Locus 1860

Sequence ID 3L_DroMel_CAF1
Location 5,223,580 – 5,223,687
Length 107
Max. P 0.628085
window2899

overview

Window 9

Location 5,223,580 – 5,223,687
Length 107
Sequences 5
Columns 110
Reading direction reverse
Mean pairwise identity 79.73
Mean single sequence MFE -16.36
Consensus MFE -10.94
Energy contribution -12.26
Covariance contribution 1.32
Combinations/Pair 1.08
Mean z-score -1.64
Structure conservation index 0.67
SVM decision value 0.19
SVM RNA-class probability 0.628085
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5223580 107 - 23771897
CGAGCCUUAAAUAGGCAAGCUUAAAUUGAUUAAGAUGUAAAAAAAAAAUAUU---UUCGAAGUUACUGCUUUACCACGUGGAGCAUGUAAUUUUACCACAUGAUAUUAUU
...((((.....))))...(((((.....)))))............((((((---...((((((((((((((((...)))))))).)))))))).......))))))... ( -21.90)
>DroSec_CAF1 88092 89 - 1
-----------------AGCUUAAAUUGAUUAACAUCUAAAA-AAUAAUAUU---UCCGAAGUUACUGCUUUACCACCUAGAGCAUGUAAUUUUACCACAUGAUAUUAUU
-----------------.........................-(((((((((---...(((((((((((((((.....))))))).)))))))).......))))))))) ( -15.90)
>DroSim_CAF1 85202 89 - 1
-----------------AGCUUAAAUUGAUUAACAUCUUAAA-AAUAAUAUU---UCCGAAGUUACUGCUUUACCACGUAGAGCAUGUAAUUUUACCACAUGAUAUUAUU
-----------------.........................-(((((((((---...((((((((((((((((...)))))))).)))))))).......))))))))) ( -17.80)
>DroEre_CAF1 89587 106 - 1
CGAGCCCUAAAAAGGCUAGCUUAAAUUGAUUAACAUCUUAAA-AAUAAUAUU---UUCGAAGCUACUUCUUUAUGAUAUAGAGCAUGUAAUUUUACCACAUGCAAUUAUA
..((((.......))))(((((......((((..........-..))))...---....)))))..................((((((.........))))))....... ( -14.52)
>DroYak_CAF1 90250 94 - 1
GGA---------------GCUUAAAUUGAUUAACAUCUAAAA-AAUAAUAUUAUAUCCGAAGUUACUACAUUACCAUGUGGAGCAUGUAAUUUUACCACAUGAAAUUAUA
(((---------------...(((((((.((..........)-).)))).)))..)))...(((.((((((....))))))))).((((((((((.....)))))))))) ( -11.70)
>consensus
_GA______________AGCUUAAAUUGAUUAACAUCUAAAA_AAUAAUAUU___UCCGAAGUUACUGCUUUACCACGUAGAGCAUGUAAUUUUACCACAUGAUAUUAUU
............................................((((((((......((((((((((((((((...)))))))).)))))))).......)))))))). (-10.94 = -12.26 +   1.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:29 2006