Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga01g01731.F2
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: 3201
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.24
Found at i:2032 original size:84 final size:84
Alignment explanation
Indices: 1776--2073 Score: 261
Period size: 84 Copynumber: 3.5 Consensus size: 84
1766 TTGAGGCCTG
* * * * * * *
1776 TACTCCAAGGAGACTCAAGTTCAAGCAAAGGGT-ATATGTT-A-ATAGCATAAATGATGAAAACC
1 TACTCCAAGGAGACTGAAGTTCAGGCGAAGAGTAAT-TGTTGACA-ACCA-AAATGGTGATAACC
* **
1838 AAAACAGTAGAGTCAAGGAGTT
63 AAAACAGTAGAATCAAGGAACT
* * * * *
1860 TACCCCGAA-GAGACTCAAGTTCAGACGAAGAGAAATTGTTGACAACCAAAATGGTAATAACCAA
1 TACTCC-AAGGAGACTGAAGTTCAGGCGAAGAGTAATTGTTGACAACCAAAATGGTGATAACCAA
* *
1924 AACGGTA-AAGTCAAGG-AGT
65 AACAGTAGAA-TCAAGGAACT
*
1943 GTACTCCAAGGAGACTGAAGTTTC-GGCGAAGAGTAATTGTTGACAACCAAAATGGTGATAACAA
1 -TACTCCAAGGAGACTGAAG-TTCAGGCGAAGAGTAATTGTTGACAACCAAAATGGTGATAACCA
*
2007 AAACAGTAGAATCGAGGAACT
64 AAACAGTAGAATCAAGGAACT
* * * *
2028 TACTCCAAGGATACACG-AGTTCAGGCGAAAATTAATTGTTGACAAC
1 TACTCCAAGGAGAC-TGAAGTTCAGGCGAAGAGTAATTGTTGACAAC
2074 ATAGATGATC
Statistics
Matches: 175, Mismatches: 27, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
83 7 0.04
84 151 0.86
85 16 0.09
86 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.20
Consensus pattern (84 bp):
TACTCCAAGGAGACTGAAGTTCAGGCGAAGAGTAATTGTTGACAACCAAAATGGTGATAACCAAA
ACAGTAGAATCAAGGAACT
Found at i:2533 original size:81 final size:81
Alignment explanation
Indices: 2115--2532 Score: 669
Period size: 81 Copynumber: 5.2 Consensus size: 81
2105 AGGAGTTTAG
* * *
2115 TCCAAGGAAACTTGAGTCCCGCCAAAGAAATCTTGACAACAGAAATTCTGATGTTCAAAATAGTA
1 TCCAAGGAAACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGTA
2180 GAGGTGAGGACTCTGC
66 GAGGTGAGGACTCTGC
* * *
2196 TCC-AGCGAAATTTGATTCCTGCCGAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGT
1 TCCAAG-GAAACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGT
2260 AGAGGTGAGGACTCTGC
65 AGAGGTGAGGACTCTGC
*
2277 TCCAACGG-CACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGT
1 TCCAA-GGAAACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGT
*
2341 AGAGGTGAGGACACTGC
65 AGAGGTGAGGACTCTGC
** *
2358 TCCAACAAAACTTGAGTCCTGCCAAAGAGCTCTTGACAACAGAAATTCTGATGATCAAAATAGTA
1 TCCAAGGAAACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGTA
2423 GAGGTGAGGACTCTGC
66 GAGGTGAGGACTCTGC
** *
2439 TCCAACAAAACTTAAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGTA
1 TCCAAGGAAACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGTA
*
2504 GAGTTGAGGACTCTGC
66 GAGGTGAGGACTCTGC
2520 TCCAAGGAAACTT
1 TCCAAGGAAACTT
2533 ATCTTCAGGC
Statistics
Matches: 312, Mismatches: 21, Indels: 8
0.91 0.06 0.02
Matches are distributed among these distances:
80 2 0.01
81 307 0.98
82 2 0.01
83 1 0.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (81 bp):
TCCAAGGAAACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGTA
GAGGTGAGGACTCTGC
Done.