Locus 1212

Sequence ID 3L_DroMel_CAF1
Location 3,461,168 – 3,461,293
Length 125
Max. P 0.836416
window1905 window1906

overview

Window 5

Location 3,461,168 – 3,461,262
Length 94
Sequences 3
Columns 94
Reading direction reverse
Mean pairwise identity 98.58
Mean single sequence MFE -24.50
Consensus MFE -22.22
Energy contribution -22.33
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -2.31
Structure conservation index 0.91
SVM decision value 0.73
SVM RNA-class probability 0.836416
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3461168 94 - 23771897
GGUGGAGAAAAGCCAAGUUAGGAGCGUGAGAUAACGCCUAAUGUGGUGGAAAUGGCGGUGCCAACAGUGGUGCAAAGGUCCUUGAUUAAGAAAA
(((.(((....((((.(((((..((((......))))))))).))))......(((.(..(((....)))..)....)))))).)))....... ( -23.90)
>DroSec_CAF1 8510 94 - 1
GGUGGGGAAAAGCCAAGUUAGGAGCGUGAGAUAACGCCUAAUGUGGUGGAAAUGGCGGUGCCAACAGUGGUGCAAAGGUCGUUGAUUAAGAAAA
...........((((.(((((..((((......))))))))).))))...((((((.(..(((....)))..)....))))))........... ( -24.60)
>DroSim_CAF1 8537 94 - 1
GGUGGGGAAAAGCCAAGUUAGGAGCGUGAGAUAACGCCUAAUGUGGUGGAAAUGGCGGUGCCAACAGUGGUGCAAAGGUCCUUGAUUAAGAAAA
...(((((...((((.((((....(....).))))(((......))).....)))).(..(((....)))..).....)))))........... ( -25.00)
>consensus
GGUGGGGAAAAGCCAAGUUAGGAGCGUGAGAUAACGCCUAAUGUGGUGGAAAUGGCGGUGCCAACAGUGGUGCAAAGGUCCUUGAUUAAGAAAA
(((.(((....((((.(((((..((((......))))))))).))))......(((.(..(((....)))..)....)))))).)))....... (-22.22 = -22.33 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 3,461,191 – 3,461,293
Length 102
Sequences 3
Columns 105
Reading direction forward
Mean pairwise identity 97.14
Mean single sequence MFE -18.10
Consensus MFE -17.80
Energy contribution -17.80
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.58
Structure conservation index 0.98
SVM decision value 0.31
SVM RNA-class probability 0.684432
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3461191 102 + 23771897
ACCACUGUUGGCACCGCCAUUUCCACCACAUUAGGCGUUAUCUCACGCUCCUAACUUGGCUUUUCUCCACCGACUUUCCCGCCCUCUU---GCGUAGUCACCCAA
........((((...))))......(((..(((((.((........)).)))))..)))............((((....(((......---))).))))...... ( -18.70)
>DroSec_CAF1 8533 105 + 1
ACCACUGUUGGCACCGCCAUUUCCACCACAUUAGGCGUUAUCUCACGCUCCUAACUUGGCUUUUCCCCACCGACUUUCCCGCCCUCUUACCGCGUAGUCACCCAA
........((((...))))......(((..(((((.((........)).)))))..)))............((((....(((.........))).))))...... ( -17.80)
>DroSim_CAF1 8560 105 + 1
ACCACUGUUGGCACCGCCAUUUCCACCACAUUAGGCGUUAUCUCACGCUCCUAACUUGGCUUUUCCCCACCGACUUUCCCGCCCUCUUCCCGCGUAGUCACCCAA
........((((...))))......(((..(((((.((........)).)))))..)))............((((....(((.........))).))))...... ( -17.80)
>consensus
ACCACUGUUGGCACCGCCAUUUCCACCACAUUAGGCGUUAUCUCACGCUCCUAACUUGGCUUUUCCCCACCGACUUUCCCGCCCUCUU_CCGCGUAGUCACCCAA
........((((...))))......(((..(((((.((........)).)))))..)))............((((....(((.........))).))))...... (-17.80 = -17.80 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:16 2006