Locus 6428

Sequence ID 3R_DroMel_CAF1
Location 16,829,493 – 16,829,594
Length 101
Max. P 0.786308
window10474

overview

Window 4

Location 16,829,493 – 16,829,594
Length 101
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 77.73
Mean single sequence MFE -25.57
Consensus MFE -13.94
Energy contribution -15.50
Covariance contribution 1.56
Combinations/Pair 1.04
Mean z-score -2.17
Structure conservation index 0.54
SVM decision value 0.57
SVM RNA-class probability 0.786308
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16829493 101 + 27905053
UUUUUUUGUCCUGAUUAAAGCUAGCUUUACGGGGU-UUCUGCUUAACUAAAAGGUGAGUC---UGUCCCUAAACUUCUAGUUAAGUGGAAAAGUUUUA---------------CUAUGCU
........(((((..(((((....))))))))))(-(((..((((((((.(((...((..---.....))...))).))))))))..)))).......---------------....... ( -25.20)
>DroSec_CAF1 13814 92 + 1
U---------CUGAUUAAAGCUAGUUUUACGGGUC-UUCUGCUUAACUAAAAGGUGAGUC---UGUGCUUAAACUUCUAGUUAAGUGGAAAAGUUUUA---------------UUAUGCU
.---------........(((((((...((.....-(((..((((((((.(((.(((((.---...)))))..))).))))))))..)))..))...)---------------))).))) ( -22.40)
>DroSim_CAF1 11843 92 + 1
U---------CUGAUUAAAGCUAGUUUUACGGGUU-UUCUGCUUAACUAAAAGGUGAGUC---UCUGCUUAAACUUCUAGUUAAGUGGAAAAGUUUUA---------------UUAUGCU
.---------........(((..((..((..(.((-(((..((((((((.(((.(((((.---...)))))..))).))))))))..))))).)..))---------------..))))) ( -24.00)
>DroEre_CAF1 17568 113 + 1
-UUU------AUGGUUAAAGCUAGUUUUACGGCUUGUUCUGCUUCAAUAAAAGGUGAGUCCGCUGUGCCUAAACUUGUAGUUGAGUGGCAAAGUUUUCACUAGUAAUGCUAGUCCAUGCU
-..(------((((.....((((((.(((((((.......))).........((((((...(((.((((..(((.....)))....)))).))).)))))).)))).))))))))))).. ( -30.70)
>consensus
U_________CUGAUUAAAGCUAGUUUUACGGGUU_UUCUGCUUAACUAAAAGGUGAGUC___UGUGCCUAAACUUCUAGUUAAGUGGAAAAGUUUUA_______________CUAUGCU
...............(((((((.(.....)......(((..((((((((.(((.(((((.......)))))..))).))))))))..))).)))))))...................... (-13.94 = -15.50 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:21:14 2006