Locus 1366

Sequence ID X_DroMel_CAF1
Location 4,086,296 – 4,086,416
Length 120
Max. P 0.986419
window2173

overview

Window 3

Location 4,086,296 – 4,086,416
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.58
Mean single sequence MFE -29.10
Consensus MFE -25.20
Energy contribution -26.12
Covariance contribution 0.92
Combinations/Pair 1.06
Mean z-score -1.92
Structure conservation index 0.87
SVM decision value 2.04
SVM RNA-class probability 0.986419
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4086296 120 - 22224390
CACAGAUUGAAAUUGCAAUCAAGCCAUUAUGUACACAUUUGUGCAAGUUAACACGUAAGUUUUUGCUUUUUACUGCACUGAAAAGUGAAAGAAGUGUAAAAUGUGCUGCAGCAAGCACUU
....(((((......))))).........((((((....)))))).....((((.....((((..(((((((......)))))))..))))..)))).....(((((......))))).. ( -29.40)
>DroSec_CAF1 98748 119 - 1
-ACAGAUUGAAAUUGCAAUCAAGCCAUUAUGUACACAUUUGUGCGAGUUAACACGUAAGUUUUUGCUUUUUACUGCACUGAAGAGUGAAACAAGUGUAAAAUGUGCUGCAACAAGCACUU
-...(((((......)))))..............(((((((((((.(....).))))...(((..(((((((......)))))))..)))))))))).....(((((......))))).. ( -27.80)
>DroSim_CAF1 99587 120 - 1
CACAGAUUGAAAUUGCAAUCAAGCCAUUAUGUACACAUUUGUGCGAGUUAACACGUAAGUUUUUGCUUUUUACUGCACUGAAGAGUGAAAGAAGUGUAAAAUGUGCUGCAACAAGCACUU
....(((((......))))).........((((((....)))))).....((((.....((((..(((((((......)))))))..))))..)))).....(((((......))))).. ( -28.80)
>DroEre_CAF1 104211 120 - 1
CUCAGAUUGAAAUUGCAAUCAAGCCAUUAUGUACACAUUUUUGCGAGUUAACACGUAUGUUCUUGCUUUUUACUGCAUUGAAGAGUGUAAGAAGUGUAAAAUGUGCUGCAGCAAGCACUU
(((.(((((......)))))..((.(..(((....)))..).)))))...((((.((..(((((((........)))....))))..))....)))).....(((((......))))).. ( -27.70)
>DroYak_CAF1 97611 120 - 1
CAGAGAUUGAAAUAUCAAUCAAGCCAUUAUGUACAUUUUUGUGCAAACUAACACGUAAGUUGUUGCUUUUUACUGCACUGAAAAGUGUAACAAGUGUGAAAUGUGCUGCAACAAGCACUU
....((((((....))))))((((.....((((((....))))))....(((((....).))))))))(((((((((((....))))))......)))))..(((((......))))).. ( -31.80)
>consensus
CACAGAUUGAAAUUGCAAUCAAGCCAUUAUGUACACAUUUGUGCGAGUUAACACGUAAGUUUUUGCUUUUUACUGCACUGAAGAGUGAAAGAAGUGUAAAAUGUGCUGCAACAAGCACUU
....(((((......))))).........((((((....)))))).....((((.....(((((((((((((......)))))))))))))..)))).....(((((......))))).. (-25.20 = -26.12 +   0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:07:27 2006