Locus 4626

Sequence ID X_DroMel_CAF1
Location 12,097,173 – 12,097,272
Length 99
Max. P 0.932223
window7601 window7602

overview

Window 1

Location 12,097,173 – 12,097,272
Length 99
Sequences 3
Columns 105
Reading direction forward
Mean pairwise identity 83.77
Mean single sequence MFE -31.30
Consensus MFE -19.19
Energy contribution -19.31
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -3.28
Structure conservation index 0.61
SVM decision value 1.16
SVM RNA-class probability 0.924367
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12097173 99 + 22224390
AGCUCCCAACGCGCUG---CCUGUUUGCCUUGGCAUUUCUCAAACGGAGAAAUAAAACAAAAAAAAAAAGCAAAAGGAGAUGGUGGCGAC---GAAAAGCGAAGG
.(((.....(((((..---((.((((.((((.(((((((((.....)))))))................))..))))))))))..))).)---)...)))..... ( -25.29)
>DroEre_CAF1 21174 95 + 1
AGUUCCCAACGCGCUGCCGCCUGUUUGCCUUGGCAUUUCUCAAAU-GAGAAAUGA---------AAAAAGCAAAAGGAGAUGGUGGCGGCGUUGAAAAGCGAAGG
.(((..((((((((..((.(((.(((((.((..((((((((....-)))))))).---------..)).))))))))....))..)).))))))...)))..... ( -37.40)
>DroYak_CAF1 21613 92 + 1
AGUUCCCAACGCGCUG---CCUGUUUGCCUUGGCAUUUCUCAAAU-GAGAAAUGA---------AAAAAGCAAAAGGAGAUGGCGGUGGCGGUAAAAAGCGGAGG
..((((.....(((((---((..(((((.((..((((((((....-)))))))).---------..)).))))).......)))))))((........)))))). ( -31.20)
>consensus
AGUUCCCAACGCGCUG___CCUGUUUGCCUUGGCAUUUCUCAAAU_GAGAAAUGA_________AAAAAGCAAAAGGAGAUGGUGGCGGCG_UGAAAAGCGAAGG
.....((..(((((((...(((.(((((.((..((((((((.....))))))))............)).))))))))...))))(....)........)))..)) (-19.19 = -19.31 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 12,097,173 – 12,097,272
Length 99
Sequences 3
Columns 105
Reading direction reverse
Mean pairwise identity 83.77
Mean single sequence MFE -28.30
Consensus MFE -17.61
Energy contribution -17.51
Covariance contribution -0.11
Combinations/Pair 1.08
Mean z-score -3.25
Structure conservation index 0.62
SVM decision value 1.22
SVM RNA-class probability 0.932223
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12097173 99 - 22224390
CCUUCGCUUUUC---GUCGCCACCAUCUCCUUUUGCUUUUUUUUUUUGUUUUAUUUCUCCGUUUGAGAAAUGCCAAGGCAAACAGG---CAGCGCGUUGGGAGCU
.....(((((.(---(.(((.............(((((.(((.(((((...((((((((.....)))))))).))))).))).)))---)))))))...))))). ( -21.51)
>DroEre_CAF1 21174 95 - 1
CCUUCGCUUUUCAACGCCGCCACCAUCUCCUUUUGCUUUUU---------UCAUUUCUC-AUUUGAGAAAUGCCAAGGCAAACAGGCGGCAGCGCGUUGGGAACU
.......((..((((((.((..((....(((((((((((..---------.((((((((-....))))))))..)))))))).))).))..))))))))..)).. ( -35.00)
>DroYak_CAF1 21613 92 - 1
CCUCCGCUUUUUACCGCCACCGCCAUCUCCUUUUGCUUUUU---------UCAUUUCUC-AUUUGAGAAAUGCCAAGGCAAACAGG---CAGCGCGUUGGGAACU
..(((((........))((.(((...(((((((((((((..---------.((((((((-....))))))))..)))))))).)))---.)).))).)))))... ( -28.40)
>consensus
CCUUCGCUUUUCA_CGCCGCCACCAUCUCCUUUUGCUUUUU_________UCAUUUCUC_AUUUGAGAAAUGCCAAGGCAAACAGG___CAGCGCGUUGGGAACU
((..(((........((....)).....(((((((((((............((((((((.....))))))))..)))))))).))).......)))..))..... (-17.61 = -17.51 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:29:41 2006