Locus 1338

Sequence ID 2R_DroMel_CAF1
Location 5,160,004 – 5,160,102
Length 98
Max. P 0.897928
window2316

overview

Window 6

Location 5,160,004 – 5,160,102
Length 98
Sequences 5
Columns 104
Reading direction forward
Mean pairwise identity 76.25
Mean single sequence MFE -23.50
Consensus MFE -15.68
Energy contribution -15.24
Covariance contribution -0.44
Combinations/Pair 1.23
Mean z-score -1.80
Structure conservation index 0.67
SVM decision value 1.00
SVM RNA-class probability 0.897928
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5160004 98 + 20766785
UCUGCCCAGUCGGCAGACUGACCGCCCCCUGCGCCGCCCCCUGCGCCGCCCCAUUCAG--GUCCCCAUUCCU----CGGGGGGGAUAAUUUUUCAUUUUCAUCC
((((((.....))))))....((.(((((.(((.(((.....))).))).......((--(........)))----.))))))).................... ( -31.50)
>DroSec_CAF1 35735 88 + 1
UCUGCCCAGUCGGCAGACUGACCGCCCCCUGCCCC----------CCGCCCCAUUCAA--GUUCCCAUUCCU----CGGGGGGGAUAAUUUUUCAUUUUCAUCC
((((((.....))))))..............((((----------(((..........--............----)))))))..................... ( -22.15)
>DroSim_CAF1 21885 88 + 1
UCUGCCCAGUCGGCAGACUGACCGCCCCCUGCCCC----------CCACCCCAUUCAA--AUCCCCAUUCCU----CGGGGGGGAUAAUUUUUCAUUUUCAUCC
((((((.....))))))..............((((----------((...........--............----.))))))..................... ( -20.66)
>DroYak_CAF1 35909 79 + 1
UCUGCACAGUCGGCAGACUGAACACCU-CGGCCCC----------CC--------AAA--GUUCCCAUUCCU----CGGGGGGGAUAAUUUUUCAUUUUCAUCC
(((((.......)))))((((.....)-)))((((----------((--------..(--(.........))----..)))))).................... ( -21.10)
>DroAna_CAF1 57504 93 + 1
GCUGACCAGUCGGCUGACUGACUGCCAUCAUAUUU----------CCAC-UCAUCCAACCAUCCUCCUGCGCCAGAUGGGGGGGAUAAUUUUUCAUUUUCAUCC
..(((.(((((((....)))))))...)))(((..----------((.(-(((((...(((......)).)...))))))))..)))................. ( -22.10)
>consensus
UCUGCCCAGUCGGCAGACUGACCGCCCCCUGCCCC__________CCACCCCAUUCAA__GUCCCCAUUCCU____CGGGGGGGAUAAUUUUUCAUUUUCAUCC
......(((((....)))))........................................((((((...((......)).)))))).................. (-15.68 = -15.24 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:33 2006