Locus 3470

Sequence ID	X_DroMel_CAF1
Location	9,310,662 – 9,310,784
Length	122
Max. P	0.724247

overview

Window 6

Location	9,310,662 – 9,310,760
Length	98
Sequences	5
Columns	98
Reading direction	reverse
Mean pairwise identity	96.84
Mean single sequence MFE	-22.16
Consensus MFE	-19.54
Energy contribution	-19.58
Covariance contribution	0.04
Combinations/Pair	1.03
Mean z-score	-1.30
Structure conservation index	0.88
SVM decision value	0.13
SVM RNA-class probability	0.596551
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9310662 98 - 22224390
UUAGAGGCGAGUGGGAUUUUUCCAAAAUGUUGCACAAAGUUCACUUAAUUUGUGUGUGGCUCAUAAAUUCUUUACGAAAUAUUUUCGGUUUGCUUUUG
.(((((((((((((((....))).....((..(((((((((.....))))).))))..)).)))..........((((.....))))..))))))))) ( -22.50)
>DroSec_CAF1 91577 98 - 1
UUAGAGGAGAGUGGGAUUUUUCCAAAAUGUUGCACAAAGUUCACUUAAUUUGUGUGUGGCUCAUAAAUUCUUUACGAAAUAUUUUCGGUUUGCUUUAG
.(((((((((((.(((....))).....((..(((((((((.....))))).))))..))......))))))..((((.....)))).....))))). ( -20.80)
>DroSim_CAF1 91558 98 - 1
UUAGAGGCGAGUGGGAUUUUUCCAAAAUGUUGCACAAAGUUCACUUAAUUUGUGUGUGGCUCAUAAAUUCUUUACGAAAUAUUUUCGGUUUGCUUUUG
.(((((((((((((((....))).....((..(((((((((.....))))).))))..)).)))..........((((.....))))..))))))))) ( -22.50)
>DroEre_CAF1 100489 96 - 1
UUGGAGGCGAGUGGGAUUUUUCCAGAAUGUUGCACAAAGUUCACUUAAUUUGUGUGUGGCUCAUAAAUUCUUUACGAAAUAUUUUCGGUUUGCUUU--
...(((((((((((((....))).....((..(((((((((.....))))).))))..)).)))..........((((.....))))..)))))))-- ( -21.10)
>DroYak_CAF1 91448 98 - 1
UUAGAGGCGAGUGGGAUUUUUCCAAAUUGUUGCACAAAGUUCACUUAAUUUGUGUGCGGCUCAUAAAUUCUUUACGAAAUAUUUUCGGUUUGCUUUUG
.(((((((((((((((....))).....(((((((((((((.....))))).)))))))).)))..........((((.....))))..))))))))) ( -23.90)
>consensus
UUAGAGGCGAGUGGGAUUUUUCCAAAAUGUUGCACAAAGUUCACUUAAUUUGUGUGUGGCUCAUAAAUUCUUUACGAAAUAUUUUCGGUUUGCUUUUG
...(((((((((((((....))).....(((((((((((((.....))))).)))))))).)))..........((((.....))))..))))))).. (-19.54 = -19.58 +   0.04)

alignment

secondary structure

dotplot

Window 7

Location	9,310,688 – 9,310,784
Length	96
Sequences	5
Columns	96
Reading direction	reverse
Mean pairwise identity	97.92
Mean single sequence MFE	-20.52
Consensus MFE	-19.38
Energy contribution	-19.42
Covariance contribution	0.04
Combinations/Pair	1.04
Mean z-score	-1.28
Structure conservation index	0.94
SVM decision value	0.41
SVM RNA-class probability	0.724247
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9310688 96 - 22224390
UUAUUAGUUUAUUUGUUUCGGCUUUUAGAGGCGAGUGGGAUUUUUCCAAAAUGUUGCACAAAGUUCACUUAAUUUGUGUGUGGCUCAUAAAUUCUU
.........((((((((((........))))))))))(((....))).....((..(((((((((.....))))).))))..))............ ( -21.00)
>DroSec_CAF1 91603 96 - 1
UUAUUAGUUUAUUUGUUUCGGCUUUUAGAGGAGAGUGGGAUUUUUCCAAAAUGUUGCACAAAGUUCACUUAAUUUGUGUGUGGCUCAUAAAUUCUU
.....(((((((....(((.((((((....)))))).)))............((..(((((((((.....))))).))))..))..)))))))... ( -17.50)
>DroSim_CAF1 91584 96 - 1
UUAUUAGUUUAUUUGUUUCGGCUUUUAGAGGCGAGUGGGAUUUUUCCAAAAUGUUGCACAAAGUUCACUUAAUUUGUGUGUGGCUCAUAAAUUCUU
.........((((((((((........))))))))))(((....))).....((..(((((((((.....))))).))))..))............ ( -21.00)
>DroEre_CAF1 100513 96 - 1
UUAUUAGUUUAUUUGUUUCGGCUUUUGGAGGCGAGUGGGAUUUUUCCAGAAUGUUGCACAAAGUUCACUUAAUUUGUGUGUGGCUCAUAAAUUCUU
.........((((((((((........))))))))))(((....)))(((((((..(((((((((.....))))).))))..))......))))). ( -20.70)
>DroYak_CAF1 91474 96 - 1
UUAUUAGUUUAUUUGUUUCGGCUUUUAGAGGCGAGUGGGAUUUUUCCAAAUUGUUGCACAAAGUUCACUUAAUUUGUGUGCGGCUCAUAAAUUCUU
.........((((((((((........))))))))))(((....))).....(((((((((((((.....))))).))))))))............ ( -22.40)
>consensus
UUAUUAGUUUAUUUGUUUCGGCUUUUAGAGGCGAGUGGGAUUUUUCCAAAAUGUUGCACAAAGUUCACUUAAUUUGUGUGUGGCUCAUAAAUUCUU
.........((((((((((........))))))))))(((....))).....(((((((((((((.....))))).))))))))............ (-19.38 = -19.42 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:09 2006