Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold_1061 ID=scaffold_1061-JGI_221_v2.0
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, 708
Length: 1180
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.37
Found at i:974 original size:516 final size:516
Alignment explanation
Indices: 1--1180 Score: 2144
Period size: 516 Copynumber: 2.3 Consensus size: 516
1 AAACTCTTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAAATTT
1 AAACTCTTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAAATTT
*
66 GCAACATCATCATATACATGCTATCCAACAACATACCATTCCCACATCCATTGAATGTCATGAAT
66 GCAACATCATCATATACATGCTATCCAACAACATACCATTCCCACATCCATTCAATGTCATGAAT
*
131 CTCTTCATATTTATCAAGTATTTCTTATTTTAGGATTTGATCCATTTTATATAAAAAACCATTAA
131 CTCTTCATATTTATCAAGTATTTCTTATTTTACGATTTGATCCATTTTATATAAAAAACCATTAA
* *
196 ATCTACAATTATATATATTTAATATATATACAAAAACACAATTTAAATATAATACGAAAATGCAG
196 ATCTACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAATACAAAAATGCAG
* *
261 TAAGTTCCATATGAACTTACATAGAAAATGGCAACTAGAATGTTTAAGAGACTAATCATCACACA
261 TAAGTTCCATATGAACTTACATAGAAAACGGCAACTAGAACGTTTAAGAGACTAATCATCACACA
* *
326 TTGATATATAATGATCCGATACTGCTCAGTCGAGCTGTCAGGTATCCACAATTTGTGCTGGATCT
326 TTGAAATATAATGATCCGATACTGCTCAGTCGAGCTGTCAGGAATCCACAATTTGTGCTGGATCT
* *
391 CAACCATCGAAAAAATCTCTTATCATAATTTCCATTTTTCCTTTTTATAACCATAATCACTTTCC
391 CAACCATCGAAAAAATCTCTAAGCATAATTTCCATTTTTCCTTTTTATAACCATAATCACTTTCC
*
456 ATTCTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACCAATTTCGTATCATTTC
456 ATTCTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACAAATTTCGTATCATTTC
*
517 GAACTCTTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAAATTT
1 AAACTCTTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAAATTT
582 GCAACATCATCATATACATGCTATCCAACAACATACCATTCCCACATCCATTCAATGTCATGAAT
66 GCAACATCATCATATACATGCTATCCAACAACATACCATTCCCACATCCATTCAATGTCATGAAT
*
647 CTCTTCATATTTATCAAGTATTTCTTATTTTACGATTTGATCCATTTTATATAAAAAGCCATTAA
131 CTCTTCATATTTATCAAGTATTTCTTATTTTACGATTTGATCCATTTTATATAAAAAACCATTAA
*
712 ATCTGCAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAATACAAAAATGCAG
196 ATCTACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAATACAAAAATGCAG
* * *
777 TAAGTTCCATATGAACTTACATAGCAAACGGCAACTAGAACGTTTCAGGGACTAATCATCACACA
261 TAAGTTCCATATGAACTTACATAGAAAACGGCAACTAGAACGTTTAAGAGACTAATCATCACACA
* * *
842 TTGAAATCTAATGATCCGATATTGCTCAGTCGAGCTGTCGGGAATCCACAATTTGTGCTGGATCT
326 TTGAAATATAATGATCCGATACTGCTCAGTCGAGCTGTCAGGAATCCACAATTTGTGCTGGATCT
* *
907 CAACCATCGAATAAATCTCTAAGCATAATTTCCATTTTTCCTTTTTATAACCATAATCATTTTCC
391 CAACCATCGAAAAAATCTCTAAGCATAATTTCCATTTTTCCTTTTTATAACCATAATCACTTTCC
*
972 ATTCTTTTCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACAAATTTCGTATCATTTC
456 ATTCTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACAAATTTCGTATCATTTC
1033 AAACTCTTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAAATTT
1 AAACTCTTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAAATTT
*
1098 GCAACATCATCATATACATGCTATCCAACAACATACCATTCCCACATCCATTTAATGTCATGAAT
66 GCAACATCATCATATACATGCTATCCAACAACATACCATTCCCACATCCATTCAATGTCATGAAT
1163 CTCTTCATATTTATCAAG
131 CTCTTCATATTTATCAAG
Statistics
Matches: 639, Mismatches: 25, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
516 639 1.00
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.37
Consensus pattern (516 bp):
AAACTCTTTAATTGTATACACACATTAGTTATTTTGAATAACAATTCTCTATACATTTTAAATTT
GCAACATCATCATATACATGCTATCCAACAACATACCATTCCCACATCCATTCAATGTCATGAAT
CTCTTCATATTTATCAAGTATTTCTTATTTTACGATTTGATCCATTTTATATAAAAAACCATTAA
ATCTACAATTATATATATTTAATATATATACAAAAACACAATTAAAATATAATACAAAAATGCAG
TAAGTTCCATATGAACTTACATAGAAAACGGCAACTAGAACGTTTAAGAGACTAATCATCACACA
TTGAAATATAATGATCCGATACTGCTCAGTCGAGCTGTCAGGAATCCACAATTTGTGCTGGATCT
CAACCATCGAAAAAATCTCTAAGCATAATTTCCATTTTTCCTTTTTATAACCATAATCACTTTCC
ATTCTTATCTAAACCATTTGTTAAATTCATACAGGTTCTTTTACAAATTTCGTATCATTTC
Done.