Locus 7981

Sequence ID 3R_DroMel_CAF1
Location 21,402,293 – 21,402,387
Length 94
Max. P 0.937355
window12849 window12850

overview

Window 9

Location 21,402,293 – 21,402,387
Length 94
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 77.05
Mean single sequence MFE -29.81
Consensus MFE -20.56
Energy contribution -20.56
Covariance contribution 0.00
Combinations/Pair 1.21
Mean z-score -1.91
Structure conservation index 0.69
SVM decision value 1.26
SVM RNA-class probability 0.937355
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21402293 94 + 27905053
CUUUCAAGGCGCUUCGCAUUAAGGUUAUGCUUCCGU--------------UAAAGCCUUUGAAGUUGACUGUUAGCAAACUUUUUUAUGGCCAACUUCAAGGCGUCGG-----
.......(((((((......((((((..((....))--------------...))))))((((((((.((((..............)))).)))))))))))))))..----- ( -24.14)
>DroPse_CAF1 119648 112 + 1
GUUUUGAGGCGUUUCGCAUUAAGGUUACGUUUCUGUUUUCUGGUGUUCGAUGAUGCCUUUGAAGUAGACUGGAAGAAAAAUU-UUUAUGGCCUGCUUAAAGGCGUCGGAGCGG
.........((((((((((((.((..(((....)))..)))))))).....(((((((((((.((((.(((.((((.....)-))).))).))))))))))))))))))))). ( -32.80)
>DroSim_CAF1 93023 94 + 1
CUUUCAAGGCACUUUGCAUUAAGGUUAUGUUUCCGU--------------UAAAGCCUUUGAAGUUGACUGUUGGUAAACUUUUUUAUGGCCAACUUCAAGGCGUCGG-----
.......(((........((((((........)).)--------------))).(((((.(((((((.((((..(........)..)))).)))))))))))))))..----- ( -22.40)
>DroYak_CAF1 96539 94 + 1
CUUUCAAGGCGCUUUGCAUUAAGGUUAUGCUCCCGU--------------UAAAGCCUUUGAAGUUGGCUGUGAGUAAACUUUUUUAUGGCCAACUUCAAGGCGUCGG-----
.......((((((((.....((((((..((....))--------------...)))))).(((((((((((((((........)))))))))))))))))))))))..----- ( -36.30)
>DroPer_CAF1 142602 112 + 1
GUUUUGAGGCGUUUCGCAUUAAGGUUACGUUUCUGUUUUCUGGUGUUCGAUGAUGCCUUUGAAGUAGACUGGAAGAAAACUU-UUUAUGGCCUGCUUAAAGGCGUCGGAGCGG
.........((((((((((((.((..(((....)))..)))))))).....(((((((((((.((((.(((((((....)))-))...)).))))))))))))))))))))). ( -33.40)
>consensus
CUUUCAAGGCGCUUCGCAUUAAGGUUAUGUUUCCGU______________UAAAGCCUUUGAAGUUGACUGUAAGAAAACUUUUUUAUGGCCAACUUCAAGGCGUCGG_____
.......(((............((........))....................(((((.(((((((.(((((((........))))))).)))))))))))))))....... (-20.56 = -20.56 +   0.00)

alignment

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secondary structure

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dotplot

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Window 0

Location 21,402,293 – 21,402,387
Length 94
Sequences 5
Columns 113
Reading direction reverse
Mean pairwise identity 77.05
Mean single sequence MFE -20.79
Consensus MFE -16.75
Energy contribution -16.83
Covariance contribution 0.08
Combinations/Pair 1.18
Mean z-score -1.54
Structure conservation index 0.81
SVM decision value 1.08
SVM RNA-class probability 0.911673
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21402293 94 - 27905053
-----CCGACGCCUUGAAGUUGGCCAUAAAAAAGUUUGCUAACAGUCAACUUCAAAGGCUUUA--------------ACGGAAGCAUAACCUUAAUGCGAAGCGCCUUGAAAG
-----.....((((((((((((((....................))))))))).)))))((((--------------(.((..((((.......))))......))))))).. ( -23.05)
>DroPse_CAF1 119648 112 - 1
CCGCUCCGACGCCUUUAAGCAGGCCAUAAA-AAUUUUUCUUCCAGUCUACUUCAAAGGCAUCAUCGAACACCAGAAAACAGAAACGUAACCUUAAUGCGAAACGCCUCAAAAC
.(((...((.(((((((((.((((......-.............)))).))).)))))).)).((........)).....................))).............. ( -16.61)
>DroSim_CAF1 93023 94 - 1
-----CCGACGCCUUGAAGUUGGCCAUAAAAAAGUUUACCAACAGUCAACUUCAAAGGCUUUA--------------ACGGAAACAUAACCUUAAUGCAAAGUGCCUUGAAAG
-----.....((((((((((((((....................))))))))).)))))....--------------..(....)......((((.((.....)).))))... ( -21.75)
>DroYak_CAF1 96539 94 - 1
-----CCGACGCCUUGAAGUUGGCCAUAAAAAAGUUUACUCACAGCCAACUUCAAAGGCUUUA--------------ACGGGAGCAUAACCUUAAUGCAAAGCGCCUUGAAAG
-----(((..((((((((((((((....................))))))))).)))))....--------------.)))..((((.......))))............... ( -25.45)
>DroPer_CAF1 142602 112 - 1
CCGCUCCGACGCCUUUAAGCAGGCCAUAAA-AAGUUUUCUUCCAGUCUACUUCAAAGGCAUCAUCGAACACCAGAAAACAGAAACGUAACCUUAAUGCGAAACGCCUCAAAAC
.(((...((.(((((((((.((((......-(((....)))...)))).))).)))))).)).((........)).....................))).............. ( -17.10)
>consensus
_____CCGACGCCUUGAAGUUGGCCAUAAAAAAGUUUACUAACAGUCAACUUCAAAGGCUUUA______________ACGGAAACAUAACCUUAAUGCGAAGCGCCUUGAAAG
.......((.((((((((((((((....................))))))))).))))).)).............................((((.((.....)).))))... (-16.75 = -16.83 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:59:31 2006