Locus 4154

Sequence ID 3L_DroMel_CAF1
Location 12,139,419 – 12,139,524
Length 105
Max. P 0.585040
window6450

overview

Window 0

Location 12,139,419 – 12,139,524
Length 105
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 85.55
Mean single sequence MFE -25.86
Consensus MFE -19.18
Energy contribution -19.62
Covariance contribution 0.44
Combinations/Pair 1.10
Mean z-score -1.62
Structure conservation index 0.74
SVM decision value 0.10
SVM RNA-class probability 0.585040
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12139419 105 + 23771897
CAAUGACAACGCAUUCACUCA--GAUGAACAAUGCCAUUGGCAUA---------UAUCAUUGCCGAGCGAAAUUACUUUGCUGCCAUUGCUGAUUUCAGUUCGGUCUAUUAUUUCU
((((((.....((((......--))))....(((((...))))).---------..))))))((((((((((((((..((....))..).))))))).))))))............ ( -23.70)
>DroSec_CAF1 16810 107 + 1
CAAUGACAACGCAUUCAGUCAGAGAUGAACAAUGCCAUUGGCAUA---------UAUCAUUGCCGAGCGAAAUUACUUUGCUGUCAUUGCUGAUUUCAGUUCGGUCUAUUCUUUCU
((((((((..(((((...(((....)))..)))))..((((((..---------......))))))(((((.....)))))))))))))((((.......))))............ ( -27.50)
>DroSim_CAF1 17044 107 + 1
CAAUGACAACGCAUUCAGUCAGAGAUGAACAAUGCCAUUGGCAUA---------UAUCAUUGCCGAGCGAAAUUACUUUGCUGCCAUUGCUGAUUUCAGUUCGGUCUAUUAUUCCU
...((((..........))))..(((((...(((((...))))).---------..)))))(((((((((((((((..((....))..).))))))).)))))))........... ( -25.70)
>DroEre_CAF1 14180 103 + 1
CAAUGACAUGGCAUUCAGUCC--GACGAACAAUGCCAUUGGCA-----------UAUCAUCGCUGAGCGAAAUUAUUUAGCCGCUUUUGCUGAUUUCAGUUCGGUCUAUUAUUUCU
........(((((((...((.--...))..)))))))(..((.-----------.......))..)..(((((....((((((.....((((....)))).))).)))..))))). ( -23.50)
>DroYak_CAF1 16985 114 + 1
CAAUGACAUUGCAUUCAGUGC--GACGGACAAUGCCAUCGGCAUAUAUAGUACAUAUCAUUGCUCAGCGAGAUUAUUUAGCUGCUUUCGCUGAUUUCAGUUCGGUCUAUUAUUUCU
....(((.((((((...))))--))(((((.(((((...)))))...................(((((((((.((......)).))))))))).....)))))))).......... ( -28.90)
>consensus
CAAUGACAACGCAUUCAGUCA__GAUGAACAAUGCCAUUGGCAUA_________UAUCAUUGCCGAGCGAAAUUACUUUGCUGCCAUUGCUGAUUUCAGUUCGGUCUAUUAUUUCU
((((((.......((((........))))..(((((...)))))............))))))(((((((((((((....((.......))))))))).))))))............ (-19.18 = -19.62 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:39 2006