Locus 7223

Sequence ID 3L_DroMel_CAF1
Location 19,362,893 – 19,363,009
Length 116
Max. P 0.894380
window11744 window11745

overview

Window 4

Location 19,362,893 – 19,363,009
Length 116
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 86.80
Mean single sequence MFE -36.23
Consensus MFE -27.82
Energy contribution -27.71
Covariance contribution -0.11
Combinations/Pair 1.08
Mean z-score -2.76
Structure conservation index 0.77
SVM decision value 0.98
SVM RNA-class probability 0.894380
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19362893 116 + 23771897
GGAAUACACUGC--ACUACACGCAGCCG--AAGCCAGGAAAAGCAAGGCUGCGUAGUUGUAGUUGUAGUUGCUUUCAUUGUCUUGGAGGAAAACUAGGGUGUAUACAUCCAUUUUAAAAC
((((((((((..--(((((((((((((.--..((........))..))))))))....)))))..(((((.((((((......))))))..))))).)))))))...))).......... ( -38.10)
>DroSim_CAF1 13294 118 + 1
GGAAUACACUGCACACUACACGCAGCCC--GAGCCAGGAAAAGCGUGGCUGUGUAGUUGUAGUUGUAGUGGCUUUCAUUGUCUUGGAGGAAAACUAGGGUAUAUACAUCCAUUUUAAAAC
(((...(((((((.(((((((((((((.--..((........))..))))))))....)))))))))))).((((((......))))))..................))).......... ( -37.20)
>DroYak_CAF1 16927 109 + 1
GGAAUACACUGC--ACUACACGCAGCCAAGAAUACAGG---AGCAAGGCUGCGUAGUU------GUAGUGGCUUUCAUUGUCUUGGAGGAAAACUAGGAUAUAUACAUCCAUUUUAAAAC
(((...((((((--(((..((((((((...........---.....)))))))))).)------))))))........((((((((.......))))))))......))).......... ( -33.39)
>consensus
GGAAUACACUGC__ACUACACGCAGCCA__AAGCCAGGAAAAGCAAGGCUGCGUAGUUGUAGUUGUAGUGGCUUUCAUUGUCUUGGAGGAAAACUAGGGUAUAUACAUCCAUUUUAAAAC
......((((((.....((((((((((...................)))))))).)).......)))))).((((((......)))))).......((((......)))).......... (-27.82 = -27.71 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 19,362,893 – 19,363,009
Length 116
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 86.80
Mean single sequence MFE -30.30
Consensus MFE -22.82
Energy contribution -23.60
Covariance contribution 0.78
Combinations/Pair 1.03
Mean z-score -2.00
Structure conservation index 0.75
SVM decision value 0.11
SVM RNA-class probability 0.589532
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19362893 116 - 23771897
GUUUUAAAAUGGAUGUAUACACCCUAGUUUUCCUCCAAGACAAUGAAAGCAACUACAACUACAACUACGCAGCCUUGCUUUUCCUGGCUU--CGGCUGCGUGUAGU--GCAGUGUAUUCC
..........(((.((((((......((((((............)))))).......(((((....((((((((..(((......)))..--.)))))))))))))--...))))))))) ( -32.80)
>DroSim_CAF1 13294 118 - 1
GUUUUAAAAUGGAUGUAUAUACCCUAGUUUUCCUCCAAGACAAUGAAAGCCACUACAACUACAACUACACAGCCACGCUUUUCCUGGCUC--GGGCUGCGUGUAGUGUGCAGUGUAUUCC
..........(((.((((((......(((((.....))))).......((((((((..........((.(((((..(((......)))..--.))))).)))))))).)).))))))))) ( -28.80)
>DroYak_CAF1 16927 109 - 1
GUUUUAAAAUGGAUGUAUAUAUCCUAGUUUUCCUCCAAGACAAUGAAAGCCACUAC------AACUACGCAGCCUUGCU---CCUGUAUUCUUGGCUGCGUGUAGU--GCAGUGUAUUCC
..........(((.((((((......((((((............))))))((((((------....((((((((.(((.---...))).....)))))))))))))--)..))))))))) ( -29.30)
>consensus
GUUUUAAAAUGGAUGUAUAUACCCUAGUUUUCCUCCAAGACAAUGAAAGCCACUACAACUACAACUACGCAGCCUUGCUUUUCCUGGCUU__CGGCUGCGUGUAGU__GCAGUGUAUUCC
..........(((.((((((......((((((............)))))).(((((..........((((((((..(((......))).....))))))))))))).....))))))))) (-22.82 = -23.60 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:41:29 2006