Locus 5902

Sequence ID X_DroMel_CAF1
Location 15,221,392 – 15,221,494
Length 102
Max. P 0.998551
window9581 window9582

overview

Window 1

Location 15,221,392 – 15,221,494
Length 102
Sequences 4
Columns 102
Reading direction forward
Mean pairwise identity 78.59
Mean single sequence MFE -20.12
Consensus MFE -12.95
Energy contribution -15.20
Covariance contribution 2.25
Combinations/Pair 1.12
Mean z-score -2.09
Structure conservation index 0.64
SVM decision value 1.11
SVM RNA-class probability 0.917505
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15221392 102 + 22224390
UUAUUAAAAUGUACAUCAAUUUGUAUGUGUUCUUACCACGAAAGGUGCGAACACUCAUUCAAGAUAUUCAAACAGAUAUAGUAUCUAAUAUUUAAGUUUGAC
..........(((((......)))))((((((.((((......)))).)))))).............((((((((((((........))))))..)))))). ( -21.30)
>DroSim_CAF1 41588 102 + 1
UUGUUAAAAUGUACAUAAAUUUGUAUGCGUUCGUACCACGAAAGGUGAGAACACUCAUUCAAGAUACUCAAAUAGAUAUAGUAUCUAAUAUUUAAGUUUGAC
..((((((..(((((......)))))..((((.((((......)))).)))).........(((((((...........)))))))..........)))))) ( -19.00)
>DroEre_CAF1 43295 101 + 1
UCGUUAAAAUUUUCAUAAAUUGUAAUGCGUUCCUACCAUUUAAGGUAGAAAC-CUUUUUCAAAAUACUUGAAUUGAUAUAGUACCUAAUCCUAAAGGUUGAU
.(((((.(((((....))))).))))).....(((((......))))).(((-(((((((((.....)))))..(((.(((...))))))..)))))))... ( -15.80)
>DroYak_CAF1 41751 101 + 1
UCGUUAAAAUUUGCAUAAAUUUAAAUCUGUUCCUACCACAGAAGGUAGGAACACUUUUUCAAGAUACUUGAAUAGAUGUAAUAUCUAAUACUAA-CUUUGAC
..((((....((((((...........((((((((((......))))))))))((..((((((...)))))).))))))))....)))).....-....... ( -24.40)
>consensus
UCGUUAAAAUGUACAUAAAUUUGAAUGCGUUCCUACCACGAAAGGUAGGAACACUCAUUCAAGAUACUCAAAUAGAUAUAGUAUCUAAUACUAAAGUUUGAC
..((((((..................(((((((((((......))))))))))).......(((((((...........)))))))..........)))))) (-12.95 = -15.20 +   2.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 15,221,392 – 15,221,494
Length 102
Sequences 4
Columns 102
Reading direction reverse
Mean pairwise identity 78.59
Mean single sequence MFE -23.57
Consensus MFE -15.69
Energy contribution -16.62
Covariance contribution 0.94
Combinations/Pair 1.28
Mean z-score -2.92
Structure conservation index 0.67
SVM decision value 3.14
SVM RNA-class probability 0.998551
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15221392 102 - 22224390
GUCAAACUUAAAUAUUAGAUACUAUAUCUGUUUGAAUAUCUUGAAUGAGUGUUCGCACCUUUCGUGGUAAGAACACAUACAAAUUGAUGUACAUUUUAAUAA
............(((((((...((((((.(((((....((......))((((((..(((......)))..))))))...))))).))))))...))))))). ( -25.20)
>DroSim_CAF1 41588 102 - 1
GUCAAACUUAAAUAUUAGAUACUAUAUCUAUUUGAGUAUCUUGAAUGAGUGUUCUCACCUUUCGUGGUACGAACGCAUACAAAUUUAUGUACAUUUUAACAA
.....(((((((...((((((...))))))))))))).....(((((.((((((..(((......)))..)))))).((((......)))))))))...... ( -21.00)
>DroEre_CAF1 43295 101 - 1
AUCAACCUUUAGGAUUAGGUACUAUAUCAAUUCAAGUAUUUUGAAAAAG-GUUUCUACCUUAAAUGGUAGGAACGCAUUACAAUUUAUGAAAAUUUUAACGA
....((((........))))......(((.((((((...))))))....-(((((((((......))))))))).............)))............ ( -18.80)
>DroYak_CAF1 41751 101 - 1
GUCAAAG-UUAGUAUUAGAUAUUACAUCUAUUCAAGUAUCUUGAAAAAGUGUUCCUACCUUCUGUGGUAGGAACAGAUUUAAAUUUAUGCAAAUUUUAACGA
((.((((-((.((((.((((.(((.((((.((((((...)))))).....(((((((((......))))))))))))).))))))))))).)))))).)).. ( -29.30)
>consensus
GUCAAACUUAAAUAUUAGAUACUAUAUCUAUUCAAGUAUCUUGAAAAAGUGUUCCCACCUUUCGUGGUAGGAACACAUACAAAUUUAUGUAAAUUUUAACAA
................(((((((...........))))))).......(((((((((((......))))))))))).......................... (-15.69 = -16.62 +   0.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:13 2006