Locus 3760

Sequence ID 3L_DroMel_CAF1
Location 10,886,217 – 10,886,349
Length 132
Max. P 0.658874
window5867 window5868

overview

Window 7

Location 10,886,217 – 10,886,312
Length 95
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 80.54
Mean single sequence MFE -36.65
Consensus MFE -21.84
Energy contribution -22.71
Covariance contribution 0.86
Combinations/Pair 1.14
Mean z-score -1.87
Structure conservation index 0.60
SVM decision value 0.26
SVM RNA-class probability 0.658874
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10886217 95 - 23771897
CCAG----CAGGA----CGAGCCAUUCAUUCAUUUGGUUUUUAUGAGCCGAGGCGGCAAGCGGCGAUGAAUGUGCAGCAGGAUCUGCUG-------GUCGUCCUGU---UUGC
..((----(((((----(((((((((((((..((((((((....))))))))((.(....).)))))))))).))(((((...))))).-------.)))))))))---)... ( -41.50)
>DroSec_CAF1 18554 95 - 1
CAGG----CAGGA----CUAGCCAUUCAUUCAUUUGGUUUUUAUGAGCCGAGGCGGCAAGCGGCGAUGAAUGUGCAGCAGGAUCUGCAG-------GUCGUCCUGU---UUGC
((((----(((((----(..((((((((((..((((((((....))))))))((.(....).)))))))))).)).((((...))))..-------...)))))))---))). ( -40.10)
>DroSim_CAF1 14447 95 - 1
CAGG----CAGGA----CUAGCCAUUCAUUCAUUUGGUUUUUAUGAGCCGAGGCGGCAAGCGGCGAUGAAUGUGCAGCAGGAUCUGCAG-------GUCGUCCUGU---UUGC
((((----(((((----(..((((((((((..((((((((....))))))))((.(....).)))))))))).)).((((...))))..-------...)))))))---))). ( -40.10)
>DroEre_CAF1 17469 102 - 1
CAGC----CAGCAGAAGCCAGCCACUCAUUCAUUUGGUUUUUAUGAGCCGAGGCGGCAAGCGGCGAUGAAUGUGCAGCAGGAUCUGCAG-------GUCGUCCAGUGUCCUGC
..((----(.(((((..((.((..(.((((((((((((((....))))))).((.(....).)).))))))).)..)).)).))))).)-------))....(((....))). ( -31.90)
>DroYak_CAF1 15421 102 - 1
CAGCAGGCCAGGAGUAG-AAGCCAUUCAUUCAUUUGGUUUUUAUGAGCCGAGGCGGCGAGUGGCGAUGAAUGUGCAGCAGGAUCUGCAG-------GUCGUCCUGU---UUGC
......(((.((.((((-((((((..........))))))))))...))..))).(((((..(.(((((.(.(((((......))))).-------)))))))..)---)))) ( -37.80)
>DroAna_CAF1 7720 103 - 1
CUGG----CAUAGAGAG-AGAGCAGCCAUUCAUUUGGUUUUUAUGAGCCGGGGCAGCAAGUGGCGAUGAAUGUGCUA--CGACCUGGACGAGGAUAGAGGUCCUGU---UUCU
....----...(((((.-((.(.(((((((((((((((((....)))))).....((.....)))))))))).))).--)(((((............))))))).)---)))) ( -28.50)
>consensus
CAGG____CAGGA____CAAGCCAUUCAUUCAUUUGGUUUUUAUGAGCCGAGGCGGCAAGCGGCGAUGAAUGUGCAGCAGGAUCUGCAG_______GUCGUCCUGU___UUGC
....................((((((((((..((((((((....))))))))((.(....).)))))))))).)).(((((((................)))))))....... (-21.84 = -22.71 +   0.86)

alignment

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secondary structure

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dotplot

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Window 8

Location 10,886,247 – 10,886,349
Length 102
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 84.65
Mean single sequence MFE -39.23
Consensus MFE -24.47
Energy contribution -25.08
Covariance contribution 0.61
Combinations/Pair 1.14
Mean z-score -3.30
Structure conservation index 0.62
SVM decision value 0.25
SVM RNA-class probability 0.654051
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10886247 102 - 23771897
--UUCUGUUUCGCAUUUUU-UCGCCACUUGGCUCAGGCUUCCAG----CAGGA----CGAGCCAUUCAUUCAUUUGGUUUUUAUGAGCCGAGGCGGCAAGCGGCGAUGAAUGU
--.........((((((..-(((((.((((((((((((((((..----..)))----..))))..(((......)))......)))))))))((.....))))))).)))))) ( -39.60)
>DroSec_CAF1 18584 102 - 1
--UUCUGUUUCGCAUUUUU-UCGCCACUUGGCUCAGGCUUCAGG----CAGGA----CUAGCCAUUCAUUCAUUUGGUUUUUAUGAGCCGAGGCGGCAAGCGGCGAUGAAUGU
--.........((((((..-(((((.(((((((((((((..((.----.....----))))))..(((......)))......)))))))))((.....))))))).)))))) ( -37.10)
>DroSim_CAF1 14477 102 - 1
--UUCUGUUUCGCAUUUUU-UCGCCACUUGGCUCAGGCUUCAGG----CAGGA----CUAGCCAUUCAUUCAUUUGGUUUUUAUGAGCCGAGGCGGCAAGCGGCGAUGAAUGU
--.........((((((..-(((((.(((((((((((((..((.----.....----))))))..(((......)))......)))))))))((.....))))))).)))))) ( -37.10)
>DroEre_CAF1 17502 105 - 1
--UUCUGUUUCGCAUUUUU-UCGCCACUUGCCUC-GGCUUCAGC----CAGCAGAAGCCAGCCACUCAUUCAUUUGGUUUUUAUGAGCCGAGGCGGCAAGCGGCGAUGAAUGU
--.........((((((..-(((((.((((((..-((((((...----.....)))))).(((..........(((((((....)))))))))))))))).))))).)))))) ( -44.40)
>DroYak_CAF1 15451 110 - 1
GUUUCUGUUUCGCAUUUUU-UCGCCACUUGCCUC-GACUUCAGCAGGCCAGGAGUAG-AAGCCAUUCAUUCAUUUGGUUUUUAUGAGCCGAGGCGGCGAGUGGCGAUGAAUGU
...........((((((..-((((((((((((..-(....).....(((.((.((((-((((((..........))))))))))...))..))))))))))))))).)))))) ( -45.80)
>DroAna_CAF1 7755 103 - 1
--UUCUGUUUCGCAUUUUUUUCGCAGUUUUGC---AGCUUCUGG----CAUAGAGAG-AGAGCAGCCAUUCAUUUGGUUUUUAUGAGCCGGGGCAGCAAGUGGCGAUGAAUGU
--.........((((((...((((...(((((---.(((.((((----(.((...((-(((.(((........))).))))).)).)))))))).)))))..)))).)))))) ( -31.40)
>consensus
__UUCUGUUUCGCAUUUUU_UCGCCACUUGGCUC_GGCUUCAGG____CAGGA____CAAGCCAUUCAUUCAUUUGGUUUUUAUGAGCCGAGGCGGCAAGCGGCGAUGAAUGU
...........((((((...(((((.((((.(...((((....................)))).........((((((((....))))))))..).)))).))))).)))))) (-24.47 = -25.08 +   0.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:02 2006