Locus 5234

Sequence ID 2R_DroMel_CAF1
Location 17,043,773 – 17,043,892
Length 119
Max. P 0.745349
window8361

overview

Window 1

Location 17,043,773 – 17,043,892
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 76.62
Mean single sequence MFE -29.09
Consensus MFE -17.54
Energy contribution -18.26
Covariance contribution 0.72
Combinations/Pair 1.26
Mean z-score -1.76
Structure conservation index 0.60
SVM decision value 0.46
SVM RNA-class probability 0.745349
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17043773 119 - 20766785
AUUCCAGAACCAAUAGGAUCCACGACAUUGGACUUCUCCGGCUGGCCAAGUCGGUGGAGUAUAAAGGUUCAAGAUACAUAGAUGGCACACAUGUAUAGAUGGCAA-UGCAAAAGUUUCUC
(((((((((((........(((......)))(((((.((((((.....)))))).))))).....))))).......(((.(((.....))).)))...))).))-)............. ( -30.50)
>DroSec_CAF1 137174 119 - 1
ACUCCAGAACCAAUAAGAUCCACGACAUUGGACUUCUCCGGCUGGCCAAGUCGGUGGAGUAUAAAGGUUCAAGAUACAUAGAUGGCACACAUAGAUAGAUAGCAA-UUCAAAAGUUUCUU
......(((((........(((......)))(((((.((((((.....)))))).))))).....)))))((((.((((..(((.....)))..)).((......-.))....)).)))) ( -28.60)
>DroSim_CAF1 145688 119 - 1
ACUCCAGAACCUAUAAGAUCCAUGACAUUGGACUUCUCCGGCUGGCCAAGUCGGUGGAGUAUAAAGGUUCAAGAUACAUAUAUGGCACACAUAGAUAGAUAGCAA-UUCAAAAGUUUCUU
......((((((.......(((......)))(((((.((((((.....)))))).)))))....))))))((((.((...((((.....))))....((......-.))....)).)))) ( -31.20)
>DroEre_CAF1 141355 107 - 1
ACUCCAAAAUCAAUAGGAUCCACGACAUUGGCCUUCUCCGACUGGCCAAGUCGGUGCGCUAUAAAGGUUUCAGAUACACAUAU---------GUAUAGAGUGCAG-UUCAACAUC---UU
...............((((...((((.((((((..........)))))))))).((((((.............(((((....)---------))))..)))))))-)))......---.. ( -25.06)
>DroYak_CAF1 150865 111 - 1
ACUUCAAAUUCAAUAGGAUCCACGACAUUGGAAUACUCCGACUGGCAAAGUCUGUGUUGUACCAAGGUACAAGAUACACAGAU---------ACUGCUGGCACAUUUUUAAAAUCUCCUC
..............((((((((......)))).......(.(..(((..(((((((((((((....)))))....))))))))---------..)))..))..............)))). ( -30.10)
>consensus
ACUCCAGAACCAAUAGGAUCCACGACAUUGGACUUCUCCGGCUGGCCAAGUCGGUGGAGUAUAAAGGUUCAAGAUACAUAGAUGGCACACAUAGAUAGAUAGCAA_UUCAAAAGUUUCUU
......(((((........(((......)))(((((.((((((.....)))))).))))).....))))).................................................. (-17.54 = -18.26 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:47 2006