Locus 1777

Sequence ID 3L_DroMel_CAF1
Location 5,065,179 – 5,065,286
Length 107
Max. P 0.694613
window2754

overview

Window 4

Location 5,065,179 – 5,065,286
Length 107
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.46
Mean single sequence MFE -35.98
Consensus MFE -28.84
Energy contribution -29.36
Covariance contribution 0.52
Combinations/Pair 1.04
Mean z-score -1.53
Structure conservation index 0.80
SVM decision value 0.34
SVM RNA-class probability 0.694613
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5065179 107 + 23771897
AAUGGUCUGUAUGAUUGCCCCAAAGAGAAAGGGACG-------------GAUGGGGUGACCACUUCGCUCCAAGGUCGUAAUGAAGGCAGACAAACCCAAUCAGGCAGCAUCGCUUACAG
...(((((((.((((((.(((.........)))..(-------------(.((((((((.....))))))))..(((........))).......)))))))).)))).)))........ ( -30.20)
>DroSec_CAF1 271676 107 + 1
AAUGGUCUGUGUGAUUGCCCCAAAGAGAAAGGGGCG-------------GAUGGGGUGACCACUUCGCUCCAAGGUCGUAAUGAAGGCAGACAAACCCAAUCAGGCAGCAUCGCUUACAG
...(((((((.((((((((((.........)))))(-------------(.((((((((.....))))))))..(((........)))........))))))).)))).)))........ ( -37.70)
>DroSim_CAF1 293008 107 + 1
AAUGGUCUGUAUGAUUGCCCCAAAGAGAAAGGGGCG-------------GAUGGGGUGACCACUUCGCUCCAAGGUCGUAAUGAAGGCAGACAAACCCAAUCAGGCAGCAUCGCUUACAG
...(((((((.((((((((((.........)))))(-------------(.((((((((.....))))))))..(((........)))........))))))).)))).)))........ ( -35.60)
>DroEre_CAF1 278595 114 + 1
AAUGGUCUGUAUGAUUGCCCCAAAGAGAAAGGGGCGGGGAGG------GGAUGGGAAGGCCACUCCGCUCCAAGGUCGUAAUGAAGGCAGACAAACCCAAUCAGGCAGCAUCGCUUACAG
...(((((((.((((((((((.........)))))((((((.------((((((.....))).))).))))...(((........)))........))))))).)))).)))........ ( -40.70)
>DroYak_CAF1 282378 120 + 1
AAUGGUCUGUAUGAUUGCCACAAAGAGAAAGGGGCAGAUGGGGCAGAUGGAUGGGGUGGCCACUCCCCUCCAAGGUCGUAAUGAAGGCAGACAAACCCAAUCAGGCAGCAUCGCUUACAG
...(((((((.((((((((.(.........).))))).((((.....((((.((((.(....).))))))))..(((........))).......)))).))).)))).)))........ ( -35.70)
>consensus
AAUGGUCUGUAUGAUUGCCCCAAAGAGAAAGGGGCG_____________GAUGGGGUGACCACUUCGCUCCAAGGUCGUAAUGAAGGCAGACAAACCCAAUCAGGCAGCAUCGCUUACAG
...(((((((.((((((((((.........)))))................((((((((.....))))))))..(((........)))..........))))).)))).)))........ (-28.84 = -29.36 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:07 2006