Locus 5305

Sequence ID 3R_DroMel_CAF1
Location 13,855,353 – 13,855,457
Length 104
Max. P 0.605385
window8657

overview

Window 7

Location 13,855,353 – 13,855,457
Length 104
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 82.07
Mean single sequence MFE -26.80
Consensus MFE -15.45
Energy contribution -14.73
Covariance contribution -0.72
Combinations/Pair 1.35
Mean z-score -2.24
Structure conservation index 0.58
SVM decision value 0.15
SVM RNA-class probability 0.605385
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13855353 104 + 27905053
CGAAAAAAAAAAAAAACGGCCAGAUCAAAUGGAUUUUUAUGCCGCCUGACUGAAAUGGCCAAAUGCCACAUGCUGGCUAUCGGCGGUUAGCAUGUGAAAAGCAU
.................(((((..(((...((............))....)))..)))))..((((((((((((((((......))))))))))))....)))) ( -31.20)
>DroSec_CAF1 126539 90 + 1
------------AAAACGGCCAGAUCAAAUGGAUUUUUAUGCCGCCUGACUGAAAUGGCCAAAUGCC--AUGCUGGUUAUCGGCGGUUGGCAUGUGAAAAGCAU
------------...(((((((((((.....)))).....((((((((((((..(((((.....)))--))..))))))..)))))))))).)))......... ( -28.80)
>DroSim_CAF1 132571 90 + 1
------------AAAACGGCCAGAUCAAAUGGAUUUUUAUGCCGCCUGACUGAAAUGGCCAAAUGCC--AAGCUGGCUAUCGGCGGUUAGCAUGUGAAAAGCAU
------------....((((.(((((.....)))))....)))).(((((((..(((((((..(...--.)..)))))))...))))))).((((.....)))) ( -24.20)
>DroEre_CAF1 126903 89 + 1
------------AAAACGGCCAGAUCAAAUGGAUUUUUAUGCCGCUCGGCU-AAAUGGCCAAAUGCU--UCGCUGUCUAUCGGCGGCUAGCAUGCGAAAAGCAU
------------.....(((((((((.....))))((((.(((....))))-))))))))..(((((--..((((((....)))))).)))))((.....)).. ( -30.50)
>DroYak_CAF1 137562 89 + 1
------------AAAACGGCCAGAUCAAAUGGAUUUUUAUGCCGCUUGACU-AAAUGGCCAAAUGCU--UGGCUGGCUAUCGGCGGUUAGCAUGCGAAAAGCAU
------------.....(((((..((((.(((.........))).))))..-...)))))..(((((--.(((((.(....).))))))))))((.....)).. ( -25.90)
>DroAna_CAF1 129891 87 + 1
------------CAAACGGUUAGAUCAAAUAGAUUUUUA-ACAGCCGGACU-AAAUGGCUAAAUGCU--UUAUUGGCUAUCAGCUGGCAA-AUGCGAAAUACAA
------------....((((((((((.....))))..))-)).(((((.((-..((((((((.....--...)))))))).)))))))..-...))........ ( -20.20)
>consensus
____________AAAACGGCCAGAUCAAAUGGAUUUUUAUGCCGCCUGACU_AAAUGGCCAAAUGCC__AUGCUGGCUAUCGGCGGUUAGCAUGCGAAAAGCAU
..................((.(((((.....)))))....((((((.((......((((((...((.....)))))))))))))))).............)).. (-15.45 = -14.73 +  -0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:36 2006