Locus 2714

Sequence ID 2L_DroMel_CAF1
Location 7,623,673 – 7,623,780
Length 107
Max. P 0.931762
window4320 window4321

overview

Window 0

Location 7,623,673 – 7,623,780
Length 107
Sequences 4
Columns 107
Reading direction forward
Mean pairwise identity 88.41
Mean single sequence MFE -29.98
Consensus MFE -23.50
Energy contribution -23.50
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.32
Structure conservation index 0.78
SVM decision value 1.22
SVM RNA-class probability 0.931762
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7623673 107 + 22407834
GAUUUUGAAUAUACGUACAUACAUAUAGGUACGUAUGCACAUUUGGAAAUCUAGGCAAUGGCUUUGCUUGAUUUAUGUGCUUGUGCCCACGGGGUGUGUUCCCCAUU
.........((((.((....)).))))((((((...((((((....(((((.((((((.....))))))))))))))))).))))))...((((......))))... ( -32.20)
>DroSec_CAF1 123438 103 + 1
GAUUUUGAAUAUA----CAUACGUAUAUGUACCUAUGCACAUUUGGAAAUCUAGGCAAUGGCUUUGCUUGAUUUAUGGGCUUGUGCCCACGGGGUGUGUUCCCCAUU
((((((.((....----((((.(((....))).)))).....)).))))))(((((((.....))))))).....(((((....))))).((((......))))... ( -30.90)
>DroSim_CAF1 129359 103 + 1
GAUUUUGAAUAUA----CAUACGUAUACGUACCUAUGCACAUUUGGAAAUCUAGGCAAUGGCUUUGCUUGAUUUAUGGGCUUGUGCCCACGGGGUGUGUUCCCCAUU
......(((((((----(.((((....))))(((............(((((.((((((.....))))))))))).(((((....))))).)))))))))))...... ( -31.40)
>DroYak_CAF1 126608 90 + 1
GAUUUUCAAC-------------UA----UACGUAUGCACAUUUAGAAAUCUAGGCAAUGGCUUUGCUUGAUUUAUGUGCUUGUGCCCACGGGGUGUGUUCCCCAUU
..........-------------..----((((...((((((....(((((.((((((.....))))))))))))))))).)))).....((((......))))... ( -25.40)
>consensus
GAUUUUGAAUAUA____CAUACGUAUA_GUACCUAUGCACAUUUGGAAAUCUAGGCAAUGGCUUUGCUUGAUUUAUGGGCUUGUGCCCACGGGGUGUGUUCCCCAUU
....................................(((((.....(((((.((((((.....))))))))))).......)))))....((((......))))... (-23.50 = -23.50 +   0.00)

alignment

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secondary structure

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dotplot

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Window 1

Location 7,623,673 – 7,623,780
Length 107
Sequences 4
Columns 107
Reading direction reverse
Mean pairwise identity 88.41
Mean single sequence MFE -29.03
Consensus MFE -19.40
Energy contribution -19.40
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -3.69
Structure conservation index 0.67
SVM decision value 0.89
SVM RNA-class probability 0.874647
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7623673 107 - 22407834
AAUGGGGAACACACCCCGUGGGCACAAGCACAUAAAUCAAGCAAAGCCAUUGCCUAGAUUUCCAAAUGUGCAUACGUACCUAUAUGUAUGUACGUAUAUUCAAAAUC
.((((((......))))))((((....))....(((((..((((.....))))...)))))))..(((((((((((((....)))))))))))))............ ( -29.90)
>DroSec_CAF1 123438 103 - 1
AAUGGGGAACACACCCCGUGGGCACAAGCCCAUAAAUCAAGCAAAGCCAUUGCCUAGAUUUCCAAAUGUGCAUAGGUACAUAUACGUAUG----UAUAUUCAAAAUC
...((((......))))((((((....)))))).......((((.....))))...(((((...((((((((((.(((....))).))))----))))))..))))) ( -32.50)
>DroSim_CAF1 129359 103 - 1
AAUGGGGAACACACCCCGUGGGCACAAGCCCAUAAAUCAAGCAAAGCCAUUGCCUAGAUUUCCAAAUGUGCAUAGGUACGUAUACGUAUG----UAUAUUCAAAAUC
...((((......))))((((((....)))))).......((((.....))))...(((((...((((((((((.(((....))).))))----))))))..))))) ( -32.50)
>DroYak_CAF1 126608 90 - 1
AAUGGGGAACACACCCCGUGGGCACAAGCACAUAAAUCAAGCAAAGCCAUUGCCUAGAUUUCUAAAUGUGCAUACGUA----UA-------------GUUGAAAAUC
.((((((......))))))........(((((((((((..((((.....))))...)))))....)))))).......----..-------------.......... ( -21.20)
>consensus
AAUGGGGAACACACCCCGUGGGCACAAGCACAUAAAUCAAGCAAAGCCAUUGCCUAGAUUUCCAAAUGUGCAUACGUAC_UAUACGUAUG____UAUAUUCAAAAUC
.((((((......))))))..(((((.......(((((..((((.....))))...))))).....))))).................................... (-19.40 = -19.40 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:34:28 2006