Locus 2185

Sequence ID X_DroMel_CAF1
Location 5,916,641 – 5,916,740
Length 99
Max. P 0.630791
window3545

overview

Window 5

Location 5,916,641 – 5,916,740
Length 99
Sequences 4
Columns 108
Reading direction forward
Mean pairwise identity 80.85
Mean single sequence MFE -25.70
Consensus MFE -19.19
Energy contribution -19.50
Covariance contribution 0.31
Combinations/Pair 1.11
Mean z-score -1.59
Structure conservation index 0.75
SVM decision value 0.20
SVM RNA-class probability 0.630791
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5916641 99 + 22224390
GCAAAAACAAAAGCGGACGGAAGCUGCAGCUGCAGCUCCAAAAAGCUAAGGGUAAACA--CGCCGCCAAAGUCUACGUCGAGCUGGAAACUGAAACUGUGC-------
(((........(((.((((((.(((((....))))))))...........(((.....--.)))............)))..)))(....)........)))------- ( -25.20)
>DroSec_CAF1 3211 106 + 1
GCAAAAACAAAAGCGGACGGAAGCUGCAGCUGCAGCUCCAGAAAGCUAAGGGCAAACA--CGCCGCCAAAGUCUGCGUCGAGCUGGAAACUGAAACUGAGCUGAAAUU
............(((((((((.(((((....))))))))...........(((.....--.)))......)))))).((.(((((....)........)))))).... ( -31.80)
>DroEre_CAF1 3479 103 + 1
---AAAACAAAAGCGGACGGAAGUUGCAGCUGCAGAUCCAGAAAUCUAAAGGCAAACA--CGCCGCCAAAGUUUAAGUCGAGCUGGAAACUGAAACUGAGCUACAACU
---.........(((.((....)))))((((.(((...(((.........(((.....--.))).(((..((((.....)))))))...)))...)))))))...... ( -23.30)
>DroYak_CAF1 6662 89 + 1
-----AACGAAAGCUGACGGAAGUUGCAGCUGCAGAUGCAGAAAGCUAUAGGCAAACAACCGCCGCCAAAGUCUAAGUCGAGCUGGAAACUGAA--------------
-----......((((((((((..((((..((((....)))).........(((........)))).)))..)))..))).))))(....)....-------------- ( -22.50)
>consensus
___AAAACAAAAGCGGACGGAAGCUGCAGCUGCAGAUCCAGAAAGCUAAAGGCAAACA__CGCCGCCAAAGUCUAAGUCGAGCUGGAAACUGAAACUGAGC_______
...........(((.((((((.(((((....))))))))...........(((........)))............)))..)))(....).................. (-19.19 = -19.50 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:13 2006