Locus 2013

Sequence ID 2L_DroMel_CAF1
Location 5,453,420 – 5,453,511
Length 91
Max. P 0.591708
window3240

overview

Window 0

Location 5,453,420 – 5,453,511
Length 91
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 84.67
Mean single sequence MFE -29.30
Consensus MFE -22.23
Energy contribution -22.87
Covariance contribution 0.64
Combinations/Pair 1.09
Mean z-score -1.95
Structure conservation index 0.76
SVM decision value 0.12
SVM RNA-class probability 0.591708
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5453420 91 - 22407834
C-GGAAACACGCCCGAUUCCACGGUGACA-------GUAAA-G----UAGAUGAGCGAGUUGGCCAGGCCAAUUUCAACUUUGGCGACAACAAGUCACGCCAAC
.-(....).((((((......)))..((.-------.....-)----)......))).((((((...(((((........)))))(((.....)))..)))))) ( -24.80)
>DroSec_CAF1 72859 90 - 1
U-GGAAACACGGUCGAUUCCACGGUGACA-------GUAUA-G----UGGAUGAGCGAGUUGGCCAGGCCAAUUUCAACUUUGGCGACAACAAGUCACGCCAA-
(-(....))((.(((..(((((.(((...-------.))).-)----))))))).))..(((((...(((((........)))))(((.....)))..)))))- ( -28.20)
>DroSim_CAF1 83945 90 - 1
C-GGAAACACGCUCGAUUCAACGGUGACA-------GUAUA-G----UGGAUGAGCGAGUUGGCCAGGCCAAUUUCAACUUUGGCGACAACAAGUCACGCCAA-
.-(....).(((((.((((((((....).-------))...-.----))))))))))..(((((...(((((........)))))(((.....)))..)))))- ( -29.30)
>DroEre_CAF1 73879 92 - 1
C-GGAAACGCGCUCGAUUCCACGGUGACA-------CUAUAUG----AGCAUGAGCGAGUUGGCCAGGCCAAUUUCAACUUUGGCGACAACAAGUCACGCCAAC
(-(....))((((((.......(....).-------(.....)----....)))))).((((((...(((((........)))))(((.....)))..)))))) ( -29.40)
>DroYak_CAF1 80423 86 - 1
C-GGAAACACGCUCGAUGCCACGGUGACA-------GUA----------CAUGAGCGAGUUGGCCAGGCCAAUUUCAACUUUGGCGACAACAAGUCACGCCAAC
.-(....).(((((.(((..(((....).-------)).----------)))))))).((((((...(((((........)))))(((.....)))..)))))) ( -31.30)
>DroAna_CAF1 77228 103 - 1
CAGGAAACACGCCCGAUAUAUGGCAUAUACUUGUAUGUGUA-GGAAAGGUAUGGGCGAGUUGGCCAGGCCAAUUUCAACUUUGGCGACAACAAGUCACGACAAC
..(....).(((((.((((...(((((((....))))))).-......))))))))).((((.....(((((........)))))(((.....))).))))... ( -32.80)
>consensus
C_GGAAACACGCUCGAUUCCACGGUGACA_______GUAUA_G____UGGAUGAGCGAGUUGGCCAGGCCAAUUUCAACUUUGGCGACAACAAGUCACGCCAAC
..(....).((((((......)(....)........................))))).((((((...(((((........)))))(((.....)))..)))))) (-22.23 = -22.87 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

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