Locus 1970

Sequence ID X_DroMel_CAF1
Location 5,387,414 – 5,387,526
Length 112
Max. P 0.775345
window3208

overview

Window 8

Location 5,387,414 – 5,387,526
Length 112
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 94.91
Mean single sequence MFE -28.80
Consensus MFE -28.45
Energy contribution -28.45
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.53
Structure conservation index 0.99
SVM decision value 0.54
SVM RNA-class probability 0.775345
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5387414 112 + 22224390
--------UACCAGGCAUACGCACACACGAUGUCAGGGUUGACAUGAGCUCGAAGGUAACACAAUACUCCAGGCAGCAACUACUUAAAAUGCAAUUAUAUGCAUUAUUAUUCGGCUGCUG
--------((((.(((((.((......))))))).(((((......)))))...)))).............((((((.......(((((((((......)))))).)))....)))))). ( -28.50)
>DroSec_CAF1 68608 116 + 1
----AGAAUACCGGGCAUACGCAAACACGAUGUCUGGGUUGACAUGAGCUCGAAGGUAACACAAUACUCCAGGCAGCAACUACUUAAAAUGCAAUUAUAUGCAUUAUUAUUCGGCUGCUG
----....((((((((((.((......))))))))(((((......)))))...)))).............((((((.......(((((((((......)))))).)))....)))))). ( -29.30)
>DroSim_CAF1 56325 115 + 1
----A-AAUACCGGGCAUACGCACACACGAUGUCAGGGUUGACAUGAGCUCGAAGGUAACACAAUACUCCAGGCAGCAACUACUUAAAAUGCAAUUAUAUGCAUUAUUAUUCGGCUGCUG
----.-..((((.(((((.((......))))))).(((((......)))))...)))).............((((((.......(((((((((......)))))).)))....)))))). ( -28.60)
>DroYak_CAF1 61642 120 + 1
AUACAAAAUACCAGGCAUACGCACACACGAUGUCAGGGUUGACAUGAGCUCGAAGGUAACACAAUACUCCAGGCAGCAACUACUUAAAAUGCAAUUAUAUGCAUUAUUAUUCGGCUGCUG
........((((.(((((.((......))))))).(((((......)))))...)))).............((((((.......(((((((((......)))))).)))....)))))). ( -28.80)
>consensus
____A_AAUACCAGGCAUACGCACACACGAUGUCAGGGUUGACAUGAGCUCGAAGGUAACACAAUACUCCAGGCAGCAACUACUUAAAAUGCAAUUAUAUGCAUUAUUAUUCGGCUGCUG
........((((.(((((.((......))))))).(((((......)))))...)))).............((((((.......(((((((((......)))))).)))....)))))). (-28.45 = -28.45 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:10 2006