Locus 2022

Sequence ID X_DroMel_CAF1
Location 5,542,499 – 5,542,602
Length 103
Max. P 0.500000
window3287

overview

Window 7

Location 5,542,499 – 5,542,602
Length 103
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 76.71
Mean single sequence MFE -30.04
Consensus MFE -21.30
Energy contribution -21.34
Covariance contribution 0.04
Combinations/Pair 1.06
Mean z-score -1.24
Structure conservation index 0.71
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5542499 103 - 22224390
AUCCAUGGAGGCGACCGAUCAGGGGGCGGUGUAUUCCGCCAAGGACACACCGUUAAAUGCGCACAAUUGCCGGCGGGGCUG---------AAAAC-AAACCAAGAAAAAA-------UAA
.....(((..(((.((.....)).((((((((..(((.....))).)))))))).....)))......(((.....)))..---------.....-...)))........-------... ( -27.20)
>DroSec_CAF1 4419 102 - 1
AUCCAUGGAGGCGGCCGAUCAGGGGGCGGUGUAUUCCGCCAAGGACACACCGUUAAAUGCGCACAAUUGCCGGCGGGGCAG---------AAAAACAAACCAAGAAAAAAA---------
.....(((..(((.((.....)).((((((((..(((.....))).)))))))).....)))....(((((.....)))))---------.........))).........--------- ( -29.20)
>DroSim_CAF1 4143 104 - 1
AUCCAUGGAGGCGGCCGAUCAGGGGGCGGUGUAUUCCGCCAAGGACACACCGUUAAAUGCGCACAAUUGCCGGCGGGGCAG---------AAAAACA-ACCAAGAAAAAAA-----AUA-
.....(((..(((.((.....)).((((((((..(((.....))).)))))))).....)))....(((((.....)))))---------.......-.))).........-----...- ( -29.20)
>DroEre_CAF1 4589 100 - 1
--------UGGCGGCCGACCAGGGGGCGGUGUAUUCCGCCAAGGACACACCGUUAAAUGUGGAAAAUUGCCGGCGGGCCAGCAGC---AGCAUAC-AAAACA-----AAGAG--GAAAA-
--------((((.((((.(((.(.((((((((..(((.....))).))))))))...).)))........))))..))))((...---.))....-......-----.....--.....- ( -29.50)
>DroYak_CAF1 4332 110 - 1
--------AGGCGGCCGAUCAGGGGGCGGUGUAUGCCGCCAAGGACACACCGUUAAAUGUGGAAAAUUGCCGGCGGCCCAGCAGCAGCAGCAUAA-AAAGCACAAAAAAGAGCUGAAUA-
--------.(((.((((.((....((((((....))))))...))((((........)))).........)))).)))((((.((....))....-......(......).))))....- ( -35.10)
>consensus
AUCCAUGGAGGCGGCCGAUCAGGGGGCGGUGUAUUCCGCCAAGGACACACCGUUAAAUGCGCACAAUUGCCGGCGGGGCAG_________AAAAA_AAACCAAGAAAAAAA_____AUA_
.........(((((((.....)).((((((((..(((.....))).))))))))............)))))................................................. (-21.30 = -21.34 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:24:19 2006