Locus 3178

Sequence ID X_DroMel_CAF1
Location 8,440,441 – 8,440,546
Length 105
Max. P 0.831593
window5214

overview

Window 4

Location 8,440,441 – 8,440,546
Length 105
Sequences 6
Columns 112
Reading direction reverse
Mean pairwise identity 78.71
Mean single sequence MFE -31.40
Consensus MFE -22.94
Energy contribution -22.72
Covariance contribution -0.22
Combinations/Pair 1.17
Mean z-score -1.47
Structure conservation index 0.73
SVM decision value 0.72
SVM RNA-class probability 0.831593
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8440441 105 - 22224390
UGCCACUUGAACGGAAACAGCAGGGAGACAAUGGCUUCGGCCACAGCAGUCAACGUGGCAGGUCUGCGG---CGCGAAUA--AAUCGAUAUGU--AGGAUACGGUAAGGAUA
((((((((((..(....).((..(....)..((((....))))..))..)))).))))))(.((((((.---..(((...--..)))...)))--)))...).......... ( -35.40)
>DroGri_CAF1 58845 106 - 1
UGCCACUUGAACGGAAACAGCAGCGACACAAUCGCCUCAGCGACGGCAGUCAGCGUUGCAGGUCUGCAA-----UGAAGAUUCGGCGAUUCGUUAAUUAUAUG-CAAACAUA
(((.........(....)...(((((....((((((...((....))((((..(((((((....)))))-----))..)))).)))))))))))........)-))...... ( -29.20)
>DroSec_CAF1 7811 103 - 1
UGCCACUUGAACGGAAACAGCAGGGAGACAAUGGCUUCGGCCACAGCAGUCAACGUGGCAGGUCUGCGG-----CGAAUA--AAUCGAUAUGU--AGGAUACGGUAAGGGUA
((((((((((..(....).((..(....)..((((....))))..))..)))).))))))(.((((((.-----(((...--..)))...)))--)))...).......... ( -34.70)
>DroEre_CAF1 3347 103 - 1
UGCCACUUGAACGGGAACAGCAGGGAGACAAUGGCCUCGGCCACAGCAGUCAAUGUGGCAGGUCUGCGG-----GAAAUA--AAUCGAUAUGU--AAAAUGCGGUAAGAAAC
((((((((((..(....).((..(....)..((((....))))..))..)))).))))))...(((((.-----...(((--......)))..--....)))))........ ( -27.40)
>DroYak_CAF1 2047 103 - 1
UGCCACUUGAACGGAAACAGCAGGGAGACAAUGGCCUCGGCCACAGCAGUCAAUGUGGCAGGUCUGCGG-----GUAUUA--AAUCGAUAUGU--AUUAUACGGUAAGGACC
((((((((((..(....).((..(....)..((((....))))..))..)))).))))))(((((....-----((((..--...........--...)))).....))))) ( -31.39)
>DroAna_CAF1 1767 104 - 1
UGCCACUUGAACGGAAACAGCAGGGAGACAAUGGCCUCGGCCACGGCCGUCAAGGUGGCGGGUCUGCAAGGAGGCAAUUA--AAAGCACAUU---AAAUUAU--UAA-GAGG
((((.(((....(....).(((((....)..((((....))))...(((((.....)))))..)))).))).))))....--..........---.......--...-.... ( -30.30)
>consensus
UGCCACUUGAACGGAAACAGCAGGGAGACAAUGGCCUCGGCCACAGCAGUCAACGUGGCAGGUCUGCGG_____CGAAUA__AAUCGAUAUGU__AAAAUACGGUAAGGAUA
((((((((((..(....).((..(....)..((((....))))..))..)))).)))))).................................................... (-22.94 = -22.72 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:05 2006