Locus 4896

Sequence ID 3R_DroMel_CAF1
Location 12,869,269 – 12,869,364
Length 95
Max. P 0.999856
window8015 window8016

overview

Window 5

Location 12,869,269 – 12,869,364
Length 95
Sequences 5
Columns 107
Reading direction forward
Mean pairwise identity 90.81
Mean single sequence MFE -25.34
Consensus MFE -21.42
Energy contribution -21.50
Covariance contribution 0.08
Combinations/Pair 1.04
Mean z-score -1.97
Structure conservation index 0.85
SVM decision value 1.78
SVM RNA-class probability 0.977024
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12869269 95 + 27905053
C------------UAUCGAUAGUACCAUCGAUAUUUUGACAGCUAUACUGCUGAGGUGACAACUUGUCACUGACAAGUCAUGAUAAUUUUUUGUAAAGCAAUAGAUU
.------------(((((((......)))))))...(((((((......)))..((((((.....)))))).....))))....(((((.(((.....))).))))) ( -22.10)
>DroSec_CAF1 1523 95 + 1
C------------UAUCGAUAGUACCAUCGAUUGUUUGACAGCUCUACUGCUGAGGUGACAACUUGUCACUGACAAGUCAUGAUAAUUUUUUGUAAAGCAAUAGAUU
(------------(((.(....(((.(..((((((((((((((......)))..((((((.....)))))).....)))).)))))))..).)))...).))))... ( -22.10)
>DroSim_CAF1 1634 95 + 1
C------------UAUCGAUAGUACCAUCGAUGUUUUGACAGCUCUACUGCUGAGGUGACAACUUGUCACUGACAAGUCAUGAUAAUUUUUUGUAAAGCAAUAGAUU
.------------(((((((......)))))))..........((((.((((..((((((.....)))))).(((((..((....))..)))))..)))).)))).. ( -22.60)
>DroEre_CAF1 2786 107 + 1
CCGCCGAUGGUAGUAUCGAUAGUACCAUCGAUGCUUUGACAGCUCUACUGCUGAGGUGACAACUUGUCACUGACAAGUCAUGAUAAUUUUUUGUAAAGCAAUAGAUU
....((((((((.((....)).)))))))).((((((..((((......)))).((((((.....)))))).(((((..((....))..)))))))))))....... ( -33.10)
>DroYak_CAF1 1674 107 + 1
CCGCCGAUUGUAGUAUCGAUAGUACCAUCGAUGUUUUGACAGCUCUACUGCUGAGGUGACAAAUUGUCACUGACAAGUCAUGAUAAUUUUUUGUAAAGCAAUAGAUU
..((((((.(((.((....)).))).)))).(((....)))))((((.((((...(..(.(((((((((.(((....)))))))))))).)..)..)))).)))).. ( -26.80)
>consensus
C____________UAUCGAUAGUACCAUCGAUGUUUUGACAGCUCUACUGCUGAGGUGACAACUUGUCACUGACAAGUCAUGAUAAUUUUUUGUAAAGCAAUAGAUU
.............(((((((......)))))))...(((((((......)))..((((((.....)))))).....))))....(((((.(((.....))).))))) (-21.42 = -21.50 +   0.08)

alignment

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secondary structure

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dotplot

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Window 6

Location 12,869,269 – 12,869,364
Length 95
Sequences 5
Columns 107
Reading direction reverse
Mean pairwise identity 90.81
Mean single sequence MFE -26.61
Consensus MFE -23.68
Energy contribution -23.88
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -2.95
Structure conservation index 0.89
SVM decision value 4.27
SVM RNA-class probability 0.999856
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12869269 95 - 27905053
AAUCUAUUGCUUUACAAAAAAUUAUCAUGACUUGUCAGUGACAAGUUGUCACCUCAGCAGUAUAGCUGUCAAAAUAUCGAUGGUACUAUCGAUA------------G
....(((((((................(((....)))(((((.....)))))...)))))))............((((((((....))))))))------------. ( -21.30)
>DroSec_CAF1 1523 95 - 1
AAUCUAUUGCUUUACAAAAAAUUAUCAUGACUUGUCAGUGACAAGUUGUCACCUCAGCAGUAGAGCUGUCAAACAAUCGAUGGUACUAUCGAUA------------G
..(((((((((................(((....)))(((((.....)))))...)))))))))...........(((((((....))))))).------------. ( -24.80)
>DroSim_CAF1 1634 95 - 1
AAUCUAUUGCUUUACAAAAAAUUAUCAUGACUUGUCAGUGACAAGUUGUCACCUCAGCAGUAGAGCUGUCAAAACAUCGAUGGUACUAUCGAUA------------G
..(((((((((................(((....)))(((((.....)))))...)))))))))...........(((((((....))))))).------------. ( -24.80)
>DroEre_CAF1 2786 107 - 1
AAUCUAUUGCUUUACAAAAAAUUAUCAUGACUUGUCAGUGACAAGUUGUCACCUCAGCAGUAGAGCUGUCAAAGCAUCGAUGGUACUAUCGAUACUACCAUCGGCGG
..(((((((((................(((....)))(((((.....)))))...)))))))))(((.....))).(((((((((.((....)).)))))))))... ( -32.50)
>DroYak_CAF1 1674 107 - 1
AAUCUAUUGCUUUACAAAAAAUUAUCAUGACUUGUCAGUGACAAUUUGUCACCUCAGCAGUAGAGCUGUCAAAACAUCGAUGGUACUAUCGAUACUACAAUCGGCGG
..(((((((((................(((....)))(((((.....)))))...)))))))))((((.......(((((((....)))))))........)))).. ( -29.66)
>consensus
AAUCUAUUGCUUUACAAAAAAUUAUCAUGACUUGUCAGUGACAAGUUGUCACCUCAGCAGUAGAGCUGUCAAAACAUCGAUGGUACUAUCGAUA____________G
..(((((((((................(((....)))(((((.....)))))...)))))))))...........(((((((....))))))).............. (-23.68 = -23.88 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:29 2006