Locus 3931

Sequence ID X_DroMel_CAF1
Location 10,489,472 – 10,489,582
Length 110
Max. P 0.935021
window6456 window6457

overview

Window 6

Location 10,489,472 – 10,489,582
Length 110
Sequences 5
Columns 117
Reading direction forward
Mean pairwise identity 91.49
Mean single sequence MFE -20.58
Consensus MFE -16.72
Energy contribution -16.64
Covariance contribution -0.08
Combinations/Pair 1.12
Mean z-score -1.52
Structure conservation index 0.81
SVM decision value 0.42
SVM RNA-class probability 0.727992
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10489472 110 + 22224390
AAUAUCCUGAGCAACAUAUGUGAACU-UUGGUCUUUUCCCAUUUUCAUGUUUGCUGCUUACUUAU------AUGUGCAUCCACUUGUUUGUCUGACCAUUUUCUAUGGCCAUGAUCU
.((((..((((((.((.(((((((..-.(((.......)))..))))))).)).))))))...))------))(((....)))......(((((.((((.....)))).)).))).. ( -21.00)
>DroSec_CAF1 20201 110 + 1
AAUAACCAGAGCAACAAAUGUGAACU-UUGGUCUUUUCCUAUUUUCAUGUUUGCUGCUUACUUAU------AUGUGCAUCCACUUGUUUGUCUGACCAUUUUCUAUGGCCAUGAUCU
........(((((.((((((((((..-..((......))....)))))))))).)))))((..((------(.(((....))).)))..)).((.((((.....)))).))...... ( -23.20)
>DroSim_CAF1 20830 110 + 1
AAUAUCCAGAGCAACAAAUGUGAACU-UUGGUCUUUUCCUAUUUUCAUGUUUGCUGCUUACUUAU------AUGUGCAUCCACUUGUUUGUCUGACCAUUUUCUAUGGCCAUGAUCU
........(((((.((((((((((..-..((......))....)))))))))).)))))((..((------(.(((....))).)))..)).((.((((.....)))).))...... ( -23.20)
>DroEre_CAF1 21540 109 + 1
AA-AUCCUGUGCAACAUAUGUGAACU-UUGGUCUUUUCCUAUUUUUAUGUUUGCUGCUUACUUAU------AUGUGCAUCCACUUGUUUGUCUGACCAUUUUCUAUGGCCAUGAUCU
..-.......(((.((.(((((((..-..((......))....))))))).)).)))..((..((------(.(((....))).)))..)).((.((((.....)))).))...... ( -15.00)
>DroYak_CAF1 22530 116 + 1
AAUAUCCUGAACAACAUAUGUGAAUUUUUGGUCUUUUCCUAUUUUCACAU-UGCUGCUUACUUAUAGUCGUAUGUUCAUCCAUUUGUUUGUCUGACCAUUUGCCAUGGCCAUGAUCU
.......((((((....(((((((.....((......))....)))))))-(((.(((.......))).)))))))))...........(((((.((((.....)))).)).))).. ( -20.50)
>consensus
AAUAUCCUGAGCAACAUAUGUGAACU_UUGGUCUUUUCCUAUUUUCAUGUUUGCUGCUUACUUAU______AUGUGCAUCCACUUGUUUGUCUGACCAUUUUCUAUGGCCAUGAUCU
........(((((.((.(((((((.....((......))....))))))).)).)))))..............................(((((.((((.....)))).)).))).. (-16.72 = -16.64 +  -0.08)

alignment

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secondary structure

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dotplot

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Window 7

Location 10,489,472 – 10,489,582
Length 110
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 91.49
Mean single sequence MFE -24.36
Consensus MFE -18.34
Energy contribution -18.22
Covariance contribution -0.12
Combinations/Pair 1.08
Mean z-score -2.53
Structure conservation index 0.75
SVM decision value 1.24
SVM RNA-class probability 0.935021
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10489472 110 - 22224390
AGAUCAUGGCCAUAGAAAAUGGUCAGACAAACAAGUGGAUGCACAU------AUAAGUAAGCAGCAAACAUGAAAAUGGGAAAAGACCAA-AGUUCACAUAUGUUGCUCAGGAUAUU
..(((.(((((((.....))))))).........(((....)))..------.......(((((((....((((..(((.......))).-..))))....)))))))...)))... ( -24.60)
>DroSec_CAF1 20201 110 - 1
AGAUCAUGGCCAUAGAAAAUGGUCAGACAAACAAGUGGAUGCACAU------AUAAGUAAGCAGCAAACAUGAAAAUAGGAAAAGACCAA-AGUUCACAUUUGUUGCUCUGGUUAUU
...((.(((((((.....))))))))).......(((....)))..------((((.(((((((((((..((((....((......))..-..))))..))))))))).)).)))). ( -26.90)
>DroSim_CAF1 20830 110 - 1
AGAUCAUGGCCAUAGAAAAUGGUCAGACAAACAAGUGGAUGCACAU------AUAAGUAAGCAGCAAACAUGAAAAUAGGAAAAGACCAA-AGUUCACAUUUGUUGCUCUGGAUAUU
..(((.(((((((.....)))))))......((.(((....)))..------.......(((((((((..((((....((......))..-..))))..))))))))).)))))... ( -25.70)
>DroEre_CAF1 21540 109 - 1
AGAUCAUGGCCAUAGAAAAUGGUCAGACAAACAAGUGGAUGCACAU------AUAAGUAAGCAGCAAACAUAAAAAUAGGAAAAGACCAA-AGUUCACAUAUGUUGCACAGGAU-UU
(((((.(((((((.....))))))).........(((....)))..------........((((((............((......))..-.(....)...))))))....)))-)) ( -19.40)
>DroYak_CAF1 22530 116 - 1
AGAUCAUGGCCAUGGCAAAUGGUCAGACAAACAAAUGGAUGAACAUACGACUAUAAGUAAGCAGCA-AUGUGAAAAUAGGAAAAGACCAAAAAUUCACAUAUGUUGUUCAGGAUAUU
..(((.(((((((.....)))))))..............(((((.(((........)))...((((-(((((((....((......)).....))))))).))))))))).)))... ( -25.20)
>consensus
AGAUCAUGGCCAUAGAAAAUGGUCAGACAAACAAGUGGAUGCACAU______AUAAGUAAGCAGCAAACAUGAAAAUAGGAAAAGACCAA_AGUUCACAUAUGUUGCUCAGGAUAUU
...((.(((((((.....))))))))).......(((......)))..............((((((....((((....((......)).....))))....)))))).......... (-18.34 = -18.22 +  -0.12)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:06 2006