Locus 4145

Sequence ID	3R_DroMel_CAF1
Location	11,308,724 – 11,308,822
Length	98
Max. P	0.848895

overview

Window 0

Location	11,308,724 – 11,308,822
Length	98
Sequences	6
Columns	117
Reading direction	forward
Mean pairwise identity	76.25
Mean single sequence MFE	-30.35
Consensus MFE	-15.30
Energy contribution	-14.69
Covariance contribution	-0.61
Combinations/Pair	1.46
Mean z-score	-2.06
Structure conservation index	0.50
SVM decision value	0.78
SVM RNA-class probability	0.848895
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11308724 98 + 27905053
G---------CUAAUCCAACGCAGCAAACGAGCGGCAAUCGAAAG-CCCAAUUCGAA--CGGUUAGC-UUUGGAUUGGCCAAGU----GCCGGCUAAUUGGAUUAG--GGCAAUUAG
.---------(((((((((.((.((......))((((..(....)-.((((((((((--(.....).-)))))))))).....)----))).))...)))))))))--......... ( -30.40)
>DroVir_CAF1 54104 115 + 1
GCUGUUAACACUAAUCCGACGCAGCAAAUUUGCAGCAAUUGGGAA-ACAAAUUUCAAAUUUAGCUAC-UUUGGAUUGGCCAAGUGUGUGCCGGAUAAUUGGAUUAGCUGGCAAUUAG
((((((((..(((((((((.(.((((((((((....((((.(...-.).)))).))))))).))).)-.)))))))))((((...(((.....))).)))).))))).)))...... ( -29.40)
>DroPse_CAF1 47692 101 + 1
C---------CUAAUCCGACGCGACAAAUUUGCAGCAAUCGAAAG-CCCAAGUGGAAAUCCAACAGCUUUUGGAUUGGCCAAGU----GCAUCCUAAUUGGAUUAG--GGCAAUUAG
(---------(((((((((.((((.....)))).(((..(....)-......(((.(((((((......)))))))..)))..)----)).......)))))))))--)........ ( -30.40)
>DroMoj_CAF1 54568 103 + 1
G---------CUAAUCCGACACAACAAAUUUACCGCAAUUGGGAAGACGAAUUUAAAAUUGAGCGAC-UUUGGAUUGGCCAAGU----GACGGAUAAUUGGAUUAGCUAGCAAUUAG
(---------(((((((((..........((((((((.((((.....(.((((((((.((....)).-)))))))).))))).)----).))).))))))))))))).......... ( -23.90)
>DroAna_CAF1 44017 98 + 1
C---------CUAAUCCGACGCAGCAAAU-UGCGGCAAUCGAGGG-CCCAAUUCGAA-UCCGCCAAC-UUUGGAUUGGCCAAGU----GCCAUGUAAUUGGAUUAG--GGCAAUUAG
(---------(((((((((.(((((....-.))((((......((-((.((((((((-.........-))))))))))))...)----))).)))..)))))))))--)........ ( -35.70)
>DroPer_CAF1 47803 101 + 1
C---------CUAAUCCGACGCGGCAAAUUUGCAGCAAUCGAAAG-CCCAAGUGGAAAUCCAAAAGCUUUUGGAUUGGCCAAGU----GCAUCCUAAUUGGAUUAG--GGCAAUUAG
(---------(((((((((.((.(((....))).)).........-..((..(((.((((((((....))))))))..)))..)----)........)))))))))--)........ ( -32.30)
>consensus
C_________CUAAUCCGACGCAGCAAAUUUGCAGCAAUCGAAAG_CCCAAUUCGAAAUCCAACAAC_UUUGGAUUGGCCAAGU____GCCGGCUAAUUGGAUUAG__GGCAAUUAG
..........(((((((((.((((.....))))..(((((.(((........(((....)))......))).)))))....................)))))))))........... (-15.30 = -14.69 +  -0.61)

alignment

secondary structure

dotplot

Window 1

Location	11,308,724 – 11,308,822
Length	98
Sequences	6
Columns	117
Reading direction	reverse
Mean pairwise identity	76.25
Mean single sequence MFE	-29.23
Consensus MFE	-13.50
Energy contribution	-13.00
Covariance contribution	-0.50
Combinations/Pair	1.20
Mean z-score	-2.12
Structure conservation index	0.46
SVM decision value	0.59
SVM RNA-class probability	0.792372
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11308724 98 - 27905053
CUAAUUGCC--CUAAUCCAAUUAGCCGGC----ACUUGGCCAAUCCAAA-GCUAACCG--UUCGAAUUGGG-CUUUCGAUUGCCGCUCGUUUGCUGCGUUGGAUUAG---------C
.........--((((((((((((((..((----...((((.((((.(((-((...(((--.......))))-)))).))))))))...))..)))).))))))))))---------. ( -32.60)
>DroVir_CAF1 54104 115 - 1
CUAAUUGCCAGCUAAUCCAAUUAUCCGGCACACACUUGGCCAAUCCAAA-GUAGCUAAAUUUGAAAUUUGU-UUCCCAAUUGCUGCAAAUUUGCUGCGUCGGAUUAGUGUUAACAGC
..........((((((((........(((.((....)))))........-(((((.(((((((....(((.-....)))......))))))))))))...))))))))......... ( -28.40)
>DroPse_CAF1 47692 101 - 1
CUAAUUGCC--CUAAUCCAAUUAGGAUGC----ACUUGGCCAAUCCAAAAGCUGUUGGAUUUCCACUUGGG-CUUUCGAUUGCUGCAAAUUUGUCGCGUCGGAUUAG---------G
(((((((((--(..((((.....))))..----...(((..(((((((......))))))).)))...)))-)...((((.((.(((....))).))))))))))))---------. ( -30.00)
>DroMoj_CAF1 54568 103 - 1
CUAAUUGCUAGCUAAUCCAAUUAUCCGUC----ACUUGGCCAAUCCAAA-GUCGCUCAAUUUUAAAUUCGUCUUCCCAAUUGCGGUAAAUUUGUUGUGUCGGAUUAG---------C
..........((((((((...........----..((((.....)))).-(.(((.(((.((((...((((..........)))))))).)))..))).))))))))---------) ( -19.60)
>DroAna_CAF1 44017 98 - 1
CUAAUUGCC--CUAAUCCAAUUACAUGGC----ACUUGGCCAAUCCAAA-GUUGGCGGA-UUCGAAUUGGG-CCCUCGAUUGCCGCA-AUUUGCUGCGUCGGAUUAG---------G
........(--(((((((.......((((----.....)))).......-...((((.(-..(((((((((-(........))).))-))))).).)))))))))))---------) ( -32.50)
>DroPer_CAF1 47803 101 - 1
CUAAUUGCC--CUAAUCCAAUUAGGAUGC----ACUUGGCCAAUCCAAAAGCUUUUGGAUUUCCACUUGGG-CUUUCGAUUGCUGCAAAUUUGCCGCGUCGGAUUAG---------G
(((((((((--(..((((.....))))..----...(((..((((((((....)))))))).)))...)))-)...((((.((.(((....))).))))))))))))---------. ( -32.30)
>consensus
CUAAUUGCC__CUAAUCCAAUUAGCCGGC____ACUUGGCCAAUCCAAA_GCUGCUGGAUUUCAAAUUGGG_CUCUCGAUUGCUGCAAAUUUGCUGCGUCGGAUUAG_________C
...........(((((((.................((((.....)))).................................((.((......)).))...))))))).......... (-13.50 = -13.00 +  -0.50)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:20 2006