Locus 3729

Sequence ID 3R_DroMel_CAF1
Location 10,122,311 – 10,122,427
Length 116
Max. P 0.985657
window5977

overview

Window 7

Location 10,122,311 – 10,122,427
Length 116
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 86.60
Mean single sequence MFE -22.08
Consensus MFE -18.40
Energy contribution -18.44
Covariance contribution 0.04
Combinations/Pair 1.06
Mean z-score -2.35
Structure conservation index 0.83
SVM decision value 2.01
SVM RNA-class probability 0.985657
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10122311 116 + 27905053
CACCUCCCCCCCCCCC-CUCUGUUAGAGCCAAAGUGCCAAAAA---GCAUUUAACAUUCAUUUCUGCGCCAAUAAACGCGUACAAUAACAAUAAGGCAAUAACAUACAGUACGAUCAUGU
................-...(((((..(((.((((((......---))))))............(((((........)))))............)))..)))))................ ( -19.10)
>DroSec_CAF1 31569 113 + 1
---CUCCCCCCUCCCC-CUCUGUUAGAGCCAAAGUGCCAAAAA---GCAUUUAACAUUCAUUUCUGCGCCAAUAAACGCGCACAAUAACAAUAAGGCAAUAACAUACAGUACGAUCAUGU
---.............-...(((((..(((.((((((......---))))))............(((((........)))))............)))..)))))................ ( -21.10)
>DroSim_CAF1 27983 113 + 1
---CACCCCCCUCCCC-AUCUGUUAGAGCCAAAGUGCCAAAAA---GCAUUUAACAUUCAUUUCUGCGCCAAUAAACGCGCACAAUAACAAUAAGGCAAUAACAUACAGUACGAUCAUGU
---.............-...(((((..(((.((((((......---))))))............(((((........)))))............)))..)))))................ ( -21.10)
>DroEre_CAF1 31312 104 + 1
------------CCUC-CUCUGUUAGAGCCCAAGUGCCAAAAA---GCAUUUAACAUUCAUUUCUGCGCCAAUAAACGCGCACGAUAACAAUGAGGCUAUAACAUAUAGUACGAUCAUGU
------------....-...(((((.((((.((((((......---))))))..((((....(((((((........))))).))....)))).)))).)))))................ ( -24.70)
>DroYak_CAF1 32073 108 + 1
------------UGUCGCUCUGUUAGAGCCAAAGUGCCAAAAAGUGGCAUUUAACAUUCAUUUCUGCGCCAAUGAACGCGCACACAAACAAUAAGGCAAUCACUUAUAUUACGAUCAUGU
------------....((((.....))))..((((((((.....)))))))).((((((.....(((((........)))))........(((((.......))))).....))..)))) ( -24.40)
>consensus
___C_CCCCCC_CCCC_CUCUGUUAGAGCCAAAGUGCCAAAAA___GCAUUUAACAUUCAUUUCUGCGCCAAUAAACGCGCACAAUAACAAUAAGGCAAUAACAUACAGUACGAUCAUGU
.....................((((..(((.((((((.........))))))............(((((........)))))............)))..))))................. (-18.40 = -18.44 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:36 2006