Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007312.1 Hibiscus syriacus cultivar Beakdansim tig00019481_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: 59573
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:4104 original size:220 final size:219
Alignment explanation
Indices: 3713--4161 Score: 633
Period size: 221 Copynumber: 2.0 Consensus size: 219
3703 ATTCGGGTCA
*
3713 GGTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGTTTTTTTAAGTGTGATATTCGGGTCGGG
1 GGTCGGGTGAAACTTTATTTTGGTCAGGTCGGGTCGGTTTTTTTAAGTGTGATATTCGGGTCGGG
* * *
3778 TCGAGTTCGGGTTTAAGGTGAAAAATACTCAACCCGACCCGACCCGAATATATATAATTTACCTA
66 TCGAGTTCAGGTTTAAGGTG-AAAATACT-AACCCGACCCGACCCAAAAATATATAATTTACCTA
*
3843 TATATTTAGGAATAATTAAAATACCCTATATATAATTTTTTTCTAATT-AGTCACTGTTTTTA-T
129 TATATTTAGGAATAATTAAAATACCCTATATATAATTTTTTTC-AATTAAGTCACTATTTTTATT
3906 GAATAAAAATAAATTTTTATTATTTCG
193 GAATAAAAATAAATTTTTATTATTTCG
*
3933 GGTCGGGTGAAACTTTATTTTGGTCAGGTCGGGTTGGTTTTTTTTAAGTGTGATATTCGGGTCGG
1 GGTCGGGTGAAACTTTATTTTGGTCAGGTCGGGTCGG-TTTTTTTAAGTGTGATATTCGGGTCGG
* * * *
3998 GTCGGGTTTAGGTTTAGGGTG-AAA-A-T-ACCCGACCCGACCCAAAAA-ATATATTTTTACCTT
65 GTCGAGTTCAGGTTTAAGGTGAAAATACTAACCCGACCCGACCCAAAAATATATA-ATTTACC-T
* *
4058 ATATATTTAGGAATAATTACAATAATACCCTTCTATATATTTTTTTTCAATTAAGTCACTATTTT
128 ATATATTTAGGAATAATT--AA-AATACCC-TATATATAATTTTTTTCAATTAAGTCACTATTTT
* *
4123 TATTTAATAAAAATAATTTTTTATTATTTCG
189 TATTGAATAAAAATAAATTTTTATTATTTCG
4154 GGTCGGGT
1 GGTCGGGT
4162 TTCTAATTCA
Statistics
Matches: 206, Mismatches: 14, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
214 5 0.02
215 23 0.11
216 19 0.09
217 1 0.00
218 3 0.01
219 14 0.07
220 63 0.31
221 78 0.38
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (219 bp):
GGTCGGGTGAAACTTTATTTTGGTCAGGTCGGGTCGGTTTTTTTAAGTGTGATATTCGGGTCGGG
TCGAGTTCAGGTTTAAGGTGAAAATACTAACCCGACCCGACCCAAAAATATATAATTTACCTATA
TATTTAGGAATAATTAAAATACCCTATATATAATTTTTTTCAATTAAGTCACTATTTTTATTGAA
TAAAAATAAATTTTTATTATTTCG
Found at i:4590 original size:17 final size:18
Alignment explanation
Indices: 4568--4614 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
4558 TATGTAATTG
* *
4568 GATTCCAATTCC-TGATA
1 GATTCCAATTCCTTCACA
4585 GATTCCAATTCCTTCACA
1 GATTCCAATTCCTTCACA
4603 GATTCCAATTCC
1 GATTCCAATTCC
4615 CTCAGAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.34
Consensus pattern (18 bp):
GATTCCAATTCCTTCACA
Found at i:4885 original size:60 final size:60
Alignment explanation
Indices: 4785--4897 Score: 154
Period size: 60 Copynumber: 1.9 Consensus size: 60
4775 TATGGTTTTT
*
4785 ATTTTAAATTAGTCCCTAAACTTTTAAATATACCAATTTCATCCTTAAACTATGACTATA
1 ATTTTAAATTAGTCCCTAAACTTTTAAATATACCAATTTCATCCTCAAACTATGACTATA
** * *** *
4845 ATTTTAAATTAGTCTTTAAACTTTTCAATATTTTATTTTCATCCTCAAACTAT
1 ATTTTAAATTAGTCCCTAAACTTTTAAATATACCAATTTCATCCTCAAACTAT
4898 TTCCTTCATT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 45 1.00
ACGTcount: A:0.35, C:0.17, G:0.03, T:0.45
Consensus pattern (60 bp):
ATTTTAAATTAGTCCCTAAACTTTTAAATATACCAATTTCATCCTCAAACTATGACTATA
Found at i:9032 original size:59 final size:59
Alignment explanation
Indices: 8968--9214 Score: 188
Period size: 59 Copynumber: 4.2 Consensus size: 59
8958 TGAAAATATA
* *
8968 GATTTCCAGATAGGGCATTTTATGTGCTAAAATGGTAAGGGAATCATACTGA-GTGTATG
1 GATTTCCAGATAGGGCATTTTATGTGCTAAAATGGTAAGGAAATCATACTAATG-GTATG
* ** * * * *
9027 AATTTCCAGATAAAGCA-CTAAGGGTGCTACAA-GG-AAGGAAATCATACTAATGGTATG
1 GATTTCCAGATAGGGCATTTTA-TGTGCTAAAATGGTAAGGAAATCATACTAATGGTATG
* * * **
9084 GATTTTCACATAGGGCATTTCATGTGCTAAAATGGTAACAAAATCATACTAATGGTATG
1 GATTTCCAGATAGGGCATTTTATGTGCTAAAATGGTAAGGAAATCATACTAATGGTATG
** * * * *
9143 GATTT-TTGAATAGGGCACTTCT-TGTGCTAAAAT-GAAAGGGGAAGCATACTAA-GTGTAT-
1 GATTTCCAG-ATAGGGCA-TTTTATGTGCTAAAATGGTAA-GGAAATCATACTAATG-GTATG
9201 GATCTTCCAGATAG
1 GAT-TTCCAGATAG
9215 AGCACTGTTC
Statistics
Matches: 145, Mismatches: 32, Indels: 22
0.73 0.16 0.11
Matches are distributed among these distances:
57 39 0.27
58 16 0.11
59 87 0.60
60 3 0.02
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (59 bp):
GATTTCCAGATAGGGCATTTTATGTGCTAAAATGGTAAGGAAATCATACTAATGGTATG
Found at i:9054 original size:116 final size:115
Alignment explanation
Indices: 8875--9121 Score: 275
Period size: 116 Copynumber: 2.1 Consensus size: 115
8865 TGACACTTTG
* * * * ** * *
8875 TGTGCTAAGATGATAAGGAATCATACTGAGTGTATAGATTTTCATATGGAGCACCGAGTGTGCTA
1 TGTGCTAAAATGGTAAGGAATCATACTGAGTGTATAGATTTCCAGATAAAGCACCAAGGGTGCTA
* * * *
8940 -AATGATAAGAAATCATATTGAA-AATATAGATTTCCAGATAGGGCATTTTA
66 CAAGGA-AAGAAATCATACT-AATAATATAGATTTCCACATAGGGCATTTCA
*
8990 TGTGCTAAAATGGTAAGGGAATCATACTGAGTGTAT-GAATTTCCAGATAAAGCACTAAGGGTGC
1 TGTGCTAAAATGGTAA-GGAATCATACTGAGTGTATAG-ATTTCCAGATAAAGCACCAAGGGTGC
* ** * *
9054 TACAAGGAAGGAAATCATACTAATGGTATGGATTTTCACATAGGGCATTTCA
64 TACAAGGAAAGAAATCATACTAATAATATAGATTTCCACATAGGGCATTTCA
9106 TGTGCTAAAATGGTAA
1 TGTGCTAAAATGGTAA
9122 CAAAATCATA
Statistics
Matches: 110, Mismatches: 18, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
115 17 0.15
116 89 0.81
117 4 0.04
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (115 bp):
TGTGCTAAAATGGTAAGGAATCATACTGAGTGTATAGATTTCCAGATAAAGCACCAAGGGTGCTA
CAAGGAAAGAAATCATACTAATAATATAGATTTCCACATAGGGCATTTCA
Found at i:17556 original size:36 final size:36
Alignment explanation
Indices: 17509--17654 Score: 249
Period size: 36 Copynumber: 4.1 Consensus size: 36
17499 ACATGCTTAA
*
17509 TCTTCAGCTTTTTCCTTCATCTTTGCTCAGTGAATT
1 TCTTCAGCTTTTTCCTTCAGCTTTGCTCAGTGAATT
*
17545 TCTTCAGCTTTTTCCTTCAACTTTGCTCAGTGAATT
1 TCTTCAGCTTTTTCCTTCAGCTTTGCTCAGTGAATT
17581 TCTTCAGCTTTTTCCTTCAGCTTTGCTCAGTGAA-T
1 TCTTCAGCTTTTTCCTTCAGCTTTGCTCAGTGAATT
* *
17616 TCTTCAACTTTTTTCTTCAGCTTTGCTCAGTGAATT
1 TCTTCAGCTTTTTCCTTCAGCTTTGCTCAGTGAATT
17652 TCT
1 TCT
17655 CATCCTTTAC
Statistics
Matches: 105, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
35 33 0.31
36 72 0.69
ACGTcount: A:0.15, C:0.25, G:0.12, T:0.49
Consensus pattern (36 bp):
TCTTCAGCTTTTTCCTTCAGCTTTGCTCAGTGAATT
Found at i:21048 original size:16 final size:16
Alignment explanation
Indices: 21027--21062 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
21017 AATTGGTTGT
21027 ACCACCTGATGGCTGA
1 ACCACCTGATGGCTGA
*
21043 ACCACCTGATGGTTGA
1 ACCACCTGATGGCTGA
21059 ACCA
1 ACCA
21063 TACAGGCTCT
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:0.28, C:0.31, G:0.22, T:0.19
Consensus pattern (16 bp):
ACCACCTGATGGCTGA
Found at i:25328 original size:6 final size:6
Alignment explanation
Indices: 25317--25349 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
25307 AATTTATAGT
25317 AAAATA AAAATA AAAAT- AAAATA AAAACTA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAA-TA AAA
25350 CAATTATCGT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
5 5 0.20
6 15 0.60
7 5 0.20
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:25334 original size:12 final size:12
Alignment explanation
Indices: 25317--25349 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
25307 AATTTATAGT
25317 AAAATAAAAATA
1 AAAATAAAAATA
25329 AAAAT-AAAATA
1 AAAATAAAAATA
25340 AAAACTAAAA
1 AAAA-TAAAA
25350 CAATTATCGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 10 0.53
12 6 0.32
13 3 0.16
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAATAAAAATA
Found at i:25338 original size:17 final size:18
Alignment explanation
Indices: 25316--25349 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
25306 TAATTTATAG
25316 TAAAATAAAAA-TAAAAA
1 TAAAATAAAAACTAAAAA
25333 TAAAATAAAAACTAAAA
1 TAAAATAAAAACTAAAA
25350 CAATTATCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (18 bp):
TAAAATAAAAACTAAAAA
Found at i:26508 original size:10 final size:10
Alignment explanation
Indices: 26495--26546 Score: 54
Period size: 10 Copynumber: 5.2 Consensus size: 10
26485 ATTTATCATA
*
26495 AATAATATGT
1 AATAATATAT
26505 AATAATATAT
1 AATAATATAT
*
26515 AAT-GTATAT
1 AATAATATAT
26524 ATATAATGATAT
1 A-ATAAT-ATAT
26536 AAT-ATATAT
1 AATAATATAT
26545 AA
1 AA
26547 ACACTACAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
9 12 0.33
10 16 0.44
11 3 0.08
12 5 0.14
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (10 bp):
AATAATATAT
Found at i:26525 original size:13 final size:15
Alignment explanation
Indices: 26506--26543 Score: 62
Period size: 13 Copynumber: 2.7 Consensus size: 15
26496 ATAATATGTA
26506 ATAATATATAATG-T
1 ATAATATATAATGAT
26520 AT-ATATATAATGAT
1 ATAATATATAATGAT
26534 ATAATATATA
1 ATAATATATA
26544 TAAACACTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 10 0.45
14 5 0.23
15 7 0.32
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (15 bp):
ATAATATATAATGAT
Found at i:26680 original size:25 final size:24
Alignment explanation
Indices: 26644--26698 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
26634 TATAGTATGC
26644 ATATAT-TATATA-ATATA-AACATA
1 ATATATATATATACA-ATACAA-ATA
26667 ATATATATACTATACAATACAAATA
1 ATATATATA-TATACAATACAAATA
26692 ATATATA
1 ATATATA
26699 GTCATTATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 6 0.21
24 2 0.07
25 17 0.61
26 3 0.11
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.36
Consensus pattern (24 bp):
ATATATATATATACAATACAAATA
Found at i:26685 original size:27 final size:25
Alignment explanation
Indices: 26644--26698 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 25
26634 TATAGTATGC
* *
26644 ATATATTATATAATATAAACATAATAT
1 ATATACTATACAATA-AAA-ATAATAT
*
26671 ATATACTATACAATACAAATAATAT
1 ATATACTATACAATAAAAATAATAT
26696 ATA
1 ATA
26699 GTCATTATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 10 0.40
26 2 0.08
27 13 0.52
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.36
Consensus pattern (25 bp):
ATATACTATACAATAAAAATAATAT
Found at i:28244 original size:15 final size:15
Alignment explanation
Indices: 28224--28262 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
28214 GTTTACTTCA
*
28224 GAATGATTAAGCGTT
1 GAATGATTAAACGTT
*
28239 GAATGATTTAAATGTT
1 GAATGA-TTAAACGTT
28255 GAATGATT
1 GAATGATT
28263 CAGAGGCTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (15 bp):
GAATGATTAAACGTT
Found at i:28373 original size:23 final size:23
Alignment explanation
Indices: 28343--28406 Score: 110
Period size: 23 Copynumber: 2.8 Consensus size: 23
28333 TACTTTGATG
*
28343 CTGAATCATTCAGCACTGTTTTA
1 CTGAATCAGTCAGCACTGTTTTA
*
28366 CTGAATCAGTCAGCACTGTTTTT
1 CTGAATCAGTCAGCACTGTTTTA
28389 CTGAATCAGTCAGCACTG
1 CTGAATCAGTCAGCACTG
28407 AATCATTCAG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.34
Consensus pattern (23 bp):
CTGAATCAGTCAGCACTGTTTTA
Found at i:28557 original size:2 final size:2
Alignment explanation
Indices: 28550--28580 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
28540 TAAAATACAT
28550 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
28581 GTTTAAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:42299 original size:39 final size:39
Alignment explanation
Indices: 42194--42304 Score: 159
Period size: 39 Copynumber: 2.8 Consensus size: 39
42184 GTGCACGACA
* * * *
42194 TCTTCAGGCAAAATAGGAAGATTCCAAACTTACCTAGCG
1 TCTTCAGGAAAAATAGGAAGACTCCAAGCTTACATAGCG
*
42233 TCTTCAGGTAAAATAGGAAGACTCCAAGCTTACATAGCG
1 TCTTCAGGAAAAATAGGAAGACTCCAAGCTTACATAGCG
* *
42272 TCTTCAGGAAAAATAGGAAGACGCCAAGTTTAC
1 TCTTCAGGAAAAATAGGAAGACTCCAAGCTTAC
42305 CTGGCATCTT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 65 1.00
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.23
Consensus pattern (39 bp):
TCTTCAGGAAAAATAGGAAGACTCCAAGCTTACATAGCG
Found at i:43220 original size:27 final size:29
Alignment explanation
Indices: 43166--43230 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 29
43156 AATTCGAAGT
*
43166 AATAA-ATTTAATCATTATTATAATATAAT
1 AATAATATTTAATCATTATTAT-ATATAAA
*
43195 CATAATATTTAATCATTATT-T-TATAAA
1 AATAATATTTAATCATTATTATATATAAA
43222 AATAATATT
1 AATAATATT
43231 GTTAATATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 13 0.41
29 5 0.16
30 14 0.44
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (29 bp):
AATAATATTTAATCATTATTATATATAAA
Found at i:43482 original size:30 final size:32
Alignment explanation
Indices: 43446--43508 Score: 110
Period size: 33 Copynumber: 2.0 Consensus size: 32
43436 GTAAAAATAT
43446 TAAA-AATATTATTAATATATTTACATTTTTA
1 TAAATAATATTATTAATATATTTACATTTTTA
43477 TAAAATAATATTATTAATATATTTACATTTTT
1 T-AAATAATATTATTAATATATTTACATTTTT
43509 TGAAACTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 1 0.03
32 3 0.10
33 26 0.87
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.52
Consensus pattern (32 bp):
TAAATAATATTATTAATATATTTACATTTTTA
Found at i:46368 original size:27 final size:27
Alignment explanation
Indices: 46330--46418 Score: 160
Period size: 27 Copynumber: 3.3 Consensus size: 27
46320 TATTTTAATG
46330 AATGTGATTAATATCAATAGTTGAATT
1 AATGTGATTAATATCAATAGTTGAATT
46357 AATGTGATTAATATCAATAGTTGAATT
1 AATGTGATTAATATCAATAGTTGAATT
* *
46384 AATGTGATTAATATCAATATTTGAATG
1 AATGTGATTAATATCAATAGTTGAATT
46411 AATGTGAT
1 AATGTGAT
46419 GGAAATTAAT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.40, C:0.03, G:0.16, T:0.40
Consensus pattern (27 bp):
AATGTGATTAATATCAATAGTTGAATT
Found at i:56453 original size:24 final size:26
Alignment explanation
Indices: 56406--56463 Score: 75
Period size: 24 Copynumber: 2.3 Consensus size: 26
56396 CTAAACCACG
* *
56406 AAATATAATTTAATCTATACAATAAA
1 AAATATAATATAATCTATAAAATAAA
56432 AAATATAATAT-AT-TATAAAATAAA
1 AAATATAATATAATCTATAAAATAAA
*
56456 AAAAATAA
1 AAATATAA
56464 AATTTACATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 17 0.59
25 2 0.07
26 10 0.34
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (26 bp):
AAATATAATATAATCTATAAAATAAA
Found at i:56687 original size:25 final size:25
Alignment explanation
Indices: 56645--56692 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
56635 CTTACATGCA
* *
56645 TTATTGGTGCACAATAATGGCACTG
1 TTATTAGTGCACAATAATAGCACTG
* *
56670 TTATTAGTGCCCAGTAATAGCAC
1 TTATTAGTGCACAATAATAGCAC
56693 CATGATTTGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (25 bp):
TTATTAGTGCACAATAATAGCACTG
Found at i:57832 original size:16 final size:14
Alignment explanation
Indices: 57788--57833 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
57778 ATATACTCAT
57788 AATTATTTT-TAT-
1 AATTATTTTATATA
57800 AA-TATTTTATATA
1 AATTATTTTATATA
57813 AATTATTTTATTATTA
1 AATTATTTTA-TA-TA
57829 AATTA
1 AATTA
57834 GATATAATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.21
12 5 0.17
13 2 0.07
14 7 0.24
15 2 0.07
16 7 0.24
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
AATTATTTTATATA
Done.