Locus 9541

Sequence ID 3R_DroMel_CAF1
Location 25,212,980 – 25,213,085
Length 105
Max. P 0.700073
window15262

overview

Window 2

Location 25,212,980 – 25,213,085
Length 105
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 82.44
Mean single sequence MFE -22.86
Consensus MFE -14.10
Energy contribution -15.22
Covariance contribution 1.12
Combinations/Pair 1.05
Mean z-score -2.00
Structure conservation index 0.62
SVM decision value 0.35
SVM RNA-class probability 0.700073
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25212980 105 + 27905053
UUUAUUUGCGAUUUGGUCACUGCUGAGAGAGUUCUCUACUAUAUAAGUGUGCUAAAAUAACUUACAGCUUGCUUUGCACAUCGGCAAGCAA--------ACAGAAAUGGCAAA
....(((((..((((((((((....((((....))))........)))).))))))..........(((((((.........)))))))..--------.((....))))))) ( -26.10)
>DroSec_CAF1 71372 91 + 1
UUUAUUUGCGAUUUUGCCAC--------------UCUACUAUAUAAGUGUGCUAAAAUAACUUACAGCUUGCUUUGCACAUCGGCAAGCAA--------ACAGAAAUGGCAAA
....(((((.((((((((((--------------(..........)))).))..............(((((((.........)))))))..--------...))))).))))) ( -22.00)
>DroSim_CAF1 71480 91 + 1
UUUAUUUGCGAUUUCGCCAC--------------UCUACUAUAUAAGUGUGCUAAAAUAACUUACAGCUUGCUUUGCACAUCGGCAAGCAA--------ACAGAAAUGGCAAA
....(((((.((((((((((--------------(..........)))).))..............(((((((.........)))))))..--------...))))).))))) ( -24.80)
>DroEre_CAF1 74473 107 + 1
UUUAUUUGCGAUU-CCCCACUGCUGAUAGAGCU-----CUCUAUAAGUGUGCUAAAAUAACUUACAGCUUGCUUUGCACAUCGACAAGCAAACAAGGAAACAGAAAUGCCAAA
.......(((.((-(..(((.(((.(((((...-----.))))).))))))................((((.(((((..........)))))))))......))).))).... ( -18.90)
>DroYak_CAF1 74356 100 + 1
UUUAUUUGCGAUUUGCCCAAUGGUGAUAGAGCU-----CUCUAUAAGUGUGCUAAAAUAACUUACAGCUUGCUUUGCACAUCGACAAGCAA--------ACAGAAAUGGCAAA
....(((((..(((((....(((((.((((((.-----..((.(((((...........))))).))...))))))..)))))....))))--------)((....))))))) ( -22.50)
>consensus
UUUAUUUGCGAUUUCGCCACUG_UGA_AGAG_U_UCUACUAUAUAAGUGUGCUAAAAUAACUUACAGCUUGCUUUGCACAUCGGCAAGCAA________ACAGAAAUGGCAAA
....(((((.(((((............................(((((...........)))))..(((((((.........))))))).............))))).))))) (-14.10 = -15.22 +   1.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:36:47 2006