Locus 241

Sequence ID X_DroMel_CAF1
Location 830,308 – 830,413
Length 105
Max. P 0.831940
window363

overview

Window 3

Location 830,308 – 830,413
Length 105
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 79.54
Mean single sequence MFE -27.65
Consensus MFE -14.92
Energy contribution -16.04
Covariance contribution 1.12
Combinations/Pair 1.05
Mean z-score -2.14
Structure conservation index 0.54
SVM decision value 0.72
SVM RNA-class probability 0.831940
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 830308 105 - 22224390
GAAUUGAAUGCAGGAAAAUUUAUGGCACUUCGCCAUAAGCC-AGCCAACGAACCCGAACC--------------GCGUUCAUCCCGACCCGGGAUUCUCCUGCCCCAGAAUGCCAGUCAU
....(((((((.((....((((((((.....))))))))..-..))..((....))....--------------)))))))....(((..((.(((((........))))).)).))).. ( -31.30)
>DroSec_CAF1 31224 96 - 1
GAAUUGAAUGCAGGUAAAUUUAUGGCACUUCGCCAUAAGCC-AGCCAACGAAACCGAACC--------------GCGUUCAUUCCGAC---------UCCUGCCCCAGACUGCCAGUCAU
((((.((((((.(((...((((((((.....))))))))..-.)))..((....))....--------------)))))))))).(((---------(...((........)).)))).. ( -27.10)
>DroSim_CAF1 27586 96 - 1
GAAUUGAAUGCAGGUAAAUUUAUGGCAAUUCGCCAUAAGCC-AGCCAACGAAACCGAACC--------------GCGUUCAUCCCGAC---------UCCUGCCCCAGACUGCCAGUCAU
....(((((((.(((...((((((((.....))))))))..-.)))..((....))....--------------)))))))....(((---------(...((........)).)))).. ( -26.00)
>DroEre_CAF1 30834 91 - 1
-----GAAUGCAGGGAAAUUUAUGGCCAUUUACCAUAAGCC-GGCCAACGAAACCCAACC--------------GCGUUCAUCCCAAC---------UCCUGCCCCAGAAUGGCCGUCAU
-----((((((.(((.......(((((..............-)))))......)))....--------------))))))........---------....(((.......)))...... ( -19.66)
>DroYak_CAF1 27849 106 - 1
-----GAAUGCAGGCAAAUUUAUGGCCAUUUACCAUAAGCCAGGCCAACGAAACCGAGCCAUCCCGCUCGUUGGGAGUUCAUCCCAAC---------UCCUGCCCCAGCAUCGCAGUCAU
-----((.(((.(((....((((((.......))))))))).(((..........((((......))))(((((((.....)))))))---------....)))........))).)).. ( -34.20)
>consensus
GAAUUGAAUGCAGGUAAAUUUAUGGCAAUUCGCCAUAAGCC_AGCCAACGAAACCGAACC______________GCGUUCAUCCCGAC_________UCCUGCCCCAGAAUGCCAGUCAU
.....((((((.(((...((((((((.....))))))))....)))..((....))..................))))))........................................ (-14.92 = -16.04 +   1.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:39:45 2006