Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: scaffold7119.1

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: 8157
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32

Warning! 82 characters in sequence are not A, C, G, or T


Found at i:1518 original size:18 final size:18

Alignment explanation


    Indices: 1497--1531  Score: 54
    Period size: 18  Copynumber: 1.9  Consensus size: 18

       1487 TTTTTCTTTT

                               
       1497 TCAATTT-TTTTCTCAATC
          1 TCAATTTCTTTT-TCAATC

                             
       1515 TCAATTTCTTTTTCAAT
          1 TCAATTTCTTTTTCAAT

       1532 TTTCTTTTCT


Statistics
Matches: 16,  Mismatches: 0, Indels: 2
        0.89            0.00        0.11

Matches are distributed among these distances:
  18   12  0.75
  19    4  0.25

ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57


Consensus pattern (18 bp):   
TCAATTTCTTTTTCAATC

Found at i:2617 original size:15 final size:14

Alignment explanation


    Indices: 2544--2619  Score: 59
    Period size: 13  Copynumber: 5.3  Consensus size: 14

       2534 NTCACCTCTT

                         * 
       2544 TTTTTTTTTGTC-TA
          1 TTTTTTTTT-TCGAA

                         *
       2558 TTTTTTTTTTC-AC
          1 TTTTTTTTTTCGAA

                          
       2571 TTTTTTTTTT-GAA
          1 TTTTTTTTTTCGAA

                          *  
       2584 TTTTTTTTTTCAATCAA
          1 TTTTTTTTTTC---GAA

                           
       2601 TTTTTTTTTTCGAAA
          1 TTTTTTTTTTCG-AA

                
       2616 TTTT
          1 TTTT

       2620 CTTATTTTTT


Statistics
Matches: 51,  Mismatches: 5, Indels: 11
        0.76            0.07        0.16

Matches are distributed among these distances:
  13   23  0.45
  14    9  0.18
  15    6  0.12
  17   13  0.25

ACGTcount: A:0.14, C:0.08, G:0.04, T:0.74


Consensus pattern (14 bp):   
TTTTTTTTTTCGAA

Found at i:6204 original size:24 final size:25

Alignment explanation


    Indices: 6151--6204  Score: 60
    Period size: 24  Copynumber: 2.2  Consensus size: 25

       6141 AACAAATTCT

                        *         *  
       6151 TTTTTTCATTTTCATCACTCGTTTC
          1 TTTTTTCATTTTAATCACTCGTCTC

                                      
       6176 -TTTTTC-TTTTGAATCACTC-TCTC
          1 TTTTTTCATTTT-AATCACTCGTCTC

                  
       6199 TTTTTT
          1 TTTTTT

       6205 TATCACTCAT


Statistics
Matches: 25,  Mismatches: 2, Indels: 5
        0.78            0.06        0.16

Matches are distributed among these distances:
  23    7  0.28
  24   18  0.72

ACGTcount: A:0.11, C:0.22, G:0.04, T:0.63


Consensus pattern (25 bp):   
TTTTTTCATTTTAATCACTCGTCTC
Done.