Locus 7806

Sequence ID X_DroMel_CAF1
Location 19,458,712 – 19,458,855
Length 143
Max. P 0.999999
window12805 window12806 window12807

overview

Window 5

Location 19,458,712 – 19,458,828
Length 116
Sequences 3
Columns 116
Reading direction forward
Mean pairwise identity 64.78
Mean single sequence MFE -30.30
Consensus MFE -17.31
Energy contribution -17.67
Covariance contribution 0.35
Combinations/Pair 1.40
Mean z-score -3.56
Structure conservation index 0.57
SVM decision value 6.73
SVM RNA-class probability 0.999999
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19458712 116 + 22224390
UGGCCAACAUUGAUGUCCUACAUAUAUACAUAUAUGGGCAUUAAGUUAUGUUUCUAUGGGUCAUUGGAGAAGUUGGGCUUCGGUUACGCUGUUGAAACAUAAGUUAAUUGGUCCCA
.((((((..(((((((((...((((....))))..))))))))).(((((((((.((((((.(((((((........))))))).)).)))).))))))))).....))))))... ( -35.30)
>DroEre_CAF1 2562 90 + 1
UGGCC-------------------------UAUAUGAGCCUUAAGUUAUGUUUCUAUAGUCCAAUGAAUAAGUUGUGCUUUGGAUACUCUAUAGCAACAUAAUUUAAUUGUC-CAU
.((((-------------------------.....).)))((((((((((((.(((((((((((...((.....))...)))))....)))))).)))))))))))).....-... ( -23.70)
>DroYak_CAF1 2458 102 + 1
UGGCCAACAUUGAUAGCC------------CAUAUGGGC-UUAAAGUGUGUUGCUAUAGACUAUUGAAUAAGUUGUGAUUUAAACACUCUAUAGCAACAUCAUUUAAUUGUC-CCU
.((.(((((((...((((------------(....))))-)...)))))(((((((((((...((((((........))))))....)))))))))))..........)).)-).. ( -31.90)
>consensus
UGGCCAACAUUGAU__CC____________UAUAUGGGC_UUAAGUUAUGUUUCUAUAGACCAUUGAAUAAGUUGUGCUUUGGAUACUCUAUAGCAACAUAAUUUAAUUGUC_CCU
........................................(((((((((((((((((((....((((((........)))))).....)))))))))))))))))))......... (-17.31 = -17.67 +   0.35)

alignment

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secondary structure

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dotplot

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Window 6

Location 19,458,712 – 19,458,828
Length 116
Sequences 3
Columns 116
Reading direction reverse
Mean pairwise identity 64.78
Mean single sequence MFE -25.83
Consensus MFE -9.16
Energy contribution -12.38
Covariance contribution 3.23
Combinations/Pair 1.08
Mean z-score -3.34
Structure conservation index 0.35
SVM decision value 1.16
SVM RNA-class probability 0.923890
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19458712 116 - 22224390
UGGGACCAAUUAACUUAUGUUUCAACAGCGUAACCGAAGCCCAACUUCUCCAAUGACCCAUAGAAACAUAACUUAAUGCCCAUAUAUGUAUAUAUGUAGGACAUCAAUGUUGGCCA
..((.((((((((.(((((((((.....(((....((((.....))))....))).......))))))))).)))(((((.((((((....)))))).)).)))....))))))). ( -23.80)
>DroEre_CAF1 2562 90 - 1
AUG-GACAAUUAAAUUAUGUUGCUAUAGAGUAUCCAAAGCACAACUUAUUCAUUGGACUAUAGAAACAUAACUUAAGGCUCAUAUA-------------------------GGCCA
...-.....((((.(((((((.((((((....(((((...............))))))))))).))))))).))))((((......-------------------------)))). ( -20.76)
>DroYak_CAF1 2458 102 - 1
AGG-GACAAUUAAAUGAUGUUGCUAUAGAGUGUUUAAAUCACAACUUAUUCAAUAGUCUAUAGCAACACACUUUAA-GCCCAUAUG------------GGCUAUCAAUGUUGGCCA
.((-(....(((((((.((((((((((((.((((.................)))).)))))))))))))).)))))-.))).....------------(((((.......))))). ( -32.93)
>consensus
AGG_GACAAUUAAAUUAUGUUGCUAUAGAGUAUCCAAAGCACAACUUAUUCAAUGGACUAUAGAAACAUAACUUAA_GCCCAUAUA____________GG__AUCAAUGUUGGCCA
.........((((.((((((((((((((.............................)))))))))))))).)))).(((.((((.....................)))).))).. ( -9.16 = -12.38 +   3.23)

alignment

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secondary structure

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dotplot

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Window 7

Location 19,458,752 – 19,458,855
Length 103
Sequences 3
Columns 116
Reading direction forward
Mean pairwise identity 72.09
Mean single sequence MFE -25.37
Consensus MFE -18.21
Energy contribution -18.56
Covariance contribution 0.35
Combinations/Pair 1.36
Mean z-score -1.23
Structure conservation index 0.72
SVM decision value 0.61
SVM RNA-class probability 0.800100
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19458752 103 + 22224390
UUAAGUUAUGUUUCUAUGGGUCAUUGGAGAAGUUGGGCUUCGGUUACGCUGUUGAAACAUAAGUUAAUUGGUCCCAU-------------UGCUGAAUAGCUCCUCCACCAAGCUG
((((.(((((((((.((((((.(((((((........))))))).)).)))).))))))))).))))(((((.....-------------.(((....)))......))))).... ( -27.90)
>DroEre_CAF1 2577 112 + 1
UUAAGUUAUGUUUCUAUAGUCCAAUGAAUAAGUUGUGCUUUGGAUACUCUAUAGCAACAUAAUUUAAUUGUC-CAUUUGAUCGAAUAUCGUGCUGAAUAUC---GCCACCAAGCUG
((((((((((((.(((((((((((...((.....))...)))))....)))))).)))))))))))).....-................(((.((.....)---).)))....... ( -22.00)
>DroYak_CAF1 2485 112 + 1
UUAAAGUGUGUUGCUAUAGACUAUUGAAUAAGUUGUGAUUUAAACACUCUAUAGCAACAUCAUUUAAUUGUC-CCUUUGGUCGAAUAUCGUGCUGAAUAUC---GCCACCAAGCUG
...(((((((((((((((((...((((((........))))))....)))))))))))).))))).......-..(((((((((...((.....))...))---)..))))))... ( -26.20)
>consensus
UUAAGUUAUGUUUCUAUAGACCAUUGAAUAAGUUGUGCUUUGGAUACUCUAUAGCAACAUAAUUUAAUUGUC_CCUUUG_UCGAAUAUCGUGCUGAAUAUC___GCCACCAAGCUG
(((((((((((((((((((....((((((........)))))).....)))))))))))))))))))........................(((.................))).. (-18.21 = -18.56 +   0.35)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:47:59 2006