Locus 6140

Sequence ID X_DroMel_CAF1
Location 15,705,030 – 15,705,181
Length 151
Max. P 0.828279
window9987 window9988 window9989

overview

Window 7

Location 15,705,030 – 15,705,149
Length 119
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 85.39
Mean single sequence MFE -23.44
Consensus MFE -15.05
Energy contribution -14.62
Covariance contribution -0.44
Combinations/Pair 1.17
Mean z-score -2.48
Structure conservation index 0.64
SVM decision value 0.28
SVM RNA-class probability 0.666373
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15705030 119 + 22224390
CUUUUGCUUAACAAAUUCCCUUCAAAUGCAAAGCAAAUGCUUGCUGUUACAGCUUUAAAAUGUGAUUUUCUUAU-UUUUCUAAGUGGGAAUGUCCCAUUUAGUUUCAAAUAUAUACAUAC
.....((((((((..............((((.((....))))))))))).)))......(((((.......(((-((..(((((((((.....)))))))))....)))))..))))).. ( -22.83)
>DroSec_CAF1 16217 116 + 1
CUUUUGUUUAACAAAUUCGUUUCCAAUGCAAAUU---UAUUUGCUGCAACAGCUUUAAAAUUUGAUUUUCUUAU-UUUUCUAAGUGGGAAUGUCCCAUUUAGUUUCAAAUAUAUACAUAC
..((((.....)))).............((((((---(....((((...))))....))))))).......(((-((..(((((((((.....)))))))))....)))))......... ( -21.20)
>DroEre_CAF1 16018 116 + 1
CUU-UGUGUAAGAAAUUUGUUACCAAUGCAAAUU---UAUGUGUUGCAACAGCUUUAAAAUUUGAGUUUCUUUUUUUUUCUAAGUGGGAAUGUCCCAUUUAGUUCCAUAUAUAUACAUAC
...-((((((..((((((((.......)))))))---)(((((..((...(((((........)))))............((((((((.....))))))))))..))))).))))))... ( -26.30)
>consensus
CUUUUGUUUAACAAAUUCGUUUCCAAUGCAAAUU___UAUUUGCUGCAACAGCUUUAAAAUUUGAUUUUCUUAU_UUUUCUAAGUGGGAAUGUCCCAUUUAGUUUCAAAUAUAUACAUAC
..(((((....................))))).....(((((((((...))))..........................(((((((((.....)))))))))....)))))......... (-15.05 = -14.62 +  -0.44)

alignment

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secondary structure

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dotplot

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Window 8

Location 15,705,070 – 15,705,181
Length 111
Sequences 3
Columns 113
Reading direction forward
Mean pairwise identity 92.28
Mean single sequence MFE -27.53
Consensus MFE -21.41
Energy contribution -21.30
Covariance contribution -0.11
Combinations/Pair 1.08
Mean z-score -3.12
Structure conservation index 0.78
SVM decision value 0.71
SVM RNA-class probability 0.828279
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15705070 111 + 22224390
UUGCUGUUACAGCUUUAAAAUGUGAUUUUCUUAU-UUUUCUAAGUGGGAAUGUCCCAUUUAGUUUCAAAUAUAUACAUACAUAUGUGGGUCAAUGUAGCACCUACUCAA-AAA
..((((...))))......(((((.......(((-((..(((((((((.....)))))))))....)))))......)))))..(((((((......).))))))....-... ( -25.42)
>DroSec_CAF1 16254 111 + 1
UUGCUGCAACAGCUUUAAAAUUUGAUUUUCUUAU-UUUUCUAAGUGGGAAUGUCCCAUUUAGUUUCAAAUAUAUACAUACAUAUGUGGGUCAAUGUAGCAUCUAUUCAA-AAA
.(((((((...(((.....((((((.........-....(((((((((.....)))))))))..))))))...(((((....))))))))...))))))).........-... ( -26.16)
>DroEre_CAF1 16054 113 + 1
GUGUUGCAACAGCUUUAAAAUUUGAGUUUCUUUUUUUUUCUAAGUGGGAAUGUCCCAUUUAGUUCCAUAUAUAUACAUACAUAUGUGGGUCAAUGUAGCACCUACUCAAAAAA
((((((((..(((((........)))))...........(((((((((.....))))))))).(((((((((........)))))))))....))))))))............ ( -31.00)
>consensus
UUGCUGCAACAGCUUUAAAAUUUGAUUUUCUUAU_UUUUCUAAGUGGGAAUGUCCCAUUUAGUUUCAAAUAUAUACAUACAUAUGUGGGUCAAUGUAGCACCUACUCAA_AAA
.(((((((...(((.........................(((((((((.....)))))))))...........(((((....))))))))...)))))))............. (-21.41 = -21.30 +  -0.11)

alignment

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secondary structure

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dotplot

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Window 9

Location 15,705,070 – 15,705,181
Length 111
Sequences 3
Columns 113
Reading direction reverse
Mean pairwise identity 92.28
Mean single sequence MFE -24.50
Consensus MFE -19.23
Energy contribution -19.23
Covariance contribution 0.01
Combinations/Pair 1.10
Mean z-score -2.67
Structure conservation index 0.78
SVM decision value 0.44
SVM RNA-class probability 0.738513
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15705070 111 - 22224390
UUU-UUGAGUAGGUGCUACAUUGACCCACAUAUGUAUGUAUAUAUUUGAAACUAAAUGGGACAUUCCCACUUAGAAAA-AUAAGAAAAUCACAUUUUAAAGCUGUAACAGCAA
.((-(..((((.(((((((((((.....)).))))).)))).))))..)))((((.((((.....)))).))))....-.....................((((...)))).. ( -24.30)
>DroSec_CAF1 16254 111 - 1
UUU-UUGAAUAGAUGCUACAUUGACCCACAUAUGUAUGUAUAUAUUUGAAACUAAAUGGGACAUUCCCACUUAGAAAA-AUAAGAAAAUCAAAUUUUAAAGCUGUUGCAGCAA
.((-(..((((.(((((((((((.....)).))))).)))).))))..)))((((.((((.....)))).))))....-.....................((((...)))).. ( -24.00)
>DroEre_CAF1 16054 113 - 1
UUUUUUGAGUAGGUGCUACAUUGACCCACAUAUGUAUGUAUAUAUAUGGAACUAAAUGGGACAUUCCCACUUAGAAAAAAAAAGAAACUCAAAUUUUAAAGCUGUUGCAACAC
...(((((((.((..(......)..)).((((((((....))))))))...((((.((((.....)))).))))............))))))).......((....))..... ( -25.20)
>consensus
UUU_UUGAGUAGGUGCUACAUUGACCCACAUAUGUAUGUAUAUAUUUGAAACUAAAUGGGACAUUCCCACUUAGAAAA_AUAAGAAAAUCAAAUUUUAAAGCUGUUGCAGCAA
....(((((((.(((((((((((.....)).))))).)))).)))))))..((((.((((.....)))).))))..........................((((...)))).. (-19.23 = -19.23 +   0.01)

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 12:05:20 2006