Locus 5277

Sequence ID 3L_DroMel_CAF1
Location 14,573,429 – 14,573,557
Length 128
Max. P 0.984136
window8345 window8346 window8347

overview

Window 5

Location 14,573,429 – 14,573,521
Length 92
Sequences 4
Columns 92
Reading direction forward
Mean pairwise identity 97.10
Mean single sequence MFE -10.80
Consensus MFE -10.00
Energy contribution -10.25
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.81
Structure conservation index 0.93
SVM decision value 0.45
SVM RNA-class probability 0.743040
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14573429 92 + 23771897
AACUAGAUUUCCCAUCCCCUUUCCGCUUGCAGCAUUUUGUCUGCAUAUUUGCAGCAAUUCUAUUAAUACUUAUAAAUUAACCCCUUUAUUUC
...((((.................((.....))...(((.(((((....)))))))).)))).............................. ( -11.30)
>DroSec_CAF1 48288 92 + 1
AACUAGAUUUCCCAUCCCCUUUCCGCUUGCAGCAUUUUGUCUGCAUAUUUGCAGCAAUUCUAUUAAUACUUAUAAAUUAACCCCUUUAUUUC
...((((.................((.....))...(((.(((((....)))))))).)))).............................. ( -11.30)
>DroEre_CAF1 48140 92 + 1
AACUAGAUUUCCCAUCCCCUUUCCGCUUGCAGCAUGUUGUCCGCAUAUUUGCAGCAAUUCUAUUAAUACUUAUAAAUUAACCCCUUUAUUUC
........................(((.((((.((((.....))))..)))))))..................................... (  -8.40)
>DroYak_CAF1 49777 91 + 1
AACUAGAUU-GCCAUCCCCUUUCCGCUUGUAGCAUGUUGUCUGCAUAUUUGCAGCAAUUCUAUUAAUACUUAUAAAUUAACCCCUUUAUUUC
...((((..-..............((.....))..((((.(((((....))))))))))))).............................. ( -12.20)
>consensus
AACUAGAUUUCCCAUCCCCUUUCCGCUUGCAGCAUGUUGUCUGCAUAUUUGCAGCAAUUCUAUUAAUACUUAUAAAUUAACCCCUUUAUUUC
...((((.................((.....))...(((.(((((....)))))))).)))).............................. (-10.00 = -10.25 +   0.25)

alignment

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secondary structure

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dotplot

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Window 6

Location 14,573,467 – 14,573,557
Length 90
Sequences 5
Columns 94
Reading direction forward
Mean pairwise identity 96.51
Mean single sequence MFE -16.37
Consensus MFE -13.24
Energy contribution -13.28
Covariance contribution 0.04
Combinations/Pair 1.04
Mean z-score -2.00
Structure conservation index 0.81
SVM decision value 0.78
SVM RNA-class probability 0.847727
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14573467 90 + 23771897
GUCUGCAUAUUUGCAGCAAUUCUAUUAAUACUUAUAAAUUAACCCCUUUAUUUCUAGGCCCUGCGAUUGCACAUUUUUUAUGUG----AUGCAU
...(((((..((((((........(((((........)))))..(((........)))..))))))...(((((.....)))))----))))). ( -16.30)
>DroSec_CAF1 48326 90 + 1
GUCUGCAUAUUUGCAGCAAUUCUAUUAAUACUUAUAAAUUAACCCCUUUAUUUCUAGGCCCUGCGGUUGCACAUUUUUUAUGUG----AUGCAU
(.(((((....))))))...........................(((........)))...((((....(((((.....)))))----.)))). ( -15.80)
>DroSim_CAF1 50261 90 + 1
GUCUGCAUAUUUACAGCAAUUCUAUUAAUACUUAUAAAUUAACCCCUUUAUAUCUAGGCCCUGCGAUUGCACAUUUUUUAUGUG----AUGCAU
...(((((.......((((((.......((..((((((........))))))..))........))))))((((.....)))).----))))). ( -13.06)
>DroEre_CAF1 48178 90 + 1
GUCCGCAUAUUUGCAGCAAUUCUAUUAAUACUUAUAAAUUAACCCCUUUAUUUCUAGGCCCUGCGAUUGCACAUUUUUUAUGUG----AUGCAU
....((((..((((((........(((((........)))))..(((........)))..))))))...(((((.....)))))----)))).. ( -16.00)
>DroYak_CAF1 49814 94 + 1
GUCUGCAUAUUUGCAGCAAUUCUAUUAAUACUUAUAAAUUAACCCCUUUAUUUCUAGGCCCUGCGAUUGCACAUUUUUUAUGUGCAUAAUGCAU
...(((((..((((((........(((((........)))))..(((........)))..)))))).(((((((.....)))))))..))))). ( -20.70)
>consensus
GUCUGCAUAUUUGCAGCAAUUCUAUUAAUACUUAUAAAUUAACCCCUUUAUUUCUAGGCCCUGCGAUUGCACAUUUUUUAUGUG____AUGCAU
....((((..((((((........(((((........)))))..(((........)))..))))))...(((((.....)))))....)))).. (-13.24 = -13.28 +   0.04)

alignment

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secondary structure

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dotplot

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Window 7

Location 14,573,467 – 14,573,557
Length 90
Sequences 5
Columns 94
Reading direction reverse
Mean pairwise identity 96.51
Mean single sequence MFE -17.60
Consensus MFE -16.66
Energy contribution -16.34
Covariance contribution -0.32
Combinations/Pair 1.09
Mean z-score -1.63
Structure conservation index 0.95
SVM decision value 1.96
SVM RNA-class probability 0.984136
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14573467 90 - 23771897
AUGCAU----CACAUAAAAAAUGUGCAAUCGCAGGGCCUAGAAAUAAAGGGGUUAAUUUAUAAGUAUUAAUAGAAUUGCUGCAAAUAUGCAGAC
.(((((----(((((.....))))).....((((..(((........))).((((((........)))))).......))))....)))))... ( -17.10)
>DroSec_CAF1 48326 90 - 1
AUGCAU----CACAUAAAAAAUGUGCAACCGCAGGGCCUAGAAAUAAAGGGGUUAAUUUAUAAGUAUUAAUAGAAUUGCUGCAAAUAUGCAGAC
.(((((----(((((.....))))).....((((..(((........))).((((((........)))))).......))))....)))))... ( -17.10)
>DroSim_CAF1 50261 90 - 1
AUGCAU----CACAUAAAAAAUGUGCAAUCGCAGGGCCUAGAUAUAAAGGGGUUAAUUUAUAAGUAUUAAUAGAAUUGCUGUAAAUAUGCAGAC
.(((((----(((((.....))))).....((((..(((........))).((((((........)))))).......))))....)))))... ( -14.70)
>DroEre_CAF1 48178 90 - 1
AUGCAU----CACAUAAAAAAUGUGCAAUCGCAGGGCCUAGAAAUAAAGGGGUUAAUUUAUAAGUAUUAAUAGAAUUGCUGCAAAUAUGCGGAC
.(((((----(((((.....))))).....((((..(((........))).((((((........)))))).......))))....)))))... ( -16.40)
>DroYak_CAF1 49814 94 - 1
AUGCAUUAUGCACAUAAAAAAUGUGCAAUCGCAGGGCCUAGAAAUAAAGGGGUUAAUUUAUAAGUAUUAAUAGAAUUGCUGCAAAUAUGCAGAC
.(((((..(((((((.....)))))))...((((..(((........))).((((((........)))))).......))))....)))))... ( -22.70)
>consensus
AUGCAU____CACAUAAAAAAUGUGCAAUCGCAGGGCCUAGAAAUAAAGGGGUUAAUUUAUAAGUAUUAAUAGAAUUGCUGCAAAUAUGCAGAC
.(((((....(((((.....))))).....((((..(((........))).((((((........)))))).......))))....)))))... (-16.66 = -16.34 +  -0.32)

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 11:46:12 2006