Locus 7454

Sequence ID	X_DroMel_CAF1
Location	18,608,026 – 18,608,152
Length	126
Max. P	0.615396

overview

Window 3

Location	18,608,026 – 18,608,123
Length	97
Sequences	5
Columns	112
Reading direction	reverse
Mean pairwise identity	89.51
Mean single sequence MFE	-43.30
Consensus MFE	-35.10
Energy contribution	-34.30
Covariance contribution	-0.80
Combinations/Pair	1.19
Mean z-score	-1.44
Structure conservation index	0.81
SVM decision value	0.17
SVM RNA-class probability	0.615396
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18608026 97 - 22224390
CG--CGCAACAUGGGAGUUGCCCGGCAACAGGGCUGCCUG-------GCAGCAUGCUGCUAGCCACAAGUUGCCGUGGUGAGUUUGCGCCAUUCGGCAUCGCC------CAC
..--.......((((.(.(((((((((((..((((....(-------((((....)))))))))....)))))))(((((......)))))...)))).).))------)). ( -42.90)
>DroSec_CAF1 69013 97 - 1
CG--CGCAACAUGGGAGUUGCCCGGCAACAGGGCUGCUUG-------GCAGCAUGCUGCUGGCCACAAGUUGCCGUGGUGAGUUUGCGCCAUUCGGCAUCGCC------CAC
..--.......((((.(.(((((((((((..((((....(-------((((....)))))))))....)))))))(((((......)))))...)))).).))------)). ( -42.90)
>DroSim_CAF1 67210 97 - 1
CG--CGCAACAUGGGAGUUGCCCGGCAACAGGGCUGCUUG-------GCAGCAUGCUGCUGGCCACAAGUUGCCGUGGUGAGUUUGCGCCAUUCGGCAUCGCC------CAC
..--.......((((.(.(((((((((((..((((....(-------((((....)))))))))....)))))))(((((......)))))...)))).).))------)). ( -42.90)
>DroEre_CAF1 55644 103 - 1
CG--CGCAACAUGGGAGUUGCUCGGCAACAGGGCUGCCCG-------GCAGGAUGUUGCUGGCCUCAAGUUGCCGUGGUGAGUUUGCGCCAUUCGGCAUCGCCCACGCCCAC
..--.......((((.(((((...))))).((((.(.(((-------((((....))))))).)....(.((((((((((......)))))..))))).)))))...)))). ( -41.70)
>DroYak_CAF1 60197 106 - 1
CGCGCGCAACAUGAAAGUUGCCCGGCAACAAGGCUGCCCGACAGCAGGCAGCAUGCUGCUGGCCACAUGUUGCCGUGGUGAGUUUGCGCCAUUCGGCAUCGCC------CAC
.(((.((((((((.....((.((((((.((..((((((........)))))).)).)))))).)))))))))))))((((((....)(((....))).)))))------... ( -46.10)
>consensus
CG__CGCAACAUGGGAGUUGCCCGGCAACAGGGCUGCCUG_______GCAGCAUGCUGCUGGCCACAAGUUGCCGUGGUGAGUUUGCGCCAUUCGGCAUCGCC______CAC
.....((......(((.(..(((((((((..(((((...........((((....)))))))))....))))))).))..).)))..(((....)))...)).......... (-35.10 = -34.30 +  -0.80)

alignment

secondary structure

dotplot

Window 4

Location	18,608,055 – 18,608,152
Length	97
Sequences	5
Columns	117
Reading direction	forward
Mean pairwise identity	85.47
Mean single sequence MFE	-42.38
Consensus MFE	-26.86
Energy contribution	-27.46
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-2.10
Structure conservation index	0.63
SVM decision value	0.16
SVM RNA-class probability	0.610546
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18608055 97 + 22224390
CACGGCAACUUGUGGCUAGCAGCAUGCUGC-------CAGGCAGCCCUGUUGCCGGGCAACUCCCAUGUUGCG--CGGAGGA----------CGUUCCCUGC-CGAUUGGGACAAAU
..(((((((..(.((((.((.((.....))-------...))))))).)))))))(....)(((((.((((.(--(((.((.----------....))))))-)))))))))..... ( -41.20)
>DroSec_CAF1 69042 97 + 1
CACGGCAACUUGUGGCCAGCAGCAUGCUGC-------CAAGCAGCCCUGUUGCCGGGCAACUCCCAUGUUGCG--CGGAGGA----------CGUUCCCUGC-CGAUUGGGACAAAU
(((((....)))))(((.((((((.(((((-------...)))))..))))))..)))...(((((.((((.(--(((.((.----------....))))))-)))))))))..... ( -39.70)
>DroSim_CAF1 67239 97 + 1
CACGGCAACUUGUGGCCAGCAGCAUGCUGC-------CAAGCAGCCCUGUUGCCGGGCAACUCCCAUGUUGCG--CGGAGGA----------CGUUCCCUGC-CGAUUGGGACAAAU
(((((....)))))(((.((((((.(((((-------...)))))..))))))..)))...(((((.((((.(--(((.((.----------....))))))-)))))))))..... ( -39.70)
>DroEre_CAF1 55679 98 + 1
CACGGCAACUUGAGGCCAGCAACAUCCUGC-------CGGGCAGCCCUGUUGCCGAGCAACUCCCAUGUUGCG--CGGAGGA----------CGUUCCCUCCGCGAUUGCGACAAAU
..(((((((..(..(((.(((......)))-------..)))..)...))))))).(((((......)))))(--((((((.----------.....)))))))............. ( -42.80)
>DroYak_CAF1 60226 117 + 1
CACGGCAACAUGUGGCCAGCAGCAUGCUGCCUGCUGUCGGGCAGCCUUGUUGCCGGGCAACUUUCAUGUUGCGCGCGGAGGAUGUUCUGUUCCGUUCCCUUCCCGAUUGUGACCACU
((((((((((((((.((.((((((.((((((((....))))))))..)))))).)).)).....))))))))(.((((((.(.....).)))))).)..........))))...... ( -48.50)
>consensus
CACGGCAACUUGUGGCCAGCAGCAUGCUGC_______CAGGCAGCCCUGUUGCCGGGCAACUCCCAUGUUGCG__CGGAGGA__________CGUUCCCUGC_CGAUUGGGACAAAU
..(((((((....(((..((((....)))).............)))..))))))).(((((......))))).....................(((((..........))))).... (-26.86 = -27.46 +   0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:39:18 2006