Locus 2176

Sequence ID 3L_DroMel_CAF1
Location 5,929,249 – 5,929,339
Length 90
Max. P 0.514360
window3375

overview

Window 5

Location 5,929,249 – 5,929,339
Length 90
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.96
Mean single sequence MFE -29.13
Consensus MFE -18.73
Energy contribution -18.07
Covariance contribution -0.66
Combinations/Pair 1.20
Mean z-score -1.57
Structure conservation index 0.64
SVM decision value -0.04
SVM RNA-class probability 0.514360
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5929249 90 + 23771897
AAAAUGAGAAAUUG---CUGCCGCCGGUGCAAUUUUCAUGGUUGACCUCAUUUUGU--GU---UGCCGC---UGUUGACUUUGCGGAAUAUUUUGUGGCAG-------------------
..............---(((((((.(((.(((((.....)))))))).......((--((---(.((((---..........)))))))))...)))))))------------------- ( -24.60)
>DroVir_CAF1 32510 107 + 1
AAAAUGAGAAAUUG---CUGCCGCUGGUGCAAUUUUCAUGGUUGACCUCAUUUUGUU-GC---UGUCGU---UGUUGACUUUGUGGAAUAUUUGGUGGCAG---CAGCAACAGCCACAAC
((((((((((((((---(.(((...))))))))))(((....))).))))))))((.-((---(((.((---((((((((..(((...)))..)))..)))---)))).))))).))... ( -32.60)
>DroPse_CAF1 28257 92 + 1
AAAAUGAGAAAUUG---CUGCCGCUGGUGCAAUUUUCAUGGUUGACCUCAUUUCGCUGUU---UGCCGC---UGUUGACUUUGUGGAA-AUUUUGUGGCAG---C---------------
.............(---(((((((.(((.(((((.....))))))))...((((((.(((---.((...---.)).)))...))))))-.....)))))))---)--------------- ( -26.60)
>DroYak_CAF1 22945 90 + 1
AAAAUGAGAAAUUG---CUGCCGCCGGUGCAAUUUUCAUGGUUGACCUCAUUUUGU--GU---UGCCGC---UGUUGACUUUGCGGAAUAUUUUGUGGCAG-------------------
..............---(((((((.(((.(((((.....)))))))).......((--((---(.((((---..........)))))))))...)))))))------------------- ( -24.60)
>DroMoj_CAF1 25193 116 + 1
AAAAUGAGAAAUUG---CUGCCGCUGGUGCAAUUUUCAUGGUUGACCUCAUUUUGCU-GCUGCUGUCGUUGCUGUUGACUUUGUGGAAUAUUUUGUGGCAGUAGCAGCAGCAGCCGCAAC
((((((((((((((---(.(((...))))))))))(((....))).))))))))((.-((((((((.(((((((((.((...............))))))))))).)))))))).))... ( -44.16)
>DroAna_CAF1 50944 92 + 1
AAAAUGAGAAAUUGCCGCUGCCGCUGGUGCAAUUUUCAUAGUUGACCUCAUUUUGU--GU---UGCCGC---UGUUGACUUUGCGGAAUAUUUUGUGGCA--------------------
............((((((.......(((.(((((.....)))))))).......((--((---(.((((---..........)))))))))...))))))-------------------- ( -22.20)
>consensus
AAAAUGAGAAAUUG___CUGCCGCUGGUGCAAUUUUCAUGGUUGACCUCAUUUUGU__GU___UGCCGC___UGUUGACUUUGCGGAAUAUUUUGUGGCAG___________________
.................(((((((.(((.(((((.....))))))))..................((((....(....)...))))........)))))))................... (-18.73 = -18.07 +  -0.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:06 2006