Locus 7732

Sequence ID X_DroMel_CAF1
Location 19,240,625 – 19,240,737
Length 112
Max. P 0.525621
window12684

overview

Window 4

Location 19,240,625 – 19,240,737
Length 112
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 89.81
Mean single sequence MFE -35.44
Consensus MFE -23.90
Energy contribution -24.10
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -2.27
Structure conservation index 0.67
SVM decision value -0.02
SVM RNA-class probability 0.525621
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19240625 112 + 22224390
GCUGGGGGGGGGGGGCUUUAUAGGUUUAAAGUGAGCUAAGGGAGCAUUUGGCAC---UCUUACGCUUGCUCAAAGUAUAGUCGAUAGUUCGAUUUAAAAGUUGAGACUCC-CUCCU
.....(((((((((((((((......))))))((((((((((.((.....)).)---))))).)))).(((((.....((((((....))))))......))))).))))-))))) ( -42.90)
>DroSec_CAF1 27547 111 + 1
GGUCUG--UGGGGGGCUUUAUAGGUUUAAAGUGAGCUGAGGGAGCAUUUGGCAC---UCUUACGCUUGCUCAAAGUAUAGUCGAUAGUUCGAUUUAAAAGUUGAGACUCCCCUCCU
((...(--.(((((((((((......))))))((((((((((.((.....)).)---))))).)))).(((((.....((((((....))))))......))))).)))))).)). ( -36.80)
>DroSim_CAF1 24068 111 + 1
GGUCUG--UGGGGGGCUUUAUAGGUUUAAAGUGAGCUGAGGGAGCAUUUGGCAC---UCUUACGCUUGCUCAAAGUAUAGUCGAUAGUUCGAUUUAAAAGUUGAGACUCCCCUCCU
((...(--.(((((((((((......))))))((((((((((.((.....)).)---))))).)))).(((((.....((((((....))))))......))))).)))))).)). ( -36.80)
>DroEre_CAF1 25367 102 + 1
----------GGGGGCUUUAUAGGUUUAAAGUGCGCUGAGGGAGCAUUUUGCAC---UCUUACACUUGCUCAAAGUAUAGUCGAUAGUUCGAUUUAAAAGUUGAGACUCG-CUCCU
----------((((((............(((((...((((((.((.....)).)---)))))))))).(((((.....((((((....))))))......)))))....)-))))) ( -30.90)
>DroYak_CAF1 26690 105 + 1
----------GGGGGCUUUAUGGGUUUAAAGUGAGCUGAGGGAGCAUUUUGCACACUUCUUCCACUUGCUCAAAGUAUAGUCGAUAGUUCGAUUUAAAAGUUGAGACUCC-CUCCU
----------(((((......((((...(((((.(..(((((.((.....)).).))))..)))))).(((((.....((((((....))))))......))))))))))-)))). ( -29.80)
>consensus
G_U__G___GGGGGGCUUUAUAGGUUUAAAGUGAGCUGAGGGAGCAUUUGGCAC___UCUUACGCUUGCUCAAAGUAUAGUCGAUAGUUCGAUUUAAAAGUUGAGACUCC_CUCCU
..........(((((((((...(((((.....)))))...))))).......................(((((.....((((((....))))))......)))))......)))). (-23.90 = -24.10 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:46:11 2006