Locus 5623

Sequence ID X_DroMel_CAF1
Location 14,509,923 – 14,510,020
Length 97
Max. P 0.855102
window9137

overview

Window 7

Location 14,509,923 – 14,510,020
Length 97
Sequences 5
Columns 105
Reading direction reverse
Mean pairwise identity 90.39
Mean single sequence MFE -28.48
Consensus MFE -20.80
Energy contribution -21.88
Covariance contribution 1.08
Combinations/Pair 1.04
Mean z-score -2.38
Structure conservation index 0.73
SVM decision value 0.80
SVM RNA-class probability 0.855102
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14509923 97 - 22224390
AAAAGGGAAAUGCAAUUCAUUGCCCAAGACAUUCGGACUGGCAAGUAGGAUAUCCAUAU------ACAACCAACCGACUUGGCAGU--CAUCCGAGAUCCUCGGA
....(((.((((.....)))).)))..........(((((.(((((.((..........------........)).))))).))))--).((((((...)))))) ( -29.17)
>DroSec_CAF1 50308 93 - 1
AAAAGGGAAAUGCAAUUCAUUGCCCAAGACAUUCGGACUGGCAAGUAGGAUAUCCAUAU------ACAA----CCGACUUGGCAGU--CAUCCGAGAUCCUCGGA
....(((.((((.....)))).)))..........(((((.(((((.((..........------....----)).))))).))))--).((((((...)))))) ( -29.44)
>DroSim_CAF1 27436 93 - 1
AAAAGGGAAAUGCAAUUCAUUGCCCAAGACAUUCGGACUGGCAAGUAGGAUAUCCAUAU------ACAA----CCGACUUGGCAGU--CAUCCGAGAUCCUCGGA
....(((.((((.....)))).)))..........(((((.(((((.((..........------....----)).))))).))))--).((((((...)))))) ( -29.44)
>DroEre_CAF1 31389 98 - 1
AAGAGGGAA-UGCAAUUCAUGGCCCAAGACAUUCGGACUGGCAAGCAGGAUAUCCAUACAACAGUGCAA----CCGACUUGGCAGU--CAUCCGAGAUCCUCGGA
....(((.(-((.....)))..)))..........(((((.((((..((.....(((......)))...----))..)))).))))--).((((((...)))))) ( -28.80)
>DroYak_CAF1 39268 94 - 1
GAAAGGGAAGUGCAAUUCAUUGCCCAAGACAUUCGGACUGGCAAGGAGGAUACCCAUAU------ACAA----CCGACUUGGCAGUCUCAUCCGAGAUCCUCGC-
....(((.((((.....)))).))).........((((((.((((..((..........------....----))..)))).))))))....((((...)))).- ( -25.54)
>consensus
AAAAGGGAAAUGCAAUUCAUUGCCCAAGACAUUCGGACUGGCAAGUAGGAUAUCCAUAU______ACAA____CCGACUUGGCAGU__CAUCCGAGAUCCUCGGA
....(((.((((.....)))).)))...........((((.(((((.((........................)).))))).))))....((((((...)))))) (-20.80 = -21.88 +   1.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:52:35 2006