Locus 2935

Sequence ID 2R_DroMel_CAF1
Location 10,163,622 – 10,163,740
Length 118
Max. P 0.589935
window4843

overview

Window 3

Location 10,163,622 – 10,163,740
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.30
Mean single sequence MFE -32.66
Consensus MFE -21.18
Energy contribution -22.22
Covariance contribution 1.04
Combinations/Pair 1.11
Mean z-score -2.77
Structure conservation index 0.65
SVM decision value 0.11
SVM RNA-class probability 0.589935
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10163622 118 + 20766785
-CAUGGACAUGGACAUGGCCGGCUUCAGCUCAUCCAAUGCUCGGCACCAAUUCAGAAUGCCG-CCCAUGUUCCUCCAUCCUUCUGCCUCCUUGCUGAAAUCCCCACAAGUUCAGGAACUC
-.(((((...((((((((.((((((((((.........))).(....)......))).))))-.)))))))).)))))..(((((....((((.((.......))))))..))))).... ( -32.50)
>DroSec_CAF1 3409 117 + 1
-CAUGGACAUGGACAUGGCCGGCUUCAGCUCAUCCAAUGCUCGGCACCAAUUCAGAAUGCCA-CCCAUGUUCCUCCAUCCUCCUGCC-CCUUGCUAAAAUACCCACAAGUUCAGGAACUC
-.(((((...((((((((..(((((((((.........))).(....)......))).))).-.)))))))).)))))..(((((..-.((((............))))..))))).... ( -30.90)
>DroSim_CAF1 3348 117 + 1
-CAUGGACAUGGACAUGGCCGGCUUCAGCUCAUCCAAUGCUCGGCACCAAUUCAGAAUGCCG-CCCAUGUUCCUCCAUCCUCCUGCC-CCUUGCUAAAAUCCCCACAAGUUCAGGAACUC
-.(((((...((((((((.((((((((((.........))).(....)......))).))))-.)))))))).)))))..(((((..-.((((............))))..))))).... ( -34.40)
>DroEre_CAF1 3412 111 + 1
-CAAGGACAUGGACAUGGCCGGCUUCAGCUCAUCCAAUCCUUGGCAUCAAUUCAGAAUGCCGGGCCAUGUUCCUC-------CUUCC-CGUUGCUAAAAUCCCAACAAGUUCAGGAACUC
-.(((((...(((((((((((((....)))...........(((((((......).)))))))))))))))).))-------))).(-(...(((............)))...))..... ( -32.80)
>DroYak_CAF1 3246 112 + 1
ACGUGGACAUGGACCUGGCCGGCUUCAGUUCAUCCAAUCCUCGGCAUCAAUUCAGAAUGCCGGCCCAUGUUCCUC-------CUGCC-UCUUGCUAAAGUCCCCACAAGUUCAGGAACUC
..(.((((((((.....(((((((((((((.((((.......)).)).))))..))).)))))))))))))))((-------(((..-.((((............))))..))))).... ( -32.70)
>consensus
_CAUGGACAUGGACAUGGCCGGCUUCAGCUCAUCCAAUGCUCGGCACCAAUUCAGAAUGCCG_CCCAUGUUCCUCCAUCCU_CUGCC_CCUUGCUAAAAUCCCCACAAGUUCAGGAACUC
....((((((((...(((..(((....)))...))).....(((((...........)))))..))))))))........(((((....((((............))))..))))).... (-21.18 = -22.22 +   1.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:43:12 2006