Locus 2804

Sequence ID 3L_DroMel_CAF1
Location 8,006,336 – 8,006,467
Length 131
Max. P 0.979591
window4381 window4382

overview

Window 1

Location 8,006,336 – 8,006,433
Length 97
Sequences 3
Columns 98
Reading direction reverse
Mean pairwise identity 97.27
Mean single sequence MFE -17.80
Consensus MFE -17.17
Energy contribution -17.17
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.79
Structure conservation index 0.96
SVM decision value 1.84
SVM RNA-class probability 0.979591
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8006336 97 - 23771897
CCGCUCAUUAAAAAGGGUGGAA-AAUGUAAUAAAAGAUGAAGAAGCAAACAAAAAGAGAAAUUUGCAAGAAUAGUAGAGAAAAAUUCUUGUGGCGUCU
((((((........))))))..-...........(((((...............(((....)))((((((((...........))))))))..))))) ( -17.80)
>DroSim_CAF1 421 97 - 1
CCGCUCAUUAAAAAGGGUGGAA-AAUGUAAUAAAAGAUGAAGAAGCAAACAAAAAGAGAAAUUUGCAAGAAUAGUAGAAAAAAAUUCUUGUGGCGUCU
((((((........))))))..-...........(((((...............(((....)))((((((((...........))))))))..))))) ( -17.80)
>DroYak_CAF1 28547 98 - 1
CCGCUCAUUAAAAAGGGUGGAAAAAUGUAAUAAAAGAUGAAGAAGCAAACAAAAAGAGAACUUUGCAAGAAUAGUAGGAAAAAAUUCUUGUGGCGUCU
((((((........))))))..............(((((.............((((....))))((((((((...........))))))))..))))) ( -17.80)
>consensus
CCGCUCAUUAAAAAGGGUGGAA_AAUGUAAUAAAAGAUGAAGAAGCAAACAAAAAGAGAAAUUUGCAAGAAUAGUAGAAAAAAAUUCUUGUGGCGUCU
((((((........))))))..............(((((...............(((....)))((((((((...........))))))))..))))) (-17.17 = -17.17 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 8,006,376 – 8,006,467
Length 91
Sequences 3
Columns 92
Reading direction reverse
Mean pairwise identity 97.82
Mean single sequence MFE -16.57
Consensus MFE -15.57
Energy contribution -15.57
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.74
Structure conservation index 0.94
SVM decision value 0.25
SVM RNA-class probability 0.652595
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8006376 91 - 23771897
CUUGGCAGGAAAAUGUAUAAAUUUCCAACGCCGCCCGCUCAUUAAAAAGGGUGGAA-AAUGUAAUAAAAGAUGAAGAAGCAAACAAAAAGAG
....((.(((((.(.....).)))))....((((((............))))))..-.....................))............ ( -16.50)
>DroSim_CAF1 461 91 - 1
CUUGGCAGGAAAAUGUAUAAAUUUCCACCGCCGCCCGCUCAUUAAAAAGGGUGGAA-AAUGUAAUAAAAGAUGAAGAAGCAAACAAAAAGAG
....((.(((((.(.....).)))))....((((((............))))))..-.....................))............ ( -16.50)
>DroYak_CAF1 28587 92 - 1
CUUGGCAGGAAAAUGUAUAAAUUUCCACCGCCGACCGCUCAUUAAAAAGGGUGGAAAAAUGUAAUAAAAGAUGAAGAAGCAAACAAAAAGAG
.(((((.(((((.(.....).)))))...)))))((((((........))))))...................................... ( -16.70)
>consensus
CUUGGCAGGAAAAUGUAUAAAUUUCCACCGCCGCCCGCUCAUUAAAAAGGGUGGAA_AAUGUAAUAAAAGAUGAAGAAGCAAACAAAAAGAG
((((((.(((((.(.....).)))))...)))..((((((........))))))...................)))................ (-15.57 = -15.57 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:42:09 2006