Locus 5477

Sequence ID X_DroMel_CAF1
Location 14,231,525 – 14,231,650
Length 125
Max. P 0.992416
window8886 window8887

overview

Window 6

Location 14,231,525 – 14,231,631
Length 106
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 83.84
Mean single sequence MFE -28.68
Consensus MFE -23.38
Energy contribution -23.02
Covariance contribution -0.36
Combinations/Pair 1.14
Mean z-score -2.69
Structure conservation index 0.82
SVM decision value 2.33
SVM RNA-class probability 0.992416
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14231525 106 - 22224390
UUUAUUCCCCU-------CCUUUCUUUCGCUUCUGCGAAAGGAAUAUCCAUCAUUGGAGGGCAUUGCAGAGUCGUGGCUGCAAACAUUUAUGCAUAUAUAUAUAUAUAAUAU-U
.......((((-------((((((((((((....))))))))))...........))))))..((((((........))))))...........(((((....)))))....-. ( -29.00)
>DroSec_CAF1 140006 107 - 1
UCCAUUCUCGUUUUUUUUCCUUUCUUUCGCUUCUGCGAAAGGAAUAUCCAUCAUUGGAGGGCAUUGCGGAGUCGUGGCUGCAAACAUUUAUGU------AUAUAUCUCAGAU-U
.........((((.....((((((((((((....))))))))))..((((....))))))((((..((....))..).)))))))........------.............-. ( -25.80)
>DroSim_CAF1 120155 106 - 1
UCCAUUCCCGUUUUUUUUUCU-UCUUUCGCUUCUGCGAAAGGAAUAUCCAUCAUUGGAGGGCAUUGCGGAGUCGUGGCUGCAAACAUUUAUGU------AUAUAUCUCAGAU-U
......(((...........(-((((((((....)))))))))...((((....)))))))..((((((........))))))..........------.............-. ( -26.20)
>DroEre_CAF1 127676 104 - 1
UGCUG-CC-CUU-CCAUUCCUUUCUUUCGCUCCUGCGAAAGGAAUAUCCAUCAUUGGAGGGCAUUGCAGAGCCGUGGCUGCAAACAUUUAUG----U--AUAUAUCCCAUAU-U
(((((-((-(..-.......((((((((((....))))))))))..((((....)))))))))((((((........))))))........)----)--)............-. ( -32.50)
>DroYak_CAF1 130468 110 - 1
UCCUUUCC-AUU-CCAUGCCUUUCUUUUGCUACUGCGAAAGGAAUAUCCAUCAUUGGAGGGCAUUGCAGAGUCGUGGCUGCAAACAUUUAUGUAUGU--AUAUAUCUCAUAUAU
........-...-...((((((((((((((....)))))))))...((((....)))))))))((((((........))))))......(((((((.--........))))))) ( -29.90)
>consensus
UCCAUUCCCCUU_CCAUUCCUUUCUUUCGCUUCUGCGAAAGGAAUAUCCAUCAUUGGAGGGCAUUGCAGAGUCGUGGCUGCAAACAUUUAUGU___U__AUAUAUCUCAUAU_U
..................((((((((((((....))))))))))..((((....))))))...((((((........))))))............................... (-23.38 = -23.02 +  -0.36)

alignment

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secondary structure

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dotplot

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Window 7

Location 14,231,558 – 14,231,650
Length 92
Sequences 5
Columns 99
Reading direction reverse
Mean pairwise identity 87.73
Mean single sequence MFE -28.02
Consensus MFE -22.46
Energy contribution -22.10
Covariance contribution -0.36
Combinations/Pair 1.14
Mean z-score -2.49
Structure conservation index 0.80
SVM decision value 2.01
SVM RNA-class probability 0.985645
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14231558 92 - 22224390
AAUACCUGUGACAUUACUUUUUAUUCCCCU-------CCUUUCUUUCGCUUCUGCGAAAGGAAUAUCCAUCAUUGGAGGGCAUUGCAGAGUCGUGGCUG
...........(((.(((((.((...((((-------((((((((((((....))))))))))...........))))))...)).))))).))).... ( -28.20)
>DroSec_CAF1 140033 99 - 1
AAUACCUGUGACAUUACUUUCCAUUCUCGUUUUUUUUCCUUUCUUUCGCUUCUGCGAAAGGAAUAUCCAUCAUUGGAGGGCAUUGCGGAGUCGUGGCUG
...........(((.((((..((..(((...........((((((((((....))))))))))..((((....)))))))...))..)))).))).... ( -26.10)
>DroSim_CAF1 120182 98 - 1
AAUACCUGUGACAUUACUUUCCAUUCCCGUUUUUUUUUCU-UCUUUCGCUUCUGCGAAAGGAAUAUCCAUCAUUGGAGGGCAUUGCGGAGUCGUGGCUG
...........(((.((((..((..(((...........(-((((((((....)))))))))...((((....)))))))...))..)))).))).... ( -28.40)
>DroEre_CAF1 127703 96 - 1
AAUACCUGUGAUAUUACUUUGCUG-CC-CUU-CCAUUCCUUUCUUUCGCUCCUGCGAAAGGAAUAUCCAUCAUUGGAGGGCAUUGCAGAGCCGUGGCUG
.......((.((....((((((((-((-(..-.......((((((((((....))))))))))..((((....)))))))))..))))))..)).)).. ( -33.20)
>DroYak_CAF1 130500 97 - 1
AAUACCUGUGACAUUACUUUCCUUUCC-AUU-CCAUGCCUUUCUUUUGCUACUGCGAAAGGAAUAUCCAUCAUUGGAGGGCAUUGCAGAGUCGUGGCUG
.....(..((((.((.(..(.((((((-(..-..(((..((((((((((....))))))))))....)))...))))))).)..).)).))))..)... ( -24.20)
>consensus
AAUACCUGUGACAUUACUUUCCAUUCCCCUU_CCAUUCCUUUCUUUCGCUUCUGCGAAAGGAAUAUCCAUCAUUGGAGGGCAUUGCAGAGUCGUGGCUG
.....(((..(............................((((((((((....))))))))))..((((....)))).....)..)))(((....))). (-22.46 = -22.10 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:54 2006