Locus 6463

Sequence ID 2R_DroMel_CAF1
Location 20,210,952 – 20,211,052
Length 100
Max. P 0.913562
window10306 window10307

overview

Window 6

Location 20,210,952 – 20,211,052
Length 100
Sequences 6
Columns 118
Reading direction forward
Mean pairwise identity 75.60
Mean single sequence MFE -33.05
Consensus MFE -19.49
Energy contribution -20.96
Covariance contribution 1.47
Combinations/Pair 1.20
Mean z-score -1.87
Structure conservation index 0.59
SVM decision value 1.09
SVM RNA-class probability 0.913562
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20210952 100 + 20766785
GUUCAAUCAUGCGAGG---GAGUUCGUUUCCCCAAGCUCGUGAAAUGGCCAAAAUAGUGCUGAGUG---------------GUGCAUCGAGACCUGCACUCAUUUUGUUUUGGCCAUG
.((((.....((..((---(((.....)))))...))...))))((((((((((((.....(((((---------------(((((........))))).))))))))))))))))). ( -36.30)
>DroSec_CAF1 4152 100 + 1
GUUCAAUCAUGCGAGG---GAGCUCGUUUCCCCGAGCUCGUGAAAUGGCCAAAAUAGUGGUGAGUG---------------GUGCAUCGAGACCUGCACUCAUUUCGUUUUGGCCAUG
.((((.((....))..---(((((((......))))))).))))(((((((((((.(..(((((((---------------((........)))...))))))..)))))))))))). ( -37.30)
>DroSim_CAF1 2367 100 + 1
GUUCGAUCAUGCGAGG---GAGCUCGUUUCCCCGAGCUCGUGAAAUGGCCAAAAUAGUGGUGAGUG---------------GUGCAUCGAGACCUGCACUCAUUUCGUUUUGGCCAUG
.((((......)))).---(((((((......))))))).....(((((((((((.(..(((((((---------------((........)))...))))))..)))))))))))). ( -38.40)
>DroEre_CAF1 5184 91 + 1
------UCAUCCGG-----GAGUUCGUCUCCCCAAGCUCGUGAAAUGGCCAAAAUAGUGGUGAGUA---------------AUUCAGUGAGAC-UGCACUCAUUUUGUUUUGGCCAUG
------......((-----(((.....)))))............(((((((((((((.(((((((.---------------...(((.....)-)).)))))))))))))))))))). ( -33.50)
>DroYak_CAF1 2881 115 + 1
GUUCAAUCAUCCGAGC---GAGCUCGUGUCCCCAAGCUCGUGAAAUGGCCAAAAUAGUGGUGAGUGAAUGGUGAGUGAGUGGUUCAGUGAGACCUGCUCUCAUUUUGUGUUGGUCAUG
..............((---(((((.(......).)))))))...((((((((.((((.((((((.(...(((.(.((((...)))).)...)))..).)))))))))).)))))))). ( -30.90)
>DroAna_CAF1 2129 89 + 1
AUUCAAUCAUCUGAGUCAAUAGUGCGUUUCCCUUCGC-------AGGGC-------GUUGUGAGUA---------------GUUCAUCAAGAACUAUCCUCAUUUUGUUUUGGCCAUG
...........((.(((((...((((........)))-------).(((-------(..(((((((---------------((((.....))))))..)))))..))))))))))).. ( -21.90)
>consensus
GUUCAAUCAUCCGAGG___GAGCUCGUUUCCCCAAGCUCGUGAAAUGGCCAAAAUAGUGGUGAGUG_______________GUGCAUCGAGACCUGCACUCAUUUUGUUUUGGCCAUG
...................(((((.(......).))))).....(((((((((((...((((((((..............................))))))))..))))))))))). (-19.49 = -20.96 +   1.47)

alignment

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secondary structure

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dotplot

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Window 7

Location 20,210,952 – 20,211,052
Length 100
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 75.60
Mean single sequence MFE -28.00
Consensus MFE -13.35
Energy contribution -14.88
Covariance contribution 1.53
Combinations/Pair 1.18
Mean z-score -1.84
Structure conservation index 0.48
SVM decision value 0.14
SVM RNA-class probability 0.603255
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20210952 100 - 20766785
CAUGGCCAAAACAAAAUGAGUGCAGGUCUCGAUGCAC---------------CACUCAGCACUAUUUUGGCCAUUUCACGAGCUUGGGGAAACGAACUC---CCUCGCAUGAUUGAAC
.((((((((((.....((((((...((......))..---------------))))))......))))))))))((((((.((..(((((.......))---))).)).))..)))). ( -30.00)
>DroSec_CAF1 4152 100 - 1
CAUGGCCAAAACGAAAUGAGUGCAGGUCUCGAUGCAC---------------CACUCACCACUAUUUUGGCCAUUUCACGAGCUCGGGGAAACGAGCUC---CCUCGCAUGAUUGAAC
.((((((((((.....((((((...((......))..---------------))))))......)))))))))).....(((((((......)))))))---................ ( -33.10)
>DroSim_CAF1 2367 100 - 1
CAUGGCCAAAACGAAAUGAGUGCAGGUCUCGAUGCAC---------------CACUCACCACUAUUUUGGCCAUUUCACGAGCUCGGGGAAACGAGCUC---CCUCGCAUGAUCGAAC
.((((((((((.....((((((...((......))..---------------))))))......)))))))))).....(((((((......)))))))---..(((......))).. ( -33.40)
>DroEre_CAF1 5184 91 - 1
CAUGGCCAAAACAAAAUGAGUGCA-GUCUCACUGAAU---------------UACUCACCACUAUUUUGGCCAUUUCACGAGCUUGGGGAGACGAACUC-----CCGGAUGA------
.((((((((((.....((((((((-(.....)))...---------------))))))......)))))))))).........((.(((((.....)))-----)).))...------ ( -29.10)
>DroYak_CAF1 2881 115 - 1
CAUGACCAACACAAAAUGAGAGCAGGUCUCACUGAACCACUCACUCACCAUUCACUCACCACUAUUUUGGCCAUUUCACGAGCUUGGGGACACGAGCUC---GCUCGGAUGAUUGAAC
...........(((..((((..(((......))).....)))).....(((((.....(((......)))........((((((((......)))))))---)...))))).)))... ( -25.00)
>DroAna_CAF1 2129 89 - 1
CAUGGCCAAAACAAAAUGAGGAUAGUUCUUGAUGAAC---------------UACUCACAAC-------GCCCU-------GCGAAGGGAAACGCACUAUUGACUCAGAUGAUUGAAU
...........((...((((((((((((.....))))---------------)).)).....-------.((((-------....))))..............))))..))....... ( -17.40)
>consensus
CAUGGCCAAAACAAAAUGAGUGCAGGUCUCGAUGAAC_______________CACUCACCACUAUUUUGGCCAUUUCACGAGCUUGGGGAAACGAACUC___CCUCGCAUGAUUGAAC
.((((((((((.....((((((..............................))))))......)))))))))).....(((.(((......))).)))................... (-13.35 = -14.88 +   1.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:11:36 2006