Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006241.1 Hibiscus syriacus cultivar Beakdansim tig00014873_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: 97080
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Found at i:6473 original size:10 final size:10
Alignment explanation
Indices: 6458--6482 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
6448 CAAATATAAC
6458 CTAAATGAAA
1 CTAAATGAAA
6468 CTAAATGAAA
1 CTAAATGAAA
6478 CTAAA
1 CTAAA
6483 ATGTTGTGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.12, G:0.08, T:0.20
Consensus pattern (10 bp):
CTAAATGAAA
Found at i:16123 original size:40 final size:40
Alignment explanation
Indices: 16078--16156 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
16068 AGGTTTATAG
16078 TACACTTCGGTGTATATGGTGGGCACGACCTTATATGTAA
1 TACACTTCGGTGTATATGGTGGGCACGACCTTATATGTAA
16118 TACACTTCGGTGTATATGGTGGGCACGACCTTATATGTA
1 TACACTTCGGTGTATATGGTGGGCACGACCTTATATGTA
16157 GCACTACGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (40 bp):
TACACTTCGGTGTATATGGTGGGCACGACCTTATATGTAA
Found at i:16328 original size:21 final size:21
Alignment explanation
Indices: 16260--16328 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
16250 TAACCATGCA
16260 AATAAGCTTACGAGCTTATGG
1 AATAAGCTTACGAGCTTATGG
** *
16281 AATAA--TGGCAAG-TATATTGG
1 AATAAGCTTACGAGCT-TA-TGG
16301 TAAATAAGCTTACGAGCTTATGG
1 --AATAAGCTTACGAGCTTATGG
16324 AATAA
1 AATAA
16329 TGGCAAGTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 14
0.64 0.11 0.25
Matches are distributed among these distances:
18 1 0.03
19 6 0.17
20 3 0.09
21 10 0.29
22 5 0.14
23 3 0.09
24 6 0.17
25 1 0.03
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.29
Consensus pattern (21 bp):
AATAAGCTTACGAGCTTATGG
Found at i:16391 original size:45 final size:44
Alignment explanation
Indices: 16259--16412 Score: 247
Period size: 43 Copynumber: 3.5 Consensus size: 44
16249 GTAACCATGC
16259 AAATAAGCTTACGAGCTTATGGAATAATGGCAAGTATATTGGT-
1 AAATAAGCTTACGAGCTTATGGAATAATGGCAAGTATATTGGTA
16302 AAATAAGCTTACGAGCTTATGGAATAATGGCAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAATGGCAAGTATATTGGTA
* * * * *
16346 AAATAAGCTTACGAGATCATGAAATAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAAT-AATGGCAAGTATATTGGTA
16391 AAATAAGCTTACGAGCTTATGG
1 AAATAAGCTTACGAGCTTATGG
16413 TTAATAAATG
Statistics
Matches: 101, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
43 43 0.43
44 22 0.22
45 36 0.36
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (44 bp):
AAATAAGCTTACGAGCTTATGGAATAATGGCAAGTATATTGGTA
Found at i:20414 original size:18 final size:18
Alignment explanation
Indices: 20393--20435 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
20383 TTTTGCCACA
*
20393 ACATCACCTTTTATTATC
1 ACATCACCATTTATTATC
* *
20411 ACATAACCATTTGTTATC
1 ACATCACCATTTATTATC
20429 ACATCAC
1 ACATCAC
20436 ACCATCATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.28, G:0.02, T:0.37
Consensus pattern (18 bp):
ACATCACCATTTATTATC
Found at i:26015 original size:54 final size:54
Alignment explanation
Indices: 25933--26038 Score: 212
Period size: 54 Copynumber: 2.0 Consensus size: 54
25923 ATAAATATTT
25933 GGATTTAATTCCATGTTTATTATGGATCATTAGATTAAAGTGGCAAGATTGTTA
1 GGATTTAATTCCATGTTTATTATGGATCATTAGATTAAAGTGGCAAGATTGTTA
25987 GGATTTAATTCCATGTTTATTATGGATCATTAGATTAAAGTGGCAAGATTGT
1 GGATTTAATTCCATGTTTATTATGGATCATTAGATTAAAGTGGCAAGATTGT
26039 AATTTTTGGA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.41
Consensus pattern (54 bp):
GGATTTAATTCCATGTTTATTATGGATCATTAGATTAAAGTGGCAAGATTGTTA
Found at i:26871 original size:31 final size:29
Alignment explanation
Indices: 26813--26872 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 29
26803 ATAAAAATTT
*
26813 GGGGACCATTTGTAATGTTTGAAAAGTTG
1 GGGGACCATTTGAAATGTTTGAAAAGTTG
26842 GGGGACCAATTTGAAAAT-TTTGGAAAAGTTG
1 GGGGACC-ATTTG-AAATGTTT-GAAAAGTTG
26873 TGAATGGTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 7 0.26
30 8 0.30
31 12 0.44
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.32
Consensus pattern (29 bp):
GGGGACCATTTGAAATGTTTGAAAAGTTG
Found at i:34315 original size:12 final size:11
Alignment explanation
Indices: 34270--34296 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
34260 TTTTTGAAAA
34270 TTTTGTTTTTT
1 TTTTGTTTTTT
34281 TTTTGTTTTTT
1 TTTTGTTTTTT
34292 TTTTG
1 TTTTG
34297 CCATTTTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (11 bp):
TTTTGTTTTTT
Found at i:53331 original size:6 final size:6
Alignment explanation
Indices: 53306--53360 Score: 51
Period size: 6 Copynumber: 9.0 Consensus size: 6
53296 AAGCCATCTG
*
53306 TAATTT TAATTAGT TTATTT TAATTT T-ATTT T-ATTT TAATTTT TAATTT
1 TAATTT TAATT--T TAATTT TAATTT TAATTT TAATTT TAA-TTT TAATTT
*
53355 TTATTT
1 TAATTT
53361 CATGTTTTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
5 10 0.24
6 21 0.50
7 6 0.14
8 5 0.12
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (6 bp):
TAATTT
Found at i:53335 original size:11 final size:11
Alignment explanation
Indices: 53319--53360 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 11
53309 TTTTAATTAG
53319 TTTATTTTAAT
1 TTTATTTTAAT
53330 TTTATTTT-AT
1 TTTATTTTAAT
53340 TTTAATTTTTAATT
1 TTT-A-TTTTAA-T
53354 TTTATTT
1 TTTATTT
53361 CATGTTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
10 5 0.19
11 9 0.33
12 7 0.26
13 2 0.07
14 4 0.15
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTATTTTAAT
Found at i:59163 original size:16 final size:16
Alignment explanation
Indices: 59142--59177 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
59132 GGTGTACTTC
59142 TTTGATGAATATCAAG
1 TTTGATGAATATCAAG
*
59158 TTTGATGAGTATCAAG
1 TTTGATGAATATCAAG
59174 TTTG
1 TTTG
59178 GTTACTTTCT
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:0.31, C:0.06, G:0.22, T:0.42
Consensus pattern (16 bp):
TTTGATGAATATCAAG
Found at i:60315 original size:47 final size:46
Alignment explanation
Indices: 60264--60353 Score: 153
Period size: 47 Copynumber: 1.9 Consensus size: 46
60254 CTAAAATATA
*
60264 GAAATAATATTTCCGATCTTTATCTATCATTCTTTAAAATTTTTATG
1 GAAATAATATTTCCAATCTTTATCTATCATTC-TTAAAATTTTTATG
*
60311 GAAATAATATTTCCAATCTTTATCTATCATTCTTCAAATTTTT
1 GAAATAATATTTCCAATCTTTATCTATCATTCTTAAAATTTTT
60354 GTGAAATTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
46 10 0.24
47 31 0.76
ACGTcount: A:0.32, C:0.14, G:0.04, T:0.49
Consensus pattern (46 bp):
GAAATAATATTTCCAATCTTTATCTATCATTCTTAAAATTTTTATG
Found at i:66801 original size:29 final size:30
Alignment explanation
Indices: 66768--66831 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
66758 TCTCTTAAAA
* **
66768 AAATTCGAGGACTAAA-TTGAATTTTGATT
1 AAATTCGAGGAATAAAGTAAAATTTTGATT
* *
66797 AAATTTGGGGAATAAAGTAAAATTTTGATT
1 AAATTCGAGGAATAAAGTAAAATTTTGATT
66827 AAATT
1 AAATT
66832 TGGATCCAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 13 0.45
30 16 0.55
ACGTcount: A:0.42, C:0.03, G:0.17, T:0.38
Consensus pattern (30 bp):
AAATTCGAGGAATAAAGTAAAATTTTGATT
Found at i:68102 original size:39 final size:39
Alignment explanation
Indices: 68036--68171 Score: 159
Period size: 39 Copynumber: 3.5 Consensus size: 39
68026 CTCTTTTCAT
* * * *
68036 AGGCTCATCAGTTTTGTGATCAGGGTAAGTCCTTACCGC
1 AGGCTCTTCAGCTTTGTGCTCAGGGTAAGTCCTTACTGC
* *
68075 AGGCTCTTCAGCTTTATGCTCAAGGTAAGTCCTTACTGC
1 AGGCTCTTCAGCTTTGTGCTCAGGGTAAGTCCTTACTGC
* *
68114 AGGCTCCTT-GGCTTTGTGCTCAGGGTAAGTCCTTATTGC
1 AGGCT-CTTCAGCTTTGTGCTCAGGGTAAGTCCTTACTGC
*
68153 AGGCTCCTCTA-CTTTGTGC
1 AGGCTCTTC-AGCTTTGTGC
68172 ACATGATAAG
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
38 2 0.02
39 77 0.94
40 3 0.04
ACGTcount: A:0.17, C:0.25, G:0.24, T:0.34
Consensus pattern (39 bp):
AGGCTCTTCAGCTTTGTGCTCAGGGTAAGTCCTTACTGC
Found at i:73678 original size:14 final size:15
Alignment explanation
Indices: 73659--73695 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
73649 GTGCAAAGTT
73659 TATCGATACCTT-TG
1 TATCGATACCTTATG
73673 TATCGATA-CTTATG
1 TATCGATACCTTATG
73687 TATCGATAC
1 TATCGATAC
73696 ATCCTCGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 3 0.14
14 18 0.86
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.41
Consensus pattern (15 bp):
TATCGATACCTTATG
Found at i:74236 original size:13 final size:13
Alignment explanation
Indices: 74218--74252 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
74208 ATATTATGAT
74218 TTTTCAAACAAT-G
1 TTTTCAAA-AATAG
74231 TTTTCAAAAATAG
1 TTTTCAAAAATAG
74244 TTTTCAAAA
1 TTTTCAAAA
74253 TTGCCCATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 3 0.14
13 18 0.86
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.40
Consensus pattern (13 bp):
TTTTCAAAAATAG
Found at i:78763 original size:29 final size:30
Alignment explanation
Indices: 78725--78782 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
78715 TAAAATTTTT
* *
78725 AAGGACTAAATTG-AATTTTGATTAAATTC
1 AAGGACTAAAGTGAAATTTTGAATAAATTC
*
78754 AAGGATTAAAGTGAAATTTTGAATAAATT
1 AAGGACTAAAGTGAAATTTTGAATAAATT
78783 TGGATCCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.45, C:0.03, G:0.16, T:0.36
Consensus pattern (30 bp):
AAGGACTAAAGTGAAATTTTGAATAAATTC
Found at i:79367 original size:18 final size:18
Alignment explanation
Indices: 79334--79368 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
79324 GGTCCAACAT
* *
79334 TGACCATTGACTGTTGAC
1 TGACCATTAACCGTTGAC
79352 TGACCATTAACCGTTGA
1 TGACCATTAACCGTTGA
79369 TCATTGACTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (18 bp):
TGACCATTAACCGTTGAC
Found at i:80185 original size:39 final size:39
Alignment explanation
Indices: 80142--80282 Score: 192
Period size: 39 Copynumber: 3.6 Consensus size: 39
80132 GGCTCCTCAA
* * * *
80142 CTTTGTGCTCATGGTAAGACCTTACCGTAGGCTCCTAGG
1 CTTTGTGCTCAGGGTAAGTCCTTACTGCAGGCTCCTAGG
*
80181 CTTTGTGCTCAGGGTAAGTCCTTACTGCAGGCTCCTTGG
1 CTTTGTGCTCAGGGTAAGTCCTTACTGCAGGCTCCTAGG
***
80220 CTTTGTGCTCAGGGTAAGTCCTTACTGCAGGCTCCTCTA
1 CTTTGTGCTCAGGGTAAGTCCTTACTGCAGGCTCCTAGG
* *
80259 CTTTGTGCACAGGGTAAGCCCTTA
1 CTTTGTGCTCAGGGTAAGTCCTTA
80283 TTGGGTGTAC
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 92 1.00
ACGTcount: A:0.16, C:0.26, G:0.26, T:0.32
Consensus pattern (39 bp):
CTTTGTGCTCAGGGTAAGTCCTTACTGCAGGCTCCTAGG
Found at i:81512 original size:59 final size:59
Alignment explanation
Indices: 81440--81852 Score: 580
Period size: 59 Copynumber: 7.0 Consensus size: 59
81430 ACTATTTTTT
* * * *
81440 ATCTAACTTGCATTAGTGGCACCTTTATGCCAAATGCACATTTAGGCATTTAACCATTC
1 ATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACCTTTC
* * *
81499 ATCTAACTTGCATTATTGGCACCTTTCTTCCAAATGAACAGTTAGGCATTTAACTTTTC
1 ATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACCTTTC
* * *
81558 ATCTAACTTGAATTATTGG-ATCCTTTCTACCAAATGCATAGTTAGGCATTTAACCTTTC
1 ATCTAACTTGCATTATTGGCA-CCTTTCTGCCAAATGCACAGTTAGGCATTTAACCTTTC
* * ** *
81617 ATCTAAATTGCATTATT-GCACCTTTCTGCCAAATACACAGTTATACATTTAACATTTC
1 ATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACCTTTC
* * * *
81675 ATCTAACATGCATTATTGGCACCTTTCTTCCAAATGCACAGTTAGGCA-TGAACTTTTC
1 ATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACCTTTC
* * *
81733 ATCTAACTTGCATTATTGTCACCTTTCTGCCAAATGCACAATTAGGTATTTAACCTTTC
1 ATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACCTTTC
* *
81792 ATCTAACTTGCATTATTGGCACCTTTCTTCCAAATGCACAATTAGGCATTTAACCTTTC
1 ATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACCTTTC
81851 AT
1 AT
81853 TTTAGAGAAA
Statistics
Matches: 312, Mismatches: 38, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
58 100 0.32
59 212 0.68
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (59 bp):
ATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACCTTTC
Found at i:81691 original size:117 final size:117
Alignment explanation
Indices: 81440--81852 Score: 580
Period size: 117 Copynumber: 3.5 Consensus size: 117
81430 ACTATTTTTT
* * * * *
81440 ATCTAACTTGCATTAGTGGCACCTTTATGCCAAATGCACATTTAGGCATTTAACCATTCATCTAA
1 ATCTAACTTGCATTATTGGCACCTTTCTTCCAAATGCACAGTTAGGCATTTAACCTTTCATCTAA
* *
81505 CTTGCATTATTGGCACCTTTCTTCCAAATGA-ACAGTTAGGCATTTAACTTTTC
66 CTTGCATTATT-GCACCTTTCTGCCAAAT-ACACAGTTAGGCATTTAACATTTC
* * *
81558 ATCTAACTTGAATTATTGG-ATCCTTTCTACCAAATGCATAGTTAGGCATTTAACCTTTCATCTA
1 ATCTAACTTGCATTATTGGCA-CCTTTCTTCCAAATGCACAGTTAGGCATTTAACCTTTCATCTA
* **
81622 AATTGCATTATTGCACCTTTCTGCCAAATACACAGTTATACATTTAACATTTC
65 ACTTGCATTATTGCACCTTTCTGCCAAATACACAGTTAGGCATTTAACATTTC
* * *
81675 ATCTAACATGCATTATTGGCACCTTTCTTCCAAATGCACAGTTAGGCA-TGAACTTTTCATCTAA
1 ATCTAACTTGCATTATTGGCACCTTTCTTCCAAATGCACAGTTAGGCATTTAACCTTTCATCTAA
* * * *
81739 CTTGCATTATTGTCACCTTTCTGCCAAATGCACAATTAGGTATTTAACCTTTC
66 CTTGCATTATTG-CACCTTTCTGCCAAATACACAGTTAGGCATTTAACATTTC
*
81792 ATCTAACTTGCATTATTGGCACCTTTCTTCCAAATGCACAATTAGGCATTTAACCTTTCAT
1 ATCTAACTTGCATTATTGGCACCTTTCTTCCAAATGCACAGTTAGGCATTTAACCTTTCAT
81853 TTTAGAGAAA
Statistics
Matches: 261, Mismatches: 29, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
116 26 0.10
117 158 0.61
118 77 0.30
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (117 bp):
ATCTAACTTGCATTATTGGCACCTTTCTTCCAAATGCACAGTTAGGCATTTAACCTTTCATCTAA
CTTGCATTATTGCACCTTTCTGCCAAATACACAGTTAGGCATTTAACATTTC
Found at i:81848 original size:32 final size:32
Alignment explanation
Indices: 81753--81850 Score: 82
Period size: 32 Copynumber: 3.2 Consensus size: 32
81743 CATTATTGTC
* *
81753 ACCTTTCTGCCAAATGCACAATTAGGTATTTA
1 ACCTTTCTTCCAAATGCACAATTAGGCATTTA
* * * **
81785 ACCTTTCATCTAACTTGCATTATT-GGC-----
1 ACCTTTCTTCCAA-ATGCACAATTAGGCATTTA
81812 ACCTTTCTTCCAAATGCACAATTAGGCATTTA
1 ACCTTTCTTCCAAATGCACAATTAGGCATTTA
81844 ACCTTTC
1 ACCTTTC
81851 ATTTTAGAGA
Statistics
Matches: 47, Mismatches: 12, Indels: 14
0.64 0.16 0.19
Matches are distributed among these distances:
26 7 0.15
27 14 0.30
32 19 0.40
33 7 0.15
ACGTcount: A:0.28, C:0.26, G:0.10, T:0.37
Consensus pattern (32 bp):
ACCTTTCTTCCAAATGCACAATTAGGCATTTA
Found at i:88513 original size:59 final size:59
Alignment explanation
Indices: 88421--88839 Score: 649
Period size: 59 Copynumber: 7.1 Consensus size: 59
88411 ATACATTGTT
* * * **
88421 TTTCATCCAACTTGCATTAATGGCACTTTTCTGCCAAATGCACTGTTAGGCATTTAACC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAATTAGGCATTTAACC
* * * *
88480 TTTCATCTAACTTGCATTATTAGAACCTTTCTGCCAAATGCACATTTAGGAATTTAACC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAATTAGGCATTTAACC
* * * *
88539 TTTCATCTAACTTGCATTATTGGAACCTTTCTTCCAAATGCACAGTTAGACATTTAACC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAATTAGGCATTTAACC
* *
88598 TTTCATCTAACTTGCACTATTGGCACCTTTCTGCCAAATGCACAATTAGACATTTAACC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAATTAGGCATTTAACC
* *
88657 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCATAATTAAGCATTTAACC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAATTAGGCATTTAACC
* *
88716 TTTCATCTAACTTGCATTATTGGCACCTTTCTTCCAAGTGCACAATTAGGCATTTAACC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAATTAGGCATTTAACC
* *
88775 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCTTTTAACC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAATTAGGCATTTAACC
88834 TTTCAT
1 TTTCAT
88840 TTTAGAGAAA
Statistics
Matches: 331, Mismatches: 29, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 331 1.00
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (59 bp):
TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAATTAGGCATTTAACC
Found at i:96045 original size:60 final size:63
Alignment explanation
Indices: 95894--96046 Score: 190
Period size: 63 Copynumber: 2.5 Consensus size: 63
95884 AATTAAATTG
*
95894 AACATCGAATGCATTTCATGCATCGATGC-ACATACCATGCATAGATGCACTGAGGATTATGAA
1 AACATCGAATGCATTTGATGCATCGATGCAACATACCATGCATAGATG-ACTGAGGATTATGAA
* * * *
95957 AACATCGAATGCATTTGATGAATCGATGCAACA-ACCATGCATCGATG-CTG-GCTATTTTG-A
1 AACATCGAATGCATTTGATGCATCGATGCAACATACCATGCATAGATGACTGAG-GATTATGAA
* *
96017 AACCTCGAATGCACTTGATGCATCGATGCA
1 AACATCGAATGCATTTGATGCATCGATGCA
96047 CTCTTAGTGC
Statistics
Matches: 80, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
60 29 0.36
61 8 0.10
63 40 0.50
64 3 0.04
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.26
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCAACATACCATGCATAGATGACTGAGGATTATGAA
Done.