Locus 8493

Sequence ID	X_DroMel_CAF1
Location	21,056,811 – 21,056,931
Length	120
Max. P	0.768984

overview

Window 4

Location	21,056,811 – 21,056,931
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	95.56
Mean single sequence MFE	-30.47
Consensus MFE	-27.89
Energy contribution	-28.00
Covariance contribution	0.11
Combinations/Pair	1.03
Mean z-score	-1.71
Structure conservation index	0.92
SVM decision value	0.09
SVM RNA-class probability	0.578690
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21056811 120 + 22224390
UUCAUUCAGAAAACAUUUAGCAGAGUGUCCUUGACUGACGAUGCUGAAUACGAGCACCGAGUGCACAACACUGAAUCCUGCAAAUGCAAAAUUGUUUUUGGCAAAGUGCACAAUGCACUU
...((((((.....((((((((...((((.......)))).))))))))....((((...))))......))))))..((((((.(((....))).))).)))((((((.....)))))) ( -31.10)
>DroEre_CAF1 27765 120 + 1
UUCAUUCAGAAAACAUUCAGCCGAGUGUCCUUGACUGAUGCUGCUGAAUACGAACACCGAGUGCACAGCACUGAAUCCUGCAAAUGCAAAAUUGUUUUUGGCAAAGUGCACAAUGCACUU
.(((.((((...((((((....))))))..)))).)))...(((..((.((((......(((((...)))))......(((....)))...)))).))..)))((((((.....)))))) ( -32.30)
>DroYak_CAF1 30685 120 + 1
UUCAUUCAGAAAACAUUCAGCCGAGUGUCCUUGACUGACGCUACUGAAUACGAACACCGAGUGCACAACACUGAGUCCUGCAAAUGCAAAAUUGUUUUUGGCAAAGUGCACAAUGCACUU
...((((((.....((((((...((((((.......)))))).)))))).((.....))...........))))))..((((((.(((....))).))).)))((((((.....)))))) ( -28.00)
>consensus
UUCAUUCAGAAAACAUUCAGCCGAGUGUCCUUGACUGACGCUGCUGAAUACGAACACCGAGUGCACAACACUGAAUCCUGCAAAUGCAAAAUUGUUUUUGGCAAAGUGCACAAUGCACUU
.(((.((((...((((((....))))))..)))).)))...(((..((.((((......((((.....))))......(((....)))...)))).))..)))((((((.....)))))) (-27.89 = -28.00 +   0.11)

alignment

secondary structure

dotplot

Window 5

Location	21,056,811 – 21,056,931
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	95.56
Mean single sequence MFE	-35.40
Consensus MFE	-32.69
Energy contribution	-33.37
Covariance contribution	0.67
Combinations/Pair	1.07
Mean z-score	-1.95
Structure conservation index	0.92
SVM decision value	0.52
SVM RNA-class probability	0.768984
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21056811 120 - 22224390
AAGUGCAUUGUGCACUUUGCCAAAAACAAUUUUGCAUUUGCAGGAUUCAGUGUUGUGCACUCGGUGCUCGUAUUCAGCAUCGUCAGUCAAGGACACUCUGCUAAAUGUUUUCUGAAUGAA
((((((.....)))))).........((.....((((((((((.....((((((.((.((((((((((.......)))))))..)))))..)))))))))).))))))....))...... ( -31.90)
>DroEre_CAF1 27765 120 - 1
AAGUGCAUUGUGCACUUUGCCAAAAACAAUUUUGCAUUUGCAGGAUUCAGUGCUGUGCACUCGGUGUUCGUAUUCAGCAGCAUCAGUCAAGGACACUCGGCUGAAUGUUUUCUGAAUGAA
((((((.....)))))).(((......((((((((....)))))))).(((((...))))).))).....(((((((.((((((((((.((....)).))))).)))))..))))))).. ( -38.10)
>DroYak_CAF1 30685 120 - 1
AAGUGCAUUGUGCACUUUGCCAAAAACAAUUUUGCAUUUGCAGGACUCAGUGUUGUGCACUCGGUGUUCGUAUUCAGUAGCGUCAGUCAAGGACACUCGGCUGAAUGUUUUCUGAAUGAA
.(((((((...(((((..(((((((....))))((....)).)).)..))))).))))))).........(((((((.((((((((((.((....)).))))).)))))..))))))).. ( -36.20)
>consensus
AAGUGCAUUGUGCACUUUGCCAAAAACAAUUUUGCAUUUGCAGGAUUCAGUGUUGUGCACUCGGUGUUCGUAUUCAGCAGCGUCAGUCAAGGACACUCGGCUGAAUGUUUUCUGAAUGAA
..(.((((.((((((...((.......((((((((....))))))))....)).))))))...)))).).(((((((.((((((((((.((....)).))))).)))))..))))))).. (-32.69 = -33.37 +   0.67)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:05:41 2006