Locus 8593

Sequence ID 3L_DroMel_CAF1
Location 22,377,679 – 22,377,793
Length 114
Max. P 0.951886
window14076 window14077

overview

Window 6

Location 22,377,679 – 22,377,793
Length 114
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 83.69
Mean single sequence MFE -28.07
Consensus MFE -20.89
Energy contribution -21.53
Covariance contribution 0.64
Combinations/Pair 1.05
Mean z-score -1.69
Structure conservation index 0.74
SVM decision value 0.24
SVM RNA-class probability 0.650668
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22377679 114 + 23771897
AGCAAAAAGCGAAUGAAUUAAUCUUGAUGCUGCAUGUGGGGU-----GGCGUGAGGCCGGAGAAAAGCCACAUGCGACACAUGUCGAAGGGGAGGAGCAAAACAACACACCCCCCCCCC
.(((...((((...((.....))....))))...)))((((.-----.(((((.(((.........))).)))))(((....)))...((((.((..............)))))))))) ( -31.54)
>DroSec_CAF1 28756 100 + 1
AGCAAAAAGCGAAUGAAUUAAUCUUAAAGCUGCAUGUGGGGUGGAGUGGCGUGAGGCCGGAGAAAAGCCACAUGCGACACAUGUCGAAGGGGAGGAGCAA-------------------
.((.....))..................(((((((((((..(....((((.....)))).....)..))))))))(((....)))..........)))..------------------- ( -25.80)
>DroSim_CAF1 44299 100 + 1
AGCAAAAAGCGAAUGAAUUAAUCUUAAAGCUGCAUGUGGGGUGGAGUGGCGUGAGGCCGGAGAAAAGCCACAUGCGACACAUGUCGAAGGGGAGGAGCAA-------------------
.((.....))..................(((((((((((..(....((((.....)))).....)..))))))))(((....)))..........)))..------------------- ( -25.80)
>DroEre_CAF1 45168 93 + 1
AGCAAAAAGCAAAUGAAUUAAUCUUAAAGCUGCAUGUGGGCU-----GGCGGGAGGCCGGAGAAAGGCCACUUGCGACACAUGUCGCAGGGGAGGAGC---------------------
.((.....))...........((((...((.(((((((....-----.(((((.((((.......)))).)))))..))))))).))..)))).....--------------------- ( -30.00)
>DroYak_CAF1 38599 95 + 1
AGCAAAAAGCGAAUGAAUUAAUCUUAAAGCUGCAUGUGGGUU-----AGCGUGAGGCCGGAGGAAAGCCGCUAGCGACAGAUGUCGCAGGGGAGGAGCAA-------------------
........((...........((((...(((.(((((.....-----.))))).)))...))))...((.((.(((((....))))))).))....))..------------------- ( -27.20)
>consensus
AGCAAAAAGCGAAUGAAUUAAUCUUAAAGCUGCAUGUGGGGU_____GGCGUGAGGCCGGAGAAAAGCCACAUGCGACACAUGUCGAAGGGGAGGAGCAA___________________
.((.....))..................(((((((((((........(((.....))).........))))))))(((....)))..........)))..................... (-20.89 = -21.53 +   0.64)

alignment

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secondary structure

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dotplot

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Window 7

Location 22,377,679 – 22,377,793
Length 114
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 83.69
Mean single sequence MFE -25.28
Consensus MFE -19.43
Energy contribution -20.07
Covariance contribution 0.64
Combinations/Pair 1.05
Mean z-score -2.30
Structure conservation index 0.77
SVM decision value 1.42
SVM RNA-class probability 0.951886
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22377679 114 - 23771897
GGGGGGGGGGUGUGUUGUUUUGCUCCUCCCCUUCGACAUGUGUCGCAUGUGGCUUUUCUCCGGCCUCACGCC-----ACCCCACAUGCAGCAUCAAGAUUAAUUCAUUCGCUUUUUGCU
((((((((((.(((......))).))))))))))(((....)))((((((((.........(((.....)))-----...))))))))((((..(((.............)))..)))) ( -41.42)
>DroSec_CAF1 28756 100 - 1
-------------------UUGCUCCUCCCCUUCGACAUGUGUCGCAUGUGGCUUUUCUCCGGCCUCACGCCACUCCACCCCACAUGCAGCUUUAAGAUUAAUUCAUUCGCUUUUUGCU
-------------------..(((..........(((....)))((((((((.........(((.....)))........)))))))))))..................((.....)). ( -22.83)
>DroSim_CAF1 44299 100 - 1
-------------------UUGCUCCUCCCCUUCGACAUGUGUCGCAUGUGGCUUUUCUCCGGCCUCACGCCACUCCACCCCACAUGCAGCUUUAAGAUUAAUUCAUUCGCUUUUUGCU
-------------------..(((..........(((....)))((((((((.........(((.....)))........)))))))))))..................((.....)). ( -22.83)
>DroEre_CAF1 45168 93 - 1
---------------------GCUCCUCCCCUGCGACAUGUGUCGCAAGUGGCCUUUCUCCGGCCUCCCGCC-----AGCCCACAUGCAGCUUUAAGAUUAAUUCAUUUGCUUUUUGCU
---------------------((........((((((....)))))).((((.((......(((.....)))-----)).))))..))(((...((((.(((.....))).)))).))) ( -20.90)
>DroYak_CAF1 38599 95 - 1
-------------------UUGCUCCUCCCCUGCGACAUCUGUCGCUAGCGGCUUUCCUCCGGCCUCACGCU-----AACCCACAUGCAGCUUUAAGAUUAAUUCAUUCGCUUUUUGCU
-------------------((((.........(((((....)))))((((((((.......))))....)))-----)........))))...................((.....)). ( -18.40)
>consensus
___________________UUGCUCCUCCCCUUCGACAUGUGUCGCAUGUGGCUUUUCUCCGGCCUCACGCC_____ACCCCACAUGCAGCUUUAAGAUUAAUUCAUUCGCUUUUUGCU
.....................(((..........(((....)))((((((((.........(((.....)))........)))))))))))..................((.....)). (-19.43 = -20.07 +   0.64)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:19:49 2006