Locus 4240

Sequence ID 2L_DroMel_CAF1
Location 12,117,234 – 12,117,347
Length 113
Max. P 0.968973
window6695

overview

Window 5

Location 12,117,234 – 12,117,347
Length 113
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.31
Mean single sequence MFE -33.04
Consensus MFE -29.62
Energy contribution -29.62
Covariance contribution -0.00
Combinations/Pair 1.10
Mean z-score -1.64
Structure conservation index 0.90
SVM decision value 1.63
SVM RNA-class probability 0.968973
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12117234 113 + 22407834
AAUAGCACUGGGCACUUAAGGAGAGGCCCCAUUACCCGGCCAAGAACAACAAAAGCUGGCCCGCACGUAAUCUGAUAUUGCAACGGUGAGGCAA-------GCAGCUGAAAAAGAGUGCA
....(((((((((.(((.....))))))).......((((...(.....)....(((.((((((..(((((.....)))))....))).))).)-------)).))))......))))). ( -32.80)
>DroSec_CAF1 19368 113 + 1
AAUAGCACUGGGCACUUAAGGAGAGGCCCCAGUACCCGGCCAAGAACAACAAAAGCUGGCCCGCACGUAAUCUGAUAUUGCAACGGUGAGGCAA-------CCAGCUGAAAAAGAGUGCA
......((((((..(((.....)))..))))))....(((((..............))))).(((((((((.....)))))..((((..(....-------)..)))).......)))). ( -33.34)
>DroSim_CAF1 19254 113 + 1
AAUAGCACUGGGCACUUAAGGAGAGGCCCCAGUACCCGGCCAAGAACAACAAAAGCUGGCCCGCACGUAAUCUGAUAUUGCAACGGUGAGGCAA-------CCAGCUGAAAAAGAGUGCA
......((((((..(((.....)))..))))))....(((((..............))))).(((((((((.....)))))..((((..(....-------)..)))).......)))). ( -33.34)
>DroEre_CAF1 19645 117 + 1
AAAAGCACUGGGCACUUAAGGAGAGGCCCCAGUUCCCGG---CCAACAACAAAAGCUGGCCCGCACGUAAUCUGAUAUUGCAACGGUGAGGCAACCAGCAACCAGCUGAAAAAGAGUGCG
....(((((((((.(((.....)))))))(((((...((---(((.(.......).))))).((..(((((.....)))))...(((......))).))....)))))......))))). ( -36.10)
>DroYak_CAF1 19572 113 + 1
AAUAGCACUGGGCACUUAAGGAGAGGCCCCAGUACCCAGUACCCAACAACAAAAGCUGGCCCGCACGUAAUCUGAUAUUGCAACGGUGAGGCAA-------CCAGUUGAAAAAGAGUGCA
....((((((((..(((.....)))..))))))..(((((..............)))))...))..(((.(((.......(((((((......)-------)).))))....))).))). ( -29.64)
>consensus
AAUAGCACUGGGCACUUAAGGAGAGGCCCCAGUACCCGGCCAAGAACAACAAAAGCUGGCCCGCACGUAAUCUGAUAUUGCAACGGUGAGGCAA_______CCAGCUGAAAAAGAGUGCA
....(((((((((.(((.....)))))))((((...((((..............))))((((((..(((((.....)))))....))).)))............))))......))))). (-29.62 = -29.62 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:13:12 2006