Locus 2632

Sequence ID 2R_DroMel_CAF1
Location 9,292,862 – 9,292,966
Length 104
Max. P 0.750027
window4339

overview

Window 9

Location 9,292,862 – 9,292,966
Length 104
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 78.14
Mean single sequence MFE -24.18
Consensus MFE -10.76
Energy contribution -12.36
Covariance contribution 1.60
Combinations/Pair 1.00
Mean z-score -2.05
Structure conservation index 0.44
SVM decision value 0.47
SVM RNA-class probability 0.750027
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9292862 104 + 20766785
AAUGGAAUCCCCUGCAGCAGG-GGCUCCGCAAGGAUAUUCCCUGCCCUCC---CUCCUGCACUUCGUGCCCCACCUCGUCCUUGCAACCUUUUAAGCCCACCUUACCC
...(((..((((((...))))-)).)))((((((((......(((.....---.....)))....(((...)))...))))))))....................... ( -25.90)
>DroSec_CAF1 177662 98 + 1
AAUGGAAUCCCCUGCAGCAGU-GGCUCCGCAAGGA--UUCCCUGCCC-------ACCUGCACUUCGUGCUCCAGCCCGUCCUUGCAACCUUUUAAGCCCACCCUACCC
..(((...........((((.-((.(((....)))--..))))))..-------...((((...((.((....)).))....))))...........)))........ ( -22.90)
>DroSim_CAF1 163794 98 + 1
AAUGGAAUCCCCUGCAGCAGU-GGCUCCGCAAGGA--UUCCCUGCCC-------ACCUGCACUUCGUGCUCCAGCCCGUCCUUGCAACCUUUUAAGCCCACCUUACCA
..(((........((.((((.-((.(((....)))--..))))))..-------...((((...((.((....)).))....)))).........))........))) ( -23.29)
>DroEre_CAF1 163714 106 + 1
AAUGGAGUUCCCUGCAGCACAGGGCUCCACAAGGA--UUCCUUGCACCACGUGCUCCUCCUCCUCGUGCUCCUCCUCCUGCUUGCAACCUUUUAAGCCCAUCUUACCC
...((((..(((((.....)))))...(((.((((--......((((...))))......)))).)))...))))....(((((........)))))........... ( -25.90)
>DroYak_CAF1 162256 90 + 1
AAUGGAGUCCCCUGCAGCACUGGGCUCCACAAGGA--UUCCUUGCACCACGUGCUCCACCUCG---------------UCCUUGCAACCUUUUAAGCCCACCUCACC-
..((((((((..((...))..))))))))((((((--(.....((((...))))........)---------------)))))).......................- ( -22.92)
>consensus
AAUGGAAUCCCCUGCAGCAGU_GGCUCCGCAAGGA__UUCCCUGCCC__C___CUCCUGCACUUCGUGCUCCACCCCGUCCUUGCAACCUUUUAAGCCCACCUUACCC
...((.....))((((((((..((.(((....)))....)))))).............((((...)))).............))))...................... (-10.76 = -12.36 +   1.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:35:01 2006