Locus 1243

Sequence ID 3R_DroMel_CAF1
Location 3,743,015 – 3,743,135
Length 120
Max. P 0.587900
window2025

overview

Window 5

Location 3,743,015 – 3,743,135
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.25
Mean single sequence MFE -31.38
Consensus MFE -25.62
Energy contribution -25.82
Covariance contribution 0.20
Combinations/Pair 1.13
Mean z-score -1.43
Structure conservation index 0.82
SVM decision value 0.11
SVM RNA-class probability 0.587900
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3743015 120 - 27905053
GGCACCAACGACAAAAUCAUUGUUACAUCUCAGUGGGUAAGCUAUCUCGCAAUCGUCCGUAAAAGACUGCAGGAUCUAUCAUGGGAAACACUUGACUUUAAUGGCCAGCUGACCGCCAAA
(((..............(((((........)))))(((.(((((((..(((.((..........)).)))..)))...(((..(....)...)))...........)))).))))))... ( -28.00)
>DroSec_CAF1 5025 120 - 1
GGCACCAAUGACAAAAUCAUUGUAACAUCUCAGUGGGUGAGCUAUCUCGCCAUCAUCCGUAAACGACUGCAGGAUCUAUCAUGGGAAACACUUGACUUUAAUGGUCAGCUGACCGCCAAA
(((..((((((.....)))))).....(((((.((((((((....))))))...(((((((......))).))))....)))))))..((.((((((.....)))))).))...)))... ( -33.10)
>DroSim_CAF1 4856 120 - 1
GGCACUAAUGACAAAAUCAUUGUAACAUCUCAGUGGGUGAGCUAUCUCGCCAUCAUCCGUAAACGACUGCAGGAUCUAUCAUGGGAAACACUUGACUUUAAUGGCCAGCUGACCGCCAAA
(((..............(((((........)))))(((.((((.....(((((.(((((((......))).))))...(((..(....)...))).....))))).)))).))))))... ( -32.30)
>DroEre_CAF1 4613 120 - 1
GGCACCAACGACAAAAUCAUUGUUACAUCACAGUGGGUGAGCUAUCUCACCAUCAUCCGUAAACGACUGCAGGAUCUGUCAUGGGAAACACUUGACUUUAAUGGCCAGUUAAGCGCCAAA
(((.(((..((((....((((((......))))))((((((....))))))...(((((((......))).)))).)))).)))......(((((((.........))))))).)))... ( -33.40)
>DroYak_CAF1 5803 120 - 1
GGCACCAACGACAAAAUUAUUGUUACAUCUCAGUGGGUGAGCUAUCUCGCCAUCAUCCGUAAACGACUGCAGGAUCUAUCAUGGGAAACACUUGACUUUAAUGGCCAGCUCAGCGCCAAA
(((......(((((.....)))))...........(.((((((.....(((((.(((((((......))).))))...(((..(....)...))).....))))).)))))).))))... ( -30.10)
>consensus
GGCACCAACGACAAAAUCAUUGUUACAUCUCAGUGGGUGAGCUAUCUCGCCAUCAUCCGUAAACGACUGCAGGAUCUAUCAUGGGAAACACUUGACUUUAAUGGCCAGCUGACCGCCAAA
(((..............(((((........)))))(((.((((.....(((((.(((((((......))).))))...(((..(....)...))).....))))).)))).))))))... (-25.62 = -25.82 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:26 2006