Locus 7753

Sequence ID 2L_DroMel_CAF1
Location 21,885,007 – 21,885,127
Length 120
Max. P 0.600974
window12436

overview

Window 6

Location 21,885,007 – 21,885,127
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 84.08
Mean single sequence MFE -39.56
Consensus MFE -25.52
Energy contribution -25.24
Covariance contribution -0.28
Combinations/Pair 1.17
Mean z-score -1.88
Structure conservation index 0.65
SVM decision value 0.14
SVM RNA-class probability 0.600974
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21885007 120 + 22407834
UGAGCAAUUUGGCGAGCCGCCUGGUCCGCUCUAAAGCUAAAGAAUCCGUGAAAACCCAUUUUUCGGGCGUGUGCAUGACAUCUAAGCCCGCGGACUCAAGGCUGGAUCCAAAAACAUAUC
.......(((((....(((((((((((((..........((((((..((....))..)))))).((((((((.....))))....)))))))))))..)))).))..)))))........ ( -36.20)
>DroSec_CAF1 175048 120 + 1
UGAGCAAUUUGGAGAGCCGCCUGGUCCGCUCUAAAGCUAAAGAAUCCGUAAAGGCCCAUUUUUCGGGCGUGUGCAUGACAUUUAAGCCCGCGGACUCAAGGCUGGAUCCAAAAACAUAUC
.......((((((...(((((((((((((......(((.(((..((.(((.(.((((.......)))).).)))..))..))).)))..)))))))..)))).)).))))))........ ( -38.80)
>DroSim_CAF1 118491 120 + 1
UGAGCAAUUUGGAGAGCCGCCUGGUCCGCUCUAAAGCUAAAGAAUCCGUAAAGGCCCAUUUUUCGGGCGUGUGCAUGGCAUUUAAGCCCGCGGACUCAAGGCUGGAUCCAAAAACAUAUC
.......((((((...(((((((((((((..................(((.(.((((.......)))).).)))..(((......))).)))))))..)))).)).))))))........ ( -42.60)
>DroEre_CAF1 137519 120 + 1
AAAGCAUUUUGGCGAGCCGCCUGGUGCGUUCUAAGGGUAAUGAAUCCUCAAGCGCCCAAUUUCCGGGCGUGUACAUGGCAUCUAGGCCAGCGGAUUCCAGACUUGCCCCGAAAACGUAUC
..........((((...)))).((((((((.(..((((((.((((((.(..((((((.......)))))).....((((......))))).)))))).....))))))..).)))))))) ( -44.00)
>DroYak_CAF1 127967 117 + 1
AAAGCAAUUUGGCGAGACGCCUGGUCCGCUCUAAGAUAAAUGAAUCCUCAAGCGCCCAAU---CGGGCGUGUACAUAACAUCUAGGCCGGCGGAUUCAAGGCUUGACCCGAAAACAUAUC
.......(((((...((.((((.(((((((((.((((...(((....))).((((((...---.)))))).........)))).))..)))))))...))))))...)))))........ ( -36.20)
>consensus
UGAGCAAUUUGGCGAGCCGCCUGGUCCGCUCUAAAGCUAAAGAAUCCGUAAACGCCCAUUUUUCGGGCGUGUGCAUGACAUCUAAGCCCGCGGACUCAAGGCUGGAUCCAAAAACAUAUC
.......(((((......(((((((((((........................((((.......))))((((.....))))........)))))))..)))).....)))))........ (-25.52 = -25.24 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:44:08 2006