Locus 3681

Sequence ID X_DroMel_CAF1
Location 9,831,839 – 9,831,956
Length 117
Max. P 0.785588
window6030 window6031

overview

Window 0

Location 9,831,839 – 9,831,956
Length 117
Sequences 3
Columns 117
Reading direction forward
Mean pairwise identity 88.00
Mean single sequence MFE -32.62
Consensus MFE -23.40
Energy contribution -23.40
Covariance contribution 0.00
Combinations/Pair 1.08
Mean z-score -2.29
Structure conservation index 0.72
SVM decision value 0.15
SVM RNA-class probability 0.605727
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9831839 117 + 22224390
UCCAGGGCCGAUGAGGGUCCCCAAAGAAGUCGGAACAUUUGGCAGAGGUAUUCAAAUUCUGCAUAUAUGUUAACUUCGAGUUUGCAUGCGAAUUAAAAGAGGACCAAAAUGGCCAGA
.....(((((.(...(((((.(...(((((...(((((...((((((.........))))))....))))).))))).((((((....))))))....).)))))..).)))))... ( -38.10)
>DroSec_CAF1 10711 107 + 1
UCCAGGGCCGUUGAGGGUCCCCAAAGAAGUCG-AACAAAUGGCAGA---------AUUCUACAUAUAUGGUAACUUUGAGUUUUUAUGCGAAUUAAAAGGGAACCAAAAUGGCCAGA
.....(((((((...(((.(((......((((-......))))..(---------((((..((((......(((.....)))..)))).)))))....))).)))..)))))))... ( -27.40)
>DroSim_CAF1 9626 116 + 1
UCCAGGGCCGUUGAGGGUCCCCAAAGAAGUCG-AACAAAUGGCAGAGGUAUUCAAAUUCUACAUAUAUGGUAACUUUGAGUUUUUAUGCGAAUUAAAAGGGAACCCAAAUGGCCAGA
.....(((((((..((((.(((......((((-......))))....((((..((((((..................))))))..)))).........))).)))).)))))))... ( -32.37)
>consensus
UCCAGGGCCGUUGAGGGUCCCCAAAGAAGUCG_AACAAAUGGCAGAGGUAUUCAAAUUCUACAUAUAUGGUAACUUUGAGUUUUUAUGCGAAUUAAAAGGGAACCAAAAUGGCCAGA
.....(((((((...(((.(((......((((.......))))......................(((((.(((.....))).)))))..........))).)))..)))))))... (-23.40 = -23.40 +   0.00)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 1

Location 9,831,839 – 9,831,956
Length 117
Sequences 3
Columns 117
Reading direction reverse
Mean pairwise identity 88.00
Mean single sequence MFE -29.26
Consensus MFE -23.97
Energy contribution -23.31
Covariance contribution -0.66
Combinations/Pair 1.14
Mean z-score -2.25
Structure conservation index 0.82
SVM decision value 0.57
SVM RNA-class probability 0.785588
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9831839 117 - 22224390
UCUGGCCAUUUUGGUCCUCUUUUAAUUCGCAUGCAAACUCGAAGUUAACAUAUAUGCAGAAUUUGAAUACCUCUGCCAAAUGUUCCGACUUCUUUGGGGACCCUCAUCGGCCCUGGA
...((((.....(((((((.........(....)......(((((((((((....(((((...........)))))...)))))..))))))...)))))))......))))..... ( -31.30)
>DroSec_CAF1 10711 107 - 1
UCUGGCCAUUUUGGUUCCCUUUUAAUUCGCAUAAAAACUCAAAGUUACCAUAUAUGUAGAAU---------UCUGCCAUUUGUU-CGACUUCUUUGGGGACCCUCAACGGCCCUGGA
...((((.....(((((((.......(((.((((((((.....))).........((((...---------.))))..))))).-))).......)))))))......))))..... ( -26.24)
>DroSim_CAF1 9626 116 - 1
UCUGGCCAUUUGGGUUCCCUUUUAAUUCGCAUAAAAACUCAAAGUUACCAUAUAUGUAGAAUUUGAAUACCUCUGCCAUUUGUU-CGACUUCUUUGGGGACCCUCAACGGCCCUGGA
...((((....((((((((.......(((.((((((((.....))).........(((((...........)))))..))))).-))).......)))))))).....))))..... ( -30.24)
>consensus
UCUGGCCAUUUUGGUUCCCUUUUAAUUCGCAUAAAAACUCAAAGUUACCAUAUAUGUAGAAUUUGAAUACCUCUGCCAUUUGUU_CGACUUCUUUGGGGACCCUCAACGGCCCUGGA
...((((.....(((((((.......(((......(((.....))).........(((((...........))))).........))).......)))))))......))))..... (-23.97 = -23.31 +  -0.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:05:32 2006