Locus 1878

Sequence ID	3L_DroMel_CAF1
Location	5,243,551 – 5,243,709
Length	158
Max. P	0.998879

overview

Window 6

Location	5,243,551 – 5,243,643
Length	92
Sequences	6
Columns	93
Reading direction	reverse
Mean pairwise identity	92.25
Mean single sequence MFE	-21.72
Consensus MFE	-19.93
Energy contribution	-20.15
Covariance contribution	0.22
Combinations/Pair	1.08
Mean z-score	-2.59
Structure conservation index	0.92
SVM decision value	3.26
SVM RNA-class probability	0.998879
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5243551 92 - 23771897
CAGUGCCUUUUCUUUCUUU-UCUGCUCAUUUUGUUGAUUCCUAAUUAAUUUUACUCGAAGUGAAAAUGAAUUGGCAAAAUGCCCGGCAGACAC
...................-((((((((((((((..((((........((((((.....))))))..))))..))))))))...))))))... ( -22.60)
>DroSec_CAF1 107790 89 - 1
CGGUGCCUUUUCUUUC----UCUGCUCAUUUUGUUGAUUCCUAAUUAAUUUUACUCGAAGUGAAAAUGAAUUGGCAAAAUGCCCGGCAGACAC
................----((((((((((((((..((((........((((((.....))))))..))))..))))))))...))))))... ( -22.50)
>DroSim_CAF1 103871 89 - 1
CGGUGCCUUUUCUUUC----UCCGCUCAUUUUGUUGAUUCCUAAUUAAUUUUACUCGAAGUGAAAAUGAAUUGGCAAAAUGCCCGGCAGACAC
..............((----((((..((((((((..((((........((((((.....))))))..))))..))))))))..))).)))... ( -22.00)
>DroEre_CAF1 110948 88 - 1
CACUGCCUUUUCUUUU-----CUGCUCAUUUUGUUGAUUCCUAAUUAAUUUUACUCGAAGUGAAAAUGAAUUGGCAAAAUGCCCGGCAGACAC
...............(-----(((((((((((((..((((........((((((.....))))))..))))..))))))))...))))))... ( -22.60)
>DroYak_CAF1 110287 93 - 1
CACUGCCUUUUCUUUUUUUCUUUGCUCAUUUUGUUGAUUCCUAAUUAAUUUUACUCGAAGUGAAAAUGAAUUGGCAAAAUGCCUGGCAGACAC
..(((((...................((((((((..((((........((((((.....))))))..))))..))))))))...))))).... ( -20.85)
>DroAna_CAF1 105393 89 - 1
UGCCGCUUUUUCGUUU----UCUGCUCAUUUUGUUGAUUUCUAAUUAAUUUUACUCGAAGUGAAAAUGAAUUGGCAAAAUGCCCUGCAGACAC
................----(((((.((((((((..((((........((((((.....))))))..))))..))))))))....)))))... ( -19.80)
>consensus
CACUGCCUUUUCUUUC____UCUGCUCAUUUUGUUGAUUCCUAAUUAAUUUUACUCGAAGUGAAAAUGAAUUGGCAAAAUGCCCGGCAGACAC
....................((((((((((((((..((((........((((((.....))))))..))))..))))))))...))))))... (-19.93 = -20.15 +   0.22)

alignment

secondary structure

dotplot

Window 7

Location	5,243,616 – 5,243,709
Length	93
Sequences	5
Columns	94
Reading direction	reverse
Mean pairwise identity	93.30
Mean single sequence MFE	-22.13
Consensus MFE	-17.84
Energy contribution	-18.00
Covariance contribution	0.16
Combinations/Pair	1.05
Mean z-score	-1.70
Structure conservation index	0.81
SVM decision value	0.67
SVM RNA-class probability	0.817441
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5243616 93 - 23771897
UGCCAUUUUUUCCUUGUACUUUUAGGGCUCAGGCGAACGAGAUUUAUGUAAGGCACUGUCUGAGCUCAGUGCCUUUUCUUUCUUU-UCUGCUCA
.(((.......(((((......)))))....)))(((.((((.......(((((((((........))))))))).....)))))-))...... ( -24.80)
>DroSec_CAF1 107855 90 - 1
UUCCAUUUUUUCCUUGUACUUUUAGGGCUCAGGCGAACGAGAUUUAUGUAAGGCACUGUCUGAGCUCGGUGCCUUUUCUUUC----UCUGCUCA
...........(((((......)))))....((((...((((.......(((((((((........))))))))).....))----)))))).. ( -22.90)
>DroSim_CAF1 103936 90 - 1
UGCCAUUUUUUCCUUGUACUUUUAGGGCUCAGGCGAACGAGAUUUAUGUAAGGCACUGUCUGAGCUCGGUGCCUUUUCUUUC----UCCGCUCA
.(((.......(((((......)))))....)))((.(((((.......(((((((((........))))))))).....))----).)).)). ( -25.50)
>DroEre_CAF1 111013 89 - 1
UGCAAUUUUUUCCUUGUACUUUUAGGGCUCAGGCGAACGAGAUUUAUGUAAGGCACUGUCUGAGCUCACUGCCUUUUCUUUU-----CUGCUCA
(((((........)))))......(((((((((((.....................)))))))))))...............-----....... ( -17.40)
>DroYak_CAF1 110352 94 - 1
UGCAAUUUUUUCCUUGUACUUUUAGGGCUCAGGCGAACGAGAUUUAUGUAAGGCACUGUCUGAGCUCACUGCCUUUUCUUUUUUUCUUUGCUCA
...........(((((......)))))....((((((.((((.......((((((.((........)).)))))).......)))))))))).. ( -20.04)
>consensus
UGCCAUUUUUUCCUUGUACUUUUAGGGCUCAGGCGAACGAGAUUUAUGUAAGGCACUGUCUGAGCUCAGUGCCUUUUCUUUC____UCUGCUCA
.........(((((((..((.....))..)))).))).(((........(((((((((........)))))))))...............))). (-17.84 = -18.00 +   0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:56 2006