Locus 10098

Sequence ID 3R_DroMel_CAF1
Location 27,055,345 – 27,055,543
Length 198
Max. P 0.999629
window16077 window16078

overview

Window 7

Location 27,055,345 – 27,055,463
Length 118
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 98.14
Mean single sequence MFE -23.85
Consensus MFE -22.88
Energy contribution -22.64
Covariance contribution -0.24
Combinations/Pair 1.03
Mean z-score -2.29
Structure conservation index 0.96
SVM decision value 3.37
SVM RNA-class probability 0.999104
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27055345 118 + 27905053
UAAAUACAUUUGGAGAAUUUUCUUCAACUAGUCAUUAUUGUAGUUAAAUUAAAUUUUUGAUUUUUAUACGCAUAAAAACAUAACUUUCUAACCUACUGGUUGGUGGAAUUCCCGAACC
........(((((.(((((((..(((((((((.........(((((..((((....))))(((((((....)))))))..))))).........))))))))).)))))))))))).. ( -23.07)
>DroSec_CAF1 102608 118 + 1
UAAAUACAUUUGGAGAAUUUUCUUCAACUAGUCAUUAUUGUAGUUAAAUUAAAUUUUUGAUUUUUAUACGCAUAAAAACAUAACUAUCUAACCUACUGGUUGGUGGAAUUCCCGAACC
........(((((.(((((((..(((((((((.......(((((((..((((....))))(((((((....)))))))..))))))).......))))))))).)))))))))))).. ( -25.34)
>DroSim_CAF1 105384 117 + 1
UAAAUACAUUUGGAGAAUUUUCUUCAACUAGUCAUUAUUGUAGUUAAAUUAAAUUUUUGAUUUUUAUACGCAUAA-AACAUAACUAUCUAACCUACUGGUUGGUGGAAUUCCCGAACC
........(((((.(((((((..(((((((((.......(((((((((((((....))))))(((((....))))-)...))))))).......))))))))).)))))))))))).. ( -25.24)
>DroEre_CAF1 109887 118 + 1
UAAAUACAUUUGGAGAGUUUUCUUCAACUAGUCAUUAUUGUAGUUAAAUUAAAUUUUUGAUUUUUAUACGCAUAAACACAUAACUUUCUAACCUACUGGUUGGUGGAAUUCCCGAACC
........(((((.(((((((..(((((((((..((((((((...(((((((....)))))))...)))).)))).....((......))....))))))))).)))))))))))).. ( -22.80)
>DroYak_CAF1 105929 118 + 1
UAAAUACAUUUGGAGAGUUUUCUUCAACUAGUCAUUAUUGUAGUUAAAUUAAAUUUUUGAUUUUUAUACGCAUAAACACAUAACUUUCUAACCUACUGGUUGGUGGAAUUCCCGAACC
........(((((.(((((((..(((((((((..((((((((...(((((((....)))))))...)))).)))).....((......))....))))))))).)))))))))))).. ( -22.80)
>consensus
UAAAUACAUUUGGAGAAUUUUCUUCAACUAGUCAUUAUUGUAGUUAAAUUAAAUUUUUGAUUUUUAUACGCAUAAAAACAUAACUUUCUAACCUACUGGUUGGUGGAAUUCCCGAACC
........(((((.(((((((..(((((((((..((((((((...(((((((....)))))))...)))).)))).....((......))....))))))))).)))))))))))).. (-22.88 = -22.64 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 27,055,423 – 27,055,543
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.75
Mean single sequence MFE -25.04
Consensus MFE -22.22
Energy contribution -22.10
Covariance contribution -0.12
Combinations/Pair 1.08
Mean z-score -2.68
Structure conservation index 0.89
SVM decision value 3.81
SVM RNA-class probability 0.999629
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27055423 120 + 27905053
CAUAACUUUCUAACCUACUGGUUGGUGGAAUUCCCGAACCCUAUAUUUAUAACUUAAGAAACCUCUAUCCUGUGUACAAUUUCAAUGAAAUCUUAGUGAAGGGUCUUUCCCCAAUCAGUU
................(((((((((.((((..(((.....................(((....)))..............((((.(((....))).)))))))...))))))))))))). ( -25.10)
>DroSec_CAF1 102686 119 + 1
CAUAACUAUCUAACCUACUGGUUGGUGGAAUUCCCGAACCCUAUAUUUAUAACUUAAAAAACCUCUAUCCCGUGUACAAUUUCAAUGAAAUCAAAGUUAAGGGUCUUUCCCCAAUCAGU-
................(((((((((.((((..((((....)........((((((................(....).(((((...)))))..)))))).)))...)))))))))))))- ( -22.80)
>DroSim_CAF1 105461 119 + 1
CAUAACUAUCUAACCUACUGGUUGGUGGAAUUCCCGAACCCUAUAUUUAUAACUUAAGAAACCUCUAUCCCGUGUACAAUUUCAAUGAAAUCUAAGUAAAGGGUCUUUCCCCAAUCAGU-
................(((((((((.((((.....((.((((.((((((.......(((....)))............(((((...))))).)))))).)))))).)))))))))))))- ( -25.70)
>DroEre_CAF1 109965 120 + 1
CAUAACUUUCUAACCUACUGGUUGGUGGAAUUCCCGAACCCUAUAUUUAGAACUUAAGAAACCUCUUUCCCGUGUACAAUUUCAAUGAAAUCUUAGUAAAGGGUCUCUCCCCAAUCAGUU
................(((((((((.(((......(((((((.((((.(((......((....))((((...((........))..))))))).)))).))))).)))))))))))))). ( -25.60)
>DroYak_CAF1 106007 120 + 1
CAUAACUUUCUAACCUACUGGUUGGUGGAAUUCCCGAACCCUAAACUUAUAACUUAAGCAACCUCUUUCCCGUGUACAAUUUCAAUGAAAUCUUAGUAAAGGGUCUUUCCCCAAUCAGUU
................(((((((((.((((..(((.....((((.((((.....)))).......((((...((........))..))))..))))....)))...))))))))))))). ( -26.00)
>consensus
CAUAACUUUCUAACCUACUGGUUGGUGGAAUUCCCGAACCCUAUAUUUAUAACUUAAGAAACCUCUAUCCCGUGUACAAUUUCAAUGAAAUCUUAGUAAAGGGUCUUUCCCCAAUCAGUU
................(((((((((.((((..(((..........((((.....))))....................(((((...))))).........)))...))))))))))))). (-22.22 = -22.10 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:48:51 2006