Locus 5759

Sequence ID	X_DroMel_CAF1
Location	14,941,219 – 14,941,326
Length	107
Max. P	0.920437

overview

Window 7

Location	14,941,219 – 14,941,326
Length	107
Sequences	4
Columns	107
Reading direction	forward
Mean pairwise identity	88.01
Mean single sequence MFE	-22.70
Consensus MFE	-18.00
Energy contribution	-19.38
Covariance contribution	1.38
Combinations/Pair	1.08
Mean z-score	-2.19
Structure conservation index	0.79
SVM decision value	1.13
SVM RNA-class probability	0.920437
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14941219 107 + 22224390
CAGACUUUGAACUUAAGCAUGCUUAGCACACUGCACAAUUUGAGUGCAAUCACUUUAAAGUCCUGGCAAGGACUGCACCCGAAUUCACCACAGUCUAACAAAAUUCA
.(((((.((.......((((((...)))...)))..((((((.(((((...........(((((....)))))))))).))))))...)).)))))........... ( -24.80)
>DroSec_CAF1 5621 97 + 1
CAGACUUUGAACCUAAGCAUGCUUAGCACACUGCACAGUUUAAGUGCAAUUACUU----------ACAAGGACUGCACCCGAAUUCACCACAGUCUAACACAAUUCA
.(((((.((...(((((....)))))..........(((((..(((((....((.----------...))...)))))..)))))...)).)))))........... ( -16.90)
>DroEre_CAF1 5576 107 + 1
CAGACUUUGAACUUAAGCAUGCUUAGCACACUGCACAGUUCAAGUGCAAUCACUUUAAAGUCCUUGCAAGGACUGCACCAGAAAUCACCACAGUCUAACACGAUUCA
.((((((((((((((((....))))((.....))..)))))))(((((...........(((((....)))))))))).............)))))........... ( -24.10)
>DroYak_CAF1 5954 107 + 1
CAGACUUUGAACUUAAGCAUGCUUGGCACACUGCACUGUUCAAGUGCAAUCACUUUAAAGUCCUUGCAAGGACUGCACCAGAAUUCACCACAGUUCAACACGAUUCA
......(((((((((((....))))((....((((((.....))))))..........((((((....))))))))...............)))))))......... ( -25.00)
>consensus
CAGACUUUGAACUUAAGCAUGCUUAGCACACUGCACAGUUCAAGUGCAAUCACUUUAAAGUCCUUGCAAGGACUGCACCAGAAUUCACCACAGUCUAACACAAUUCA
.(((((.((....((((....))))((....(((((.......)))))..........((((((....))))))))............)).)))))........... (-18.00 = -19.38 +   1.38)

alignment

secondary structure

dotplot

Window 8

Location	14,941,219 – 14,941,326
Length	107
Sequences	4
Columns	107
Reading direction	reverse
Mean pairwise identity	88.01
Mean single sequence MFE	-31.05
Consensus MFE	-25.21
Energy contribution	-26.90
Covariance contribution	1.69
Combinations/Pair	1.09
Mean z-score	-1.83
Structure conservation index	0.81
SVM decision value	0.70
SVM RNA-class probability	0.826713
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14941219 107 - 22224390
UGAAUUUUGUUAGACUGUGGUGAAUUCGGGUGCAGUCCUUGCCAGGACUUUAAAGUGAUUGCACUCAAAUUGUGCAGUGUGCUAAGCAUGCUUAAGUUCAAAGUCUG
..........((((((....((((((..(((((((((((....))))))....(((((((((((.......))))))).))))..))..)))..)))))).)))))) ( -33.60)
>DroSec_CAF1 5621 97 - 1
UGAAUUGUGUUAGACUGUGGUGAAUUCGGGUGCAGUCCUUGU----------AAGUAAUUGCACUUAAACUGUGCAGUGUGCUAAGCAUGCUUAGGUUCAAAGUCUG
..........((((((....((((((..((..((((...(((----------((....))))).....))))..).((((((...)))))))..)))))).)))))) ( -27.20)
>DroEre_CAF1 5576 107 - 1
UGAAUCGUGUUAGACUGUGGUGAUUUCUGGUGCAGUCCUUGCAAGGACUUUAAAGUGAUUGCACUUGAACUGUGCAGUGUGCUAAGCAUGCUUAAGUUCAAAGUCUG
..........((((((...(..(((.((..((.((((((....)))))).)).)).)))..)..(((((((....(((((((...)))))))..))))))))))))) ( -31.80)
>DroYak_CAF1 5954 107 - 1
UGAAUCGUGUUGAACUGUGGUGAAUUCUGGUGCAGUCCUUGCAAGGACUUUAAAGUGAUUGCACUUGAACAGUGCAGUGUGCCAAGCAUGCUUAAGUUCAAAGUCUG
.........(((((((..(((......(((..(((((((....))))))........((((((((.....)))))))))..))).....)))..)))))))...... ( -31.60)
>consensus
UGAAUCGUGUUAGACUGUGGUGAAUUCGGGUGCAGUCCUUGCAAGGACUUUAAAGUGAUUGCACUUAAACUGUGCAGUGUGCUAAGCAUGCUUAAGUUCAAAGUCUG
...........(((((....((((((..(((((((((((....))))))....(((((((((((.......))))))).))))..))..)))..)))))).))))). (-25.21 = -26.90 +   1.69)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:55:44 2006