Locus 402

Sequence ID 3L_DroMel_CAF1
Location 1,183,459 – 1,183,575
Length 116
Max. P 0.636203
window588

overview

Window 8

Location 1,183,459 – 1,183,575
Length 116
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 90.96
Mean single sequence MFE -43.25
Consensus MFE -36.90
Energy contribution -36.77
Covariance contribution -0.13
Combinations/Pair 1.06
Mean z-score -1.49
Structure conservation index 0.85
SVM decision value 0.21
SVM RNA-class probability 0.636203
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1183459 116 + 23771897
GCUUUGGGCCACUUUCUUCGGAGGUGGUUCAGUG----AACGGGUUGUGGCGGUGGGCCUGGUCGGAUCUGCCUUUGGGCAAAGUGCUCUAACAGGAGCAGCGACUAAGACUAACUAGUU
...(((((((((((.(....))))))))))))..----(((.(((((.(((.....)))((((((....((((....))))...((((((....)))))).))))))....))))).))) ( -43.50)
>DroSec_CAF1 7711 116 + 1
GCUUUGGGCCACUUUCUUCGGAGGUGGUUCAGUG----AACGGGUUGUGGUGGUGGGCCUGGUCGGAUCUGCCUUUGGGCAAAGUGCUCCAACAGGAGCAGCGACUAAGACUAACUAAUU
...(((((((((((.(....))))))))))))..----....((((.((((.((..(((..(..((.....)).)..)))....((((((....)))))))).)))).))))........ ( -42.90)
>DroSim_CAF1 6568 116 + 1
GCUUUGGGCCACUUUCUUCGGAGGUGGUUCAGUG----AACGGGUUGUGGUGGUGGGCCUGGUCGGAUCUGCCUUUGGGCAAAGUGCUCCAACAGGAGCAGCGACUAAGACUAACUAAUU
...(((((((((((.(....))))))))))))..----....((((.((((.((..(((..(..((.....)).)..)))....((((((....)))))))).)))).))))........ ( -42.90)
>DroYak_CAF1 8629 116 + 1
UCUUUGGGCCACUUUCUUCGGAGGUGGUUCACCGACGCAACGGGUUC-GCUGGUGG---UGGUGGGAUCUGCCUUUGGGCAAAGUGCUCUAACAGGAGCACCGACUAAAGCUAAGUAAUU
....((((((((((.(....)))))))))))(((......)))....-((((((..---((((.((...((((....))))...((((((....)))))))).))))..))).))).... ( -43.70)
>consensus
GCUUUGGGCCACUUUCUUCGGAGGUGGUUCAGUG____AACGGGUUGUGGUGGUGGGCCUGGUCGGAUCUGCCUUUGGGCAAAGUGCUCCAACAGGAGCAGCGACUAAGACUAACUAAUU
....(((((((((((.....)))))))))))................(((...(((...((((((....((((....))))...((((((....)))))).))))))...))).)))... (-36.90 = -36.77 +  -0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:58 2006