Locus 2840

Sequence ID 2R_DroMel_CAF1
Location 9,835,008 – 9,835,127
Length 119
Max. P 0.500000
window4695

overview

Window 5

Location 9,835,008 – 9,835,127
Length 119
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 84.22
Mean single sequence MFE -37.37
Consensus MFE -25.56
Energy contribution -29.00
Covariance contribution 3.45
Combinations/Pair 1.12
Mean z-score -2.04
Structure conservation index 0.68
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9835008 119 + 20766785
CUUUCUAAUUGGAUCUGUGCCGGGUGACUCUUUUUUGCUCAGAUUUUU-UGUGGUAUCUUGGUAUCUGGGUAUCUGGGCAUCGCCUGGUCAGUGGGGCUUGGCUAAUUAAGGGUCUCGCA
...............((.(((((((((........(((((((((.(((-...(((((....))))).))).))))))))))))))))))))(((((((((..........))))))))). ( -39.50)
>DroSec_CAF1 72409 120 + 1
CUUUCUAAUUGGAUCUUUGCCGGGUGACUCUUUUUUGCUCAGAUUUUUUUUAGGUAUCUUGGUAUCUGGGCCUCUGGGCAUCGCCUGGCCAGUGGGGCUUGGCUAAUUAAGGGUCUCGCA
..................(((((((((........((((((((.....(((((((((....)))))))))..)))))))))))))))))..(((((((((..........))))))))). ( -41.60)
>DroSim_CAF1 74259 120 + 1
CUUUCUAAUUGGAUCUGUGCCGGGUGACUCUUUUUUGCUCAGAUUUUUUUGAGGUAUCUUGGUAUCUGGGCAUCUGGGCAUCGCCUGGUCAGUGGGGCUUGGCUAAUUAAGGGUCUCGCA
...............((.(((((((((..(((...(((((((((....(..((....))..).)))))))))...)))..)))))))))))(((((((((..........))))))))). ( -42.40)
>DroEre_CAF1 77391 110 + 1
CUUUCUAAUUGGAUCUGUGCCGGGUGACUCUUUUUUACUCAGAUUUU--UGUGGUAU--------CUUGGUAUCUGGACAUCGCCUGGCCAGUGGGGCUUGGCUAAUUAAGGGUCUCGCA
...............((.(((((((((.(((....((((.((((...--......))--------)).))))...)))..)))))))))))(((((((((..........))))))))). ( -34.10)
>DroYak_CAF1 74880 118 + 1
CUUUCUAAUUGGAUCUGUGCCGGGUGACUCUUUUUUGCUCAGAUUUU--UGUGGUAUCUUUGUAUCUUGGUAUCUGGGCAUCGCCUGGCCAGUGGGGCUUGGCUAAUUAAGGGUCUCGCA
...............((.(((((((((........(((((((((...--...(((((....))))).....))))))))))))))))))))(((((((((..........))))))))). ( -40.80)
>DroAna_CAF1 72212 108 + 1
CUUUCUAAUUGGGUCCGAAAU-GGUGACUUUUUUUCUUGCCAAUUUCU-UAAGACAUUU------CUUAGCCA----GUAGAGCUUGGCCAGUGGGGCUUGGCUAAUUAAGGGUCUCGCA
..........((..(((((((-((..(.........)..)).))))).-..........------.(((((((----....(((((.(....).))))))))))))....))..)).... ( -25.80)
>consensus
CUUUCUAAUUGGAUCUGUGCCGGGUGACUCUUUUUUGCUCAGAUUUUU_UGAGGUAUCUUGGUAUCUGGGCAUCUGGGCAUCGCCUGGCCAGUGGGGCUUGGCUAAUUAAGGGUCUCGCA
..................(((((((((........(((((((((........(((((....))))).....))))))))))))))))))..(((((((((..........))))))))). (-25.56 = -29.00 +   3.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:40:48 2006