Locus 1029

Sequence ID 2R_DroMel_CAF1
Location 4,236,590 – 4,236,704
Length 114
Max. P 0.712365
window1828

overview

Window 8

Location 4,236,590 – 4,236,704
Length 114
Sequences 5
Columns 114
Reading direction forward
Mean pairwise identity 87.02
Mean single sequence MFE -25.08
Consensus MFE -20.04
Energy contribution -18.68
Covariance contribution -1.36
Combinations/Pair 1.29
Mean z-score -1.64
Structure conservation index 0.80
SVM decision value 0.38
SVM RNA-class probability 0.712365
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4236590 114 + 20766785
UUAAGCUGUCAAUCAGCUGAUUUUGCAUCCAUAAAUAAAAGAGUGCUGCUUGUAGCCUUAUCUGUAGGUUAACCACAUAUAUUAACCUGCUUCAAACACCUUUCUCCGAUUUCG
...(((((.....)))))((..(((...............(((.((((....)))))))....(((((((((.........)))))))))................)))..)). ( -23.30)
>DroSec_CAF1 6018 114 + 1
UUGCGUUGUCAAUCAGCUGAUUUUGCAUCCAUAAAUAAAGGAGCGCUGCUUGUGGCCCUAUCUGUAGGUUAAACACACUUAUUAACCUGCUACAAACACCUAUCUCCGAUUUCG
.((((..((((......))))..))))............((((.(.((.(((((((.........(((((((.........)))))))))))))).)).)...))))....... ( -25.30)
>DroSim_CAF1 6884 114 + 1
UUGCGUUGUCAAUCAGCUGAUUUUGCAUCCAUAAAUAAAGGAGCGCUGCUUGUGGCCCUAUCUGCAGGUUAAACACACAUAUUAACCUGCUACAAACACCUAUCUCCGAUUUCG
.((((..((((......))))..))))............((((.((((....)))).......(((((((((.........))))))))).............))))....... ( -26.50)
>DroEre_CAF1 5897 113 + 1
UUGCGCUGUAAAUCAGCUGAUUUCGCAUCCAUAAAUAAAAGAGCGCGGUGCGUGGCCUUAUCUGCAGGUUAACCACACUA-UUAACCUGUUUCAAACACCUAUCUACGAUUUCA
....((((.....)))).((..((((.((...........))..))((((..(((........(((((((((........-))))))))).)))..)))).......))..)). ( -24.90)
>DroYak_CAF1 5849 112 + 1
UUGCGCUAUCAAUCAGCUGAUUUCGCAUCCAUAAAUAAAAAAGUGCGGUUCGUGGCCUUAUAUGCAGGUUAACCACACUAAUUAACCUGCUUUAAACACCUAUC--CGAUUUCC
.((((..((((......))))..)))).............((((.(((...(((...(((...(((((((((.........)))))))))..))).)))....)--)))))).. ( -25.40)
>consensus
UUGCGCUGUCAAUCAGCUGAUUUUGCAUCCAUAAAUAAAAGAGCGCUGCUUGUGGCCUUAUCUGCAGGUUAACCACACUUAUUAACCUGCUUCAAACACCUAUCUCCGAUUUCG
....((((.....)))).((..(((.............(((..(((.....)))..)))....(((((((((.........)))))))))................)))..)). (-20.04 = -18.68 +  -1.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:42 2006