Locus 1843

Sequence ID 3L_DroMel_CAF1
Location 5,170,603 – 5,170,702
Length 99
Max. P 0.639785
window2877

overview

Window 7

Location 5,170,603 – 5,170,702
Length 99
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 83.83
Mean single sequence MFE -18.56
Consensus MFE -17.62
Energy contribution -17.74
Covariance contribution 0.12
Combinations/Pair 1.11
Mean z-score -1.44
Structure conservation index 0.95
SVM decision value 0.22
SVM RNA-class probability 0.639785
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5170603 99 + 23771897
AAGCGUGGUCUAAAGUUCCUUGGGCCGCCUCUUUCUCACCAAAU--U-CGUCUUCCCAUCUUACAACUGU-------------UCCCUUACCUCUAGGCUGUUUUUACACCUGGC
.((.(((((((((......)))))))))))..............--.-......................-------------..........(((((.(((....)))))))). ( -18.70)
>DroSec_CAF1 36092 108 + 1
AAGCGUGGUCUAAAGUUCCUUAGACCGCCUCUUUCUCACCAAAU--U-UCCAUUCCCCCUCUCCCACUGUU-UUUG---UAGCUCCCUUACCACUAGGCUGUUUUUACACCUGGC
.((((((((((((......)))))))))................--.-.................((....-...)---).))).........(((((.(((....)))))))). ( -21.10)
>DroSim_CAF1 36008 110 + 1
AAGCGUGGUCUAAAGUUCCUUAGGCCGCCUCUUUCUCACCAAAU--UUUCCAUUCCCCCUUUCCCACUGUUUUUUG---UAGCUCCCUUACCUCUAGGCUGUUUUUACACCUGGC
.((((((((((((......)))))))))................--...................((........)---).))).........(((((.(((....)))))))). ( -20.40)
>DroEre_CAF1 35141 112 + 1
AAGCGUGGUAUAAAGUUCCUUAGGCCGCCUCUUUCUCACCAAAU--U-UCCCUUCCAUAUUCGACUCUGUUUUUUGUUGUUGCUCCCUUACCUCUAGGCUGUUUUUACACCUGGC
.((((((((.(((......))).)))))................--.-.............((((..........))))..))).........(((((.(((....)))))))). ( -16.90)
>DroYak_CAF1 34550 111 + 1
AAGCGUGGUCAAAAGUUCCUUAGGCCGCCUCUUUCUCACCAAAAUGU-UCCCUUCCAUAUACCUCACUGUUUUUUA---UUGCUCCCAUACCUCUAGGCUGUUUUUACACCUGGC
.(((((((((.((......)).))))))...............(((.-.......)))..................---..))).........(((((.(((....)))))))). ( -15.70)
>consensus
AAGCGUGGUCUAAAGUUCCUUAGGCCGCCUCUUUCUCACCAAAU__U_UCCCUUCCCCAUUUCCCACUGUUUUUUG___UAGCUCCCUUACCUCUAGGCUGUUUUUACACCUGGC
.((.(((((((((......)))))))))))...............................................................(((((.(((....)))))))). (-17.62 = -17.74 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:08 2006