Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004720.1 Hibiscus syriacus cultivar Beakdansim tig00010646_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: 79203
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Found at i:5589 original size:15 final size:14
Alignment explanation
Indices: 5567--5607 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
5557 AATCATATTG
5567 AACA-AAATCAACA
1 AACACAAATCAACA
5580 CAACACAAATCAACA
1 -AACACAAATCAACA
5595 AACAACAAATCAA
1 AAC-ACAAATCAA
5608 GTGAGATAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.28
15 18 0.72
ACGTcount: A:0.66, C:0.27, G:0.00, T:0.07
Consensus pattern (14 bp):
AACACAAATCAACA
Found at i:20642 original size:22 final size:22
Alignment explanation
Indices: 20616--20657 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
20606 CCTGATGATG
20616 TATAAAACATCTATGTACATGA
1 TATAAAACATCTATGTACATGA
20638 TATAAAACATCTATGTACAT
1 TATAAAACATCTATGTACAT
20658 TATCATGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.33
Consensus pattern (22 bp):
TATAAAACATCTATGTACATGA
Found at i:24124 original size:17 final size:17
Alignment explanation
Indices: 24104--24143 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
24094 GTATCTCTCA
* *
24104 TTTTTTTTTCTTTTTTG
1 TTTTTTTTTCTTCTTTC
24121 TTTTTTTTTCTTCTTTC
1 TTTTTTTTTCTTCTTTC
24138 TTTTTT
1 TTTTTT
24144 AGCTCTCATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.88
Consensus pattern (17 bp):
TTTTTTTTTCTTCTTTC
Found at i:29401 original size:80 final size:80
Alignment explanation
Indices: 29258--29449 Score: 240
Period size: 80 Copynumber: 2.4 Consensus size: 80
29248 CTACTCATAA
* * * ***
29258 ATTTAGGTGTGTATCCCGTACAATACATCACCTTGCTTATAATTGGGTGTATATCATGTACAATA
1 ATTTAGATGTGTATCCCGTACAATACATCATCTTACTTATAATTGGGTGTATATCACACACAATA
* *
29323 TATCACCACTTTTAT
66 TATCACCACCTTCAT
* * * * * * *
29338 ATTTAGATGTGTACCCCTTACGATACATCATCTTACTTGTAGTTGGGTGTGTATCCCACACAATA
1 ATTTAGATGTGTATCCCGTACAATACATCATCTTACTTATAATTGGGTGTATATCACACACAATA
29403 TATCACCACCTTCAT
66 TATCACCACCTTCAT
*
29418 ATTTAGTTGTGTATCCCGTACAATACATCATC
1 ATTTAGATGTGTATCCCGTACAATACATCATC
29450 ACTTTCATAT
Statistics
Matches: 93, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
80 93 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.37
Consensus pattern (80 bp):
ATTTAGATGTGTATCCCGTACAATACATCATCTTACTTATAATTGGGTGTATATCACACACAATA
TATCACCACCTTCAT
Found at i:29429 original size:40 final size:40
Alignment explanation
Indices: 29385--29470 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
29375 TGTAGTTGGG
* *
29385 TGTGTATCCCACACAATATATCACCACCTTCATATTTAGT
1 TGTGTATCCCACACAATACATCACCACCTTCATATTTAGA
** * *
29425 TGTGTATCCCGTACAATACATCATCACTTTCATATTTAGA
1 TGTGTATCCCACACAATACATCACCACCTTCATATTTAGA
29465 TGTGTA
1 TGTGTA
29471 CGCTATATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.37
Consensus pattern (40 bp):
TGTGTATCCCACACAATACATCACCACCTTCATATTTAGA
Found at i:29522 original size:119 final size:120
Alignment explanation
Indices: 29315--29542 Score: 298
Period size: 119 Copynumber: 1.9 Consensus size: 120
29305 TGTATATCAT
* *
29315 GTACAATATATCACCACTTTTATATTTAGATGTGTACCCCTTACGATACATCATCTTACTTGTAG
1 GTACAATACATCACCACTTTCATATTTAGATGTGTACCCCTTACGATACATCATCTTACTTGTAG
* *
29380 TTGGGTGTGTATCCCACACAATATATCACCACCTTCATATTTAGTTGTGTATCCC
66 TTGGGTGTGTATACCACACAATATATCACCACATTCATATTTAGTTGTGTATCCC
* * * * *
29435 GTACAATACATCATCACTTTCATATTTAGATGTGTA-CGCTATA-TATACATTATCTTGCTTGTA
1 GTACAATACATCACCACTTTCATATTTAGATGTGTACCCCT-TACGATACATCATCTTACTTGTA
* **** *
29498 GTTTGGTGTGTATATGGTACAATATATCACCATATTCATATTTAG
65 GTTGGGTGTGTATACCACACAATATATCACCACATTCATATTTAG
29543 AAATTCTAGA
Statistics
Matches: 92, Mismatches: 15, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
119 57 0.62
120 35 0.38
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.39
Consensus pattern (120 bp):
GTACAATACATCACCACTTTCATATTTAGATGTGTACCCCTTACGATACATCATCTTACTTGTAG
TTGGGTGTGTATACCACACAATATATCACCACATTCATATTTAGTTGTGTATCCC
Found at i:36074 original size:14 final size:14
Alignment explanation
Indices: 36055--36094 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
36045 TATACGAGCT
36055 GTGGTGACAACATA
1 GTGGTGACAACATA
*
36069 GTGGTGACAGCATA
1 GTGGTGACAACATA
36083 GTGGTGCACAAC
1 GTGGTG-ACAAC
36095 CTCAATGTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 19 0.83
15 4 0.17
ACGTcount: A:0.30, C:0.17, G:0.33, T:0.20
Consensus pattern (14 bp):
GTGGTGACAACATA
Found at i:40152 original size:7 final size:7
Alignment explanation
Indices: 40140--40194 Score: 110
Period size: 7 Copynumber: 7.9 Consensus size: 7
40130 TGATGAGTTT
40140 GGTTTAG
1 GGTTTAG
40147 GGTTTAG
1 GGTTTAG
40154 GGTTTAG
1 GGTTTAG
40161 GGTTTAG
1 GGTTTAG
40168 GGTTTAG
1 GGTTTAG
40175 GGTTTAG
1 GGTTTAG
40182 GGTTTAG
1 GGTTTAG
40189 GGTTTA
1 GGTTTA
40195 TGATGACCAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 48 1.00
ACGTcount: A:0.15, C:0.00, G:0.42, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:50289 original size:24 final size:25
Alignment explanation
Indices: 50261--50313 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
50251 AAGGTAATTG
**
50261 TTTAACTTCATTTATTTAATT-TTT
1 TTTAACTTCATAAATTTAATTATTT
* *
50285 TTTAATTTCATAAATTTACTTATTT
1 TTTAACTTCATAAATTTAATTATTT
50310 TTTA
1 TTTA
50314 TTTGTTTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (25 bp):
TTTAACTTCATAAATTTAATTATTT
Found at i:51596 original size:12 final size:12
Alignment explanation
Indices: 51581--51605 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51571 TTTGATTTTA
51581 TTAATTTTATTT
1 TTAATTTTATTT
51593 TTAATTTTATTT
1 TTAATTTTATTT
51605 T
1 T
51606 AAAATTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTAATTTTATTT
Found at i:54736 original size:55 final size:54
Alignment explanation
Indices: 54643--54800 Score: 196
Period size: 55 Copynumber: 2.9 Consensus size: 54
54633 ATATTCGGAA
*
54643 AACGAGTTCGCTCCCTCATTT-TTAGGGAGTATAGAACTCGAACAATTTTCTG-C
1 AACGAGTTCGCTCCCTC-TTTCTTAGGGAGTATAGAACTCGAACAATCTTCTGTC
* *
54696 GAACGAGTTCACTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACCATCTTCTGTC
1 -AACGAGTTCGCTCCCTCTTTCTT-AGGGAGTATAGAACTCGAACAATCTTCTGTC
* * * * *
54752 AACGGGTTCGTTCCCTCTTTCTTAGGGAGTA-GGAACTTGAAGAATCTTC
1 AACGAGTTCGCTCCCTCTTTCTTAGGGAGTATAGAACTCGAACAATCTTC
54801 ATCCATCGTG
Statistics
Matches: 91, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
53 17 0.19
54 26 0.29
55 47 0.52
56 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (54 bp):
AACGAGTTCGCTCCCTCTTTCTTAGGGAGTATAGAACTCGAACAATCTTCTGTC
Found at i:54928 original size:111 final size:110
Alignment explanation
Indices: 54794--55189 Score: 546
Period size: 111 Copynumber: 3.6 Consensus size: 110
54784 GAACTTGAAG
* * * *
54794 AATCTTCATCCATCGTGTCTGCTCCCTATTTCCTT-AGAGAGTATAAGACCCAAACCATCTTCAA
1 AATCTTCATCAATCGTGTCTGCTCCCTATTT-CTTCAGAGAGTATAAGACTCGAACAATCTTCAA
* * *
54858 CAAATCTTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACCCAAAC
65 C-AATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * * * *
54905 AATCTTCATCAATCGTGTCTGCTCCCCACTCCTTCAGAGAGTATAAGACTTGAACAATCTTCATC
1 AATCTTCATCAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
*
54970 AATCGTGTCTGCTCCCTATTTCTGCAGAGAGTATAAGACTCGAAC
66 AATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * *
55015 AATCTTCATCAATCGTGTCTGCTCCCTATTTCTGCAGAGAGTATAAGACTCGAACAATTTTTTAA
1 AATCTTCATCAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAA-TCTTCAA
* *
55080 CAATCGTGTCTGCTCCCCA-TTCATTCAGAGAGTACAAGACTCGAAC
65 CAATCGTGTCTGCTCCCTATTTC-TTCAGAGAGTATAAGACTCGAAC
* *
55126 AATCTTCCA-CAATCGCGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGATCAATCTTCAA
1 AATCTT-CATCAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAA
55190 TTATCGTTGG
Statistics
Matches: 252, Mismatches: 29, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
110 104 0.41
111 146 0.58
112 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (110 bp):
AATCTTCATCAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC
AATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
Found at i:54949 original size:55 final size:55
Alignment explanation
Indices: 54707--55188 Score: 539
Period size: 55 Copynumber: 8.8 Consensus size: 55
54697 AACGAGTTCA
* * * * *
54707 CTCCCTCTTTCTTCAGGGAGTAT-AGAACTCGAACCATCTTCTGTCAA-CGGGT-TCG
1 CTCCCTATTTCTTCAGAGAGTATAAG-ACTCGAACAATCTTC-ATCAATCGTGTCT-G
* * * ** * * *
54762 TTCCCTCTTTCTT-AGGGAGTAGGA-ACTTGAAGAATCTTCATCCATCGTGTCTG
1 CTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCATCAATCGTGTCTG
* * * * *
54815 CTCCCTATTTCCTT-AGAGAGTATAAGACCCAAACCATCTTCAACAAATCTTGTCTG
1 CTCCCTATTT-CTTCAGAGAGTATAAGACTCGAACAATCTTCATC-AATCGTGTCTG
* *
54871 CTCCCTATTTCTTCAGAGAGTATAAGACCCAAACAATCTTCATCAATCGTGTCTG
1 CTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCATCAATCGTGTCTG
* * * *
54926 CTCCCCACTCCTTCAGAGAGTATAAGACTTGAACAATCTTCATCAATCGTGTCTG
1 CTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCATCAATCGTGTCTG
*
54981 CTCCCTATTTCTGCAGAGAGTATAAGACTCGAACAATCTTCATCAATCGTGTCTG
1 CTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCATCAATCGTGTCTG
* * * *
55036 CTCCCTATTTCTGCAGAGAGTATAAGACTCGAACAATTTTTTAACAATCGTGTCTG
1 CTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAA-TCTTCATCAATCGTGTCTG
* * *
55092 CTCCCCA-TTCATTCAGAGAGTACAAGACTCGAACAATCTTCCA-CAATCGCGTCTG
1 CTCCCTATTTC-TTCAGAGAGTATAAGACTCGAACAATCTT-CATCAATCGTGTCTG
*
55147 CTCCCTATTTCTTCAGAGAGTATAAGACTCGATCAATCTTCA
1 CTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCA
55189 ATTATCGTTG
Statistics
Matches: 369, Mismatches: 47, Indels: 23
0.84 0.11 0.05
Matches are distributed among these distances:
52 3 0.01
53 25 0.07
54 22 0.06
55 223 0.60
56 96 0.26
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (55 bp):
CTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCATCAATCGTGTCTG
Found at i:54968 original size:166 final size:165
Alignment explanation
Indices: 54786--55189 Score: 551
Period size: 166 Copynumber: 2.4 Consensus size: 165
54776 GGGAGTAGGA
* * *
54786 ACTTGAAGAATCTTCATCCATCGTGTCTGCTCCCTATTTCCTTAGAGAGTATAAGACCCAAACCA
1 ACTTGAACAATCTTCATCAATCGTGTCTGCTCCCTATTT-CTTAGAGAGTATAAGACCCAAACAA
* * *
54851 TCTTCAACAAATCTTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACCCAAACAA-TCTTCATC
65 TCTTCAAC-AATCGTGTCTGCTCCCTATTTCTGCAGAGAGTATAAGACCCAAACAATTCTTCAAC
* *
54915 AATCGTGTCTGCTCCCCACTCCTTCAGAGAGTATAAG
129 AATCGTGTCTGCTCCCCACTCATTCAGAGAGTACAAG
* * *
54952 ACTTGAACAATCTTCATCAATCGTGTCTGCTCCCTATTTCTGCAGAGAGTATAAGACTCGAACAA
1 ACTTGAACAATCTTCATCAATCGTGTCTGCTCCCTATTTCT-TAGAGAGTATAAGACCCAAACAA
* * * * *
55017 TCTTCATCAATCGTGTCTGCTCCCTATTTCTGCAGAGAGTATAAGACTCGAACAATTTTTTAACA
65 TCTTCAACAATCGTGTCTGCTCCCTATTTCTGCAGAGAGTATAAGACCCAAACAATTCTTCAACA
*
55082 ATCGTGTCTGCTCCCCATTCATTCAGAGAGTACAAG
130 ATCGTGTCTGCTCCCCACTCATTCAGAGAGTACAAG
* * * * *
55118 ACTCGAACAATCTTCCA-CAATCGCGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGATCA
1 ACTTGAACAATCTT-CATCAATCGTGTCTGCTCCCTATTTCTT-AGAGAGTATAAGACCCAAACA
55182 ATCTTCAA
64 ATCTTCAA
55190 TTATCGTTGG
Statistics
Matches: 212, Mismatches: 22, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
165 45 0.21
166 165 0.78
167 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.30
Consensus pattern (165 bp):
ACTTGAACAATCTTCATCAATCGTGTCTGCTCCCTATTTCTTAGAGAGTATAAGACCCAAACAAT
CTTCAACAATCGTGTCTGCTCCCTATTTCTGCAGAGAGTATAAGACCCAAACAATTCTTCAACAA
TCGTGTCTGCTCCCCACTCATTCAGAGAGTACAAG
Found at i:56209 original size:8 final size:8
Alignment explanation
Indices: 56191--56242 Score: 70
Period size: 8 Copynumber: 6.5 Consensus size: 8
56181 GAACCCTTCT
56191 TTTTTTCCA
1 TTTTTT-CA
56200 TTTTTTCA
1 TTTTTTCA
*
56208 TTTTTTTA
1 TTTTTTCA
*
56216 TTTTTTTA
1 TTTTTTCA
56224 TTTTTT-A
1 TTTTTTCA
56231 TTTTTTCA
1 TTTTTTCA
56239 TTTT
1 TTTT
56243 CACTCATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
7 7 0.17
8 28 0.68
9 6 0.15
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTTCA
Found at i:56219 original size:15 final size:16
Alignment explanation
Indices: 56199--56242 Score: 72
Period size: 15 Copynumber: 2.8 Consensus size: 16
56189 CTTTTTTTCC
56199 ATTTTTTCATTTTTTT
1 ATTTTTTCATTTTTTT
*
56215 ATTTTTTTA-TTTTTT
1 ATTTTTTCATTTTTTT
56230 ATTTTTTCATTTT
1 ATTTTTTCATTTT
56243 CACTCATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 14 0.56
16 11 0.44
ACGTcount: A:0.14, C:0.05, G:0.00, T:0.82
Consensus pattern (16 bp):
ATTTTTTCATTTTTTT
Found at i:76516 original size:79 final size:79
Alignment explanation
Indices: 76380--76563 Score: 341
Period size: 79 Copynumber: 2.3 Consensus size: 79
76370 AACATGAACA
* *
76380 TGGACAACTTATTGCTACTCAGCTAACTAGATATTTAACCATTGAGAAAGATCCAAGTTCACATG
1 TGGAAAACTTATTGCTACTCAGCTAACTAGATATTTAACCATTGAAAAAGATCCAAGTTCACATG
76445 AAGGTGCAGGAATT
66 AAGGTGCAGGAATT
*
76459 TGGAAAACTTATTGCTACTCAGCTAACTAGATCTTTAACCATTGAAAAAGATCCAAGTTCACATG
1 TGGAAAACTTATTGCTACTCAGCTAACTAGATATTTAACCATTGAAAAAGATCCAAGTTCACATG
76524 AAGGTGCAGGAATT
66 AAGGTGCAGGAATT
76538 TGGAAAACTTATTGCTACTCAGCTAA
1 TGGAAAACTTATTGCTACTCAGCTAA
76564 TTGAAAAAGA
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 102 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (79 bp):
TGGAAAACTTATTGCTACTCAGCTAACTAGATATTTAACCATTGAAAAAGATCCAAGTTCACATG
AAGGTGCAGGAATT
Found at i:76600 original size:64 final size:64
Alignment explanation
Indices: 76499--76627 Score: 258
Period size: 64 Copynumber: 2.0 Consensus size: 64
76489 ATCTTTAACC
76499 ATTGAAAAAGATCCAAGTTCACATGAAGGTGCAGGAATTTGGAAAACTTATTGCTACTCAGCTA
1 ATTGAAAAAGATCCAAGTTCACATGAAGGTGCAGGAATTTGGAAAACTTATTGCTACTCAGCTA
76563 ATTGAAAAAGATCCAAGTTCACATGAAGGTGCAGGAATTTGGAAAACTTATTGCTACTCAGCTA
1 ATTGAAAAAGATCCAAGTTCACATGAAGGTGCAGGAATTTGGAAAACTTATTGCTACTCAGCTA
76627 A
1 A
76628 CTAGATCTTT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (64 bp):
ATTGAAAAAGATCCAAGTTCACATGAAGGTGCAGGAATTTGGAAAACTTATTGCTACTCAGCTA
Found at i:76606 original size:143 final size:143
Alignment explanation
Indices: 76420--76706 Score: 547
Period size: 143 Copynumber: 2.0 Consensus size: 143
76410 ATATTTAACC
*
76420 ATTGAGAAAGATCCAAGTTCACATGAAGGTGCAGGAATTTGGAAAACTTATTGCTACTCAGCTAA
1 ATTGAAAAAGATCCAAGTTCACATGAAGGTGCAGGAATTTGGAAAACTTATTGCTACTCAGCTAA
*
76485 CTAGATCTTTAACCATTGAAAAAGATCCAAGTTCACATGAAGGTGCAGGAATTTGGAAAACTTAT
66 CTAGATCTTTAACCATTGAAAAAGATCCAAGATCACATGAAGGTGCAGGAATTTGGAAAACTTAT
76550 TGCTACTCAGCTA
131 TGCTACTCAGCTA
76563 ATTGAAAAAGATCCAAGTTCACATGAAGGTGCAGGAATTTGGAAAACTTATTGCTACTCAGCTAA
1 ATTGAAAAAGATCCAAGTTCACATGAAGGTGCAGGAATTTGGAAAACTTATTGCTACTCAGCTAA
*
76628 CTAGATCTTTAACCATTGAGAAAGATCCAAGATCACATGAAGGTGCAGGAATTTGGAAAACTTAT
66 CTAGATCTTTAACCATTGAAAAAGATCCAAGATCACATGAAGGTGCAGGAATTTGGAAAACTTAT
76693 TGCTACTCAGCTA
131 TGCTACTCAGCTA
76706 A
1 A
76707 CTAGATCTTT
Statistics
Matches: 141, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
143 141 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.27
Consensus pattern (143 bp):
ATTGAAAAAGATCCAAGTTCACATGAAGGTGCAGGAATTTGGAAAACTTATTGCTACTCAGCTAA
CTAGATCTTTAACCATTGAAAAAGATCCAAGATCACATGAAGGTGCAGGAATTTGGAAAACTTAT
TGCTACTCAGCTA
Found at i:76694 original size:79 final size:79
Alignment explanation
Indices: 76563--76760 Score: 378
Period size: 79 Copynumber: 2.5 Consensus size: 79
76553 TACTCAGCTA
76563 ATTGAAAAAGATCCAAGTTCACATGAAGGTGCAGGAATTTGGAAAACTTATTGCTACTCAGCTAA
1 ATTGAAAAAGATCCAAGTTCACATGAAGGTGCAGGAATTTGGAAAACTTATTGCTACTCAGCTAA
76628 CTAGATCTTTAACC
66 CTAGATCTTTAACC
* *
76642 ATTGAGAAAGATCCAAGATCACATGAAGGTGCAGGAATTTGGAAAACTTATTGCTACTCAGCTAA
1 ATTGAAAAAGATCCAAGTTCACATGAAGGTGCAGGAATTTGGAAAACTTATTGCTACTCAGCTAA
76707 CTAGATCTTTAACC
66 CTAGATCTTTAACC
76721 ATTGAAAAAGATCCAAGTTCACATGAAGGTGCAGGAATTT
1 ATTGAAAAAGATCCAAGTTCACATGAAGGTGCAGGAATTT
76761 CACAGGTAAT
Statistics
Matches: 115, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
79 115 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (79 bp):
ATTGAAAAAGATCCAAGTTCACATGAAGGTGCAGGAATTTGGAAAACTTATTGCTACTCAGCTAA
CTAGATCTTTAACC
Done.