Locus 5489

Sequence ID 2L_DroMel_CAF1
Location 15,696,818 – 15,696,920
Length 102
Max. P 0.791401
window8709

overview

Window 9

Location 15,696,818 – 15,696,920
Length 102
Sequences 5
Columns 115
Reading direction reverse
Mean pairwise identity 79.86
Mean single sequence MFE -20.24
Consensus MFE -13.06
Energy contribution -13.14
Covariance contribution 0.08
Combinations/Pair 1.10
Mean z-score -1.89
Structure conservation index 0.65
SVM decision value 0.59
SVM RNA-class probability 0.791401
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15696818 102 - 22407834
UUCGAGUGCUACCCAUAUUGUAUACAUAUUGUAUAUAGUUUUUUUUCGCUACCACCGCAUGC------UGC-------CCCUCCGCUGUACUUCGCAUCCGUGACAGGACACUCU
...(((((........(((((((((.....)))))))))...............((...(((------.((-------......)).)))..((((....))))..)).))))). ( -19.80)
>DroSec_CAF1 25306 113 - 1
UUCGAGUGCUACCCAUAUUGUAUACAUAUUGUAUAUAGUUUU-UUUCUCUACCACCCCAUUCAGACCCUGCCCCACUACUCUCCCCUGUACUUCCCAU-CGUGACAGGACACUCU
...(((((........(((((((((.....)))))))))...-.........................................(((((((.......-.)).))))).))))). ( -19.50)
>DroSim_CAF1 17450 97 - 1
UUCGAGUGCUACCCAUAUUGUAUACAUAUUGUAUAUAGUUUU-UUUCGCUACCACCC----------------CACUACUCUCCCCUGUACUACCCAU-CGUGACAGGACACUCU
...(((((........(((((((((.....)))))))))...-..............----------------...........(((((((.......-.)).))))).))))). ( -19.50)
>DroEre_CAF1 25663 111 - 1
UUCGAGUGCUACCCAUAUUGUAUACAUAUUGUAUAUAGUUUU-UUGUGCUACCAUCC-CUGCAGUCCCCCCGCCGCCACACUCCC-GGUACUUCCCAU-CGUGACAGGACACUGU
....((..(.......(((((((((.....)))))))))...-..)..)).......-..(((((..((..((((.........)-)))((.......-.))....))..))))) ( -19.00)
>DroYak_CAF1 26822 112 - 1
UUCGAGUGCUACCCAUAUUGUAUACAUAUUGUAUAUAGUUUU-UUGCGCCACAACCC-UUGCAGCGCCUCCCCCACCACACUCCCUAGCAUUUCGCAU-UGUGACAGGACACUGC
...((((((((.....(((((((((.....)))))))))...-..((((..((....-.))..))))..................)))))))).(((.-(((......))).))) ( -23.40)
>consensus
UUCGAGUGCUACCCAUAUUGUAUACAUAUUGUAUAUAGUUUU_UUUCGCUACCACCC_AUGCAG__CCUCC_CCACCACACUCCCCUGUACUUCCCAU_CGUGACAGGACACUCU
...(((((........(((((((((.....)))))))))..........................................(((....(((.........)))...)))))))). (-13.06 = -13.14 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:22 2006