Locus 1600

Sequence ID 3L_DroMel_CAF1
Location 4,691,382 – 4,691,495
Length 113
Max. P 0.635537
window2478

overview

Window 8

Location 4,691,382 – 4,691,495
Length 113
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 86.00
Mean single sequence MFE -24.46
Consensus MFE -18.94
Energy contribution -18.66
Covariance contribution -0.28
Combinations/Pair 1.24
Mean z-score -1.63
Structure conservation index 0.77
SVM decision value 0.21
SVM RNA-class probability 0.635537
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4691382 113 - 23771897
AGGCUUGGAGACCAAACAG-------ACAACAAGCCUUGAAAACACAGAAAAUCUGAUUUCUUACGAAAUGAUUCUAUUUCGGGAAAUUAAGUGGUUUCCCAUUGUCAUGCUUAAUUGAA
(((((((............-------....))))))).((((...(((.....))).))))....((((((....))))))((((((((....))))))))....(((........))). ( -24.89)
>DroSec_CAF1 65315 113 - 1
AGGCUUGGGGACCAAGCAG-------ACAACAAACCUUGAAAACACAGAAAAUCUGAUUUCAUACGAAAUUAUUAUAUUUCGGGAGAUUAAGUGGUUUUCCAUUCUCAUGCUUAAUUGAA
((((.((((((.((((...-------.........))))........((((((((((((((...((((((......)))))).)))))))...)))))))..)))))).))))....... ( -25.50)
>DroSim_CAF1 66395 113 - 1
AGGCUUUGAGACCAAACAG-------ACAACAAACCUUGAAAACACAGAAAAUCUGAUUUCUUACGAAAUUAUUCUAUUUCGGUAGAUUAAGUGGUUUUCCAUUGUCAUGCUUAAUUGAA
((((((((....))))..(-------((((.....(((((.....(((.....)))...(((..((((((......))))))..))))))))(((....))))))))..))))....... ( -20.90)
>DroEre_CAF1 67314 110 - 1
AGGUUUGGAGACCACAUACAA----------AAACCUUGAAAACGCAGUGAAUCUGAUUUUUUACGAAAUUAUUCUAUUUCGGGAAAUUAAGUGGUUUCCCAUUGUCAUACUUAAUUGUA
......(((((((((......----------......((((((..(((.....)))..))))))((((((......)))))).........))))))))).................... ( -24.30)
>DroYak_CAF1 70424 120 - 1
AGGUUUGGAGACCAAACACAGCAAACACAGUAAACCUUGAAAACACCGAAAAUCUGAUUUCUUACGAAAUUAUUCUAUUUCGGGAAAUUAAGUGGUUUCCCAAUGCCAUGCUUAAUUGAA
.(((..((((((((......((.......))....(((((.....((((((...(((((((....))))))).....))))))....)))))))))))))....)))............. ( -26.70)
>consensus
AGGCUUGGAGACCAAACAG_______ACAACAAACCUUGAAAACACAGAAAAUCUGAUUUCUUACGAAAUUAUUCUAUUUCGGGAAAUUAAGUGGUUUCCCAUUGUCAUGCUUAAUUGAA
.(((..((((((((...............................(((.....)))(((((...((((((......)))))).)))))....))))))))....)))............. (-18.94 = -18.66 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:11:37 2006