Locus 1716

Sequence ID 3R_DroMel_CAF1
Location 4,932,330 – 4,932,423
Length 93
Max. P 0.974218
window2826

overview

Window 6

Location 4,932,330 – 4,932,423
Length 93
Sequences 5
Columns 104
Reading direction reverse
Mean pairwise identity 91.43
Mean single sequence MFE -29.76
Consensus MFE -29.66
Energy contribution -29.26
Covariance contribution -0.40
Combinations/Pair 1.09
Mean z-score -1.45
Structure conservation index 1.00
SVM decision value 1.73
SVM RNA-class probability 0.974218
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4932330 93 - 27905053
-U-UCCCC---CGCCG------CCGCCAUUGGUAAAGCGCUUACAGCUGCAAAGCUCAUCAGCAGCGUCAGUGGCAGGACAUCAGUAUCCGUAUCAUUCUGGCU
-.-.....---....(------(((((((((((((.....)))).(((((...........)))))..))))))).(((........)))..........))). ( -27.90)
>DroSec_CAF1 39810 94 - 1
UU-UCCCC---CGCCG------CCGCCACUGGUAAAGCGCUUACAGCUGCAAAGCUCAUCAGCAGCGUCAGUGGCAGGACAUCAGUAUCCGUAUCAUUCUGGCU
..-.....---....(------(((((((((((((.....)))).(((((...........)))))..))))))).(((........)))..........))). ( -30.20)
>DroSim_CAF1 39947 95 - 1
UUUUCCCC---CGCCG------CCGCCACUGGUAAAGCGCUUACAGCUGCAAAGCUCAUCAGCAGCGUCAGUGGCAGGACAUCAGUAUCCGUAUCAUUCUGGCU
........---....(------(((((((((((((.....)))).(((((...........)))))..))))))).(((........)))..........))). ( -30.20)
>DroEre_CAF1 39965 97 - 1
UC-UACCCCACCGCCG------CCGCCACUGGUAAAGCGCUUAUAGCUGCAAAGCUCAUCAGCAGCGUCGGUGGCAGGACAUCAGUAUCCGUAUCAUUCUGGCU
..-............(------((((((((((....(((((.((((((....)))).)).))).)).)))))))).(((........)))..........))). ( -30.30)
>DroYak_CAF1 40513 104 - 1
UUUUUCCCCACCGCCGCCUUCGCCGCCACUGGUAAAGCGCUUACAGCUGCAAAGCUCUUCAGCAGCGUCGGUGGCAGGACAUCAGUAUCCAUAUCAUUCUGGCU
....(((((((((.((((((..(((....)))..))).(((...((((....))))....))).))).))))))..)))..((((.............)))).. ( -30.22)
>consensus
UU_UCCCC___CGCCG______CCGCCACUGGUAAAGCGCUUACAGCUGCAAAGCUCAUCAGCAGCGUCAGUGGCAGGACAUCAGUAUCCGUAUCAUUCUGGCU
............(((.........((((((((....(((((...((((....))))....))).)).)))))))).(((........)))..........))). (-29.66 = -29.26 +  -0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:17:36 2006