Locus 1

Sequence ID 4_DroMel_CAF1
Location 79,520 – 79,621
Length 101
Max. P 0.904458
window1

overview

Window 1

Location 79,520 – 79,621
Length 101
pre Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 78.74
Mean single sequence MFE -25.93
Consensus MFE -14.25
Energy contribution -15.12
Covariance contribution 0.88
Combinations/Pair 1.21
Mean z-score -2.42
Structure conservation index 0.55
SVM decision value 1.04
SVM RNA-class probability 0.904458
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 79520 101 - 1281640
CGAUACCAGAUUCAAUCCUGCUGUGCACUUGCAGGAAAAAUGUUAUUUUUCUUGUUUUAAUGCCGGACAAGGAUAC--ACCAUACACAUC-UACAUAUGUAU-GU---------------
..............(((((.(((.(((...(((((((((((...))))))))))).....))))))...)))))..--..((((((.((.-...)).)))))-).--------------- ( -24.50)
>DroSec_CAF1 22675 102 - 1
CGAUACCAGAUUUAAUCCUGCUGUGCACUUGCAGGAAAAAUGUUAUUUUU-UUGUUUUAAUGCCGGACAAGGAUACACACCAUACACAUC-UACAUAUGUAU-GU---------------
..............(((((.(((.(((...(((((((((......)))))-)))).....))))))...)))))......((((((.((.-...)).)))))-).--------------- ( -20.90)
>DroEre_CAF1 37589 117 - 1
CGAUACAAUACUCAAUCCUGCUGUGCACUUGCAGGAAAAAUGUUAUUUUUCCGCUUUUAAAGCCGGACAGAAAUACACA---CCCACACCAUACACAUGUAUUGUAUAUAUAUAUAUAUG
..(((((((((....((((((.........))))))....(((((((((((((((.....)).))))..)))))).)))---................)))))))))............. ( -26.80)
>DroYak_CAF1 43015 108 - 1
CGAAACCCUAUUCAAUCCUGCUGUGCACUUGCAGGAAAAAUGUUAUUUUUCUGGUUUUAAGGCUGGACAGGGAUACACA---CACACAGCAUACAUAUGUAUUGUGUGUAG---------
.....((((......((((((.........)))))).............((..(((....)))..)).)))).((((((---((....((((....))))..)))))))).--------- ( -31.50)
>consensus
CGAUACCAGAUUCAAUCCUGCUGUGCACUUGCAGGAAAAAUGUUAUUUUUCUGGUUUUAAUGCCGGACAAGGAUACACA___CACACAUC_UACAUAUGUAU_GU_______________
((((((.........((((((.........)))))).......((((((((((((......))))))..)))))).......................))))))................ (-14.25 = -15.12 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:30:46 2006