Locus 1428

Sequence ID X_DroMel_CAF1
Location 4,307,833 – 4,307,941
Length 108
Max. P 0.551455
window2278

overview

Window 8

Location 4,307,833 – 4,307,941
Length 108
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 72.96
Mean single sequence MFE -21.61
Consensus MFE -1.72
Energy contribution -1.92
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.39
Structure conservation index 0.08
SVM decision value 0.04
SVM RNA-class probability 0.551455
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4307833 108 - 22224390
GCGGGCAGAGCCUUAAAUGUGCACUUAAAAAAAAAACA-GUUCGACUUAUGAUUGCUAG--UAUAUUGACACAAAAGUCAGAAUAUUGUUUUCAAUAU-AGAAGAAAACA-----CU
((((((...)))).......))................-.(((..((..(((..((.((--(((.(((((......))))).)))))))..)))....-))..)))....-----.. ( -16.11)
>DroSec_CAF1 94071 106 - 1
GCGGGCAGAGCCUUAAAUGUGCACUAACAAAA-----A-GUUCGACAUACGAUUGCUAGUGUAUAUUGACACAAAAGCCAGAAAAUGGUUUUCAAUAUUAGAGGAAAUCC-----GU
(((((.....((((.(((((((((((.(((..-----.-..(((.....)))))).)))))))))))......(((((((.....)))))))........))))...)))-----)) ( -27.90)
>DroSim_CAF1 87665 106 - 1
GCGAGCAGAGCCUUAAAUGUGCACUAACAAAA-----A-GUUCGACAUACGAUUGCUAGUGUAUAUUGACACAAAAGCCAGAAAAUGGUUUUCAAUAUUAGAGGAAAUCC-----GU
....((.((.((((.(((((((((((.(((..-----.-..(((.....)))))).)))))))))))......(((((((.....)))))))........))))...)).-----)) ( -24.70)
>DroEre_CAF1 101215 110 - 1
GCGGGCACAACAAGAAAAGUGCACUAAAAAAA-----AUAUUCAAUACAAAAUUACUAA--UGUUGUGGCAUAGAAGUAGGGAAAUAGCUUUGAAUAUAAGAGGAAAUGUCUCCCUA
...(.(((((((.....((((...........-----................))))..--))))))).).......((((((.(((.((((........))))...))).)))))) ( -19.03)
>DroYak_CAF1 96030 109 - 1
CCGGGCACAACCAGAAAUGUGCACUAACAAAA-----A-GUUUGAUAUACAAUUACUAG--UAUAUUGACAUGAAAGCGGAAAAAUAGUUGGGAAUAUUUAAGGAAAUCUCUUUCCU
(((.(((((........)))))..........-----.-(.(..((((((........)--)))))..)).......)))..(((((........))))).((((((....)))))) ( -20.30)
>consensus
GCGGGCAGAGCCUUAAAUGUGCACUAACAAAA_____A_GUUCGACAUACGAUUGCUAG__UAUAUUGACACAAAAGCCAGAAAAUAGUUUUCAAUAUUAGAGGAAAUCC_____CU
....(((.(........).)))............................................................................................... ( -1.72 =  -1.92 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:09:12 2006