Locus 8823

Sequence ID 3R_DroMel_CAF1
Location 23,615,963 – 23,616,056
Length 93
Max. P 0.601645
window14169

overview

Window 9

Location 23,615,963 – 23,616,056
Length 93
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 71.18
Mean single sequence MFE -19.06
Consensus MFE -4.46
Energy contribution -6.50
Covariance contribution 2.04
Combinations/Pair 1.33
Mean z-score -1.70
Structure conservation index 0.23
SVM decision value 0.14
SVM RNA-class probability 0.601645
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23615963 93 - 27905053
AGAUACACUUGGAAAAGUG--------ACUAAAAAUGUUCUGUAAGG----UUUAAAAAUAUAUUGUAGCAUACCCUUGGACA-GCAUUAUAAAAUGGU--UGCAUCU
((((.(((((....)))))--------......((((((.(.(((((----.......................))))).).)-)))))..........--...)))) ( -14.50)
>DroSec_CAF1 76796 96 - 1
AGCUACACUUGGAAAAGUG--------ACUAAGUAUA-GCUAUAAGGCUAGUUUAAAAAUAUUUUGUAGCAUAAUCUUGCACA-CUAUUACAAAAUAGU--UGCAUCU
.(((((((((((.......--------.)))))).((-(((....)))))...............))))).......((((.(-(((((....))))))--))))... ( -24.20)
>DroSim_CAF1 79234 97 - 1
AGCUACACUUGGAAAAGUG--------ACUAAGUAUAUGCUAUAAGGCUAGUUUAAAAAUAUGUUGUAGCAUAAUCUUGCACA-CUAUUACAAAAUAGU--UGCAUCU
.....(((((....)))))--------...(((..((((((((((.(.((.........))).))))))))))..)))(((.(-(((((....))))))--))).... ( -22.90)
>DroEre_CAF1 81065 107 - 1
AGCUACACUGCGAAAAGUGUAGUAAGCCCAAAAAAGUUACAGUAAGCCCAAUUAAAAAGGAUUUUGCAAUAUACUUUGGGACA-CCUCUACAAAACAGCUUUGAAUCU
.((((((((......))))))))..((((((...(((....(((((.((.........))..))))).....)))))))).).-......((((.....))))..... ( -20.10)
>DroYak_CAF1 83591 99 - 1
AGCUACACUGCAAAAAGUA--------CCAAAAAAUAUGAUUUAAGGUCAAAUAAAAA-GAUUUUGCAGCAUGCUUUUGAAAAUCCAUUAUAAAAUGGUAUUGAAUCC
.((......))....((((--------(((.......((((.....))))........-((((((.(((.......)))))))))..........)))))))...... ( -13.60)
>consensus
AGCUACACUUGGAAAAGUG________ACUAAAAAUAUGCUAUAAGGCCAAUUUAAAAAUAUUUUGUAGCAUACUCUUGCACA_CCAUUACAAAAUAGU__UGCAUCU
.(((((((((....)))))................((((((((((((..............))))))))))))......................))))......... ( -4.46 =  -6.50 +   2.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:20:36 2006