Locus 5693

Sequence ID 3R_DroMel_CAF1
Location 14,925,446 – 14,925,550
Length 104
Max. P 0.987692
window9303 window9304

overview

Window 3

Location 14,925,446 – 14,925,550
Length 104
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 90.84
Mean single sequence MFE -33.10
Consensus MFE -24.70
Energy contribution -24.30
Covariance contribution -0.40
Combinations/Pair 1.07
Mean z-score -3.40
Structure conservation index 0.75
SVM decision value 1.98
SVM RNA-class probability 0.984523
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14925446 104 + 27905053
UGUUUUCUUCGUUUUAUGCAAUCUUUCGAGAUUUUUCACUUGUUUGUUUGUUGCGGCGCACUGUUGCUUUAUUAGCAACGUGCCAAACGCAGGCA------AACAGAAGG
......((((.........(((((....))))).......(((((((((((...(((((...((((((.....)))))))))))....)))))))------)))))))). ( -32.20)
>DroSec_CAF1 55537 110 + 1
UGUUUUCUUCGUUUUAUGCAAUCGUUUGAGAUUUUUCAUUUGUUUGUUUGUUGCGGCGCACUGUUGCUUUAUUAGCAACGUGCCAAACGCUGGCAAACCCAAACAGAAGG
......((((((((((.((....)).))))))........(((((((((((((((..((((.((((((.....))))))))))....))).)))))))..))))))))). ( -32.40)
>DroSim_CAF1 54119 110 + 1
UGUUUUCUUCGUUUUAUGCAAUCUUUCGAGAUUUUUCAUUUGUUUGUUUGCUGCGGCGCACUGUUGCUUUAUUAGCAACGUGCCAAACGCUGGCAAACGCAAACAGAAGG
......(((((((...((((((((....)))))............((((((((((..((((.((((((.....))))))))))....))).))))))))))))).)))). ( -35.50)
>DroEre_CAF1 51950 103 + 1
UAUUUUCUUCGUUUUAUGCAAUCUUUCGAGAUUUUUCAUUUGUUUGUUUG-UGCGGCGCAUAGUUGCUUUAUUAGCAACGUGCCAAACGCAAGCA------AACAGAAGG
......((((.........(((((....))))).......((((((((((-((.(((((...((((((.....)))))))))))...))))))))------)))))))). ( -34.70)
>DroYak_CAF1 58807 103 + 1
UAUUUUCUUCGUUUUAUGCAAUCUAUCGAGAUUUUUCAUUUGUUUGUUAG-UGCGGCGCAUAGUUGCUUUAUUAGCAACGUGCCAAACGCAAGCA------AGCAGAAGG
......((((.........(((((....))))).......((((((((.(-((.(((((...((((((.....)))))))))))...))).))))------)))))))). ( -30.70)
>consensus
UGUUUUCUUCGUUUUAUGCAAUCUUUCGAGAUUUUUCAUUUGUUUGUUUG_UGCGGCGCACUGUUGCUUUAUUAGCAACGUGCCAAACGCAGGCA______AACAGAAGG
......(((((((...(((((((......))))...................(((..((((.((((((.....))))))))))....)))..)))......))).)))). (-24.70 = -24.30 +  -0.40)

alignment

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secondary structure

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dotplot

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Window 4

Location 14,925,446 – 14,925,550
Length 104
Sequences 5
Columns 110
Reading direction reverse
Mean pairwise identity 90.84
Mean single sequence MFE -28.62
Consensus MFE -21.42
Energy contribution -21.66
Covariance contribution 0.24
Combinations/Pair 1.04
Mean z-score -3.50
Structure conservation index 0.75
SVM decision value 2.09
SVM RNA-class probability 0.987692
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14925446 104 - 27905053
CCUUCUGUU------UGCCUGCGUUUGGCACGUUGCUAAUAAAGCAACAGUGCGCCGCAACAAACAAACAAGUGAAAAAUCUCGAAAGAUUGCAUAAAACGAAGAAAACA
.((((((((------((..((((....((((((((((.....)))))).))))..)))).)))))).....(((...(((((....))))).))).....))))...... ( -30.50)
>DroSec_CAF1 55537 110 - 1
CCUUCUGUUUGGGUUUGCCAGCGUUUGGCACGUUGCUAAUAAAGCAACAGUGCGCCGCAACAAACAAACAAAUGAAAAAUCUCAAACGAUUGCAUAAAACGAAGAAAACA
.((((((((((((....)).(((....((((((((((.....)))))).))))..)))..)))))).....(((...((((......)))).))).....))))...... ( -30.60)
>DroSim_CAF1 54119 110 - 1
CCUUCUGUUUGCGUUUGCCAGCGUUUGGCACGUUGCUAAUAAAGCAACAGUGCGCCGCAGCAAACAAACAAAUGAAAAAUCUCGAAAGAUUGCAUAAAACGAAGAAAACA
.((((.((((((((((((..(((....((((((((((.....)))))).))))..))).))))))................((....))..)))...)))))))...... ( -33.20)
>DroEre_CAF1 51950 103 - 1
CCUUCUGUU------UGCUUGCGUUUGGCACGUUGCUAAUAAAGCAACUAUGCGCCGCA-CAAACAAACAAAUGAAAAAUCUCGAAAGAUUGCAUAAAACGAAGAAAAUA
.((((((((------((.(((.((..(((.(((((((.....))))))...).))))).-))).)))))).(((...(((((....))))).))).....))))...... ( -26.90)
>DroYak_CAF1 58807 103 - 1
CCUUCUGCU------UGCUUGCGUUUGGCACGUUGCUAAUAAAGCAACUAUGCGCCGCA-CUAACAAACAAAUGAAAAAUCUCGAUAGAUUGCAUAAAACGAAGAAAAUA
.((((.((.------.....))(((((((.(((((((.....))))))...).)))...-...........(((...(((((....))))).))).))))))))...... ( -21.90)
>consensus
CCUUCUGUU______UGCCUGCGUUUGGCACGUUGCUAAUAAAGCAACAGUGCGCCGCA_CAAACAAACAAAUGAAAAAUCUCGAAAGAUUGCAUAAAACGAAGAAAACA
.((((.................(((((((((((((((.....)))))).))))(......)...)))))..(((...((((......)))).))).....))))...... (-21.42 = -21.66 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:01:52 2006