Locus 6735

Sequence ID 2L_DroMel_CAF1
Location 18,827,025 – 18,827,247
Length 222
Max. P 0.817411
window10754 window10755

overview

Window 4

Location 18,827,025 – 18,827,136
Length 111
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 73.89
Mean single sequence MFE -33.76
Consensus MFE -16.16
Energy contribution -16.92
Covariance contribution 0.76
Combinations/Pair 1.17
Mean z-score -1.71
Structure conservation index 0.48
SVM decision value 0.00
SVM RNA-class probability 0.534039
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18827025 111 - 22407834
GGGCUAUCGAUACCGAUUUCCACAGGGUGACCACAUUGCCAUAACAAAAAAUUUAGGG------AAGCGAAUAUUCAAGU-ACGCGCCCUGCGUA-CAUA-UGUGCAGCCCUGAAUAAAG
.(((.((((....)))).......((....)).....)))..........((((((((------..(((.((((....((-((((.....)))))-))))-).)))..)))))))).... ( -34.20)
>DroSec_CAF1 95818 118 - 1
GGGCUAUCGAUACCGAUUUCCACAGGGUGACCACAUUGCUUCAACAAAAAUUUGAGGGUACACUAAGCGAAUGUUCAAGU-ACGCGCCCUGCGAA-CAUAGUGUGCAGCCCUGGGUAAAG
.((..((((....))))..)).((((((..........((((((.......))))))((((((((...((....))..((-.(((.....))).)-).)))))))).))))))....... ( -35.10)
>DroSim_CAF1 92053 118 - 1
GGGCUAUCGAUACCGAUUUCCACAGGGUGACCACAUUGCUUCAACAAAAAUUUGAGGGUACACUAAACGAAUGUUCAAGU-ACGCGCCCUGCGAA-CAUAGUGUGCAGCCCUGGGUAAAG
.((..((((....))))..)).((((((..........((((((.......))))))((((((((...((....))..((-.(((.....))).)-).)))))))).))))))....... ( -35.10)
>DroEre_CAF1 90862 119 - 1
GGGCUAUCGAUACCGGUAUGCACAGGGUGACCAAACUGCGUUAG-AGUAACAAGCGGUUACACUACGCGAAUGUUCAAGUUGCGCGCCUUGACUACAAUAGUGUGCAGCCCUGGAAAAAA
(((((((((....)))))((((((((....))....(((((.((-.(((((.....))))).)))))))..((((((((........)))))..)))....))))))))))......... ( -39.10)
>DroYak_CAF1 91680 97 - 1
G-CUUAUCGAUACCGAAAUGCACAGGGUGACCAGAUUUCGUUUG-AAC-----------ACAC----------UUCAAGUGGCGCCCGCUUCAUAAAAUAGUGUGCAGCCCUGGAAAAAU
(-(...(((....)))...)).((((((...(((((...)))))-..(-----------((((----------(..((((((...))))))........))))))..))))))....... ( -25.30)
>consensus
GGGCUAUCGAUACCGAUUUCCACAGGGUGACCACAUUGCGUUAACAAAAAUUUGAGGGUACACUAAGCGAAUGUUCAAGU_ACGCGCCCUGCGUA_CAUAGUGUGCAGCCCUGGAUAAAG
(((((((((....)))).......((....))...................................................((((.(((.......))).)))))))))......... (-16.16 = -16.92 +   0.76)

alignment

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secondary structure

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dotplot

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Window 5

Location 18,827,136 – 18,827,247
Length 111
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 89.73
Mean single sequence MFE -24.76
Consensus MFE -20.66
Energy contribution -21.26
Covariance contribution 0.60
Combinations/Pair 1.07
Mean z-score -1.59
Structure conservation index 0.83
SVM decision value 0.67
SVM RNA-class probability 0.817411
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18827136 111 + 22407834
GAUAGGUUCAGUCGUAUGAAGGCUUAAGCCUCCUAAUAUCGCCAACAAUCGCCAUUCAUUUUAACAUUUAGUUAAUUGCUCUUGAGCACUAGUUGUGGUAUUACCUGUUUU
((((((((((......))))(((....)))...(((((((((.(((..............(((((.....))))).((((....))))...)))))))))))))))))).. ( -25.70)
>DroSec_CAF1 95936 103 + 1
GAUAGGUUCAGCCGUAUAAAGGCUUAAGCCUCCUAAUAUCGCAAACAAUCGCCUUUCAUAUUAACAUU--------UGCUCUCGAGCACUAGUUGCGGUAUUACCUGUUUU
(((((((...((((((...((((....)))).(((.....((........))................--------((((....)))).))).))))))...))))))).. ( -24.30)
>DroSim_CAF1 92171 111 + 1
GAUAGGUUCAGUCGUAUAAAGGCUUAAGCCUCCUAAUAUCGCCAACAAUCGCCUUUCAUAUUAACAUUUAGUUAAUUGCUCUCGAGCACUAGUUGCGGUAUUACCUGUUUU
((((((.............((((....))))..(((((((((.(((.............((((((.....))))))((((....))))...)))))))))))))))))).. ( -27.60)
>DroEre_CAF1 90981 111 + 1
GAUAGGUUCAGUCGAAUAAAGGCUUAAGCCUCCUAAUAUCGCCAACAAUCGCAGUUCAUACUAACAUUUAGUUAAUUGCUCUCGAGCACUAGUUGUGGUAUUACCUGUUUU
((((((.............((((....))))..(((((((((.(((...............((((.....))))..((((....))))...)))))))))))))))))).. ( -24.30)
>DroYak_CAF1 91777 104 + 1
GAUAGGUUCAGUCGGAUAAAGGC-------UCCUAAUAUCGCCAACAAUCGCCUUUCAUACUAACAUUUAGUUAAUUGCUCUCGAGCAUUAGUUGUGGUAUUACCUGUUUU
((((((...((((.......)))-------)..(((((((((.(((...............((((.....))))..((((....))))...)))))))))))))))))).. ( -21.90)
>consensus
GAUAGGUUCAGUCGUAUAAAGGCUUAAGCCUCCUAAUAUCGCCAACAAUCGCCUUUCAUAUUAACAUUUAGUUAAUUGCUCUCGAGCACUAGUUGUGGUAUUACCUGUUUU
((((((...((((.......)))).........(((((((((.(((...............((((.....))))..((((....))))...)))))))))))))))))).. (-20.66 = -21.26 +   0.60)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:18:44 2006