Locus 3249

Sequence ID	2R_DroMel_CAF1
Location	11,101,372 – 11,101,467
Length	95
Max. P	0.557630

overview

Window 3

Location	11,101,372 – 11,101,467
Length	95
Sequences	6
Columns	113
Reading direction	reverse
Mean pairwise identity	76.51
Mean single sequence MFE	-35.12
Consensus MFE	-13.38
Energy contribution	-13.69
Covariance contribution	0.31
Combinations/Pair	1.36
Mean z-score	-2.19
Structure conservation index	0.38
SVM decision value	0.05
SVM RNA-class probability	0.557630
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11101372 95 - 20766785
------UUCUGGCAAG--GCAGCCGUGGCACAUAAAUUGCCGGG-GCUGCAAA-GCGGCUUAAACGAAUUGCC-GCAGC----CCACAAGAAGUUGGCUUGGCUAGCAGU---
------..(((((...--((((((.(((((.......))))).)-)))))...-(((((...........)))-))(((----(.((.....)).))))..)))))....--- ( -42.80)
>DroVir_CAF1 20349 96 - 1
------UUCUUGCGUU--UUGGCCAUGGCACAUAAAUUGCCGG--ACUGUAAA-GCGGCUUAAACGAAUUGCC-GCUCUGCCGCAGCAACAACUUGGC--AGCUCGCACU---
------....((((..--...(((((((((.......)))))(--.((((..(-(((((...........)))-))).....))))).......))))--....))))..--- ( -29.50)
>DroPse_CAF1 12947 100 - 1
------UUCUAGCAAG--ACAGACAUGGCCCAUAAAUUGUUGGGCGCUGCAAAAGCGGCUUAAACGAAUUGCC-GCAGC----CCGCAACAACUUGGCUUGGACCGCGUUUCG
------..........--..((((.(((.((((((.((((((((.(((((......(((...........)))-)))))----)).)))))).)))...))).))).)))).. ( -27.80)
>DroGri_CAF1 20352 105 - 1
CUUUUUUUUUUGCCUUUGUUGGUCAUGGCACAUAAAUUGCCGG--ACUGUAAA-GCGGCUUAAACGAAUUGCCGGCUCUGCUGCAGCAACAACUUGGC--AGCUGGCACU---
..(((.(((..((((((...((((.(((((.......))))))--)))...))-).)))..))).))).((((((((..((((.((......))))))--))))))))..--- ( -31.20)
>DroYak_CAF1 14588 95 - 1
------UUCUGGCAAG--GCAGCCGUGGCACAUAAAUUGCCGGG-GCUGCAAA-GCGGCUUAAACGAAUUGCC-GCAGC----CCGCAAGAAGUUGGCUUGGCUAGCAGU---
------..(((((...--((((((.(((((.......))))).)-)))))...-(((((...........)))-))(((----(.((.....)).))))..)))))....--- ( -43.10)
>DroAna_CAF1 14713 95 - 1
------UUCUGGCAAG--GCAGUCGUGGCCCAUAAAUUGCCAGG-GCUGCAAA-GCUGCUUAAACGAAUUGCC-GCAGC----CCGCAAGAAGUUGGCUUGGCUAGCAGU---
------..........--((((((.((((.........)))).)-)))))...-((((((..........(((-(.(((----(.((.....)).)))))))).))))))--- ( -36.30)
>consensus
______UUCUGGCAAG__GCAGCCAUGGCACAUAAAUUGCCGGG_GCUGCAAA_GCGGCUUAAACGAAUUGCC_GCAGC____CCGCAACAACUUGGCUUGGCUAGCAGU___
........(((((((......((....)).......)))))))...........((((((....(((.((((.............))))....)))....)))).))...... (-13.38 = -13.69 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:51:02 2006