Locus 3227

Sequence ID 2R_DroMel_CAF1
Location 11,014,205 – 11,014,301
Length 96
Max. P 0.636894
window5302

overview

Window 2

Location 11,014,205 – 11,014,301
Length 96
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 81.12
Mean single sequence MFE -27.02
Consensus MFE -15.01
Energy contribution -15.30
Covariance contribution 0.29
Combinations/Pair 1.19
Mean z-score -2.16
Structure conservation index 0.56
SVM decision value 0.21
SVM RNA-class probability 0.636894
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11014205 96 + 20766785
ACGCACAAGGCCAAAACAUUUUUCAGUUUUGGGU-UUACCCCCAGGUGGGGACAUUCUCAGUUAAAUGAAUCU--UGUGUCCCGCAUAAA-----UGUCAGCCA
........(((....((((((.......(((((.-.....)))))((((((((((..(((......)))....--.))))))).))))))-----)))..))). ( -26.80)
>DroSec_CAF1 126761 96 + 1
ACGCACAAGGCCAAAACAUUUUUCACUUUUGGGC-UUACCCCCAGGUGGGGACAUUCUCAGUUAAAUGAAUCU--UGUGUCCCGCAUAAA-----UGUCAGCCA
........(((....((((((..(((((..(((.-...)))..)))))(((((((..(((......)))....--.)))))))....)))-----)))..))). ( -27.90)
>DroSim_CAF1 129063 96 + 1
ACGCACAAGGCCAAAACAUUUUUCACUUUUGGGC-UUACCCCCAGGUGGGGACAUUCUCAGUUAAAUGAAUCU--UGUGUCCCGCAUAAA-----UGUCAGCCA
........(((....((((((..(((((..(((.-...)))..)))))(((((((..(((......)))....--.)))))))....)))-----)))..))). ( -27.90)
>DroEre_CAF1 130057 96 + 1
ACGCACAAGGCCAAAACUUUUUCCACUUUUGGGU-UUACCCGCAGGAAGGGACAUUCUCAGUUAAAUGAAUCU--UGUGUCCCGCAUAAA-----UGUCAGCCA
........(((.........((((.....((((.-...))))..))))(((((((..(((......)))....--.))))))).......-----.....))). ( -24.40)
>DroYak_CAF1 132056 98 + 1
ACGCACAAGGCCAAAAAU-UUUCCACUUUUGGGUUUUACCCGCAGGAGGAGACAUUCUCAGUUAAAUGAAUCUUUUGUGUUCCGCAUAAA-----UGUCAGCCA
........(((.......-..(((.(((.((((.....)))).))).)))((((...(((......)))....((((((.....))))))-----)))).))). ( -24.30)
>DroAna_CAF1 131673 83 + 1
ACGCACAAGGCCAG-----------CGGUUGGGCUUUGCCCUCGGGACUGGACAUUCUCAGG-------GU-C--CGAGUCCCGCAUAAAAUAACUGUUAGUUA
........(((.((-----------(((((((((...)))).(((((((((((.........-------))-)--).)))))))........))))))).))). ( -30.80)
>consensus
ACGCACAAGGCCAAAACAUUUUUCACUUUUGGGC_UUACCCCCAGGAGGGGACAUUCUCAGUUAAAUGAAUCU__UGUGUCCCGCAUAAA_____UGUCAGCCA
........(((...................(((.....))).......(((((((.....(((.....))).....))))))).................))). (-15.01 = -15.30 +   0.29)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:50:30 2006