Locus 3791

Sequence ID 2L_DroMel_CAF1
Location 11,082,730 – 11,082,830
Length 100
Max. P 0.817115
window5977 window5978

overview

Window 7

Location 11,082,730 – 11,082,830
Length 100
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.06
Mean single sequence MFE -20.70
Consensus MFE -12.73
Energy contribution -14.03
Covariance contribution 1.31
Combinations/Pair 1.20
Mean z-score -2.03
Structure conservation index 0.61
SVM decision value 0.67
SVM RNA-class probability 0.817115
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11082730 100 + 22407834
CGCUGGCAAUUAGAUGUACAUAAAAGUCUAUUAAUGUGUGCUCCAACAAACUCAUUAAUGGCCACUAUUGGCCAAUAAAACUUUGCCUAU-------------------CAACUUCG-CA
....(((((...((.(((((((............)))))))))...........(((.((((((....)))))).)))....)))))...-------------------........-.. ( -22.00)
>DroPse_CAF1 105404 120 + 1
CGAAGGCAAUUAGAUGCACAUAAAAGUUCAUUAAUGUCCGUCCAAACAAUCUCAUUAAUGCGCUCUAUUGGCCAAUAAAACUUUGCCAUUGGCCACCAGAUAAAACUUUCAAAUGCAAAA
..............((((....((((((((((((((................))))))))...(((..((((((((...........))))))))..)))...))))))....))))... ( -23.39)
>DroSim_CAF1 72290 100 + 1
CGCUGGCAAUUAGAUGUACAUAAAAGUCUAUUAAUGUGUGCUCCAACAAACUCAUUAAUGGCCACUAUUGGCCAAUAAAACUUUGCCUAU-------------------CAACUUCG-CA
....(((((...((.(((((((............)))))))))...........(((.((((((....)))))).)))....)))))...-------------------........-.. ( -22.00)
>DroEre_CAF1 74283 100 + 1
CGCUGGCAAUUAGAUGUACAUAAAAGCCUAUUAAUGUGUGCUCCAACAAACUCAUUAAUGGCCACUAUUGGCCAAUAAAACUUUGCCUAU-------------------CACUUUCG-CA
....(((((...((.(((((((............)))))))))...........(((.((((((....)))))).)))....)))))...-------------------........-.. ( -22.00)
>DroYak_CAF1 74829 100 + 1
CGCUGGCAAUUAGCUGUACAUAAAAGUCUAUUAAUGUGUGCUCCAACAAAAUCAUUAAUGGCCACUAUUGGCCAAUAAAACUUUGCCUAU-------------------CAACUUGG-CA
.((((((((...(..(((((((............)))))))..)..........(((.((((((....)))))).)))....)))))...-------------------......))-). ( -22.90)
>DroAna_CAF1 72994 99 + 1
CGCUAACUAUCUGAUGUACAUAAAAGUCUAUUAAUAGGUGAUCCAACAAACUCAUUAUUGGCCGCUAUA-GCUCAUAAAACUUUGCCAUU-------------------UCACUUGA-CA
...........(((((.((......)).))))).(((((((.....((((....((((.(((.......-))).))))...)))).....-------------------))))))).-.. ( -11.90)
>consensus
CGCUGGCAAUUAGAUGUACAUAAAAGUCUAUUAAUGUGUGCUCCAACAAACUCAUUAAUGGCCACUAUUGGCCAAUAAAACUUUGCCUAU___________________CAACUUCG_CA
....(((((......(((((((............))))))).............(((.(((((......))))).)))....)))))................................. (-12.73 = -14.03 +   1.31)

alignment

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secondary structure

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dotplot

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Window 8

Location 11,082,730 – 11,082,830
Length 100
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.06
Mean single sequence MFE -25.67
Consensus MFE -16.28
Energy contribution -17.12
Covariance contribution 0.84
Combinations/Pair 1.21
Mean z-score -1.44
Structure conservation index 0.63
SVM decision value 0.04
SVM RNA-class probability 0.552313
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11082730 100 - 22407834
UG-CGAAGUUG-------------------AUAGGCAAAGUUUUAUUGGCCAAUAGUGGCCAUUAAUGAGUUUGUUGGAGCACACAUUAAUAGACUUUUAUGUACAUCUAAUUGCCAGCG
..-........-------------------...(((((....(((.((((((....)))))).))).(((((((((((.(....).)))))))))))..............))))).... ( -24.30)
>DroPse_CAF1 105404 120 - 1
UUUUGCAUUUGAAAGUUUUAUCUGGUGGCCAAUGGCAAAGUUUUAUUGGCCAAUAGAGCGCAUUAAUGAGAUUGUUUGGACGGACAUUAAUGAACUUUUAUGUGCAUCUAAUUGCCUUCG
...(((((.((((((((...((((.((((((((((.......)))))))))).))))...((((((((...((((....)))).)))))))))))))))).))))).............. ( -35.10)
>DroSim_CAF1 72290 100 - 1
UG-CGAAGUUG-------------------AUAGGCAAAGUUUUAUUGGCCAAUAGUGGCCAUUAAUGAGUUUGUUGGAGCACACAUUAAUAGACUUUUAUGUACAUCUAAUUGCCAGCG
..-........-------------------...(((((....(((.((((((....)))))).))).(((((((((((.(....).)))))))))))..............))))).... ( -24.30)
>DroEre_CAF1 74283 100 - 1
UG-CGAAAGUG-------------------AUAGGCAAAGUUUUAUUGGCCAAUAGUGGCCAUUAAUGAGUUUGUUGGAGCACACAUUAAUAGGCUUUUAUGUACAUCUAAUUGCCAGCG
.(-(....(((-------------------...((((((.(((((.((((((....)))))).))).)).))))))....))).........(((..(((........)))..))).)). ( -28.10)
>DroYak_CAF1 74829 100 - 1
UG-CCAAGUUG-------------------AUAGGCAAAGUUUUAUUGGCCAAUAGUGGCCAUUAAUGAUUUUGUUGGAGCACACAUUAAUAGACUUUUAUGUACAGCUAAUUGCCAGCG
..-....((((-------------------...((((((((((((.((((((....)))))).))).)))))))))..(((..((((.((......)).))))...)))......)))). ( -24.60)
>DroAna_CAF1 72994 99 - 1
UG-UCAAGUGA-------------------AAUGGCAAAGUUUUAUGAGC-UAUAGCGGCCAAUAAUGAGUUUGUUGGAUCACCUAUUAAUAGACUUUUAUGUACAUCAGAUAGUUAGCG
((-((..(((.-------------------..((((...(((.((.....-)).))).))))((((.(((((((((((........)))))))))))))))...)))..))))....... ( -17.60)
>consensus
UG_CGAAGUUG___________________AUAGGCAAAGUUUUAUUGGCCAAUAGUGGCCAUUAAUGAGUUUGUUGGAGCACACAUUAAUAGACUUUUAUGUACAUCUAAUUGCCAGCG
.................................(((((....(((.(((((......))))).))).(((((((((((........)))))))))))..............))))).... (-16.28 = -17.12 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:01:25 2006