Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 24 of 410
Found at i:6173943 original size:2 final size:2
Alignment explanation
Indices: 6173938--6173970 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
6173928 AATTTCACAA
6173938 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6173971 AAGTTAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6174025 original size:21 final size:21
Alignment explanation
Indices: 6173985--6174058 Score: 60
Period size: 21 Copynumber: 3.4 Consensus size: 21
6173975 TAAAAAATAT
*
6173985 TTTTAAAAATAATAAT-TAAAA
1 TTTTAAAAA-AATATTATAAAA
6174006 TTTTAAAAAAATATTATAAAACA
1 TTTTAAAAAAATATTAT-AAA-A
* * * *
6174029 TTTTAAATACATATTACAAAT
1 TTTTAAAAAAATATTATAAAA
*
6174050 TTTTTAAAA
1 TTTTAAAAA
6174059 TTAATAATAT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
20 5 0.12
21 17 0.40
22 6 0.14
23 15 0.35
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (21 bp):
TTTTAAAAAAATATTATAAAA
Found at i:6174072 original size:23 final size:22
Alignment explanation
Indices: 6173983--6174073 Score: 62
Period size: 23 Copynumber: 4.1 Consensus size: 22
6173973 GTTAAAAAAT
*
6173983 ATTTTTAAAAATAATAAT-TAA
1 ATTTTTTAAAATAATAATATAA
* * *
6174004 A-ATTTTAAAAAAATATTATAAA
1 ATTTTTTAAAATAATAATAT-AA
** * *
6174026 ACATTTT-AAATACATATTACAA
1 ATTTTTTAAAATA-ATAATATAA
6174048 ATTTTTTAAAATTAATAATATAA
1 ATTTTTTAAAA-TAATAATATAA
6174071 ATT
1 ATT
6174074 AAATAAGCAA
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
20 12 0.22
21 2 0.04
22 14 0.26
23 24 0.44
24 2 0.04
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (22 bp):
ATTTTTTAAAATAATAATATAA
Found at i:6174101 original size:36 final size:37
Alignment explanation
Indices: 6174061--6174134 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 37
6174051 TTTTAAAATT
*
6174061 AATAATAT-AAA-TTAAATAAGCAAAATAAAT-TAAGAA
1 AATAATATAAAACTTAAAAAAG-AAAA-AAATCTAAGAA
6174097 AATAATATAAAACTTAAAAAAGAAAAAAATCTAAGAA
1 AATAATATAAAACTTAAAAAAGAAAAAAATCTAAGAA
6174134 A
1 A
6174135 TAGCAAAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 12 0.35
37 14 0.41
38 8 0.24
ACGTcount: A:0.69, C:0.04, G:0.05, T:0.22
Consensus pattern (37 bp):
AATAATATAAAACTTAAAAAAGAAAAAAATCTAAGAA
Found at i:6174106 original size:18 final size:18
Alignment explanation
Indices: 6174056--6174107 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
6174046 AAATTTTTTA
*
6174056 AAATTAATAATATAAATT
1 AAATAAATAATATAAATT
** *
6174074 AAATAAGCAAAATAAATT
1 AAATAAATAATATAAATT
6174092 AAGA-AAATAATATAAA
1 AA-ATAAATAATATAAA
6174108 ACTTAAAAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
18 25 0.96
19 1 0.04
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (18 bp):
AAATAAATAATATAAATT
Found at i:6174170 original size:15 final size:15
Alignment explanation
Indices: 6174150--6174178 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6174140 AAATATAAGA
6174150 AAAAAAGTAAAAAGT
1 AAAAAAGTAAAAAGT
6174165 AAAAAAGTAAAAAG
1 AAAAAAGTAAAAAG
6174179 AAATAAAAAA
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:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (15 bp):
AAAAAAGTAAAAAGT
Found at i:6176961 original size:21 final size:21
Alignment explanation
Indices: 6176922--6176962 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6176912 CATAAACGCT
* * *
6176922 AAATCTAGAATCTCGAACCCA
1 AAATCTAGAAACCCAAACCCA
6176943 AAATCTAGAAACCCAAACCC
1 AAATCTAGAAACCCAAACCC
6176963 TAAACTTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.32, G:0.07, T:0.15
Consensus pattern (21 bp):
AAATCTAGAAACCCAAACCCA
Found at i:6177020 original size:7 final size:7
Alignment explanation
Indices: 6177004--6177048 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
6176994 ATAGAATCTC
*
6177004 AAACCCT
1 AAACCTT
6177011 AAACCTT
1 AAACCTT
6177018 AAACCTT
1 AAACCTT
*
6177025 AAATCTT
1 AAACCTT
*
6177032 AAACCAT
1 AAACCTT
6177039 AAACCTT
1 AAACCTT
6177046 AAA
1 AAA
6177049 AACATAACCC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (7 bp):
AAACCTT
Found at i:6177151 original size:55 final size:55
Alignment explanation
Indices: 6177084--6177187 Score: 138
Period size: 55 Copynumber: 1.9 Consensus size: 55
6177074 CAACATAATA
* *
6177084 ATAAACCATAAACT-AGAACCCATAACACTAAATCCTAAATCTAGAATCTTGAACC
1 ATAAACCATAAACTCA-AACCCATAACACTAAATCATAAATCTAAAATCTTGAACC
* * * *
6177139 ATAAACCCTAAACTCAAACCCATAACTCTCAATCATAAGTCTAAAATCT
1 ATAAACCATAAACTCAAACCCATAACACTAAATCATAAATCTAAAATCT
6177188 CAAACCCAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
55 41 0.98
56 1 0.02
ACGTcount: A:0.46, C:0.27, G:0.04, T:0.23
Consensus pattern (55 bp):
ATAAACCATAAACTCAAACCCATAACACTAAATCATAAATCTAAAATCTTGAACC
Found at i:6179130 original size:11 final size:10
Alignment explanation
Indices: 6179114--6179164 Score: 57
Period size: 11 Copynumber: 4.8 Consensus size: 10
6179104 TTTCCAATAC
6179114 CAAATCATAGT
1 CAAATCAT-GT
*
6179125 CAAATCATTT
1 CAAATCATGT
6179135 CAAATCACTGT
1 CAAATCA-TGT
*
6179146 CGAATCATTGT
1 CAAATCA-TGT
6179157 CAAATCAT
1 CAAATCAT
6179165 AGTTGAACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
10 9 0.26
11 25 0.74
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (10 bp):
CAAATCATGT
Found at i:6179140 original size:21 final size:22
Alignment explanation
Indices: 6179114--6179167 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
6179104 TTTCCAATAC
6179114 CAAATCATAGTCAAATCATT-T
1 CAAATCATAGTCAAATCATTGT
*
6179135 CAAATCACT-GTCGAATCATTGT
1 CAAATCA-TAGTCAAATCATTGT
6179157 CAAATCATAGT
1 CAAATCATAGT
6179168 TGAACAAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (22 bp):
CAAATCATAGTCAAATCATTGT
Found at i:6180799 original size:14 final size:14
Alignment explanation
Indices: 6180768--6180805 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
6180758 CTAAAATATC
6180768 AAACCCTAAAACTA
1 AAACCCTAAAACTA
*
6180782 AAA-CCTAAAAGCTT
1 AAACCCTAAAA-CTA
6180796 AAACCCTAAA
1 AAACCCTAAA
6180806 CTTAAACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 7 0.33
14 8 0.38
15 6 0.29
ACGTcount: A:0.55, C:0.26, G:0.03, T:0.16
Consensus pattern (14 bp):
AAACCCTAAAACTA
Found at i:6180809 original size:13 final size:14
Alignment explanation
Indices: 6180768--6180812 Score: 58
Period size: 13 Copynumber: 3.3 Consensus size: 14
6180758 CTAAAATATC
6180768 AAACCCTAAAAC-T
1 AAACCCTAAAACTT
*
6180781 AAAACCTAAAAGCTT
1 AAACCCTAAAA-CTT
6180796 AAACCCT-AAACTT
1 AAACCCTAAAACTT
6180809 AAAC
1 AAAC
6180813 ATATAACCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 17 0.61
14 4 0.14
15 7 0.25
ACGTcount: A:0.53, C:0.27, G:0.02, T:0.18
Consensus pattern (14 bp):
AAACCCTAAAACTT
Found at i:6180825 original size:27 final size:27
Alignment explanation
Indices: 6180768--6180832 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
6180758 CTAAAATATC
* * *
6180768 AAACCCTAAAACTAAAACCTAAAAGCTT
1 AAACCCT-AAACTAAAACATAAAACCAT
* *
6180796 AAACCCTAAACTTAAACATATAACCAT
1 AAACCCTAAACTAAAACATAAAACCAT
*
6180823 AAACCTTAAA
1 AAACCCTAAA
6180833 TTTAGAATCA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
27 24 0.77
28 7 0.23
ACGTcount: A:0.54, C:0.25, G:0.02, T:0.20
Consensus pattern (27 bp):
AAACCCTAAACTAAAACATAAAACCAT
Found at i:6181008 original size:21 final size:22
Alignment explanation
Indices: 6180976--6181031 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 22
6180966 CCATCAACCC
6180976 TAAACC-TAAACCATAAAT-TA
1 TAAACCATAAACCATAAATCTA
*
6180996 TAAACCATAAACCTTAAATCTA
1 TAAACCATAAACCATAAATCTA
* *
6181018 -AAATCACAAACCAT
1 TAAACCATAAACCAT
6181032 GGACCATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 6 0.20
21 22 0.73
22 2 0.07
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (22 bp):
TAAACCATAAACCATAAATCTA
Found at i:6181209 original size:14 final size:14
Alignment explanation
Indices: 6181147--6181209 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
6181137 CCATAAACTA
6181147 TAAATTCTAAA-CT
1 TAAATTCTAAACCT
** *
6181160 CTAAAACCTAAAACT
1 -TAAATTCTAAACCT
**
6181175 TAAACCCTAAACCTT
1 TAAATTCTAAACC-T
6181190 TAAATTCTAAACCT
1 TAAATTCTAAACCT
6181204 TAAATT
1 TAAATT
6181210 TAGAATCTCA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
14 27 0.66
15 14 0.34
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
TAAATTCTAAACCT
Found at i:6181297 original size:21 final size:21
Alignment explanation
Indices: 6181273--6181325 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
6181263 AGACATAACC
6181273 CTAAACCTTAAA-CC-ATAGACA
1 CTAAACCTTAAATCCTA-AG-CA
*
6181294 CTAAACCCTAAATCCTAAGCA
1 CTAAACCTTAAATCCTAAGCA
6181315 C-AAACCTTAAA
1 CTAAACCTTAAA
6181326 ATTCAAACCC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 9 0.32
21 14 0.50
22 4 0.14
23 1 0.04
ACGTcount: A:0.47, C:0.30, G:0.04, T:0.19
Consensus pattern (21 bp):
CTAAACCTTAAATCCTAAGCA
Found at i:6181408 original size:7 final size:7
Alignment explanation
Indices: 6181398--6181451 Score: 51
Period size: 7 Copynumber: 7.9 Consensus size: 7
6181388 AACCACAAAC
6181398 CCTTAAA
1 CCTTAAA
6181405 CCTTAAA
1 CCTTAAA
*
6181412 -CTCAAA
1 CCTTAAA
6181418 TCC-TAAA
1 -CCTTAAA
6181425 CCTTAAA
1 CCTTAAA
*
6181432 TCC-CAAA
1 -CCTTAAA
6181439 CCTTAAA
1 CCTTAAA
6181446 CCTTAA
1 CCTTAA
6181452 GATTCGAAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
6 9 0.24
7 26 0.68
8 3 0.08
ACGTcount: A:0.43, C:0.31, G:0.00, T:0.26
Consensus pattern (7 bp):
CCTTAAA
Found at i:6181426 original size:20 final size:21
Alignment explanation
Indices: 6181393--6181451 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 21
6181383 ACCATAACCA
*
6181393 CAAACCCTTAAACCTTAAA-CT
1 CAAA-CCTTAAACCTTAAATCC
6181414 CAAATCC-TAAACCTTAAATCC
1 CAAA-CCTTAAACCTTAAATCC
6181435 CAAACCTTAAACCTTAA
1 CAAACCTTAAACCTTAA
6181452 GATTCGAAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.38
21 21 0.62
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (21 bp):
CAAACCTTAAACCTTAAATCC
Found at i:6185166 original size:27 final size:26
Alignment explanation
Indices: 6185129--6185243 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
6185119 AGCATGGCTG
* *
6185129 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
6185155 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
6185183 CTAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
6185210 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
6185237 CCAGAAC
1 CCAGAAC
6185244 GCTTCCTCCA
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.06
27 57 0.73
28 16 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:6185190 original size:54 final size:54
Alignment explanation
Indices: 6185129--6185243 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
6185119 AGCATGGCTG
*
6185129 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * * *
6185183 CTAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
6185237 CCAGAAC
1 CCAGAAC
6185244 GCTTCCTCCA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
54 35 0.66
55 18 0.34
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:6185373 original size:26 final size:26
Alignment explanation
Indices: 6185344--6185395 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
6185334 CAAAATTAAC
*
6185344 CCTACGGG-TATAACGGTAATTTTCCA
1 CCTA-GGGATATAACAGTAATTTTCCA
6185370 CCTAGGGATATAACAGTAATTTTCCA
1 CCTAGGGATATAACAGTAATTTTCCA
6185396 TACATAGGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 3 0.12
26 21 0.88
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (26 bp):
CCTAGGGATATAACAGTAATTTTCCA
Found at i:6185415 original size:28 final size:26
Alignment explanation
Indices: 6185352--6185419 Score: 73
Period size: 28 Copynumber: 2.5 Consensus size: 26
6185342 ACCCTACGGG
* *
6185352 TATAACGGTAATTTTCCACCTAGGGA
1 TATAACAGTAATTTTCCACATAGGGA
*
6185378 TATAACAGTAATTTTCCATACATAGGGG
1 TATAACAGTAATTTTCC--ACATAGGGA
* *
6185406 TATTATAGTAATTT
1 TATAACAGTAATTT
6185420 AGCTACTTTC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 16 0.46
28 19 0.54
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (26 bp):
TATAACAGTAATTTTCCACATAGGGA
Found at i:6186893 original size:26 final size:26
Alignment explanation
Indices: 6186857--6186966 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
6186847 CATGAAATTC
6186857 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
6186883 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
6186909 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
6186935 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
6186961 TTATCA
1 TTATCA
6186967 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:6188586 original size:28 final size:28
Alignment explanation
Indices: 6188533--6188616 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
6188523 CACTTTGTGC
6188533 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
6188562 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
6188590 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
6188617 CTGGTGTGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.19, C:0.04, G:0.31, T:0.46
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:6188628 original size:23 final size:24
Alignment explanation
Indices: 6188537--6188630 Score: 91
Period size: 28 Copynumber: 3.6 Consensus size: 24
6188527 TTGTGCTATT
6188537 CTGGTGTGTTTTGGATGGATTATATTA
1 CTGGTGTGTTTTGGA-GGA-TATA-TA
*
6188564 TTCTGGTGTGTTTGGGAGGATTATATGATA
1 --CTGGTGTGTTTTGGAGG---ATAT-ATA
6188594 CTGGTGTGTTTTGGAGGAT-TATA
1 CTGGTGTGTTTTGGAGGATATATA
6188617 CTGGTGTGTTTTGG
1 CTGGTGTGTTTTGG
6188631 TTGGACATTT
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
23 17 0.29
24 1 0.02
25 2 0.03
28 18 0.31
29 14 0.24
30 5 0.08
31 2 0.03
ACGTcount: A:0.16, C:0.04, G:0.34, T:0.46
Consensus pattern (24 bp):
CTGGTGTGTTTTGGAGGATATATA
Found at i:6194624 original size:11 final size:11
Alignment explanation
Indices: 6194608--6194642 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
6194598 AATTTAGCAA
*
6194608 TTTATTTTTAT
1 TTTATTTTTGT
6194619 TTTA-TTTTGT
1 TTTATTTTTGT
6194629 TTTATTTTTGT
1 TTTATTTTTGT
6194640 TTT
1 TTT
6194643 TAGTTTAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.11, C:0.00, G:0.06, T:0.83
Consensus pattern (11 bp):
TTTATTTTTGT
Found at i:6197281 original size:13 final size:13
Alignment explanation
Indices: 6197263--6197288 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6197253 CCGACAGGGA
6197263 CACGCCCGTGTGG
1 CACGCCCGTGTGG
6197276 CACGCCCGTGTGG
1 CACGCCCGTGTGG
6197289 GGTGGCTTAG
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:0.08, C:0.38, G:0.38, T:0.15
Consensus pattern (13 bp):
CACGCCCGTGTGG
Found at i:6201969 original size:23 final size:23
Alignment explanation
Indices: 6201943--6201987 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
6201933 TGGGTATGTG
*
6201943 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
6201966 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
6201988 TTGAATTGGT
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:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:6206688 original size:28 final size:28
Alignment explanation
Indices: 6206648--6206701 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
6206638 TCTATATCAG
* *
6206648 TCAATATCTTTCAATATCAATCAATTTA
1 TCAATATCGTTCAATAACAATCAATTTA
*
6206676 TCAATATCGTTCAGTAACAATCAATT
1 TCAATATCGTTCAATAACAATCAATT
6206702 ATTCTTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.39, C:0.19, G:0.04, T:0.39
Consensus pattern (28 bp):
TCAATATCGTTCAATAACAATCAATTTA
Found at i:6206887 original size:18 final size:18
Alignment explanation
Indices: 6206864--6206923 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
6206854 CGACCAGTCA
* *
6206864 TCAGTATTAATCAGTTAT
1 TCAGTAATAGTCAGTTAT
* *
6206882 TCAGTAATAGTTATTTAT
1 TCAGTAATAGTCAGTTAT
*
6206900 TCAGTAACAGTCAGTTAT
1 TCAGTAATAGTCAGTTAT
6206918 TCAGTA
1 TCAGTA
6206924 CCTTTATTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (18 bp):
TCAGTAATAGTCAGTTAT
Found at i:6208163 original size:54 final size:53
Alignment explanation
Indices: 6208097--6208205 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 53
6208087 GTCACCAAAT
6208097 ACAGATATTGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGG
1 ACAGATATTGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGG
6208150 ACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGG
1 ACAGATAT-TGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGG
6208204 AC
1 AC
6208206 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 8 0.15
54 47 0.85
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.18
Consensus pattern (53 bp):
ACAGATATTGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGG
Found at i:6208202 original size:27 final size:26
Alignment explanation
Indices: 6208071--6208202 Score: 151
Period size: 27 Copynumber: 4.9 Consensus size: 26
6208061 GCGAGGCTGC
* * *
6208071 CAGATATTGTGAC-GAAGTCACCAAAT
1 CAGATATTGTGGCAG-AGCCACCAGAT
6208097 ACAGATATTGTGGCAGAGCCACCAGAT
1 -CAGATATTGTGGCAGAGCCACCAGAT
*
6208124 CAGATAATTGTGGCATAGCCACCAGGA-
1 CAGAT-ATTGTGGCAGAGCCACCA-GAT
6208151 CAGATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
*
6208178 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
6208203 GACGCTTCCT
Statistics
Matches: 93, Mismatches: 6, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
26 9 0.10
27 79 0.85
28 5 0.05
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAT
Found at i:6209815 original size:26 final size:26
Alignment explanation
Indices: 6209784--6209891 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
6209774 TGAAATGCCC
*
6209784 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
6209810 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
6209836 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
6209862 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
6209888 ATCA
1 ATCA
6209892 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:6216262 original size:28 final size:28
Alignment explanation
Indices: 6216222--6216275 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
6216212 TCTATATCAG
* *
6216222 TCAATATCTTTCAATATCAATCAATTTA
1 TCAATATCGTTCAATAACAATCAATTTA
*
6216250 TCAATATCGTTCAGTAACAATCAATT
1 TCAATATCGTTCAATAACAATCAATT
6216276 ATTCTTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.39, C:0.19, G:0.04, T:0.39
Consensus pattern (28 bp):
TCAATATCGTTCAATAACAATCAATTTA
Found at i:6216473 original size:18 final size:18
Alignment explanation
Indices: 6216452--6216515 Score: 101
Period size: 18 Copynumber: 3.6 Consensus size: 18
6216442 TATTAATCAG
* *
6216452 TTATTTAGTAATAGTCAT
1 TTATTCAGTAACAGTCAT
6216470 TTATTCAGTAACAGTCAT
1 TTATTCAGTAACAGTCAT
*
6216488 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAT
6216506 TTATTCAGTA
1 TTATTCAGTA
6216516 CCTTTATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAT
Found at i:6216700 original size:54 final size:51
Alignment explanation
Indices: 6216633--6216750 Score: 130
Period size: 51 Copynumber: 2.3 Consensus size: 51
6216623 CCGTAACAGA
* *
6216633 AACAGTAACAGTAACAGTAGCA-GTACATAGAGTACCTCATCGGAACAAATCTGG
1 AACAGTAATAGTAACA-T-GCAGGTAC--AGAGTACCTCATCGGAACAAATCCGG
* * *
6216687 AACAGTAATAGTAACATTCAGGTACAGAGTACCTCTTCGGAACGAATCCGG
1 AACAGTAATAGTAACATGCAGGTACAGAGTACCTCATCGGAACAAATCCGG
* *
6216738 AATAGTCATAGTA
1 AACAGTAATAGTA
6216751 GTCGACACAT
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
51 34 0.61
52 2 0.04
53 5 0.09
54 15 0.27
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.21
Consensus pattern (51 bp):
AACAGTAATAGTAACATGCAGGTACAGAGTACCTCATCGGAACAAATCCGG
Found at i:6217712 original size:11 final size:11
Alignment explanation
Indices: 6217696--6217721 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6217686 CTAGTTTTCC
6217696 CTTTTTCTTTT
1 CTTTTTCTTTT
6217707 CTTTTTCTTTT
1 CTTTTTCTTTT
6217718 CTTT
1 CTTT
6217722 CTCCCATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (11 bp):
CTTTTTCTTTT
Found at i:6217910 original size:15 final size:14
Alignment explanation
Indices: 6217887--6217925 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
6217877 ACACTTGTCT
6217887 TTTATTTATTATAC
1 TTTATTTATTATAC
*
6217901 TTTATATTATTATATT
1 TTTAT-TTATTATA-C
6217917 TTTATTTAT
1 TTTATTTAT
6217926 AATTATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 5 0.23
15 12 0.55
16 5 0.23
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTATTTATTATAC
Found at i:6217970 original size:12 final size:12
Alignment explanation
Indices: 6217953--6217977 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6217943 TAATAAGCGA
6217953 ATATATATACAT
1 ATATATATACAT
6217965 ATATATATACAT
1 ATATATATACAT
6217977 A
1 A
6217978 CATTTGTACC
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:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATATATATACAT
Found at i:6220775 original size:27 final size:28
Alignment explanation
Indices: 6220726--6220784 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
6220716 TTCTTTTATT
* * *
6220726 TATTTATTTATTTTATTCTTATTTTTAA
1 TATTTATTCATTTTACTCTTATTATTAA
* *
6220754 TATTTATTCA-TTTACTGTTATTATTAT
1 TATTTATTCATTTTACTCTTATTATTAA
6220781 TATT
1 TATT
6220785 ACTATTGTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (28 bp):
TATTTATTCATTTTACTCTTATTATTAA
Found at i:6220957 original size:22 final size:23
Alignment explanation
Indices: 6220916--6220958 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
6220906 TTGCTATTTG
**
6220916 TCCTATTAGTTTTTTCTTCTTGT
1 TCCTATTAGTTTTTAATTCTTGT
6220939 TCCTATTA-TTTTTAATTCTT
1 TCCTATTAGTTTTTAATTCTT
6220959 TTTTAGTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.14, C:0.16, G:0.05, T:0.65
Consensus pattern (23 bp):
TCCTATTAGTTTTTAATTCTTGT
Found at i:6237743 original size:19 final size:20
Alignment explanation
Indices: 6237721--6237758 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6237711 AATTTAAAGA
*
6237721 ATCAA-AATCTTAAAAATTT
1 ATCAAGAATCTCAAAAATTT
6237740 ATCAAGAATCTCAAAAATT
1 ATCAAGAATCTCAAAAATT
6237759 CAACATAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.53, C:0.13, G:0.03, T:0.32
Consensus pattern (20 bp):
ATCAAGAATCTCAAAAATTT
Found at i:6242357 original size:16 final size:17
Alignment explanation
Indices: 6242325--6242357 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
6242315 TTAATGCAAA
6242325 CCAAACTTGAAAGTAAC
1 CCAAACTTGAAAGTAAC
*
6242342 CCAAATTTGAAA-TAAC
1 CCAAACTTGAAAGTAAC
6242358 TTGAAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.48, C:0.21, G:0.09, T:0.21
Consensus pattern (17 bp):
CCAAACTTGAAAGTAAC
Found at i:6242611 original size:15 final size:15
Alignment explanation
Indices: 6242591--6242621 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6242581 GACCTACCAA
6242591 ATATCTTTAATATTG
1 ATATCTTTAATATTG
6242606 ATATCTTTAATATTG
1 ATATCTTTAATATTG
6242621 A
1 A
6242622 CCAAGCTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (15 bp):
ATATCTTTAATATTG
Found at i:6245857 original size:22 final size:22
Alignment explanation
Indices: 6245815--6245857 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
6245805 TAACTTCTTG
*
6245815 TAAAAAAATTTAAACTCTATACA
1 TAAAAAAATTTAAAC-ATATACA
6245838 TAAAAAAATTATAAA-ATATA
1 TAAAAAAATT-TAAACATATA
6245858 GTGTGGCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (22 bp):
TAAAAAAATTTAAACATATACA
Found at i:6247612 original size:25 final size:27
Alignment explanation
Indices: 6247575--6247627 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
6247565 TCAAACATGC
6247575 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
6247601 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
6247627 A
1 A
6247628 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:6249144 original size:32 final size:32
Alignment explanation
Indices: 6249107--6249199 Score: 177
Period size: 32 Copynumber: 2.9 Consensus size: 32
6249097 GCTTATCATG
6249107 CCATCATCCATTAACTATTAAAATGCTAATGC
1 CCATCATCCATTAACTATTAAAATGCTAATGC
*
6249139 CCATCATTCATTAACTATTAAAATGCTAATGC
1 CCATCATCCATTAACTATTAAAATGCTAATGC
6249171 CCATCATCCATTAACTATTAAAATGCTAA
1 CCATCATCCATTAACTATTAAAATGCTAA
6249200 AATGCATACA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 59 1.00
ACGTcount: A:0.39, C:0.24, G:0.05, T:0.32
Consensus pattern (32 bp):
CCATCATCCATTAACTATTAAAATGCTAATGC
Found at i:6255661 original size:25 final size:27
Alignment explanation
Indices: 6255624--6255676 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
6255614 TCAAACATGC
6255624 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
6255650 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
6255676 A
1 A
6255677 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:6257251 original size:32 final size:32
Alignment explanation
Indices: 6257160--6257252 Score: 159
Period size: 32 Copynumber: 2.9 Consensus size: 32
6257150 TATCATGCCT
**
6257160 ATCATCCATTAACTATTAAAATGCTAATGCCC
1 ATCATCCATTAACTATTAAAATGCTAAAACCC
*
6257192 ATCATTCATTAACTATTAAAATGCTAAAACCC
1 ATCATCCATTAACTATTAAAATGCTAAAACCC
6257224 ATCATCCATTAACTATTAAAATGCTAAAA
1 ATCATCCATTAACTATTAAAATGCTAAAA
6257253 TGCATACATT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 57 1.00
ACGTcount: A:0.43, C:0.22, G:0.04, T:0.31
Consensus pattern (32 bp):
ATCATCCATTAACTATTAAAATGCTAAAACCC
Found at i:6257270 original size:32 final size:31
Alignment explanation
Indices: 6257167--6257271 Score: 115
Period size: 32 Copynumber: 3.3 Consensus size: 31
6257157 CCTATCATCC
6257167 ATTAACTATTAAAATGCT--AATGCCCATCATT
1 ATTAACTATTAAAATGCTAAAATG--CATCATT
** *
6257198 CATTAACTATTAAAATGCTAAAACCCATCATCC
1 -ATTAACTATTAAAATGCTAAAATGCATCAT-T
6257231 ATTAACTATTAAAATGCTAAAATGCATACATT
1 ATTAACTATTAAAATGCTAAAATGCAT-CATT
*
6257263 ATCAACTAT
1 ATTAACTAT
6257272 CCATCACCTT
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
32 57 0.92
33 3 0.05
34 2 0.03
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.32
Consensus pattern (31 bp):
ATTAACTATTAAAATGCTAAAATGCATCATT
Found at i:6261695 original size:23 final size:22
Alignment explanation
Indices: 6261665--6261752 Score: 81
Period size: 23 Copynumber: 3.9 Consensus size: 22
6261655 AGCTTACTGT
*
6261665 TTTCAGCTCATTGGAGCTTACCA
1 TTTCAGCTCAAT-GAGCTTACCA
* *
6261688 TTTCAGCTCGTATGAGTTTA-C-
1 TTTCAGCTC-AATGAGCTTACCA
*
6261709 TGTTAAGCTCAATGAGCTTACCA
1 T-TTCAGCTCAATGAGCTTACCA
*
6261732 TTTTAGCTCAATAGAGCTTAC
1 TTTCAGCTCAAT-GAGCTTAC
6261753 TGTTCATCAG
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
21 9 0.17
22 19 0.36
23 24 0.45
24 1 0.02
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (22 bp):
TTTCAGCTCAATGAGCTTACCA
Found at i:6261709 original size:47 final size:46
Alignment explanation
Indices: 6261643--6261766 Score: 137
Period size: 44 Copynumber: 2.7 Consensus size: 46
6261633 TACCGACATA
* *
6261643 TCAGCTCGTAAGAGCTTACTGTTTTCAGCTCATTGGAGCTTACCATT
1 TCAGCTCGTATGAGCTTACTGTTTTCAGCTCAAT-GAGCTTACCATT
* *
6261690 TCAGCTCGTATGAGTTTACTG--TTAAGCTCAATGAGCTTACCATT
1 TCAGCTCGTATGAGCTTACTGTTTTCAGCTCAATGAGCTTACCATT
* * *
6261734 TTAGCTC-AATAGAGCTTACTGTTCATCAGCTCA
1 TCAGCTCGTAT-GAGCTTACTGTT-TTCAGCTCA
6261767 GGAGGAGCTT
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
43 2 0.03
44 27 0.42
45 9 0.14
47 26 0.41
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (46 bp):
TCAGCTCGTATGAGCTTACTGTTTTCAGCTCAATGAGCTTACCATT
Found at i:6264045 original size:51 final size:52
Alignment explanation
Indices: 6263985--6264087 Score: 199
Period size: 51 Copynumber: 2.0 Consensus size: 52
6263975 AAGCTCAAAA
6263985 ACATAGAACTAGTAATAATCAACATAAATGTATTTTTTTTCTTTTT-TTTTT
1 ACATAGAACTAGTAATAATCAACATAAATGTATTTTTTTTCTTTTTATTTTT
6264036 ACATAGAACTAGTAATAATCAACATAAATGTATTTTTTTTCTTTTTATTTTT
1 ACATAGAACTAGTAATAATCAACATAAATGTATTTTTTTTCTTTTTATTTTT
6264088 TTGAGAACAA
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 46 0.90
52 5 0.10
ACGTcount: A:0.34, C:0.10, G:0.06, T:0.50
Consensus pattern (52 bp):
ACATAGAACTAGTAATAATCAACATAAATGTATTTTTTTTCTTTTTATTTTT
Found at i:6264358 original size:181 final size:181
Alignment explanation
Indices: 6264054--6264416 Score: 690
Period size: 181 Copynumber: 2.0 Consensus size: 181
6264044 CTAGTAATAA
6264054 TCAACATAAATGTATTTTTTTTCTTTTTATTTTTTTGAGAACAATAGATAATAAGAGAAAATTTA
1 TCAACATAAATGTATTTTTTTTCTTTTTATTTTTTTGAGAACAATAGATAATAAGAGAAAATTTA
6264119 ACAATTGAAACAAAAGAACACAGTTAAGCAACTAACCAAATCAAATCTTGACAAAAAGGGAGTCA
66 ACAATTGAAACAAAAGAACACAGTTAAGCAACTAACCAAATCAAATCTTGACAAAAAGGGAGTCA
* *
6264184 ATAAAACGGGAAACAATTTTCAGTGAATCAAAAAGAGTTATGGGTTAGTAT
131 ATAAAACGGGAAACAATTCTCAATGAATCAAAAAGAGTTATGGGTTAGTAT
* *
6264235 TCAACATAAATGTATTTTTTTTCTTTTTCTTTTTTTGAGAACAATAGATAATAAGATAAAATTTA
1 TCAACATAAATGTATTTTTTTTCTTTTTATTTTTTTGAGAACAATAGATAATAAGAGAAAATTTA
6264300 ACAATTGAAACAAAAGAACACAGTTAAGCAACTAACCAAATCAAATCTTGACAAAAAGGGAGTCA
66 ACAATTGAAACAAAAGAACACAGTTAAGCAACTAACCAAATCAAATCTTGACAAAAAGGGAGTCA
6264365 ATAAAACGGGAAACAATTCTCAATGAATCAAAAAGAGTTATGGGTTAGTAT
131 ATAAAACGGGAAACAATTCTCAATGAATCAAAAAGAGTTATGGGTTAGTAT
6264416 T
1 T
6264417 AATTGTTAAA
Statistics
Matches: 178, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
181 178 1.00
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.30
Consensus pattern (181 bp):
TCAACATAAATGTATTTTTTTTCTTTTTATTTTTTTGAGAACAATAGATAATAAGAGAAAATTTA
ACAATTGAAACAAAAGAACACAGTTAAGCAACTAACCAAATCAAATCTTGACAAAAAGGGAGTCA
ATAAAACGGGAAACAATTCTCAATGAATCAAAAAGAGTTATGGGTTAGTAT
Found at i:6265271 original size:18 final size:17
Alignment explanation
Indices: 6265240--6265273 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6265230 ATAAGAAGAA
*
6265240 AAAGAAAAAGAAAATAG
1 AAAGAAAAAAAAAATAG
6265257 AAAGAAAAATAAAAATA
1 AAAGAAAAA-AAAAATA
6265274 AAAATAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (17 bp):
AAAGAAAAAAAAAATAG
Found at i:6265278 original size:6 final size:6
Alignment explanation
Indices: 6265221--6265281 Score: 52
Period size: 6 Copynumber: 10.3 Consensus size: 6
6265211 ATACAAAGAC
* * * * * * *
6265221 AAAATA AACATA AGAAGA AAAAGA AAAA-G AAAATA GAAAGA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
6265268 AAAATA AAAATA AA
1 AAAATA AAAATA AA
6265282 TCTAAAGACA
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
5 4 0.09
6 39 0.91
ACGTcount: A:0.79, C:0.02, G:0.10, T:0.10
Consensus pattern (6 bp):
AAAATA
Found at i:6265278 original size:12 final size:12
Alignment explanation
Indices: 6265230--6265281 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 12
6265220 CAAAATAAAC
*
6265230 ATAAGAAGAAAA
1 ATAAAAAGAAAA
*
6265242 AGAAAAAG-AAA
1 ATAAAAAGAAAA
*
6265253 ATAGAAAGAAAA
1 ATAAAAAGAAAA
*
6265265 ATAAAAATAAAA
1 ATAAAAAGAAAA
6265277 ATAAA
1 ATAAA
6265282 TCTAAAGACA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
11 9 0.27
12 24 0.73
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.10
Consensus pattern (12 bp):
ATAAAAAGAAAA
Found at i:6266988 original size:3 final size:3
Alignment explanation
Indices: 6266982--6267006 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
6266972 AAAGTAAATA
6266982 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
6267007 GTAAAGGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6267178 original size:14 final size:16
Alignment explanation
Indices: 6267154--6267185 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
6267144 GAAAAAGGAA
6267154 GAAAGCGGAAGA-AAG
1 GAAAGCGGAAGAGAAG
6267169 GAAA-CGGAAGAGAAG
1 GAAAGCGGAAGAGAAG
6267184 GA
1 GA
6267186 GGGAGAAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.53, C:0.06, G:0.41, T:0.00
Consensus pattern (16 bp):
GAAAGCGGAAGAGAAG
Found at i:6270909 original size:11 final size:11
Alignment explanation
Indices: 6270893--6270938 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
6270883 ATAGTAATTG
6270893 AAAACAAAACT
1 AAAACAAAACT
*
6270904 AAAACAAAAAT
1 AAAACAAAACT
*
6270915 AAAATAAAA-T
1 AAAACAAAACT
*
6270925 AAAATAAAAC-
1 AAAACAAAACT
6270935 AAAA
1 AAAA
6270939 ATGGCTAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
10 14 0.44
11 18 0.56
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.11
Consensus pattern (11 bp):
AAAACAAAACT
Found at i:6274541 original size:16 final size:16
Alignment explanation
Indices: 6274520--6274553 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
6274510 CCAAAAATAA
6274520 AAATAGA-AACTCAAAT
1 AAATAGATAACT-AAAT
6274536 AAATAGATAACTAAAT
1 AAATAGATAACTAAAT
6274552 AA
1 AA
6274554 GACTAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.65, C:0.09, G:0.06, T:0.21
Consensus pattern (16 bp):
AAATAGATAACTAAAT
Found at i:6279486 original size:13 final size:13
Alignment explanation
Indices: 6279470--6279497 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6279460 CGCTTACTAA
6279470 AAGTCATTTATTT
1 AAGTCATTTATTT
6279483 AAGTCATTTATTT
1 AAGTCATTTATTT
6279496 AA
1 AA
6279498 CATCCAACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (13 bp):
AAGTCATTTATTT
Found at i:6288234 original size:24 final size:24
Alignment explanation
Indices: 6288202--6288249 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
6288192 AAGAAAACCT
6288202 AAGATCTATGGTTTTAAAGCTTGA
1 AAGATCTATGGTTTTAAAGCTTGA
6288226 AAGATCTATGGTTTTAAAGCTTGA
1 AAGATCTATGGTTTTAAAGCTTGA
6288250 TTTTGGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (24 bp):
AAGATCTATGGTTTTAAAGCTTGA
Found at i:6288893 original size:39 final size:40
Alignment explanation
Indices: 6288839--6288922 Score: 143
Period size: 39 Copynumber: 2.1 Consensus size: 40
6288829 AGGTAAGGCT
* *
6288839 TGCGAACCCTGTTTTTGTTTTGTGAACTTAGTAATA-ATG
1 TGCGAACCCTATTTTTGTTTTGTGAACTTAGTAACACATG
6288878 TGCGAACCCTATTTTTGTTTTGTGAACTTAGTAACACATG
1 TGCGAACCCTATTTTTGTTTTGTGAACTTAGTAACACATG
6288918 TGCGA
1 TGCGA
6288923 GTCTTAATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
39 34 0.81
40 8 0.19
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.40
Consensus pattern (40 bp):
TGCGAACCCTATTTTTGTTTTGTGAACTTAGTAACACATG
Found at i:6288983 original size:21 final size:21
Alignment explanation
Indices: 6288941--6288985 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
6288931 ATGTGATTTA
*
6288941 CGAACCCTGATTTACATTATG
1 CGAACCCTGATTTACATCATG
*
6288962 CGAACCCT-ATCTTATATCATG
1 CGAACCCTGAT-TTACATCATG
6288983 CGA
1 CGA
6288986 GCCGTACAAC
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:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (21 bp):
CGAACCCTGATTTACATCATG
Found at i:6289061 original size:23 final size:23
Alignment explanation
Indices: 6289017--6289064 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
6289007 ACCCAACTAT
*
6289017 ATGTATCATGCGAACCCTATCAC
1 ATGTATCATGCGAACACTATCAC
6289040 ATGTATCATGCGAA-ACTGATCAC
1 ATGTATCATGCGAACACT-ATCAC
6289063 AT
1 AT
6289065 AAAGTATGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 2 0.09
23 21 0.91
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (23 bp):
ATGTATCATGCGAACACTATCAC
Found at i:6289084 original size:23 final size:23
Alignment explanation
Indices: 6289024--6289110 Score: 68
Period size: 23 Copynumber: 3.8 Consensus size: 23
6289014 TATATGTATC
* **
6289024 ATGCGAACCCTATCACATGTA-T
1 ATGCGAACCTTATCACATAAAGT
* *
6289046 CATGCGAAACTGATCACATAAAGT
1 -ATGCGAACCTTATCACATAAAGT
* * **
6289070 ATGTGAACCTTATCATAGGAAGT
1 ATGCGAACCTTATCACATAAAGT
*
6289093 ATGCGAACCTTATTACAT
1 ATGCGAACCTTATCACAT
6289111 GATGTAAGTA
Statistics
Matches: 48, Mismatches: 15, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
23 47 0.98
24 1 0.02
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.28
Consensus pattern (23 bp):
ATGCGAACCTTATCACATAAAGT
Found at i:6289151 original size:23 final size:23
Alignment explanation
Indices: 6289098--6289164 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
6289088 GAAGTATGCG
*
6289098 AACCTTATTACATGATGTAAGTAA
1 AACC-TATTACATGATGTATGTAA
*
6289122 AACCTATTACATGATGTATGT-G
1 AACCTATTACATGATGTATGTAA
* *
6289144 AACTCTATCACATGTTGTATG
1 AAC-CTATTACATGATGTATG
6289165 CGAGCCTATA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 3 0.08
23 31 0.82
24 4 0.11
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (23 bp):
AACCTATTACATGATGTATGTAA
Found at i:6289780 original size:10 final size:10
Alignment explanation
Indices: 6289765--6289814 Score: 68
Period size: 10 Copynumber: 5.0 Consensus size: 10
6289755 TAATTTTAAG
6289765 ATTTAT-TTT
1 ATTTATCTTT
6289774 CATTTATCTTT
1 -ATTTATCTTT
6289785 ATTTATCTTT
1 ATTTATCTTT
6289795 ATTTAT-TTGT
1 ATTTATCTT-T
6289805 ATTTATCTTT
1 ATTTATCTTT
6289815 TAGAATTTCA
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:0.20, C:0.08, G:0.02, T:0.70
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:6306976 original size:5 final size:5
Alignment explanation
Indices: 6306962--6307017 Score: 57
Period size: 5 Copynumber: 11.4 Consensus size: 5
6306952 GCAACCCAAT
6306962 TTTTA TTTTTA TTTTA TTTTA TTTTA TTTT- TATTTA -TTTA TTCTTA
1 TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA TT-TTA
6307008 --TTA TTTTA TT
1 TTTTA TTTTA TT
6307018 ATTTATTATT
Statistics
Matches: 44, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
3 3 0.07
4 5 0.11
5 28 0.64
6 8 0.18
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:6307008 original size:25 final size:24
Alignment explanation
Indices: 6306962--6307029 Score: 74
Period size: 25 Copynumber: 3.0 Consensus size: 24
6306952 GCAACCCAAT
6306962 TTTTATTTTTA--T-TTTATTTTA
1 TTTTATTTTTATTTATTTATTTTA
6306983 TTTTATTTTTATTTATTTATTCTTA
1 TTTTATTTTTATTTATTTATT-TTA
*
6307008 TTATT-TTATTATTTA-TTATTTT
1 TT-TTATTTTTATTTATTTATTTT
6307030 CAGATATTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
21 11 0.27
23 3 0.07
24 11 0.27
25 14 0.34
26 2 0.05
ACGTcount: A:0.21, C:0.01, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTTATTTTTATTTATTTATTTTA
Found at i:6307026 original size:10 final size:10
Alignment explanation
Indices: 6306960--6307027 Score: 56
Period size: 10 Copynumber: 7.0 Consensus size: 10
6306950 AGGCAACCCA
6306960 ATTT-TTATT
1 ATTTATTATT
6306969 -TTTATT-TT
1 ATTTATTATT
6306977 ATTTTATT-TT
1 A-TTTATTATT
6306987 ATTT-TTATTT
1 ATTTATTA-TT
*
6306997 ATTTATTCTT
1 ATTTATTATT
*
6307007 ATTATTTTATT
1 ATT-TATTATT
6307018 ATTTATTATT
1 ATTTATTATT
6307028 TTCAGATATT
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
8 7 0.15
9 5 0.10
10 26 0.54
11 10 0.21
ACGTcount: A:0.22, C:0.01, G:0.00, T:0.76
Consensus pattern (10 bp):
ATTTATTATT
Found at i:6307769 original size:12 final size:12
Alignment explanation
Indices: 6307754--6307785 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
6307744 ATTTCCCAAG
6307754 CCATTTTGTCAC
1 CCATTTTGTCAC
6307766 CCATTTTGTCAC
1 CCATTTTGTCAC
6307778 CCATTTTG
1 CCATTTTG
6307786 CACAATCTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.16, C:0.31, G:0.09, T:0.44
Consensus pattern (12 bp):
CCATTTTGTCAC
Found at i:6308555 original size:91 final size:91
Alignment explanation
Indices: 6308397--6308708 Score: 308
Period size: 93 Copynumber: 3.3 Consensus size: 91
6308387 GATATATTGT
* * * * * *
6308397 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCATGCTGATGCATGTCCCAG
1 CGATG-CATATCCCAGACA-CGTCTTACACTGGCTCTCATGTATGCAGGCCGATGCATGTCCTAG
6308462 ACATGTCTTACACTAGCACAACTCTTAG
64 ACATGTCTTACACTAGCACAACTCTTAG
* *
6308490 TCGATGCTTATTCCAGACACGTCTTACACTGGCTATCTC-TGT-TG-AGGCCGATGCATGTCCTA
1 -CGATGCATATCCCAGACACGTCTTACACTGGC--TCTCATGTATGCAGGCCGATGCATGTCCTA
* * *
6308552 GACATGTCTTACTCTGGCACTCATCTCTGT-G
63 GACATGTCTTACACTAGCA--CAACTCT-TAG
* * * * **
6308583 CCGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATTTATGCATGCTAATGCATGTCCTA
1 -CGATG-CATATCCCAGACA-CGTCTTACACTGGCTCTCATGTATGCAGGCCGATGCATGTCCTA
*
6308648 GAAATGTCTTACACTAGCACAACTCTTAG
63 GACATGTCTTACACTAGCACAACTCTTAG
* *
6308677 CTGAAGCGTATCCCAGACACGTCTTACACTGG
1 C-GATGCATATCCCAGACACGTCTTACACTGG
6308709 TGTACAAATC
Statistics
Matches: 178, Mismatches: 28, Indels: 26
0.77 0.12 0.11
Matches are distributed among these distances:
91 32 0.18
92 26 0.15
93 42 0.24
94 33 0.19
95 14 0.08
96 31 0.17
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (91 bp):
CGATGCATATCCCAGACACGTCTTACACTGGCTCTCATGTATGCAGGCCGATGCATGTCCTAGAC
ATGTCTTACACTAGCACAACTCTTAG
Found at i:6308602 original size:47 final size:48
Alignment explanation
Indices: 6308397--6308708 Score: 177
Period size: 44 Copynumber: 6.6 Consensus size: 48
6308387 GATATATTGT
* * *
6308397 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGCAT-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCTCTG-ATAGC
* * * *
6308447 TGATGCATGTCCCAGACATGTCTTACACTAGCA--CAACTCT--TAGT
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGATAGC
* * * * *
6308491 CGATGCTTATTCCAGACACGTCTTACACTGG--CT-ATCTCTGTTGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGAT-A-GC
* *
6308538 CGATGCATGTCCTAGACATGTCTTACTCTGGCACTCATCTCTG-T-GC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGATAGC
* * * * *
6308584 CGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCATTTATGCAT-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCTCTG-ATAGC
** * * * *
6308634 TAATGCATGTCCTAGAAATGTCTTACACTAGCA--CAACTCT--TAGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGATAGC
* * * * *
6308678 TGAAGCGTATCCCAGACACGTCTTACACTGG
1 CGATGCATGTCCCAGACATGTCTTACACTGG
6308709 TGTACAAATC
Statistics
Matches: 202, Mismatches: 45, Indels: 36
0.71 0.16 0.13
Matches are distributed among these distances:
43 7 0.03
44 51 0.25
45 1 0.00
46 16 0.08
47 38 0.19
48 44 0.22
49 28 0.14
50 17 0.08
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (48 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGATAGC
Found at i:6311343 original size:10 final size:10
Alignment explanation
Indices: 6311328--6311387 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
6311318 TAATTTTAAG
6311328 ATTTAT-TTT
1 ATTTATCTTT
6311337 CATTTATCTTT
1 -ATTTATCTTT
6311348 ATTTATCTTT
1 ATTTATCTTT
*
6311358 AATTATCTTT
1 ATTTATCTTT
6311368 ATTTAT-TTGT
1 ATTTATCTT-T
6311378 ATTTATCTTT
1 ATTTATCTTT
6311388 TGGAATTTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:6316320 original size:132 final size:132
Alignment explanation
Indices: 6316083--6316347 Score: 422
Period size: 132 Copynumber: 2.0 Consensus size: 132
6316073 GAGATTAGGG
* * * * *
6316083 AAAGATGGCAATGGTGGAGAAGAGAAAGGAATAGAGGGAATTGTAGTTGGGATTGTGGGGATTGA
1 AAAGATGGCAAAGGTGGAAAAAAGAAAGGAATAGAGGGAATTGCAGTTGGGATTGTGGGGAATGA
* *
6316148 GGGAATGTTTGGCAGAGGAGGCAGTGTGGCCCTCGGTCCACTTGGAAATACGGTAGGAAGTGGAG
66 AGGAATGCTTGGCAGAGGAGGCAGTGTGGCCCTCGGTCCACTTGGAAATACGGTAGGAAGTGGAG
6316213 GA
131 GA
6316215 AAAGATGGCAAAGGTGGAAAAAAGAAAGGAATAGAGGGAATTGCAGTTGGGATTGTGGGGAATGA
1 AAAGATGGCAAAGGTGGAAAAAAGAAAGGAATAGAGGGAATTGCAGTTGGGATTGTGGGGAATGA
* * * * *
6316280 AGGAATGCTTGGCAGAGGGGGTAGTGTGGCCTTTGGTCCACTTGGAAATATGGTAGGAAGTGGAG
66 AGGAATGCTTGGCAGAGGAGGCAGTGTGGCCCTCGGTCCACTTGGAAATACGGTAGGAAGTGGAG
6316345 GA
131 GA
6316347 A
1 A
6316348 GCGCCCCAGG
Statistics
Matches: 121, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
132 121 1.00
ACGTcount: A:0.31, C:0.08, G:0.41, T:0.20
Consensus pattern (132 bp):
AAAGATGGCAAAGGTGGAAAAAAGAAAGGAATAGAGGGAATTGCAGTTGGGATTGTGGGGAATGA
AGGAATGCTTGGCAGAGGAGGCAGTGTGGCCCTCGGTCCACTTGGAAATACGGTAGGAAGTGGAG
GA
Found at i:6316479 original size:291 final size:291
Alignment explanation
Indices: 6315936--6316507 Score: 957
Period size: 291 Copynumber: 2.0 Consensus size: 291
6315926 ACGAGAACGT
* * * *
6315936 GGTGGAGAAACGAAAGGAATAGAGGGAATTACAGTTGGGATTGTGGGGACTGAGGGAATGCTTGG
1 GGTGGAAAAAAGAAAGGAATAGAGGGAATTACAGTTGGGATTGTGGGGAATGAAGGAATGCTTGG
6316001 CAGAGGGGGTAGTGTGGCCCTCGGTCCACTTGGAAATATGGTAGGAAGTGGAGGAAGAGCCCCAG
66 CAGAGGGGGTAGTGTGGCCCTCGGTCCACTTGGAAATATGGTAGGAAGTGGAGGAAGAGCCCCAG
* * * *
6316066 GGTTTGGGAGATTAGGGAAAGATGGCAATGGTGGAGAAGAGAAAGGAATAGAGGGAATTGTAGTT
131 GCTTTGGGAGATTAGGGAAAGATGGCAATGGCGGAGAAAAGAAAGCAATAGAGGGAATTGTAGTT
* * *
6316131 GGGATTGTGGGGATTGAGGGAATGTTTGGCAGAGGAGGCAGTGTGGCCCTCGGTCCACTTGGAAA
196 GGGATTCTGGGGACTGAGGGAATGCTTGGCAGAGGAGGCAGTGTGGCCCTCGGTCCACTTGGAAA
6316196 TAC-GGTAGGAAGTGGAGGAAAAGATGGCAAA
261 T-CTGGTAGGAAGTGGAGGAAAAGATGGCAAA
*
6316227 GGTGGAAAAAAGAAAGGAATAGAGGGAATTGCAGTTGGGATTGTGGGGAATGAAGGAATGCTTGG
1 GGTGGAAAAAAGAAAGGAATAGAGGGAATTACAGTTGGGATTGTGGGGAATGAAGGAATGCTTGG
* * *
6316292 CAGAGGGGGTAGTGTGGCCTTTGGTCCACTTGGAAATATGGTAGGAAGTGGAGGAAGCGCCCCAG
66 CAGAGGGGGTAGTGTGGCCCTCGGTCCACTTGGAAATATGGTAGGAAGTGGAGGAAGAGCCCCAG
*
6316357 GCTTTGGGAGATTAGGGAAAGATGGCAATGGCGGAGAAAATAAAGCAATAGAGGGAATTGTAGTT
131 GCTTTGGGAGATTAGGGAAAGATGGCAATGGCGGAGAAAAGAAAGCAATAGAGGGAATTGTAGTT
* * *
6316422 GGGATTCTGGGGACTGAGGGAATGCTTGGCAGAGGGGGCAGTGTGGCCTTTGGTCCACTTGGAAA
196 GGGATTCTGGGGACTGAGGGAATGCTTGGCAGAGGAGGCAGTGTGGCCCTCGGTCCACTTGGAAA
6316487 TCTGGTAGGAAGTGGAGGAAA
261 TCTGGTAGGAAGTGGAGGAAA
6316508 CGCCCCAGGC
Statistics
Matches: 261, Mismatches: 19, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
290 1 0.00
291 260 1.00
ACGTcount: A:0.29, C:0.10, G:0.41, T:0.20
Consensus pattern (291 bp):
GGTGGAAAAAAGAAAGGAATAGAGGGAATTACAGTTGGGATTGTGGGGAATGAAGGAATGCTTGG
CAGAGGGGGTAGTGTGGCCCTCGGTCCACTTGGAAATATGGTAGGAAGTGGAGGAAGAGCCCCAG
GCTTTGGGAGATTAGGGAAAGATGGCAATGGCGGAGAAAAGAAAGCAATAGAGGGAATTGTAGTT
GGGATTCTGGGGACTGAGGGAATGCTTGGCAGAGGAGGCAGTGTGGCCCTCGGTCCACTTGGAAA
TCTGGTAGGAAGTGGAGGAAAAGATGGCAAA
Found at i:6316504 original size:159 final size:159
Alignment explanation
Indices: 6316215--6316524 Score: 512
Period size: 159 Copynumber: 1.9 Consensus size: 159
6316205 AAGTGGAGGA
* * *
6316215 AAAGATGGCAAAGGTGGAAAAAAGAAAGGAATAGAGGGAATTGCAGTTGGGATTGTGGGGAATGA
1 AAAGATGGCAAAGGCGGAAAAAAGAAAGCAATAGAGGGAATTGCAGTTGGGATTCTGGGGAATGA
*
6316280 AGGAATGCTTGGCAGAGGGGGTAGTGTGGCCTTTGGTCCACTTGGAAATATGGTAGGAAGTGGAG
66 AGGAATGCTTGGCAGAGGGGGCAGTGTGGCCTTTGGTCCACTTGGAAATATGGTAGGAAGTGGAG
*
6316345 GAAGCGCCCCAGGCTTTGGGAGATTAGGG
131 GAAACGCCCCAGGCTTTGGGAGATTAGGG
* * * * *
6316374 AAAGATGGCAATGGCGGAGAAAATAAAGCAATAGAGGGAATTGTAGTTGGGATTCTGGGGACTGA
1 AAAGATGGCAAAGGCGGAAAAAAGAAAGCAATAGAGGGAATTGCAGTTGGGATTCTGGGGAATGA
* *
6316439 GGGAATGCTTGGCAGAGGGGGCAGTGTGGCCTTTGGTCCACTTGGAAATCTGGTAGGAAGTGGAG
66 AGGAATGCTTGGCAGAGGGGGCAGTGTGGCCTTTGGTCCACTTGGAAATATGGTAGGAAGTGGAG
6316504 GAAACGCCCCAGGCTTTGGGA
131 GAAACGCCCCAGGCTTTGGGA
6316525 ATGAGGGTAT
Statistics
Matches: 139, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
159 139 1.00
ACGTcount: A:0.29, C:0.11, G:0.39, T:0.20
Consensus pattern (159 bp):
AAAGATGGCAAAGGCGGAAAAAAGAAAGCAATAGAGGGAATTGCAGTTGGGATTCTGGGGAATGA
AGGAATGCTTGGCAGAGGGGGCAGTGTGGCCTTTGGTCCACTTGGAAATATGGTAGGAAGTGGAG
GAAACGCCCCAGGCTTTGGGAGATTAGGG
Found at i:6316973 original size:33 final size:32
Alignment explanation
Indices: 6316901--6316974 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 32
6316891 TATTCTATTT
* *
6316901 TTTTATTATAATTTTTAGATAATTAAAATAAA
1 TTTTATTATTATTTTTAGATAATCAAAATAAA
*
6316933 -TTT-TTATTATTTTTGAGA-GATCAAAATATAA
1 TTTTATTATTATTTTT-AGATAATCAAAATA-AA
6316964 TTTTATTATTA
1 TTTTATTATTA
6316975 CTAATTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
30 18 0.51
31 8 0.23
32 3 0.09
33 6 0.17
ACGTcount: A:0.41, C:0.01, G:0.05, T:0.53
Consensus pattern (32 bp):
TTTTATTATTATTTTTAGATAATCAAAATAAA
Found at i:6317307 original size:18 final size:18
Alignment explanation
Indices: 6317264--6317307 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
6317254 GAGTTGAGTT
*
6317264 AATTTTTTATATTTTATA
1 AATTTTTTATATTATATA
*
6317282 ACTGTTTTTTATATTATATA
1 A--ATTTTTTATATTATATA
6317302 AATTTT
1 AATTTT
6317308 AATATTTCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
18 5 0.24
20 16 0.76
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (18 bp):
AATTTTTTATATTATATA
Found at i:6318040 original size:6 final size:7
Alignment explanation
Indices: 6318023--6318048 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
6318013 CTTATATCTC
6318023 TTTTTTG
1 TTTTTTG
6318030 TTTTTTG
1 TTTTTTG
6318037 TTTTTTG
1 TTTTTTG
6318044 TTTTT
1 TTTTT
6318049 CCCCCTCTTC
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:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (7 bp):
TTTTTTG
Found at i:6320660 original size:17 final size:18
Alignment explanation
Indices: 6320640--6320691 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 18
6320630 TGTTCATGTA
6320640 AAATATA-AGTTCATACC
1 AAATATACAGTTCATACC
*
6320657 AAATA-ACAGTTCAT-GC
1 AAATATACAGTTCATACC
6320673 AAAT-TAACAGTTCATACC
1 AAATAT-ACAGTTCATACC
6320691 A
1 A
6320692 CACCATAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
16 6 0.21
17 21 0.72
18 2 0.07
ACGTcount: A:0.46, C:0.19, G:0.08, T:0.27
Consensus pattern (18 bp):
AAATATACAGTTCATACC
Found at i:6322068 original size:12 final size:11
Alignment explanation
Indices: 6322039--6322066 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
6322029 TCTTCGACAC
6322039 AAAAAATAAAT
1 AAAAAATAAAT
6322050 AAAAAATAAAT
1 AAAAAATAAAT
6322061 AAAAAA
1 AAAAAA
6322067 ATTTAATCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (11 bp):
AAAAAATAAAT
Found at i:6322835 original size:20 final size:20
Alignment explanation
Indices: 6322812--6322904 Score: 75
Period size: 20 Copynumber: 4.6 Consensus size: 20
6322802 AAACTCGTAA
*
6322812 AAAATTTATAAAAAAATTGT
1 AAAATTTATAAAAAAATTAT
* *
6322832 AAAATTT-TATAAAAAAGTGT
1 AAAATTTATA-AAAAAATTAT
*
6322852 AAAATTT-T-ATAAAATATAT
1 AAAATTTATAAAAAAAT-TAT
* *
6322871 AGAAATATAGAAAAAAATTAT
1 A-AAATTTATAAAAAAATTAT
6322892 AAAATTTTATAAA
1 AAAA-TTTATAAA
6322905 GTCGTAAGAA
Statistics
Matches: 58, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
18 5 0.09
19 5 0.09
20 32 0.55
21 10 0.17
22 6 0.10
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.34
Consensus pattern (20 bp):
AAAATTTATAAAAAAATTAT
Found at i:6323178 original size:29 final size:30
Alignment explanation
Indices: 6323146--6323220 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 30
6323136 TTTTTGATGC
* *
6323146 ATTTTAGAATTTTTTATAATTTTTTA-AAA
1 ATTTTACAATTTTTAATAATTTTTTATAAA
*
6323175 ATTTTACAATTTTTAATATTTTTTTATTAAA
1 ATTTTACAATTTTTAATAATTTTTTA-TAAA
* *
6323206 ATTTAATAATTTTTA
1 ATTTTACAATTTTTA
6323221 TATCTTTTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 23 0.59
31 16 0.41
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (30 bp):
ATTTTACAATTTTTAATAATTTTTTATAAA
Found at i:6330577 original size:10 final size:10
Alignment explanation
Indices: 6330562--6330611 Score: 59
Period size: 10 Copynumber: 5.0 Consensus size: 10
6330552 TAATTTTAGG
6330562 ATTTAT-TTT
1 ATTTATCTTT
6330571 CATTTATCTTT
1 -ATTTATCTTT
*
6330582 AATTATCTTT
1 ATTTATCTTT
6330592 ATTTAT-TTGT
1 ATTTATCTT-T
6330602 ATTTATCTTT
1 ATTTATCTTT
6330612 TTGAATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 2 0.06
10 28 0.80
11 5 0.14
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:6341950 original size:10 final size:10
Alignment explanation
Indices: 6341935--6341994 Score: 59
Period size: 10 Copynumber: 6.0 Consensus size: 10
6341925 TAATTTTAGG
*
6341935 ATTTATTTTT
1 ATTTATCTTT
6341945 ATTTATCTTT
1 ATTTATCTTT
* *
6341955 AATTAGCTTT
1 ATTTATCTTT
* *
6341965 AATTATCCTT
1 ATTTATCTTT
6341975 ATTTAT-TTGT
1 ATTTATCTT-T
6341985 ATTTATCTTT
1 ATTTATCTTT
6341995 TAGAATTTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
9 1 0.02
10 38 0.93
11 2 0.05
ACGTcount: A:0.23, C:0.08, G:0.03, T:0.65
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:6346371 original size:14 final size:14
Alignment explanation
Indices: 6346325--6346376 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
6346315 TTATTCAATT
6346325 TATATTTAT-TTTA
1 TATATTTATATTTA
**
6346338 TATATAAATATTTA
1 TATATTTATATTTA
6346352 CT-TATTTATATTTA
1 -TATATTTATATTTA
6346366 TATATTT-TATT
1 TATATTTATATT
6346377 CGCTAACGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
13 12 0.38
14 19 0.59
15 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (14 bp):
TATATTTATATTTA
Found at i:6346711 original size:86 final size:86
Alignment explanation
Indices: 6346497--6347236 Score: 679
Period size: 87 Copynumber: 8.7 Consensus size: 86
6346487 GAAAATAAAT
* * * * * *
6346497 ATTAAAATTAAATAATATCTGTTTCAGCATTTATTCCCACCGTTTAACAGATTTTATTCTA----
1 ATTAAAATTAAATAAAATCTATTTCGGGATTTATTCCCGCCGTTCAACAGATTTTATTCTATTTT
* *
6346558 -TATTTTTTTTCCAAACAAGTA
66 TTATTTTGTTTCCAAACGAG-A
* * * * *
6346579 A-TAAAATTAAATAAAAATATGTTTCAGGATTTATTCCCACCATTCAACAGATTTTATTCTATTT
1 ATTAAAATTAAAT-AAAATCTATTTCGGGATTTATTCCCGCCGTTCAACAGATTTTATTCTATTT
* * *
6346643 TTTATTTTATTTCCAAATGAGC
65 TTTATTTTGTTTCCAAACGAGA
* * * *
6346665 ATTAAAATAAAATAAAATCTGTTTCGGGATTTATTCCCGCTGTTCAACAGATTTTATTCCATATT
1 ATTAAAATTAAATAAAATCTATTTCGGGATTTATTCCCGCCGTTCAACAGATTTTATTCTAT-TT
** *
6346730 TTTATTTTGTTTCCAAATAAGT
65 TTTATTTTGTTTCCAAACGAGA
*
6346752 ATTAAAATTAAATAAAATCTATTTTGGG-TTTGATTCCCGCCGTTCAACAGATTTTATT-TCATT
1 ATTAAAATTAAATAAAATCTATTTCGGGATTT-ATTCCCGCCGTTCAACAGATTTTATTCT-ATT
*
6346815 TTTTATTTTGTTGT-CAAACGAAAA
64 TTTTATTTTGTT-TCCAAACG-AGA
* * * * *
6346839 ATTAAAATTAAATAAAATCTATTTTGGGTTTTATTCCCTCCGTTCAACATATTTTATTCCATTTT
1 ATTAAAATTAAATAAAATCTATTTCGGGATTTATTCCCGCCGTTCAACAGATTTTATTCTATTTT
6346904 TTATTTTGTTTCCAAACGAGAA
66 TTATTTTGTTTCCAAACGAG-A
* * * ** *
6346926 ATTAAAATTAAATAAAATCTATTTCAGGTTTTATTCCTGCTATTCAAGAGATTTTATTAC-A-TT
1 ATTAAAATTAAATAAAATCTATTTCGGGATTTATTCCCGCCGTTCAACAGATTTTATT-CTATTT
*
6346989 TTTATTTT-TTGCCAAACGAGAA
65 TTTATTTTGTTTCCAAACGAG-A
* *
6347011 ATTAAAATTAAATAAAATCTATTTCGGGTTTTATTCCCGCCGTTCAACAGATTTTATTC-CTTTT
1 ATTAAAATTAAATAAAATCTATTTCGGGATTTATTCCCGCCGTTCAACAGATTTTATTCTATTTT
* *
6347075 TTATTTTGTTACCAAACTAGAA
66 TTATTTTGTTTCCAAACGAG-A
* * * * * ** * * * *
6347097 ATTAAAATTAAATAAAATATGTTCCAGAATTTATTCAAGCCGTTTAATAGAATTTATTCGA-TTT
1 ATTAAAATTAAATAAAATCTATTTCGGGATTTATTCCCGCCGTTCAACAGATTTTATTCTATTTT
* * **
6347161 TAATTTTGTTAT-TAAATTAGA
66 TTATTTTGTT-TCCAAACGAGA
* * * ** * *
6347182 AGT-AAATTGAAT--AATCTATTTTGGGATTTATTCTTGTCGTTTAACAGATTTTATT
1 ATTAAAATTAAATAAAATCTATTTCGGGATTTATTCCCGCCGTTCAACAGATTTTATT
6347237 AGATCTTGAT
Statistics
Matches: 559, Mismatches: 78, Indels: 42
0.82 0.11 0.06
Matches are distributed among these distances:
81 11 0.02
82 76 0.14
84 9 0.02
85 79 0.14
86 154 0.28
87 226 0.40
88 4 0.01
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.44
Consensus pattern (86 bp):
ATTAAAATTAAATAAAATCTATTTCGGGATTTATTCCCGCCGTTCAACAGATTTTATTCTATTTT
TTATTTTGTTTCCAAACGAGA
Found at i:6350204 original size:20 final size:20
Alignment explanation
Indices: 6350162--6350205 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
6350152 TCCTACTTTT
*
6350162 ATTTGATTCTAATAAATTTG
1 ATTTGATTCTAATAAATTGG
*
6350182 ATTTGATTTTAATCAAA-TGG
1 ATTTGATTCTAAT-AAATTGG
6350202 ATTT
1 ATTT
6350206 AATTGCTCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (20 bp):
ATTTGATTCTAATAAATTGG
Found at i:6350660 original size:16 final size:18
Alignment explanation
Indices: 6350641--6350695 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
6350631 TAAATATAAA
6350641 TTATTTA-ATTTATAT-T
1 TTATTTATATTTATATAT
* *
6350657 TTATTTTATATATAAATAT
1 TTA-TTTATATTTATATAT
6350676 TTATTTATATTTATATAT
1 TTATTTATATTTATATAT
6350694 TT
1 TT
6350696 TGTTTGCTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 3 0.09
17 4 0.12
18 21 0.66
19 4 0.12
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTATTTATATTTATATAT
Found at i:6350670 original size:32 final size:30
Alignment explanation
Indices: 6350629--6350687 Score: 91
Period size: 32 Copynumber: 1.9 Consensus size: 30
6350619 TATCTAACAA
6350629 TTTAAATATAAATTATTTAATTTATATTTTAT
1 TTTAAATATAAA-TATTT-ATTTATATTTTAT
*
6350661 TTTATATATAAATATTTATTTATATTT
1 TTTAAATATAAATATTTATTTATATTT
6350688 ATATATTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 10 0.38
31 5 0.19
32 11 0.42
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (30 bp):
TTTAAATATAAATATTTATTTATATTTTAT
Found at i:6354517 original size:25 final size:25
Alignment explanation
Indices: 6354470--6354517 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
6354460 TTATAATATG
* * *
6354470 AAAATGACCATTTTGCCCTTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
6354495 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
6354518 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:6354586 original size:20 final size:20
Alignment explanation
Indices: 6354561--6354619 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
6354551 TAAATATGGT
6354561 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
6354581 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
6354601 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
6354620 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:6354601 original size:11 final size:11
Alignment explanation
Indices: 6354565--6354619 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
6354555 TATGGTATGT
6354565 ATGATATGCAC
1 ATGATATGCAC
* *
6354576 ATGAAATG--T
1 ATGATATGCAC
6354585 ATGATATGCAC
1 ATGATATGCAC
*
6354596 ATGATATG--T
1 ATGATATGCAC
6354605 ATGATATGCAC
1 ATGATATGCAC
6354616 ATGA
1 ATGA
6354620 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:6354697 original size:24 final size:24
Alignment explanation
Indices: 6354670--6354812 Score: 191
Period size: 24 Copynumber: 6.0 Consensus size: 24
6354660 GAGGAAGTGA
6354670 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
6354694 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
* *
6354718 AAAAGAGCTTATGCCTCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
6354741 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
6354765 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
6354789 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
6354813 ATGATAAAGC
Statistics
Matches: 107, Mismatches: 9, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
23 21 0.20
24 75 0.70
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:6354761 original size:47 final size:47
Alignment explanation
Indices: 6354670--6354812 Score: 189
Period size: 47 Copynumber: 3.0 Consensus size: 47
6354660 GAGGAAGTGA
6354670 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
* * *
6354718 AAAAGAGCTTATGCCTCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
6354765 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
6354813 ATGATAAAGC
Statistics
Matches: 84, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
47 41 0.49
48 32 0.38
49 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:6354786 original size:71 final size:72
Alignment explanation
Indices: 6354670--6354813 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
6354660 GAGGAAGTGA
*
6354670 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGA-GCTTATGCCT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
6354734 -CAGTTAT
65 CCAGTTAT
** * *
6354741 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
6354806 CAGTTAT
66 CAGTTAT
6354813 A
1 A
6354814 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 56 0.85
72 10 0.15
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:6368045 original size:20 final size:21
Alignment explanation
Indices: 6368002--6368047 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
6367992 ACTGTTCTGT
6368002 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
6368022 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
6368041 TATGGGC
1 TATGGGC
6368048 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:6368188 original size:27 final size:28
Alignment explanation
Indices: 6368136--6368188 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
6368126 TTACTGTAAG
* *
6368136 GGGCTATGGCCCAGATTAATACTGATAT
1 GGGCTAAGGCCCAGATTAACACTGATAT
*
6368164 GGGCTAAGGCCTAG-TTAACACTGAT
1 GGGCTAAGGCCCAGATTAACACTGAT
6368189 TTCTGAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAACACTGATAT
Found at i:6373505 original size:20 final size:21
Alignment explanation
Indices: 6373462--6373507 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
6373452 ACTGTTCTGT
6373462 TATGGG-CCAACTGTATTGAA
1 TATGGGCCCAACTGTATTGAA
*
6373482 -ATGGGCCCAACTGTGTT-AA
1 TATGGGCCCAACTGTATTGAA
6373501 TATGGGC
1 TATGGGC
6373508 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTGTATTGAA
Found at i:6373648 original size:27 final size:28
Alignment explanation
Indices: 6373596--6373648 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
6373586 TTACTGTAAG
* *
6373596 GGGCTATGGCCCAGATTAATACTGATAT
1 GGGCTAAGGCCCAGATTAACACTGATAT
*
6373624 GGGCTAAGGCCTAG-TTAACACTGAT
1 GGGCTAAGGCCCAGATTAACACTGAT
6373649 TTCTGAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAACACTGATAT
Found at i:6374572 original size:3 final size:3
Alignment explanation
Indices: 6374564--6374796 Score: 147
Period size: 3 Copynumber: 75.0 Consensus size: 3
6374554 ACAAGGATAT
6374564 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * ** * * *
6374612 ATA ATA ATA ATA TTGA A-A CACA A-A AGCC ATT ATA ATA AAA ATA TTA
1 ATA ATA ATA ATA AT-A ATA -ATA ATA A-TA ATA ATA ATA ATA ATA ATA
* * * *
6374658 A-A ATA A-A GTA ATA GA-A ACA TTA CTA CAT- ATA TATA TATA CATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA ATA -ATA -ATA -ATA
* * * *
6374701 TATGA AGA TATA CACTA AT- GTA TTTCA ATA ACA ATA ATA ATA ATA ATA
1 -AT-A ATA -ATA -A-TA ATA ATA -AT-A ATA ATA ATA ATA ATA ATA ATA
6374749 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6374797 TTGAAATGCA
Statistics
Matches: 186, Mismatches: 26, Indels: 36
0.75 0.10 0.15
Matches are distributed among these distances:
2 10 0.05
3 148 0.80
4 24 0.13
5 4 0.02
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:6375289 original size:11 final size:12
Alignment explanation
Indices: 6375273--6375308 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
6375263 AAGGAAAAAA
6375273 GAAGAGAG-AGG
1 GAAGAGAGAAGG
6375284 GAAGAGAGAAGG
1 GAAGAGAGAAGG
6375296 G-AGAGAGAAGG
1 GAAGAGAGAAGG
6375307 GA
1 GA
6375309 GGGGAATCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:6375420 original size:12 final size:12
Alignment explanation
Indices: 6375403--6375445 Score: 86
Period size: 12 Copynumber: 3.6 Consensus size: 12
6375393 AAAGGTATTT
6375403 TTTTTTTGTATA
1 TTTTTTTGTATA
6375415 TTTTTTTGTATA
1 TTTTTTTGTATA
6375427 TTTTTTTGTATA
1 TTTTTTTGTATA
6375439 TTTTTTT
1 TTTTTTT
6375446 TATGTTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (12 bp):
TTTTTTTGTATA
Found at i:6375435 original size:24 final size:23
Alignment explanation
Indices: 6375403--6375453 Score: 84
Period size: 24 Copynumber: 2.2 Consensus size: 23
6375393 AAAGGTATTT
6375403 TTTTTTTGTATATTTTTTTGTATA
1 TTTTTTTGTATATTTTTTT-TATA
*
6375427 TTTTTTTGTATATTTTTTTTATG
1 TTTTTTTGTATATTTTTTTTATA
6375450 TTTT
1 TTTT
6375454 AATATATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (23 bp):
TTTTTTTGTATATTTTTTTTATA
Found at i:6375461 original size:23 final size:24
Alignment explanation
Indices: 6375411--6375462 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
6375401 TTTTTTTTTG
** *
6375411 TATATTTTTTTGTATATTTTTTTG
1 TATATTTTTTTGTATATTTTAATA
*
6375435 TATATTTTTTT-TATGTTTTAATA
1 TATATTTTTTTGTATATTTTAATA
6375458 TATAT
1 TATAT
6375463 AGGTTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (24 bp):
TATATTTTTTTGTATATTTTAATA
Found at i:6375875 original size:35 final size:35
Alignment explanation
Indices: 6375829--6375897 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
6375819 GAGTGTGTGA
*
6375829 TGGTGTTGGTGGCAGACAGCATGGGAGAATGGGAG
1 TGGTGCTGGTGGCAGACAGCATGGGAGAATGGGAG
*
6375864 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 TGGTGCTGGTGGCAGACAGCATGGGAGAATGGGA
6375898 AGAGGCAAGT
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:0.22, C:0.10, G:0.49, T:0.19
Consensus pattern (35 bp):
TGGTGCTGGTGGCAGACAGCATGGGAGAATGGGAG
Found at i:6381252 original size:33 final size:33
Alignment explanation
Indices: 6381207--6381302 Score: 156
Period size: 33 Copynumber: 2.9 Consensus size: 33
6381197 GGTGTCAGAC
6381207 GCGTGGAGCGTGGTGACCAAGGCTGAGGGGCAT
1 GCGTGGAGCGTGGTGACCAAGGCTGAGGGGCAT
* *
6381240 GCGTGGAACGTGGTGACCAAGACTGAGGGGCAT
1 GCGTGGAGCGTGGTGACCAAGGCTGAGGGGCAT
* *
6381273 GCGTGGGGCGTGGTGGCCAAGGCTGAGGGG
1 GCGTGGAGCGTGGTGACCAAGGCTGAGGGG
6381303 TATGGTTGCT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.18, C:0.18, G:0.50, T:0.15
Consensus pattern (33 bp):
GCGTGGAGCGTGGTGACCAAGGCTGAGGGGCAT
Found at i:6386212 original size:20 final size:21
Alignment explanation
Indices: 6386190--6386236 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
6386180 ATCCTAAACC
*
6386190 TTGAATCTTGAACCCT-G-ACC
1 TTGAA-CTTGAAACCTCGAACC
6386210 TTGAACTTGAAACCTCGAACC
1 TTGAACTTGAAACCTCGAACC
6386231 TTGAAC
1 TTGAAC
6386237 CCTTAACTCG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 9 0.38
20 6 0.25
21 9 0.38
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (21 bp):
TTGAACTTGAAACCTCGAACC
Found at i:6386236 original size:7 final size:7
Alignment explanation
Indices: 6386166--6386237 Score: 60
Period size: 7 Copynumber: 10.4 Consensus size: 7
6386156 ATAATTTTTT
6386166 ACCTTGA
1 ACCTTGA
*
6386173 ACCCTGA
1 ACCTTGA
*
6386180 ATCC-TAA
1 A-CCTTGA
6386187 ACCTTGA
1 ACCTTGA
*
6386194 ATCTTGA
1 ACCTTGA
*
6386201 ACCCTG-
1 ACCTTGA
6386207 ACCTTGA
1 ACCTTGA
6386214 A-CTTGAA
1 ACCTTG-A
*
6386221 ACCTCGA
1 ACCTTGA
6386228 ACCTTGA
1 ACCTTGA
6386235 ACC
1 ACC
6386238 CTTAACTCGA
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
6 11 0.22
7 35 0.69
8 5 0.10
ACGTcount: A:0.31, C:0.32, G:0.12, T:0.25
Consensus pattern (7 bp):
ACCTTGA
Found at i:6387100 original size:43 final size:43
Alignment explanation
Indices: 6387045--6387158 Score: 219
Period size: 43 Copynumber: 2.7 Consensus size: 43
6387035 CGTTTATTAA
6387045 AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
1 AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
*
6387088 AAAAAGCACCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
1 AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
6387131 AAAAAGCGCCGCTAAAAGTCGTGGCCTT
1 AAAAAGCGCCGCTAAAAGTCGTGGCCTT
6387159 CAAGCGCCGC
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 69 1.00
ACGTcount: A:0.30, C:0.22, G:0.28, T:0.20
Consensus pattern (43 bp):
AAAAAGCGCCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAG
Found at i:6387170 original size:26 final size:26
Alignment explanation
Indices: 6387134--6387184 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
6387124 TTTGAAGAAA
6387134 AAGCGCCGCTAAAAGTCGTGGCCTTC
1 AAGCGCCGCTAAAAGTCGTGGCCTTC
*
6387160 AAGCGCCGCTAAAGGTCGTGGCCTT
1 AAGCGCCGCTAAAAGTCGTGGCCTT
6387185 TTGCGGCGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.22, C:0.29, G:0.29, T:0.20
Consensus pattern (26 bp):
AAGCGCCGCTAAAAGTCGTGGCCTTC
Found at i:6387207 original size:69 final size:69
Alignment explanation
Indices: 6387091--6387227 Score: 238
Period size: 69 Copynumber: 2.0 Consensus size: 69
6387081 TTTGAAGAAA
6387091 AAGCACCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAGAAAAAGCGCCGCTAAAAGTCGTGGC
1 AAGCACCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAGAAAAAGCGCCGCTAAAAGTCGTGGC
6387156 CTTC
66 CTTC
* * * *
6387160 AAGCGCCGCTAAAGGTCGTGGCCTTTTGCGGCGTTTGAAGGAAAAGCGCCGCTAAAAGTCGTGGC
1 AAGCACCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAGAAAAAGCGCCGCTAAAAGTCGTGGC
6387225 CTT
66 CTT
6387228 TAGCGGCGTT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 64 1.00
ACGTcount: A:0.25, C:0.24, G:0.30, T:0.21
Consensus pattern (69 bp):
AAGCACCGCTAAAAGTCGTGGCCTTTAGCGGCGTTTGAAGAAAAAGCGCCGCTAAAAGTCGTGGC
CTTC
Found at i:6387346 original size:31 final size:30
Alignment explanation
Indices: 6387311--6387376 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
6387301 CTTCCTGCAT
6387311 TAAAATCCAACC-AAATACAACAAATATAGCA
1 TAAAATCCAACCAAAATAC--CAAATATAGCA
* * *
6387342 TAAAATGCAGCCAAAATACCAAATTTAGCA
1 TAAAATCCAACCAAAATACCAAATATAGCA
6387372 TAAAA
1 TAAAA
6387377 AAATACAACC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 15 0.48
31 10 0.32
32 6 0.19
ACGTcount: A:0.56, C:0.20, G:0.06, T:0.18
Consensus pattern (30 bp):
TAAAATCCAACCAAAATACCAAATATAGCA
Found at i:6387638 original size:21 final size:21
Alignment explanation
Indices: 6387612--6387673 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
6387602 TTCCTATGCT
6387612 CTGCCTCCCTCGCTGCTGCCG
1 CTGCCTCCCTCGCTGCTGCCG
* *
6387633 CTGCCTCCTTCGCTGCTACCG
1 CTGCCTCCCTCGCTGCTGCCG
*
6387654 CTGCCTCCCTCTCTGCTGCC
1 CTGCCTCCCTCGCTGCTGCC
6387674 TCCGCTCTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.02, C:0.52, G:0.19, T:0.27
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCTGCCG
Found at i:6388110 original size:13 final size:14
Alignment explanation
Indices: 6388085--6388113 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6388075 TGATGAATTG
6388085 AATTAAACAATTAT
1 AATTAAACAATTAT
6388099 AATTAAAC-ATTAT
1 AATTAAACAATTAT
6388112 AA
1 AA
6388114 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:6388317 original size:16 final size:17
Alignment explanation
Indices: 6388280--6388318 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
6388270 AAAATATTAT
*
6388280 TTAATATTAGAAAGTTA
1 TTAATATTAGAAAGTAA
*
6388297 TTAATATTTGAAAG-AA
1 TTAATATTAGAAAGTAA
6388313 TTAATA
1 TTAATA
6388319 AAATTTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (17 bp):
TTAATATTAGAAAGTAA
Done.