Locus 4466

Sequence ID 3R_DroMel_CAF1
Location 11,814,362 – 11,814,482
Length 120
Max. P 0.998004
window7303

overview

Window 3

Location 11,814,362 – 11,814,482
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.16
Mean single sequence MFE -33.91
Consensus MFE -28.42
Energy contribution -28.22
Covariance contribution -0.20
Combinations/Pair 1.21
Mean z-score -2.65
Structure conservation index 0.84
SVM decision value 2.98
SVM RNA-class probability 0.998004
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11814362 120 + 27905053
UUCCCGUGUCCUGAUUCAUUUGCCAUUCCUUUUUAUGAAUGGAUAUGCUCUAUUUUUGGGAUUGCUUCGGAUCGGUUUUUAAUGGGGGAAUUCCAUUUAUCUGAUUGGUAGUUUUCCGUA
....(((((((..((((((...............)))))))))))))...........(((..(((.(.((((((.....((((((.....))))))...)))))).).)))..)))... ( -29.86)
>DroSec_CAF1 18721 120 + 1
UUCCCGUGUGCUGAUUCAUUUGCCAUUCCUUUUCAUGAAUGGAUGUGCUCUAUUUUUGGGAUGGCUUCGGAUCGGUUUUUAAUGGGGGAAUUCCAUUUAUCUGAUUGGUAGAUGUCCGUA
..(((((..((((((((....((((((((.......(((((((.....)))))))..))))))))...)))))))).....)))))(((....((((((((.....)))))))))))... ( -42.10)
>DroSim_CAF1 19092 120 + 1
UUCCCGUGUGCUGAUUCAUUUGCCAUUCCUUUUUAUGAAUGGAUGUGCUCUAUUUUUGGGAUUGCCUCGGAUCGGUUUUUAAUGGGGGAAUUCCAUUUAUCUGAUUGGUAGAUGUCCGUA
..(((((..((((((((....((.(((((.......(((((((.....)))))))..))))).))...)))))))).....)))))(((....((((((((.....)))))))))))... ( -34.90)
>DroEre_CAF1 19028 118 + 1
UUCCCGUGUGCUGAUUCAUUUGCCAUUCCUU-UCAUUAAUGGAUGUGCUCAUUUUUCUGGUAUGCUUAGGAUCGGUUUUUAAUGGGGGAAUUCCAU-UAUCUGAUUGGUAAAUGUCCGUA
........(((.((..(((((((((.((...-....(((((((..(.((((((...(((((.........))))).....)))))).)...)))))-))...)).))))))))))).))) ( -28.40)
>DroYak_CAF1 19042 119 + 1
UUCCCGUGUGCUGAUUCAUUUGCCGAUCCUU-UUAUGAAUGGAUGUGCUCUAUUUUCUGAAAUGCUCAGGAUCGGUUUUUAAUGGGGGAAUUCCGUUUAUCUGAUUGGUAAAUGUCCGUA
........(((.((..((((((((((((...-..(((((((((..(.(((((((((((((.....)))))).........))))))).)..)))))))))..)))))))))))))).))) ( -34.30)
>consensus
UUCCCGUGUGCUGAUUCAUUUGCCAUUCCUUUUUAUGAAUGGAUGUGCUCUAUUUUUGGGAUUGCUUCGGAUCGGUUUUUAAUGGGGGAAUUCCAUUUAUCUGAUUGGUAGAUGUCCGUA
..(((((..((((((((.....((((((........))))))...............(((.....))))))))))).....)))))(((....((((((((.....)))))))))))... (-28.42 = -28.22 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:03 2006