Locus 3887

Sequence ID 3L_DroMel_CAF1
Location 11,256,787 – 11,256,883
Length 96
Max. P 0.948565
window6047 window6048

overview

Window 7

Location 11,256,787 – 11,256,883
Length 96
Sequences 4
Columns 96
Reading direction forward
Mean pairwise identity 94.04
Mean single sequence MFE -21.12
Consensus MFE -17.96
Energy contribution -18.77
Covariance contribution 0.81
Combinations/Pair 1.03
Mean z-score -2.61
Structure conservation index 0.85
SVM decision value 1.38
SVM RNA-class probability 0.948565
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11256787 96 + 23771897
AAAUGAACUACAUUCAUUUUUUGAUUGGUGAAUGUCAGCGCAACACCGAAAUGUGAAUAUUAAAAGAAAUGUAACAAAUUACAUUUUUAUGGUUCG
....((((((.((((((.......((((((..(((....))).))))))...))))))......((((((((((....)))))))))).)))))). ( -21.70)
>DroSec_CAF1 57802 94 + 1
AAAUGAACUACAUCCAUUUUUUGAUUGGUGAAUGUCAG--CAACACCCAAAUGGGAAUAUUUAAAGAAAUGUAAAAAAUUACAUUUUUAUGGUUCG
....((((((..(((((((..((.(((.((.....)).--)))))...))))))).........((((((((((....)))))))))).)))))). ( -22.30)
>DroSim_CAF1 59356 94 + 1
AAAUGAACUACAUCCAUUUUUUGAUUGGUGAAUGUCAG--CAACACCCAAAUGGGAAUAUUAAAAGAAAUGUAACAAAUUACAUUUUUAUGGUUCG
....((((((..(((((((..((.(((.((.....)).--)))))...))))))).........((((((((((....)))))))))).)))))). ( -22.10)
>DroYak_CAF1 61064 94 + 1
AAAUGAACUACAUCCAUUUUCUGAUUGGUGAAUGGCAG--CAACACCGAAAUGGGAAUAUUAAAAGAAAUGUAACAAAUUACAUUUUUAUAGCUCG
....((.(((..((((((((.((.(((.((.....)).--)))))..)))))))).........((((((((((....)))))))))).))).)). ( -18.40)
>consensus
AAAUGAACUACAUCCAUUUUUUGAUUGGUGAAUGUCAG__CAACACCCAAAUGGGAAUAUUAAAAGAAAUGUAACAAAUUACAUUUUUAUGGUUCG
....((((((..((((((((......((((..((......)).)))))))))))).........((((((((((....)))))))))).)))))). (-17.96 = -18.77 +   0.81)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 8

Location 11,256,787 – 11,256,883
Length 96
Sequences 4
Columns 96
Reading direction reverse
Mean pairwise identity 94.04
Mean single sequence MFE -18.35
Consensus MFE -15.24
Energy contribution -15.30
Covariance contribution 0.06
Combinations/Pair 1.04
Mean z-score -1.94
Structure conservation index 0.83
SVM decision value 0.50
SVM RNA-class probability 0.761143
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11256787 96 - 23771897
CGAACCAUAAAAAUGUAAUUUGUUACAUUUCUUUUAAUAUUCACAUUUCGGUGUUGCGCUGACAUUCACCAAUCAAAAAAUGAAUGUAGUUCAUUU
.((((.....((((((((....))))))))......(((((((..(((.((((.((......))..)))).....)))..))))))).)))).... ( -15.60)
>DroSec_CAF1 57802 94 - 1
CGAACCAUAAAAAUGUAAUUUUUUACAUUUCUUUAAAUAUUCCCAUUUGGGUGUUG--CUGACAUUCACCAAUCAAAAAAUGGAUGUAGUUCAUUU
.((((.(((.((((((((....))))))))............((((((...(((((--.((.....)).))).))..)))))).))).)))).... ( -18.80)
>DroSim_CAF1 59356 94 - 1
CGAACCAUAAAAAUGUAAUUUGUUACAUUUCUUUUAAUAUUCCCAUUUGGGUGUUG--CUGACAUUCACCAAUCAAAAAAUGGAUGUAGUUCAUUU
.((((.(((.((((((((....))))))))............((((((...(((((--.((.....)).))).))..)))))).))).)))).... ( -18.30)
>DroYak_CAF1 61064 94 - 1
CGAGCUAUAAAAAUGUAAUUUGUUACAUUUCUUUUAAUAUUCCCAUUUCGGUGUUG--CUGCCAUUCACCAAUCAGAAAAUGGAUGUAGUUCAUUU
.((((((((.((((((((....))))))))............(((((((((((.((--....))..)))).....).)))))).)))))))).... ( -20.70)
>consensus
CGAACCAUAAAAAUGUAAUUUGUUACAUUUCUUUUAAUAUUCCCAUUUCGGUGUUG__CUGACAUUCACCAAUCAAAAAAUGGAUGUAGUUCAUUU
.((((.(((.((((((((....))))))))............((((((.((((.((......))..)))).......)))))).))).)))).... (-15.24 = -15.30 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:09:09 2006