Locus 6640

Sequence ID 3L_DroMel_CAF1
Location 17,674,179 – 17,674,271
Length 92
Max. P 0.954900
window10798 window10799

overview

Window 8

Location 17,674,179 – 17,674,271
Length 92
Sequences 4
Columns 92
Reading direction forward
Mean pairwise identity 80.51
Mean single sequence MFE -27.42
Consensus MFE -13.38
Energy contribution -13.62
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -2.72
Structure conservation index 0.49
SVM decision value 0.41
SVM RNA-class probability 0.727064
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17674179 92 + 23771897
CAGCCUCCGUGGAUAUAUCCACAGUAACUGGCUGGAUAUCCCCAUAAAUGACGAAAGGGGGGGGGGUGGGGGGUGAGUGGAGUCAAAUGGUA
..(.(((((((((....)))))....(((.(((...(((((((.....(..(....)..).)))))))...))).))))))).)........ ( -32.00)
>DroSim_CAF1 51356 78 + 1
CAGCUUCCGUGGAUAUAUCCACAAUAACUGGCAGGAUAUCCCCAUAGAUGACUGAAUGG----GGGUUGGG----------GGCAAAUGGUA
..(((((((((((....)))))...............((((((((..........))))----)))).)))----------)))........ ( -26.30)
>DroEre_CAF1 46674 75 + 1
CAGCCUCCGUGGAUAUAUCCACAAUAACUGGCAGGAUAUCCCCAU-GAUGACUGCA--G----AGGUGGAG----------GGCAAAUGGGA
...((((((((((....)))))....(((.((((..((((.....-)))).)))).--.----.)))))))----------).......... ( -25.50)
>DroYak_CAF1 32299 76 + 1
CAGCCUCCGUGGAUAUAUCCACAAUAACUGGCAGGAUAUCCCCAUAGAUGACUGCA--A----AGGUGGAG----------GGUAAAUGGUA
...((((((((((....)))))....(((.((((..((((......)))).)))).--.----.)))))))----------).......... ( -25.90)
>consensus
CAGCCUCCGUGGAUAUAUCCACAAUAACUGGCAGGAUAUCCCCAUAGAUGACUGAA__G____AGGUGGAG__________GGCAAAUGGUA
...((.(((((((....)))))......(((..((....)))))....................)).))....................... (-13.38 = -13.62 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 17,674,179 – 17,674,271
Length 92
Sequences 4
Columns 92
Reading direction reverse
Mean pairwise identity 80.51
Mean single sequence MFE -21.51
Consensus MFE -16.42
Energy contribution -16.05
Covariance contribution -0.37
Combinations/Pair 1.18
Mean z-score -2.14
Structure conservation index 0.76
SVM decision value 1.45
SVM RNA-class probability 0.954900
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17674179 92 - 23771897
UACCAUUUGACUCCACUCACCCCCCACCCCCCCCCCUUUCGUCAUUUAUGGGGAUAUCCAGCCAGUUACUGUGGAUAUAUCCACGGAGGCUG
..((((.((((.............................))))...))))((....))...((((..(((((((....)))))))..)))) ( -22.45)
>DroSim_CAF1 51356 78 - 1
UACCAUUUGCC----------CCCAACCC----CCAUUCAGUCAUCUAUGGGGAUAUCCUGCCAGUUAUUGUGGAUAUAUCCACGGAAGCUG
...........----------......((----((((..........)))))).........(((((.(((((((....))))))).))))) ( -21.30)
>DroEre_CAF1 46674 75 - 1
UCCCAUUUGCC----------CUCCACCU----C--UGCAGUCAUC-AUGGGGAUAUCCUGCCAGUUAUUGUGGAUAUAUCCACGGAGGCUG
........(((----------.(((....----(--(((((..(((-.....)))...))).))).....(((((....))))))))))).. ( -20.70)
>DroYak_CAF1 32299 76 - 1
UACCAUUUACC----------CUCCACCU----U--UGCAGUCAUCUAUGGGGAUAUCCUGCCAGUUAUUGUGGAUAUAUCCACGGAGGCUG
..........(----------((((....----.--.((((..((((....))))...))))........(((((....))))))))))... ( -21.60)
>consensus
UACCAUUUGCC__________CCCCACCC____C__UGCAGUCAUCUAUGGGGAUAUCCUGCCAGUUAUUGUGGAUAUAUCCACGGAGGCUG
.....................(((((......................))))).........(((((.(((((((....))))))).))))) (-16.42 = -16.05 +  -0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:26:16 2006