Locus 1297

Sequence ID X_DroMel_CAF1
Location 3,869,886 – 3,869,985
Length 99
Max. P 0.911614
window2074 window2075

overview

Window 4

Location 3,869,886 – 3,869,985
Length 99
Sequences 3
Columns 99
Reading direction forward
Mean pairwise identity 86.46
Mean single sequence MFE -34.50
Consensus MFE -26.01
Energy contribution -27.23
Covariance contribution 1.22
Combinations/Pair 1.04
Mean z-score -2.87
Structure conservation index 0.75
SVM decision value 1.08
SVM RNA-class probability 0.911614
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3869886 99 + 22224390
UAAAUAUAUGGUUGAUGUGGGAGAGUUGGGACAACCCAAGUCCUGAGUGACCGGAACACUUGAUUUGGCAGCCCUUUGGCUGCCGUCGCCUAUCAAUGA
..........(((((((.((((((.(((((....))))).))..(((((.......))))).....(((((((....))))))).)).))))))))).. ( -35.20)
>DroEre_CAF1 51742 87 + 1
---AGAUGUGGAU------GGGCAGUUGGGACAACCCAAGUCCUGAGUGACCGGAACACUUGAUUUGGCAGCCCUUUGGCUGCC---GCCUAUCAAUGA
---....(((..(------.((((.(..((((.......))))..).)).)).)..)))(((((.((((((((....)))))))---)...)))))... ( -36.30)
>DroYak_CAF1 47755 90 + 1
UAAAUAUAUGGCU------AGGGAGUUGGGACAACCCAAGUCCUGAGUGACCGGAACACUUGAUUUAGCAGCCCUUUGGCUGCC---GCCUAUCAAUGA
.........(((.------.((((.(((((....))))).))))(((((.......)))))......((((((....)))))).---)))......... ( -32.00)
>consensus
UAAAUAUAUGGAU______GGGGAGUUGGGACAACCCAAGUCCUGAGUGACCGGAACACUUGAUUUGGCAGCCCUUUGGCUGCC___GCCUAUCAAUGA
.........(((........((((.(((((....))))).))))(((((.......))))).....(((((((....)))))))...)))......... (-26.01 = -27.23 +   1.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 3,869,886 – 3,869,985
Length 99
Sequences 3
Columns 99
Reading direction reverse
Mean pairwise identity 86.46
Mean single sequence MFE -30.21
Consensus MFE -25.01
Energy contribution -24.90
Covariance contribution -0.11
Combinations/Pair 1.10
Mean z-score -2.51
Structure conservation index 0.83
SVM decision value 1.07
SVM RNA-class probability 0.909965
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3869886 99 - 22224390
UCAUUGAUAGGCGACGGCAGCCAAAGGGCUGCCAAAUCAAGUGUUCCGGUCACUCAGGACUUGGGUUGUCCCAACUCUCCCACAUCAACCAUAUAUUUA
...(((((.(....)(((((((....)))))))..))))).......(((......(((.(((((....)))))...))).......)))......... ( -29.22)
>DroEre_CAF1 51742 87 - 1
UCAUUGAUAGGC---GGCAGCCAAAGGGCUGCCAAAUCAAGUGUUCCGGUCACUCAGGACUUGGGUUGUCCCAACUGCCC------AUCCACAUCU---
.....(((.(((---(((((((....)))))))......(((.....((((......))))((((....)))))))))).------))).......--- ( -30.80)
>DroYak_CAF1 47755 90 - 1
UCAUUGAUAGGC---GGCAGCCAAAGGGCUGCUAAAUCAAGUGUUCCGGUCACUCAGGACUUGGGUUGUCCCAACUCCCU------AGCCAUAUAUUUA
.........(((---(((((((....)))))))......((((.......))))..(((.(((((....))))).)))..------.)))......... ( -30.60)
>consensus
UCAUUGAUAGGC___GGCAGCCAAAGGGCUGCCAAAUCAAGUGUUCCGGUCACUCAGGACUUGGGUUGUCCCAACUCCCC______AACCAUAUAUUUA
.........((....(((((((....)))))))......((((.......))))..(((.(((((....))))).)))..........))......... (-25.01 = -24.90 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:00 2006