Locus 4001

Sequence ID 2L_DroMel_CAF1
Location 11,636,220 – 11,636,339
Length 119
Max. P 0.693244
window6309

overview

Window 9

Location 11,636,220 – 11,636,339
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.78
Mean single sequence MFE -23.12
Consensus MFE -18.14
Energy contribution -18.38
Covariance contribution 0.24
Combinations/Pair 1.05
Mean z-score -1.71
Structure conservation index 0.78
SVM decision value 0.33
SVM RNA-class probability 0.693244
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11636220 119 - 22407834
CCUUCCCUGCAUUUGCAGCGCAUUUCGCGACGCCAUUUAAAACAAACAUAAAAA-AAAGCCCAGCAAAACACACCGUGAAGUGCUAAAAUUAAAGCAACAGCAGCUAAUUACACAGCGAC
......((((....)))).((((((((((......((((.........))))..-...((...)).........))))))))))..........((....)).(((........)))... ( -20.40)
>DroSec_CAF1 89509 119 - 1
CCUUCCCUGCAUUUGCAGCGCAUUUCGCGACGCCAUUUAAAACAAACAUAAAAA-AAAGCCCAGCAAAACACACAGUGAAGUGCUAAAAUUAAAGCAACAGCAGCUAAUUACACGGCGAC
......((((....))))(((.....))).((((....................-.......((((...(((...)))...))))........(((.......)))........)))).. ( -22.30)
>DroSim_CAF1 93341 120 - 1
CCUUCCCUGCAUUUGCAGCGCAUUUCGCGACGCCAUUUAAAACAAAUAUAAAAAAAAAACCCAGCAAAACACACCGUGAAGUGCUAAAAUUAAAGCAACAGCAGCUAAUUACACGGCGAC
......((((....))))(((.....))).((((............................((((...(((...)))...))))........(((.......)))........)))).. ( -22.30)
>DroEre_CAF1 119585 115 - 1
-CUCCCCUGCAUUUGCAGCGCAUUUCGCGACGCCAUUUAAAACAAACAUAAAAA--AAGGCCAGCAAAAC--ACCGUGAAGUGCUGAAAUUAAAGCAACAGCAGCUAAUUACACGGCGAC
-.((.((.((....))(((((((((((((..(((.(((..............))--).)))..(.....)--..))))))))))..........((....)).)))........)).)). ( -22.94)
>DroYak_CAF1 93035 115 - 1
-GUUCCGUGCAUUUGCAGCGCAUUUCGCGAUGCCAUUUAAAACAAACAUAAAAA--AAGGCCAGCAAAAC--AGCGUGAAGUGCUAAAAUUAAAGCAACAGCAGCUAAUUACACGGCGAC
-((((((((.......((((((((((((...(((.(((..............))--).)))..((.....--.)))))))))))..........((....)).))).....))))).))) ( -27.64)
>consensus
CCUUCCCUGCAUUUGCAGCGCAUUUCGCGACGCCAUUUAAAACAAACAUAAAAA_AAAGCCCAGCAAAACACACCGUGAAGUGCUAAAAUUAAAGCAACAGCAGCUAAUUACACGGCGAC
......((((....))))(((.....))).((((............................((((..((.....))....))))........(((.......)))........)))).. (-18.14 = -18.38 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:52 2006