Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga07g00602.F12
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: 4048
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Found at i:2059 original size:89 final size:92
Alignment explanation
Indices: 1938--2123 Score: 324
Period size: 95 Copynumber: 2.0 Consensus size: 92
1928 AGGTGCCCTA
1938 TTGGTCACTTCTATGTTATTATTTG-TTAT-TA-TATATTATGGTGTCTATATGTTCAGTATTTA
1 TTGGTCACTTCTATGTTATTATTTGTTTATATATTATATTATGGTGTCTATATGTTCAGTATTTA
2000 TTCAGTTCAATGAACAGTTGATTTTGT
66 TTCAGTTCAATGAACAGTTGATTTTGT
2027 TTGGTCACTTCTATGTTATTATTTGTTATTATATATTTATATTATGGTGTCTATATGTTCAGTAT
1 TTGGTCACTTCTATGTTATTATTTG-T-TTATATA-TTATATTATGGTGTCTATATGTTCAGTAT
2092 TTATTCAGTTCAATGAACAGTTGATTTTGT
63 TTATTCAGTTCAATGAACAGTTGATTTTGT
2122 TT
1 TT
2124 TCTTTTTGCA
Statistics
Matches: 91, Mismatches: 0, Indels: 6
0.94 0.00 0.06
Matches are distributed among these distances:
89 25 0.27
92 4 0.04
93 2 0.02
95 60 0.66
ACGTcount: A:0.24, C:0.09, G:0.15, T:0.53
Consensus pattern (92 bp):
TTGGTCACTTCTATGTTATTATTTGTTTATATATTATATTATGGTGTCTATATGTTCAGTATTTA
TTCAGTTCAATGAACAGTTGATTTTGT
Found at i:3642 original size:151 final size:153
Alignment explanation
Indices: 3288--3710 Score: 480
Period size: 151 Copynumber: 2.7 Consensus size: 153
3278 TTTCTTTTTC
* *
3288 CTTTTCCTTTATTCC-TTTGTCCTCATGAATGGA-TCTTACAGCTTTAACCATCTTGAACTGCAT
1 CTTTTCCTTTA-TCCTTTTCTCCTCATGAATGAATTCTTACAGCTTTAACCATCTTGAACTG--T
* * * * * * * * *
3351 AAAATGGAACGATTATATAATGCAAGTGGAAGTGAGTGAATCGAACCAATTTGAACTCTGCAGAC
63 AAAAT-GAA--ATTATATGATACAAGCGGATGTGATTGAACCAAACCAAGTTGAACTCTGAAGAC
* * *
3416 GGTTAAAGTGTATCATGTCTTACCTTGTT
125 GGATAAAGCGTATCATCTCTTACCTTGTT
*
3445 CTTTTCCTTTATCCTTTTTCTCCTCATGAATGAATTCTTACAGCTTTAACCATCATGAACTGTAA
1 CTTTTCCTTTATCC-TTTTCTCCTCATGAATGAATTCTTACAGCTTTAACCATCTTGAACTGTAA
* * *
3510 AAGTGAAA-TATACGGTACAAGCGGATGTGATTGAACCAAACCAAGTTG-ACAT-TGAAGATGGA
65 AA-TGAAATTATATGATACAAGCGGATGTGATTGAACCAAACCAAGTTGAAC-TCTGAAGACGGA
*
3572 TAAAGCGTATCATCTCTTACTTTG-T
128 TAAAGCGTATCATCTCTTACCTTGTT
* * *
3597 CTTTTCATTTATCCTTTTCTCCTCATGAATGAATTCTTACAGCTTTTACAATCTTGAACTGTAAT
1 CTTTTCCTTTATCCTTTTCTCCTCATGAATGAATTCTTACAGCTTTAACCATCTTGAACTGTAA-
*
3662 AATGAAACAATTGTATGATACAAGCGGATGTGATTGAACCAAACCAAGT
65 AATG--A-AATTATATGATACAAGCGGATGTGATTGAACCAAACCAAGT
3711 CGACGCTGAA
Statistics
Matches: 230, Mismatches: 26, Indels: 22
0.83 0.09 0.08
Matches are distributed among these distances:
151 49 0.21
152 16 0.07
153 31 0.13
154 33 0.14
155 36 0.16
156 3 0.01
157 19 0.08
158 17 0.07
159 26 0.11
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (153 bp):
CTTTTCCTTTATCCTTTTCTCCTCATGAATGAATTCTTACAGCTTTAACCATCTTGAACTGTAAA
ATGAAATTATATGATACAAGCGGATGTGATTGAACCAAACCAAGTTGAACTCTGAAGACGGATAA
AGCGTATCATCTCTTACCTTGTT
Done.