Locus 5453

Sequence ID X_DroMel_CAF1
Location 14,190,547 – 14,190,657
Length 110
Max. P 0.629972
window8842

overview

Window 2

Location 14,190,547 – 14,190,657
Length 110
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 71.82
Mean single sequence MFE -22.71
Consensus MFE -2.90
Energy contribution -2.90
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.60
Structure conservation index 0.13
SVM decision value 0.20
SVM RNA-class probability 0.629972
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14190547 110 - 22224390
GACAGCAUAUAAUGGCAUGU-UAAAUAGUUAUUUAGAUUUAUUCAAUCUAU-----AAGUAGCACAGCAAAUGU-CAAAACUUUA--UUGCGAUUUUCGAUUGACAAACGCGCAGAGCG
....((......((((((..-......((((((((((((.....)))))).-----.)))))).......))))-))........--(((((..(((........)))..))))).)). ( -18.36)
>DroSec_CAF1 100886 96 - 1
GACAGCA---------------AAAUAGUUAUUUAGACUUAUUCAAUGUAU-----AAGUAGCACACCAAAUGU-CAAAACUUUA--UUGUCAAUUUCGAUUGACAAACGCGAAGAGCG
((((...---------------.....((((((((.((.........)).)-----)))))))........)))-).........--((((((((....)))))))).(((.....))) ( -20.59)
>DroSim_CAF1 78397 96 - 1
GACAGCA---------------AAAUAGUUAUUUAUACUUAUUCUAUGUAU-----AAGUAGCACACCAAAUGU-CAAAACUUUA--UUGUCAAUUUCGAUUGACAAACGCGAAGAGCG
((((...---------------.....(((((((((((.........))))-----)))))))........)))-).........--((((((((....)))))))).(((.....))) ( -24.69)
>DroEre_CAF1 89881 116 - 1
GACAGCCACUAAUGGCUUGCAUAAGCAGCUAUUCAGUUUCAGUCAACGAAAUCGCACAGUCAGGUAGCACAAGU-CAAAACUUCA--UUGUAGCUUUGGAUUGACAAACGCGAAGAGCG
(((.(..((((((((((.((....))))))))).)))..).))).......((((...(((((..(((((((..-..........--)))).))).....)))))....))))...... ( -26.80)
>DroYak_CAF1 91833 114 - 1
GAAAGCAACGAAUGGGAUGGAUAAUUAGUAAUUCAGAUUUAUUCAAAGAAU-----AAGUCACAUUGCAAAUAUGGAAAACUUUAAUUUGUAAUUUUGAAUUGCCAAACGCGAAGAGCG
...........................(((((((((((((((((...))))-----)))))..(((((((((.((((....)))))))))))))..))))))))....(((.....))) ( -23.10)
>consensus
GACAGCA___AAUGG__UG__UAAAUAGUUAUUUAGAUUUAUUCAAUGUAU_____AAGUAGCACAGCAAAUGU_CAAAACUUUA__UUGUAAAUUUCGAUUGACAAACGCGAAGAGCG
............................................................................................................(((.....))) ( -2.90 =  -2.90 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:15 2006