Locus 2028

Sequence ID 3R_DroMel_CAF1
Location 5,748,798 – 5,748,906
Length 108
Max. P 0.836857
window3325

overview

Window 5

Location 5,748,798 – 5,748,906
Length 108
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 92.53
Mean single sequence MFE -32.04
Consensus MFE -28.56
Energy contribution -28.40
Covariance contribution -0.16
Combinations/Pair 1.09
Mean z-score -1.37
Structure conservation index 0.89
SVM decision value 0.74
SVM RNA-class probability 0.836857
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5748798 108 - 27905053
UUCAAAAGUCUUUACAAA---AAAUACCAUUUCAAGUGGCAGAUUGAUGUUCGUCAGUUGUUGUGGCGCUUGAAAAUCGAAUGUGGUAGCUGGUGCUCGGGGCAUGCCGCA
..................---........(((((((((.(((((((((....)))))))....)).)))))))))......((((((((((.........))).))))))) ( -28.50)
>DroSec_CAF1 40042 110 - 1
UUCAUAAGUCUUUACAAAA-AAAAUGCCAUUUCAAGUGGCGGAUUGAUGUUCGUCAGUUGUUGUGGCGCUUGAAAAUCGAAUGUGGUAGCUGGUGCUCGGGGCAUGCCACA
...................-.....(((((..(((.((((((((....)))))))).)))..)))))..............((((((((((.........))).))))))) ( -33.60)
>DroSim_CAF1 41159 111 - 1
UUCAUAAGUCUUUACAAAAAAAAAUGCCAUUUCAAGUGGCGGAUUGAUGUUCGUCAGUUGUUGCGGCGCUUGAAAAUCGAAUGUGGUAGCUGGUGCUCGGGGCAUGCCACA
.............................(((((((((.(((((((((....)))))))....)).)))))))))......((((((((((.........))).))))))) ( -29.70)
>DroEre_CAF1 35940 107 - 1
CUCAAAAGUCUUUACAA----AAAUGCCAUUUCAAGUGGCAGAUUGAUAUUCGUCAGUUGUUGUGGCGCUUGAAAGCUGAAUGUGGUAGCUGCUGCUCGGGGCAUGCCACA
......((.((((.(((----...((((((..(((.((((..((....))..)))).)))..)))))).)))))))))...((((((((((.(.....).))).))))))) ( -34.70)
>DroYak_CAF1 24165 108 - 1
UUCAAAAGUCUUUACAAA---AAAUGCCACUUCAAGUGGCAGAUUGAUAUUCGUCAGUUGUUGUGGCGGUUGAAAACUGAAUGUGGUAGCUGGUGCUCGGGGCAUGCCACA
(((((..(((...((...---...((((((.....))))))(((((((....)))))))))...)))..))))).......((((((((((.........))).))))))) ( -33.70)
>consensus
UUCAAAAGUCUUUACAAA___AAAUGCCAUUUCAAGUGGCAGAUUGAUGUUCGUCAGUUGUUGUGGCGCUUGAAAAUCGAAUGUGGUAGCUGGUGCUCGGGGCAUGCCACA
((((...(((...((.........((((((.....))))))(((((((....)))))))))...)))...)))).......((((((((((.........))).))))))) (-28.56 = -28.40 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:38 2006