Locus 2001

Sequence ID 2R_DroMel_CAF1
Location 7,531,103 – 7,531,198
Length 95
Max. P 0.823557
window3303

overview

Window 3

Location 7,531,103 – 7,531,198
Length 95
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 77.82
Mean single sequence MFE -23.81
Consensus MFE -15.27
Energy contribution -15.00
Covariance contribution -0.27
Combinations/Pair 1.35
Mean z-score -1.64
Structure conservation index 0.64
SVM decision value 0.69
SVM RNA-class probability 0.823557
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7531103 95 + 20766785
---AGGAACAU-----GAACAAGAACUACAAAACGGCAACCAUUAUAUUUGGCCACUAAUUGGAGCAAUUUGAGACAACACCUCAGAUUGUGGGUCCCGGGCG
---........-----.................(((..(((...........(((.....))).((((((((((.......)))))))))).))).))).... ( -19.60)
>DroPse_CAF1 19509 83 + 1
--------------------GAGAACUACAAAACGGCAACCAUUAUAUUUGGCCACUAAUUGGAGCAAUUUGAGGCAACACCUCAGAUUGUGGGGGCCACGAA
--------------------..............(((..((...........(((.....))).(((((((((((.....)))))))))))))..)))..... ( -26.40)
>DroEre_CAF1 12829 103 + 1
AACCAGAACAAGAAGAGAACAAGAGCUACAAAACGGCCACCAUUAUAUUUGGCCACUAAUUGGAGCAAUUUGAGACAACACCUCAGAUUGCGGGGCUCGGGCG
......................((((..(.....(((((..........)))))..........((((((((((.......)))))))))))..))))..... ( -30.10)
>DroWil_CAF1 15552 86 + 1
-----------------GCCAAAAACUACAAAACGUCCAACAUUAUAUUUGGCCACUAAUUGGAGCAAUUUGAGACAACACCUUGGGAGAUGAGAUGCAGGGG
-----------------((((((........................))))))......(..((....))..).......(((((.(........).))))). ( -11.16)
>DroYak_CAF1 13012 98 + 1
AACAAGAACCC-----GAACAAGAAGUACAAAACGGCCACCAUUAUAUUUGGCCACUAAUUGGAGCAAUUUGAGACAACACCUCAGAUUGUGGGGCCCGGGCG
........(((-----(........((.....))((((.((...........(((.....))).((((((((((.......)))))))))))))))))))).. ( -29.20)
>DroPer_CAF1 13478 83 + 1
--------------------GAGAACUACAAAACGGCAACCAUUAUAUUUGGCCACUAAUUGGAGCAAUUUGAGGCAACACCUCAGAUUGUGGGGGCCACGAG
--------------------..............(((..((...........(((.....))).(((((((((((.....)))))))))))))..)))..... ( -26.40)
>consensus
_________________AACAAGAACUACAAAACGGCAACCAUUAUAUUUGGCCACUAAUUGGAGCAAUUUGAGACAACACCUCAGAUUGUGGGGCCCAGGCG
..................................((...((...........(((.....))).((((((((((.......))))))))))))...))..... (-15.27 = -15.00 +  -0.27)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:25 2006