Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga07g01814.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: 3123
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35


Found at i:352 original size:6 final size:6

Alignment explanation


    Indices: 341--365  Score: 50
    Period size: 6  Copynumber: 4.2  Consensus size: 6

        331 TAGGATCATT

                                         
        341 TTAGGC TTAGGC TTAGGC TTAGGC T
          1 TTAGGC TTAGGC TTAGGC TTAGGC T

        366 GTTTGTTTTC


Statistics
Matches: 19,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   6   19  1.00

ACGTcount: A:0.16, C:0.16, G:0.32, T:0.36


Consensus pattern (6 bp):   
TTAGGC

Found at i:1148 original size:83 final size:80

Alignment explanation


    Indices: 996--1156  Score: 225
    Period size: 83  Copynumber: 2.0  Consensus size: 80

        986 TGCAAGGTGC

                                *            *   *                           
        996 TGGATCTTGACTCTGCTTTGTTTTCTATCAGTAGAATGATTATTTTCTGATAATGGACGAATAAT
          1 TGGATCTTGACTCTGCTTTGGTTTCTATCAGTACAATCATTATTTTCTGATAATGGACGAATAAT

                           
       1061 AAAATGAACGGTTGT
         66 AAAATGAACGGTTGT

                                                              *       *      
       1076 TGGATCTTGACTCTCTGCTTTGGTTTCTATCAGTACAATCA-TAGTTTTTGTGATAATTGACGAA
          1 TGGATCTTGA--CTCTGCTTTGGTTTCTATCAGTACAATCATTA--TTTTCTGATAATGGACGAA

                        *    
       1140 TAATAAAATGAATGGTT
         62 TAATAAAATGAACGGTT

       1157 CCATTTGGCT


Statistics
Matches: 71,  Mismatches: 6, Indels: 5
        0.87            0.07        0.06

Matches are distributed among these distances:
  80   10  0.14
  81    2  0.03
  82   26  0.37
  83   33  0.46

ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40


Consensus pattern (80 bp):   
TGGATCTTGACTCTGCTTTGGTTTCTATCAGTACAATCATTATTTTCTGATAATGGACGAATAAT
AAAATGAACGGTTGT

Found at i:1472 original size:6 final size:6

Alignment explanation


    Indices: 1454--1493  Score: 71
    Period size: 6  Copynumber: 6.7  Consensus size: 6

       1444 AAGTGGTGGC

                     *                                    
       1454 GGGGCT GGAGCT GGGGCT GGGGCT GGGGCT GGGGCT GGGG
          1 GGGGCT GGGGCT GGGGCT GGGGCT GGGGCT GGGGCT GGGG

       1494 GAGATTTGAC


Statistics
Matches: 32,  Mismatches: 2, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
   6   32  1.00

ACGTcount: A:0.03, C:0.15, G:0.68, T:0.15


Consensus pattern (6 bp):   
GGGGCT

Done.