Locus 4967

Sequence ID 3R_DroMel_CAF1
Location 13,078,241 – 13,078,341
Length 100
Max. P 0.939726
window8129

overview

Window 9

Location 13,078,241 – 13,078,341
Length 100
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 72.97
Mean single sequence MFE -17.45
Consensus MFE -3.02
Energy contribution -3.18
Covariance contribution 0.16
Combinations/Pair 1.25
Mean z-score -2.00
Structure conservation index 0.17
SVM decision value 1.28
SVM RNA-class probability 0.939726
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13078241 100 + 27905053
GAAUAAUUACAUUUUUUUCACAUUUUUUUUUAGUGAGCUUGCCUUUGGUAUUUUCCGCACAGAAAUUCUUGGUAAUCUCAUCAGAUUAAACUGUUAUUCA
(((((..............(((.(((..(((.(((((.(((((...((...((((......))))..)).))))).))))).)))..))).)))))))). ( -17.83)
>DroSec_CAF1 98039 94 + 1
GACAAAUUAC--UCUUUUCCCAUUU----UUAGUGAGCUUGCCAUUGGUAUUUUCCGCACAGAAAUUCUUGGUUAUCUCAUCAGAGUAAACUGUUAUUCC
((((..((((--(((..........----...(((((...((((..((...((((......)))).)).))))...))))).)))))))..))))..... ( -17.44)
>DroSim_CAF1 92449 95 + 1
GACAAAUUAC--UCUUUUCCCAUUUU---UUUGUGAGCUUGCCAUUGGUAUUUUCCGCACAGAAAUUCUUGGUUAUCUCAUCAGAGUAAACUGUUAUUCC
((((..((((--(((.(..(((..((---((((((....((((...)))).......))))))))....)))..).......)))))))..))))..... ( -18.80)
>DroEre_CAF1 98587 90 + 1
CACUUAUUAA--AUGCUGUCAA-UUUUUUGUAGUAAAC-------UAAUAUUUUCACUGCAGAACUUCUCCGCAGUCUCAUCUGAGUAAACUGUUAUUCA
....(((((.--.(((((.(((-....))))))))...-------))))).....(((((.((.....)).))))).......((((((....)))))). ( -14.60)
>DroYak_CAF1 101475 96 + 1
CACUUAUUAA--AUUGUUUAAA--UUUUUGCAGUGAGCUUGCCAUUAGUAUUUUCACUGCAGCUCUCCUUCGUAAUCCCAUCUGAGUAAACUUUUAUUCA
.......(((--(..((((...--....(((((((((..(((.....)))..)))))))))((((..................)))))))).)))).... ( -18.57)
>consensus
GACUAAUUAC__UUUUUUCCCAUUUUUUUUUAGUGAGCUUGCCAUUGGUAUUUUCCGCACAGAAAUUCUUGGUAAUCUCAUCAGAGUAAACUGUUAUUCA
................................(((....(((.....))).......))).......................((((((....)))))). ( -3.02 =  -3.18 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:15 2006