Locus 4383

Sequence ID X_DroMel_CAF1
Location 11,532,806 – 11,532,919
Length 113
Max. P 0.994492
window7200 window7201

overview

Window 0

Location 11,532,806 – 11,532,919
Length 113
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 73.00
Mean single sequence MFE -35.34
Consensus MFE -13.12
Energy contribution -12.84
Covariance contribution -0.28
Combinations/Pair 1.21
Mean z-score -2.46
Structure conservation index 0.37
SVM decision value 2.48
SVM RNA-class probability 0.994492
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11532806 113 + 22224390
GGGGUGUGUCUUAGCUAACAAUUACGU---GUCGAUAGA-UAUA---AUGCUAUCGAUAUGACAGAGUGUCGGGAACAAUCGAUAGCAUUACUUCGAUAUCGGUACUAGUGCCACCUCCA
((((((.((....((((........((---..(((((((-..((---(((((((((((..(((.....)))(....).)))))))))))))..))..)))))..)))))))))))).)). ( -39.80)
>DroSec_CAF1 14017 118 + 1
GAUGUAUGUCUUUGCUAAA-AUUAAACAUCGUAAAUAGA-UAUCGGUAUGUUAUCGAUAUGACAGAUUGUCGGGAAUAAUCGAUAGUAUUACUCCGAUAUCGGUACUAGUGCCACCUCCA
(((((.((..(((....))-).)).))))).......((-((((((.(((((((((((.((((.....))))......)))))))))))....))))))))((((....))))....... ( -30.50)
>DroSim_CAF1 16529 118 + 1
GGUGUGUGUCUUUGCUAAA-CAUAGACAUCGUCGAUAGA-UAUCGAUAUGCUAUCGAUAUGACAUUUUGUCGGGAAUAAUCGAUAGUAUUACUCCGAUAUCGGUACUAGUGCCACCUCCA
(((..((((((.((.....-)).))))))........((-(((((..(((((((((((.((((.....))))......))))))))))).....)))))))((((....))))))).... ( -36.50)
>DroEre_CAF1 14174 115 + 1
GGCACGAGUCUUUGCUAAC-GAUGA--AUAAUCGAUAUGCC-UCGAUAAGUUAUCGAUGUCGUUUAGCUUCGUGAAUACUCGAUAGUAUCGUGCGGAUAUCGAGGCUAG-GUCACCUCUA
((((........))))...-(((..--...)))(((..(((-((((((.((((.((....))..))))((((((.(((((....)))))..)))))))))))))))...-)))....... ( -31.00)
>DroYak_CAF1 14690 117 + 1
GGAGUGUGUCUUUGCUAAC-AAUAC--AUAAUCGAUAGGCUAUCGACAAGCUAUCGAUGUCGUCGGUUUUCGUGAAUACUCGAUAGUAUCGCGUUGGUAUCGAGGCUAGUGCCACCUCCA
((((.((.((..(((((((-.....--..(((((((.(((.(((((.......)))))))))))))))...((((.((((....)))))))))))))))..))(((....))))))))). ( -38.90)
>consensus
GGUGUGUGUCUUUGCUAAC_AAUAA__AUAGUCGAUAGA_UAUCGAUAUGCUAUCGAUAUGACAGAUUGUCGGGAAUAAUCGAUAGUAUUACUCCGAUAUCGGUACUAGUGCCACCUCCA
.............((((.............((((((((............))))))))....................(((((((............)))))))..)))).......... (-13.12 = -12.84 +  -0.28)

alignment

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secondary structure

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dotplot

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Window 1

Location 11,532,806 – 11,532,919
Length 113
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 73.00
Mean single sequence MFE -29.56
Consensus MFE -7.40
Energy contribution -7.84
Covariance contribution 0.44
Combinations/Pair 1.25
Mean z-score -1.76
Structure conservation index 0.25
SVM decision value 0.46
SVM RNA-class probability 0.745572
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11532806 113 - 22224390
UGGAGGUGGCACUAGUACCGAUAUCGAAGUAAUGCUAUCGAUUGUUCCCGACACUCUGUCAUAUCGAUAGCAU---UAUA-UCUAUCGAC---ACGUAAUUGUUAGCUAAGACACACCCC
.((.((((......((..(((((..((.((((((((((((((.......(((.....)))..)))))))))))---))).-)))))))..---)).....((((......)))))))))) ( -34.30)
>DroSec_CAF1 14017 118 - 1
UGGAGGUGGCACUAGUACCGAUAUCGGAGUAAUACUAUCGAUUAUUCCCGACAAUCUGUCAUAUCGAUAACAUACCGAUA-UCUAUUUACGAUGUUUAAU-UUUAGCAAAGACAUACAUC
....((((.(....)))))((((((((.((.....(((((((.......(((.....)))..)))))))..)).))))))-)).......(((((....(-(((....))))...))))) ( -22.70)
>DroSim_CAF1 16529 118 - 1
UGGAGGUGGCACUAGUACCGAUAUCGGAGUAAUACUAUCGAUUAUUCCCGACAAAAUGUCAUAUCGAUAGCAUAUCGAUA-UCUAUCGACGAUGUCUAUG-UUUAGCAAAGACACACACC
....((((..........(((((..((((((((.......)))))))).(((.....)))(((((((((...))))))))-).)))))..(.(((((.((-.....)).)))))).)))) ( -31.40)
>DroEre_CAF1 14174 115 - 1
UAGAGGUGAC-CUAGCCUCGAUAUCCGCACGAUACUAUCGAGUAUUCACGAAGCUAAACGACAUCGAUAACUUAUCGA-GGCAUAUCGAUUAU--UCAUC-GUUAGCAAAGACUCGUGCC
..(((((...-...))))).......((((((((((....))))........(((((.(((..((((((...))))))-........((....--)).))-))))))......)))))). ( -30.20)
>DroYak_CAF1 14690 117 - 1
UGGAGGUGGCACUAGCCUCGAUACCAACGCGAUACUAUCGAGUAUUCACGAAAACCGACGACAUCGAUAGCUUGUCGAUAGCCUAUCGAUUAU--GUAUU-GUUAGCAAAGACACACUCC
.(((((((......((..((((((.....((((((((((((.......((.....)).((....))........)))))))..))))).....--)))))-)...)).....))).)))) ( -29.20)
>consensus
UGGAGGUGGCACUAGUACCGAUAUCGGAGUAAUACUAUCGAUUAUUCCCGACAAUCUGUCAUAUCGAUAGCAUAUCGAUA_UCUAUCGACGAU__GUAUU_GUUAGCAAAGACACACACC
....((((..........(((((............))))).......................(((((((............)))))))...........................)))) ( -7.40 =  -7.84 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:23:40 2006