Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01015200.1 Kokia drynarioides strain JFW-HI SEQ_130244, 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: 130893
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Warning! 200 characters in sequence are not A, C, G, or T
Found at i:1036 original size:24 final size:24
Alignment explanation
Indices: 1004--1053 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
994 TTTTACTATA
1004 CATTTTACTATACACCTACATCTG
1 CATTTTACTATACACCTACATCTG
1028 CATTTTACTATACACCTACATCTG
1 CATTTTACTATACACCTACATCTG
1052 CA
1 CA
1054 CATCATCCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.30, C:0.30, G:0.04, T:0.36
Consensus pattern (24 bp):
CATTTTACTATACACCTACATCTG
Found at i:3646 original size:6 final size:6
Alignment explanation
Indices: 3635--3661 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
3625 AAGAGATAAA
3635 AAAAAC AAAAAC AAAAAC AAAAAC AAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAA
3662 GAATCAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:5771 original size:23 final size:23
Alignment explanation
Indices: 5745--5798 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
5735 ACACTAGCAC
*
5745 GCTTACTGTTTCGCACTTCGTGT
1 GCTTACTGTTTCGCACCTCGTGT
5768 GCTTACTGTTTCGCACCTCGTGT
1 GCTTACTGTTTCGCACCTCGTGT
*
5791 GCCTACTG
1 GCTTACTG
5799 ATTTGCGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.09, C:0.30, G:0.22, T:0.39
Consensus pattern (23 bp):
GCTTACTGTTTCGCACCTCGTGT
Found at i:5839 original size:22 final size:23
Alignment explanation
Indices: 5821--5865 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
5811 TGCGCCTATT
*
5821 GACTGCACTGTGTGTGCCTACTG
1 GACTACACTGTGTGTGCCTACTG
* *
5844 GATTACACTGTGTGTGCTTACT
1 GACTACACTGTGTGTGCCTACT
5866 ATTTCCCCAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.16, C:0.22, G:0.27, T:0.36
Consensus pattern (23 bp):
GACTACACTGTGTGTGCCTACTG
Found at i:11260 original size:24 final size:23
Alignment explanation
Indices: 11216--11260 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
11206 TTAGACAATT
* *
11216 AAAATTAAATAAATTTTAAATAA
1 AAAATTAAATAAATGTCAAATAA
*
11239 AAAATTGAGATAAATGTCAAAT
1 AAAATT-AAATAAATGTCAAAT
11261 TTATACATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 6 0.33
24 12 0.67
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (23 bp):
AAAATTAAATAAATGTCAAATAA
Found at i:12002 original size:61 final size:58
Alignment explanation
Indices: 11887--12004 Score: 137
Period size: 61 Copynumber: 2.0 Consensus size: 58
11877 ATACCTGAAT
* * * * *
11887 TTGATATTTTTCTTAATTTGGTACCTAAACTTTTTTTGACTCAATTTGGTACCTAAAC
1 TTGACATTTTTCCTAAGTTGGTACCTAAACTTTTTTTGACTCAATTTAGCACCTAAAC
* * *
11945 TTGACATTTTATCCTAAGTTGGTACTTAAGCTTTTTTTTAGATTCAATTTAGCACCTAAA
1 TTGACATTTT-TCCTAAGTTGGTACCTAAAC-TTTTTTT-GACTCAATTTAGCACCTAAA
12005 TTTATTAAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
58 9 0.18
59 16 0.33
60 7 0.14
61 17 0.35
ACGTcount: A:0.27, C:0.15, G:0.11, T:0.47
Consensus pattern (58 bp):
TTGACATTTTTCCTAAGTTGGTACCTAAACTTTTTTTGACTCAATTTAGCACCTAAAC
Found at i:12282 original size:31 final size:31
Alignment explanation
Indices: 12226--12284 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
12216 GCACCAACTT
* *
12226 AAAAAAGTATCAAGTTTAGGAACCAAATTAA
1 AAAAAAGTATCAAGTTCAAGAACCAAATTAA
* *
12257 AAAAAAGTGTCAAGTTCAAGTACCAAAT
1 AAAAAAGTATCAAGTTCAAGAACCAAAT
12285 ATAATACTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.53, C:0.12, G:0.14, T:0.22
Consensus pattern (31 bp):
AAAAAAGTATCAAGTTCAAGAACCAAATTAA
Found at i:14851 original size:4 final size:4
Alignment explanation
Indices: 14831--14883 Score: 56
Period size: 4 Copynumber: 13.2 Consensus size: 4
14821 AACACATTAC
* *
14831 CTTT CTTT CCTT C-TT CTTT CTTT CCTCT CTTT C-TT CATTT CTTT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT -CTTT CTTT CTTT C-TTT CTTT CTTT
14879 CTTT C
1 CTTT C
14884 CCGTTATTTG
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
3 6 0.14
4 30 0.71
5 6 0.14
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (4 bp):
CTTT
Found at i:14881 original size:20 final size:19
Alignment explanation
Indices: 14831--14883 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
14821 AACACATTAC
*
14831 CTTTCTTTCCTTCTTCTTT
1 CTTTCTTTCTTTCTTCTTT
*
14850 CTTTCCTCTCTTTCTTCATTT
1 CTTT-CTTTCTTTCTTC-TTT
14871 CTTTCTTTCTTTC
1 CTTTCTTTCTTTC
14884 CCGTTATTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.14
20 18 0.62
21 7 0.24
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.66
Consensus pattern (19 bp):
CTTTCTTTCTTTCTTCTTT
Found at i:15662 original size:19 final size:19
Alignment explanation
Indices: 15627--15664 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
15617 TTTATTTTTT
*
15627 AAAAATATTTATCAAAATA
1 AAAAATATTAATCAAAATA
15646 AAAAATAATTAAT-AAAATA
1 AAAAAT-ATTAATCAAAATA
15665 GGTCAAACGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAAATATTAATCAAAATA
Found at i:32829 original size:21 final size:21
Alignment explanation
Indices: 32787--32845 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
32777 CGATCTAAGG
**
32787 AAAAATAAAAGAAACA-GGATT
1 AAAAATAAAAGAAA-ATAAATT
32808 AAAAATAAAAGAAAATAAATT
1 AAAAATAAAAGAAAATAAATT
*
32829 AAAAGA-AATAGAAAATA
1 AAAA-ATAAAAGAAAATA
32846 GGGAAGTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 1 0.03
21 31 0.94
22 1 0.03
ACGTcount: A:0.73, C:0.02, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAAATAAAAGAAAATAAATT
Found at i:33670 original size:19 final size:19
Alignment explanation
Indices: 33646--33688 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
33636 AAACATAAAT
33646 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
33665 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
33684 TAAAT
1 TAAAT
33689 CCTAGTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:34455 original size:103 final size:104
Alignment explanation
Indices: 34242--34435 Score: 240
Period size: 103 Copynumber: 1.9 Consensus size: 104
34232 TTTATTTTGT
* *
34242 GAATTTTTTTCCTTTTTTTTTCTTTAAGAATACATTGGACCTTTTGACGCGAAAGAAAATGACAC
1 GAATTTTTTTCCTTTTTTTTTCTTTAAGAATACATTAGACCCTTTGACGCGAAAGAAAATGACAC
*
34307 CTAAGCACTCCATCCCGGTTACTCAGCCCAACATGCTCTC
66 CTAAGCACTCCACCCCGGTTACTCAGCCCAACA-GCTCTC
* *
34347 -AATTTTTTT-CTTCTCTTTTTT-TTGT-AGAATGCATTAG-CCCTTTGACGCG-AAGTGAAATG
1 GAATTTTTTTCCTT-T-TTTTTTCTT-TAAGAATACATTAGACCCTTTGACGCGAAAG-AAAATG
34406 ACAACC-AAGCACTCCACCCCGGTTACTCAG
62 AC-ACCTAAGCACTCCACCCCGGTTACTCAG
34436 TCTAACACAT
Statistics
Matches: 79, Mismatches: 5, Indels: 12
0.82 0.05 0.12
Matches are distributed among these distances:
102 3 0.04
103 44 0.56
104 25 0.32
105 7 0.09
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.35
Consensus pattern (104 bp):
GAATTTTTTTCCTTTTTTTTTCTTTAAGAATACATTAGACCCTTTGACGCGAAAGAAAATGACAC
CTAAGCACTCCACCCCGGTTACTCAGCCCAACAGCTCTC
Found at i:35221 original size:12 final size:12
Alignment explanation
Indices: 35203--35262 Score: 61
Period size: 13 Copynumber: 4.8 Consensus size: 12
35193 TTTCTAGACA
35203 AAAATAAATAAAT
1 AAAA-AAATAAAT
35216 AAATAAAATAAGAT
1 AAA-AAAATAA-AT
*
35230 AGAAAAAT-AAT
1 AAAAAAATAAAT
35241 AAAAAAAATAAA-
1 -AAAAAAATAAAT
35253 AAAAAAATAA
1 AAAAAAATAA
35263 TTGGGTTGCC
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
11 12 0.29
12 8 0.20
13 16 0.39
14 5 0.12
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (12 bp):
AAAAAAATAAAT
Found at i:36459 original size:21 final size:21
Alignment explanation
Indices: 36433--36472 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
36423 ATAGATGCCT
*
36433 CAGTTTTCTTTTGAAAATCCA
1 CAGTTTGCTTTTGAAAATCCA
36454 CAGTTTGCTTTTGAAAATC
1 CAGTTTGCTTTTGAAAATC
36473 TATAAATTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
CAGTTTGCTTTTGAAAATCCA
Found at i:38056 original size:15 final size:15
Alignment explanation
Indices: 38025--38084 Score: 50
Period size: 16 Copynumber: 3.9 Consensus size: 15
38015 ATCTAAGGAA
*
38025 AAATAAAAGA-AACAG
1 AAATAAAA-ATAAAAG
*
38040 AATTAAAAATAAAAG
1 AAATAAAAATAAAAG
* *
38055 AAAATAGAATTAAAAG
1 -AAATAAAAATAAAAG
38071 AAATAGAAAATAAA
1 AAATA-AAAATAAA
38085 GAAGACGGAA
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
14 1 0.03
15 16 0.46
16 18 0.51
ACGTcount: A:0.73, C:0.02, G:0.10, T:0.15
Consensus pattern (15 bp):
AAATAAAAATAAAAG
Found at i:38063 original size:22 final size:22
Alignment explanation
Indices: 38023--38082 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
38013 CGATCTAAGG
*
38023 AAAAATAAAAG-AAACAGAATT
1 AAAAATAAAAGAAAATAGAATT
38044 AAAAATAAAAGAAAATAGAATT
1 AAAAATAAAAGAAAATAGAATT
*
38066 AAAAGA-AATAGAAAATA
1 AAAA-ATAAAAGAAAATA
38083 AAGAAGACGG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
21 11 0.31
22 23 0.66
23 1 0.03
ACGTcount: A:0.73, C:0.02, G:0.10, T:0.15
Consensus pattern (22 bp):
AAAAATAAAAGAAAATAGAATT
Found at i:38070 original size:16 final size:15
Alignment explanation
Indices: 38049--38078 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
38039 GAATTAAAAA
38049 TAAAAGAAAATAGAAT
1 TAAAAG-AAATAGAAT
38065 TAAAAGAAATAGAA
1 TAAAAGAAATAGAA
38079 AATAAAGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.70, C:0.00, G:0.13, T:0.17
Consensus pattern (15 bp):
TAAAAGAAATAGAAT
Found at i:38084 original size:16 final size:17
Alignment explanation
Indices: 38045--38084 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
38035 AACAGAATTA
38045 AAAATAAAAGAAAATAG
1 AAAATAAAAGAAAATAG
*
38062 -AATTAAAAG-AAATAG
1 AAAATAAAAGAAAATAG
38077 AAAATAAA
1 AAAATAAA
38085 GAAGACGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (17 bp):
AAAATAAAAGAAAATAG
Found at i:39767 original size:23 final size:22
Alignment explanation
Indices: 39730--39772 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
39720 GGAGTCAAAA
* *
39730 TATAATTTTATCATTTATTAATT
1 TATAATTTAAACATTT-TTAATT
39753 TATAATTTAAACATTTTTAA
1 TATAATTTAAACATTTTTAA
39773 GAGATTTACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (22 bp):
TATAATTTAAACATTTTTAATT
Found at i:40036 original size:2 final size:2
Alignment explanation
Indices: 40031--40060 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
40021 TACATATATT
40031 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
40061 TGAACACAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:58106 original size:31 final size:31
Alignment explanation
Indices: 58068--58139 Score: 92
Period size: 31 Copynumber: 2.3 Consensus size: 31
58058 CCTAAACGTT
**
58068 TTTTTTTTTGTTTGGT-ACTAAAACTTGACAC
1 TTTTTTTTAATTTGGTAACT-AAACTTGACAC
*
58099 TTTTTTTTAATTTGGTAACTAAATTTGACAC
1 TTTTTTTTAATTTGGTAACTAAACTTGACAC
*
58130 TTTTTCTTAA
1 TTTTTTTTAA
58140 GGTCCAATAC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
31 33 0.92
32 3 0.08
ACGTcount: A:0.25, C:0.11, G:0.10, T:0.54
Consensus pattern (31 bp):
TTTTTTTTAATTTGGTAACTAAACTTGACAC
Found at i:60609 original size:40 final size:40
Alignment explanation
Indices: 60501--60658 Score: 156
Period size: 40 Copynumber: 3.9 Consensus size: 40
60491 CGTTTGGACA
* * * *
60501 GAAAATGCCACAAAAGGT-AAAGCAATAGCGACGTTTATAG
1 GAAAAAGCCACTAAAGGTCAGAGCATTAGCGACGTTTA-AG
* * * * *
60541 AAAAAATGCCGCTAAAGGTCAGACCATTAGCGACGCTTACG
1 GAAAAA-GCCACTAAAGGTCAGAGCATTAGCGACGTTTAAG
* *
60582 GAAAAAGCCACTAAAGGTCAGAGCATTAGCGGCGTTTATG
1 GAAAAAGCCACTAAAGGTCAGAGCATTAGCGACGTTTAAG
* * * *
60622 GAAAAGGCCGCTAAAGATCAGAGCATTAGCGGCGTTT
1 GAAAAAGCCACTAAAGGTCAGAGCATTAGCGACGTTT
60659 TCCCATAACG
Statistics
Matches: 98, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
40 67 0.68
41 16 0.16
42 15 0.15
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.18
Consensus pattern (40 bp):
GAAAAAGCCACTAAAGGTCAGAGCATTAGCGACGTTTAAG
Found at i:60649 original size:80 final size:81
Alignment explanation
Indices: 60501--60652 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 81
60491 CGTTTGGACA
* * *
60501 GAAAATGCCACAAAAGGTAAAGCAATAGCGACGTTTATAGAAAAAATGCCGCTAAAGGTCAGACC
1 GAAAAAGCCACAAAAGGTAAAGCAATAGCGACGTTTATAGAAAAAAGGCCGCTAAAGATCAGACC
60566 ATTAGCGACGCTTACG
66 ATTAGCGACGCTTACG
* * * * * *
60582 GAAAAAGCCACTAAAGGTCAGAGCATTAGCGGCGTTTAT-G-GAAAAGGCCGCTAAAGATCAGAG
1 GAAAAAGCCACAAAAGGT-AAAGCAATAGCGACGTTTATAGAAAAAAGGCCGCTAAAGATCAGAC
60645 CATTAGCG
65 CATTAGCG
60653 GCGTTTTCCC
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
80 27 0.44
81 17 0.28
82 17 0.28
ACGTcount: A:0.39, C:0.19, G:0.25, T:0.17
Consensus pattern (81 bp):
GAAAAAGCCACAAAAGGTAAAGCAATAGCGACGTTTATAGAAAAAAGGCCGCTAAAGATCAGACC
ATTAGCGACGCTTACG
Found at i:60672 original size:40 final size:40
Alignment explanation
Indices: 60543--60675 Score: 117
Period size: 40 Copynumber: 3.3 Consensus size: 40
60533 GTTTATAGAA
* * * * * *
60543 AAAATGCCGCTAAAGGTCAGACCATTAGCGACGCTTA-CGG
1 AAAACGCCGCTAAAGATCAGAGCATTAGCGGCGTTTATC-C
* * * **
60583 AAAAAGCCACTAAAGGTCAGAGCATTAGCGGCGTTTATGG
1 AAAACGCCGCTAAAGATCAGAGCATTAGCGGCGTTTATCC
*
60623 AAAAGGCCGCTAAAGATCAGAGCATTAGCGGCGTTT-TCCC
1 AAAACGCCGCTAAAGATCAGAGCATTAGCGGCGTTTAT-CC
*
60663 ATAACGCCGCTAA
1 AAAACGCCGCTAA
60676 TTTATTTAAA
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
39 1 0.01
40 77 0.99
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.19
Consensus pattern (40 bp):
AAAACGCCGCTAAAGATCAGAGCATTAGCGGCGTTTATCC
Found at i:63218 original size:21 final size:21
Alignment explanation
Indices: 63192--63232 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
63182 AACTTAAAGA
*
63192 GGAGGCAGCAGCGAGGGAAGT
1 GGAGGCAGCAGCGAGAGAAGT
63213 GGAGGCAGCAGCGAGAGAAG
1 GGAGGCAGCAGCGAGAGAAG
63233 CAGAGGCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.15, G:0.51, T:0.02
Consensus pattern (21 bp):
GGAGGCAGCAGCGAGAGAAGT
Found at i:63238 original size:21 final size:21
Alignment explanation
Indices: 63193--63240 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
63183 ACTTAAAGAG
* **
63193 GAGGCAGCAGCGAGGGAAGTG
1 GAGGCAGCAGCGAGAGAAGCA
63214 GAGGCAGCAGCGAGAGAAGCA
1 GAGGCAGCAGCGAGAGAAGCA
63235 GAGGCA
1 GAGGCA
63241 ACGAGAAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.48, T:0.02
Consensus pattern (21 bp):
GAGGCAGCAGCGAGAGAAGCA
Found at i:63649 original size:34 final size:34
Alignment explanation
Indices: 63594--63684 Score: 130
Period size: 34 Copynumber: 2.7 Consensus size: 34
63584 TCTATAGCAA
* *
63594 CGTTTGT-GGAAAAACGCCGCTAATCTTTAACGG
1 CGTTTGTGGGGAAAGCGCCGCTAATCTTTAACGG
*
63627 TGTTTGTGGGGAAAGCGCCGCTAATCTTTAACGG
1 CGTTTGTGGGGAAAGCGCCGCTAATCTTTAACGG
* *
63661 CGTTTGTGGGGAAAGTGTCGCTAA
1 CGTTTGTGGGGAAAGCGCCGCTAA
63685 AGACCATGTT
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 6 0.12
34 45 0.88
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.29
Consensus pattern (34 bp):
CGTTTGTGGGGAAAGCGCCGCTAATCTTTAACGG
Found at i:64127 original size:30 final size:28
Alignment explanation
Indices: 64073--64238 Score: 170
Period size: 29 Copynumber: 5.7 Consensus size: 28
64063 TCCGAGGTCA
* *
64073 AAAATGGGATTTTTGGGAGTTCGGGGGT
1 AAAATGGAATTTTTGGAAGTTCGGGGGT
*
64101 AAAATGGTAATTTTTGGAAGGTTCGGGGCT
1 AAAATGG-AATTTTTGGAA-GTTCGGGGGT
* *
64131 AAAAATGGGATTTTTGGAAGTTCAGGGGT
1 -AAAATGGAATTTTTGGAAGTTCGGGGGT
* ** *
64160 AAAATAGTAATTTTTGGAAGATTCAAGGTT
1 AAAAT-GGAATTTTTGGAAG-TTCGGGGGT
* *
64190 AAAAATGGGATTTTTGGAAGTGCGGGGGT
1 -AAAATGGAATTTTTGGAAGTTCGGGGGT
64219 AAAATGGTAATTTTTGGAAG
1 AAAATGG-AATTTTTGGAAG
64239 GTTAGGGGAC
Statistics
Matches: 114, Mismatches: 17, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
28 19 0.17
29 45 0.39
30 38 0.33
31 12 0.11
ACGTcount: A:0.31, C:0.04, G:0.33, T:0.33
Consensus pattern (28 bp):
AAAATGGAATTTTTGGAAGTTCGGGGGT
Found at i:64141 original size:59 final size:59
Alignment explanation
Indices: 64072--64246 Score: 269
Period size: 59 Copynumber: 3.0 Consensus size: 59
64062 ATCCGAGGTC
*
64072 AAAAATGGGATTTTTGGGAGTTCGGGGGTAAAATGGTAATTTTTGGAAGGTTCGGGGCT
1 AAAAATGGGATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTTGGAAGGTTCGGGGCT
* * * ** *
64131 AAAAATGGGATTTTTGGAAGTTCAGGGGTAAAATAGTAATTTTTGGAAGATTCAAGGTT
1 AAAAATGGGATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTTGGAAGGTTCGGGGCT
* *
64190 AAAAATGGGATTTTTGGAAGTGCGGGGGTAAAATGGTAATTTTTGGAAGGTTAGGGG
1 AAAAATGGGATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTTGGAAGGTTCGGGG
64247 ACCTCCGGGG
Statistics
Matches: 102, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 102 1.00
ACGTcount: A:0.30, C:0.03, G:0.34, T:0.32
Consensus pattern (59 bp):
AAAAATGGGATTTTTGGAAGTTCGGGGGTAAAATGGTAATTTTTGGAAGGTTCGGGGCT
Found at i:66021 original size:15 final size:14
Alignment explanation
Indices: 65998--66074 Score: 73
Period size: 15 Copynumber: 5.3 Consensus size: 14
65988 AAACTGTAGT
*
65998 TTGGGCTTTTGTAA
1 TTGGGCATTTGTAA
* *
66012 TTGGGCCTTTGTAT
1 TTGGGCATTTGTAA
*
66026 TTGGGCTATCTGTAA
1 TTGGGC-ATTTGTAA
* *
66041 CTGGGCCATTTGTTA
1 TTGGG-CATTTGTAA
66056 TTGGGTCATTTGTAA
1 TTGGG-CATTTGTAA
66071 TTGG
1 TTGG
66075 ACTTTGTTTT
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
14 18 0.36
15 31 0.62
16 1 0.02
ACGTcount: A:0.14, C:0.12, G:0.29, T:0.45
Consensus pattern (14 bp):
TTGGGCATTTGTAA
Found at i:66039 original size:29 final size:28
Alignment explanation
Indices: 65997--66086 Score: 96
Period size: 30 Copynumber: 3.2 Consensus size: 28
65987 TAAACTGTAG
65997 TTTGGGCT-TTTGTAATTGGGCCTTTGT
1 TTTGGGCTATTTGTAATTGGGCCTTTGT
* *
66024 ATTTGGGCTATCTGTAACTGGGCCATTTGT
1 -TTTGGGCTATTTGTAATTGGGCC-TTTGT
*
66054 TATTGGG-TCATTTGTAATT-GGACTTTGT
1 T-TTGGGCT-ATTTGTAATTGGGCCTTTGT
66082 TTTGG
1 TTTGG
66087 ATTTTTTTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
27 4 0.08
28 14 0.26
29 17 0.32
30 18 0.34
ACGTcount: A:0.13, C:0.11, G:0.28, T:0.48
Consensus pattern (28 bp):
TTTGGGCTATTTGTAATTGGGCCTTTGT
Found at i:66070 original size:30 final size:29
Alignment explanation
Indices: 65992--66086 Score: 83
Period size: 29 Copynumber: 3.3 Consensus size: 29
65982 CTTAGTAAAC
*
65992 TGTAGTTTGGGCT-TTTGTAATTGGGCCTT
1 TGTA-TTTGGGCTATTTGTAACTGGGCCTT
*
66021 TGTATTTGGGCTATCTGTAACTGGGCCATT
1 TGTATTTGGGCTATTTGTAACTGGGCC-TT
* *
66051 TGT-TATTGGG-TCATTTGTAA-TTGGACTT
1 TGTAT-TTGGGCT-ATTTGTAACTGGGCCTT
66079 TGT-TTTGG
1 TGTATTTGG
66087 ATTTTTTTAA
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
27 4 0.07
28 14 0.25
29 22 0.39
30 17 0.30
ACGTcount: A:0.14, C:0.11, G:0.28, T:0.47
Consensus pattern (29 bp):
TGTATTTGGGCTATTTGTAACTGGGCCTT
Found at i:66142 original size:17 final size:16
Alignment explanation
Indices: 66107--66162 Score: 69
Period size: 17 Copynumber: 3.4 Consensus size: 16
66097 TTGGACTTTC
66107 TAAATTT-AATCTTATAA
1 TAAATTTAAAT-TTA-AA
66124 TAAATTTAAATTTCAAA
1 TAAATTTAAATTT-AAA
*
66141 TAAACTTAAATTTAAA
1 TAAATTTAAATTTAAA
66157 TAAATT
1 TAAATT
66163 CAATTTCCTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 8 0.23
17 23 0.66
18 4 0.11
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (16 bp):
TAAATTTAAATTTAAA
Found at i:66286 original size:34 final size:34
Alignment explanation
Indices: 66247--66320 Score: 130
Period size: 34 Copynumber: 2.2 Consensus size: 34
66237 AGAAAAATAC
*
66247 CGCTAATCTTTAACGGTGTTTGTGAGGAAAGCGT
1 CGCTAATCTTTAACGGCGTTTGTGAGGAAAGCGT
*
66281 CGCTAATCTTTAACGGCGTTTGTGGGGAAAGCGT
1 CGCTAATCTTTAACGGCGTTTGTGAGGAAAGCGT
66315 CGCTAA
1 CGCTAA
66321 AGATCATGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.30
Consensus pattern (34 bp):
CGCTAATCTTTAACGGCGTTTGTGAGGAAAGCGT
Found at i:67476 original size:21 final size:21
Alignment explanation
Indices: 67427--67466 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
67417 ATTATTTTAC
67427 ATTGATTTAATTTTGATTTCA
1 ATTGATTTAATTTTGATTTCA
* *
67448 ATTAATTTAATTTTTATTT
1 ATTGATTTAATTTTGATTT
67467 TGAATGATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (21 bp):
ATTGATTTAATTTTGATTTCA
Found at i:79203 original size:31 final size:31
Alignment explanation
Indices: 79155--79214 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
79145 TAAGTCAATA
*
79155 ATTTGAAATAAAAAATGATTTAAACCAAAATT
1 ATTTGAAATAAAAAATGATATAAA-CAAAATT
*
79187 ATTTG-AATATAAAATGATATAAACAAAA
1 ATTTGAAATAAAAAATGATATAAACAAAA
79215 CCCAACAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 5 0.19
31 16 0.62
32 5 0.19
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.30
Consensus pattern (31 bp):
ATTTGAAATAAAAAATGATATAAACAAAATT
Found at i:81982 original size:21 final size:22
Alignment explanation
Indices: 81958--81999 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
81948 TCAAATGAAA
81958 AAATAACTT-AAAAAATAACCC
1 AAATAACTTCAAAAAATAACCC
*
81979 AAATTACTTCAAAAAATAACC
1 AAATAACTTCAAAAAATAACC
82000 TTAAATGACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.60, C:0.19, G:0.00, T:0.21
Consensus pattern (22 bp):
AAATAACTTCAAAAAATAACCC
Found at i:85159 original size:28 final size:29
Alignment explanation
Indices: 85100--85158 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
85090 TTTAATTTTT
*
85100 AAATTAAAATAAGTGAGATTAATAATTTA
1 AAATTAAAATAAATGAGATTAATAATTTA
* *
85129 AAATTAAAATAAAT-ATATTAA-ATTTTA
1 AAATTAAAATAAATGAGATTAATAATTTA
85156 AAA
1 AAA
85159 AATCCAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 8 0.30
28 6 0.22
29 13 0.48
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (29 bp):
AAATTAAAATAAATGAGATTAATAATTTA
Found at i:91836 original size:23 final size:24
Alignment explanation
Indices: 91810--91855 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
91800 TGTATTGATT
91810 TTATAATTTTTA-ATAATTTATTA
1 TTATAATTTTTATATAATTTATTA
*
91833 TTATATTTTTTATATAATTTATT
1 TTATAATTTTTATATAATTTATT
91856 TAATTGAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (24 bp):
TTATAATTTTTATATAATTTATTA
Found at i:107690 original size:21 final size:21
Alignment explanation
Indices: 107668--107708 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
107658 TTATAACCTA
*
107668 TTCCACATTTGTTTTTATTTAT
1 TTCCA-ATTTATTTTTATTTAT
*
107690 TTCTAATTTATTTTTATTT
1 TTCCAATTTATTTTTATTT
107709 TTGATTGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.20, C:0.10, G:0.02, T:0.68
Consensus pattern (21 bp):
TTCCAATTTATTTTTATTTAT
Found at i:108828 original size:31 final size:31
Alignment explanation
Indices: 108790--108851 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
108780 ACGAAATGAA
108790 AAATTTTATATTTTAGAGTATAAGACACTGC
1 AAATTTTATATTTTAGAGTATAAGACACTGC
*
108821 AAATTTTATATTTTAGAGTATAAGGCACTGC
1 AAATTTTATATTTTAGAGTATAAGACACTGC
108852 CAACCCTGGC
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:0.37, C:0.10, G:0.15, T:0.39
Consensus pattern (31 bp):
AAATTTTATATTTTAGAGTATAAGACACTGC
Found at i:111778 original size:23 final size:23
Alignment explanation
Indices: 111711--111785 Score: 114
Period size: 23 Copynumber: 3.3 Consensus size: 23
111701 TGGCGTGCAG
*
111711 TCAGCAGCTTCTAGAAGATCCAA
1 TCAGCAGCTTCTAGAAGATCTAA
*
111734 TCAGCAGCTTTTAGAAGATCTAA
1 TCAGCAGCTTCTAGAAGATCTAA
* *
111757 TCAGCAGCTTCTAGAAGGTCTAG
1 TCAGCAGCTTCTAGAAGATCTAA
111780 TCAGCA
1 TCAGCA
111786 AGGATGGACG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (23 bp):
TCAGCAGCTTCTAGAAGATCTAA
Found at i:114561 original size:198 final size:198
Alignment explanation
Indices: 114223--114619 Score: 776
Period size: 198 Copynumber: 2.0 Consensus size: 198
114213 TGTCTAACCG
114223 ACCAAGTATTTTCTGTGGAACTTGTTGAGCACCGAGTAGTTTTCTACCCAATTTTTGTTGTCTCG
1 ACCAAGTATTTTCTGTGGAACTTGTTGAGCACCGAGTAGTTTTCTACCCAATTTTTGTTGTCTCG
114288 TTTTTCTCGTGTCCATGGTAATTTATTTTGGTACCAAAATAGACCCAAATTTGCTTACATCCATA
66 TTTTTCTCGTGTCCATGGTAATTTATTTTGGTACCAAAATAGACCCAAATTTGCTTACATCCATA
114353 CGTTTAGGTAAAATGGTTGAGAGTACCCTGCAACACAGTGCTAGTAGGCCCAATCACTAACATTC
131 CGTTTAGGTAAAATGGTTGAGAGTACCCTGCAACACAGTGCTAGTAGGCCCAATCACTAACATTC
114418 TAA
196 TAA
*
114421 ACCAAGTATTTTCTGTGGAACTTGTTGAGCACTGAGTAGTTTTCTACCCAATTTTTGTTGTCTCG
1 ACCAAGTATTTTCTGTGGAACTTGTTGAGCACCGAGTAGTTTTCTACCCAATTTTTGTTGTCTCG
114486 TTTTTCTCGTGTCCATGGTAATTTATTTTGGTACCAAAATAGACCCAAATTTGCTTACATCCATA
66 TTTTTCTCGTGTCCATGGTAATTTATTTTGGTACCAAAATAGACCCAAATTTGCTTACATCCATA
*
114551 CGTTTAGGTAAAATGGTTGAGAGTACCCTGCAACACAGTGCTAGTAGGCCCAATCACTAACGTTC
131 CGTTTAGGTAAAATGGTTGAGAGTACCCTGCAACACAGTGCTAGTAGGCCCAATCACTAACATTC
114616 TAA
196 TAA
114619 A
1 A
114620 ATTTTCTGTG
Statistics
Matches: 197, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
198 197 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (198 bp):
ACCAAGTATTTTCTGTGGAACTTGTTGAGCACCGAGTAGTTTTCTACCCAATTTTTGTTGTCTCG
TTTTTCTCGTGTCCATGGTAATTTATTTTGGTACCAAAATAGACCCAAATTTGCTTACATCCATA
CGTTTAGGTAAAATGGTTGAGAGTACCCTGCAACACAGTGCTAGTAGGCCCAATCACTAACATTC
TAA
Found at i:118018 original size:350 final size:350
Alignment explanation
Indices: 117377--118067 Score: 1364
Period size: 350 Copynumber: 2.0 Consensus size: 350
117367 CAATGTATTC
117377 GATAACCGGCTTAATAGGTTTCAGATCACCAACATAATTTCCTAATTTCTAGCCTGGCTTGATCA
1 GATAACCGGCTTAATAGGTTTCAGATCACCAACATAATTTCCTAATTTCTAGCCTGGCTTGATCA
117442 AATGATAAGTCTCTCCATTTTTATTTTTTAACCACCGTCGTTGATCTAAAAAAGATCTTACGAGA
66 AATGATAAGTCTCTCCATTTTTATTTTTTAACCACCGTCGTTGATCTAAAAAAGATCTTACGAGA
117507 TCCCACTTAATAAGATTTTACCATAGACATTATCAAACGAAGTGTATATGAGCATATTTGTAAGA
131 TCCCACTTAATAAGATTTTACCATAGACATTATCAAACGAAGTGTATATGAGCATATTTGTAAGA
117572 AAATTATTGAATTCAAAGTTTAAAAAACATATATTTTGACCAAATACTACCATAATAAGCCAAGA
196 AAATTATTGAATTCAAAGTTTAAAAAACATATATTTTGACCAAATACTACCATAATAAGCCAAGA
117637 TGAATGAGTCGAAAGCAATGGTAGGTTTGTAACATGCTTTTTCTAAAGACCTTTCTTTTGTTTTA
261 TGAATGAGTCGAAAGCAATGGTAGGTTTGTAACATGCTTTTTCTAAAGACCTTTCTTTTGTTTTA
117702 TTAGGTAATATATAACCTATGGGGG
326 TTAGGTAATATATAACCTATGGGGG
*
117727 GATAACCGGCTTAATAGGTTTCAGATCACCAACATAATTTCCTAATTTCTGGCCTGGCTTGATCA
1 GATAACCGGCTTAATAGGTTTCAGATCACCAACATAATTTCCTAATTTCTAGCCTGGCTTGATCA
117792 AATGATAAGTCTCTCCATTTTTATTTTTTAACCACCGTCGTTGATCTAAAAAAGATCTTACGAGA
66 AATGATAAGTCTCTCCATTTTTATTTTTTAACCACCGTCGTTGATCTAAAAAAGATCTTACGAGA
117857 TCCCACTTAATAAGATTTTACCATAGACATTATCAAACGAAGTGTATATGAGCATATTTGTAAGA
131 TCCCACTTAATAAGATTTTACCATAGACATTATCAAACGAAGTGTATATGAGCATATTTGTAAGA
*
117922 AAATTATTGAATTCAAAGTTTTAAAAACATATATTTTGACCAAATACTACCATAATAAGCCAAGA
196 AAATTATTGAATTCAAAGTTTAAAAAACATATATTTTGACCAAATACTACCATAATAAGCCAAGA
117987 TGAATGAGTCGAAAGCAATGGTAGGTTTGTAACATGCTTTTTCTAAAGACCTTTCTTTTGTTTTA
261 TGAATGAGTCGAAAGCAATGGTAGGTTTGTAACATGCTTTTTCTAAAGACCTTTCTTTTGTTTTA
118052 TTAGGTAATATATAAC
326 TTAGGTAATATATAAC
118068 TACTACCATA
Statistics
Matches: 339, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
350 339 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (350 bp):
GATAACCGGCTTAATAGGTTTCAGATCACCAACATAATTTCCTAATTTCTAGCCTGGCTTGATCA
AATGATAAGTCTCTCCATTTTTATTTTTTAACCACCGTCGTTGATCTAAAAAAGATCTTACGAGA
TCCCACTTAATAAGATTTTACCATAGACATTATCAAACGAAGTGTATATGAGCATATTTGTAAGA
AAATTATTGAATTCAAAGTTTAAAAAACATATATTTTGACCAAATACTACCATAATAAGCCAAGA
TGAATGAGTCGAAAGCAATGGTAGGTTTGTAACATGCTTTTTCTAAAGACCTTTCTTTTGTTTTA
TTAGGTAATATATAACCTATGGGGG
Found at i:118095 original size:102 final size:102
Alignment explanation
Indices: 117966--118169 Score: 408
Period size: 102 Copynumber: 2.0 Consensus size: 102
117956 TTTGACCAAA
117966 TACTACCATAATAAGCCAAGATGAATGAGTCGAAAGCAATGGTAGGTTTGTAACATGCTTTTTCT
1 TACTACCATAATAAGCCAAGATGAATGAGTCGAAAGCAATGGTAGGTTTGTAACATGCTTTTTCT
118031 AAAGACCTTTCTTTTGTTTTATTAGGTAATATATAAC
66 AAAGACCTTTCTTTTGTTTTATTAGGTAATATATAAC
118068 TACTACCATAATAAGCCAAGATGAATGAGTCGAAAGCAATGGTAGGTTTGTAACATGCTTTTTCT
1 TACTACCATAATAAGCCAAGATGAATGAGTCGAAAGCAATGGTAGGTTTGTAACATGCTTTTTCT
118133 AAAGACCTTTCTTTTGTTTTATTAGGTAATATATAAC
66 AAAGACCTTTCTTTTGTTTTATTAGGTAATATATAAC
118170 CAAAGTATAC
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 102 1.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (102 bp):
TACTACCATAATAAGCCAAGATGAATGAGTCGAAAGCAATGGTAGGTTTGTAACATGCTTTTTCT
AAAGACCTTTCTTTTGTTTTATTAGGTAATATATAAC
Found at i:119515 original size:22 final size:23
Alignment explanation
Indices: 119459--119516 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
119449 ATTATTTAAT
119459 AATATTATAAAAATAAATAAATTA
1 AATATTATAAAAATAAAT-AATTA
* *
119483 AAT-TATGTAAAATTAAAT-ATTA
1 AATAT-TATAAAAATAAATAATTA
119505 AATATTATAAAA
1 AATATTATAAAA
119517 GGAACAAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
22 13 0.45
23 2 0.07
24 14 0.48
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (23 bp):
AATATTATAAAAATAAATAATTA
Found at i:124329 original size:2 final size:2
Alignment explanation
Indices: 124322--124349 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
124312 TTGAAAGAGG
124322 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
124350 GCAATCATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.