Locus 1367

Sequence ID 2L_DroMel_CAF1
Location 3,629,222 – 3,629,325
Length 103
Max. P 0.970845
window2234 window2235

overview

Window 4

Location 3,629,222 – 3,629,325
Length 103
Sequences 3
Columns 104
Reading direction forward
Mean pairwise identity 90.26
Mean single sequence MFE -38.10
Consensus MFE -32.92
Energy contribution -32.37
Covariance contribution -0.55
Combinations/Pair 1.12
Mean z-score -3.59
Structure conservation index 0.86
SVM decision value 1.67
SVM RNA-class probability 0.970845
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3629222 103 + 22407834
GAAAGAGAUUUUCUUGGCAUGAGCA-CACUGCACUUAGCCCUCAUAAAGGGCCGAAUUUUCCUCAAAAUAAGUGUGGAAAGUUACGGCCCGCGGCCAAGCUUGG
............(((((((((((..-..(((....)))..)))))...((((((((((((((.((.......)).)))))))).))))))...))))))..... ( -35.70)
>DroSec_CAF1 97042 101 + 1
GAAAGAGAUUUUCUUGGCAUGAGCUCCACUGCACUUAAUCCUCACAAAGGGCCGAGUUUUCCACAAAAUAAGUGUGGAAAGCUACGGCCCG---UCGAGCUUGG
............((((((....((......))................(((((((((((((((((.......))))))))))).)))))))---)))))..... ( -38.30)
>DroSim_CAF1 102320 100 + 1
GAAAGAGAUUUUCUUGGCUUGAGCA-CACUGCACUUAACCCUCAUGAAGGGCCGAGUUUUCCACAAAAUAAGUGUGGAAAGCUACGGCCCG---UCGAGCUUGG
............((.(((((((((.-....))................(((((((((((((((((.......))))))))))).)))))).---))))))).)) ( -40.30)
>consensus
GAAAGAGAUUUUCUUGGCAUGAGCA_CACUGCACUUAACCCUCAUAAAGGGCCGAGUUUUCCACAAAAUAAGUGUGGAAAGCUACGGCCCG___UCGAGCUUGG
............(((((.....((......))................(((((((((((((((((.......))))))))))).))))))....)))))..... (-32.92 = -32.37 +  -0.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 3,629,222 – 3,629,325
Length 103
Sequences 3
Columns 104
Reading direction reverse
Mean pairwise identity 90.26
Mean single sequence MFE -34.57
Consensus MFE -29.05
Energy contribution -28.83
Covariance contribution -0.22
Combinations/Pair 1.10
Mean z-score -2.78
Structure conservation index 0.84
SVM decision value 1.09
SVM RNA-class probability 0.912889
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3629222 103 - 22407834
CCAAGCUUGGCCGCGGGCCGUAACUUUCCACACUUAUUUUGAGGAAAAUUCGGCCCUUUAUGAGGGCUAAGUGCAGUG-UGCUCAUGCCAAGAAAAUCUCUUUC
.....((((((...((((((.((.(((((.((.......)).))))).))))))))...(((((.((..........)-).)))))))))))............ ( -34.90)
>DroSec_CAF1 97042 101 - 1
CCAAGCUCGA---CGGGCCGUAGCUUUCCACACUUAUUUUGUGGAAAACUCGGCCCUUUGUGAGGAUUAAGUGCAGUGGAGCUCAUGCCAAGAAAAUCUCUUUC
...(((((.(---(((((((.((.((((((((.......)))))))).))))))))..(((...........))))).)))))......((((.....)))).. ( -34.80)
>DroSim_CAF1 102320 100 - 1
CCAAGCUCGA---CGGGCCGUAGCUUUCCACACUUAUUUUGUGGAAAACUCGGCCCUUCAUGAGGGUUAAGUGCAGUG-UGCUCAAGCCAAGAAAAUCUCUUUC
.....(((((---.((((((.((.((((((((.......)))))))).)))))))).))..)))((((.((..(...)-..))..))))((((.....)))).. ( -34.00)
>consensus
CCAAGCUCGA___CGGGCCGUAGCUUUCCACACUUAUUUUGUGGAAAACUCGGCCCUUUAUGAGGGUUAAGUGCAGUG_UGCUCAUGCCAAGAAAAUCUCUUUC
.....((((.....((((((.((.((((((((.......)))))))).))))))))....))))(((...(.((......)).)..)))((((.....)))).. (-29.05 = -28.83 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:00:47 2006