Locus 4555

Sequence ID 3L_DroMel_CAF1
Location 13,105,428 – 13,105,539
Length 111
Max. P 0.800369
window7112 window7113

overview

Window 2

Location 13,105,428 – 13,105,539
Length 111
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 85.92
Mean single sequence MFE -31.87
Consensus MFE -23.06
Energy contribution -23.88
Covariance contribution 0.82
Combinations/Pair 1.07
Mean z-score -3.42
Structure conservation index 0.72
SVM decision value 0.61
SVM RNA-class probability 0.800369
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13105428 111 + 23771897
UAACCAAGUUUAUGGUCAUAGAAACUUAGCACCGGCGACCCCGGAAUCCCA--------GCAUCCCGGAAAGGAAAGAGCAAAGUUCCUGGCUAAGUUGACCAUAAAAUUGCACACAAA
....(((.((((((((((.....(((((((.((((.((..(.((....)).--------)..))))))..(((((.........))))).))))))))))))))))).)))........ ( -35.20)
>DroSec_CAF1 93094 111 + 1
UAACCAAGUUUAUGGUCAUAGAAACUUAGCACCGGCGACCCCAGAACCCCA--------GCAUCCCGGAUAGGAAAGAGCAAAGUUCCUGUCUAAGUUGACCAUAAAAUUGCACACAAA
....(((.((((((((((.....((((((..((((.((..(..(....)..--------)..))))))(((((((.........))))))))))))))))))))))).)))........ ( -28.50)
>DroSim_CAF1 90863 111 + 1
UAACCAAGUUUAUGGUCAUAGAAACUUAGCACCGGCGACCCCGGAACCCCA--------GCAUCCCGGAUAGGAAAGAGCAAAGUUCCUGGCUAAGUUGACCAUAAAAUUGCACACAAA
....(((.((((((((((.....(((((((.((((.((..(.((....)).--------)..)))))).((((((.........))))))))))))))))))))))).)))........ ( -36.30)
>DroEre_CAF1 89456 119 + 1
UAACCAAGUUUAUGGUCAUAGAAACUUAGCACCGGCGACCCCGGAACCCCGGAACGACGGCAUCCCGGAAAGGAAAGAGCAAAGUUCCUGGCCAAGUUGACCAUAAAAUUGCACACAAA
....(((.((((((((((.....((((.((.((((.....))))......(((((....((.((((.....))...))))...)))))..)).)))))))))))))).)))........ ( -34.20)
>DroYak_CAF1 92758 111 + 1
UAACCAAGUUUAUGGUCAUAGAAACUUAGCACCGGCGACCCCGGAACCCCA--------GCAUCCCGGAAAGGAAAGAGCAAAGUUCCUGGCUAAGUUGACCAUAAAAUUGCACACAAA
....(((.((((((((((.....(((((((.((((.((..(.((....)).--------)..))))))..(((((.........))))).))))))))))))))))).)))........ ( -35.20)
>DroAna_CAF1 86007 91 + 1
UAACCAAGUUUAUGGUCAUAGAAACUUAACCCAC-------------------------ACACACC---AAGGAUAUGGGCAAGUUGCAGGCUAAGUUGACCAUAAAAUUGCACACAAA
....(((.((((((((((.....(((((.((...-------------------------.....((---(......)))((.....)).)).))))))))))))))).)))........ ( -21.80)
>consensus
UAACCAAGUUUAUGGUCAUAGAAACUUAGCACCGGCGACCCCGGAACCCCA________GCAUCCCGGAAAGGAAAGAGCAAAGUUCCUGGCUAAGUUGACCAUAAAAUUGCACACAAA
....(((.((((((((((.....(((((((.((((.....))))...............((.((((.....))...))))..........))))))))))))))))).)))........ (-23.06 = -23.88 +   0.82)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 13,105,428 – 13,105,539
Length 111
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 85.92
Mean single sequence MFE -39.28
Consensus MFE -27.56
Energy contribution -28.85
Covariance contribution 1.29
Combinations/Pair 1.12
Mean z-score -3.56
Structure conservation index 0.70
SVM decision value 0.55
SVM RNA-class probability 0.779415
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13105428 111 - 23771897
UUUGUGUGCAAUUUUAUGGUCAACUUAGCCAGGAACUUUGCUCUUUCCUUUCCGGGAUGC--------UGGGAUUCCGGGGUCGCCGGUGCUAAGUUUCUAUGACCAUAAACUUGGUUA
........(((.(((((((((((((((((.(((((.........)))))..(((((((.(--------(((....)))).))).)))).))))))).....)))))))))).))).... ( -41.10)
>DroSec_CAF1 93094 111 - 1
UUUGUGUGCAAUUUUAUGGUCAACUUAGACAGGAACUUUGCUCUUUCCUAUCCGGGAUGC--------UGGGGUUCUGGGGUCGCCGGUGCUAAGUUUCUAUGACCAUAAACUUGGUUA
........(((.((((((((((((((((.((((((.........)))))..(((((((.(--------..(....)..).))).)))).))))))).....)))))))))).))).... ( -36.20)
>DroSim_CAF1 90863 111 - 1
UUUGUGUGCAAUUUUAUGGUCAACUUAGCCAGGAACUUUGCUCUUUCCUAUCCGGGAUGC--------UGGGGUUCCGGGGUCGCCGGUGCUAAGUUUCUAUGACCAUAAACUUGGUUA
........(((.(((((((((((((((((.(((((.........)))))..(((((((.(--------(((....)))).))).)))).))))))).....)))))))))).))).... ( -41.70)
>DroEre_CAF1 89456 119 - 1
UUUGUGUGCAAUUUUAUGGUCAACUUGGCCAGGAACUUUGCUCUUUCCUUUCCGGGAUGCCGUCGUUCCGGGGUUCCGGGGUCGCCGGUGCUAAGUUUCUAUGACCAUAAACUUGGUUA
........(((.(((((((((((((((((((((((.........)))))(((((((((.(((......))).)))))))))......).))))))).....)))))))))).))).... ( -42.60)
>DroYak_CAF1 92758 111 - 1
UUUGUGUGCAAUUUUAUGGUCAACUUAGCCAGGAACUUUGCUCUUUCCUUUCCGGGAUGC--------UGGGGUUCCGGGGUCGCCGGUGCUAAGUUUCUAUGACCAUAAACUUGGUUA
........(((.(((((((((((((((((.(((((.........)))))..(((((((.(--------(((....)))).))).)))).))))))).....)))))))))).))).... ( -41.10)
>DroAna_CAF1 86007 91 - 1
UUUGUGUGCAAUUUUAUGGUCAACUUAGCCUGCAACUUGCCCAUAUCCUU---GGUGUGU-------------------------GUGGGUUAAGUUUCUAUGACCAUAAACUUGGUUA
........(((.((((((((((((((((((..((....(((((......)---)).)).)-------------------------)..)))))))).....)))))))))).))).... ( -33.00)
>consensus
UUUGUGUGCAAUUUUAUGGUCAACUUAGCCAGGAACUUUGCUCUUUCCUUUCCGGGAUGC________UGGGGUUCCGGGGUCGCCGGUGCUAAGUUUCUAUGACCAUAAACUUGGUUA
........(((.(((((((((((((((((.(((((.........))))).((((((((.(..........).)))))))).........))))))).....)))))))))).))).... (-27.56 = -28.85 +   1.29)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:26:26 2006