Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001738.1 Hibiscus syriacus cultivar Beakdansim tig00003513_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 164477
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:3063 original size:12 final size:12
Alignment explanation
Indices: 3046--3079 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
3036 TCATGTAGGA
3046 AATTGAAGTTTG
1 AATTGAAGTTTG
3058 AATTGAA-TTTG
1 AATTGAAGTTTG
3069 ATATTGAAGTT
1 A-ATTGAAGTT
3080 ATTGTAATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 5 0.25
12 13 0.65
13 2 0.10
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (12 bp):
AATTGAAGTTTG
Found at i:8637 original size:21 final size:21
Alignment explanation
Indices: 8613--8683 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
8603 AGCAACTTCA
* **
8613 CAAGAAAAGTTGGTTATGTCC
1 CAAGAAAAGCTGGTTACATCC
8634 CAAGAAAAGCTGGTTACATCC
1 CAAGAAAAGCTGGTTACATCC
* ** *
8655 CAGGAAAAGCTAATTGCATCC
1 CAAGAAAAGCTGGTTACATCC
*
8676 CAGGAAAA
1 CAAGAAAA
8684 ATTCCAAAGC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (21 bp):
CAAGAAAAGCTGGTTACATCC
Found at i:12870 original size:5 final size:5
Alignment explanation
Indices: 12846--12902 Score: 73
Period size: 5 Copynumber: 11.6 Consensus size: 5
12836 TTTATAAAAC
* *
12846 TTTAT TTCAT TATA- TTTAT TTTAT TTTGA- TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT-AT TTTAT TTTAT TTTAT TTTAT
12895 TTTAT TTT
1 TTTAT TTT
12903 CCTCTAAACA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
4 4 0.09
5 40 0.89
6 1 0.02
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (5 bp):
TTTAT
Found at i:32527 original size:34 final size:34
Alignment explanation
Indices: 32484--32558 Score: 141
Period size: 34 Copynumber: 2.2 Consensus size: 34
32474 CTTTCACCTC
32484 AGCAACATCAGTCAAGCCAAATAAATCTTGCCTA
1 AGCAACATCAGTCAAGCCAAATAAATCTTGCCTA
32518 AGCAACATCAGTCAAGCCAAATAAATCTTGCCTA
1 AGCAACATCAGTCAAGCCAAATAAATCTTGCCTA
32552 AGTCAAC
1 AG-CAAC
32559 CCTTTCACCT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
34 36 0.90
35 4 0.10
ACGTcount: A:0.41, C:0.27, G:0.12, T:0.20
Consensus pattern (34 bp):
AGCAACATCAGTCAAGCCAAATAAATCTTGCCTA
Found at i:36803 original size:17 final size:17
Alignment explanation
Indices: 36773--36806 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
36763 TTCTTTATCC
**
36773 TTATTTCTTTTATTTAT
1 TTATTTCTAATATTTAT
36790 TTATTTCTAATATTTAT
1 TTATTTCTAATATTTAT
36807 CTTTTTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATTTCTAATATTTAT
Found at i:45906 original size:20 final size:21
Alignment explanation
Indices: 45877--45917 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
45867 TAATGACCTT
45877 ATGTTATCACAT-AAATATTA
1 ATGTTATCACATGAAATATTA
* *
45897 ATGTTCTCACTTGAAATATTA
1 ATGTTATCACATGAAATATTA
45918 TATTAAAGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.41
Consensus pattern (21 bp):
ATGTTATCACATGAAATATTA
Found at i:48752 original size:2 final size:2
Alignment explanation
Indices: 48745--48778 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
48735 TGAATCCAAT
48745 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
48779 ACTATTCCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:62678 original size:22 final size:22
Alignment explanation
Indices: 62648--62694 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
62638 ATAAGTCCTC
*
62648 TTGTCTAATTCGTTTTGAAGGG
1 TTGTATAATTCGTTTTGAAGGG
62670 TTGTATAATTCGTTTTGAAGGG
1 TTGTATAATTCGTTTTGAAGGG
62692 TTG
1 TTG
62695 AAAGTGTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.19, C:0.06, G:0.28, T:0.47
Consensus pattern (22 bp):
TTGTATAATTCGTTTTGAAGGG
Found at i:70216 original size:2 final size:2
Alignment explanation
Indices: 70209--70233 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
70199 CTAAATGCTT
70209 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
70234 TAATAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:72820 original size:25 final size:25
Alignment explanation
Indices: 72786--72848 Score: 119
Period size: 24 Copynumber: 2.6 Consensus size: 25
72776 TTTAACGTTC
72786 AATGGTTTAGGGTTTTTTGGGTTAA
1 AATGGTTTAGGGTTTTTTGGGTTAA
72811 AATGGTTTAGGG-TTTTTGGGTTAA
1 AATGGTTTAGGGTTTTTTGGGTTAA
72835 AATGGTTTAGGGTT
1 AATGGTTTAGGGTT
72849 AGGGTTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
24 24 0.65
25 13 0.35
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.46
Consensus pattern (25 bp):
AATGGTTTAGGGTTTTTTGGGTTAA
Found at i:72882 original size:26 final size:25
Alignment explanation
Indices: 72853--72913 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
72843 AGGGTTAGGG
*
72853 TTTTTTAATGTTAAAATGGTTATGAT
1 TTTTTTAATG-TAAAATGGTTATGAA
*
72879 TTTTTTAGA-GTAAAATGGTTTTGAA
1 TTTTTTA-ATGTAAAATGGTTATGAA
*
72904 TTTTTAAATG
1 TTTTTTAATG
72914 GTTTAGGATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 1 0.03
25 20 0.67
26 8 0.27
27 1 0.03
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.52
Consensus pattern (25 bp):
TTTTTTAATGTAAAATGGTTATGAA
Found at i:74983 original size:24 final size:24
Alignment explanation
Indices: 74955--75004 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
74945 TATGCCAAAA
* *
74955 CTTATACTCTGAAACTATCAAACT
1 CTTATACTCTAAAACTACCAAACT
* *
74979 CTTATTCTCTAAAACTCCCAAACT
1 CTTATACTCTAAAACTACCAAACT
75003 CT
1 CT
75005 CAAACTCTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.30, G:0.02, T:0.34
Consensus pattern (24 bp):
CTTATACTCTAAAACTACCAAACT
Found at i:83227 original size:30 final size:29
Alignment explanation
Indices: 83190--83267 Score: 99
Period size: 28 Copynumber: 2.7 Consensus size: 29
83180 TAATTTTGAT
83190 ATAACCCTAAACT-ATTTTAAAATAAAAAAC
1 ATAACCCTAAACTCA-TTTAAAAT-AAAAAC
*
83220 TTAACCCTAAA-TCATTTAAAATAAAAAC
1 ATAACCCTAAACTCATTTAAAATAAAAAC
83248 ATAACCCTAAAC-CACTTTAA
1 ATAACCCTAAACTCA-TTTAA
83268 CCAAAAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
28 18 0.42
29 14 0.33
30 11 0.26
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.27
Consensus pattern (29 bp):
ATAACCCTAAACTCATTTAAAATAAAAAC
Found at i:83274 original size:29 final size:27
Alignment explanation
Indices: 83190--83276 Score: 84
Period size: 28 Copynumber: 3.0 Consensus size: 27
83180 TAATTTTGAT
*
83190 ATAACCCTAAACTATTTTAAAATAAAAAAC
1 ATAACCCTAAACCA-TTT-AAA-AAAAAAC
* *
83220 TTAACCCTAAATCATTTAAAATAAAAAC
1 ATAACCCTAAACCATTTAAAA-AAAAAC
83248 ATAACCCTAAACCACTTTAACCAAAAAAA
1 ATAACCCTAAACCA-TTTAA--AAAAAAA
83277 AAACTTAAAC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
27 1 0.02
28 21 0.44
29 8 0.17
30 16 0.33
31 2 0.04
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (27 bp):
ATAACCCTAAACCATTTAAAAAAAAAC
Found at i:84210 original size:20 final size:20
Alignment explanation
Indices: 84185--84223 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
84175 TCCGGGTTTG
84185 AGTATCAATAATGGATGAAT
1 AGTATCAATAATGGATGAAT
* *
84205 AGTATCGATATTGGATGAA
1 AGTATCAATAATGGATGAA
84224 ATTAGACGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.31
Consensus pattern (20 bp):
AGTATCAATAATGGATGAAT
Found at i:84277 original size:21 final size:21
Alignment explanation
Indices: 84252--84294 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
84242 ATTTCCAATT
84252 GGGAGTATTGATGCTGTTGGG
1 GGGAGTATTGATGCTGTTGGG
84273 GGGAGTATTGATGCTGTTGGG
1 GGGAGTATTGATGCTGTTGGG
84294 G
1 G
84295 AGAGCAATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.05, G:0.49, T:0.33
Consensus pattern (21 bp):
GGGAGTATTGATGCTGTTGGG
Found at i:84305 original size:21 final size:21
Alignment explanation
Indices: 84260--84305 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
84250 TTGGGAGTAT
* * *
84260 TGATGCTGTTGGGGGGAGTAT
1 TGATGCTGTTGGGGAGAGCAA
84281 TGATGCTGTTGGGGAGAGCAA
1 TGATGCTGTTGGGGAGAGCAA
84302 TGAT
1 TGAT
84306 ATTGTCCCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.07, G:0.43, T:0.30
Consensus pattern (21 bp):
TGATGCTGTTGGGGAGAGCAA
Found at i:86663 original size:21 final size:21
Alignment explanation
Indices: 86635--86689 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
86625 TGGGAAAGGT
86635 AGTATCAATACTCATTAATGA
1 AGTATCAATACTCATTAATGA
* * *
86656 ATTATCAATAATCATTCATGA
1 AGTATCAATACTCATTAATGA
*
86677 AGTATTAATACTC
1 AGTATCAATACTC
86690 CTAGTAGGGG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.36
Consensus pattern (21 bp):
AGTATCAATACTCATTAATGA
Found at i:89852 original size:23 final size:24
Alignment explanation
Indices: 89822--89869 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
89812 ATCTTTGTCA
*
89822 TTGTGACACAT-TTTTCTCTGCTC
1 TTGTGACACATATTTTCTCTACTC
*
89845 TTGTGACACGTATTTTCTCTACTC
1 TTGTGACACATATTTTCTCTACTC
89869 T
1 T
89870 AGTGGCACGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.15, C:0.25, G:0.12, T:0.48
Consensus pattern (24 bp):
TTGTGACACATATTTTCTCTACTC
Found at i:89869 original size:24 final size:23
Alignment explanation
Indices: 89822--89878 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
89812 ATCTTTGTCA
* *
89822 TTGTGACACATTTTTCTCTGCTC
1 TTGTGACACGTTTTTCTCTACTC
89845 TTGTGACACGTATTTTCTCTACTC
1 TTGTGACACGT-TTTTCTCTACTC
* *
89869 TAGTGGCACG
1 TTGTGACACG
89879 ATCCTTCTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 10 0.34
24 19 0.66
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.42
Consensus pattern (23 bp):
TTGTGACACGTTTTTCTCTACTC
Found at i:93178 original size:21 final size:20
Alignment explanation
Indices: 93148--93192 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
93138 TTGGCTGAGA
93148 GTATTAATAC-ATGCTCGTTGG
1 GTATTAATACTAT--TCGTTGG
*
93169 GTATTGATACTATTCGTTGG
1 GTATTAATACTATTCGTTGG
93189 GTAT
1 GTAT
93193 CAGTACCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 11 0.50
21 9 0.41
22 2 0.09
ACGTcount: A:0.22, C:0.11, G:0.24, T:0.42
Consensus pattern (20 bp):
GTATTAATACTATTCGTTGG
Found at i:98555 original size:194 final size:193
Alignment explanation
Indices: 98201--98610 Score: 448
Period size: 194 Copynumber: 2.1 Consensus size: 193
98191 GTGGTTTGTT
** *
98201 ACAATATCTCTTTCGTCACATATAAGTTGATTTTAATGCATTATTTGTGACAATATAAATTATCA
1 ACAATATCTCTTTCGTCACATATAAGTTGATTTTAATGCATTATCCGTGACAATATAAATCATCA
** **
98266 ATAACGAAATCTTATTTAATTTAGTGATGTAACCAACTATCATAGAATATAAAGGATAAAGTGAC
66 ATAACGAAATCTTACATAATTTAGTGACATAACCAACTATCATAGAATATAAAGGATAAAGTGAC
* * * *
98331 ATTATGCATAAACGTCATTCATAATATTATTAGGTAAC-ATTTATATTATGTCACTAAAAATGTG
131 ATTATACATAAACGTCATCCATAATATTATTAGGTAACGA--TATACTACGTCACTAAAAATGTG
* * *
98395 ACAATATCTCTTTCGTCACATATAGGTTGATTTTAAT-CTATTATCCGTGACGATATAAATCATT
1 ACAATATCTCTTTCGTCACATATAAGTTGATTTTAATGC-ATTATCCGTGACAATATAAATCATC
* ** ** * * * ** *
98459 AATAACGAAATTTTACATAATTTAGTGACATAATTAGTTGTCATTGAATATTAATTATATAGTGA
65 AATAACGAAATCTTACATAATTTAGTGACATAACCAACTATCATAGAATATAAAGGATAAAGTGA
* * * ** * * *
98524 CGTTATATATAAATGTCATCCATGCTATTATTATGTGACGATATACTACGTTACTAAAAATGTG
130 CATTATACATAAACGTCATCCATAATATTATTAGGTAACGATATACTACGTCACTAAAAATGTG
* * *
98588 ACAA-ATTTCTTTTGTCACGTATA
1 ACAATATCTCTTTCGTCACATATA
98611 CAATGAAATT
Statistics
Matches: 178, Mismatches: 36, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
192 16 0.09
193 25 0.14
194 136 0.76
195 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (193 bp):
ACAATATCTCTTTCGTCACATATAAGTTGATTTTAATGCATTATCCGTGACAATATAAATCATCA
ATAACGAAATCTTACATAATTTAGTGACATAACCAACTATCATAGAATATAAAGGATAAAGTGAC
ATTATACATAAACGTCATCCATAATATTATTAGGTAACGATATACTACGTCACTAAAAATGTG
Found at i:104844 original size:21 final size:21
Alignment explanation
Indices: 104816--104868 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
104806 ATTCTGACTA
104816 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
104837 TCTCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
104858 TCGCAATGCGA
1 TCGCATTGCGA
104869 ATACGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:104887 original size:20 final size:20
Alignment explanation
Indices: 104858--104950 Score: 141
Period size: 20 Copynumber: 4.7 Consensus size: 20
104848 TTTTCCTAAT
104858 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
104878 TCGTAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
104898 TCGCAATACGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
104918 TCGTAATGCGAATACATAAA
1 TCGCAATGCGAATACGTAAA
*
104938 TCGCAACGCGAAT
1 TCGCAATGCGAAT
104951 CTGACTATCG
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 65 1.00
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:104904 original size:40 final size:40
Alignment explanation
Indices: 104858--104950 Score: 159
Period size: 40 Copynumber: 2.3 Consensus size: 40
104848 TTTTCCTAAT
*
104858 TCGCAATGCGAATACGTAAATCGTAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAATCGTAATGCGAATACATAAA
*
104898 TCGCAATACGAATACGTAAATCGTAATGCGAATACATAAA
1 TCGCAATGCGAATACGTAAATCGTAATGCGAATACATAAA
*
104938 TCGCAACGCGAAT
1 TCGCAATGCGAAT
104951 CTGACTATCG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.41, C:0.19, G:0.18, T:0.22
Consensus pattern (40 bp):
TCGCAATGCGAATACGTAAATCGTAATGCGAATACATAAA
Found at i:104960 original size:20 final size:20
Alignment explanation
Indices: 104937--105023 Score: 129
Period size: 20 Copynumber: 4.3 Consensus size: 20
104927 GAATACATAA
* *
104937 ATCGCAACGCGAATCTGACT
1 ATCGCAACGAGATTCTGACT
104957 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGATTCTGACT
*
104977 ATCGCAACGAGATTCTAACT
1 ATCGCAACGAGATTCTGACT
* *
104997 ATCGTAACGCGATTCTGACT
1 ATCGCAACGAGATTCTGACT
105017 ATCGCAA
1 ATCGCAA
105024 TACTGAATTT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGAGATTCTGACT
Found at i:105921 original size:24 final size:24
Alignment explanation
Indices: 105870--105923 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
105860 GTATTCGAAA
*
105870 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
105894 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
105918 TTTGAT
1 TTTGAT
105924 GATTTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:108341 original size:34 final size:35
Alignment explanation
Indices: 108298--108377 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 35
108288 CATTCATTTG
* *
108298 ACTATCGCAACGCTGA-AATCGTAATGCGAATAT-A
1 ACTATCGCAACGCAGAGAATCGCAATGCGAA-ATGA
108332 ACTATCGCAACG-AGAGAATCGCAATGCGAAATGA
1 ACTATCGCAACGCAGAGAATCGCAATGCGAAATGA
*
108366 A-AATCGCAACGC
1 ACTATCGCAACGC
108378 GAATTTAGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
33 13 0.32
34 27 0.68
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (35 bp):
ACTATCGCAACGCAGAGAATCGCAATGCGAAATGA
Found at i:108429 original size:34 final size:34
Alignment explanation
Indices: 108391--108486 Score: 149
Period size: 33 Copynumber: 2.9 Consensus size: 34
108381 TTTAGTTTCG
108391 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
108425 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
** * *
108458 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
108487 AGTCTGTTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 31 0.54
34 26 0.46
ACGTcount: A:0.12, C:0.24, G:0.21, T:0.43
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
Found at i:108465 original size:14 final size:14
Alignment explanation
Indices: 108413--108466 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
108403 CATTTTCGCA
108413 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
108427 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
108444 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
108460 TTGCGAT
1 TTGCGAT
108467 AGTCATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 13 0.39
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.44
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:108611 original size:14 final size:14
Alignment explanation
Indices: 108592--108628 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
108582 CATCAATTAG
108592 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
108606 ACAAATCATCTTTT
1 ACAAATCAACATTT
108620 ACAAATCAA
1 ACAAATCAA
108629 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:109207 original size:15 final size:16
Alignment explanation
Indices: 109187--109224 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
109177 GATTAGAATA
109187 AAATAAACAAAAGAT-
1 AAATAAACAAAAGATG
**
109202 AAATAAACGGAAGATG
1 AAATAAACAAAAGATG
109218 AAATAAA
1 AAATAAA
109225 ATAATAAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.68, C:0.05, G:0.13, T:0.13
Consensus pattern (16 bp):
AAATAAACAAAAGATG
Found at i:113489 original size:11 final size:11
Alignment explanation
Indices: 113470--113505 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
113460 AGAAGTATTT
113470 AAATCTAAATTA
1 AAAT-TAAATTA
113482 AAATTAAATTA
1 AAATTAAATTA
113493 AAATTAAA-TA
1 AAATTAAATTA
113503 AAA
1 AAA
113506 GAACCTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 5 0.21
11 15 0.62
12 4 0.17
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (11 bp):
AAATTAAATTA
Found at i:116309 original size:20 final size:20
Alignment explanation
Indices: 116286--116394 Score: 139
Period size: 20 Copynumber: 5.5 Consensus size: 20
116276 GAAACTTAAA
116286 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
116306 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* *
116326 ATCGCAATGCGAAAATGAAT
1 ATCGCAACGCGAAAATGACT
* **
116346 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
* *
116366 ATCGCAATGC-AAATTTGACT
1 ATCGCAACGCGAAA-ATGACT
116386 ATCGCAACG
1 ATCGCAACG
116395 AGAGAATCGC
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
19 2 0.02
20 79 0.98
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:116492 original size:20 final size:20
Alignment explanation
Indices: 116439--116615 Score: 103
Period size: 20 Copynumber: 9.5 Consensus size: 20
116429 GATTCTTTTG
* **
116439 TTGCGATAGTTAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
*
116459 TTGCGATAGCCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
* *
116479 TTGCGATAGTCATTTTTGCG
1 TTGCGATAGTCATTTTCGCA
116499 TTGCGAT--T--TTGTT-G--
1 TTGCGATAGTCATT-TTCGCA
**
116513 TTGCGATTTTCA-TTTCGCA
1 TTGCGATAGTCATTTTCGCA
* *
116532 TT--GATATTC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
* **
116546 TTGTGATAGTCATTTTCGTG
1 TTGCGATAGTCATTTTCGCA
*
116566 TTGCGATAGTCATTTTTGCA
1 TTGCGATAGTCATTTTCGCA
*
116586 TTGCGATAGTCATTTTCTCA
1 TTGCGATAGTCATTTTCGCA
*
116606 TTGTGATAGT
1 TTGCGATAGT
116616 AAACTATTCT
Statistics
Matches: 125, Mismatches: 18, Indels: 28
0.73 0.11 0.16
Matches are distributed among these distances:
14 9 0.07
16 16 0.13
17 10 0.08
18 5 0.04
19 2 0.02
20 83 0.66
ACGTcount: A:0.18, C:0.16, G:0.21, T:0.45
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:116530 original size:107 final size:107
Alignment explanation
Indices: 116407--116601 Score: 282
Period size: 107 Copynumber: 1.8 Consensus size: 107
116397 AGAATCGCAA
* * * *
116407 TGCGATTTTCATTTCGCATTGCGATTCTTTTGTTGCGATAGTTAAATTCGCATTGCGATAGCCAT
1 TGCGATTTTCATTTCGCATTGAGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGCCAT
116472 TTTCGCATTGCGATAGTCATTTTTGCGTTGCGATTTTGTTGT
66 TTTCGCATTGCGATAGTCATTTTTGCGTTGCGATTTTGTTGT
* * ** ** *
116514 TGCGATTTTCATTTCGCATTGATATTCTCTCGTTGTGATAGTCATTTTCGTGTTGCGATAGTCAT
1 TGCGATTTTCATTTCGCATTGAGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGCCAT
*
116579 TTTTGCATTGCGATAGTCATTTT
66 TTTCGCATTGCGATAGTCATTTT
116602 CTCATTGTGA
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
107 76 1.00
ACGTcount: A:0.17, C:0.16, G:0.21, T:0.46
Consensus pattern (107 bp):
TGCGATTTTCATTTCGCATTGAGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGCCAT
TTTCGCATTGCGATAGTCATTTTTGCGTTGCGATTTTGTTGT
Found at i:118521 original size:20 final size:20
Alignment explanation
Indices: 118498--118587 Score: 101
Period size: 20 Copynumber: 4.5 Consensus size: 20
118488 TCTGAAACTT
118498 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
118518 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** * **
118538 ACTATCGCAACGCGAATTTG
1 AAAATCGCAACACGAAAATG
** *
118558 ACTATCGCAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
118577 AAAATCGCAAC
1 AAAATCGCAAC
118588 GACAGAATCG
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
19 12 0.20
20 49 0.80
ACGTcount: A:0.46, C:0.23, G:0.17, T:0.14
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:118958 original size:22 final size:22
Alignment explanation
Indices: 118924--118989 Score: 98
Period size: 22 Copynumber: 3.0 Consensus size: 22
118914 TGACCGTGAA
*
118924 TGATTTCGCCGGAGATGGAGG-C
1 TGATTTCGTCGGAGATGG-GGAC
*
118946 TGATATCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
118968 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
118990 GGATGTCGCC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
21 2 0.05
22 38 0.95
ACGTcount: A:0.20, C:0.15, G:0.41, T:0.24
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:119206 original size:20 final size:20
Alignment explanation
Indices: 119183--119275 Score: 150
Period size: 20 Copynumber: 4.7 Consensus size: 20
119173 CGATAGTCAG
*
119183 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
119203 ATTCACATTGCGATTTATGT
1 ATTCGCATTGCGATTTACGT
*
119223 ATTCGCATTGTGATTTACGT
1 ATTCGCATTGCGATTTACGT
119243 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
119263 ATTCGCATTGCGA
1 ATTCGCATTGCGA
119276 ATTAGGAAAG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 66 1.00
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.41
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:122989 original size:15 final size:15
Alignment explanation
Indices: 122969--122998 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
122959 TTTCTCCACG
122969 TTATTATAAATTTAT
1 TTATTATAAATTTAT
122984 TTATTATAAATTTAT
1 TTATTATAAATTTAT
122999 GGATTACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTATTATAAATTTAT
Found at i:123004 original size:15 final size:15
Alignment explanation
Indices: 122971--123004 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
122961 TCTCCACGTT
**
122971 ATTATAAATTTATTT
1 ATTATAAATTTATGG
122986 ATTATAAATTTATGG
1 ATTATAAATTTATGG
123001 ATTA
1 ATTA
123005 CATATGTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (15 bp):
ATTATAAATTTATGG
Found at i:124523 original size:185 final size:182
Alignment explanation
Indices: 124202--124588 Score: 614
Period size: 185 Copynumber: 2.1 Consensus size: 182
124192 ATTAAATTTT
* * *
124202 AAATTTTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAATCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAATAA
* *
124267 TTTAATATCTAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
66 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
*
124332 TTATTTTATAATTATATATTATTTAAATTAATTGTAAACTGTTTTTTTAATTAAA
131 TTATTTTATAATTATATATTATTTAAATTAATTAT-AAC--TTTTTTTAATTAAA
* *
124387 AAATATTATATATATTATATATAACATATGGGTTAAGCCCAAACCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAATAA
* * *
124452 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATCTGAAATTT
66 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
124517 TTATTTTATAATTATATATTATTTAAATTAATTATAACTTTTTTTAATTAAA
131 TTATTTTATAATTATATATTATTTAAATTAATTATAACTTTTTTTAATTAAA
* * *
124569 AAACATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
124589 AATTAGAAAA
Statistics
Matches: 187, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
181 8 0.04
182 22 0.12
184 3 0.02
185 154 0.82
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (182 bp):
AAATATTAAATATATTATATATAACATATGGGCTAAGCCCAAACCATTTAAAACCCAATTAATAA
TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
TTATTTTATAATTATATATTATTTAAATTAATTATAACTTTTTTTAATTAAA
Found at i:124884 original size:2 final size:2
Alignment explanation
Indices: 124879--124910 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
124869 ATTAAAATAA
124879 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
124911 TGAATCACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:128251 original size:20 final size:21
Alignment explanation
Indices: 128226--128266 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
128216 GTGAAGAAGT
128226 TATTCCAGCAGAA-TGAGTTC
1 TATTCCAGCAGAATTGAGTTC
128246 TATTCCAGCAGAATTGAGTTC
1 TATTCCAGCAGAATTGAGTTC
128267 CACCACTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (21 bp):
TATTCCAGCAGAATTGAGTTC
Found at i:133228 original size:18 final size:19
Alignment explanation
Indices: 133205--133241 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
133195 TATTTAAGTT
*
133205 ATAAAAGCGA-TTAAATAA
1 ATAAAAGCAATTTAAATAA
133223 ATAAAAGCAATTTAAATAA
1 ATAAAAGCAATTTAAATAA
133242 CAATAAGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.62, C:0.05, G:0.08, T:0.24
Consensus pattern (19 bp):
ATAAAAGCAATTTAAATAA
Found at i:143380 original size:151 final size:152
Alignment explanation
Indices: 143131--143431 Score: 498
Period size: 151 Copynumber: 2.0 Consensus size: 152
143121 CATTAGTATA
*
143131 TTATCTATTAATTAACACATTTTTCCCCATTCACAAACGTCAAGGTTTAAACTCTTAACCTTACT
1 TTATCTATTAATTAACACAGTTTTCCCCATTCACAAACGTCAAGGTTTAAACTCTTAACCTTACT
*
143196 TAAAAAATCTAGTGTCTCATCCCACTAGTCCAACTAATTGTTAATTTTTTAACTATAATTTTAAA
66 TAAAAAATCTAGTATCTCATCCCACTAGTCCAACTAATTGTTAATTTTTTAACTATAATTTTAAA
143261 TCAA-TTTTTAGTGTTTAACAT
131 TCAATTTTTTAGTGTTTAACAT
* * * * *
143282 TTATCTATTGATTAATACAGTTTTCCTCATTCACAAACGTCAGGGTTTAAACTCTTGACCTTACT
1 TTATCTATTAATTAACACAGTTTTCCCCATTCACAAACGTCAAGGTTTAAACTCTTAACCTTACT
* *
143347 TAAAAAATCTAGTATCTCTTCCTACTA-TACCAACTAATTGTTAATTTTTTAACTATAATTTTAA
66 TAAAAAATCTAGTATCTCATCCCACTAGT-CCAACTAATTGTTAATTTTTTAACTATAATTTTAA
143411 ATCAATTTTTTAGTGTTTAAC
130 ATCAATTTTTTAGTGTTTAAC
143432 GTTATTTATA
Statistics
Matches: 139, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
150 1 0.01
151 123 0.88
152 15 0.11
ACGTcount: A:0.33, C:0.18, G:0.07, T:0.42
Consensus pattern (152 bp):
TTATCTATTAATTAACACAGTTTTCCCCATTCACAAACGTCAAGGTTTAAACTCTTAACCTTACT
TAAAAAATCTAGTATCTCATCCCACTAGTCCAACTAATTGTTAATTTTTTAACTATAATTTTAAA
TCAATTTTTTAGTGTTTAACAT
Found at i:145940 original size:5 final size:5
Alignment explanation
Indices: 145932--145956 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
145922 TACATTATAT
145932 TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA
145957 CATTTTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:159026 original size:23 final size:23
Alignment explanation
Indices: 158983--159029 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
158973 GAATCCATGC
**
158983 GAAAAACAAGATTAACGAAAACA
1 GAAAAACAAGAAGAACGAAAACA
*
159006 GAAAAACAAGAAGAAGCAAAAACA
1 GAAAAACAAGAAGAA-CGAAAACA
159030 AGCGAAAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.68, C:0.13, G:0.15, T:0.04
Consensus pattern (23 bp):
GAAAAACAAGAAGAACGAAAACA
Found at i:163038 original size:334 final size:330
Alignment explanation
Indices: 162429--163102 Score: 999
Period size: 334 Copynumber: 2.0 Consensus size: 330
162419 TTTCTTATTC
162429 AGCTGCCATCCTAGAATCGTCAGCTACTTTCTAGTCAAGTTTCAGTATCTCCGTTCATTTTAGGG
1 AGCTGCCATCCTAGAATCGTCAGCTACTTTCTAGTCAAGTTTCAGTATCTCCGTTCATTTTAGGG
162494 TTCATTTGATAAAGTTTTTCTAAAATATTTTATCTAGAAATTATATTTTGACTATAAAACTAATG
66 TTCATTTGATAAAGTTTTTCTAAAATATTTTATCTAGAAATTATATTTTGACTATAAAACTAATG
* * ** **
162559 TTAAACACATAAAATTAAAAAAATTGACGTAGAAATAGGTGTTTCAAATCAACTTTAAAAGTTAG
131 TTAAACACATAAAATGAAAAAAA-T-AC-TAAAAATAACTGTTTCAAATCAACTTTAAAACCT--
* * *
162624 AATTTTTATTTTTTTTTTTCATTTTTATGTGTTTAACATTAGTTTATAGTCAAAATATAATTTCT
191 AATTTCTATATTTTTTTTTCAATTTTATGTGTTTAACATTAGTTTATAGTCAAAATATAATTTCT
162689 AGATAAAATATTTTTAGAAAACTTTATCAAATGAACCCTAAAATGAACGGAGATACTG-AACTTG
256 AGATAAAATATTTTTAGAAAACTTTATCAAATGAACCCTAAAATGAACGGAGATACTGAAACTTG
162753 ACTAGAAAGT
321 ACTAGAAAGT
162763 AGCTGCCATCCTAGAATCGTCAGCTACTTTCTAGTCAAGTTTCAGTATCTCCGTTCATTTTAGGG
1 AGCTGCCATCCTAGAATCGTCAGCTACTTTCTAGTCAAGTTTCAGTATCTCCGTTCATTTTAGGG
162828 TTCATTTGATAAAG-TTTTCTAAAAATATTTTTATCTAGAAATTATATTTTGACTATAAAACTAA
66 TTCATTTGATAAAGTTTTTCT-AAAATA-TTTTATCTAGAAATTATATTTTGACTATAAAACTAA
* **
162892 TGTTAAACACATAAAAATGAAAAAAA-A-TAAAAATTCTAACT-TTT-AAGTTGA-TTTGAAACA
129 TGTTAAACACAT-AAAATGAAAAAAATACTAAAAA---TAACTGTTTCAAATCAACTTT-AAA-A
162952 CCT-ATTTCTACGTCAATTTTTTTTT-AATTTT-TGTGTTTAACATTAGTTTTTATAGTCAAAAT
188 CCTAATTTCTA--T--ATTTTTTTTTCAATTTTATGTGTTTAACATTAG--TTTATAGTCAAAAT
163014 ATAATTTCTAGATAAAATATTTTTAGAAAACTTTATCAAATGAACCCTAAAATGAACGGAGATAC
247 ATAATTTCTAGATAAAATATTTTTAGAAAACTTTATCAAATGAACCCTAAAATGAACGGAGATAC
163079 TGAAACTTGACTAGAAAGT
312 TGAAACTTGACTAGAAAGT
163098 AGCTG
1 AGCTG
163103 ACGATTCTAG
Statistics
Matches: 313, Mismatches: 12, Indels: 29
0.88 0.03 0.08
Matches are distributed among these distances:
330 6 0.02
331 8 0.03
332 23 0.07
333 17 0.05
334 178 0.57
335 69 0.22
336 12 0.04
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (330 bp):
AGCTGCCATCCTAGAATCGTCAGCTACTTTCTAGTCAAGTTTCAGTATCTCCGTTCATTTTAGGG
TTCATTTGATAAAGTTTTTCTAAAATATTTTATCTAGAAATTATATTTTGACTATAAAACTAATG
TTAAACACATAAAATGAAAAAAATACTAAAAATAACTGTTTCAAATCAACTTTAAAACCTAATTT
CTATATTTTTTTTTCAATTTTATGTGTTTAACATTAGTTTATAGTCAAAATATAATTTCTAGATA
AAATATTTTTAGAAAACTTTATCAAATGAACCCTAAAATGAACGGAGATACTGAAACTTGACTAG
AAAGT
Done.