Locus 3889

Sequence ID 2L_DroMel_CAF1
Location 11,385,641 – 11,385,743
Length 102
Max. P 0.694276
window6118 window6119

overview

Window 8

Location 11,385,641 – 11,385,743
Length 102
Sequences 6
Columns 104
Reading direction forward
Mean pairwise identity 83.88
Mean single sequence MFE -28.58
Consensus MFE -19.14
Energy contribution -18.75
Covariance contribution -0.39
Combinations/Pair 1.20
Mean z-score -2.70
Structure conservation index 0.67
SVM decision value 0.31
SVM RNA-class probability 0.684789
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11385641 102 + 22407834
CUUAUUCCGGG-CCUUAUUCCCAGCUUGGCCAAAUUUGGUCUUGGCCGCGUGAUAUAAUUCAUAAUUCAUUGG-CCGCGACAUCUUUAUUUGAAUGUCGCAGAA
.........((-((.........((..((((((........))))))))((((......))))........))-))((((((((.......).))))))).... ( -31.10)
>DroSim_CAF1 109613 102 + 1
CUUAUUCCGGG-CCUUAUUCCCAGCUUGGCCAAAUUUGGUCUUGGCCGCGUGAUAUAAUUCAUAAUUCAUUGG-CCGCGACAUCUUUAUUUGAAUGUCGCAGAA
.........((-((.........((..((((((........))))))))((((......))))........))-))((((((((.......).))))))).... ( -31.10)
>DroEre_CAF1 106239 95 + 1
CCUAUUCCGGG--------CCCAGCCUGGCCAAAUUUGGUCUUGGCCGCGUGAUAUAAUUCAUAAUUCAUUGG-CCGCGACAUCUUUAUUUGAAUGUCGCAGAA
.........((--------((..(((.(((((....)))))..)))...((((......))))........))-))((((((((.......).))))))).... ( -30.90)
>DroYak_CAF1 105963 103 + 1
CCUAUUCCCGGGUCCUAUUCCCAGCUUGGCCAAAUUUGGUCUUGGCCGCGUGAUAUAAUUCAUAAUUCAUUGG-CCGCGACAUCUUUAUUUGAAUGUCGCAGAA
.........(((.......))).....((((((....(((....)))..((((......))))......))))-))((((((((.......).))))))).... ( -30.90)
>DroAna_CAF1 91241 92 + 1
UUCUUUCCGGG-A-----------UCUGGCCAAAUUUGGUCUGGGCCGCGUGAUAUAAUUCAUAAUUCAUUCGCCCGCGACAUCUUUAUUUGAAUGUCGCAAAA
...........-.-----------...(((((....))))).((((.(.((((.............)))).)))))((((((((.......).))))))).... ( -25.02)
>DroPer_CAF1 126557 87 + 1
UCUA----------------CGGAUUUGACCAAAUUUGGUCCGGACCGCGUGAUAUAAUUCAUAAUUCAUUCG-CAGCGACAUCUUUAUUUGAAUGUCGCAAAA
....----------------(((.(..(((((....)))))..).))).((((.................)))-).((((((((.......).))))))).... ( -22.43)
>consensus
CCUAUUCCGGG________CCCAGCUUGGCCAAAUUUGGUCUUGGCCGCGUGAUAUAAUUCAUAAUUCAUUGG_CCGCGACAUCUUUAUUUGAAUGUCGCAGAA
.......................(((.(((((....)))))..)))...((((......)))).............((((((((.......).))))))).... (-19.14 = -18.75 +  -0.39)

alignment

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secondary structure

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dotplot

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Window 9

Location 11,385,641 – 11,385,743
Length 102
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 83.88
Mean single sequence MFE -28.33
Consensus MFE -19.99
Energy contribution -19.85
Covariance contribution -0.14
Combinations/Pair 1.24
Mean z-score -2.45
Structure conservation index 0.71
SVM decision value 0.34
SVM RNA-class probability 0.694276
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11385641 102 - 22407834
UUCUGCGACAUUCAAAUAAAGAUGUCGCGG-CCAAUGAAUUAUGAAUUAUAUCACGCGGCCAAGACCAAAUUUGGCCAAGCUGGGAAUAAGG-CCCGGAAUAAG
((((((((((((........))))))))((-((.........(((......))).(((((((((......)))))))..)).........))-)).)))).... ( -30.80)
>DroSim_CAF1 109613 102 - 1
UUCUGCGACAUUCAAAUAAAGAUGUCGCGG-CCAAUGAAUUAUGAAUUAUAUCACGCGGCCAAGACCAAAUUUGGCCAAGCUGGGAAUAAGG-CCCGGAAUAAG
((((((((((((........))))))))((-((.........(((......))).(((((((((......)))))))..)).........))-)).)))).... ( -30.80)
>DroEre_CAF1 106239 95 - 1
UUCUGCGACAUUCAAAUAAAGAUGUCGCGG-CCAAUGAAUUAUGAAUUAUAUCACGCGGCCAAGACCAAAUUUGGCCAGGCUGGG--------CCCGGAAUAGG
((((((((((((........))))))))((-((.........(((......)))..(((((..(.(((....))))..)))))))--------)).)))).... ( -30.70)
>DroYak_CAF1 105963 103 - 1
UUCUGCGACAUUCAAAUAAAGAUGUCGCGG-CCAAUGAAUUAUGAAUUAUAUCACGCGGCCAAGACCAAAUUUGGCCAAGCUGGGAAUAGGACCCGGGAAUAGG
..((((((((((........))))))))))-((........................(((((((......)))))))...(((((.......))))).....)) ( -31.10)
>DroAna_CAF1 91241 92 - 1
UUUUGCGACAUUCAAAUAAAGAUGUCGCGGGCGAAUGAAUUAUGAAUUAUAUCACGCGGCCCAGACCAAAUUUGGCCAGA-----------U-CCCGGAAAGAA
....((((((((........))))))))(((((..(((..((.....))..))))))((((.(((.....)))))))...-----------.-.))........ ( -23.00)
>DroPer_CAF1 126557 87 - 1
UUUUGCGACAUUCAAAUAAAGAUGUCGCUG-CGAAUGAAUUAUGAAUUAUAUCACGCGGUCCGGACCAAAUUUGGUCAAAUCCG----------------UAGA
....((((((((........))))))))..-........................((((....(((((....)))))....)))----------------)... ( -23.60)
>consensus
UUCUGCGACAUUCAAAUAAAGAUGUCGCGG_CCAAUGAAUUAUGAAUUAUAUCACGCGGCCAAGACCAAAUUUGGCCAAGCUGGG________CCCGGAAUAAG
..((((((((((........))))))))))...........................(((((((......)))))))........................... (-19.99 = -19.85 +  -0.14)

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 11:03:49 2006