Locus 4231

Sequence ID 2L_DroMel_CAF1
Location 12,111,318 – 12,111,438
Length 120
Max. P 0.565650
window6678

overview

Window 8

Location 12,111,318 – 12,111,438
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.92
Mean single sequence MFE -40.84
Consensus MFE -35.72
Energy contribution -35.44
Covariance contribution -0.28
Combinations/Pair 1.06
Mean z-score -1.20
Structure conservation index 0.87
SVM decision value 0.06
SVM RNA-class probability 0.565650
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12111318 120 - 22407834
GCUCGCUGUUCCGGCCACCGCAAUGCUUCCAGCCACCAGGGUGCUUCCAAGUACUUGAUUCCUAUUGGCCAGGCAGUGAGCAGCCGUUACCAGCCAGUUGGAAUUAAUGAUGUUAGCGGC
((((((((((..(((((((.....((.....)).....))(((((....)))))...........))))).)))))))))).(((((((.((.((....)).........)).))))))) ( -43.00)
>DroSec_CAF1 13408 120 - 1
GCUCGCUGUUCCGGCCACCGCAAUGCUUCCAGCCACCAGGGUGCUUCCAAGUACUUGAUUCCUAUUGGCCAGGCAGUGAGCAGCCGUUACCAGCCAGUUGGAAUUAAUGAUGUUAGCAGC
((((((((((..(((((((.....((.....)).....))(((((....)))))...........))))).))))))))))...(((((((((....))))...)))))........... ( -37.40)
>DroSim_CAF1 13250 120 - 1
GCUCGCUGUUCCGGCCACCGCAAUGCUUCCAGCCACCAGGGUGCUUCCAAGUACUUGAUUCCUAUUGGCCAGGCAGUGAGCAGCCGUUACCAGCCAGUUGGAAUUAAUGAUGUUAGCAGC
((((((((((..(((((((.....((.....)).....))(((((....)))))...........))))).))))))))))...(((((((((....))))...)))))........... ( -37.40)
>DroEre_CAF1 13565 120 - 1
GCUCGCUGUUCCGGCCACCGCAAUGCUUCCUGCCACCAAGGUGCUUCCAAGUACUUGAUUCUUGUUGGCCAGGCAGUGAGCAGCCGUUACCAACCAGUUGGAAUUCACAAUGUUAGCUGC
((((((((((..(((((..((((.((.....)).....(((((((....))))))).....))))))))).)))))))))).((.((((((((....))))............)))).)) ( -38.10)
>DroYak_CAF1 13591 120 - 1
GCUCGCUGUUCCGGCCACCGCAAUGCUUCCUGCCACCAAGGUGCUGCCAAGUACUUGGUUCCUGUUGGCCAGGCAGUGAGCAGCUGUUAACAACCAGUUGGAACUGAUAAUGUUAGCUGC
((((((((((..(((((.((((........))).((((((.((((....))))))))))....).))))).)))))))))).((.(((((((..((((....))))....))))))).)) ( -48.30)
>consensus
GCUCGCUGUUCCGGCCACCGCAAUGCUUCCAGCCACCAGGGUGCUUCCAAGUACUUGAUUCCUAUUGGCCAGGCAGUGAGCAGCCGUUACCAGCCAGUUGGAAUUAAUGAUGUUAGCAGC
((((((((((..(((((.......((.....)).....(((((((....))))))).........))))).)))))))))).((.((((((((....))))............)))).)) (-35.72 = -35.44 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:55 2006