Locus 1516

Sequence ID X_DroMel_CAF1
Location 4,433,340 – 4,433,460
Length 120
Max. P 0.775556
window2456 window2457

overview

Window 6

Location 4,433,340 – 4,433,460
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.25
Mean single sequence MFE -31.32
Consensus MFE -23.90
Energy contribution -25.38
Covariance contribution 1.48
Combinations/Pair 1.09
Mean z-score -1.75
Structure conservation index 0.76
SVM decision value 0.16
SVM RNA-class probability 0.614265
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4433340 120 + 22224390
GGGCUUUUGUCAGAUACGAUAGCCACAAGAUUUAGACAGAUAUGGCGAAAUAGCACCCAAUACGAAGGUGAUCUGUCAAAAAUCAGCUUUUGACGUACACAAAGUUAAUGAGGUGCUAUG
.((((.((((.....)))).)))).........................((((((((((..((....(((...((((((((......))))))))..)))...))...)).)))))))). ( -31.80)
>DroSec_CAF1 35713 120 + 1
GGACUUUUGCCAGAUACGAUAGCCACAAGAUCUAGACAUAUAUGGCGAAAUAGCACCCAAUACGAAGGUGAUCUGUCAAAAAUCAGCUUUUGACGUACACAAAGUUAAUAAGGUGCUAUG
.....(((((((.(((.(.(((.........)))..).))).)))))))((((((((....((....(((...((((((((......))))))))..)))...))......)))))))). ( -29.60)
>DroSim_CAF1 37065 120 + 1
GGACUUUUGCCAGAUACGAUAGCCACAAGAUCUAGACAGAUAUGGCGAAAUAGCACCCAAUACGAAGGUGAUCUGUCAAAAAUCAGCUUUUGACGUACACAAAGUUAAUGAGGUGCUAUG
((.(....)))..........((((....((((....)))).))))...((((((((((..((....(((...((((((((......))))))))..)))...))...)).)))))))). ( -31.90)
>DroEre_CAF1 36622 119 + 1
-GGCUUUUGCCAGAUACGAUAGCCAGAAGAUCUAGACAGAUAUGGCGAAAUAGCACCCAAUAGGAAGGUGAUCUGUCAAAAAUCAGCUGUUGACGUACACAAAGUUUAUGAGGUGCUAUG
-(((....)))..........((((....((((....)))).))))...((((((((..(((((...(((...((((((..........))))))..)))....)))))..)))))))). ( -34.80)
>DroYak_CAF1 35834 120 + 1
UGGGUUUUUCCAGAUACGAUAGCCACAAGAUCUAGACAGAUAUGGCGAAAUAGCACCCACUACGAAGGUGAUCUUUCAAAAAUCAGCUGUUAACGUACUCGAUGUUUAUGAGGUGCUAUG
((((....)))).........((((....((((....)))).))))...((((((((......(((((....))))).....(((......(((((.....)))))..))))))))))). ( -28.50)
>consensus
GGGCUUUUGCCAGAUACGAUAGCCACAAGAUCUAGACAGAUAUGGCGAAAUAGCACCCAAUACGAAGGUGAUCUGUCAAAAAUCAGCUUUUGACGUACACAAAGUUAAUGAGGUGCUAUG
.(((....)))..........((((....((((....)))).))))...((((((((((..((....(((...((((((((......))))))))..)))...))...)).)))))))). (-23.90 = -25.38 +   1.48)

alignment

Postscript

secondary structure

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dotplot

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Window 7

Location 4,433,340 – 4,433,460
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.25
Mean single sequence MFE -29.24
Consensus MFE -23.41
Energy contribution -24.09
Covariance contribution 0.68
Combinations/Pair 1.07
Mean z-score -1.67
Structure conservation index 0.80
SVM decision value 0.54
SVM RNA-class probability 0.775556
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4433340 120 - 22224390
CAUAGCACCUCAUUAACUUUGUGUACGUCAAAAGCUGAUUUUUGACAGAUCACCUUCGUAUUGGGUGCUAUUUCGCCAUAUCUGUCUAAAUCUUGUGGCUAUCGUAUCUGACAAAAGCCC
.((((((((.((.((.....(((...((((((((....))))))))....))).....)).))))))))))...((((((.............))))))..................... ( -28.82)
>DroSec_CAF1 35713 120 - 1
CAUAGCACCUUAUUAACUUUGUGUACGUCAAAAGCUGAUUUUUGACAGAUCACCUUCGUAUUGGGUGCUAUUUCGCCAUAUAUGUCUAGAUCUUGUGGCUAUCGUAUCUGGCAAAAGUCC
.(((((((((...((.....(((...((((((((....))))))))....))).....))..)))))))))...((((.(((((..(((.((....))))).))))).))))........ ( -33.00)
>DroSim_CAF1 37065 120 - 1
CAUAGCACCUCAUUAACUUUGUGUACGUCAAAAGCUGAUUUUUGACAGAUCACCUUCGUAUUGGGUGCUAUUUCGCCAUAUCUGUCUAGAUCUUGUGGCUAUCGUAUCUGGCAAAAGUCC
.((((((((.((.((.....(((...((((((((....))))))))....))).....)).))))))))))...(((((((((....))))...)))))..........(((....))). ( -30.20)
>DroEre_CAF1 36622 119 - 1
CAUAGCACCUCAUAAACUUUGUGUACGUCAACAGCUGAUUUUUGACAGAUCACCUUCCUAUUGGGUGCUAUUUCGCCAUAUCUGUCUAGAUCUUCUGGCUAUCGUAUCUGGCAAAAGCC-
.(((((....((((.....))))........(((..(((((..((((((((((((.......)))))............))))))).)))))..)))))))).......(((....)))- ( -27.80)
>DroYak_CAF1 35834 120 - 1
CAUAGCACCUCAUAAACAUCGAGUACGUUAACAGCUGAUUUUUGAAAGAUCACCUUCGUAGUGGGUGCUAUUUCGCCAUAUCUGUCUAGAUCUUGUGGCUAUCGUAUCUGGAAAAACCCA
.((((((((.(((..........((((.....((.((((((.....)))))).)).)))))))))))))))...(((((((((....))))...)))))..........((......)). ( -26.40)
>consensus
CAUAGCACCUCAUUAACUUUGUGUACGUCAAAAGCUGAUUUUUGACAGAUCACCUUCGUAUUGGGUGCUAUUUCGCCAUAUCUGUCUAGAUCUUGUGGCUAUCGUAUCUGGCAAAAGCCC
.((((((((.((........(((...((((((((....))))))))....)))........))))))))))...((((((.............))))))..................... (-23.41 = -24.09 +   0.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:11:53 2006