Locus 1578

Sequence ID X_DroMel_CAF1
Location 4,527,208 – 4,527,305
Length 97
Max. P 0.632303
window2589

overview

Window 9

Location 4,527,208 – 4,527,305
Length 97
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 72.86
Mean single sequence MFE -35.22
Consensus MFE -21.10
Energy contribution -22.42
Covariance contribution 1.31
Combinations/Pair 1.35
Mean z-score -1.33
Structure conservation index 0.60
SVM decision value 0.20
SVM RNA-class probability 0.632303
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4527208 97 + 22224390
--------------------CGGUUAGCAUCUCCUGAACCUUCAGGGGCUCCAUCUUGUCCACAAUCUGCUCAGGCUCCACAUGAGUGGGUGUGGCGGGCAACGUGGAGCUCACUUC
--------------------.(((.(((..(((((((....))))))).(((((.((((((.(.(((..(((((......).))))..)))...).)))))).)))))))).))).. ( -40.60)
>DroSec_CAF1 557 97 + 1
--------------------CGAUGAUCAGCUCCGGGACUUUCAUGGGCUCCAUCUUGUCCACAAUCUGGUCAGGCUCCACAUGAGUGGGUGUGGCGGGCAACGUGGAGCUCACUUC
--------------------..((((....(.....)....))))(((((((((.((((((.(.....)((((.((.((((....)))))).)))))))))).)))))))))..... ( -38.90)
>DroSim_CAF1 115 97 + 1
--------------------CGAUGAUCAGCUCCGGGACUUUCAUGGGCUCCAUCUUGUCCACAAUCUGGUCAGGCUCCACAUGAGUGGGUGUGGCGGGCAACGUGGAGCUCACUUC
--------------------..((((....(.....)....))))(((((((((.((((((.(.....)((((.((.((((....)))))).)))))))))).)))))))))..... ( -38.90)
>DroEre_CAF1 1384 97 + 1
--------------------UGGUCAGCAUCUCCUGAACCUUCAUGAGCUUCACAUUCUCAACAAACUGCUCAGGCUCCAAAUGAGUUGGGGUGGCGGGCAAGGUGGAGCUCACUUC
--------------------.((((((......))).)))....((((((((((............(((((...(((((((.....)))))))))))).....)))))))))).... ( -32.33)
>DroYak_CAF1 1405 97 + 1
--------------------CGGUCAGCAUUUCCUGAACCUUCAUCGGCUUCAUCUUCUCCACAAUCUGAUCGGGCACCACAUGAGAUGGUGUGGCGGGCAACGUGGAGCUCACUUC
--------------------.(((.(((......((((((......)).)))).....(((((............(.((((((......)))))).)(....))))))))).))).. ( -25.30)
>DroMoj_CAF1 21388 111 + 1
CACGUCCAACUGUGGCACACUUGUAUCCAUGUCCUCAACCUGCGCCUCCUCCUUCUCGCCAACAGUCA---UGGG---CAUUGGCGUGGGCGUGGCUGGCAGCGUGGAGCUCACCUC
...........(((((((....)).(((((((..(((.((.((((((.........((((((..((..---...)---).)))))).)))))))).)))..))))))))).)))... ( -35.30)
>consensus
____________________CGGUCAGCAUCUCCUGAACCUUCAUGGGCUCCAUCUUGUCCACAAUCUGCUCAGGCUCCACAUGAGUGGGUGUGGCGGGCAACGUGGAGCUCACUUC
.............................................(((((((((.((((((.....((....))...((((((......)))))).)))))).)))))))))..... (-21.10 = -22.42 +   1.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:54 2006