Locus 5306

Sequence ID X_DroMel_CAF1
Location 13,872,442 – 13,872,538
Length 96
Max. P 0.642901
window8587

overview

Window 7

Location 13,872,442 – 13,872,538
Length 96
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 80.65
Mean single sequence MFE -37.35
Consensus MFE -26.01
Energy contribution -27.45
Covariance contribution 1.44
Combinations/Pair 1.13
Mean z-score -1.66
Structure conservation index 0.70
SVM decision value 0.23
SVM RNA-class probability 0.642901
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13872442 96 - 22224390
GUCGUAGGUGUUAAUGCACGGUAAGAAAAGCUUGGUGACUUCUGAUUGUAGCGGUGAUGGCGGAAGUGACUGCGAUUGUGAC------------------------UGCGACACGUGAGC
(((((((((((....))))..........((..(((.(((((((.(..(.......)..)))))))).)))))........)------------------------)))))).(....). ( -29.40)
>DroSec_CAF1 17852 108 - 1
GUCGUAGGUGUCACUGCACGGUGAGAAAAGCUUGGUGACUUCUGAUUGUAGCGGUGAUGGCGGAAGUGACUGCGAUUGUGACUGCGAUU------------GAGACUGCGACACGUGACC
(((((((..(((((((((((((.((((......(....))))).))))).)))))))).((....))..((.(((((((....))))))------------))).)))))))........ ( -40.10)
>DroEre_CAF1 15656 120 - 1
GUCGCAGGUGUCACUGCACUGUGAGAAAAGCGUGCUGACUUCUGAUUGUAGCGGUGACGGCGGAAGUGACUGCGAUUGUGACUGCGAUUGUGACUGCGAUUGUGACUGCGCCACGUGACC
(((((....((((((((((.((.((((.((....))...)))).)).)).))))))))((((..(((.((..((...((.((.......)).))..))...)).))).))))..))))). ( -45.40)
>DroYak_CAF1 18259 95 - 1
GGCGUAGGUCU-ACUGCACAGUGAGAAAAGCGUAGUGACUUCUGAUUGUAGCGGUGACGGCGGAAGUGACUGCGAUUGUGAC------------------------UGCGACACGUGACC
......((((.-(((((.((((.(.((...((((((.(((((((.......((....)).))))))).)))))).)).).))------------------------)).).)).)))))) ( -34.50)
>consensus
GUCGUAGGUGUCACUGCACGGUGAGAAAAGCGUGGUGACUUCUGAUUGUAGCGGUGACGGCGGAAGUGACUGCGAUUGUGAC________________________UGCGACACGUGACC
(((((((.((((((((((((((.((((...(.....)..)))).))))).)))))))))((((......))))................................)))))))........ (-26.01 = -27.45 +   1.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:27 2006