Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01002012.1 Kokia drynarioides strain JFW-HI SEQ_113878, 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: 10957
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.34
Found at i:4181 original size:50 final size:50
Alignment explanation
Indices: 4106--4206 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
4096 AGAATATCAC
4106 TTCATACGCATACTTAACCCAGAACTAATATTCACAATCACATTCATAGG
1 TTCATACGCATACTTAACCCAGAACTAATATTCACAATCACATTCATAGG
4156 TTCATACGCATACTTAACCCAGAACTAATATTCACAATCACATTCATAGG
1 TTCATACGCATACTTAACCCAGAACTAATATTCACAATCACATTCATAGG
4206 T
1 T
4207 GAACATAATA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.38, C:0.26, G:0.08, T:0.29
Consensus pattern (50 bp):
TTCATACGCATACTTAACCCAGAACTAATATTCACAATCACATTCATAGG
Found at i:4534 original size:27 final size:27
Alignment explanation
Indices: 4503--4567 Score: 121
Period size: 27 Copynumber: 2.4 Consensus size: 27
4493 AGAAAACTCG
4503 CCACAAAGGCATTCCATTCAGAATACA
1 CCACAAAGGCATTCCATTCAGAATACA
*
4530 CCACAAAGGCATTCCATTCAGAGTACA
1 CCACAAAGGCATTCCATTCAGAATACA
4557 CCACAAAGGCA
1 CCACAAAGGCA
4568 AATCGGATGC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.40, C:0.31, G:0.14, T:0.15
Consensus pattern (27 bp):
CCACAAAGGCATTCCATTCAGAATACA
Done.