Locus 5041

Sequence ID	3L_DroMel_CAF1
Location	13,800,436 – 13,800,556
Length	120
Max. P	0.998448

overview

Window 7

Location	13,800,436 – 13,800,556
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	97.00
Mean single sequence MFE	-29.92
Consensus MFE	-25.68
Energy contribution	-26.08
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-1.47
Structure conservation index	0.86
SVM decision value	0.31
SVM RNA-class probability	0.680890
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13800436 120 + 23771897
ACUCUACAGUCAUUUGCACCAUUCCAAGUUCUUGGCGCUGGCAUUAUUAAAAAUUCGCCUCUUGCAUAAGCGACUGCUUUUCAGUGGCAAAUGGUCGACGUCGAACCCUGACUGUUUCCA
.....((((((((((((......((((....))))((((((((...................)))..((((....))))..)))))))))))(((((....)).)))..))))))..... ( -29.31)
>DroSec_CAF1 37259 120 + 1
ACUCUACAGUCAUUUGCACCAUUCCAAAUUCUUGGCGCUGGCAUUAUUAAAAAUUCGCCUCCUGCAUAAGCGACUGCUUUUCAGUGGCAAAUGGUCGACGUCGAACCCUGACUGCUUCCA
......(((((((((((......((((....))))((((((...............((.....))..((((....)))).))))))))))))(((((....)).)))..)))))...... ( -27.30)
>DroSim_CAF1 33446 120 + 1
ACUCUACAGUCAUUUGCACCAUUCCAAAUUCUUGGCGCUGGCAUUAUUAAAAAUUCGCCUCCUGCAUAAGCGACUGCUUUUCAGUGGCAAAUGGUCGACGUCGAACCCUGACUGCUUCCA
......(((((((((((......((((....))))((((((...............((.....))..((((....)))).))))))))))))(((((....)).)))..)))))...... ( -27.30)
>DroEre_CAF1 38132 120 + 1
ACUCUACAGUCAUUUGCGCCAUUCCAAGUUCUUGGCGCUAGCAUUAUUAAAAAUUCGCCUCCUGCAUAAGCGACUGCUUUUCAGUGGCAAAUGGUCGACGUCGACCCCUGACUGCUUCCA
......((((((...((((((...........))))))..................(((..(((...((((....))))..))).)))....(((((....)))))..))))))...... ( -35.70)
>DroYak_CAF1 35980 120 + 1
ACUCUACAGUCAUUUGCACCAUUCCAAGUUCUUGGCGCUGGCAUUAUUAAAAAUUCGCCUCCUGCAUAAGCGACUGCUUUUCAGUGGCAAAUGGUAGACGUCGACCCCUGACUGCUACCA
........((((...((.(((...........))).))))))..............(((..(((...((((....))))..))).)))...((((((..((((.....))))..)))))) ( -30.00)
>consensus
ACUCUACAGUCAUUUGCACCAUUCCAAGUUCUUGGCGCUGGCAUUAUUAAAAAUUCGCCUCCUGCAUAAGCGACUGCUUUUCAGUGGCAAAUGGUCGACGUCGAACCCUGACUGCUUCCA
......(((((((((((......((((....))))((((((...............((.....))..((((....)))).))))))))))))(((((....))).))..)))))...... (-25.68 = -26.08 +   0.40)

alignment

secondary structure

dotplot

Window 8

Location	13,800,436 – 13,800,556
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	97.00
Mean single sequence MFE	-38.58
Consensus MFE	-35.82
Energy contribution	-35.74
Covariance contribution	-0.08
Combinations/Pair	1.09
Mean z-score	-2.17
Structure conservation index	0.93
SVM decision value	3.10
SVM RNA-class probability	0.998448
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13800436 120 - 23771897
UGGAAACAGUCAGGGUUCGACGUCGACCAUUUGCCACUGAAAAGCAGUCGCUUAUGCAAGAGGCGAAUUUUUAAUAAUGCCAGCGCCAAGAACUUGGAAUGGUGCAAAUGACUGUAGAGU
.....((((((((((((((.(.((...(((..((.((((.....)))).))..)))...)).))))))))........((((...((((....))))..)))).....)))))))..... ( -36.40)
>DroSec_CAF1 37259 120 - 1
UGGAAGCAGUCAGGGUUCGACGUCGACCAUUUGCCACUGAAAAGCAGUCGCUUAUGCAGGAGGCGAAUUUUUAAUAAUGCCAGCGCCAAGAAUUUGGAAUGGUGCAAAUGACUGUAGAGU
.....(((((((.(((.((....)))))(((((((.(((..((((....))))...)))..)))))))..............((((((...........))))))...)))))))..... ( -37.60)
>DroSim_CAF1 33446 120 - 1
UGGAAGCAGUCAGGGUUCGACGUCGACCAUUUGCCACUGAAAAGCAGUCGCUUAUGCAGGAGGCGAAUUUUUAAUAAUGCCAGCGCCAAGAAUUUGGAAUGGUGCAAAUGACUGUAGAGU
.....(((((((.(((.((....)))))(((((((.(((..((((....))))...)))..)))))))..............((((((...........))))))...)))))))..... ( -37.60)
>DroEre_CAF1 38132 120 - 1
UGGAAGCAGUCAGGGGUCGACGUCGACCAUUUGCCACUGAAAAGCAGUCGCUUAUGCAGGAGGCGAAUUUUUAAUAAUGCUAGCGCCAAGAACUUGGAAUGGCGCAAAUGACUGUAGAGU
.....(((((((..(((((....)))))(((((((.(((..((((....))))...)))..)))))))..............((((((...........))))))...)))))))..... ( -43.30)
>DroYak_CAF1 35980 120 - 1
UGGUAGCAGUCAGGGGUCGACGUCUACCAUUUGCCACUGAAAAGCAGUCGCUUAUGCAGGAGGCGAAUUUUUAAUAAUGCCAGCGCCAAGAACUUGGAAUGGUGCAAAUGACUGUAGAGU
.....((((((((((((.(....).)))(((((((.(((..((((....))))...)))..)))))))...........)).((((((...........))))))...)))))))..... ( -38.00)
>consensus
UGGAAGCAGUCAGGGUUCGACGUCGACCAUUUGCCACUGAAAAGCAGUCGCUUAUGCAGGAGGCGAAUUUUUAAUAAUGCCAGCGCCAAGAACUUGGAAUGGUGCAAAUGACUGUAGAGU
.....(((((((.((.(((....)))))(((((((.(((..((((....))))...)))..)))))))..........((((...((((....))))..)))).....)))))))..... (-35.82 = -35.74 +  -0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:39 2006