Locus 2220

Sequence ID 2R_DroMel_CAF1
Location 8,179,419 – 8,179,511
Length 92
Max. P 0.508083
window3659

overview

Window 9

Location 8,179,419 – 8,179,511
Length 92
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 84.04
Mean single sequence MFE -32.47
Consensus MFE -22.95
Energy contribution -23.82
Covariance contribution 0.86
Combinations/Pair 1.12
Mean z-score -1.82
Structure conservation index 0.71
SVM decision value -0.05
SVM RNA-class probability 0.508083
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8179419 92 + 20766785
---AGUCUGAGCCAGACUCUCUGAGCCGGGUUU---UUGGCCUAGGUGCAGCCACACAUGGCUAAUGGGUCAUCGUGGAUGAGAGGCUAUUGACUUGG
---((((((...)))))).......(((((((.---.((((((.....((.((((..((((((....)))))).)))).))..))))))..))))))) ( -34.60)
>DroSec_CAF1 4444 92 + 1
---AGUCUGAGCCAGACUCAUUGAGCCGGGUUU---UUGGCCUAGGUGCAGCCACACAUGGCUAAUGGGUCAUCGUGGAUGAGAGGCUAUUGACUUGG
---((((((...)))))).......(((((((.---.((((((.....((.((((..((((((....)))))).)))).))..))))))..))))))) ( -34.60)
>DroSim_CAF1 3459 92 + 1
---AGUCUGAGCCAGACUCAGUGAGCCGGGUUU---UUGGCCUAGGUGCAGCCACACAUGGCUAAUGGGUCAUCGUGGAUGAGAGGCUAUUGACUUGG
---...(((((.....)))))....(((((((.---.((((((.....((.((((..((((((....)))))).)))).))..))))))..))))))) ( -34.70)
>DroEre_CAF1 3467 92 + 1
---AGUCAGAGCCAGACUUUUUGAGCCGGGUUU---UUGGCCUAGGUGCAGCUACUUAUGGCUAAUGGGUCAUUGUGGAUGAAAGGCUAUUGACUCGA
---((((((((((.......(((.(((((((..---...)))).))).)))((((..((((((....)))))).))))......)))).))))))... ( -29.60)
>DroYak_CAF1 3424 92 + 1
---ACUCUGAGCCAGACUCUUUGAGCCGGGUUU---UUGGCCUAGGUGCAGCUACUCAUGGCUAAUGGGUCAUUGUGGAUGAAAGGCUAUUGACUCGG
---.(((.(((.....)))...)))(((((((.---.((((((.....((.((((..((((((....)))))).)))).))..))))))..))))))) ( -33.00)
>DroAna_CAF1 3689 89 + 1
AAGAGUCUGAGC-------UCAGAGCAGAGAGUUAGCUGGCCUGGGUGCAGCCACUCAUGGCUAAUGGGUCAUCGGCGGGAAAAGGCUAUUGACAC--
....(((..(((-------(....((.((((.(((..(((((((((((....)))))).))))).))).)).)).)).......))))...)))..-- ( -28.30)
>consensus
___AGUCUGAGCCAGACUCUUUGAGCCGGGUUU___UUGGCCUAGGUGCAGCCACACAUGGCUAAUGGGUCAUCGUGGAUGAAAGGCUAUUGACUCGG
....(((..((((((((((........))))))....(((((((.....(((((....)))))..)))))))............))))...))).... (-22.95 = -23.82 +   0.86)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:24:11 2006