Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga03g00326.F1
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: 2748
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Found at i:910 original size:355 final size:358
Alignment explanation
Indices: 249--987 Score: 1012
Period size: 355 Copynumber: 2.1 Consensus size: 358
239 GAGTTTTATC
* * *
249 TTCATAAGGAATGTGCTGAGTTAGAGTTAGCCCCCCAGATTCAGCATCCCTTCCACTCGAAACAC
1 TTCATAAGGAATGTGCTGAGTTAGAGTTAGCCCCCAAGATTCAGCATCCCTTCCACCCCAAACAC
* * *
314 CCTCTCAGTCTTTTGCCAAAATCAACTTATTCCGGGGGCGCGGAATGTGCGATTTTTGTGGTAAG
66 CCTCTCACTCTTTTGCCAAAACCAACTTATT-C--GGGCGC---A-GTGCGATTTGTGTGGTAAG
* * *
379 GAATTAAGGGGATTTGTTTATAATTGTAATGATTGTAAGTTCGATCTGCACATCAATTGTGCTTT
124 GAAATAAGAGGATTTGTTTATAATTGTAATGATTGTAAGTTCAATCTGCACATCAATTGTGCTTT
*
444 GCTTCAATCTTCCATTGCTGCTAATTTTCCTAATTCTTTGCACCCCCATCCATTGTTCTTCATTC
189 GCTTCAATCATCCATTGCTGCTAATTTTCCTAATTCTTTGCACCCCCATCCATTGTTCTTCATTC
* * *
509 AAAATCATAACAATGAAGTCGAGCCTGATTGCCCCTTGTGTCAAAAACCAATATCTGGTCCATTT
254 AAAATAATAACAAGGAAGTCGAGCCTGATTGCCCCTGGTGTCAAAAACCAATATCTGGTCCATTT
* * * *
574 TACCACTGTTCAGATTGCACTTATCCTTCA-TTGTTTAACA
319 TACCACTGCTCAGATTGCACATATCATACAGTT-TTTAACA
*
614 TTCATAAGGAATGTGCTGAGTTAGAGTTAGCCCCCAAGATTCAGCATCCTTTCCACCCCAAACA-
1 TTCATAAGGAATGTGCTGAGTTAGAGTTAGCCCCCAAGATTCAGCATCCCTTCCACCCCAAACAC
**
678 CCTGCTCACTCTTTTGCCAGCACCATA-TT-TT-GGG-GC-GTGCGATTTGTGTGGTAAGGCAAA
66 CCT-CTCACTCTTTTGCCAAAACCA-ACTTATTCGGGCGCAGTGCGATTTGTGTGGTAAGG-AAA
* * * *
738 T-CGAGTACTTTTTTTATAATTGTTATGATTGTAAGTTCAATCTGCACATCAATTGTGCTTTGCT
128 TAAGAGGA-TTTGTTTATAATTGTAATGATTGTAAGTTCAATCTGCACATCAATTGTGCTTTGCT
*
802 TCAATCATCCATTGCTGCTAATTTTCCTATTTCTTTGCACCCCCATCCATTGTTCTTCATTCAAA
192 TCAATCATCCATTGCTGCTAATTTTCCTAATTCTTTGCACCCCCATCCATTGTTCTTCATTCAAA
* *
867 ATAA-ATACAAGGAAGTCGAGCCTGATTGCTCC-GGATGTCAAAAACCAATATCTGGTTCATTTT
257 ATAATA-ACAAGGAAGTCGAGCCTGATTGCCCCTGG-TGTCAAAAACCAATATCTGGTCCATTTT
* *
930 ACCACTGCTCAGATTGCACATATCATAGAGTTTTTAACC
320 ACCACTGCTCAGATTGCACATATCATACAGTTTTTAACA
*
969 TGCATAAGGAATGTGCTGA
1 TTCATAAGGAATGTGCTGA
988 ACTACCCCTT
Statistics
Matches: 337, Mismatches: 30, Indels: 24
0.86 0.08 0.06
Matches are distributed among these distances:
354 24 0.07
355 221 0.66
356 2 0.01
359 2 0.01
360 3 0.01
364 5 0.01
365 79 0.23
366 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (358 bp):
TTCATAAGGAATGTGCTGAGTTAGAGTTAGCCCCCAAGATTCAGCATCCCTTCCACCCCAAACAC
CCTCTCACTCTTTTGCCAAAACCAACTTATTCGGGCGCAGTGCGATTTGTGTGGTAAGGAAATAA
GAGGATTTGTTTATAATTGTAATGATTGTAAGTTCAATCTGCACATCAATTGTGCTTTGCTTCAA
TCATCCATTGCTGCTAATTTTCCTAATTCTTTGCACCCCCATCCATTGTTCTTCATTCAAAATAA
TAACAAGGAAGTCGAGCCTGATTGCCCCTGGTGTCAAAAACCAATATCTGGTCCATTTTACCACT
GCTCAGATTGCACATATCATACAGTTTTTAACA
Done.