Locus 5961

Sequence ID 2R_DroMel_CAF1
Location 18,779,703 – 18,779,823
Length 120
Max. P 0.956893
window9562

overview

Window 2

Location 18,779,703 – 18,779,823
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 78.94
Mean single sequence MFE -40.52
Consensus MFE -22.68
Energy contribution -25.10
Covariance contribution 2.42
Combinations/Pair 1.14
Mean z-score -2.67
Structure conservation index 0.56
SVM decision value 1.47
SVM RNA-class probability 0.956893
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18779703 120 - 20766785
CAUCAUCGAAUACCCAAGUGCCUUCACUCUGUUGCAGGAGGGUCGCCACUUGAUCAAGUGCUUCCAAAAGGAAAAUGCUGACUCCUCCAGAACCUCCCAAUGGGAAAUAUUCGAAGAUGU
((((.(((((((((((((((....))))........(((((((((((((((....))))).((((....))))...)).))).)))))............))))...))))))).)))). ( -39.60)
>DroSec_CAF1 142438 120 - 1
CAUCAUCGAAUACCCAAGUGCAUUUACUCUGUUGCAGGAGGGUCGCCACUUGAUCAAGUGCUUCCAGAAGGAUGAUCCCGAAUCCUCCAGCACCUCCCAAUGGGAAAUAUUCGAAGAUGU
((((.(((((((((((..((((..........))))((..(((.(((((((....)))))......(.(((((........))))).).)))))..))..))))...))))))).)))). ( -38.80)
>DroSim_CAF1 144817 120 - 1
CAUCAUCGAAUACCCAAGUGCAUUCACUCUGUUGCAGGAGGGUCGCCACUUGAUCAAGUGCUUCCAGAAGGAUGAUCCCGAAUCCUCCAGCACCUCCCAAUGGGAAAUAUUCGAAGAUGU
((((.(((((((((((((((....)))).(((((.(((((((((((.((((....)))))).(((....))).)))))....)))).)))))........))))...))))))).)))). ( -39.40)
>DroEre_CAF1 143761 120 - 1
CAUCAUCGAGUACCCCAGUGCGUUCACUCUAUUGCAGGAGGGUCGCCACUUGAUCAAGUGCUUCCAGAAGGAAAUCCCGGAAUCCUCGGGCACCUUGCAUUGGGAAAUAUUCGAAGAUGU
((((.(((((((.((((((((.....((((......))))((..((.((((....))))))..))..((((....(((((.....)))))..))))))))))))...))))))).)))). ( -45.00)
>DroYak_CAF1 144833 120 - 1
CAUCAUCGAGUACCCCAGUGCCUUCACACUAUUGCAGGAGGGUCGCCACUUGAUCAAGUGCUUCCAGAAGGAAAAUCGGGAUUCCACGGGCGCUAUGCAAUGGGAAAUAUUCGAAGAUGU
((((.(((((((.(((((((......))))((((((....((.((((....((((..(...((((....))))...)..)))).....)))))).)))))))))...))))))).)))). ( -40.30)
>DroAna_CAF1 141491 111 - 1
CCUGAUUGAGUUCCCCAGCGCCUUCACCCUCCUCAACGGAGGCCGCAAGCUCCUCAAGUGCUACCAGCGGCACGUCAAUGA-----CGAGAGUGU----CUGGGAGCUCUUCGAAGACGU
..(((..((((((((..((((.(((...((((.....))))(((((.(((.(.....).)))....)))))..(((...))-----)))).))))----..)))))))).)))....... ( -40.00)
>consensus
CAUCAUCGAAUACCCAAGUGCCUUCACUCUGUUGCAGGAGGGUCGCCACUUGAUCAAGUGCUUCCAGAAGGAAAAUCCCGAAUCCUCCAGCACCUCCCAAUGGGAAAUAUUCGAAGAUGU
((((.((((((((((..(((....))).....(((.((((((((((.((((....)))))).(((....))).......)).)))))).))).........)))...))))))).)))). (-22.68 = -25.10 +   2.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:06 2006