Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga08g00875.N30
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: 2562
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Found at i:1209 original size:168 final size:169
Alignment explanation
Indices: 898--1265 Score: 521
Period size: 168 Copynumber: 2.2 Consensus size: 169
888 TGGTCTTGAA
* *
898 TGATTTTAAGAAACACG-TTTGTTTAAATTAAGACTTCAATTTTACAGCTTGATAAATTAGACTT
1 TGATTTTAGGAAACA-GATTTGTTTAAATTAAGACTTCAATTTTACAGCATGATAAATTAGACTT
*
962 TGTGATAACATGCAATTTGAATGCTTTCTTGTCCTTGATTTATATGGTTTTCCAATCACACAAAA
65 TGTGATAACATGCAA-TTGAATGCTTTCTTGTCCTTGATTTATATGATTTTCCAATCACACAAAA
1027 GAATATAAGTAAATAGTAATGAAACCTTGGGTCTT-AAATTT
129 GAATATAAGTAAATAGTAATGAAACCTT-GGTCTTAAAATTT
* *
1068 TGATTCTAGGAAACAGATTTGTTTAAA-TAAGACTTCAATTTTACAGCATGATAAATTAGATTTT
1 TGATTTTAGGAAACAGATTTGTTTAAATTAAGACTTCAATTTTACAGCATGATAAATTAGACTTT
* * * ** **
1132 GTGATGACATTCACA-TGAATGCTTTCTTGTCCTTTATTTATATGATTTTCCAATTTCACAATGG
66 GTGATAACATGCA-ATTGAATGCTTTCTTGTCCTTGATTTATATGATTTTCCAATCACACAAAAG
*
1196 AATATACGTAAATAGTAATGAAACCTTGGTCTTAAAATTT
130 AATATAAGTAAATAGTAATGAAACCTTGGTCTTAAAATTT
* *
1236 T-ATTTTAGGAAACTGATTTGCTTAAGATTA
1 TGATTTTAGGAAACAGATTTGTTTAA-ATTA
1266 TATCTTGATA
Statistics
Matches: 177, Mismatches: 16, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
167 27 0.15
168 77 0.44
169 49 0.28
170 24 0.14
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (169 bp):
TGATTTTAGGAAACAGATTTGTTTAAATTAAGACTTCAATTTTACAGCATGATAAATTAGACTTT
GTGATAACATGCAATTGAATGCTTTCTTGTCCTTGATTTATATGATTTTCCAATCACACAAAAGA
ATATAAGTAAATAGTAATGAAACCTTGGTCTTAAAATTT
Done.