Locus 6209

Sequence ID 3L_DroMel_CAF1
Location 16,496,997 – 16,497,099
Length 102
Max. P 0.775864
window9964

overview

Window 4

Location 16,496,997 – 16,497,099
Length 102
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 79.48
Mean single sequence MFE -19.56
Consensus MFE -10.24
Energy contribution -10.35
Covariance contribution 0.11
Combinations/Pair 1.27
Mean z-score -2.24
Structure conservation index 0.52
SVM decision value 0.54
SVM RNA-class probability 0.775864
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16496997 102 + 23771897
GGCCAACGGCAUAAAUAUGUCAAAAACACAACGCUCCGCGUGCUAUAAACAAAUUGUU-UUGCUGUUGCCAAAAAA---AU--AUAUGA-AAUAUUUCAGCAAAAAAAA
(((.(((((((.(((((.............((((...)))).............))))-)))))))))))......---..--...(((-(....)))).......... ( -19.97)
>DroPse_CAF1 123773 101 + 1
GGCCACCGGCAUAAAUAUGUCAAAAACACAACGCGCCGCGUGCUAUAAACAAAUUGUU-UUGUUGUAGCCAAA-AA---CGGGAGAAAAAAAAAUUGGAGGAAA---GA
..((.(((((((....)))))............(.((.((((((((((.((((....)-))))))))))....-.)---)))).)...........)).))...---.. ( -20.90)
>DroWil_CAF1 116953 89 + 1
GGCCACCGGCAUAAAUAUGUCAAAAACACAAUGCGCC--GUGCUAUAAACAAAUUGUU-UUG---UUGCCAAA-AA---AU--AUAAAA-AACAC---A-CAAA---AC
((((((.(((.......(((.....)))......)))--))).....((((((....)-)))---)))))...-..---..--......-.....---.-....---.. ( -12.82)
>DroYak_CAF1 109351 98 + 1
GGCCAGCGGCAUAAAUAUGUCAAAAACACAGCGCGCCGCGUGCUGUAAACAAAUUGUU-UUGCUGUUGCCAAA-AA---AU--AUAUGA-AAUAUUUCACCAAA---AA
(((.(((((((.(((((..........((((((((...))))))))........))))-)))))))))))...-..---..--...(((-(....)))).....---.. ( -26.07)
>DroAna_CAF1 113705 105 + 1
GGCCACCGGCAUAAAUAUGUCAAAAGCACAACGCGCUUCGUUAUAUAAACAAAUUGUUUUUGCCGCUGCCAAA-ACAACAA--AAAUAA-AAAUUUUCCAAAAACAAAA
(((...(((((.(((((......((((.......)))).(((.....)))....))))).)))))..)))...-.......--......-................... ( -17.60)
>DroPer_CAF1 126928 100 + 1
GGCCACCGGCAUAAAUAUGUCAAAAACACAACGCGCGGCGUGCUAUAAACAAAUUGUU-UUGUUGUAGCCAAA-AA---CGGGAGAAAA-AAAAUUGGAGGAAA---GA
..((.(((((((....)))))..........(.(.((....(((((((.((((....)-))))))))))....-..---)).).)....-......)).))...---.. ( -20.00)
>consensus
GGCCACCGGCAUAAAUAUGUCAAAAACACAACGCGCCGCGUGCUAUAAACAAAUUGUU_UUGCUGUUGCCAAA_AA___AU__AUAAAA_AAAAUUUCAGCAAA___AA
(((...(((((..((((.............(((.....))).............))))..)))))..)))....................................... (-10.24 = -10.35 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:12:46 2006