Locus 2274

Sequence ID 3R_DroMel_CAF1
Location 6,457,489 – 6,457,592
Length 103
Max. P 0.822723
window3681

overview

Window 1

Location 6,457,489 – 6,457,592
Length 103
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 74.05
Mean single sequence MFE -25.42
Consensus MFE -11.14
Energy contribution -13.77
Covariance contribution 2.63
Combinations/Pair 1.15
Mean z-score -2.05
Structure conservation index 0.44
SVM decision value 0.69
SVM RNA-class probability 0.822723
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6457489 103 + 27905053
UAUGGCCAGAA--G-----UUGAGGAGGCCAGGGGCAGG-CACUCCUGGCU------AUAAGA---ACUAACAAAAUAUAUUAAUGACUUAUCAAGGAUAAUUUGACAACGGGCCAUAAA
(((((((....--(-----(((....(((((((((....-..)))))))))------......---.....((((...((((..(((....)))..)))).)))).)))).))))))).. ( -34.40)
>DroVir_CAF1 249090 106 + 1
CAACGUCGACU--ACGACUAC--GACGGCCGGGAACCGGGUACCACUG---------AGAAGAGUGGCCA-AAAAAUAUAUUAAUGACUUAUCAAGGAUAAUUUGACAAUGCGCAAUAAA
...(((((...--.......)--)))).((((...))))((((((((.---------.....)))))...-.......((((..(((....)))..)))).........)))........ ( -19.00)
>DroSim_CAF1 247280 103 + 1
UAUGGCCAGAA--G-----UUGAGGAGGCCAGGGGCAGG-CACUCCUGGCU------AUAAGA---ACUAACAAAAUAUAUUAAUGACUUAUCAAGGAUAAUUUGACAACGGGCCAUAAA
(((((((....--(-----(((....(((((((((....-..)))))))))------......---.....((((...((((..(((....)))..)))).)))).)))).))))))).. ( -34.40)
>DroEre_CAF1 232832 109 + 1
UAUGGCCAGAA--A-----UCGAGGCGGCCAGGGGCAGG-CACUCCUGGUUACGAGUAAGAGA---ACUAACAAAAUAUAUUAAUGACUUAUCAAGGAUAAUUUGACAAGGGGCCAUAAA
(((((((....--.-----(((..(..((((((((....-..))))))))..).(((......---)))...............)))(((.(((((.....))))).))).))))))).. ( -31.60)
>DroWil_CAF1 326867 88 + 1
CAGAGCAAUAAUGA-----CUGAGACGACAA---ACGGG-GCC-------------------A---GCCA-AAAAAUAUAUUAAUGACUUAUCAAGGAUAAUUUGACAAUGGGCAAUAAA
(((..((....)).-----))).........---.....-(((-------------------.---....-..((((.((((..(((....)))..)))))))).......)))...... (  -8.54)
>DroYak_CAF1 227105 103 + 1
CAGGGCCAGAA--A-----UCGAGGCGGCGAGGGGCAGG-CACUCCUGGCU------AAAAGA---ACUAACAAAAUAUAUUAAUGACUUAUCAAGGAUAAUUUGACAACGGGCCAUAAA
...((((....--.-----(((((..(((.(((((....-..))))).)))------......---............((((..(((....)))..)))).))))).....))))..... ( -24.60)
>consensus
CAUGGCCAGAA__A_____UCGAGGCGGCCAGGGGCAGG_CACUCCUGGCU______AAAAGA___ACUAACAAAAUAUAUUAAUGACUUAUCAAGGAUAAUUUGACAACGGGCCAUAAA
...((((...................(((((((((.......)))))))))...........................((((..(((....)))..))))...........))))..... (-11.14 = -13.77 +   2.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:31:23 2006