Locus 2869

Sequence ID 2R_DroMel_CAF1
Location 9,920,704 – 9,920,803
Length 99
Max. P 0.607267
window4744

overview

Window 4

Location 9,920,704 – 9,920,803
Length 99
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 84.54
Mean single sequence MFE -34.92
Consensus MFE -24.68
Energy contribution -28.52
Covariance contribution 3.84
Combinations/Pair 1.10
Mean z-score -1.71
Structure conservation index 0.71
SVM decision value 0.15
SVM RNA-class probability 0.607267
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9920704 99 + 20766785
-CGGAUUAGCUGGGAAAAAUUCCAGAUCCGGCAACUGAUUCUGACAGGCAAUUAGAGUGUUGUAGGGAGUGGACCUCAGUUGCUAGU-----------------UUCCCAAACACUC
-(((((...((((((....)))))))))))((((((((.((((.(..(((((......)))))..)...))))..))))))))....-----------------............. ( -29.80)
>DroSec_CAF1 51850 116 + 1
-CGGAUUAGCUGGGAGAAAUUCCAGAUCCGGCAACUGAUUCUGACAGGCAAUUAGCGUGUUGUAGGGAGUGGACCUUAGUUGCUAGUAAAUUGAAAGGGUCAUGUUCCCAAACACUC
-(((((...((((((....)))))))))))....((((((((....)).)))))).(((((...(((((..((((((((((.......)))))...)))))...))))).))))).. ( -37.30)
>DroSim_CAF1 39350 116 + 1
-CGGAUUAGCUGGGAGAAAUUCCAGAUCCGGCAACUGAUUCUGACAGGCAAUUAGAGUGUUGUAGGGAGUGGACCUCAGUUGCUAAUAAAUUGAAAGGGUCAUGUUCCCAAACACUC
-(((((...((((((....)))))))))))((..(((.......))))).....(((((((...(((((..((((((((((.......))))))...))))...))))).))))))) ( -40.90)
>DroEre_CAF1 44280 116 + 1
-CGGACUAACAGCAACAAACUCCAGAUCCGUCUAGUGAUUCUGACAGGCAAUUAGAGUGUUGAAGGGAGUGGACCUCAGUUGCCAGUAAAUUGAAAGGGUCAUGUUCCCAAACAGUC
-..((((.....((((..((((.....(((((.((.....))))).))......))))))))..(((((..((((((((((.......))))))...))))...)))))....)))) ( -28.90)
>DroYak_CAF1 39564 117 + 1
ACGGAUUAGCAGGGAAGAGUCCCAGAUCCGUCUAGUGAUUCUGACAGGCAAUUAGAGUGCUGCUGGGAGUGGACUUCAGUUGCCAGUAAAUUGAAUGGGUCAUGUUCCCAAACACUC
(((((((....((((....)))).)))))))..((((((((..((.(((((((..(((.(..(.....)..))))..))))))).)).....))))(((.......)))...)))). ( -37.70)
>consensus
_CGGAUUAGCUGGGAAAAAUUCCAGAUCCGGCAACUGAUUCUGACAGGCAAUUAGAGUGUUGUAGGGAGUGGACCUCAGUUGCUAGUAAAUUGAAAGGGUCAUGUUCCCAAACACUC
.(((((...((((((....))))))))))).....(((((((....)).)))))(((((((...(((((..((((((((((.......))))))...))))...))))).))))))) (-24.68 = -28.52 +   3.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:35 2006