Locus 5721

Sequence ID 3R_DroMel_CAF1
Location 14,940,212 – 14,940,328
Length 116
Max. P 0.580599
window9361

overview

Window 1

Location 14,940,212 – 14,940,328
Length 116
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 90.92
Mean single sequence MFE -32.38
Consensus MFE -22.51
Energy contribution -22.58
Covariance contribution 0.06
Combinations/Pair 1.03
Mean z-score -2.20
Structure conservation index 0.70
SVM decision value 0.09
SVM RNA-class probability 0.580599
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14940212 116 + 27905053
AAAAGCC----CGUCGCCAGUAGAAGAAAACGGAAAGAAAACGUAGAUAUAACAGCUGGCCGGCUGCAUCAUUCGACAUCGUUUAGUCCCAGAGAUUUGCUUUCGACUGAUGGCAAACAA
....(((----.((((..((((((.......(((....(((((..((.....(((((....)))))......)).....)))))..)))......))))))..))))....)))...... ( -25.42)
>DroSec_CAF1 76036 115 + 1
AAAAGCC----AGCCGGCAGUAGAAGAAAACGGAACGAAAACGAAGAAAUAACAGCUG-CCGGCUGCAUCAUUCGACAGCGUUUAGUCCCAGCGAUUUGCUUUCGACUGAUGGCAAACAA
....(((----((((((((((.(.......((.........)).(....)..).))))-)))))))(((((.((((.((((....((....))....)))).)))).)))))))...... ( -38.60)
>DroSim_CAF1 68853 119 + 1
AAAAGCCAGCCAGCCGGCAGUAGAAGAAAACGGAACGAAAACGAAGAAAUAACAGCUG-CCGGCUGCAUCAUUCGACAGCGUUUAGUCCCAGCGAUUUGCUUUCGACUGAUGGCAAACAA
....(((.((.((((((((((.(.......((.........)).(....)..).))))-))))))))((((.((((.((((....((....))....)))).)))).)))))))...... ( -40.50)
>DroYak_CAF1 73109 110 + 1
AAAAGCC----CGCCGCCAGUAGAAGAAAAC-----GAAAACGAAGAAAAAACAGCUG-CCGGCUGCAUCUUUCGACAACGUUUAGUCCCAGAGAUUUGCUUUCGACUGAUGGCAAACAA
.......----.((((.((((....((((.(-----(((.............((((..-...))))..(((((.(((........)))..))))))))).)))).)))).))))...... ( -25.00)
>consensus
AAAAGCC____AGCCGCCAGUAGAAGAAAACGGAACGAAAACGAAGAAAUAACAGCUG_CCGGCUGCAUCAUUCGACAGCGUUUAGUCCCAGAGAUUUGCUUUCGACUGAUGGCAAACAA
............((((.((((.((((............(((((..(((....(((((....))))).....))).....)))))((((.....))))...)))).)))).))))...... (-22.51 = -22.58 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:02:48 2006