Locus 7136

Sequence ID 2L_DroMel_CAF1
Location 19,993,662 – 19,993,765
Length 103
Max. P 0.999981
window11392 window11393

overview

Window 2

Location 19,993,662 – 19,993,765
Length 103
Sequences 5
Columns 106
Reading direction forward
Mean pairwise identity 94.24
Mean single sequence MFE -24.52
Consensus MFE -19.40
Energy contribution -21.04
Covariance contribution 1.64
Combinations/Pair 1.03
Mean z-score -1.73
Structure conservation index 0.79
SVM decision value 0.41
SVM RNA-class probability 0.725861
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19993662 103 + 22407834
--GGCAGUUGCCGUUUGGAGCUGUUUGCAUUU-UUUAUACAAUCAGUUUAUUCUUUUUAAUGGCUUUCAUUAUUUAAGACGCCACUGGCAACGAGCUGUCGACUAU
--(((.(((((((..((((((((.(((.((..-...)).))).)))))...((((..(((((.....)))))...))))..))).)))))))..)))......... ( -25.20)
>DroSec_CAF1 176505 103 + 1
--GGCAGUUGCCGUUUGGAGCUGUUUGCAUUU-UUUAUACAAUCAGUUUAUUCUUUUUAAUGGCUUUCAUUAUUUAAGACGCCACUAGCAACAAGCUGUCGACUGU
--.((((((((.(((((((((((.(((.((..-...)).))).))))))..((((..(((((.....)))))...)))).((.....))..))))).).))))))) ( -25.10)
>DroSim_CAF1 179022 103 + 1
--GGCAGUUGCCGUUUGGAGCUGUUUGCAUUU-UUUAUACAAUCAGUUUAUUCUUUUUAAUGGCUUUCAUUAUUUAAGACGCCACUGGCAACAAGCUGUCGACUGU
--.((((((((.(((((((((((.(((.((..-...)).))).))))))..((((..(((((.....)))))...)))).(((...)))..))))).).))))))) ( -27.30)
>DroEre_CAF1 174204 105 + 1
GCGGCAAUUGCCGUUUGGUGCUGUUUGCAUUU-UUUAUACAAUCCAUUUAUUCUUUUUAAUGGCUUUCAUUAUUUAAGACGCCACUGGCAACAAGCUGUCGACUGU
(((((..((((((..((((((.....))....-..................((((..(((((.....)))))...)))).)))).))))))...)))))....... ( -23.00)
>DroYak_CAF1 175233 104 + 1
--CGCAAUUGCCGUUUGGUGCUGUUUGCAUUUUUUUAUACAAUCAGUUUAUUCUUUUAAAUAGCUUUCAUUAUUUAAGACGCCAUUGGCAACAAGCUGUCGACUGU
--.((..((((((..((((((((.(((.((......)).))).))).......((((((((((......))))))))))))))).))))))...)).......... ( -22.00)
>consensus
__GGCAGUUGCCGUUUGGAGCUGUUUGCAUUU_UUUAUACAAUCAGUUUAUUCUUUUUAAUGGCUUUCAUUAUUUAAGACGCCACUGGCAACAAGCUGUCGACUGU
...((((((((.(((((((((((.(((.((......)).))).))))))..((((..(((((.....)))))...)))).((.....))..))))).).))))))) (-19.40 = -21.04 +   1.64)

alignment

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secondary structure

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dotplot

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Window 3

Location 19,993,662 – 19,993,765
Length 103
Sequences 5
Columns 106
Reading direction reverse
Mean pairwise identity 94.24
Mean single sequence MFE -23.60
Consensus MFE -24.02
Energy contribution -23.34
Covariance contribution -0.68
Combinations/Pair 1.20
Mean z-score -2.48
Structure conservation index 1.02
SVM decision value 5.25
SVM RNA-class probability 0.999981
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19993662 103 - 22407834
AUAGUCGACAGCUCGUUGCCAGUGGCGUCUUAAAUAAUGAAAGCCAUUAAAAAGAAUAAACUGAUUGUAUAAA-AAAUGCAAACAGCUCCAAACGGCAACUGCC--
..........((..((((((((((((.((.........))..))))))............(((.((((((...-..)))))).)))........)))))).)).-- ( -25.30)
>DroSec_CAF1 176505 103 - 1
ACAGUCGACAGCUUGUUGCUAGUGGCGUCUUAAAUAAUGAAAGCCAUUAAAAAGAAUAAACUGAUUGUAUAAA-AAAUGCAAACAGCUCCAAACGGCAACUGCC--
..........((..((((((((((((.((.........))..))))))............(((.((((((...-..)))))).)))........)))))).)).-- ( -23.00)
>DroSim_CAF1 179022 103 - 1
ACAGUCGACAGCUUGUUGCCAGUGGCGUCUUAAAUAAUGAAAGCCAUUAAAAAGAAUAAACUGAUUGUAUAAA-AAAUGCAAACAGCUCCAAACGGCAACUGCC--
..........((..((((((((((((.((.........))..))))))............(((.((((((...-..)))))).)))........)))))).)).-- ( -25.80)
>DroEre_CAF1 174204 105 - 1
ACAGUCGACAGCUUGUUGCCAGUGGCGUCUUAAAUAAUGAAAGCCAUUAAAAAGAAUAAAUGGAUUGUAUAAA-AAAUGCAAACAGCACCAAACGGCAAUUGCCGC
((((((....((.....)).((((((.((.........))..))))))..............)))))).....-...(((.....))).....((((....)))). ( -21.50)
>DroYak_CAF1 175233 104 - 1
ACAGUCGACAGCUUGUUGCCAAUGGCGUCUUAAAUAAUGAAAGCUAUUUAAAAGAAUAAACUGAUUGUAUAAAAAAAUGCAAACAGCACCAAACGGCAAUUGCG--
..........((..((((((..(((.(..(((((((.(....).))))))).........(((.((((((......)))))).)))).)))...)))))).)).-- ( -22.40)
>consensus
ACAGUCGACAGCUUGUUGCCAGUGGCGUCUUAAAUAAUGAAAGCCAUUAAAAAGAAUAAACUGAUUGUAUAAA_AAAUGCAAACAGCUCCAAACGGCAACUGCC__
..........((..((((((((((((.((.........))..))))))............(((.((((((......)))))).)))........)))))).))... (-24.02 = -23.34 +  -0.68)

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 12:28:21 2006