Locus 3305

Sequence ID 2R_DroMel_CAF1
Location 11,272,523 – 11,272,634
Length 111
Max. P 0.750204
window5410

overview

Window 0

Location 11,272,523 – 11,272,634
Length 111
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 80.52
Mean single sequence MFE -30.80
Consensus MFE -22.26
Energy contribution -22.82
Covariance contribution 0.56
Combinations/Pair 1.05
Mean z-score -1.54
Structure conservation index 0.72
SVM decision value 0.47
SVM RNA-class probability 0.750204
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11272523 111 - 20766785
CAGGCAGCUCUGGCCGCCCGGCGCCGUCAUUCGCCAGGCGGCGCCACUUACAGUCACCAAAACGACGCCAACUCCUGCAAUGAAAGAGAAAAAAAUCCAAAAAUGAG--AGGU
...((((...((((.....(((((((((........))))))))).......(((........)))))))....)))).............................--.... ( -33.70)
>DroGri_CAF1 35101 105 - 1
AAGGCAGCUUUGGCCACCGGGCGCUGUCAUCCGCCAAGCAGCGCCGCUAACGGUAACCAGCACGACGCCAACUCCUGCAAAGACACACAU-------CA-AUUUGAGUUAUAU
...((((..(((((...((((((((((..........))))))))(((...((...))))).))..)))))...))))...(((.((...-------..-...)).))).... ( -29.60)
>DroSec_CAF1 59754 109 - 1
CAGGCAGCUCUGUCCGCCCGGCGCCGUCAUCCGCCAGGCGGCGCCACUUACAGUCACCAAAACGACGCCAACUCCUGCAAUGAAAGAGAAAA-AAUCCA-AAAUGAG--AGGU
...((((....((..((..(((((((((........))))))))).......(((........)))))..))..))))..............-......-.......--.... ( -29.80)
>DroEre_CAF1 61183 110 - 1
CAGGCAGCUCUGGCCGCCCGGCGCCGUCAUCCGCCAGGCGGCACCACUCACAGUCACCAAAACGACGCCAACUCCUGCAAUGGCAAAGGAAA-AAUUCAAAAAUGAG--AGGU
((((....))))((((((.((((........)))).))))))(((.((((..(((........)))((((..........))))........-..........))))--.))) ( -37.10)
>DroWil_CAF1 106016 99 - 1
AAGGCAACUUUGGCCACCCGGCGCUGUCAUCCGCCAGGCAGCUCCACUCACUGUGACCAAAACAACGCCAACUCCUGCAACAAGAAAGAAAA------------GAG--AAAU
...(((...(((((.....((.((((((........)))))).))......(((.......)))..)))))....)))..............------------...--.... ( -22.30)
>DroYak_CAF1 61301 110 - 1
CAGGCAGCUCUGGCCGCCGGGCGCCGUCAUUCGCCAGGCGGCACCACUUACAGUCACCAAAACGACGCCAACUCCUGGAAUCGAAAAGAAAA-AAUCCAAAAAUGAG--AGGU
..(((.......((((((.((((........)))).))))))..........(((........))))))..(((.((((.((.....))...-..)))).....)))--.... ( -32.30)
>consensus
CAGGCAGCUCUGGCCGCCCGGCGCCGUCAUCCGCCAGGCGGCGCCACUUACAGUCACCAAAACGACGCCAACUCCUGCAAUGAAAAAGAAAA_AAUCCA_AAAUGAG__AGGU
...((((...((((.....((.((((((........)))))).)).......(((........)))))))....))))................................... (-22.26 = -22.82 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:52:17 2006