Locus 5753

Sequence ID 3R_DroMel_CAF1
Location 14,979,948 – 14,980,101
Length 153
Max. P 0.996060
window9424 window9425

overview

Window 4

Location 14,979,948 – 14,980,061
Length 113
Sequences 5
Columns 113
Reading direction reverse
Mean pairwise identity 80.71
Mean single sequence MFE -28.92
Consensus MFE -21.22
Energy contribution -21.90
Covariance contribution 0.68
Combinations/Pair 1.24
Mean z-score -2.93
Structure conservation index 0.73
SVM decision value 2.65
SVM RNA-class probability 0.996060
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14979948 113 - 27905053
GUUUAUGGUUGCCCCAUGGAUCGGGCAUCCGUAAGCGCCACUUGCUACUAAGUGGGCAAAAUAAAAAAAAUCCAAUACUUUUACAUAAUCCAUUCGAUUGGGUGUUUUUAAAA
((((((((.(((((........))))).))))))))((((((((....))))).)))......(((((.(((((((....................))))))).))))).... ( -33.35)
>DroSec_CAF1 12170 99 - 1
GUUUAUGGUUGCCCAAUGGAUUGGGCAGCCGUAAGCGCUACUUGCUACUAAGUGGGCAAAAUAAA--AAAUCCAAUACUUUUACAUAAUCCAU------------UUUUAAAA
((((((((((((((((....))))))))))))))))((((((((....))))).)))........--..........................------------........ ( -31.50)
>DroSim_CAF1 12263 99 - 1
GUUUAUGGUUGCCCAAUGGAUCGGGCAUCCGUAAGCGCCACUUGCUACUAAGUGGGCGAAAUAAA--AAAUCCAAUACUUUUACAUAAUCCAU------------UUUUAGAA
((((((((.(((((........))))).))))))))((((((((....))))).)))........--..........................------------........ ( -27.90)
>DroEre_CAF1 12190 106 - 1
GCUUGAGGUUGCCCCUUGAAUCGGGCAGCCGUAGGCGCCA--UGCUACUAAGUGUGUAAAAUAA---AAAUCCAAUACUAUUACACAAUCCAC--AAUUGGGUGUUUUUAAAA
(((((.((((((((........)))))))).)))))..((--((((....))))))(((((...---..(((((((.................--.)))))))..)))))... ( -29.97)
>DroYak_CAF1 12732 108 - 1
GUUUAUGGUUGCCCGUUGAAUAGGGCAUCCUUAGGCGCCA--UGCUACUAGGUCUAUAAAAUAA---AAAUCCAAUACUAUUACACAAUCCAUUUAUUUUGGUGUUUUUAAAA
(((((.((.(((((........))))).)).)))))(((.--........)))........(((---((((((((.......................)))).)))))))... ( -21.90)
>consensus
GUUUAUGGUUGCCCAAUGGAUCGGGCAUCCGUAAGCGCCACUUGCUACUAAGUGGGCAAAAUAAA__AAAUCCAAUACUUUUACAUAAUCCAU____UU_GGUGUUUUUAAAA
((((((((.(((((........))))).))))))))((((((((....)))))).))........................................................ (-21.22 = -21.90 +   0.68)

alignment

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secondary structure

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dotplot

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Window 5

Location 14,979,983 – 14,980,101
Length 118
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 86.95
Mean single sequence MFE -29.64
Consensus MFE -23.02
Energy contribution -23.70
Covariance contribution 0.68
Combinations/Pair 1.19
Mean z-score -2.28
Structure conservation index 0.78
SVM decision value 1.38
SVM RNA-class probability 0.948615
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14979983 118 - 27905053
AUAAGUGUUAUGUUUCCUUACCCUAAUCACAGACAUCCAAGUUUAUGGUUGCCCCAUGGAUCGGGCAUCCGUAAGCGCCACUUGCUACUAAGUGGGCAAAAUAAAAAAAAUCCAAUAC
.....((((.(((...........................((((((((.(((((........))))).)))))))).(((((((....)))))))))).))))............... ( -29.50)
>DroSec_CAF1 12193 116 - 1
AUAAGUGUUAUCUUACCUUACCCUAAUCACAGACAUCCAAGUUUAUGGUUGCCCAAUGGAUUGGGCAGCCGUAAGCGCUACUUGCUACUAAGUGGGCAAAAUAAA--AAAUCCAAUAC
.((((.((......))))))....................((((((((((((((((....))))))))))))))))((((((((....))))).)))........--........... ( -33.40)
>DroSim_CAF1 12286 116 - 1
AUAAGUGUUAUCUUACCUUACCCUAAUCACAGACAUCCAAGUUUAUGGUUGCCCAAUGGAUCGGGCAUCCGUAAGCGCCACUUGCUACUAAGUGGGCGAAAUAAA--AAAUCCAAUAC
.((((.((......))))))......((.(..........((((((((.(((((........))))).)))))))).(((((((....)))))))).))......--........... ( -30.20)
>DroEre_CAF1 12223 113 - 1
AUAAGUGUUAUGUUACCUUACCUUAAUCGCAGACAUCCAAGCUUGAGGUUGCCCCUUGAAUCGGGCAGCCGUAGGCGCCA--UGCUACUAAGUGUGUAAAAUAA---AAAUCCAAUAC
.......((((.((((...((((((...(((.........(((((.((((((((........)))))))).)))))....--)))...)))).)))))).))))---........... ( -27.62)
>DroYak_CAF1 12767 113 - 1
AUAAGUGUUACGUUGCCUUAUUUUAAUCACAGGCAUCCAAGUUUAUGGUUGCCCGUUGAAUAGGGCAUCCUUAGGCGCCA--UGCUACUAGGUCUAUAAAAUAA---AAAUCCAAUAC
....(((((....((((((((((.....((.((((.(((......))).)))).)).))))))))))..(((((..((..--.))..)))))............---......))))) ( -27.50)
>consensus
AUAAGUGUUAUGUUACCUUACCCUAAUCACAGACAUCCAAGUUUAUGGUUGCCCAAUGGAUCGGGCAUCCGUAAGCGCCACUUGCUACUAAGUGGGCAAAAUAAA__AAAUCCAAUAC
....(((((...............................((((((((.(((((........))))).))))))))((((((((....)))))).))................))))) (-23.02 = -23.70 +   0.68)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:03:51 2006