Locus 5998

Sequence ID X_DroMel_CAF1
Location 15,407,413 – 15,407,547
Length 134
Max. P 0.932999
window9758 window9759

overview

Window 8

Location 15,407,413 – 15,407,507
Length 94
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 61.57
Mean single sequence MFE -37.53
Consensus MFE -11.45
Energy contribution -13.73
Covariance contribution 2.28
Combinations/Pair 1.45
Mean z-score -1.85
Structure conservation index 0.31
SVM decision value 0.08
SVM RNA-class probability 0.572570
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15407413 94 + 22224390
GC---------UGAGGCCUUGGACUUGGCUGGCCUGGUAUUUGCAUUCCGCACUGACUCGCCGGAGGCAAUGAACUCUGCUCGCUCCUUCCGUGCGGCCUCCA
..---------.((((((.((((...(((.(((..(((..((((.((((((........).)))))))))...)))..))).)))...))))...)))))).. ( -34.60)
>DroEre_CAF1 1751 94 + 1
GC---------CGAGGCCUUGGGCUUGGCUGGCCUGGCAUUUGCUUUCGGUACUGACUGGCCGGAGGCAAUGAACUCUGCUCGUUCCUUACGAGCUGCUUCCA
((---------((((.(....).)))))).((...((((.(((((((((((........)))))))))))........((((((.....)))))))))).)). ( -41.90)
>DroWil_CAF1 3354 91 + 1
GAACUAGACGCCACAGAUUUGGAUUUAGUUCGUUUGGGA------------GGCUGCUUGCCGCUGGCCAGAAAUUCCGCUCUCGCUUUGCGGGCUGCCUCCA
((((((((..(((......))).)))))))).....(((------------(((.((((((....(((.(((........))).)))..)))))).)))))). ( -37.70)
>DroYak_CAF1 1161 94 + 1
GC---------CGAGGUCUUGGACUUGGCUGGCCUGGCAUUUGCCUUCGGUACUGAUUGGCCGGAGGCAAUAAACUCUGCUCGUUCCUUACGCGCGGCUUCCA
((---------((((........)))))).((((......(((((((((((........)))))))))))........((.(((.....))).)))))).... ( -38.00)
>DroAna_CAF1 1618 94 + 1
GA---------UGCGGAUUUCUUCUUCGGAUCCUUGGCACUGGCUUUCGGUAUGGACUUGCCGGACGCCAGGAACUCGGCCCGCGCCUUGCGUGCGUUCUCCA
((---------(((((((((.......))))))...((((((((.(((((((......))))))).)))))......(((....))).)))..)))))..... ( -34.10)
>DroPer_CAF1 4843 103 + 1
GAGGAUGAGGAUGAUGCCUUGGAUUUCUUUGGCAUGGCGGAUGUCUUAGGCGGCAUGUUGCCAGUGGCCAGGAAGUCGGCCCGUACUUUGCGUGCUUCUUCCA
..(((.((((((((((((..((....))..)))))(((.(((.((((.((((((.....)))....))))))).))).))).........))).)))).))). ( -38.90)
>consensus
GA_________CGAGGCCUUGGACUUGGCUGGCCUGGCAUUUGCCUUCGGUACUGACUUGCCGGAGGCAAGGAACUCUGCUCGCUCCUUGCGUGCGGCCUCCA
.............(((((............)))))((...((((.((((((........)))))).))))........((.(((.....))).)).....)). (-11.45 = -13.73 +   2.28)

alignment

Postscript

secondary structure

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dotplot

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Window 9

Location 15,407,430 – 15,407,547
Length 117
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 67.35
Mean single sequence MFE -41.00
Consensus MFE -13.26
Energy contribution -15.10
Covariance contribution 1.84
Combinations/Pair 1.50
Mean z-score -2.26
Structure conservation index 0.32
SVM decision value 1.23
SVM RNA-class probability 0.932999
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15407430 117 + 22224390
GGCUGGCCUGGUAUUUGCAUUCCGCACUGACUCGCCGGAGGCAAUGAACUCUGCUCGCUCCUUCCGUGCGGCCUCCAAUUGCUGAUUGAGUUCCGCCGCCAGUUCUUUCUUUCCUUU
(((((((..(((..((((.((((((........).))))))))).((((((.((.((.......)).))(((........)))....)))))).))))))))))............. ( -32.80)
>DroEre_CAF1 1768 117 + 1
GGCUGGCCUGGCAUUUGCUUUCGGUACUGACUGGCCGGAGGCAAUGAACUCUGCUCGUUCCUUACGAGCUGCUUCCAACUGCUGAUUGAGUUCUGCCGCCAGUUCUUUCUUUCCUUU
(((((((..((((.(((((((((((........))))))))))).((((((.((((((.....)))))).((........)).....)))))))))))))))))............. ( -48.20)
>DroWil_CAF1 3380 105 + 1
AGUUCGUUUGGGA------------GGCUGCUUGCCGCUGGCCAGAAAUUCCGCUCUCGCUUUGCGGGCUGCCUCCAAUUGAACAUUUAAAUCUUUGGCUAGUUCUGAUUUUCCUUU
.(((((....(((------------(((.((((((....(((.(((........))).)))..)))))).))))))...)))))....(((((.............)))))...... ( -33.22)
>DroYak_CAF1 1178 117 + 1
GGCUGGCCUGGCAUUUGCCUUCGGUACUGAUUGGCCGGAGGCAAUAAACUCUGCUCGUUCCUUACGCGCGGCUUCCAACUGUUGAUUGAGUUCUGCCGCCAGUUCUUUCUUUCCUUU
(((((((..((((.(((((((((((........)))))))))))..(((((.((.(((.....))).))(((........)))....))))).)))))))))))............. ( -42.10)
>DroAna_CAF1 1635 117 + 1
CGGAUCCUUGGCACUGGCUUUCGGUAUGGACUUGCCGGACGCCAGGAACUCGGCCCGCGCCUUGCGUGCGUUCUCCAGCUGCUGAUUAAGAUCAGCCGCCAGCUCCUUCUUGCCCUU
.(((...(((((.(((((.(((((((......))))))).)))))((((...((.(((.....))).)))))).......((((((....)))))).))))).)))........... ( -43.30)
>DroPer_CAF1 4869 117 + 1
CUUUGGCAUGGCGGAUGUCUUAGGCGGCAUGUUGCCAGUGGCCAGGAAGUCGGCCCGUACUUUGCGUGCUUCUUCCAGCUGCUGGUUGAGUUCUGCUGCACGCUCCGUAUUCCCCAU
...(((....(((((.((....(((((.((...(((((..((..(((((..(((.(((.....))).))).))))).))..)))))...)).)))))....))))))).....))). ( -46.40)
>consensus
GGCUGGCCUGGCAUUUGCCUUCGGUACUGACUUGCCGGAGGCAAGGAACUCUGCUCGCUCCUUGCGUGCGGCCUCCAACUGCUGAUUGAGUUCUGCCGCCAGUUCUUUCUUUCCUUU
.......(((((..((((.((((((........)))))).))))........((.(((.....))).))...........((.((......)).)).)))))............... (-13.26 = -15.10 +   1.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:01:50 2006