Locus 1842

Sequence ID 3L_DroMel_CAF1
Location 5,166,095 – 5,166,199
Length 104
Max. P 0.780333
window2876

overview

Window 6

Location 5,166,095 – 5,166,199
Length 104
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 76.01
Mean single sequence MFE -23.15
Consensus MFE -9.98
Energy contribution -11.28
Covariance contribution 1.30
Combinations/Pair 1.14
Mean z-score -1.96
Structure conservation index 0.43
SVM decision value 0.56
SVM RNA-class probability 0.780333
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5166095 104 + 23771897
-----GCCACCC-ACGUGAUUUCGCUAAUGCCGUUCUUCAUGUGCCUCACCCACACACACACAUUUCCACUAUGGCAUUCGGUGUGCGGGUCGAAUUACAAAAAAAAAUU
-----......(-((((((...(((....).))....)))))))..((((((.(((((........((.....))......))))).)))).))................ ( -24.34)
>DroSec_CAF1 31543 99 + 1
-----GCCACCC-ACGUGAUUUCGCUAAUGCCAUUCUUCAUGUGCCUCACCCACAC--ACACAUUUUCACUAUGGCAUUCGGUAUGCGGGUCGAUUUACAAA---AAAUU
-----.(.((((-.((((...(((..((((((((.....(((((............--.))))).......))))))))))))))).)))).).........---..... ( -21.02)
>DroSim_CAF1 31503 102 + 1
-----GCCACCC-ACGUGAUUUCGCUAAUGCCAUUCUUCAUGUGCCUCACCCACACACACACAUUUUCACUAUGGCAUUCGGUGUGCGGGUCGAUUUACAAA--AAAAUU
-----......(-((((((....((....))......)))))))..((((((.(((((...(((.......))).......))))).)))).))........--...... ( -23.10)
>DroYak_CAF1 29991 96 + 1
-----GCUACCC-ACGUGAUUUCGCUAAUGCCAUACUUCAUGUGCCUCUCCCAC------ACAUUUCCACUAUGGCAUUUUGUGGGCGGGUCGAUUUACAAA--AAAAUU
-----.(..(((-(((((....))).(((((((((....(((((.........)------))))......)))))))))..)))))..).............--...... ( -25.40)
>DroAna_CAF1 29446 89 + 1
UCCAGUCCACCCUACG------------UGCCUUUCUUUGCGCGACUCGCCCAC------ACAUUUCCACGAAAUCACUCUGGGU-UGGGUCGUUUUUCAGG--AAAAAC
.....(((.......(------------(((........))))((((((((((.------..(((((...))))).....)))).-))))))........))--)..... ( -21.90)
>consensus
_____GCCACCC_ACGUGAUUUCGCUAAUGCCAUUCUUCAUGUGCCUCACCCACAC__ACACAUUUCCACUAUGGCAUUCGGUGUGCGGGUCGAUUUACAAA__AAAAUU
......(.((((...(((....))).((((((((.....(((((...............))))).......))))))))........)))).)................. ( -9.98 = -11.28 +   1.30)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:07 2006