Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold_1065 ID=scaffold_1065-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, 690
Length: 1151
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Found at i:527 original size:200 final size:200
Alignment explanation
Indices: 179--572 Score: 662
Period size: 200 Copynumber: 2.0 Consensus size: 200
169 ACGAGTGAAA
*
179 GATTTGGATGTGCCGAAAACTACATTTAGAAACAGGTACGGACACTATGAATTTCTTGCGATCCT
1 GATTTGGATGTGCCGAAAACTACATTTAGAAACAGGTACGGACACTATGAATTTCTAGCGATCCT
*
244 GTTTGGTTTAACTAATGCACATCCAGTATTTACGGATTTGCTGAACAGAATCTTCAGACCGTATT
66 GTTTGGTTTAACTAATGCACATCCAGTATTTACGGATTTGATGAACAGAATCTTCAGACCGTATT
*
309 TAGACAGATTTGTTGTGGTATTTATTGATGATATTTTGATATATTCTTGAGATGAGACTGAACAA
131 TAGACAGATTTGTTGTGGTATTTATTGATGATATTTTGATATATTCTTGAGATGAGACTAAACAA
374 TGCTC
196 TGCTC
** * * *
379 GATTTGGATGTGCTTAAAACTACATTTAGAACCAGGTACGGACACTATGAATTTCTAGTGATGCT
1 GATTTGGATGTGCCGAAAACTACATTTAGAAACAGGTACGGACACTATGAATTTCTAGCGATCCT
* *
444 GTTTGGTTTAACTAATGCACCTCCAGTATTTATGGATTTGATGAACAGAATCTTCAGACCGTATT
66 GTTTGGTTTAACTAATGCACATCCAGTATTTACGGATTTGATGAACAGAATCTTCAGACCGTATT
* * * *
509 TAGATAGATTTTTTGTGGTATTTATTGATGATATTTTTATATATTCTTGAGATTAGACTAAACA
131 TAGACAGATTTGTTGTGGTATTTATTGATGATATTTTGATATATTCTTGAGATGAGACTAAACA
573 TGCCGAGCAT
Statistics
Matches: 180, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
200 180 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (200 bp):
GATTTGGATGTGCCGAAAACTACATTTAGAAACAGGTACGGACACTATGAATTTCTAGCGATCCT
GTTTGGTTTAACTAATGCACATCCAGTATTTACGGATTTGATGAACAGAATCTTCAGACCGTATT
TAGACAGATTTGTTGTGGTATTTATTGATGATATTTTGATATATTCTTGAGATGAGACTAAACAA
TGCTC
Done.