Locus 1001

Sequence ID 3R_DroMel_CAF1
Location 3,191,133 – 3,191,252
Length 119
Max. P 0.999940
window1621

overview

Window 1

Location 3,191,133 – 3,191,252
Length 119
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 95.97
Mean single sequence MFE -46.10
Consensus MFE -43.38
Energy contribution -43.54
Covariance contribution 0.16
Combinations/Pair 1.04
Mean z-score -2.84
Structure conservation index 0.94
SVM decision value 4.70
SVM RNA-class probability 0.999940
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3191133 119 + 27905053
AGCAGGAACCGCAAGGACCACAGGGUCCGCAAGGUCCGCAAGGACCGCCGCACGGGCUACAGGGUCCGCAGAAUCCAAGGGGUCCGCAACACAUGAUGGUUCCGUAAAGUUCUAAGAAA
....(((((((((.(((((....((((((...(((((....)))))......))))))....)))))((.((..(....)..)).))......)).)))))))................ ( -49.10)
>DroSec_CAF1 10696 119 + 1
AGCAGGAACCGCAAGGACCACAGGGUCCACAAGGUCCGCAAGGGCCGCCGCACGGGCUACAGGGUCCACAGAAUCCAAGGGGUCCGCAACACAUGAUGGUUCCGUAAAGUUCUAAGAAG
....((((((((..(((((....)))))....(((((....)))))...)).((((((...((((.......))))....))))))...........))))))................ ( -45.80)
>DroSim_CAF1 17371 119 + 1
AGCAGGAACCGCAAGGACCACAGGGUCCACAAGGUCCGCAAGGGCCGCCGCACGGGCUACAGGGUCCACAGAAUCCAAGGGGUCCGCAACACAUGAUGGUUCCGUAAAGUUCUAAGAAG
....((((((((..(((((....)))))....(((((....)))))...)).((((((...((((.......))))....))))))...........))))))................ ( -45.80)
>DroEre_CAF1 12416 119 + 1
AGCAGGAACCGCAAGGACCACAGGGUCCACAAGGUCCGCAAGGACCGCCGCAAGGGCUACAGGGUCCGCAGAAUCCAAGGGGUCCGCAACACAUGAUGGUUCCGUAAUGUUCUAAGAAG
....(((((((((.(((((....(((((....(((((....))))).......)))))....)))))((.((..(....)..)).))......)).)))))))................ ( -46.50)
>DroYak_CAF1 16056 119 + 1
AGCAGGAACCGCAAGGACCACAGGGUCCACAAGGUCCGCAAGGACCGCCGCAAGGGCUACAGGGUCCGCAGAAUCCAAGGGGUCCGCAACACAUGAUGGUUAAUUAAUGUUCUAAAAAG
....((((((....)(((((((((..((....(((((....))))).((....))......))..))((.((..(....)..)).))......)).))))).......)))))...... ( -43.30)
>consensus
AGCAGGAACCGCAAGGACCACAGGGUCCACAAGGUCCGCAAGGACCGCCGCACGGGCUACAGGGUCCGCAGAAUCCAAGGGGUCCGCAACACAUGAUGGUUCCGUAAAGUUCUAAGAAG
....(((((((((.(((((...((..((....(((((....)))))(((.....)))....))..)).......(....))))))(.....).)).)))))))................ (-43.38 = -43.54 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:58:03 2006