Locus 4307

Sequence ID 2R_DroMel_CAF1
Location 14,166,420 – 14,166,522
Length 102
Max. P 0.889521
window6913

overview

Window 3

Location 14,166,420 – 14,166,522
Length 102
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 77.55
Mean single sequence MFE -27.72
Consensus MFE -16.35
Energy contribution -16.55
Covariance contribution 0.20
Combinations/Pair 1.05
Mean z-score -1.97
Structure conservation index 0.59
SVM decision value 0.96
SVM RNA-class probability 0.889521
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14166420 102 + 20766785
--CC---ACGAUC-AUCGAUUGCACUGGCGAUCGAUCCACU--GGCCGGUGAAAUAAAUUGUUGCUACACGUAUAAGACAUCGUGUACGACAAGUUAAGACAACGAUCUG
--..---..((((-(((((((((....))))))))).((((--....))))...(((.((((((.((((((..........)))))))))))).))).......)))).. ( -31.60)
>DroVir_CAF1 16815 96 + 1
--GGACGAUCCUC-AUCGAUUGCGACUG-GAUCGGGCA----------GCGAAAUAAAUUGUUGCUACACGUAUAAGACAUCGUGUACGACAAGUUAAGACAACGAUCUG
--...((((((..-.(((....)))..)-)))))((((----------((((......))))))))...((((((.(....).))))))..................... ( -25.80)
>DroGri_CAF1 18830 101 + 1
-------AUGCUC-AUCGAUUUGGAUGG-GAUCGGGCCAUUUGGGCAUGCGAAAUAAAUUGUUGCUACACGUAUAAGACAUCGUGUACGACAAGUUCAGACAACGAUCUG
-------.....(-(((......))))(-(((((.(((.....)))....(((.....((((((.((((((..........)))))))))))).)))......)))))). ( -29.20)
>DroWil_CAF1 14344 96 + 1
GACG---AUGAUC-AUCAUCAUCGAUGGGGACGGAU----------CAACGAAAUAAAUUGUUGCUACAUGUAUAAGACAUCGUGUACGACAAGUUAAGACAACGAUCUG
..((---(((((.-...)))))))..(....)((((----------(...........((((((.((((((..........))))))))))))(((.....)))))))). ( -25.00)
>DroMoj_CAF1 18563 97 + 1
--CGGCGAUCGUCGAUCGAUUGCGAGUG-GAUCGGUCA----------GUGAAAUAAAUUGUUGCUACACGUAUAAGACAUCGUGUACGACAAGUUAAGACAACGAUCAA
--....((((((.((((((((.......-)))))))).----------......(((.((((((.((((((..........)))))))))))).))).....)))))).. ( -29.30)
>DroPer_CAF1 12514 100 + 1
--CC---AUGAUC-UUCGAUU-CGUUG-GGAUCGAUGCAUU--GACCAAAGAAAUAAAUUGUUGCUACACGUAUAAGACAUCGUGUACGACAAGUUAAGACAACGAUCUG
--((---((((..-......)-)).))-)(((((.((..((--(((...(....)...((((((.((((((..........)))))))))))))))))..)).))))).. ( -25.40)
>consensus
__CG___AUGAUC_AUCGAUUGCGAUGG_GAUCGAUCC________C_GCGAAAUAAAUUGUUGCUACACGUAUAAGACAUCGUGUACGACAAGUUAAGACAACGAUCUG
.............................(((((........................((((((.((((((..........))))))))))))((....))..))))).. (-16.35 = -16.55 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:44 2006