Locus 2445

Sequence ID	X_DroMel_CAF1
Location	6,553,245 – 6,553,436
Length	191
Max. P	0.882260

overview

Window 1

Location	6,553,245 – 6,553,359
Length	114
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	95.48
Mean single sequence MFE	-25.73
Consensus MFE	-24.85
Energy contribution	-24.63
Covariance contribution	-0.22
Combinations/Pair	1.03
Mean z-score	-1.96
Structure conservation index	0.97
SVM decision value	0.89
SVM RNA-class probability	0.874759
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6553245 114 + 22224390
GGUUUAGCACUCGUUGUACAAAUAUGUACUGCAAAUUGCUUUGGUCUUUUUACCAGUUCCAGUUUCCAGGUGCUAUUCCCCUCUCAUGUUCGCUCUCGC------UCUCUGUGCAUCAUU
((..(((((((.((.(((((....))))).))((((((..(((((......)))))...))))))...)))))))..))..................((------.......))...... ( -26.30)
>DroSim_CAF1 7946 114 + 1
GGUUUAGCACUCGUUGUACAAAUAUGUAUUGCAAAUUGCUUUGGUCUUUUUACCAGUUCCAGUUUCCAGGUGCUAUUCCCCUCUCAUGUUCGCUCUCGC------UCUCUGUGCAUCAUU
((..(((((((.((.(((((....))))).))((((((..(((((......)))))...))))))...)))))))..))..................((------.......))...... ( -24.90)
>DroYak_CAF1 8358 120 + 1
GGUUUAGCACUCGUUGUACAAAUAUGUAUUGCAAAUUGCUUUGGUCUUUUUACCAGUUCCAGUUUCCAGGUGCUAUUCCCCUCUCUUGUUCGCUCUCGCUCUUGCUCUCUGUGCAUCAUU
((..(((((((.((.(((((....))))).))((((((..(((((......)))))...))))))...)))))))..))............((....))...(((.......)))..... ( -26.00)
>consensus
GGUUUAGCACUCGUUGUACAAAUAUGUAUUGCAAAUUGCUUUGGUCUUUUUACCAGUUCCAGUUUCCAGGUGCUAUUCCCCUCUCAUGUUCGCUCUCGC______UCUCUGUGCAUCAUU
((..(((((((.((.(((((....))))).))((((((..(((((......)))))...))))))...)))))))..))............((.(...............).))...... (-24.85 = -24.63 +  -0.22)

alignment

secondary structure

dotplot

Window 2

Location	6,553,325 – 6,553,436
Length	111
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	90.93
Mean single sequence MFE	-36.30
Consensus MFE	-28.89
Energy contribution	-29.00
Covariance contribution	0.11
Combinations/Pair	1.04
Mean z-score	-2.24
Structure conservation index	0.80
SVM decision value	0.21
SVM RNA-class probability	0.636574
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6553325 111 + 22224390
CUCUCAUGUUCGCUCUCGC------UCUCUGUGCAUCAUUAUGCGAGAGCUCAUUCUUGUUCUCUUUCCCCAAUGCUGAUGGGGGG---AAAGAGAGAUCGCGCUGAAGAUCAAAACAGA
......((((.((((((((------....((.....))....))))))))..........(((((((((((.((....))..))))---)))))))((((........))))..)))).. ( -39.10)
>DroSim_CAF1 8026 114 + 1
CUCUCAUGUUCGCUCUCGC------UCUCUGUGCAUCAUUAUGCGAGAGCUCAUUCUUGUUCUCUUUCCCCAAUGCAGAUGGGGGGGUUAAAGAGAGAUCGCGCUGAAGAUCAAAACAGA
.((((......((((((((------....((.....))....))))))))..............(..(((((.......)))))..).....))))((((........))))........ ( -34.50)
>DroYak_CAF1 8438 119 + 1
CUCUCUUGUUCGCUCUCGCUCUUGCUCUCUGUGCAUCAUUAUGCGAGAGCUUAUUCUUGUUCUCUUUCCCCAAUGCAGAUGGAGGA-AAAAAGAGAGAUCGCGCAGAAGAUCAAAACAGA
.((((((....((((((((...(((.......))).......))))))))..............((((((((.......))).)))-)).))))))((((........))))........ ( -35.30)
>consensus
CUCUCAUGUUCGCUCUCGC______UCUCUGUGCAUCAUUAUGCGAGAGCUCAUUCUUGUUCUCUUUCCCCAAUGCAGAUGGGGGG___AAAGAGAGAUCGCGCUGAAGAUCAAAACAGA
......((((.((((((((.......................))))))))..........((((((((((((.......))))))).....)))))((((........))))..)))).. (-28.89 = -29.00 +   0.11)

alignment

secondary structure

dotplot

Window 3

Location	6,553,325 – 6,553,436
Length	111
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	90.93
Mean single sequence MFE	-38.03
Consensus MFE	-32.22
Energy contribution	-32.00
Covariance contribution	-0.22
Combinations/Pair	1.03
Mean z-score	-2.59
Structure conservation index	0.85
SVM decision value	0.92
SVM RNA-class probability	0.882260
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6553325 111 - 22224390
UCUGUUUUGAUCUUCAGCGCGAUCUCUCUUU---CCCCCCAUCAGCAUUGGGGAAAGAGAACAAGAAUGAGCUCUCGCAUAAUGAUGCACAGAGA------GCGAGAGCGAACAUGAGAG
..........(((.((.(((..(((((((((---((((...........)))))))))))..........((((((((((....))))...))))------))))..)))....))))). ( -39.70)
>DroSim_CAF1 8026 114 - 1
UCUGUUUUGAUCUUCAGCGCGAUCUCUCUUUAACCCCCCCAUCUGCAUUGGGGAAAGAGAACAAGAAUGAGCUCUCGCAUAAUGAUGCACAGAGA------GCGAGAGCGAACAUGAGAG
..........(((.((.(((..(((((((((.....(((((.......))))))))))))..........((((((((((....))))...))))------))))..)))....))))). ( -35.90)
>DroYak_CAF1 8438 119 - 1
UCUGUUUUGAUCUUCUGCGCGAUCUCUCUUUUU-UCCUCCAUCUGCAUUGGGGAAAGAGAACAAGAAUAAGCUCUCGCAUAAUGAUGCACAGAGAGCAAGAGCGAGAGCGAACAAGAGAG
.((.(((((.((((((.(((....((((((...-(((.(((.......))))))))))))..........((((((((((....))))...))))))....))))))).)).))))).)) ( -38.50)
>consensus
UCUGUUUUGAUCUUCAGCGCGAUCUCUCUUU___CCCCCCAUCUGCAUUGGGGAAAGAGAACAAGAAUGAGCUCUCGCAUAAUGAUGCACAGAGA______GCGAGAGCGAACAUGAGAG
(((((((.((((........))))(((((((.....(((((.......))))))))))))..........((((((((.......................))))))))))))).))... (-32.22 = -32.00 +  -0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:34:36 2006