Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: Ga09g02159.N1

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: 12584
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33


Found at i:1692 original size:14 final size:14

Alignment explanation


    Indices: 1673--1701  Score: 58
    Period size: 14  Copynumber: 2.1  Consensus size: 14

       1663 CTTTTTACTT

                          
       1673 TGTTATATAGATTA
          1 TGTTATATAGATTA

                          
       1687 TGTTATATAGATTA
          1 TGTTATATAGATTA

             
       1701 T
          1 T

       1702 TATTTATCTA


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  14   15  1.00

ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52


Consensus pattern (14 bp):   
TGTTATATAGATTA

Found at i:1850 original size:21 final size:21

Alignment explanation


    Indices: 1826--1865  Score: 62
    Period size: 21  Copynumber: 1.9  Consensus size: 21

       1816 TTTATCAGTA

                   *             
       1826 ATTCCATTTCATTTATATTAT
          1 ATTCCATATCATTTATATTAT

                *              
       1847 ATTCTATATCATTTATATT
          1 ATTCCATATCATTTATATT

       1866 TTTAAATAAA


Statistics
Matches: 17,  Mismatches: 2, Indels: 0
        0.89            0.11        0.00

Matches are distributed among these distances:
  21   17  1.00

ACGTcount: A:0.30, C:0.12, G:0.00, T:0.57


Consensus pattern (21 bp):   
ATTCCATATCATTTATATTAT

Found at i:2465 original size:11 final size:11

Alignment explanation


    Indices: 2449--2473  Score: 50
    Period size: 11  Copynumber: 2.3  Consensus size: 11

       2439 CTTTATATTT

                       
       2449 ATATACAATAA
          1 ATATACAATAA

                       
       2460 ATATACAATAA
          1 ATATACAATAA

               
       2471 ATA
          1 ATA

       2474 CAATAATCGC


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  11   14  1.00

ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28


Consensus pattern (11 bp):   
ATATACAATAA

Found at i:3168 original size:14 final size:15

Alignment explanation


    Indices: 3137--3176  Score: 55
    Period size: 14  Copynumber: 2.7  Consensus size: 15

       3127 TATCTTTATC

                            
       3137 TTATTTATATTCTATT
          1 TTATTTAT-TTCTATT

                           
       3153 TTATTTATTTCT-TT
          1 TTATTTATTTCTATT

              *       
       3167 TTTTTTATTT
          1 TTATTTATTT

       3177 ATCCATCTTC


Statistics
Matches: 23,  Mismatches: 1, Indels: 2
        0.88            0.04        0.08

Matches are distributed among these distances:
  14   11  0.48
  15    4  0.17
  16    8  0.35

ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78


Consensus pattern (15 bp):   
TTATTTATTTCTATT

Found at i:6931 original size:23 final size:23

Alignment explanation


    Indices: 6901--6946  Score: 92
    Period size: 23  Copynumber: 2.0  Consensus size: 23

       6891 TATATTTTGA

                                   
       6901 GTTCGTATATAACTAGTCAATAT
          1 GTTCGTATATAACTAGTCAATAT

                                   
       6924 GTTCGTATATAACTAGTCAATAT
          1 GTTCGTATATAACTAGTCAATAT

       6947 CTAATATCCC


Statistics
Matches: 23,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  23   23  1.00

ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39


Consensus pattern (23 bp):   
GTTCGTATATAACTAGTCAATAT

Found at i:7507 original size:14 final size:14

Alignment explanation


    Indices: 7488--7515  Score: 56
    Period size: 14  Copynumber: 2.0  Consensus size: 14

       7478 TCAAGATAAA

                          
       7488 GATAATATTGATCG
          1 GATAATATTGATCG

                          
       7502 GATAATATTGATCG
          1 GATAATATTGATCG

       7516 AAGGTAAATA


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  14   14  1.00

ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36


Consensus pattern (14 bp):   
GATAATATTGATCG

Found at i:8716 original size:29 final size:29

Alignment explanation


    Indices: 8674--8731  Score: 116
    Period size: 29  Copynumber: 2.0  Consensus size: 29

       8664 TATTAACCGA

                                         
       8674 TTCCATAGATCTATGTAGTTCCAAAAAAG
          1 TTCCATAGATCTATGTAGTTCCAAAAAAG

                                         
       8703 TTCCATAGATCTATGTAGTTCCAAAAAAG
          1 TTCCATAGATCTATGTAGTTCCAAAAAAG

       8732 AATTTATTTA


Statistics
Matches: 29,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  29   29  1.00

ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31


Consensus pattern (29 bp):   
TTCCATAGATCTATGTAGTTCCAAAAAAG
Done.