Locus 6859

Sequence ID	X_DroMel_CAF1
Location	17,105,615 – 17,105,725
Length	110
Max. P	0.926944

overview

Window 7

Location	17,105,615 – 17,105,725
Length	110
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	85.22
Mean single sequence MFE	-47.57
Consensus MFE	-36.04
Energy contribution	-38.10
Covariance contribution	2.06
Combinations/Pair	1.05
Mean z-score	-2.22
Structure conservation index	0.76
SVM decision value	1.18
SVM RNA-class probability	0.926944
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17105615 110 + 22224390
GAUCAAGUCCAAGUCCUCCUCGACUUUGAGCUCCGACGUGGAGCCAUUUUACUUGCAUCCACCGGCCUUAGCAGG---CGGAUCAGGAGGAUCGGGAAUGGGCUUGGGCAUGG-------
...((.((((((((((..((((((((((.(((((.....))))))).....((((.((((.((.((....)).))---.))))))))))).)))))...)))))))))).)).------- ( -47.90)
>DroSec_CAF1 18 110 + 1
GAUCAAGUCCAAGUCCUCCUCGACUUUGAGCUCCGACGUGGAGCCAUUUUACUUGCAUCCACCGGCCUUAGCAGG---CGGAUCGGGAGGAUCGGGAAUGGGCUUGGCCAUGG-------
(..((((((((..((((((((.....((.(((((.....)))))))......(((.((((.((.((....)).))---.))))))))))))..)))..))))))))..)....------- ( -43.50)
>DroEre_CAF1 1 104 + 1
-------------UCCUCCUCGACUUUGAGCUCCGACGUGGAGCCAUUCUACUUGCAUCCACCGGCCAUAGCAGG---CGGAGCAGGAGGAUCGGGCAUGGGCUUGGGCAUGGGGAUGGG
-------------.((((((((..((..((((((.....)))(((..(((.(((((.(((.((.((....)).))---.)))))))).)))...)))....)))..))..)))))).)). ( -42.80)
>DroYak_CAF1 31 112 + 1
GAUCAAGUCCAAGUCCUCCUCGACACUGAGCUCCGACGUGGAGCCAUUCUACUUGCAUCCACCGGCCAUAGCGGGCGGCGGAGCAGGAGGAUCGGGAAUGGGCUUGGGCAUG--------
......((((((((((..(((((...((.(((((.....)))))))((((.(((((.(((.(((.((.....)).))).)))))))))))))))))...))))))))))...-------- ( -56.10)
>consensus
GAUCAAGUCCAAGUCCUCCUCGACUUUGAGCUCCGACGUGGAGCCAUUCUACUUGCAUCCACCGGCCAUAGCAGG___CGGAGCAGGAGGAUCGGGAAUGGGCUUGGGCAUGG_______
......((((((((((..(((((...((.(((((.....)))))))((((.(((((.(((.((.((....)).))....)))))))))))))))))...))))))))))........... (-36.04 = -38.10 +   2.06)

alignment

secondary structure

dotplot

Window 8

Location	17,105,615 – 17,105,725
Length	110
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	85.22
Mean single sequence MFE	-41.83
Consensus MFE	-27.70
Energy contribution	-29.70
Covariance contribution	2.00
Combinations/Pair	1.00
Mean z-score	-1.82
Structure conservation index	0.66
SVM decision value	0.27
SVM RNA-class probability	0.662277
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17105615 110 - 22224390
-------CCAUGCCCAAGCCCAUUCCCGAUCCUCCUGAUCCG---CCUGCUAAGGCCGGUGGAUGCAAGUAAAAUGGCUCCACGUCGGAGCUCAAAGUCGAGGAGGACUUGGACUUGAUC
-------.......((((.(((.(((...(((((.(((((((---((.((....)).))))))).)).......(((((((.....))))).)).....))))))))..))).))))... ( -41.00)
>DroSec_CAF1 18 110 - 1
-------CCAUGGCCAAGCCCAUUCCCGAUCCUCCCGAUCCG---CCUGCUAAGGCCGGUGGAUGCAAGUAAAAUGGCUCCACGUCGGAGCUCAAAGUCGAGGAGGACUUGGACUUGAUC
-------....(((...)))((...(((((((((((((((((---((.((....)).))))))...........(((((((.....))))).))...))).)))))).))))...))... ( -41.90)
>DroEre_CAF1 1 104 - 1
CCCAUCCCCAUGCCCAAGCCCAUGCCCGAUCCUCCUGCUCCG---CCUGCUAUGGCCGGUGGAUGCAAGUAGAAUGGCUCCACGUCGGAGCUCAAAGUCGAGGAGGA-------------
........((((........)))).....(((((((((((((---((.((....)).)))))).)).....((.(((((((.....))))).))...)).)))))))------------- ( -38.00)
>DroYak_CAF1 31 112 - 1
--------CAUGCCCAAGCCCAUUCCCGAUCCUCCUGCUCCGCCGCCCGCUAUGGCCGGUGGAUGCAAGUAGAAUGGCUCCACGUCGGAGCUCAGUGUCGAGGAGGACUUGGACUUGAUC
--------......((((.(((.(((...(((((.((((((((((.((.....)).))))))).)))....((.(((((((.....))))).))...))))))))))..))).))))... ( -46.40)
>consensus
_______CCAUGCCCAAGCCCAUUCCCGAUCCUCCUGAUCCG___CCUGCUAAGGCCGGUGGAUGCAAGUAAAAUGGCUCCACGUCGGAGCUCAAAGUCGAGGAGGACUUGGACUUGAUC
.............(((((.((..(((((((......((((((....(.((....)).)(((((.((..........)))))))..)))))).....)))).))))).)))))........ (-27.70 = -29.70 +   2.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:24:37 2006