Locus 3050

Sequence ID 2R_DroMel_CAF1
Location 10,512,918 – 10,513,021
Length 103
Max. P 0.842324
window5022

overview

Window 2

Location 10,512,918 – 10,513,021
Length 103
Sequences 5
Columns 109
Reading direction reverse
Mean pairwise identity 70.59
Mean single sequence MFE -34.18
Consensus MFE -12.70
Energy contribution -12.26
Covariance contribution -0.44
Combinations/Pair 1.43
Mean z-score -1.91
Structure conservation index 0.37
SVM decision value 0.76
SVM RNA-class probability 0.842324
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10512918 103 - 20766785
CCGGGUGUUGGGUGCAGGAUGC---AGCUUG-GCAAAUUCAAUUGCAAA-UGGCUGAGGCGCUCAUCGCACAAAAGCCGAAAAC-CCUGAAUCGGGUGGAUAUAUGGCU
....(((((((((((......(---((((..-((((......))))...-.)))))..)))))))..))))...(((((...((-((......)))).......))))) ( -34.70)
>DroVir_CAF1 10807 93 - 1
UGAAGUAUUGGUUAGCACAUGUGUGUGCUGGGCGGAAUUCAAUUGCAAAAUGUCGAAGACGUUCGUUCUGCUCAAACUGGCAAA-ACUUACCCG---------------
..((((.(((...((((((....))))))(((((((((..........((((((...)))))).))))))))).......))).-)))).....--------------- ( -23.80)
>DroSec_CAF1 13527 103 - 1
CUGCAUGCUGGGUGCAGGAUGC---AGCUUG-GCAAAUUCAAUUGCAAA-UGGCUGAGGCGCUCAGCGCACAAAAGCCGACAAC-CCUGAAUCGGGUGGAUAUAUGGCU
.(((..(((((((((......(---((((..-((((......))))...-.)))))..))))))))))))....(((((...((-((......)))).......))))) ( -38.30)
>DroSim_CAF1 8539 103 - 1
CUGGAUGCUGGGUGCAGGAUGC---AGCUUG-GCAAAUUCAAUUGCAAA-UGGCUGAGGCGCUCAGCGCACAAAAGCCGACAAC-CCUGAAUCGGGUGGAUAUAUGGCU
.((..((((((((((......(---((((..-((((......))))...-.)))))..))))))))))..))..(((((...((-((......)))).......))))) ( -39.50)
>DroEre_CAF1 13712 96 - 1
-------CAGCAUGCAGCAUGC---AGCCUG-GCA-AUUCAAUUGCAUA-UGGCUGAGGCGCUCAGCGCACAAAAGCCGACAACCCCUGAAUCGGGGGAAUAUAUGGCU
-------..(((((...)))))---((((((-(((-((...)))))...-(((((...((((...)))).....))))).)).((((((...)))))).......)))) ( -34.60)
>consensus
CUGGAUGCUGGGUGCAGGAUGC___AGCUUG_GCAAAUUCAAUUGCAAA_UGGCUGAGGCGCUCAGCGCACAAAAGCCGACAAC_CCUGAAUCGGGUGGAUAUAUGGCU
...........((((..(((((...((((...((((......)))).....))))...))).))...)))).....((((...........)))).............. (-12.70 = -12.26 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:46:01 2006