Locus 3057

Sequence ID 3L_DroMel_CAF1
Location 8,832,406 – 8,832,504
Length 98
Max. P 0.717508
window4769 window4770

overview

Window 9

Location 8,832,406 – 8,832,504
Length 98
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 80.61
Mean single sequence MFE -19.77
Consensus MFE -11.99
Energy contribution -12.63
Covariance contribution 0.64
Combinations/Pair 1.16
Mean z-score -1.90
Structure conservation index 0.61
SVM decision value 0.35
SVM RNA-class probability 0.702031
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8832406 98 + 23771897
---UCGUGCUCUUUUUAUUUUCAGGCAUCUUCGUGCUCUGCCAAGAUUUUAAUUAACUUUAAUUUAGUUAAUUAAAUGUAGUAUUGCUUGCGGUGCCGCCA
---....................((((((..((.((..(((......(((((((((((.......)))))))))))....)))..)).)).)))))).... ( -21.60)
>DroSec_CAF1 92704 98 + 1
---UCUUGCUCUUUUUAUUUUUGGGCAUCUUCGUGCUCUGCCAAGAUUUUAAUUAACUUUAAUUUAGUUAAUUAAAUGUAGUAUUGCUUGCGGUGCCGCCG
---...(((((...........)))))....((.((.((((.(((..(((((((((((.......)))))))))))..........))))))).))))... ( -21.90)
>DroSim_CAF1 93475 98 + 1
---UCCUGCUCUUUUUAUUUUUGGGCUUCUUCGUGCUCGUCCAAGAUUUUAAUUAACUUUAAUUUAGUUAAUUAAAUGUAGUAUUGCUUGCGGUGCCGCCG
---..((((.........((((((((............)))))))).(((((((((((.......))))))))))).))))........(((....))).. ( -21.90)
>DroEre_CAF1 96740 95 + 1
---UCUUGCUCUUCUUAUUUUCGGGCAU---CUUGCUCUGCCAAGAUUUUAAUUAACUUUAAUUCACUUAAUUAAAUGUAUUAUUGCUUGCGGUGCCGCCG
---...(((((...........))))).---...((.((((.(((....((((..(((((((((.....))))))).))))))...))))))).))..... ( -15.70)
>DroYak_CAF1 95178 101 + 1
AUCUCUUGUUUCUCUUAUUUUUGGACAUUUUCUUGCUCUGGCAAGAUUUUAAUUAGCUUUAAUUUAGUUAAUUAAAUGUAUUAUUGCUUGCGGUGCCGCCG
........................(((...((((((....)))))).(((((((((((.......))))))))))))))..........(((....))).. ( -19.70)
>DroAna_CAF1 94178 80 + 1
--------------------UUG-AAAACUUCUUUCUCGACCGCGAUUUUAAUUCAUUUUAAUUUAGUUAAUUAAAUGUAUUGAUGCUCGCGGUGCCGCCA
--------------------..(-(((.....))))...(((((((..(((((.(((((.((((.....))))))))).)))))...)))))))....... ( -17.80)
>consensus
___UCUUGCUCUUUUUAUUUUUGGGCAUCUUCGUGCUCUGCCAAGAUUUUAAUUAACUUUAAUUUAGUUAAUUAAAUGUAGUAUUGCUUGCGGUGCCGCCG
......................(((((......))))).........(((((((((((.......))))))))))).............(((....))).. (-11.99 = -12.63 +   0.64)

alignment

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secondary structure

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dotplot

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Window 0

Location 8,832,406 – 8,832,504
Length 98
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 80.61
Mean single sequence MFE -17.87
Consensus MFE -10.54
Energy contribution -11.32
Covariance contribution 0.78
Combinations/Pair 1.05
Mean z-score -2.02
Structure conservation index 0.59
SVM decision value 0.39
SVM RNA-class probability 0.717508
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8832406 98 - 23771897
UGGCGGCACCGCAAGCAAUACUACAUUUAAUUAACUAAAUUAAAGUUAAUUAAAAUCUUGGCAGAGCACGAAGAUGCCUGAAAAUAAAAAGAGCACGA---
..(((....)))..((.........(((((((((((.......))))))))))).((((..(((.(((......))))))........))))))....--- ( -21.00)
>DroSec_CAF1 92704 98 - 1
CGGCGGCACCGCAAGCAAUACUACAUUUAAUUAACUAAAUUAAAGUUAAUUAAAAUCUUGGCAGAGCACGAAGAUGCCCAAAAAUAAAAAGAGCAAGA---
..(((....)))..((.........(((((((((((.......))))))))))).....((((...(.....).))))..............))....--- ( -19.40)
>DroSim_CAF1 93475 98 - 1
CGGCGGCACCGCAAGCAAUACUACAUUUAAUUAACUAAAUUAAAGUUAAUUAAAAUCUUGGACGAGCACGAAGAAGCCCAAAAAUAAAAAGAGCAGGA---
..(((....)))..((.........(((((((((((.......)))))))))))...((((....((........))))))...........))....--- ( -17.50)
>DroEre_CAF1 96740 95 - 1
CGGCGGCACCGCAAGCAAUAAUACAUUUAAUUAAGUGAAUUAAAGUUAAUUAAAAUCUUGGCAGAGCAAG---AUGCCCGAAAAUAAGAAGAGCAAGA---
..(((....)))..((.........(((((((((.(.......).))))))))).((((((((.......---.)))).......))))...))....--- ( -17.31)
>DroYak_CAF1 95178 101 - 1
CGGCGGCACCGCAAGCAAUAAUACAUUUAAUUAACUAAAUUAAAGCUAAUUAAAAUCUUGCCAGAGCAAGAAAAUGUCCAAAAAUAAGAGAAACAAGAGAU
..(((....)))..(((........((((((((.((.......)).)))))))).((((((....))))))...)))........................ ( -15.70)
>DroAna_CAF1 94178 80 - 1
UGGCGGCACCGCGAGCAUCAAUACAUUUAAUUAACUAAAUUAAAAUGAAUUAAAAUCGCGGUCGAGAAAGAAGUUUU-CAA--------------------
.....(.(((((((.....(((.(((((((((.....)))).))))).)))....))))))))(((((.....))))-)..-------------------- ( -16.30)
>consensus
CGGCGGCACCGCAAGCAAUAAUACAUUUAAUUAACUAAAUUAAAGUUAAUUAAAAUCUUGGCAGAGCAAGAAGAUGCCCAAAAAUAAAAAGAGCAAGA___
..(((....)))..((.........(((((((((((.......))))))))))).(((....))))).................................. (-10.54 = -11.32 +   0.78)

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 10:48:30 2006