Locus 7201

Sequence ID 3R_DroMel_CAF1
Location 18,967,014 – 18,967,129
Length 115
Max. P 0.567370
window11652

overview

Window 2

Location 18,967,014 – 18,967,129
Length 115
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 84.38
Mean single sequence MFE -40.83
Consensus MFE -27.40
Energy contribution -28.52
Covariance contribution 1.11
Combinations/Pair 1.14
Mean z-score -2.50
Structure conservation index 0.67
SVM decision value 0.07
SVM RNA-class probability 0.567370
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18967014 115 - 27905053
UCCAUCUCCGCAAUC--CCGCAAGAAGAAACGCAAACGAU---GCGCCACAUUGCGCAUACGCAGCGUUGCCUCAGCAGGCUGACCUCUCUGGUGGCCCUGCUGCUGAUCGUCUUGCCGA
...............--..((((((.(((((((...((((---((((......)))))).))..)))))....(((((((.(.(((.....))).).)))))))....)).))))))... ( -42.00)
>DroSec_CAF1 78115 109 - 1
UCCAUCUCCGCAAGC--CC------AGAAACGCAAACGAU---GCGCCACAUUGCGCAUACGCAGCGUUGCCUCAGCAGGCUGACCUCUCUGGUGGCCCUGCUGCUGAUCGUCUUGCCAA
.........((((((--.(------((.(((((...((((---((((......)))))).))..)))))....(((((((.(.(((.....))).).))))))))))...).)))))... ( -40.10)
>DroSim_CAF1 79902 109 - 1
UCCAUCUCCGCAAGC--CC------AGAAACGCAAACGAU---GCGCCACAUUGCGCAUACGCAGCGUUGCCUCAGCAGGCUGACCUCUCUGGUGGCCCUGCUGCUGAUCGUCUUGCCAA
.........((((((--.(------((.(((((...((((---((((......)))))).))..)))))....(((((((.(.(((.....))).).))))))))))...).)))))... ( -40.10)
>DroEre_CAF1 78552 109 - 1
UCCAUUUCCGCAAGC--CC------AGAAACGCAAGCGAU---GCGCCACAUUGCGCAUACGCAGCGUUGCCUCAGCAGGCUCACCUCUCUGGUGGCCCUGCUGCUGAUCGUCUUGCCGA
......((.((((((--.(------((.(((((..(((((---((((......)))))).))).)))))....(((((((..((((.....))))..))))))))))...).))))).)) ( -47.30)
>DroYak_CAF1 80985 109 - 1
UCCAUUUCCGCAACG--CC------AGAAUCGCAAACGAU---GCGCCACAUUGCGCAUACGCAGCGUUGCCUCAGCAGGCUCACCUCUCUGGUGGCCCUGCUGCUGAUCGUCUUGCCGA
.........((((((--(.------...((((....))))---((((......)))).......)))))))..(((((((..((((.....))))..)))))))....(((......))) ( -40.40)
>DroAna_CAF1 80400 114 - 1
CUGAUUGCGACACUCCUCC------AGCGGCGGAAAAGAUCCAGCGCCACAUUGCGUAUACGCAACGUUGCCCUGGCAAGAUCACAACUCUGCUGGCAGUCCUGCUCCUGGUGCUGCCUC
......((...........------.))((((((...(((((((.((.((.(((((....))))).)).)).))))....))).....))))))((((((((.......)).)))))).. ( -35.10)
>consensus
UCCAUCUCCGCAAGC__CC______AGAAACGCAAACGAU___GCGCCACAUUGCGCAUACGCAGCGUUGCCUCAGCAGGCUCACCUCUCUGGUGGCCCUGCUGCUGAUCGUCUUGCCGA
...............................(((((((((...((((......))))....((((((..(((((((.(((....)))..)))).)))..))))))..))))).))))... (-27.40 = -28.52 +   1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:39:59 2006