Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga09g00127.F1

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: 4121
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37


Found at i:257 original size:81 final size:82

Alignment explanation


    Indices: 159--310  Score: 263
    Period size: 81  Copynumber: 1.9  Consensus size: 82

        149 CAACACTGAA

                               *                                           * 
        159 TTTTTTATGCCACCCATAGGATTCTTGAGCTTGCT-TTGAAAGAGAAACCCAATCTT-GAGAAGT
          1 TTTTTTATGCCACCCATAGAATTCTTGAGCTTG-TGTTGAAAGAGAAACCCAATCTTGGAGAAAT

                              
        222 TAAGAAATGTTTAATTTT
         65 TAAGAAATGTTTAATTTT

                                                                             
        240 TTTTTTATGCCACCCATAGAATTCTTGAGCTTGTGTTGAAAGAGAAACCCAATCTTGGAGAAATT
          1 TTTTTTATGCCACCCATAGAATTCTTGAGCTTGTGTTGAAAGAGAAACCCAATCTTGGAGAAATT

                  
        305 AAGAAA
         66 AAGAAA

        311 CCTTTAAGAT


Statistics
Matches: 67,  Mismatches: 2, Indels: 3
        0.93            0.03        0.04

Matches are distributed among these distances:
  80    1  0.01
  81   53  0.79
  82   13  0.19

ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34


Consensus pattern (82 bp):   
TTTTTTATGCCACCCATAGAATTCTTGAGCTTGTGTTGAAAGAGAAACCCAATCTTGGAGAAATT
AAGAAATGTTTAATTTT

Found at i:1113 original size:19 final size:19

Alignment explanation


    Indices: 1089--1160  Score: 123
    Period size: 19  Copynumber: 3.9  Consensus size: 19

       1079 ATAATCTTCA

                               
       1089 ATGATATGCAATCTTAGAT
          1 ATGATATGCAATCTTAGAT

                               
       1108 ATGATATGCAATCTTAGAT
          1 ATGATATGCAATCTTAGAT

                               
       1127 -TGATA--CAATCTTAGAT
          1 ATGATATGCAATCTTAGAT

                              
       1143 ATGATATGCAATCTTAGA
          1 ATGATATGCAATCTTAGA

       1161 AGTTATGATT


Statistics
Matches: 50,  Mismatches: 0, Indels: 6
        0.89            0.00        0.11

Matches are distributed among these distances:
  16   11  0.22
  17    5  0.10
  18    5  0.10
  19   29  0.58

ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36


Consensus pattern (19 bp):   
ATGATATGCAATCTTAGAT

Found at i:1473 original size:17 final size:17

Alignment explanation


    Indices: 1449--1483  Score: 52
    Period size: 18  Copynumber: 2.0  Consensus size: 17

       1439 TGTTTCCCTT

                   *          
       1449 ATTTTTTTATATATTTTA
          1 ATTTTTTAATA-ATTTTA

                             
       1467 ATTTTTTAATAATTTTA
          1 ATTTTTTAATAATTTTA

       1484 GTATCATATC


Statistics
Matches: 16,  Mismatches: 1, Indels: 1
        0.89            0.06        0.06

Matches are distributed among these distances:
  17    6  0.38
  18   10  0.62

ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69


Consensus pattern (17 bp):   
ATTTTTTAATAATTTTA
Done.