Locus 4319

Sequence ID 2R_DroMel_CAF1
Location 14,190,317 – 14,190,407
Length 90
Max. P 0.996974
window6927 window6928

overview

Window 7

Location 14,190,317 – 14,190,407
Length 90
Sequences 4
Columns 92
Reading direction forward
Mean pairwise identity 87.31
Mean single sequence MFE -24.45
Consensus MFE -21.01
Energy contribution -22.57
Covariance contribution 1.56
Combinations/Pair 1.22
Mean z-score -3.91
Structure conservation index 0.86
SVM decision value 2.78
SVM RNA-class probability 0.996974
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14190317 90 + 20766785
GUAUCUCGAAGGCGAUAAGAAUCGUCUUGGACACAGGAUGUGCAAUGAGAGUUGCCAAAAAAAACA--AUAUAUGUACAUAUAUAUAUAAUA
.....((.((((((((....)))))))).)).......((.(((((....))))))).........--((((((((....)))))))).... ( -22.70)
>DroSec_CAF1 7571 82 + 1
GUAUCUCGAAGGCGAUAAGAAUCGCCUUGGACACAGGAUGUGCAAUGAGAGUUGCCAAAAAAAACA--AUAUAUAUAUGUAUAU--------
.....((.((((((((....)))))))).)).......((.(((((....))))))).........--((((((....))))))-------- ( -22.60)
>DroSim_CAF1 7664 82 + 1
GUAUCUCGAAGGCGAUAAGAAUCGCCUUGGACACAGGAUGUGCAAUGAGAGUUGCCAAAAAAAACA--AUAUAUAUAUGUAUAU--------
.....((.((((((((....)))))))).)).......((.(((((....))))))).........--((((((....))))))-------- ( -22.60)
>DroEre_CAF1 7951 86 + 1
GUAUCUCGAAGGCGAUAAGAAUCGCCUUGGACACAGGAUGUGCAAUGAGAGUUGCCAAAAUAUAU-GCGUAUACAUAUGUGUAU-----GUA
.....((.((((((((....)))))))).)).......((.(((((....))))))).......(-((((((((....))))))-----))) ( -29.90)
>consensus
GUAUCUCGAAGGCGAUAAGAAUCGCCUUGGACACAGGAUGUGCAAUGAGAGUUGCCAAAAAAAACA__AUAUAUAUAUGUAUAU________
.....((.((((((((....)))))))).)).......((.(((((....)))))))...........((((((....))))))........ (-21.01 = -22.57 +   1.56)

alignment

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secondary structure

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dotplot

Postscript

Window 8

Location 14,190,317 – 14,190,407
Length 90
Sequences 4
Columns 92
Reading direction reverse
Mean pairwise identity 87.31
Mean single sequence MFE -18.67
Consensus MFE -16.67
Energy contribution -16.93
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -2.85
Structure conservation index 0.89
SVM decision value 2.57
SVM RNA-class probability 0.995424
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14190317 90 - 20766785
UAUUAUAUAUAUAUGUACAUAUAU--UGUUUUUUUUGGCAACUCUCAUUGCACAUCCUGUGUCCAAGACGAUUCUUAUCGCCUUCGAGAUAC
.........(((((....)))))(--((((......))))).((((...((((.....))))..(((.((((....)))).))).))))... ( -13.40)
>DroSec_CAF1 7571 82 - 1
--------AUAUACAUAUAUAUAU--UGUUUUUUUUGGCAACUCUCAUUGCACAUCCUGUGUCCAAGGCGAUUCUUAUCGCCUUCGAGAUAC
--------...............(--((((......))))).((((...((((.....))))..((((((((....)))))))).))))... ( -19.70)
>DroSim_CAF1 7664 82 - 1
--------AUAUACAUAUAUAUAU--UGUUUUUUUUGGCAACUCUCAUUGCACAUCCUGUGUCCAAGGCGAUUCUUAUCGCCUUCGAGAUAC
--------...............(--((((......))))).((((...((((.....))))..((((((((....)))))))).))))... ( -19.70)
>DroEre_CAF1 7951 86 - 1
UAC-----AUACACAUAUGUAUACGC-AUAUAUUUUGGCAACUCUCAUUGCACAUCCUGUGUCCAAGGCGAUUCUUAUCGCCUUCGAGAUAC
...-----......((((((....))-))))....((((((......)))).))....((((((((((((((....)))))))).).))))) ( -21.90)
>consensus
________AUAUACAUAUAUAUAU__UGUUUUUUUUGGCAACUCUCAUUGCACAUCCUGUGUCCAAGGCGAUUCUUAUCGCCUUCGAGAUAC
...................................((((((......)))).))....((((((((((((((....)))))))).).))))) (-16.67 = -16.93 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:58 2006