Locus 2558

Sequence ID X_DroMel_CAF1
Location 6,865,198 – 6,865,333
Length 135
Max. P 0.991274
window4177 window4178

overview

Window 7

Location 6,865,198 – 6,865,293
Length 95
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 75.00
Mean single sequence MFE -31.73
Consensus MFE -19.41
Energy contribution -19.42
Covariance contribution 0.01
Combinations/Pair 1.12
Mean z-score -1.60
Structure conservation index 0.61
SVM decision value 0.29
SVM RNA-class probability 0.672174
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6865198 95 - 22224390
AGAUCCA-------------AAAUUUGGGCGUCAG----------GACAUGCAAAUCUCGGUCAAUUGUGUGUCAAAGAUUGAUUGACAUGGCCGUGGAG--GCUGCGUUAAAUUUUUAG
......(-------------(((((((((((((((----------(((((((((...........))))))))).........)))))..((((.....)--))))).)))))))))... ( -22.60)
>DroEre_CAF1 5948 92 - 1
AGACCCACU---------------UUGGGGGUCAG----------GACAUGCAAAUCUCGGUCGAUUGUGUGUCAAAGAUUGAUUGACAUGGCCGUGGAG--GCUGCGU-ACAAAUUUAG
.(((((.(.---------------...))))))..----------(((((((((.((......))))))))))).........(((((..((((.....)--)))..))-.)))...... ( -28.50)
>DroYak_CAF1 5862 119 - 1
AGAUCCACUUGGGAGAUCCCAUUUUUGGGGGUCAGCAAACAGGCUGACAUGCAAAUCUCGGCCAAUUGUGUGUCAAAGAUUGAUUGACAUGGCCGUGGAGUGGAGGCCU-ACAAAUUCAG
...(((((....(((((((((....)))))((((((......)))))).......))))(((((..(((..((((.....))))..)))))))))))))((((....))-))........ ( -44.10)
>consensus
AGAUCCACU___________A__UUUGGGGGUCAG__________GACAUGCAAAUCUCGGUCAAUUGUGUGUCAAAGAUUGAUUGACAUGGCCGUGGAG__GCUGCGU_ACAAAUUUAG
.(((((......................))))).................(((..(((((((((..(((..((((.....))))..))))))))).))).....)))............. (-19.41 = -19.42 +   0.01)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 6,865,236 – 6,865,333
Length 97
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 77.29
Mean single sequence MFE -33.40
Consensus MFE -22.18
Energy contribution -23.10
Covariance contribution 0.92
Combinations/Pair 1.06
Mean z-score -2.36
Structure conservation index 0.66
SVM decision value 2.26
SVM RNA-class probability 0.991274
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6865236 97 - 22224390
AUGUGAAUUAAUUUCAGGCACACGACCAUAUCCAUUUGGGAGAUCCA-------------AAAUUUGGGCGUCAG----------GACAUGCAAAUCUCGGUCAAUUGUGUGUCAAAGAU
...((((.....))))(((((((((((....((....))((((((((-------------.....)))((((...----------...))))..)))))))))....)))))))...... ( -27.60)
>DroEre_CAF1 5985 95 - 1
AUGCGAAUUAAUUUCGGGCACACGACCACAUCCACUUGGCAGACCCACU---------------UUGGGGGUCAG----------GACAUGCAAAUCUCGGUCGAUUGUGUGUCAAAGAU
...((((.....))))(((((((((((.......((((((...(((...---------------..))).)))))----------)..((....))...))))....)))))))...... ( -28.20)
>DroYak_CAF1 5901 120 - 1
AUGUGAAUUAAUUUCAGGCACACGACCAGCUCCACUUGGGAGAUCCACUUGGGAGAUCCCAUUUUUGGGGGUCAGCAAACAGGCUGACAUGCAAAUCUCGGCCAAUUGUGUGUCAAAGAU
...((((.....))))(((((((((((...((((..(((((..(((.....)))..)))))....))))))))........((((((.((....)).))))))....)))))))...... ( -44.40)
>consensus
AUGUGAAUUAAUUUCAGGCACACGACCACAUCCACUUGGGAGAUCCACU___________A__UUUGGGGGUCAG__________GACAUGCAAAUCUCGGUCAAUUGUGUGUCAAAGAU
...((((.....))))(((((((((((....((....))((((((((..((((....))))....)))).(((............))).......))))))))....)))))))...... (-22.18 = -23.10 +   0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:37:40 2006