Locus 1650

Sequence ID 2R_DroMel_CAF1
Location 6,235,570 – 6,235,663
Length 93
Max. P 0.934496
window2756 window2757

overview

Window 6

Location 6,235,570 – 6,235,663
Length 93
Sequences 5
Columns 105
Reading direction forward
Mean pairwise identity 74.60
Mean single sequence MFE -19.56
Consensus MFE -6.72
Energy contribution -6.76
Covariance contribution 0.04
Combinations/Pair 1.09
Mean z-score -1.81
Structure conservation index 0.34
SVM decision value 0.30
SVM RNA-class probability 0.677885
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6235570 93 + 20766785
GUAGAGGAGCACGUAAAUUAACAUAGUGUAGCGUAGAUGCAAAUAUAGAAAUGUAGCUAGAUUUA------------UUUGUAUGUGUACGUACCUGCAGCAUAA
(((((.(.(((((((.........(((.((((((....))...((((....)))))))).)))..------------....))))))).).)..))))....... ( -18.46)
>DroSec_CAF1 66676 105 + 1
GUAGAGGAGCACGUAAAUUAACAUAGUGUAGCGUAGAUGCAAAUAUAGAAAUAUGGCUAGAUACAUAUGUACAUAUAUGUGUAUACAUACGUACCUGCAGAAUAA
((((....((((.............)))).(((((.(((((.(((((...(((((........))))).....))))).)))))...)))))..))))....... ( -23.52)
>DroSim_CAF1 68405 105 + 1
GUAGAGGAGCACGUAAAUUAACAUAGUGUAGCGUAGAUGCAAAUAUAGAAAUAUAGCUAGAUACAUAUGUACAUAUAUGUGUAUACAUACGUACCUGCAGCCUAA
....(((.((((.............))))...((((.(((...((((....)))).....((((((((((....))))))))))......))).))))..))).. ( -22.72)
>DroEre_CAF1 68778 78 + 1
GUAGAGGAGCACGUAAAUU-----AGUGUAGCGUGUAUGCCAAUUUAGAAAUAUAGUUGGAUACCUAUA------------UAU----------UUUCAUCAUAA
(((.(((.((((((.....-----......))))))...((((((((....)).))))))...))).))------------)..----------........... ( -15.20)
>DroYak_CAF1 69894 83 + 1
GUAGAGGAGCACGUAAAUU-----AGUGUAGCGUAGAUGCAAAUAUAGAAAUAUAGUUGGAUUUAUAUA------------UAUACAUA-----CUGCAUCAUAA
((((....((((.......-----.))))...((((((.(((.((((....)))).))).))))))...------------........-----))))....... ( -17.90)
>consensus
GUAGAGGAGCACGUAAAUUAACAUAGUGUAGCGUAGAUGCAAAUAUAGAAAUAUAGCUAGAUACAUAUA________U_UGUAUACAUACGUACCUGCAGCAUAA
((((....((((.............)))).(((....)))......................................................))))....... ( -6.72 =  -6.76 +   0.04)

alignment

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secondary structure

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dotplot

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Window 7

Location 6,235,570 – 6,235,663
Length 93
Sequences 5
Columns 105
Reading direction reverse
Mean pairwise identity 74.60
Mean single sequence MFE -15.42
Consensus MFE -0.80
Energy contribution -0.80
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.96
Structure conservation index 0.05
SVM decision value 1.24
SVM RNA-class probability 0.934496
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6235570 93 - 20766785
UUAUGCUGCAGGUACGUACACAUACAAA------------UAAAUCUAGCUACAUUUCUAUAUUUGCAUCUACGCUACACUAUGUUAAUUUACGUGCUCCUCUAC
..........((((((((.....(((..------------.((((.(((........))).))))((......)).......))).....))))))))....... ( -11.30)
>DroSec_CAF1 66676 105 - 1
UUAUUCUGCAGGUACGUAUGUAUACACAUAUAUGUACAUAUGUAUCUAGCCAUAUUUCUAUAUUUGCAUCUACGCUACACUAUGUUAAUUUACGUGCUCCUCUAC
.......(((((((((((((((((........))))))))))))))).((.((((....))))..))......)).....(((((......)))))......... ( -21.20)
>DroSim_CAF1 68405 105 - 1
UUAGGCUGCAGGUACGUAUGUAUACACAUAUAUGUACAUAUGUAUCUAGCUAUAUUUCUAUAUUUGCAUCUACGCUACACUAUGUUAAUUUACGUGCUCCUCUAC
...(((.(((((((((((((((((........))))))))))))))).((.((((....))))..))......))......((((......)))))))....... ( -23.50)
>DroEre_CAF1 68778 78 - 1
UUAUGAUGAAA----------AUA------------UAUAGGUAUCCAACUAUAUUUCUAAAUUGGCAUACACGCUACACU-----AAUUUACGUGCUCCUCUAC
.((((.((((.----------..(------------(((((........))))))........((((......))))....-----..))))))))......... (  -7.90)
>DroYak_CAF1 69894 83 - 1
UUAUGAUGCAG-----UAUGUAUA------------UAUAUAAAUCCAACUAUAUUUCUAUAUUUGCAUCUACGCUACACU-----AAUUUACGUGCUCCUCUAC
....(((((((-----.(((((..------------.(((((........)))))...)))))))))))).......(((.-----.......)))......... ( -13.20)
>consensus
UUAUGCUGCAGGUACGUAUGUAUACA_A________CAUAUGUAUCUAGCUAUAUUUCUAUAUUUGCAUCUACGCUACACUAUGUUAAUUUACGUGCUCCUCUAC
.................................................................((((........................))))........ ( -0.80 =  -0.80 +  -0.00)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:09:43 2006