Locus 9659

Sequence ID 3R_DroMel_CAF1
Location 25,547,174 – 25,547,269
Length 95
Max. P 0.978838
window15437 window15438

overview

Window 7

Location 25,547,174 – 25,547,269
Length 95
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 73.80
Mean single sequence MFE -21.31
Consensus MFE -10.10
Energy contribution -10.98
Covariance contribution 0.87
Combinations/Pair 1.29
Mean z-score -2.26
Structure conservation index 0.47
SVM decision value 0.67
SVM RNA-class probability 0.816327
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25547174 95 + 27905053
AAGUUGCUAACACUGAUAAACUUAGCGAAAUAUUUCGCAAGAUUAAAUUACUGCUAGCUAUAAUAAGACAAUGAUUAAUUUAAUAAUAGGUAUCA-------------------------
..............(((..((((((((((....)))))...(((((((((.......((......))........)))))))))..)))))))).------------------------- ( -12.46)
>DroSec_CAF1 30776 95 + 1
AAGUUGCUAGCACUGAUAAACUUAGCGAAAUAUUUCGCAAGAUUAAGUUACUGCUAGCUUUAAUAAACCAAUGAUUAACUUAAUAAUAGGUAACA-------------------------
..((((((((((.((((((.(((.(((((....)))))))).))..)))).)))))))...................(((((....)))))))).------------------------- ( -20.90)
>DroSim_CAF1 31042 95 + 1
AAGUUGCUAGCACUGAUAAACUUUGCGAAAUAUUUCGCAAGAUUAAGUUACUGCUAGCUUUAAUAAACCAAUGAUUAACUUAAUAAUAGGUAACA-------------------------
..((((((((((.((((....((((((((....)))))))).....)))).)))))))...................(((((....)))))))).------------------------- ( -22.90)
>DroEre_CAF1 31540 120 + 1
AAUUUAUUCAUUUUGCGAGGCUUAACGAAAUAUUUCCCAAGUUUGAAUUACUGUUGGCUAUAAGCAGCCAAUGAUUAACUUUAUAAUCGGUAAUAAGCUGGGCUUUUAUAAGUCUGUACU
.............(((.(((((((...(((.....((((.((((..(((((((((((((......)))))))(((((......)))))))))))))))))))..))).)))))))))).. ( -29.00)
>consensus
AAGUUGCUAACACUGAUAAACUUAGCGAAAUAUUUCGCAAGAUUAAAUUACUGCUAGCUAUAAUAAACCAAUGAUUAACUUAAUAAUAGGUAACA_________________________
.....(((((((.((((((.(((.(((((....)))))))).))..)))).))))))).............................................................. (-10.10 = -10.98 +   0.87)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 25,547,174 – 25,547,269
Length 95
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 73.80
Mean single sequence MFE -20.67
Consensus MFE -12.80
Energy contribution -12.55
Covariance contribution -0.25
Combinations/Pair 1.32
Mean z-score -2.10
Structure conservation index 0.62
SVM decision value 1.82
SVM RNA-class probability 0.978838
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25547174 95 - 27905053
-------------------------UGAUACCUAUUAUUAAAUUAAUCAUUGUCUUAUUAUAGCUAGCAGUAAUUUAAUCUUGCGAAAUAUUUCGCUAAGUUUAUCAGUGUUAGCAACUU
-------------------------.((((...((((......))))...))))........(((((((.(....(((.((((((((....))))).))).)))..).)))))))..... ( -18.50)
>DroSec_CAF1 30776 95 - 1
-------------------------UGUUACCUAUUAUUAAGUUAAUCAUUGGUUUAUUAAAGCUAGCAGUAACUUAAUCUUGCGAAAUAUUUCGCUAAGUUUAUCAGUGCUAGCAACUU
-------------------------.((((((.((((......))))....)))........(((((((.(....(((.((((((((....))))).))).)))..).)))))))))).. ( -20.50)
>DroSim_CAF1 31042 95 - 1
-------------------------UGUUACCUAUUAUUAAGUUAAUCAUUGGUUUAUUAAAGCUAGCAGUAACUUAAUCUUGCGAAAUAUUUCGCAAAGUUUAUCAGUGCUAGCAACUU
-------------------------.((((((.((((......))))....)))........(((((((.(.....((..(((((((....)))))))..))....).)))))))))).. ( -21.80)
>DroEre_CAF1 31540 120 - 1
AGUACAGACUUAUAAAAGCCCAGCUUAUUACCGAUUAUAAAGUUAAUCAUUGGCUGCUUAUAGCCAACAGUAAUUCAAACUUGGGAAAUAUUUCGUUAAGCCUCGCAAAAUGAAUAAAUU
..................(((((...(((((.(((((......))))).(((((((....)))))))..)))))......)))))......((((((..((...))..))))))...... ( -21.90)
>consensus
_________________________UGUUACCUAUUAUUAAGUUAAUCAUUGGCUUAUUAAAGCUAGCAGUAACUUAAUCUUGCGAAAUAUUUCGCUAAGUUUAUCAGUGCUAGCAACUU
.........................(((((.......((((((((....(((((((....)))))))...)))))))).((((((((....))))).)))...........))))).... (-12.80 = -12.55 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:39:18 2006