Locus 3674

Sequence ID 3R_DroMel_CAF1
Location 9,961,132 – 9,961,236
Length 104
Max. P 0.889420
window5897

overview

Window 7

Location 9,961,132 – 9,961,236
Length 104
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 82.45
Mean single sequence MFE -24.95
Consensus MFE -18.47
Energy contribution -18.30
Covariance contribution -0.17
Combinations/Pair 1.04
Mean z-score -2.70
Structure conservation index 0.74
SVM decision value 0.96
SVM RNA-class probability 0.889420
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9961132 104 - 27905053
GAAUAAAAGUGCUCCGCUC--AAGUGGCGCACGCAAAAUAACUUAAAAGCCGCAAAGUGGCUGGCAAAAACUAUUUAAGUUUAUGCGAUAACAACAAUAAAGGGA--C
........((((.((((..--..)))).))))(((....((((((((((((((...))))))((......)).))))))))..)))...................--. ( -27.60)
>DroVir_CAF1 57601 99 - 1
GAGUAGG-------GACUUAAGAGUGCUGCACGCAAAAUAACUUAAAAGCCGCAAAGUGGCUGGUAAAAACUAUUUAAGUUUAUGCGAUAAGGACAAUAAAAGCA--C
((((...-------.))))....((.((...((((....((((((((((((((...))))))(((....))).))))))))..))))...)).))..........--. ( -22.90)
>DroPse_CAF1 42560 106 - 1
AAAUAAAAGUGCUUCACUC--AAGUGGUGCACGCAAAAUAACUUAAAAGCCGCAAAGUGGCUGGCAAAAACUAUUUAAGUUUAUGCGAUAACAACAGUUAAGAGGGCC
........((((.((((..--..)))).))))((....(((((....((((((...)))))).(((.(((((.....))))).))).........))))).....)). ( -28.20)
>DroGri_CAF1 50517 100 - 1
GUGUAAG------CGACUUAAGAGUGCUGAACGCAAAAUAACUUAAAAGCCGCAAAGUGGCUGGCAAAAACUAUUUAAGUUUAUGCGAUAAGAACAAUAAAAGUA--C
((((.((------(.(((....))))))..)))).......((((..((((((...)))))).(((.(((((.....))))).)))..)))).............--. ( -24.20)
>DroMoj_CAF1 53563 100 - 1
GAGUAGG------CGACUUGAGAGUGCUGCACGCAAAAUAACUUAAAAACCGCAAAGUGGCUGGUAAAAACUAUUUAAGUUUAUGCGAUAAGGACAAUAAAAGCA--G
((((...------..))))....((.((...((((....((((((((..((((...)))).((((....))))))))))))..))))...)).))..........--. ( -18.60)
>DroPer_CAF1 43330 106 - 1
AAAUAAAAGUGCUUCACUC--AAGUGGUGCACGCAAAAUAACUUAAAAGCCGCAAAGUGGCUGGCAAAAACUAUUUAAGUUUAUGCGAUAACAACAGUUAAGAGGGCC
........((((.((((..--..)))).))))((....(((((....((((((...)))))).(((.(((((.....))))).))).........))))).....)). ( -28.20)
>consensus
GAAUAAA______CCACUC__AAGUGCUGCACGCAAAAUAACUUAAAAGCCGCAAAGUGGCUGGCAAAAACUAUUUAAGUUUAUGCGAUAACAACAAUAAAAGGA__C
.......................((.((...((((....((((((((((((((...))))))((......)).))))))))..))))...)).))............. (-18.47 = -18.30 +  -0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:04 2006