Locus 3877

Sequence ID 3L_DroMel_CAF1
Location 11,222,913 – 11,223,025
Length 112
Max. P 0.999978
window6032 window6033

overview

Window 2

Location 11,222,913 – 11,223,025
Length 112
Sequences 3
Columns 115
Reading direction forward
Mean pairwise identity 74.92
Mean single sequence MFE -28.57
Consensus MFE -17.00
Energy contribution -17.33
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -4.33
Structure conservation index 0.60
SVM decision value 4.55
SVM RNA-class probability 0.999919
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11222913 112 + 23771897
CAUUUCCAUUUGGCUGUCUGUCAUAAAUUACUUGCCAAAUUCCUUGGCAUUAACUUUGGCCGACAGCCCGGAAACAUAACUGUGUACAUACUUA---CAUAUGUAUGUAUGUAUA
..(((((....(((((((.((((....(((..((((((.....)))))).)))...)))).))))))).)))))........(((((((((.((---(....))).))))))))) ( -39.30)
>DroSim_CAF1 31879 92 + 1
CAUUUCCAUUUGGCU----GUCAUAAAUUACUUGCCAAAUUCCUUGGCAUUAACUUUGGCCGACAGCCCGGAAACAUAUCUGUGUAC-------------------AUACAUAUA
..(((((....((((----(((.((((.....((((((.....)))))).....))))...))))))).)))))......(((((..-------------------..))))).. ( -25.80)
>DroEre_CAF1 33052 92 + 1
CAUUUCCAUUUGGCU----GUCAUAAAUUACUUGGCAAAUUCCUUGGCAUUAACUUUGGCCGACAGCCCGGAAAC-------------------AUAUAUCUGUAUAUCUGUAUA
...((((....((((----(((...........((......))..(((..........)))))))))).))))((-------------------(.((((....)))).)))... ( -20.60)
>consensus
CAUUUCCAUUUGGCU____GUCAUAAAUUACUUGCCAAAUUCCUUGGCAUUAACUUUGGCCGACAGCCCGGAAACAUA_CUGUGUAC___________AU_UGUAUAUAUGUAUA
..(((((....((((....((((....(((..((((((.....)))))).)))...))))....)))).)))))......................................... (-17.00 = -17.33 +   0.33)

alignment

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secondary structure

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dotplot

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Window 3

Location 11,222,913 – 11,223,025
Length 112
Sequences 3
Columns 115
Reading direction reverse
Mean pairwise identity 74.92
Mean single sequence MFE -30.43
Consensus MFE -19.77
Energy contribution -20.10
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -3.75
Structure conservation index 0.65
SVM decision value 5.20
SVM RNA-class probability 0.999978
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11222913 112 - 23771897
UAUACAUACAUACAUAUG---UAAGUAUGUACACAGUUAUGUUUCCGGGCUGUCGGCCAAAGUUAAUGCCAAGGAAUUUGGCAAGUAAUUUAUGACAGACAGCCAAAUGGAAAUG
..(((((((.(((....)---)).))))))).........((((((.(((((((.(.((((((((.(((((((...)))))))..)))))).)).).)))))))....)))))). ( -38.30)
>DroSim_CAF1 31879 92 - 1
UAUAUGUAU-------------------GUACACAGAUAUGUUUCCGGGCUGUCGGCCAAAGUUAAUGCCAAGGAAUUUGGCAAGUAAUUUAUGAC----AGCCAAAUGGAAAUG
...((((.(-------------------(....)).))))((((((.((((((((....((((((.(((((((...)))))))..)))))).))))----))))....)))))). ( -29.20)
>DroEre_CAF1 33052 92 - 1
UAUACAGAUAUACAGAUAUAU-------------------GUUUCCGGGCUGUCGGCCAAAGUUAAUGCCAAGGAAUUUGCCAAGUAAUUUAUGAC----AGCCAAAUGGAAAUG
.....................-------------------((((((.((((((((((..........)))..((......))...........)))----))))....)))))). ( -23.80)
>consensus
UAUACAUAUAUACA_AU___________GUACACAG_UAUGUUUCCGGGCUGUCGGCCAAAGUUAAUGCCAAGGAAUUUGGCAAGUAAUUUAUGAC____AGCCAAAUGGAAAUG
........................................((((((.((((((((....((((((.(((((((...)))))))..)))))).))))....))))....)))))). (-19.77 = -20.10 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:08:55 2006