Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01005925.1 Kokia drynarioides strain JFW-HI SEQ_120301, 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: 120179
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:14707 original size:22 final size:23
Alignment explanation
Indices: 14665--14708 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
14655 AATTTGATTT
*
14665 ACTTTTAGTTGCACTGACAATTA
1 ACTTTTAGTTACACTGACAATTA
*
14688 ACTTTTA-TTACATTGACAATT
1 ACTTTTAGTTACACTGACAATT
14709 TTGACTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.43
Consensus pattern (23 bp):
ACTTTTAGTTACACTGACAATTA
Found at i:24033 original size:25 final size:23
Alignment explanation
Indices: 24005--24050 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
23995 GTTGGATCCA
24005 AATTAAATTCTAAAAAGATAATTAG
1 AATTAAA-TCTAAAAA-ATAATTAG
*
24030 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
24051 CCCTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTAG
Found at i:25103 original size:11 final size:11
Alignment explanation
Indices: 25089--25125 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
25079 TTTCTACTTG
25089 TTTTTTCCAAT
1 TTTTTTCCAAT
*
25100 TTTTTT-C-TT
1 TTTTTTCCAAT
25109 TTTTTTCCAAT
1 TTTTTTCCAAT
25120 TTTTTT
1 TTTTTT
25126 TCTTTTTCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 7 0.32
10 2 0.09
11 13 0.59
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTTCCAAT
Found at i:25114 original size:20 final size:21
Alignment explanation
Indices: 25089--25132 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
25079 TTTCTACTTG
25089 TTTTTTCCAA-TTTTTTTCTT
1 TTTTTTCCAATTTTTTTTCTT
25109 TTTTTTCCAATTTTTTTTCTT
1 TTTTTTCCAATTTTTTTTCTT
25130 TTT
1 TTT
25133 CTAAATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (21 bp):
TTTTTTCCAATTTTTTTTCTT
Found at i:26091 original size:6 final size:6
Alignment explanation
Indices: 26069--26120 Score: 67
Period size: 6 Copynumber: 9.2 Consensus size: 6
26059 TGCATAATTA
26069 AAATA- AAAT-T AAA-AT AAATAT AAATAT AAATAT AAATAT GAAA-AT
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT -AAATAT
26114 AAATAT A
1 AAATAT A
26121 CTAATTTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
5 14 0.33
6 25 0.60
7 3 0.07
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (6 bp):
AAATAT
Found at i:31379 original size:22 final size:23
Alignment explanation
Indices: 31327--31379 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
31317 CCATCATTGT
*
31327 TGACTAGACCTTCTAGAAGCTAC
1 TGACTGGACCTTCTAGAAGCTAC
* * *
31350 TCAATGGACCTTCTAG-AGCTGC
1 TGACTGGACCTTCTAGAAGCTAC
31372 TGACTGGA
1 TGACTGGA
31380 TGCCATGTTA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (23 bp):
TGACTGGACCTTCTAGAAGCTAC
Found at i:39665 original size:23 final size:23
Alignment explanation
Indices: 39611--39668 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
39601 CATCCATCAT
*
39611 TGCTGACTAGACCTTCTAGAAGC
1 TGCTGACTGGACCTTCTAGAAGC
*
39634 TGCTGACTGGACCTTTTAGAAGC
1 TGCTGACTGGACCTTCTAGAAGC
39657 TGCTGACTGGAC
1 TGCTGACTGGAC
39669 GCCATGTCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (23 bp):
TGCTGACTGGACCTTCTAGAAGC
Found at i:41365 original size:32 final size:32
Alignment explanation
Indices: 41329--41415 Score: 104
Period size: 32 Copynumber: 2.7 Consensus size: 32
41319 AGTAAACTTT
* *
41329 TAATTTTTCAGAATAATGATATCTATTTTTTG
1 TAATTTTTCAGAATAACGATATCGATTTTTTG
** *
41361 TAATTTCACAGAATAACAATATCGATTTTTTG
1 TAATTTTTCAGAATAACGATATCGATTTTTTG
*
41393 TTATTTTAT-AGAATAACGATATC
1 TAATTTT-TCAGAATAACGATATC
41416 AAAGAAGAAC
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.46
Consensus pattern (32 bp):
TAATTTTTCAGAATAACGATATCGATTTTTTG
Found at i:64853 original size:9 final size:9
Alignment explanation
Indices: 64841--64873 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
64831 ATAATAATAA
*
64841 TATTATTAT
1 TATTGTTAT
64850 TATTGTTAT
1 TATTGTTAT
64859 TATTGTTAT
1 TATTGTTAT
64868 TATTGT
1 TATTGT
64874 GAATAAGGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (9 bp):
TATTGTTAT
Found at i:65454 original size:32 final size:32
Alignment explanation
Indices: 65382--65447 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
65372 GCATTCCCCC
65382 AAACTTAAAGTTTTCATTGTCCCCAATGCACT
1 AAACTTAAAGTTTTCATTGTCCCCAATGCACT
65414 AAACTTAAAGTTTTCATTGTCCCCAATGCACT
1 AAACTTAAAGTTTTCATTGTCCCCAATGCACT
65446 AA
1 AA
65448 CATTAAAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.33
Consensus pattern (32 bp):
AAACTTAAAGTTTTCATTGTCCCCAATGCACT
Found at i:73805 original size:36 final size:36
Alignment explanation
Indices: 73761--73845 Score: 152
Period size: 36 Copynumber: 2.4 Consensus size: 36
73751 ACATAGTCAA
*
73761 TTGCAACCACAATCGCGATTACCGCCACAATCAATC
1 TTGCAACCACAATCGCGATTACCGCCACAATCAAGC
*
73797 TTGTAACCACAATCGCGATTACCGCCACAATCAAGC
1 TTGCAACCACAATCGCGATTACCGCCACAATCAAGC
73833 TTGCAACCACAAT
1 TTGCAACCACAAT
73846 TGCAAGGACA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.34, C:0.34, G:0.12, T:0.20
Consensus pattern (36 bp):
TTGCAACCACAATCGCGATTACCGCCACAATCAAGC
Found at i:85633 original size:21 final size:21
Alignment explanation
Indices: 85607--85657 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
85597 ATCAGTACAC
85607 TCAGATGCATCCATATAAGAA
1 TCAGATGCATCCATATAAGAA
85628 TCAGATGCATCCATATAAGAA
1 TCAGATGCATCCATATAAGAA
85649 TCAGATGCA
1 TCAGATGCA
85658 GCCACAACAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.24
Consensus pattern (21 bp):
TCAGATGCATCCATATAAGAA
Found at i:95176 original size:15 final size:16
Alignment explanation
Indices: 95140--95175 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
95130 GAATAATCTG
*
95140 TTTTTGAGACTTTTAA
1 TTTTTGAGACTTGTAA
95156 TTTTTGAGACTTGTAA
1 TTTTTGAGACTTGTAA
95172 TTTT
1 TTTT
95176 GGGATTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.06, G:0.14, T:0.58
Consensus pattern (16 bp):
TTTTTGAGACTTGTAA
Found at i:97955 original size:105 final size:108
Alignment explanation
Indices: 97809--98018 Score: 345
Period size: 106 Copynumber: 2.0 Consensus size: 108
97799 ACTGAATATA
*
97809 ATTTAACGTAATTATAATTGTTAATTATAAAGATTTCGTTAAATATT-AAAACATGGAAGTTAAT
1 ATTTAACGTAATTATAATTATTAATTATAAAGATTTCGTTAAATATTAAAAACATGGAAGTTAAT
* *
97873 ATCCTTTTGGAAATG-ATATAATGTTTTAATAAACCTTCACTT
66 ATCCTTTTGGAAAGGAATATAATATTTTAATAAACCTTCACTT
* *
97915 ATTTAATGTAATTAT-ATTATTAATTATAATGATTTCGTTAAATATTAAAAACATGGAAGTTAAT
1 ATTTAACGTAATTATAATTATTAATTATAAAGATTTCGTTAAATATTAAAAACATGGAAGTTAAT
97979 ATCCTTTTGGAAAGGATATATAATATTTTAATAAACCTTC
66 ATCCTTTTGGAAAGGA-ATATAATATTTTAATAAACCTTC
98019 CATATATTTC
Statistics
Matches: 96, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
105 29 0.30
106 45 0.47
108 22 0.23
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (108 bp):
ATTTAACGTAATTATAATTATTAATTATAAAGATTTCGTTAAATATTAAAAACATGGAAGTTAAT
ATCCTTTTGGAAAGGAATATAATATTTTAATAAACCTTCACTT
Found at i:98267 original size:122 final size:123
Alignment explanation
Indices: 97955--98434 Score: 757
Period size: 123 Copynumber: 3.9 Consensus size: 123
97945 GATTTCGTTA
97955 AATATTAAAAACATGGAAGTTAATATCCTTTTGGAAAGGATATATAATATTTTAATAAACCTTCC
1 AATATTAAAAACATGGAAGTTAATATCCTTTTGGAAAGG--ATATAATATTTTAATAAACCTTCC
*
98020 ATATATTTCTTTAAAAGAATATTTTCATTTTAATATGAGATATTATATAAAAGAAAATTG
64 ATATATTTCTTTAAAGGAATATTTTCATTTTAATATGAGATATTATATAAAAGAAAATTG
* *
98080 AATATTAAAAACATGGAAGTTAATATCCATTTGGAAAGGATATAATATTTTAATAAACCTACCAT
1 AATATTAAAAACATGGAAGTTAATATCCTTTTGGAAAGGATATAATATTTTAATAAACCTTCCAT
*
98145 ATATTTCTTTAAAGGAATATTTTTATTTTAATATGAGATATTATATAAAA-AAAATTG
66 ATATTTCTTTAAAGGAATATTTTCATTTTAATATGAGATATTATATAAAAGAAAATTG
* * * *
98202 AATATTAAAAATATGGAAGTTAATATCCTTTCGGAAAGGATATAATGTTTTAATAAATCTTCCAT
1 AATATTAAAAACATGGAAGTTAATATCCTTTTGGAAAGGATATAATATTTTAATAAACCTTCCAT
* * *
98267 ATATTTCTTGAAAGAAATATTTTCATTTTAATATGAGATATTATATAAAAGGAAATTG
66 ATATTTCTTTAAAGGAATATTTTCATTTTAATATGAGATATTATATAAAAGAAAATTG
* **
98325 AATATTAAAAACATGGAAGTTAATATCCTTTTGGAAAGGATATAATGTTTTAATAAACCTTTTAT
1 AATATTAAAAACATGGAAGTTAATATCCTTTTGGAAAGGATATAATATTTTAATAAACCTTCCAT
* *
98390 ATATTTCTCTAAA-GATATATATTTCTATTTTAATATGATATATTA
66 ATATTTCTTTAAAGGA-ATAT-TTTC-ATTTTAATATGAGATATTA
98435 AAATAAAAAG
Statistics
Matches: 328, Mismatches: 23, Indels: 8
0.91 0.06 0.02
Matches are distributed among these distances:
122 114 0.35
123 154 0.47
124 4 0.01
125 56 0.17
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (123 bp):
AATATTAAAAACATGGAAGTTAATATCCTTTTGGAAAGGATATAATATTTTAATAAACCTTCCAT
ATATTTCTTTAAAGGAATATTTTCATTTTAATATGAGATATTATATAAAAGAAAATTG
Found at i:98394 original size:245 final size:249
Alignment explanation
Indices: 97955--98443 Score: 783
Period size: 245 Copynumber: 2.0 Consensus size: 249
97945 GATTTCGTTA
*
97955 AATATTAAAAACATGGAAGTTAATATCCTTTTGGAAAGGATATATAATATTTTAATAAACCTTCC
1 AATATTAAAAACATGGAAGTTAATATCCTTTCGGAAAGGA-ATATAATATTTTAATAAACCTTCC
*
98020 ATATATTTCTTTAAAAGAATATTTTCATTTTAATATGAGATATTATATAAAAGAAAATTGAATAT
65 ATATATTTCTTGAAAAGAATATTTTCATTTTAATATGAGATATTATATAAAAGAAAATTGAATAT
98085 TAAAAACATGGAAGTTAATATCCATTTGGAAAGGATATAATATTTTAATAAACCTACCATATATT
130 TAAAAACATGGAAGTTAATATCCATTTGGAAAGGATATAATATTTTAATAAACCTACCATATATT
* *
98150 TCTTTAAAGGA-ATAT-TTT-TATTTTAATATGAGATATT-ATATAAAAAAAATTG
195 TCTCTAAA-GATATATATTTCTATTTTAATATGAGATATTAAAATAAAAAAAATTG
* * *
98202 AATATTAAAAATATGGAAGTTAATATCCTTTCGGAAAGG-ATATAATGTTTTAATAAATCTTCCA
1 AATATTAAAAACATGGAAGTTAATATCCTTTCGGAAAGGAATATAATATTTTAATAAACCTTCCA
*
98266 TATATTTCTTG-AAAGAAATATTTTCATTTTAATATGAGATATTATATAAAAGGAAATTGAATAT
66 TATATTTCTTGAAAAG-AATATTTTCATTTTAATATGAGATATTATATAAAAGAAAATTGAATAT
* * ***
98330 TAAAAACATGGAAGTTAATATCCTTTTGGAAAGGATATAATGTTTTAATAAACCTTTTATATATT
130 TAAAAACATGGAAGTTAATATCCATTTGGAAAGGATATAATATTTTAATAAACCTACCATATATT
*
98395 TCTCTAAAGATATATATTTCTATTTTAATATGATATATTAAAATAAAAA
195 TCTCTAAAGATATATATTTCTATTTTAATATGAGATATTAAAATAAAAA
98444 GGAAAGATAG
Statistics
Matches: 223, Mismatches: 14, Indels: 9
0.91 0.06 0.04
Matches are distributed among these distances:
244 6 0.03
245 151 0.68
246 3 0.01
247 55 0.25
248 8 0.04
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (249 bp):
AATATTAAAAACATGGAAGTTAATATCCTTTCGGAAAGGAATATAATATTTTAATAAACCTTCCA
TATATTTCTTGAAAAGAATATTTTCATTTTAATATGAGATATTATATAAAAGAAAATTGAATATT
AAAAACATGGAAGTTAATATCCATTTGGAAAGGATATAATATTTTAATAAACCTACCATATATTT
CTCTAAAGATATATATTTCTATTTTAATATGAGATATTAAAATAAAAAAAATTG
Found at i:100774 original size:26 final size:26
Alignment explanation
Indices: 100718--100775 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
100708 TATTTTTCTA
*
100718 ATTTTCAATTTATTTAATTTATTAACT
1 ATTTT-AATTTATTTAAATTATTAACT
*
100745 -TTTTAATTTATTTTAAATTGTTAA-T
1 ATTTTAATTTA-TTTAAATTATTAACT
100770 ATTTTA
1 ATTTTA
100776 TACTAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 7 0.26
26 20 0.74
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (26 bp):
ATTTTAATTTATTTAAATTATTAACT
Found at i:101437 original size:63 final size:63
Alignment explanation
Indices: 101338--101465 Score: 229
Period size: 63 Copynumber: 2.0 Consensus size: 63
101328 CGATAGCAAA
*
101338 AGTGTGGTTTTACTTTATTCGATTCAGTCTCATGCCTATCCCACAAGGAACTATAGTTTCATT
1 AGTGTAGTTTTACTTTATTCGATTCAGTCTCATGCCTATCCCACAAGGAACTATAGTTTCATT
* *
101401 AGTGTAGTTTTACTTTATTTGATTCAGTCTCATGCCTATCCTACAAGGAACTATAGTTTCATT
1 AGTGTAGTTTTACTTTATTCGATTCAGTCTCATGCCTATCCCACAAGGAACTATAGTTTCATT
101464 AG
1 AG
101466 AACGAATGGT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.25, C:0.19, G:0.16, T:0.41
Consensus pattern (63 bp):
AGTGTAGTTTTACTTTATTCGATTCAGTCTCATGCCTATCCCACAAGGAACTATAGTTTCATT
Found at i:101722 original size:78 final size:78
Alignment explanation
Indices: 101592--102709 Score: 1303
Period size: 78 Copynumber: 14.2 Consensus size: 78
101582 TTCACAATAA
*
101592 CATGGGGCAAATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACACACTAAT
1 CATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACACACTAAT
*
101657 CTCTTACCCCGAG
66 CTCTTACCCCGAT
* * * * *
101670 CATGGGGCAGATTGAAGCATCCGATCTTTTACCCTAATCAGATGGCAAATTGAAAACATCATCTG
1 CATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACA-CA-CTA
*
101735 ATCTCTTACCCTGAT
64 ATCTCTTACCCCGAT
** * * *** *
101750 CATAAGGCAGATTGAAGCATCCAGTCTTTTACCCTAATTAGAGAATAGATTGAAGACACACCAAT
1 CATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACACACTAAT
**
101815 CTCTTACCTAGAT
66 CTCTTACCCCGAT
* * * * *
101828 CATGGGGCAGATCGAAGCATCCAATCTTTTACCCTAATTAGACGGCAGATTAAAGACACACCAAT
1 CATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACACACTAAT
101893 CTCTTACCCCGAT
66 CTCTTACCCCGAT
* ** * *
101906 CATGCGTTAGATTGAAGCATCCAATCTTTTGCCCTAATCAGAGGGCAGATTGAAGACACACCAAT
1 CATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACACACTAAT
* *
101971 CACTTACCCCTAT
66 CTCTTACCCCGAT
* * * *
101984 CATGGGGTAGATTGAAGCATTCAATCTTTTACCCTAATTAGAGGGCAGATTGAAGACACACCAAT
1 CATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACACACTAAT
*
102049 CTCTTACTCCGAT
66 CTCTTACCCCGAT
* * *
102062 CATGGGGTAGATTGAAGCATTCAATC-TTTACCCTAATCAGAAGGCAGATTGAAGACATCATCTA
1 CATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACA-CA-CTA
* *
102126 ATTTCTTGCCCCGAT
64 ATCTCTTACCCCGAT
* * *
102141 CATGGGGCAGATTAAAGCATCCAATCTTTTACCCTAATCAGAGGGTAGATTAAAGACACA-TCAA
1 CATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACACACT-AA
*
102205 TCTCTTACCCTGAT
65 TCTCTTACCCCGAT
* ** * **
102219 CATGGGGCAGATTAAAGCATCTGATCTTTTACCCTAATCAGATGATAGATTGAAGACATCA-TGC
1 CATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACA-CACT--
*
102283 AATCTCTTACCCTGAT
63 AATCTCTTACCCCGAT
*
102299 CATGGGGCAGATTGAAGCAT-CAAGTCTTTTACCCTAATCAGAGGGCAGATTGAAGACACACCAA
1 CATGGGGCAGATTGAAGCATCCAA-TCTTTTACCCTAATCAGAGGGCAGATTGAAGACACACTAA
* *
102363 TATCTTAACCCGAT
65 TCTCTTACCCCGAT
* * * * *
102377 CATAGGGTAGATTGAAGCATCCAATCTTTTACCCTAATCAGAAGGCAGATTGAAGACAAACAAAT
1 CATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACACACTAAT
102442 CTCTTACCCCGAT
66 CTCTTACCCCGAT
* * * * * * *
102455 CATGGGGCAGATTGAAGCATCTAATCTTCTACCCTAATTAAAGGGTAGATTGAAAACATAAC-AA
1 CATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACA-CACTAA
* *
102519 TCTCTTACGCCGAC
65 TCTCTTACCCCGAT
* * *
102533 CATGGGGCAGATTAAAGCATCCAATCTTTTACCCTAATCAGAGGGCTGATTGAAGACACACTGAT
1 CATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACACACTAAT
* *
102598 CTTTTACCCTGAT
66 CTCTTACCCCGAT
* * * * *** *
102611 CATGGGGCAGGTTGAATTCATCCAATCTCTTACCTTGGGCATG-GGGCAAATTGAAGACATCATC
1 CATGGGGCAGATTGAA-GCATCCAATCTTTTACCCTAATCA-GAGGGCAGATTGAAGACA-CA-C
*
102675 TAATCTCTTACCCCAAT
62 TAATCTCTTACCCCGAT
** *
102692 TTTGAGGCAGATTGAAGC
1 CATGGGGCAGATTGAAGC
102710 CACAATCCAA
Statistics
Matches: 890, Mismatches: 133, Indels: 32
0.84 0.13 0.03
Matches are distributed among these distances:
77 32 0.04
78 584 0.66
79 87 0.10
80 161 0.18
81 26 0.03
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (78 bp):
CATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGCAGATTGAAGACACACTAAT
CTCTTACCCCGAT
Found at i:104433 original size:10 final size:9
Alignment explanation
Indices: 104413--104442 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
104403 TTAACCCTTG
*
104413 TTTTGTATT
1 TTTTTTATT
104422 TTTTTTATT
1 TTTTTTATT
104431 TTTTTTATT
1 TTTTTTATT
104440 TTT
1 TTT
104443 ACTTTAAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.87
Consensus pattern (9 bp):
TTTTTTATT
Done.