Locus 3855

Sequence ID 3L_DroMel_CAF1
Location 11,164,333 – 11,164,432
Length 99
Max. P 0.732816
window6002

overview

Window 2

Location 11,164,333 – 11,164,432
Length 99
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 76.21
Mean single sequence MFE -21.08
Consensus MFE -11.60
Energy contribution -11.36
Covariance contribution -0.25
Combinations/Pair 1.27
Mean z-score -1.74
Structure conservation index 0.55
SVM decision value 0.43
SVM RNA-class probability 0.732816
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11164333 99 - 23771897
UGUGGGACGAACUUCAACU-UACUAUAUCAGCUGUUGCGC-----CCACAAAAAC--------AA---A-AGAACCAAAGGCGCACCCAAAUUCACGCAACAGUUUUCCCAA--CUUAU
..(((((.(.....)....-.........(((((((((((-----(.........--------..---.-.........)))(....)........))))))))).))))).--..... ( -18.40)
>DroSec_CAF1 24797 99 - 1
UGUGGGACGAACUUCAACU-UACUAUAUCAGCUGUUGCGC-----CCACAAAAAC--------AA---A-AGAACCAAAGGCGCACCCAAAUUCACGCAACAGUUUUCCCAA--CUUAU
..(((((.(.....)....-.........(((((((((((-----(.........--------..---.-.........)))(....)........))))))))).))))).--..... ( -18.40)
>DroSim_CAF1 25496 99 - 1
UGUGGGACGAACUUCAGCU-UACUAUAUCAGCUGUUGCGC-----CCACAAAAAC--------AA---A-AGAACCAAAGGCGCACCCAAAUUCACGCAACAGUUUUCCCAA--CUUAU
..(((((.(((((.(((((-.........))))).(((((-----(.........--------..---.-.........))))))................)))))))))).--..... ( -22.80)
>DroEre_CAF1 26013 105 - 1
UGUGGGACAAACUUUAACU-GACUAUAUCAGCUGUUGCGC-----CCCAAAAAAA--------AAUCAAAAGUAGAAAAGGCGCACCCAAGUUCACGCAACAGUUUUCCCCACACCUAU
((((((...........((-((.....))))(((((((((-----(.........--------................)))((......))....))))))).....))))))..... ( -23.51)
>DroYak_CAF1 26300 98 - 1
UGUGGCACAAACUUUAA-----CUAUAUCAGCUGUUGCGC-----CCCCAAAAAG--------AA---AAGACGAAAAAGGCGCACCCAAAUUCACGCAACAGUUUUCCCCAACCCGAA
.................-----.......((((((((((.-----.........(--------..---....)(((...((.....))...))).)))))))))).............. ( -13.10)
>DroAna_CAF1 27616 111 - 1
UUUGGCUCGAACUUUAACUUUAAUCUAUCAACUGUUGCGCUGCGUCCCCAGUACCCCCUUUGGGA---A---UGACAUGGGCGUGACCGAUGCCACGCAACAGUUUCCCUAC--CCUAU
.............................((((((((((..((((((((((........))))).---.---......((......)))))))..)))))))))).......--..... ( -30.30)
>consensus
UGUGGGACGAACUUCAACU_UACUAUAUCAGCUGUUGCGC_____CCACAAAAAC________AA___A_AGAACCAAAGGCGCACCCAAAUUCACGCAACAGUUUUCCCAA__CCUAU
...((((.(.....)..............((((((((((........................................................)))))))))).))))......... (-11.60 = -11.36 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:25 2006