Locus 1782

Sequence ID 2L_DroMel_CAF1
Location 4,869,080 – 4,869,177
Length 97
Max. P 0.911451
window2868 window2869

overview

Window 8

Location 4,869,080 – 4,869,177
Length 97
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 82.59
Mean single sequence MFE -25.82
Consensus MFE -17.55
Energy contribution -18.56
Covariance contribution 1.00
Combinations/Pair 1.19
Mean z-score -1.86
Structure conservation index 0.68
SVM decision value 0.21
SVM RNA-class probability 0.635024
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4869080 97 + 22407834
CAUUUGUUUCGGCCAUGUUUGCAU----------AAGUAUGCAUGUUUUAUUGCACACACACUCGG-UGUGUGUUUUGUGGCUGCUGCCGCUAUUUACAAGUGUUUUC
(((((((...((((((((.(((..----------..))).)))))...((..((((((((.....)-)))))))..)).(((....))))))....)))))))..... ( -31.00)
>DroPse_CAF1 25837 104 + 1
CAUGUGGAU-GUUCUUGUUUGCAUAUGUAUGUACGAGUAUGCAUGUUUUAUUGCACACACUCUCUGCUCUGUGCUUUGUGGUU---ACCGCUAUUUACAAGUGUUUUC
.(((..(((-......)))..))).((((.(((((((((((((........)))).........))))).))))...((((..---.))))....))))......... ( -21.00)
>DroSec_CAF1 18850 97 + 1
CAUUUGUUUCGGCCAUGUUUGCAU----------AAGUAUGCAUGUUUUAUUGCACACACACUCGG-UGUGUGUUUUGUGGCUGCUGCCGCUAUUUACAAGUGUUUCA
(((((((...((((((((.(((..----------..))).)))))...((..((((((((.....)-)))))))..)).(((....))))))....)))))))..... ( -31.00)
>DroYak_CAF1 20152 97 + 1
CAAUUGUUUCGGCCGUGUUUGCAU----------AAGUAUGCAUGUUUUAUUGCACACACACUCGG-UGUGUGUUUUGUGGCUGCUGCCGCUAUUUACAAGUGUUUUG
((.((((..((((.((...(((((----------....))))).((..((..((((((((.....)-)))))))..))..)).)).))))......)))).))..... ( -27.20)
>DroAna_CAF1 23883 95 + 1
CUUUCGGUUUGGUUGUGUUUGCAU----------AAGUAUGCAUGUUUUAUUGCACACACACUCGG-UG--UGUUUUGUGGCUGAUGCCGCCAUUUACAAGUGUUUUC
............(((((....)))----------))((.((((........)))).))(((((...-((--((..(.(((((....))))).)..))))))))).... ( -22.90)
>DroPer_CAF1 25750 100 + 1
CAUGUGGAU-GUUCUUGUUUGCAUAU----GUACGAGUAUGCAUGUUUUAUUGCACACACUCUCGGCUCUGUGCUUUGUGGUU---GCCGCUAUUUACAAGUGUUUUC
..(((((((-(.........(((((.----...((((..((..(((......)))..))..))))....)))))...((((..---.))))))))))))......... ( -21.80)
>consensus
CAUUUGGUUCGGCCAUGUUUGCAU__________AAGUAUGCAUGUUUUAUUGCACACACACUCGG_UGUGUGUUUUGUGGCUGCUGCCGCUAUUUACAAGUGUUUUC
((((((.......(((((.(((..............))).))))).......(((((((........)))))))...(((((....)))))......))))))..... (-17.55 = -18.56 +   1.00)

alignment

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secondary structure

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dotplot

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Window 9

Location 4,869,080 – 4,869,177
Length 97
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 82.59
Mean single sequence MFE -21.53
Consensus MFE -17.56
Energy contribution -17.62
Covariance contribution 0.06
Combinations/Pair 1.10
Mean z-score -2.43
Structure conservation index 0.82
SVM decision value 1.08
SVM RNA-class probability 0.911451
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4869080 97 - 22407834
GAAAACACUUGUAAAUAGCGGCAGCAGCCACAAAACACACA-CCGAGUGUGUGUGCAAUAAAACAUGCAUACUU----------AUGCAAACAUGGCCGAAACAAAUG
.....((.((((.....((....)).((((....(((((((-(...))))))))...........(((((....----------)))))....))))....)))).)) ( -23.50)
>DroPse_CAF1 25837 104 - 1
GAAAACACUUGUAAAUAGCGGU---AACCACAAAGCACAGAGCAGAGAGUGUGUGCAAUAAAACAUGCAUACUCGUACAUACAUAUGCAAACAAGAAC-AUCCACAUG
.......(((((.....((.((---....))...)).....((((((.(((((((........))))))).)))((....))...)))..)))))...-......... ( -19.00)
>DroSec_CAF1 18850 97 - 1
UGAAACACUUGUAAAUAGCGGCAGCAGCCACAAAACACACA-CCGAGUGUGUGUGCAAUAAAACAUGCAUACUU----------AUGCAAACAUGGCCGAAACAAAUG
.....((.((((.....((....)).((((....(((((((-(...))))))))...........(((((....----------)))))....))))....)))).)) ( -23.50)
>DroYak_CAF1 20152 97 - 1
CAAAACACUUGUAAAUAGCGGCAGCAGCCACAAAACACACA-CCGAGUGUGUGUGCAAUAAAACAUGCAUACUU----------AUGCAAACACGGCCGAAACAAUUG
.....((.((((.....((....)).(((.....(((((((-(...))))))))...........(((((....----------))))).....)))....)))).)) ( -23.10)
>DroAna_CAF1 23883 95 - 1
GAAAACACUUGUAAAUGGCGGCAUCAGCCACAAAACA--CA-CCGAGUGUGUGUGCAAUAAAACAUGCAUACUU----------AUGCAAACACAACCAAACCGAAAG
........(((((..((((.......)))).......--..-..(((((((((((........)))))))))))----------.))))).................. ( -20.10)
>DroPer_CAF1 25750 100 - 1
GAAAACACUUGUAAAUAGCGGC---AACCACAAAGCACAGAGCCGAGAGUGUGUGCAAUAAAACAUGCAUACUCGUAC----AUAUGCAAACAAGAAC-AUCCACAUG
.......(((((.....(.(..---..)).....(((......((((.(((((((........))))))).))))...----...)))..)))))...-......... ( -20.00)
>consensus
GAAAACACUUGUAAAUAGCGGCAGCAGCCACAAAACACACA_CCGAGUGUGUGUGCAAUAAAACAUGCAUACUU__________AUGCAAACAAGACCGAAACAAAUG
........(((((....(.(((....))).).............(((((((((((........)))))))))))...........))))).................. (-17.56 = -17.62 +   0.06)

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 10:11:07 2006