Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 98 of 332
Found at i:31499286 original size:64 final size:64
Alignment explanation
Indices: 31499153--31499287 Score: 211
Period size: 64 Copynumber: 2.1 Consensus size: 64
31499143 TTTCTATCAT
* * * *
31499153 GATTTTTAATAAATTTATTTATTGATATAATATGTCCCATCTAATATACAAATATTTCTATCAC
1 GATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAAATATTTATATAAA
31499217 GATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAAATATTTA-ATAAA
1 GATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAAATATTTATATAAA
31499280 -ATATTTTA
1 GAT-TTTTA
31499288 TATAGTTTTT
Statistics
Matches: 66, Mismatches: 4, Indels: 3
0.90 0.05 0.04
Matches are distributed among these distances:
62 2 0.03
63 8 0.12
64 56 0.85
ACGTcount: A:0.41, C:0.10, G:0.04, T:0.46
Consensus pattern (64 bp):
GATTTTTAATAAATTTATTTATTAATATAATATGTCCCATCTAATATACAAATATTTATATAAA
Found at i:31499348 original size:24 final size:24
Alignment explanation
Indices: 31499321--31499391 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
31499311 ATTATTATTG
31499321 AAATATTATCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
* *
31499345 AAATATTATTGTTCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
*
31499369 AAATATTATCGCCCGTTTTATCA
1 AAATATTATCGTCCGTTTTATCA
31499392 TTTAAGTTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.30, C:0.18, G:0.08, T:0.44
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:31499597 original size:29 final size:29
Alignment explanation
Indices: 31499565--31499634 Score: 115
Period size: 29 Copynumber: 2.4 Consensus size: 29
31499555 AACGACATGT
*
31499565 ATATTATTTAATTAAAATAAATTTTT-TCA
1 ATATTATTTAATTAAAAT-AATTTTTATAA
31499594 ATATTATTTAATTAAAATAATTTTTATAA
1 ATATTATTTAATTAAAATAATTTTTATAA
31499623 ATATTATTTAAT
1 ATATTATTTAAT
31499635 CCCGCAACTT
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
28 7 0.18
29 32 0.82
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (29 bp):
ATATTATTTAATTAAAATAATTTTTATAA
Found at i:31499750 original size:9 final size:9
Alignment explanation
Indices: 31499738--31500034 Score: 163
Period size: 9 Copynumber: 32.6 Consensus size: 9
31499728 TATTTGATAT
*
31499738 CATAATTTA
1 CATAACTTA
31499747 CATAACTTA
1 CATAACTTA
* *
31499756 CAAAACGTA
1 CATAACTTA
31499765 CATAACTTA
1 CATAACTTA
*
31499774 TATAACTTA
1 CATAACTTA
* *
31499783 GATAA-ATA
1 CATAACTTA
* *
31499791 TATAATTTA
1 CATAACTTA
*
31499800 TATAACTTA
1 CATAACTTA
*
31499809 CACAACTTA
1 CATAACTTA
* *
31499818 TATAACATA
1 CATAACTTA
31499827 CATAACTTA
1 CATAACTTA
*
31499836 TATAACTTA
1 CATAACTTA
*
31499845 TATAACTTA
1 CATAACTTA
* *
31499854 GATAA-ATA
1 CATAACTTA
*
31499862 TATAACTTA
1 CATAACTTA
*
31499871 CATAA-ATA
1 CATAACTTA
* * *
31499879 TATATCATA
1 CATAACTTA
31499888 CCATAACTTA
1 -CATAACTTA
31499898 CATAACTTA
1 CATAACTTA
31499907 CATAATACTTA
1 CAT-A-ACTTA
* *
31499918 AATATATTTTATA
1 CATA-A--CT-TA
*
31499931 TCATAATTTA
1 -CATAACTTA
31499941 CATAACTTA
1 CATAACTTA
*
31499950 CAAAACTTA
1 CATAACTTA
31499959 CATAACTTA
1 CATAACTTA
*
31499968 TATAACTTA
1 CATAACTTA
* *
31499977 GATAA-ATA
1 CATAACTTA
* *
31499985 TATAATTTA
1 CATAACTTA
**
31499994 CA-AAAATA
1 CATAACTTA
* * *
31500002 TATATCATA
1 CATAACTTA
31500011 TCATAACTTA
1 -CATAACTTA
31500021 CATAACTTA
1 CATAACTTA
31500030 CATAA
1 CATAA
31500035 TACTTAAATA
Statistics
Matches: 225, Mismatches: 50, Indels: 26
0.75 0.17 0.09
Matches are distributed among these distances:
8 28 0.12
9 163 0.72
10 18 0.08
11 9 0.04
12 1 0.00
13 3 0.01
14 3 0.01
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.36
Consensus pattern (9 bp):
CATAACTTA
Found at i:31499894 original size:71 final size:71
Alignment explanation
Indices: 31499745--31500034 Score: 216
Period size: 71 Copynumber: 4.1 Consensus size: 71
31499735 TATCATAATT
* * * * *
31499745 TACATAACTTACAAAACGTACATAACTTATATAACTTAGATAAATATATAATTTATATAACTTAC
1 TACATAACTTACATAACTTACATAACTTATATAACTTAGATAAATATATAACTTACATAACATAC
*
31499810 ACAACT
66 ACAACA
* * * *
31499816 TATATAACATACATAACTTATATAACTTATATAACTTAGATAAATATATAACTTACATAA-ATAT
1 TACATAACTTACATAACTTACATAACTTATATAACTTAGATAAATATATAACTTACATAACATAC
* *
31499880 ATATCA
66 ACAACA
* * *
31499886 TACCATAACTTACATAACTTACATAATACTTAAATATA-TT---T-TATATCATAATTTACATAA
1 TA-CATAACTTACATAACTTACAT-A-ACTTATATA-ACTTAGATAAATAT-ATAACTTACATAA
* * *
31499946 CTTACAAAACT
61 CATACACAACA
* * * * * * * * *
31499957 TACATAACTTATATAACTTAGATAA-ATATATAATTTACAAAAATATATATCATATCATAACTTA
1 TACATAACTTACATAACTTACATAACTTATATAACTTAGATAAATATATAACTTA-CATAACATA
* *
31500021 CATAACT
65 CACAACA
31500028 TACATAA
1 TACATAA
31500035 TACTTAAATA
Statistics
Matches: 174, Mismatches: 33, Indels: 24
0.75 0.14 0.10
Matches are distributed among these distances:
66 1 0.01
67 7 0.04
68 1 0.01
69 5 0.03
70 44 0.25
71 104 0.60
72 1 0.01
73 10 0.06
74 1 0.01
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.36
Consensus pattern (71 bp):
TACATAACTTACATAACTTACATAACTTATATAACTTAGATAAATATATAACTTACATAACATAC
ACAACA
Found at i:31499920 original size:43 final size:43
Alignment explanation
Indices: 31499873--31500070 Score: 205
Period size: 43 Copynumber: 4.7 Consensus size: 43
31499863 ATAACTTACA
*
31499873 TAAATATATATCATACCATAACTTACATAACTTACATAATACT
1 TAAATATATATCATATCATAACTTACATAACTTACATAATACT
* * *
31499916 TAAATATATTTTATATCATAATTTACATAACTTACA-AA-ACT
1 TAAATATATATCATATCATAACTTACATAACTTACATAATACT
* * * * * *
31499957 T--ACATA-A-CTTAT-ATAACTTAGATAA-ATATATAATTTACA
1 TAAATATATATCATATCATAACTTACATAACTTACATAA--TACT
*
31499996 AAAATATATATCATATCATAACTTACATAACTTACATAATACT
1 TAAATATATATCATATCATAACTTACATAACTTACATAATACT
* *
31500039 TAAATATATATCATAACATATCTTACATAACT
1 TAAATATATATCATATCATAACTTACATAACT
31500071 AGCTTACGAA
Statistics
Matches: 122, Mismatches: 23, Indels: 20
0.74 0.14 0.12
Matches are distributed among these distances:
35 3 0.02
36 13 0.11
37 3 0.02
39 6 0.05
41 8 0.07
42 3 0.02
43 68 0.56
44 12 0.10
45 6 0.05
ACGTcount: A:0.47, C:0.15, G:0.01, T:0.37
Consensus pattern (43 bp):
TAAATATATATCATATCATAACTTACATAACTTACATAATACT
Found at i:31499973 original size:123 final size:123
Alignment explanation
Indices: 31499814--31500070 Score: 408
Period size: 123 Copynumber: 2.1 Consensus size: 123
31499804 ACTTACACAA
* * * * *
31499814 CTTATATAACATACATAACTTATATAACTTATATAACTTAGATAAATATATAACTTACATAAATA
1 CTTACATAACTTACAAAACTTACATAACTTATATAACTTAGATAAATATATAACTTACAAAAATA
* * *
31499879 TATATCATACCATAACTTACATAACTTACATAATACTTAAATATATTTTATATCATAAT
66 TATATCATACCATAACTTACATAACTTACATAATACTTAAATATATATCATAACAT-AT
*
31499938 -TTACATAACTTACAAAACTTACATAACTTATATAACTTAGATAAATATATAATTTACAAAAATA
1 CTTACATAACTTACAAAACTTACATAACTTATATAACTTAGATAAATATATAACTTACAAAAATA
*
31500002 TATATCATATCATAACTTACATAACTTACATAATACTTAAATATATATCATAACATAT
66 TATATCATACCATAACTTACATAACTTACATAATACTTAAATATATATCATAACATAT
31500060 CTTACATAACT
1 CTTACATAACT
31500071 AGCTTACGAA
Statistics
Matches: 122, Mismatches: 10, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
122 2 0.02
123 120 0.98
ACGTcount: A:0.47, C:0.14, G:0.01, T:0.37
Consensus pattern (123 bp):
CTTACATAACTTACAAAACTTACATAACTTATATAACTTAGATAAATATATAACTTACAAAAATA
TATATCATACCATAACTTACATAACTTACATAATACTTAAATATATATCATAACATAT
Found at i:31499988 original size:17 final size:17
Alignment explanation
Indices: 31499966--31500005 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
31499956 TTACATAACT
* *
31499966 TATATAACTTAGATAAA
1 TATATAACTTACAAAAA
*
31499983 TATATAATTTACAAAAA
1 TATATAACTTACAAAAA
31500000 TATATA
1 TATATA
31500006 TCATATCATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (17 bp):
TATATAACTTACAAAAA
Found at i:31501619 original size:46 final size:46
Alignment explanation
Indices: 31501569--31501742 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
31501559 TTTGGGCATT
31501569 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTC
* * *
31501615 CGAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGTAACTGGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAAAT--G--TC
* * * *
31501662 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGTATGCGAACG-C
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTC
* *
31501707 CTGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 C-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31501743 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
44 1 0.01
45 3 0.03
46 58 0.55
47 27 0.25
48 1 0.01
49 1 0.01
50 5 0.05
51 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTC
Found at i:31501720 original size:93 final size:93
Alignment explanation
Indices: 31501561--31501734 Score: 269
Period size: 93 Copynumber: 1.9 Consensus size: 93
31501551 CTAGGATGTT
* * *
31501561 TGGGCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTG
1 TGGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCATTG
31501626 AGTTGAGTCCGAGTTCGAGAGATGTAAC
66 AGTTGAGTCCGAGTTCGAGAGATGTAAC
* * * *
31501654 TGGGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGTATGCGAACG-CCTGAGCTCATT
1 TGGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCC-GAACTCATT
31501718 GAGTTGAGTCCGAGTTC
65 GAGTTGAGTCCGAGTTC
31501735 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
TGGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCATTG
AGTTGAGTCCGAGTTCGAGAGATGTAAC
Found at i:31503837 original size:27 final size:28
Alignment explanation
Indices: 31503753--31503850 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
31503743 CATGAGATTG
* * * *
31503753 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
31503782 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
31503810 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
31503837 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
31503851 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:31503861 original size:27 final size:27
Alignment explanation
Indices: 31503781--31503863 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
31503771 TAAATTGTAC
* *
31503781 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
31503809 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
31503836 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
31503863 A
1 A
31503864 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:31503864 original size:29 final size:27
Alignment explanation
Indices: 31503753--31503864 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
31503743 CATGAGATTG
** * *
31503753 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
31503782 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
31503810 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
31503837 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
31503865 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:31511938 original size:27 final size:28
Alignment explanation
Indices: 31511854--31511951 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
31511844 CATGAGATTG
* * * *
31511854 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
31511883 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
31511911 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
31511938 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
31511952 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:31511962 original size:27 final size:27
Alignment explanation
Indices: 31511882--31511964 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
31511872 TAAATTGTAC
* *
31511882 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
31511910 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
31511937 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
31511964 A
1 A
31511965 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:31511965 original size:29 final size:27
Alignment explanation
Indices: 31511854--31511965 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
31511844 CATGAGATTG
** * *
31511854 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
31511883 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
31511911 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
31511938 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
31511966 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:31519226 original size:13 final size:14
Alignment explanation
Indices: 31519210--31519238 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
31519200 TTCTAAATAT
31519210 TTATAA-TGTTTAA
1 TTATAATTGTTTAA
31519223 TTATAATTGTTTAA
1 TTATAATTGTTTAA
31519237 TT
1 TT
31519239 CAATTCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
TTATAATTGTTTAA
Found at i:31529379 original size:22 final size:21
Alignment explanation
Indices: 31529348--31529388 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
31529338 AATATTTTCA
31529348 GTTGTAAAAA-ATCTTTTAACG
1 GTTGTAAAAATAT-TTTTAACG
31529369 GTTGTAGAAAATATTTTTAA
1 GTTGTA-AAAATATTTTTAA
31529389 AATATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.33
22 10 0.56
23 2 0.11
ACGTcount: A:0.39, C:0.05, G:0.15, T:0.41
Consensus pattern (21 bp):
GTTGTAAAAATATTTTTAACG
Found at i:31530197 original size:17 final size:18
Alignment explanation
Indices: 31530177--31530210 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
31530167 TATATATATC
*
31530177 ATAAACATAAA-AAAAAT
1 ATAAAAATAAATAAAAAT
31530194 ATAAAAATAAATAAAAA
1 ATAAAAATAAATAAAAA
31530211 ATTTACCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (18 bp):
ATAAAAATAAATAAAAAT
Found at i:31530811 original size:15 final size:15
Alignment explanation
Indices: 31530793--31530834 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
31530783 TAACATTATT
31530793 TATTATTA-TATTTAC
1 TATTATTATTA-TTAC
31530808 TATTATTATTATTAC
1 TATTATTATTATTAC
*
31530823 TATTACTATTAT
1 TATTATTATTAT
31530835 ATTTAGTAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 23 0.92
16 2 0.08
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTATTATTATTAC
Found at i:31546670 original size:15 final size:15
Alignment explanation
Indices: 31546623--31546670 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
31546613 TAGTTGTTTC
*
31546623 AGTAGGAGCTGGTGG
1 AGTAAGAGCTGGTGG
* *
31546638 AGCAAGAGTTGGTGG
1 AGTAAGAGCTGGTGG
31546653 AGTAAGAGCTGGTGG
1 AGTAAGAGCTGGTGG
31546668 AGT
1 AGT
31546671 TGTAATCTAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.25, C:0.06, G:0.48, T:0.21
Consensus pattern (15 bp):
AGTAAGAGCTGGTGG
Found at i:31548288 original size:18 final size:19
Alignment explanation
Indices: 31548262--31548297 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
31548252 ACATTGAAGT
*
31548262 TTTTTATTGAAAA-CCTTG
1 TTTTCATTGAAAATCCTTG
31548280 TTTTCATTGAAAATCCTT
1 TTTTCATTGAAAATCCTT
31548298 CTTTAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.28, C:0.14, G:0.08, T:0.50
Consensus pattern (19 bp):
TTTTCATTGAAAATCCTTG
Found at i:31549585 original size:28 final size:28
Alignment explanation
Indices: 31549526--31549617 Score: 148
Period size: 28 Copynumber: 3.2 Consensus size: 28
31549516 ATCCATACTT
* * *
31549526 ATTCATTTGGCCCATTTAGGCCCAATCTC
1 ATTCATATGGCCCATCT-GGCCCAATCAC
31549555 ATTCATATGGCCCATCTGGCCCAATCAC
1 ATTCATATGGCCCATCTGGCCCAATCAC
31549583 ATTCATATGGCCCATCTGGCCCAATCAC
1 ATTCATATGGCCCATCTGGCCCAATCAC
31549611 ATTCATA
1 ATTCATA
31549618 GTCATGCAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
28 45 0.75
29 15 0.25
ACGTcount: A:0.25, C:0.33, G:0.13, T:0.29
Consensus pattern (28 bp):
ATTCATATGGCCCATCTGGCCCAATCAC
Found at i:31550151 original size:21 final size:21
Alignment explanation
Indices: 31550122--31550161 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
31550112 AACTAAACAC
*
31550122 AAGTGACTCGCAAATCATCTT
1 AAGTCACTCGCAAATCATCTT
**
31550143 AAGTCACTCTTAAATCATC
1 AAGTCACTCGCAAATCATC
31550162 CATGACCATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.25, G:0.10, T:0.30
Consensus pattern (21 bp):
AAGTCACTCGCAAATCATCTT
Found at i:31553248 original size:26 final size:25
Alignment explanation
Indices: 31553214--31553314 Score: 112
Period size: 27 Copynumber: 3.8 Consensus size: 25
31553204 ATATTTTCTC
31553214 AAAATTTTACTAGGGTAAAATCATAA
1 AAAATTTTACTAGGGTAAAATCAT-A
* *
31553240 AAAATTTTACCGAGGGTAAAATCGTCA
1 AAAATTTTA-CTAGGGTAAAATCAT-A
* *
31553267 AAAATTTTACTGAGGGTAAAATTATC
1 AAAATTTTACT-AGGGTAAAATCATA
*
31553293 AAAATTTTATTAGTGGTAAAAT
1 AAAATTTTACTAG-GGTAAAAT
31553315 AGGGATGAGA
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
25 2 0.03
26 28 0.44
27 34 0.53
ACGTcount: A:0.45, C:0.08, G:0.15, T:0.33
Consensus pattern (25 bp):
AAAATTTTACTAGGGTAAAATCATA
Found at i:31558112 original size:40 final size:40
Alignment explanation
Indices: 31557988--31558117 Score: 92
Period size: 40 Copynumber: 3.2 Consensus size: 40
31557978 ATTGTGAAAA
*
31557988 AATGTTAGTAGGAGGTCATATGCATAAAATTAAATGTTAT
1 AATGTTAATAGGAGGTCATATGCATAAAATTAAATGTTAT
* * * ** *
31558028 AATG-TAATTGGGAATGGT-AAATTG-A-AGAAATT--GTGAAACA
1 AATGTTAA-TAGG-A-GGTCATA-TGCATA-AAATTAAATGTTA-T
31558068 AATGTTAATAGGAGGTCATATGCATAAAATTAAATGTTAT
1 AATGTTAATAGGAGGTCATATGCATAAAATTAAATGTTAT
*
31558108 AATGTAAATA
1 AATGTTAATA
31558118 TGAGTGATAA
Statistics
Matches: 64, Mismatches: 14, Indels: 24
0.63 0.14 0.24
Matches are distributed among these distances:
38 5 0.08
39 14 0.22
40 25 0.39
41 15 0.23
42 5 0.08
ACGTcount: A:0.44, C:0.04, G:0.20, T:0.32
Consensus pattern (40 bp):
AATGTTAATAGGAGGTCATATGCATAAAATTAAATGTTAT
Found at i:31573357 original size:67 final size:64
Alignment explanation
Indices: 31573169--31573427 Score: 197
Period size: 68 Copynumber: 3.9 Consensus size: 64
31573159 ATATAGTTCG
* *
31573169 GCTCTCTTGTAC-ACATGGTGAACACTCAGTACCACCCATGTGACCTAGC-CA-ATTTATCTCGT
1 GCTCTCTTGT-CTACATGGTGTACACT-AGTACCACCCATGTGACCTAGCTCACATATATCTCGT
31573231 A
64 A
* * * * * * *
31573232 GCTCTCTTGTCTACATGGTATCCTTCACCTGGAACCACACATGCGACCTAGCT-ACATATATCCC
1 GCTCTCTTGTCTACATGG--T-GTACA-CTAGTACCACCCATGTGACCTAGCTCACATATATCTC
31573296 GTA
62 GTA
* * * *
31573299 GCTCTCTTGTCTACATGGTGTACACATATTATCACCCATGTGACCTAGCTACATCATATTGTCTT
1 GCTCTCTTGTCTACATGGTGTACAC-TAGTACCACCCATGTGACCTAGCT-CA-CATA-TATCTC
31573364 GTA
62 GTA
* * * **
31573367 GCTCTCTTGTAC-ACATGATGTGCACTCAGCACCATACATGTGACCTAGCT-ACATACTATCT
1 GCTCTCTTGT-CTACATGGTGTACACT-AGTACCACCCATGTGACCTAGCTCACATA-TATCT
31573428 GTATCATCCA
Statistics
Matches: 153, Mismatches: 29, Indels: 26
0.74 0.14 0.12
Matches are distributed among these distances:
62 1 0.01
63 17 0.11
64 21 0.14
65 10 0.07
66 23 0.15
67 35 0.23
68 45 0.29
69 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACTAGTACCACCCATGTGACCTAGCTCACATATATCTCGTA
Found at i:31579348 original size:47 final size:47
Alignment explanation
Indices: 31579285--31579913 Score: 997
Period size: 47 Copynumber: 13.4 Consensus size: 47
31579275 GATGTACAAG
* * * *
31579285 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAA
* *
31579332 GTGTATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAA
*
31579379 GTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAA
*
31579426 GTGTATATATGTGATAAGGCCGAATGGCCAAGGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAA
*
31579473 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAA
*
31579520 GTGTATATATATGATAAGGCCGAATGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAA
* *
31579567 GTGTATATATGTGATAAGGCCGAGTGGCCAACGCGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAA
31579614 GTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAA
* * * * *
31579661 GTATATATATGTGACAAGGCTGAGTGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAA
* * *
31579708 GTGTATATATGTGACAAGGCTGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAA
31579755 GTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAA
*
31579802 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAA
* * * ** * *
31579849 GTGTATATATGAGATAAGACCTAATGGAAAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAA
*
31579896 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
31579914 TCCCAAAGGG
Statistics
Matches: 546, Mismatches: 36, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 546 1.00
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.27
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGTGAAA
Found at i:31606934 original size:28 final size:29
Alignment explanation
Indices: 31606876--31606934 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
31606866 TTTATTTCAT
*
31606876 AATTTAACCCCTCAATTTACACTTTTTTC
1 AATTTAACCCCTCAATTGACACTTTTTTC
*
31606905 AATTTAATCCCT-AATTGACA-TTTTTGTC
1 AATTTAACCCCTCAATTGACACTTTTT-TC
31606933 AA
1 AA
31606935 AAATCACTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 5 0.19
28 11 0.41
29 11 0.41
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.44
Consensus pattern (29 bp):
AATTTAACCCCTCAATTGACACTTTTTTC
Found at i:31613600 original size:39 final size:40
Alignment explanation
Indices: 31613500--31613684 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
31613490 TTGAATGATG
* * *
31613500 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
31613539 ATCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
31613580 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
31613619 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
31613658 AACCGGTCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
31613685 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 36 0.29
40 77 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:31613640 original size:79 final size:81
Alignment explanation
Indices: 31613500--31613684 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
31613490 TTGAATGATG
* *
31613500 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCTGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
31613564 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
31613579 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
31613641 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* * *
31613659 ACCGGTCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31613685 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 33 0.37
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:31613691 original size:40 final size:39
Alignment explanation
Indices: 31613553--31613717 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 39
31613543 GGACTAAGAT
* * *
31613553 CCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-C
1 CCGAAGGCATTTGTGCGAGTTACTATA-ACC-GGTTAAGTC
31613592 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATAA-CC-GGTTAAGTC
*
31613632 CCGAAGGCATTTGTGCGAGTTACTATAACCGGTCTATGTC
1 CCGAAGGCATTTGTGCGAGTTACTATAACCGGT-TAAGTC
** * * *
31613672 CCGAAGGCATTTGAACGAG-TAGCTATATCCGGTTAAATT
1 CCGAAGGCATTTGTGCGAGTTA-CTATAACCGGTTAAGTC
31613711 CCGAAGG
1 CCGAAGG
31613718 TACGTGATTT
Statistics
Matches: 111, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
39 49 0.44
40 60 0.54
41 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGTTACTATAACCGGTTAAGTC
Found at i:31613706 original size:79 final size:79
Alignment explanation
Indices: 31613553--31613717 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
31613543 GGACTAAGAT
* **
31613553 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
31613618 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
31613632 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGTCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
31613695 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
31613711 CCGAAGG
1 CCGAAGG
31613718 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:31617321 original size:39 final size:38
Alignment explanation
Indices: 31617273--31617452 Score: 145
Period size: 39 Copynumber: 4.7 Consensus size: 38
31617263 GCTACTCGTT
* *
31617273 CAAACGCCTTCGGGACATAGCCCGGTTATAGTAACTCG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCG
*
31617311 CACAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCG
1 CA-AATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCG
* *
31617350 CAAATGCC-TCGGG-CTTAGCCCGG-AATTAGTATCTCG
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCG
* * * * * *
31617386 CATAAATGCCTTC-GGATCTTAGTCCAGATATGGTCACTTAG
1 C--AAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCG
*
31617427 CACAAAGCCTTCGGGACTTAGCCCGG
1 CA-AATGCCTTCGGGACTTAGCCCGG
31617453 ACATCATTCA
Statistics
Matches: 113, Mismatches: 16, Indels: 24
0.74 0.10 0.16
Matches are distributed among these distances:
36 19 0.17
37 5 0.04
38 17 0.15
39 35 0.31
40 30 0.27
41 7 0.06
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (38 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCG
Found at i:31617393 original size:38 final size:38
Alignment explanation
Indices: 31617301--31617396 Score: 124
Period size: 36 Copynumber: 2.5 Consensus size: 38
31617291 AGCCCGGTTA
* *
31617301 TAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCAAAATGCC-TCGGGACTTAACCCGGAAT
*
31617340 TAGTAACTCGC-AAATGCCTCGGG-CTTAGCCCGGAAT
1 TAGTAACTCGCAAAATGCCTCGGGACTTAACCCGGAAT
*
31617376 TAGTATCTCGCATAAATGCCT
1 TAGTAACTCGCA-AAATGCCT
31617397 TCGGATCTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
36 21 0.41
37 5 0.10
38 14 0.27
39 11 0.22
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (38 bp):
TAGTAACTCGCAAAATGCCTCGGGACTTAACCCGGAAT
Found at i:31627008 original size:26 final size:26
Alignment explanation
Indices: 31626979--31627086 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
31626969 TGGTACAAAT
*
31626979 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
31627005 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
31627031 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
31627057 TGATAATGGTTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
31627083 TGAT
1 TGAT
31627087 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:31627041 original size:52 final size:52
Alignment explanation
Indices: 31626979--31627086 Score: 207
Period size: 52 Copynumber: 2.1 Consensus size: 52
31626969 TGGTACAAAT
31626979 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
*
31627031 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
31627083 TGAT
1 TGAT
31627087 GGGCATTTCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:31631430 original size:46 final size:46
Alignment explanation
Indices: 31631377--31631552 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
31631367 TATTTGGGCA
31631377 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
31631423 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
31631468 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
31631516 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
31631553 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 10, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.55
47 27 0.25
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:31631532 original size:93 final size:93
Alignment explanation
Indices: 31631373--31631545 Score: 303
Period size: 93 Copynumber: 1.9 Consensus size: 93
31631363 GGGATATTTG
31631373 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
*
31631438 TTGAGTCTGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
31631466 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-CCTGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC-GAACTCGTTGA
31631530 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
31631546 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:31633553 original size:15 final size:15
Alignment explanation
Indices: 31633533--31633565 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
31633523 CATAGCCTGG
31633533 CACACGGGCGTCTGA
1 CACACGGGCGTCTGA
31633548 CACACGGGCGTCTGA
1 CACACGGGCGTCTGA
31633563 CAC
1 CAC
31633566 GACCGTGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.21, C:0.36, G:0.30, T:0.12
Consensus pattern (15 bp):
CACACGGGCGTCTGA
Found at i:31634353 original size:36 final size:36
Alignment explanation
Indices: 31634306--31634375 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
31634296 AGAGGAGCAC
*
31634306 ATCAGTTAGAATAGATCTGAAAGGCTGT-TGAACTGA
1 ATCAGTCAGAATAGATCTGAAAGGCT-TCTGAACTGA
* *
31634342 ATCAGTCAGAATAGGTTTGAAAGGCTTCTGAACT
1 ATCAGTCAGAATAGATCTGAAAGGCTTCTGAACT
31634376 AATTATAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 1 0.03
36 29 0.97
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (36 bp):
ATCAGTCAGAATAGATCTGAAAGGCTTCTGAACTGA
Found at i:31641234 original size:10 final size:10
Alignment explanation
Indices: 31641219--31641252 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
31641209 TCGTATCGTT
31641219 AAAAAAATCA
1 AAAAAAATCA
*
31641229 AAAAAAATTA
1 AAAAAAATCA
*
31641239 AAAAAAGTCA
1 AAAAAAATCA
31641249 AAAA
1 AAAA
31641253 TAGGGAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.79, C:0.06, G:0.03, T:0.12
Consensus pattern (10 bp):
AAAAAAATCA
Found at i:31641357 original size:35 final size:31
Alignment explanation
Indices: 31641258--31641360 Score: 82
Period size: 34 Copynumber: 3.2 Consensus size: 31
31641248 AAAAATAGGG
*
31641258 AAAAAA-GAGAGAGAAAATTCAAAATTAAAAA
1 AAAAAAGGAGA-AAAAAATTCAAAATTAAAAA
** * *
31641289 AAAAAAGTTGAAAAAAAGTCGAAAAAGTGAAAAA
1 AAAAAAGGAGAAAAAAATTC--AAAA-TTAAAAA
**
31641323 AAAAGAAGGAGAAAAAAAATTCAAAATTTTAAA
1 AAAA-AAGGAG-AAAAAAATTCAAAATTAAAAA
31641356 AAAAA
1 AAAAA
31641361 TATTGCTGAA
Statistics
Matches: 55, Mismatches: 11, Indels: 11
0.71 0.14 0.14
Matches are distributed among these distances:
31 13 0.24
32 3 0.05
33 12 0.22
34 14 0.25
35 4 0.07
36 9 0.16
ACGTcount: A:0.70, C:0.03, G:0.14, T:0.14
Consensus pattern (31 bp):
AAAAAAGGAGAAAAAAATTCAAAATTAAAAA
Found at i:31642312 original size:20 final size:18
Alignment explanation
Indices: 31642278--31642325 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 18
31642268 TTGTAATGAG
*
31642278 AAAACAAAGAAAAGAAAAGA
1 AAAACAAA-AGAAGAAAA-A
31642298 AAAAGCAAAAGAAGAAAAA
1 AAAA-CAAAAGAAGAAAAA
31642317 AAAACAAAA
1 AAAACAAAA
31642326 TAAAAAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 5 0.19
19 5 0.19
20 12 0.46
21 4 0.15
ACGTcount: A:0.81, C:0.06, G:0.12, T:0.00
Consensus pattern (18 bp):
AAAACAAAAGAAGAAAAA
Found at i:31647232 original size:28 final size:28
Alignment explanation
Indices: 31647075--31647222 Score: 233
Period size: 28 Copynumber: 5.3 Consensus size: 28
31647065 CGAGCGTGTG
*
31647075 GGCCCATTTGGACCGAGAATGGGCTTTA
1 GGCCCATTTGGACTGAGAATGGGCTTTA
*
31647103 GGCCTATTTGGACTGAGAATGGGCTTTA
1 GGCCCATTTGGACTGAGAATGGGCTTTA
31647131 GGCCCATTTGGACTGAGAATGGGCTTTA
1 GGCCCATTTGGACTGAGAATGGGCTTTA
31647159 GGCCCATTTGGACTGAGAATGGGCTTTA
1 GGCCCATTTGGACTGAGAATGGGCTTTA
* * * **
31647187 GGCCCATTCGTATTGTTAATGGGCTTTA
1 GGCCCATTTGGACTGAGAATGGGCTTTA
31647215 GGCCCATT
1 GGCCCATT
31647223 CGTATTGTTA
Statistics
Matches: 112, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 112 1.00
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.30
Consensus pattern (28 bp):
GGCCCATTTGGACTGAGAATGGGCTTTA
Found at i:31647318 original size:27 final size:27
Alignment explanation
Indices: 31647254--31647357 Score: 82
Period size: 27 Copynumber: 3.9 Consensus size: 27
31647244 AATACTTTAG
* ** *
31647254 TTTACCAAATTACTGAAATACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCAA
* ** *
31647281 CTTGTAAAATTACCAAAGTACCCTCAA
1 TTTACAAAATTACCAAAATACCCTCAA
* *** **
31647308 TTTACAGAATTACCATTTTACCCTTGA
1 TTTACAAAATTACCAAAATACCCTCAA
31647335 TTTACAAAATTACCAAAATACCC
1 TTTACAAAATTACCAAAATACCC
31647358 CTATAAGGTA
Statistics
Matches: 56, Mismatches: 21, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTCAA
Found at i:31647372 original size:27 final size:27
Alignment explanation
Indices: 31647350--31647519 Score: 214
Period size: 27 Copynumber: 6.3 Consensus size: 27
31647340 AAAATTACCA
31647350 AAATACCCCTATAAGGTAGAATTACTG
1 AAATACCCCTATAAGGTAGAATTACTG
*
31647377 AAATACCCCTATAAGGTAGAATTACCG
1 AAATACCCCTATAAGGTAGAATTACTG
* * *
31647404 AAATACCCTTATAGGGTAGAATTACTA
1 AAATACCCCTATAAGGTAGAATTACTG
* *
31647431 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTATAAGGTAGAATTACTG
* * * * *
31647458 AAATACCCTTGTAGGGTAGAAATACTA
1 AAATACCCCTATAAGGTAGAATTACTG
* *
31647485 AAATACCCCTGTAAGGTAGAATTACCG
1 AAATACCCCTATAAGGTAGAATTACTG
*
31647512 AGATACCC
1 AAATACCC
31647520 TCGTGGGGTA
Statistics
Matches: 126, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 126 1.00
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (27 bp):
AAATACCCCTATAAGGTAGAATTACTG
Found at i:31647503 original size:54 final size:54
Alignment explanation
Indices: 31647342--31647520 Score: 259
Period size: 54 Copynumber: 3.3 Consensus size: 54
31647332 TGATTTACAA
* * * * * *
31647342 AATTACCAAAATACCCCTATAAGGTAGAATTACTGAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCTTATAGGGTAGAAATACTAAAATACCCCTGTAAGGTAG
* *
31647396 AATTACCGAAATACCCTTATAGGGTAGAATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTATAGGGTAGAAATACTAAAATACCCCTGTAAGGTAG
* *
31647450 AATTACTGAAATACCCTTGTAGGGTAGAAATACTAAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCTTATAGGGTAGAAATACTAAAATACCCCTGTAAGGTAG
*
31647504 AATTACCGAGATACCCT
1 AATTACCGAAATACCCT
31647521 CGTGGGGTAA
Statistics
Matches: 113, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 113 1.00
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (54 bp):
AATTACCGAAATACCCTTATAGGGTAGAAATACTAAAATACCCCTGTAAGGTAG
Found at i:31647529 original size:27 final size:27
Alignment explanation
Indices: 31647342--31647537 Score: 157
Period size: 27 Copynumber: 7.3 Consensus size: 27
31647332 TGATTTACAA
* * *
31647342 AATTACCAAAATACCC-CTATAAGGTAG
1 AATTACCGAAATACCCTC-GTAGGGTAG
* * *
31647369 AATTACTGAAATACCC-CTATAAGGTAG
1 AATTACCGAAATACCCTC-GTAGGGTAG
**
31647396 AATTACCGAAATACCCTTATAGGGTAG
1 AATTACCGAAATACCCTCGTAGGGTAG
**
31647423 AATTACTAAAATACCC-CTGTAGGGTAG
1 AATTACCGAAATACCCTC-GTAGGGTAG
* *
31647450 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTCGTAGGGTAG
* ** *
31647477 AAATACTAAAATACCC-CTGTAAGGTAG
1 AATTACCGAAATACCCTC-GTAGGGTAG
* * *
31647504 AATTACCGAGATACCCTCGTGGGGTAA
1 AATTACCGAAATACCCTCGTAGGGTAG
31647531 AATTACC
1 AATTACC
31647538 ATTTTGCCCC
Statistics
Matches: 142, Mismatches: 22, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
27 141 0.99
28 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCTCGTAGGGTAG
Found at i:31647529 original size:81 final size:81
Alignment explanation
Indices: 31647342--31647536 Score: 230
Period size: 81 Copynumber: 2.4 Consensus size: 81
31647332 TGATTTACAA
* * * *
31647342 AATTACCAAAATACCCCTATAAGGTAGAATTACTGAAATACCCCTATAAGGTAGAATTACCGAAA
1 AATTACCAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAAGGTAGAAATACCAAAA
* *
31647407 TACCCTTATAGGGTAG
66 TACCCCTATAAGGTAG
* * * * *
31647423 AATTACTAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCTTGTAGGGTAGAAATACTAAAA
1 AATTACCAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAAGGTAGAAATACCAAAA
*
31647488 TACCCCTGTAAGGTAG
66 TACCCCTATAAGGTAG
* * * *
31647504 AATTACCGAGATA-CCCTCGTGGGGTAAAATTAC
1 AATTACCAAAATACCCCT-GTAGGGTAGAATTAC
31647537 CATTTTGCCC
Statistics
Matches: 96, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 4 0.04
81 92 0.96
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.25
Consensus pattern (81 bp):
AATTACCAAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTATAAGGTAGAAATACCAAAA
TACCCCTATAAGGTAG
Found at i:31648118 original size:27 final size:26
Alignment explanation
Indices: 31648087--31648161 Score: 87
Period size: 28 Copynumber: 2.8 Consensus size: 26
31648077 TTAGTAGCTT
* *
31648087 TGCCACATTATCTGATTCTGGTGGCTA
1 TGCCACAATATCTG-TTCTGGTGACTA
*
31648114 TGCCACAAATATCTGTATCTGGTGACTC
1 TGCCAC-AATATCTGT-TCTGGTGACTA
*
31648142 TGTCACAATATCTGTTCTGG
1 TGCCACAATATCTGTTCTGG
31648162 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
26 5 0.12
27 16 0.38
28 21 0.50
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.36
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTGGTGACTA
Found at i:31648290 original size:6 final size:6
Alignment explanation
Indices: 31648279--31648347 Score: 70
Period size: 6 Copynumber: 11.3 Consensus size: 6
31648269 TTGCATACAC
* *
31648279 ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG ATTCTG ATTCTC
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
*
31648328 ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
31648348 AATGTTTCTT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
5 2 0.04
6 45 0.87
7 4 0.08
8 1 0.02
ACGTcount: A:0.17, C:0.19, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:31650419 original size:30 final size:31
Alignment explanation
Indices: 31650363--31650420 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
31650353 TGCCAAAGTT
*
31650363 CAAAAAACAAGCAAATTGGGCTAAATTGGAA
1 CAAAAAACAAGCAAAATGGGCTAAATTGGAA
*
31650394 CAAAAAGCAAG-AAAATGGGAC-AAATTG
1 CAAAAAACAAGCAAAATGGG-CTAAATTG
31650421 AAAAGTTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 13 0.54
31 11 0.46
ACGTcount: A:0.53, C:0.12, G:0.21, T:0.14
Consensus pattern (31 bp):
CAAAAAACAAGCAAAATGGGCTAAATTGGAA
Found at i:31658609 original size:48 final size:48
Alignment explanation
Indices: 31658548--31658873 Score: 350
Period size: 48 Copynumber: 6.8 Consensus size: 48
31658538 GGGTACATGT
* * * **
31658548 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGTATTGTTATGA
1 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATCATTATGA
* * * * * * *
31658596 GAGCTAGTGTAAGACCATGTCTGGGACATAGCACCAGCCTCAATATGT
1 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATCATTATGA
* *
31658644 GAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTATTATGA
1 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATCATTATGA
* * * * *
31658692 GCGCTAGTGTAAGACCATGTTTGGGACATGGCATCAGCCTCAATATGT
1 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATCATTATGA
* * **
31658740 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTAT-A
1 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATCATTATGA
* *
31658787 TGTG-TCAGTGTAAGACCATGTTTGGGACATGGCATCGGCACCGATGTATGA
1 -GAGCT-AGTGTAAGACCATGTTTGGGACATGGCATCGGCATC-AT-TATGA
* **
31658838 GAGCCAGTGTAAGACCATGTCCGGGACATGGCATCG
1 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCG
31658874 ACATTTTAAC
Statistics
Matches: 225, Mismatches: 47, Indels: 10
0.80 0.17 0.04
Matches are distributed among these distances:
48 189 0.84
49 1 0.00
50 34 0.15
51 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (48 bp):
GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATCATTATGA
Found at i:31658708 original size:96 final size:96
Alignment explanation
Indices: 31658544--31658878 Score: 469
Period size: 96 Copynumber: 3.5 Consensus size: 96
31658534 ATTAGGGTAC
*
31658544 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGTATTGTTATGAGAGCTAGTGTAAG
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAG
* * *
31658609 ACCATGTCTGGGACATAGCACCAGCCTCAAT
66 ACCATGTTTGGGACATGGCATCAGCCTCAAT
* * *
31658640 ATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTATTATGAGCGCTAGTGTAAG
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAG
31658705 ACCATGTTTGGGACATGGCATCAGCCTCAAT
66 ACCATGTTTGGGACATGGCATCAGCCTCAAT
*
31658736 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTAT-ATGTG-TCAGTGTA
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGA-GAGCT-AGTGTA
* *
31658799 AGACCATGTTTGGGACATGGCATCGGCAC-CGATGT
64 AGACCATGTTTGGGACATGGCATCAGC-CTC-A-AT
* ** * *
31658834 ATGAGAGCCAGTGTAAGACCATGTCCGGGACATGGCATCGACATT
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATT
31658879 TTAACCTTTT
Statistics
Matches: 217, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
95 2 0.01
96 172 0.79
97 2 0.01
98 41 0.19
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.27
Consensus pattern (96 bp):
ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTAGTGTAAG
ACCATGTTTGGGACATGGCATCAGCCTCAAT
Found at i:31662280 original size:44 final size:43
Alignment explanation
Indices: 31662213--31662307 Score: 145
Period size: 44 Copynumber: 2.2 Consensus size: 43
31662203 GGGTTCGTGA
* *
31662213 TATGTATGAAGCATCCGAGCTCGTTGAGTTGGTCCAAGTTTAT
1 TATGGATGAAGCATCCGAGCTCGTTGAGTTGGTCCAAGTTCAT
* *
31662256 TATGGATGAGAGCATTCGAGCTCGTTGAGTTGGTCCGAGTTCAT
1 TATGGATGA-AGCATCCGAGCTCGTTGAGTTGGTCCAAGTTCAT
31662300 TATGGATG
1 TATGGATG
31662308 CGATACATGT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
43 8 0.17
44 39 0.83
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.34
Consensus pattern (43 bp):
TATGGATGAAGCATCCGAGCTCGTTGAGTTGGTCCAAGTTCAT
Found at i:31665557 original size:79 final size:80
Alignment explanation
Indices: 31665417--31665601 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 80
31665407 TTGAATGATG
* * *
31665417 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCTGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
31665482 ATGCGAGATACTA-A
66 ATGCGAGATACTATA
* * * **
31665496 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
* *
31665558 ATTGTGCGAGTTACTATA
63 ATTATGCGAGATACTATA
* *
31665576 ACCGGGCTATGTCCCGAAGGCGTTTG
1 TCCGGGCTAAGTCCCGAAGGC-TTTG
31665602 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 55 0.62
80 32 0.36
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATT
ATGCGAGATACTATA
Found at i:31665608 original size:40 final size:40
Alignment explanation
Indices: 31665417--31665601 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
31665407 TTGAATGATG
* * * *
31665417 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * * *
31665457 TCTGGACTAAGAT-CCGAAGGCATTTATGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
31665497 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
31665536 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
31665577 -CCGGGCTATGTCCCGAAGGCGTTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
31665602 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 34 0.28
40 77 0.64
41 9 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:31669852 original size:26 final size:26
Alignment explanation
Indices: 31669816--31669923 Score: 153
Period size: 26 Copynumber: 4.2 Consensus size: 26
31669806 TGAAATGCCC
*
31669816 ATCATGGAACATTTACCTAAACTGTT
1 ATCATGGAACATTTACCTAAACTATT
*
31669842 ATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAAACTATT
* * *
31669868 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACTATT
* *
31669894 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACTATT
31669920 ATCA
1 ATCA
31669924 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACTATT
Found at i:31669896 original size:52 final size:52
Alignment explanation
Indices: 31669816--31669923 Score: 171
Period size: 52 Copynumber: 2.1 Consensus size: 52
31669806 TGAAATGCCC
** *
31669816 ATCATGGAACATTTACCTAAACTGTTATCATGGAACATTTACCTAACCTATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
* *
31669868 ATCATGGAATATTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
31669920 ATCA
1 ATCA
31669924 ATTTGTACCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.34
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:31676885 original size:15 final size:17
Alignment explanation
Indices: 31676855--31676886 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
31676845 TTGATACTTG
31676855 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
31676872 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
31676887 AAATATGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:31691876 original size:54 final size:54
Alignment explanation
Indices: 31691794--31691927 Score: 223
Period size: 54 Copynumber: 2.5 Consensus size: 54
31691784 ATCTCATGGT
* *
31691794 GGGATTACTAGTCCAAGCTAAATCCCCCATTTTATGAACTCATAAGATGATGTC
1 GGGATTACCAGTCCAGGCTAAATCCCCCATTTTATGAACTCATAAGATGATGTC
* *
31691848 GGGATTACCAGTCCAGGCTAAATCCCCCATTTTATGAACTCATAAGGTGATGTT
1 GGGATTACCAGTCCAGGCTAAATCCCCCATTTTATGAACTCATAAGATGATGTC
*
31691902 GGGATTACCAATCCAGGCTAAATCCC
1 GGGATTACCAGTCCAGGCTAAATCCC
31691928 TTATAACGAC
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 75 1.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (54 bp):
GGGATTACCAGTCCAGGCTAAATCCCCCATTTTATGAACTCATAAGATGATGTC
Found at i:31694687 original size:46 final size:46
Alignment explanation
Indices: 31694552--31694771 Score: 141
Period size: 46 Copynumber: 4.7 Consensus size: 46
31694542 GGTAGGGTGC
* *
31694552 CGATGCCATATCCCAGACATGGTCTTACACT-G-ACTATCATCTCGTA-GT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCAC--TCATCTCG-AGGA
* * * * *
31694600 CAATACATGTCCCAGACAAGTCTTACACTGGCTTA-T-GTCTCGAGGA
1 CGATGCATGTCCCAGACATGTCTTACACTAGC--ACTCATCTCGAGGA
* * *
31694646 CGATGCATGTCCCGGACATGTCTTACACTAGCACTCATCTCGATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCGAGGA
* * * *
31694692 CGATGCTATGTCCCAGACATGGTCTTATAC-AGGCTCTCATAAT--ATGGT
1 CGATGC-ATGTCCCAGACAT-GTCTTACACTA-GCACTCAT-CTCGA-GGA
*
31694740 CGATGCATGTCCCAAACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
31694772 CCACAATAAC
Statistics
Matches: 137, Mismatches: 22, Indels: 28
0.73 0.12 0.15
Matches are distributed among these distances:
44 1 0.01
45 2 0.01
46 66 0.48
47 41 0.30
48 25 0.18
49 1 0.01
50 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCGAGGA
Found at i:31697204 original size:41 final size:42
Alignment explanation
Indices: 31697041--31697198 Score: 234
Period size: 42 Copynumber: 3.8 Consensus size: 42
31697031 AACTTTGTAA
*
31697041 CAGTG-AT-ATATCAGGCTTATTGCCTAGCAGGCTTTGATGC
1 CAGTGTATGATATCAGGCTTATTACCTAGCAGGCTTTGATGC
*
31697081 CGGTGTATGATATCAGGCTTATTACCTAGCAGGCTTTGATGC
1 CAGTGTATGATATCAGGCTTATTACCTAGCAGGCTTTGATGC
* *
31697123 TAGTGTATGATATCAGGCTTATTGCCTAGCAGGCTTT-ATGC
1 CAGTGTATGATATCAGGCTTATTACCTAGCAGGCTTTGATGC
*
31697164 CAGTGTATTGA-ATCAGGTTTATTACCTAGCAGGCT
1 CAGTGTA-TGATATCAGGCTTATTACCTAGCAGGCT
31697199 CTATGCTGGT
Statistics
Matches: 107, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
40 4 0.04
41 34 0.32
42 69 0.64
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (42 bp):
CAGTGTATGATATCAGGCTTATTACCTAGCAGGCTTTGATGC
Found at i:31705675 original size:53 final size:53
Alignment explanation
Indices: 31705546--31705799 Score: 234
Period size: 55 Copynumber: 4.8 Consensus size: 53
31705536 ACACGGGTAC
* * * * *
31705546 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTA---T-CCTTTTGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATGAAA
* * *
31705595 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCATGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTA-CCTTGCCTTATGAAA
* * * *
31705648 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACC-TTGCCTTAT-GAAA
* * * *
31705703 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATG-GTACCTTGCCTTATGAAA
* *
31705756 CCTTACCAATTTCCATGCCTTGACATGGT-TTACACGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTA-CCTT
31705800 AAACCCTAAT
Statistics
Matches: 169, Mismatches: 24, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
49 35 0.21
52 2 0.01
53 48 0.28
54 24 0.14
55 58 0.34
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.35
Consensus pattern (53 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTACCTTGCCTTATGAAA
Found at i:31705737 original size:108 final size:109
Alignment explanation
Indices: 31705593--31705789 Score: 274
Period size: 108 Copynumber: 1.8 Consensus size: 109
31705583 ATCCTTTTGA
* *
31705593 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCATGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCATGCCTTA-GAAACCTCACCAA
*
31705656 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGACATGGT-TTACATGGGACCTTTGCCTTATAGT
* ** * *
31705701 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCATGCCTTAGAAACCTCACCAAT
*
31705766 TTCCATGCCTTGACATGGTTTACA
66 TGCCATGCCTTGACATGGTTTACA
31705790 CGGTATCCTT
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
107 1 0.01
108 47 0.61
109 12 0.16
110 17 0.22
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (109 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCATGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGACATGGTTTACATGGGACCTTTGCCTTATAGT
Found at i:31709065 original size:40 final size:40
Alignment explanation
Indices: 31709003--31709140 Score: 176
Period size: 40 Copynumber: 3.5 Consensus size: 40
31708993 AAGCCAAGTA
* *
31709003 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCTCAAATG
*
31709042 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCTCAAATG
* *
31709082 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGT-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGC-TCAAATG
31709122 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
31709141 TTATCATCCA
Statistics
Matches: 89, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
39 14 0.16
40 75 0.84
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCTCAAATG
Found at i:31711408 original size:21 final size:21
Alignment explanation
Indices: 31711384--31711424 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
31711374 TATCCCTACA
* *
31711384 GGTGTGTTGGTTGGTATGGGT
1 GGTGTGCTGGCTGGTATGGGT
31711405 GGTGTGCTGGCTGGTATGGG
1 GGTGTGCTGGCTGGTATGGG
31711425 ATGGGTTGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.05, C:0.05, G:0.54, T:0.37
Consensus pattern (21 bp):
GGTGTGCTGGCTGGTATGGGT
Found at i:31711533 original size:33 final size:33
Alignment explanation
Indices: 31711481--31711544 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
31711471 CCACAATGCT
*
31711481 ACTGTATAGGGCTAAGGCCCAGACTGTACTGTG
1 ACTGAATAGGGCTAAGGCCCAGACTGTACTGTG
**
31711514 ACTGAATAGGGCTTTGGCCCAGACTGTACTG
1 ACTGAATAGGGCTAAGGCCCAGACTGTACTG
31711545 ATATTGTGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (33 bp):
ACTGAATAGGGCTAAGGCCCAGACTGTACTGTG
Found at i:31716380 original size:43 final size:43
Alignment explanation
Indices: 31716312--31716488 Score: 193
Period size: 43 Copynumber: 4.1 Consensus size: 43
31716302 AGACTTTTAT
* * * *
31716312 TCATTCAACGGCATT-TCGCCTGCTAGGCTCGAGGCTCG-ATA
1 TCATTCACCGGCATTATAGCCTGCTAGGCTCAAGGCCCGAATA
31716353 TCATGTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 TCAT-TCACCGGCATTATAGCCTGCTAGGCTC-AAGGCCCGAATA
*
31716398 GT-ATCTCACCGGCATAATAGCCTGCTAGGCTCAAGGCCCG-ATA
1 -TCAT-TCACCGGCATTATAGCCTGCTAGGCTCAAGGCCCGAATA
* * *
31716441 TCGTTTCACCGGCATTATAGTCTGCTAGGCCCGAA-GCCCGAATA
1 TC-ATTCACCGGCATTATAGCCTGCTAGGCTC-AAGGCCCGAATA
31716485 TCAT
1 TCAT
31716489 ATTTTGATAG
Statistics
Matches: 116, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
41 4 0.03
42 11 0.09
43 47 0.41
44 22 0.19
45 31 0.27
46 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (43 bp):
TCATTCACCGGCATTATAGCCTGCTAGGCTCAAGGCCCGAATA
Found at i:31721449 original size:93 final size:93
Alignment explanation
Indices: 31721337--31721507 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
31721327 GCCCCTAAGT
****
31721337 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
31721402 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
31721430 GAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCGTAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
31721495 CGAGTTCGGATGC
66 CGAGTTCGGATGC
31721508 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:31721523 original size:46 final size:46
Alignment explanation
Indices: 31721332--31721509 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
31721322 AACCCGCCCC
* * *
31721332 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGCATCCA
*
31721378 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-CTCG---CATCCA
* * * *** *
31721426 TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGCATCCA
31721471 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
31721510 AACCATCCTA
Statistics
Matches: 108, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 66 0.61
47 30 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCGCATCCA
Found at i:31726259 original size:39 final size:40
Alignment explanation
Indices: 31726143--31726287 Score: 215
Period size: 40 Copynumber: 3.6 Consensus size: 40
31726133 CTACTCGTTG
*
31726143 AAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCAC
*
31726183 AAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* *
31726223 AAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
31726262 AAATGCCTTC-GGATCTTAGCCCGGAT
1 AAATGCCTTCGGGA-CTTAGCCCGGAT
31726288 ATGGTCACTT
Statistics
Matches: 96, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
38 2 0.02
39 33 0.34
40 59 0.61
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
AAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
Found at i:31731653 original size:21 final size:21
Alignment explanation
Indices: 31731629--31731669 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
31731619 TATCCCCATA
* *
31731629 GGTGTGTTGGTTGGTATGGGT
1 GGTGTGCTGGCTGGTATGGGT
31731650 GGTGTGCTGGCTGGTATGGG
1 GGTGTGCTGGCTGGTATGGG
31731670 ACGGGTTGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.05, C:0.05, G:0.54, T:0.37
Consensus pattern (21 bp):
GGTGTGCTGGCTGGTATGGGT
Found at i:31737244 original size:46 final size:46
Alignment explanation
Indices: 31737180--31737350 Score: 200
Period size: 46 Copynumber: 3.7 Consensus size: 46
31737170 TCATCTCGTA
* *
31737180 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTTTGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCGAG
* * * * *
31737226 GCCGATGCATATCTCAGACATGTCTTACACTAGCACTCGTCTCGAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCGAG
* * * * *
31737272 GTCGATGCCATGTCCCAGACATGGTCTTACACGGGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCGT-CTCGAG
31737320 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
31737351 AGCCCACAAT
Statistics
Matches: 103, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
46 54 0.52
47 26 0.25
48 22 0.21
49 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCGAG
Found at i:31737338 original size:94 final size:92
Alignment explanation
Indices: 31737182--31737353 Score: 238
Period size: 94 Copynumber: 1.8 Consensus size: 92
31737172 ATCTCGTAGC
* * ** * *
31737182 CGATGCATGTCCCAGACATGTCTTACACTGGCTTTTGTCTCGAGGCCGATGCATATCTCAGACAT
1 CGATGCATGTCCCAGACATGTCTTACACGGGCTCTCATATCGAGGCCGATGCATATCCCAGACAT
31737247 GTCTTACACTAGCACTCGTCTCGATGT
66 GTCTTACACTAGCACTCGTCTCGATGT
* *
31737274 CGATGCCATGTCCCAGACATGGTCTTACACGGGCTCTCATAAT-GTGGCCGATGCATGTCCCAGA
1 CGATG-CATGTCCCAGACAT-GTCTTACACGGGCTCTCAT-ATCGAGGCCGATGCATATCCCAGA
31737338 CATGTCTTACACTAGC
63 CATGTCTTACACTAGC
31737354 CCACAATAAC
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
92 5 0.07
93 14 0.20
94 49 0.71
95 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.28
Consensus pattern (92 bp):
CGATGCATGTCCCAGACATGTCTTACACGGGCTCTCATATCGAGGCCGATGCATATCCCAGACAT
GTCTTACACTAGCACTCGTCTCGATGT
Found at i:31740998 original size:43 final size:43
Alignment explanation
Indices: 31740932--31741089 Score: 146
Period size: 43 Copynumber: 3.7 Consensus size: 43
31740922 CGCTCATACA
* * * *
31740932 ATGCCAACATCCCAGA-TGTGGTCTTACATGTAATCAAATATTG
1 ATGCCAATATCCCAGACAG-GGTCTTACACGTAATCAAATATCG
* * *
31740975 ATGCCACTGTCCCAGACAGGGTCTTACACG-AATTCATATA-CG
1 ATGCCAATATCCCAGACAGGGTCTTACACGTAA-TCAAATATCG
*
31741017 ATGCCAATATCCCAGACATGGTCTTACACGTAAATCACAA-ATCG
1 ATGCCAATATCCCAGACAGGGTCTTACACGT-AATCA-AATATCG
* *
31741061 ATGCCAACATCCCAGA-TGTGGTCTTACAC
1 ATGCCAATATCCCAGACAG-GGTCTTACAC
31741090 AATAACACAT
Statistics
Matches: 94, Mismatches: 14, Indels: 13
0.78 0.12 0.11
Matches are distributed among these distances:
42 30 0.32
43 33 0.35
44 31 0.33
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (43 bp):
ATGCCAATATCCCAGACAGGGTCTTACACGTAATCAAATATCG
Found at i:31751642 original size:49 final size:49
Alignment explanation
Indices: 31751567--31751690 Score: 169
Period size: 49 Copynumber: 2.5 Consensus size: 49
31751557 ATGCTGATGT
*
31751567 CATGTCCCAGACATGGTCTTACACTGGCTTTCATATAACGAG-GCCAATGC
1 CATGTCCCAGACA-GGTCTTACACTGGCTTTCATACAACG-GTGCCAATGC
* * * *
31751617 CATGTCCCAGACAGGTCTTACACTGGCTTTCATCCATCGGTGTCGATGC
1 CATGTCCCAGACAGGTCTTACACTGGCTTTCATACAACGGTGCCAATGC
*
31751666 CATGTCCCAAACAGGTCTTACACTG
1 CATGTCCCAGACAGGTCTTACACTG
31751691 ACACACTACA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
48 1 0.01
49 53 0.79
50 13 0.19
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (49 bp):
CATGTCCCAGACAGGTCTTACACTGGCTTTCATACAACGGTGCCAATGC
Found at i:31751876 original size:48 final size:46
Alignment explanation
Indices: 31751562--31751883 Score: 181
Period size: 48 Copynumber: 6.8 Consensus size: 46
31751552 TTAAGATGCT
* * *
31751562 GATGTCATGTCCCAGACATGGTCTTACACTGGCTTTCATATAACGAGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCT--CAAGGCC
* * * * *
31751612 AATGCCATGTCCCAGACAGGTCTTACACTGGCTTTCATC-CATCGGTGTC
1 GATG-CATGTCCCAGACATGTCTTACACTGGCTCTCATCTCA--AG-GCC
* * * * *
31751661 GATGCCATGTCCCAAACAGGTCTTACACT-G-ACACA-CTACAA-GCT
1 GATG-CATGTCCCAGACATGTCTTACACTGGCTCTCATCT-CAAGGCC
* * * * * * * * * *
31751705 AACT-TATGTCCTAGAGAGGTCTTACACTAGCTTGTGTATCACGAGGCC
1 GA-TGCATGTCCCAGACATGTCTTACACTGGC-TCT-CATCTCAAGGCC
* * *
31751753 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAAGGCC
* * *
31751799 GATGTATGTCCCAGACATGTCTTAAACTGGCT-TAAATATCTCAAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCT---CATCTCAAGGCC
*
31751847 GAAGCATGTCCCAGACATGTCTTACACTGGCTCTCAT
1 GATGCATGTCCCAGACATGTCTTACACTGGCTCTCAT
31751884 ACCGCGGCTT
Statistics
Matches: 207, Mismatches: 48, Indels: 38
0.71 0.16 0.13
Matches are distributed among these distances:
43 20 0.10
44 3 0.01
45 2 0.01
46 40 0.19
47 8 0.04
48 69 0.33
49 49 0.24
50 16 0.08
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAAGGCC
Found at i:31757469 original size:47 final size:46
Alignment explanation
Indices: 31757362--31757496 Score: 166
Period size: 47 Copynumber: 2.9 Consensus size: 46
31757352 GTATATTGCG
* * *
31757362 AGGCCGATGCATATCCCAGACATGTCTTACACTAGCTCTCGTCTCA
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCA
* * * *
31757408 ATGTCGATGTATGTCCCA-ACATGTCTTACACTGGCT-TAAATATCTCA
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT---CATCTCA
31757455 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCAT
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCAT
31757497 ACCGTGGCTT
Statistics
Matches: 73, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
44 1 0.01
45 17 0.23
46 16 0.22
47 20 0.27
48 18 0.25
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCA
Found at i:31758018 original size:19 final size:19
Alignment explanation
Indices: 31757994--31758032 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
31757984 GTTAATTAAA
31757994 ACAAAACCCCATTATTCTT
1 ACAAAACCCCATTATTCTT
31758013 ACAAAACCCCATTATTCTT
1 ACAAAACCCCATTATTCTT
31758032 A
1 A
31758033 GGCTAGATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (19 bp):
ACAAAACCCCATTATTCTT
Found at i:31759525 original size:21 final size:20
Alignment explanation
Indices: 31759501--31759539 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
31759491 CTTATTTAAT
31759501 TATCAACAACCATTCAAAATC
1 TATCAACAACCA-TCAAAATC
* *
31759522 TATCATCAATCATCAAAA
1 TATCAACAACCATCAAAA
31759540 CTCAATCATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (20 bp):
TATCAACAACCATCAAAATC
Found at i:31759539 original size:20 final size:20
Alignment explanation
Indices: 31759514--31759557 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
31759504 CAACAACCAT
*
31759514 TCAAAA-TCTATCATCAATCA
1 TCAAAACTCAATCAT-AATCA
*
31759534 TCAAAACTCAATCATATTCA
1 TCAAAACTCAATCATAATCA
31759554 TCAA
1 TCAA
31759558 TGGTAACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (20 bp):
TCAAAACTCAATCATAATCA
Found at i:31764475 original size:18 final size:20
Alignment explanation
Indices: 31764428--31764476 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
31764418 TTTTTATTTA
31764428 ATTAATATTTTTAATACTAG
1 ATTAATATTTTTAATACTAG
* *
31764448 TTTAATATTTTTAA-AGTAG
1 ATTAATATTTTTAATACTAG
31764467 ATT-ATATTTT
1 ATTAATATTTT
31764477 ATTAAGAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 7 0.27
19 6 0.23
20 13 0.50
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (20 bp):
ATTAATATTTTTAATACTAG
Found at i:31767568 original size:25 final size:25
Alignment explanation
Indices: 31767540--31767589 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
31767530 CTCGACATAC
*
31767540 ACAAATCCCACATTCATTTGATTTA
1 ACAAACCCCACATTCATTTGATTTA
*
31767565 ACAAACCCCATATTCATTTGATTTA
1 ACAAACCCCACATTCATTTGATTTA
31767590 CTTTTCTAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (25 bp):
ACAAACCCCACATTCATTTGATTTA
Found at i:31773916 original size:16 final size:16
Alignment explanation
Indices: 31773895--31773929 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
31773885 TATTTGATCC
31773895 TTATAGCTACTAGAAT
1 TTATAGCTACTAGAAT
31773911 TTATAGCTACTAGAAT
1 TTATAGCTACTAGAAT
31773927 TTA
1 TTA
31773930 ACTTTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.40
Consensus pattern (16 bp):
TTATAGCTACTAGAAT
Found at i:31777723 original size:21 final size:21
Alignment explanation
Indices: 31777681--31777723 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
31777671 AGCACATGTA
*
31777681 TTCATAAAATTTCAGAATTTT
1 TTCATAAAATTTCAGAACTTT
* * *
31777702 TTCATCAAATTTTATAACTTT
1 TTCATAAAATTTCAGAACTTT
31777723 T
1 T
31777724 CATTTTAGTC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.12, G:0.02, T:0.51
Consensus pattern (21 bp):
TTCATAAAATTTCAGAACTTT
Found at i:31779414 original size:22 final size:23
Alignment explanation
Indices: 31779379--31779424 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 23
31779369 ATTTGCATAA
31779379 ATTTTTTTAAAAAAATTAAAAATT
1 ATTTTTTT-AAAAAATTAAAAATT
31779403 ATTTTTTT-AAAAATTAAAAATT
1 ATTTTTTTAAAAAATTAAAAATT
31779425 TTAAAAGGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 14 0.64
24 8 0.36
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
ATTTTTTTAAAAAATTAAAAATT
Found at i:31782645 original size:28 final size:29
Alignment explanation
Indices: 31782613--31782711 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 29
31782603 ATAATAAGCC
*
31782613 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* *
31782641 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
* * *
31782669 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
31782698 CGCACACTTAGTGC
1 CGCACACTTAGTGC
31782712 CAATCTCATG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.03
28 37 0.61
29 19 0.31
30 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:31788395 original size:19 final size:18
Alignment explanation
Indices: 31788351--31788396 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 18
31788341 AAACAACGTG
31788351 ATAAAAAAAGTACAAAAAA
1 ATAAAAAAA-TACAAAAAA
31788370 AT---AAAATACGAAAAAA
1 ATAAAAAAATAC-AAAAAA
31788386 ATAAAAAAATA
1 ATAAAAAAATA
31788397 TTCTGTAGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
15 3 0.13
16 12 0.52
19 8 0.35
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.13
Consensus pattern (18 bp):
ATAAAAAAATACAAAAAA
Found at i:31792196 original size:39 final size:39
Alignment explanation
Indices: 31792142--31792278 Score: 211
Period size: 39 Copynumber: 3.5 Consensus size: 39
31792132 ATTTGAAAAT
31792142 TATATCCGGACTTAAAGTCCGCAGGCTATATGCGGGAAA
1 TATATCCGGACTTAAAGTCCGCAGGCTATATGCGGGAAA
31792181 TATATCCGGACTTAAAGTCCGCAGGCTATATGCGGGAAA
1 TATATCCGGACTTAAAGTCCGCAGGCTATATGCGGGAAA
* * ** **
31792220 TATATTCGGACTTCAAGTCCGCAGGCTACGTGCTAGAAA
1 TATATCCGGACTTAAAGTCCGCAGGCTATATGCGGGAAA
*
31792259 TATATCCGGGCTTAAAGTCC
1 TATATCCGGACTTAAAGTCC
31792279 CGAAGGCTTA
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 89 1.00
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (39 bp):
TATATCCGGACTTAAAGTCCGCAGGCTATATGCGGGAAA
Found at i:31797737 original size:17 final size:18
Alignment explanation
Indices: 31797715--31797748 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
31797705 CACATTGAAG
31797715 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
31797732 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
31797749 CTTCCTTAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:31798876 original size:30 final size:29
Alignment explanation
Indices: 31798807--31798902 Score: 124
Period size: 30 Copynumber: 3.3 Consensus size: 29
31798797 CAAGTCACAT
* **
31798807 ACATGCATATGGCCCACAAGGCCC-AAT-
1 ACATTCATATGGCCCATTAGGCCCAAATC
31798834 ATCATTCATATGGCCCATTAGGCCCTAAATC
1 A-CATTCATATGGCCCATTAGGCCC-AAATC
*
31798865 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
31798894 ACATTCATA
1 ACATTCATA
31798903 GTCATGCTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
27 1 0.02
28 20 0.33
29 13 0.22
30 25 0.42
31 1 0.02
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.24
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:31806233 original size:18 final size:18
Alignment explanation
Indices: 31806199--31806233 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
31806189 CCTAAGCTGA
* *
31806199 TGTCTTTACAGCTTGAAC
1 TGTCTTTACAACATGAAC
31806217 TGTCTTTACAACATGAA
1 TGTCTTTACAACATGAA
31806234 TTTATTGCAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (18 bp):
TGTCTTTACAACATGAAC
Found at i:31806756 original size:16 final size:16
Alignment explanation
Indices: 31806735--31806769 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
31806725 CTACATATAC
*
31806735 AAAAAAAGAGAA-AGA
1 AAAAAAAAAGAACAGA
31806750 AAAAAAAAAGAACAGA
1 AAAAAAAAAGAACAGA
31806766 AAAA
1 AAAA
31806770 GTGCTACTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGAACAGA
Found at i:31806757 original size:17 final size:16
Alignment explanation
Indices: 31806735--31806769 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
31806725 CTACATATAC
31806735 AAAAAAAGAGAAAGAAA
1 AAAAAAAGA-AAAGAAA
*
31806752 AAAAAAAGAACAGAAA
1 AAAAAAAGAAAAGAAA
31806768 AA
1 AA
31806770 GTGCTACTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (16 bp):
AAAAAAAGAAAAGAAA
Found at i:31809924 original size:3 final size:3
Alignment explanation
Indices: 31809916--31809952 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
31809906 GTTACTGTTT
*
31809916 TTC TTC TTC TTC TTC TTC TTT TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
31809953 CACTTTTGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:31809959 original size:21 final size:21
Alignment explanation
Indices: 31809914--31809968 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
31809904 TGGTTACTGT
*
31809914 TTTTCTTCTTCTTCTTCTTCT
1 TTTTCTTCTTCTTCTTCTTCC
31809935 TTTTCTTCTTCTTCTTC-TCAC
1 TTTTCTTCTTCTTCTTCTTC-C
31809956 TTTTGCTT-TTCTT
1 TTTT-CTTCTTCTT
31809969 TTTACTTGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 2 0.06
21 26 0.84
22 3 0.10
ACGTcount: A:0.02, C:0.27, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTTCTTCTTCTTCTTCTTCC
Found at i:31810387 original size:28 final size:28
Alignment explanation
Indices: 31810351--31810408 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
31810341 GTTGTTGATT
*
31810351 TAGGATTTGAGATCACTTCTATCGCTTC
1 TAGGATTTGAGATCACTTATATCGCTTC
* *
31810379 TAGGTTTTGAGATCACTTATATCGTTTC
1 TAGGATTTGAGATCACTTATATCGCTTC
31810407 TA
1 TA
31810409 CATCGAAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.43
Consensus pattern (28 bp):
TAGGATTTGAGATCACTTATATCGCTTC
Found at i:31810634 original size:63 final size:63
Alignment explanation
Indices: 31810505--31810635 Score: 172
Period size: 63 Copynumber: 2.1 Consensus size: 63
31810495 GCCGTGTGTG
* * * *
31810505 AGGCTATGTAACTCACTGTTTATAAATTAGAGTCACACAGGCCAGGGATATGGGCCTGTGTTC
1 AGGCTATGTAACTCACTGTTTATAAATTAGAGTCACACAGGCCAGAGACATGAGCCTGTGTCC
* * * * * *
31810568 AGGCTATGTAACTCACTGTTTGTGAATTAGAGTCACACAGGCTATAGACATGAGCGTTTGTCC
1 AGGCTATGTAACTCACTGTTTATAAATTAGAGTCACACAGGCCAGAGACATGAGCCTGTGTCC
31810631 AGGCT
1 AGGCT
31810636 GTGTGAGATA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (63 bp):
AGGCTATGTAACTCACTGTTTATAAATTAGAGTCACACAGGCCAGAGACATGAGCCTGTGTCC
Found at i:31818183 original size:31 final size:31
Alignment explanation
Indices: 31818148--31818209 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
31818138 TGCGATAGTG
31818148 TGATGACTTCTGACATTTAACAATGTGTTTT
1 TGATGACTTCTGACATTTAACAATGTGTTTT
*
31818179 TGATGACTTTTGACATTTAACAATGTGTTTT
1 TGATGACTTCTGACATTTAACAATGTGTTTT
31818210 CATATAGTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (31 bp):
TGATGACTTCTGACATTTAACAATGTGTTTT
Found at i:31819997 original size:40 final size:40
Alignment explanation
Indices: 31819899--31820161 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
31819889 TCCTCGTTCA
* * * * *
31819899 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
31819938 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
31819978 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
31820018 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
31820058 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * * *
31820098 AAGGCCTTC-GGATCTTTATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
31820138 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
31820162 CAGCATTCAA
Statistics
Matches: 196, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
39 37 0.19
40 151 0.77
41 8 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:31838388 original size:18 final size:19
Alignment explanation
Indices: 31838367--31838406 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
31838357 CTGGTTACTA
31838367 TTTTT-CTTCT-TTTTCTT
1 TTTTTGCTTCTCTTTTCTT
31838384 TTTTTGCTTCTGCTTTTCTT
1 TTTTTGCTTCT-CTTTTCTT
31838404 TTT
1 TTT
31838407 ACTTGTCACT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 5 0.25
20 10 0.50
ACGTcount: A:0.00, C:0.17, G:0.05, T:0.78
Consensus pattern (19 bp):
TTTTTGCTTCTCTTTTCTT
Found at i:31840754 original size:47 final size:48
Alignment explanation
Indices: 31840652--31840825 Score: 182
Period size: 47 Copynumber: 3.7 Consensus size: 48
31840642 TAGGATACTA
* * *
31840652 ATGCCATGTCCCGGACATGGTCTTACACTAGCT-TACATCTCAAGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CATCTCAATGCCG
* *
31840700 A-GGCATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGCCG
* * * * *
31840746 ATGCCATGTCCTAGACATGGTCTTACATTGGCTCTCATAGT--GTGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-CTCAAT-GCCG
31840794 ATG-CATGTCCCAGACAT-GTCTTACACTAGCTC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTC
31840826 ACAATAACCC
Statistics
Matches: 106, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
46 38 0.36
47 43 0.41
48 24 0.23
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGCCG
Found at i:31848320 original size:47 final size:49
Alignment explanation
Indices: 31848217--31848391 Score: 167
Period size: 47 Copynumber: 3.7 Consensus size: 49
31848207 GTAAGATGCC
* *
31848217 GATGCCATGT-CCAGGACATGGTCTTACACTAGCT-TACATCTCGA-GGCT
1 GATGCCATGTCCCA-GACATGGTCTTACACTAGCTCTA-ATCTCAATGTCT
*
31848265 GA-GGCATGTCCCAGACAT-GTCTTACACTAGCTCTAATCTCAATGTC-
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTAATCTCAATGTCT
*
31848311 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC---TCGT-AATGTGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTAATC-TCAATGT--CT
* *
31848359 GATG-CATGTCCCAAACAT-GTTTTACACTAGCTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTC
31848392 ACAATAACCC
Statistics
Matches: 110, Mismatches: 8, Indels: 20
0.80 0.06 0.14
Matches are distributed among these distances:
45 7 0.06
46 36 0.33
47 44 0.40
48 23 0.21
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTAATCTCAATGTCT
Found at i:31848377 original size:94 final size:94
Alignment explanation
Indices: 31848216--31848391 Score: 241
Period size: 94 Copynumber: 1.9 Consensus size: 94
31848206 GGTAAGATGC
* *
31848216 CGATGCCATGTCCAGGACATGGTCTTACACTAGCTTACATCTCGAGGCTGAGGCATGTCCCAGAC
1 CGATGCCATGTCCAGGACATGGTCTTACACTAGCTTACATATCGAGGCTGAGGCATGTCCCAAAC
31848281 ATGTCTTACACTAGCTCTAATCTCAATGT
66 ATGTCTTACACTAGCTCTAATCTCAATGT
* * * *
31848310 CGATGCCATGTCCCA-GACATGGTCTTACACTGGCTCT-CGTAAT-GTGGCTGATGCATGTCCCA
1 CGATGCCATGT-CCAGGACATGGTCTTACACTAGCT-TACAT-ATCGAGGCTGAGGCATGTCCCA
*
31848372 AACATGTTTTACACTAGCTC
63 AACATGTCTTACACTAGCTC
31848392 ACAATAACCC
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
94 67 0.93
95 5 0.07
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (94 bp):
CGATGCCATGTCCAGGACATGGTCTTACACTAGCTTACATATCGAGGCTGAGGCATGTCCCAAAC
ATGTCTTACACTAGCTCTAATCTCAATGT
Found at i:31854995 original size:93 final size:93
Alignment explanation
Indices: 31854883--31855055 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 93
31854873 CGCCCATAAG
* *
31854883 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
31854948 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
*
31854976 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
31855041 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
31855056 CAAATATCCG
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:31855051 original size:46 final size:46
Alignment explanation
Indices: 31854876--31855051 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
31854866 TGTAACCCGC
* * *
31854876 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
31854922 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
31854968 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
31855015 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
31855052 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 69 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:31857470 original size:30 final size:30
Alignment explanation
Indices: 31857426--31857514 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
31857416 CAAAGATAAC
*
31857426 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
31857455 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
31857485 AAGATATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
31857515 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.11
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:31857474 original size:15 final size:14
Alignment explanation
Indices: 31857426--31857508 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
31857416 CAAAGATAAC
*
31857426 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
31857440 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
31857455 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
31857470 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
31857485 AAGATATCCAGGATA
1 AAGA-AACCCGAATA
31857500 AAGAAACCC
1 AAGAAACCC
31857509 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.17, T:0.11
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:31857514 original size:15 final size:15
Alignment explanation
Indices: 31857437--31857514 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
31857427 AGAAAACCGA
31857437 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
31857452 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
31857466 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
31857481 AATAAAGATATCCAGG
1 -ATAAAGAAATCCAAG
*
31857497 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
31857512 ATA
1 ATA
31857515 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.17, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:31861755 original size:21 final size:22
Alignment explanation
Indices: 31861731--31861774 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
31861721 TTATTCTTAG
*
31861731 TTCTTAAATTTCT-TATTTGTT
1 TTCTTAAATTTCTAAATTTGTT
*
31861752 TTCTTTAATTTCTAAATTTGTT
1 TTCTTAAATTTCTAAATTTGTT
31861774 T
1 T
31861775 ATTTCTTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.20, C:0.09, G:0.05, T:0.66
Consensus pattern (22 bp):
TTCTTAAATTTCTAAATTTGTT
Found at i:31865605 original size:26 final size:26
Alignment explanation
Indices: 31865576--31865628 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
31865566 TTTACAATTT
31865576 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
31865602 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
31865628 T
1 T
31865629 GCATGTTTGA
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:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:31872091 original size:32 final size:32
Alignment explanation
Indices: 31872055--31872119 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
31872045 TGTATGTATT
31872055 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
31872087 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
31872119 T
1 T
31872120 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:31881250 original size:41 final size:41
Alignment explanation
Indices: 31881188--31881320 Score: 178
Period size: 41 Copynumber: 3.3 Consensus size: 41
31881178 GGGCACAAAA
* * * *
31881188 GTGC-ATTCATGGGTATCGAAGTACAAATAGGGGCACGTGT
1 GTGCAATTCAAGGGTATTGAAGTACAAACAGGGGCACGTAT
* * *
31881228 GTGTAATTCAGGGGTATTGAAGTACAAACAAGGGCACGTAT
1 GTGCAATTCAAGGGTATTGAAGTACAAACAGGGGCACGTAT
* *
31881269 GTGCAATTCAAGGGCACTGAAGTACAAACAGGGGCACGTAT
1 GTGCAATTCAAGGGTATTGAAGTACAAACAGGGGCACGTAT
31881310 GTGCAATTCAA
1 GTGCAATTCAA
31881321 CAATAATCTT
Statistics
Matches: 81, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
40 3 0.04
41 78 0.96
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (41 bp):
GTGCAATTCAAGGGTATTGAAGTACAAACAGGGGCACGTAT
Found at i:31881280 original size:21 final size:21
Alignment explanation
Indices: 31881256--31881320 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
31881246 GAAGTACAAA
31881256 CAAGGGCACGTATGTGCAATT
1 CAAGGGCACGTATGTGCAATT
* * *
31881277 CAAGGGCAC-TGAAGTACAA-A
1 CAAGGGCACGT-ATGTGCAATT
*
31881297 CAGGGGCACGTATGTGCAATT
1 CAAGGGCACGTATGTGCAATT
31881318 CAA
1 CAA
31881321 CAATAATCTT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
20 15 0.45
21 18 0.55
ACGTcount: A:0.34, C:0.20, G:0.28, T:0.18
Consensus pattern (21 bp):
CAAGGGCACGTATGTGCAATT
Found at i:31882150 original size:14 final size:14
Alignment explanation
Indices: 31882131--31882159 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
31882121 TTTCATGACC
31882131 ATTTAACCCCTTTT
1 ATTTAACCCCTTTT
31882145 ATTTAACCCCTTTT
1 ATTTAACCCCTTTT
31882159 A
1 A
31882160 ACTAACGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTTAACCCCTTTT
Found at i:31887140 original size:60 final size:60
Alignment explanation
Indices: 31887047--31887164 Score: 236
Period size: 60 Copynumber: 2.0 Consensus size: 60
31887037 ATGCTCAGAA
31887047 TTGGGCACACGGGTAGAGACACGGGCGTGTTTCGTCTCAACTATATGTACCATACAGCTC
1 TTGGGCACACGGGTAGAGACACGGGCGTGTTTCGTCTCAACTATATGTACCATACAGCTC
31887107 TTGGGCACACGGGTAGAGACACGGGCGTGTTTCGTCTCAACTATATGTACCATACAGC
1 TTGGGCACACGGGTAGAGACACGGGCGTGTTTCGTCTCAACTATATGTACCATACAGC
31887165 CTGGAACACG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.25
Consensus pattern (60 bp):
TTGGGCACACGGGTAGAGACACGGGCGTGTTTCGTCTCAACTATATGTACCATACAGCTC
Found at i:31895107 original size:37 final size:37
Alignment explanation
Indices: 31895048--31895162 Score: 169
Period size: 37 Copynumber: 3.1 Consensus size: 37
31895038 CAAAACATGT
* * *
31895048 CAAACGCTCATAAGAGCTAATCCAGCCGATAACACAC
1 CAAATGCTCATAAGAGCTAATCCAACCGATAACACGC
* *
31895085 CAAATTCTTATAAGA-CTTAATCCAACCGATAACACGC
1 CAAATGCTCATAAGAGC-TAATCCAACCGATAACACGC
31895122 CAAATGCTCATAAGAGCTAATCCAACCGATAACACGC
1 CAAATGCTCATAAGAGCTAATCCAACCGATAACACGC
31895159 CAAA
1 CAAA
31895163 ACAAGATAGT
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
36 1 0.01
37 67 0.97
38 1 0.01
ACGTcount: A:0.42, C:0.30, G:0.11, T:0.17
Consensus pattern (37 bp):
CAAATGCTCATAAGAGCTAATCCAACCGATAACACGC
Found at i:31897452 original size:20 final size:20
Alignment explanation
Indices: 31897408--31897445 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
31897398 CGGTACTAAA
* *
31897408 ATGAAAAGTTGTAAAATTCG
1 ATGAAAAATTCTAAAATTCG
31897428 ATGAAAAATTCTAAAATT
1 ATGAAAAATTCTAAAATT
31897446 TTATGAATAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.05, G:0.13, T:0.32
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTCG
Done.