Locus 6358

Sequence ID 3R_DroMel_CAF1
Location 16,661,185 – 16,661,303
Length 118
Max. P 0.903560
window10369

overview

Window 9

Location 16,661,185 – 16,661,303
Length 118
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 84.21
Mean single sequence MFE -27.42
Consensus MFE -19.36
Energy contribution -19.44
Covariance contribution 0.08
Combinations/Pair 1.15
Mean z-score -2.29
Structure conservation index 0.71
SVM decision value 1.03
SVM RNA-class probability 0.903560
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16661185 118 + 27905053
-UUUUUCAACGUUUCUGUCAUACCAAUUGGUAUUGGUAACUGUAUCUUUUCUGUGUGUUUAGUAGGUCAUGCAGUGUCAUCACAUUGUUUUGAAUGCAAACUUACAGCAAUUCGUAUUU
-.......(((.........(((((((....)))))))............(((((.((((.(((..(((.(((((((....)))))))..))).))))))).))))).....))).... ( -25.80)
>DroSec_CAF1 4456 117 + 1
-UU-UUCAACGUCUUUGCCAUACCAAUUGGUAUUGGUAAUAUUAGCUUUACUGUAUGUUAAGUAGGUCAUGCAGUGUCAUCACAUUGUUUUGAAUGCAAAUUUACAGCAGUUCGUAUUU
-..-..........((((((((((....)))).))))))(((.((((...(((((.(((..(((..(((.(((((((....)))))))..))).))).))).))))).)))).)))... ( -27.50)
>DroSim_CAF1 4440 118 + 1
-UUUUUCAACGUCUCUGCCAUACCAAUUGGUAUUGGUAACUUUAUCUUUUCUGUAUGUUAUGUAGGUCAUGCAGUGUCAUCACAUUGUUUUGAAUGCAAAUUUACAGCAGUUCGUAUUU
-.......(((...((((..(((((((....))))))).............((((.(((.((((..(((.(((((((....)))))))..))).))))))).))))))))..))).... ( -29.50)
>DroEre_CAF1 3748 119 + 1
AUUUUUCAACGCUUCUGCAAUACCAAUUGGUAUUGGUAACAUUAUCUUCUCUGUAUGUUCAGUAGGGCAUGCAGUGUCAUCACAUUGUUUUGAAUACAAAUUUACAGCGGGUCGCAUUU
..........((.(((((((((((....)))))).((((.........(.((((((((((....)))))))))).)........((((.......))))..)))).)))))..)).... ( -28.80)
>DroYak_CAF1 4063 102 + 1
-UUUUUUAACGUUUCUGUAAUACCAAUUGGUAUUGGUA---------------UAUGAU-AGUAGGGCAUGCUGUGUCAUCACAUUGUUUUGAAUACAAAUUUACAGCAUGUCGUCUCU
-.............((((.((((((((....)))))))---------------)...))-))...(((((((((((........((((.......))))...)))))))))))...... ( -25.50)
>consensus
_UUUUUCAACGUUUCUGCCAUACCAAUUGGUAUUGGUAACAUUAUCUUUUCUGUAUGUUAAGUAGGUCAUGCAGUGUCAUCACAUUGUUUUGAAUGCAAAUUUACAGCAGUUCGUAUUU
........(((...((((..(((((((....))))))).......................(((...((.(((((((....)))))))..))..))).........))))..))).... (-19.36 = -19.44 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:19:33 2006