Locus 5072

Sequence ID 3L_DroMel_CAF1
Location 13,909,547 – 13,909,640
Length 93
Max. P 0.549424
window8039

overview

Window 9

Location 13,909,547 – 13,909,640
Length 93
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 78.41
Mean single sequence MFE -12.43
Consensus MFE -7.70
Energy contribution -7.78
Covariance contribution 0.09
Combinations/Pair 1.20
Mean z-score -1.39
Structure conservation index 0.62
SVM decision value 0.03
SVM RNA-class probability 0.549424
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13909547 93 - 23771897
AUAUAAAAGUUAAUGCAAAAAC------AA-------AUC-GUGGCUAAAAAUAA-AAGCCAAUGCUCGUAAAUUGGCACACACGCUUCAACAGACCGCGAAAUAAAA
......................------..-------.((-((((((........-..((((((........))))))......(......))).))))))....... ( -16.40)
>DroVir_CAF1 25539 100 - 1
UUACAAAUGUUGGCCAAAAAAGAAA-AU-AUUAAUAAAA--CCAGCUAAAAAUAA-AAGCCGAUGCUCGUAAAUUGGCACACACGCUUCAACAGACCGCAAAAUA---
........(((((............-..-..........--))))).........-..((((((........))))))......((.((....))..))......--- ( -12.26)
>DroPse_CAF1 17636 100 - 1
AUAUAAAAGUUAAUGCAAAAAC------AAAUCCCAAAUC-GCAGCUAAAAAUAA-AAGCCAAUGCUCGUAAAUUGGCACACACGCUUCAACAGACCGCAAAAAGCAA
.............(((......------............-)))(((........-..((((((........))))))......((.((....))..))....))).. ( -12.97)
>DroWil_CAF1 22268 95 - 1
AUAUAGUAGUUAAAGCAAAAAU---C--UA-------AGU-UAAGCUAAAUAUAAAAAGUCCAAGCUCGUAAAUUGGCACACACGCUUCACCAGACCGCAAAAUAGCA
......................---.--..-------...-...((((..........((((((.........)))).))....((.((....))..))....)))). (  -9.10)
>DroAna_CAF1 20291 94 - 1
AUAUAAAAGUAAAUGCAGAAAC------AA-------AAUUUGAGCUAAAAAUAA-AAGCCAAUGCUCGUAAAUUGGCACACACGCUUCAACAGACCGCAAAAAAAGC
.............(((......------..-------.((((.......))))..-..((((((........))))))...................)))........ ( -10.90)
>DroPer_CAF1 17650 100 - 1
AUAUAAAAGUUAAUGCAAAAAC------AAAUCCCAAAUC-GCAGCUAAAAAUAA-AAGCCAAUGCUCGUAAAUUGGCACACACGCUUCAACAGACCGCAAAAAGCAA
.............(((......------............-)))(((........-..((((((........))))))......((.((....))..))....))).. ( -12.97)
>consensus
AUAUAAAAGUUAAUGCAAAAAC______AA_______AUC_GCAGCUAAAAAUAA_AAGCCAAUGCUCGUAAAUUGGCACACACGCUUCAACAGACCGCAAAAAAAAA
..........................................................((((((........))))))......((.((....))..))......... ( -7.70 =  -7.78 +   0.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:18 2006