Locus 9090

Sequence ID	3R_DroMel_CAF1
Location	24,266,928 – 24,267,031
Length	103
Max. P	0.889067

overview

Window 0

Location	24,266,928 – 24,267,031
Length	103
Sequences	6
Columns	110
Reading direction	forward
Mean pairwise identity	79.12
Mean single sequence MFE	-30.02
Consensus MFE	-17.59
Energy contribution	-17.03
Covariance contribution	-0.55
Combinations/Pair	1.17
Mean z-score	-1.67
Structure conservation index	0.59
SVM decision value	0.16
SVM RNA-class probability	0.611554
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24266928 103 + 27905053
GUGUAAAGGUGCUUUCCGAAAGUUGAGUCAAAGGUUUUUCGCUUUGACUCGUAAUUAAUUUGCUUUGUUUCAUCCGCUUGACUGGGCA---GCAACCAUC---CAGA-AC
.......((((((.((((.((((.(((((((((........)))))))))((((.....))))............))))...)))).)---)).)))...---....-.. ( -27.50)
>DroPse_CAF1 92497 106 + 1
GUGGAAAGGUGCGUUGUAAAAGUUGAGUCAAAGGUU-UUCUCUUUGACUCGUAAUUAAUUUGCUUUGUUUCAUGCGCUUCGCUGGGCA---AUAGACAUAGGCCAUAGAC
..((..((((((((....((((((((((((((((..-...)))))))))))..........))))).....))))))))..)).(((.---..........)))...... ( -28.20)
>DroGri_CAF1 71234 103 + 1
AUGUAAAGGUGCGUUGUUUUAGUAAAGUCAAAGGU---UCCCUUUGACUUGCAAUUAAUUUGCUUUGUUUUUUGCACUUGACUGCGCCUGGACAAACAGA---CAAG-AC
.(((..(((((((..(((..(((.((((((((((.---..))))))))))((((..(((.......)))..))))))).))))))))))..)))......---....-.. ( -32.20)
>DroSim_CAF1 94399 101 + 1
GUGUAAAGGUGCGUUCCG--AGUUGAGUCAAAGGUUUUUCGCUUUGACUCGUAAUUAAUUUGCUUUGUUUCAUCCGCUUGACUGGGCA---GCAACCACC---CAGA-AC
.......(((((...((.--(((((((((((((........)))))))))((((.....))))................)))).))..---)).)))...---....-.. ( -27.60)
>DroAna_CAF1 87136 101 + 1
GUGCAAAGGUGCGUUGCAAAAGUUGAGUCAAAGGUU-UUCGCUUUGACUCGUAAUUAAUUUGCUUUGUUCCGUCCGCUUGGCCGGGCA---GCCAUCAGC---GGGU-G-
.......((.(((..(((((...((((((((((...-....)))))))))).......)))))..))).)).((((((((((......---))))..)))---))).-.- ( -35.60)
>DroPer_CAF1 92297 106 + 1
GUGGAAAGGUGCGUUGCAAAAGUUGAGUCAAAGGUU-UUCUCUUUGACUCGUAAUUAAUUUGCUUUGUUUCAUGCGCUUCGCUGGGCA---AUAGACAUAGGCAAUAGAC
......((((((((.(((((....((((((((((..-...))))))))))((((.....)))))))))...)))))))).(((.(...---.....)...)))....... ( -29.00)
>consensus
GUGUAAAGGUGCGUUGCAAAAGUUGAGUCAAAGGUU_UUCGCUUUGACUCGUAAUUAAUUUGCUUUGUUUCAUCCGCUUGACUGGGCA___ACAAACAUA___CAGA_AC
......(((((.............(((((((((........)))))))))((((.....))))...........)))))............................... (-17.59 = -17.03 +  -0.55)

alignment

secondary structure

dotplot

Window 1

Location	24,266,928 – 24,267,031
Length	103
Sequences	6
Columns	110
Reading direction	reverse
Mean pairwise identity	79.12
Mean single sequence MFE	-26.08
Consensus MFE	-14.80
Energy contribution	-14.38
Covariance contribution	-0.41
Combinations/Pair	1.15
Mean z-score	-2.28
Structure conservation index	0.57
SVM decision value	0.95
SVM RNA-class probability	0.889067
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24266928 103 - 27905053
GU-UCUG---GAUGGUUGC---UGCCCAGUCAAGCGGAUGAAACAAAGCAAAUUAAUUACGAGUCAAAGCGAAAAACCUUUGACUCAACUUUCGGAAAGCACCUUUACAC
.(-((((---((.((((((---(......(((......))).....)))...........(((((((((........))))))))))))))))))))............. ( -24.50)
>DroPse_CAF1 92497 106 - 1
GUCUAUGGCCUAUGUCUAU---UGCCCAGCGAAGCGCAUGAAACAAAGCAAAUUAAUUACGAGUCAAAGAGAA-AACCUUUGACUCAACUUUUACAACGCACCUUUCCAC
......(((..........---.)))..(((..((............))...........(((((((((....-...)))))))))...........))).......... ( -19.90)
>DroGri_CAF1 71234 103 - 1
GU-CUUG---UCUGUUUGUCCAGGCGCAGUCAAGUGCAAAAAACAAAGCAAAUUAAUUGCAAGUCAAAGGGA---ACCUUUGACUUUACUAAAACAACGCACCUUUACAU
(.-((((---((((......)))))).)).)..((((..........((((.....))))((((((((((..---.))))))))))............))))........ ( -27.40)
>DroSim_CAF1 94399 101 - 1
GU-UCUG---GGUGGUUGC---UGCCCAGUCAAGCGGAUGAAACAAAGCAAAUUAAUUACGAGUCAAAGCGAAAAACCUUUGACUCAACU--CGGAACGCACCUUUACAC
((-((((---(((..((((---(......(((......))).....))))).........(((((((((........))))))))).)))--))))))............ ( -30.70)
>DroAna_CAF1 87136 101 - 1
-C-ACCC---GCUGAUGGC---UGCCCGGCCAAGCGGACGGAACAAAGCAAAUUAAUUACGAGUCAAAGCGAA-AACCUUUGACUCAACUUUUGCAACGCACCUUUGCAC
-.-..((---(((..((((---(....))))))))))..........(((((........(((((((((.(..-..))))))))))......(((...)))..))))).. ( -32.20)
>DroPer_CAF1 92297 106 - 1
GUCUAUUGCCUAUGUCUAU---UGCCCAGCGAAGCGCAUGAAACAAAGCAAAUUAAUUACGAGUCAAAGAGAA-AACCUUUGACUCAACUUUUGCAACGCACCUUUCCAC
......(((.(((((((.(---(((...)))))).))))).......(((((........(((((((((....-...)))))))))....)))))...)))......... ( -21.80)
>consensus
GU_UCUG___GAUGUUUGC___UGCCCAGCCAAGCGCAUGAAACAAAGCAAAUUAAUUACGAGUCAAAGCGAA_AACCUUUGACUCAACUUUUGCAACGCACCUUUACAC
.......................((........((............))...........(((((((((........)))))))))............)).......... (-14.80 = -14.38 +  -0.41)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:26:23 2006