Locus 1836

Sequence ID 3R_DroMel_CAF1
Location 5,248,700 – 5,248,808
Length 108
Max. P 0.743084
window3018

overview

Window 8

Location 5,248,700 – 5,248,808
Length 108
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 75.51
Mean single sequence MFE -28.44
Consensus MFE -16.06
Energy contribution -16.54
Covariance contribution 0.48
Combinations/Pair 1.23
Mean z-score -1.78
Structure conservation index 0.56
SVM decision value 0.45
SVM RNA-class probability 0.743084
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5248700 108 - 27905053
UGUUGCAGCUACAACAGCAGCAGC-ACGGCGGCAACAUGAAGCAGAAACGGAGAUGGUAGAGAUAUUAUCUCGAUUACCUAAGACGUAGUCAGUAAAUUGCU-----------GAAAGAU
((((((.(((.....))).)))))-)(((((....).....((.......(((((((((....)))))))))((((((.......)))))).)).....)))-----------)...... ( -31.30)
>DroSec_CAF1 22538 108 - 1
UGUUGCAGCUACAACUGCAGCAGC-ACGGCGGCAACAUCAAGCAGAAACGGAGAUGGUAGGGAUAUUAUCUCGAUUACCUAAGACAUAGUCAGUAAAUUGCU-----------UAAAGAU
((((((((......))))))))..-..(..(....)..)((((((.....(((((((((....)))))))))(((((.........)))))......)))))-----------)...... ( -29.20)
>DroSim_CAF1 22646 102 - 1
UGUUGCAGCUACAACUGCAGCAGC-ACGGCGGCAACAUGAAGCAGAAACGGAGAUGGUAGGGAUAUUAUCUCGAUUACCUAAGACAUAGUCAGUAAAUUGCA-----------U------
((((((((......))))))))((-......))........((((.....(((((((((....)))))))))(((((.........)))))......)))).-----------.------ ( -27.00)
>DroEre_CAF1 25030 99 - 1
UGUUGCAGCGACAACAGCAACAGCUACAGC--CAACAUGAAGCAGAAUCAGAGAUGCUACGGAUAUCAGUUUGAUUACCUAAGACAUAGUC-------------------CGUAAAAGAG
((((((..........))))))(((.((..--.....)).)))..............(((((((....((((.........))))...)))-------------------))))...... ( -18.70)
>DroYak_CAF1 22703 111 - 1
UGUUGCAGCUACAGCUGCAGCGG---------CAACAUGAAGCCGAAUCAGAUAUGGUAAGGAUAUCAGUUUGAUUACCCAAGACAGAGUCAGUAACUUGGUGUAGCCACCGUAAAAGAU
.((((((((....))))))))((---------(.((((.(((...((((((((.(((((....)))))))))))))......(((...))).....))).)))).)))............ ( -36.00)
>consensus
UGUUGCAGCUACAACUGCAGCAGC_ACGGCGGCAACAUGAAGCAGAAACGGAGAUGGUAGGGAUAUUAUCUCGAUUACCUAAGACAUAGUCAGUAAAUUGCU___________AAAAGAU
((((((((......))))))))............................(((((((((....)))))))))(((((.........)))))............................. (-16.06 = -16.54 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:20:40 2006