Locus 3483

Sequence ID 3R_DroMel_CAF1
Location 9,411,314 – 9,411,425
Length 111
Max. P 0.956529
window5601

overview

Window 1

Location 9,411,314 – 9,411,425
Length 111
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 93.22
Mean single sequence MFE -41.05
Consensus MFE -35.52
Energy contribution -35.34
Covariance contribution -0.19
Combinations/Pair 1.06
Mean z-score -2.38
Structure conservation index 0.87
SVM decision value 1.47
SVM RNA-class probability 0.956529
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9411314 111 + 27905053
UUCUGGGGUC--------CUGG-GGUUCUGGGGAAGGUCCUGUGGAUGGAUUGAGAGCAGGAGACACACGUACAAGUGCAGGUCCAUUUAUCUUCUGUCAUUGUGCGAGUGUUUCCGUUU
(((..(..((--------....-))..)..)))..(((((.......)))))..((((.((((((((.(((((((..(((((...........)))))..))))))).)))))))))))) ( -40.70)
>DroSec_CAF1 40835 112 + 1
UUCUGGGAUC--------CUGGGGGUUCUGGUGAAGGUCCUGUGGAUGGAUUGAGAGCAGGAGACACACGUACAAGUGCAGGUCCAUUUAUCUUCUGUCAUUGUGCGAGUGUUUCCGUUU
..(..(((((--------(...))))))..)....(((((.......)))))..((((.((((((((.(((((((..(((((...........)))))..))))))).)))))))))))) ( -40.50)
>DroEre_CAF1 41895 119 + 1
UUCUAGGGUUCUGCUGUUCUGG-UGUUCUGGGGAAGGUCCUGUGGAUGGAUUGAGAGCAGGAGACACACGUACAAGUGCAGGUCCAUUUAUCUUCUGUCAUUGUGCGAGUGUUUCCGUUU
..((((..(......)..))))-((((((.((....((((...))))...)).))))))((((((((.(((((((..(((((...........)))))..))))))).)))))))).... ( -41.10)
>DroYak_CAF1 43020 111 + 1
CUCUAGGGUU--------CUGG-GGUUCUGGGGAAGGUCCUGUGGAUGGAUUGAGAGCAGGAGACACACGUACAAGUGCAGGUCCAUUUAUCUUCUGUCAUUGUGCGAGUGUUUCCGUUU
((((((..((--------....-))..))))))..(((((.......)))))..((((.((((((((.(((((((..(((((...........)))))..))))))).)))))))))))) ( -41.90)
>consensus
UUCUAGGGUC________CUGG_GGUUCUGGGGAAGGUCCUGUGGAUGGAUUGAGAGCAGGAGACACACGUACAAGUGCAGGUCCAUUUAUCUUCUGUCAUUGUGCGAGUGUUUCCGUUU
((((((..(...............)..))))))..(((((.......)))))..((((.((((((((.(((((((..(((((...........)))))..))))))).)))))))))))) (-35.52 = -35.34 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:18 2006