Locus 5342

Sequence ID	2R_DroMel_CAF1
Location	17,280,628 – 17,280,730
Length	102
Max. P	0.651060

overview

Window 6

Location	17,280,628 – 17,280,730
Length	102
Sequences	4
Columns	114
Reading direction	forward
Mean pairwise identity	88.58
Mean single sequence MFE	-23.55
Consensus MFE	-18.29
Energy contribution	-18.85
Covariance contribution	0.56
Combinations/Pair	1.03
Mean z-score	-1.59
Structure conservation index	0.78
SVM decision value	0.25
SVM RNA-class probability	0.651060
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17280628 102 + 20766785
GGUUUGCUUAUUUCCAUUCUGACAGGCAAUCGUGUAAAACUAUUUCAAUUUGGCAAAACACCGAAGGUAAGAGUUUACUCU-UGCCAAAGUUUUGCAAGAAUG-----------
...((((((.((........)).))))))((.(((((((((.......(((((.......)))))((((((((....))))-))))..))))))))).))...----------- ( -29.80)
>DroSec_CAF1 3679 102 + 1
UGUUUGCUUAUUUCCAUUUUGACAGGCAAUCGUGUAAAACUAUUUCAAUUUGGCAAAACACCGAAGGUAAGAGCUUACUCU-CGCAAAAGUUUUGCAGAAAUG-----------
...((((((.((........)).))))))((.(((((((((.......(((((.......))))).(..((((....))))-..)...)))))))))))....----------- ( -22.00)
>DroSim_CAF1 5668 102 + 1
UGUUUGCUUAUUUCCAUUCUGACAGGCAAUCGUGUAAAACUAUUUCAAUUUGGCAAAACACCGAAGGUAAGAGCUUACUCU-CGCAAAAGUUUUGCAGAAAUG-----------
...((((((.((........)).))))))((.(((((((((.......(((((.......))))).(..((((....))))-..)...)))))))))))....----------- ( -22.00)
>DroEre_CAF1 2081 113 + 1
UGUUUGCUUAUUUGCAUUCUGACAGGCAAUCGUGUAAAACUAUUUCAAUUUGGCA-AACACCGAAGGUAAGAGUUUACUCUUUGCAAAACUUUUACAGAAAUUACAUUUAAAAA
.(.((((((.((........)).)))))).)(((((.....(((((..(((((..-....))))).((((((((((..........)))))))))).))))))))))....... ( -20.40)
>consensus
UGUUUGCUUAUUUCCAUUCUGACAGGCAAUCGUGUAAAACUAUUUCAAUUUGGCAAAACACCGAAGGUAAGAGCUUACUCU_CGCAAAAGUUUUGCAGAAAUG___________
.(.((((((.((........)).)))))).).(((((((((.......(((((.......))))).(((((((....)))).)))...)))))))))................. (-18.29 = -18.85 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:36 2006