Locus 1677

Sequence ID 3L_DroMel_CAF1
Location 4,900,428 – 4,900,524
Length 96
Max. P 0.635028
window2588

overview

Window 8

Location 4,900,428 – 4,900,524
Length 96
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 80.32
Mean single sequence MFE -34.20
Consensus MFE -21.87
Energy contribution -21.73
Covariance contribution -0.14
Combinations/Pair 1.16
Mean z-score -1.57
Structure conservation index 0.64
SVM decision value 0.21
SVM RNA-class probability 0.635028
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4900428 96 - 23771897
--------------GCUCCU----AGUGCAGAGCGCCGCGCACAUACAAAUUGUUGGCGGGGACAAUUGCAUUCCAGUUGCGCAACAGAAAUGGGCGCCAAUUAAAGUUGGCG---G
--------------((((..----......))))((((((((......(((((((......)))))))..........)))))..((....)))))((((((....)))))).---. ( -31.69)
>DroVir_CAF1 157482 97 - 1
----------------UCUC----AAUGCAGAACACCCCGCACAUACAGAUUGUUGGCGGGGACAAUUGCAUUCCAGUUGCGUAGCAGAAACGGGCGCCAAUUAAAGUUGGCCCCAA
----------------....----..(((......((((((.((.((.....)))))))))).((((((.....))))))....))).....(((.((((((....))))))))).. ( -35.10)
>DroPse_CAF1 166261 103 - 1
--------------UCCCCUACUCAGUGCAGGGCGCCACGCACAUACAGAUUGUUGGCGGGGACAAUUGCAUUCCAGUUUCGUAGCAGAAAUGGGCGCCAAUUAAAGUUGGCGGCGG
--------------(((((..(((......))).((((...(((.......))))))))))))....(((..((((.((((......))))))))(((((((....)))))))))). ( -33.70)
>DroWil_CAF1 123041 110 - 1
CCCUGCUCCUCCUGUCUGCU----AGUGCAAGGCUCCCCGCACAUACAAAUUGUUGGCGGGGACAAUUGCAUUCCAGUUGCGUAACAGAAAUGGGCGCCAAUUAAAGUUGGCG---G
.((.((((...(((((((..----(((((((...(((((((.((.((.....)))))))))))...))))))).))).......))))....))))((((((....)))))))---) ( -40.51)
>DroMoj_CAF1 164748 92 - 1
----------------UGUC----AGUGCAGCACGCCUCUUACAUAGAGAUUGUUGGCUGGGACAAUUGCAUUCCAGUUGCGCAACAGAAAUGGGCGCCAAUUAAAGUUGGC-----
----------------.(((----.(((((((..(((....(((.......))).)))(((((........))))))))))))..((....)))))((((((....))))))----- ( -30.50)
>DroPer_CAF1 172335 103 - 1
--------------UCCCCUACUCAGUGCAGGGCGCCACGCACAUACAGAUUGUUGGCGGGGACAAUUGCAUUCCAGUUUCGUAGCAGAAAUGGGCGCCAAUUAAAGUUGGCGGCGG
--------------(((((..(((......))).((((...(((.......))))))))))))....(((..((((.((((......))))))))(((((((....)))))))))). ( -33.70)
>consensus
______________UCUCCU____AGUGCAGGGCGCCACGCACAUACAGAUUGUUGGCGGGGACAAUUGCAUUCCAGUUGCGUAACAGAAAUGGGCGCCAAUUAAAGUUGGCG___G
........................(((((((....((.((((((.......)))..))).))....)))))))........((..((....)).))((((((....))))))..... (-21.87 = -21.73 +  -0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:26 2006