Locus 6455

Sequence ID 3L_DroMel_CAF1
Location 17,232,025 – 17,232,117
Length 92
Max. P 0.938231
window10382

overview

Window 2

Location 17,232,025 – 17,232,117
Length 92
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 73.40
Mean single sequence MFE -33.36
Consensus MFE -9.68
Energy contribution -11.08
Covariance contribution 1.40
Combinations/Pair 1.19
Mean z-score -2.06
Structure conservation index 0.29
SVM decision value 1.29
SVM RNA-class probability 0.938231
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17232025 92 - 23771897
CACUGCCACAUGG----------------CAAUGGUCCUGGCAACAAGAAGCCCCGAAACAGCGAU-----------GGAAAUCCAAUUCGUUGCUGG-AAGAGAUCGGUUAUCCAUUUG
...((((....))----------------))..(((((((((........)))......(((((((-----------(((.......)))))))))).-.)).))))((....))..... ( -26.60)
>DroSec_CAF1 116018 103 - 1
CAAUGCCACAUGG----------------CAAAGGUCCUGGCAACAGGAAGCUCCGAAAAAUCGAUGCUUCGAGGUUGGAAAUCCAAUUCGUUGCUGG-GAGAGAUCGGUUAUCCAUUUG
...((((....))----------------))....(((..(((((..(((((..(((....)))..)))))(((.((((....))))))))))))..)-))......((....))..... ( -38.30)
>DroSim_CAF1 109827 103 - 1
GAAUGCCACAUGG----------------CUAAGGUCCUGGCAACAGGAAGCCCCGAAAAAGCGAUGCCUCUUGGUUGGAAAUCCAAUUCGUUGCUGG-GAGAGAUCGGUUAUCCAUUUG
(((((......((----------------((....(((((....)))))))))......((.((((..((((..(((((....))).......))..)-)))..)))).))...))))). ( -31.91)
>DroEre_CAF1 119432 86 - 1
CACUGCCACAUGG----------------CAAUGGCCCUGGCAACAGGA---------AAAACGUUGCUU---------GAAUCAAAUUCGCUUAUGGCGAGGGAUUGGUUAUCUAUUUG
....(((.((.((----------------(((((..((((....)))).---------....))))))))---------)((((...(((((.....))))).))))))).......... ( -27.50)
>DroYak_CAF1 122257 120 - 1
CACUGCCACAUGGCCACAUGGCCAAAUGGCUAUGGCCCUGGCAACAGGAAGCCUCGAAAAAGCGAUGCCCCGAGGAGGGAAAUCAAAUUCGUUUAUGGGGAGAGAUUGGUUAUCUAGUUG
....((((..(((((....)))))..))))...(((((((....))))..)))(((......)))..(((((..((.(((.......))).))..)))))...((((((....)))))). ( -42.50)
>consensus
CACUGCCACAUGG________________CAAUGGUCCUGGCAACAGGAAGCCCCGAAAAAGCGAUGCCUC__GG__GGAAAUCCAAUUCGUUGCUGG_GAGAGAUCGGUUAUCCAUUUG
....(((..........................(((((((....))))..)))......((((((.......................)))))).............))).......... ( -9.68 = -11.08 +   1.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:19:35 2006