Locus 4661

Sequence ID 3R_DroMel_CAF1
Location 12,289,713 – 12,289,824
Length 111
Max. P 0.728248
window7652

overview

Window 2

Location 12,289,713 – 12,289,824
Length 111
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 76.27
Mean single sequence MFE -27.61
Consensus MFE -13.34
Energy contribution -16.46
Covariance contribution 3.12
Combinations/Pair 1.14
Mean z-score -1.90
Structure conservation index 0.48
SVM decision value 0.42
SVM RNA-class probability 0.728248
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12289713 111 + 27905053
UUUCGACAAUUACUUGAUCCUUUUCACUAGAAGAAGGCAACUCAUCAGGAUGUGCCUCUUCUAAGGGUUCUCUUUCAGGCGAUGUUUCGAUGAUUGGUUUAAUAG------UAUCAU
..((((..((..(((((......((..(((((((.((((..((.....))..)))))))))))..)).......)))))..))...))))....((((.......------.)))). ( -26.22)
>DroSec_CAF1 10946 110 + 1
UUUCGACAAUUACUUGAUCCUUUUCACUAGAAGAAGGCAACUCAUCAGGAUGUGCCUCUACUGGAGGUUCUCUUUCAGGUGAUGUUUCGAUUAUUGGUUUAAUAG------UAUCA-
..((((..(((((((((......((.((((.(((.((((..((.....))..))))))).)))).)).......)))))))))...)))).(((((......)))------))...- ( -27.32)
>DroSim_CAF1 9319 110 + 1
UUUCGACAAUUACUUGAUCCUUUACACUAGAAGAAGGCAACUCAUCAGGAUGUGCCGCUACUGGAGGUUCUCUUUCAGGUGAUGUUUCGAUUAUUGGUUUAAUAG------UAUCA-
..((((..(((((((((......((.((((.((..((((..((.....))..)))).)).))))..))......)))))))))...)))).(((((......)))------))...- ( -25.50)
>DroEre_CAF1 10254 113 + 1
UUUCGGCAG---CUUCAUCAUUUUCACUAACAGAAGGCACUUCAUCAGGACAUUCUUCUUCUGGAGGUGCUCUUUCUGGUGAAGUUUCGAUUAUUGGUUUAAUGGUAUUAUUAUCA-
..((((.((---((((((((..(((.......)))((((((((..(((((........))))))))))))).....))))))))))))))............(((((....)))))- ( -29.90)
>DroYak_CAF1 10307 107 + 1
UUUCGAUAGCUACUUCAUCACUUACACAUACAGGAGGCACCUUAUCAGGACAUGCUUCUUCUAGAGGUUCUUCCUCAGGUGAAGAUUCGAUGACUA---------CAUCAUCAACA-
............(((((((.........((.(((((((((((....)))...)))))))).))((((.....)))).)))))))....(((((...---------..)))))....- ( -29.10)
>consensus
UUUCGACAAUUACUUGAUCCUUUUCACUAGAAGAAGGCAACUCAUCAGGAUGUGCCUCUUCUGGAGGUUCUCUUUCAGGUGAUGUUUCGAUUAUUGGUUUAAUAG______UAUCA_
..((((..(((((((((......((.((((.((.(((((..((.....))..))))))).)))).)).......)))))))))...))))........................... (-13.34 = -16.46 +   3.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:45 2006