Locus 6472

Sequence ID 3L_DroMel_CAF1
Location 17,242,753 – 17,242,863
Length 110
Max. P 0.789171
window10427 window10428

overview

Window 7

Location 17,242,753 – 17,242,863
Length 110
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.92
Mean single sequence MFE -32.64
Consensus MFE -25.09
Energy contribution -25.69
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -1.88
Structure conservation index 0.77
SVM decision value 0.58
SVM RNA-class probability 0.789171
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17242753 110 + 23771897
GGCCAUAAAAAAG-----UGAGCAGGCAGGACAAGAAAGGCUUGAAACAAAAAGGCCGGCUAUGC-----UGUGCCUUUUGUGUUCCGACACGACUGUCAACAGCCAUUAAAUGCUCGAA
.............-----(((((((((.(((((((.....))))..((((((((((((((...))-----)).))))))).))))))((((....))))....)))......)))))).. ( -33.40)
>DroSec_CAF1 126617 110 + 1
GGCCAUAAAAAAG-----UGAGCAGGCAGGACAAGAAAGGCUUGAAACAAAAAGGAAGGCUGUGC-----UGUGCCUUUUGUGUUCCGACACGACUGUCAACAGCCAUUAAAUGCUCGCA
............(-----(((((((((.(((((((.....))))..(((....(((((((.....-----...))))))).))))))((((....))))....)))......))))))). ( -33.40)
>DroSim_CAF1 120512 110 + 1
GGCCAUAAAAAAG-----UGAGCAGGCAGGACAAGAAAGGCUUGAAACAAAAAGGCCGGCUAUGC-----UGUGCCUUUUGUGUUCCGACACGACUGUCAACAGCCAUUAAAUGCUCGAA
.............-----(((((((((.(((((((.....))))..((((((((((((((...))-----)).))))))).))))))((((....))))....)))......)))))).. ( -33.40)
>DroEre_CAF1 129759 107 + 1
GGCCAUAAAAAAG-----UGAGCAGGC-GGAC--GAAAGGCUUGAAACAAAAAGGCCGGCUAUUC-----CGUGCCUUUUGUGUUCCGACACGACUGUCAACAGCCAUUAAAUGCUCCAA
............(-----.((((((((-((((--....).......(((((((((((((.....)-----)).))))))).))))))((((....))))....)))......)))))).. ( -31.40)
>DroYak_CAF1 133299 118 + 1
GGCCAUAAAAAAGCAAGUUGAGCUGGCAGGAC--GAAAGGCUUGAAACAAAAAGGCCGCCUAUGCUGUGCUGUGCCUUUUGUGUUCCGACACGACUGUCAACAGCCAUUAAAUGCUCGAA
.................((((((((((.((((--(((((((.....(((.(.(((...))).)..))).....))))))))...)))((((....))))....))))......)))))). ( -31.60)
>consensus
GGCCAUAAAAAAG_____UGAGCAGGCAGGACAAGAAAGGCUUGAAACAAAAAGGCCGGCUAUGC_____UGUGCCUUUUGUGUUCCGACACGACUGUCAACAGCCAUUAAAUGCUCGAA
...................((((((((.(((((.(((((((............((....))............))))))).))))).((((....))))....)))......)))))... (-25.09 = -25.69 +   0.60)

alignment

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secondary structure

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dotplot

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Window 8

Location 17,242,753 – 17,242,863
Length 110
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.92
Mean single sequence MFE -31.48
Consensus MFE -26.55
Energy contribution -26.75
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.40
Structure conservation index 0.84
SVM decision value 0.41
SVM RNA-class probability 0.726722
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17242753 110 - 23771897
UUCGAGCAUUUAAUGGCUGUUGACAGUCGUGUCGGAACACAAAAGGCACA-----GCAUAGCCGGCCUUUUUGUUUCAAGCCUUUCUUGUCCUGCCUGCUCA-----CUUUUUUAUGGCC
...(((((....(((((((....)))))))...((((((.(((((((.(.-----((...)).))))))))))))))...................))))).-----............. ( -30.80)
>DroSec_CAF1 126617 110 - 1
UGCGAGCAUUUAAUGGCUGUUGACAGUCGUGUCGGAACACAAAAGGCACA-----GCACAGCCUUCCUUUUUGUUUCAAGCCUUUCUUGUCCUGCCUGCUCA-----CUUUUUUAUGGCC
...(((((....(((((((....)))))))((.(((.((..((((((...-----..((((.........)))).....))))))..))))).)).))))).-----............. ( -27.90)
>DroSim_CAF1 120512 110 - 1
UUCGAGCAUUUAAUGGCUGUUGACAGUCGUGUCGGAACACAAAAGGCACA-----GCAUAGCCGGCCUUUUUGUUUCAAGCCUUUCUUGUCCUGCCUGCUCA-----CUUUUUUAUGGCC
...(((((....(((((((....)))))))...((((((.(((((((.(.-----((...)).))))))))))))))...................))))).-----............. ( -30.80)
>DroEre_CAF1 129759 107 - 1
UUGGAGCAUUUAAUGGCUGUUGACAGUCGUGUCGGAACACAAAAGGCACG-----GAAUAGCCGGCCUUUUUGUUUCAAGCCUUUC--GUCC-GCCUGCUCA-----CUUUUUUAUGGCC
...(((((....(((((((....)))))))...((((((.(((((((.((-----(.....)))))))))))))))).........--....-...))))).-----............. ( -34.60)
>DroYak_CAF1 133299 118 - 1
UUCGAGCAUUUAAUGGCUGUUGACAGUCGUGUCGGAACACAAAAGGCACAGCACAGCAUAGGCGGCCUUUUUGUUUCAAGCCUUUC--GUCCUGCCAGCUCAACUUGCUUUUUUAUGGCC
...((((.....(((((((....)))))))...((((((.(((((((...((.(......))).))))))))))))).........--.........)))).....(((.......))). ( -33.30)
>consensus
UUCGAGCAUUUAAUGGCUGUUGACAGUCGUGUCGGAACACAAAAGGCACA_____GCAUAGCCGGCCUUUUUGUUUCAAGCCUUUCUUGUCCUGCCUGCUCA_____CUUUUUUAUGGCC
...((((.....(((((((....)))))))...((((((.(((((((.................)))))))))))))....................))))................... (-26.55 = -26.75 +   0.20)

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 12:20:20 2006