Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga05g04035.M2
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: 6908
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Found at i:171 original size:75 final size:75
Alignment explanation
Indices: 48--200 Score: 306
Period size: 75 Copynumber: 2.0 Consensus size: 75
38 TGGTATTCAC
48 AGATAGAAAGAGAGAGGTAAGTTCAAGAGTAACTTCCACTTCGCAAAAGAAACAGCGCAGAAGAT
1 AGATAGAAAGAGAGAGGTAAGTTCAAGAGTAACTTCCACTTCGCAAAAGAAACAGCGCAGAAGAT
113 AGTTCAGTGA
66 AGTTCAGTGA
123 AGATAGAAAGAGAGAGGTAAGTTCAAGAGTAACTTCCACTTCGCAAAAGAAACAGCGCAGAAGAT
1 AGATAGAAAGAGAGAGGTAAGTTCAAGAGTAACTTCCACTTCGCAAAAGAAACAGCGCAGAAGAT
188 AGTTCAGTGA
66 AGTTCAGTGA
198 AGA
1 AGA
201 CTATCAACAA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 78 1.00
ACGTcount: A:0.43, C:0.14, G:0.25, T:0.17
Consensus pattern (75 bp):
AGATAGAAAGAGAGAGGTAAGTTCAAGAGTAACTTCCACTTCGCAAAAGAAACAGCGCAGAAGAT
AGTTCAGTGA
Found at i:3173 original size:201 final size:201
Alignment explanation
Indices: 2821--3224 Score: 630
Period size: 201 Copynumber: 2.0 Consensus size: 201
2811 GAAATTACTA
* * * * *
2821 AGAATGGCTCTCGTCTTTGTTGCTATCCGAAATTGAGAATTCTTAAGATAGACGATTGCAGAAGT
1 AGAATGACTCTCGTCTCTGTTGCTACCCCAAATTGAAAATTCTTAAGATAGACGATTGCAGAAGT
* * *
2886 TTAAAATATGTTTGTTCAAGCACTTCGACTCAAGGGCTTCAATCATTGGAATCTGTCAAAATAAG
66 TTAAAATATGTTTGTGCAAACACTTCGACTCAAGGGCTTCAATCATTAGAATCTGTCAAAATAAG
* *
2951 TAATTGTCCTCAACTTATGCAAATCTTCAAGATGGAACAAAATGAGAATGGGCAAGGTGTTGTGG
131 TAATTGTCCTCAACTTATGCAAATCTTCAAGATGGAACAAAATGAGAAAGAGCAAGGTGTTGTGG
3016 TTCCTC
196 TTCCTC
* * * *
3022 AGAATGACTCTCGTCTCTGTTGCTGCCCCAAATTGAAAATTCTTGAGATAGGA-TATTGCAGTAG
1 AGAATGACTCTCGTCTCTGTTGCTACCCCAAATTGAAAATTCTTAAGATA-GACGATTGCAGAAG
*
3086 TTTAAAATATGTTTGTGCAAACACTTTGACTCAAGGGCTTCAATCATTAGAATCTGTCAAAATAA
65 TTTAAAATATGTTTGTGCAAACACTTCGACTCAAGGGCTTCAATCATTAGAATCTGTCAAAATAA
**
3151 GTGGTTGTCCTCAACTTATGCAAATCTTCAAGATGGAACAAAATGAGAAAGAGCAAGGTGTTGTG
130 GTAATTGTCCTCAACTTATGCAAATCTTCAAGATGGAACAAAATGAGAAAGAGCAAGGTGTTGTG
*
3216 GTTTCTC
195 GTTCCTC
3223 AG
1 AG
3225 GTACTTCAGT
Statistics
Matches: 184, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
201 182 0.99
202 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (201 bp):
AGAATGACTCTCGTCTCTGTTGCTACCCCAAATTGAAAATTCTTAAGATAGACGATTGCAGAAGT
TTAAAATATGTTTGTGCAAACACTTCGACTCAAGGGCTTCAATCATTAGAATCTGTCAAAATAAG
TAATTGTCCTCAACTTATGCAAATCTTCAAGATGGAACAAAATGAGAAAGAGCAAGGTGTTGTGG
TTCCTC
Done.