Locus 5402

Sequence ID 3L_DroMel_CAF1
Location 14,817,085 – 14,817,196
Length 111
Max. P 0.897481
window8545

overview

Window 5

Location 14,817,085 – 14,817,196
Length 111
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 82.16
Mean single sequence MFE -39.18
Consensus MFE -29.53
Energy contribution -31.62
Covariance contribution 2.09
Combinations/Pair 1.13
Mean z-score -2.58
Structure conservation index 0.75
SVM decision value 1.00
SVM RNA-class probability 0.897481
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14817085 111 - 23771897
--CUGGACUCGCUGACGUUGCGCAUACGCAGCGUUGUAUGCAAACUAUCCAACUG-GGAGAUGGAUGGAUGGAGGCAGGAAUGGCUCCUAAGCGCCAAGGAUC------CAGAGUCAAAG
--(((((..(((.(((((((((....)))))))))))..((...(((((((.(..-...).)))))))..((((.((....)).))))...)).....)..))------)))........ ( -41.90)
>DroSec_CAF1 51988 88 - 1
--CUGGACU-----------------------GUUGUAUGCAAACUAUCCAACUG-GGAGAUGGAUGGAUGGAGGCAGGAAUGGCUCCUAAGCGCGAAGGAUC------CAGAGUCAAAG
--(((((((-----------------------.((((..((...(((((((.(..-...).)))))))..((((.((....)).))))...)))))).)).))------)))........ ( -29.70)
>DroSim_CAF1 45102 111 - 1
--CUGGACUCGCUGACGUUGCGCAUACGCAGCGUUGUAUGCAAACUAUCCAACUG-GGAGAUGGAUGGAUGGAGGCAAAAAUGGCUCCUAAGCGCCAAGGAUC------CAGAGUCAAAG
--...(((((((((((((((((....))))))))).........(((((((.(((-.....))).))))))).))).....(((.((((........)))).)------))))))).... ( -41.50)
>DroEre_CAF1 52515 111 - 1
--CUGGACUCGCUGACGUUGCGCAUACGCAGCGUUGUAUGCAAACUAUCCAACUG-GGAGAUGGAUGGAUGGAGGCGGGAAUGGGUCCAAAGCGCCAAGGAUC------CAGAGUCAAAG
--...(((((((((((((((((....))))))))).........(((((((.(((-.....))).))))))).))).....(((((((..........)))))------))))))).... ( -43.50)
>DroYak_CAF1 55191 111 - 1
--CUGGACUUGCUGACGUUGCGCAUACGCAGCGUUGUAUGCAAACUAUCCAACUG-GGAGAUGGAUGGAUGGAGGCAGGAAUGGCUCCAAAGCGCCAAGGAUC------CAGAGUCAAAG
--((((((((((.(((((((((....)))))))))....((...(((((((.(..-...).))))))).(((((.((....)).)))))..))).))))..))------)))........ ( -43.30)
>DroAna_CAF1 49610 109 - 1
UCUUCGACUCGCUGACGUUGCGCAUACGCAGCGUUGUAUGCAAACCAUCCCACCAGGGAGA--GAUGGAUGU-GGCAA-----GGUCC---GUGGCAAGGAUCCCAAACCAGACUCAAAG
..........((.(((((((((....)))))))))....))......((((....))))((--(.(((...(-((...-----(((((---.......))))))))..)))..))).... ( -35.20)
>consensus
__CUGGACUCGCUGACGUUGCGCAUACGCAGCGUUGUAUGCAAACUAUCCAACUG_GGAGAUGGAUGGAUGGAGGCAGGAAUGGCUCCUAAGCGCCAAGGAUC______CAGAGUCAAAG
.....(((((...(((((((((....)))))))))....((...(((((((.((....)).)))))))..((((.((....)).))))...))..................))))).... (-29.53 = -31.62 +   2.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:49:25 2006