Locus 4527

Sequence ID 3R_DroMel_CAF1
Location 12,019,382 – 12,019,474
Length 92
Max. P 0.793478
window7389 window7390

overview

Window 9

Location 12,019,382 – 12,019,474
Length 92
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.25
Mean single sequence MFE -25.43
Consensus MFE -19.47
Energy contribution -20.25
Covariance contribution 0.78
Combinations/Pair 1.15
Mean z-score -1.71
Structure conservation index 0.77
SVM decision value 0.59
SVM RNA-class probability 0.793478
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12019382 92 + 27905053
-GGCAGCAACCACUUGAUAUAAUGAUGACAGCAAUUAUGAAUGAGUGAAGGUCGUUGGCUAACGACCGGCAG---GCAAUUCAUCAUCAUGUCGAA------------------------
-((......))..(((((((.(((((((((.......))..((..((..(((((((....)))))))..)).---.))..))))))).))))))).------------------------ ( -27.00)
>DroGri_CAF1 141391 93 + 1
GCCUGGGACCCACUUGAUAUAAUGAUGACAGCAAUUAUGAAUGAGUGAAGGUCGCAGGAUAACGGCAGUCAG---GCAAUUCAUCAUCAUGUUGAG------------------------
(((((((((((((((..((((((..........))))))...)))))..))))((.(.....).))..))))---))......(((......))).------------------------ ( -23.70)
>DroSec_CAF1 124258 92 + 1
-GACAGCAACCACUUGAUAUAAUGAUGACAGCAAUUAUGAAUGAGUGAAGGUCGUUGGCUAACGACCGGCAG---GCAAUUCAUCAUCAUGUCGAA------------------------
-............(((((((.(((((((((.......))..((..((..(((((((....)))))))..)).---.))..))))))).))))))).------------------------ ( -26.30)
>DroEre_CAF1 124080 92 + 1
-GGCGGCAACCACUUGAUAUAAUGAUGACAGCAAUUAUGAAUGAGUGAAGGUCGUUGGCUAACGACCGGCAG---GCAAUUCAUCAUCAUGUCGAA------------------------
-((......))..(((((((.(((((((((.......))..((..((..(((((((....)))))))..)).---.))..))))))).))))))).------------------------ ( -27.00)
>DroWil_CAF1 140361 119 + 1
-GGUAACGACCACUUGAUCUAAUGAUGACAGCAAUUAUGAAUGAAUGAAGGUCGCUGCAUAACAACAGGCAAAGCGCAAUUCAUCAUCAUGACGGAGUGUAAUAUUCAACCACUUUAUUU
-(((......(((((..((..(((((((((.......))..(((((....(.((((((..........))..))))).))))))))))))))..))))).........)))......... ( -20.36)
>DroYak_CAF1 127304 92 + 1
-GGUUAAAACCACUUGAUAUAAUGAUGACAGCAAUUAUGAAUGAGUGAAGGUCGUUGGCUAACGACCGGCAG---GCAAUUCAUCAUCAUGUCGAA------------------------
-(((....)))..(((((((.(((((((((.......))..((..((..(((((((....)))))))..)).---.))..))))))).))))))).------------------------ ( -28.20)
>consensus
_GGCAGCAACCACUUGAUAUAAUGAUGACAGCAAUUAUGAAUGAGUGAAGGUCGUUGGCUAACGACCGGCAG___GCAAUUCAUCAUCAUGUCGAA________________________
.............(((((((.(((((((..((..((((......)))).(((((((....)))))))........))...))))))).)))))))......................... (-19.47 = -20.25 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 12,019,382 – 12,019,474
Length 92
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.25
Mean single sequence MFE -21.74
Consensus MFE -16.54
Energy contribution -17.35
Covariance contribution 0.81
Combinations/Pair 1.09
Mean z-score -1.12
Structure conservation index 0.76
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12019382 92 - 27905053
------------------------UUCGACAUGAUGAUGAAUUGC---CUGCCGGUCGUUAGCCAACGACCUUCACUCAUUCAUAAUUGCUGUCAUCAUUAUAUCAAGUGGUUGCUGCC-
------------------------...((.((((((((((...((---.((..(((((((....)))))))..)).............))..)))))))))).))....(((....)))- ( -22.94)
>DroGri_CAF1 141391 93 - 1
------------------------CUCAACAUGAUGAUGAAUUGC---CUGACUGCCGUUAUCCUGCGACCUUCACUCAUUCAUAAUUGCUGUCAUCAUUAUAUCAAGUGGGUCCCAGGC
------------------------........(((((((....((---......)))))))))(((.((((..((((.....(((((..........)))))....)))))))).))).. ( -15.10)
>DroSec_CAF1 124258 92 - 1
------------------------UUCGACAUGAUGAUGAAUUGC---CUGCCGGUCGUUAGCCAACGACCUUCACUCAUUCAUAAUUGCUGUCAUCAUUAUAUCAAGUGGUUGCUGUC-
------------------------...((.((((((((((...((---.((..(((((((....)))))))..)).............))..)))))))))).)).(((....)))...- ( -22.14)
>DroEre_CAF1 124080 92 - 1
------------------------UUCGACAUGAUGAUGAAUUGC---CUGCCGGUCGUUAGCCAACGACCUUCACUCAUUCAUAAUUGCUGUCAUCAUUAUAUCAAGUGGUUGCCGCC-
------------------------...((.((((((((((...((---.((..(((((((....)))))))..)).............))..)))))))))).))..((((...)))).- ( -24.44)
>DroWil_CAF1 140361 119 - 1
AAAUAAAGUGGUUGAAUAUUACACUCCGUCAUGAUGAUGAAUUGCGCUUUGCCUGUUGUUAUGCAGCGACCUUCAUUCAUUCAUAAUUGCUGUCAUCAUUAGAUCAAGUGGUCGUUACC-
.........((((((......((((..(((.(((((((((...((((...)).(((((.....)))))....................))..))))))))))))..)))).)))..)))- ( -23.70)
>DroYak_CAF1 127304 92 - 1
------------------------UUCGACAUGAUGAUGAAUUGC---CUGCCGGUCGUUAGCCAACGACCUUCACUCAUUCAUAAUUGCUGUCAUCAUUAUAUCAAGUGGUUUUAACC-
------------------------...((.((((((((((...((---.((..(((((((....)))))))..)).............))..)))))))))).))....(((....)))- ( -22.14)
>consensus
________________________UUCGACAUGAUGAUGAAUUGC___CUGCCGGUCGUUAGCCAACGACCUUCACUCAUUCAUAAUUGCUGUCAUCAUUAUAUCAAGUGGUUGCUACC_
...........................((.((((((((((...((....((..(((((((....)))))))..)).............))..)))))))))).))............... (-16.54 = -17.35 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:27 2006