Locus 9693

Sequence ID 3R_DroMel_CAF1
Location 25,644,215 – 25,644,364
Length 149
Max. P 0.838137
window15487 window15488

overview

Window 7

Location 25,644,215 – 25,644,326
Length 111
Sequences 3
Columns 111
Reading direction forward
Mean pairwise identity 82.81
Mean single sequence MFE -35.02
Consensus MFE -28.81
Energy contribution -29.03
Covariance contribution 0.23
Combinations/Pair 1.08
Mean z-score -1.89
Structure conservation index 0.82
SVM decision value 0.74
SVM RNA-class probability 0.838137
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25644215 111 + 27905053
GGUGGAUUUGGCCUAAGCCGAUUAGGCUAGAAUGGGAGAAAAUGGGUGACGAGCGAUUUCACGCGACACCUGCGUACGUACCUUUCUCACUCCCAACUCCCAACUCCACAC
.(((((((((((((((.....)))))))))).((((((.....((((((.(((.......(((((.....)))))........)))))))))....))))))..))))).. ( -41.36)
>DroSim_CAF1 11152 98 + 1
GGUGGAUUUGGCCUAAGCCGAUUAGGCUACAAUGGGAGAAAAUGGGUGACGAGCGAUUUCACGCGGCACCUGCGUACGUACCUUCCUCACUCCCAACU-------------
........((((((((.....))))))))...((((((.....(((((.((...(....)((((((...)))))).)))))))......))))))...------------- ( -32.00)
>DroYak_CAF1 11127 95 + 1
GGUGGAUUUGGCCUAAGCCGAUUAGGCUAGAAUGGGAGAAAAUGGGUGACGAGCGAUUUCACGCGGCACCUGCGUACGUAUUGUACAUACACCUG----------------
((((..((((((((((.....))))))))))............(((((....(((......)))..)))))..((((.....))))...))))..---------------- ( -31.70)
>consensus
GGUGGAUUUGGCCUAAGCCGAUUAGGCUAGAAUGGGAGAAAAUGGGUGACGAGCGAUUUCACGCGGCACCUGCGUACGUACCUUACUCACUCCCAACU_____________
......((((((((((.....)))))))))).((((((.....(((((....(((......)))..)))))((....))..........))))))................ (-28.81 = -29.03 +   0.23)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 8

Location 25,644,246 – 25,644,364
Length 118
Sequences 3
Columns 119
Reading direction forward
Mean pairwise identity 78.36
Mean single sequence MFE -25.39
Consensus MFE -19.67
Energy contribution -19.57
Covariance contribution -0.11
Combinations/Pair 1.10
Mean z-score -1.27
Structure conservation index 0.77
SVM decision value 0.10
SVM RNA-class probability 0.584641
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25644246 118 + 27905053
AUGGGAGAAAAUGGGUGACGAGCGAUUUCACGCGACACCUGCGUACGUACCUUUCUCACUCCCAACUCCCAACUCCACACUCCUCAUUUCUCAUUAGUGAAAGUGAAAAAUAGUAAAA-
.((((((.....((((((.(((.......(((((.....)))))........)))))))))....))))))......((((..(((((.......))))).)))).............- ( -28.16)
>DroSim_CAF1 11183 104 + 1
AUGGGAGAAAAUGGGUGACGAGCGAUUUCACGCGGCACCUGCGUACGUACCUUCCUCACUCCCAACU--------------CCUCACUUCUCAUUAGUGAAAGUGAAAAAUAGUAAAA-
.((((((.....(((((.((...(....)((((((...)))))).)))))))......))))))...--------------..((((((.(((....)))))))))............- ( -28.90)
>DroYak_CAF1 11158 95 + 1
AUGGGAGAAAAUGGGUGACGAGCGAUUUCACGCGGCACCUGCGUACGUAUUGUACAUACACCUG------------------------GCUCAUUAGUGAAAGUGAAAAAUAGUAAAAA
....(((....((((((..(.(((((...((((((...))))))....))))).)...))))))------------------------.)))........................... ( -19.10)
>consensus
AUGGGAGAAAAUGGGUGACGAGCGAUUUCACGCGGCACCUGCGUACGUACCUUACUCACUCCCAACU______________CCUCA_UUCUCAUUAGUGAAAGUGAAAAAUAGUAAAA_
.((((((.....(((((....(((......)))..)))))((....))..........))))))..........................(((((......)))))............. (-19.67 = -19.57 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:40:02 2006