Locus 2951

Sequence ID 2R_DroMel_CAF1
Location 10,184,424 – 10,184,573
Length 149
Max. P 0.988834
window4871 window4872

overview

Window 1

Location 10,184,424 – 10,184,533
Length 109
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 75.80
Mean single sequence MFE -34.90
Consensus MFE -23.79
Energy contribution -22.85
Covariance contribution -0.94
Combinations/Pair 1.41
Mean z-score -1.26
Structure conservation index 0.68
SVM decision value 0.53
SVM RNA-class probability 0.771701
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10184424 109 + 20766785
GAAUGAC----GACUCU-UG-----UCAUCCACAGAUCUAUAUGGUGAUACCACCGGACGGCGGAUUCGGUUGGGUAAUCAUGGUGCUGUCCUUCCUCGCCCAGCUGAUAAUCGAUGGU
..(((((----((...)-))-----))))(((..(((.....(((((....)))))..........((((((((((......((......))......))))))))))..)))..))). ( -31.00)
>DroSim_CAF1 12635 109 + 1
GAAUGAC----GACUCU-UG-----UCAUCCACAGAUCUAUAUGGUGAUACCGCCGGACGGCGGAUUCGGCUGGGUAAUCAUGGUGUUGUCCUUCCUCGCCCAGCUGAUAGUCGAUGGU
......(----((((..-((-----(((.(((.(......).))))))))(((((....)))))..((((((((((......((......))......)))))))))).)))))..... ( -40.40)
>DroEre_CAF1 17279 104 + 1
AAAUGAC-------U---UG-----UCAUCCGCAGAUCUAUAUGGUGAUACCACCGGACGGCGGAUUCGGCUGGGUAAUCAUGGUGCUGUCCUUCCUCGCCCAGCUGAUAAUCGAUGGC
.......-------(---..-----((((((((...(((....((((....)))))))..))))))((((((((((......((......))......)))))))))).....))..). ( -36.50)
>DroWil_CAF1 15735 112 + 1
UAAUUAUUUGCCUUUCU-UG-----U-AUUGUUAGAUCUACAUGGUGAUACCACCAGAUGGUGGCUUUGGUUGGGUCAUCUUAAUCCUGAGUUUCCUAGCCCAACUAAUUGUCGAUGGU
.........(((..((.-..-----.-..........(((..(((((....)))))..))).(((.((((((((((...((((....)))).......))))))))))..))))).))) ( -27.70)
>DroYak_CAF1 12955 106 + 1
GAAUGAC-------UCG-UG-----UCAUUCACAGAUCUACAUGGUGAUACCACCGGACGGCGGAUUUGGCUGGGUCAUCAUGGUGCUGUCCUUUCUCGCCCAGCUAAUAAUCGAUGGU
(((((((-------...-.)-----)))))).((((((..(.(((((....)))))....)..))))))(((((((......((......))......))))))).............. ( -37.80)
>DroMoj_CAF1 5283 114 + 1
AACUGAC----AUUCGCUUGCAAUUACCU-CGUAGAUCUACAUGGCGAUCCCGCCGGACGGUGGCUUUGGCUGGGUCGUGCUCAUUCUCAGCUUUCUUGCCCAGCUCAUUGUGGAUGGC
......(----((((((..((...(((((-((((....))).(((((....))))))).))))))...((((((((...(((.......)))......))))))))....))))))).. ( -36.00)
>consensus
GAAUGAC_______UCU_UG_____UCAUCCACAGAUCUACAUGGUGAUACCACCGGACGGCGGAUUCGGCUGGGUAAUCAUGGUGCUGUCCUUCCUCGCCCAGCUGAUAAUCGAUGGU
..........................................(((((....)))))..((.(((..((((((((((......((......))......))))))))))...))).)).. (-23.79 = -22.85 +  -0.94)

alignment

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secondary structure

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dotplot

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Window 2

Location 10,184,453 – 10,184,573
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 74.67
Mean single sequence MFE -41.17
Consensus MFE -25.75
Energy contribution -26.07
Covariance contribution 0.31
Combinations/Pair 1.33
Mean z-score -2.33
Structure conservation index 0.63
SVM decision value 2.14
SVM RNA-class probability 0.988834
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10184453 120 + 20766785
AUAUGGUGAUACCACCGGACGGCGGAUUCGGUUGGGUAAUCAUGGUGCUGUCCUUCCUCGCCCAGCUGAUAAUCGAUGGUUUAAUUUUUACCAUUGGGGUCUUAUUGCCAUCCAUUGCCC
....((((....))))(((.(((((..((((((((((......((......))......))))))))))...((((((((.........)))))))).......))))).)))....... ( -41.50)
>DroEre_CAF1 17303 120 + 1
AUAUGGUGAUACCACCGGACGGCGGAUUCGGCUGGGUAAUCAUGGUGCUGUCCUUCCUCGCCCAGCUGAUAAUCGAUGGCCUUAUUUUUACCAUUGGAAUCCUAUUGCCCUCCAUUGCCA
....((((....))))(((.(((((((((((((((((......((......))......))))))))......((((((...........))))))))))))....))).)))....... ( -43.20)
>DroWil_CAF1 15767 120 + 1
ACAUGGUGAUACCACCAGAUGGUGGCUUUGGUUGGGUCAUCUUAAUCCUGAGUUUCCUAGCCCAACUAAUUGUCGAUGGUAUUAUAUUCUCAAUUGGCAUUCUCUUGCCCUACAUGAGCA
.(((((((((((((((....)))(((.((((((((((...((((....)))).......))))))))))..)))...))))))))..........((((......))))...)))).... ( -37.70)
>DroYak_CAF1 12981 120 + 1
ACAUGGUGAUACCACCGGACGGCGGAUUUGGCUGGGUCAUCAUGGUGCUGUCCUUUCUCGCCCAGCUAAUAAUCGAUGGUCUUAUAUUUACCAUCGGAGUCUUGUUGCCAUCCAUUGCCA
....((((....))))(((.(((((..((((((((((......((......))......))))))))))...((((((((.........)))))))).......))))).)))....... ( -43.20)
>DroMoj_CAF1 5317 120 + 1
ACAUGGCGAUCCCGCCGGACGGUGGCUUUGGCUGGGUCGUGCUCAUUCUCAGCUUUCUUGCCCAGCUCAUUGUGGAUGGCAUCAUUUUCUCGAUUGGCAUUCUGCUGCCCGCCAUGGAGA
.(((((((((((((((....))))((..(((((((((...(((.......)))......))))))).))..))))))((((((........))).(((.....))))))))))))).... ( -44.90)
>DroAna_CAF1 12070 120 + 1
ACAUGAUUAUACCACCGGACGGUGGCUUCGGCUGGUGGAUCAUGGUCCUCAGCUUCUUUUCCCAGGUGAUCGUUGACGGCAUCAUAUUCUCCAUUGGCAUCCUGCUGCCGGCAAUAAGCA
.((((((....(((((((.(((.....))).))))))))))))).......((((...((.((.((((.(((....)))))))............((((......)))))).)).)))). ( -36.50)
>consensus
ACAUGGUGAUACCACCGGACGGCGGAUUCGGCUGGGUCAUCAUGGUGCUGACCUUCCUCGCCCAGCUGAUAAUCGAUGGCAUUAUAUUCACCAUUGGCAUCCUGUUGCCCUCCAUUGCCA
....((((....))))(((.(((((..((((((((((......(........)......))))))))))...(((((((...........))))))).......))))).)))....... (-25.75 = -26.07 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:43:41 2006