Locus 7068

Sequence ID 3L_DroMel_CAF1
Location 19,134,228 – 19,134,333
Length 105
Max. P 0.528890
window11456

overview

Window 6

Location 19,134,228 – 19,134,333
Length 105
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 80.18
Mean single sequence MFE -24.29
Consensus MFE -14.04
Energy contribution -14.52
Covariance contribution 0.48
Combinations/Pair 1.11
Mean z-score -1.77
Structure conservation index 0.58
SVM decision value -0.01
SVM RNA-class probability 0.528890
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19134228 105 - 23771897
GGAAAA--UCAGUAAAAAAAAAAAAAAAGAAAAACGAA-GGUAGGGGAGUGAAAGAGCCGCUGAUUGCAGGUGCUGGCUGGCUCU---GGUGACUCUACCUGGAAAAAGUU
......--.............................(-(((((((...((..(((((((((....((....)).))).))))))---..)).)))))))).......... ( -26.80)
>DroSec_CAF1 21656 101 - 1
GGAAAA--UCAGUAAAAAAAG-AAU------AAACGGACG-AAGGGGAGUGAAAGAGCCGCUGAUUGCAGGUGCUGGCUGUCUCUGCUGGUGACUCUACCUGGAAAAAGUU
....((--(((((........-...------.......(.-...)((..(....)..))))))))).(((((((..((.......))..))......)))))......... ( -22.50)
>DroSim_CAF1 22552 102 - 1
GGGAAAAUUCAGUAAAAAAAUAAAG------AAACGGAUGGUAGGGGAGUGAAAGAGCCGCUGAUUGCAGGUGCUGGCUGUCUCC---GGUGACUCUACCUGGAAAAAGUU
.........................------........((((((((((.(..((.(((((.....)).))).))..)...))))---(....)))))))........... ( -22.40)
>DroEre_CAF1 15134 83 - 1
GGAAAA--UCAGUAAAAGGA-----------------A-GGUGGGGGAGUGAAAGAGCCGCUGAUUGCAGGUGCUGGC----UCU---GCUGACUCUACCUGGAA-AAGCU
......--..(((.......-----------------(-(((((((.(((...((((((((...........)).)))----)))---)))..))))))))....-..))) ( -24.62)
>DroYak_CAF1 19724 84 - 1
GGAAAA--UCGUUAAAAAAA-----------------A-GGUAGGGGAGUGAAAGAGCCGCUGAUUGCAGGUGCUGGC----UCU---GCUGACUCUACCUGGAAAAAGCU
......--..(((.......-----------------(-(((((((.(((...((((((((...........)).)))----)))---)))..))))))))......))). ( -25.12)
>consensus
GGAAAA__UCAGUAAAAAAA__AA_______AAACG_A_GGUAGGGGAGUGAAAGAGCCGCUGAUUGCAGGUGCUGGCUG_CUCU___GGUGACUCUACCUGGAAAAAGUU
.......................................((((((((((.(..((.(((((.....)).))).))..)...))))...(....)))))))........... (-14.04 = -14.52 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:36:49 2006