Locus 3489

Sequence ID	3R_DroMel_CAF1
Location	9,425,108 – 9,425,207
Length	99
Max. P	0.612972

overview

Window 7

Location	9,425,108 – 9,425,207
Length	99
Sequences	4
Columns	116
Reading direction	forward
Mean pairwise identity	71.41
Mean single sequence MFE	-21.15
Consensus MFE	-10.56
Energy contribution	-11.00
Covariance contribution	0.44
Combinations/Pair	1.11
Mean z-score	-1.82
Structure conservation index	0.50
SVM decision value	0.16
SVM RNA-class probability	0.612972
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9425108 99 + 27905053
AUAGAAAGACACCCA--------------AUUUUAAGUCAUGAGCCUCAUGAGAAAAGAAUGUAGAAAAUGCUGGCGACAGUGUUGUCCCAAAAAA---AGGUGUGUUAAUGGGAA
.......(((((((.--------------........(((((.....)))))............((.(((((((....))))))).))........---.)).)))))........ ( -21.80)
>DroSec_CAF1 54816 96 + 1
AUAGAAAGACCCCCA--------------AUUUUAAGUCAUGAUGAGGCUGAGAAAAAU-AGUGGAAAAUGCUGGCGACAGUGUUGUCAAAAAA-----AGCUGGGUUAAUGGGAA
.......((((((((--------------.((((.((((.......))))...))))..-..)))..(((((((....))))))).........-----....)))))........ ( -20.00)
>DroSim_CAF1 41237 101 + 1
AUAGAAAGACACCCA--------------AUUUUAAGUCAUGAUGAGGCUGAGAAAAAU-AGUAGAAAAUGCUGGCGACAGUGUUGUCAAAAAAAAACAAGAUGGGUUAAUGGGAA
...........((((--------------...((((.((((..((..((((.......)-))).((.(((((((....))))))).)).........))..)))).)))))))).. ( -21.00)
>DroYak_CAF1 56760 103 + 1
AUAGAGAGGUGCCCAAAUACUUACAUUAAAUUUUAAGUCGUGAUGGGGCUGAGAAAAAU-AAUGGAAAAUGAUGGCGACAGUGUUGCCGA------------CUGUUUCCCAAAAA
..........((((..(((((((.(......).))))).))....))))..........-...(((((....(((((((...))))))).------------...)))))...... ( -21.80)
>consensus
AUAGAAAGACACCCA______________AUUUUAAGUCAUGAUGAGGCUGAGAAAAAU_AGUAGAAAAUGCUGGCGACAGUGUUGUCAAAAAA_____AG_UGGGUUAAUGGGAA
.......(((....................((((.((((.......)))).))))............(((((((....))))))))))............................ (-10.56 = -11.00 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:24 2006