Locus 1631

Sequence ID 3R_DroMel_CAF1
Location 4,761,975 – 4,762,066
Length 91
Max. P 0.993733
window2683 window2684

overview

Window 3

Location 4,761,975 – 4,762,066
Length 91
Sequences 6
Columns 94
Reading direction forward
Mean pairwise identity 88.70
Mean single sequence MFE -39.73
Consensus MFE -32.69
Energy contribution -32.08
Covariance contribution -0.61
Combinations/Pair 1.18
Mean z-score -4.29
Structure conservation index 0.82
SVM decision value 2.42
SVM RNA-class probability 0.993733
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4761975 91 + 27905053
CAAGGAUAUCGCCACCAGG---CCGGUUUCGCUGCAUCAAAUGGCCAAUGAGGCAGCGGAGUCGAACUGGUGCUACCAGGAUAAUUGGAAGCAU
...((......))(((((.---.((..((((((((.(((.........))).))))))))..))..)))))(((.((((.....)))).))).. ( -37.50)
>DroSec_CAF1 1144 91 + 1
CAAGGAGAUCGCCACCAGA---CCGGCUUCGCUGCACCAAAUGGCCAAUGAGGCAGCGGAGUCGAACUGGUGCUACCAGGAUAAUUGGAAGCAU
...((......))(((((.---.((((((((((((..((.........))..))))))))))))..)))))(((.((((.....)))).))).. ( -39.20)
>DroSim_CAF1 1147 91 + 1
UAAGGAGAUCCCCACCAGA---CCGGCUUCGCUGCAUCAAAUGGCCAAUGAGGCAGCGGAGUCGAACUGGUGCUACCAGGAUAAUUGGAAGCAU
...((......))(((((.---.((((((((((((.(((.........))).))))))))))))..)))))(((.((((.....)))).))).. ( -39.70)
>DroEre_CAF1 1118 91 + 1
CCAGGAGACCUCCACCAGA---CCGGCUUCGCUGCACCAAAUGGCCAAUGAGGCAGCGGAGUCGAACUGGUGCUACCAGGAUAAUUGGAAGCAU
...(((....)))(((((.---.((((((((((((..((.........))..))))))))))))..)))))(((.((((.....)))).))).. ( -41.30)
>DroYak_CAF1 1157 94 + 1
CAAGGAGAGCGCCACCAGACAACCGGCUUCGCUGCACCAAAUGGCCAAUGAGGCAGCGGAGUCGAACUGGUGCUACCAGGAUAAUUGGAAGCAU
...((......))(((((.....((((((((((((..((.........))..))))))))))))..)))))(((.((((.....)))).))).. ( -36.70)
>DroAna_CAF1 1068 91 + 1
CAAGGCGAUUAACGCCAAU---UCGGCUACCCUGCAGAAACUGGCCAAGGCUGCAGGGGAGUCGAAUUGGUGCUACCAGGAUAAUUGGAAUCAU
......((((..(((((((---((((((.((((((((...((.....)).)))))))).)))))))))))))...((((.....)))))))).. ( -44.00)
>consensus
CAAGGAGAUCGCCACCAGA___CCGGCUUCGCUGCACCAAAUGGCCAAUGAGGCAGCGGAGUCGAACUGGUGCUACCAGGAUAAUUGGAAGCAU
...((......))(((((.....((((((((((((.....((.....))...))))))))))))..)))))(((.((((.....)))).))).. (-32.69 = -32.08 +  -0.61)

alignment

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secondary structure

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dotplot

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Window 4

Location 4,761,975 – 4,762,066
Length 91
Sequences 6
Columns 94
Reading direction reverse
Mean pairwise identity 88.70
Mean single sequence MFE -31.55
Consensus MFE -26.55
Energy contribution -26.25
Covariance contribution -0.30
Combinations/Pair 1.20
Mean z-score -1.87
Structure conservation index 0.84
SVM decision value 0.37
SVM RNA-class probability 0.708697
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4761975 91 - 27905053
AUGCUUCCAAUUAUCCUGGUAGCACCAGUUCGACUCCGCUGCCUCAUUGGCCAUUUGAUGCAGCGAAACCGG---CCUGGUGGCGAUAUCCUUG
..(((.(((.......))).)))(((((..((....((((((.(((.........))).))))))....)).---.)))))............. ( -29.40)
>DroSec_CAF1 1144 91 - 1
AUGCUUCCAAUUAUCCUGGUAGCACCAGUUCGACUCCGCUGCCUCAUUGGCCAUUUGGUGCAGCGAAGCCGG---UCUGGUGGCGAUCUCCUUG
..(((.(((.......))).)))(((((..((.((.((((((.(((.........))).)))))).)).)).---.)))))............. ( -30.40)
>DroSim_CAF1 1147 91 - 1
AUGCUUCCAAUUAUCCUGGUAGCACCAGUUCGACUCCGCUGCCUCAUUGGCCAUUUGAUGCAGCGAAGCCGG---UCUGGUGGGGAUCUCCUUA
..(((.(((.......))).)))(((((..((.((.((((((.(((.........))).)))))).)).)).---.)))))((((....)))). ( -34.10)
>DroEre_CAF1 1118 91 - 1
AUGCUUCCAAUUAUCCUGGUAGCACCAGUUCGACUCCGCUGCCUCAUUGGCCAUUUGGUGCAGCGAAGCCGG---UCUGGUGGAGGUCUCCUGG
..(((.(((.......))).)))(((((..((.((.((((((.(((.........))).)))))).)).)).---.)))))(((....)))... ( -32.90)
>DroYak_CAF1 1157 94 - 1
AUGCUUCCAAUUAUCCUGGUAGCACCAGUUCGACUCCGCUGCCUCAUUGGCCAUUUGGUGCAGCGAAGCCGGUUGUCUGGUGGCGCUCUCCUUG
.(((..((((....((.((((((...((.....))..)))))).....))....)))).)))(((..(((((....)))))..)))........ ( -30.00)
>DroAna_CAF1 1068 91 - 1
AUGAUUCCAAUUAUCCUGGUAGCACCAAUUCGACUCCCCUGCAGCCUUGGCCAGUUUCUGCAGGGUAGCCGA---AUUGGCGUUAAUCGCCUUG
..(((.(((.......)))((((.((((((((.((.((((((((.((.....))...)))))))).)).)))---))))).)))))))...... ( -32.50)
>consensus
AUGCUUCCAAUUAUCCUGGUAGCACCAGUUCGACUCCGCUGCCUCAUUGGCCAUUUGGUGCAGCGAAGCCGG___UCUGGUGGCGAUCUCCUUG
..(((.(((.......))).)))(((((.(((.((.((((((.(((.........))).)))))).)).)))....)))))............. (-26.55 = -26.25 +  -0.30)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:15:16 2006