Locus 3364

Sequence ID 2R_DroMel_CAF1
Location 11,398,948 – 11,399,041
Length 93
Max. P 0.658036
window5498

overview

Window 8

Location 11,398,948 – 11,399,041
Length 93
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 71.26
Mean single sequence MFE -19.88
Consensus MFE -7.43
Energy contribution -8.52
Covariance contribution 1.08
Combinations/Pair 1.27
Mean z-score -1.91
Structure conservation index 0.37
SVM decision value 0.26
SVM RNA-class probability 0.658036
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11398948 93 - 20766785
------AGGAAAACAAAGCAUUGCGGGUAUAAAUCAUAAGCAGUCAUAUG--GGCACACCCC-CACUGCCUCGAACGCCCACGAAACGACCCGCACCAUAAG-------
------...............(((((((...........(((((.....(--((....))).-.))))).(((........)))....))))))).......------- ( -22.10)
>DroVir_CAF1 20088 96 - 1
GCAUCACACAAAACAAAGCAUUG------UAAAUCAUAAGCAGUCAUAUGAGGGCACGCCCCACGCUGU----GACGCCCACUCA--AGCCAACAACAAUAACA-ACAA
((...............((.(((------(.....)))))).((((((((.(((....)))))...)))----))))).......--.................-.... ( -15.00)
>DroGri_CAF1 18353 94 - 1
GAGAUAUCGAAAACAAAGCAUUG------UAAAUCAUAAGCAGUCAUAUG--GGCACGCCCC-CGCUGU----GCCGCCCACUCA--AACCAAUAACAACAACGAGCAG
.................((.(((------(....((((........))))--(((((((...-.)).))----))).........--..............)))))).. ( -15.00)
>DroSec_CAF1 11940 77 - 1
------AGGAAAACAAAGCAUUGCGGGUAUAAAUCAUAAGCAGUCAUAUG--GGCACACCCC-CACUGC---------CCACGAAACAACCCGCA--------------
------...............(((((((.....((....(((((.....(--((....))).-.)))))---------....))....)))))))-------------- ( -19.70)
>DroSim_CAF1 11569 93 - 1
------AGGAAAACAAAGCAUUGCGGGUAUAAAUCAUAAGCAGUCAUAUG--GGCACACCCC-CACUGCCUCGAACGCCCACGAAACAACCCGCACCACGAG-------
------...............(((((((...........(((((.....(--((....))).-.))))).(((........)))....))))))).......------- ( -22.00)
>DroYak_CAF1 12832 93 - 1
------AGGAAAACAAAGCAUUGCGGGCAUAAAUCAUAAGCAGUCAUAUG--GGCACACCCC-CACUGCCACGAACGCCCACGUAUCAGCCCGCACCACCAC-------
------...............(((((((...........(((((.....(--((....))).-.)))))...(((((....))).)).))))))).......------- ( -25.50)
>consensus
______AGGAAAACAAAGCAUUGCGGGUAUAAAUCAUAAGCAGUCAUAUG__GGCACACCCC_CACUGC____AACGCCCACGAAACAACCCGCACCAACAA_______
.....................(((((((...........(((((........((....))....))))).......(....)......))))))).............. ( -7.43 =  -8.52 +   1.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:43 2006