Locus 4153

Sequence ID 3R_DroMel_CAF1
Location 11,322,484 – 11,322,595
Length 111
Max. P 0.707629
window6657

overview

Window 7

Location 11,322,484 – 11,322,595
Length 111
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 85.25
Mean single sequence MFE -25.66
Consensus MFE -18.12
Energy contribution -17.56
Covariance contribution -0.56
Combinations/Pair 1.19
Mean z-score -1.89
Structure conservation index 0.71
SVM decision value 0.37
SVM RNA-class probability 0.707629
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11322484 111 - 27905053
AUGGAAAAAGGAAAUCCCCGAAACACUCGCAGCCAGAACGCCAAGUAAAAAAAAGGAAUGAAAAUGAUGAAAAGCGUAUAAUCUGCUUAUCAAGAGGCUGCAGCCCUU--UUU-------
....(((((((........((.....))((((((......((............))...........(((.(((((.......))))).)))...))))))...))))--)))------- ( -23.60)
>DroSec_CAF1 61688 111 - 1
AUGGCAAAAGGAAAACCCCGAAACACUCGCAGCCAGAACGCCAAGUAAAGAAAAAGAAUGAAAAUGGUGAAAAGCGUAUAAUCUGCUUAUCAAGAGGCUGCAGCCCUU--UUU-------
..(((....((......)).........((((((....(((((.....................)))))..(((((.......))))).......)))))).)))...--...------- ( -26.30)
>DroSim_CAF1 57973 111 - 1
AUGGCAAAAGGAAAACCCCGAAACACUCGCAGCCAGAACGCCAAGUAAAGAAAAAUAAUGAAAAUGGUGAAAAGCGUAUAAUCUGCUUAUCAAGAGGCUGCAGCCCUU--UUU-------
..(((....((......)).........((((((....(((((.....................)))))..(((((.......))))).......)))))).)))...--...------- ( -26.30)
>DroEre_CAF1 57030 106 - 1
AAGGA------AAAUGCCCAAAACACUCGUAGCCAGAACGCCGAGUGAAG-AAAAGAAUGAAAAUGAUGAAAAGCGUAUAAUCUGCUUAUCAAGAGGCUGCAGCCCUUCUUUU-------
..((.------......))....((((((..((......))))))))...-(((((((.........(((.(((((.......))))).)))...(((....))).)))))))------- ( -22.70)
>DroYak_CAF1 58602 114 - 1
AGGGA------AAAUACCCAAAACACUCGUGGCCAGAACGUCAAGUGAAGGAAAAGAAUGAAAAUUGUGAAAAGCGCAUAAUCUGCUUAUCAAGAGGCUACAGCCCUUCUUUUCUGGGUU
.....------....((((....((((..((((......))))))))..(((((((((.........(((.(((((.......))))).)))...(((....))).))))))))))))). ( -29.40)
>consensus
AUGGAAAAAGGAAAUCCCCGAAACACUCGCAGCCAGAACGCCAAGUAAAGAAAAAGAAUGAAAAUGGUGAAAAGCGUAUAAUCUGCUUAUCAAGAGGCUGCAGCCCUU__UUU_______
............................((((((...((.....)).....................(((.(((((.......))))).)))...))))))................... (-18.12 = -17.56 +  -0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:36 2006