Locus 5824

Sequence ID 3R_DroMel_CAF1
Location 15,237,425 – 15,237,584
Length 159
Max. P 0.986867
window9537 window9538

overview

Window 7

Location 15,237,425 – 15,237,545
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.10
Mean single sequence MFE -33.60
Consensus MFE -27.54
Energy contribution -27.46
Covariance contribution -0.08
Combinations/Pair 1.14
Mean z-score -1.33
Structure conservation index 0.82
SVM decision value -0.00
SVM RNA-class probability 0.532337
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15237425 120 + 27905053
ACUGUUGCGCUUGGCCAUUUACACAUUGGUUUUGGCCCUGUUUCACUGCUAAGACCAUGGCCAGGCGGAUGCUGUUGGCGCUAAUUAGUAUUUGUUGCUUCAGUUAUUGGCUAAAUUACG
((((..(((((((((((.........((((((((((..((...))..)))))))))))))))))))(((((((((((....))).))))))))...))..))))................ ( -38.90)
>DroSec_CAF1 4692 117 + 1
-CUGUUG--CUUGGCCAUUUACACAUUGGUUUUGGCCCUGUUUCACUGCUAAGACCACGGCCAGGCGGAUGCUGUUGGCGCUAAUUAGUAUUUGUUGCUUCAUUUAUUGGCUAAAUUACG
-...(((--(((((((..........((((((((((..((...))..)))))))))).))))))))))..((.....))((((((.((((.....))))......))))))......... ( -33.50)
>DroSim_CAF1 4720 118 + 1
ACUGUUG--CUUGGCCAUUUACACAUUGGUUUUGGCCCUGUUUCACUGCUAAGACCACGGCCAGGCGGAUGCUGUUGGCGCUAAUUAGUAUUUGUUGCUUCAUUUAUUGGCUAAAUUACG
....(((--(((((((..........((((((((((..((...))..)))))))))).))))))))))..((.....))((((((.((((.....))))......))))))......... ( -33.50)
>DroEre_CAF1 2546 118 + 1
ACUGUUG--CUUGGCCAUUUCUACAUCGGUUUUGGCCCUGUUUCACUGCUAAGAGUACGGCCAGGCGGAUUCUGUUGCCGCUAAUUGGUAUUUGUUGCUUCAUUUAUUGGCUAAAGUACG
..((..(--(..(((((...((.....))...)))))..))..)).........((((((((((((((.........)))))....((((.....))))........)))))...)))). ( -29.70)
>DroYak_CAF1 2515 118 + 1
ACUGUUG--CUUGGCCAUUUCUACAUCGGUUUUGGCCCUGUUUUACUGCUAAGACCACGGCCAGGCGAAUUCUGUUGGCGCUAAUUGGUAUUUGUUGCUUCAUUUAUUGGCCACAUUACG
....(((--(((((((((......)).(((((((((...(.....).)))))))))..))))))))))....(((.(((..(((..((((.....))))....)))...))))))..... ( -32.40)
>consensus
ACUGUUG__CUUGGCCAUUUACACAUUGGUUUUGGCCCUGUUUCACUGCUAAGACCACGGCCAGGCGGAUGCUGUUGGCGCUAAUUAGUAUUUGUUGCUUCAUUUAUUGGCUAAAUUACG
..........(((((((..........(((((((((..((...))..)))))))))..(((..((((((((((((((....))).))))))))))))))........)))))))...... (-27.54 = -27.46 +  -0.08)

alignment

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secondary structure

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dotplot

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Window 8

Location 15,237,465 – 15,237,584
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.46
Mean single sequence MFE -37.62
Consensus MFE -34.14
Energy contribution -33.98
Covariance contribution -0.16
Combinations/Pair 1.12
Mean z-score -1.73
Structure conservation index 0.91
SVM decision value 2.06
SVM RNA-class probability 0.986867
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15237465 119 + 27905053
UUUCACUGCUAAGACCAUGGCCAGGCGGAUGCUGUUGGCGCUAAUUAGUAUUUGUUGCUUCAGUUAUUGGCUAAAUUACGAGUAGAUGAGCUUCAGCUUGGCUAG-UCUUAAGUGGGCAA
.((((((..((((((..((((((((((((((((((((....))).))))))))...(((.((.(((((.(........).))))).)))))....))))))))))-)))))))))))... ( -36.80)
>DroSec_CAF1 4729 119 + 1
UUUCACUGCUAAGACCACGGCCAGGCGGAUGCUGUUGGCGCUAAUUAGUAUUUGUUGCUUCAUUUAUUGGCUAAAUUACGAGUGGAUGAGCUUCGGCUUGGCUAG-UCUUAAGUGGGCAA
.((((((..((((((...((((((((.((.((....((((.(((.......))).))))(((((((((.(........).))))))))))).)).)))))))).)-)))))))))))... ( -39.70)
>DroSim_CAF1 4758 119 + 1
UUUCACUGCUAAGACCACGGCCAGGCGGAUGCUGUUGGCGCUAAUUAGUAUUUGUUGCUUCAUUUAUUGGCUAAAUUACGAGUGGAUGAGCUUCGGCUUGGCUAG-UCUUAAGUGGGCAA
.((((((..((((((...((((((((.((.((....((((.(((.......))).))))(((((((((.(........).))))))))))).)).)))))))).)-)))))))))))... ( -39.70)
>DroEre_CAF1 2584 119 + 1
UUUCACUGCUAAGAGUACGGCCAGGCGGAUUCUGUUGCCGCUAAUUGGUAUUUGUUGCUUCAUUUAUUGGCUAAAGUACGAGUAGAUGAGCUUCGGCUUGGCUUG-UCUUAAGUGGGGAA
(..((((..(((((....((((((((.((......(((((.....)))))......(((.((((((((.(........).))))))))))).)).))))))))..-)))))))))..).. ( -38.50)
>DroYak_CAF1 2553 120 + 1
UUUUACUGCUAAGACCACGGCCAGGCGAAUUCUGUUGGCGCUAAUUGGUAUUUGUUGCUUCAUUUAUUGGCCACAUUACGAGUAGAUGAGCUUCGGCUUGGCUUAAGCUUAAGUGGAGAA
(((((((((((((.(((.((((.(((((((((.((((....)))).)).)))))))(((.((((((((.(........).)))))))))))...)))))))))).)))...))))))).. ( -33.40)
>consensus
UUUCACUGCUAAGACCACGGCCAGGCGGAUGCUGUUGGCGCUAAUUAGUAUUUGUUGCUUCAUUUAUUGGCUAAAUUACGAGUAGAUGAGCUUCGGCUUGGCUAG_UCUUAAGUGGGCAA
.((((((..(((((....(((((((((((((((((((....))).))))))))...(((.((((((((.(........).)))))))))))....))))))))...)))))))))))... (-34.14 = -33.98 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:05:39 2006