Locus 6826

Sequence ID X_DroMel_CAF1
Location 16,979,867 – 16,979,974
Length 107
Max. P 0.748433
window11178

overview

Window 8

Location 16,979,867 – 16,979,974
Length 107
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 78.45
Mean single sequence MFE -25.19
Consensus MFE -18.06
Energy contribution -16.79
Covariance contribution -1.27
Combinations/Pair 1.38
Mean z-score -1.29
Structure conservation index 0.72
SVM decision value 0.47
SVM RNA-class probability 0.748433
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16979867 107 - 22224390
CAAAACUAAAACUGCAGCGUUGAUCUC-UGCAGCGUUGUGGCAUUCAAUUGGACCACAGGAAAUCCCAUGGUUAGCUAUUCCUCUUAAGGGCAUGGCCUCAAAAAUGC
.............(((((((((.....-..))))))))).(((((...((((((((..((....))..))))).(((((((((....)))).)))))..))).))))) ( -29.50)
>DroVir_CAF1 6853 107 - 1
CAAAACUAAAACCACAUCAGUGCUUCG-CACGCUGGCGUGGUAUUCAACUGGACUACAUCGAAAUCCAUGGUUAACUUAUCCUCUUAAGGGCAUUGGCUCGUAGAUGC
...(((((..(((((..(((((.....-..)))))..))))).......((((...........))))))))).........(((...((((....))))..)))... ( -24.70)
>DroPse_CAF1 6562 108 - 1
CUAAACUAAAACUGCAGCGAUGAUUCCACACGUCGUUGUGGUAUUCAAUAGGACCAAACCAAAGCCCAUGAUUUGCUAUUCCUCUUAAGGGCAUUGGCUUGAAUAUGC
..........((..((((((((........))))))))..))............(((.((((.((((.(((.............))).)))).)))).)))....... ( -28.62)
>DroSim_CAF1 6801 106 - 1
CAAAACUAAAACUGCAGCGUAGAUUUC-UACAGCGUUGUGGUAUUCAAUUGGACCACAU-AAACCUCAUGGUUAGCUAUUCCUCUUAAGGGCAUAGCCUCAAAAAUGC
.............(((((((((....)-))).))..((((((..........)))))).-.((((....)))).(((((((((....)))).)))))........))) ( -24.20)
>DroMoj_CAF1 6426 107 - 1
CACAACUAAAACCGCAUCAGUGACUCG-CACGCUGCUGUGGUAUUCAAUUGGACUACAUUGAACCCCAUGGUUAACUAUUCCUCUUAAGGGCAUUGGCUAAAAGAUGC
.............(((((.(((.....-)))((((((((((..((((((.(.....)))))))..))))))).......((((....))))....))).....))))) ( -25.80)
>DroAna_CAF1 9830 107 - 1
CAAAACUAAAACUGCAGUGUUGAUUCU-UACAACAUUGUGGUAUUCAAUUGGACCAAAACGAACCCCAUGAUUUACUAUUCCUCUUAAGGGCAUCAUCUUGAAAAUGC
..........((..((((((((.....-..))))))))..)).((((((((........)))..(((.(((.............))).))).......)))))..... ( -18.32)
>consensus
CAAAACUAAAACUGCAGCGUUGAUUCC_CACACCGUUGUGGUAUUCAAUUGGACCACAUCAAACCCCAUGGUUAACUAUUCCUCUUAAGGGCAUUGGCUCAAAAAUGC
...(((((..((((((((((((........))))))))))))........((.............)).))))).......(((....)))((((..........)))) (-18.06 = -16.79 +  -1.27)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:23:53 2006