Locus 1500

Sequence ID 2R_DroMel_CAF1
Location 5,685,695 – 5,685,785
Length 90
Max. P 0.747296
window2543

overview

Window 3

Location 5,685,695 – 5,685,785
Length 90
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 90.88
Mean single sequence MFE -28.18
Consensus MFE -25.20
Energy contribution -24.70
Covariance contribution -0.50
Combinations/Pair 1.12
Mean z-score -1.43
Structure conservation index 0.89
SVM decision value 0.47
SVM RNA-class probability 0.747296
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 5685695 90 - 20766785
GCUUCAAACGAGCAUUUCGGGCCCGCUAGCAAAAAGCUG-UUCAUAAAUUGCAUGUUGGCUUUUGUGUUGGCAUGUCGCUCCCGAGGAC-----------CC
((((.....)))).(((((((...((((((.....))))-..........((((((..((......))..)))))).)).)))))))..-----------.. ( -28.40)
>DroPse_CAF1 20577 91 - 1
GCUUCAAACGAGCAUUUCGGGCCCGCCAGCAAAAAGCUGCUUCAUAAAUUGCAUGUUGGCUUUUGUGUUGGCAUGUCGCCCCCGCCCAC-----------UC
((((.....)))).....((((..((((((.....))))...........((((((..((......))..)))))).))....))))..-----------.. ( -28.20)
>DroSec_CAF1 22624 90 - 1
GCUUCAAACGAGCAUUUCGAGCCCGCCAGCAAAAAGCUG-UUCAUAAAUUGCAUGUUGGCUUUUGUGUUGGCAUGUCGCUCCCGAGGAC-----------CC
.((((....((((.....(....)(((((((((((((((-..(((.......))).)))))))).))))))).....))))..))))..-----------.. ( -25.30)
>DroYak_CAF1 23572 90 - 1
GCUUCAAACGAGCAUUUCGGGCCCGCCAGCAAAAAGCUG-UUCAUAAAUUGCAUGUUGGCUUUUGUGUUGGCAUGUCGCUCCCGAGGAC-----------CC
((((.....)))).(((((((..((.((((.....))))-..........((((((..((......))..))))))))..)))))))..-----------.. ( -29.90)
>DroAna_CAF1 24978 101 - 1
GCUUCAAACGAGCAUUUCGGGCCCGCCAGCAAAAAGCUG-UUCAUAAAUUGCAUGUUGGCUUUUGUGUUGGCAUGUCGCUCCCGUUGCCGCUUCCCUUCUCC
........((.(((...((((..((.((((.....))))-..........((((((..((......))..))))))))..)))).)))))............ ( -29.10)
>DroPer_CAF1 20381 91 - 1
GCUUCAAACGAGCAUUUCGGGCCCGCCAGCAAAAAGCUGCUUCAUAAAUUGCAUGUUGGCUUUUGUGUUGGCAUGUCGCCCUCGCCCAC-----------UC
((((.....)))).....((((..((((((.....))))...........((((((..((......))..)))))).))....))))..-----------.. ( -28.20)
>consensus
GCUUCAAACGAGCAUUUCGGGCCCGCCAGCAAAAAGCUG_UUCAUAAAUUGCAUGUUGGCUUUUGUGUUGGCAUGUCGCUCCCGAGGAC___________CC
((((.....)))).....((((..(((((((((((((((...(((.......))).)))))))).))))))).....))))..................... (-25.20 = -24.70 +  -0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:17 2006