Locus 600

Sequence ID 2L_DroMel_CAF1
Location 1,811,893 – 1,812,000
Length 107
Max. P 0.803308
window986

overview

Window 6

Location 1,811,893 – 1,812,000
Length 107
Sequences 4
Columns 113
Reading direction forward
Mean pairwise identity 85.93
Mean single sequence MFE -16.81
Consensus MFE -12.02
Energy contribution -12.34
Covariance contribution 0.31
Combinations/Pair 1.21
Mean z-score -1.96
Structure conservation index 0.72
SVM decision value 0.62
SVM RNA-class probability 0.803308
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1811893 107 + 22407834
---UAUAAACACCCCCUCCCAUCA---CUGAUGACCCACUUCUGCUUGGCCGAGAUUUGCCUACACCUCCUUCUCUGUUUUCCCCAGUAAAUAUUGUAAAUUAUUUUGGCCAA
---................((((.---..)))).............((((((((((.....((((.........(((.......))).......))))....)))))))))). ( -16.89)
>DroSec_CAF1 32054 113 + 1
GAGUAUAAACACCCCCUCCCAUCAUCUCUGAUGACCCACUUCUGCUUGGCCGAGAUUUUCCUUUACCUCCUUCUCUGUUUACCCCAGUAAAUAUUGUAAAUUAUUUUGGCCAA
...................(((((....))))).............((((((((((.....(((((........(((.......)))........)))))..)))))))))). ( -19.99)
>DroSim_CAF1 8843 110 + 1
---UAUAAACACCCCCUCCCAUCAUCUCUGAUGACCCACUUCUGCUUGGCCGAGAUUUUUCUUCACCUCCUUCUCUGUUUACCCCAGUAAAUAUUGUAAAUUAUUUUGGCCAA
---................(((((....))))).............(((((((((................))))(((((((....)))))))..............))))). ( -19.29)
>DroEre_CAF1 20368 105 + 1
---UUCGAAUACC-CCUCCCUC---CUCUGAUGACCCACUUUUGCUUGGCCAAGAUUUUCCU-CACCUCCUUCUUGUCGUUCCCCCGUAAAUAUUGCAAAUUAUGUUGGCCAA
---..........-........---.....................((((((((((......-............)))........(((.....)))........))))))). ( -11.07)
>consensus
___UAUAAACACCCCCUCCCAUCA_CUCUGAUGACCCACUUCUGCUUGGCCGAGAUUUUCCUUCACCUCCUUCUCUGUUUACCCCAGUAAAUAUUGUAAAUUAUUUUGGCCAA
...................((((......)))).............((((((((((.......((.........(((.......))).......))......)))))))))). (-12.02 = -12.34 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:40 2006