Locus 6358

Sequence ID 2R_DroMel_CAF1
Location 19,939,133 – 19,939,241
Length 108
Max. P 0.927189
window10157 window10158

overview

Window 7

Location 19,939,133 – 19,939,241
Length 108
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 76.79
Mean single sequence MFE -41.72
Consensus MFE -28.65
Energy contribution -29.97
Covariance contribution 1.32
Combinations/Pair 1.19
Mean z-score -1.70
Structure conservation index 0.69
SVM decision value 1.18
SVM RNA-class probability 0.927189
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19939133 108 + 20766785
GCAAAUGUGCCAACUACCGG-GUGGCCAAAAAGUGGGCGGGAUGACCGCUUUGGGCGUGGCAGCCGCCAGAAUUGUGGCCACUGGACGUGGACGUGGAUGUGGAUGUGG------
(((.((((.(((.(((((.(-(((((((...(((.(((((..((.((((.......)))))).)))))...))).)))))))).)..))))...)))))))...)))..------ ( -42.10)
>DroSec_CAF1 22293 96 + 1
GCAAAUGUGCCAACUACCGG-GUGGCCAAAAAGUGGGCGGGAUGACCGCUUUGGGCGUGGCAGCCGCCAGCAUUGUGGCCACUGGACGUGGACGUGG------------------
....((((.(((....((((-.((((((.((.((.(((((..((.((((.......)))))).))))).)).)).))))))))))...)))))))..------------------ ( -41.30)
>DroSim_CAF1 22606 105 + 1
GCAAAUGUGCCAACUACCGG-GUGGCCAAAAAGUGGGCGGGAUGACCGCUUUGGGCGUGGCAGCCGCCAGCAUUGUGGCCACUGGACGUGGACGUGGAUGUGGAUG---------
(((.((((.(((....((((-.((((((.((.((.(((((..((.((((.......)))))).))))).)).)).))))))))))...)))))))...))).....--------- ( -42.60)
>DroEre_CAF1 21302 94 + 1
GCAAAUGUGCCAACUACCGG-GUGGCCAGAAAGUGGGCGGGAUGACCGCUUUGGGCGUGGCAGCCGCUGCCAUUGUGGCCACUGGAUGUGGAUGU--------------------
(((....)))((.(((((.(-(((((((.((...((((((.....))))))..(((((((...)))).))).)).)))))))).)..)))).)).-------------------- ( -39.00)
>DroYak_CAF1 19814 108 + 1
GCAAAUGUGCCAACUACCGG-GUGGCCAGAAAGUGGGCGGCAUGACCGCUUUGGGCGUGGCAGCCGCUGGCAUUGUGGCCACUGGAUGUGGAUGUGAAUGUGGAUGGGA------
.........(((.(((((.(-(((((((.((.((.((((((.((.((((.......)))))))))))).)).)).)))))))).)..((........)))))).)))..------ ( -46.20)
>DroAna_CAF1 20177 98 + 1
GCAAAUGUGCCAACGAGUGGGGUGGACCAAA-AUGAGUGG---------------CGU-CCACCCGCUGGCAAUGUGGCCGCAGGAUGUGCAUGUGCAUCGGGGUGGACCACUAA
........((((.....(((......)))..-.....)))---------------)((-((((((((.(((......)))))..((((((....)))))).))))))))...... ( -39.10)
>consensus
GCAAAUGUGCCAACUACCGG_GUGGCCAAAAAGUGGGCGGGAUGACCGCUUUGGGCGUGGCAGCCGCCAGCAUUGUGGCCACUGGACGUGGACGUGGAUGUGGAUG_________
....((((.(((....(((..(((((((.((.((.(((((..((.((((.......)))))).))))).)).)).))))))))))...))))))).................... (-28.65 = -29.97 +   1.32)

alignment

Postscript

secondary structure

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dotplot

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Window 8

Location 19,939,133 – 19,939,241
Length 108
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 76.79
Mean single sequence MFE -33.07
Consensus MFE -19.02
Energy contribution -20.90
Covariance contribution 1.88
Combinations/Pair 1.05
Mean z-score -1.89
Structure conservation index 0.58
SVM decision value 0.85
SVM RNA-class probability 0.866008
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19939133 108 - 20766785
------CCACAUCCACAUCCACGUCCACGUCCAGUGGCCACAAUUCUGGCGGCUGCCACGCCCAAAGCGGUCAUCCCGCCCACUUUUUGGCCAC-CCGGUAGUUGGCACAUUUGC
------................(((.((..((.(((((((.((....(((((.((.(.(((.....)))).))..)))))....)).)))))))-..))..)).)))........ ( -33.20)
>DroSec_CAF1 22293 96 - 1
------------------CCACGUCCACGUCCAGUGGCCACAAUGCUGGCGGCUGCCACGCCCAAAGCGGUCAUCCCGCCCACUUUUUGGCCAC-CCGGUAGUUGGCACAUUUGC
------------------....(((.((..((.(((((((.((.(..(((((.((.(.(((.....)))).))..)))))..).)).)))))))-..))..)).)))........ ( -33.20)
>DroSim_CAF1 22606 105 - 1
---------CAUCCACAUCCACGUCCACGUCCAGUGGCCACAAUGCUGGCGGCUGCCACGCCCAAAGCGGUCAUCCCGCCCACUUUUUGGCCAC-CCGGUAGUUGGCACAUUUGC
---------.............(((.((..((.(((((((.((.(..(((((.((.(.(((.....)))).))..)))))..).)).)))))))-..))..)).)))........ ( -33.20)
>DroEre_CAF1 21302 94 - 1
--------------------ACAUCCACAUCCAGUGGCCACAAUGGCAGCGGCUGCCACGCCCAAAGCGGUCAUCCCGCCCACUUUCUGGCCAC-CCGGUAGUUGGCACAUUUGC
--------------------....(((...((.(((((((...((((((...))))))........((((.....))))........)))))))-..))....)))......... ( -29.80)
>DroYak_CAF1 19814 108 - 1
------UCCCAUCCACAUUCACAUCCACAUCCAGUGGCCACAAUGCCAGCGGCUGCCACGCCCAAAGCGGUCAUGCCGCCCACUUUCUGGCCAC-CCGGUAGUUGGCACAUUUGC
------..................(((...((.(((((((.((.....(((((((.(.(((.....)))).)).))))).....)).)))))))-..))....)))......... ( -31.10)
>DroAna_CAF1 20177 98 - 1
UUAGUGGUCCACCCCGAUGCACAUGCACAUCCUGCGGCCACAUUGCCAGCGGGUGG-ACG---------------CCACUCAU-UUUGGUCCACCCCACUCGUUGGCACAUUUGC
...((((((((......(((....))).....)).))))))..(((((((((((((-..(---------------(((.....-..)))).....)))))))))))))....... ( -37.90)
>consensus
_________CAUCCACAUCCACAUCCACAUCCAGUGGCCACAAUGCCAGCGGCUGCCACGCCCAAAGCGGUCAUCCCGCCCACUUUUUGGCCAC_CCGGUAGUUGGCACAUUUGC
........................(((...((.(((((((.((....(((((......(((.....)))......)))))....)).)))))))...))....)))......... (-19.02 = -20.90 +   1.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:09:07 2006