Locus 4610

Sequence ID	2R_DroMel_CAF1
Location	15,068,423 – 15,068,514
Length	91
Max. P	0.872311

overview

Window 8

Location	15,068,423 – 15,068,514
Length	91
Sequences	6
Columns	112
Reading direction	forward
Mean pairwise identity	80.99
Mean single sequence MFE	-31.95
Consensus MFE	-18.44
Energy contribution	-18.67
Covariance contribution	0.23
Combinations/Pair	1.20
Mean z-score	-2.19
Structure conservation index	0.58
SVM decision value	0.41
SVM RNA-class probability	0.725161
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15068423 91 + 20766785
GUUUGAUAAAUGGUCGCCCAUUAGGCGAGCACUUAAUGGUGCAUAUCGUGUGAUAUAUUG---GCAGGCA-------ACAGUGUGCCUGGCAGGCAUCCGA-----------
..........(((..(((.((((.(((((((((....)))))...)))).))))....((---.((((((-------......)))))).)))))..))).----------- ( -33.90)
>DroPse_CAF1 48874 101 + 1
AAUUGAUAAAUGGCCCGCUAUUAAAUGAACACUUAAUGGUGCAUAACGUGUGAUAUACUGUCGGCAGGCAGGCAGAGGCAGGGUGUCUGGCACGGAAUCGA-----------
..(((((........(((((((((........))))))))).....(((((((((..(((((.((......))...)))))..))))..)))))..)))))----------- ( -28.80)
>DroSim_CAF1 23136 91 + 1
GUUUGAUAAAUGGUCGCCCAUUAGGCGAGCACUUAAUGGUGCAUAUCGUGUGAUAUAUUG---GCAGGCA-------ACAGUGUGCCUGGCAGGCAACCGA-----------
..........((((.(((.((((.(((((((((....)))))...)))).))))....((---.((((((-------......)))))).))))).)))).----------- ( -35.00)
>DroEre_CAF1 45433 91 + 1
GUUUGAUAAAUGGUCGCCCAUUAGGCGAGCACUUAAUGGUGCAUAUCGUGUGAUAUAUUG---GCAGGCA-------ACAGUGUGUCUGGCAGGCAACCGA-----------
..........((((.(((.((((.(((((((((....)))))...)))).))))....((---.((((((-------......)))))).))))).)))).----------- ( -32.30)
>DroYak_CAF1 46399 102 + 1
GUUUGAUAAAUGGUCGCCCAUUAGGCGAGCACUUAAUGGUGCAUAUCGUGUGAUAUAUUG---GCAGGCA-------ACAGUGUGCCUGGCAGGCAACCGAAGUCCGAAGAC
....(((...((((.(((.((((.(((((((((....)))))...)))).))))....((---.((((((-------......)))))).))))).))))..)))....... ( -35.30)
>DroPer_CAF1 48447 101 + 1
AAUUGAUAAAUGGCCCGCUAUUAAAUGAACACUUAAUGGUGCAUAACGUGUGAUAUACUGUCGGCAGGCAGGCAGAGGCAGGGUGGCUGGCACGGAAUCGA-----------
..(((((...(((((.((((((.......((((....))))................(((((.((......))...))))))))))).))).))..)))))----------- ( -26.40)
>consensus
GUUUGAUAAAUGGUCGCCCAUUAGGCGAGCACUUAAUGGUGCAUAUCGUGUGAUAUAUUG___GCAGGCA_______ACAGUGUGCCUGGCAGGCAACCGA___________
..........(((..(((.((((.(((((((((....)))))...)))).))))..........((((((.............))))))...)))..)))............ (-18.44 = -18.67 +   0.23)

alignment

secondary structure

dotplot

Window 9

Location	15,068,423 – 15,068,514
Length	91
Sequences	6
Columns	112
Reading direction	reverse
Mean pairwise identity	80.99
Mean single sequence MFE	-26.47
Consensus MFE	-16.83
Energy contribution	-17.55
Covariance contribution	0.72
Combinations/Pair	1.27
Mean z-score	-2.41
Structure conservation index	0.64
SVM decision value	0.88
SVM RNA-class probability	0.872311
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15068423 91 - 20766785
-----------UCGGAUGCCUGCCAGGCACACUGU-------UGCCUGC---CAAUAUAUCACACGAUAUGCACCAUUAAGUGCUCGCCUAAUGGGCGACCAUUUAUCAAAC
-----------..((.(((.((.((((((......-------)))))).---))..(((((....))))))))))..((((((.(((((.....))))).))))))...... ( -30.70)
>DroPse_CAF1 48874 101 - 1
-----------UCGAUUCCGUGCCAGACACCCUGCCUCUGCCUGCCUGCCGACAGUAUAUCACACGUUAUGCACCAUUAAGUGUUCAUUUAAUAGCGGGCCAUUUAUCAAUU
-----------..(((...(((.((((.........))))...((((((.....(((((........)))))...(((((((....))))))).)))))))))..))).... ( -19.60)
>DroSim_CAF1 23136 91 - 1
-----------UCGGUUGCCUGCCAGGCACACUGU-------UGCCUGC---CAAUAUAUCACACGAUAUGCACCAUUAAGUGCUCGCCUAAUGGGCGACCAUUUAUCAAAC
-----------..(((.((.((.((((((......-------)))))).---))..(((((....))))))))))..((((((.(((((.....))))).))))))...... ( -30.70)
>DroEre_CAF1 45433 91 - 1
-----------UCGGUUGCCUGCCAGACACACUGU-------UGCCUGC---CAAUAUAUCACACGAUAUGCACCAUUAAGUGCUCGCCUAAUGGGCGACCAUUUAUCAAAC
-----------..(((.((.((.(((.((......-------)).))).---))..(((((....))))))))))..((((((.(((((.....))))).))))))...... ( -23.60)
>DroYak_CAF1 46399 102 - 1
GUCUUCGGACUUCGGUUGCCUGCCAGGCACACUGU-------UGCCUGC---CAAUAUAUCACACGAUAUGCACCAUUAAGUGCUCGCCUAAUGGGCGACCAUUUAUCAAAC
(((....)))...(((.((.((.((((((......-------)))))).---))..(((((....))))))))))..((((((.(((((.....))))).))))))...... ( -35.70)
>DroPer_CAF1 48447 101 - 1
-----------UCGAUUCCGUGCCAGCCACCCUGCCUCUGCCUGCCUGCCGACAGUAUAUCACACGUUAUGCACCAUUAAGUGUUCAUUUAAUAGCGGGCCAUUUAUCAAUU
-----------..(((...(((.(((.....))).........((((((.....(((((........)))))...(((((((....))))))).)))))))))..))).... ( -18.50)
>consensus
___________UCGGUUGCCUGCCAGGCACACUGU_______UGCCUGC___CAAUAUAUCACACGAUAUGCACCAUUAAGUGCUCGCCUAAUGGGCGACCAUUUAUCAAAC
.............(((((((((..((((............................(((((....)))))((((......))))..))))..)))))))))........... (-16.83 = -17.55 +   0.72)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:24:40 2006