Locus 7476

Sequence ID 2L_DroMel_CAF1
Location 20,776,674 – 20,776,769
Length 95
Max. P 0.827667
window12019 window12020

overview

Window 9

Location 20,776,674 – 20,776,769
Length 95
Sequences 5
Columns 95
Reading direction forward
Mean pairwise identity 90.42
Mean single sequence MFE -21.32
Consensus MFE -18.64
Energy contribution -18.36
Covariance contribution -0.28
Combinations/Pair 1.18
Mean z-score -1.46
Structure conservation index 0.87
SVM decision value 0.70
SVM RNA-class probability 0.827667
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20776674 95 + 22407834
GAAAUCGCUAGCGUUUUAAAUGCUCUUCGCUAAAUUUGUAUUGUGUUGCGAGUUUAAGCUUCAAUUACUGGAAUUAUCCCUUUAAUUGUGAUGAU
...(((((.(((((.....)))))....((((((((((((......))))))))).)))...(((((..((.......))..))))))))))... ( -19.80)
>DroSec_CAF1 28336 95 + 1
GAAAUCGGUAGCGUUUUAAAUGCUAUUCGCUAGAUUUGCAUUGUGUUGCGAGUUUAAGCUUCAAUUACUGGCAUUAUCCCUUUAAUUGUGAUGAU
...(((((((((((.....)))))))).((((((((((((......))))))))).)))..((((((..((.......))..)))))).)))... ( -23.30)
>DroSim_CAF1 28392 95 + 1
GAAAUCGGUAGCGUUUUAAAUGCUAUUCGCUAGAUUUGCAUUGUGUUGCGAGUUUAAGCUUCAAUUACUGGAAUUAUCCCUUUAAUUGUGAUGAU
...(((((((((((.....)))))))).((((((((((((......))))))))).)))..((((((..((.......))..)))))).)))... ( -24.10)
>DroEre_CAF1 27264 94 + 1
GAAAUCUGCAGCGUUUCUUAUGCUUUUCGCUAGAUUCGUAUUGUGCUGCGAGUUUAGGCUUCAAUUACUGGAAUUAUCCCU-UUAUUGUGAUGAU
...(((.(((((((.....))))).....(((((((((((......)))))))))))))..((((....(((....)))..-..)))).)))... ( -20.60)
>DroYak_CAF1 29605 92 + 1
GAAAUCU--AGCGUUUCUAUUGCU-UUCGCUAGAUUUGUAUUGUGCUGCGAGUCUAAGCUUCAAUUACUGGAAUUAUCCCUUUUAUUGUGAUGAU
.((((((--((((...........-..))))))))))(((...((..((........))..))..)))....((((((.(.......).)))))) ( -18.82)
>consensus
GAAAUCGGUAGCGUUUUAAAUGCUAUUCGCUAGAUUUGUAUUGUGUUGCGAGUUUAAGCUUCAAUUACUGGAAUUAUCCCUUUAAUUGUGAUGAU
...(((...(((((.....)))))....((((((((((((......))))))))).)))..((((((..((.......))..)))))).)))... (-18.64 = -18.36 +  -0.28)

alignment

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secondary structure

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dotplot

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Window 0

Location 20,776,674 – 20,776,769
Length 95
Sequences 5
Columns 95
Reading direction reverse
Mean pairwise identity 90.42
Mean single sequence MFE -15.75
Consensus MFE -12.06
Energy contribution -12.42
Covariance contribution 0.36
Combinations/Pair 1.14
Mean z-score -1.46
Structure conservation index 0.77
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20776674 95 - 22407834
AUCAUCACAAUUAAAGGGAUAAUUCCAGUAAUUGAAGCUUAAACUCGCAACACAAUACAAAUUUAGCGAAGAGCAUUUAAAACGCUAGCGAUUUC
...(((.((((((...(((....)))..))))))..(((.....((((.................))))..(((.........)))))))))... ( -15.93)
>DroSec_CAF1 28336 95 - 1
AUCAUCACAAUUAAAGGGAUAAUGCCAGUAAUUGAAGCUUAAACUCGCAACACAAUGCAAAUCUAGCGAAUAGCAUUUAAAACGCUACCGAUUUC
...(((.((((((...((......))..)))))).(((........(((......))).......((.....)).........)))...)))... ( -14.30)
>DroSim_CAF1 28392 95 - 1
AUCAUCACAAUUAAAGGGAUAAUUCCAGUAAUUGAAGCUUAAACUCGCAACACAAUGCAAAUCUAGCGAAUAGCAUUUAAAACGCUACCGAUUUC
...(((.((((((...(((....)))..)))))).(((........(((......))).......((.....)).........)))...)))... ( -16.30)
>DroEre_CAF1 27264 94 - 1
AUCAUCACAAUAA-AGGGAUAAUUCCAGUAAUUGAAGCCUAAACUCGCAGCACAAUACGAAUCUAGCGAAAAGCAUAAGAAACGCUGCAGAUUUC
...(((.((((.(-..(((....)))..).))))............(((((.(.....)......((.....)).........))))).)))... ( -15.90)
>DroYak_CAF1 29605 92 - 1
AUCAUCACAAUAAAAGGGAUAAUUCCAGUAAUUGAAGCUUAGACUCGCAGCACAAUACAAAUCUAGCGAA-AGCAAUAGAAACGCU--AGAUUUC
.......((((.(...(((....)))..).))))..((........))..........((((((((((..-...........))))--)))))). ( -16.32)
>consensus
AUCAUCACAAUUAAAGGGAUAAUUCCAGUAAUUGAAGCUUAAACUCGCAACACAAUACAAAUCUAGCGAAUAGCAUUUAAAACGCUACCGAUUUC
.......((((((...(((....)))..))))))..((........))..........((((((((((..............)))))..))))). (-12.06 = -12.42 +   0.36)

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 12:37:48 2006