Locus 2840

Sequence ID 3L_DroMel_CAF1
Location 8,096,641 – 8,096,733
Length 92
Max. P 0.926395
window4439

overview

Window 9

Location 8,096,641 – 8,096,733
Length 92
Sequences 5
Columns 92
Reading direction reverse
Mean pairwise identity 80.44
Mean single sequence MFE -18.56
Consensus MFE -15.20
Energy contribution -15.52
Covariance contribution 0.32
Combinations/Pair 1.14
Mean z-score -1.94
Structure conservation index 0.82
SVM decision value 1.18
SVM RNA-class probability 0.926395
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8096641 92 - 23771897
UACAGGAGCAGCUUUCUUUACCUUCUCCCUUUCCUCGUCUUCAUCUUCACUGCUGCUGCUGGAAGAGGAAGAUUCAGCAUCUCCUAGCUUCU
..(((.((((((.......................................)))))).)))((((((((.(((.....)))))))..)))). ( -21.53)
>DroSec_CAF1 777 83 - 1
UACAGAAGCAGCUUUCUUUUCCUGCU------CCUCGUCUUCAUCUUCACUGC---UGCUGGAAGAGGAAGAUUCAGCAUCUCCUAGCUUCU
...((((((..(((((((((((.((.------.(.................).---.)).)))))))))))....((......)).)))))) ( -21.23)
>DroSim_CAF1 777 83 - 1
UACAGAAGCAGCUUUCUUUUCCUUCU------CCUCGUCUUCAUCUUCACUGC---UGCUGGAAGAGGAAGAUUCAGCAUCUCCUAGCUUCU
...((((((.(((...(((((((..(------((...................---....)))..)))))))...)))........)))))) ( -18.50)
>DroEre_CAF1 775 92 - 1
UGUAGGAACAGCCUUCUGUUCCUUAUUCUUAUCCUCGUCCUCAUCUUCACUGCUGCUGCUGGAAGAGCAAGAUUCCUCAUCUCCCAGUUUCU
...((((((((....)))))))).............(((....(((((...((....))..)))))....)))................... ( -18.70)
>DroYak_CAF1 780 83 - 1
---AGGAGGAGCCUUCUUUUCAU------UAUCAUCGUCCUCAUCUUCACUGCUGCUGCUGGAAGAGCCAAAUUCCCCAUCUCCCACCUUCU
---.(((((((............------..........))).(((((...((....))..)))))..............))))........ ( -12.85)
>consensus
UACAGGAGCAGCUUUCUUUUCCUUCU___U_UCCUCGUCUUCAUCUUCACUGCUGCUGCUGGAAGAGGAAGAUUCAGCAUCUCCUAGCUUCU
...((((((((....))...................((((((.(((((...((....))..))))).)))))).............)))))) (-15.20 = -15.52 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:43:05 2006