Locus 667

Sequence ID 3L_DroMel_CAF1
Location 1,984,466 – 1,984,562
Length 96
Max. P 0.913526
window1019 window1020

overview

Window 9

Location 1,984,466 – 1,984,562
Length 96
Sequences 5
Columns 96
Reading direction forward
Mean pairwise identity 86.08
Mean single sequence MFE -22.96
Consensus MFE -18.86
Energy contribution -19.14
Covariance contribution 0.28
Combinations/Pair 1.05
Mean z-score -1.96
Structure conservation index 0.82
SVM decision value 1.09
SVM RNA-class probability 0.913526
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1984466 96 + 23771897
CCCAAUUCGACCCGCCCCAAAUCAUUGGGUUUCAUGGCUGUCACGCCAGCCACGUCUCAUUUAACAUAAUGAUCCUGACUGCAUUCGGUGUGGGUG
.........((((((.((.((((((..((.....((((((......))))))....(((((......))))).))..).)).))).)).)))))). ( -28.90)
>DroSec_CAF1 35465 88 + 1
CCCAAUUCGACCCGCCCCAAAUCAUGGGGUUUCAUGGCUGUCACGCCAGCCACGUCUCAUUUAACAUAAUGAUCCUGACUGCAUUCGG--------
........(((..((((((.....))))))....((((((......)))))).)))(((((......)))))..((((......))))-------- ( -23.70)
>DroSim_CAF1 49942 88 + 1
CCCAAUUCGACCCGCCCCAAAUUAUGGGGUUUCAUGGCUGUCACGCCAGCCACGUCUCAUUUAACAUAAUGAUCCUGACUGCAUUCGG--------
........(((..((((((.....))))))....((((((......)))))).)))(((((......)))))..((((......))))-------- ( -23.70)
>DroEre_CAF1 41351 81 + 1
UA-------ACCCGCCCCAAAUCAUGAGGUUUCAUGGCUGUCACGGCAGCCACGUCUCAUUUAACUUAAUGAUCCUGACUGCAUUUGC--------
..-------........((((((((.(((.....(((((((....)))))))....(((((......))))).))).).)).))))).-------- ( -19.60)
>DroYak_CAF1 36341 80 + 1
UC--------CCCGCCUCAAAUCAUGGGGUUUCAUGGCUGUCACGCCAGCCACGUCUCAUUUAACUUAAUGAUCCUGACUGCAUUUGC--------
..--------...((((((.....))))))....((((((......)))))).((((((((......)))))....))).........-------- ( -18.90)
>consensus
CCCAAUUCGACCCGCCCCAAAUCAUGGGGUUUCAUGGCUGUCACGCCAGCCACGUCUCAUUUAACAUAAUGAUCCUGACUGCAUUCGG________
.............((((((.....))))))....((((((......)))))).((((((((......)))))....)))................. (-18.86 = -19.14 +   0.28) 

alignment

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secondary structure

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dotplot

Postscript

Window 0

Location 1,984,466 – 1,984,562
Length 96
Sequences 5
Columns 96
Reading direction reverse
Mean pairwise identity 86.08
Mean single sequence MFE -28.50
Consensus MFE -21.46
Energy contribution -21.74
Covariance contribution 0.28
Combinations/Pair 1.06
Mean z-score -2.00
Structure conservation index 0.75
SVM decision value 0.76
SVM RNA-class probability 0.842263
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1984466 96 - 23771897
CACCCACACCGAAUGCAGUCAGGAUCAUUAUGUUAAAUGAGACGUGGCUGGCGUGACAGCCAUGAAACCCAAUGAUUUGGGGCGGGUCGAAUUGGG
..((((...(((.(((..((.(..(((((......)))))..)(((((((......)))))))))..(((((....))))))))..)))...)))) ( -34.70)
>DroSec_CAF1 35465 88 - 1
--------CCGAAUGCAGUCAGGAUCAUUAUGUUAAAUGAGACGUGGCUGGCGUGACAGCCAUGAAACCCCAUGAUUUGGGGCGGGUCGAAUUGGG
--------((((............(((((......)))))((((((((((......)))))))....(((((.....)))))...)))...)))). ( -29.40)
>DroSim_CAF1 49942 88 - 1
--------CCGAAUGCAGUCAGGAUCAUUAUGUUAAAUGAGACGUGGCUGGCGUGACAGCCAUGAAACCCCAUAAUUUGGGGCGGGUCGAAUUGGG
--------((((............(((((......)))))((((((((((......)))))))....(((((.....)))))...)))...)))). ( -29.40)
>DroEre_CAF1 41351 81 - 1
--------GCAAAUGCAGUCAGGAUCAUUAAGUUAAAUGAGACGUGGCUGCCGUGACAGCCAUGAAACCUCAUGAUUUGGGGCGGGU-------UA
--------......((((((((..(((((......)))))..).)))))))(((..(((.(((((....)))))..)))..)))...-------.. ( -24.80)
>DroYak_CAF1 36341 80 - 1
--------GCAAAUGCAGUCAGGAUCAUUAAGUUAAAUGAGACGUGGCUGGCGUGACAGCCAUGAAACCCCAUGAUUUGAGGCGGG--------GA
--------((....))........(((((......)))))..((((((((......))))))))...((((............)))--------). ( -24.20)
>consensus
________CCGAAUGCAGUCAGGAUCAUUAUGUUAAAUGAGACGUGGCUGGCGUGACAGCCAUGAAACCCCAUGAUUUGGGGCGGGUCGAAUUGGG
........................(((((......)))))..((((((((......))))))))...(((((.....))))).............. (-21.46 = -21.74 +   0.28) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:48:03 2006