Locus 1885

Sequence ID 3R_DroMel_CAF1
Location 5,401,052 – 5,401,169
Length 117
Max. P 0.811644
window3094

overview

Window 4

Location 5,401,052 – 5,401,169
Length 117
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 83.24
Mean single sequence MFE -25.65
Consensus MFE -18.26
Energy contribution -17.82
Covariance contribution -0.44
Combinations/Pair 1.18
Mean z-score -1.90
Structure conservation index 0.71
SVM decision value 0.65
SVM RNA-class probability 0.811644
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5401052 117 - 27905053
GUAGCAGUGAAGUGAAAACCAAACACGUGCAACACCACAUAAUUUGGCGUUU---AUUCGUACACAAUCGCUUGUGUAUGAACAAGCCCGACGAGCCGUCAACCAAUUCACAUAAUAAUA
......(((((.((............(((......))).......((.((((---.(((((((((((....))))))))))).))))))((((...))))...)).)))))......... ( -29.60)
>DroSim_CAF1 10783 116 - 1
GUAGCAGUAAAGUGAAAACCAAACACGUGCAACA-CACAUAAUUUGGCGUUU---AUCCGUACACAAUUCCUUGUGUAUGAACAAGCCCGACGAGCCGUCAACCAAUUCACAUAAUAAUA
...........(((((..........(((.....-))).......((.((((---...(((((((((....)))))))))...))))))((((...))))......)))))......... ( -24.30)
>DroYak_CAF1 11208 116 - 1
GUAGCAGUGAAGUGAAAACCAAACGCGUGCAACA-CACAUAAUUUGGCGUUU---AUCCGUACACAAUCCCCUGUGUAUGAACAAGCCGGACGAGCCGCCAACCAAUUCACAUAAUAAUA
......(((((.((............(((.....-))).....((((((((.---.((((((((((......)))))).........))))..)).)))))).)).)))))......... ( -28.20)
>DroAna_CAF1 10676 112 - 1
GAAACAGUAGAGUGGAAACCAAACACGUGCAGCAAAAUACAUUUUGGCACUUUUAAACCGUACACAGU---UUGUGUAUGAAC--CCCUGACACGCCGGAAAACAAUUCACAUAAUA---
...........(((((.........((((((((((((....)))))............(((((((...---..)))))))...--..))).))))..(.....)..)))))......--- ( -20.50)
>consensus
GUAGCAGUAAAGUGAAAACCAAACACGUGCAACA_CACAUAAUUUGGCGUUU___AUCCGUACACAAUCCCUUGUGUAUGAACAAGCCCGACGAGCCGUCAACCAAUUCACAUAAUAAUA
...........(((((..(((((...(((........)))..)))))...........(((((((((....)))))))))..........................)))))......... (-18.26 = -17.82 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:53 2006