Locus 9595

Sequence ID 3R_DroMel_CAF1
Location 25,343,399 – 25,343,507
Length 108
Max. P 0.775134
window15341

overview

Window 1

Location 25,343,399 – 25,343,507
Length 108
Sequences 5
Columns 109
Reading direction forward
Mean pairwise identity 85.89
Mean single sequence MFE -35.96
Consensus MFE -25.16
Energy contribution -25.68
Covariance contribution 0.52
Combinations/Pair 1.09
Mean z-score -2.08
Structure conservation index 0.70
SVM decision value 0.54
SVM RNA-class probability 0.775134
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25343399 108 + 27905053
AUUUUUUUCAGUGCACUUGCAGCGACUUUUCGCUG-GGAUUUCCAGUGGAGUGUCCAGCGACGCAUGCUCAGGAUUUGCACUUGAGUGAAAAGCUGGUAAUCUGGAGAC
....(((((((...(((.((.(((.....((((((-((..((((...))))..)))))))))))..(((((((.......))))))).....)).)))...))))))). ( -37.20)
>DroSec_CAF1 28314 108 + 1
AUUUUUUUCAGUGCACUUGCAGCGACUUUUCGCCG-GGAUUUCCAGUGGAGUGUCAAGCGGCGCAUGCUCAGGAUUUGCACUUGAGUGAAAAGCGGGUUAUCUGGAGAC
....(((((((...((((((.((((....))((((-.(((((((...)))).)))...))))))..(((((((.......))))))).....))))))...))))))). ( -33.70)
>DroSim_CAF1 28725 108 + 1
AUUUUUUUCAGUGCACUUGUAGCGACUUUUCGCUG-GGAUUUCCAGUGGAGUGUCCAGCGGCGCAUGCUCAGGAUUUGCACUUGAGUGAAAAGCGGGUAAUCUGGAGAC
....(((((((...((((((.(((.....((((((-((..((((...))))..)))))))))))..(((((((.......))))))).....))))))...))))))). ( -37.00)
>DroEre_CAF1 28568 93 + 1
AUUUUUUUCAGUGCACUUUCGGCGACUUUCCGCUGGGCAUUUUCAGUGGAGUGUCCAGCGGCGCAUGCUCAGGAUUUGCACUUGAGUGAAAAG----------------
.((((.(((((((((..(((((((.....(((((((((((((......)))))))))))))....))))..)))..))))).)))).))))..---------------- ( -37.80)
>DroYak_CAF1 31199 108 + 1
AAUUUUUUCAGUGCACUUUCAGCGACUUUUCGCUG-CCACAUUCAGUGGACUGUCCAGCGGCGCAUGCUCAGGAUUUGCACUUGAGUGAAAAGUUAGUUAACUGGGGAA
...(((..((((((.......))((((((((((((-(......(((....)))....)))))....(((((((.......))))))))))))))).....))))..))) ( -34.10)
>consensus
AUUUUUUUCAGUGCACUUGCAGCGACUUUUCGCUG_GGAUUUCCAGUGGAGUGUCCAGCGGCGCAUGCUCAGGAUUUGCACUUGAGUGAAAAGCGGGUAAUCUGGAGAC
.((((.(((((((((((((.((((....(((((((........)))))))(((((....))))).))))))))...))))).)))).)))).................. (-25.16 = -25.68 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:37:55 2006