Locus 400

Sequence ID 3R_DroMel_CAF1
Location 1,484,768 – 1,484,877
Length 109
Max. P 0.646482
window656

overview

Window 6

Location 1,484,768 – 1,484,877
Length 109
Sequences 5
Columns 110
Reading direction reverse
Mean pairwise identity 78.60
Mean single sequence MFE -25.46
Consensus MFE -14.24
Energy contribution -15.76
Covariance contribution 1.52
Combinations/Pair 1.29
Mean z-score -1.85
Structure conservation index 0.56
SVM decision value 0.23
SVM RNA-class probability 0.646482
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1484768 109 - 27905053
CACU-CCGUCACCAUCUCUAGAGGUGAUGAUCUCUCAGGCUCAGAUUCUCUGGCCAAAAUCUCUAGUUAAUGACAUCGGUUGCACACCCGACCCCUAUUGUUAUCGAUAC
....-.(((((((.((....)))))))))........(((.(((.....))))))..........((..((((((..(((((......))))).....))))))..)).. ( -29.70)
>DroSec_CAF1 3831 108 - 1
CAC--CCGUCGCCAUCUCCAGAGGUGAUGAUCUCUCAGGCUCAGAUUCUCUGGCCAAAAUCUCUAGUUAAUAACAUCGGUUGCACACCCGACCGCUAUUGUUGUCGAUAC
...--.(((((((.((....)))))))))........(((.(((.....))))))..........((..((((((.((((((......))))))....))))))..)).. ( -32.00)
>DroSim_CAF1 3826 108 - 1
CAC--CCGUCGCCAUCUCCAGAGGUGAUGAUCUCUCAGGCUAAGAUUCUCUGGCCAAAAUCUCUAGUUAAUAACAUCGGUUGCACACCCGACCGCUAUUGUUAUCGAUAC
...--.(((((((.((....)))))))))........(((((........)))))..........((..((((((.((((((......))))))....))))))..)).. ( -29.80)
>DroEre_CAF1 4155 94 - 1
CACCCCCCACGCCAUCUGGUGAGGAG---AUCUCUCGGGCCAAGAUUCUCUGUCCAAAA---CC------GUAUACUGGUU----ACCCGAUCGCUUUUGCUAUCGAUAC
.....(((.((((....))))..(((---....))))))..................((---((------(.....)))))----...((((.((....)).)))).... ( -21.40)
>DroYak_CAF1 3697 100 - 1
CACC-CCCACGCCAUCUGUUGAGGCG---AUCUCUCAGGCCAAGAUUCUCUGUCCAAAAUCUCC------UUAUACCGGUUGCACACCCAAACGCAUUUGCUAUCAAUAC
....-.....((.(((.(((((((.(---((....((((.........))))......))).))------))).)).))).))..........((....))......... ( -14.40)
>consensus
CAC__CCGUCGCCAUCUCCAGAGGUGAUGAUCUCUCAGGCUAAGAUUCUCUGGCCAAAAUCUCUAGUUAAUAACAUCGGUUGCACACCCGACCGCUAUUGUUAUCGAUAC
......(((((((.((....)))))))))........((((.((.....)))))).....................((((((......))))))................ (-14.24 = -15.76 +   1.52) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:16 2006