Locus 3194

Sequence ID 2R_DroMel_CAF1
Location 10,929,669 – 10,929,768
Length 99
Max. P 0.515848
window5252

overview

Window 2

Location 10,929,669 – 10,929,768
Length 99
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 75.56
Mean single sequence MFE -29.02
Consensus MFE -13.30
Energy contribution -15.56
Covariance contribution 2.26
Combinations/Pair 1.23
Mean z-score -1.84
Structure conservation index 0.46
SVM decision value -0.03
SVM RNA-class probability 0.515848
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10929669 99 + 20766785
CGUGCAAACCUGG----CCAGAAAUUUGCCCCCGGUCAAACUUUGUUUACCAACUUAGAG----------AGAAGGAGUGCCAAAAGUUUGACCCGAAUUCUGGCCCUCGAGU
...........((----((((((.((((.....(((((((((((...(((...(((....----------..)))..)))...)))))))))))))))))))))))....... ( -31.00)
>DroSec_CAF1 42482 99 + 1
CGUGCAAACCUGG----CCAGAAAUUUGCCCACGGUCAAACUUUGUUUACCAACUUAGAG----------AGAAGGAGUGGCCAAAGUUUGACCCAAAUUCUGGCCCUCGAGU
...........((----((((((.((((.....((((((((((((..(((...(((....----------..)))..)))..))))))))))))))))))))))))....... ( -35.20)
>DroSim_CAF1 44432 99 + 1
CGUGCAAACCUGG----CGAGAAAUUUGCCCACGGUCAAACUUUGUUUACCAACUUAGAG----------AGAAGGAGUGGCCAAAGUUUGACCCAAAUUCUGGCCCUCGAGU
...........((----(.((((.((((.....((((((((((((..(((...(((....----------..)))..)))..)))))))))))))))))))).)))....... ( -30.80)
>DroEre_CAF1 42463 99 + 1
CGUGUAAACCUGG----CCAGAAAUUUGCCCCCGGUCAAACUUUGUUUACCAACUUAGAG----------AGCAGGAGAGCCCCAAGUUUGACCCAAAUCCUGGCCCUCGAGU
...........((----((((..(((((.....((((((((((.((((.((..(((...)----------))..)).))))...))))))))))))))).))))))....... ( -29.20)
>DroYak_CAF1 44113 109 + 1
CAUGCAAACCUGG----CCAGAAAUUUGCCCCCGGUCAAACUUUGUUUACCAACUUAGAGCAGAAGAAGUAGAGGGAGAGCCCAAAGUUUGACCCAAAUCAUGGCCCUCGAGU
...........((----(((...(((((.....(((((((((((.(((((...(((.......)))..)))))(((....)))))))))))))))))))..)))))....... ( -30.60)
>DroPer_CAF1 41068 87 + 1
CAUGCAAAAUUAACAGAAGAGAAAACGAGGAAAAGCCAAACUUUGUUGUGU---------------------AGC--CAGCUAGAAGUUUGACCCUAGUCCUGGGGC---AGA
..(((........(......)....(.((((..((.((((((((((((...---------------------...--))))..))))))))...))..)))).).))---).. ( -17.30)
>consensus
CGUGCAAACCUGG____CCAGAAAUUUGCCCACGGUCAAACUUUGUUUACCAACUUAGAG__________AGAAGGAGAGCCCAAAGUUUGACCCAAAUCCUGGCCCUCGAGU
...(((((.(((......)))...)))))....((((((((((((..(((...(((................)))..)))..))))))))))))................... (-13.30 = -15.56 +   2.26)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:49:41 2006