Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Ga14g00185.F6
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: 5451
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Found at i:947 original size:117 final size:117
Alignment explanation
Indices: 796--1146 Score: 675
Period size: 117 Copynumber: 3.0 Consensus size: 117
786 CATGAACGGA
*
796 GAACTAAAAGATTTATTGAATGCTAGAGACATGAAGCTTAATAGTGAGATTGATGAACTGAAAGA
1 GAACTAAAAGATTTATTGAATGCTAGGGACATGAAGCTTAATAGTGAGATTGATGAACTGAAAGA
* *
861 TGGGCTATCTGAGCCAAGGAAATCTGTTGAAGAGACAGTTGCTTCTGCAGAT
66 TAGGCTGTCTGAGCCAAGGAAATCTGTTGAAGAGACAGTTGCTTCTGCAGAT
913 GAACTAAAAGATTTATTGAATGCTAGGGACATGAAGCTTAATAGTGAGATTGATGAACTGAAAGA
1 GAACTAAAAGATTTATTGAATGCTAGGGACATGAAGCTTAATAGTGAGATTGATGAACTGAAAGA
978 TAGGCTGTCTGAGCCAAGGAAATCTGTTGAAGAGACAGTTGCTTCTGCAGAT
66 TAGGCTGTCTGAGCCAAGGAAATCTGTTGAAGAGACAGTTGCTTCTGCAGAT
1030 GAACTAAAAGATTTATTGAATGCTAGGGACATGAAGCTTAATAGTGAGATTGATGAACTGAAAGA
1 GAACTAAAAGATTTATTGAATGCTAGGGACATGAAGCTTAATAGTGAGATTGATGAACTGAAAGA
1095 TAGGCTGTCTGAGCCAAGGAAATCTGTTGAAGAGACAGTTGCTTCTGCAGAT
66 TAGGCTGTCTGAGCCAAGGAAATCTGTTGAAGAGACAGTTGCTTCTGCAGAT
1147 AGAAACTTAT
Statistics
Matches: 231, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
117 231 1.00
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.26
Consensus pattern (117 bp):
GAACTAAAAGATTTATTGAATGCTAGGGACATGAAGCTTAATAGTGAGATTGATGAACTGAAAGA
TAGGCTGTCTGAGCCAAGGAAATCTGTTGAAGAGACAGTTGCTTCTGCAGAT
Found at i:1574 original size:174 final size:174
Alignment explanation
Indices: 1284--1636 Score: 625
Period size: 174 Copynumber: 2.0 Consensus size: 174
1274 AGGAAGCACT
* *
1284 TGAAATCAATGGTACCGGAAAAACAGAAGTTCCAGGGGACGAGGAAAAAAGAAGTCTCAAGTCTG
1 TGAAATCAATGGTACCGGAAAAACAGAAGTCCCAAGGGACGAGGAAAAAAGAAGTCTCAAGTCTG
* *
1349 ATACAGTAATTGAGATGCCTGTAAAAGGAGATACTGATCAGGGACAAGAGTGTACAGAAGTAAAA
66 ATACAGCAATTGAGATGCCTGTAAAAGGAGATACTGATCAGGGAAAAGAGTGTACAGAAGTAAAA
* *
1414 GGGGCTACAGCTGGTCTTGATTCAGTGGATGGTGGAGATGAAGA
131 GGGGCTACAGCTGGTCTTGATCCAGTGGATAGTGGAGATGAAGA
* * *
1458 TGAAATCAATGGTACCGGAGAAACAGAAGTCCCAAGGGATGAGGAAAAAATAAGTCTCAAGTCTG
1 TGAAATCAATGGTACCGGAAAAACAGAAGTCCCAAGGGACGAGGAAAAAAGAAGTCTCAAGTCTG
1523 ATACAGCAATTGAGATGCCTGTAAAAGGAGATACTGATCAGGGAAAAGAGTGTACAGAAGTAAAA
66 ATACAGCAATTGAGATGCCTGTAAAAGGAGATACTGATCAGGGAAAAGAGTGTACAGAAGTAAAA
1588 GGGGCTACAGCTGGTCTTGATCCAGTGGATAGTGGAGATGAAGA
131 GGGGCTACAGCTGGTCTTGATCCAGTGGATAGTGGAGATGAAGA
1632 TGAAA
1 TGAAA
1637 AAGCAAATAA
Statistics
Matches: 170, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 170 1.00
ACGTcount: A:0.38, C:0.13, G:0.30, T:0.19
Consensus pattern (174 bp):
TGAAATCAATGGTACCGGAAAAACAGAAGTCCCAAGGGACGAGGAAAAAAGAAGTCTCAAGTCTG
ATACAGCAATTGAGATGCCTGTAAAAGGAGATACTGATCAGGGAAAAGAGTGTACAGAAGTAAAA
GGGGCTACAGCTGGTCTTGATCCAGTGGATAGTGGAGATGAAGA
Found at i:2301 original size:6 final size:6
Alignment explanation
Indices: 2290--2315 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
2280 AAGTGTCTCT
2290 CAGGCA CAGGCA CAGGCA CAGGCA CA
1 CAGGCA CAGGCA CAGGCA CAGGCA CA
2316 ACAAATTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.35, G:0.31, T:0.00
Consensus pattern (6 bp):
CAGGCA
Done.