Locus 5720

Sequence ID X_DroMel_CAF1
Location 14,810,476 – 14,810,583
Length 107
Max. P 0.873738
window9279 window9280

overview

Window 9

Location 14,810,476 – 14,810,583
Length 107
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 70.15
Mean single sequence MFE -31.94
Consensus MFE -8.68
Energy contribution -10.36
Covariance contribution 1.68
Combinations/Pair 1.07
Mean z-score -1.99
Structure conservation index 0.27
SVM decision value 0.88
SVM RNA-class probability 0.873738
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14810476 107 + 22224390
ACCC-AGCUUUAAAGA---CUCCAC--------GUUUU-GCCCCUGCCAUGCUGCCUACCAAGCAGAAGGUCAAAGCAUGGCGAAUGCCUUGCAAAAAAUGUAAAAGGAAGGAAACGCUG
...(-(((........---.(((..--------.....-((...(((((((((....(((........)))...)))))))))...)).(((((.....)))))..))).(....))))) ( -30.30)
>DroSec_CAF1 4531 107 + 1
GCCC-AGCUUUAAAGAGCACCCCUC--------UUUUUGACCCCUGCCAUGC----UACCAAGCAGAAGGUCAAAGCAUGGCGAAUGCCUUGCAAAAAAUGUAAAAGGAAGGAAACGCUG
...(-(((...((((((.....)))--------)))......((((((((((----((((........)))...)))))))).....(((((((.....))))..))).)))....)))) ( -30.40)
>DroSim_CAF1 3736 115 + 1
GCCC-AGCUUUAAAGAGCACCCCCCUCCCUCCUUUUUUGACCCCUGCCACGC----UACCAAGCAGAAGGUCAAAGCAUGGCGAAUGCCUUGCAAAAAAUGUAAAAGGAAGGAAACGCUG
((..-.((((....)))).......(((.(((((((((((((.((((.....----......))))..)))))))(((.(((....))).)))..........)))))).)))...)).. ( -35.20)
>DroEre_CAF1 9718 103 + 1
ACCC-AGCUUUAAAGA---CCCCUC--------CUUUU-GCUCCCGCCACGC----UACCGAGCAGAAGGUCAAAGCAUGGCGAGUGCCUUGCAAAAAAUGUAAAAGGAAGGAAACGCUG
...(-(((........---....((--------(((((-((...(((((.((----((((........)))...))).)))))..(((...)))......))))))))).(....))))) ( -32.70)
>DroAna_CAF1 32088 90 + 1
ACCCCAGAGUCGGAGG------------------AGUC-GCUGCCUCCAUUUUGC--------GAGAAGGUCAAAG--UGGCAAGCGGCCUGGGGGAUGGGGGGCAGGAACCAAACACA-
.((((((..((....)------------------)(((-(((....(((((((((--------......).)))))--)))..))))))))))))..((..((.......))...))..- ( -31.10)
>consensus
ACCC_AGCUUUAAAGA___CCCCUC________UUUUU_GCCCCUGCCAUGC____UACCAAGCAGAAGGUCAAAGCAUGGCGAAUGCCUUGCAAAAAAUGUAAAAGGAAGGAAACGCUG
..........................................(((.((.........(((........)))....(((.(((....))).))).............)).)))........ ( -8.68 = -10.36 +   1.68)

alignment

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secondary structure

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dotplot

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Window 0

Location 14,810,476 – 14,810,583
Length 107
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 70.15
Mean single sequence MFE -35.87
Consensus MFE -13.06
Energy contribution -14.34
Covariance contribution 1.28
Combinations/Pair 1.24
Mean z-score -1.82
Structure conservation index 0.36
SVM decision value 0.42
SVM RNA-class probability 0.727483
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14810476 107 - 22224390
CAGCGUUUCCUUCCUUUUACAUUUUUUGCAAGGCAUUCGCCAUGCUUUGACCUUCUGCUUGGUAGGCAGCAUGGCAGGGGC-AAAAC--------GUGGAG---UCUUUAAAGCU-GGGU
((((.........(((...(((.((((((..(((....)))...(((((.((..(((((.....)))))...)))))))))-)))).--------))))))---........)))-)... ( -30.53)
>DroSec_CAF1 4531 107 - 1
CAGCGUUUCCUUCCUUUUACAUUUUUUGCAAGGCAUUCGCCAUGCUUUGACCUUCUGCUUGGUA----GCAUGGCAGGGGUCAAAAA--------GAGGGGUGCUCUUUAAAGCU-GGGC
((((((.((((((..............(((.(((....))).)))((((((((.(((((((...----.)).)))))))))))))..--------)))))).))........)))-)... ( -35.90)
>DroSim_CAF1 3736 115 - 1
CAGCGUUUCCUUCCUUUUACAUUUUUUGCAAGGCAUUCGCCAUGCUUUGACCUUCUGCUUGGUA----GCGUGGCAGGGGUCAAAAAAGGAGGGAGGGGGGUGCUCUUUAAAGCU-GGGC
((((...(((((((((((.........(((.(((....))).))).(((((((.(((((.....----....)))))))))))))))))))))))((((....)))).....)))-)... ( -46.40)
>DroEre_CAF1 9718 103 - 1
CAGCGUUUCCUUCCUUUUACAUUUUUUGCAAGGCACUCGCCAUGCUUUGACCUUCUGCUCGGUA----GCGUGGCGGGAGC-AAAAG--------GAGGGG---UCUUUAAAGCU-GGGU
((((...(((((((((((.((.....))....((.(((((((((((((((.(....).)))).)----)))))))))).))-)))))--------))))))---........)))-)... ( -42.20)
>DroAna_CAF1 32088 90 - 1
-UGUGUUUGGUUCCUGCCCCCCAUCCCCCAGGCCGCUUGCCA--CUUUGACCUUCUC--------GCAAAAUGGAGGCAGC-GACU------------------CCUCCGACUCUGGGGU
-.(((...(((....)))...))).((((((((.((((.(((--.((((.(......--------))))).))))))).))-((..------------------..)).....)))))). ( -24.30)
>consensus
CAGCGUUUCCUUCCUUUUACAUUUUUUGCAAGGCAUUCGCCAUGCUUUGACCUUCUGCUUGGUA____GCAUGGCAGGGGC_AAAAA________GAGGGG___UCUUUAAAGCU_GGGU
...........(((..............((((((((.....))))))))..((((((((((........)).))))))))....................................))). (-13.06 = -14.34 +   1.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:43 2006