Locus 6562

Sequence ID 2L_DroMel_CAF1
Location 18,460,844 – 18,460,937
Length 93
Max. P 0.858277
window10465 window10466

overview

Window 5

Location 18,460,844 – 18,460,937
Length 93
Sequences 4
Columns 93
Reading direction forward
Mean pairwise identity 88.17
Mean single sequence MFE -13.78
Consensus MFE -10.37
Energy contribution -10.93
Covariance contribution 0.56
Combinations/Pair 1.06
Mean z-score -2.11
Structure conservation index 0.75
SVM decision value 0.82
SVM RNA-class probability 0.858277
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18460844 93 + 22407834
UUUCGCCACUUUUCCACCCUUUUGCACUGGCAUUCUGGCAUUCUUGAUAACUUUACUGCCUCUUUCGUGCCACCAAACUUUGGCAUGUCAACU
....((((...................)))).....((((................)))).....(((((((........)))))))...... ( -16.10)
>DroSec_CAF1 15280 93 + 1
UUUCGCCACUUUUCCACCUUUUUGCACUGGCAUUCUGGCAUUCUUGAUAACUUUCCUGCCUCUUUCUUGCCACCAAACUUUGGCAUGUCAACU
....((((......((......))...(((((....((((.....((......)).)))).......)))))........))))......... ( -13.80)
>DroSim_CAF1 15374 93 + 1
UUUCGCCACUUUUCCACCUUUUUGCACUGGCAUUCUGGCAUUCUUGAUAACUUUCCUGCCUCUUUUUUGCCACCAAACUUUGGCAUGUCAACU
....((((.....(((...........))).....))))....((((((.......((((.....((((....))))....)))))))))).. ( -13.81)
>DroEre_CAF1 15164 84 + 1
UUUCGCCACUUUUGCACCUUUUUUCAC--------UGGCAUUCUUGACAACUUUCCUGCC-CCUUCUUAAGUUCAAACUUUGGCAUGUCAACU
....((((...................--------))))....((((((.......((((-.......((((....)))).)))))))))).. ( -11.42)
>consensus
UUUCGCCACUUUUCCACCUUUUUGCACUGGCAUUCUGGCAUUCUUGAUAACUUUCCUGCCUCUUUCUUGCCACCAAACUUUGGCAUGUCAACU
....((((.....(((...........))).....))))....((((((.......((((.....................)))))))))).. (-10.37 = -10.93 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 18,460,844 – 18,460,937
Length 93
Sequences 4
Columns 93
Reading direction reverse
Mean pairwise identity 88.17
Mean single sequence MFE -18.62
Consensus MFE -12.94
Energy contribution -13.38
Covariance contribution 0.44
Combinations/Pair 1.14
Mean z-score -1.92
Structure conservation index 0.69
SVM decision value 0.32
SVM RNA-class probability 0.688354
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18460844 93 - 22407834
AGUUGACAUGCCAAAGUUUGGUGGCACGAAAGAGGCAGUAAAGUUAUCAAGAAUGCCAGAAUGCCAGUGCAAAAGGGUGGAAAAGUGGCGAAA
..(((.(((.(((...((((.((((((....).((((................))))....)))))...))))....)))....))).))).. ( -21.09)
>DroSec_CAF1 15280 93 - 1
AGUUGACAUGCCAAAGUUUGGUGGCAAGAAAGAGGCAGGAAAGUUAUCAAGAAUGCCAGAAUGCCAGUGCAAAAAGGUGGAAAAGUGGCGAAA
..(((.(((.(((...((((.(((((.......((((.((......)).....))))....)))))...))))....)))....))).))).. ( -18.20)
>DroSim_CAF1 15374 93 - 1
AGUUGACAUGCCAAAGUUUGGUGGCAAAAAAGAGGCAGGAAAGUUAUCAAGAAUGCCAGAAUGCCAGUGCAAAAAGGUGGAAAAGUGGCGAAA
..(((.(((.(((...((((.(((((.......((((.((......)).....))))....)))))...))))....)))....))).))).. ( -18.20)
>DroEre_CAF1 15164 84 - 1
AGUUGACAUGCCAAAGUUUGAACUUAAGAAGG-GGCAGGAAAGUUGUCAAGAAUGCCA--------GUGAAAAAAGGUGCAAAAGUGGCGAAA
........(((((...((((.((((.......-((((.((......)).....)))).--------........)))).))))..)))))... ( -16.99)
>consensus
AGUUGACAUGCCAAAGUUUGGUGGCAAGAAAGAGGCAGGAAAGUUAUCAAGAAUGCCAGAAUGCCAGUGCAAAAAGGUGGAAAAGUGGCGAAA
.(.((((.((((....((((....)))).....)))).....)))).).....(((((.....(((.(.......).))).....)))))... (-12.94 = -13.38 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:14:11 2006