Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 51 of 345
Found at i:15342192 original size:33 final size:32
Alignment explanation
Indices: 15342150--15342218 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
15342140 GATTAGCTAT
15342150 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
15342183 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
15342215 TACA
1 TACA
15342219 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:15350891 original size:25 final size:24
Alignment explanation
Indices: 15350852--15350899 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
15350842 ATTTAATTAT
*
15350852 AAATAAATATATAAA-AATAAAATA
1 AAATAAAGATATAAATAA-AAAATA
15350876 AAATAGAAGATATAAATAAAAAAT
1 AAATA-AAGATATAAATAAAAAAT
15350900 TAGTTTTGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 5 0.24
25 14 0.67
26 2 0.10
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (24 bp):
AAATAAAGATATAAATAAAAAATA
Found at i:15350894 original size:18 final size:17
Alignment explanation
Indices: 15350849--15350896 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 17
15350839 TAGATTTAAT
*
15350849 TATAAATAAATATATAAA
1 TATAAATAAA-ATAGAAA
*
15350867 AATAAAATAAAATAGAAGA
1 TAT-AAATAAAATAGAA-A
15350886 TATAAATAAAA
1 TATAAATAAAA
15350897 AATTAGTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (17 bp):
TATAAATAAAATAGAAA
Found at i:15351788 original size:7 final size:7
Alignment explanation
Indices: 15351776--15351805 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
15351766 TTAATTAAAT
15351776 AAAAAAG
1 AAAAAAG
15351783 AAAAAAG
1 AAAAAAG
15351790 AAAAAAG
1 AAAAAAG
*
15351797 AAAGAAG
1 AAAAAAG
15351804 AA
1 AA
15351806 GAAGACAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:15363906 original size:27 final size:26
Alignment explanation
Indices: 15363858--15363971 Score: 131
Period size: 27 Copynumber: 4.3 Consensus size: 26
15363848 GCGAGGCTGC
* *
15363858 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGA-A
15363885 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
* *
15363911 CAGATATATGTGGCAGAGCCACTAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAA
* *
15363938 CAGATAATCGTGGCATAGCCACCAGAA
1 CAGAT-ATTGTGGCAGAGCCACCAGAA
15363965 CAGATAT
1 CAGATAT
15363972 GAACAGATAT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
26 10 0.13
27 63 0.83
28 3 0.04
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:15363960 original size:54 final size:54
Alignment explanation
Indices: 15363880--15364076 Score: 236
Period size: 54 Copynumber: 3.5 Consensus size: 54
15363870 CGAAGTCACC
* *
15363880 AGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACT
1 AGAT-CAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACT
15363934 AGATCAGATAATCGTGGCATAGCCACCAGAACAGATATGAACAGATATATGTGGCAGAGCCA-T
1 AGATCAGATAATCGTGGCATAGCCA-C----C----A-GAACAGATATATGTGGCAGAGCCACT
*
15363997 CAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACC
1 -AGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACT
*
15364052 AGATCAGATAATTGTGGCATAGCCA
1 AGATCAGATAATCGTGGCATAGCCA
15364077 TCAGGACGCT
Statistics
Matches: 126, Mismatches: 4, Indels: 26
0.81 0.03 0.17
Matches are distributed among these distances:
53 5 0.04
54 65 0.52
55 2 0.02
59 2 0.02
63 3 0.02
64 49 0.39
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (54 bp):
AGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACT
Found at i:15363986 original size:64 final size:64
Alignment explanation
Indices: 15363908--15364035 Score: 240
Period size: 64 Copynumber: 2.0 Consensus size: 64
15363898 AGAGCCACCA
15363908 GAACAGATATATGTGGCAGAGCCA-CTAGATCAGATAATCGTGGCATAGCCACCAGAACAGATAT
1 GAACAGATATATGTGGCAGAGCCATC-AGATCAGATAATCGTGGCATAGCCACCAGAACAGATAT
15363972 GAACAGATATATGTGGCAGAGCCATCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATAT
1 GAACAGATATATGTGGCAGAGCCATCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATAT
15364036 ATGTGGCAGA
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
64 62 0.98
65 1 0.02
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.19
Consensus pattern (64 bp):
GAACAGATATATGTGGCAGAGCCATCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATAT
Found at i:15364005 original size:27 final size:26
Alignment explanation
Indices: 15363975--15364076 Score: 132
Period size: 27 Copynumber: 3.8 Consensus size: 26
15363965 CAGATATGAA
*
15363975 CAGATATATGTGGCAGAGCCATCAGAT
1 CAGATA-ATGTGGCAGAGCCACCAGAT
* *
15364002 CAGATAATCGTGGCATAGCCACCAGAA
1 CAGATAAT-GTGGCAGAGCCACCAGAT
15364029 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATA-ATGTGGCAGAGCCACCAGAT
*
15364056 CAGATAATTGTGGCATAGCCA
1 CAGATAA-TGTGGCAGAGCCA
15364077 TCAGGACGCT
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.05
27 61 0.92
28 2 0.03
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.20
Consensus pattern (26 bp):
CAGATAATGTGGCAGAGCCACCAGAT
Found at i:15364033 original size:91 final size:90
Alignment explanation
Indices: 15363884--15364061 Score: 252
Period size: 91 Copynumber: 2.0 Consensus size: 90
15363874 GTCACCAGAT
* *
15363884 ACAGATATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACTAGATCAGATA-ATCG
1 ACAGATATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGAACAGATATAT-G
*
15363948 TGGCATAGCCACCAGAACAGATATGA
65 TGGCAGAGCCACCAGAACAGATATGA
* * *
15363974 ACAGATATATGTGGCAGAGCCATCAGATCAGATA-ATCGTGGCATAGCCACCAGAACAGATATAT
1 ACAGATAT-TGTGGCAGAGCCACCAGAACAGATATAT-GTGGCAGAGCCACCAGAACAGATATAT
*
15364038 GTGGCAGAGCCACCAGATCAGATA
64 GTGGCAGAGCCACCAGAACAGATA
15364062 ATTGTGGCAT
Statistics
Matches: 78, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
90 10 0.13
91 66 0.85
92 2 0.03
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (90 bp):
ACAGATATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGAACAGATATATGT
GGCAGAGCCACCAGAACAGATATGA
Found at i:15365732 original size:26 final size:26
Alignment explanation
Indices: 15365701--15365808 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
15365691 TGAAATGCCC
*
15365701 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
15365727 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
15365753 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
15365779 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
15365805 ATCA
1 ATCA
15365809 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:15374626 original size:33 final size:33
Alignment explanation
Indices: 15374556--15374632 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 33
15374546 TATATTTATG
* * * *
15374556 TGTAAGACTATAGCTGGGCTATGGCATCCCGAT
1 TGTAAGACCATAACTGGGCTATGGCATCACGAA
*
15374589 TGTAAGACCATAACTGGGTTATGGCA-CTACGAA
1 TGTAAGACCATAACTGGGCTATGGCATC-ACGAA
15374622 TGTAAGACCAT
1 TGTAAGACCAT
15374633 GGCAGGGTCA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
32 1 0.03
33 37 0.97
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (33 bp):
TGTAAGACCATAACTGGGCTATGGCATCACGAA
Found at i:15376376 original size:18 final size:17
Alignment explanation
Indices: 15376323--15376376 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 17
15376313 TTTTTTAACC
15376323 TTTTTATT-TGTTATTA
1 TTTTTATTATGTTATTA
*
15376339 TTTTTATCGTATTTTA-TA
1 TTTTTAT--TATGTTATTA
15376357 TTTTTATTACTGTTATTA
1 TTTTTATTA-TGTTATTA
15376375 TT
1 TT
15376377 ATCTCACTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
16 9 0.29
17 4 0.13
18 14 0.45
19 4 0.13
ACGTcount: A:0.20, C:0.04, G:0.06, T:0.70
Consensus pattern (17 bp):
TTTTTATTATGTTATTA
Found at i:15387338 original size:46 final size:46
Alignment explanation
Indices: 15387288--15387416 Score: 231
Period size: 46 Copynumber: 2.8 Consensus size: 46
15387278 TGGTTGAGCA
15387288 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
15387334 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
15387380 CCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
15387417 GCGGGTTACA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:15390358 original size:15 final size:15
Alignment explanation
Indices: 15390319--15390397 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
15390309 GTATCTTGGG
*
15390319 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
15390334 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
15390349 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
15390363 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
15390378 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
15390392 TTTCTT
1 TTTCTT
15390398 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:15390382 original size:29 final size:29
Alignment explanation
Indices: 15390310--15390396 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
15390300 CATAGTATCG
* * * *
15390310 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
15390340 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
15390369 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
15390397 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:15392817 original size:46 final size:45
Alignment explanation
Indices: 15392767--15392942 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
15392757 TGGTTGAGCA
15392767 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
15392813 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
15392860 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
15392906 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
15392943 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:15392923 original size:93 final size:93
Alignment explanation
Indices: 15392764--15392934 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
15392754 GGATGGTTGA
* *
15392764 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
15392829 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
15392857 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
15392922 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
15392935 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:15409658 original size:35 final size:35
Alignment explanation
Indices: 15409619--15409709 Score: 110
Period size: 35 Copynumber: 2.6 Consensus size: 35
15409609 CTGTATCTTG
* *
15409619 TTTACATGGTGTTGCCCTGAATGACTTATATACCA
1 TTTACATGGTGTTGCCTTGAAAGACTTATATACCA
* * ** * *
15409654 TTTACACGATGTCACATTGAAAGACTTATATATCA
1 TTTACATGGTGTTGCCTTGAAAGACTTATATACCA
15409689 TTTACATGGTGTTGCCTTGAA
1 TTTACATGGTGTTGCCTTGAA
15409710 GGACCAGTAG
Statistics
Matches: 43, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (35 bp):
TTTACATGGTGTTGCCTTGAAAGACTTATATACCA
Found at i:15411191 original size:6 final size:6
Alignment explanation
Indices: 15411161--15411341 Score: 113
Period size: 6 Copynumber: 29.3 Consensus size: 6
15411151 AAGAAACATT
* * *
15411161 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * *
15411210 ATCAAA ATCAAA ATCAGA ATCGGA ATTAGGTA A-CAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
* * *
15411259 ATCAGGTA A-CAGA ATCAGA ACCAGA ATCAGT ATTAGGTA A-CAGA ATCAGA
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
*
15411309 ATCAGT ATCAGGTA A-CAGA ATCAGA ATCAGA AT
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
15411342 GTGAATGCAA
Statistics
Matches: 136, Mismatches: 22, Indels: 34
0.71 0.11 0.18
Matches are distributed among these distances:
5 10 0.07
6 106 0.78
7 14 0.10
8 6 0.04
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:15411216 original size:37 final size:37
Alignment explanation
Indices: 15411170--15411341 Score: 143
Period size: 37 Copynumber: 4.5 Consensus size: 37
15411160 TATCAGAACT
* *
15411170 AGAATCAAAATGAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAAC
* * *
15411207 AGAATCAAAATCAAAATCAGAATCGGAATTAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAAC
* *
15411244 AGAATCAGAATCAGTATCAGGTAA-CAGAATCA-G-AACC
1 AGAATCAAAATCAGAATCA-G-AATCAGAATCAGGTAA-C
* *
15411281 AGAATCAGTATTAGGTAACAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCA--A--A---ATCAGAATCAGAATCAGAATCAGGTAAC
*
15411325 AGAATCAGAATCAGAAT
1 AGAATCAAAATCAGAAT
15411342 GTGAATGCAA
Statistics
Matches: 106, Mismatches: 16, Indels: 26
0.72 0.11 0.18
Matches are distributed among these distances:
36 2 0.02
37 64 0.60
38 7 0.07
39 2 0.02
40 1 0.01
41 1 0.01
42 2 0.02
43 8 0.08
44 17 0.16
45 2 0.02
ACGTcount: A:0.48, C:0.15, G:0.19, T:0.19
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:15411249 original size:25 final size:25
Alignment explanation
Indices: 15411221--15411338 Score: 146
Period size: 25 Copynumber: 4.5 Consensus size: 25
15411211 TCAAAATCAA
* * *
15411221 AATCAGAATCGGAATTAGGTAACAG
1 AATCAGAATCAGTATCAGGTAACAG
15411246 AATCAGAATCAGTATCAGGTAACAG
1 AATCAGAATCAGTATCAGGTAACAG
*
15411271 AATCAGAACCAGAATCAGTATTAGGTAACAG
1 AAT------CAGAATCAGTATCAGGTAACAG
15411302 AATCAGAATCAGTATCAGGTAACAG
1 AATCAGAATCAGTATCAGGTAACAG
15411327 AATCAGAATCAG
1 AATCAGAATCAG
15411339 AATGTGAATG
Statistics
Matches: 82, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
25 58 0.71
31 24 0.29
ACGTcount: A:0.45, C:0.15, G:0.20, T:0.19
Consensus pattern (25 bp):
AATCAGAATCAGTATCAGGTAACAG
Found at i:15411314 original size:56 final size:56
Alignment explanation
Indices: 15411182--15411341 Score: 212
Period size: 56 Copynumber: 2.8 Consensus size: 56
15411172 AATCAAAATG
* * * *
15411182 AGAATCAGAATCAGAATCAGGTGACAGAATCAAAATCAAAATCAGAATCGGAATTAGGTAAC
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAA-C-----CAGAATCAGAATTAGGTAAC
*
15411244 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAACCAGAATCAGTATTAGGTAAC
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAACCAGAATCAGAATTAGGTAAC
*
15411300 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAAT
1 AGAATCAGAATCAGTATCAGGTAACAGAATCAGAACCAGAAT
15411342 GTGAATGCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
56 59 0.64
61 1 0.01
62 32 0.35
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (56 bp):
AGAATCAGAATCAGTATCAGGTAACAGAATCAGAACCAGAATCAGAATTAGGTAAC
Found at i:15411608 original size:27 final size:26
Alignment explanation
Indices: 15411560--15411611 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
15411550 GCGAGGCTGC
*
15411560 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
15411586 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
15411612 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:15411886 original size:27 final size:27
Alignment explanation
Indices: 15411856--15412212 Score: 412
Period size: 27 Copynumber: 13.3 Consensus size: 27
15411846 GGGGTAAAAT
* * * *
15411856 GGTAATTTTACCCCACAAGGATATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
15411883 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
15411910 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
15411937 GGT-ATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
15411963 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* ** * *
15411990 AGTAATTCTACCCTGTAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
15412017 GGTATTTCTACGCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
15412044 GATATTTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
15412071 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
15412098 AGTAATTCTAACCTAC-AGGGATATTTC
1 GGTAATTCTACCCTACAAGGG-TATTTC
* * * * *
15412125 GATATTTCTACCTTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
15412152 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
15412179 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
15412206 GGTAATT
1 GGTAATT
15412213 TTGTAAATTG
Statistics
Matches: 285, Mismatches: 42, Indels: 6
0.86 0.13 0.02
Matches are distributed among these distances:
26 28 0.10
27 254 0.89
28 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:15411903 original size:54 final size:54
Alignment explanation
Indices: 15411845--15411975 Score: 124
Period size: 53 Copynumber: 2.5 Consensus size: 54
15411835 TTAACACCCT
* *
15411845 AGGGGTAAAAT-GGTAATTTTACCCCACAAGGATATCTCGGTAATTCTACCCTAC
1 AGGGGTAAAATCAGTAATTCTACCCCACAAGGATATCTCGGT-ATTCTACCCTAC
** * * * *
15411899 AGGGGT-ATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTCTACCCTAC
1 AGGGGTAAAATCAGTAATTCTACCCCACAAGGATATCTCGGTATTCTACCCTAC
* ** *
15411952 AAGGGT-ATTTCGGTAATTCTACCC
1 AGGGGTAAAATCAGTAATTCTACCC
15411976 TACAGGGGTA
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
53 36 0.55
54 30 0.45
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (54 bp):
AGGGGTAAAATCAGTAATTCTACCCCACAAGGATATCTCGGTATTCTACCCTAC
Found at i:15412068 original size:81 final size:81
Alignment explanation
Indices: 15411860--15412206 Score: 457
Period size: 81 Copynumber: 4.3 Consensus size: 81
15411850 TAAAATGGTA
* * * * * *
15411860 ATTT-TACCCCACAAGGATATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGATATTTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
15411924 ACAGGGGTATTTCGGT
66 ACAGGGGTATTTCGGT
* *
15411940 A-TTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGATATTTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
** *
15412004 GTAGGGGTATTTTGGT
66 ACAGGGGTATTTCGGT
* * * *
15412020 ATTTCTACGCTACAGGGGTATTTCGATATTTCTACCCTACAAGGGTATTTTGGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGATATTTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
**
15412085 ACAGGGGTATTTTAGT
66 ACAGGGGTATTTCGGT
* * * * *
15412101 AATTCTAACCTAC-AGGGATATTTCGATATTTCTACCTTACAGGGGTATTTTGGTATTTCTACCC
1 ATTTCTACCCTACAAGGG-TATTTCGATATTTCTACCCTACAGGGGTATTTTAGTAATTCTACCC
*
15412165 TACAAGGGTATTTCGGT
65 TACAGGGGTATTTCGGT
15412182 ATTTCTACCCTACAAGGGTATTTCG
1 ATTTCTACCCTACAAGGGTATTTCG
15412207 GTAATTTTGT
Statistics
Matches: 235, Mismatches: 28, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
79 2 0.01
80 74 0.31
81 155 0.66
82 4 0.02
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGATATTTCTACCCTACAGGGGTATTTTAGTAATTCTACCCT
ACAGGGGTATTTCGGT
Found at i:15412292 original size:27 final size:26
Alignment explanation
Indices: 15412262--15412407 Score: 85
Period size: 27 Copynumber: 5.4 Consensus size: 26
15412252 TGTACTTTGG
15412262 TAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTACAAGTC-AGGGTATTTCAA
* * *
15412289 TAATTTTACAGGTCAAGGGTATTTTAG
1 TAATTTTACAAGTC-AGGGTATTTCAA
* * ***
15412316 TAATTTCACAAATCAGGGATATTTTGG
1 TAATTTTACAAGTCAGGG-TATTTCAA
* * * **
15412343 TAATTTTATAAACTAAGGGTATTTTGA
1 TAATTTTA-CAAGTCAGGGTATTTCAA
** ***
15412370 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAGTCA-GGGTATTTCAA
15412397 TAATTTTACAA
1 TAATTTTACAA
15412408 ACTAGGGGTA
Statistics
Matches: 98, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
26 7 0.07
27 84 0.86
28 7 0.07
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.40
Consensus pattern (26 bp):
TAATTTTACAAGTCAGGGTATTTCAA
Found at i:15412331 original size:81 final size:80
Alignment explanation
Indices: 15412244--15412483 Score: 234
Period size: 81 Copynumber: 3.0 Consensus size: 80
15412234 ATAATTCTGT
* * * ***
15412244 AAATCAGGTGTACTTTGGTAATTTTAC-AAGTCGAGGGTATTTCAATAATTTTACAGGTCAAGGG
1 AAATCAGG-GTATTTTGGTAATTTTACAAACT-AAGGGTATTTCAATAATTTTACAAACCAAGGG
15412308 TATTTTAGTAATTTCAC
64 TATTTTAGTAATTTCAC
* ** *
15412325 AAATCAGGGATATTTTGGTAATTTTATAAACTAAGGGTATTTTGATAATTTTACAAACCAGGGGT
1 AAATCAGGG-TATTTTGGTAATTTTACAAACTAAGGGTATTTCAATAATTTTACAAACCAAGGGT
* *
15412390 ATTTTGGTAATTTTAC
65 ATTTTAGTAATTTCAC
* * * * *
15412406 AAA-CTAGGGGTATTTTGGTAATTTTATAAAC-AAGGGGTATTTTAGTAATTTTACAAACTAGGG
1 AAATC-A-GGGTATTTTGGTAATTTTACAAACTAA-GGGTATTTCAATAATTTTACAAACCAAGG
* *
15412469 GTACTTTGGTAATTT
63 GTATTTTAGTAATTT
15412484 TGTAAAACTA
Statistics
Matches: 138, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
80 4 0.03
81 128 0.93
82 6 0.04
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (80 bp):
AAATCAGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAATAATTTTACAAACCAAGGGTA
TTTTAGTAATTTCAC
Found at i:15412408 original size:27 final size:27
Alignment explanation
Indices: 15412305--15412484 Score: 245
Period size: 27 Copynumber: 6.7 Consensus size: 27
15412295 TACAGGTCAA
* *
15412305 GGGTATTTTAGTAATTTCACAAA-TCAG
1 GGGTATTTTGGTAATTTTACAAACT-AG
* * *
15412332 GGATATTTTGGTAATTTTATAAACTAA
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
15412359 GGGTATTTTGATAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAG
15412386 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* *
15412413 GGGTATTTTGGTAATTTTATAAACAAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
15412440 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
15412467 GGGTACTTTGGTAATTTT
1 GGGTATTTTGGTAATTTT
15412485 GTAAAACTAA
Statistics
Matches: 133, Mismatches: 19, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
27 132 0.99
28 1 0.01
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:15412484 original size:81 final size:81
Alignment explanation
Indices: 15412277--15412484 Score: 269
Period size: 81 Copynumber: 2.6 Consensus size: 81
15412267 TTACAAGTCG
** *** * * *
15412277 AGGGTATTTCAATAATTTTACAGGTCAAGGGTATTTTAGTAATTTCACAAATCAGGGATATTTTG
1 AGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAATCAGGGATATTTTG
15412342 GTAATTTTATAAACTA
66 GTAATTTTATAAACTA
*
15412358 AGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTT
1 AGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAATC-AGGGATATTTT
15412422 GGTAATTTTATAAAC-A
65 GGTAATTTTATAAACTA
* *
15412438 AGGGGTATTTT-AGTAATTTTACAAACTAGGGGTACTTTGGTAATTTT
1 A-GGGTATTTTGA-TAATTTTACAAACCAGGGGTATTTTGGTAATTTT
15412485 GTAAAACTAA
Statistics
Matches: 113, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
80 4 0.04
81 109 0.96
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (81 bp):
AGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAATCAGGGATATTTTG
GTAATTTTATAAACTA
Found at i:15414276 original size:56 final size:58
Alignment explanation
Indices: 15414201--15414322 Score: 185
Period size: 56 Copynumber: 2.1 Consensus size: 58
15414191 ATTTTCAGGT
15414201 CATTTTCAATTTCAATTTGGAGAAAACCACATTCATTTCCAAA-ATTT-TCATTTCTC
1 CATTTTCAATTTCAATTTGGAGAAAACCACATTCATTTCCAAATATTTCTCATTTCTC
* * * * *
15414257 TATTTTCATTTTCATTTTGGAGAAAACCACATTTATTTCCAAATATTTCTTATTTCTC
1 CATTTTCAATTTCAATTTGGAGAAAACCACATTCATTTCCAAATATTTCTCATTTCTC
15414315 CATTTTCA
1 CATTTTCA
15414323 CCATTTTTAT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
56 39 0.67
57 4 0.07
58 15 0.26
ACGTcount: A:0.30, C:0.20, G:0.05, T:0.46
Consensus pattern (58 bp):
CATTTTCAATTTCAATTTGGAGAAAACCACATTCATTTCCAAATATTTCTCATTTCTC
Found at i:15419425 original size:25 final size:25
Alignment explanation
Indices: 15419315--15419427 Score: 88
Period size: 25 Copynumber: 4.6 Consensus size: 25
15419305 CGTTTAAACT
*
15419315 TTCC-GTTAT-TGGCTCACATGAGC
1 TTCCTGTTATATGGCTCACATAAGC
** * **
15419338 TTATTGAT-TATGGCTCTTATAAGC
1 TTCCTGTTATATGGCTCACATAAGC
* * * *
15419362 TTCCTGTTACAAGGCCCAAATAAGC
1 TTCCTGTTATATGGCTCACATAAGC
* * *
15419387 CTCCTGTTACATGGCTCACATGAGC
1 TTCCTGTTATATGGCTCACATAAGC
15419412 TTCCTGTTATATGGCT
1 TTCCTGTTATATGGCT
15419428 TGAACGAGTG
Statistics
Matches: 66, Mismatches: 21, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
23 3 0.05
24 18 0.27
25 45 0.68
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (25 bp):
TTCCTGTTATATGGCTCACATAAGC
Found at i:15430496 original size:30 final size:30
Alignment explanation
Indices: 15430462--15430527 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
15430452 AATGGTAAGA
15430462 TAATTTTTGTTATACGAACTTACTAAGCAT
1 TAATTTTTGTTATACGAACTTACTAAGCAT
15430492 TAATTTTTGTTATACGAACTTACTAAGCAT
1 TAATTTTTGTTATACGAACTTACTAAGCAT
15430522 TAATTT
1 TAATTT
15430528 CTTATTCTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.45
Consensus pattern (30 bp):
TAATTTTTGTTATACGAACTTACTAAGCAT
Found at i:15436528 original size:20 final size:19
Alignment explanation
Indices: 15436490--15436529 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
15436480 ACCTGTCAGA
* *
15436490 AGAAAATAAATGAAGAATT
1 AGAAAATAAATAAAAAATT
15436509 AGAAAATAAAATAAAAAATT
1 AGAAAAT-AAATAAAAAATT
15436529 A
1 A
15436530 AATTGCAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.70, C:0.00, G:0.10, T:0.20
Consensus pattern (19 bp):
AGAAAATAAATAAAAAATT
Found at i:15444162 original size:7 final size:7
Alignment explanation
Indices: 15444146--15444181 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
15444136 TAAAATCATT
15444146 TCAT-TA
1 TCATATA
15444152 TCATATA
1 TCATATA
15444159 TCATATA
1 TCATATA
*
15444166 TAATATA
1 TCATATA
15444173 TCATATA
1 TCATATA
15444180 TC
1 TC
15444182 CTTTGAACTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 4 0.15
7 23 0.85
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (7 bp):
TCATATA
Found at i:15444961 original size:16 final size:15
Alignment explanation
Indices: 15444940--15444973 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
15444930 CAATCTTTCA
15444940 CTTTCCTTCCAACTTT
1 CTTTCCTTCCAA-TTT
*
15444956 CTTTCCTTCTAATTT
1 CTTTCCTTCCAATTT
15444971 CTT
1 CTT
15444974 ATCTCTTGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.12, C:0.32, G:0.00, T:0.56
Consensus pattern (15 bp):
CTTTCCTTCCAATTT
Found at i:15448946 original size:17 final size:17
Alignment explanation
Indices: 15448924--15448965 Score: 75
Period size: 17 Copynumber: 2.4 Consensus size: 17
15448914 AATACTTATT
15448924 CATCATCCTGCATAATC
1 CATCATCCTGCATAATC
15448941 CATCATCCTGCATAATC
1 CATCATCCTGCATAATC
15448958 CATTCATC
1 CA-TCATC
15448966 TATCAAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 19 0.79
18 5 0.21
ACGTcount: A:0.29, C:0.36, G:0.05, T:0.31
Consensus pattern (17 bp):
CATCATCCTGCATAATC
Found at i:15449686 original size:24 final size:25
Alignment explanation
Indices: 15449631--15449699 Score: 86
Period size: 24 Copynumber: 2.8 Consensus size: 25
15449621 GAGTCATGGT
**
15449631 CGGTAAGCTCCTCCTGAGCTAATAAA
1 CGGTAAGCT-CTATTGAGCTAATAAA
* *
15449657 CAGTAAGCTCTATTGATCTAA-AAA
1 CGGTAAGCTCTATTGAGCTAATAAA
15449681 CGGTAAGCTCTATTGAGCT
1 CGGTAAGCTCTATTGAGCT
15449700 GAACAGTGAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
24 20 0.54
25 9 0.24
26 8 0.22
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.28
Consensus pattern (25 bp):
CGGTAAGCTCTATTGAGCTAATAAA
Found at i:15449720 original size:22 final size:23
Alignment explanation
Indices: 15449657--15449759 Score: 93
Period size: 23 Copynumber: 4.5 Consensus size: 23
15449647 AGCTAATAAA
* * *
15449657 CAGTAAGCTCTATTGATCTAAAAA
1 CAGTAAGCTCTATTGAGCT-GAAT
*
15449681 CGGTAAGCTCTATTGAGCTGAA-
1 CAGTAAGCTCTATTGAGCTGAAT
*
15449703 CAGTGAGCTCT-TTCGAGCTGAAT
1 CAGTAAGCTCTATT-GAGCTGAAT
* * * *
15449726 CAGTAAGCTCCAATGGGCTGAAA
1 CAGTAAGCTCTATTGAGCTGAAT
15449749 CAGTAAGCTCT
1 CAGTAAGCTCT
15449760 TACGAATCAG
Statistics
Matches: 65, Mismatches: 11, Indels: 7
0.78 0.13 0.08
Matches are distributed among these distances:
21 2 0.03
22 17 0.26
23 28 0.43
24 18 0.28
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (23 bp):
CAGTAAGCTCTATTGAGCTGAAT
Found at i:15453632 original size:27 final size:26
Alignment explanation
Indices: 15453583--15453723 Score: 135
Period size: 27 Copynumber: 5.2 Consensus size: 26
15453573 AGGAAGCGTC
15453583 CTGGTGGCT-ATGCCACAATTATCTGAT
1 CTGGTGGCTCA-GCCACAA-TATCTGAT
*
15453610 CTGGTGGCTCAGCTACATATATCTG-T
1 CTGGTGGCTCAGCCACA-ATATCTGAT
15453636 CCTGGTGGCT-ATGCCACAATTATCTGAT
1 -CTGGTGGCTCA-GCCACAA-TATCTGAT
* * * *
15453664 GTAGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCAGCCACA-ATATCTGAT
*
15453691 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCAGCCACAATATCTG-AT
15453718 CTGGTG
1 CTGGTG
15453724 ACTTCGTCAC
Statistics
Matches: 96, Mismatches: 9, Indels: 18
0.78 0.07 0.15
Matches are distributed among these distances:
26 10 0.10
27 82 0.85
28 4 0.04
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.34
Consensus pattern (26 bp):
CTGGTGGCTCAGCCACAATATCTGAT
Found at i:15453662 original size:54 final size:54
Alignment explanation
Indices: 15453580--15453723 Score: 218
Period size: 54 Copynumber: 2.7 Consensus size: 54
15453570 TGAAGGAAGC
*
15453580 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCAGCTACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCAGCCACATATATCT
* * *
15453634 GTCCTGGTGGCTATGCCACAATTATCTGATGTAGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCAGCCACATATATCT
* *
15453688 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
15453724 ACTTCGTCAC
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 6 0.07
54 75 0.93
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCAGCCACATATATCT
Found at i:15455697 original size:17 final size:17
Alignment explanation
Indices: 15455675--15455710 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
15455665 ATCTTCACTG
15455675 TCGCAAATTCAAATCTT
1 TCGCAAATTCAAATCTT
15455692 TCGCAAATTCAAATCTT
1 TCGCAAATTCAAATCTT
15455709 TC
1 TC
15455711 TATGACATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.25, G:0.06, T:0.36
Consensus pattern (17 bp):
TCGCAAATTCAAATCTT
Found at i:15459483 original size:94 final size:93
Alignment explanation
Indices: 15459335--15459558 Score: 265
Period size: 94 Copynumber: 2.4 Consensus size: 93
15459325 TCACTTGTGT
* *
15459335 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGGAAGCTAGTGTAAGACCATG
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGGAAGCTAGTGTAAGACCATG
* *
15459400 TCTGGGACATGGCATTGGCAC-TGAGACAA
66 TCTGGGACATCGCA-TCG-ACTTGAGACAA
* * *
15459429 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GAT-GATAGTTAGTGTAAGACCG
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGGA-AGCTAGTGTAAGACCA
* *
15459492 TGTCTGGGACATCGCATCGACTTGAGATAT
64 TGTCTGGGACATCGCATCGACTTGAGACAA
* * *
15459522 GAGCCAGTGTAAGACCATGTTTGGGACATGTCATCGG
1 GTGCTAGTGTAAGA-CATGTCTGGGACATG-CATCGG
15459559 TACCTTACCC
Statistics
Matches: 113, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
92 2 0.02
93 22 0.19
94 82 0.73
95 7 0.06
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (93 bp):
GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGGAAGCTAGTGTAAGACCATG
TCTGGGACATCGCATCGACTTGAGACAA
Found at i:15459519 original size:47 final size:45
Alignment explanation
Indices: 15459339--15459557 Score: 164
Period size: 47 Copynumber: 4.7 Consensus size: 45
15459329 TTGTGTGTGC
* *
15459339 TAGTGTAAGA-CATGTCTGGGACATGCATCAGCCACATT-ATG-GA-AGC
1 TAGTGTAAGACCATGTCTGGGACATGCATC-G--AC-TTGA-GATATAGT
* *
15459385 TAGTGTAAGACCATGTCTGGGACATGGCATTGGCAC-TGAGACA-AGT
1 TAGTGTAAGACCATGTCTGGGACAT-GCA-TCG-ACTTGAGATATAGT
* *
15459431 GCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCTACGAGATGATAGT
1 --TAGTGTAAGACCATGTCTGGGACATGCATCGACT-TGAGAT-ATAGT
* *
15459479 TAGTGTAAGACCGTGTCTGGGACATCGCATCGACTTGAGATATGAGC
1 TAGTGTAAGACCATGTCTGGGACAT-GCATCGACTTGAGATAT-AGT
* *
15459526 CAGTGTAAGACCATGTTTGGGACATGTCATCG
1 TAGTGTAAGACCATGTCTGGGACATG-CATCG
15459558 GTACCTTACC
Statistics
Matches: 144, Mismatches: 14, Indels: 29
0.77 0.07 0.16
Matches are distributed among these distances:
44 1 0.01
45 4 0.03
46 34 0.24
47 79 0.55
48 25 0.17
49 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (45 bp):
TAGTGTAAGACCATGTCTGGGACATGCATCGACTTGAGATATAGT
Found at i:15462233 original size:21 final size:21
Alignment explanation
Indices: 15462208--15462311 Score: 96
Period size: 21 Copynumber: 5.2 Consensus size: 21
15462198 TAGCCTTCGG
15462208 GCTTCCGTTTAGCACTTGTGT
1 GCTTCCGTTTAGCACTTGTGT
* *
15462229 GCTTCAG-TTAGC-CTT-TGA
1 GCTTCCGTTTAGCACTTGTGT
*
15462247 GCTTCCATTTAGCACTTGTGT
1 GCTTCCGTTTAGCACTTGTGT
*
15462268 GCTTCAG-TTAGC-CTTCG-G-
1 GCTTCCGTTTAGCACTT-GTGT
* *
15462286 GCTTCCGTTTAGCACTTATTT
1 GCTTCCGTTTAGCACTTGTGT
15462307 GCTTC
1 GCTTC
15462312 AACTAGACTT
Statistics
Matches: 65, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
18 13 0.20
19 17 0.26
20 17 0.26
21 18 0.28
ACGTcount: A:0.12, C:0.25, G:0.21, T:0.41
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTGTGT
Found at i:15462235 original size:39 final size:39
Alignment explanation
Indices: 15462190--15462329 Score: 208
Period size: 39 Copynumber: 3.6 Consensus size: 39
15462180 GCTTTGATGA
15462190 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* * *
15462229 GCTTCAGTTAGCCTTTGAGCTTCCATTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* *
15462268 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATTT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
** *
15462307 GCTTCAACTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
15462330 AGATCACGAT
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 90 1.00
ACGTcount: A:0.14, C:0.26, G:0.22, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
Found at i:15468509 original size:15 final size:15
Alignment explanation
Indices: 15468489--15468530 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
15468479 GCTGTAAATG
15468489 GGATTTCCTTATCAT
1 GGATTTCCTTATCAT
* *
15468504 GGATTTCTTTATCTT
1 GGATTTCCTTATCAT
15468519 GGATTTCCTTAT
1 GGATTTCCTTAT
15468531 TCTAGGCCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.52
Consensus pattern (15 bp):
GGATTTCCTTATCAT
Found at i:15471220 original size:21 final size:21
Alignment explanation
Indices: 15471195--15471259 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 21
15471185 TAGCCTTTAG
15471195 GCTTCCGTTTAGCACTTGTGT
1 GCTTCCGTTTAGCACTTGTGT
**
15471216 GCTT-CAATTAGC-CTTCG-G-
1 GCTTCCGTTTAGCACTT-GTGT
*
15471234 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTGTGT
15471255 GCTTC
1 GCTTC
15471260 AGCTAAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 10
0.69 0.10 0.20
Matches are distributed among these distances:
18 4 0.12
19 10 0.29
20 11 0.32
21 9 0.26
ACGTcount: A:0.12, C:0.26, G:0.22, T:0.40
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTGTGT
Found at i:15471220 original size:39 final size:39
Alignment explanation
Indices: 15471177--15471261 Score: 134
Period size: 39 Copynumber: 2.2 Consensus size: 39
15471167 ACCTCAATGA
* *
15471177 GCTTCAGTTAGCCTTTAGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCAGGCTTCCGTTTAGCACTTATGT
* *
15471216 GCTTCAATTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCAGGCTTCCGTTTAGCACTTATGT
15471255 GCTTCAG
1 GCTTCAG
15471262 CTAAACTTCG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.14, C:0.25, G:0.22, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCAGGCTTCCGTTTAGCACTTATGT
Found at i:15471271 original size:39 final size:39
Alignment explanation
Indices: 15471194--15471277 Score: 123
Period size: 39 Copynumber: 2.2 Consensus size: 39
15471184 TTAGCCTTTA
* * **
15471194 GGCTTCCGTTTAGCACTTGTGTGCTTCAATTAGCCTTCG
1 GGCTTCCGTTTAGCACTTATGTGCTTCAACTAAACTTCG
*
15471233 GGCTTCCGTTTAGCACTTATGTGCTTCAGCTAAACTTCG
1 GGCTTCCGTTTAGCACTTATGTGCTTCAACTAAACTTCG
15471272 GGCTTC
1 GGCTTC
15471278 AGATCACGAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.14, C:0.26, G:0.23, T:0.37
Consensus pattern (39 bp):
GGCTTCCGTTTAGCACTTATGTGCTTCAACTAAACTTCG
Found at i:15475314 original size:22 final size:22
Alignment explanation
Indices: 15475258--15475362 Score: 104
Period size: 23 Copynumber: 4.6 Consensus size: 22
15475248 TGAGTTGATA
* * *
15475258 AACAATAAGCTCTATTGCGCTAAA
1 AACAGTAAGCTCTATTGAGCT--G
*
15475282 AACGGTAAGCTCTATTGAGCTG
1 AACAGTAAGCTCTATTGAGCTG
15475304 AACAGTAAGCTCT-TTCGAGCTG
1 AACAGTAAGCTCTATT-GAGCTG
* *
15475326 AATCAGTAAGCTCCAATGAGCTG
1 AA-CAGTAAGCTCTATTGAGCTG
15475349 AAACAGTAAGCTCT
1 -AACAGTAAGCTCT
15475363 TACGAATCAG
Statistics
Matches: 69, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
21 2 0.03
22 20 0.29
23 26 0.38
24 21 0.30
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (22 bp):
AACAGTAAGCTCTATTGAGCTG
Found at i:15475316 original size:46 final size:46
Alignment explanation
Indices: 15475257--15475363 Score: 119
Period size: 46 Copynumber: 2.3 Consensus size: 46
15475247 CTGAGTTGAT
* * * * *
15475257 AAACAATAAGCTCTATT-GCGCTAAAAACGGTAAGCTCTATTGAGCTG
1 AAACAGTAAGCTCT-TTCGAGCT-AAAACAGTAAGCTCCAATGAGCTG
* *
15475304 -AACAGTAAGCTCTTTCGAGCTGAATCAGTAAGCTCCAATGAGCTG
1 AAACAGTAAGCTCTTTCGAGCTAAAACAGTAAGCTCCAATGAGCTG
15475349 AAACAGTAAGCTCTT
1 AAACAGTAAGCTCTT
15475364 ACGAATCAGT
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
45 21 0.41
46 30 0.59
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.25
Consensus pattern (46 bp):
AAACAGTAAGCTCTTTCGAGCTAAAACAGTAAGCTCCAATGAGCTG
Found at i:15481112 original size:15 final size:14
Alignment explanation
Indices: 15481081--15481114 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
15481071 ATGTGATGTG
*
15481081 TTTTGAAAAAATTA
1 TTTTGAAAAAATGA
15481095 TTTTGAAAAAATGGA
1 TTTTGAAAAAAT-GA
15481110 TTTTG
1 TTTTG
15481115 TTTCTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (14 bp):
TTTTGAAAAAATGA
Found at i:15481338 original size:156 final size:157
Alignment explanation
Indices: 15481150--15481481 Score: 397
Period size: 157 Copynumber: 2.1 Consensus size: 157
15481140 AATTGTACAA
* * * * *
15481150 AAAAAAGCTTCCAAGTAGACTC-TTTTTTTGTACAGTTGATTCT-AAAAAAAGAA-ATTGAGAAT
1 AAAAAAGCTCCCAACTGGACGCTTTTTTTTGTACAGTTGATTCTGAAAAAAA-AATATTGAGAAG
* * * *
15481212 ATGGTTTTGAAA-AAGTATCCCCAAATTC-TCGAGAAATCTAATAGTTAGGGTTTAAAAACGCTT
65 ATGGTTCTGAAAGAA-TATCACCAAATTCAT-GAGAAATCTAATAGTTAGGGTTGAAAAACACTT
*
15481275 CAAGCAAGATGCACTATCAAG-GAAAGTACT
128 CAAGCAAGATGCACTATC-AGCAAAAGTACT
* *
15481305 GAAAAAGCTCCCAACTGGACGCTTTTTTTTGTACAGTTGATTCTGAAAAAAAAATTTTGAGAAGA
1 AAAAAAGCTCCCAACTGGACGCTTTTTTTTGTACAGTTGATTCTGAAAAAAAAATATTGAGAAGA
*** * * *
15481370 TGGTTCTGAAAGAATATCACGGGATTCATGGGAAATCTAATAGTTGGGGTTGAAAAATACTTCAA
66 TGGTTCTGAAAGAATATCACCAAATTCATGAGAAATCTAATAGTTAGGGTTGAAAAACACTTCAA
*
15481435 GCAGGATGCACTATCAGCAAAAGTACT
131 GCAAGATGCACTATCAGCAAAAGTACT
* *
15481462 AAAAAAGCTCTCAATTGGAC
1 AAAAAAGCTCCCAACTGGAC
15481482 ATTCCTTTTA
Statistics
Matches: 149, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
155 17 0.11
156 25 0.17
157 104 0.70
158 3 0.02
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (157 bp):
AAAAAAGCTCCCAACTGGACGCTTTTTTTTGTACAGTTGATTCTGAAAAAAAAATATTGAGAAGA
TGGTTCTGAAAGAATATCACCAAATTCATGAGAAATCTAATAGTTAGGGTTGAAAAACACTTCAA
GCAAGATGCACTATCAGCAAAAGTACT
Found at i:15482721 original size:16 final size:16
Alignment explanation
Indices: 15482702--15482733 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
15482692 GGTGCATTGA
15482702 AGCAATATAGCATCAT
1 AGCAATATAGCATCAT
15482718 AGCAATATAGCATCAT
1 AGCAATATAGCATCAT
15482734 GAATGAGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (16 bp):
AGCAATATAGCATCAT
Found at i:15483166 original size:59 final size:59
Alignment explanation
Indices: 15483094--15483261 Score: 232
Period size: 59 Copynumber: 2.8 Consensus size: 59
15483084 TAGCTTCTAA
** * *
15483094 TTTATTAAATGAAACAATGA-AAAAATAATTTGTATGAACATATT-CAAAAGAACTTTTAT
1 TTTATTAAATGAAACAAT-ATAAAAATAATTTGTACAAAAATATTGAAAAAGAACTTTT-T
15483153 TTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTGAAAAAGAACTTTTT
1 TTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTGAAAAAGAACTTTTT
* * * *
15483212 TTTATTAAATGAAACAATATAAAAATAGTTTATACAAATATATTCAAAAA
1 TTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTGAAAAA
15483262 TAAATCAATG
Statistics
Matches: 99, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
58 1 0.01
59 86 0.87
60 12 0.12
ACGTcount: A:0.52, C:0.06, G:0.07, T:0.35
Consensus pattern (59 bp):
TTTATTAAATGAAACAATATAAAAATAATTTGTACAAAAATATTGAAAAAGAACTTTTT
Found at i:15488312 original size:21 final size:21
Alignment explanation
Indices: 15488270--15488412 Score: 74
Period size: 21 Copynumber: 6.9 Consensus size: 21
15488260 TCTCATGAGC
* * *
15488270 TTCAG-TTAACTCATATGAGT
1 TTCAGTTTAACCCTTATGGGT
*
15488290 TTCAGTTTAACCCTTCTGGGT
1 TTCAGTTTAACCCTTATGGGT
* * * * * *
15488311 TTCAGTTCAGCTCTTTTGAGC
1 TTCAGTTTAACCCTTATGGGT
15488332 TTCAGTTTAACCCTTATGGGTT
1 TTCAGTTTAACCCTTATGGG-T
* * * *
15488354 TTC-GTTCAACTCTTATGAGC
1 TTCAGTTTAACCCTTATGGGT
* * * *
15488374 TTCCGTTCAACACTTACGGGT
1 TTCAGTTTAACCCTTATGGGT
* * *
15488395 TTCCGTTTAGCACTTATG
1 TTCAGTTTAACCCTTATG
15488413 TGCTTCTATG
Statistics
Matches: 93, Mismatches: 27, Indels: 5
0.74 0.22 0.04
Matches are distributed among these distances:
20 8 0.09
21 82 0.88
22 3 0.03
ACGTcount: A:0.19, C:0.22, G:0.17, T:0.41
Consensus pattern (21 bp):
TTCAGTTTAACCCTTATGGGT
Found at i:15488338 original size:42 final size:42
Alignment explanation
Indices: 15488277--15488401 Score: 144
Period size: 42 Copynumber: 3.0 Consensus size: 42
15488267 AGCTTCAGTT
* * *
15488277 AACTCATATGAGTTTCAGTTTAACCCTTCTGGG-TTTCAGTTC
1 AACTCTTATGAGCTTCAGTTTAACCCTTATGGGTTTTC-GTTC
* *
15488319 AGCTCTTTTGAGCTTCAGTTTAACCCTTATGGGTTTTCGTTC
1 AACTCTTATGAGCTTCAGTTTAACCCTTATGGGTTTTCGTTC
* * * * *
15488361 AACTCTTATGAGCTTCCGTTCAACACTTACGGGTTTCCGTT
1 AACTCTTATGAGCTTCAGTTTAACCCTTATGGGTTTTCGTT
15488402 TAGCACTTAT
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
42 66 0.94
43 4 0.06
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (42 bp):
AACTCTTATGAGCTTCAGTTTAACCCTTATGGGTTTTCGTTC
Found at i:15488411 original size:42 final size:42
Alignment explanation
Indices: 15488283--15488418 Score: 130
Period size: 42 Copynumber: 3.2 Consensus size: 42
15488273 AGTTAACTCA
* * * *
15488283 TATGAGTTTCAGTTTAACCCTT-CTGGGTTTCAGTTCAGCTCT
1 TATGAGCTTCAGTTCAACACTTAC-GGGTTTCCGTTCAGCTCT
* * * * * *
15488325 TTTGAGCTTCAGTTTAACCCTTATGGGTTTTCGTTCAACTCT
1 TATGAGCTTCAGTTCAACACTTACGGGTTTCCGTTCAGCTCT
* * *
15488367 TATGAGCTTCCGTTCAACACTTACGGGTTTCCGTTTAGCACT
1 TATGAGCTTCAGTTCAACACTTACGGGTTTCCGTTCAGCTCT
*
15488409 TATGTGCTTC
1 TATGAGCTTC
15488419 TATGCAGCTT
Statistics
Matches: 77, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 77 1.00
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (42 bp):
TATGAGCTTCAGTTCAACACTTACGGGTTTCCGTTCAGCTCT
Found at i:15492450 original size:26 final size:24
Alignment explanation
Indices: 15492410--15492469 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
15492400 TTATTTCATT
* * *
15492410 AAATAAAAAAATTTAAAAATATAA
1 AAATAAATATATTTAAAAACATAA
15492434 TAAATCAAATATATTTAAAAACATAA
1 -AAAT-AAATATATTTAAAAACATAA
15492460 AAATAAATAT
1 AAATAAATAT
15492470 TAAAACAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAAATATATTTAAAAACATAA
Found at i:15492481 original size:22 final size:20
Alignment explanation
Indices: 15492440--15492485 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
15492430 ATAATAAATC
* *
15492440 AAATATATTTAAAAACATAA
1 AAATAAATTTAAAAAAATAA
15492460 AAATAAATATTAAAACAAATAA
1 AAATAAAT-TTAAAA-AAATAA
15492482 AAAT
1 AAAT
15492486 GTTACTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.32
21 6 0.27
22 9 0.41
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (20 bp):
AAATAAATTTAAAAAAATAA
Found at i:15494116 original size:19 final size:20
Alignment explanation
Indices: 15494092--15494129 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15494082 GATTCAAAAT
15494092 ATTATAAA-AATTATTAAAG
1 ATTATAAATAATTATTAAAG
*
15494111 ATTATAAATACTTATTAAA
1 ATTATAAATAATTATTAAA
15494130 ATTTAGAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (20 bp):
ATTATAAATAATTATTAAAG
Found at i:15503259 original size:25 final size:23
Alignment explanation
Indices: 15503231--15503276 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
15503221 TTAATATAGA
15503231 GGTTACAAATTACAATTATATCAAC
1 GGTTA-AAATTACAA-TATATCAAC
* *
15503256 GGTTAACATTAGAATATATCA
1 GGTTAAAATTACAATATATCA
15503277 TTACAAGTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
24 7 0.37
25 5 0.26
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (23 bp):
GGTTAAAATTACAATATATCAAC
Found at i:15508831 original size:36 final size:36
Alignment explanation
Indices: 15508791--15508863 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
15508781 TATGCAAGAA
15508791 GAACTACAAGATTTTTAAAAGACTTACACTTTACTT
1 GAACTACAAGATTTTTAAAAGACTTACACTTTACTT
15508827 GAACTACAAGATTTTTAAAAGACTTACACTTTACTT
1 GAACTACAAGATTTTTAAAAGACTTACACTTTACTT
15508863 G
1 G
15508864 TTTAACTTAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (36 bp):
GAACTACAAGATTTTTAAAAGACTTACACTTTACTT
Found at i:15527733 original size:29 final size:30
Alignment explanation
Indices: 15527701--15527757 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
15527691 ATATAATATT
*
15527701 TTTTTCA-ATATTATAA-TATAATATTTAAG
1 TTTTTCATA-ATTAAAATTATAATATTTAAG
*
15527730 TTTTTCGTAATTAAAATTATAATATTTA
1 TTTTTCATAATTAAAATTATAATATTTA
15527758 TAACTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 12 0.50
30 12 0.50
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (30 bp):
TTTTTCATAATTAAAATTATAATATTTAAG
Found at i:15528338 original size:61 final size:61
Alignment explanation
Indices: 15528233--15528377 Score: 145
Period size: 61 Copynumber: 2.4 Consensus size: 61
15528223 TTTTAAAAAT
*
15528233 TAAA-ATT-AGGGTTAAATTTATTGAACTTTTTAGAATTTAAATTAAAATGAT-CAATTTTA
1 TAAATATTGAGGGTTAAATTTATTGAACTTTTTAGAATTTAAATTAAAATGATACAA-TATA
*** * * * *
15528292 TAAATATTGAGGGTTAAATTTATTGGGTTTTTTA-CATTTAGGATTAAATTGATACAATATG
1 TAAATATTGAGGGTTAAATTTATTGAACTTTTTAGAATTTA-AATTAAAATGATACAATATA
* *
15528353 TAAATATTAGAGAGCTAAATTTATT
1 TAAATATT-GAGGGTTAAATTTATT
15528378 ATTAGACCAA
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
59 4 0.06
60 8 0.11
61 42 0.59
62 17 0.24
ACGTcount: A:0.39, C:0.03, G:0.14, T:0.43
Consensus pattern (61 bp):
TAAATATTGAGGGTTAAATTTATTGAACTTTTTAGAATTTAAATTAAAATGATACAATATA
Found at i:15530682 original size:24 final size:24
Alignment explanation
Indices: 15530637--15530683 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
15530627 ATAAAAACTA
* *
15530637 AACCCTGAAAACTTGAAAACAAAG
1 AACCCTCAAAACGTGAAAACAAAG
15530661 AACCCTCAAAACGT-AAACACAAA
1 AACCCTCAAAACGTGAAA-ACAAA
15530684 ATTCTCTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.55, C:0.26, G:0.09, T:0.11
Consensus pattern (24 bp):
AACCCTCAAAACGTGAAAACAAAG
Found at i:15531753 original size:3 final size:3
Alignment explanation
Indices: 15531745--15531791 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
15531735 GGTGCGTCCA
15531745 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
15531792 CCCTAACCCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:15534596 original size:53 final size:53
Alignment explanation
Indices: 15534516--15534621 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
15534506 ATTATATATT
15534516 ATCAATATTAGTACTATGACATATCCACTATCTAAGTAAAAAAATAAAAAAAA
1 ATCAATATTAGTACTATGACATATCCACTATCTAAGTAAAAAAATAAAAAAAA
15534569 ATCAATATTAGTACTATGACATATCCACTATCTAAGTAAAAAAATAAAAAAAA
1 ATCAATATTAGTACTATGACATATCCACTATCTAAGTAAAAAAATAAAAAAAA
15534622 TAACATAAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.55, C:0.13, G:0.06, T:0.26
Consensus pattern (53 bp):
ATCAATATTAGTACTATGACATATCCACTATCTAAGTAAAAAAATAAAAAAAA
Found at i:15549484 original size:15 final size:16
Alignment explanation
Indices: 15549464--15549494 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15549454 AGGTATGACA
15549464 AAATATT-TAAAAAAT
1 AAATATTATAAAAAAT
15549479 AAATATTATAAAAAAT
1 AAATATTATAAAAAAT
15549495 TTTAAATGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATATTATAAAAAAT
Found at i:15551253 original size:15 final size:15
Alignment explanation
Indices: 15551228--15551280 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
15551218 AATACATTTA
15551228 TTTCTTCTTCTTCTTT
1 TTTC-TCTTCTTCTTT
15551244 TTTCTCTTCTTCTTT
1 TTTCTCTTCTTCTTT
15551259 TTT-T-TTC-TCTTT
1 TTTCTCTTCTTCTTT
15551271 TTCTCTCTTC
1 TT-TCTCTTC
15551281 CTCTCCTCCT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
12 7 0.21
13 4 0.12
14 2 0.06
15 17 0.50
16 4 0.12
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTCTCTTCTTCTTT
Found at i:15551253 original size:18 final size:18
Alignment explanation
Indices: 15551230--15551279 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
15551220 TACATTTATT
15551230 TCTTCTTCTTCTTTTTTC
1 TCTTCTTCTTCTTTTTTC
*
15551248 TCTTCTTCTTTTTTTTTC
1 TCTTCTTCTTCTTTTTTC
*
15551266 TCTTTTTCTCTCTT
1 TCTTCTTCT-TCTT
15551280 CCTCTCCTCC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 25 0.89
19 3 0.11
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (18 bp):
TCTTCTTCTTCTTTTTTC
Found at i:15556488 original size:26 final size:26
Alignment explanation
Indices: 15556459--15556541 Score: 148
Period size: 26 Copynumber: 3.2 Consensus size: 26
15556449 TGATACAAAT
15556459 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
15556485 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
15556511 TGAATAATGGGTTAGGTAAATGTTCCA
1 TG-ATAATGGGTTAGGTAAATGTTCCA
15556538 TGAT
1 TGAT
15556542 GGGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
26 29 0.54
27 25 0.46
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:15556525 original size:27 final size:27
Alignment explanation
Indices: 15556461--15556540 Score: 144
Period size: 27 Copynumber: 3.0 Consensus size: 27
15556451 ATACAAATTG
15556461 ATAATGGGTTAGGTAAATGTTCCATG-
1 ATAATGGGTTAGGTAAATGTTCCATGA
*
15556487 ATAATGGGTTAGGTAAATGTTTCATGA
1 ATAATGGGTTAGGTAAATGTTCCATGA
15556514 ATAATGGGTTAGGTAAATGTTCCATGA
1 ATAATGGGTTAGGTAAATGTTCCATGA
15556541 TGGGAATTTC
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
26 25 0.49
27 26 0.51
ACGTcount: A:0.33, C:0.06, G:0.26, T:0.35
Consensus pattern (27 bp):
ATAATGGGTTAGGTAAATGTTCCATGA
Found at i:15558163 original size:27 final size:26
Alignment explanation
Indices: 15558120--15558274 Score: 184
Period size: 27 Copynumber: 5.7 Consensus size: 26
15558110 AGGAAGCGTC
* *
15558120 CTGGTGGCTATGTCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
15558147 CTGGTGGTTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
15558174 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
15558201 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
15558228 CTGGTGGCTCTGCCACAATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* *
15558256 CTGGTGACTCTGTCACATT
1 CTGGTGGCTCTGCCACATT
15558275 CTGGCAGCCA
Statistics
Matches: 111, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
26 4 0.04
27 88 0.79
28 19 0.17
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:15558202 original size:54 final size:54
Alignment explanation
Indices: 15558120--15558273 Score: 245
Period size: 54 Copynumber: 2.8 Consensus size: 54
15558110 AGGAAGCGTC
* *
15558120 CTGGTGGCTATGTCACAATTATCTGATCTGGTGGTTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
15558174 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* * *
15558228 CTGGTGGCTCTGCCACAATTATCTGTATCTGGTGACTCTGTCACAT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCTGCCACAT
15558274 TCTGGCAGCC
Statistics
Matches: 92, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
54 74 0.80
55 18 0.20
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:15559740 original size:202 final size:203
Alignment explanation
Indices: 15559338--15559763 Score: 572
Period size: 202 Copynumber: 2.1 Consensus size: 203
15559328 TGTATGGCAA
* * * **
15559338 GTTTGGATTTTTCTAAAGTTATAGTCTGCCATGTGCATACAAATAGCCTTAGGTTTAAGGTTAAA
1 GTTTGGATTTTTCTAAAGTTATAGTCTGCCATATGCATACAAATAGCCTTAAG-TAAAGGACAAA
* * * * *
15559403 TCAATTCTTTTTTGACAAATAAGTTTTTATTGAATTATTCAAAACTGTGTATGCCATTGACTTAT
65 TCAATTCCTATTTGACAAATAAGTTTGTATTGAATTATTCAAAACTATGTATGCCATTGAATTAT
* * * * *
15559468 TCGAATATAATTCAAAAAAATATTTTAAATGTTGATTCAAATATGATTATTGTTTGTATTAAATT
130 ACAAATATAATTCAAAAAAATATTTTAAATGTTGATTCAAATATGATAATTGTTTGTATCAAACT
15559533 GAATTGCAT-
195 GAATTGC-TG
* *
15559542 GTTTGGATTTTTCTAAAGTTATTG-CTTGCCATATGCATACTAATAGCCTTAAG-AAAGAGACAA
1 GTTTGGATTTTTCTAAAGTTATAGTC-TGCCATATGCATACAAATAGCCTTAAGTAAAG-GACAA
* * *
15559605 ATCAATTCCTATTTGATAAATTAGTTTGTATTGAATTATTCAAAACTATGTATGTCATTGAATTA
64 ATCAATTCCTATTTGACAAATAAGTTTGTATTGAATTATTCAAAACTATGTATGCCATTGAATTA
* * *
15559670 TACAAATATGATTC-AAAATATTTTTTAAATGTTGATTCAAATATGATAATTGTTTGTATCAAAC
129 TACAAATATAATTCAAAAAAATATTTTAAATGTTGATTCAAATATGATAATTGTTTGTATCAAAC
15559734 TGAATTGCTG
194 TGAATTGCTG
*
15559744 GTTTAGATTTTTCTAAAGTT
1 GTTTGGATTTTTCTAAAGTT
15559764 GGTGTTCATA
Statistics
Matches: 195, Mismatches: 24, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
201 1 0.01
202 75 0.38
203 72 0.37
204 47 0.24
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (203 bp):
GTTTGGATTTTTCTAAAGTTATAGTCTGCCATATGCATACAAATAGCCTTAAGTAAAGGACAAAT
CAATTCCTATTTGACAAATAAGTTTGTATTGAATTATTCAAAACTATGTATGCCATTGAATTATA
CAAATATAATTCAAAAAAATATTTTAAATGTTGATTCAAATATGATAATTGTTTGTATCAAACTG
AATTGCTG
Found at i:15560516 original size:20 final size:20
Alignment explanation
Indices: 15560491--15560535 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
15560481 GTTGGAGTTT
15560491 GAATCGAGTT-AAACAATAAA
1 GAATCGA-TTCAAACAATAAA
*
15560511 GAATCGATTCAAACAATAAT
1 GAATCGATTCAAACAATAAA
15560531 GAATC
1 GAATC
15560536 AATTAAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.51, C:0.13, G:0.13, T:0.22
Consensus pattern (20 bp):
GAATCGATTCAAACAATAAA
Found at i:15560949 original size:47 final size:44
Alignment explanation
Indices: 15560859--15560960 Score: 125
Period size: 44 Copynumber: 2.2 Consensus size: 44
15560849 ATTTCAACAA
*
15560859 CAACAACAACAACAATACTAACTATTACATATGGTTTTCCATTT
1 CAACAACAACAACAATACTAACTATTACATATGATTTTCCATTT
* *
15560903 CAACAACAATAACAGTACTAACTATTACATAACCTGAATTTT-CATTT
1 CAACAACAACAACAATACTAACTATTACAT-A--TG-ATTTTCCATTT
*
15560950 AAACAACAACA
1 CAACAACAACA
15560961 TTATTACAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
44 28 0.57
45 1 0.02
47 16 0.33
48 4 0.08
ACGTcount: A:0.45, C:0.23, G:0.04, T:0.28
Consensus pattern (44 bp):
CAACAACAACAACAATACTAACTATTACATATGATTTTCCATTT
Found at i:15561380 original size:21 final size:21
Alignment explanation
Indices: 15561336--15561381 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
15561326 AACTAGTCGA
* * **
15561336 TTAATTACAATAAGGAGTTGG
1 TTAATGACAACAAGGAGTCAG
15561357 TTAATGACAACAAGGAGTCAG
1 TTAATGACAACAAGGAGTCAG
15561378 TTAA
1 TTAA
15561382 ATGCCATGTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (21 bp):
TTAATGACAACAAGGAGTCAG
Found at i:15571367 original size:7 final size:7
Alignment explanation
Indices: 15571355--15571380 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
15571345 TGAAAAAACT
15571355 GAAAGAA
1 GAAAGAA
15571362 GAAAGAA
1 GAAAGAA
15571369 GAAAGAA
1 GAAAGAA
15571376 GAAAG
1 GAAAG
15571381 CGAAATTCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (7 bp):
GAAAGAA
Found at i:15575600 original size:31 final size:31
Alignment explanation
Indices: 15575562--15575634 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
15575552 TGTTTGGTTT
* *
15575562 AGGTACCAAATTGAATATTGAAACC-AAATTC
1 AGGTACCAAATTGAACATTG-AACCTAAACTC
*
15575593 AGGTACCAATTTGAACATTGAACCTAAACTC
1 AGGTACCAAATTGAACATTGAACCTAAACTC
*
15575624 AAGTACCAAAT
1 AGGTACCAAAT
15575635 AGTATATTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
30 4 0.11
31 32 0.89
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (31 bp):
AGGTACCAAATTGAACATTGAACCTAAACTC
Found at i:15577832 original size:15 final size:17
Alignment explanation
Indices: 15577804--15577835 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
15577794 CGCCGCTGCT
15577804 GCACACACAGCCGCCGC
1 GCACACACAGCCGCCGC
15577821 GCACAC-CA-CCGCCGC
1 GCACACACAGCCGCCGC
15577836 TCCTACTGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 2 0.13
17 6 0.40
ACGTcount: A:0.22, C:0.56, G:0.22, T:0.00
Consensus pattern (17 bp):
GCACACACAGCCGCCGC
Found at i:15577834 original size:18 final size:18
Alignment explanation
Indices: 15577783--15577835 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
15577773 TATCCTGTGA
* *
15577783 CGCACCACCAGCGCCGCTG
1 CGCA-CACCACCGCCGCCG
*
15577802 CTGCACA-CACAGCCGCCG
1 C-GCACACCACCGCCGCCG
15577820 CGCACACCACCGCCGC
1 CGCACACCACCGCCGC
15577836 TCCTACTGCC
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
17 5 0.18
18 17 0.61
19 3 0.11
20 3 0.11
ACGTcount: A:0.19, C:0.55, G:0.23, T:0.04
Consensus pattern (18 bp):
CGCACACCACCGCCGCCG
Found at i:15578774 original size:20 final size:20
Alignment explanation
Indices: 15578736--15578774 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15578726 TTTTTTCTTT
* *
15578736 TGAAAAAATTTAAATTCAAC
1 TGAAAAAATTAAAAATCAAC
*
15578756 TGAAAATATTAAAAATCAA
1 TGAAAAAATTAAAAATCAA
15578775 GAGAAAAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.59, C:0.08, G:0.05, T:0.28
Consensus pattern (20 bp):
TGAAAAAATTAAAAATCAAC
Found at i:15583321 original size:70 final size:69
Alignment explanation
Indices: 15583205--15583345 Score: 174
Period size: 70 Copynumber: 2.0 Consensus size: 69
15583195 ATATATCGAT
* * * *
15583205 AATCTTTACTAATTTAAAACCCTGATTGAGTTTCATGTTACTAGTCAAGTGAGACCAACTCAATT
1 AATCTCTACTAATTTAAAACCCTGATTGAGTTTCATATTACGAGTCAAGTGACACCAACTCAATT
15583270 AATG
66 AATG
* * ** * *
15583274 AATCTCTACTAATATTAAAGCCTTGATTGAGTTTGGTATTAGGAGTCAAGTGACACCAATTCAAT
1 AATCTCTACTAAT-TTAAAACCCTGATTGAGTTTCATATTACGAGTCAAGTGACACCAACTCAAT
*
15583339 TGATG
65 TAATG
15583344 AA
1 AA
15583346 ATTACGAAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
69 12 0.20
70 48 0.80
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.34
Consensus pattern (69 bp):
AATCTCTACTAATTTAAAACCCTGATTGAGTTTCATATTACGAGTCAAGTGACACCAACTCAATT
AATG
Found at i:15584314 original size:17 final size:17
Alignment explanation
Indices: 15584292--15584324 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15584282 GAAATTATTA
15584292 ATTATATAA-AAAATAAG
1 ATTATA-AATAAAATAAG
15584309 ATTATAAATAAAATAA
1 ATTATAAATAAAATAA
15584325 AATAAAACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (17 bp):
ATTATAAATAAAATAAG
Found at i:15594845 original size:24 final size:24
Alignment explanation
Indices: 15594818--15594869 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
15594808 TTAGTAAGTC
*
15594818 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
15594842 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
15594866 AAAT
1 AAAT
15594870 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:15596815 original size:24 final size:24
Alignment explanation
Indices: 15596788--15596839 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
15596778 TTAGTAAGTC
*
15596788 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
15596812 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
15596836 AAAT
1 AAAT
15596840 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:15597053 original size:5 final size:5
Alignment explanation
Indices: 15597045--15597075 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
15597035 CTGGCCTGGC
*
15597045 CTGCT CTGCT CTGCT CTGCT CTGCC CTGCT C
1 CTGCT CTGCT CTGCT CTGCT CTGCT CTGCT C
15597076 GACTCTGTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.45, G:0.19, T:0.35
Consensus pattern (5 bp):
CTGCT
Found at i:15600229 original size:24 final size:24
Alignment explanation
Indices: 15600186--15600232 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
15600176 TAACCACATC
*
15600186 TTTAATTCTTTACATCAAATTTAG
1 TTTAATTCTTTAAATCAAATTTAG
15600210 TTTAATTCATTTAAAT-AAATTTA
1 TTTAATTC-TTTAAATCAAATTTA
15600233 TCAGTTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.38, C:0.09, G:0.02, T:0.51
Consensus pattern (24 bp):
TTTAATTCTTTAAATCAAATTTAG
Found at i:15601551 original size:9 final size:9
Alignment explanation
Indices: 15601537--15601564 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
15601527 ATAAAAGTTG
15601537 AAATTCTAA
1 AAATTCTAA
15601546 AAATTCTAA
1 AAATTCTAA
15601555 AAATTCTAA
1 AAATTCTAA
15601564 A
1 A
15601565 GGTGGAATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
AAATTCTAA
Found at i:15609077 original size:29 final size:29
Alignment explanation
Indices: 15609035--15609091 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
15609025 TTATGGAATA
* * *
15609035 GATGGAGAACTTGTTCGTTGAGAGTTCGC
1 GATGAAGAACTTGTTCATTGAGAATTCGC
15609064 GATGAAGAACTTGTTCATTGAGAATTCG
1 GATGAAGAACTTGTTCATTGAGAATTCG
15609092 TGTCAAGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.26, C:0.12, G:0.30, T:0.32
Consensus pattern (29 bp):
GATGAAGAACTTGTTCATTGAGAATTCGC
Found at i:15611991 original size:21 final size:21
Alignment explanation
Indices: 15611966--15612009 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
15611956 ATTTTTTTAG
15611966 ATAAAATCTTAATAATAATGT
1 ATAAAATCTTAATAATAATGT
15611987 ATAAAATCTTAATAATAATGT
1 ATAAAATCTTAATAATAATGT
15612008 AT
1 AT
15612010 TTATCATAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.39
Consensus pattern (21 bp):
ATAAAATCTTAATAATAATGT
Found at i:15613183 original size:15 final size:17
Alignment explanation
Indices: 15613144--15613183 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
15613134 AAACAAATAG
15613144 TATAAAGTTAGTATTAAT
1 TATAAA-TTAGTATTAAT
15613162 TAT-AATT-GTATT-AT
1 TATAAATTAGTATTAAT
15613176 TATAAATT
1 TATAAATT
15613184 TAATAAAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 5 0.24
15 9 0.43
16 2 0.10
17 2 0.10
18 3 0.14
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.50
Consensus pattern (17 bp):
TATAAATTAGTATTAAT
Found at i:15615559 original size:42 final size:42
Alignment explanation
Indices: 15615500--15615589 Score: 128
Period size: 42 Copynumber: 2.1 Consensus size: 42
15615490 ACGATCTAAC
**
15615500 ACACGGCTTGGCACACGGACATGT-AAGGTAACTCAGAAAGTT
1 ACACGGCTTGGCACACGGACATGTGAACCT-ACTCAGAAAGTT
* *
15615542 ACACGGCTTGGCACACGGGCATGTGAACCTACTCAGAGAGTT
1 ACACGGCTTGGCACACGGACATGTGAACCTACTCAGAAAGTT
15615584 ACACGG
1 ACACGG
15615590 ATGAGGACAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 40 0.93
43 3 0.07
ACGTcount: A:0.30, C:0.24, G:0.28, T:0.18
Consensus pattern (42 bp):
ACACGGCTTGGCACACGGACATGTGAACCTACTCAGAAAGTT
Found at i:15618718 original size:21 final size:21
Alignment explanation
Indices: 15618680--15618737 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
15618670 GTTTTAAGAA
*
15618680 TTGTTTTAGTATCATTTTTAT
1 TTGTTTTAATATCATTTTTAT
**
15618701 TTGTTTTAATATTTTTTTTAT
1 TTGTTTTAATATCATTTTTAT
*
15618722 GTT-TTTAAATAT-ATTT
1 -TTGTTTTAATATCATTT
15618738 GATTTATTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 3 0.10
21 26 0.84
22 2 0.06
ACGTcount: A:0.22, C:0.02, G:0.07, T:0.69
Consensus pattern (21 bp):
TTGTTTTAATATCATTTTTAT
Found at i:15624372 original size:23 final size:23
Alignment explanation
Indices: 15624346--15624391 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
15624336 TTATGCTTTC
15624346 ATTTAAAATAAAATAAAATTTAA
1 ATTTAAAATAAAATAAAATTTAA
*
15624369 ATTTAAAATAAAATCAAATTTAA
1 ATTTAAAATAAAATAAAATTTAA
15624392 CATTCATCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
ATTTAAAATAAAATAAAATTTAA
Found at i:15637927 original size:93 final size:94
Alignment explanation
Indices: 15637813--15638004 Score: 332
Period size: 93 Copynumber: 2.1 Consensus size: 94
15637803 TAAAACAAAA
* * *
15637813 TATTTTTTAATTGCGGTGAGTATTTATACTCTTTCGTCCAAGAAAGCAAGG-AATAAAGGTACTC
1 TATTTTTTAATTGCGATGAGTATTTATACTATTTCGTCCAAGAAAGCAAGGAAAAAAAGGTACTC
* *
15637877 TTATAGTTCATCATTGAAATATAAGAATG
66 CTATAGTTCATAATTGAAATATAAGAATG
15637906 TATTTTTTAATTGCGATGAGTATTTATACTATTTCGTCCAAGAAAGCAAGGAAAAAAAGGTACTC
1 TATTTTTTAATTGCGATGAGTATTTATACTATTTCGTCCAAGAAAGCAAGGAAAAAAAGGTACTC
15637971 CTATAGTTCATAATTGAAATATAAGAATG
66 CTATAGTTCATAATTGAAATATAAGAATG
15638000 TATTT
1 TATTT
15638005 ATATATAAAA
Statistics
Matches: 93, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
93 49 0.53
94 44 0.47
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (94 bp):
TATTTTTTAATTGCGATGAGTATTTATACTATTTCGTCCAAGAAAGCAAGGAAAAAAAGGTACTC
CTATAGTTCATAATTGAAATATAAGAATG
Found at i:15640510 original size:13 final size:13
Alignment explanation
Indices: 15640492--15640525 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
15640482 GATAAAATAA
15640492 TAAAATATCTTAT
1 TAAAATATCTTAT
15640505 TAAAATATCTTAT
1 TAAAATATCTTAT
15640518 TAAAATAT
1 TAAAATAT
15640526 TAATAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (13 bp):
TAAAATATCTTAT
Found at i:15644434 original size:36 final size:36
Alignment explanation
Indices: 15644388--15644459 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
15644378 CCTTTAGAAT
15644388 ATATCCGCGTGAAAATGCTTCCACTAATTCCACTTA
1 ATATCCGCGTGAAAATGCTTCCACTAATTCCACTTA
15644424 ATATCCGCGTGAAAATGCTTCCACTAATTCCACTTA
1 ATATCCGCGTGAAAATGCTTCCACTAATTCCACTTA
15644460 CTTTCGTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.31, C:0.28, G:0.11, T:0.31
Consensus pattern (36 bp):
ATATCCGCGTGAAAATGCTTCCACTAATTCCACTTA
Found at i:15649154 original size:24 final size:24
Alignment explanation
Indices: 15649122--15649171 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
15649112 CAAATAAGAG
15649122 TCCTGAACTAGAGGAATGGATTGA
1 TCCTGAACTAGAGGAATGGATTGA
*
15649146 TCCTGAACTGGAGGAATGGATTGA
1 TCCTGAACTAGAGGAATGGATTGA
15649170 TC
1 TC
15649172 AGAAGAAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.26
Consensus pattern (24 bp):
TCCTGAACTAGAGGAATGGATTGA
Found at i:15666076 original size:22 final size:22
Alignment explanation
Indices: 15666042--15666107 Score: 98
Period size: 22 Copynumber: 3.0 Consensus size: 22
15666032 ACCTTATTAC
*
15666042 CCTTAGTATTGACATTCTCTAT
1 CCTTAGTACTGACATTCTCTAT
*
15666064 CCTTGGTACTGACATTCTCTATT
1 CCTTAGTACTGACATTCTCTA-T
15666087 CC-TAGTACTGACATTCTCTAT
1 CCTTAGTACTGACATTCTCTAT
15666108 AAACTTCAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
21 1 0.03
22 36 0.90
23 3 0.08
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (22 bp):
CCTTAGTACTGACATTCTCTAT
Found at i:15669451 original size:58 final size:58
Alignment explanation
Indices: 15669387--15669498 Score: 188
Period size: 58 Copynumber: 1.9 Consensus size: 58
15669377 GATAATTAAA
*
15669387 TGGGGATGCGAATCCATGAGCTGTTTTATACTTGTGAAAATTTTGAAAGATAACCAAC
1 TGGGGATGCGAATCCACGAGCTGTTTTATACTTGTGAAAATTTTGAAAGATAACCAAC
* * *
15669445 TGGGGATGTGAATCCCCGAGCTGTTTTATACTTGTGAAAATTTTGAAAGGTAAC
1 TGGGGATGCGAATCCACGAGCTGTTTTATACTTGTGAAAATTTTGAAAGATAAC
15669499 ATAATTGGGA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.32
Consensus pattern (58 bp):
TGGGGATGCGAATCCACGAGCTGTTTTATACTTGTGAAAATTTTGAAAGATAACCAAC
Found at i:15669683 original size:69 final size:68
Alignment explanation
Indices: 15669575--15669844 Score: 220
Period size: 69 Copynumber: 3.9 Consensus size: 68
15669565 TATGATAGTT
* * * * * * * *
15669575 GGAGCTTTGCTCTCACTAATTCTATTAGAAGCAGCGGCTCTTCGTCTGTAAGCTTTAGTATGACA
1 GGAGCTTTGCTCTCACTAACTGTGTTGGAGGCTGCGGCTCTTCG-CTGTAAGCCTTAATATGACA
15669640 GGTG
65 GGTG
* * * *
15669644 GGAGCTTTGCTCTCGCTAACTGTGTTGGAGGCTGTGGCTCTTCAGCTGTAAACCTTAATATAACA
1 GGAGCTTTGCTCTCACTAACTGTGTTGGAGGCTGCGGCTCTTC-GCTGTAAGCCTTAATATGACA
*
15669709 GCTG
65 GGTG
** * * * * * * * * *
15669713 TTAGCTTTGTTCTCGCTAACTATGTTGGAGGTTACGGCTTTTCACCTATGAGCCTTAATATGACA
1 GGAGCTTTGCTCTCACTAACTGTGTTGGAGGCTGCGGCTCTTC-GCTGTAAGCCTTAATATGACA
15669778 GGT-
65 GGTG
* * * * *
15669781 AGAGCTTTGCTCTCACAAATTGTGTTGGAGGCTGCGACTCTTTGCT-TACAAGCCTTAATATGAC
1 GGAGCTTTGCTCTCACTAACTGTGTTGGAGGCTGCGGCTCTTCGCTGT--AAGCCTTAATATGAC
15669845 TCGAATGTCA
Statistics
Matches: 157, Mismatches: 41, Indels: 7
0.77 0.20 0.03
Matches are distributed among these distances:
66 1 0.01
67 2 0.01
68 45 0.29
69 108 0.69
70 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (68 bp):
GGAGCTTTGCTCTCACTAACTGTGTTGGAGGCTGCGGCTCTTCGCTGTAAGCCTTAATATGACAG
GTG
Found at i:15674859 original size:46 final size:47
Alignment explanation
Indices: 15674780--15674910 Score: 113
Period size: 48 Copynumber: 2.8 Consensus size: 47
15674770 TTATTTGTTG
* * * *
15674780 TGTAGGTTCAACCCTAAC-GAGTGACCAGCCACTATTATTC-GACTCA
1 TGTAGGTTTAACCCAAACAG-GTAACCAGGCACTATTATTCAGACTCA
*** * * * * * *
15674826 TGTAGGTTTAACCCCGGCGGGTAACCATGCACTATGATTCATTATTCG
1 TGTAGGTTTAACCCAAACAGGTAACCAGGCACTATTATTCA-GACTCA
15674874 TGTAGGTTTAACCCAAACAGGTAACCAGGCACTATTA
1 TGTAGGTTTAACCCAAACAGGTAACCAGGCACTATTA
15674911 CTTTCACCTA
Statistics
Matches: 65, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
46 30 0.46
47 1 0.02
48 34 0.52
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.27
Consensus pattern (47 bp):
TGTAGGTTTAACCCAAACAGGTAACCAGGCACTATTATTCAGACTCA
Found at i:15678060 original size:34 final size:34
Alignment explanation
Indices: 15678017--15678087 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
15678007 GTATTTGAGA
*
15678017 ATGGTGTTGCAAACTCTGCGTAAAAAGTAACTAT
1 ATGGTGTTGCAAACTCTGCGTAAAAAGCAACTAT
15678051 ATGGTGTTGCAAACTCTGCGTAAAAAGCAACTAT
1 ATGGTGTTGCAAACTCTGCGTAAAAAGCAACTAT
15678085 ATG
1 ATG
15678088 CTAAATTCAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.28
Consensus pattern (34 bp):
ATGGTGTTGCAAACTCTGCGTAAAAAGCAACTAT
Found at i:15679314 original size:17 final size:17
Alignment explanation
Indices: 15679289--15679326 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
15679279 ATTTTCCATC
* *
15679289 TGGCGAACTCTAGGTTT
1 TGGCAAACTCTAGGGTT
15679306 TGGCAAACTCTAGGGTT
1 TGGCAAACTCTAGGGTT
15679323 TGGC
1 TGGC
15679327 TATTAATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (17 bp):
TGGCAAACTCTAGGGTT
Found at i:15680298 original size:57 final size:57
Alignment explanation
Indices: 15680210--15680323 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
15680200 GTAAATTCTG
15680210 ATATGTGATGAATGAGAAAAGGGATATTTTTGTGATGCCTCCGATAGAGTAGATATA
1 ATATGTGATGAATGAGAAAAGGGATATTTTTGTGATGCCTCCGATAGAGTAGATATA
15680267 ATATGTGATGAATGAGAAAAGGGATATTTTTGTGATGCCTCCGATAGAGTAGATATA
1 ATATGTGATGAATGAGAAAAGGGATATTTTTGTGATGCCTCCGATAGAGTAGATATA
15680324 TTGTAAACTA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.35, C:0.07, G:0.26, T:0.32
Consensus pattern (57 bp):
ATATGTGATGAATGAGAAAAGGGATATTTTTGTGATGCCTCCGATAGAGTAGATATA
Found at i:15680303 original size:27 final size:27
Alignment explanation
Indices: 15680213--15680303 Score: 83
Period size: 27 Copynumber: 3.3 Consensus size: 27
15680203 AATTCTGATA
15680213 TGTGATGAATGAGAAAAGGGATATTTT
1 TGTGATGAATGAGAAAAGGGATATTTT
** ** * * * *
15680240 TGTGATGCCTCCGATAGAGTAGATATAATA
1 TGTGATGAATGAGA-AAAG-GGATAT-TTT
15680270 TGTGATGAATGAGAAAAGGGATATTTT
1 TGTGATGAATGAGAAAAGGGATATTTT
15680297 TGTGATG
1 TGTGATG
15680304 CCTCCGATAG
Statistics
Matches: 45, Mismatches: 16, Indels: 6
0.67 0.24 0.09
Matches are distributed among these distances:
27 18 0.40
28 8 0.18
29 8 0.18
30 11 0.24
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.33
Consensus pattern (27 bp):
TGTGATGAATGAGAAAAGGGATATTTT
Found at i:15681766 original size:5 final size:5
Alignment explanation
Indices: 15681756--15681829 Score: 148
Period size: 5 Copynumber: 14.8 Consensus size: 5
15681746 TTATGTTTTA
15681756 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
15681806 ATTAT ATTAT ATTAT ATTAT ATTA
1 ATTAT ATTAT ATTAT ATTAT ATTA
15681830 AGTAAAGAAA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 69 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:15682959 original size:39 final size:37
Alignment explanation
Indices: 15682886--15682965 Score: 92
Period size: 39 Copynumber: 2.1 Consensus size: 37
15682876 TTTTGCCAGC
15682886 TTACTGATCAGGCACTTATGTGCCGACTACTGTTACT
1 TTACTGATCAGGCACTTATGTGCCGACTACTGTTACT
* *
15682923 GTTACTGATTC-GGCACTTTATGTGTCGGA-TATTGTTACT
1 -TTACTGA-TCAGGCAC-TTATGTG-CCGACTACTGTTACT
15682962 TTAC
1 TTAC
15682966 CGTTACTGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
38 16 0.43
39 18 0.49
40 3 0.08
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (37 bp):
TTACTGATCAGGCACTTATGTGCCGACTACTGTTACT
Found at i:15683217 original size:18 final size:18
Alignment explanation
Indices: 15683156--15683336 Score: 91
Period size: 18 Copynumber: 9.7 Consensus size: 18
15683146 AAAGATCGAC
*
15683156 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAA-TTGAT
* *
15683175 TGTTATTGTAT-ATCTGAT
1 TGTTACTGAATAAT-TGAT
*
15683193 T-TTACTGAATAATTGAC
1 TGTTACTGAATAATTGAT
15683210 TGTTACTGGATAACCGATCAATTGAT
1 TGTTACT-G---A---AT-AATTGAT
*
15683236 TGATACTGAATAACTT-AT
1 TGTTACTGAATAA-TTGAT
* *
15683254 TATTATTGAATAATTGAT
1 TGTTACTGAATAATTGAT
* * *
15683272 TGTTACCGAATAACTGAC
1 TGTTACTGAATAATTGAT
* *
15683290 TGTTACTGAATAAATAAT
1 TGTTACTGAATAATTGAT
* * *
15683308 TGTT-CTGATTGACTGAT
1 TGTTACTGAATAATTGAT
*
15683325 TGTTAATGAATA
1 TGTTACTGAATA
15683337 TTACTGATTG
Statistics
Matches: 121, Mismatches: 27, Indels: 29
0.68 0.15 0.16
Matches are distributed among these distances:
17 27 0.22
18 63 0.52
19 14 0.12
22 2 0.02
25 3 0.02
26 12 0.10
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.42
Consensus pattern (18 bp):
TGTTACTGAATAATTGAT
Found at i:15685794 original size:39 final size:39
Alignment explanation
Indices: 15685731--15685852 Score: 172
Period size: 39 Copynumber: 3.1 Consensus size: 39
15685721 TAATTTATAT
* * * *
15685731 GATCATGACCTTTGGCTTTTTTACGGTCTGCTGATTTAC
1 GATCATGATCTTCGGCTTTCTTACGGTCTACTGATTTAC
*
15685770 GATCATGATCTTCGACTTTCTTACGGTCTACTGATTTAC
1 GATCATGATCTTCGGCTTTCTTACGGTCTACTGATTTAC
* **
15685809 GATCATGATCTTCGGTTTTCTTACGGTCCCCTGATTTAC
1 GATCATGATCTTCGGCTTTCTTACGGTCTACTGATTTAC
15685848 GATCA
1 GATCA
15685853 CGACCTCTTA
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (39 bp):
GATCATGATCTTCGGCTTTCTTACGGTCTACTGATTTAC
Found at i:15716418 original size:13 final size:13
Alignment explanation
Indices: 15716400--15716425 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15716390 TATATATATG
15716400 TGTGAGAAAGGTT
1 TGTGAGAAAGGTT
15716413 TGTGAGAAAGGTT
1 TGTGAGAAAGGTT
15716426 CTTCTTTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.38, T:0.31
Consensus pattern (13 bp):
TGTGAGAAAGGTT
Found at i:15722444 original size:22 final size:22
Alignment explanation
Indices: 15722409--15722462 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
15722399 GACATCGACA
*
15722409 GTTTAATG-TTGTAATTAGAAT
1 GTTTAAAGTTTGTAATTAGAAT
15722430 GTTTAAAGTTTGTAATTAGAAT
1 GTTTAAAGTTTGTAATTAGAAT
15722452 GTTTAAAGTTT
1 GTTTAAAGTTT
15722463 AAGGACTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 7 0.23
22 24 0.77
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (22 bp):
GTTTAAAGTTTGTAATTAGAAT
Found at i:15730562 original size:205 final size:207
Alignment explanation
Indices: 15730210--15730629 Score: 745
Period size: 205 Copynumber: 2.0 Consensus size: 207
15730200 TAGTCTCATT
* *
15730210 TGTTTTAAACCCCGAAAAGGTGTTGGATGCATCGATTTCATGGCAGTTGAGGGGTCTGGCATGAA
1 TGTTTTAAACCCCGAAAAGGTGTTGGATGCATCGATTTCATGACAGTTCAGGGGTCTGGCATGAA
*
15730275 AGTATTCAATAAATTTGTGGTGGGGAAGAACTTGCTGCTGCCTTCTAGTTTTTTGGTATGGTATT
66 AGTATTCAATAAATTTGTGGTGGGGAAGAACTTGCTGCTGCCTTCTAGTTTCTTGGTATGGTATT
15730340 GATGAGAAGTGTATATGATGTCCAATACCGCTGTTG-TATCAAATGTGGTGCTATTTCCTAGTCA
131 GATGAGAAGTGTATATGATGTCCAATACCGCTGTTGTTATCAAATGTGGTGCTATTTCCTAGTCA
*
15730404 ATGAATGT-CCC
196 ATGAATATCCCC
*
15730415 TGTTTTAAACCCCGAAAAGGTGTTGGATGCATCGATTTCTTGACAGTTCAGGGGTCTGGCATGAA
1 TGTTTTAAACCCCGAAAAGGTGTTGGATGCATCGATTTCATGACAGTTCAGGGGTCTGGCATGAA
* *
15730480 AGTATTTAATAAATTTTTGGTGGGGAAGAACTTGCTGCTGCCTTCTAGTTTCTTGGTATGGTATT
66 AGTATTCAATAAATTTGTGGTGGGGAAGAACTTGCTGCTGCCTTCTAGTTTCTTGGTATGGTATT
15730545 GATGAGAAGTGTATATGATGTCCAATACCGCTGTTGTTTTATCAAATGTGGTGCTATTTCCTAGT
131 GATGAGAAGTGTATATGATGTCCAATACCGCTGTTG--TTATCAAATGTGGTGCTATTTCCTAGT
15730610 CAATGAATATCCCC
194 CAATGAATATCCCC
15730624 TGTTTT
1 TGTTTT
15730630 TGGTCCAAAA
Statistics
Matches: 204, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
205 160 0.78
208 35 0.17
209 9 0.04
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (207 bp):
TGTTTTAAACCCCGAAAAGGTGTTGGATGCATCGATTTCATGACAGTTCAGGGGTCTGGCATGAA
AGTATTCAATAAATTTGTGGTGGGGAAGAACTTGCTGCTGCCTTCTAGTTTCTTGGTATGGTATT
GATGAGAAGTGTATATGATGTCCAATACCGCTGTTGTTATCAAATGTGGTGCTATTTCCTAGTCA
ATGAATATCCCC
Found at i:15733641 original size:84 final size:87
Alignment explanation
Indices: 15733538--15733759 Score: 324
Period size: 92 Copynumber: 2.5 Consensus size: 87
15733528 AGTGTGCTTT
15733538 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC-T-G-TGTGTAAGACCAT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCATAGATGTGTAAGACCAT
15733600 GGTTGAAAGATACCATGGCAAC
66 GGTTGAAAGATACCATGGCAAC
15733622 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC----AT-AGATGTGTAAG
*
15733687 ACCATGGTTGAAAGATACTATGGCAAC
61 ACCATGGTTGAAAGATACCATGGCAAC
* * * **
15733714 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
15733760 TTGACAGAAA
Statistics
Matches: 124, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
84 47 0.38
89 1 0.01
91 1 0.01
92 75 0.60
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (87 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCATAGATGTGTAAGACCAT
GGTTGAAAGATACCATGGCAAC
Found at i:15733654 original size:46 final size:46
Alignment explanation
Indices: 15733587--15733793 Score: 299
Period size: 46 Copynumber: 4.5 Consensus size: 46
15733577 TGGCAACCTG
*
15733587 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* *
15733633 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* *
15733679 TGTGTAAGACCATGGTTGAAAGATACTATGGCAACGTGACATGAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
* ** *
15733725 AGAATAAGACCATGGTTGAAAGATACCATGGCAACTTGACA-GAAAA
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAA
* *
15733771 TGAGTAAGACCATAGTTGAAAGA
1 TGTGTAAGACCATGGTTGAAAGA
15733794 CACTACGGCA
Statistics
Matches: 147, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 1 0.01
46 146 0.99
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (46 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAA
Found at i:15733781 original size:138 final size:130
Alignment explanation
Indices: 15733538--15733793 Score: 352
Period size: 138 Copynumber: 1.9 Consensus size: 130
15733528 AGTGTGCTTT
*
15733538 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGTGTAAGACCATGGT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGAGTAAGACCATGGT
* * *
15733603 TGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
66 TGAAAGATACCATGGCAACCTGACATGAAATGAGTAAGACCATAGTTGAAAGATACCATGGCAAC
* * *
15733668 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACTATGGCAACGTGACATGAAAAGAATAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG---TG---AG--TAAG
*
15733733 ACCATGGTTGAAAGATACCATGGCAACTTGACA-GAAAATGAGTAAGACCATAGTTGAAAGA
58 ACCATGGTTGAAAGATACCATGGCAACCTGACATG-AAATGAGTAAGACCATAGTTGAAAGA
15733794 CACTACGGCA
Statistics
Matches: 109, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
130 46 0.42
133 2 0.02
136 1 0.01
137 1 0.01
138 59 0.54
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (130 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGTGAGTAAGACCATGGT
TGAAAGATACCATGGCAACCTGACATGAAATGAGTAAGACCATAGTTGAAAGATACCATGGCAAC
Done.