Locus 8259

Sequence ID X_DroMel_CAF1
Location 20,527,484 – 20,527,579
Length 95
Max. P 0.897972
window13564 window13565

overview

Window 4

Location 20,527,484 – 20,527,579
Length 95
Sequences 4
Columns 103
Reading direction forward
Mean pairwise identity 88.20
Mean single sequence MFE -23.18
Consensus MFE -17.86
Energy contribution -17.05
Covariance contribution -0.81
Combinations/Pair 1.25
Mean z-score -1.89
Structure conservation index 0.77
SVM decision value 0.63
SVM RNA-class probability 0.804902
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20527484 95 + 22224390
UGAUAUGAGGCGGCUUUAAUUUAUGGCCGCGCUUAGCCGAACAAUAAAGU--------GAAUGGCUAAAAUGCUUCUCGGGAAGAAGAAGUAAUAAAAAAUGG
.........((((((.........))))))..(((((((.((......))--------...)))))))..((((((((.....).)))))))........... ( -25.60)
>DroSec_CAF1 95116 95 + 1
UGAUAUGAGGCGGCUUUAAUUUAUGGCCGCGCUUAGCCGAACAAUAAAGU--------GAAUGGCUAAAAUGCUUCUUGGGAAGAAGAAGUAAUAAAAAAUGG
.........((((((.........))))))..(((((((.((......))--------...)))))))..((((((((......))))))))........... ( -26.60)
>DroEre_CAF1 94091 102 + 1
UGAUAUGAGGCGGCUUAAAUUUAUGGCCACGCUUAGCCGAACAAUAAAGUUGGCUAAAGACUGGCUAAAAUGUUUCUUGUGAGGAAGAAGUAAUAAA-AAUGG
............((((.......((((((..(((((((.(((......))))))).)))..)))))).....(((((.....)))))))))......-..... ( -21.50)
>DroYak_CAF1 96788 93 + 1
UGAUAUGAGGCGGCCUUAAUUUAUGGCCACGCUUAGCCAAACAAUAAAGC--------GACUGGCUAGAAUGUUUCUUGGGAAGAA-AAGUAAUAAA-AGUGG
......(((((((((.........))))....(((((((..(........--------)..)))))))...)))))..........-..........-..... ( -19.00)
>consensus
UGAUAUGAGGCGGCUUUAAUUUAUGGCCACGCUUAGCCGAACAAUAAAGU________GAAUGGCUAAAAUGCUUCUUGGGAAGAAGAAGUAAUAAA_AAUGG
......(((((((((.........))))....(((((((......................)))))))...)))))........................... (-17.86 = -17.05 +  -0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 20,527,484 – 20,527,579
Length 95
Sequences 4
Columns 103
Reading direction reverse
Mean pairwise identity 88.20
Mean single sequence MFE -19.15
Consensus MFE -13.75
Energy contribution -14.31
Covariance contribution 0.56
Combinations/Pair 1.11
Mean z-score -2.56
Structure conservation index 0.72
SVM decision value 1.00
SVM RNA-class probability 0.897972
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20527484 95 - 22224390
CCAUUUUUUAUUACUUCUUCUUCCCGAGAAGCAUUUUAGCCAUUC--------ACUUUAUUGUUCGGCUAAGCGCGGCCAUAAAUUAAAGCCGCCUCAUAUCA
.............((((((......))))))...(((((((...(--------(......))...))))))).(((((...........)))))......... ( -19.80)
>DroSec_CAF1 95116 95 - 1
CCAUUUUUUAUUACUUCUUCUUCCCAAGAAGCAUUUUAGCCAUUC--------ACUUUAUUGUUCGGCUAAGCGCGGCCAUAAAUUAAAGCCGCCUCAUAUCA
.............((((((......))))))...(((((((...(--------(......))...))))))).(((((...........)))))......... ( -19.40)
>DroEre_CAF1 94091 102 - 1
CCAUU-UUUAUUACUUCUUCCUCACAAGAAACAUUUUAGCCAGUCUUUAGCCAACUUUAUUGUUCGGCUAAGCGUGGCCAUAAAUUUAAGCCGCCUCAUAUCA
.....-........(((((......)))))........((((((..(((((((((......))).)))))))).))))......................... ( -17.20)
>DroYak_CAF1 96788 93 - 1
CCACU-UUUAUUACUU-UUCUUCCCAAGAAACAUUCUAGCCAGUC--------GCUUUAUUGUUUGGCUAAGCGUGGCCAUAAAUUAAGGCCGCCUCAUAUCA
.....-.........(-((((.....))))).....(((((((..--------((......)))))))))((.((((((.........))))))))....... ( -20.20)
>consensus
CCAUU_UUUAUUACUUCUUCUUCCCAAGAAACAUUUUAGCCAGUC________ACUUUAUUGUUCGGCUAAGCGCGGCCAUAAAUUAAAGCCGCCUCAUAUCA
.............((((((......))))))...(((((((........................))))))).(((((...........)))))......... (-13.75 = -14.31 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:59:34 2006