Locus 1774

Sequence ID 3R_DroMel_CAF1
Location 5,102,237 – 5,102,356
Length 119
Max. P 0.789549
window2914

overview

Window 4

Location 5,102,237 – 5,102,356
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 97.07
Mean single sequence MFE -32.28
Consensus MFE -31.24
Energy contribution -31.00
Covariance contribution -0.24
Combinations/Pair 1.03
Mean z-score -1.23
Structure conservation index 0.97
SVM decision value 0.58
SVM RNA-class probability 0.789549
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5102237 119 + 27905053
AACACACGCGUGGCAGGAUUACCCUCUUAAAGGUAAUGAUGACGACUUUCGGCCCCAACGAGUUGGAAAAUAGACGUGAAUCCCGCUUGCCGAGCAAAAA-CGCUGAAAAAGCGAAGAGA
.......((((.(((..((((((........))))))..)).).))..(((((.((((....)))).........(((.....)))..))))))).....-((((.....))))...... ( -30.80)
>DroSec_CAF1 8971 119 + 1
AACACACGCGUGGCAGGAUUACCCUCUUAAAGGUAAUGAUGACGACUUUCGGCCCCAACGAGUUGGAAAAUAGACGUGAAUCAAGCUUGCCGAGCAAAAA-CGCUGGAAAAGCGAAGCGA
......(((.(((((((((((((........))))))(((.(((.((.......((((....)))).....)).)))..)))...)))))))........-((((.....))))..))). ( -32.20)
>DroSim_CAF1 9202 119 + 1
AACACACGCGUGGCAGGAUUACCCUCUUAAAGGUAAUGAUGACGACUUUCGGCCCCAACGAGUUGGAAAAUAGACGUGAAUCAAGCUUGCCGAGCAAAAA-CGCUGGAAAAGCGAAGCGA
......(((.(((((((((((((........))))))(((.(((.((.......((((....)))).....)).)))..)))...)))))))........-((((.....))))..))). ( -32.20)
>DroEre_CAF1 9249 119 + 1
AACACACGCGUGGCAGGAUUACCGUCUUAAAGGUAAUGAUGACGACUUUCGGCCCCAACGAGUUGGAAAAUAGACGUGAAUCCAGCUUGCCAAGCAAAAA-CGCUGGAAAAGCGAAGCGA
......(((.((((((((((..(((((....(((...((.........)).)))((((....)))).....)))))..)))))....)))))........-((((.....))))..))). ( -33.60)
>DroYak_CAF1 10151 120 + 1
AACACACGCGUGGCAGGAUUACCCUCUUAAAGGUAAUGAUGACGACUUUCGGCCCCAACGAGUUGGAAAAUAGACGUGAAUCAGGCUUGCCAAGCAAAAAGCGCUGGAAAAGCGAAGCGA
......(((.(((((((((((((........))))))(((.(((.((.......((((....)))).....)).)))..)))...))))))).........((((.....))))..))). ( -32.60)
>consensus
AACACACGCGUGGCAGGAUUACCCUCUUAAAGGUAAUGAUGACGACUUUCGGCCCCAACGAGUUGGAAAAUAGACGUGAAUCAAGCUUGCCGAGCAAAAA_CGCUGGAAAAGCGAAGCGA
.......((.(((((((((((((........))))))(((.(((.((.......((((....)))).....)).)))..)))...))))))).))......((((.....))))...... (-31.24 = -31.00 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:01 2006