Locus 2652

Sequence ID 3R_DroMel_CAF1
Location 7,135,434 – 7,135,537
Length 103
Max. P 0.954418
window4310

overview

Window 0

Location 7,135,434 – 7,135,537
Length 103
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 77.12
Mean single sequence MFE -29.95
Consensus MFE -23.26
Energy contribution -22.14
Covariance contribution -1.12
Combinations/Pair 1.31
Mean z-score -1.82
Structure conservation index 0.78
SVM decision value 1.44
SVM RNA-class probability 0.954418
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7135434 103 - 27905053
CUG--------CUUAUUCUUUUAAUUUAAGUAAAU------UGUAUUGUCAUUUAGGCCCUUAGUUUUCUUGCAGUGUUCGAACUGCGAGGACCACGAGUUUUUAGAGUGGGCAAAG
.((--------((((((((...(((((.....(((------((....(((.....)))...)))))((((((((((......))))))))))....)))))...))))))))))... ( -28.70)
>DroSec_CAF1 68182 103 - 1
CUG--------CUUAUUCUUUUAAUUUAAGCGAAG------UGUAUUGUCAUUAAUGCCCUUAGUUUUCUUACAGUGUUCGAACUGCGGGGACUACGAGUUUUUAGAGUGGGCAAAC
.((--------((((((((...(((((.(((.(((------.((((((....)))))).))).)))((((..((((......))))..))))....)))))...))))))))))... ( -28.90)
>DroSim_CAF1 75799 109 - 1
CUG--------CUUAUUCUUUUAAUUUAAGUGAUGAUGUGAUGUAUUUUUAUGAAUGCCCUUAGUUUUCUUACAGUGUUUGAACUGCGAGGACCACGAGUUUUUAGAGUGGGCAAAG
.((--------((((((((...(((((..(((..........((((((....))))))........((((..((((......))))..)))).))))))))...))))))))))... ( -27.20)
>DroEre_CAF1 69758 111 - 1
CUGAAUAUUCCUCUGUUCUUCUGAUUUAAGAAAAG------UGUAUUGGCCCUAGUGCUCUCAGUUUUCUUGCAGUGUACGAGCUGCGAGGACAGCGAAUUUUUAGAGCGGGCGAAG
.......(((.((((((((...(((((......((------.((((((....)))))).))..(((((((((((((......)))))))))).))))))))...)))))))).))). ( -33.40)
>DroYak_CAF1 71693 108 - 1
CCGAAUAUGUCUCUGUUCUUCUGAUUUAAG---AG------UGUAUUGCCGCUUAAGCCCUUAGUUUUCUUGCAGUGUACGAGCUGCGAGGACAACGAAUUUUUAGAGCGGGCGAAG
.((((((((.((((..((....))....))---))------)))))).((((((.........(((((((((((((......)))))))))).))).........)))))).))... ( -31.57)
>consensus
CUG________CUUAUUCUUUUAAUUUAAGUAAAG______UGUAUUGUCAUUAAUGCCCUUAGUUUUCUUGCAGUGUUCGAACUGCGAGGACAACGAGUUUUUAGAGUGGGCAAAG
...........((((((((...(((((...............((((((....))))))........((((((((((......))))))))))....)))))...))))))))..... (-23.26 = -22.14 +  -1.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:25 2006