Locus 2270

Sequence ID 3R_DroMel_CAF1
Location 6,428,707 – 6,428,803
Length 96
Max. P 0.761129
window3677

overview

Window 7

Location 6,428,707 – 6,428,803
Length 96
Sequences 5
Columns 98
Reading direction forward
Mean pairwise identity 88.70
Mean single sequence MFE -22.60
Consensus MFE -17.51
Energy contribution -17.91
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.75
Structure conservation index 0.77
SVM decision value 0.50
SVM RNA-class probability 0.761129
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6428707 96 + 27905053
CAGGACACUUCCUGCCCUACAAAAUGCAAAUGAGCAGCUGUCUCUCGAUCUGUAUCUAUGU--CUAUAUCGAUUGCUCUGGGCAAGUACAAAUCCUGA
(((((.....(.(((((.(((...(((......)))..)))....(((((.((((......--..)))).)))))....))))).)......))))). ( -22.40)
>DroSec_CAF1 192353 92 + 1
CAGGACACUUCCUGCCCUACAACAUGCAAAUGAGCAGCUGCCACUCGAUCUGUAUCUAU------AUAUCGGUUGCUCUGAGCAACUACAAAUCCUGA
(((((....)))))..........(((....(((((((((......(((....)))...------....)))))))))...))).............. ( -20.22)
>DroSim_CAF1 217585 92 + 1
CAGGACACUUCCUGCCCUACAACAUGCAAAUGAGCAGCUGUCACUCGAUCUGUAUCUAU------AUAUCGGUUGCUCUGAGCAACUACAAAUCAUGA
(((((....)))))..........(((....(((((((((......(((....)))...------....)))))))))...))).............. ( -20.92)
>DroEre_CAF1 203784 92 + 1
CAGGACGCUUCCUGCCCUACAAUAUGCAAAUGAGCAGCUGUCUUUCGAUCUCUAUCUAU------AUAUCGGUUGCUCUGGGCAACUAGGAAUCCUGA
(((((..(((..(((((..............(((((((((......(((....)))...------....))))))))).)))))...)))..))))). ( -28.98)
>DroYak_CAF1 197318 98 + 1
CAGGACACUUCCUGCCCUACAAAAUGCAAAUGAGCAGCUGUCUCUCGAUCUCUAUCUAUAUACAUAUAUCGGUUGCUCUGGCCAACUGUGAAUCUUGA
(((((....)))))...((((....((....(((((((((......(((....)))((((....)))).)))))))))..))....))))........ ( -20.50)
>consensus
CAGGACACUUCCUGCCCUACAAAAUGCAAAUGAGCAGCUGUCUCUCGAUCUGUAUCUAU______AUAUCGGUUGCUCUGGGCAACUACAAAUCCUGA
(((((....)))))..........(((....(((((((((.............................)))))))))...))).............. (-17.51 = -17.91 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:31:19 2006