Locus 2553

Sequence ID	2R_DroMel_CAF1
Location	9,071,355 – 9,071,515
Length	160
Max. P	0.942519

overview

Window 9

Location	9,071,355 – 9,071,475
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	96.67
Mean single sequence MFE	-31.99
Consensus MFE	-29.60
Energy contribution	-30.40
Covariance contribution	0.80
Combinations/Pair	1.00
Mean z-score	-1.51
Structure conservation index	0.93
SVM decision value	1.33
SVM RNA-class probability	0.942519
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9071355 120 - 20766785
AACCUUAAAGUGGAACACUCGAUGGCCACGCGUAUGGUACAAAUUGUGGCCAUCAAAUCCAGUCACAGAUCUCUUAGAAACUAGGAGGAAUUCUAAAUUCGCAAGCUUUGCCCGAAGGAU
..((((...(..((.(....((((((((((..............))))))))))............(((((((((((...))))))))...)))..........).))..)...)))).. ( -31.54)
>DroSec_CAF1 36422 120 - 1
AACCUUAAAGUGGAACACUCGAUGGCCACGCGUGUGGUACAAAUUGUGGCCAUCAAAUCCAGUCACAGAUCUCUUAGAAACUAGGAGGAAUUCUAAAUUCGCAAGCUUUGCCCGAAGGAU
..((((...(..((.(....((((((((((..((.....))...))))))))))............(((((((((((...))))))))...)))..........).))..)...)))).. ( -34.00)
>DroSim_CAF1 38082 120 - 1
AACCUUAAAGUGGAACACUCGAUGGCCACGCGUGUGGUACAAAUUGUGGCCAUCAAAUCCAGUCACAGAUCUCUUAGAAACUAGGAGGAAUUCUAAAUUCGCAAGCUUUGCCCGAAGGAU
..((((...(..((.(....((((((((((..((.....))...))))))))))............(((((((((((...))))))))...)))..........).))..)...)))).. ( -34.00)
>DroEre_CAF1 42026 120 - 1
AACCUUAUAUUGGAACACUCGAUGGCAACGCGUGUGGUACAAAUUGUGGCCAUCAAAUCCAGUCACAGAUCUCUUAAAAACUAGGAGGAAUUCUAAAUUCGCAAGCUCUGCCCGAAGGAU
..((((..(((((.....)))))((((..((.(((((......(((((((...........))))))).(((((((.....)))))))..........))))).))..))))..)))).. ( -29.20)
>DroYak_CAF1 38478 120 - 1
AACCUUAUAUUGGAACACUCGAUGGCAACGCGUGUGGUACAAAUUGUGGCCAUCAAAUCCAGUCACAGAUCUCUUAGAAACUAGGAGGAAUUCUAAAUUCGCAAGCUCUGCCCGAAGGUC
.(((((..(((((.....)))))((((..((.(((((......(((((((...........))))))).((((((((...))))))))..........))))).))..))))..))))). ( -31.20)
>consensus
AACCUUAAAGUGGAACACUCGAUGGCCACGCGUGUGGUACAAAUUGUGGCCAUCAAAUCCAGUCACAGAUCUCUUAGAAACUAGGAGGAAUUCUAAAUUCGCAAGCUUUGCCCGAAGGAU
..((((....(((((.....((((((((((..((.....))...))))))))))...............((((((((...))))))))..))))).....(((.....)))...)))).. (-29.60 = -30.40 +   0.80)

alignment

secondary structure

dotplot

Window 0

Location	9,071,395 – 9,071,515
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	97.50
Mean single sequence MFE	-27.66
Consensus MFE	-27.26
Energy contribution	-27.50
Covariance contribution	0.24
Combinations/Pair	1.03
Mean z-score	-1.27
Structure conservation index	0.99
SVM decision value	0.75
SVM RNA-class probability	0.840762
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9071395 120 + 20766785
UUUCUAAGAGAUCUGUGACUGGAUUUGAUGGCCACAAUUUGUACCAUACGCGUGGCCAUCGAGUGUUCCACUUUAAGGUUUAAUUACGAUAAUAAAACAUGUUUUAGUUUGUUGAAAUAU
........((((((.....((((((((((((((((....((((...)))).))))))))))))...)))).....)))))).....(((((((((((....)))))..))))))...... ( -29.90)
>DroSec_CAF1 36462 120 + 1
UUUCUAAGAGAUCUGUGACUGGAUUUGAUGGCCACAAUUUGUACCACACGCGUGGCCAUCGAGUGUUCCACUUUAAGGUUUAAUUACGAUAAUAAAACAUGUUUUAGUUUGUUGAAAUAU
........((((((.....((((((((((((((((....((.....))...))))))))))))...)))).....)))))).....(((((((((((....)))))..))))))...... ( -30.20)
>DroSim_CAF1 38122 120 + 1
UUUCUAAGAGAUCUGUGACUGGAUUUGAUGGCCACAAUUUGUACCACACGCGUGGCCAUCGAGUGUUCCACUUUAAGGUUUAAUUACGAUAAUAAAACAUGUUUUAGUUUGUUGAAAUAU
........((((((.....((((((((((((((((....((.....))...))))))))))))...)))).....)))))).....(((((((((((....)))))..))))))...... ( -30.20)
>DroEre_CAF1 42066 120 + 1
UUUUUAAGAGAUCUGUGACUGGAUUUGAUGGCCACAAUUUGUACCACACGCGUUGCCAUCGAGUGUUCCAAUAUAAGGUUUAAUUACGAUAAUAAAACAUGUUUUAGUUUGUUGAAAUAU
.((((((.(((.(((.((((((((((((((((.((....((.....))...)).)))))))))...)))).......((((.((((...)))).))))..))).)))))).))))))... ( -24.30)
>DroYak_CAF1 38518 120 + 1
UUUCUAAGAGAUCUGUGACUGGAUUUGAUGGCCACAAUUUGUACCACACGCGUUGCCAUCGAGUGUUCCAAUAUAAGGUUUAAUUACGAUAAUAAAACAUGUUUUAGUUUGUUGAUAUAU
........((((((.....(((((((((((((.((....((.....))...)).)))))))))...)))).....)))))).....(((((((((((....)))))..))))))...... ( -23.70)
>consensus
UUUCUAAGAGAUCUGUGACUGGAUUUGAUGGCCACAAUUUGUACCACACGCGUGGCCAUCGAGUGUUCCACUUUAAGGUUUAAUUACGAUAAUAAAACAUGUUUUAGUUUGUUGAAAUAU
........((((((.....((((((((((((((((....((.....))...))))))))))))...)))).....)))))).....(((((((((((....)))))..))))))...... (-27.26 = -27.50 +   0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:32:49 2006