Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga01g01731.F4
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: 3321
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Found at i:2152 original size:84 final size:84
Alignment explanation
Indices: 1896--2193 Score: 261
Period size: 84 Copynumber: 3.5 Consensus size: 84
1886 TTGAGGCCTG
* * * * * * *
1896 TACTCCAAGGAGACTCAAGTTCAAGCAAAGGGT-ATATGTT-A-ATAGCATAAATGATGAAAACC
1 TACTCCAAGGAGACTGAAGTTCAGGCGAAGAGTAAT-TGTTGACA-ACCA-AAATGGTGATAACC
* **
1958 AAAACAGTAGAGTCAAGGAGTT
63 AAAACAGTAGAATCAAGGAACT
* * * * *
1980 TACCCCGAA-GAGACTCAAGTTCAGACGAAGAGAAATTGTTGACAACCAAAATGGTAATAACCAA
1 TACTCC-AAGGAGACTGAAGTTCAGGCGAAGAGTAATTGTTGACAACCAAAATGGTGATAACCAA
* *
2044 AACGGTA-AAGTCAAGG-AGT
65 AACAGTAGAA-TCAAGGAACT
*
2063 GTACTCCAAGGAGACTGAAGTTTC-GGCGAAGAGTAATTGTTGACAACCAAAATGGTGATAACAA
1 -TACTCCAAGGAGACTGAAG-TTCAGGCGAAGAGTAATTGTTGACAACCAAAATGGTGATAACCA
*
2127 AAACAGTAGAATCGAGGAACT
64 AAACAGTAGAATCAAGGAACT
* * * *
2148 TACTCCAAGGATACACG-AGTTCAGGCGAAAATTAATTGTTGACAAC
1 TACTCCAAGGAGAC-TGAAGTTCAGGCGAAGAGTAATTGTTGACAAC
2194 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:2653 original size:81 final size:81
Alignment explanation
Indices: 2235--2652 Score: 669
Period size: 81 Copynumber: 5.2 Consensus size: 81
2225 AGGAGTTTAG
* * *
2235 TCCAAGGAAACTTGAGTCCCGCCAAAGAAATCTTGACAACAGAAATTCTGATGTTCAAAATAGTA
1 TCCAAGGAAACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGTA
2300 GAGGTGAGGACTCTGC
66 GAGGTGAGGACTCTGC
* * *
2316 TCC-AGCGAAATTTGATTCCTGCCGAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGT
1 TCCAAG-GAAACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGT
2380 AGAGGTGAGGACTCTGC
65 AGAGGTGAGGACTCTGC
*
2397 TCCAACGG-CACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGT
1 TCCAA-GGAAACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGT
*
2461 AGAGGTGAGGACACTGC
65 AGAGGTGAGGACTCTGC
** *
2478 TCCAACAAAACTTGAGTCCTGCCAAAGAGCTCTTGACAACAGAAATTCTGATGATCAAAATAGTA
1 TCCAAGGAAACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGTA
2543 GAGGTGAGGACTCTGC
66 GAGGTGAGGACTCTGC
** *
2559 TCCAACAAAACTTAAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGTA
1 TCCAAGGAAACTTGAGTCCTGCCAAAGAACTCTTGACAACAGAAATTCTGATGATCAAAATAGTA
*
2624 GAGTTGAGGACTCTGC
66 GAGGTGAGGACTCTGC
2640 TCCAAGGAAACTT
1 TCCAAGGAAACTT
2653 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.