Locus 3504

Sequence ID X_DroMel_CAF1
Location 9,401,793 – 9,401,909
Length 116
Max. P 0.974657
window5737

overview

Window 7

Location 9,401,793 – 9,401,909
Length 116
Sequences 3
Columns 117
Reading direction reverse
Mean pairwise identity 67.18
Mean single sequence MFE -22.27
Consensus MFE -12.31
Energy contribution -13.43
Covariance contribution 1.12
Combinations/Pair 1.18
Mean z-score -1.83
Structure conservation index 0.55
SVM decision value 1.73
SVM RNA-class probability 0.974657
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9401793 116 - 22224390
GAAAAUUUCAAUAGAAGCUUAUUUUUAAUAAUAAGUUUGCAA-AAAUAAUUAUUUUUGAGCAAAAAUGCAGAAAUAUAACGUUUGUGCGAUAAAUAUCGUUCUGGUGGCGAUCGCCA
....(((((.....(((((((((......))))))))).(((-((((....))))))).(((....))).)))))........((.(((((...((((.....))))...))))))) ( -22.90)
>DroEre_CAF1 1764 92 - 1
-------------------------UAAUAACAAGUUGCCAUAAAGAGGAUUUUUUUUGGAAAAAAUUUAGAAAUAUAACCUUUGUGCGAUAUAUAUCGUUCUGAAGGCGAUCGCCA
-------------------------.........((((((....(((((....((((((((.....)))))))).....)))))(.(((((....))))).)....))))))..... ( -17.50)
>DroYak_CAF1 1452 92 - 1
-------------------------UUAUAACGAUUUGGCAUAAAAAGGUUCUUUUUGGGCAAAAUAUCAGAAAUAGAACCUUUUUGCGAUAUCUAUCGUUCUGGAGGCGAUCGCCA
-------------------------(((.((((((.(.(((..((((((((((((((((........))))))..))))))))))))).).....)))))).))).(((....))). ( -26.40)
>consensus
_________________________UAAUAACAAGUUGGCAUAAAAAGGUUAUUUUUGGGCAAAAAUUCAGAAAUAUAACCUUUGUGCGAUAUAUAUCGUUCUGGAGGCGAUCGCCA
............................................(((((((((.(((..((......))..))).)))))))))..(((((....)))))......(((....))). (-12.31 = -13.43 +   1.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:01:03 2006