Locus 894

Sequence ID 2R_DroMel_CAF1
Location 4,042,359 – 4,042,558
Length 199
Max. P 0.844657
window1561 window1562

overview

Window 1

Location 4,042,359 – 4,042,478
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 78.73
Mean single sequence MFE -31.17
Consensus MFE -17.51
Energy contribution -20.72
Covariance contribution 3.21
Combinations/Pair 1.14
Mean z-score -2.06
Structure conservation index 0.56
SVM decision value 0.76
SVM RNA-class probability 0.844657
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4042359 119 - 20766785
UUUCCACAUUAAGUUUUCGAGCUUAGUGCCUUGGAAAAGGGUGGAAAAAGGUUUACACUUUCUUGGUCAGACCUUUUUG-GUCAGGUUAAAUAGUUACCCUCGAGAACUAAAGGAAACUC
(((((((((((((((....)))))))).((((....)))))))))))..(((((...(((((((((...((((.....)-))).(((.........))).))))))....))).))))). ( -33.70)
>DroSec_CAF1 25050 119 - 1
UUUCCACAUUAAGUUUUCGAGCUUAGUGCCUUGGAAAAGGGUGGUAAAAGGUUUCCACUUUCUUGGUCAGACCUUUUUG-GUCAGGUUAAAUAGUUAACCUCGCGAACCAAAGGAAACUC
(((((.(((((((((....)))))))))((((....)))).((((((((((((((((......)))..)))))))))..-((.(((((((....))))))).))..))))..)))))... ( -37.60)
>DroSim_CAF1 27209 119 - 1
UUUCCACAUUAAGUUUUCGAGCUUAGUGCCUUGGAAAAGGGUGGAAAAAGGUUUCCACUUUAUUGGUCAGACCUUUUUG-GUCAGGUUAAAUAGUUAACCUCGCGAACUAAAGGAAACUC
(((((((((((((((....)))))))).((((....)))))))))))..(((((((.............((((.....)-)))(((((((....)))))))...........))))))). ( -39.60)
>DroEre_CAF1 24275 118 - 1
UGUCCACAGUAAGUUUUGGAGCUUAGUGC-UUGAAAAAGGAUUGAAAAAGGUAUUCACUUUCUGGGUCAGACCUUUUCGGGUCAGGUUAAAUAGUUGGCCUCGAGAACCAAGGGAAACU-
..(((.((((...((((.((((.....))-)).))))...)))).....(((.(((.............(((((....)))))(((((((....))))))).))).)))...)))....- ( -31.50)
>DroYak_CAF1 28270 93 - 1
UGUCCAUCCUAAGUUUUUGAGCUUAGUGCCUUGGUAAAGGAUAGAAAAAGGUUA---------------------------AAAGGUUAAAAAGUUAAAAGUUAGAACUAAACGAAACUC
.........(((.(((((((.(((...(((((...............)))))..---------------------------.))).))))))).)))....................... ( -13.46)
>consensus
UUUCCACAUUAAGUUUUCGAGCUUAGUGCCUUGGAAAAGGGUGGAAAAAGGUUUCCACUUUCUUGGUCAGACCUUUUUG_GUCAGGUUAAAUAGUUAACCUCGAGAACUAAAGGAAACUC
(((((((((((((((....)))))))))((((....)))).))))))..(((((((.............(((........)))(((((((....)))))))...........))))))). (-17.51 = -20.72 +   3.21) 

alignment

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secondary structure

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dotplot

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Window 2

Location 4,042,438 – 4,042,558
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 83.75
Mean single sequence MFE -30.29
Consensus MFE -24.94
Energy contribution -25.54
Covariance contribution 0.60
Combinations/Pair 1.26
Mean z-score -1.56
Structure conservation index 0.82
SVM decision value 0.16
SVM RNA-class probability 0.613303
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4042438 120 - 20766785
UUUCUUAAUAGCAUUUAUACCCACAUUGGCUUCUAUUAUUGUUACAACUUUUUCCAAAACGAGCAGGCAGAUUAUGUGGGUUUCCACAUUAAGUUUUCGAGCUUAGUGCCUUGGAAAAGG
...(((............((((((((..((((((....(((..(.......)..)))....)).)))).....))))))))((((((((((((((....)))))))))...)))))))). ( -27.20)
>DroSec_CAF1 25129 120 - 1
UUUCUUAAUACCAUUUAGGCCCACAUUGGCUUCUGUUAUUGUUACAACUUUCUCUAAAACGAGCAGGCAGAUUAUGUGGGUUUCCACAUUAAGUUUUCGAGCUUAGUGCCUUGGAAAAGG
..........((......((((((((...(((((((..(((((..............)))))))))).))...))))))))((((((((((((((....)))))))))...)))))..)) ( -32.14)
>DroSim_CAF1 27288 120 - 1
UUUCUUAAUAGCAUUUAGGCCCACAUUGGCUUCUUUUAUUGUUGAAACUUUCUCCAAAACGAGCAGGCAGAUUAUGUGGGUUUCCACAUUAAGUUUUCGAGCUUAGUGCCUUGGAAAAGG
...(((((......)))))(((((((..(((((((.(.(((..((.....))..))).).))).)))).....)))))))(((((((((((((((....)))))))))...))))))... ( -30.90)
>DroEre_CAF1 24354 111 - 1
--------UUGCAUUUAGGCCCACAUUGGCUUCUGUUAUCGUCACCUCCUUCUCCGAGACGAUUAGGCAGAUUAUGUGGGUGUCCACAGUAAGUUUUGGAGCUUAGUGC-UUGAAAAAGG
--------..(((((.((((((((((.....((((((((((((..............))))))..))))))..)))))))).((((..........)))).)).)))))-.......... ( -32.34)
>DroYak_CAF1 28323 120 - 1
AUUCUUUAUAGUAUUUAUGCCCAUAUUGGCUUCUAAUAUCGUUAAAAUUUUUUUCAAUACGAGUAGGCCGAUUCUGUGGGUGUCCAUCCUAAGUUUUUGAGCUUAGUGCCUUGGUAAAGG
...((((((.(((...((((((((((((((..(((...((((................)))).)))))))))...)))))))).....(((((((....))))))))))....)))))). ( -28.89)
>consensus
UUUCUUAAUAGCAUUUAGGCCCACAUUGGCUUCUAUUAUUGUUACAACUUUCUCCAAAACGAGCAGGCAGAUUAUGUGGGUUUCCACAUUAAGUUUUCGAGCUUAGUGCCUUGGAAAAGG
................((((((((((...((((((...(((((..............))))).)))).))...))))))))))...(((((((((....)))))))))((((....)))) (-24.94 = -25.54 +   0.60) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:50:21 2006