Locus 6781

Sequence ID	3R_DroMel_CAF1
Location	17,893,514 – 17,893,606
Length	92
Max. P	0.970646

overview

Window 8

Location	17,893,514 – 17,893,606
Length	92
Sequences	6
Columns	103
Reading direction	forward
Mean pairwise identity	80.76
Mean single sequence MFE	-29.18
Consensus MFE	-18.09
Energy contribution	-18.09
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-3.60
Structure conservation index	0.62
SVM decision value	1.66
SVM RNA-class probability	0.970646
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17893514 92 + 27905053
UUUAAUUAAAAUUGCCGGAGCCAUUAGGCAUUAACUGCAUUCUU--------UGCGGCAAUUUUCAAUUGAUUCGAUC---GCAGCAGUGGCAGUUGCGAUUG
.(((((((((((((((...(((....))).......(((.....--------)))))))))))).))))))..(((((---(((((.......)))))))))) ( -34.00)
>DroPse_CAF1 45604 86 + 1
UUUAAUUAAAAUUGCCAAAGCCAUUAGGCAUUAACUGCAUUCUUCGGAUCAUGGCGGCAAUUUUCAAUUGAUUUGAUC---UCU-CGG-------------UG
.(((((((((((((((...(((....))).......((..((....)).....))))))))))).)))))).......---...-...-------------.. ( -22.50)
>DroSim_CAF1 38359 92 + 1
UUUAAUUAAAAUUGCCGGAGCCAUUAGGCAUUAACUGCAUUCUU--------UGCGGCAAUUUUCAAUUGAUUCGAUC---GCAGCAGUGGCAGUUGCGAUUG
.(((((((((((((((...(((....))).......(((.....--------)))))))))))).))))))..(((((---(((((.......)))))))))) ( -34.00)
>DroEre_CAF1 36030 92 + 1
UUUAAUUAAAAUUGCCUGAGCCAUUAGGCAUUAACUGCAUUCUU--------UGCGGCAAUUUUCAAUUGAUUCGAUC---GCAGCACUGUCGGUUGCGAUUG
.(((((((((((((((...(((....))).......(((.....--------)))))))))))).))))))..(((((---(((((.......)))))))))) ( -33.40)
>DroAna_CAF1 31579 101 + 1
UUUAAUUAAAAUUGCCGCAGCCAUUAGGCAUUAACUGCAUUCUUGUGAUC--AGCGGCAAUUUUCAAUUGAUUCGAUCUCGGCAUCAGUGGCAGUUGCAAUUG
.......(((((((((((.(((....))).......(((....)))....--.)))))))))))..(((((((((....))).)))))).((....))..... ( -28.70)
>DroPer_CAF1 46638 86 + 1
UUUAAUUAAAAUUGCCAAAGCCAUUAGGCAUUAACUGCAUUCUUCGGAUCAUGGCGGCAAUUUUCAAUUGAUUUGAUC---UCU-CGG-------------UG
.(((((((((((((((...(((....))).......((..((....)).....))))))))))).)))))).......---...-...-------------.. ( -22.50)
>consensus
UUUAAUUAAAAUUGCCGGAGCCAUUAGGCAUUAACUGCAUUCUU________UGCGGCAAUUUUCAAUUGAUUCGAUC___GCAGCAGUGGCAGUUGCGAUUG
.(((((((((((((((...(((....))).......((...............))))))))))).))))))................................ (-18.09 = -18.09 +  -0.00)

alignment

secondary structure

dotplot

Window 9

Location	17,893,514 – 17,893,606
Length	92
Sequences	6
Columns	103
Reading direction	reverse
Mean pairwise identity	80.76
Mean single sequence MFE	-22.45
Consensus MFE	-16.04
Energy contribution	-16.04
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.26
Structure conservation index	0.71
SVM decision value	1.03
SVM RNA-class probability	0.902662
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17893514 92 - 27905053
CAAUCGCAACUGCCACUGCUGC---GAUCGAAUCAAUUGAAAAUUGCCGCA--------AAGAAUGCAGUUAAUGCCUAAUGGCUCCGGCAAUUUUAAUUAAA
(.((((((.(.......).)))---))).)....((((((((.((((((((--------.....))).......(((....)))...)))))))))))))... ( -24.80)
>DroPse_CAF1 45604 86 - 1
CA-------------CCG-AGA---GAUCAAAUCAAUUGAAAAUUGCCGCCAUGAUCCGAAGAAUGCAGUUAAUGCCUAAUGGCUUUGGCAAUUUUAAUUAAA
..-------------.((-(..---(((...)))..)))((((((((((((((..((....))..(((.....)))...)))))...)))))))))....... ( -17.50)
>DroSim_CAF1 38359 92 - 1
CAAUCGCAACUGCCACUGCUGC---GAUCGAAUCAAUUGAAAAUUGCCGCA--------AAGAAUGCAGUUAAUGCCUAAUGGCUCCGGCAAUUUUAAUUAAA
(.((((((.(.......).)))---))).)....((((((((.((((((((--------.....))).......(((....)))...)))))))))))))... ( -24.80)
>DroEre_CAF1 36030 92 - 1
CAAUCGCAACCGACAGUGCUGC---GAUCGAAUCAAUUGAAAAUUGCCGCA--------AAGAAUGCAGUUAAUGCCUAAUGGCUCAGGCAAUUUUAAUUAAA
(.((((((.((....).).)))---))).)....((((((((.((((((((--------.....))).......(((....)))...)))))))))))))... ( -24.70)
>DroAna_CAF1 31579 101 - 1
CAAUUGCAACUGCCACUGAUGCCGAGAUCGAAUCAAUUGAAAAUUGCCGCU--GAUCACAAGAAUGCAGUUAAUGCCUAAUGGCUGCGGCAAUUUUAAUUAAA
(((((((....))....(((..((....)).))))))))((((((((((((--(((..((....))..))))..(((....))).)))))))))))....... ( -25.40)
>DroPer_CAF1 46638 86 - 1
CA-------------CCG-AGA---GAUCAAAUCAAUUGAAAAUUGCCGCCAUGAUCCGAAGAAUGCAGUUAAUGCCUAAUGGCUUUGGCAAUUUUAAUUAAA
..-------------.((-(..---(((...)))..)))((((((((((((((..((....))..(((.....)))...)))))...)))))))))....... ( -17.50)
>consensus
CAAUCGCAACUGCCACUGCUGC___GAUCGAAUCAAUUGAAAAUUGCCGCA________AAGAAUGCAGUUAAUGCCUAAUGGCUCCGGCAAUUUUAAUUAAA
..................................((((((((.(((((((...............)).......(((....)))...)))))))))))))... (-16.04 = -16.04 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:29:46 2006