Locus 233

Sequence ID 3L_DroMel_CAF1
Location 639,489 – 639,609
Length 120
Max. P 0.629832
window346

overview

Window 6

Location 639,489 – 639,609
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 82.06
Mean single sequence MFE -38.87
Consensus MFE -28.49
Energy contribution -28.85
Covariance contribution 0.36
Combinations/Pair 1.19
Mean z-score -1.52
Structure conservation index 0.73
SVM decision value 0.20
SVM RNA-class probability 0.629832
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 639489 120 - 23771897
UAUGCUGCUGCCCACACCGGGCAGUAAAUCCAAAGACAUCGGCGCCAUAUAGGCCAAAAUAUCAUUGCUCGAAUCCAACAAGAACUGGCCAUUCGGCUUGGCCUCCUUGGUGGCCAUACG
.....((((((((.....))))))))..............(((((((...(((((((.........((.((((((((........)))..))))))))))))))...)))).)))..... ( -42.00)
>DroSec_CAF1 6776 120 - 1
CAUGCUGCUGCCGACUCCGGGCAGUAAAUCCAAAGACAUCGGCGCCAUAUAGGCCAAAAUAUCAUUUUUCGAAUCCAACAAUAACUGGCCGUUCGGCUUGGCCUCCUUGGUGGCCAUACG
.....(((((((.......)))))))..............(((((((...(((((((.....................((.....))(((....))))))))))...)))).)))..... ( -36.00)
>DroEre_CAF1 9643 120 - 1
CAUGCUGCUGCCCACUCCUGGCAGUAAUUCCAAAGGCAUCGGCGCCAUAUAGGCCAAAAUAUCCUUUUUCGAAUCCAACAAGAACUGGCCGUUCGGCUUGGCCUCCUUGGUGGCCAUACG
.(((((((((((.......)))))).........))))).(((((((...(((((((..........(((...........)))...(((....))))))))))...)))).)))..... ( -36.90)
>DroWil_CAF1 7071 120 - 1
UAUGCUGCUGCCAACGCCUGGCAAGGAUUCUAAGGCUGUUGGAGCCAUAUAGGACAGGAUAUCACCGUCGGGAUUCAGUAAAAACUGGCCAUUUGGCUUGGCUUCUUUGGUGGCCAUACG
...((..(((((((.(((((((..(((((((..((((.....))))......(((.((......))))))))))))(((....))).))))...))))))))......))..))...... ( -38.70)
>DroYak_CAF1 7000 120 - 1
CAUGCUGCUGCCCACUCCCGGCAGUAGUUCCAAAGACAUCGGCGCCAUAUACGCCAAUAUGUCCUUUUUCGCAUCCAACAAGAACUGGCCGUUCGGCUUGGCCUCCUUGGUGGCCAUACG
...(((((((((.......)))))))))......(((((.((((.......))))...))))).......................((((....))))(((((.(....).))))).... ( -38.50)
>DroAna_CAF1 6482 120 - 1
CAUGCUGCUGCCCACACCAGGCAGAGACUCCAAGGGAGUGGGUGCCAUAUAGGCCAGCAAGUCUUGGUCGUGAUCCAACAAGUACUGGCCAUUCGGUUUGGCCUCUUUUGUGGCCAUGCG
.(((..((.((((((.((.((.((...))))...)).)))))))))))...((((((.(..(.((((.......)))).)..).)))))).....((.(((((.(....).))))).)). ( -41.10)
>consensus
CAUGCUGCUGCCCACUCCGGGCAGUAAUUCCAAAGACAUCGGCGCCAUAUAGGCCAAAAUAUCAUUGUUCGAAUCCAACAAGAACUGGCCAUUCGGCUUGGCCUCCUUGGUGGCCAUACG
.....(((((((.......)))))))..............(((((((...(((((((..................((........))(((....))))))))))...)))).)))..... (-28.49 = -28.85 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:36:59 2006