Locus 1987

Sequence ID 2L_DroMel_CAF1
Location 5,378,135 – 5,378,254
Length 119
Max. P 0.500000
window3206

overview

Window 6

Location 5,378,135 – 5,378,254
Length 119
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 91.38
Mean single sequence MFE -44.15
Consensus MFE -39.69
Energy contribution -40.20
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.29
Structure conservation index 0.90
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5378135 119 + 22407834
UGCCCACCGUACAGUAGUCACUAAUGGGUGGCUGCUGAUGGUUU-UGGAGGUGGUUGUGGUCGUGGUGGGGCAGCUCCAAUGGCGCCAGGCGGAGCUUGGACAAAUGACAGUGGACGACU
..((.(((((.(((((((((((....))))))))))))))))..-.)).(((.(((...(((((..((....((((((..((....))...))))))....)).)))))....))).))) ( -46.10)
>DroSec_CAF1 35474 116 + 1
UGCCCACCGUACAGUAGUCACUAAUGGGUGGCUGCUGAUGGUUU-UGGAGGUGG---UGGUCGUGGUGGGGCAGCUCCAAUGGCGCCAGGCGGAGCUUGGACAAAUGACACUGGACGACU
.(((((((((.(((((((((((....))))))))))))))))..-..).)))((---(.(((.(((((...((..((((..(((.((....)).)))))))....)).)))))))).))) ( -44.80)
>DroSim_CAF1 36035 116 + 1
UGCCCACCGUACAGUAGUCACUAAUGGGUGGCUGCUGAUGGUUU-UGGAGGUGG---UGGUCGUGGUGGGGCAGCUCCAAUGGCGCCAGGCGGAGCUUGGACAAAUGACACUGGACGACU
.(((((((((.(((((((((((....))))))))))))))))..-..).)))((---(.(((.(((((...((..((((..(((.((....)).)))))))....)).)))))))).))) ( -44.80)
>DroEre_CAF1 38712 103 + 1
UGCCCACCGUACAGUAGUCACUAAUGGGUGGCUGCUGAUGGUUUCUGGAGGUGG---UG--------------GCUCCAAUGGCGCCAGGCGGAGCUUGGACAAAUGACAGUGGACGGCU
.(((.(((((.(((((((((((....))))))))))))))))..(((....((.---.(--------------(((((..((....))...))))))....)).....))).....))). ( -40.90)
>consensus
UGCCCACCGUACAGUAGUCACUAAUGGGUGGCUGCUGAUGGUUU_UGGAGGUGG___UGGUCGUGGUGGGGCAGCUCCAAUGGCGCCAGGCGGAGCUUGGACAAAUGACACUGGACGACU
.(((.(((((.(((((((((((....))))))))))))))))...(((((.((..................)).)))))..)))(((((((...)))))).).................. (-39.69 = -40.20 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:34 2006