Locus 5503

Sequence ID 2L_DroMel_CAF1
Location 15,747,433 – 15,747,578
Length 145
Max. P 0.936213
window8730 window8731

overview

Window 0

Location 15,747,433 – 15,747,538
Length 105
Sequences 3
Columns 109
Reading direction reverse
Mean pairwise identity 83.74
Mean single sequence MFE -26.65
Consensus MFE -17.29
Energy contribution -17.40
Covariance contribution 0.11
Combinations/Pair 1.05
Mean z-score -3.03
Structure conservation index 0.65
SVM decision value 1.25
SVM RNA-class probability 0.936213
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15747433 105 - 22407834
AAUGAGUCUAAAAUAUUAU-UUUGUAGUGCCCGGCGACUUUGGUAACUGGGCCAUAAGAAAUGCAUUGAAACAAAUUUUUUAGUAUUACAAAAUCUAGUAAUGAA---A
.............((((((-((((((((((((((..((....))..))))))..((((((((............))))))))..)))))))))..))))).....---. ( -21.70)
>DroSec_CAF1 66822 104 - 1
AAUGAGUCUAAAAAAACUU-UUUGUUGUGCCCGGCGACUUCGGUAGCUGGGCCAUAAGAAAUACAUUGUAACAAAU----UGGUAUUACAAAAUCUAUCAAUGUACAAC
.................((-(((((.(.(((((((.((....)).))))))))))))))).(((((((.......(----((......))).......))))))).... ( -28.64)
>DroSim_CAF1 60152 109 - 1
AAUGAGUCUAAAAAAAUUUUUUUGAUGUGCCCGGCGACUUCGGUAGCUGGGCCAUAAGAAAUACAUUACAAGAAAUUUUUUAGUAUUACAAAAUCUAUCUAUGUACAAC
..(((((((((((((.(((((.(((((((((((((.((....)).)))))))..........)))))).))))).)))))))).))).))................... ( -29.60)
>consensus
AAUGAGUCUAAAAAAAUUU_UUUGUUGUGCCCGGCGACUUCGGUAGCUGGGCCAUAAGAAAUACAUUGAAACAAAUUUUUUAGUAUUACAAAAUCUAUCAAUGUACAAC
....................((((..(.(((((((.((....)).))))))))......(((((..................))))).))))................. (-17.29 = -17.40 +   0.11)

alignment

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secondary structure

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dotplot

Postscript

Window 1

Location 15,747,459 – 15,747,578
Length 119
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 90.25
Mean single sequence MFE -30.50
Consensus MFE -25.20
Energy contribution -25.53
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.92
Structure conservation index 0.83
SVM decision value 0.05
SVM RNA-class probability 0.560329
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15747459 119 - 22407834
UUCGCCUUUUACUAAAGAUUUCCGUGGAGAGGAACACUCUAAUGAGUCUAAAAUAUUAU-UUUGUAGUGCCCGGCGACUUUGGUAACUGGGCCAUAAGAAAUGCAUUGAAACAAAUUUUU
...((((.(((((((((.((.(((.((((((.....)))).............((((((-...))))))))))).)))))))))))..))))............................ ( -26.10)
>DroSec_CAF1 66851 115 - 1
UUCGCCUUUUACUAAAGAUUUCCGUGGAGAGGAACACUCUAAUGAGUCUAAAAAAACUU-UUUGUUGUGCCCGGCGACUUCGGUAGCUGGGCCAUAAGAAAUACAUUGUAACAAAU----
........((((...((((((...(((((.......)))))..))))))........((-(((((.(.(((((((.((....)).))))))))))))))).......)))).....---- ( -31.20)
>DroSim_CAF1 60181 120 - 1
UUCGCCUUUUACUAAAGAUUUCCGUGGAGAGGAACACUCUAAUGAGUCUAAAAAAAUUUUUUUGAUGUGCCCGGCGACUUCGGUAGCUGGGCCAUAAGAAAUACAUUACAAGAAAUUUUU
...............((((((...(((((.......)))))..))))))..((((((((((((((((((((((((.((....)).)))))))..........)))))).))))))))))) ( -34.20)
>consensus
UUCGCCUUUUACUAAAGAUUUCCGUGGAGAGGAACACUCUAAUGAGUCUAAAAAAAUUU_UUUGUUGUGCCCGGCGACUUCGGUAGCUGGGCCAUAAGAAAUACAUUGAAACAAAUUUUU
(((............((((((...(((((.......)))))..)))))).................(.(((((((.((....)).))))))))....))).................... (-25.20 = -25.53 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:44 2006