Locus 2000

Sequence ID 3L_DroMel_CAF1
Location 5,480,140 – 5,480,260
Length 120
Max. P 0.681294
window3132

overview

Window 2

Location 5,480,140 – 5,480,260
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 97.89
Mean single sequence MFE -34.57
Consensus MFE -30.99
Energy contribution -31.18
Covariance contribution 0.20
Combinations/Pair 1.03
Mean z-score -1.25
Structure conservation index 0.90
SVM decision value 0.31
SVM RNA-class probability 0.681294
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5480140 120 - 23771897
GCCAUUAAUUCUUAUUUAUUCGCAGUAAUGUCAACGUACAAGGAUCCAUUUCCCGGCUGGACUGAUAAUUUGUACGGGCCAUCAGGUUUAUGCACUUGGUCCGCCCGGGGACUCGUCCGU
.....................(((....)))..........((((....(((((((.(((((..(.....((((..((((....))))..)))).)..))))).)))))))...)))).. ( -35.90)
>DroVir_CAF1 23850 120 - 1
GCCAUUAAUUCUUAUUUAUUUGCAGUAAUGUCAACGUACAAGGAUCCAUUUCCCGGCUGGACUGAUAAUUUGUACGGGCCAUCAGGUUUAUGCACUUGGUCAGCCCGGGGACUCGUACGU
.....................(((....)))..((((((..(....)..((((((((((.((..(.....((((..((((....))))..)))).)..))))).)))))))...)))))) ( -34.20)
>DroGri_CAF1 2351 120 - 1
ACCAUUAAUUCUUAUUUAUUUGCAGUAAUGUCAACGUACAAGGAUCCAUUUCCCGGCUGGACUGAUAAUUUGUACGGGCCAUCAGGUUUAUGCACUUGGUCAGCUCGGGGACUCGUACGU
.....................(((....)))..((((((..(....)..((((((((((.((..(.....((((..((((....))))..)))).)..)))))).))))))...)))))) ( -34.20)
>DroWil_CAF1 5760 120 - 1
ACCAUUAAUUCUUAUUUAUUUGCAGUAAUGUCAACGUACAAGGAUCCAUUUCCCGGCUGGACUGAUAAUUUGUACGGGCCAUCAGGUUUAUGCACUUGGUCGGCCCGGGGACUCGUACGU
........................(((..(((..((((((((((......)))(((.....))).....))))))((((((((((((......))))))).))))))..)))...))).. ( -35.40)
>DroMoj_CAF1 35420 120 - 1
GCCAUUAAUUCUUAUUUAUUUGCAGUAAUGUCAACGUACAAGGAUCCAUUUCCCGGCUGGACUGAUAAUUUGUACGGGCCAUCAGGUUUAUGCACUUGGUCAGCCCGGGGACUCGUACGU
.....................(((....)))..((((((..(....)..((((((((((.((..(.....((((..((((....))))..)))).)..))))).)))))))...)))))) ( -34.20)
>DroPer_CAF1 3486 120 - 1
GCCAUUAAUUCUUAUUUAUUUGCAGUAAUGUCAACGUACAAGGAUCCAUUUCCCGGCUGGACUGAUAAUUUGUACGGGCCAUCAGGUUUAUGCACUUGGUCUGCCCGGGGACUCGUCCGU
...................(((((....)).))).......((((....(((((((..((((..(.....((((..((((....))))..)))).)..))))..)))))))...)))).. ( -33.50)
>consensus
GCCAUUAAUUCUUAUUUAUUUGCAGUAAUGUCAACGUACAAGGAUCCAUUUCCCGGCUGGACUGAUAAUUUGUACGGGCCAUCAGGUUUAUGCACUUGGUCAGCCCGGGGACUCGUACGU
.....................(((....)))..((((((..(....)..(((((((...(((..(.....((((..((((....))))..)))).)..)))...)))))))...)))))) (-30.99 = -31.18 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:10 2006