Locus 2853

Sequence ID 2R_DroMel_CAF1
Location 9,843,635 – 9,843,743
Length 108
Max. P 0.815126
window4719

overview

Window 9

Location 9,843,635 – 9,843,743
Length 108
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 76.82
Mean single sequence MFE -37.64
Consensus MFE -20.32
Energy contribution -20.88
Covariance contribution 0.56
Combinations/Pair 1.22
Mean z-score -1.93
Structure conservation index 0.54
SVM decision value 0.66
SVM RNA-class probability 0.815126
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9843635 108 + 20766785
AACAGCAGCUACUACGUCCG------CACUCGCAAUCCUACCAAGCGUGUCAUGUGGAGCGCAAAUCACUGCCGAACAACUUGAGUCCCAUAAUGGUGGGUCUGCCCACUGGGA---
..(.((((......((((((------(((.(((...........))).))...))))).)).......)))).)...........(((((.....(((((....))))))))))--- ( -29.22)
>DroVir_CAF1 25769 117 + 1
AGCAACAGCUGCUGCGCUCACAAUCCCACUCGCAUUCCUAUCAGGCGCUGCACGUAGAGCGCAAAUCGCUGCCCAACAAUCUGAGUCCCAUGCUCUCGGGCAUGUCCAACAGCGGCU
......((((((((.(((((...........(((..((.....))...)))..((.(.((((.....)).)).).))....)))))..((((((....)))))).....)))))))) ( -33.00)
>DroPse_CAF1 2893 95 + 1
AGCAGCAGCUGCUGCGCCCC------CACUCCCAGUCCUAUCAGGCGCUGCAUGUGGAGCGCAAGUCGCUGCCGAACAACAUGAGUCCCAUCAUGAUGGGA----------------
....(((((.(((((((..(------(((...((((((.....)).))))...)))).)))).))).))))).............((((((....))))))---------------- ( -38.90)
>DroEre_CAF1 2982 108 + 1
AACAGCAGCUGCUGCGUCCA------CACUCGCAAUCCUACCAAGCGUUGCAUGUGGAGCGCAAGUCGCUGCCGAAUAACUUGAGUCCCAUCAUGGUGGGCCUGCCCACCGGGA---
..(.(((((.((((((((((------((...(((((.((....)).))))).)))))).))).))).))))).)...........((((.....((((((....))))))))))--- ( -46.30)
>DroYak_CAF1 2881 108 + 1
AGCAGCAGCUGCUGCGUCCA------CACUCCCAAUCCUACCAAGCGUUGCAUGUGGAGCGCAAGUCGCUGCCGAAUAACUUGAGUCCUAUAAUGGUGGGCCUGCCCAUCGGCA---
.((.(((((.((((((((((------((....((((.((....)).))))..)))))).))).))).))))).....................(((((((....))))))))).--- ( -39.50)
>DroPer_CAF1 6409 95 + 1
AGCAGCAGCUGCUGCGCCCC------CACUCCCAGUCCUAUCAGGCGCUGCAUGUGGAGCGCAAGUCGCUGCCGAACAACAUGAGUCCCAUCAUGAUGGGA----------------
....(((((.(((((((..(------(((...((((((.....)).))))...)))).)))).))).))))).............((((((....))))))---------------- ( -38.90)
>consensus
AGCAGCAGCUGCUGCGCCCA______CACUCCCAAUCCUACCAAGCGCUGCAUGUGGAGCGCAAGUCGCUGCCGAACAACUUGAGUCCCAUCAUGGUGGGCCUGCCCA_CGG_A___
....(((((.(((((((.(.......(((...((((.((....)).))))...)))).)))).))).)))))..............(((((....)))))................. (-20.32 = -20.88 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:11 2006