Locus 5509

Sequence ID 2L_DroMel_CAF1
Location 15,764,022 – 15,764,178
Length 156
Max. P 0.978963
window8744 window8745

overview

Window 4

Location 15,764,022 – 15,764,138
Length 116
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.60
Mean single sequence MFE -29.04
Consensus MFE -27.12
Energy contribution -27.12
Covariance contribution -0.00
Combinations/Pair 1.08
Mean z-score -1.57
Structure conservation index 0.93
SVM decision value 1.70
SVM RNA-class probability 0.972985
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15764022 116 + 22407834
-CGAA---UAACAUACCUCCACAUCAAAGCAUUUGCUGAUAAUCCUAACCAGAUCGUCGUCCCGCUCGCGCACUUUGUAUACAACGUCGUCGCGGGCGCACAGGCGACACCAGUAUAUCC
-....---....((((......((((..((....))))))...............((((((.(((((((((((.(((....))).)).).))))))))....))))))....)))).... ( -29.50)
>DroSec_CAF1 15441 117 + 1
UUGAA---UAACAUACCUCCACAUCGAAGCAUUUGCUGAUGAUCCUAACCAGAUCGUUGUCCCGUUCGCGCACUUUAUACACAACGUCGUCGCGGGCGCACAGGCGACACCAGUAUAUCC
.....---.........................(((((..((((.......))))((((((.((((((((.((...............))))))))))....))))))..)))))..... ( -25.46)
>DroSim_CAF1 15634 117 + 1
AAGAA---UAACAUACCUCCACAUCAAAGCAUUUGCUGAUGAUCCUAACCAGAUCGUUGUCCCGCUCGCGCACUUUAUACACAACGUCGUCGCGGGCGCACAGGCGACACCAGUAUAUCC
.....---.........................(((((..((((.......))))((((((.((((((((.((...............))))))))))....))))))..)))))..... ( -27.96)
>DroEre_CAF1 15442 116 + 1
-CGAA---UAACGUACCUCUACAUCAAAGCAUUUGCUGAUGAUCUUUACCAGAUCGUCGUCCCGCUCGCUUACUUUGUAUACAACGUCGUCGCGGGCGCACAGGCGACACCAGUAUAUCC
-....---....(((....)))...........(((((..(((((.....)))))((((((.(((((((..((..(((.....)))..)).)))))))....))))))..)))))..... ( -30.70)
>DroYak_CAF1 15541 119 + 1
-CAAAUAAUAACCUACCUCUACAUCAAAACAUUUGCUGAUGAUCUUUACCAGAUCGUCGUCCCGCUCGCGUACUUUAUACACAACGUCGUCGCGGGCGCACAGGCGACACCAGUAUAUCC
-................................(((((..(((((.....)))))((((((.((((((((.((...............))))))))))....))))))..)))))..... ( -31.56)
>consensus
_CGAA___UAACAUACCUCCACAUCAAAGCAUUUGCUGAUGAUCCUAACCAGAUCGUCGUCCCGCUCGCGCACUUUAUACACAACGUCGUCGCGGGCGCACAGGCGACACCAGUAUAUCC
.................................(((((..((((.......))))((((((.((((((((.((...............))))))))))....))))))..)))))..... (-27.12 = -27.12 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 5

Location 15,764,058 – 15,764,178
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.92
Mean single sequence MFE -35.66
Consensus MFE -33.60
Energy contribution -33.36
Covariance contribution -0.24
Combinations/Pair 1.11
Mean z-score -1.53
Structure conservation index 0.94
SVM decision value 1.83
SVM RNA-class probability 0.978963
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15764058 120 + 22407834
AAUCCUAACCAGAUCGUCGUCCCGCUCGCGCACUUUGUAUACAACGUCGUCGCGGGCGCACAGGCGACACCAGUAUAUCCAAUCGCUUGUGGGAACUCCCAUGGCUAAUCCUCAACAGAA
.............((((((((.(((((((((((.(((....))).)).).))))))))....))))))................(((.(((((....))))))))............)). ( -35.40)
>DroSec_CAF1 15478 120 + 1
GAUCCUAACCAGAUCGUUGUCCCGUUCGCGCACUUUAUACACAACGUCGUCGCGGGCGCACAGGCGACACCAGUAUAUCCAAUCGCUCGUGGGAACUCCCAUGGCUAAUCCUCAACAGAA
((((.......))))((((((.((((((((.((...............))))))))))....))))))................((.((((((....))))))))............... ( -33.06)
>DroSim_CAF1 15671 120 + 1
GAUCCUAACCAGAUCGUUGUCCCGCUCGCGCACUUUAUACACAACGUCGUCGCGGGCGCACAGGCGACACCAGUAUAUCCAAUCGCUCGUGGGAACUCCCAUGGCUAAUCCUCAAAAGAA
((((.......))))((((((.((((((((.((...............))))))))))....))))))................((.((((((....))))))))............... ( -35.56)
>DroEre_CAF1 15478 120 + 1
GAUCUUUACCAGAUCGUCGUCCCGCUCGCUUACUUUGUAUACAACGUCGUCGCGGGCGCACAGGCGACACCAGUAUAUCCAAUCGCUUGUGGGUACUCCCAUGGCUAAUCCUGAAGAGAA
..(((((..(((...((((((.(((((((..((..(((.....)))..)).)))))))....))))))................(((.(((((....)))))))).....))).))))). ( -35.50)
>DroYak_CAF1 15580 120 + 1
GAUCUUUACCAGAUCGUCGUCCCGCUCGCGUACUUUAUACACAACGUCGUCGCGGGCGCACAGGCGACACCAGUAUAUCCAAUCGCUCGUGGGAACUCCCAUGGCCAAUCCUCAACAGAA
(((((.....)))))((((((.((((((((.((...............))))))))))....))))))................((.((((((....))))))))............... ( -38.76)
>consensus
GAUCCUAACCAGAUCGUCGUCCCGCUCGCGCACUUUAUACACAACGUCGUCGCGGGCGCACAGGCGACACCAGUAUAUCCAAUCGCUCGUGGGAACUCCCAUGGCUAAUCCUCAACAGAA
((((.......))))((((((.((((((((.((...............))))))))))....))))))................((.((((((....))))))))............... (-33.60 = -33.36 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:57 2006