Locus 4893

Sequence ID 2R_DroMel_CAF1
Location 15,991,944 – 15,992,039
Length 95
Max. P 0.593491
window7844

overview

Window 4

Location 15,991,944 – 15,992,039
Length 95
Sequences 5
Columns 110
Reading direction reverse
Mean pairwise identity 88.62
Mean single sequence MFE -40.09
Consensus MFE -28.55
Energy contribution -28.95
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.82
Structure conservation index 0.71
SVM decision value 0.12
SVM RNA-class probability 0.593491
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15991944 95 - 20766785
A--CAAUGCAAUGGCCAAAGCCUGUUGGCCUGGUCCACUAGCGGCUAUAUCGUGGA--G---AAGGGCCAGGACGAACGCACUGCUGCG--------CUGCUGCGUUGGG
.--(((((((..(((((.((..((((.(((((((((.((.((((.....))))..)--)---..)))))))).).))))..))..)).)--------))..))))))).. ( -39.50)
>DroSec_CAF1 47651 95 - 1
A--CAAUGCAAUGGCCAAAGCCUGUUGGCCUGGUCCACUAGCAGCGAAAUCGAGGA--G---AAGGGCCAGGACGAACGCACUGCUGCG--------CUGCUGCGUUGGG
.--(((((((..(((((.((..((((.(((((((((.....(..((....))..).--.---..)))))))).).))))..))..)).)--------))..))))))).. ( -38.50)
>DroSim_CAF1 48393 95 - 1
A--CAAUGCAAUGGCCAAAGCCUGUUGGCCUGGUCCACUAGCAGCGAAAUCGAGGA--G---AAGGGCCAGGACGAACGCACUGCUGCG--------CUGCUGCGUUGGG
.--(((((((..(((((.((..((((.(((((((((.....(..((....))..).--.---..)))))))).).))))..))..)).)--------))..))))))).. ( -38.50)
>DroEre_CAF1 53928 105 - 1
A--CAAUGCAAUGGCCAAGGCCUGUUGGCCUGCUCCACUAGCAGCAAAUUCGAGGA--GCAG-AGGGCCAGGACGAACGCACUGCUGCGCUGCUGCGCUGCUGCGUUGGG
.--........(((((.(((((....)))))(((((.................)))--))..-..)))))...(.((((((..((.((((....)))).)))))))).). ( -45.23)
>DroYak_CAF1 56281 102 - 1
ACACAAUGCAAUGGCCAAAGCCUGUUGGCCUGCUCCACUACCAGAGAUCUCGAGGAGAGCAGAAGGGCCAGGACGAACGCACUGCUGCG--------CUGCUGCGUUGGG
...(((((((.(((((...(((....)))((((((..((....((....)).))..))))))...))))).......((((....))))--------....))))))).. ( -38.70)
>consensus
A__CAAUGCAAUGGCCAAAGCCUGUUGGCCUGGUCCACUAGCAGCGAAAUCGAGGA__G___AAGGGCCAGGACGAACGCACUGCUGCG________CUGCUGCGUUGGG
...(((((((..(((....))).(((.(((((((((............................)))))))).).)))(((....))).............))))))).. (-28.55 = -28.95 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:37 2006