Locus 4966

Sequence ID X_DroMel_CAF1
Location 12,963,507 – 12,963,597
Length 90
Max. P 0.976885
window8098

overview

Window 8

Location 12,963,507 – 12,963,597
Length 90
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 77.94
Mean single sequence MFE -35.58
Consensus MFE -26.31
Energy contribution -25.02
Covariance contribution -1.30
Combinations/Pair 1.50
Mean z-score -2.46
Structure conservation index 0.74
SVM decision value 1.78
SVM RNA-class probability 0.976885
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12963507 90 + 22224390
AGGCCAAGACAGUA-----------CAAGGCGAAAGCCUUAAGGCUGGGGAAUCACCCGUCUUGGUGUACGACUGCGUGCACAGCUAUCUGGGCAAUGGAG
..(((.(((.(((.-----------.(((((....)))))(((((.(((......)))))))).(((((((....))))))).))).))).)))....... ( -39.40)
>DroSec_CAF1 9151 90 + 1
AGGCCAAGACAGUA-----------CAAGGCGUAAGCCUCAAGGCUGGGGAAUCACCCGUUUUGGUGUACGACUGCGUGCACAGCUAUCUGGGCAACGGAG
..(((.(((.(((.-----------..((((....))))((((((.(((......)))))))))(((((((....))))))).))).))).)))....... ( -37.50)
>DroSim_CAF1 7787 90 + 1
AGGCCAAGACAGUA-----------CAAGGCGUAAGCCUCAAGGAUGGGGAAUCACCCGUCUUGGUGUACGACUGCGUGCACAGCUAUCUGGGCAAUGGAG
..(((.(((.(((.-----------..((((....))))..((((((((......)))))))).(((((((....))))))).))).))).)))....... ( -39.30)
>DroEre_CAF1 8489 90 + 1
AGGCCAAGACAGUC-----------CAGGGCGAAAGCCUUAAGGCGGGGGAAUCUCCCAUCUUGGUGUACGACUGCGUGCACAGCUAUCUGGGAAGUGGAG
...(((......((-----------((((((....)))....((((((((...)))))......(((((((....))))))).)))..)))))...))).. ( -36.50)
>DroWil_CAF1 19759 99 + 1
AGGCCAAAGUAGUGACUGCCGCCGACAAGGAGAAAGU--GCCGGCCAAUGUGUCGCCUGUUUUGGUGUAUGAUUUCAUACAAAACUAUUUGGGCGAUGGAC
.((((...(((.(..((.((........))))..).)--)).)))).....((((((((...(((((((((....)))))...))))..)))))))).... ( -30.20)
>DroYak_CAF1 8438 90 + 1
AGGCCAAGGCGGUG-----------CAGGGGGACAGUCUCAAGGCUGGGGAAUCGCCCAUCUUGGUGUACGACUGUGUGCACAGCUACCUGGGAAGUGGAG
...((.(((..((.-----------(((((...(((((....)))))(((.....))).)))))(((((((....))))))).))..))).))........ ( -30.60)
>consensus
AGGCCAAGACAGUA___________CAAGGCGAAAGCCUCAAGGCUGGGGAAUCACCCGUCUUGGUGUACGACUGCGUGCACAGCUAUCUGGGCAAUGGAG
..(((.(((.(((............(((((.....(((....)))((((......)))))))))(((((((....))))))).))).))).)))....... (-26.31 = -25.02 +  -1.30)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:10 2006