Locus 6841

Sequence ID 3R_DroMel_CAF1
Location 18,109,089 – 18,109,180
Length 91
Max. P 0.973934
window11102 window11103

overview

Window 2

Location 18,109,089 – 18,109,180
Length 91
Sequences 5
Columns 91
Reading direction forward
Mean pairwise identity 91.05
Mean single sequence MFE -20.28
Consensus MFE -17.00
Energy contribution -16.84
Covariance contribution -0.16
Combinations/Pair 1.05
Mean z-score -1.43
Structure conservation index 0.84
SVM decision value 0.41
SVM RNA-class probability 0.726273
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18109089 91 + 27905053
UAGUUAUCAAACGCUUUUUUUUUCGCAGUGAACUCACGCAAAUUGCGUUGCUGCACGACAAUUUGUCGACUGUUUGCCAGUUCAGGAAAAU
..................((((((((((((.....((((.....)))))))))).((((.....))))((((.....))))...)))))). ( -20.30)
>DroSec_CAF1 139964 90 + 1
UAGUUAUCAAACUAUU-UUUUUUCUCAGUGAACUCACGCAAAUUGCGUUGCUGCACGACAAUUUGUCGACUGUUUGCCAGUCCAGGAAAAU
(((((....)))))..-.(((((((..(((....)))(((((((((((......))).)))))))).(((((.....))))).))))))). ( -21.60)
>DroSim_CAF1 144695 91 + 1
AAGUUAUCAAACGCUUUUUUUUUCUCAGUGAACUCACGCAAAUUGCGUUGCUGCACGACAAUUUGUCGACUGUUUGCCAGUCCAGGAAAAU
..................(((((((..(((....)))(((((((((((......))).)))))))).(((((.....))))).))))))). ( -20.10)
>DroEre_CAF1 149933 88 + 1
UUAUUAUCGUAUGUUU---UUUUCUCAGUGAACUCACGCAAAUUGCGUUGCUGCACGACAAUUUGUCGACUGUUUGCCAGUCCAGCAAAAU
................---........(((....)))((.....)).((((((...(((.....)))(((((.....)))))))))))... ( -19.60)
>DroYak_CAF1 147785 88 + 1
UAGUAAUCAAAAGCUU---UUUUUCCAGUGAACUCACGCAAAUUGCGUUGCUGCACGACAAUUUGUCGACUGUUUGCCAGUCCAGCAAAAU
............((..---(((.....(((....)))..)))..)).((((((...(((.....)))(((((.....)))))))))))... ( -19.80)
>consensus
UAGUUAUCAAACGCUU_UUUUUUCUCAGUGAACUCACGCAAAUUGCGUUGCUGCACGACAAUUUGUCGACUGUUUGCCAGUCCAGGAAAAU
...........................(((....)))(((((((((((......))).)))))))).(((((.....)))))......... (-17.00 = -16.84 +  -0.16)

alignment

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secondary structure

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dotplot

Postscript

Window 3

Location 18,109,089 – 18,109,180
Length 91
Sequences 5
Columns 91
Reading direction reverse
Mean pairwise identity 91.05
Mean single sequence MFE -22.28
Consensus MFE -19.48
Energy contribution -19.24
Covariance contribution -0.24
Combinations/Pair 1.14
Mean z-score -1.79
Structure conservation index 0.87
SVM decision value 1.72
SVM RNA-class probability 0.973934
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18109089 91 - 27905053
AUUUUCCUGAACUGGCAAACAGUCGACAAAUUGUCGUGCAGCAACGCAAUUUGCGUGAGUUCACUGCGAAAAAAAAAGCGUUUGAUAACUA
.((((((((((((.((.....((((((.....)))).)).((((......)))))).))))))..).)))))................... ( -20.30)
>DroSec_CAF1 139964 90 - 1
AUUUUCCUGGACUGGCAAACAGUCGACAAAUUGUCGUGCAGCAACGCAAUUUGCGUGAGUUCACUGAGAAAAAA-AAUAGUUUGAUAACUA
.(((((...(((((.....)))))(((.....)))(((.(((.((((.....))))..))))))...)))))..-..(((((....))))) ( -23.20)
>DroSim_CAF1 144695 91 - 1
AUUUUCCUGGACUGGCAAACAGUCGACAAAUUGUCGUGCAGCAACGCAAUUUGCGUGAGUUCACUGAGAAAAAAAAAGCGUUUGAUAACUU
.(((((...(((((.....)))))(((.....)))(((.(((.((((.....))))..))))))...)))))................... ( -21.70)
>DroEre_CAF1 149933 88 - 1
AUUUUGCUGGACUGGCAAACAGUCGACAAAUUGUCGUGCAGCAACGCAAUUUGCGUGAGUUCACUGAGAAAA---AAACAUACGAUAAUAA
...(((.(.(((((.....))))).))))(((((((((..((((......))))(((....)))........---.....))))))))).. ( -22.50)
>DroYak_CAF1 147785 88 - 1
AUUUUGCUGGACUGGCAAACAGUCGACAAAUUGUCGUGCAGCAACGCAAUUUGCGUGAGUUCACUGGAAAAA---AAGCUUUUGAUUACUA
....((((((((((.....)))))(((.....)))...)))))((((.....)))).((((((..((.....---...))..)))..))). ( -23.70)
>consensus
AUUUUCCUGGACUGGCAAACAGUCGACAAAUUGUCGUGCAGCAACGCAAUUUGCGUGAGUUCACUGAGAAAAAA_AAGCGUUUGAUAACUA
.((((..((((((.((.....((((((.....)))).)).((((......)))))).))))))..))))...................... (-19.48 = -19.24 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:31:15 2006