Locus 5820

Sequence ID 3R_DroMel_CAF1
Location 15,229,782 – 15,229,886
Length 104
Max. P 0.840656
window9533

overview

Window 3

Location 15,229,782 – 15,229,886
Length 104
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 70.84
Mean single sequence MFE -29.75
Consensus MFE -11.93
Energy contribution -13.35
Covariance contribution 1.42
Combinations/Pair 1.11
Mean z-score -1.98
Structure conservation index 0.40
SVM decision value 0.75
SVM RNA-class probability 0.840656
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15229782 104 - 27905053
UUCGCUCAUGAA---------GCC-----UGUAGCCUGCGCCGUGUUCUAAUAGCCUUACUUGUGUAGGGCACAAACAGCUCGGUGUUGAAUGAGUUCCAAUGCUUCUUGGUCUUCAG
........((((---------(((-----...(((..((((((.(((......(((((((....)))))))......))).)))))).(((....)))....)))....)).))))). ( -31.00)
>DroSec_CAF1 152953 105 - 1
UUACAACAUGAA----CAG--GCCACAUAUAAAGCC-------UGUUCCAAUAGACUUACUUGUGUAGGGCACAAACAGCUCUGUGUUGAAUGAGUUCCAAUGCUUCUUGGUCUUCAA
...((((..(((----(((--((..........)))-------)))))..(((((((...(((((.....)))))..)).)))))))))..((((..((((......))))..)))). ( -29.80)
>DroSim_CAF1 164859 105 - 1
UUACAGCAGGAA----CAG--GCCACAUAUAAAGCC-------UGUUCCAAUAGCCUUACUUGUGUAGGGCACAAACAGCUCGGUGUUGAAUGAGUUCCAAUGCUUCUUGGUCUUCAA
...(((((((((----(((--((..........)))-------))))))....(((((((....))))))).............)))))..((((..((((......))))..)))). ( -38.20)
>DroEre_CAF1 153438 106 - 1
--AGCUAAUGGUUCU---GGUGCCACCUAAGAAGCC-------AGUUCCAAUCGCCUUACGUGUGUAGGGCACAAACAGCUCGGUGUUGAAUGAGUUCCAAUGCUUUUUGGUCUUCAG
--......(((..((---(((..(......)..)))-------))..)))...(((((((....))))))).....((((.....))))..((((..((((......))))..)))). ( -32.30)
>DroYak_CAF1 165895 109 - 1
UUUGCUCAUGGUGCUCCAGUUGCCGCAUA--AAGCC-------AGCUUCAAAAGCCUUACUUGUGUAGGGCACAAAGAGCUCGGUGUUGAAUGAGUUCCAAUGCUUUUUGUUCUUCAA
...((...(((....)))...)).(((.(--((((.-------..........(((((((....))))))).....(((((((........)))))))....))))).)))....... ( -30.00)
>DroAna_CAF1 157091 82 - 1
-----------------------------UGAGACC-------UCUACAAAGUUACUCACUUUCGAAAGGAACAAAAAGGUCGGUAUUGAAACUGUUCCAAUGCUUUUUGGUCUUCAA
-----------------------------.((((((-------.....(((((.......((((....))))......((.((((......))))..))...)))))..))))))... ( -17.20)
>consensus
UUAGCUCAUGAA______G__GCCACAUAUGAAGCC_______UGUUCCAAUAGCCUUACUUGUGUAGGGCACAAACAGCUCGGUGUUGAAUGAGUUCCAAUGCUUCUUGGUCUUCAA
.....................................................(((((((....))))))).....((((.....))))..((((..((((......))))..)))). (-11.93 = -13.35 +   1.42)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:05:34 2006