Locus 1334

Sequence ID X_DroMel_CAF1
Location 3,998,711 – 3,998,819
Length 108
Max. P 0.979858
window2128

overview

Window 8

Location 3,998,711 – 3,998,819
Length 108
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 80.42
Mean single sequence MFE -27.04
Consensus MFE -19.46
Energy contribution -20.74
Covariance contribution 1.28
Combinations/Pair 1.19
Mean z-score -2.43
Structure conservation index 0.72
SVM decision value 1.85
SVM RNA-class probability 0.979858
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3998711 108 + 22224390
AGCGAGAGCUUCAAAAAGUUUGACAAGUUAAAAAUAUGUAAUUACUGGCAACAGCCUUUGGUUGUUCAUGUUGGCCAAAAGUGUCAAGCUGGGAAAAAUAAUUUUUCC----------
(((....)))......(((((((((..((...((((((((((((..(((....)))..))))))..)))))).....))..)))))))))(((((((....)))))))---------- ( -29.30)
>DroSec_CAF1 20471 107 + 1
AGCGAGAGCUCCAAAAAGUUUGACAAGUUAAAAAUAUGUAAUUACUGGCAGCAGCCCUUAGUUGUUCAUGUUUGCCAAAAGUGUCAAGCUGGGAAAAAUAAUUUUU-C----------
.((....))(((....(((((((((..((..(((((((((((((..(((....)))..))))))..)))))))....))..))))))))).)))............-.---------- ( -30.00)
>DroSim_CAF1 18794 107 + 1
AGCGAGAGCUCCAAAAAGUUUGACAAGUUAAAAAUAUGUAAUUACUGGCAGCAGCCCUUAGUUGUUCAUGUUUGCCAAAAGUGUCAAGCUGGGAAAAAUAAUUUUU-C----------
.((....))(((....(((((((((..((..(((((((((((((..(((....)))..))))))..)))))))....))..))))))))).)))............-.---------- ( -30.00)
>DroEre_CAF1 18503 105 + 1
AGAGAAAGCUCUAAAAAGUUUGACAAAUUAAGAAUAUGUAAUUACUUGCAGCACCCUUUAGUUGUUCAUGCUUGCUAAAAUUCUCAAAC-------------UCUCUCAUUCAGCAUA
.((((((((......((((.((((((...(((....(((((....))))).....)))...))).))).)))))))....)))))....-------------................ ( -15.50)
>DroYak_CAF1 18369 118 + 1
AGCGAAAGCUCUAAAAAGUUUGACAAGUUAAAAAUAUGUAAUUACUUGCAGCAGCCUUUAGUUGUUCAUGUUUGUUAAAAGUGUCAGACUGGGAAGAAUAAUUCUUUCAUUGCGCAGC
(((....)))......(((((((((..(((((((((((.(((.(((.((....))....))).)))))))))).))))...))))))))).((((((.....)))))).......... ( -30.40)
>consensus
AGCGAGAGCUCCAAAAAGUUUGACAAGUUAAAAAUAUGUAAUUACUGGCAGCAGCCUUUAGUUGUUCAUGUUUGCCAAAAGUGUCAAGCUGGGAAAAAUAAUUUUU_C__________
.((....))(((....(((((((((..((..(((((((.(((.((((((....)))...))).))))))))))....))..))))))))).)))........................ (-19.46 = -20.74 +   1.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:47 2006