Locus 4997

Sequence ID 2L_DroMel_CAF1
Location 14,376,570 – 14,376,730
Length 160
Max. P 0.860402
window7937 window7938

overview

Window 7

Location 14,376,570 – 14,376,690
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 99.00
Mean single sequence MFE -27.54
Consensus MFE -27.20
Energy contribution -27.20
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.33
Structure conservation index 0.99
SVM decision value 0.58
SVM RNA-class probability 0.789264
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14376570 120 - 22407834
AUUUCUCGCCUUCUCACACUUUGUGUGUCUUUCAAUUUAAUUUAUUAAUCGUGCGUGUUCAUCCGCACUACAUUUGUGGGCGGCUAAUGGCUAUGGCAACGUCUUGGCCCAUUUCAGAUC
...(((.(((..((((((...((((((.....))................(((((........)))))))))..)))))).)))....(((((.(((...))).)))))......))).. ( -27.30)
>DroSec_CAF1 24720 120 - 1
AUUUCUCGCCUUCUCACACUUUGUGUGUCUUUCAAUUUAAUUUAUUAAUCGUGCGUGUUCAUCCGCACUACAUUUGUGGGCGGCUAAUGGCUAUGGCAACGUCUUGGCCCAUUUCAGAUC
...(((.(((..((((((...((((((.....))................(((((........)))))))))..)))))).)))....(((((.(((...))).)))))......))).. ( -27.30)
>DroSim_CAF1 26822 120 - 1
AUUUCUCGCCUUCUCACACUUUGUGUGUCUUUCAAUUUAAUUUAUUAAUCGUGCGUGUUCAUCCGCACUACAUUUGUGGGCGGCUAAUGGCUAUGGCAACGUCUUGGCCCAUUUCAGAUC
...(((.(((..((((((...((((((.....))................(((((........)))))))))..)))))).)))....(((((.(((...))).)))))......))).. ( -27.30)
>DroEre_CAF1 25373 120 - 1
AUUUCUCGCCUUCUCACACUUUGUGUGUCUUUCAAUUUAAUUUAUUAAUCGUGCGUGUUCAUCCGCACUACAUUUGUGGGCGGCUAAUGGCUAUGGCAACGUCUUGGCCCAUUUCAUUUC
.......(((..((((((...((((((.....))................(((((........)))))))))..)))))).)))....(((((.(((...))).)))))........... ( -27.20)
>DroYak_CAF1 26263 120 - 1
AUUUCUCGCCUUCUCACACUUUGUGUGUCUUUUAAUUUAAUUUAUUAAUCGUGCGUGUUCAUCCGCACUACAUUUGUGGGCGGCUAAUGGCUAUGGCAACGUCUUGGCCCAUUUCAGAUC
...(((.(((..((((((....(((((....(((((.......)))))..(((((........)))))))))).)))))).)))....(((((.(((...))).)))))......))).. ( -28.60)
>consensus
AUUUCUCGCCUUCUCACACUUUGUGUGUCUUUCAAUUUAAUUUAUUAAUCGUGCGUGUUCAUCCGCACUACAUUUGUGGGCGGCUAAUGGCUAUGGCAACGUCUUGGCCCAUUUCAGAUC
.......(((..((((((....(((((.........((((....))))..(((((........)))))))))).)))))).)))....(((((.(((...))).)))))........... (-27.20 = -27.20 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 8

Location 14,376,610 – 14,376,730
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 99.67
Mean single sequence MFE -25.40
Consensus MFE -23.80
Energy contribution -24.00
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.60
Structure conservation index 0.94
SVM decision value 0.83
SVM RNA-class probability 0.860402
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14376610 120 + 22407834
CCCACAAAUGUAGUGCGGAUGAACACGCACGAUUAAUAAAUUAAAUUGAAAGACACACAAAGUGUGAGAAGGCGAGAAAUACGAAUUUUCCAAAUGAAUUUGUUAAACACUGUCGACUGG
.(((........(((((........)))))(.((((((((((...(((....((((.....))))(((((..(((....).))..))))))))...)))))))))).).........))) ( -25.70)
>DroSec_CAF1 24760 120 + 1
CCCACAAAUGUAGUGCGGAUGAACACGCACGAUUAAUAAAUUAAAUUGAAAGACACACAAAGUGUGAGAAGGCGAGAAAUACGAAUUUUCCAAAUGAAUUUGUUAAACACUGUCGACUGG
.(((........(((((........)))))(.((((((((((...(((....((((.....))))(((((..(((....).))..))))))))...)))))))))).).........))) ( -25.70)
>DroSim_CAF1 26862 120 + 1
CCCACAAAUGUAGUGCGGAUGAACACGCACGAUUAAUAAAUUAAAUUGAAAGACACACAAAGUGUGAGAAGGCGAGAAAUACGAAUUUUCCAAAUGAAUUUGUUAAACACUGUCGACUGG
.(((........(((((........)))))(.((((((((((...(((....((((.....))))(((((..(((....).))..))))))))...)))))))))).).........))) ( -25.70)
>DroEre_CAF1 25413 120 + 1
CCCACAAAUGUAGUGCGGAUGAACACGCACGAUUAAUAAAUUAAAUUGAAAGACACACAAAGUGUGAGAAGGCGAGAAAUACGAAUUUUCCAAAUGAAUUUGUUAAACACUGUCGACUGG
.(((........(((((........)))))(.((((((((((...(((....((((.....))))(((((..(((....).))..))))))))...)))))))))).).........))) ( -25.70)
>DroYak_CAF1 26303 120 + 1
CCCACAAAUGUAGUGCGGAUGAACACGCACGAUUAAUAAAUUAAAUUAAAAGACACACAAAGUGUGAGAAGGCGAGAAAUACGAAUUUUCCAAAUGAAUUUGUUAAACACUGUCGACUGG
.(((........(((((........)))))(.((((((((((..........((((.....))))(((((..(((....).))..)))))......)))))))))).).........))) ( -24.20)
>consensus
CCCACAAAUGUAGUGCGGAUGAACACGCACGAUUAAUAAAUUAAAUUGAAAGACACACAAAGUGUGAGAAGGCGAGAAAUACGAAUUUUCCAAAUGAAUUUGUUAAACACUGUCGACUGG
.(((........(((((........)))))(.((((((((((...(((....((((.....))))(((((..((.......))..))))))))...)))))))))).).........))) (-23.80 = -24.00 +   0.20)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:33:09 2006