Locus 9840

Sequence ID 3R_DroMel_CAF1
Location 26,186,055 – 26,186,154
Length 99
Max. P 0.875970
window15711

overview

Window 1

Location 26,186,055 – 26,186,154
Length 99
Sequences 6
Columns 105
Reading direction reverse
Mean pairwise identity 76.20
Mean single sequence MFE -22.82
Consensus MFE -18.33
Energy contribution -18.42
Covariance contribution 0.08
Combinations/Pair 1.14
Mean z-score -1.17
Structure conservation index 0.80
SVM decision value 0.89
SVM RNA-class probability 0.875970
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26186055 99 - 27905053
CGAGUAGUCACUGUAGAAGCUCAGACGCUGCUGCGGAUGCAUUAGCAUCUUGAAGCAGUUAUUGCACUGCAAUGGGAGGAGGG---AGAAGACGAAAAUGGG---
...((..((.((.(.....(((....((((((..((((((....))))))...))))))((((((...)))))).))).).))---.))..)).........--- ( -25.90)
>DroVir_CAF1 233428 90 - 1
CGAGUAAUCGCUGUAGAAGCUCAGCCGCUGCUGCGGAUGCAUUAGCAUCUUGAAGCAAUUAUUGCACUGCAAGAA---------------AACGAAGAGAACAUA
...((..(((((((((.(((......))).))))((((((....))))))...))).....((((...))))...---------------......))..))... ( -21.60)
>DroSec_CAF1 168067 95 - 1
UGAGUAGUCACUGUAGAAGCUCAGCCGCUGCUGCGGAUGCAUUAGCAUCUUGAAGCAGUUAUUGCACUGCAAUGGGA----------GGAGACGAAAAUGGAAAG
(((((..((......)).))))).((((((((..((((((....))))))...))))))((((((...)))))))).----------(....)............ ( -28.00)
>DroWil_CAF1 219999 94 - 1
CGAGUAAUCGCUAUAGAAGCUCAGCCGCUGUUGUGGAUGCAUAAGCAUUUUGAAGCAGUUAUUGCACUAAAAGA-U----UCA---AACAAAAGAAAAUGGG---
.((((..((......)).))))..((((((((..((((((....))))))...))))))...............-(----((.---.......)))...)).--- ( -18.10)
>DroMoj_CAF1 242088 100 - 1
CGAGUAGUCGCUGUAGAAGCUCAGCCGCUGCUGUGGAUGCAUUAGCAUCUUGAAGCAAUUAUUGCACUGCAAGAAAAAU--AC---AAAAAACGAAAAAAAGAAA
...(((((.((.((((.(((......)))(((..((((((....))))))...)))..)))).))))))).........--..---................... ( -23.90)
>DroAna_CAF1 178308 102 - 1
CGAGUAAUCACUGUAGAAGCUCAGACGCUGCUGCGGAUGCAUCAGCAUUUUGAAGCAGUUAUUGCACUAAAAUAAAAUAAACCAUAGAAACAAAAAAAUACG---
...(((((.(((((......(((((.((((.(((....))).))))..))))).))))).))))).....................................--- ( -19.40)
>consensus
CGAGUAAUCACUGUAGAAGCUCAGCCGCUGCUGCGGAUGCAUUAGCAUCUUGAAGCAGUUAUUGCACUGCAAGAAAA_________AAAAAACGAAAAUAGG___
.((....))..(((((..((......((((((..((((((....))))))...))))))....)).))))).................................. (-18.33 = -18.42 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:43:19 2006