Locus 4143

Sequence ID 2L_DroMel_CAF1
Location 11,924,217 – 11,924,310
Length 93
Max. P 0.613118
window6535

overview

Window 5

Location 11,924,217 – 11,924,310
Length 93
Sequences 6
Columns 100
Reading direction forward
Mean pairwise identity 82.27
Mean single sequence MFE -21.50
Consensus MFE -13.07
Energy contribution -12.55
Covariance contribution -0.52
Combinations/Pair 1.27
Mean z-score -2.12
Structure conservation index 0.61
SVM decision value 0.16
SVM RNA-class probability 0.613118
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11924217 93 + 22407834
AAGUGCAGGG---UGAGUC----UUACGGAGAUGCGCAAAAUUCUUAAUUGGGGCAUUGCGCAAAAAUAAACAAAAACAGCCAUUGAAACACAGUAAAAC
..((((((((---(..(((----((...)))))((((((..((((.....))))..)))))).................))).)))...)))........ ( -17.90)
>DroPse_CAF1 116811 99 + 1
GCGGGCAGGC-GGGCAGUAUUCGCUACAAAGAUGCGCAAAAUUCCUAAUUGGAGCAUUGCGCAAAAAUAAACUGAAAGAGCCAUUGAACCGCAGAAAAAC
((((...(((-...((((..((........))(((((((..((((.....))))..))))))).......)))).....)))......))))........ ( -30.30)
>DroSec_CAF1 143636 93 + 1
AAGUGCAGGG---CGAGUC----UUGCGGAGAUGCGCAAAAUUCUUAAUUUGGGCAUUGCGCAAAAAUAAACAAAAACAGCCAUUGAAACACAGUAAAAC
..((((((((---(((((.----(((((......))))).))))....((((.((...)).))))..............))).)))...)))........ ( -20.90)
>DroSim_CAF1 110184 93 + 1
AAGUGCAGGG---CGAGUC----UUGCGGAGAUGCGCAAAAUUCUUAAUUGGGGCAUUGCGCAAAAAUAAACAAAAACAGCCAUUGAAACACAGUAAAAC
..((((((((---(..(((----((...)))))((((((..((((.....))))..)))))).................))).)))...)))........ ( -20.20)
>DroEre_CAF1 114801 93 + 1
AAGUGCAGGG---AAAGUC----UUACAGAGAUGCGCAAAAUUCUUAAUUGGGACUUUGCGCAAAAAUAAACAAAAACAGCCAUUGAAUUGCAGCAAAAC
...(((((..---...(((----((...)))))(((((((.((((.....)))).)))))))..........................)))))....... ( -19.40)
>DroYak_CAF1 112889 84 + 1
AAAUGCAGGGUGGUGAGUC----UUACAGAGAUGCGCAAAAUUCUUAAUUGGGACUUUGCGCAAAAAUAAACAAAAACAGCCA------------AAAAU
.......((.((.((.(((----((...)))))(((((((.((((.....)))).))))))).........))....)).)).------------..... ( -20.30)
>consensus
AAGUGCAGGG___CGAGUC____UUACAGAGAUGCGCAAAAUUCUUAAUUGGGGCAUUGCGCAAAAAUAAACAAAAACAGCCAUUGAAACACAGUAAAAC
.......((.......((.......)).....(((((((..((((.....))))..))))))).................)).................. (-13.07 = -12.55 +  -0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

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