Locus 9597

Sequence ID 3R_DroMel_CAF1
Location 25,350,613 – 25,350,732
Length 119
Max. P 0.968303
window15343 window15344

overview

Window 3

Location 25,350,613 – 25,350,732
Length 119
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 97.36
Mean single sequence MFE -22.27
Consensus MFE -18.60
Energy contribution -18.60
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.09
Structure conservation index 0.84
SVM decision value 0.54
SVM RNA-class probability 0.775933
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25350613 119 + 27905053
AAGUCAUUCCUCUUAAUAGUCAUGCAAAUUAAUUUUUGCUCAUUUGUACAACAAUAAAAAUGUUAACUAAUUAAUUUUGAUUGAAAUUUGCAUGCAAAACGCGAAAAUCAAUUUGCACG
......................((((((((.((((((((...(((((((((((((.(((((............))))).))))....)))..))))))..)))))))).)))))))).. ( -20.80)
>DroVir_CAF1 39446 118 + 1
AAGUCAUUCCUUUUAAUAGUCAUGCAAAUUAAUU-UUGCUCAUUUGUACAACAAUAAAAAUGUUAACUAAUUAAUUUUGAUUGAAAUUUGCAUGCAAAGAGCGAAAAUCAAUUUGCACG
......................((((((((..((-((((((.(((((((((((((.(((((............))))).))))....)))..))))))))))))))...)))))))).. ( -22.60)
>DroGri_CAF1 36239 118 + 1
AAGUCAUUCCUUUUAAUAGUCAUGCAAAUUAAUU-UUGCUCAUUUGUACAACAAUAAAAAUGUUAACUAAUUAAUUUUGAUUGAAAUUUGCAUGCAAAGAGCGAAAAUCAAUUUGCAUG
....................((((((((((..((-((((((.(((((((((((((.(((((............))))).))))....)))..))))))))))))))...)))))))))) ( -25.60)
>DroEre_CAF1 36170 119 + 1
AAGUCAUUCCUCUUAAUAGUCAUGCAAAUUAAUUUUUGCUCAUUUGUACAACAAUAAAAAUGUUAACUAAUUAAUUUUGAUUGAAAUUUGCAUGCGAAACGCGAAAAUCAAUUUGCACG
......................((((((((.((((((((...(((((((((((((.(((((............))))).))))....)))..))))))..)))))))).)))))))).. ( -20.50)
>DroMoj_CAF1 38834 118 + 1
AAGUCAUUCCUUUUAAUAGUCAUGCAAAUUAAUU-UUGCUCAUUUGUACAACAAUAAAAAUGUUAACUAAUUAAUUUUGAUUGAAAUUUGCAUGCAAAGAGCGAAAAUCAAUUUGCACG
......................((((((((..((-((((((.(((((((((((((.(((((............))))).))))....)))..))))))))))))))...)))))))).. ( -22.60)
>DroAna_CAF1 41674 119 + 1
AAGUCAUUCCUUUUAAUAGUCAUGCAAAUUAAUUUUUGCUCAUUUGUACAACAAUAAAAAUGUUAACUAAUUAAUUUUGAUUGAAAUUUGCAUGCAAAAUGCGAAAAUCAAUUUGCACG
......................((((((((.((((((((...(((((((((((((.(((((............))))).))))....)))..))))))..)))))))).)))))))).. ( -21.50)
>consensus
AAGUCAUUCCUUUUAAUAGUCAUGCAAAUUAAUU_UUGCUCAUUUGUACAACAAUAAAAAUGUUAACUAAUUAAUUUUGAUUGAAAUUUGCAUGCAAAAAGCGAAAAUCAAUUUGCACG
..................(.((((((((((......(((......)))...((((.(((((............))))).)))).))))))))))).....(((((......)))))... (-18.60 = -18.60 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 25,350,613 – 25,350,732
Length 119
Sequences 6
Columns 119
Reading direction reverse
Mean pairwise identity 97.36
Mean single sequence MFE -26.78
Consensus MFE -22.23
Energy contribution -21.87
Covariance contribution -0.36
Combinations/Pair 1.06
Mean z-score -2.93
Structure conservation index 0.83
SVM decision value 1.62
SVM RNA-class probability 0.968303
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25350613 119 - 27905053
CGUGCAAAUUGAUUUUCGCGUUUUGCAUGCAAAUUUCAAUCAAAAUUAAUUAGUUAACAUUUUUAUUGUUGUACAAAUGAGCAAAAAUUAAUUUGCAUGACUAUUAAGAGGAAUGACUU
((((((((((((((((.((..((((..(((((....((((.(((((............))))).)))))))))))))...)).))))))))))))))))........(((......))) ( -25.30)
>DroVir_CAF1 39446 118 - 1
CGUGCAAAUUGAUUUUCGCUCUUUGCAUGCAAAUUUCAAUCAAAAUUAAUUAGUUAACAUUUUUAUUGUUGUACAAAUGAGCAA-AAUUAAUUUGCAUGACUAUUAAAAGGAAUGACUU
((((((((((((((((.((((((((..(((((....((((.(((((............))))).))))))))))))).))))))-)))))))))))))).................... ( -28.50)
>DroGri_CAF1 36239 118 - 1
CAUGCAAAUUGAUUUUCGCUCUUUGCAUGCAAAUUUCAAUCAAAAUUAAUUAGUUAACAUUUUUAUUGUUGUACAAAUGAGCAA-AAUUAAUUUGCAUGACUAUUAAAAGGAAUGACUU
((((((((((((((((.((((((((..(((((....((((.(((((............))))).))))))))))))).))))))-)))))))))))))).................... ( -28.90)
>DroEre_CAF1 36170 119 - 1
CGUGCAAAUUGAUUUUCGCGUUUCGCAUGCAAAUUUCAAUCAAAAUUAAUUAGUUAACAUUUUUAUUGUUGUACAAAUGAGCAAAAAUUAAUUUGCAUGACUAUUAAGAGGAAUGACUU
((((((((((((((((.(((...))).(((.(((((......))))).....(((((((.......))))).))......)))))))))))))))))))........(((......))) ( -24.50)
>DroMoj_CAF1 38834 118 - 1
CGUGCAAAUUGAUUUUCGCUCUUUGCAUGCAAAUUUCAAUCAAAAUUAAUUAGUUAACAUUUUUAUUGUUGUACAAAUGAGCAA-AAUUAAUUUGCAUGACUAUUAAAAGGAAUGACUU
((((((((((((((((.((((((((..(((((....((((.(((((............))))).))))))))))))).))))))-)))))))))))))).................... ( -28.50)
>DroAna_CAF1 41674 119 - 1
CGUGCAAAUUGAUUUUCGCAUUUUGCAUGCAAAUUUCAAUCAAAAUUAAUUAGUUAACAUUUUUAUUGUUGUACAAAUGAGCAAAAAUUAAUUUGCAUGACUAUUAAAAGGAAUGACUU
((((((((((((((((.((..((((....))))...................(((((((.......))))).))......)).)))))))))))))))).................... ( -25.00)
>consensus
CGUGCAAAUUGAUUUUCGCUCUUUGCAUGCAAAUUUCAAUCAAAAUUAAUUAGUUAACAUUUUUAUUGUUGUACAAAUGAGCAA_AAUUAAUUUGCAUGACUAUUAAAAGGAAUGACUU
((((((((((((((...((.....)).(((.(((((......))))).....(((((((.......))))).))......)))..))))))))))))))........(((......))) (-22.23 = -21.87 +  -0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:37:57 2006