Locus 7398

Sequence ID	3L_DroMel_CAF1
Location	19,882,102 – 19,882,195
Length	93
Max. P	0.734460

overview

Window 7

Location	19,882,102 – 19,882,195
Length	93
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	64.56
Mean single sequence MFE	-29.03
Consensus MFE	-10.81
Energy contribution	-11.53
Covariance contribution	0.72
Combinations/Pair	1.07
Mean z-score	-1.78
Structure conservation index	0.37
SVM decision value	0.43
SVM RNA-class probability	0.734460
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19882102 93 + 23771897
U----AAAAGAAAAAAAGGACGA-------GGAUG---GAAGGA-------------GAGUGUCGCAUGCCUUAAGGAUAUGCGAGAACUUCAGUCGAGGCGGCUUGACAUACUGACAUU
.----..................-------.((((---..((((-------------(..(.(((((((((....)).))))))).)..))).((((((....))))))...))..)))) ( -25.90)
>DroPse_CAF1 15849 98 + 1
G----GA--------GGGGGAACUAUGUAUGUGUGCGCGGAGGA---GUG-------CCGUGUCGCAUGCCUGCAGGAUAUGCGACAACUUUGCUUGAGUUGCCCCGACAUACUGACAUU
(----..--------((((.((((..(((.(((.((((......---)))-------)).(((((((((((....)).)))))))))))..)))...)))).))))..)........... ( -38.50)
>DroSec_CAF1 17678 92 + 1
U----AAAAGGAA-AAAGGACGA-------GGAUG---GAAGGA-------------GAGUGUCGCAUGCCUUAAGUAUAUGCGAGAACUUCAGUCGAGCCGGCUUGACAUACUGACAUU
.----........-.........-------.((((---..((((-------------(..(.(((((((.........))))))).)..))).((((((....))))))...))..)))) ( -22.50)
>DroEre_CAF1 16691 79 + 1
C----GA--------AAGACAGA-------GGAUG----GAGCA-------------GAGUGUCGCAUGCCUUCGGGAUAUGCGAGAACUUCAAGCG-----ACUUGACAUACUGACAUU
(----..--------..).....-------.((((----...((-------------(.((((((((((((....)).))))))).....(((((..-----.)))))))).))).)))) ( -23.80)
>DroAna_CAF1 14158 107 + 1
CGGUUAG-----A-AGAGGCAGUGGU----GUAUG---GGAGGAGGGGUUCCUGAAGGAGUGUCGCAUUCCUUAAGGAAAUGCGAGAACUUCACUCGAGUUGGAUAGACAUACUGAUGUU
.......-----.-.....(((((((----.((((---((((......)))))...(((((.(((((((((....)).)))))))..)))))...........))).)).)))))..... ( -28.70)
>DroPer_CAF1 15518 94 + 1
G----GA--------GGGGGAACUAU----GUGUGCGCGGAGGA---GUG-------CCGUGUCGCAUGCCUGCAGGAUAUGCGACAACUUUGCUUGAGUUGUCCCGACAUACUGACAUU
(----..--------((((.((((..----(((.((((......---)))-------)).(((((((((((....)).))))))))).....))...)))).))))..)........... ( -34.80)
>consensus
C____AA________AAGGAAGA_______GGAUG___GGAGGA_____________GAGUGUCGCAUGCCUUAAGGAUAUGCGAGAACUUCACUCGAGUUGGCUUGACAUACUGACAUU
...........................................................((((((((((((....)).))))).....(((.....))).......)))))......... (-10.81 = -11.53 +   0.72)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:45:58 2006