Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01016852.1 Corchorus olitorius cultivar O-4 contig16885, 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: 7450
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.31
Found at i:1560 original size:7 final size:8
Alignment explanation
Indices: 1543--1575 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
1533 AGATTCCCAT
1543 AAAATGAA
1 AAAATGAA
1551 AAAATG-A
1 AAAATGAA
1558 AAAATGAA
1 AAAATGAA
1566 AAAATGAA
1 AAAATGAA
1574 AA
1 AA
1576 TAAAGGCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (8 bp):
AAAATGAA
Found at i:1563 original size:15 final size:15
Alignment explanation
Indices: 1543--1575 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
1533 AGATTCCCAT
1543 AAAATGAAAAAATGA
1 AAAATGAAAAAATGA
1558 AAAATGAAAAAATGA
1 AAAATGAAAAAATGA
1573 AAA
1 AAA
1576 TAAAGGCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (15 bp):
AAAATGAAAAAATGA
Found at i:1992 original size:17 final size:18
Alignment explanation
Indices: 1972--2017 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 18
1962 AATCAAATCG
*
1972 AAAAAATCAAAA-AGATCA
1 AAAAAATCAAAAGAGA-AA
1990 AAAAAA--AAAAGAGAAA
1 AAAAAATCAAAAGAGAAA
2006 AAAAAATCAAAA
1 AAAAAATCAAAA
2018 TCAAAATCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
16 11 0.46
17 3 0.12
18 10 0.42
ACGTcount: A:0.80, C:0.07, G:0.07, T:0.07
Consensus pattern (18 bp):
AAAAAATCAAAAGAGAAA
Found at i:2035 original size:12 final size:12
Alignment explanation
Indices: 2003--2035 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1993 AAAAAAAGAG
2003 AAAA-AAAAATC
1 AAAATAAAAATC
*
2014 AAAATCAAAATC
1 AAAATAAAAATC
2026 AAAATAAAAA
1 AAAATAAAAA
2036 GGGAATGGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 4 0.21
12 15 0.79
ACGTcount: A:0.79, C:0.09, G:0.00, T:0.12
Consensus pattern (12 bp):
AAAATAAAAATC
Found at i:2278 original size:14 final size:14
Alignment explanation
Indices: 2259--2291 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
2249 GTCCTTTTTG
2259 CAAAATGTTTTGGT
1 CAAAATGTTTTGGT
2273 CAAAATGTTTTGGT
1 CAAAATGTTTTGGT
2287 CAAAA
1 CAAAA
2292 CTTTTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.36
Consensus pattern (14 bp):
CAAAATGTTTTGGT
Found at i:2374 original size:27 final size:27
Alignment explanation
Indices: 2335--2417 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
2325 TTTCAAGTGC
**
2335 AAAAAAAAAGAAATGAAATGTAA-AATG
1 AAAAAAAAAGAAAAAAAATG-AAGAATG
*
2362 AAAAAAAATGAAAAAAAATGAAGAATG
1 AAAAAAAAAGAAAAAAAATGAAGAATG
*
2389 AAAAAGAAAAAGAAAAAAAAGGAAAGAAT
1 -AAAA-AAAAAGAAAAAAAATG-AAGAAT
2418 TGAGCTCTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
26 2 0.04
27 21 0.45
28 4 0.09
29 14 0.30
30 6 0.13
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.10
Consensus pattern (27 bp):
AAAAAAAAAGAAAAAAAATGAAGAATG
Found at i:2378 original size:39 final size:39
Alignment explanation
Indices: 2335--2413 Score: 90
Period size: 39 Copynumber: 2.0 Consensus size: 39
2325 TTTCAAGTGC
* * *
2335 AAAAAA-AAAGAAATG-AAATGTAAAATGAAAAAAAATGAA
1 AAAAAATAAAG-AATGAAAAAG-AAAAAGAAAAAAAAGGAA
*
2374 AAAAAATGAAGAATGAAAAAGAAAAAGAAAAAAAAGGAA
1 AAAAAATAAAGAATGAAAAAGAAAAAGAAAAAAAAGGAA
2413 A
1 A
2414 GAATTGAGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
39 27 0.79
40 7 0.21
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (39 bp):
AAAAAATAAAGAATGAAAAAGAAAAAGAAAAAAAAGGAA
Found at i:2396 original size:10 final size:10
Alignment explanation
Indices: 2356--2383 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
2346 AATGAAATGT
2356 AAAATGAAAA
1 AAAATGAAAA
2366 AAAATGAAAA
1 AAAATGAAAA
2376 AAAATGAA
1 AAAATGAA
2384 GAATGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (10 bp):
AAAATGAAAA
Found at i:3771 original size:35 final size:35
Alignment explanation
Indices: 3715--4153 Score: 551
Period size: 35 Copynumber: 12.5 Consensus size: 35
3705 ATTTCAGATG
*
3715 CTTCAGTTCATTTCAGTTGACCCAGGGCGGTCTTT
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTT
* * * *
3750 ATTCAATTTATTTCAGCTGACCC-GGGCGGTATTT
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTT
* *** *
3784 CTTCAATTCGCTTCAGTTGACCCAGGGTGGTCTTT
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTT
* *
3819 ATTCAGTTTATTTCAGCTGACCCAGGGCGGTCTTT
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTT
* * * * *
3854 CTTCAATTCACTTCAGTTGATCCAGGGCGATCCTTT
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGGT-CTTT
*
3890 CTTCAGTTTATTTCA-TTGACCTAGGGCGGTCTTT
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTT
3924 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTT
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTT
* * * * *
3959 CTTCAATTCACTTCAGTTGATCCAGGGCGATCCTTT
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGGT-CTTT
3995 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTT
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTT
* * *
4030 CTTCAGTTTATTTCAGTTGATCCAGGGAGATCCTTT
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGGT-CTTT
4066 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTT
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTT
* * * *
4101 CTTTAATTTATTTCAGTTGATCCAGGGCGATCTTT
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTT
4136 CCTT-AGTTTATTTCAGTT
1 -CTTCAGTTTATTTCAGTT
4154 AATCGAGGGC
Statistics
Matches: 344, Mismatches: 54, Indels: 12
0.84 0.13 0.03
Matches are distributed among these distances:
34 47 0.14
35 216 0.63
36 81 0.24
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.40
Consensus pattern (35 bp):
CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTT
Found at i:4163 original size:35 final size:35
Alignment explanation
Indices: 3715--4230 Score: 500
Period size: 35 Copynumber: 15.0 Consensus size: 35
3705 ATTTCAGATG
* * *
3715 CTTCAGTTCATTTCAGTTGACCCAGGGCGGTCTTT
1 CTTCAGTTTATTTCAGTTGATCCAGGGCGATCTTT
* * * * * *
3750 ATTCAATTTATTTCAGCTGA-CCCGGGCGGTATTT
1 CTTCAGTTTATTTCAGTTGATCCAGGGCGATCTTT
* *** * * *
3784 CTTCAATTCGCTTCAGTTGACCCAGGGTGGTCTTT
1 CTTCAGTTTATTTCAGTTGATCCAGGGCGATCTTT
* * * *
3819 ATTCAGTTTATTTCAGCTGACCCAGGGCGGTCTTT
1 CTTCAGTTTATTTCAGTTGATCCAGGGCGATCTTT
* * *
3854 CTTCAATTCACTTCAGTTGATCCAGGGCGATCCTTT
1 CTTCAGTTTATTTCAGTTGATCCAGGGCGAT-CTTT
*
3890 CTTCAGTTTATTTCA-TTGA-CCTAGGGCGGTCTTT
1 CTTCAGTTTATTTCAGTTGATCC-AGGGCGATCTTT
* *
3924 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTT
1 CTTCAGTTTATTTCAGTTGATCCAGGGCGATCTTT
* * *
3959 CTTCAATTCACTTCAGTTGATCCAGGGCGATCCTTT
1 CTTCAGTTTATTTCAGTTGATCCAGGGCGAT-CTTT
* *
3995 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTT
1 CTTCAGTTTATTTCAGTTGATCCAGGGCGATCTTT
*
4030 CTTCAGTTTATTTCAGTTGATCCAGGGAGATCCTTT
1 CTTCAGTTTATTTCAGTTGATCCAGGGCGAT-CTTT
* *
4066 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTT
1 CTTCAGTTTATTTCAGTTGATCCAGGGCGATCTTT
* *
4101 CTTTAATTTATTTCAGTTGATCCAGGGCGATCTTT
1 CTTCAGTTTATTTCAGTTGATCCAGGGCGATCTTT
* *
4136 CCTT-AGTTTATTTCAGTTAATCGAGGGCGATC-TT
1 -CTTCAGTTTATTTCAGTTGATCCAGGGCGATCTTT
*
4170 -TTC--TTTA----A-TTGATCTAGGGCGATCTTT
1 CTTCAGTTTATTTCAGTTGATCCAGGGCGATCTTT
* * * * *
4197 CCTCAATTTACTTCAGTAGATCCATGGCGATCTT
1 CTTCAGTTTATTTCAGTTGATCCAGGGCGATCTT
4231 CTCAATTTAC
Statistics
Matches: 402, Mismatches: 61, Indels: 36
0.81 0.12 0.07
Matches are distributed among these distances:
26 14 0.03
27 3 0.01
28 2 0.00
30 4 0.01
31 4 0.01
32 2 0.00
34 51 0.13
35 239 0.59
36 83 0.21
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.40
Consensus pattern (35 bp):
CTTCAGTTTATTTCAGTTGATCCAGGGCGATCTTT
Found at i:4179 original size:71 final size:70
Alignment explanation
Indices: 3715--4153 Score: 553
Period size: 71 Copynumber: 6.3 Consensus size: 70
3705 ATTTCAGATG
* * * * *
3715 CTTCAGTTCATTTCAGTTGACCCAGGGCGGTCTTTATTCAATTTATTTCAGCTGA-CCCGGGCGG
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTTCTTCAATTTATTTCAGTTGATCCAGGGCGA
*
3779 TATTT
66 TCTTT
* *** * * * * * *
3784 CTTCAATTCGCTTCAGTTGACCCAGGGTGGTCTTTATTCAGTTTATTTCAGCTGACCCAGGGCGG
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTTCTTCAATTTATTTCAGTTGATCCAGGGCGA
3849 TCTTT
66 TCTTT
* * * * * *
3854 CTTCAATTCACTTCAGTTGATCCAGGGCGATCCTTTCTTCAGTTTATTTCA-TTGA-CCTAGGGC
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGGT-CTTTCTTCAATTTATTTCAGTTGATCC-AGGGC
*
3917 GGTCTTT
64 GATCTTT
* *
3924 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTTCTTCAATTCACTTCAGTTGATCCAGGGCGA
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTTCTTCAATTTATTTCAGTTGATCCAGGGCGA
3989 TCCTTT
66 T-CTTT
* *
3995 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTTCTTCAGTTTATTTCAGTTGATCCAGGGAGA
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTTCTTCAATTTATTTCAGTTGATCCAGGGCGA
4060 TCCTTT
66 T-CTTT
*
4066 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTTCTTTAATTTATTTCAGTTGATCCAGGGCGA
1 CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTTCTTCAATTTATTTCAGTTGATCCAGGGCGA
4131 TCTTT
66 TCTTT
4136 CCTT-AGTTTATTTCAGTT
1 -CTTCAGTTTATTTCAGTT
4154 AATCGAGGGC
Statistics
Matches: 334, Mismatches: 29, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
69 68 0.20
70 109 0.33
71 157 0.47
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.40
Consensus pattern (70 bp):
CTTCAGTTTATTTCAGTTGACCCAGGGCGGTCTTTCTTCAATTTATTTCAGTTGATCCAGGGCGA
TCTTT
Found at i:4620 original size:162 final size:163
Alignment explanation
Indices: 4347--4791 Score: 658
Period size: 162 Copynumber: 2.7 Consensus size: 163
4337 CATGTTTAAG
* *
4347 TTAAAATCCTTGGTCAAGGTCTCAATTCAAAGTTTGCATTGGTAAGTCCACCGGGCACAAATTCA
1 TTAAAATCCTTGTTCAAGGTCTCAATTCAAAGTTTGCATTGGTAAGTCCTCCGGGCACAAATTCA
*
4412 GAAACCTCCGGGTATTAATTCTGATAAGTCCTCCGGGCAATTGATAAAACCTCCGGGTATCATTT
66 GAAACCTCCGGGTATTAATTCTGATAAGTCCTCCGGGCAATTGATAAAACCTCCGGGTACCATTT
* * * *
4477 CATTTTATTAAG-TTTTCATCAAAGATTCAGGT
131 CATTTCATCAAGTTTTTCATCAAAAATTCAGGC
* * * * *
4509 TTAAAATCCTTGTTCAAGGTTTCAATTCAAAGTTTGCATTGGTAAATCCTTCGGGCGCAATTTCA
1 TTAAAATCCTTGTTCAAGGTCTCAATTCAAAGTTTGCATTGGTAAGTCCTCCGGGCACAAATTCA
* *
4574 GAAACCTCCAGGTATTAATTCTGATAAGTCCTCCGGGCAGTTGATAAAACCTCCGGGTACCATTT
66 GAAACCTCCGGGTATTAATTCTGATAAGTCCTCCGGGCAATTGATAAAACCTCCGGGTACCATTT
* *
4639 GATTTCATCAAGTTTTTCATCAAAAATTCATGC
131 CATTTCATCAAGTTTTTCATCAAAAATTCAGGC
* * * *
4672 TTAAAATCTTTTGTTTAAAGTCTCAATTCAAGGTTTGCATTGGTAAGTCCTCCGGGCACAAATTC
1 TTAAAATC-CTTGTTCAAGGTCTCAATTCAAAGTTTGCATTGGTAAGTCCTCCGGGCACAAATTC
* * * *
4737 AGAAACCTCCGGGTAGTAATTCTGATAAGTCCTCTGGGCATTTGATAAGACCTCC
65 AGAAACCTCCGGGTATTAATTCTGATAAGTCCTCCGGGCAATTGATAAAACCTCC
4792 AGGCATTTTA
Statistics
Matches: 251, Mismatches: 30, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
162 129 0.51
163 25 0.10
164 97 0.39
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.33
Consensus pattern (163 bp):
TTAAAATCCTTGTTCAAGGTCTCAATTCAAAGTTTGCATTGGTAAGTCCTCCGGGCACAAATTCA
GAAACCTCCGGGTATTAATTCTGATAAGTCCTCCGGGCAATTGATAAAACCTCCGGGTACCATTT
CATTTCATCAAGTTTTTCATCAAAAATTCAGGC
Found at i:4784 original size:20 final size:20
Alignment explanation
Indices: 4759--4804 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
4749 GTAGTAATTC
* **
4759 TGATAAGTCCTCTGGGCATT
1 TGATAAGACCTCCAGGCATT
4779 TGATAAGACCTCCAGGCATT
1 TGATAAGACCTCCAGGCATT
*
4799 TTATAA
1 TGATAA
4805 TTTCTTCAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (20 bp):
TGATAAGACCTCCAGGCATT
Found at i:4873 original size:30 final size:30
Alignment explanation
Indices: 4828--5313 Score: 491
Period size: 30 Copynumber: 16.2 Consensus size: 30
4818 ATTCTACTTT
4828 ATCATTGCATTATTTTAATCCTGGTTGAGG
1 ATCATTGCATTATTTTAATCCTGGTTGAGG
*
4858 AT-ACTTGCATCATTTTAATCCTGGTTGAGG
1 ATCA-TTGCATTATTTTAATCCTGGTTGAGG
* *** *
4888 ATCGTTATTTTATTTTGATCCTGGTTGAGG
1 ATCATTGCATTATTTTAATCCTGGTTGAGG
* * *
4918 AT-ATTTACATCATTTTAATCCTGATTGAGG
1 ATCA-TTGCATTATTTTAATCCTGGTTGAGG
* * *
4948 ATCATTGCTTTATCTTAATCCTGTTTGAGG
1 ATCATTGCATTATTTTAATCCTGGTTGAGG
4978 ATCATTGCATTATTTTAATCCTGGTTGAGG
1 ATCATTGCATTATTTTAATCCTGGTTGAGG
*
5008 AT-ACTTGCATCATTTTAATCCTGGTTGAGG
1 ATCA-TTGCATTATTTTAATCCTGGTTGAGG
* *** **
5038 ATCGTTATTTTATTTTGCTCCTGGTTGAGG
1 ATCATTGCATTATTTTAATCCTGGTTGAGG
* * *
5068 AT-ATTTACATCATTTTAATCTTGGTTGAGG
1 ATCA-TTGCATTATTTTAATCCTGGTTGAGG
* * *
5098 ATCATTGCTTTATCTTAATCCTGTTTGAGG
1 ATCATTGCATTATTTTAATCCTGGTTGAGG
5128 ATCATTGCATTATTTTAATCCTGGTTGAGG
1 ATCATTGCATTATTTTAATCCTGGTTGAGG
*
5158 AT-ATTTGCATCATTTTAATCCTGGTTGAGG
1 ATCA-TTGCATTATTTTAATCCTGGTTGAGG
* *** * *
5188 ATCGTTATTTTATTTTGATCCTGGTTTAGG
1 ATCATTGCATTATTTTAATCCTGGTTGAGG
* * * *
5218 AT-ATTTACATCATTTTAGTCCGGGTTGAGG
1 ATCA-TTGCATTATTTTAATCCTGGTTGAGG
* *
5248 ATCATTGCTTTATTTTAATCCTGGTTAAGG
1 ATCATTGCATTATTTTAATCCTGGTTGAGG
* * *
5278 ATCGTTGCTTTATTTCAATCCTGGCTT-AGG
1 ATCATTGCATTATTTTAATCCTGG-TTGAGG
5308 ATCATT
1 ATCATT
5314 ACTTTAAGTT
Statistics
Matches: 373, Mismatches: 70, Indels: 26
0.80 0.15 0.06
Matches are distributed among these distances:
29 3 0.01
30 365 0.98
31 5 0.01
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.45
Consensus pattern (30 bp):
ATCATTGCATTATTTTAATCCTGGTTGAGG
Found at i:5099 original size:150 final size:150
Alignment explanation
Indices: 4828--5309 Score: 831
Period size: 150 Copynumber: 3.2 Consensus size: 150
4818 ATTCTACTTT
4828 ATCATTGCATTATTTTAATCCTGGTTGAGGATACTTGCATCATTTTAATCCTGGTTGAGGATCGT
1 ATCATTGCATTATTTTAATCCTGGTTGAGGATACTTGCATCATTTTAATCCTGGTTGAGGATCGT
*
4893 TATTTTATTTTGATCCTGGTTGAGGATATTTACATCATTTTAATCCTGATTGAGGATCATTGCTT
66 TATTTTATTTTGATCCTGGTTGAGGATATTTACATCATTTTAATCCTGGTTGAGGATCATTGCTT
4958 TATCTTAATCCTGTTTGAGG
131 TATCTTAATCCTGTTTGAGG
4978 ATCATTGCATTATTTTAATCCTGGTTGAGGATACTTGCATCATTTTAATCCTGGTTGAGGATCGT
1 ATCATTGCATTATTTTAATCCTGGTTGAGGATACTTGCATCATTTTAATCCTGGTTGAGGATCGT
* *
5043 TATTTTATTTTGCTCCTGGTTGAGGATATTTACATCATTTTAATCTTGGTTGAGGATCATTGCTT
66 TATTTTATTTTGATCCTGGTTGAGGATATTTACATCATTTTAATCCTGGTTGAGGATCATTGCTT
5108 TATCTTAATCCTGTTTGAGG
131 TATCTTAATCCTGTTTGAGG
*
5128 ATCATTGCATTATTTTAATCCTGGTTGAGGATATTTGCATCATTTTAATCCTGGTTGAGGATCGT
1 ATCATTGCATTATTTTAATCCTGGTTGAGGATACTTGCATCATTTTAATCCTGGTTGAGGATCGT
* * *
5193 TATTTTATTTTGATCCTGGTTTAGGATATTTACATCATTTTAGTCCGGGTTGAGGATCATTGCTT
66 TATTTTATTTTGATCCTGGTTGAGGATATTTACATCATTTTAATCCTGGTTGAGGATCATTGCTT
* * *
5258 TATTTTAATCCTGGTTAAGG
131 TATCTTAATCCTGTTTGAGG
* * *
5278 ATCGTTGCTTTATTTCAATCCTGGCTT-AGGAT
1 ATCATTGCATTATTTTAATCCTGG-TTGAGGAT
5310 CATTACTTTA
Statistics
Matches: 316, Mismatches: 15, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
150 314 0.99
151 2 0.01
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.45
Consensus pattern (150 bp):
ATCATTGCATTATTTTAATCCTGGTTGAGGATACTTGCATCATTTTAATCCTGGTTGAGGATCGT
TATTTTATTTTGATCCTGGTTGAGGATATTTACATCATTTTAATCCTGGTTGAGGATCATTGCTT
TATCTTAATCCTGTTTGAGG
Found at i:5653 original size:28 final size:27
Alignment explanation
Indices: 5622--5694 Score: 121
Period size: 26 Copynumber: 2.7 Consensus size: 27
5612 GGGTCATCTC
5622 GGGGCATTTTGGTCATTTTGCACATTCA
1 GGGGCATTTTGGTCATTTTGCAC-TTCA
*
5650 GGGGCATTTTGGTCA-TTTGTACTTCA
1 GGGGCATTTTGGTCATTTTGCACTTCA
5676 GGGGCATTTTGGTCATTTT
1 GGGGCATTTTGGTCATTTT
5695 TTTATATTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
26 19 0.44
27 9 0.21
28 15 0.35
ACGTcount: A:0.15, C:0.15, G:0.27, T:0.42
Consensus pattern (27 bp):
GGGGCATTTTGGTCATTTTGCACTTCA
Done.