Locus 4154

Sequence ID 2L_DroMel_CAF1
Location 11,956,280 – 11,956,409
Length 129
Max. P 0.998817
window6549 window6550

overview

Window 9

Location 11,956,280 – 11,956,380
Length 100
Sequences 6
Columns 100
Reading direction reverse
Mean pairwise identity 97.80
Mean single sequence MFE -11.25
Consensus MFE -10.84
Energy contribution -10.73
Covariance contribution -0.11
Combinations/Pair 1.10
Mean z-score -1.46
Structure conservation index 0.96
SVM decision value 2.16
SVM RNA-class probability 0.989341
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11956280 100 - 22407834
UGCACAUAAUCAUGCCAUCAAUAUAUGGCAAUUAUCAAUGAAAUUUAUAACAAUCCACGAAAUGUAACGAAAACUUAACCGACCAAUAAAAAUUUCAUUU
............((((((......))))))......((((((((((...(((..........)))..((..........))........)))))))))). ( -11.80)
>DroVir_CAF1 159853 100 - 1
UGCACAUAAUCAUGCCAUCAAUAUAUGGCAAUUAUCAAUGAAAUUUAUAACAAUCCACGAAAUGUAACGAAAACAUAACCGACCAAUAAAAAUUUCAUUU
............((((((......))))))......((((((((((.((....((......((((.......))))....))....)).)))))))))). ( -12.40)
>DroGri_CAF1 159736 100 - 1
UGCACAUAAUCAUGCUAUCAAUAUAUGGCAAUUAUCAAUGAAAUUUAUAACAAUCCACGAAAUGUAACGAAAACAUAACCGACCAAUAAAAAUUUCAUUU
............((((((......))))))......((((((((((.((....((......((((.......))))....))....)).)))))))))). ( -10.10)
>DroSec_CAF1 175642 100 - 1
UGCACAUAAUCAUGCCAUCAAUAUAUGGCAAUUAUCAAUGAAAUUUAUAACAAUCCACGAAAUGUAACGAAAACUUAACCGACCAAUAAAAAUUUCAUUU
............((((((......))))))......((((((((((...(((..........)))..((..........))........)))))))))). ( -11.80)
>DroSim_CAF1 142043 100 - 1
UGCACAUAAUCAUGCCAUCAAUAUAUGGCAAUUAUCAAUGAAAUUUAUAACAAUCCACGAAAUGUAACGAAAACUUAACCGACCAAUAAAAAUUUCAUUU
............((((((......))))))......((((((((((...(((..........)))..((..........))........)))))))))). ( -11.80)
>DroEre_CAF1 150579 100 - 1
UGCACAUAAUCAUGCCAUCAAUAUAUGGCAAUUAUCAAUGAAAUUUAUAACAAUCCACGAAAUGUAACGAAAACUUAACCGACCAGUGAGAAUUUAAUUU
..(((.......((((((......))))))...........................((........))................)))............ (  -9.60)
>consensus
UGCACAUAAUCAUGCCAUCAAUAUAUGGCAAUUAUCAAUGAAAUUUAUAACAAUCCACGAAAUGUAACGAAAACUUAACCGACCAAUAAAAAUUUCAUUU
............((((((......))))))......((((((((((...(((..........)))..((..........))........)))))))))). (-10.84 = -10.73 +  -0.11)

alignment

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secondary structure

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dotplot

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Window 0

Location 11,956,318 – 11,956,409
Length 91
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 92.36
Mean single sequence MFE -10.70
Consensus MFE -10.10
Energy contribution -10.10
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.19
Structure conservation index 0.94
SVM decision value 3.24
SVM RNA-class probability 0.998817
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11956318 91 - 22407834
-----------CAAACGAAACAGUAACAAUCAGACAAUCAUGCACAUAAUCAUGCCAUCAAUAUAUGGCAAUUAUCAAUGAAAUUUAUAACAAUCCACGAAA
-----------..........................((((....(((((..((((((......)))))))))))..))))..................... ( -10.10)
>DroVir_CAF1 159891 88 - 1
--------------ACUGUGCAACAACAAUCAGACAAUCAUGCACAUAAUCAUGCCAUCAAUAUAUGGCAAUUAUCAAUGAAAUUUAUAACAAUCCACGAAA
--------------..((((((..................))))))......((((((......))))))................................ ( -12.47)
>DroSec_CAF1 175680 93 - 1
AA---------CAAACGAAACAGUAACAAUCAGACAAUCAUGCACAUAAUCAUGCCAUCAAUAUAUGGCAAUUAUCAAUGAAAUUUAUAACAAUCCACGAAA
..---------..........................((((....(((((..((((((......)))))))))))..))))..................... ( -10.10)
>DroSim_CAF1 142081 91 - 1
-----------CAAACGAAACAGUAACAAUCAGACAAUCAUGCACAUAAUCAUGCCAUCAAUAUAUGGCAAUUAUCAAUGAAAUUUAUAACAAUCCACGAAA
-----------..........................((((....(((((..((((((......)))))))))))..))))..................... ( -10.10)
>DroEre_CAF1 150617 90 - 1
------------AAACGAAACAGUAACAAUCAGACAAUCAUGCACAUAAUCAUGCCAUCAAUAUAUGGCAAUUAUCAAUGAAAUUUAUAACAAUCCACGAAA
------------.........................((((....(((((..((((((......)))))))))))..))))..................... ( -10.10)
>DroYak_CAF1 146428 102 - 1
AAAAGCAAACGCAAACGAAACAGUAACAAUCAGACAAUCAUGCACAUAAUCAUGCCAUCAAUAUAUGGCAAUUAUCAAUGAAAUUUAUAACAAUCCACGAAA
....((....)).........................((((....(((((..((((((......)))))))))))..))))..................... ( -11.30)
>consensus
___________CAAACGAAACAGUAACAAUCAGACAAUCAUGCACAUAAUCAUGCCAUCAAUAUAUGGCAAUUAUCAAUGAAAUUUAUAACAAUCCACGAAA
.....................................((((....(((((..((((((......)))))))))))..))))..................... (-10.10 = -10.10 +  -0.00)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:52 2006