Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga01g01731.F3
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: 3279
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Found at i:2110 original size:84 final size:84
Alignment explanation
Indices: 1854--2151 Score: 261
Period size: 84 Copynumber: 3.5 Consensus size: 84
1844 TTGAGGCCTG
* * * * * * *
1854 TACTCCAAGGAGACTCAAGTTCAAGCAAAGGGT-ATATGTT-A-ATAGCATAAATGATGAAAACC
1 TACTCCAAGGAGACTGAAGTTCAGGCGAAGAGTAAT-TGTTGACA-ACCA-AAATGGTGATAACC
* **
1916 AAAACAGTAGAGTCAAGGAGTT
63 AAAACAGTAGAATCAAGGAACT
* * * * *
1938 TACCCCGAA-GAGACTCAAGTTCAGACGAAGAGAAATTGTTGACAACCAAAATGGTAATAACCAA
1 TACTCC-AAGGAGACTGAAGTTCAGGCGAAGAGTAATTGTTGACAACCAAAATGGTGATAACCAA
* *
2002 AACGGTA-AAGTCAAGG-AGT
65 AACAGTAGAA-TCAAGGAACT
*
2021 GTACTCCAAGGAGACTGAAGTTTC-GGCGAAGAGTAATTGTTGACAACCAAAATGGTGATAACAA
1 -TACTCCAAGGAGACTGAAG-TTCAGGCGAAGAGTAATTGTTGACAACCAAAATGGTGATAACCA
*
2085 AAACAGTAGAATCGAGGAACT
64 AAACAGTAGAATCAAGGAACT
* * * *
2106 TACTCCAAGGATACACG-AGTTCAGGCGAAAATTAATTGTTGACAAC
1 TACTCCAAGGAGAC-TGAAGTTCAGGCGAAGAGTAATTGTTGACAAC
2152 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:2611 original size:81 final size:81
Alignment explanation
Indices: 2193--2610 Score: 669
Period size: 81 Copynumber: 5.2 Consensus size: 81
2183 AGGAGTTTAG
* * *
2193 TCCAAGGAAACTTGAGTCCCGCCAAAGAAATCTTGACAACAGAAATTCTGATGTTCAAAATAGTA
1 TCCAAGGAAACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGTA
2258 GAGGTGAGGACTCTGC
66 GAGGTGAGGACTCTGC
* * *
2274 TCC-AGCGAAATTTGATTCCTGCCGAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGT
1 TCCAAG-GAAACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGT
2338 AGAGGTGAGGACTCTGC
65 AGAGGTGAGGACTCTGC
*
2355 TCCAACGG-CACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGT
1 TCCAA-GGAAACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGT
*
2419 AGAGGTGAGGACACTGC
65 AGAGGTGAGGACTCTGC
** *
2436 TCCAACAAAACTTGAGTCCTGCCAAAGAGCTCTTGACAACAGAAATTCTGATGATCAAAATAGTA
1 TCCAAGGAAACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGTA
2501 GAGGTGAGGACTCTGC
66 GAGGTGAGGACTCTGC
** *
2517 TCCAACAAAACTTAAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGTA
1 TCCAAGGAAACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGTA
*
2582 GAGTTGAGGACTCTGC
66 GAGGTGAGGACTCTGC
2598 TCCAAGGAAACTT
1 TCCAAGGAAACTT
2611 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.