Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga05g04035.C1
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: 6346
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Found at i:2984 original size:201 final size:201
Alignment explanation
Indices: 2632--3036 Score: 632
Period size: 201 Copynumber: 2.0 Consensus size: 201
2622 GAAATTACTA
* * * * *
2632 AGAATGGCTCTCGTCTTTGTTGCTATCCGAAATTGAGAATTCTTAAGATAGACGATTGCAGAAGT
1 AGAATGACTCTCGTCTCTGTTGCTACCCCAAATTGAAAATTCTTAAGATAGACGATTGCAGAAGT
* * *
2697 TTAAAATATGTTTGTTCAAGCACTTCGACTCAAGGGCTTCAATCATTGGAATCTGTCAAAATAAG
66 TTAAAATATGTTTGTGCAAACACTTCGACTCAAGGGCTTCAATCATTAGAATCTGTCAAAATAAG
* *
2762 TAATTGTCCTCAACTTATGCAAATCTTCAAGATGGAACAAAATGAGAATGGGCAAGGTGTTGTGG
131 TAATTGTCCTCAACTTATGCAAATCTTCAAGATGGAACAAAATGAGAAAGAGCAAGGTGTTGTGG
2827 TTCCTC
196 TTCCTC
* * * *
2833 AGAATGACTCTCGTCTCTGTTGCTGCCCCAAATTGAAAATTCTTGAGATAGGA-TATTGCAGTAG
1 AGAATGACTCTCGTCTCTGTTGCTACCCCAAATTGAAAATTCTTAAGATA-GACGATTGCAGAAG
*
2897 TTTAAAATATGTTTGTGCAAACACTTTGACTCAAGGGCTTCAATCATTAGAATCTGTCAAAATAA
65 TTTAAAATATGTTTGTGCAAACACTTCGACTCAAGGGCTTCAATCATTAGAATCTGTCAAAATAA
**
2962 GTGGTTGTCCTCAACTTATGCAAATCTTCAAGATGGAACAAAATGAGAAAGAGCAAGGTGTTGTG
130 GTAATTGTCCTCAACTTATGCAAATCTTCAAGATGGAACAAAATGAGAAAGAGCAAGGTGTTGTG
*
3027 GTTTCTC
195 GTTCCTC
3034 AGA
1 AGA
3037 CAATTGCAGA
Statistics
Matches: 185, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
201 183 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
Found at i:3170 original size:152 final size:152
Alignment explanation
Indices: 2887--3188 Score: 516
Period size: 152 Copynumber: 2.0 Consensus size: 152
2877 GAGATAGGAT
* *
2887 ATTGCAGTAGTTTAAAATATGTTTGTGCAAACACTTTGACTCAAGGGCTTCAATCATTAGAATCT
1 ATTGCAGTAGTTTAAAATATGTTTGTCCAAACACTTCGACTCAAGGGCTTCAATCATTAGAATCT
*
2952 GTCAAAATAAGTGGTTGTCCTCAACTTATGCAAATCTTCAAGATGGAACAAAATGAGAAAGAGCA
66 GTCAAAATAAGTGATTGTCCTCAACTTATGCAAATCTTCAAGATGGAACAAAATGAGAAAGAGCA
*
3017 AGGTGTTGTGGTTTCTCAGACA
131 AGGTGTTGTGGTTCCTCAGACA
* *
3039 ATTGCAG-AGGTTTAAAATATGTTTGTCCAAGCACTTCGACTCAAGGGCTTCAATCATTGGAATC
1 ATTGCAGTA-GTTTAAAATATGTTTGTCCAAACACTTCGACTCAAGGGCTTCAATCATTAGAATC
* *
3103 TGTCAAAATAAGTGATTGTCCTCAACTTATGCAAATCTTCAAGATGGAACAAAATGAGAATGGGC
65 TGTCAAAATAAGTGATTGTCCTCAACTTATGCAAATCTTCAAGATGGAACAAAATGAGAAAGAGC
3168 AAGGTGTTGTGGTTCCTCAGA
130 AAGGTGTTGTGGTTCCTCAGA
3189 TCCATTGCTG
Statistics
Matches: 141, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
151 1 0.01
152 140 0.99
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (152 bp):
ATTGCAGTAGTTTAAAATATGTTTGTCCAAACACTTCGACTCAAGGGCTTCAATCATTAGAATCT
GTCAAAATAAGTGATTGTCCTCAACTTATGCAAATCTTCAAGATGGAACAAAATGAGAAAGAGCA
AGGTGTTGTGGTTCCTCAGACA
Done.