Locus 1259

Sequence ID 3R_DroMel_CAF1
Location 3,774,332 – 3,774,444
Length 112
Max. P 0.500000
window2052

overview

Window 2

Location 3,774,332 – 3,774,444
Length 112
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 90.87
Mean single sequence MFE -29.46
Consensus MFE -24.85
Energy contribution -24.91
Covariance contribution 0.06
Combinations/Pair 1.14
Mean z-score -1.35
Structure conservation index 0.84
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3774332 112 + 27905053
UCAUUAAAAUCCAUGACCGCGCUCGUAAAUUUCGAGCGCAAUACUCUGUGGGGCGGCGAAAUUGAAAUUA--------CAAAAUAAAUCGCACCGACUUUAUAGUGUCUGGCAGUGUCUU
...........(((..(((((((((.......)))))))...((.(((((((((((.(..(((.......--------.......)))..).))).)))))))).))..))..))).... ( -30.54)
>DroSec_CAF1 3856 119 + 1
UCAUUAAAAUCCAUGACCGCGCUCGUAAAUUUCGAGCGCA-UACACUGUGGGGUGGCGAAAUUGAAAUUACAAAAUUACAAAAUAAAUCGCACCGAGUUUAUAGUGUCUGGCAGUGUCUU
...........(((..(((((((((.......))))))).-.(((((((((((((.(((..(((.((((....)))).)))......)))))))....)))))))))..))..))).... ( -31.90)
>DroSim_CAF1 7500 120 + 1
UCAUUAAAAUCCAUGACCGCGCUCGUAAAUUUCGAGCGUACUACUCUGUGGGGCGGCGAAAUUGAAAUUACAAAAUUACAAAAUAAAUCGCACCGAGUUUAUAGUGUCUGGCAGUGUCUU
..............(((.(((((((.......)))))))......((((.(((((.(....(((.((((....)))).))).((((((((...))).))))).)))))).)))).))).. ( -26.00)
>DroYak_CAF1 5560 112 + 1
UCAUUAAAAUCCAUGACCGCGAUCGUAAAUUUCGAGCGCAAUACUCUGUGGGGCGGCGAAAUUCAAAUUA--------CAAAAUAAUUCGCGCCGACUUUAUAGUGUCUGGCAGAGUCUU
((((........))))..(((.(((.......))).)))...(((((((.((((((((.......(((((--------.....)))))..)))).(((....))))))).)))))))... ( -29.40)
>consensus
UCAUUAAAAUCCAUGACCGCGCUCGUAAAUUUCGAGCGCAAUACUCUGUGGGGCGGCGAAAUUGAAAUUA________CAAAAUAAAUCGCACCGACUUUAUAGUGUCUGGCAGUGUCUU
((((........))))..(((((((.......)))))))...(((((((.((((.((((............................))))((..........)))))).)))))))... (-24.85 = -24.91 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:04:52 2006