Locus 2834

Sequence ID X_DroMel_CAF1
Location 7,562,446 – 7,562,562
Length 116
Max. P 0.529728
window4652

overview

Window 2

Location 7,562,446 – 7,562,562
Length 116
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.22
Mean single sequence MFE -29.23
Consensus MFE -16.19
Energy contribution -15.97
Covariance contribution -0.22
Combinations/Pair 1.06
Mean z-score -1.84
Structure conservation index 0.55
SVM decision value -0.01
SVM RNA-class probability 0.529728
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7562446 116 - 22224390
--ACA--CGAAGAACCUGUCAGAAAGGGUUCAACGCAAAUUCGAUUUUGAAAAACGUUGUGAUGCAUGCGUAUCUCUGGCAGCGGGCAAAGUUGCAAAUGAAAUUUUGUCAAAUUUUCAG
--...--.(((((.(((((((((.......(((((....((((....))))...))))).(((((....))))))))))))).)(((((((((........)))))))))...))))).. ( -31.80)
>DroPse_CAF1 120844 101 - 1
--CCAUAGAGAGAACCUGCC-GAAAGGGUUCAAAUCAAAUUCGAUUU-GGGCAACGAUGUG---------------UGGCAACGACCAAAGUUGCAAAUGAAAUUUUGUCAAAUUUUCAG
--.((((.(..(......((-....))(((((((((......)))))-))))..)..).))---------------))(((((.......)))))...(((((...........))))). ( -25.80)
>DroSec_CAF1 54831 116 - 1
--ACA--CGAAGAACCUGUCAGAAAGGGUUCAACGCAAAUUCGAUUUUGGGAAACGUUGUGAUGCAUGCGUAUCUCUGGCAGCGGGCAAAGUUGCAAAUGAAAUUUUGUCAAAUUUUCAG
--...--.(((((.(((((((((.......((((.((((......))))(....))))).(((((....))))))))))))).)(((((((((........)))))))))...))))).. ( -33.40)
>DroSim_CAF1 48561 116 - 1
--ACA--CGAAGAACCUGUCAGAAAGGGUUCAACGCAAAUUCGAUUUUGGGAAACGUUGUGAUGCAUGCGUAUCUCUGGCAGCGGGCAAAGUUGCAAAUGAAAUUUUGUCAAAUUUUCAG
--...--.(((((.(((((((((.......((((.((((......))))(....))))).(((((....))))))))))))).)(((((((((........)))))))))...))))).. ( -33.40)
>DroYak_CAF1 56518 98 - 1
CCACA--CGAGGAACCUGUCAGAAAGGGUUCAACUCAAAUUCGAUU--------------------UGCGUAUCUCUGGCAGCGGGCAAAGUUGCAAAUGAAAUUUUGUCAAAUUUUCAG
.....--.(((((.(((((((((..(((.....)))......(((.--------------------.....))))))))))).)(((((((((........)))))))))...))))).. ( -25.20)
>DroPer_CAF1 127910 101 - 1
--CCAUAGAGAGAACCUGCC-GAAAGGGUUCAAAUCAAAUUCGAUUU-GGGCAACGAUGUG---------------UGGCAACGACCAAAGUUGCAAAUGAAAUUUUGUCAAAUUUUCAG
--.((((.(..(......((-....))(((((((((......)))))-))))..)..).))---------------))(((((.......)))))...(((((...........))))). ( -25.80)
>consensus
__ACA__CGAAGAACCUGUCAGAAAGGGUUCAACGCAAAUUCGAUUU_GGGAAACGUUGUG_____UGCGUAUCUCUGGCAGCGGGCAAAGUUGCAAAUGAAAUUUUGUCAAAUUUUCAG
...........((((((........))))))...............................................(((((.......)))))...(((((...........))))). (-16.19 = -15.97 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:44:41 2006