Locus 1082

Sequence ID 2R_DroMel_CAF1
Location 4,375,358 – 4,375,452
Length 94
Max. P 0.984490
window1913 window1914

overview

Window 3

Location 4,375,358 – 4,375,452
Length 94
Sequences 5
Columns 94
Reading direction forward
Mean pairwise identity 97.66
Mean single sequence MFE -20.28
Consensus MFE -20.34
Energy contribution -20.18
Covariance contribution -0.16
Combinations/Pair 1.04
Mean z-score -1.59
Structure conservation index 1.00
SVM decision value 1.98
SVM RNA-class probability 0.984490
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4375358 94 + 20766785
GCCUCGUUUCCCCGGCUACGCAAUACAGCUGUAUAUGUAUGUAAUGCAUAUUUAUAGGCGCCCCUAACUUUUGUUUAUGGCACACAAUAAAUAC
(((.........(((((.........)))))((((.(((((.....))))).)))))))(((...(((....)))...)))............. ( -20.20)
>DroSec_CAF1 45996 94 + 1
GCCUCGUUUCCCCGGCUACGCAAUACAGCUGUAUAUGUAUGUAAUGCAUAUUUAUAGGCGCCCCUAACUUUUGUUUAUGGCACACAAUAAAUAC
(((.........(((((.........)))))((((.(((((.....))))).)))))))(((...(((....)))...)))............. ( -20.20)
>DroSim_CAF1 46216 94 + 1
GCCUCGUUUCCCCGGCUACGCAAUACAGCUGUAUAUGUAUGUAAUGCAUAUUUAUAGGCGCCCCUAACUUUUGUUUAUGGCACACAAUAAAUAC
(((.........(((((.........)))))((((.(((((.....))))).)))))))(((...(((....)))...)))............. ( -20.20)
>DroEre_CAF1 42638 94 + 1
GCCUCGUUUCCCCGGCUACGCCAUGCAGCUGUAUAUAUAUGUAAUGCAUAUUUAUAGGCGCCCCUAACUUUUGUUUAUGGCACACAAUAAAUAC
(((.........(((((.(.....).)))))((((.(((((.....))))).)))))))(((...(((....)))...)))............. ( -20.60)
>DroYak_CAF1 44480 94 + 1
GCCUCGUUUUCCCGGCUACUCCAUACAGCUGUAUAUGUAUGUAAUGCAUAUUUAUAGGCGCCCCUAACUUUUGUUUAUGGCACACAAUAAAUAC
(((.........(((((.........)))))((((.(((((.....))))).)))))))(((...(((....)))...)))............. ( -20.20)
>consensus
GCCUCGUUUCCCCGGCUACGCAAUACAGCUGUAUAUGUAUGUAAUGCAUAUUUAUAGGCGCCCCUAACUUUUGUUUAUGGCACACAAUAAAUAC
(((.........(((((.........)))))((((.(((((.....))))).)))))))(((...(((....)))...)))............. (-20.34 = -20.18 +  -0.16)

alignment

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secondary structure

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dotplot

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Window 4

Location 4,375,358 – 4,375,452
Length 94
Sequences 5
Columns 94
Reading direction reverse
Mean pairwise identity 97.66
Mean single sequence MFE -25.38
Consensus MFE -21.98
Energy contribution -22.78
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -1.91
Structure conservation index 0.87
SVM decision value 1.35
SVM RNA-class probability 0.944889
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4375358 94 - 20766785
GUAUUUAUUGUGUGCCAUAAACAAAAGUUAGGGGCGCCUAUAAAUAUGCAUUACAUACAUAUACAGCUGUAUUGCGUAGCCGGGGAAACGAGGC
((((((((.(.(((((...(((....)))...)))))).))))))))(((.((((............)))).)))...(((..(....)..))) ( -26.50)
>DroSec_CAF1 45996 94 - 1
GUAUUUAUUGUGUGCCAUAAACAAAAGUUAGGGGCGCCUAUAAAUAUGCAUUACAUACAUAUACAGCUGUAUUGCGUAGCCGGGGAAACGAGGC
((((((((.(.(((((...(((....)))...)))))).))))))))(((.((((............)))).)))...(((..(....)..))) ( -26.50)
>DroSim_CAF1 46216 94 - 1
GUAUUUAUUGUGUGCCAUAAACAAAAGUUAGGGGCGCCUAUAAAUAUGCAUUACAUACAUAUACAGCUGUAUUGCGUAGCCGGGGAAACGAGGC
((((((((.(.(((((...(((....)))...)))))).))))))))(((.((((............)))).)))...(((..(....)..))) ( -26.50)
>DroEre_CAF1 42638 94 - 1
GUAUUUAUUGUGUGCCAUAAACAAAAGUUAGGGGCGCCUAUAAAUAUGCAUUACAUAUAUAUACAGCUGCAUGGCGUAGCCGGGGAAACGAGGC
((((((((.(.(((((...(((....)))...)))))).))))))))..............(((.(((....))))))(((..(....)..))) ( -24.60)
>DroYak_CAF1 44480 94 - 1
GUAUUUAUUGUGUGCCAUAAACAAAAGUUAGGGGCGCCUAUAAAUAUGCAUUACAUACAUAUACAGCUGUAUGGAGUAGCCGGGAAAACGAGGC
((((((((.(.(((((...(((....)))...)))))).))))))))......((((((........)))))).....(((.(.....)..))) ( -22.80)
>consensus
GUAUUUAUUGUGUGCCAUAAACAAAAGUUAGGGGCGCCUAUAAAUAUGCAUUACAUACAUAUACAGCUGUAUUGCGUAGCCGGGGAAACGAGGC
((((((((.(.(((((...(((....)))...)))))).))))))))(((.((((............)))).)))...(((..(....)..))) (-21.98 = -22.78 +   0.80)

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 09:56:01 2006