Locus 3716

Sequence ID	X_DroMel_CAF1
Location	9,901,114 – 9,901,273
Length	159
Max. P	0.919522

overview

Window 9

Location	9,901,114 – 9,901,234
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	96.75
Mean single sequence MFE	-25.65
Consensus MFE	-23.18
Energy contribution	-23.54
Covariance contribution	0.36
Combinations/Pair	1.03
Mean z-score	-1.41
Structure conservation index	0.90
SVM decision value	0.72
SVM RNA-class probability	0.832591
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9901114 120 - 22224390
UGUGGCCCAACUUGGCCCGAACUCCUUGGUUCCAACAAUAUUUUGCAUUGAUAUGCUAGAGCUACCAACAAGUAUAUAGUAUUAAUAUUUCUAACAAUUCGGAAUGUGCACUUAACUAAG
.(.((((......)))))......(((((((......((((((((.((((..((((((..(((.......)))...))))))............)))).))))))))......))))))) ( -22.44)
>DroSec_CAF1 5426 120 - 1
UGGGGCCCAACUUGGCCCAAACUCCUUGGUUCCAACCAUAUUUUGCAUUGAUCUGCUAGAGCUACCAACAAGUAUAUAGUAUUAAUAUUUCUAACAAUUCGGAAUGUGCACUUAACUAAG
..(((((......)))))......(((((((.....(((((((((.((((...(((((..(((.......)))...)))))(((.......))))))).))))))))).....))))))) ( -27.20)
>DroSim_CAF1 5467 120 - 1
UGGGGCCCAACUUGGCCCAAACUCCUUGGUUCCAACCAUAUUUUGCAUUGAUCUGCUAGAGCUACCAACAAGUAUAUAGUAUUAAUAUUUCUAACAAUUCGGAAUGUGCACUUAACUAAG
..(((((......)))))......(((((((.....(((((((((.((((...(((((..(((.......)))...)))))(((.......))))))).))))))))).....))))))) ( -27.20)
>DroEre_CAF1 5393 120 - 1
UGGGGCCCAACUUGGCCCAAACUCUUUGGUUCCAACAAUAUUUUGCAUUGAUCUGCUAGAGCUACAAACAAGUAUAUAGUAAUAAUAUUUCUAACAAUUCGGAAUGUGCACUUAACUAAG
..(((((......))))).......((((((......((((((((.((((....((....)).......((((((.((....))))))))....)))).))))))))......)))))). ( -23.90)
>DroYak_CAF1 5470 120 - 1
UGGGGCCCAACUUGGCCCUAACUCUUUGGUUCCAACCAUAUUUUGCAUUGAUCUGCUAGAGCUACAAACAAGUAUAUAGUAAUAAUAUUUCUAACAAUUCGGAAUGUGCACUUAACUAAG
(((((((......))))))).....((((((.....(((((((((.((((....((....)).......((((((.((....))))))))....)))).))))))))).....)))))). ( -27.50)
>consensus
UGGGGCCCAACUUGGCCCAAACUCCUUGGUUCCAACCAUAUUUUGCAUUGAUCUGCUAGAGCUACCAACAAGUAUAUAGUAUUAAUAUUUCUAACAAUUCGGAAUGUGCACUUAACUAAG
..(((((......)))))......(((((((.....(((((((((.((((...(((((..(((.......)))...)))))....((....)).)))).))))))))).....))))))) (-23.18 = -23.54 +   0.36)

alignment

secondary structure

dotplot

Window 0

Location	9,901,154 – 9,901,273
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	96.04
Mean single sequence MFE	-30.41
Consensus MFE	-26.08
Energy contribution	-26.68
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-1.71
Structure conservation index	0.86
SVM decision value	1.13
SVM RNA-class probability	0.919522
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9901154 119 + 22224390
ACUAUAUACUUGUUGGUAGCUCUAGCAUAUCAAUGCAAAAUAUUGUUGGAACCAAGGAGUUCGGGCCAAGUUGGGCCACAAA-AAUAUUGGUAAAAGCGCAGGCCAAAGUGUCUUAAAUA
(((....((((.(((((...(((((((................)))))))))))).))))...((((..(((..((((....-.....))))...)))...))))..))).......... ( -29.09)
>DroSec_CAF1 5466 118 + 1
ACUAUAUACUUGUUGGUAGCUCUAGCAGAUCAAUGCAAAAUAUGGUUGGAACCAAGGAGUUUGGGCCAAGUUGGGCCCCAAA-AA-AUUGGUAAAAGCGCAGGCCAAAGUGUCUUAAACA
.....((((((..((((.((....(((......)))........(((...(((((....((.(((((......))))).)).-..-.)))))...)))))..))))))))))........ ( -31.10)
>DroSim_CAF1 5507 118 + 1
ACUAUAUACUUGUUGGUAGCUCUAGCAGAUCAAUGCAAAAUAUGGUUGGAACCAAGGAGUUUGGGCCAAGUUGGGCCCCAAA-AA-AUUGGUAAAAGCGCAGGCCAAAGUGUCUUAAACA
.....((((((..((((.((....(((......)))........(((...(((((....((.(((((......))))).)).-..-.)))))...)))))..))))))))))........ ( -31.10)
>DroEre_CAF1 5433 118 + 1
ACUAUAUACUUGUUUGUAGCUCUAGCAGAUCAAUGCAAAAUAUUGUUGGAACCAAAGAGUUUGGGCCAAGUUGGGCCCCAAA-AA-AUUGGUAAAAGCGCAGGCCAAAGUGUCUUAAACA
.....((((((((((((.((((((((((..............))))))))(((((....((.(((((......))))).)).-..-.)))))....))))))))..))))))........ ( -30.24)
>DroYak_CAF1 5510 119 + 1
ACUAUAUACUUGUUUGUAGCUCUAGCAGAUCAAUGCAAAAUAUGGUUGGAACCAAAGAGUUAGGGCCAAGUUGGGCCCCAAAAAA-AUUGGUAAAAGCGCAGGCCAAAGUGUCUUAAAUA
.....((((((((((((((((((.(((......)))......((((....)))).)))))).(((((......))))).......-............))))))..))))))........ ( -30.50)
>consensus
ACUAUAUACUUGUUGGUAGCUCUAGCAGAUCAAUGCAAAAUAUGGUUGGAACCAAGGAGUUUGGGCCAAGUUGGGCCCCAAA_AA_AUUGGUAAAAGCGCAGGCCAAAGUGUCUUAAACA
.....((((((...(((.((....(((......)))........(((...(((((....((.(((((......))))).))......)))))...)))))..))).))))))........ (-26.08 = -26.68 +   0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:26 2006