Locus 8732

Sequence ID 3L_DroMel_CAF1
Location 22,780,667 – 22,780,784
Length 117
Max. P 0.547973
window14299 window14300

overview

Window 9

Location 22,780,667 – 22,780,766
Length 99
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 86.20
Mean single sequence MFE -34.68
Consensus MFE -26.03
Energy contribution -28.02
Covariance contribution 1.99
Combinations/Pair 1.10
Mean z-score -2.19
Structure conservation index 0.75
SVM decision value -0.05
SVM RNA-class probability 0.506441
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22780667 99 - 23771897
UGACUGUGCACGCAGGAUGUGUUCAUGCUGCAUGCAUGUCCAGGGGACGUGCAUCCCAAAUUGGCAAUCGCCUGUGUGCGGUUGAAUUGCUGACAACAC
.(((((..(((((((.(((....))).))))((((((((((...))))))))))........(((....))).)))..)))))................ ( -40.40)
>DroPse_CAF1 51607 93 - 1
UGACUGUACACGCAGGAUGUGUCCAUACUGAAUACUGCAU------CCGUGCAUCCCCAAUUGGCAAUCGUCUGUGUGCGGUUGAAUUGCUGACAACAC
.(((((((((((((((((((................))))------)).)))..........(((....))).))))))))))................ ( -26.49)
>DroSec_CAF1 43455 99 - 1
UGACUGUGCACGCAGGAUGUGUUCAUGCUGCCUGCAUGUCCAGGGGACGUGCAUCCCAAAUUGGCAAUCGUCUGUGUGCGGUUGAAUUGCUGACAACAC
.(((((..(((((((.(((....))).)))).(((((((((...))))))))).........(((....))).)))..)))))................ ( -36.00)
>DroSim_CAF1 45542 99 - 1
UGACUGUGCACGCAGGAUGCGUUCAUGCUGCAUGCAUGUCCAGGGGACGUGCAUCCCAAAUUGGCAAUCGUCUGUGUGCGGUUGAAUUGCUGACAACAC
.(((((..(((((((.(((....))).))))((((((((((...))))))))))........(((....))).)))..)))))................ ( -36.70)
>DroEre_CAF1 42633 99 - 1
UGACUGUGCACGCAGGAUGUGUUCAUGCUGCAUGCAUGUCCAGGGGACGUGCAUCCCAAAUUGGCAAUCGUCUGUGUGCGGUUGAAUUGCUGACAACAC
.(((((..(((((((.(((....))).))))((((((((((...))))))))))........(((....))).)))..)))))................ ( -37.70)
>DroYak_CAF1 46002 84 - 1
--------CACGCAGGAUGUGUUCAU-------GCACGUCCAGGGGACGUGCAUCCAAAAUUGGCAAUCGUCUAUGUGUGGUUGAAUUGCCAACAACAC
--------(((((((((((.....((-------((((((((...))))))))))(((....)))....))))).))))))((((......))))..... ( -30.80)
>consensus
UGACUGUGCACGCAGGAUGUGUUCAUGCUGCAUGCAUGUCCAGGGGACGUGCAUCCCAAAUUGGCAAUCGUCUGUGUGCGGUUGAAUUGCUGACAACAC
......((((((((((...((((.((.....((((((((((...)))))))))).....)).))))....))))))))))((((.........)))).. (-26.03 = -28.02 +   1.99)

alignment

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secondary structure

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dotplot

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Window 0

Location 22,780,694 – 22,780,784
Length 90
Sequences 6
Columns 90
Reading direction reverse
Mean pairwise identity 84.07
Mean single sequence MFE -30.61
Consensus MFE -21.28
Energy contribution -23.67
Covariance contribution 2.39
Combinations/Pair 1.03
Mean z-score -2.06
Structure conservation index 0.69
SVM decision value 0.03
SVM RNA-class probability 0.547973
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22780694 90 - 23771897
UGUUGCGGAUAUUGCACCUGACUGUGCACGCAGGAUGUGUUCAUGCUGCAUGCAUGUCCAGGGGACGUGCAUCCCAAAUUGGCAAUCGCC
.(((((.(((..(((((......))))).((((.(((....))).))))((((((((((...)))))))))).....))).))))).... ( -35.20)
>DroPse_CAF1 51634 84 - 1
UGUUGCGGAUAUUGCACCUGACUGUACACGCAGGAUGUGUCCAUACUGAAUACUGCAU------CCGUGCAUCCCCAAUUGGCAAUCGUC
.(((((.(((..(((((.....(((....)))((((((................))))------)))))))......))).))))).... ( -18.99)
>DroSec_CAF1 43482 90 - 1
UGUUGCGGAUAUUGCACCUGACUGUGCACGCAGGAUGUGUUCAUGCUGCCUGCAUGUCCAGGGGACGUGCAUCCCAAAUUGGCAAUCGUC
.(((((.(((..(((((......))))).((((.(((....))).)))).(((((((((...)))))))))......))).))))).... ( -33.50)
>DroSim_CAF1 45569 90 - 1
UGUUGAGGAUAUUGCACCUGACUGUGCACGCAGGAUGCGUUCAUGCUGCAUGCAUGUCCAGGGGACGUGCAUCCCAAAUUGGCAAUCGUC
(((..(((((..(((((......))))).((((.(((....))).))))..((((((((...))))))))))))....)..)))...... ( -32.30)
>DroEre_CAF1 42660 90 - 1
UGUUGCGGAUAUUGCACCUGACUGUGCACGCAGGAUGUGUUCAUGCUGCAUGCAUGUCCAGGGGACGUGCAUCCCAAAUUGGCAAUCGUC
.(((((.(((..(((((......))))).((((.(((....))).))))((((((((((...)))))))))).....))).))))).... ( -35.20)
>DroYak_CAF1 46029 71 - 1
UGUUGCUGAUAUUG------------CACGCAGGAUGUGUUCAU-------GCACGUCCAGGGGACGUGCAUCCAAAAUUGGCAAUCGUC
.(((((..((..((------------(((...((((((((....-------)))))))).(....))))))......))..))))).... ( -28.50)
>consensus
UGUUGCGGAUAUUGCACCUGACUGUGCACGCAGGAUGUGUUCAUGCUGCAUGCAUGUCCAGGGGACGUGCAUCCCAAAUUGGCAAUCGUC
.(((((.(((..(((((......))))).((((.(((....))).)))).(((((((((...)))))))))......))).))))).... (-21.28 = -23.67 +   2.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:23:18 2006