Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168012.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_267, 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: 40985
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Found at i:15172 original size:501 final size:501
Alignment explanation
Indices: 14148--15177 Score: 1089
Period size: 501 Copynumber: 2.0 Consensus size: 501
14138 GCTAGGTTAT
* ** **
14148 ACACCAAGCATGGGTATCTTGGGC-TCAGGCCATGCACCGTGCACACCATGATTGGGTAATAGGT
1 ACACCAAGCATGGGTATCCTGGGCTTCAGGCCATGCACAATGCACACCACAATTGGGTAATAGGT
* * * * *
14212 GGGTTTAGGCACATTTTCATATTTCTACCATGTCAATGCCATTTTTATGGCTTGTAAATTCATAT
66 GGGTTTAGGCACA--TTCATATTTCTACCATGCCAATGCCATTTTTATAGCCTATAAATTCACAT
* * *
14277 AAGGCCTCACTAGTGCTAGCACCTAGGCCTGGCTCAATTCTGCCAAACCTGAACACTATACCTAA
129 AAGGCCTCACCAATGCTAGCACCTAGGCCTAGCTCAATTCTGCCAAACCTGAACACTATACCTAA
* * ** * *
14342 GCCTCTGAAGTCTTGATCACTGCTCATACCACTATTTTGGGCTAGTTCCCCATAGCTTGGGCCCC
194 GCCTCTGAAGTCTTAATCACTGCCCATACCACTATTTCAGGCTAGTTCCCCATACCTAGGGCCCC
* * * * ** * * *
14407 AAGTAGGCCTTAAGGCCTGGTCCCCTTGCCATTCAGGCCCTATCCTACTAGAACTAGAATTGTTC
259 AAGTAGGCCTCAAGGCCTAGTCCCCTAGCCAATCAAACCCTATCCAACTAGAACTAGAAATGCTC
* * * * ** *
14472 CTTGACTCAGAGAGAACCCTAGGTCTTGGACTAGCTTGTAGACTCTGACGTAAGCCCATCCTTGA
324 CTTGACTCAAAGAGAACCCTAGGGCATGGACTAGCTTGTAGACTATGACACAAGCACATCCTTGA
* * * * * * *
14537 CAACCATCAGGACATGTTGGCCCTTGGTCTCAGCATATGCTTCAACCACCGTTGGTACATGTTTA
389 CAACCATCAAGACATGTTGGCCCTCGATCTCAGCATAAGCTTCAACCACCATTGGCACATGTCTA
* *
14602 CCCTTTGTGCAGGTAGTTCCATCAATCATCATTGATATATGCTAGGCTGC
454 CCCTTTGTG-AGGTAGTTCCATCAAACACCATTGATATA-GCTAGGCTGC
* * * *
14652 ACACCACACGC--GAGTATCCTAGGCTTGA-GCCATGCATAATGCACACCACAATTGGGTAATAG
1 ACACCA-A-GCATGGGTATCCTGGGCTTCAGGCCATGCACAATGCACACCACAATTGGGTAATAG
14714 GTGGGTTTAGGCACA-TCATATTTCTACCATGCCAATGCCATTTTTATAGCCTATAAATTCACAT
64 GTGGGTTTAGGCACATTCATATTTCTACCATGCCAATGCCATTTTTATAGCCTATAAATTCACAT
* * * * * * * * * *
14778 AAATG-CTTACCAATGCTCGCACTTGGGCCTAGTTCAATTCTGCCAAAGCTGAACACTGTGCCTG
129 -AAGGCCTCACCAATGCTAGCACCTAGGCCTAGCTCAATTCTGCCAAACCTGAACACTATACCTA
**
14842 AGCCTCTGAAGTCTTAATCACTGCCCATACCA-TGATTTCAGGCTAGTTCCCCATGACCTAGGTT
193 AGCCTCTGAAGTCTTAATCACTGCCCATACCACT-ATTTCAGGCTAGTTCCCCAT-ACCTAGGGC
* * * *
14906 CCC-ATTAGGCCTCAAGGCCTAGTCCCCCTAG-CAATCAAACCTTTTCCAACTTGAACTAGAAAT
256 CCCAAGTAGGCCTCAAGGCCTAGT-CCCCTAGCCAATCAAACCCTATCCAACTAGAACTAGAAAT
* * * * *
14969 GCTCCTTGACTCAAAGAGAACCTTTGGGCATGGACTAGTTTGTGGACTATGACACATGCACATGC
320 GCTCCTTGACTCAAAGAGAACCCTAGGGCATGGACTAGCTTGTAGACTATGACACAAGCACAT-C
* ** * ** **
15034 CTTGACCACCATCAAGACATGTTGG-CCTCGATCTTTGCATAAGGTTTGACTGCCATTGGCACAT
384 CTTGACAACCATCAAGACATGTTGGCCCTCGATCTCAGCATAAGCTTCAACCACCATTGGCACAT
* *
15098 G-CTAGCCCTTCATGTG-GGTAGTTTCC-TCAAACACCATTAGCATATA-CTGGGTTGC
449 GTCTA-CCCTT--TGTGAGGTAG-TTCCATCAAACACCATT-G-ATATAGCTAGGCTGC
*
15153 ATACCAAGCATGGGTATCCTGGGCT
1 ACACCAAGCATGGGTATCCTGGGCT
15178 CGGACTGTGC
Statistics
Matches: 428, Mismatches: 82, Indels: 35
0.79 0.15 0.06
Matches are distributed among these distances:
499 2 0.00
500 4 0.01
501 302 0.71
502 46 0.11
503 9 0.02
504 60 0.14
505 3 0.01
506 2 0.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (501 bp):
ACACCAAGCATGGGTATCCTGGGCTTCAGGCCATGCACAATGCACACCACAATTGGGTAATAGGT
GGGTTTAGGCACATTCATATTTCTACCATGCCAATGCCATTTTTATAGCCTATAAATTCACATAA
GGCCTCACCAATGCTAGCACCTAGGCCTAGCTCAATTCTGCCAAACCTGAACACTATACCTAAGC
CTCTGAAGTCTTAATCACTGCCCATACCACTATTTCAGGCTAGTTCCCCATACCTAGGGCCCCAA
GTAGGCCTCAAGGCCTAGTCCCCTAGCCAATCAAACCCTATCCAACTAGAACTAGAAATGCTCCT
TGACTCAAAGAGAACCCTAGGGCATGGACTAGCTTGTAGACTATGACACAAGCACATCCTTGACA
ACCATCAAGACATGTTGGCCCTCGATCTCAGCATAAGCTTCAACCACCATTGGCACATGTCTACC
CTTTGTGAGGTAGTTCCATCAAACACCATTGATATAGCTAGGCTGC
Found at i:16098 original size:22 final size:22
Alignment explanation
Indices: 16072--16149 Score: 111
Period size: 22 Copynumber: 3.5 Consensus size: 22
16062 GCCCTTGGTC
16072 TCGACACATGCTTTGACCACCA
1 TCGACACATGCTTTGACCACCA
* *
16094 TCGACACATGCGTCGACCACCA
1 TCGACACATGCTTTGACCACCA
*
16116 TCGACACATGCTTTGACTACCA
1 TCGACACATGCTTTGACCACCA
* *
16138 TTGGCACATGCT
1 TCGACACATGCT
16150 AGCCCCTGGT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.26, C:0.35, G:0.17, T:0.23
Consensus pattern (22 bp):
TCGACACATGCTTTGACCACCA
Done.