Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01012105.1 Corchorus capsularis cultivar CVL-1 contig12126, 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: 49680
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.31
Found at i:525 original size:20 final size:20
Alignment explanation
Indices: 496--551 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
486 TTATTTTTTT
*
496 TATATATAATTATATAATA-
1 TATATATAATTATATAAAAC
*
515 TATATTATAATTACATAAAAC
1 TATA-TATAATTATATAAAAC
536 TATAGTAT-ATTATATA
1 TATA-TATAATTATATA
552 TATCCAAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 4 0.13
20 20 0.65
21 7 0.23
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.45
Consensus pattern (20 bp):
TATATATAATTATATAAAAC
Found at i:2440 original size:21 final size:21
Alignment explanation
Indices: 2414--2455 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
2404 TTAAGCACTC
2414 TAATATTCACAGACGATCCAG
1 TAATATTCACAGACGATCCAG
2435 TAATATTCACAGACGATCCAG
1 TAATATTCACAGACGATCCAG
2456 ATTTACTAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.24
Consensus pattern (21 bp):
TAATATTCACAGACGATCCAG
Found at i:9356 original size:33 final size:33
Alignment explanation
Indices: 9284--9356 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
9274 AAAATTGCTC
* * *
9284 ATGCCGCCCTAGGGGGGTGGCTGAGCCATGGTA
1 ATGCCGCCCTAGGGGAGCGCCTGAGCCATGGTA
**
9317 GGGCCGCCCTAGGGGAGCGACCTG-GCCATGGTA
1 ATGCCGCCCTAGGGGAGCG-CCTGAGCCATGGTA
9350 ATGCCGC
1 ATGCCGC
9357 ATCAGGGGGA
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
33 29 0.91
34 3 0.09
ACGTcount: A:0.15, C:0.29, G:0.41, T:0.15
Consensus pattern (33 bp):
ATGCCGCCCTAGGGGAGCGCCTGAGCCATGGTA
Found at i:9411 original size:33 final size:33
Alignment explanation
Indices: 9373--9435 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
9363 GGGACGGCTT
*
9373 GCCATGGCTAAGCCGTCCC-CCTGGGGCGGCTGA
1 GCCATGGCCAAGCCG-CCCTCCTGGGGCGGCTGA
9406 GCCATGGCCAAGCCGCCCTCCTGGGGCGGC
1 GCCATGGCCAAGCCGCCCTCCTGGGGCGGC
9436 ACTACCATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 3 0.11
33 25 0.89
ACGTcount: A:0.11, C:0.40, G:0.37, T:0.13
Consensus pattern (33 bp):
GCCATGGCCAAGCCGCCCTCCTGGGGCGGCTGA
Found at i:9444 original size:33 final size:34
Alignment explanation
Indices: 9374--9503 Score: 98
Period size: 33 Copynumber: 3.9 Consensus size: 34
9364 GGACGGCTTG
*
9374 CCATGGCTAAG-CCGTCCC-CCTGGGGCGG--CTGA
1 CCATGGCCAAGACCG-CCCTCCTGGGGCGGCACT-A
9406 GCCATGGCCAAG-CCGCCCTCCTGGGGCGGCACTA
1 -CCATGGCCAAGACCGCCCTCCTGGGGCGGCACTA
* * *
9440 CCATGGCC-AGTCC-ACCTCCCTGGGGCGGCCCTA
1 CCATGGCCAAGACCGCCCT-CCTGGGGCGGCACTA
* *
9473 CCATAG--ATAGACCGCCCCCCTGGGGCGGCAC
1 CCATGGCCA-AGACCGCCCTCCTGGGGCGGCAC
9504 CGGTACTAAA
Statistics
Matches: 81, Mismatches: 8, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
32 8 0.10
33 68 0.84
34 3 0.04
35 2 0.02
ACGTcount: A:0.15, C:0.42, G:0.31, T:0.13
Consensus pattern (34 bp):
CCATGGCCAAGACCGCCCTCCTGGGGCGGCACTA
Found at i:9873 original size:33 final size:32
Alignment explanation
Indices: 9559--9862 Score: 421
Period size: 32 Copynumber: 9.4 Consensus size: 32
9549 AAAAAGCCTT
*
9559 GCCGCCCTAGTGGGGCGGCTAGCCGTGGCAGA
1 GCCGTCCTAGTGGGGCGGCTAGCCGTGGCAGA
*
9591 GCCGTCCTAGTGGGACGGCTAGCCGTGGCAGA
1 GCCGTCCTAGTGGGGCGGCTAGCCGTGGCAGA
* * * *
9623 GTCGTCCTAGTAGGGCGGCTAGCCATTGCAGA
1 GCCGTCCTAGTGGGGCGGCTAGCCGTGGCAGA
* * *
9655 GTCGTCCTAGTGGGGCGGCTAGCCATTGCAGA
1 GCCGTCCTAGTGGGGCGGCTAGCCGTGGCAGA
*
9687 GCCGTCCTAGTGGGGCGGCTAGCCGTGGCAAA
1 GCCGTCCTAGTGGGGCGGCTAGCCGTGGCAGA
9719 GCCGTCCTAGTGGGGCGGCTAGCCGTGGCAGA
1 GCCGTCCTAGTGGGGCGGCTAGCCGTGGCAGA
*
9751 GCCGTCCTAGTGGGGCGGCTCCA-CCGTGGTAGA
1 GCCGTCCTAGTGGGGCGGCT--AGCCGTGGCAGA
* * *
9784 GCCGCCCTAGTGGGGAGGCTCCGCCGTGGCAGA
1 GCCGTCCTAGTGGGGCGGCT-AGCCGTGGCAGA
* *
9817 GCCGTCCTAGTGGGGAGGCTCCGCCGTGGCAGA
1 GCCGTCCTAGTGGGGCGGCT-AGCCGTGGCAGA
9850 GCCGTCCTAGTGG
1 GCCGTCCTAGTGG
9863 AGAGGCTCCG
Statistics
Matches: 250, Mismatches: 19, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
32 168 0.67
33 81 0.32
34 1 0.00
ACGTcount: A:0.14, C:0.29, G:0.40, T:0.17
Consensus pattern (32 bp):
GCCGTCCTAGTGGGGCGGCTAGCCGTGGCAGA
Found at i:26352 original size:16 final size:16
Alignment explanation
Indices: 26333--26363 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
26323 AGTTATAGAT
26333 TTTTCAAAAAATAATA
1 TTTTCAAAAAATAATA
26349 TTTTCAAAAAATAAT
1 TTTTCAAAAAATAAT
26364 CGACGGGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (16 bp):
TTTTCAAAAAATAATA
Found at i:26738 original size:165 final size:163
Alignment explanation
Indices: 26526--26965 Score: 580
Period size: 163 Copynumber: 2.7 Consensus size: 163
26516 TGAGTCATTT
*
26526 GTCAATTGAGAAATGA-CAAAAAAGTTTAGTTATTTAATCCCCTCAAGAATCAAAACTTAGGACA
1 GTCAATTGAGAAATGACCAAAAAA--TTAGTTATTTAAT-CCCTCAAGAATCAAAAGTTAGGACA
* * * ** * *
26590 TTTAAGTAATCTGCCAAGTAGGTAAAGAGGAAAAAGATTAGTTTTCTAACT-CATCATCAATCCT
63 TTTAAGTAATCTGTCAAGTAGGAAAAGA-GAAAAA-ATTAGTTCTCTAACTCCAAAAGCAAGCCT
* * *
26654 TGATGGGGATCTTTTATTAATTCCACTACTCTATTCAA
126 TGATAGGGATCTTTTAGTAATTCCACTACTCTATTAAA
* *
26692 GTCCATTGAGAAATGACCAAAAAATTACTTATTTAATCCTCTCAAGAATCAAAAGTTAGGACATT
1 GTCAATTGAGAAATGACCAAAAAATTAGTTATTTAATCC-CTCAAGAATCAAAAGTTAGGACATT
* * *
26757 TAAGTAATCTGTCAAGTAGGAAAAGACAAAAAA-AAGTTCTCTAACTCCAAAAGCAAGCCTTGGT
65 TAAGTAATCTGTCAAGTAGGAAAAGAGAAAAAATTAGTTCTCTAACTCCAAAAGCAAGCCTTGAT
26821 AGGGATCTTTTAGTAATTCCACTACTCTATTAAA
130 AGGGATCTTTTAGTAATTCCACTACTCTATTAAA
* * *
26855 GTCAATTGAGAAATGACCAAAAAGTCTAGTTATTTAATCACCTCAAGAATCAAAAGTTAAGCCAT
1 GTCAATTGAGAAATGACCAAAAAAT-TAGTTATTTAATC-CCTCAAGAATCAAAAGTTAGGACAT
* *
26920 TTAAGTAATCGGTCAAGTGGGAAAAGACGAAAAAAATTAGTTCTCT
64 TTAAGTAATCTGTCAAGTAGGAAAAGA-G-AAAAAATTAGTTCTCT
26966 CGCTCCTCAT
Statistics
Matches: 241, Mismatches: 25, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
162 11 0.05
163 67 0.28
164 66 0.27
165 61 0.25
166 21 0.09
167 15 0.06
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (163 bp):
GTCAATTGAGAAATGACCAAAAAATTAGTTATTTAATCCCTCAAGAATCAAAAGTTAGGACATTT
AAGTAATCTGTCAAGTAGGAAAAGAGAAAAAATTAGTTCTCTAACTCCAAAAGCAAGCCTTGATA
GGGATCTTTTAGTAATTCCACTACTCTATTAAA
Found at i:26937 original size:164 final size:161
Alignment explanation
Indices: 26526--26965 Score: 574
Period size: 165 Copynumber: 2.7 Consensus size: 161
26516 TGAGTCATTT
* *
26526 GTCAATTGAGAAATGACAAAAAAGTTTAGTTATTTAATCCCCTCAAGAATCAAAACTTAGGACAT
1 GTCAATTGAGAAATGACCAAAAAG-TTAGTTATTTAAT-CCCTCAAGAATCAAAAGTTAGGACAT
* * * * * ** * *
26591 TTAAGTAATCTGCCAAGTAGGTAAAGAGGAAAAAGATTAGTTTTCTAACTCATCATCAATCCTTG
64 TTAAGTAATCTGTCAAGTAGGAAAAGA-CAAAAA-A-AAGTTCTCTAACTCAAAAGCAAGCCTTG
* * *
26656 ATGGGGATCTTTTATTAATTCCACTACTCTATTCAA
126 ATAGGGATCTTTTAGTAATTCCACTACTCTATTAAA
* * *
26692 GTCCATTGAGAAATGACCAAAAAATTACTTATTTAATCCTCTCAAGAATCAAAAGTTAGGACATT
1 GTCAATTGAGAAATGACCAAAAAGTTAGTTATTTAATCC-CTCAAGAATCAAAAGTTAGGACATT
*
26757 TAAGTAATCTGTCAAGTAGGAAAAGACAAAAAAAAGTTCTCTAACTCCAAAAGCAAGCCTTGGTA
65 TAAGTAATCTGTCAAGTAGGAAAAGACAAAAAAAAGTTCTCTAACT-CAAAAGCAAGCCTTGATA
26822 GGGATCTTTTAGTAATTCCACTACTCTATTAAA
129 GGGATCTTTTAGTAATTCCACTACTCTATTAAA
* *
26855 GTCAATTGAGAAATGACCAAAAAGTCTAGTTATTTAATCACCTCAAGAATCAAAAGTTAAGCCAT
1 GTCAATTGAGAAATGACCAAAAAGT-TAGTTATTTAATC-CCTCAAGAATCAAAAGTTAGGACAT
* *
26920 TTAAGTAATCGGTCAAGTGGGAAAAGACGAAAAAAATTAGTTCTCT
64 TTAAGTAATCTGTCAAGTAGGAAAAGAC-AAAAAAA--AGTTCTCT
26966 CGCTCCTCAT
Statistics
Matches: 242, Mismatches: 25, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
162 11 0.05
163 67 0.28
164 67 0.28
165 68 0.28
166 21 0.09
167 8 0.03
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (161 bp):
GTCAATTGAGAAATGACCAAAAAGTTAGTTATTTAATCCCTCAAGAATCAAAAGTTAGGACATTT
AAGTAATCTGTCAAGTAGGAAAAGACAAAAAAAAGTTCTCTAACTCAAAAGCAAGCCTTGATAGG
GATCTTTTAGTAATTCCACTACTCTATTAAA
Found at i:31140 original size:2 final size:2
Alignment explanation
Indices: 31133--31157 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
31123 GCACCAACCG
31133 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
31158 AGAAATCGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:34633 original size:34 final size:34
Alignment explanation
Indices: 34590--34670 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 34
34580 GTTAAAAACT
34590 TGAGATCTTGAGGGGGTTTTTTTTTTTTGAG-ATA
1 TGAGATCTTGAGGGGGTTTTTTTTTTTTGAGTA-A
****
34624 TGAGATCTTGAGTTTTTTTTTTTTTTTTGAGTGAA
1 TGAGATCTTGAGGGGGTTTTTTTTTTTTGAGT-AA
34659 TGAGATCTTGAG
1 TGAGATCTTGAG
34671 TTTTTAAATC
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
34 27 0.66
35 13 0.32
36 1 0.02
ACGTcount: A:0.19, C:0.04, G:0.26, T:0.52
Consensus pattern (34 bp):
TGAGATCTTGAGGGGGTTTTTTTTTTTTGAGTAA
Found at i:34662 original size:35 final size:34
Alignment explanation
Indices: 34606--34675 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 34
34596 CTTGAGGGGG
34606 TTTTTTTTTTTTGAGATATGAGATCTTGAGTTTT
1 TTTTTTTTTTTTGAGATATGAGATCTTGAGTTTT
34640 TTTTTTTTTTTTGAG-TGAATGAGATCTTGAGTTTT
1 TTTTTTTTTTTTGAGAT--ATGAGATCTTGAGTTTT
34675 T
1 T
34676 AAATCTTAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
33 1 0.03
34 15 0.44
35 18 0.53
ACGTcount: A:0.17, C:0.03, G:0.19, T:0.61
Consensus pattern (34 bp):
TTTTTTTTTTTTGAGATATGAGATCTTGAGTTTT
Found at i:34857 original size:2 final size:2
Alignment explanation
Indices: 34852--34881 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
34842 ATATAGTTTG
34852 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34882 AAAGTACTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:37543 original size:228 final size:228
Alignment explanation
Indices: 36887--37969 Score: 1093
Period size: 228 Copynumber: 4.7 Consensus size: 228
36877 CTTAAAAGCC
* * * * * * *
36887 ACCACCACGAAGGCGGAGAACAAGATGCAA-GGTGGA-TTCTTTCTGGATGTTGTAATCTGCAAG
1 ACCACCACGAAGACGGAGAACCAGATG-AAGGGTAGACTCCTTT-TGGATATTATAATCAGCAAG
* * * * * * *
36950 AGTTCTCCCATCCTCCAGCTGCTTCCCAGCAAAAATCAACCTCTGCTGGTCTGGTGGTA-TCCCT
64 TGTCCTCCCATCTTCAAGCTGCTTACCAGCAAAGATCAACCTCTGCTGGTCTGGTGGAATTCCC-
* * * *
37014 TCTTTGTCTTGGATCTTTGCCTTCACATTGTCAATGGTGTCTGAGCTTTCAACCTCCAAAGTTAT
128 TCTTTATCTTGGATCTTAGCCTTCACATTGTCAATGGTGTCTGAGCTCTCAACCTCCAAAGTGAT
* *
37079 TGTCTTTCCAGTCAAG-GTCTTCACAAATATCTGCAT
193 TGTCTTTCCAGT-AAGAGTCTTAACAAAGATCTGCAT
* * * * * * * * *
37115 CCCACCACGTAGGCGCA-ACACCA-AGTGGAGGGTGGATTCCTTTTGGATATTGTAGTCAGCAAG
1 ACCACCACGAAGACGGAGA-ACCAGA-TGAAGGGTAGACTCCTTTTGGATATTATAATCAGCAAG
* * * * * * * * * *
37178 GGTTCTCCCATCTTCAAGCTGGCTTACCAGCGAAGATGAGCCTTTGCTGGTCAGGCGGGATACCC
64 TGTCCTCCCATCTTCAAGCT-GCTTACCAGCAAAGATCAACCTCTGCTGGTCTGGTGGAATTCCC
* * * ** * * * *
37243 TCCTTATCTTGGATCTTTGCCTTCACATTATTGATGGTATCTGAACTTTCAACCTCCAATGTGAT
128 TCTTTATCTTGGATCTTAGCCTTCACATTGTCAATGGTGTCTGAGCTCTCAACCTCCAAAGTGAT
*
37308 AGTCTTTCCAGTAAGAGTCTTAACAAAGATCTGCAT
193 TGTCTTTCCAGTAAGAGTCTTAACAAAGATCTGCAT
* * * * *
37344 ACCACCACGAAGACGGAGAACCAGATGAAGAGTTGACTCCTTTTGAATGTTATAATCAGCGAGTG
1 ACCACCACGAAGACGGAGAACCAGATGAAGGGTAGACTCCTTTTGGATATTATAATCAGCAAGTG
* * *
37409 TCCTCCCATCCTCAAGTTGCTTACCAGCAAAGATCAACCTCTGCTGGTCTGGTGGGATTCCCTCT
66 TCCTCCCATCTTCAAGCTGCTTACCAGCAAAGATCAACCTCTGCTGGTCTGGTGGAATTCCCTCT
* * *
37474 TTATCCTGGATCTTAGCCTTCACATTGTCAATAGTGTCTGAGCTCTCCACCTCCAAAGTGATTGT
131 TTATCTTGGATCTTAGCCTTCACATTGTCAATGGTGTCTGAGCTCTCAACCTCCAAAGTGATTGT
* * * *
37539 CTTTCCTGTGAGGGTCTTGACAAAGATCTGCAT
196 CTTTCCAGTAAGAGTCTTAACAAAGATCTGCAT
* * * * *
37572 ACCACCACGAAGACGCAAAACCAGGTGAAGGGTAGACTCCTTCTGAATATTATAATCAGCAAGTG
1 ACCACCACGAAGACGGAGAACCAGATGAAGGGTAGACTCCTTTTGGATATTATAATCAGCAAGTG
* * * *
37637 TCCTTCCATCTTCAAGCTGCTTCCCAGCAAAAATCAACCTCTGCTGGTCTGGTGGAATACCCTCT
66 TCCTCCCATCTTCAAGCTGCTTACCAGCAAAGATCAACCTCTGCTGGTCTGGTGGAATTCCCTCT
* * * * *
37702 TTATCCTGAATCTTAGCCTTCACATTGTCAATAGTGTCGGAGCTCTCTACCTCCAAAGTGATTGT
131 TTATCTTGGATCTTAGCCTTCACATTGTCAATGGTGTCTGAGCTCTCAACCTCCAAAGTGATTGT
* * * * * *
37767 TTTTCCTGTGAGAGTCTTTACAAAAATTTGCAT
196 CTTTCCAGTAAGAGTCTTAACAAAGATCTGCAT
* * * *
37800 GCCACCACGAAGACGGAGCACTA-AGTGAAGGGTAGACT-CTTTCTGGATATTATAGTCAGAGCA
1 ACCACCACGAAGACGGAGAACCAGA-TGAAGGGTAGACTCCTTT-TGGATATTATAATC--AGCA
* * ** * * * ** * *
37863 AGCGTGCGACCATCTTCAAGCTGTTTGCCAGCAAAGATGAGTCTTTGCTGATCTGGTGGAATTCC
62 AGTGTCCTCCCATCTTCAAGCTGCTTACCAGCAAAGATCAACCTCTGCTGGTCTGGTGGAATTCC
* * *
37928 TTCTTTATCTTGTATCTTAGCCTTGACATTGTCAATGGTGTC
127 CTCTTTATCTTGGATCTTAGCCTTCACATTGTCAATGGTGTC
37970 AGAACTTTCG
Statistics
Matches: 717, Mismatches: 125, Indels: 24
0.83 0.14 0.03
Matches are distributed among these distances:
227 6 0.01
228 431 0.60
229 182 0.25
230 98 0.14
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (228 bp):
ACCACCACGAAGACGGAGAACCAGATGAAGGGTAGACTCCTTTTGGATATTATAATCAGCAAGTG
TCCTCCCATCTTCAAGCTGCTTACCAGCAAAGATCAACCTCTGCTGGTCTGGTGGAATTCCCTCT
TTATCTTGGATCTTAGCCTTCACATTGTCAATGGTGTCTGAGCTCTCAACCTCCAAAGTGATTGT
CTTTCCAGTAAGAGTCTTAACAAAGATCTGCAT
Found at i:41159 original size:15 final size:15
Alignment explanation
Indices: 41136--41165 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
41126 ATCGGTTGAA
*
41136 ATATTGTGTATCGTG
1 ATATCGTGTATCGTG
41151 ATATCGTGTATCGTG
1 ATATCGTGTATCGTG
41166 GCGGCCTGAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.10, G:0.27, T:0.43
Consensus pattern (15 bp):
ATATCGTGTATCGTG
Found at i:49515 original size:2 final size:2
Alignment explanation
Indices: 49508--49553 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
49498 CTTTCCCTCC
49508 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
49550 TA TA
1 TA TA
49554 GCATTAAAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.