Locus 5342

Sequence ID 3L_DroMel_CAF1
Location 14,747,205 – 14,747,325
Length 120
Max. P 0.762719
window8444

overview

Window 4

Location 14,747,205 – 14,747,325
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 86.10
Mean single sequence MFE -25.70
Consensus MFE -19.71
Energy contribution -21.53
Covariance contribution 1.81
Combinations/Pair 1.07
Mean z-score -1.77
Structure conservation index 0.77
SVM decision value 0.51
SVM RNA-class probability 0.762719
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14747205 120 - 23771897
CUGAAAAAAAAAGGAAAUCGAAACAUCCAAAUGCUUUCCAAAAAUCCGUUGCCAAGUGAGGAGAAUUCAUGGCAUUGCAAUGUGUGACCUAUAUAAAUAAAUGUAUUUGUGUAACGGCUG
............(((((.((...........)).)))))......(((((((((((((((.....))))).(((((....((((((...))))))....)))))..))).)))))))... ( -20.60)
>DroSec_CAF1 12315 118 - 1
CUGAAAAAAAAAGGAAAGCGAAACAGACGAAUGCUUUCCAAAAAUCCGUUGCCAAGUGAGGAGAAUUCACGGCAUUGCAAUG--UGACCUAUAUAAAUAAAUGUAUUUGUGUAACGGCUG
............((((((((...........))))))))......(((((((((((((((.....)))))(((((......)--)).)).................))).)))))))... ( -28.50)
>DroSim_CAF1 11939 116 - 1
CUGAAAA--AAAGGAAAGCGAAACAGACGAAUGCUUUCCAAAAAUCCGUGGCCAAGUGAGGAGAAUUCACGGCAUUGCAAUG--UGACCUAUAUAAAUAAAUGUAUUUGUGUAACGGCUG
.......--...((((((((...........))))))))..........((((..(((((.....)))))(((((......)--)).))((((((((((....))))))))))..)))). ( -28.90)
>DroEre_CAF1 12600 95 - 1
CUGAAA---AAAGGAAAGCC--------------------AAAAUCCGUUGCCAAGUGAGGAGAACUCAUGGCAUUGCAAUG--UGACCUAUAUAAAUAAAUGUAUUUGUGUAACGGCUG
......---.......((((--------------------....((((((((...(((((.....)))))......))))))--.))..((((((((((....))))))))))..)))). ( -24.80)
>consensus
CUGAAAA__AAAGGAAAGCGAAACAGACGAAUGCUUUCCAAAAAUCCGUUGCCAAGUGAGGAGAAUUCACGGCAUUGCAAUG__UGACCUAUAUAAAUAAAUGUAUUUGUGUAACGGCUG
............((((((((...........))))))))......((((.(((..(((((.....))))))))................((((((((((....))))))))))))))... (-19.71 = -21.53 +   1.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:46 2006