Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga11g02667.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, 732

Length: 1220
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.32


Found at i:1034 original size:19 final size:17

Alignment explanation


    Indices: 1008--1066  Score: 57
    Period size: 17  Copynumber: 3.2  Consensus size: 17

        998 CTATATAATA

                             
       1008 TTTTAGTTTTCTTCTAT
          1 TTTTAGTTTTCTTCTAT

                            *    
       1025 TTTTAAAG-TTTCTATATAAT
          1 TTTT--AGTTTTCT-TCT-AT

                              
       1045 ATTTTAGTTTTCTTCTAT
          1 -TTTTAGTTTTCTTCTAT

                
       1063 TTTT
          1 TTTT

       1067 TTGGTAAAAA


Statistics
Matches: 34,  Mismatches: 2, Indels: 12
        0.71            0.04        0.25

Matches are distributed among these distances:
  17    8  0.24
  18    7  0.21
  19    8  0.24
  20    7  0.21
  21    4  0.12

ACGTcount: A:0.20, C:0.08, G:0.05, T:0.66


Consensus pattern (17 bp):   
TTTTAGTTTTCTTCTAT

Found at i:1040 original size:38 final size:38

Alignment explanation


    Indices: 989--1066  Score: 156
    Period size: 38  Copynumber: 2.1  Consensus size: 38

        979 TTTGGTCTTG

                                                  
        989 TTAAAGTTTCTATATAATATTTTAGTTTTCTTCTATTT
          1 TTAAAGTTTCTATATAATATTTTAGTTTTCTTCTATTT

                                                  
       1027 TTAAAGTTTCTATATAATATTTTAGTTTTCTTCTATTT
          1 TTAAAGTTTCTATATAATATTTTAGTTTTCTTCTATTT

              
       1065 TT
          1 TT

       1067 TTGGTAAAAA


Statistics
Matches: 40,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  38   40  1.00

ACGTcount: A:0.26, C:0.08, G:0.05, T:0.62


Consensus pattern (38 bp):   
TTAAAGTTTCTATATAATATTTTAGTTTTCTTCTATTT

Found at i:1068 original size:19 final size:19

Alignment explanation


    Indices: 1008--1068  Score: 61
    Period size: 19  Copynumber: 3.2  Consensus size: 19

        998 CTATATAATA

                               
       1008 TTTTAGTTTTCTTCTATTT
          1 TTTTAGTTTTCTTCTATTT

              **          *  * *
       1027 TTAAAG-TTTCTATATAATA
          1 TTTTAGTTTTCT-TCTATTT

                               
       1046 TTTTAGTTTTCTTCTATTT
          1 TTTTAGTTTTCTTCTATTT

                
       1065 TTTT
          1 TTTT

       1069 GGTAAAAAGT


Statistics
Matches: 30,  Mismatches: 10, Indels: 4
        0.68            0.23        0.09

Matches are distributed among these distances:
  18    5  0.17
  19   20  0.67
  20    5  0.17

ACGTcount: A:0.20, C:0.08, G:0.05, T:0.67


Consensus pattern (19 bp):   
TTTTAGTTTTCTTCTATTT
Done.