Locus 4334

Sequence ID 3L_DroMel_CAF1
Location 12,750,666 – 12,750,786
Length 120
Max. P 0.890571
window6708

overview

Window 8

Location 12,750,666 – 12,750,786
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 79.71
Mean single sequence MFE -34.35
Consensus MFE -19.08
Energy contribution -21.48
Covariance contribution 2.40
Combinations/Pair 1.16
Mean z-score -2.23
Structure conservation index 0.56
SVM decision value 0.96
SVM RNA-class probability 0.890571
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12750666 120 + 23771897
GGGGACAUUGUUUUGUGGGCUGCUCCAUUUCGGUUGAUUGACUGCAAGUGGAGAUGCGUUCCCUAAAGCAAAUGUUCUUAUUUAAGGUACUACCUCCAAAUCUUUGAUUAGUCCCUUUAA
((((((.((((((((.(((...(((((((((((((....))))).)))))))).......))))))))))).............(((.....)))...............)))))).... ( -36.30)
>DroSec_CAF1 7673 113 + 1
GAGGACAUUGUUUUGUGGGCAGCUCCAUUUCGGUUGAUUGACUGUAAGUGGAGAUGCGAUCCCUAAAGCAAAUGUUCUUAUUUAAGGAAGACUCUUCGAGUCUUCUAUUAGGC-------
(((((((((((((((.(((((.(((((((((((((....))))).)))))))).)))...)).)))))).)))))))))......(((((((((...))))))))).......------- ( -45.20)
>DroSim_CAF1 9923 113 + 1
GGGGACAUUGUUUUGUGGGCAGCUCCAUUUCGGUUGAUUGACUGUAAGUGGAGAUGCGAUCCCUAAAGCAAAUAUUCUUAUUUAAGGUACUAUCUCCGAAUCUUCGAUUAGGG-------
(((((..((((((((.(((((.(((((((((((((....))))).)))))))).)))...)).))))))))....((((....)))).....)))))................------- ( -32.80)
>DroEre_CAF1 7805 113 + 1
GGGCACAUUCUUUUGUGGGAUAUUCUAUUUGGGUUGAUUGGCUGAAAGUGGAUAUGCGUUCCCUAAAGCAAAUGUUCCUAUUCGAGGUCCUACAGCCGAAUCUUUGAUUGGGC-------
.............((((((((.(((....((((.......(((...((.(((.......)))))..))).......))))...)))))))))))(((.((((...)))).)))------- ( -29.34)
>DroYak_CAF1 7966 113 + 1
GUGGACAUUCAUUUGCAGGUAAUUGGUUUUCGGUUGAUUGACUGUAAGUGGAUACGCAUUCCCUAAAGCAAAUAUUCUUAUUCAAUGUUCUUUCUCCCAAUCUUUGAUUGGGC-------
..((((((((((((((((.(((((..(.....)..))))).))))))))))))..((..........)).................)))).....(((((((...))))))).------- ( -28.10)
>consensus
GGGGACAUUGUUUUGUGGGCAGCUCCAUUUCGGUUGAUUGACUGUAAGUGGAGAUGCGUUCCCUAAAGCAAAUGUUCUUAUUUAAGGUACUAUCUCCGAAUCUUUGAUUAGGC_______
(((((((((((((((.(((...(((((((((((((....))))).)))))))).......))))))))).)))))))))................((.((((...)))).))........ (-19.08 = -21.48 +   2.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:52 2006