Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003617.1 Hibiscus syriacus cultivar Beakdansim tig00007648_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: 53175
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Found at i:1837 original size:29 final size:28
Alignment explanation
Indices: 1805--1880 Score: 73
Period size: 31 Copynumber: 2.6 Consensus size: 28
1795 TGGTAATAAT
1805 AATAAAGATATATAAAAAAAGTAAAAAAA
1 AATAAAGATATATAAAAAAA-TAAAAAAA
**
1834 AATAAAAAGATATATAATAGTAATAAAAAAA
1 AAT--AAAGATATATAA-AAAAATAAAAAAA
*
1865 AACTAAA-ATAAATAAA
1 AA-TAAAGATATATAAA
1881 CTATAATCAA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
28 1 0.03
29 10 0.25
30 3 0.08
31 22 0.55
32 4 0.10
ACGTcount: A:0.74, C:0.01, G:0.05, T:0.20
Consensus pattern (28 bp):
AATAAAGATATATAAAAAAATAAAAAAA
Found at i:1843 original size:31 final size:31
Alignment explanation
Indices: 1802--1872 Score: 90
Period size: 31 Copynumber: 2.2 Consensus size: 31
1792 TGATGGTAAT
1802 AATAATAAAGATATATAA-AAAAAGTAAAAAAA
1 AATAA-AAAGATATATAATAAAAA-TAAAAAAA
**
1834 AATAAAAAGATATATAATAGTAATAAAAAAA
1 AATAAAAAGATATATAATAAAAATAAAAAAA
1865 AACTAAAA
1 AA-TAAAA
1873 TAAATAAACT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 22 0.63
32 13 0.37
ACGTcount: A:0.73, C:0.01, G:0.06, T:0.20
Consensus pattern (31 bp):
AATAAAAAGATATATAATAAAAATAAAAAAA
Found at i:5091 original size:35 final size:36
Alignment explanation
Indices: 5051--5153 Score: 154
Period size: 35 Copynumber: 2.9 Consensus size: 36
5041 CCAATTTTAA
5051 AAAAATGGTTTTCAAAGTTTGGTAAATGTTTATTTG
1 AAAAATGGTTTTCAAAGTTTGGTAAATGTTTATTTG
* *
5087 -AAAATGGTTTTCAAAGTTTGATAAATGTTTCTTTG
1 AAAAATGGTTTTCAAAGTTTGGTAAATGTTTATTTG
* *
5122 AAAAATTGTTTTTCAAAGTTTGGTAGATGTTT
1 AAAAA-TGGTTTTCAAAGTTTGGTAAATGTTT
5154 GTTGAAATAT
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
35 33 0.55
36 4 0.07
37 23 0.38
ACGTcount: A:0.32, C:0.04, G:0.18, T:0.46
Consensus pattern (36 bp):
AAAAATGGTTTTCAAAGTTTGGTAAATGTTTATTTG
Found at i:5112 original size:21 final size:21
Alignment explanation
Indices: 5053--5113 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
5043 AATTTTAAAA
*
5053 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGAT
5074 AAAT-G-TTT---A-TTTGA-
1 AAATGGTTTTCAAAGTTTGAT
5088 AAATGGTTTTCAAAGTTTGAT
1 AAATGGTTTTCAAAGTTTGAT
5109 AAATG
1 AAATG
5114 TTTCTTTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 14
0.68 0.02 0.30
Matches are distributed among these distances:
14 4 0.12
15 5 0.16
16 4 0.12
19 4 0.12
20 6 0.19
21 9 0.28
ACGTcount: A:0.34, C:0.03, G:0.20, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGAT
Found at i:5166 original size:36 final size:36
Alignment explanation
Indices: 5059--5166 Score: 139
Period size: 35 Copynumber: 3.0 Consensus size: 36
5049 AAAAAAATGG
*
5059 TTTTCAAAGTTTGGTAAATGTTTATTTGAAAA-TGG
1 TTTTCAAAGTTTGGTAAATGTTTATTTGAAAATTGT
* *
5094 TTTTCAAAGTTTGATAAATGTTTCTTTGAAAAATTGT
1 TTTTCAAAGTTTGGTAAATGTTTATTTG-AAAATTGT
* *
5131 TTTTCAAAGTTTGGTAGATGTTT-GTTGAAATATTGT
1 TTTTCAAAGTTTGGTAAATGTTTATTTGAAA-ATTGT
5167 AATGGGATAA
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
35 29 0.45
36 12 0.19
37 23 0.36
ACGTcount: A:0.30, C:0.04, G:0.19, T:0.48
Consensus pattern (36 bp):
TTTTCAAAGTTTGGTAAATGTTTATTTGAAAATTGT
Found at i:9696 original size:21 final size:21
Alignment explanation
Indices: 9672--9732 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
9662 AACTTTGAAA
9672 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
9693 AAAT-G-TTT---A-TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
*
9707 AAATGATTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
9728 AAATG
1 AAATG
9733 TTTCCTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 14
0.64 0.06 0.30
Matches are distributed among these distances:
14 5 0.17
15 3 0.10
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.33
ACGTcount: A:0.34, C:0.03, G:0.20, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:9763 original size:37 final size:36
Alignment explanation
Indices: 9670--9772 Score: 154
Period size: 35 Copynumber: 2.9 Consensus size: 36
9660 CCAACTTTGA
*
9670 AAAAATGGTTTTCAAAGTTTGGTAAATGTTTATTTG
1 AAAAATGGTTTTCAAAGTTTGGTAAATGTTTACTTG
* *
9706 -AAAATGATTTTCAAAGTTTGGTAAATGTTTCCTTG
1 AAAAATGGTTTTCAAAGTTTGGTAAATGTTTACTTG
*
9741 AAAAATGGTTTTTCAAAGTTTGGTAGATGTTT
1 AAAAATGG-TTTTCAAAGTTTGGTAAATGTTT
9773 GTTGATATAT
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
35 32 0.53
36 6 0.10
37 22 0.37
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.44
Consensus pattern (36 bp):
AAAAATGGTTTTCAAAGTTTGGTAAATGTTTACTTG
Found at i:25376 original size:30 final size:30
Alignment explanation
Indices: 25342--25398 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
25332 ATATATACTA
*
25342 AATCCTTTAAATTTTTAAAAATCTTAATTT
1 AATCCTCTAAATTTTTAAAAATCTTAATTT
* *
25372 AATCCTCTAAATTTTTTAAAATTTTAA
1 AATCCTCTAAATTTTTAAAAATCTTAA
25399 GTTGGCACCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (30 bp):
AATCCTCTAAATTTTTAAAAATCTTAATTT
Found at i:28404 original size:11 final size:12
Alignment explanation
Indices: 28379--28405 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
28369 CTTAAAATAA
28379 TTTTTAGGAATT
1 TTTTTAGGAATT
28391 TTTTTAGGAATT
1 TTTTTAGGAATT
28403 TTT
1 TTT
28406 GGAGCCCGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.15, T:0.63
Consensus pattern (12 bp):
TTTTTAGGAATT
Found at i:28519 original size:10 final size:10
Alignment explanation
Indices: 28506--28552 Score: 55
Period size: 9 Copynumber: 4.9 Consensus size: 10
28496 CAGGTCCAAG
28506 CCGGTCTGAA
1 CCGGTCTGAA
*
28516 CCGGTTTG-A
1 CCGGTCTGAA
28525 CCGGTCTGAA
1 CCGGTCTGAA
28535 CCAGGT-TG-A
1 CC-GGTCTGAA
28544 CCGGTCTGA
1 CCGGTCTGA
28553 TCCGACCCGG
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
8 3 0.10
9 13 0.42
10 12 0.39
11 3 0.10
ACGTcount: A:0.17, C:0.28, G:0.32, T:0.23
Consensus pattern (10 bp):
CCGGTCTGAA
Found at i:28528 original size:19 final size:19
Alignment explanation
Indices: 28506--28552 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
28496 CAGGTCCAAG
28506 CCGGTCTGAACC-GGTTTGA
1 CCGGTCTGAACCAGG-TTGA
28525 CCGGTCTGAACCAGGTTGA
1 CCGGTCTGAACCAGGTTGA
28544 CCGGTCTGA
1 CCGGTCTGA
28553 TCCGACCCGG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 25 0.93
20 2 0.07
ACGTcount: A:0.17, C:0.28, G:0.32, T:0.23
Consensus pattern (19 bp):
CCGGTCTGAACCAGGTTGA
Found at i:28633 original size:29 final size:29
Alignment explanation
Indices: 28562--28715 Score: 175
Period size: 29 Copynumber: 5.3 Consensus size: 29
28552 ATCCGACCCG
* **
28562 GTGACATTCTGGAAAATATTTTTTAAAAA
1 GTGACATTCTGGGAAATATTTTGAAAAAA
28591 GATGACATTCTGGGAAATATTTTGAAAAAA
1 G-TGACATTCTGGGAAATATTTTGAAAAAA
* * *
28621 GTGATATTTTGGGAAATATTTTGAAAAAG
1 GTGACATTCTGGGAAATATTTTGAAAAAA
* * *
28650 GTGGCATTCTGGGAATTATTTTGAAAAAG
1 GTGACATTCTGGGAAATATTTTGAAAAAA
* * *
28679 GTGATATTCTGAGAATTATTTTG-AAAAA
1 GTGACATTCTGGGAAATATTTTGAAAAAA
28707 GATGACATT
1 G-TGACATT
28716 TTGAGAATTT
Statistics
Matches: 108, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
28 5 0.05
29 77 0.71
30 26 0.24
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.36
Consensus pattern (29 bp):
GTGACATTCTGGGAAATATTTTGAAAAAA
Found at i:28699 original size:87 final size:86
Alignment explanation
Indices: 28561--28730 Score: 209
Period size: 87 Copynumber: 2.0 Consensus size: 86
28551 GATCCGACCC
* *
28561 GGTGACATTCTGGAAAATATTTTTTAAAAAGATGACATTCTGGGAAATATTTTGAAAAA-AGTGA
1 GGTGACATTCTGGAAAATATTTTTGAAAAAGATGACATTCTGAGAAATATTTTGAAAAAGA-TGA
* *
28625 TATTTTGGGAAATATTTTGAAAAA
65 CATTTTGAG-AAT-TTTTGAAAAA
* * * * * *
28649 GGTGGCATTCTGGGAATTA-TTTTGAAAAAGGTGATATTCTGAGAATTATTTTGAAAAAGATGAC
1 GGTGACATTCTGGAAAATATTTTTGAAAAAGATGACATTCTGAGAAATATTTTGAAAAAGATGAC
28713 ATTTTGAGAATTTTTGAA
66 ATTTTGAGAATTTTTGAA
28731 TGTAGACTAT
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
85 7 0.10
86 3 0.04
87 44 0.62
88 17 0.24
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.36
Consensus pattern (86 bp):
GGTGACATTCTGGAAAATATTTTTGAAAAAGATGACATTCTGAGAAATATTTTGAAAAAGATGAC
ATTTTGAGAATTTTTGAAAAA
Found at i:28724 original size:58 final size:58
Alignment explanation
Indices: 28562--28724 Score: 202
Period size: 58 Copynumber: 2.8 Consensus size: 58
28552 ATCCGACCCG
* * *
28562 GTGACATTCTG-GAAAATATTTTTTAAAAAGATGACATTCTGGGAAATATTTTGAAAAAA
1 GTGATATTCTGAG-AAATA-TTTTGAAAAAGATGACATTCTGGGAATTATTTTGAAAAAA
* * * * *
28621 GTGATATTTTGGGAAATATTTTGAAAAAGGTGGCATTCTGGGAATTATTTTGAAAAAG
1 GTGATATTCTGAGAAATATTTTGAAAAAGATGACATTCTGGGAATTATTTTGAAAAAA
* * *
28679 GTGATATTCTGAGAATTATTTTGAAAAAGATGACATTTTGAGAATT
1 GTGATATTCTGAGAAATATTTTGAAAAAGATGACATTCTGGGAATT
28725 TTTGAATGTA
Statistics
Matches: 89, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
58 74 0.83
59 14 0.16
60 1 0.01
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.36
Consensus pattern (58 bp):
GTGATATTCTGAGAAATATTTTGAAAAAGATGACATTCTGGGAATTATTTTGAAAAAA
Found at i:33509 original size:41 final size:41
Alignment explanation
Indices: 33461--33989 Score: 449
Period size: 41 Copynumber: 13.0 Consensus size: 41
33451 TTTTTTGAAC
* **
33461 AAACGCCGGTAAATACTTGTGTTTTAGTGGCGTTTTTATAT
1 AAACGCCGCTAAATACTTGTACTTTAGTGGCGTTTTTATAT
** **
33502 AAACGCCGCTACCTAC-TGTACTTTAGTGGCGTTTTCGTAT
1 AAACGCCGCTAAATACTTGTACTTTAGTGGCGTTTTTATAT
* ** * * *
33542 AAACGCCGCTAAATA-ATGTACAATAGTGGCGTTTTAAGCAC
1 AAACGCCGCTAAATACTTGTACTTTAGTGGCGTTTTTA-TAT
* * *
33583 AAACGCCGCTAAATGCTCGTACTTTAGTGGCGTTTCTATAT
1 AAACGCCGCTAAATACTTGTACTTTAGTGGCGTTTTTATAT
* * * * * *
33624 AAACGCCGCTAAATA-ATGTACTATAGTGACGTTTTAAGCAC
1 AAACGCCGCTAAATACTTGTACTTTAGTGGCGTTTTTA-TAT
* * *
33665 AAACGCCGCTAAATGCTCGTACTTTAGTGGCGTTTTTGTAT
1 AAACGCCGCTAAATACTTGTACTTTAGTGGCGTTTTTATAT
* * * * *
33706 AAACGCCGCTAAATAC-TATACTTTAGTGGCATTTTAAGCAC
1 AAACGCCGCTAAATACTTGTACTTTAGTGGCGTTTTTA-TAT
* * *
33747 AAACGCCGCTAAATTCTCGTACTTTAGTGGCG--TTTCTAT
1 AAACGCCGCTAAATACTTGTACTTTAGTGGCGTTTTTATAT
* * * * *
33786 AAACGACGCTATAGACTCGTACTTTAGTAGCGTTTTTATAT
1 AAACGCCGCTAAATACTTGTACTTTAGTGGCGTTTTTATAT
* * * *
33827 AAACGACGCTATAGACTTGTACTTTAGTGGCGTTTTTATAA
1 AAACGCCGCTAAATACTTGTACTTTAGTGGCGTTTTTATAT
* * * * * *
33868 AAACTCCGCTAAAGACTCGTACTTTAGAGGCGTTTATATAC
1 AAACGCCGCTAAATACTTGTACTTTAGTGGCGTTTTTATAT
* * * * *
33909 AAACGCCGCTATACACTTGTACTTTCGTGGCATTTTTATAC
1 AAACGCCGCTAAATACTTGTACTTTAGTGGCGTTTTTATAT
* * * * * * *
33950 AAACGCCGTTATACAATTATACTTTAGTGGTGTTTATATA
1 AAACGCCGCTAAATACTTGTACTTTAGTGGCGTTTTTATA
33990 CAAATGTCGA
Statistics
Matches: 390, Mismatches: 89, Indels: 18
0.78 0.18 0.04
Matches are distributed among these distances:
39 28 0.07
40 84 0.22
41 234 0.60
42 44 0.11
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (41 bp):
AAACGCCGCTAAATACTTGTACTTTAGTGGCGTTTTTATAT
Found at i:33819 original size:121 final size:120
Alignment explanation
Indices: 33680--33979 Score: 332
Period size: 121 Copynumber: 2.5 Consensus size: 120
33670 CCGCTAAATG
*
33680 CTCGTACTTTAGTGGCGTTTTTGTATAAACGCCGCTAAATACTATACTTTAGTGGCATTTTAAGC
1 CTCGTACTTTAGTGGCGTTTTTATATAAACGCCGCTAAA-ACTATACTTTAGTGGCATTTTAA-C
* ** * * *
33745 ACAAACGCCGCTAAATTCTCGTACTTTAGTGGCGTTTCTAT-AAACGACGCTATAGA
64 AAAAACGCCGCTAAAGACTCGTACTTTAGAGGCGTTTATATAAAACGACGCTATACA
* * * * * * *
33801 CTCGTACTTTAGTAGCGTTTTTATATAAACGACGCTATAGACTTGTACTTTAGTGGCGTTTTTAT
1 CTCGTACTTTAGTGGCGTTTTTATATAAACGCCGCTA-AAAC-TATACTTTAGTGGCATTTTAAC
* *
33866 AAAAACTCCGCTAAAGACTCGTACTTTAGAGGCGTTTATATACAAACGCCGCTATACA
64 AAAAACGCCGCTAAAGACTCGTACTTTAGAGGCGTTTATATA-AAACGACGCTATACA
* * * * * *
33924 CTTGTACTTTCGTGGCATTTTTATACAAACGCCGTTATACAATTATACTTTAGTGG
1 CTCGTACTTTAGTGGCGTTTTTATATAAACGCCGCTA-A-AACTATACTTTAGTGG
33980 TGTTTATATA
Statistics
Matches: 148, Mismatches: 26, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
121 71 0.48
122 19 0.13
123 57 0.39
124 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (120 bp):
CTCGTACTTTAGTGGCGTTTTTATATAAACGCCGCTAAAACTATACTTTAGTGGCATTTTAACAA
AAACGCCGCTAAAGACTCGTACTTTAGAGGCGTTTATATAAAACGACGCTATACA
Found at i:33975 original size:203 final size:203
Alignment explanation
Indices: 33598--33989 Score: 461
Period size: 203 Copynumber: 1.9 Consensus size: 203
33588 CCGCTAAATG
* * *
33598 CTCGTACTTTAGTGGCGTTTCTATATAAACGCCGCTAAATAATGTACTATAGTGACGTTTTAAGC
1 CTCGTACTTTAGTAGCGTTTCTATATAAACGACGCTAAAGAATGTACTATAGTGACGTTTTAAGC
* * * * * *
33663 ACAAACGCCGCTAAATGCTCGTACTTTAGTGGCGTTTTTGTATAAACGCCGCTAAATACTATACT
66 AAAAACGCCGCTAAATGCTCGTACTTTAGAGGCGTTTATATACAAACGCCGCTAAACACTATACT
* * *
33728 TTAGTGGCATTTTAAGCACAAACGCCGCTAAATTCTCGTACTTTAGTGGCGTTTCTATAAACGAC
131 TTAGTGGCATTTTAAGCACAAACGCCGCTAAAATCTCATACTTTAGTGGCGTTTATATAAACGAC
33793 GCTATAGA
196 GCTATAGA
* * * * * *
33801 CTCGTACTTTAGTAGCGTTTTTATATAAACGACGCTATAGACTTGTACTTTAGTGGCGTTTTTA-
1 CTCGTACTTTAGTAGCGTTTCTATATAAACGACGCTAAAGA-ATGTACTATAGTGACGTTTTAAG
* * * *
33865 TAAAAACTCCGCTAAA-GACTCGTACTTTAGAGGCGTTTATATACAAACGCCGCTATACACTTGT
65 CAAAAACGCCGCTAAATG-CTCGTACTTTAGAGGCGTTTATATACAAACGCCGCTAAACAC-TAT
* * * * *
33929 ACTTTCGTGGCATTTTTA-TACAAACGCCGTTATACAAT-T-ATACTTTAGTGGTGTTTATATA
128 ACTTTAGTGGCATTTTAAGCACAAACGCCGCTA-A-AATCTCATACTTTAGTGGCGTTTATATA
33990 CAAATGTCGA
Statistics
Matches: 157, Mismatches: 27, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
202 1 0.01
203 116 0.74
204 38 0.24
205 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.35
Consensus pattern (203 bp):
CTCGTACTTTAGTAGCGTTTCTATATAAACGACGCTAAAGAATGTACTATAGTGACGTTTTAAGC
AAAAACGCCGCTAAATGCTCGTACTTTAGAGGCGTTTATATACAAACGCCGCTAAACACTATACT
TTAGTGGCATTTTAAGCACAAACGCCGCTAAAATCTCATACTTTAGTGGCGTTTATATAAACGAC
GCTATAGA
Found at i:37196 original size:26 final size:26
Alignment explanation
Indices: 37160--37213 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
37150 TGTATCTTGT
37160 TTCCCTGCATTTTGTGATTTTAATCA
1 TTCCCTGCATTTTGTGATTTTAATCA
37186 TTCCCTGCATTTTGTGATTTTAATCA
1 TTCCCTGCATTTTGTGATTTTAATCA
37212 TT
1 TT
37214 AATTATTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.19, C:0.19, G:0.11, T:0.52
Consensus pattern (26 bp):
TTCCCTGCATTTTGTGATTTTAATCA
Found at i:38108 original size:43 final size:42
Alignment explanation
Indices: 38060--38601 Score: 672
Period size: 43 Copynumber: 12.6 Consensus size: 42
38050 GAATGGTAAT
* *
38060 TATAGATCTGACTTTTTGCGGCGTTTGTGTCCAAAAACGTCGC
1 TATAGATCTGACCTTTTGCGGCGTTTGT-TCCAAAAACGCCGC
38103 TATAGATCTGACCTTTTGCGGCGTTTGTGTCCAAAAACGCCGC
1 TATAGATCTGACCTTTTGCGGCGTTTGT-TCCAAAAACGCCGC
38146 TATAGATCTGACCTTTTGCGGCGTTTGTGTCCAAAAACGCCGC
1 TATAGATCTGACCTTTTGCGGCGTTTGT-TCCAAAAACGCCGC
*
38189 TATAGATCTGTA-CTTTTGCAGCGTTTGTATCCAAAAACGCCGC
1 TATAGATCTG-ACCTTTTGCGGCGTTTGT-TCCAAAAACGCCGC
* * * *
38232 TAAATATCTAACCTTTTGCGGCGTTTGTTTCCAAAAACGCCAC
1 TATAGATCTGACCTTTTGCGGCGTTTG-TTCCAAAAACGCCGC
* * *
38275 TATAGATCTGTCCTTTTGCAGCATTTGTATCCAAAAACGCCGC
1 TATAGATCTGACCTTTTGCGGCGTTTGT-TCCAAAAACGCCGC
* * * * *
38318 TAAATATCTAACCTTTTGCGACGTTTGTTACAAAAACGCCGC
1 TATAGATCTGACCTTTTGCGGCGTTTGTTCCAAAAACGCCGC
*
38360 TATAGATCTCGACCTTTTGCGGCATTTGTATCCAAAAACGCCGC
1 TATAGATCT-GACCTTTTGCGGCGTTTGT-TCCAAAAACGCCGC
* * * * *
38404 TAAATATCTAACCTTTTGCGACGTTTGTTACAAAAACGCCGC
1 TATAGATCTGACCTTTTGCGGCGTTTGTTCCAAAAACGCCGC
* *
38446 TATAGATCTCGACCTTTTGCGGCATTTGTTCCATAAACGCCGC
1 TATAGATCT-GACCTTTTGCGGCGTTTGTTCCAAAAACGCCGC
* *
38489 TAGAGATCTTGACCTTTTGCGGCGTTTGTTCTAAAAACGCCGC
1 TATAGATC-TGACCTTTTGCGGCGTTTGTTCCAAAAACGCCGC
* * **
38532 TATATATATCGACCTTTTGCGATGTTTGTTCCAAAAACGCCGC
1 TATAGATCT-GACCTTTTGCGGCGTTTGTTCCAAAAACGCCGC
* * *
38575 TATAGATCTTGAACTATAGCGGCGTTT
1 TATAGATC-TGACCTTTTGCGGCGTTT
38602 TTGGTTCTCA
Statistics
Matches: 429, Mismatches: 60, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
42 43 0.10
43 362 0.84
44 24 0.06
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (42 bp):
TATAGATCTGACCTTTTGCGGCGTTTGTTCCAAAAACGCCGC
Done.