Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga03g02363.F2
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: 2040
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Found at i:1288 original size:98 final size:98
Alignment explanation
Indices: 1119--1313 Score: 266
Period size: 98 Copynumber: 2.0 Consensus size: 98
1109 ACCCTAACGG
* * ** *
1119 TTTGTTCGATTAGCTGAAATTTGGTTGCTCGGTTAATTCGAGAATATTGCTATATTCATTGTTTG
1 TTTGTTCGATGAGCTGAAATTTGGTTGCTCGGTAAATTCGAGAATATCACTATATTCATTGGTTG
* *
1184 TTTAAGATTATCATAGAATGTGTAGGAGCATGT
66 TTTAAGATGATCATACAATGTGTAGGAGCATGT
* * *
1217 TTTGTTCGATGAGCTGAAATTTGTTTGCTTGGTAAATTCGAGAATATCATTATATGT-ATTGGTT
1 TTTGTTCGATGAGCTGAAATTTGGTTGCTCGGTAAATTCGAGAATATCACTATAT-TCATTGGTT
* *
1281 GTTTAAGATGATGATACATTGTGTAGGAGCATG
65 GTTTAAGATGATCATACAATGTGTAGGAGCATG
1314 CTTTCTTCAG
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
98 83 0.99
99 1 0.01
ACGTcount: A:0.26, C:0.08, G:0.24, T:0.42
Consensus pattern (98 bp):
TTTGTTCGATGAGCTGAAATTTGGTTGCTCGGTAAATTCGAGAATATCACTATATTCATTGGTTG
TTTAAGATGATCATACAATGTGTAGGAGCATGT
Found at i:1532 original size:186 final size:185
Alignment explanation
Indices: 1218--1774 Score: 864
Period size: 186 Copynumber: 3.0 Consensus size: 185
1208 GGAGCATGTT
* * * * * * *
1218 TTGTTCGATGAGCTGAAATTTGTTTGCTTGGTAAATTCGAGAATATCATTATATGTATTGGTTGT
1 TTGTTCGATTAGCTGAAATTTGATTGCTCGGTTAATTCGAGAATATCACTATATTTATTGTTTGT
1283 TTAAGATGATGATACATTGTGTAGGAGCATGCTTTCTTCAGTATGAATCTCGTTGGTTTGTATAT
66 TTAAGATGATGATACATTGTGTAGGAGCATGCTTTCTTCAGTATGAATCTCGTTGGTTTGTATAT
1348 GAACTGTTTATATGCTGCTTCTGAGTCTGCTGAGGCTGCTAATCAACCCCAAAGGC
131 GAACTGTTTATATGCTGCTTCTGAGTCTG-TGAGGCTGCTAATCAACCCCAAAGGC
* ** *
1404 TTGTTCGGTTAGCTGAAATTCAATTGCTCGGTTAATTTGAGAATATCACTATATTTATTGTTTGT
1 TTGTTCGATTAGCTGAAATTTGATTGCTCGGTTAATTCGAGAATATCACTATATTTATTGTTTGT
*
1469 TTAAGACGATGATACATTGTGTAGGAGCATGCTTTCTTCAGTATGAATCTCGTTGGTTTGTATAT
66 TTAAGATGATGATACATTGTGTAGGAGCATGCTTTCTTCAGTATGAATCTCGTTGGTTTGTATAT
* *
1534 GAGCTGTTTATATGCTGCTTCCGAGTCTGTTGAGGCTGCTAATCAACCCCAAAGGC
131 GAACTGTTTATATGCTGCTTCTGAGTCTG-TGAGGCTGCTAATCAACCCCAAAGGC
* *
1590 TTGTTCCATTAGCTGAAATTTGATTGCTCGGTTAATTCAAGAATATCACTATATTTATTGTTTGT
1 TTGTTCGATTAGCTGAAATTTGATTGCTCGGTTAATTCGAGAATATCACTATATTTATTGTTTGT
* * * *
1655 CTAAGATGATGATACATAGTGTAGGAGCATACTTTCTTCAGTATGAATCTCATTGGTTTGTATAT
66 TTAAGATGATGATACATTGTGTAGGAGCATGCTTTCTTCAGTATGAATCTCGTTGGTTTGTATAT
* * *
1720 GAACT-TTCTATATGCTGCTGCTGAGTCTGTGGAGGCTACTAATCAACCCTAAAGG
131 GAACTGTT-TATATGCTGCTTCTGAGTCTGT-GAGGCTGCTAATCAACCCCAAAGG
1775 GCCAAGGAAA
Statistics
Matches: 338, Mismatches: 31, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
185 3 0.01
186 335 0.99
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.39
Consensus pattern (185 bp):
TTGTTCGATTAGCTGAAATTTGATTGCTCGGTTAATTCGAGAATATCACTATATTTATTGTTTGT
TTAAGATGATGATACATTGTGTAGGAGCATGCTTTCTTCAGTATGAATCTCGTTGGTTTGTATAT
GAACTGTTTATATGCTGCTTCTGAGTCTGTGAGGCTGCTAATCAACCCCAAAGGC
Done.