Locus 500

Sequence ID 3L_DroMel_CAF1
Location 1,402,833 – 1,402,939
Length 106
Max. P 0.630428
window750

overview

Window 0

Location 1,402,833 – 1,402,939
Length 106
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 79.82
Mean single sequence MFE -17.52
Consensus MFE -11.05
Energy contribution -10.91
Covariance contribution -0.14
Combinations/Pair 1.04
Mean z-score -1.55
Structure conservation index 0.63
SVM decision value 0.20
SVM RNA-class probability 0.630428
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1402833 106 - 23771897
UGGAGUCCGUGGCCAAGAGCAGUGAGAAAAAUGUUAAUGAUAAACCUGUUUGUCAAUUAAACAA--------AAAA--UAUUGUAAUAGUUGAUAACAGAAUGGGCAAACA--CGAAG
....((((((...((..((((..........))))..))......(((((.((((((((.((((--------....--..))))..))))))))))))).)))))).....--..... ( -21.70)
>DroPse_CAF1 85466 105 - 1
AGCAGAUCGAG----AGAACAGUGAGAAAAAUGUUAAUGAUAAACCUGUUUGUCAAUUAAACAA---------AAAUAUAUUGUAAUAGUUGAUAACAGACUAAGCAAACAGACGGAC
.((..((((..----..((((..........))))..))))....(((((.((((((((.((((---------.......))))..))))))))))))).....))............ ( -16.30)
>DroEre_CAF1 59368 92 - 1
UGGAGUC-------------AGUGAGAAAAAUGUUAAUGAUAAACCUGUUUGUCAAUUAAACAA---------AAA--UAUUGUAAUAAUUGAUAACAGAAUGGGCAAACA--CGAAC
....(((-------------(.(((.(....).))).))))....(((((.((((((((.((((---------...--..))))..)))))))))))))............--..... ( -14.10)
>DroWil_CAF1 37888 106 - 1
--------UCCAUCUGAUGCAGUGAGAAAAAUGUUAAUGAUAAACCUGUUUGUCAAUUAAACAAAAUACAAAAAAA--UAUUGUAAUAGUUGAUAACAGAAUGGGCAAACA--GUGCC
--------.(((((((..((((.(......((....))......)))))((((((((((.((((.((........)--).))))..))))))))))))).))))(((....--.))). ( -17.10)
>DroAna_CAF1 61967 96 - 1
--AAGUCC-------AGGGCAGUGAGAAAAAUGUUAAUGAUAAACCUGUUUGUCAAUUAAACAA---------AAA--UAUUGUAAUAGUUGAUAACAGAAUGGGCAAACA--CGGAG
--..((((-------(.((((..........))))..........(((((.((((((((.((((---------...--..))))..)))))))))))))..))))).....--..... ( -19.60)
>DroPer_CAF1 86837 105 - 1
AGCAGAUCGAG----AGAACAGUGAGAAAAAUGUUAAUGAUAAACCUGUUUGUCAAUUAAACAA---------AAAUAUAUUGUAAUAGUUGAUAACAGACUAAGCAAACAGACGGAC
.((..((((..----..((((..........))))..))))....(((((.((((((((.((((---------.......))))..))))))))))))).....))............ ( -16.30)
>consensus
_GCAGUCCG_G____AGAGCAGUGAGAAAAAUGUUAAUGAUAAACCUGUUUGUCAAUUAAACAA_________AAA__UAUUGUAAUAGUUGAUAACAGAAUGGGCAAACA__CGGAC
...............................((((..((......(((((.((((((((.((((................))))..)))))))))))))......))))))....... (-11.05 = -10.91 +  -0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:37 2006