Locus 890

Sequence ID X_DroMel_CAF1
Location 2,507,250 – 2,507,381
Length 131
Max. P 0.998746
window1444 window1445

overview

Window 4

Location 2,507,250 – 2,507,363
Length 113
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.03
Mean single sequence MFE -30.24
Consensus MFE -25.52
Energy contribution -24.96
Covariance contribution -0.56
Combinations/Pair 1.09
Mean z-score -2.64
Structure conservation index 0.84
SVM decision value 3.06
SVM RNA-class probability 0.998296
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2507250 113 - 22224390
------CUGCCCACACAAUUUGCAUUAAAAAUAGACAAAAGGCAAGUGAUAAUAUUUGGCGUCUAUUUUUGGAUGCAAAACGUUCCUACUGUUGAUCAAUUAAUUGACGCCAG-GCAAUG
------.((((.......((((((((((((((((((....(.((((((....)))))).))))))))))).))))))))...........((..((......))..))....)-)))... ( -29.30)
>DroSec_CAF1 5837 113 - 1
------CUGCCCACAAAAUUUGCAUUAAAAAUAGACAAAAGGCAAGUGAUAAUAUUUGGCGUCUAUUUUUGGAUGCAAAACGUUCCUACUGUUGAUCAAUUAAUUGACGCCUG-GCAAUG
------.((((.......((((((((((((((((((....(.((((((....)))))).))))))))))).))))))))...........((..((......))..))....)-)))... ( -29.10)
>DroSim_CAF1 6743 113 - 1
------CUGCCCACGAAAUUUGCAUUAAAAAUAGACAAAAGGCAAGUGAUAAUAUUUGGCGUCUAUUUUUGGAUGCAAAACGUUCCUACUGUUGAUCAAUUAAUUGACGCCUG-GCAAUG
------.((((...(((.((((((((((((((((((....(.((((((....)))))).))))))))))).))))))))...))).....((..((......))..))....)-)))... ( -29.90)
>DroEre_CAF1 6228 119 - 1
UUUUAUCUGCCCACAAAAUUUGCAUUAAAAAUAGACAAAAGGCAAGUGAUAAUAUUUGGUGUCUAUUUUUGGAUGCGAAACGUUACCUCUGUUGAUCAAUUAAUUGACGCCUG-GCAAUG
.......((((.......(((((((((((((((((((.....((((((....)))))).))))))))))).))))))))...........((..((......))..))....)-)))... ( -28.80)
>DroYak_CAF1 7277 120 - 1
UUUUAUCUGCCCACAAAAUUUGCAUUAAAAAUAGACAAAAGGCAAGUGAUAAUAUUUGGUGUCUAUUUUUGGAUGCAAAACGUUCCCUCUGUUGAUCAAUUAAUUGACGCCUGGGCGAUG
...((((.(((((.....(((((((((((((((((((.....((((((....)))))).))))))))))).))))))))...........((..((......))..))...))))))))) ( -34.10)
>consensus
______CUGCCCACAAAAUUUGCAUUAAAAAUAGACAAAAGGCAAGUGAUAAUAUUUGGCGUCUAUUUUUGGAUGCAAAACGUUCCUACUGUUGAUCAAUUAAUUGACGCCUG_GCAAUG
.......(((........((((((((((((((((((....(.((((((....)))))).))))))))))).))))))))...........((..((......))..))......)))... (-25.52 = -24.96 +  -0.56)

alignment

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secondary structure

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dotplot

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Window 5

Location 2,507,289 – 2,507,381
Length 92
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 82.65
Mean single sequence MFE -20.94
Consensus MFE -20.70
Energy contribution -20.30
Covariance contribution -0.40
Combinations/Pair 1.08
Mean z-score -2.84
Structure conservation index 0.99
SVM decision value 3.21
SVM RNA-class probability 0.998746
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2507289 92 - 22224390
UCCUUUUCUCCCCAUUAC----------------------------CUGCCCACACAAUUUGCAUUAAAAAUAGACAAAAGGCAAGUGAUAAUAUUUGGCGUCUAUUUUUGGAUGCAAAA
..................----------------------------............((((((((((((((((((....(.((((((....)))))).))))))))))).)))))))). ( -21.00)
>DroSec_CAF1 5876 92 - 1
UCCUUUUCUCCCCAUUCC----------------------------CUGCCCACAAAAUUUGCAUUAAAAAUAGACAAAAGGCAAGUGAUAAUAUUUGGCGUCUAUUUUUGGAUGCAAAA
..................----------------------------............((((((((((((((((((....(.((((((....)))))).))))))))))).)))))))). ( -21.00)
>DroSim_CAF1 6782 92 - 1
UCCUUUUCUCCCCAUUCC----------------------------CUGCCCACGAAAUUUGCAUUAAAAAUAGACAAAAGGCAAGUGAUAAUAUUUGGCGUCUAUUUUUGGAUGCAAAA
..................----------------------------............((((((((((((((((((....(.((((((....)))))).))))))))))).)))))))). ( -21.00)
>DroEre_CAF1 6267 113 - 1
UCCUUUUCUCCCCAUUCCCAAC-------CUACCUCCUCAUUUUAUCUGCCCACAAAAUUUGCAUUAAAAAUAGACAAAAGGCAAGUGAUAAUAUUUGGUGUCUAUUUUUGGAUGCGAAA
......................-------.............................(((((((((((((((((((.....((((((....)))))).))))))))))).)))))))). ( -20.70)
>DroYak_CAF1 7317 120 - 1
UCCUUUUUUCCCCAUCCCUCAAAUCCCCAUUCCCUCCCCAUUUUAUCUGCCCACAAAAUUUGCAUUAAAAAUAGACAAAAGGCAAGUGAUAAUAUUUGGUGUCUAUUUUUGGAUGCAAAA
..........................................................(((((((((((((((((((.....((((((....)))))).))))))))))).)))))))). ( -21.00)
>consensus
UCCUUUUCUCCCCAUUCC____________________________CUGCCCACAAAAUUUGCAUUAAAAAUAGACAAAAGGCAAGUGAUAAUAUUUGGCGUCUAUUUUUGGAUGCAAAA
..........................................................((((((((((((((((((....(.((((((....)))))).))))))))))).)))))))). (-20.70 = -20.30 +  -0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:56:23 2006