Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003925.1 Hibiscus syriacus cultivar Beakdansim tig00008484_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: 72417
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34
Found at i:11744 original size:21 final size:21
Alignment explanation
Indices: 11720--11766 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
11710 CTATATGTGT
11720 ATGCAAGCATTCATGTAAGGA
1 ATGCAAGCATTCATGTAAGGA
11741 ATGCAAGCATTCATGTAAGGA
1 ATGCAAGCATTCATGTAAGGA
11762 ATGCA
1 ATGCA
11767 TGTTTATGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (21 bp):
ATGCAAGCATTCATGTAAGGA
Found at i:21941 original size:16 final size:16
Alignment explanation
Indices: 21922--21970 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
21912 TCAAAATAAG
21922 AATAATTCAAAATTTT
1 AATAATTCAAAATTTT
* * *
21938 AATACTT---AAGTTA
1 AATAATTCAAAATTTT
21951 AATAATTCAAAATTTT
1 AATAATTCAAAATTTT
21967 AATA
1 AATA
21971 CTTAAGTGTC
Statistics
Matches: 24, Mismatches: 6, Indels: 6
0.67 0.17 0.17
Matches are distributed among these distances:
13 10 0.42
16 14 0.58
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (16 bp):
AATAATTCAAAATTTT
Found at i:21986 original size:29 final size:29
Alignment explanation
Indices: 21922--21977 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
21912 TCAAAATAAG
21922 AATAATTCAAAATTTTAATACTTAAGTTA
1 AATAATTCAAAATTTTAATACTTAAGTTA
21951 AATAATTCAAAATTTTAATACTTAAGT
1 AATAATTCAAAATTTTAATACTTAAGT
21978 GTCTAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (29 bp):
AATAATTCAAAATTTTAATACTTAAGTTA
Found at i:25394 original size:17 final size:17
Alignment explanation
Indices: 25369--25405 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
25359 CCGGTTTCGG
25369 TTTTAAAAAAACCGATT
1 TTTTAAAAAAACCGATT
* *
25386 TTTTTAAAAAACCGGTT
1 TTTTAAAAAAACCGATT
25403 TTT
1 TTT
25406 AATCCGGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (17 bp):
TTTTAAAAAAACCGATT
Found at i:30800 original size:16 final size:16
Alignment explanation
Indices: 30743--30819 Score: 68
Period size: 16 Copynumber: 4.8 Consensus size: 16
30733 TTCATATTGC
* *
30743 TTTCGATTCTGATTAAT
1 TTTCGATTCGGGTT-AT
*
30760 TTTCGA-TCGGGTTAAA
1 TTTCGATTCGGGTT-AT
30776 TTT-GATTCGGGTTAT
1 TTTCGATTCGGGTTAT
* * *
30791 TTTCGGTTCGGATTGT
1 TTTCGATTCGGGTTAT
30807 TTTCGATTCGGGT
1 TTTCGATTCGGGT
30820 CCAATTAGAT
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
15 6 0.12
16 37 0.76
17 6 0.12
ACGTcount: A:0.16, C:0.12, G:0.25, T:0.48
Consensus pattern (16 bp):
TTTCGATTCGGGTTAT
Found at i:31740 original size:32 final size:32
Alignment explanation
Indices: 31684--31760 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 32
31674 TATAATACAT
* *
31684 CATCACTTATGTACGAATAGCATATATCACAC
1 CATCATTTATGTACGAATAACATATATCACAC
* *
31716 CATCATTTATGTAC-ACATAACATATATCATAT
1 CATCATTTATGTACGA-ATAACATATATCACAC
*
31748 CATTATTTATGTA
1 CATCATTTATGTA
31761 TATAGTGAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
31 1 0.03
32 38 0.97
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.36
Consensus pattern (32 bp):
CATCATTTATGTACGAATAACATATATCACAC
Found at i:49493 original size:21 final size:21
Alignment explanation
Indices: 49453--49493 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
49443 GCTCTGTTTT
* * *
49453 ATTGTTATTAGTGGTGTTGTA
1 ATTGTTATTACTAGTATTGTA
49474 ATTGTTATTACTAGTATTGT
1 ATTGTTATTACTAGTATTGT
49494 TATAAGCTCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.02, G:0.22, T:0.54
Consensus pattern (21 bp):
ATTGTTATTACTAGTATTGTA
Found at i:52795 original size:76 final size:74
Alignment explanation
Indices: 52684--52832 Score: 226
Period size: 76 Copynumber: 2.0 Consensus size: 74
52674 TATTAGGGAC
* ** * *
52684 TAAAATGCTTAAAAGAAAATTTGTCTTGCAATAAAATATTTGGATTAAAATATTTAAAAGAATAA
1 TAAAATGCTTAAAAGAAAATTTGTCTTACAATAAAATATTTAAATTAAAACATTTAAAAGAAAAA
52749 AAATCAAAT
66 AAATCAAAT
*
52758 TAAAATGTTTAAAAGAAAATTTTTGTCTTACAATAAAATATTTAAATTAAAACATTTAAAAGAAA
1 TAAAATGCTTAAAAGAAAA--TTTGTCTTACAATAAAATATTTAAATTAAAACATTTAAAAGAAA
52823 AAAAATCAAA
64 AAAAATCAAA
52833 GCGATTATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
74 18 0.27
76 49 0.73
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.32
Consensus pattern (74 bp):
TAAAATGCTTAAAAGAAAATTTGTCTTACAATAAAATATTTAAATTAAAACATTTAAAAGAAAAA
AAATCAAAT
Found at i:58715 original size:182 final size:183
Alignment explanation
Indices: 58452--59292 Score: 1099
Period size: 183 Copynumber: 4.6 Consensus size: 183
58442 GCAATATTTT
* * ** * * *
58452 AGGTACAAATATGACAAAACCGGTC-CCAAAATGACAAAACC--GATAAAACGCTACCGGATATG
1 AGGTAAAAATATGATAAAACATGTCTCAAAAATGACAAAACCAGGA-AAAA-GTTACCGGATATA
*
58514 TGTCG--AGTGTTGATAATTTAATATAAGTATCGAAACTTTCTGAATTTAAAAGAGAAGAAGTTA
64 T-T-GAAAGTGTCGATAATTTAATATAAGTATCGAAACTTTCTGAATTTAAAAGAGAAGAAGTTA
* *
58577 TAGTGCCTATAAAGTGTCGATACTTTAAAAAAATATATCGATCCACAACAATATAAC
127 TAGCGCCTAAAAAGTGTCGATACTTTAAAAAAATATATCGATCCACAACAATATAAC
* *
58634 AGATAAAAATATGATAAAAC-TGATCTCAAAAATGACAAAA-CAGGAAAAAGTTACTGGATATAT
1 AGGTAAAAATATGATAAAACATG-TCTCAAAAATGACAAAACCAGGAAAAAGTTACCGGATATAT
* *
58697 TGAAAGTGTCGATAATTTAATATTAGTATCGACACTTTCTGAATTTAAAAGAGAAGAAGTTATAG
65 TGAAAGTGTCGATAATTTAATATAAGTATCGAAACTTTCTGAATTTAAAAGAGAAGAAGTTATAG
** ** *
58762 CGCCTAAAAAGTGTCGATACTTTATGAAAATATATCGATCCTTACCAATATAAC
130 CGCCTAAAAAGTGTCGATACTTTAAAAAAATATATCGATCCACAACAATATAAC
* * * *
58816 AGGTAAAAATATGATAAAACATGTC-CTAAAAATGACAAAAACATGAAAAAATTACCGGATATGT
1 AGGTAAAAATATGATAAAACATGTCTC-AAAAATGACAAAACCAGGAAAAAGTTACCGGATATAT
* * * *
58880 TAAAAGTGTCGATAATTTAATATAAGTATCGATACTTTCTGAATTTAAAAGAGAAAAAGTTATTG
65 TGAAAGTGTCGATAATTTAATATAAGTATCGAAACTTTCTGAATTTAAAAGAGAAGAAGTTATAG
* * ** * *
58945 CGCTTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAAC
130 CGCCTAAAAAGTGTCGATACTTTAAAAAAATATATCGATCCACAACAATATAAC
* * * * *
58999 AGGTAAAAATATAATAAAACATGTCTCAAAATTGATAAAACCAGTAAAACGTTACCGGATATATT
1 AGGTAAAAATATGATAAAACATGTCTCAAAAATGACAAAACCAGGAAAAAGTTACCGGATATATT
* *
59064 GAAAGTGTCGATAATTTAATATAGGTATCGAAACTTTCTGAATTTAAAAGAGAATAAGTTATAGC
66 GAAAGTGTCGATAATTTAATATAAGTATCGAAACTTTCTGAATTTAAAAGAGAAGAAGTTATAGC
*
59129 GCCTATAAAGTGTCGATACTTT-AAAAAA-ATATCGATCCACAACAATATAAC
131 GCCTAAAAAGTGTCGATACTTTAAAAAAATATATCGATCCACAACAATATAAC
* * * * * * *
59180 AGGTAAAAATATGATAAAACATGTCCCAAAATTGACAAAACCAGTAAAACGATACCGAATATGTT
1 AGGTAAAAATATGATAAAACATGTCTCAAAAATGACAAAACCAGGAAAAAGTTACCGGATATATT
* * *
59245 GAAAGTGTCGATAATTTAATATAAGTATCGACACTTTATGAAATTAAA
66 GAAAGTGTCGATAATTTAATATAAGTATCGAAACTTTCTGAATTTAAA
59293 CTAAAAAGTG
Statistics
Matches: 585, Mismatches: 64, Indels: 21
0.87 0.10 0.03
Matches are distributed among these distances:
180 1 0.00
181 127 0.22
182 174 0.30
183 280 0.48
184 3 0.01
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.28
Consensus pattern (183 bp):
AGGTAAAAATATGATAAAACATGTCTCAAAAATGACAAAACCAGGAAAAAGTTACCGGATATATT
GAAAGTGTCGATAATTTAATATAAGTATCGAAACTTTCTGAATTTAAAAGAGAAGAAGTTATAGC
GCCTAAAAAGTGTCGATACTTTAAAAAAATATATCGATCCACAACAATATAAC
Found at i:59331 original size:164 final size:161
Alignment explanation
Indices: 59135--59455 Score: 464
Period size: 163 Copynumber: 2.0 Consensus size: 161
59125 TAGCGCCTAT
* *
59135 AAAGTGTCGATACTTTAAAAAAATATCGATCCACAACAATATAACAGGTAAAAATATGATAAAAC
1 AAAGTGTCGACACTTTAAAAAAATATCGATCCACAACAATATAACAAGTAAAAATATGATAAAAC
* * * * *
59200 ATG-TCCCAAAATTGACAAAACCAGTAAAACGATACCGAATATGTTGAAAGTGTCGATAATTTAA
66 -TGATCCCAAAAATGACAAAACC-GGAAAAAGATACCGAATATATTGAAAGTATCGATAATTTAA
59264 TATAAGTATCGACACTTTATGAAATTAAACTAA
129 TATAAGTATCGACACTTTATGAAATTAAACTAA
** *
59297 AAAGTGTCGACACTTTATGAAAATGTATCGATCCATAACAATATAACAAGTAAAAATATGATAAA
1 AAAGTGTCGACACTTTA--AAAAAATATCGATCCACAACAATATAACAAGTAAAAATATGATAAA
* * *
59362 ACTGATCTCAAAAATGACAAAACCGGAAAAAGTTACCGGATATATTGAAAGTATCGATAATTTAA
64 ACTGATCCCAAAAATGACAAAACCGGAAAAAGATACCGAATATATTGAAAGTATCGATAATTTAA
* *
59427 TATTAGTATCGACACTTTATGAATTTAAA
129 TATAAGTATCGACACTTTATGAAATTAAA
59456 AGAAAAGAAG
Statistics
Matches: 141, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
162 16 0.11
163 64 0.45
164 61 0.43
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (161 bp):
AAAGTGTCGACACTTTAAAAAAATATCGATCCACAACAATATAACAAGTAAAAATATGATAAAAC
TGATCCCAAAAATGACAAAACCGGAAAAAGATACCGAATATATTGAAAGTATCGATAATTTAATA
TAAGTATCGACACTTTATGAAATTAAACTAA
Found at i:59988 original size:198 final size:200
Alignment explanation
Indices: 59634--60137 Score: 644
Period size: 198 Copynumber: 2.5 Consensus size: 200
59624 AGGTTCACGC
* * * *
59634 ATAAAGTGTCAATACATTTAAAATTGTATCGATCACAAAAACATCGAAACCGATAATTATAATGT
1 ATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATAGAAA-CGAAAATTATAATGT
* * * *
59699 AATAGGTCAATTTACAATGTAACCGATTTAAATTTATCGATTTTATAAGAAAATAGGTCAGAATA
65 AATAGGTAAATTTACAATGT-ACCGGTATAAATATATCGATTTTATAAGAAAATAGGTCAGAATA
* *
59764 AAGTATCTACACTTGTGTAATTTGTGTCGATACATTTTGTCC-AT-AA-T-GAATGCCCAACGAG
129 AAGTATCAACACTTGTATAATTTGTGTCGATAC-TTTTGTCCAATGAATTAGAATGCCCAACGAG
59825 GTGCAAGA
193 GTGCAAGA
* * *
59833 ATAACGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATAGAAACGAAAATTACAATGTT
1 ATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATAGAAACGAAAATTATAATGTA
*
59898 ATAGGTAAATTTACAATGTACCCGGTATAAATATATCGATTTTATGAGAAAATAGGTCTA-AATA
66 ATAGGTAAATTTACAATGTA-CCGGTATAAATATATCGATTTTATAAGAAAATAGGTC-AGAATA
* * *
59962 ATGTATCAACACCTT-TATAGTTTGTGTCGATACTTTTTTCCAGAATGAATTAGGAATGCCCAAC
129 AAGTATCAACA-CTTGTATAATTTGTGTCGATACTTTTGTCC--AATGAATTA-GAATGCCCAAC
*
60026 GAGGTGCAAGC
190 GAGGTGCAAGA
* *
60037 ATAAAGTGTCGATACATTTAAAATTGTATCGATCCAAAAAACA-ACGAAACCAATAATTATAATG
1 ATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATA-GAAACGAA-AATTATAATG
* * *
60101 CAATAGGTAAATTTGCAATGATACTGGTATAAATATA
64 TAATAGGTAAATTTACAATG-TACCGGTATAAATATA
60138 CTGGTTAAAT
Statistics
Matches: 266, Mismatches: 26, Indels: 20
0.85 0.08 0.06
Matches are distributed among these distances:
197 8 0.03
198 93 0.35
199 49 0.18
200 2 0.01
201 2 0.01
202 1 0.00
203 1 0.00
204 69 0.26
205 39 0.15
206 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (200 bp):
ATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATAGAAACGAAAATTATAATGTA
ATAGGTAAATTTACAATGTACCGGTATAAATATATCGATTTTATAAGAAAATAGGTCAGAATAAA
GTATCAACACTTGTATAATTTGTGTCGATACTTTTGTCCAATGAATTAGAATGCCCAACGAGGTG
CAAGA
Found at i:60070 original size:204 final size:197
Alignment explanation
Indices: 59564--60137 Score: 642
Period size: 198 Copynumber: 2.9 Consensus size: 197
59554 ACAGATCAAC
* * * * * * * *
59564 ATAAAGTATCGACACTT-TTTAAGTTTATGCCGATAC-TTTTTTCCA-AAAGAAAGCACAAAC-A
1 ATAAAGTATCAACACTTGTATAA-TTTGTGTCGATACATTTTGTCCATAATGAATGC-CCAACGA
* * * * * *
59625 GGTTCACGCATAAAGTGTCAATACATTTAAAATTGTATCGATCACAAAAACATCGAAACCGATAA
64 GGTGCAAGCATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATAGAAA-CGAAAA
* * * *
59690 TTATAATGTAATAGGTCAATTTACAATGTAACCGATTTAAATTTATCGATTTTATAAGAAAATAG
128 TTATAATGTAATAGGTAAATTTACAATGT-ACCGGTATAAATATATCGATTTTATAAGAAAATAG
59755 GTCAGA
192 GTCAGA
* *
59761 ATAAAGTATCTACACTTGTGTAATTTGTGTCGATACATTTTGTCCATAATGAATGCCCAACGAGG
1 ATAAAGTATCAACACTTGTATAATTTGTGTCGATACATTTTGTCCATAATGAATGCCCAACGAGG
* *
59826 TGCAAGAATAACGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATAGAAACGAAAATTA
66 TGCAAGCATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATAGAAACGAAAATTA
* * *
59891 CAATGTTATAGGTAAATTTACAATGTACCCGGTATAAATATATCGATTTTATGAGAAAATAGGTC
131 TAATGTAATAGGTAAATTTACAATGTA-CCGGTATAAATATATCGATTTTATAAGAAAATAGGTC
59956 TA-A
195 -AGA
* * *
59959 ATAATGTATCAACACCTT-TATAGTTTGTGTCGATAC-TTTTTTCCAGAATGAATTAGGAATGCC
1 ATAAAGTATCAACA-CTTGTATAATTTGTGTCGATACATTTTGTCC---AT-AA-T--GAATGCC
*
60022 CAACGAGGTGCAAGCATAAAGTGTCGATACATTTAAAATTGTATCGATCCAAAAAACA-ACGAAA
58 CAACGAGGTGCAAGCATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATA-GAAA
* * * *
60086 CCAATAATTATAATGCAATAGGTAAATTTGCAATGATACTGGTATAAATATA
122 CGAA-AATTATAATGTAATAGGTAAATTTACAATG-TACCGGTATAAATATA
60138 CTGGTTAAAT
Statistics
Matches: 323, Mismatches: 37, Indels: 26
0.84 0.10 0.07
Matches are distributed among these distances:
197 35 0.11
198 109 0.34
199 63 0.20
200 2 0.01
201 2 0.01
202 1 0.00
203 1 0.00
204 69 0.21
205 39 0.12
206 2 0.01
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.31
Consensus pattern (197 bp):
ATAAAGTATCAACACTTGTATAATTTGTGTCGATACATTTTGTCCATAATGAATGCCCAACGAGG
TGCAAGCATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATAGAAACGAAAATTA
TAATGTAATAGGTAAATTTACAATGTACCGGTATAAATATATCGATTTTATAAGAAAATAGGTCA
GA
Found at i:60207 original size:23 final size:23
Alignment explanation
Indices: 60157--60201 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
60147 TGCATATTTT
*
60157 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
**
60180 ATTATATAAGTTCTACCTAATA
1 ATTATATAAGCGCTACCTAATA
60202 TGTTATTGTA
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:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:60265 original size:16 final size:16
Alignment explanation
Indices: 60244--60281 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
60234 TGATATAACA
60244 TAACCGGTCTAA-ATTT
1 TAACCGGTC-AATATTT
*
60260 TAACCGGTCAATTTTT
1 TAACCGGTCAATATTT
60276 TAACCG
1 TAACCG
60282 ATCACGCCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 2 0.10
16 18 0.90
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (16 bp):
TAACCGGTCAATATTT
Found at i:62458 original size:21 final size:21
Alignment explanation
Indices: 62433--62501 Score: 111
Period size: 21 Copynumber: 3.3 Consensus size: 21
62423 CTCCACTTCT
*
62433 ATTTCAGATGGCATCGCAATC
1 ATTTCAGATGGCATCGCAACC
* *
62454 GTTTCAGATGGCATCACAACC
1 ATTTCAGATGGCATCGCAACC
62475 ATTTCAGATGGCATCGCAACC
1 ATTTCAGATGGCATCGCAACC
62496 ATTTCA
1 ATTTCA
62502 TATGCCACCG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (21 bp):
ATTTCAGATGGCATCGCAACC
Found at i:65799 original size:50 final size:50
Alignment explanation
Indices: 65689--65799 Score: 116
Period size: 50 Copynumber: 2.2 Consensus size: 50
65679 CGATATAATA
* * * *
65689 AATTTTAATAAAAATTATATTTTATTCAAACTCTTTACCCTAACGTGACG
1 AATTTTAATAAAAAATATATTTTATTCAAACTCGTCACCCTAACATGACG
* ** * * *
65739 AGTTCGAATAAAAAATAT-TTTTGATTCAAACTCGTCACCTTAATATGATG
1 AATTTTAATAAAAAATATATTTT-ATTCAAACTCGTCACCCTAACATGACG
65789 AATTTTAATAA
1 AATTTTAATAA
65800 CACTATAAAA
Statistics
Matches: 47, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
49 4 0.09
50 43 0.91
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.39
Consensus pattern (50 bp):
AATTTTAATAAAAAATATATTTTATTCAAACTCGTCACCCTAACATGACG
Found at i:66174 original size:2 final size:2
Alignment explanation
Indices: 66167--66239 Score: 114
Period size: 2 Copynumber: 37.5 Consensus size: 2
66157 ATGTTGACAC
*
66167 AT AT AT AT AT AT AT AT AT AT CT AT AT AT AT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
66208 AG AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
66240 AACCAAAAAT
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
1 2 0.03
2 63 0.97
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (2 bp):
AT
Done.