Locus 6063

Sequence ID 2L_DroMel_CAF1
Location 17,051,062 – 17,051,220
Length 158
Max. P 0.818121
window9636 window9637 window9638

overview

Window 6

Location 17,051,062 – 17,051,180
Length 118
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 84.53
Mean single sequence MFE -25.54
Consensus MFE -17.52
Energy contribution -16.60
Covariance contribution -0.92
Combinations/Pair 1.26
Mean z-score -2.15
Structure conservation index 0.69
SVM decision value 0.67
SVM RNA-class probability 0.818121
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17051062 118 - 22407834
ACUUCAAUUACAACGCCUUCAGAAAGUAUGUCAACUAUCUUUUGAAGGAAAUGCUCGUAAGAGGAUGCAAGUACAGUGAAAGCUCACAAAUAAAUUAAUGU-AUAUUUUUUUCAGAG-UU
..((((..(((....(((((((((..((.(....)))..)))))))))..((.(((....))).))....)))...))))(((((..(((.((((......-..)))).)))..)))-)) ( -23.50)
>DroSec_CAF1 14976 117 - 1
ACUUCAAUUACAACGCCUUCAGAAAGUAUGUCAACUAUCUUUUGAAGGAAAUGCUCGUAAGAAGAUGCAAGUACAGUGAAAACUCACAAAUAAAUACAUUU-UUAUUUGUUAGAAAA-A-
..((((..(((....(((((((((..((.(....)))..)))))))))...(((((.......)).))).)))...))))..((.(((((((((......)-)))))))).))....-.- ( -25.70)
>DroSim_CAF1 9260 117 - 1
ACUUCAAUUACAACGCCUUCAGAAAGUAUGUCAACUAUCUUUUGAAGGAAAUGCUCGUAAGAAGAUGCAACUACAGUGAAAACUCACAAAUAAAUGAAUGU-UUAUUUGUUAGAAAA-A-
.......((((....(((((((((..((.(....)))..)))))))))...(((((.......)).)))......))))...((.((((((((((....))-)))))))).))....-.- ( -24.90)
>DroEre_CAF1 14848 117 - 1
ACUUCAAUUACAACGCCUUCGGAGAGUAUGUCAACUAUCUUUUGAAGGAAAUGCUCGUAACAGGAUGCCAGUGCAGUGAAAUCUCGCUAUAA-AGUAUUUUUGCAUUC-UUGCAGAAAA-
..(((.....((...((((((((..(((.(....))))..))))))))...))...(((..(((((((.((((((((((....)))))....-.)))))...))))))-)))).)))..- ( -24.80)
>DroYak_CAF1 12902 116 - 1
ACUUCAAUUACAACGCCUUCACAAAGUAUGUCAACUAUCUUGUGAAGGAAAUGCUCGUAACAGGAUGCAAGCACAGUGAACACUCACGAAAG-AUUAUUGUUACAUUU-UUGAAGAA-A-
.((((((...((...(((((((((..((.(....)))..)))))))))...))...(((((((..((....))..((((....)))).....-....)))))))....-))))))..-.- ( -28.80)
>consensus
ACUUCAAUUACAACGCCUUCAGAAAGUAUGUCAACUAUCUUUUGAAGGAAAUGCUCGUAAGAGGAUGCAAGUACAGUGAAAACUCACAAAUAAAUUAAUGU_AUAUUU_UUACAGAA_A_
...............(((((((((..((.(....)))..)))))))))...((((.(((......))).))))..((((....))))................................. (-17.52 = -16.60 +  -0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 17,051,100 – 17,051,220
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.33
Mean single sequence MFE -26.56
Consensus MFE -22.66
Energy contribution -23.06
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.41
Structure conservation index 0.85
SVM decision value 0.22
SVM RNA-class probability 0.638980
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17051100 120 + 22407834
UUCACUGUACUUGCAUCCUCUUACGAGCAUUUCCUUCAAAAGAUAGUUGACAUACUUUCUGAAGGCGUUGUAAUUGAAGUGUUGCUUAAACAAAAGCUAAAACUUAAAUUGCUGCGAAAU
...........(((.((.......)))))...((((((...((.(((......))).))))))))(((.((((((.((((...((((......))))....)))).)))))).))).... ( -24.60)
>DroSec_CAF1 15013 120 + 1
UUCACUGUACUUGCAUCUUCUUACGAGCAUUUCCUUCAAAAGAUAGUUGACAUACUUUCUGAAGGCGUUGUAAUUGAAGUGUUGCUUAAACAAAAGCUAAAACUUAAAUUGCUGCGAAAU
...........(((.((.......)))))...((((((...((.(((......))).))))))))(((.((((((.((((...((((......))))....)))).)))))).))).... ( -25.10)
>DroSim_CAF1 9297 120 + 1
UUCACUGUAGUUGCAUCUUCUUACGAGCAUUUCCUUCAAAAGAUAGUUGACAUACUUUCUGAAGGCGUUGUAAUUGAAGUGUUGCUUAAACAAAAGCUAAAACUUAAAUUGCUGCGAAAU
...........(((.((.......)))))...((((((...((.(((......))).))))))))(((.((((((.((((...((((......))))....)))).)))))).))).... ( -25.10)
>DroEre_CAF1 14885 120 + 1
UUCACUGCACUGGCAUCCUGUUACGAGCAUUUCCUUCAAAAGAUAGUUGACAUACUCUCCGAAGGCGUUGUAAUUGAAGUGUUGCUUAAACAAAAGCUAAAACUUAAAUUGCUGCGAAAU
.....(((.(((((.....)))).).)))...(((((....((.(((......))).)).)))))(((.((((((.((((...((((......))))....)))).)))))).))).... ( -25.00)
>DroYak_CAF1 12938 120 + 1
UUCACUGUGCUUGCAUCCUGUUACGAGCAUUUCCUUCACAAGAUAGUUGACAUACUUUGUGAAGGCGUUGUAAUUGAAGUGUUGCUUAAACAAAAGCUAAAACUUAAAUUGCUGCGAAAU
......(((((((..........)))))))..(((((((((...(((......))))))))))))(((.((((((.((((...((((......))))....)))).)))))).))).... ( -33.00)
>consensus
UUCACUGUACUUGCAUCCUCUUACGAGCAUUUCCUUCAAAAGAUAGUUGACAUACUUUCUGAAGGCGUUGUAAUUGAAGUGUUGCUUAAACAAAAGCUAAAACUUAAAUUGCUGCGAAAU
............((.((.......))))....((((((...((.(((......))).))))))))(((.((((((.((((...((((......))))....)))).)))))).))).... (-22.66 = -23.06 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 17,051,100 – 17,051,220
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.33
Mean single sequence MFE -25.64
Consensus MFE -24.62
Energy contribution -23.98
Covariance contribution -0.64
Combinations/Pair 1.08
Mean z-score -1.17
Structure conservation index 0.96
SVM decision value 0.42
SVM RNA-class probability 0.730067
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17051100 120 - 22407834
AUUUCGCAGCAAUUUAAGUUUUAGCUUUUGUUUAAGCAACACUUCAAUUACAACGCCUUCAGAAAGUAUGUCAACUAUCUUUUGAAGGAAAUGCUCGUAAGAGGAUGCAAGUACAGUGAA
..(((((.(.((((.((((.((.((((......)))))).)))).)))).).((.(((((((((..((.(....)))..)))))))))..((.(((....))).))....))...))))) ( -27.00)
>DroSec_CAF1 15013 120 - 1
AUUUCGCAGCAAUUUAAGUUUUAGCUUUUGUUUAAGCAACACUUCAAUUACAACGCCUUCAGAAAGUAUGUCAACUAUCUUUUGAAGGAAAUGCUCGUAAGAAGAUGCAAGUACAGUGAA
..(((((.(.((((.((((.((.((((......)))))).)))).)))).).((.(((((((((..((.(....)))..)))))))))...(((((.......)).))).))...))))) ( -24.40)
>DroSim_CAF1 9297 120 - 1
AUUUCGCAGCAAUUUAAGUUUUAGCUUUUGUUUAAGCAACACUUCAAUUACAACGCCUUCAGAAAGUAUGUCAACUAUCUUUUGAAGGAAAUGCUCGUAAGAAGAUGCAACUACAGUGAA
..(((((.((((((.((((.((.((((......)))))).)))).))))......(((((((((..((.(....)))..)))))))))....))((....)).............))))) ( -24.30)
>DroEre_CAF1 14885 120 - 1
AUUUCGCAGCAAUUUAAGUUUUAGCUUUUGUUUAAGCAACACUUCAAUUACAACGCCUUCGGAGAGUAUGUCAACUAUCUUUUGAAGGAAAUGCUCGUAACAGGAUGCCAGUGCAGUGAA
..(((((.((((((.((((.((.((((......)))))).)))).))))......((((((((..(((.(....))))..))))))))....(((.(((......))).))))).))))) ( -24.00)
>DroYak_CAF1 12938 120 - 1
AUUUCGCAGCAAUUUAAGUUUUAGCUUUUGUUUAAGCAACACUUCAAUUACAACGCCUUCACAAAGUAUGUCAACUAUCUUGUGAAGGAAAUGCUCGUAACAGGAUGCAAGCACAGUGAA
..(((((.(.((((.((((.((.((((......)))))).)))).)))).)....(((((((((..((.(....)))..)))))))))...((((.(((......))).))))..))))) ( -28.50)
>consensus
AUUUCGCAGCAAUUUAAGUUUUAGCUUUUGUUUAAGCAACACUUCAAUUACAACGCCUUCAGAAAGUAUGUCAACUAUCUUUUGAAGGAAAUGCUCGUAAGAGGAUGCAAGUACAGUGAA
..((((((((((((.((((.((.((((......)))))).)))).))))......(((((((((..((.(....)))..)))))))))....))).(((......))).......))))) (-24.62 = -23.98 +  -0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:00:16 2006