Locus 1261

Sequence ID 2L_DroMel_CAF1
Location 3,331,964 – 3,332,076
Length 112
Max. P 0.533332
window2061

overview

Window 1

Location 3,331,964 – 3,332,076
Length 112
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 78.64
Mean single sequence MFE -27.05
Consensus MFE -16.76
Energy contribution -16.27
Covariance contribution -0.50
Combinations/Pair 1.30
Mean z-score -1.38
Structure conservation index 0.62
SVM decision value -0.00
SVM RNA-class probability 0.533332
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3331964 112 - 22407834
AAAACUGGCACUGAAUUGAUUGCUAAUAAGCAGGA-CAGCGGCAGAAGCGUAGGCCUUAAAUGCAGGUCUGGUUACUAAGGAUUAUGGAAAUUAGUGAAAUUGAUAUAUAAAA
....(((.(.(((......(((((....)))))..-))).).))).....(((((((.......))))))).(((((((............)))))))............... ( -22.60)
>DroSec_CAF1 18409 112 - 1
AAAACUGGCACUGAAUUGAUUGCUAAUGAGCAGGA-CAGCGGCAGAGGCGUAGGCCUUAAAUGCAGGUCUGGUAACUGAGGAUUGAGGAAAGGAGUGAAAUCGAUAUAUAAAA
....((..(.((.((((...((((....))))(((-(.(((...(((((....)))))...)))..))))..........)))).)))..))..................... ( -22.80)
>DroSim_CAF1 18446 112 - 1
AAAACUGGCACUGAAUUGAUUGCUAAUGAGCAGGA-CAGCGGCAGAGGCGUAGGCCUUGAAUGCAGGUUUGGUAACUAAGGAUUGAUGAAAGGAUUGAAAUCGAUAUAUGAAA
......(..((..((((..(((((....)))))..-..(((...(((((....)))))...))).))))..))..).....((((((............))))))........ ( -23.50)
>DroEre_CAF1 17251 111 - 1
AAAACUGGCACUGAAUUGGUUGCUAAUGAGCAGAA-CGGCGGCAGAGGCGUAAGCCUUAAAUGCUGGCUUGGUAACUAG-GAUUAAAGAAAGAAUGUGAAUAGAUACAUCAUU
....((..(..(((.(((((((((...((((....-(((((...(((((....)))))...))))))))))))))))))-..)))..)..)).(((((......))))).... ( -28.70)
>DroYak_CAF1 18006 112 - 1
AAAACUGGCACUGAAUUGGUUGCUAAUGAGCAGGA-CAGCGGCGGAGGCGUAGGCCUUAAAUGCUGGUUUGGUAACUAGGGAUUAAGGAAAGAAUUAAAGUAAAUAUAUAAUU
....((((.((..(((...(((((....)))))..-(((((...(((((....)))))...))))))))..))..)))).................................. ( -26.70)
>DroPer_CAF1 47234 111 - 1
GAAACUGCCGCUGAACUGGUUGCAAAUGAGUAGAGUCAGC-GCCGAGGCAUAGGCCUUGAAAGCGGGCCUGGUGACUACACAAUGGGAAAAGUUGC-AAGUCCUGGGUUUCAA
(((.((((((((((.(((.((......)).)))..)))))-).((((((....))))))...))))(((..(.((((...((((.......)))).-.)))))..)))))).. ( -38.00)
>consensus
AAAACUGGCACUGAAUUGAUUGCUAAUGAGCAGGA_CAGCGGCAGAGGCGUAGGCCUUAAAUGCAGGUCUGGUAACUAAGGAUUAAGGAAAGAAGUGAAAUCGAUAUAUAAAA
....(((.(.(((......(((((....)))))...))).).)))..((.((((((.........))))))))........................................ (-16.76 = -16.27 +  -0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:58:00 2006