Locus 7962

Sequence ID 3L_DroMel_CAF1
Location 21,093,391 – 21,093,496
Length 105
Max. P 0.742846
window12989

overview

Window 9

Location 21,093,391 – 21,093,496
Length 105
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 78.52
Mean single sequence MFE -21.08
Consensus MFE -11.80
Energy contribution -12.36
Covariance contribution 0.56
Combinations/Pair 1.22
Mean z-score -2.10
Structure conservation index 0.56
SVM decision value 0.45
SVM RNA-class probability 0.742846
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21093391 105 - 23771897
AAGUCACCGC------------ACUUAACUUAAUGCGAUUAAACAGCUUCAAUUGCGUUCAGUAAGUACUCUUCCUCUUAAUAGUACUUAAAACAAAUAACUGAAUGAGUGCCU---CCC
........((------------((((((((.(((((((((..........))))))))).)))(((((((.((......)).)))))))................)))))))..---... ( -22.90)
>DroSec_CAF1 143619 117 - 1
AAGUCACCGCAUUAAGUCACAGUCUUAACUUAAUGCGAUUAAACAGCUUCAAUUGCGUUCAGUAAGCACUCUUCCUCUUAAUAGUACUUAUAACGAAUAACUGAAUGAGUACCU---CCC
.......((((((((((..........))))))))))........((((..((((....))))))))................((((((((.............))))))))..---... ( -20.92)
>DroSim_CAF1 50681 105 - 1
AAGUCACCGC------------UCUUAACUUAAUGCGAUUAAACAGCUUCAAUUGCGUUCAGUAAGCACUCUUCCUCUUAAUAGUACUUAAAACGAAUAACUGAAUGAGUGCCU---CCC
..........------------.....(((.(((((((((..........))))))))).)))..(((((((((...(((...((.......))...)))..))).))))))..---... ( -17.90)
>DroYak_CAF1 37842 96 - 1
AAGUCAGCU-------------GUUUAGCUUUUUGCAAUUAAACAGCUUCAAUUGCGUUCAGUAAGCUAUCUAUCUUUUGAUAGUACUU------A-----UAAAUGAGGACCUUUUUCC
..(((((((-------------(((((((.....))...)))))))))(((.((((.....))))((((((........))))))....------.-----....))).)))........ ( -22.60)
>consensus
AAGUCACCGC____________UCUUAACUUAAUGCGAUUAAACAGCUUCAAUUGCGUUCAGUAAGCACUCUUCCUCUUAAUAGUACUUAAAACGAAUAACUGAAUGAGUACCU___CCC
......................((((.(((.(((((((((..........))))))))).)))))))................(((((((...............)))))))........ (-11.80 = -12.36 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:02:09 2006