Locus 1567

Sequence ID 3R_DroMel_CAF1
Location 4,497,242 – 4,497,365
Length 123
Max. P 0.824545
window2585 window2586

overview

Window 5

Location 4,497,242 – 4,497,333
Length 91
Sequences 4
Columns 95
Reading direction forward
Mean pairwise identity 75.99
Mean single sequence MFE -15.88
Consensus MFE -9.29
Energy contribution -9.85
Covariance contribution 0.56
Combinations/Pair 1.10
Mean z-score -1.96
Structure conservation index 0.59
SVM decision value 0.69
SVM RNA-class probability 0.824545
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4497242 91 + 27905053
UUUAUUAAACAACGUUUUUAACAAGUAUGCACAGUGUUCAGUUCCACUUUUCCUUUGUU----GAUCGGCCUUCACUUACCCACCGUGAGGUCGA
.................((((((((.......((((........)))).....))))))----))(((((((.(((.........)))))))))) ( -17.90)
>DroSim_CAF1 6987 91 + 1
UUUAUUAAACAAAGUUUUCAACAAUUUUGCAAAGUGUUCAGUUCUACUUUUCCGUUGUU----GAUCGGCCUUCACUUACCCACGAUAAGGUCGA
.................((((((((...(.((((((........)))))).).))))))----))((((((((..(........)..)))))))) ( -17.90)
>DroEre_CAF1 7168 95 + 1
UUUAUAAAGCAAAGUUUUCCACAAUUUUGUAUAGUUUUCAGUUCUACUUUUCCUUUAUACAUACAUCGGCCUUCACUUACCCACGUUAAGGUCGA
..((((((((((((((......)))))))..(((.........)))......)))))))......((((((((.((........)).)))))))) ( -16.20)
>DroYak_CAF1 7063 71 + 1
UUUAUUAAACAAAGUU--------------------UUUAGUUAUACUUUUCCUUUAUA----CAUCGGCCUUCACUUACCUACGUUAAGGUCGA
..........(((((.--------------------.........))))).........----..((((((((.((........)).)))))))) ( -11.50)
>consensus
UUUAUUAAACAAAGUUUUCAACAAUUUUGCA_AGUGUUCAGUUCUACUUUUCCUUUAUA____CAUCGGCCUUCACUUACCCACGUUAAGGUCGA
.................................................................((((((((.((........)).)))))))) ( -9.29 =  -9.85 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 4,497,272 – 4,497,365
Length 93
Sequences 4
Columns 103
Reading direction forward
Mean pairwise identity 79.04
Mean single sequence MFE -16.02
Consensus MFE -9.79
Energy contribution -10.35
Covariance contribution 0.56
Combinations/Pair 1.10
Mean z-score -1.87
Structure conservation index 0.61
SVM decision value 0.32
SVM RNA-class probability 0.685989
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4497272 93 + 27905053
ACAGUGUUCAGUUCCACUUUUCCUUUGUU----GAUCGGCCUUCACUUACCCACCGUGAGGUCGACUUCUAUAAUUCAUUAGGCACUUAC------CUUAACC
..(((((..(((((.((.........)).----))(((((((.(((.........))))))))))............)))..)))))...------....... ( -17.90)
>DroSim_CAF1 7017 97 + 1
AAAGUGUUCAGUUCUACUUUUCCGUUGUU----GAUCGGCCUUCACUUACCCACGAUAAGGUCGACUUCU--AAUUUAUUAGGCACAUACCUCAACCUUAACC
((((((........))))))......(((----((((((((((..(........)..))))))))..(((--((....)))))........)))))....... ( -14.90)
>DroEre_CAF1 7198 95 + 1
AUAGUUUUCAGUUCUACUUUUCCUUUAUACAUACAUCGGCCUUCACUUACCCACGUUAAGGUCGACUUUU--AGUUUAAUAGGCACCUGC------CUUAACC
...................................((((((((.((........)).)))))))).....--.(((....((((....))------)).))). ( -17.50)
>DroYak_CAF1 7079 85 + 1
------UUUAGUUAUACUUUUCCUUUAUA----CAUCGGCCUUCACUUACCUACGUUAAGGUCGACUUCU--AGUUUCAUAGGCACCUAC------CUUAACC
------....((((...............----..((((((((.((........)).)))))))).....--.......(((....))).------..)))). ( -13.80)
>consensus
A_AGUGUUCAGUUCUACUUUUCCUUUAUA____CAUCGGCCUUCACUUACCCACGUUAAGGUCGACUUCU__AAUUUAAUAGGCACCUAC______CUUAACC
...................................((((((((.((........)).))))))))...................................... ( -9.79 = -10.35 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:41 2006