Locus 8171

Sequence ID	3L_DroMel_CAF1
Location	21,516,176 – 21,516,336
Length	160
Max. P	0.846416

overview

Window 0

Location	21,516,176 – 21,516,296
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	97.78
Mean single sequence MFE	-33.00
Consensus MFE	-32.69
Energy contribution	-33.47
Covariance contribution	0.78
Combinations/Pair	1.02
Mean z-score	-1.60
Structure conservation index	0.99
SVM decision value	0.38
SVM RNA-class probability	0.713455
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21516176 120 - 23771897
UGGGAGUUGCUAUAAUUGUUUAAUUAUAGGAUUUUGCUUGCUUGACUUUGCAUUUUGUGCUCAUAACUUUUGCGCUGAGUUCAUGUUACCUGCAGUAUGCGGGGUAUACGGCAAGCCACA
..((((((.((((((((....))))))))))))))(((((((((((..((.((((.((((...........)))).)))).)).))))(((((.....)))))......))))))).... ( -33.60)
>DroSec_CAF1 21361 120 - 1
UGGGAGUUGCUAUAAUUGUUUAAUUAUAGGAUUUUGCUUGCUUGACUUUGCAUUUUGUGCUCAUAACUUUUGCGCUGAGUUCAUGUUACCUGCAAAAUGCGGGGUAUACGGCCAGCCACA
..((((((.((((((((....))))))))))))))(((.(((..((((((((((((((...((((((((.......))))).)))......))))))))))))))....))).))).... ( -32.90)
>DroSim_CAF1 21468 120 - 1
UGGGAGUUGCUAUAAUUGUUUAAUUAUAGGAUUUUGCUUGCUUGACUUUGCAUUUUGUGCUCAUAACUUUUGCGCUGAGUUCAUGUUACCUGCAAAAUGCGGGGUAUACGGGAAGCCACA
..((((((.((((((((....))))))))))))))((((.((..((((((((((((((...((((((((.......))))).)))......))))))))))))))....)).)))).... ( -32.50)
>consensus
UGGGAGUUGCUAUAAUUGUUUAAUUAUAGGAUUUUGCUUGCUUGACUUUGCAUUUUGUGCUCAUAACUUUUGCGCUGAGUUCAUGUUACCUGCAAAAUGCGGGGUAUACGGCAAGCCACA
..((((((.((((((((....))))))))))))))(((((((..((((((((((((((...((((((((.......))))).)))......))))))))))))))....))))))).... (-32.69 = -33.47 +   0.78)

alignment

secondary structure

dotplot

Window 1

Location	21,516,216 – 21,516,336
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	100.00
Mean single sequence MFE	-27.60
Consensus MFE	-27.60
Energy contribution	-27.60
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.82
Structure conservation index	1.00
SVM decision value	0.77
SVM RNA-class probability	0.846416
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21516216 120 + 23771897
ACUCAGCGCAAAAGUUAUGAGCACAAAAUGCAAAGUCAAGCAAGCAAAAUCCUAUAAUUAAACAAUUAUAGCAACUCCCACUUUUGCUCGUGGUCAUUCGCUGGCCCUGGACCCUUGCGA
......(((((..((((((((((.....(((........))).........((((((((....)))))))).............)))))))(((((.....)))))...)))..))))). ( -27.60)
>DroSec_CAF1 21401 120 + 1
ACUCAGCGCAAAAGUUAUGAGCACAAAAUGCAAAGUCAAGCAAGCAAAAUCCUAUAAUUAAACAAUUAUAGCAACUCCCACUUUUGCUCGUGGUCAUUCGCUGGCCCUGGACCCUUGCGA
......(((((..((((((((((.....(((........))).........((((((((....)))))))).............)))))))(((((.....)))))...)))..))))). ( -27.60)
>DroSim_CAF1 21508 120 + 1
ACUCAGCGCAAAAGUUAUGAGCACAAAAUGCAAAGUCAAGCAAGCAAAAUCCUAUAAUUAAACAAUUAUAGCAACUCCCACUUUUGCUCGUGGUCAUUCGCUGGCCCUGGACCCUUGCGA
......(((((..((((((((((.....(((........))).........((((((((....)))))))).............)))))))(((((.....)))))...)))..))))). ( -27.60)
>consensus
ACUCAGCGCAAAAGUUAUGAGCACAAAAUGCAAAGUCAAGCAAGCAAAAUCCUAUAAUUAAACAAUUAUAGCAACUCCCACUUUUGCUCGUGGUCAUUCGCUGGCCCUGGACCCUUGCGA
......(((((..((((((((((.....(((........))).........((((((((....)))))))).............)))))))(((((.....)))))...)))..))))). (-27.60 = -27.60 +  -0.00)

alignment

secondary structure

dotplot

Window 2

Location	21,516,216 – 21,516,336
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	100.00
Mean single sequence MFE	-34.80
Consensus MFE	-34.80
Energy contribution	-34.80
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.31
Structure conservation index	1.00
SVM decision value	-0.03
SVM RNA-class probability	0.519287
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21516216 120 - 23771897
UCGCAAGGGUCCAGGGCCAGCGAAUGACCACGAGCAAAAGUGGGAGUUGCUAUAAUUGUUUAAUUAUAGGAUUUUGCUUGCUUGACUUUGCAUUUUGUGCUCAUAACUUUUGCGCUGAGU
.(((((((((...((((((..(((((....((((((..((..(((....((((((((....))))))))..)))..))))))))......))))))).))))...)))))))))...... ( -34.80)
>DroSec_CAF1 21401 120 - 1
UCGCAAGGGUCCAGGGCCAGCGAAUGACCACGAGCAAAAGUGGGAGUUGCUAUAAUUGUUUAAUUAUAGGAUUUUGCUUGCUUGACUUUGCAUUUUGUGCUCAUAACUUUUGCGCUGAGU
.(((((((((...((((((..(((((....((((((..((..(((....((((((((....))))))))..)))..))))))))......))))))).))))...)))))))))...... ( -34.80)
>DroSim_CAF1 21508 120 - 1
UCGCAAGGGUCCAGGGCCAGCGAAUGACCACGAGCAAAAGUGGGAGUUGCUAUAAUUGUUUAAUUAUAGGAUUUUGCUUGCUUGACUUUGCAUUUUGUGCUCAUAACUUUUGCGCUGAGU
.(((((((((...((((((..(((((....((((((..((..(((....((((((((....))))))))..)))..))))))))......))))))).))))...)))))))))...... ( -34.80)
>consensus
UCGCAAGGGUCCAGGGCCAGCGAAUGACCACGAGCAAAAGUGGGAGUUGCUAUAAUUGUUUAAUUAUAGGAUUUUGCUUGCUUGACUUUGCAUUUUGUGCUCAUAACUUUUGCGCUGAGU
.(((((((((...((((((..(((((....((((((..((..(((....((((((((....))))))))..)))..))))))))......))))))).))))...)))))))))...... (-34.80 = -34.80 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:08:23 2006