Locus 3375

Sequence ID 3R_DroMel_CAF1
Location 9,110,819 – 9,110,929
Length 110
Max. P 0.523839
window5426

overview

Window 6

Location 9,110,819 – 9,110,929
Length 110
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.12
Mean single sequence MFE -40.70
Consensus MFE -24.72
Energy contribution -25.70
Covariance contribution 0.98
Combinations/Pair 1.22
Mean z-score -1.53
Structure conservation index 0.61
SVM decision value -0.02
SVM RNA-class probability 0.523839
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9110819 110 + 27905053
----------CGGCAUACAGUAAAGCUGCCAUAAAGGCGCCAUUGUUCAUCACCAGCGACAGGAUGGUGGCCAUCUUAAGGGCGGGCAGGAUGAAGGGCAGGAGACUGCCAAGCAGGACG
----------.(((....((.....))(((.....)))))).(((((((((.((.((...(((((((...)))))))....)).))...)))))..(((((....)))))..)))).... ( -38.80)
>DroPse_CAF1 2783 110 + 1
----------CGGCGUAGAGCAGGGCGGCCAAGAAGGCGCCAUUGUUCAUCACCAGCGACAUAAUGGUGGCCAUCUUGAGGGCAGGCAGGAUGAAGGGCAGCAGGCUGCCCAGCAGGACG
----------.(((...((((((((((.((.....)))))).))))))..(((((.........))))))))((((((........))))))...((((((....))))))......... ( -45.30)
>DroWil_CAF1 2606 110 + 1
----------CCGCAUAGAGCAGUGCGGCCAUGAAAGCGCCAUUGUUCAUAAGAAGUGACAAAAUGGUGGCCAUUUUUAGAGCCGGCAAAAUAAAUGGCAAAAGGCUGCCCAACAAUAUA
----------..((.....)).(.((((((.......(((((((..((((.....))))...)))))))(((((((.....(....).....)))))))....)))))).)......... ( -32.30)
>DroMoj_CAF1 16856 120 + 1
GCCGAGGAGUACGCGUAGAGCAUAGCGGCCAGGAAGGCGCCGUUGUUCAUUAGGAGCGACAUAAUGGUGGCCAUCUUGAGGGUGGGCAGGAUGAAGGGCAGCAGGCUGCCCAAGAGUACG
........((((((.....))...((.((((((......))(((((((.....)))))))....)))).))(((((((........)))))))..((((((....))))))....)))). ( -45.10)
>DroAna_CAF1 3205 110 + 1
----------CGGCAUACAGGAGGGCGGCCAUGAAGGCACCGUUAUUCAUCACCAGCGACAGGAUUGUGGCCAUUUUGAGCGCGGGCAGGAUGAAGGGCAGGAGGCUGCCCAGCAGCACC
----------..((........((...(((.....))).))(((.((((((.((.(((.((((((.......))))))..))).))...))))))((((((....))))))))).))... ( -37.40)
>DroPer_CAF1 12318 110 + 1
----------CGGCAUAGAGCAGGGCGGCCAAGAAGGCGCCAUUGUUCAUCACCAGCGACAUAAUGGUGGCCAUCUUGAGGGCAGGCAGGAUGAAGGGCAGCAGGCUGCCCAGCAGGACG
----------.(((...((((((((((.((.....)))))).))))))..(((((.........))))))))((((((........))))))...((((((....))))))......... ( -45.30)
>consensus
__________CGGCAUAGAGCAGGGCGGCCAUGAAGGCGCCAUUGUUCAUCACCAGCGACAUAAUGGUGGCCAUCUUGAGGGCGGGCAGGAUGAAGGGCAGCAGGCUGCCCAGCAGGACG
.................((((((.(..(((.....)))..).)))))).......((.((......)).))(((((((........)))))))..((((((....))))))......... (-24.72 = -25.70 +   0.98)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:31 2006