Locus 6392

Sequence ID	2L_DroMel_CAF1
Location	17,940,600 – 17,940,732
Length	132
Max. P	0.795545

overview

Window 5

Location	17,940,600 – 17,940,709
Length	109
Sequences	6
Columns	117
Reading direction	reverse
Mean pairwise identity	78.20
Mean single sequence MFE	-31.82
Consensus MFE	-18.87
Energy contribution	-17.98
Covariance contribution	-0.89
Combinations/Pair	1.23
Mean z-score	-1.81
Structure conservation index	0.59
SVM decision value	0.60
SVM RNA-class probability	0.795545
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17940600 109 - 22407834
UAUUUU--UUGGCCGCCUGAAGGGUUUGAGUGAAAAGGAAGUUGCGGCGACAUGUUGUCAAUAAAUUGACAGCAAUUGAAGGUUUAUAAAACACUUUUUGGCCUUUUUCUU------
......--..(((((...((((.((((..(((((.....(((((((....)....((((((....)))))))))))).....))))).)))).)))).)))))........------ ( -28.40)
>DroVir_CAF1 207486 104 - 1
UGUCUG--UUUGUCGCCCGAAGCGUCUG--UG---GAGACGUUGCUGCGACAUGCUGUCAAUAAAUUGACAGCAAUUGAAGGUUUAUAAAACACUUUUGAGCCCGUGCGCU------
......--..((((((....(((((((.--..---.)))))))...))))))(((((((((....)))))))))......((((((...........))))))........------ ( -34.60)
>DroPse_CAF1 232208 109 - 1
UUUUUG--UUUGUCGCCUCAGGGUUUUGAGUGGAGAGGAAGCUGCGGCGACAUGUUGUCAAUAAAUUGACAGCAAUUGAAGGUUUAUAAAACACUUUUUUUCCUCACUUCU------
......--..(((((((.(((..((((........))))..))).)))))))(((((((((....)))))))))...((((......((((.....))))......)))).------ ( -29.80)
>DroMoj_CAF1 247026 104 - 1
UGUCUG--UUUGGCGCCUGAAGCGUCUG--UG---GAGACGUUGCUGCGACAUGUUGUCAAUAAAUUGACAGCAAUUGAAGGUUUAUAAAACACUUUUGAGCCCGUGAGCU------
.((((.--(..(((((.....)))))..--.)---.))))...((((((...(((((((((....)))))))))......((((((...........))))))))).))).------ ( -32.40)
>DroAna_CAF1 150489 116 - 1
UCUACUCGCUUUCCGCCCGGGGGUUUUGAGUGGGGAGGAAGUUGCGGCGACAUGUUGUCAAUAAAUUGACAGCAAUUGAAGGUUUAUAAAACACUUUUUUCCCA-GCCCUCACCCAU
...(((((.(..((....))..)...)))))(((((((..((((.((.....(((((((((....)))))))))...(((((((.....))).))))...))))-)))))).))).. ( -35.90)
>DroPer_CAF1 233285 109 - 1
UUUUUG--UUUGUCGCCUCAGGGUUUUGAGUGGAGAGGAAGCUGCGGCGACAUGUUGUCAAUAAAUUGACAGCAAUUGAAGGUUUAUAAAACACUUUUUUUCCUCACUUCU------
......--..(((((((.(((..((((........))))..))).)))))))(((((((((....)))))))))...((((......((((.....))))......)))).------ ( -29.80)
>consensus
UGUUUG__UUUGUCGCCUGAAGGGUUUGAGUGGAGAGGAAGUUGCGGCGACAUGUUGUCAAUAAAUUGACAGCAAUUGAAGGUUUAUAAAACACUUUUUUGCCUCUCUCCU______
.............((((...((.((((.........)))).))..))))...(((((((((....)))))))))...(((((((.....))).)))).................... (-18.87 = -17.98 +  -0.89)

alignment

secondary structure

dotplot

Window 6

Location	17,940,633 – 17,940,732
Length	99
Sequences	6
Columns	102
Reading direction	reverse
Mean pairwise identity	78.65
Mean single sequence MFE	-29.32
Consensus MFE	-14.17
Energy contribution	-13.87
Covariance contribution	-0.30
Combinations/Pair	1.26
Mean z-score	-2.20
Structure conservation index	0.48
SVM decision value	0.37
SVM RNA-class probability	0.710043
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17940633 99 - 22407834
CCCCCCGACUACUUGCGUUUCUUUAUUUU--UUGGCCGCCUGAAG-GGUUUGAGUGAAAAGGAAGUUGCGGCGACAUGUUGUCAAUAAAUUGACAGCAAUUG
...((((...((((.(.....(((((((.--..((((........-)))).)))))))..).))))..))).)...(((((((((....))))))))).... ( -24.60)
>DroPse_CAF1 232241 91 - 1
--------UUUCUUCAUAUUUUUUUUUUG--UUUGUCGCCUCAGG-GUUUUGAGUGGAGAGGAAGCUGCGGCGACAUGUUGUCAAUAAAUUGACAGCAAUUG
--------.....................--..(((((((.(((.-.((((........))))..))).)))))))(((((((((....))))))))).... ( -27.50)
>DroEre_CAF1 148113 95 - 1
CC-CCCAAGUCCUUGCGUUUCUUUCUUUU--UUGG---CCUGAAG-GCUUUGAGUGAAACGGAAGUUGCGGCGACAUGUUGUCAAUAAAUUGACAGCAAUUG
.(-(((((...(((.((((((...(((..--..((---((....)-)))..))).)))))).)))))).)).)...(((((((((....))))))))).... ( -30.00)
>DroYak_CAF1 156126 99 - 1
CC-CCCGACAUCUUGCGUUUCUUUCUUUU--UUGGGCGCCUGAGGCGUUUUGAGUGAAAAGGAAGUUGCGGCGACAUGUUGUCAAUAAAUUGACAGCAAUUG
..-.........((((((..(((((((((--(.(((((((...))))))).....))))))))))..)).))))..(((((((((....))))))))).... ( -32.00)
>DroAna_CAF1 150527 90 - 1
G-----------UUUCGGUUCUUUCUACUCGCUUUCCGCCCGGGG-GUUUUGAGUGGGGAGGAAGUUGCGGCGACAUGUUGUCAAUAAAUUGACAGCAAUUG
(-----------((.(.((.((((((.(((((((...(((....)-))...))))))).))))))..)).).))).(((((((((....))))))))).... ( -34.30)
>DroPer_CAF1 233318 91 - 1
--------UUUCUUCAUAUUUUUUUUUUG--UUUGUCGCCUCAGG-GUUUUGAGUGGAGAGGAAGCUGCGGCGACAUGUUGUCAAUAAAUUGACAGCAAUUG
--------.....................--..(((((((.(((.-.((((........))))..))).)))))))(((((((((....))))))))).... ( -27.50)
>consensus
C_______CUUCUUGCGUUUCUUUCUUUU__UUGGCCGCCUGAGG_GUUUUGAGUGAAAAGGAAGUUGCGGCGACAUGUUGUCAAUAAAUUGACAGCAAUUG
....................................((((((((....)))).(..(........)..)))))...(((((((((....))))))))).... (-14.17 = -13.87 +  -0.30)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:09:55 2006