Locus 3509

Sequence ID 2L_DroMel_CAF1
Location 10,255,415 – 10,255,521
Length 106
Max. P 0.685047
window5541

overview

Window 1

Location 10,255,415 – 10,255,521
Length 106
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 72.01
Mean single sequence MFE -13.76
Consensus MFE -5.26
Energy contribution -5.78
Covariance contribution 0.52
Combinations/Pair 1.50
Mean z-score -1.79
Structure conservation index 0.38
SVM decision value 0.32
SVM RNA-class probability 0.685047
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10255415 106 + 22407834
UAUCAGUUUUAUCUGAUUAAUAACUCAUUUUAUUACACUA---------UUUAGUUCUUUUCCUUUUUAGGGAGGUCCUAUA----UUUCUGUAUCCCGCAAACAAACAACAUUCAUUU
.(((((......)))))................((((..(---------(.(((..((((.(((....)))))))..))).)----)...))))......................... ( -12.50)
>DroSec_CAF1 580 96 + 1
UAUCAGCUUUAUCUGAUUAAUAACUCAUUUCAUUACACUA---------UUUAGUUCUUUUCUUUUUUAGGGAGGUCCUUUA----UUUCUGUAUCCCGAAAACAAAAA----------
.(((((......)))))..........((((..((((..(---------(..((..(((..((.....))..)))..))..)----)...))))....)))).......---------- ( -13.30)
>DroSim_CAF1 574 96 + 1
UAUCAGCUUUAUCUGAUUAAUAACUCAUUUCUUUACACUA---------UUUAGUUCCUUUCUUUUUUAGGUAGGUCCUUUA----UUUCUGUAUCCCGAAAACAAAAA----------
.(((((......)))))..........((((..((((..(---------(..((..(((.(((.....))).)))..))..)----)...))))....)))).......---------- ( -12.30)
>DroEre_CAF1 587 103 + 1
-------CUUAUCUGAUUAAUGACUCAUUUCCCUAGGAUCUUCUUUCACUUAAGUUCUUUCCUUUUUUAGGAAGGUCCUUU--------AUGUAUUCCUCCAACAAAAA-CAAUCUUUC
-------.......((((................(((((((((((......(((.......)))....)))))))))))..--------.(((.........)))....-.)))).... ( -13.70)
>DroYak_CAF1 575 108 + 1
UAUAUGCUUUAUCUGAAUAAUAACUCAUUUCCCUGGGUUA---------UUGAGUUCAUUCCUUU-UUAUGGAGGUCCUUUACACACAUAUGUAUUCCUCAAACAAAAA-CAAUCAUUC
.............((((((((((((((......)))))))---------))..))))).......-.....((((.....((((......))))..)))).........-......... ( -17.00)
>consensus
UAUCAGCUUUAUCUGAUUAAUAACUCAUUUCAUUACACUA_________UUUAGUUCUUUUCUUUUUUAGGGAGGUCCUUUA____UUUCUGUAUCCCGCAAACAAAAA_CA_UC_UU_
...................................................(((..(((((((.....)))))))..)))....................................... ( -5.26 =  -5.78 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

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