Locus 5166

Sequence ID 3R_DroMel_CAF1
Location 13,562,360 – 13,562,457
Length 97
Max. P 0.709558
window8441

overview

Window 1

Location 13,562,360 – 13,562,457
Length 97
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 88.18
Mean single sequence MFE -34.17
Consensus MFE -28.54
Energy contribution -29.63
Covariance contribution 1.09
Combinations/Pair 1.11
Mean z-score -1.93
Structure conservation index 0.84
SVM decision value 0.37
SVM RNA-class probability 0.709558
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13562360 97 + 27905053
------------AGC--CAGCGCGUUUGGCAAAUUAGCCAAAUGCGUUAUUUGGCCCACAAGCAUUUCAGUUUCAGUCGCUCACGGAACGUCCUGGCGUUUGGCCGCAAAA
------------.((--.((((((((((((......))))))))))))....((((...((((......))))....(((.((.((.....)))))))...)))))).... ( -34.80)
>DroSec_CAF1 4569 97 + 1
------------AGC--CAGCGCGUUUGGCAAAUUAGCCAAAUGCGUUAUUUGGCCCACAAGCAUUUCGGUUUCAGUCGCUCACGGAACGUCCUGGCGUUUGGCCGCAAAA
------------.((--(((((((((((((......)))))))))))....)))).........(((((((..(((.(((.((.((.....))))))).))))))).))). ( -36.00)
>DroEre_CAF1 3482 97 + 1
------------AGC--CAGCGCGUUUGGCAAAUUAGCCAAAUGCGUUAUUUGGCCCACAAGCAUUUCAGUUUCAGUCGCUCACGGAACGUCCUGGCGUUUGGCCGCAAAA
------------.((--.((((((((((((......))))))))))))....((((...((((......))))....(((.((.((.....)))))))...)))))).... ( -34.80)
>DroYak_CAF1 2971 98 + 1
------------AGCACAAACGCGC-UGGCAAAUUAGCCAAAUGCGUUAUUUGGCCCACAAGCAUUUCAGUUUCAGUCGCUCACGGAACGUCCUGGCGUUUGGCCGCAAAA
------------.((...((((((.-((((......))))..))))))....((((...((((......))))....(((.((.((.....)))))))...)))))).... ( -28.70)
>DroAna_CAF1 2693 95 + 1
------------GGC--AAG--CGUUUGGCAAAUUAGCCAAAUGCGUUAUUUGGCUCACAAGCAUUUCGGUUUCAGUCGCUCACGGAACGUCCUGGCGUUUGGCCGCAAAA
------------.((--..(--((((((((......))))))))).......(((....((((......))))(((.(((.((.((.....))))))).)))))))).... ( -30.70)
>DroPer_CAF1 22527 105 + 1
GGGUGGAGCGGUGGC--AAG--GGGCUGGCAAAUUAGCCAAAUGCGUUAUUUGGCCGACAAGCAGCUCG--CUCAGUCGCUCACGGGACGUCCUGGCGUUUGGCCGCAAAA
.(((.((((((((((--.((--((((((.(...(..((((((((...))))))))..)...))))))).--))..)))))...((((....)))).))))).)))...... ( -40.00)
>consensus
____________AGC__AAGCGCGUUUGGCAAAUUAGCCAAAUGCGUUAUUUGGCCCACAAGCAUUUCAGUUUCAGUCGCUCACGGAACGUCCUGGCGUUUGGCCGCAAAA
.............((...((((((((((((......))))))))))))....((((....(((...............)))....((((((....)))))))))))).... (-28.54 = -29.63 +   1.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:10 2006