TTAGTAAGTC
*
99306297 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
99306321 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
99306345 AAAT
1 AAAT
99306349 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:99309674 original size:43 final size:43
Alignment explanation
Indices: 99309613--99309699 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
99309603 GACCTTCGAA
99309613 TATAAACTGTATAACAGACATGAAGAATACCAAACAAAAATCT
1 TATAAACTGTATAACAGACATGAAGAATACCAAACAAAAATCT
99309656 TATAAACTGTATAACAGACATGAAGAATACCAAACAAAAATCT
1 TATAAACTGTATAACAGACATGAAGAATACCAAACAAAAATCT
99309699 T
1 T
99309700 TCTCTTTCTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.53, C:0.16, G:0.09, T:0.22
Consensus pattern (43 bp):
TATAAACTGTATAACAGACATGAAGAATACCAAACAAAAATCT
Found at i:99314653 original size:27 final size:27
Alignment explanation
Indices: 99314578--99314653 Score: 71
Period size: 27 Copynumber: 2.8 Consensus size: 27
99314568 GTAGTCCGCA
* * *
99314578 GGGACAATAAACAAGGAGGTAGTCTGTC
1 GGGACAATAAACACGG-GGTAGCCTATC
* * * *
99314606 GGGACAGTAAACACAGTGTAGCCTATT
1 GGGACAATAAACACGGGGTAGCCTATC
*
99314633 GGGACAATAAATACGGGGTAG
1 GGGACAATAAACACGGGGTAG
99314654 TCTACCTAGA
Statistics
Matches: 37, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
27 24 0.65
28 13 0.35
ACGTcount: A:0.36, C:0.14, G:0.32, T:0.18
Consensus pattern (27 bp):
GGGACAATAAACACGGGGTAGCCTATC
Found at i:99321739 original size:15 final size:15
Alignment explanation
Indices: 99321727--99321774 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 15
99321717 GAAAAATATT
99321727 TATATTAATAATAAA
1 TATATTAATAATAAA
*
99321742 TATATTAAAATTTATAAA
1 TATATT--AA-TAATAAA
99321760 TAT-TTAATAATAAA
1 TATATTAATAATAAA
99321774 T
1 T
99321775 GTTTTATTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
14 7 0.25
15 8 0.29
17 4 0.14
18 9 0.32
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TATATTAATAATAAA
Found at i:99324850 original size:24 final size:25
Alignment explanation
Indices: 99324806--99324857 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
99324796 TAATGTAAAG
*
99324806 TAACATTATTAATATATATA-TAAT
1 TAACATAATTAATATATATATTAAT
*
99324830 TAACATAATTAACTCTA-ATATTAAT
1 TAACATAATTAA-TATATATATTAAT
99324855 TAA
1 TAA
99324858 GTGATAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (25 bp):
TAACATAATTAATATATATATTAAT
Found at i:99325835 original size:106 final size:106
Alignment explanation
Indices: 99325665--99325865 Score: 375
Period size: 106 Copynumber: 1.9 Consensus size: 106
99325655 AAGCTTTAAG
*
99325665 AGGATATTTGGCTGTTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
99325730 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
66 TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
* *
99325771 AGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
99325836 TTTTCCAAACGCGAAATATTGCCTTATTTA
66 TTTTCCAAACGCGAAATATTGCCTTATTTA
99325866 GAAAAATTTT
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
106 92 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (106 bp):
AGGATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTCCTCGA
TTTTCCAAACGCGAAATATTGCCTTATTTAAAAGTTTAAAA
Found at i:99328105 original size:14 final size:14
Alignment explanation
Indices: 99328086--99328118 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
99328076 AGATCTGCTT
99328086 TTTTTTTTTTGATC
1 TTTTTTTTTTGATC
99328100 TTTTTTTTTTGATC
1 TTTTTTTTTTGATC
99328114 TTTTT
1 TTTTT
99328119 ACCACCAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.06, C:0.06, G:0.06, T:0.82
Consensus pattern (14 bp):
TTTTTTTTTTGATC
Found at i:99328215 original size:44 final size:44
Alignment explanation
Indices: 99328121--99328958 Score: 651
Period size: 44 Copynumber: 19.0 Consensus size: 44
99328111 ATCTTTTTAC
** * * * *
99328121 CACCAATATGGGAAGACAAAATCTGC-ATCGTCGGTCCACTTC-
1 CACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCA
* * *
99328163 CTACCAATACAGGAAGATAGGATCTGATATCTTCGATCTACTTCA
1 C-ACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCA
* * *
99328208 CGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCA
1 CACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCA
* * * * * *
99328252 CGCTAATGCATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGC
1 CACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-A
* * *
99328297 CACCAATA-TGTGAAGACAAGATCTGCTTTCTTCGATCTACTTCGC
1 CACCAATACAG-GAAGACAAGATCTGCTATCTTCGATCTACTTC-A
* * *
99328342 CACCAATA-TGTGAAGACAAGATCTGCTTTCTTCGATCTACTTCGC
1 CACCAATACAG-GAAGACAAGATCTGCTATCTTCGATCTACTTC-A
** *
99328387 CACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-
1 CACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCA
* * *
99328429 CTACCAATACAGGAAGATAGGATCTGATATCTTCGATCTACTTCA
1 C-ACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCA
* * * * * * *
99328474 CGCCAATACATGAAGACAAGATCTGCTTTTTTTTTTGATCT-TTTTA
1 CACCAATACAGGAAGACAAGATCTGC---TATCTTCGATCTACTTCA
** * *
99328520 CCACCAATATGGGAAGACAAGATCGGC-ATCTTCGATCTATTTCA
1 -CACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCA
* * * ** * *
99328564 CGCTAATGCCTGAAGACAAGATCTGCTTTCTTCGATCTACTTCGC
1 CACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-A
** *
99328609 CACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-
1 CACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCA
* * * * *
99328651 CTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTAATTCA
1 C-ACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCA
** * * * *
99328696 TGCCAATACATGAAGACACGATCTGCTTTCTTCGATCTACTTCGC
1 CACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-A
** * *
99328741 CACCAATATGGGAAGACAAGATCTG-TATCTTGGATCCACTTC-
1 CACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCA
* * * * *
99328783 CTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCA
1 C-ACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCA
* * * * *
99328828 CGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGC
1 CACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-A
** * * *
99328873 CACCAATATGGGAAGACAAGATCTGC-GTCGTCGATCCACTTC-
1 CACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCA
* * * * *
99328915 CTACCAATATAGGAAGATAGGATCAGCTATCTTTGATCTACTTC
1 C-ACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTC
99328959 TTGCCCCGGG
Statistics
Matches: 643, Mismatches: 127, Indels: 50
0.78 0.15 0.06
Matches are distributed among these distances:
42 5 0.01
43 127 0.20
44 306 0.48
45 171 0.27
46 4 0.01
47 30 0.05
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (44 bp):
CACCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCA
Found at i:99328222 original size:150 final size:150
Alignment explanation
Indices: 99327960--99328236 Score: 545
Period size: 150 Copynumber: 1.8 Consensus size: 150
99327950 TGCTTTCTTC
99327960 GATCTTTTTACCACCAATATGGGAAGACAAAATCTGCATCGTCGGTCCACTTCCTACCAATACAG
1 GATCTTTTTACCACCAATATGGGAAGACAAAATCTGCATCGTCGGTCCACTTCCTACCAATACAG
*
99328025 GAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACTTGAAGACAAGATCTGCTTTTTT
66 GAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTTTT
99328090 TTTTTTGATCTTTTTTTTTT
131 TTTTTTGATCTTTTTTTTTT
99328110 GATCTTTTTACCACCAATATGGGAAGACAAAATCTGCATCGTCGGTCCACTTCCTACCAATACAG
1 GATCTTTTTACCACCAATATGGGAAGACAAAATCTGCATCGTCGGTCCACTTCCTACCAATACAG
99328175 GAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
66 GAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
99328237 CTTCGATCTA
Statistics
Matches: 126, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
150 126 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.33
Consensus pattern (150 bp):
GATCTTTTTACCACCAATATGGGAAGACAAAATCTGCATCGTCGGTCCACTTCCTACCAATACAG
GAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTTTT
TTTTTTGATCTTTTTTTTTT
Found at i:99328580 original size:222 final size:222
Alignment explanation
Indices: 99328191--99328782 Score: 834
Period size: 222 Copynumber: 2.7 Consensus size: 222
99328181 AGGATCTGAT
* * * * * * *
99328191 ATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGC
1 ATCTTCGATCCACTTC-CTACCAATACAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGC
* * *
99328255 TAATGCATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGTGAAGACAAGATC
65 CAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATC
* * * **
99328320 TGCTTTCTTCGATCTACTTCGCCACCAATATGTGAAGACAAGATCTGCTTTCTTCGATCTACTTC
130 GGCTATCTTCGATCTACTTCGACACCAATACCTGAAGACAAGATCTGCTTTCTTCGATCTACTTC
99328385 GCCACCAATATGGGAAGACAAGATCTGC
195 GCCACCAATATGGGAAGACAAGATCTGC
99328413 ATCTTCGATCCACTTCCTACCAATACAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCC
1 ATCTTCGATCCACTTCCTACCAATACAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCC
* * * **
99328478 AATACATGAAGACAAGATCTGCTTTTTTTTTTGATCT-TTTTACCACCAATATGGGAAGACAAGA
66 AATACATGAAGACAAGATCTGC---TTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGA
* * * *
99328542 TCGGC-ATCTTCGATCTATTTC-ACGCTAATGCCTGAAGACAAGATCTGCTTTCTTCGATCTACT
128 TCGGCTATCTTCGATCTACTTCGACACCAATACCTGAAGACAAGATCTGCTTTCTTCGATCTACT
99328605 TCGCCACCAATATGGGAAGACAAGATCTGC
193 TCGCCACCAATATGGGAAGACAAGATCTGC
* * *
99328635 ATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTCGATCTAATTCATGCC
1 ATCTTCGATCCACTTCCTACCAATACAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCC
* *
99328700 AATACATGAAGACACGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCT
66 AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCG
* *
99328765 G-TATCTTGGATCCACTTC
131 GCTATCTTCGATCTACTTC
99328783 CTATCAATAT
Statistics
Matches: 327, Mismatches: 37, Indels: 14
0.87 0.10 0.04
Matches are distributed among these distances:
219 10 0.03
220 40 0.12
221 1 0.00
222 225 0.69
223 14 0.04
224 27 0.08
225 10 0.03
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (222 bp):
ATCTTCGATCCACTTCCTACCAATACAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCC
AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCG
GCTATCTTCGATCTACTTCGACACCAATACCTGAAGACAAGATCTGCTTTCTTCGATCTACTTCG
CCACCAATATGGGAAGACAAGATCTGC
Found at i:99328719 original size:132 final size:133
Alignment explanation
Indices: 99328122--99328958 Score: 845
Period size: 132 Copynumber: 6.3 Consensus size: 133
99328112 TCTTTTTACC
* * * * * * * * *
99328122 ACCAATATGGGAAGACAAAATCTGC-ATCGTCGGTCCACTTC-CTACCAATACAGGAAGATAGGA
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGA
* * * * *** *
99328185 TCTGATATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACT
65 TCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTTTCTTCGATCCACT
99328249 T-C-
130 TCCT
** * * * * **
99328251 ACGCTAATGCATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGTGAAGACAA
1 AC-C-AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACGCCAATACATGAAGACAA
* *
99328316 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGTGAAGACAAGATCTGCTTTCTTCGATCTA
63 GATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTTTCTTCGATCCA
*
99328381 CTTCGCC
128 CTTC-CT
* * * * * *
99328388 ACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATACAGGAAGATAGGA
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGA
* * * * *** * * *
99328451 TCTGATATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTTTTTTTTGATCT
65 TCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC---TTTCTTCGATCC
**
99328515 TTTTACC-
127 ACTT-CCT
* * * * * *
99328522 ACCAATATGGGAAGACAAGATCGGC-ATCTTCGATCTATTTCACGCTAATGCCTGAAGACAAGAT
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGAT
*
99328586 CTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTT
66 CTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTTTCTTCGATCCACTT
99328650 CCT
131 CCT
* * * * * *
99328653 ACCAATATAGGAAGATAGGATCTGATATCTTCGATCTAATTCATGCCAATACATGAAGACACGAT
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGAT
* *
99328718 CTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTG-TATCTTGGATCCACTT
66 CTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTTTCTTCGATCCACTT
99328782 CCT
131 CCT
* * * *
99328785 ATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGAT
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGAT
* * *
99328850 CTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-GTCGTCGATCCACTT
66 CTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTTTCTTCGATCCACTT
99328914 CCT
131 CCT
* * * *
99328917 ACCAATATAGGAAGATAGGATCAGCTATCTTTGATCTACTTC
1 ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC
99328959 TTGCCCCGGG
Statistics
Matches: 598, Mismatches: 90, Indels: 37
0.82 0.12 0.05
Matches are distributed among these distances:
129 2 0.00
130 3 0.01
131 46 0.08
132 293 0.49
133 70 0.12
134 125 0.21
135 54 0.09
136 3 0.01
137 2 0.00
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (133 bp):
ACCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGAT
CTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTTTCTTCGATCCACTT
CCT
Found at i:99329092 original size:46 final size:46
Alignment explanation
Indices: 99329042--99329235 Score: 143
Period size: 46 Copynumber: 4.3 Consensus size: 46
99329032 ATCTGCTTTG
99329042 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
* * ** * *
99329088 CTGCCAAATACAGGGA-G-ATAGAAT-TATC-GGCTTCAATGTACTCCA
1 CTGCCAAATACAGGAAGGCA-AG-ATCT-GCAATCTTCAATCTATTCCA
*** * * * * ** * *
99329133 CTG--TGGT-CAGGGAGGTAAAATCTGCCATCTTTGATCTGCTT-CG
1 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCT-ATTCCA
99329176 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
1 CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
99329222 CTGCCAAATACAGG
1 CTGCCAAATACAGG
99329236 GAGATAGAAT
Statistics
Matches: 106, Mismatches: 30, Indels: 24
0.66 0.19 0.15
Matches are distributed among these distances:
42 9 0.08
43 14 0.13
44 3 0.03
45 23 0.22
46 57 0.54
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (46 bp):
CTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCA
Found at i:99329206 original size:134 final size:134
Alignment explanation
Indices: 99328966--99329305 Score: 581
Period size: 134 Copynumber: 2.5 Consensus size: 134
99328956 TTCTTGCCCC
* * * *
99328966 GGGAGATAGAACTATCAGCTTCAATGTACTCCACTGTAATCAGGGAGGTAAAATCTGCCATCTTC
1 GGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTT
*
99329031 GATCTGCTTTGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
99329096 TACA
131 TACA
*
99329100 GGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTGGTCAGGGAGGTAAAATCTGCCATCTTT
1 GGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTT
99329165 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
66 GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
99329230 TACA
131 TACA
* * *
99329234 GGGAGATAGAATTATCGGCTTCAATGTACTCTACTGTAGTCACATGGAGGTAAAATCTGCCATCC
1 GGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGT--CAGGGAGGTAAAATCTGCCATCT
99329299 TTGATCT
64 TTGATCT
99329306 TCAATCTATT
Statistics
Matches: 194, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
134 166 0.86
136 28 0.14
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (134 bp):
GGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGTCAGGGAGGTAAAATCTGCCATCTTT
GATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTTCAATCTATTCCACTGCCAAA
TACA
Found at i:99333559 original size:19 final size:20
Alignment explanation
Indices: 99333535--99333578 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
99333525 CGTGAAAGTC
* *
99333535 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
99333554 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
99333574 -AATGC
1 TAATGC
99333579 CAAAAGAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.41, C:0.11, G:0.20, T:0.27
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:99335505 original size:15 final size:15
Alignment explanation
Indices: 99335481--99335514 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
99335471 AACAATTACG
* *
99335481 ATAATGCGAGTAAAA
1 ATAATACGAGCAAAA
99335496 ATAATACGAGCAAAA
1 ATAATACGAGCAAAA
99335511 ATAA
1 ATAA
99335515 CAAAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.09, G:0.15, T:0.18
Consensus pattern (15 bp):
ATAATACGAGCAAAA
Found at i:99338370 original size:38 final size:38
Alignment explanation
Indices: 99338318--99338410 Score: 116
Period size: 38 Copynumber: 2.4 Consensus size: 38
99338308 CTCACCCGTA
* * * *
99338318 GTGAATTGTGGTTTTTGTTTCGACCCATTACTATT-GG
1 GTGAATTGTGGTTTTTGTTCCAACCCACTACCATTAGG
*
99338355 GATGAATTGTGGTTTTTGTTCCAACCCACTGCCATTAGG
1 G-TGAATTGTGGTTTTTGTTCCAACCCACTACCATTAGG
*
99338394 GTGATTTGTGGTTTTTG
1 GTGAATTGTGGTTTTTG
99338411 ACTTTTGTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
37 1 0.02
38 44 0.92
39 3 0.06
ACGTcount: A:0.16, C:0.14, G:0.26, T:0.44
Consensus pattern (38 bp):
GTGAATTGTGGTTTTTGTTCCAACCCACTACCATTAGG
Found at i:99340516 original size:28 final size:27
Alignment explanation
Indices: 99340448--99340519 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 27
99340438 ATTTGACTAA
*
99340448 GTTTAAAAAATTTTAGTTAAGGTCTAG
1 GTTTAAAAATTTTTAGTTAAGGTCTAG
* *
99340475 GTTTAATCAGTTTTTAGTTAAGGTCTAG
1 GTTTAA-AAATTTTTAGTTAAGGTCTAG
99340503 GTTTAAAAATTTTTAGT
1 GTTTAAAAATTTTTAGT
99340520 AACGGGTAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 15 0.38
28 24 0.62
ACGTcount: A:0.32, C:0.04, G:0.18, T:0.46
Consensus pattern (27 bp):
GTTTAAAAATTTTTAGTTAAGGTCTAG
Found at i:99341920 original size:20 final size:21
Alignment explanation
Indices: 99341870--99341924 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
99341860 TGCATTTAAT
99341870 TTTTTAAAAGTT-TAATCATTC
1 TTTTTAAAA-TTATAATCATTC
*
99341891 TTTTTAAAATTATAATTATTC
1 TTTTTAAAATTATAATCATTC
*
99341912 TTTTTAAATTTAT
1 TTTTTAAAATTAT
99341925 GTTAAACGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 2 0.06
21 29 0.94
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (21 bp):
TTTTTAAAATTATAATCATTC
Found at i:99343583 original size:23 final size:23
Alignment explanation
Indices: 99343531--99343588 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
99343521 TAATATTTTT
99343531 ATATTTAAAATTATTTAATATAA
1 ATATTTAAAATTATTTAATATAA
* *
99343554 TTCATTTAATA-TATTTAATATTAA
1 AT-ATTTAAAATTATTTAATA-TAA
99343578 ATATTTTAAAA
1 ATA-TTTAAAA
99343589 AAATCGATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
23 11 0.39
24 17 0.61
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
ATATTTAAAATTATTTAATATAA
Found at i:99348641 original size:7 final size:7
Alignment explanation
Indices: 99348631--99348661 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
99348621 TTTAGAGTTT
99348631 AGGGTTC
1 AGGGTTC
99348638 AGGGTTC
1 AGGGTTC
99348645 AGGGTTC
1 AGGGTTC
99348652 AGGGTTC
1 AGGGTTC
99348659 AGG
1 AGG
99348662 TTAAAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.13, G:0.45, T:0.26
Consensus pattern (7 bp):
AGGGTTC
Found at i:99348643 original size:21 final size:21
Alignment explanation
Indices: 99348619--99348661 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
99348609 CATAGTTTAA
* *
99348619 GGTTTAGAGTTTAGGGTTCAG
1 GGTTCAGAGTTCAGGGTTCAG
*
99348640 GGTTCAGGGTTCAGGGTTCAG
1 GGTTCAGAGTTCAGGGTTCAG
99348661 G
1 G
99348662 TTAAAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.09, G:0.42, T:0.33
Consensus pattern (21 bp):
GGTTCAGAGTTCAGGGTTCAG
Found at i:99353131 original size:79 final size:82
Alignment explanation
Indices: 99353020--99353204 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
99353010 GCTACTCGTT
* * *
99353020 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
99353083 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
99353100 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
99353163 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
99353180 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
99353205 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:99353204 original size:40 final size:40
Alignment explanation
Indices: 99353001--99353204 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
99352991 CGGAATTTAA
** *
99353001 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
99353041 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
99353081 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
99353120 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
99353160 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
99353200 CCGGA
1 CCGGA
99353205 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:99360063 original size:79 final size:82
Alignment explanation
Indices: 99359952--99360136 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
99359942 GCTACTCGTT
* *
99359952 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
99360015 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
99360032 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
99360095 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
99360112 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
99360137 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:99360136 original size:40 final size:40
Alignment explanation
Indices: 99359933--99360136 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
99359923 CGGAATTTAA
** *
99359933 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
99359973 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
99360013 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
99360052 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
99360092 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
99360132 CCGGA
1 CCGGA
99360137 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:99365838 original size:26 final size:24
Alignment explanation
Indices: 99365763--99365840 Score: 66
Period size: 26 Copynumber: 3.0 Consensus size: 24
99365753 ATCGCAATTC
*
99365763 TTATGAGCATCCCGATATATGGCTCT
1 TTATGAGC-TTCCGAT-TATGGCTCT
* * *
99365789 TCATGAGGTTCCTGATTAAAGGCTCT
1 TTATGAGCTTCC-GATT-ATGGCTCT
99365815 TTATGAGCTTCTCGATTGATGGCTCT
1 TTATGAGCTTC-CGATT-ATGGCTCT
99365841 CCGGAGCTTC
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
25 4 0.10
26 36 0.88
27 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (24 bp):
TTATGAGCTTCCGATTATGGCTCT
Found at i:99372298 original size:19 final size:20
Alignment explanation
Indices: 99372271--99372308 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
99372261 TCTAGTGGGT
*
99372271 GAAGGAGAAGAAA-AGAAGA
1 GAAGAAGAAGAAAGAGAAGA
99372290 GAAGAAGAAGAAAGAGAAG
1 GAAGAAGAAGAAAGAGAAG
99372309 GGGAGGGCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (20 bp):
GAAGAAGAAGAAAGAGAAGA
Found at i:99373097 original size:11 final size:11
Alignment explanation
Indices: 99373049--99373094 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
99373039 TTTGTATTTA
99373049 TTATG-TATCGT
1 TTATGTTAT-GT
99373060 TTATGTTATGT
1 TTATGTTATGT
*
99373071 TTATGTTATAT
1 TTATGTTATGT
*
99373082 TTTTGTTATGT
1 TTATGTTATGT
99373093 TT
1 TT
99373095 TTGCTATTGG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
11 28 0.90
12 3 0.10
ACGTcount: A:0.17, C:0.02, G:0.15, T:0.65
Consensus pattern (11 bp):
TTATGTTATGT
Found at i:99375826 original size:49 final size:47
Alignment explanation
Indices: 99375747--99375963 Score: 353
Period size: 47 Copynumber: 4.6 Consensus size: 47
99375737 TATTTGAATA
99375747 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
99375794 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
99375843 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
99375890 AACGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
99375937 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
99375964 TCCCGAAGGG
Statistics
Matches: 159, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
47 112 0.70
49 47 0.30
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:99378850 original size:78 final size:77
Alignment explanation
Indices: 99378680--99378924 Score: 284
Period size: 78 Copynumber: 3.2 Consensus size: 77
99378670 GACATTAAAA
* * *
99378680 ACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 ACAGAAATTGAAAATAGCTCCGAGCGTGAACCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
99378745 --TTTTTGAAAA
66 TTTTTTTGAAAG
* * * * * * * *
99378755 ATATAAATTGAAAAAAATACCTCCGTGTGTGATCTGAA-GCTCAACTCACCTTTCGCAATATGAG
1 ACAGAAATTG---AAAATAGCTCCGAGCGTGAAC-CAAGGCTCAACTCACCTCTCGCAATATGAG
99378819 TTGATTTTTTTTGAAAG
62 TTGA-TTTTTTTGAAAG
*
99378836 ACAGAAATTGAAAATAGCT-C-AGCGTGAACCAAGGCTCAACTCACCTCTCGCAATATGAGTCGA
1 ACAGAAATTGAAAATAGCTCCGAGCGTGAACCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
99378899 TTTTTTTGAAAG
66 TTTTTTTGAAAG
*
99378911 GCAGAAATTGAAAA
1 ACAGAAATTGAAAA
99378925 ACGGAAATTG
Statistics
Matches: 142, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
75 35 0.25
76 34 0.24
77 1 0.01
78 53 0.37
79 2 0.01
81 17 0.12
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (77 bp):
ACAGAAATTGAAAATAGCTCCGAGCGTGAACCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTTTGAAAG
Found at i:99379061 original size:74 final size:75
Alignment explanation
Indices: 99378928--99379070 Score: 225
Period size: 74 Copynumber: 1.9 Consensus size: 75
99378918 TTGAAAAACG
* *
99378928 GAAATTGAAAATACCTCGGCGTGTGACTTGAGGCTCAACTCACCTTTCGCAATACGAGTTGATTT
1 GAAATTGAAAATACCTCGGCGTGT-ACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTT
99378993 TTTTGACAACA
65 TTTTGACAACA
* * *
99379004 GAAATTGAAATTACCTCGGCGTGT-CCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCGGCGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTT
99379068 TTT
66 TTT
99379071 TTGAAAGGCA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
74 39 0.63
76 23 0.37
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (75 bp):
GAAATTGAAAATACCTCGGCGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTT
TTTGACAACA
Found at i:99379070 original size:76 final size:75
Alignment explanation
Indices: 99378928--99379091 Score: 224
Period size: 74 Copynumber: 2.1 Consensus size: 75
99378918 TTGAAAAACG
* *
99378928 GAAATTGAAAATACCTCGGCGTGTGACTTGAGGCTCAACTCACCTTTCGCAATACGAGTTGATTT
1 GAAATTGAAAATACCTCGGCGTGT-ACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTT
99378993 TTTTGACAA-CA
65 TTTTGA-AAGCA
* * *
99379004 GAAATTGAAATTACCTCGGCGTGT-CCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT
1 GAAATTGAAAATACCTCGGCGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGA--TT
99379068 TTTTTGAAAGGCA
64 TTTTTGAAA-GCA
99379081 GAAATTGAAAA
1 GAAATTGAAAA
99379092 ACGGAAATTG
Statistics
Matches: 78, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
74 32 0.41
75 2 0.03
76 32 0.41
77 12 0.15
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (75 bp):
GAAATTGAAAATACCTCGGCGTGTACCTGAGGCTCAACTCACCTCTCGCAATACGAGTTGATTTT
TTTGAAAGCA
Done.