Locus 7751

Sequence ID 3R_DroMel_CAF1
Location 20,789,585 – 20,789,687
Length 102
Max. P 0.989851
window12508 window12509

overview

Window 8

Location 20,789,585 – 20,789,687
Length 102
Sequences 4
Columns 102
Reading direction forward
Mean pairwise identity 96.24
Mean single sequence MFE -36.83
Consensus MFE -35.06
Energy contribution -35.62
Covariance contribution 0.56
Combinations/Pair 1.06
Mean z-score -2.73
Structure conservation index 0.95
SVM decision value 1.97
SVM RNA-class probability 0.984262
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20789585 102 + 27905053
UUGUGCAACCUGCUGGUGGCCAACAGGCAAACACGCAACGUGCCCCGGCCAGAUAAUCAAAGAUUUUCAUUAGUUAUCUCUUUGGGCAUGGGGCAAUUGAAC
...(((.(((....))).(((....)))......)))...(((((((((((((((((.((.(.....).)).))))))).....))).)))))))....... ( -31.70)
>DroSec_CAF1 5378 102 + 1
UUGUGCAACUUGCUGGCGGCCAGCAGGCAAACACGCAACGUGCCCCGGCCAGAUAAUCAAAGAUUUUCAUUAGUUAUCUCUGUGGGCAUGGGGCAAUUGAAC
..(((...((((((((...))))))))....)))((..((((((((((..(((((((.((.(.....).)).)))))))))).)))))))..))........ ( -38.70)
>DroSim_CAF1 5326 102 + 1
UUGUGCAACUUGCUGGCGGCCAGCAGGCAAACACGCAACGUGCCCCGGCCAGAUAAUCAAAGAUUUUCAUUAGUUAUCUCUGUGGGCAUGGGGCAAUUGAAC
..(((...((((((((...))))))))....)))((..((((((((((..(((((((.((.(.....).)).)))))))))).)))))))..))........ ( -38.70)
>DroEre_CAF1 2031 101 + 1
UUGUGCAACCUGCUGGCAGCCAGCAGGCAAACACGCAACGUGCCCCGGCCGGAUAAUCAAAGAUUUUCAUUAGUUAUCUCUUUGGGCA-GGGGCAAUUGAAC
..(((...((((((((...))))))))....))).(((..((((((.((((((((((.((.(.....).)).))))))).....))).-)))))).)))... ( -38.20)
>consensus
UUGUGCAACCUGCUGGCGGCCAGCAGGCAAACACGCAACGUGCCCCGGCCAGAUAAUCAAAGAUUUUCAUUAGUUAUCUCUGUGGGCAUGGGGCAAUUGAAC
..(((...((((((((...))))))))....)))((..((((((((((..(((((((.((.(.....).)).)))))))))).)))))))..))........ (-35.06 = -35.62 +   0.56)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 9

Location 20,789,585 – 20,789,687
Length 102
Sequences 4
Columns 102
Reading direction reverse
Mean pairwise identity 96.24
Mean single sequence MFE -38.17
Consensus MFE -36.59
Energy contribution -37.15
Covariance contribution 0.56
Combinations/Pair 1.03
Mean z-score -3.21
Structure conservation index 0.96
SVM decision value 2.18
SVM RNA-class probability 0.989851
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20789585 102 - 27905053
GUUCAAUUGCCCCAUGCCCAAAGAGAUAACUAAUGAAAAUCUUUGAUUAUCUGGCCGGGGCACGUUGCGUGUUUGCCUGUUGGCCACCAGCAGGUUGCACAA
...((((((((((..(((.....((((((.(((.(.....).))).))))))))).)))))).)))).((((..(((((((((...))))))))).)))).. ( -39.40)
>DroSec_CAF1 5378 102 - 1
GUUCAAUUGCCCCAUGCCCACAGAGAUAACUAAUGAAAAUCUUUGAUUAUCUGGCCGGGGCACGUUGCGUGUUUGCCUGCUGGCCGCCAGCAAGUUGCACAA
...((((((((((..(((.....((((((.(((.(.....).))).))))))))).)))))).)))).((((..((.((((((...)))))).)).)))).. ( -35.30)
>DroSim_CAF1 5326 102 - 1
GUUCAAUUGCCCCAUGCCCACAGAGAUAACUAAUGAAAAUCUUUGAUUAUCUGGCCGGGGCACGUUGCGUGUUUGCCUGCUGGCCGCCAGCAAGUUGCACAA
...((((((((((..(((.....((((((.(((.(.....).))).))))))))).)))))).)))).((((..((.((((((...)))))).)).)))).. ( -35.30)
>DroEre_CAF1 2031 101 - 1
GUUCAAUUGCCCC-UGCCCAAAGAGAUAACUAAUGAAAAUCUUUGAUUAUCCGGCCGGGGCACGUUGCGUGUUUGCCUGCUGGCUGCCAGCAGGUUGCACAA
...((((((((((-.(((((((((...............)))))).......))).)))))).)))).((((..(((((((((...))))))))).)))).. ( -42.67)
>consensus
GUUCAAUUGCCCCAUGCCCAAAGAGAUAACUAAUGAAAAUCUUUGAUUAUCUGGCCGGGGCACGUUGCGUGUUUGCCUGCUGGCCGCCAGCAAGUUGCACAA
...((((((((((..(((.....((((((.(((.(.....).))).))))))))).)))))).)))).((((..(((((((((...))))))))).)))).. (-36.59 = -37.15 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:53:54 2006