Locus 8207

Sequence ID 3R_DroMel_CAF1
Location 22,033,873 – 22,034,007
Length 134
Max. P 0.999879
window13206 window13207

overview

Window 6

Location 22,033,873 – 22,033,971
Length 98
Sequences 5
Columns 98
Reading direction forward
Mean pairwise identity 93.67
Mean single sequence MFE -20.46
Consensus MFE -19.30
Energy contribution -18.98
Covariance contribution -0.32
Combinations/Pair 1.16
Mean z-score -2.11
Structure conservation index 0.94
SVM decision value 3.63
SVM RNA-class probability 0.999464
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22033873 98 + 27905053
AAUACUCUUAUAAAUCACUAGACAGCGUAUACGUAUGAAUAUUUAUCAAUUUGCUAAUGAAGGCUUUUAUAAAAUUGGUAUGUGUACGUAUGAACUGU
........................((((((((((((.(((.(((((.((...(((......))).)).)))))))).))))))))))))......... ( -20.50)
>DroSec_CAF1 32179 98 + 1
AAUACUCUAAUAAAUCAAUACAUAUCGUAUACGUAUGAAUAUUUAUCAAUUCGCUAAUGAAGGCUUUUAUAAAAUUGGUAUGUGUACGUAUGAUCUGU
....................((((.(((((((((((.(((.(((((.((...(((......))).)).)))))))).)))))))))))))))...... ( -21.30)
>DroSim_CAF1 24393 98 + 1
AAUACUCUAAUAAAUCACUAGAUAUCGUAUACGUAUGAAUAUUUAUCAAUUCGCUAAUGAAGGCUUUUAUAAAAUUGGUAUGUGUACGUAUGAACUGU
.((((((((.........))))....((((((((((.(((.(((((.((...(((......))).)).)))))))).))))))))))))))....... ( -18.50)
>DroEre_CAF1 26123 98 + 1
AAUACUCUAAUAAAUCACUAGAUAGCGUAUACAUAUGAAUAUUUAUCAAUUUGCUAAUUAGGGCUUUUAUAAAAUUGGUAUGUAUACGUAUGAACUGU
.....((((.........))))..((((((((((((.(((.(((((.((...(((......))).)).)))))))).))))))))))))......... ( -21.10)
>DroYak_CAF1 33720 98 + 1
AAUACUCUAAUAAAUCACUAGAUAGCGUAUACAUAUGAAUAUUUAUCAAUUUGCUAAUUAGGGCUUUUAUGAAAUUGAUAUGUGUACGUAUGAACUGU
.....((((.........))))..((((((((((((.(((.(((((.((...(((......))).)).)))))))).))))))))))))......... ( -20.90)
>consensus
AAUACUCUAAUAAAUCACUAGAUAGCGUAUACGUAUGAAUAUUUAUCAAUUUGCUAAUGAAGGCUUUUAUAAAAUUGGUAUGUGUACGUAUGAACUGU
........................((((((((((((.(((.(((((.((...(((......))).)).)))))))).))))))))))))......... (-19.30 = -18.98 +  -0.32)

alignment

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secondary structure

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dotplot

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Window 7

Location 22,033,896 – 22,034,007
Length 111
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 94.41
Mean single sequence MFE -25.96
Consensus MFE -24.94
Energy contribution -24.42
Covariance contribution -0.52
Combinations/Pair 1.11
Mean z-score -2.32
Structure conservation index 0.96
SVM decision value 4.35
SVM RNA-class probability 0.999879
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22033896 111 + 27905053
AGCGUAUACGUAUGAAUAUUUAUCAAUUUGCUAAUGAAGGCUUUUAUAAAAUUGGUAUGUGUACGUAUGAACUGUGCAAUCAGGCUAAGUUGGUCUUCACUAUAAUUAUAA
.((((((((((((.(((.(((((.((...(((......))).)).)))))))).))))))))))))((.((((..((......))..)))).))................. ( -24.80)
>DroSec_CAF1 32202 111 + 1
AUCGUAUACGUAUGAAUAUUUAUCAAUUCGCUAAUGAAGGCUUUUAUAAAAUUGGUAUGUGUACGUAUGAUCUGUGCAAUCAGCCUAAGUUGGUCUUCACUAUAAUUAUAA
..(((((((((((.(((.(((((.((...(((......))).)).)))))))).)))))))))))((((((..(((..((((((....))))))...)))....)))))). ( -25.60)
>DroSim_CAF1 24416 111 + 1
AUCGUAUACGUAUGAAUAUUUAUCAAUUCGCUAAUGAAGGCUUUUAUAAAAUUGGUAUGUGUACGUAUGAACUGUGCAAUCAGCCUAAGUUGGUCUUCACUAUAAUUAUAA
..(((((((((((.(((.(((((.((...(((......))).)).)))))))).)))))))))))(((((...(((..((((((....))))))...))).....))))). ( -24.20)
>DroEre_CAF1 26146 111 + 1
AGCGUAUACAUAUGAAUAUUUAUCAAUUUGCUAAUUAGGGCUUUUAUAAAAUUGGUAUGUAUACGUAUGAACUGUGCAAUCAGCUUAAGUUGGUCUACACUAUAAUUAUAA
.((((((((((((.(((.(((((.((...(((......))).)).)))))))).)))))))))))).......(((..((((((....))))))...)))........... ( -27.70)
>DroYak_CAF1 33743 111 + 1
AGCGUAUACAUAUGAAUAUUUAUCAAUUUGCUAAUUAGGGCUUUUAUGAAAUUGAUAUGUGUACGUAUGAACUGUGCAAUCAGCUUAAGUUGGUCUACACUAUAAUUAUAA
.((((((((((((.(((.(((((.((...(((......))).)).)))))))).)))))))))))).......(((..((((((....))))))...)))........... ( -27.50)
>consensus
AGCGUAUACGUAUGAAUAUUUAUCAAUUUGCUAAUGAAGGCUUUUAUAAAAUUGGUAUGUGUACGUAUGAACUGUGCAAUCAGCCUAAGUUGGUCUUCACUAUAAUUAUAA
..(((((((((((.(((.(((((.((...(((......))).)).)))))))).)))))))))))(((((...(((..((((((....))))))...))).....))))). (-24.94 = -24.42 +  -0.52)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:05:18 2006