Locus 1433

Sequence ID 3L_DroMel_CAF1
Location 4,151,869 – 4,151,989
Length 120
Max. P 0.766695
window2229 window2230

overview

Window 9

Location 4,151,869 – 4,151,989
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 95.56
Mean single sequence MFE -31.19
Consensus MFE -27.72
Energy contribution -27.83
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -1.85
Structure conservation index 0.89
SVM decision value 0.10
SVM RNA-class probability 0.584129
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4151869 120 + 23771897
UAUCGCCACCCAUUUCCUAUCCAUUGUCUAGACAUUUCCAAGAUCCAAUGUCUAGGCAAAUGAGUACAGAGACAAUCCGCCUGCGUGUCCUUCGCGGAUGUUCCCAGGCUCCUUUCGUUC
....(((..........((..(((((((((((((((..........))))))))))).))))..))..(..(((.(((((.............))))))))..)..)))........... ( -30.92)
>DroSim_CAF1 1464 120 + 1
UAUCGCCACCCAUUUCCUAUCCAUUGUCUAGACAUUUCCAAGAUCCGAUGUCUAGGCAAAUGAGCACAGAGACAAUCCGCCUGCGUGUCCUUCGCGGAUGUUCCCAGGCUCCUUUCGUUC
.......................(((((((((((((..........)))))))))))))..((((...(..(((.(((((.............))))))))..)...))))......... ( -31.82)
>DroYak_CAF1 1644 117 + 1
UAUCGCCACCCAUUUCCUAUCCAUUGUCUAGACAGUUCCAAGAUCCAAUGUCUAGGCAAAUGAGUACAGAGACAAUC---CUGCGAGUCCUUCGCGGAUGUUCCCAGGCUCCUUUCGUUG
....(((..........((..(((((((((((((..............))))))))).))))..))..(..(((.((---(.(((((...)))))))))))..)..)))........... ( -30.84)
>consensus
UAUCGCCACCCAUUUCCUAUCCAUUGUCUAGACAUUUCCAAGAUCCAAUGUCUAGGCAAAUGAGUACAGAGACAAUCCGCCUGCGUGUCCUUCGCGGAUGUUCCCAGGCUCCUUUCGUUC
....(((.....((((....((((((((((((((((..........))))))))))).)))).)....))))........(((((.......))))).........)))........... (-27.72 = -27.83 +   0.11)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 0

Location 4,151,869 – 4,151,989
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 95.56
Mean single sequence MFE -39.80
Consensus MFE -35.05
Energy contribution -36.17
Covariance contribution 1.11
Combinations/Pair 1.03
Mean z-score -2.21
Structure conservation index 0.88
SVM decision value 0.52
SVM RNA-class probability 0.766695
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4151869 120 - 23771897
GAACGAAAGGAGCCUGGGAACAUCCGCGAAGGACACGCAGGCGGAUUGUCUCUGUACUCAUUUGCCUAGACAUUGGAUCUUGGAAAUGUCUAGACAAUGGAUAGGAAAUGGGUGGCGAUA
...(....)..(((.((((..((((((...(....)....))))))..))))...((((((((.((((..(((((....(((((....))))).)))))..))))))))))))))).... ( -40.80)
>DroSim_CAF1 1464 120 - 1
GAACGAAAGGAGCCUGGGAACAUCCGCGAAGGACACGCAGGCGGAUUGUCUCUGUGCUCAUUUGCCUAGACAUCGGAUCUUGGAAAUGUCUAGACAAUGGAUAGGAAAUGGGUGGCGAUA
...(....)..(((.((((..((((((...(....)....))))))..))))...((((((((.((((..(((..(.(((.(((....))))))).)))..))))))))))))))).... ( -37.10)
>DroYak_CAF1 1644 117 - 1
CAACGAAAGGAGCCUGGGAACAUCCGCGAAGGACUCGCAG---GAUUGUCUCUGUACUCAUUUGCCUAGACAUUGGAUCUUGGAACUGUCUAGACAAUGGAUAGGAAAUGGGUGGCGAUA
...(....)..(((.((((..((((((((.....)))).)---)))..))))...((((((((.((((..(((((....(((((....))))).)))))..))))))))))))))).... ( -41.50)
>consensus
GAACGAAAGGAGCCUGGGAACAUCCGCGAAGGACACGCAGGCGGAUUGUCUCUGUACUCAUUUGCCUAGACAUUGGAUCUUGGAAAUGUCUAGACAAUGGAUAGGAAAUGGGUGGCGAUA
...(....)..(((.((((..((((((...(....)....))))))..))))...((((((((.((((..(((((....(((((....))))).)))))..))))))))))))))).... (-35.05 = -36.17 +   1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:07:25 2006