Locus 986

Sequence ID X_DroMel_CAF1
Location 2,855,299 – 2,855,390
Length 91
Max. P 0.978042
window1594 window1595

overview

Window 4

Location 2,855,299 – 2,855,390
Length 91
Sequences 3
Columns 92
Reading direction forward
Mean pairwise identity 67.57
Mean single sequence MFE -15.77
Consensus MFE -12.50
Energy contribution -13.17
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -0.96
Structure conservation index 0.79
SVM decision value 1.34
SVM RNA-class probability 0.943757
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2855299 91 + 22224390
UGCCCGCCACCACUUCCCACACCCCCACUCCACUCCC-CCUUUAAUUGUGCGCCAUUUAAGCACCUGCUGUGCAGCCCCCCAUUUUGGGAGG
............(((((((..................-.........((((.........))))((((...))))..........))))))) ( -16.80)
>DroSec_CAF1 242903 75 + 1
UGCCC----------------CCACCACUCCACUCCCCCCUUUAAUUGUGCGCCAUUUAAGCACCUGCUGUGCAGCCCC-CAUUUCGGGAGG
.....----------------...........(((((..........((((.........))))((((...))))....-......))))). ( -16.30)
>DroSim_CAF1 212799 71 + 1
NNNNN----------------NNNNNNNNNNNNNCCCCCCUU--AUUGUGCGCCAU-UAAGCACGUGCUGUGCAGCCCC-CAUUU-GGGAGG
.....----------------..............(((((..--...((((.....-...))))..(((....)))...-.....-))).)) ( -14.20)
>consensus
UGCCC________________CC_CCACUCCACUCCCCCCUUUAAUUGUGCGCCAUUUAAGCACCUGCUGUGCAGCCCC_CAUUU_GGGAGG
................................(((((..........((((.........))))..(((....)))..........))))). (-12.50 = -13.17 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 2,855,299 – 2,855,390
Length 91
Sequences 3
Columns 92
Reading direction reverse
Mean pairwise identity 67.57
Mean single sequence MFE -21.91
Consensus MFE -18.23
Energy contribution -18.57
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -0.95
Structure conservation index 0.83
SVM decision value 1.80
SVM RNA-class probability 0.978042
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2855299 91 - 22224390
CCUCCCAAAAUGGGGGGCUGCACAGCAGGUGCUUAAAUGGCGCACAAUUAAAGG-GGGAGUGGAGUGGGGGUGUGGGAAGUGGUGGCGGGCA
((((((.....))))))((((.((.((...(((.....)))((((..(((....-..........)))..))))......)).))))))... ( -23.94)
>DroSec_CAF1 242903 75 - 1
CCUCCCGAAAUG-GGGGCUGCACAGCAGGUGCUUAAAUGGCGCACAAUUAAAGGGGGGAGUGGAGUGGUGG----------------GGGCA
((((((.((.((-....((((...))))(((((.....))))).)).))...)))))).............----------------..... ( -21.60)
>DroSim_CAF1 212799 71 - 1
CCUCCC-AAAUG-GGGGCUGCACAGCACGUGCUUA-AUGGCGCACAAU--AAGGGGGGNNNNNNNNNNNNN----------------NNNNN
((((((-.....-...(((....)))..(((((..-..))))).....--..)))))).............----------------..... ( -20.20)
>consensus
CCUCCC_AAAUG_GGGGCUGCACAGCAGGUGCUUAAAUGGCGCACAAUUAAAGGGGGGAGUGGAGUGG_GG________________GGGCA
((((((..........(((....)))..(((((.....))))).........)))))).................................. (-18.23 = -18.57 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:58:42 2006