Locus 1919

Sequence ID 3L_DroMel_CAF1
Location 5,368,639 – 5,368,734
Length 95
Max. P 0.742525
window2994

overview

Window 4

Location 5,368,639 – 5,368,734
Length 95
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 82.94
Mean single sequence MFE -29.97
Consensus MFE -20.38
Energy contribution -21.38
Covariance contribution 1.00
Combinations/Pair 1.12
Mean z-score -2.38
Structure conservation index 0.68
SVM decision value 0.45
SVM RNA-class probability 0.742525
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5368639 95 + 23771897
--------CAACAGCUCAACUGACAGGGGAGUCCAGCCGAAUGGACAGCAAAAUGUUCAAAUGCUUGGACAGCUGUCGGCAAUUGCGUAGCCAGCAAAAAUCA
--------.....(((.....(((((....(((((((....((((((......))))))...)).)))))..)))))(((.........))))))........ ( -27.20)
>DroVir_CAF1 34495 84 + 1
-----------------AGCUGACAGUCCGUUUGGGCCAAAUGGACAGGCGCAUGUUCAAAUGCUUGGACAGCUGGCCAGAA-UGCGUGGCCAGCAAAAA-GU
-----------------.(((....(((((((((...))))))))).)))...(((((((....)))))))((((((((...-....)))))))).....-.. ( -34.90)
>DroSec_CAF1 17955 95 + 1
--------CAACAGCUCAACUGACAGGGGAGUCCAGCCGAAUGGACAGCAAAAUGUUCAAAUGCUUGGACAGCUGUCGGCAAUUGCGUAGCCAGCAAAAAUCA
--------.....(((.....(((((....(((((((....((((((......))))))...)).)))))..)))))(((.........))))))........ ( -27.20)
>DroSim_CAF1 16127 95 + 1
--------CAACAGCUCAACUGACAGGGGAGUCCGGCCGAAUGGACAGCAAAAUGUUCAAAUGCUUGGACAGCUGUCGGCAAUUGCGUAGCCAGCAAAAAUCA
--------.....(((.....(((((....(((((((....((((((......))))))...)).)))))..)))))(((.........))))))........ ( -26.50)
>DroEre_CAF1 16576 95 + 1
--------CUACAGCUCAACUGACAGGGGAGUCCAGCCGAAUGGACAACAAAAUGUUCAAAUGCUUGGACAGCUGUCGGCAAUUGCGUAGCCAGCAAAAAUCA
--------((((.((....(((((((.(..(((((......)))))..)....(((((((....))))))).))))))).....))))))............. ( -28.30)
>DroYak_CAF1 16318 103 + 1
GCAAUGGGCAGCAGCUCAACUGACUGGACUCCCCAGUCGAAUGGACAGCAAAAUGUUCAAAUGCUUGGACAGCUGUCGGCAAUUGCGUAGCCAGCAAAAAUUA
((....(((.((((((((..(((((((.....)))))))..))((((((....(((((((....))))))))))))))))...)))...))).))........ ( -35.70)
>consensus
________CAACAGCUCAACUGACAGGGGAGUCCAGCCGAAUGGACAGCAAAAUGUUCAAAUGCUUGGACAGCUGUCGGCAAUUGCGUAGCCAGCAAAAAUCA
...................(((((((....((((((.((..((((((......))))))..)).))))))..)))))))...((((.......))))...... (-20.38 = -21.38 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:19:59 2006