Locus 24

Sequence ID 4_DroMel_CAF1
Location 249,211 – 249,331
Length 120
Max. P 0.626238
window42 window43

overview

Window 2

Location 249,211 – 249,331
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.00
Mean single sequence MFE -35.43
Consensus MFE -18.63
Energy contribution -18.55
Covariance contribution -0.08
Combinations/Pair 1.30
Mean z-score -2.09
Structure conservation index 0.53
SVM decision value 0.19
SVM RNA-class probability 0.626238
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 249211 120 + 1281640
GUUUGUGACAACUCCUCGUUGGAAGAAUGGUGUGCCUGCUAGCUUAGGUACACUGCCCUUUCCUCCAAAAGAGUCAAGCCCGGCAAUAAAGCCGUAUCCAAACUGGGAGGCUCAUGGAAA
.((..(((...(((((..(((((.....((((((((((......))))))))))...(((..(((.....)))..)))..((((......))))..)))))...)))))..)))..)).. ( -41.00)
>DroPse_CAF1 5579 120 + 1
AUUUAUUACUACGCCUCGUUGGAAAGACGGCGUACCCGCAAGUUUGGGUACUAUUCCGUUCCCGACGAGGGAAUUAAGUCCAGCAAUUAAACCAUAUCCCAAUUGGGAAGCUCAUGGAAA
............((((((((((...(((((.(((((((......)))))))....))))).))))))))(((......))).)).......((((.((((....)))).....))))... ( -39.70)
>DroEre_CAF1 7575 120 + 1
UUUUAUUACAACUCCUCGUUGGAAGAAUGGUGUGCCUGCUAGCUUAGGUACACUGCCGUUUCCUCCAAAGGAGUCAAGCCCAGCAAUAAAGCCCUAUCCAAACUGGGAGGCUCAUGGAAA
....................(((((..(((((((((((......)))))))))))...)))))((((...(((((...(((((...................))))).))))).)))).. ( -36.31)
>DroYak_CAF1 69 120 + 1
GUUUGUUACAACUCCUCGUUGGAAAAAUGGUGUACCUGCUAGUUUAGGUACACUGCCGCUUCCUCCAAAAGAGUCCAGCCCAGCAAUUAAGCCCUAUCCAAGCUGGGAGGCUCAUGGAAA
............(((..(..((((....((((((((((......)))))))))).....))))..)....(((((...((((((.................)))))).)))))..))).. ( -37.63)
>DroAna_CAF1 121129 120 + 1
GUUUAUUACAACUCCUCGAUGGAAAAAUGGCGUUCCUGCAACUUUAAGCACCAUUUCUUAUCUUUCAAAGGAAAUAAGUCCAGCAUUAAAACCAUAUCCAAAAUGGGAAGAUCAUGGAAA
............((((.((.(((.((((((.(((............))).))))))....))).))..))))......((((.........((((.......))))........)))).. ( -18.23)
>DroPer_CAF1 27650 120 + 1
AUUUAUUACUACGCCUCGUUGGAAAGACGGCGUACCCGCAAGUUUGGGUACUAUUCCGUUCCCGACGAGGGAAUUAAGUCCAGCAAUUAAACCAUAUCCCAAUUGGGAAGCUCAUGGAAA
............((((((((((...(((((.(((((((......)))))))....))))).))))))))(((......))).)).......((((.((((....)))).....))))... ( -39.70)
>consensus
GUUUAUUACAACUCCUCGUUGGAAAAAUGGCGUACCUGCAAGUUUAGGUACAAUGCCGUUUCCUCCAAAGGAAUCAAGCCCAGCAAUAAAACCAUAUCCAAACUGGGAAGCUCAUGGAAA
............(((..(((((.........(((((((......)))))))......(((((.......))))).....)))))............(((......))).......))).. (-18.63 = -18.55 +  -0.08) 

alignment

Postscript

secondary structure

Postscript

dotplot

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Window 3

Location 249,211 – 249,331
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.00
Mean single sequence MFE -37.37
Consensus MFE -19.93
Energy contribution -19.60
Covariance contribution -0.33
Combinations/Pair 1.33
Mean z-score -1.95
Structure conservation index 0.53
SVM decision value 0.03
SVM RNA-class probability 0.550452
Prediction RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 249211 120 - 1281640
UUUCCAUGAGCCUCCCAGUUUGGAUACGGCUUUAUUGCCGGGCUUGACUCUUUUGGAGGAAAGGGCAGUGUACCUAAGCUAGCAGGCACACCAUUCUUCCAACGAGGAGUUGUCACAAAC
.......((((((((......)))..((((......)))))))))((((((((((((((((.((...((((..(((...)))...)))).)).))))))))..))))))))......... ( -41.00)
>DroPse_CAF1 5579 120 - 1
UUUCCAUGAGCUUCCCAAUUGGGAUAUGGUUUAAUUGCUGGACUUAAUUCCCUCGUCGGGAACGGAAUAGUACCCAAACUUGCGGGUACGCCGUCUUUCCAACGAGGCGUAGUAAUAAAU
......((((((((((....))))...))))))(((((((((......))((((((.((((((((....((((((........)))))).))))..)))).))))))..))))))).... ( -41.40)
>DroEre_CAF1 7575 120 - 1
UUUCCAUGAGCCUCCCAGUUUGGAUAGGGCUUUAUUGCUGGGCUUGACUCCUUUGGAGGAAACGGCAGUGUACCUAAGCUAGCAGGCACACCAUUCUUCCAACGAGGAGUUGUAAUAAAA
.......((((((..((((..((......))..))))..))))))((((((((((((((((......((((.(((........))).))))..))))))))..))))))))......... ( -37.60)
>DroYak_CAF1 69 120 - 1
UUUCCAUGAGCCUCCCAGCUUGGAUAGGGCUUAAUUGCUGGGCUGGACUCUUUUGGAGGAAGCGGCAGUGUACCUAAACUAGCAGGUACACCAUUUUUCCAACGAGGAGUUGUAACAAAC
((((((.(((((.((((((..((......)).....))))))..)).)))...))))))..(((((.((((((((........))))))))......(((.....))))))))....... ( -40.20)
>DroAna_CAF1 121129 120 - 1
UUUCCAUGAUCUUCCCAUUUUGGAUAUGGUUUUAAUGCUGGACUUAUUUCCUUUGAAAGAUAAGAAAUGGUGCUUAAAGUUGCAGGAACGCCAUUUUUCCAUCGAGGAGUUGUAAUAAAC
....((...(((((......((((.(((((.((..(((.(.(((.(((((..((....))...)))))))).)........)))..)).)))))...))))..)))))..))........ ( -22.60)
>DroPer_CAF1 27650 120 - 1
UUUCCAUGAGCUUCCCAAUUGGGAUAUGGUUUAAUUGCUGGACUUAAUUCCCUCGUCGGGAACGGAAUAGUACCCAAACUUGCGGGUACGCCGUCUUUCCAACGAGGCGUAGUAAUAAAU
......((((((((((....))))...))))))(((((((((......))((((((.((((((((....((((((........)))))).))))..)))).))))))..))))))).... ( -41.40)
>consensus
UUUCCAUGAGCCUCCCAGUUUGGAUAUGGCUUAAUUGCUGGACUUAACUCCUUUGGAGGAAACGGAAGUGUACCUAAACUAGCAGGUACACCAUUUUUCCAACGAGGAGUUGUAAUAAAC
..((((.((((((((......)))...)))))......))))...((((((.(((..(((((.((....((.(((........))).)).))...)))))..)))))))))......... (-19.93 = -19.60 +  -0.33) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:31:48 2006