Locus 6448

Sequence ID X_DroMel_CAF1
Location 16,164,504 – 16,164,599
Length 95
Max. P 0.509696
window10530

overview

Window 0

Location 16,164,504 – 16,164,599
Length 95
Sequences 5
Columns 110
Reading direction reverse
Mean pairwise identity 73.58
Mean single sequence MFE -20.55
Consensus MFE -3.80
Energy contribution -5.04
Covariance contribution 1.24
Combinations/Pair 1.08
Mean z-score -1.50
Structure conservation index 0.18
SVM decision value -0.05
SVM RNA-class probability 0.509696
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16164504 95 - 22224390
CCUGUUAAUGGGUUA-CAAAAAGGUUCC-UACCAUCUCUUGGUGU-UUAUCAAAGUACCAAAAUCUCUG-----------GGAUUAAAAUAAUAU-CUAUGUACAAACAC
..(((..((((((..-.........(((-((.......(((((((-((....)))))))))......))-----------)))..........))-))))..)))..... ( -14.02)
>DroSec_CAF1 4565 89 - 1
CCAGUUAAUGGGUUC-CCAAAGGGUUCC-CACCAUC--UUGGUGUCUUAUCAAAGUCCCCAAAUCUCUG-----------GGUCCAAAAUAAUCU-UCAC-----AACAC
((((....((((..(-((...)))..))-)).....--((((.(.(((....))).).))))....)))-----------)..............-....-----..... ( -20.10)
>DroSim_CAF1 4891 90 - 1
CCAGUUAAUGGGUUC-CCAAAGGGUUCCUUACCAUC--UUGGUGUCUUAUCAAAGUCCCCAAAUCUCUG-----------GGUCCAAAAUAAUAU-UCAC-----AACAC
(((.....)))(..(-(((.(((((.....)))...--((((.(.(((....))).).))))..)).))-----------))..)..........-....-----..... ( -17.70)
>DroEre_CAF1 4865 98 - 1
CCUGAAAAUGGGUUC-CCAAAGGGCUCC-UACCUUC--UUGGUGU--UAUCAAAAUCCUAAAAUCUCGGCUGGAAUGUAGGGGCCCAACUAAUAU-UUAU-----AACAC
........(((....-)))..(((((((-(((.(((--(.(.((.--...................)).).)))).)))))))))).........-....-----..... ( -27.55)
>DroYak_CAF1 4677 100 - 1
CCUGUUAAUGGGUUCCCCAAAGGGCUCC-UACAUUC--UUGCUGU--CAUCAAAAUCCGAAAGUCUCUGGUGCAAUCGAGGGGCCAAAAAAGGAUUUUAA-----AACAC
..((((..((((..(((....)))..))-)).....--.......--....(((((((....((((((.(......).)))))).......)))))))..-----)))). ( -23.40)
>consensus
CCUGUUAAUGGGUUC_CCAAAGGGUUCC_UACCAUC__UUGGUGU_UUAUCAAAGUCCCAAAAUCUCUG___________GGGCCAAAAUAAUAU_UUAC_____AACAC
((......(((.....)))...(((....(((((.....)))))....))).............................))............................ ( -3.80 =  -5.04 +   1.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:14:02 2006