Locus 5421

Sequence ID X_DroMel_CAF1
Location 14,133,212 – 14,133,317
Length 105
Max. P 0.916806
window8790

overview

Window 0

Location 14,133,212 – 14,133,317
Length 105
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 75.50
Mean single sequence MFE -24.43
Consensus MFE -12.06
Energy contribution -12.36
Covariance contribution 0.30
Combinations/Pair 1.35
Mean z-score -2.08
Structure conservation index 0.49
SVM decision value 1.11
SVM RNA-class probability 0.916806
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14133212 105 + 22224390
--AGGAUAAAAUUUACCCGAAAUCGGCAGCCGCAUCUUUGUGGCAAAAUGCAAAAUUAUCAAGGCGCUUGUCGGCAAAAA----AUAUAUCAAAAUAUGUUGACAAACGUU---------
--..(((((.......(((....)))..((((((....))))))...........)))))..((((.(((((((((....----.............))))))))).))))--------- ( -27.83)
>DroSec_CAF1 42868 103 + 1
--AGGAUACAACUUACACGAAAUCGGUAGCCGCAUCUUUGUGGCAAAAUGCAAAAUUAUCAAGGCGCUUGUCGG--AAAA----AUAUAUCAAAAUAUGUUGACAAACGGU---------
--..((((.....(((.((....)))))((((((....))))))............))))....((.(((((((--....----((((......)))).))))))).))..--------- ( -23.00)
>DroEre_CAF1 43990 102 + 1
--AGGAUGAAAUUUACUCGAAAUCGGCAGCCGCAUCUUUGUGGUGAAAUGCAA-AUUAUCAAGAUGCUUGUUGG--AAAA----ACGUAUCAAAAUACGUUGACAAACGGU---------
--..(((((........((....))(((((((((....))))))....)))..-.)))))..(((((...((..--..))----..)))))......((((....))))..--------- ( -22.00)
>DroWil_CAF1 36275 109 + 1
--AGCAUAUGG------CAGCAUCCGUGCCCACAUCUUUGCGGCAA-AUGGAAAAUUAUCAAGACGCAUAUCGU--AAAAACAAACAUGUGAAAAUAUGAAGAUAAAUUGCAUGCCCCAC
--.......((------((((((((.((((((......)).)))).-..)))...(((((...(((.....)))--.........(((((....)))))..)))))..))).)))).... ( -26.50)
>DroYak_CAF1 42982 105 + 1
CAAGGAUAAAAUUUAAACGAAAUCGGCAGCCGCAUCUUUGUGGCAAAAUGCAAUAUUAUCACGGUGCUUGUCGG--AAAA----AUAUAUCAAAAUAUGUUGACAAACGGU---------
....(((((........((....))(((((((((....))))))....)))....)))))((.((..(((((((--....----((((......)))).))))))))).))--------- ( -22.80)
>consensus
__AGGAUAAAAUUUACACGAAAUCGGCAGCCGCAUCUUUGUGGCAAAAUGCAAAAUUAUCAAGGCGCUUGUCGG__AAAA____AUAUAUCAAAAUAUGUUGACAAACGGU_________
....((((.........((....))...((((((....))))))............))))....((.((((((...........((((((....)))))))))))).))........... (-12.06 = -12.36 +   0.30)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:27 2006