Locus 4628

Sequence ID 2L_DroMel_CAF1
Location 13,228,054 – 13,228,144
Length 90
Max. P 0.536788
window7308

overview

Window 8

Location 13,228,054 – 13,228,144
Length 90
Sequences 6
Columns 93
Reading direction reverse
Mean pairwise identity 82.20
Mean single sequence MFE -41.62
Consensus MFE -24.22
Energy contribution -24.50
Covariance contribution 0.28
Combinations/Pair 1.29
Mean z-score -2.08
Structure conservation index 0.58
SVM decision value 0.01
SVM RNA-class probability 0.536788
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13228054 90 - 22407834
UGCGCUGGCGGCGCUUGUGGUGAUUGCGCACCAUGUUAGCGUGGUAGGUGCCAUCCACUUGUUGUGGC-GGCGG-UGUCGAUGUAGCCAC-AA
.((((.....)))).((((((.(((((((((((((....))))))...((((..((((.....)))).-)))))-)).))))...)))))-). ( -38.60)
>DroSec_CAF1 4067 90 - 1
UGCGCUGGCGGCGCUUGUGGUGAUUGCGCACCAUGUUGGCGUGGUAGGUGGCAUCCACUUGCGGUGGC-GGCGG-UGUCGAUGUAGCCAC-AA
.((((.....)))).((((((.((((.(((((..((((.(((.((((((((...)))))))).))).)-)))))-)))))))...)))))-). ( -40.80)
>DroSim_CAF1 7707 90 - 1
UGCGCUGGCGUCGCUUGUGGUGAUUGCGCACCAUGUUGGCGUGGUAGGUGGCAUCCACUUGCGGUGGC-GGCGG-UGUCGUUGUGGCGAC-AA
..(((((.(..(((..((((((.(..(..((((((....))))))..)..))).))))..)))..).)-)))).-((((((....)))))-). ( -44.50)
>DroEre_CAF1 5114 90 - 1
UGCGCUGGCGCCGCUUGUGGUGGUUGCGCACCAUGUUGGCGUGGUAGGUGGCAUCCACAUUCGGUGGC-GGAGG-UGUCGAUGCGGCCAC-CA
....(((.(((((..(((((..((..(..((((((....))))))..)..))..)))))..))))).)-)).((-(((((...))).)))-). ( -42.50)
>DroYak_CAF1 4660 90 - 1
UGCGCUGGCGGCGCUUGUGGUGGUUGCGCACCAUGUUGGCGUGGUAGGUGGCAUCCAAUUGCGGUGGC-GGCGG-UGUCGACGCAGCCAC-AA
..((((.((.(((((.((((((......))))))...))))).)).))))(((......))).(((((-.(((.-......))).)))))-.. ( -40.90)
>DroMoj_CAF1 4561 89 - 1
UGCGCAGGCGCGGCGUGU---GGGAGCGCACCAUGUUGGCAUGGUAGGUGGUGGCCACU-GUAUUGGGCGAUGGUCGCCGCGGUGGUUGCUCC
.(((....))).((((..---....))))((((((....)))))).((.((..((((((-((....((((.....))))))))))))..)))) ( -42.40)
>consensus
UGCGCUGGCGGCGCUUGUGGUGAUUGCGCACCAUGUUGGCGUGGUAGGUGGCAUCCACUUGCGGUGGC_GGCGG_UGUCGAUGUAGCCAC_AA
((((.((((((((((((((.......)))((((((....)))))))))))))..((((.....)))).........)))).))))........ (-24.22 = -24.50 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:22:59 2006