Locus 1278

Sequence ID 2L_DroMel_CAF1
Location 3,406,381 – 3,406,496
Length 115
Max. P 0.703869
window2087

overview

Window 7

Location 3,406,381 – 3,406,496
Length 115
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 75.39
Mean single sequence MFE -30.60
Consensus MFE -21.70
Energy contribution -21.70
Covariance contribution -0.00
Combinations/Pair 1.14
Mean z-score -1.34
Structure conservation index 0.71
SVM decision value 0.36
SVM RNA-class probability 0.703869
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3406381 115 + 22407834
AGACACUCUGUGAUAUAUAGAAGUACAACUUCAAGUUCGAUAUGCACAAUGCCGAGUGAUUUCUCUCAGUGUACUUACUUGCCGAAGGGAAUGUUCUUGGCGAGUGGCACAGCGU
...(((((((((.(((((.((((.....)))).......)))))))))..((((((....((((((..(.(((......))))..))))))....)))))))))))......... ( -32.10)
>DroSec_CAF1 28902 91 + 1
AG------------------AAGUACA------GGGUCAACGUGUACAAUGCCGAGUGAUUCCUUUCAGUGUACUUACUUGCCGAAGGGAAUGUUCUUGGCGAGUGGCACGGCGU
..------------------..(((((------.(.....).))))).(((((...(((......)))((((...((((((((.(((((....)))))))))))))))))))))) ( -32.10)
>DroSim_CAF1 29014 90 + 1
AG------------------AAGUACA------GGGUCAACAUGUGCAAUGCCGAGUGAUUC-UCUCAGUGUACUUACUUGCCGAAGGGAAUGUUCUUGGCGAGUGGCACGGCGU
..------------------..(((((------.(.....).))))).((((((((......-.))).((((...((((((((.(((((....)))))))))))))))))))))) ( -31.40)
>DroEre_CAF1 28916 97 + 1
AG------------------AAGUACAAGCCCAAGGCCAAUAUGUAUCAGGCCAUGUGAUUUCGCUCAGUGUACUCACUUGCCGAAGGGUAUGUUCUUGGCGAGGGGCACGGCAU
..------------------..((....((((...(((((.(((((((.(((...((((...(((...)))...))))..)))....)))))))..)))))...))))...)).. ( -31.30)
>DroYak_CAF1 29960 97 + 1
AU------------------CAGUACAAACCCAAAGCCCAUAUGUAUGUGGUCAUGUGAUUUCGUUCAGUGUACUCACUUGCCGAAGGGAAUGUUCUUGGCGAGGGGCACGGCAU
..------------------...............(((((((((........))))))..........((((.....((((((.(((((....)))))))))))..))))))).. ( -26.10)
>consensus
AG__________________AAGUACAA___CAAGGUCAAUAUGUACAAUGCCGAGUGAUUUCUCUCAGUGUACUUACUUGCCGAAGGGAAUGUUCUUGGCGAGUGGCACGGCGU
......................(((((...............)))))...(((...(((......)))((((...((((((((.(((((....)))))))))))))))))))).. (-21.70 = -21.70 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:58:25 2006