Locus 9101

Sequence ID	3R_DroMel_CAF1
Location	24,288,910 – 24,289,024
Length	114
Max. P	0.989492

overview

Window 4

Location	24,288,910 – 24,289,024
Length	114
Sequences	5
Columns	114
Reading direction	forward
Mean pairwise identity	96.01
Mean single sequence MFE	-20.37
Consensus MFE	-19.60
Energy contribution	-19.88
Covariance contribution	0.28
Combinations/Pair	1.03
Mean z-score	-1.62
Structure conservation index	0.96
SVM decision value	2.17
SVM RNA-class probability	0.989492
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24288910 114 + 27905053
UUUUCUGCUCUUCACGUAAAUUAAUUUAACGUUUUGUGCUUAUGGAAUAAUCAUAUUGGCACAUCUCUUUAUUGGAAUUUAUUUUUAAAUUUCCAAUUGAUUCGAAUGAGCCAU
......(((((((((((.((.....)).))))..(((((((((((.....)))))..))))))..((...(((((((((((....)))).))))))).))...))).))))... ( -24.50)
>DroSec_CAF1 111593 112 + 1
CUUUCUGCUCUUCACGUAAAUUAAUUUAAUGCUUUGUGCUUAUGGAAUAAUCAUAUUGGCACAUCUCUUUACUGGAAUUUAU--UUAAAUUUCCAAUUGAUUCGAAUGAGCCAU
......(((((((.....................(((((((((((.....)))))..)))))).........(((((.((..--...)).)))))........))).))))... ( -20.00)
>DroSim_CAF1 117348 112 + 1
CUUUCUGCUCUUCACGUAAAUUAAUUUAACGCUUUGUGCUUAUGGAAUAAUCAUAUUGGCACAUCUCUUUACUGGAAUUUAU--UUAAAUUUCCAAUUGAUUCGAAUGAGCCAU
......(((((((.....................(((((((((((.....)))))..)))))).........(((((.((..--...)).)))))........))).))))... ( -20.00)
>DroEre_CAF1 120197 112 + 1
CUUUCUGCUCUUCACGUAAAUUAAUUUAACGCUUUGUGCUUAUGGAAUAAUCAUAUUGGCACAUCUCUUUACUGGAAUUUAU--UUAAAUUUUCAAUUGAUUCGAAUGAGCCAC
......(((((((..(((((((............(((((((((((.....)))))..))))))............)))))))--........((....))...))).))))... ( -18.25)
>DroYak_CAF1 116373 112 + 1
CUUUCUGCUCUUCUCGUAAAUUAAUUUAACGCUUUGUGCUUAUGCAAUAAUCAUAUUGGCACAUCUCUUUACUGGAAUUUAU--UUAAAUUUGCAAUUGAUUCGAAUGAGCCAC
......((((...(((..((((((((....((..((((((((((.......))))..))))))...........((((((..--..)))))))))))))))))))..))))... ( -19.10)
>consensus
CUUUCUGCUCUUCACGUAAAUUAAUUUAACGCUUUGUGCUUAUGGAAUAAUCAUAUUGGCACAUCUCUUUACUGGAAUUUAU__UUAAAUUUCCAAUUGAUUCGAAUGAGCCAU
......((((....((..((((((((........(((((((((((.....)))))..))))))..........((((((((....)))))))).))))))))))...))))... (-19.60 = -19.88 +   0.28)

alignment

secondary structure

dotplot

Window 5

Location	24,288,910 – 24,289,024
Length	114
Sequences	5
Columns	114
Reading direction	reverse
Mean pairwise identity	96.01
Mean single sequence MFE	-20.86
Consensus MFE	-19.18
Energy contribution	-19.42
Covariance contribution	0.24
Combinations/Pair	1.04
Mean z-score	-1.62
Structure conservation index	0.92
SVM decision value	1.71
SVM RNA-class probability	0.973199
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24288910 114 - 27905053
AUGGCUCAUUCGAAUCAAUUGGAAAUUUAAAAAUAAAUUCCAAUAAAGAGAUGUGCCAAUAUGAUUAUUCCAUAAGCACAAAACGUUAAAUUAAUUUACGUGAAGAGCAGAAAA
...((((.(((......(((((((.((((....))))))))))).......(((((...((((.......)))).)))))..((((...........)))))))))))...... ( -22.80)
>DroSec_CAF1 111593 112 - 1
AUGGCUCAUUCGAAUCAAUUGGAAAUUUAA--AUAAAUUCCAGUAAAGAGAUGUGCCAAUAUGAUUAUUCCAUAAGCACAAAGCAUUAAAUUAAUUUACGUGAAGAGCAGAAAG
...((((.((((.....(((((((.((...--..)).))))))).......(((((...((((.......)))).)))))....................))))))))...... ( -21.20)
>DroSim_CAF1 117348 112 - 1
AUGGCUCAUUCGAAUCAAUUGGAAAUUUAA--AUAAAUUCCAGUAAAGAGAUGUGCCAAUAUGAUUAUUCCAUAAGCACAAAGCGUUAAAUUAAUUUACGUGAAGAGCAGAAAG
...((((.(((......(((((((.((...--..)).))))))).......(((((...((((.......)))).)))))..((((...........)))))))))))...... ( -22.40)
>DroEre_CAF1 120197 112 - 1
GUGGCUCAUUCGAAUCAAUUGAAAAUUUAA--AUAAAUUCCAGUAAAGAGAUGUGCCAAUAUGAUUAUUCCAUAAGCACAAAGCGUUAAAUUAAUUUACGUGAAGAGCAGAAAG
...((((.(((((.....)))))..((((.--.((((((....(((.(...(((((...((((.......)))).)))))...).)))....))))))..))))))))...... ( -19.20)
>DroYak_CAF1 116373 112 - 1
GUGGCUCAUUCGAAUCAAUUGCAAAUUUAA--AUAAAUUCCAGUAAAGAGAUGUGCCAAUAUGAUUAUUGCAUAAGCACAAAGCGUUAAAUUAAUUUACGAGAAGAGCAGAAAG
...((((.(((((((..(((.........)--))..))))..(((((....(((((.((((....))))))))).((.....))..........)))))..)))))))...... ( -18.70)
>consensus
AUGGCUCAUUCGAAUCAAUUGGAAAUUUAA__AUAAAUUCCAGUAAAGAGAUGUGCCAAUAUGAUUAUUCCAUAAGCACAAAGCGUUAAAUUAAUUUACGUGAAGAGCAGAAAG
...((((.(((......(((((((.((((....))))))))))).......(((((...((((.......)))).))))).....................)))))))...... (-19.18 = -19.42 +   0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:26:36 2006