Locus 6525

Sequence ID 2R_DroMel_CAF1
Location 20,390,655 – 20,390,803
Length 148
Max. P 0.500000
window10384 window10385

overview

Window 4

Location 20,390,655 – 20,390,763
Length 108
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 73.72
Mean single sequence MFE -22.87
Consensus MFE -14.65
Energy contribution -14.82
Covariance contribution 0.17
Combinations/Pair 1.20
Mean z-score -1.08
Structure conservation index 0.64
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20390655 108 + 20766785
AUCUACAGCCGUUCCCCA------------UAGAUAACGAUUAUCGAGCGCCAGGUAUUCGACUUCCUCGGCUACAUGUGGGCGCCUAUCCUAGUGAACUUUUUCCACAUUUUGUUCAUC
..................------------..((((.((.....)).(((((..(((..(((.....)))..))).....))))).))))...((((((..............)))))). ( -20.94)
>DroVir_CAF1 185 103 + 1
UUUACCAA-----------------AUCGACAGAUAACGAUUAUCGAACGCCAGGUAUUCGAUUUUCUCGGAUACAUGUGGGCGCCCAUAUUGGUCAACUUCUUUCAAAUACUGUUUAUC
........-----------------...(((((....((.....))...(((((((((((((.....)))))))).(((((....))))))))))................))))).... ( -23.60)
>DroEre_CAF1 152 108 + 1
AUGUACAACUGCUGCCCC------------UAGAUAACGAUUAUCGAGCGCCAGGUAUUCGACUUCCUCGGAUAUAUGUGGGCGCCCAUCUUAGUGAACUUUUUCCACAUUCUGUUCAUC
..................------------..((((.....))))(.(((((..((((((((.....)))))))).....))))).)......((((((..............)))))). ( -23.44)
>DroYak_CAF1 1 87 + 1
---------------------------------AUAACGAUUAUCGAGCGUCAGGUAUUCGACUUCCUCGGAUACAUGUGGGCGCCCAUCCUAGUGAACUUUUUCCACAUUCUGUUCAUC
---------------------------------............(.(((((..((((((((.....)))))))).....))))).)......((((((..............)))))). ( -20.84)
>DroMoj_CAF1 193 106 + 1
AUUGCCAA--------------ACAAUCGACAGAUAACGAUUAUCGAACGCCAGGUAUUCGACUUUCUCGGAUAUAUGUGGGCGCCCAUAUUGGUCAACUUUUUUCAAAUAUUAUUCAUC
.(((((((--------------..(((((........)))))...(..((((..((((((((.....)))))))).....))))..)...)))).)))...................... ( -22.00)
>DroPer_CAF1 125 120 + 1
AUCGAUUGCAUUUCCCCAUUUCACAAUGUAUAGAUAACGAUUCUCGAACGCCAGGUAUUCGACUUUCUCGGAUACAUGUGGGCCCCCAUCCUGGUGAAUUUCUUCCACAUUCUAUUUAUC
(((...((((((............))))))..)))..((.....))..((((((((((((((.....))))))))..((((....)))).))))))........................ ( -26.40)
>consensus
AUCGACAA______________________UAGAUAACGAUUAUCGAACGCCAGGUAUUCGACUUCCUCGGAUACAUGUGGGCGCCCAUCCUAGUGAACUUUUUCCACAUUCUGUUCAUC
.....................................((.....))..((((..((((((((.....)))))))).....)))).........((((((..............)))))). (-14.65 = -14.82 +   0.17)

alignment

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secondary structure

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dotplot

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Window 5

Location 20,390,683 – 20,390,803
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 85.83
Mean single sequence MFE -29.80
Consensus MFE -22.60
Energy contribution -22.32
Covariance contribution -0.28
Combinations/Pair 1.22
Mean z-score -1.98
Structure conservation index 0.76
SVM decision value -0.08
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20390683 120 + 20766785
UUAUCGAGCGCCAGGUAUUCGACUUCCUCGGCUACAUGUGGGCGCCUAUCCUAGUGAACUUUUUCCACAUUUUGUUCAUCAUAUUCGGGUUUUACGGCGCCUACCACUUUCGCGUUAAAU
......(((((...(((..(((.....)))..)))..(((((((((.((((..((((((..............)))))).......)))).....))))))))).......))))).... ( -33.14)
>DroVir_CAF1 208 120 + 1
UUAUCGAACGCCAGGUAUUCGAUUUUCUCGGAUACAUGUGGGCGCCCAUAUUGGUCAACUUCUUUCAAAUACUGUUUAUCAUAUUCGGCUUCUAUGGCGCAUAUCAUUUUAGAAUCAAAU
........((((..((((((((.....))))))))..(((((.(((.....((((.(((..............))).)))).....))).)))))))))..................... ( -26.74)
>DroPse_CAF1 166 120 + 1
UUCUCGAACGCCAGGUAUUCGACUUUCUCGGAUACAUGUGGGCCCCCAUCCUGGUGAAUUUCUUCCACAUUCUAUUUAUCAUAUUCGGAUUCUAUGGCGCAUAUCACUUUCGCGUUAAAU
......(((((...((((((((.....))))))))(((((.(((...((((((((((((..............)))))))).....)))).....))).))))).......))))).... ( -29.94)
>DroEre_CAF1 180 120 + 1
UUAUCGAGCGCCAGGUAUUCGACUUCCUCGGAUAUAUGUGGGCGCCCAUCUUAGUGAACUUUUUCCACAUUCUGUUCAUCAUAUUCGGGUUUUACGGCGCCUACCACUUUCGCGUUAAAU
......(((((...((((((((.....))))))))..(((((((((.......((((((..............))))))........(......)))))))))).......))))).... ( -33.74)
>DroMoj_CAF1 219 120 + 1
UUAUCGAACGCCAGGUAUUCGACUUUCUCGGAUAUAUGUGGGCGCCCAUAUUGGUCAACUUUUUUCAAAUAUUAUUCAUCAUAUUUGGCUUCUACGGUGCAUAUCAUUUUAGAAUCAAGU
.....((..(((((((((.(((.....)))(((..((((((....))))))..)))........................)))))))))(((((..(((.....)))..))))))).... ( -25.30)
>DroPer_CAF1 165 120 + 1
UUCUCGAACGCCAGGUAUUCGACUUUCUCGGAUACAUGUGGGCCCCCAUCCUGGUGAAUUUCUUCCACAUUCUAUUUAUCAUAUUCGGAUUCUAUGGCGCAUAUCACUUUCGCGUUAAAU
......(((((...((((((((.....))))))))(((((.(((...((((((((((((..............)))))))).....)))).....))).))))).......))))).... ( -29.94)
>consensus
UUAUCGAACGCCAGGUAUUCGACUUUCUCGGAUACAUGUGGGCGCCCAUCCUGGUGAACUUCUUCCACAUUCUAUUCAUCAUAUUCGGAUUCUACGGCGCAUAUCACUUUCGCGUUAAAU
........((((..((((((((.....))))))))..(((((..((.....((((((((..............)))))))).....))..)))))))))..................... (-22.60 = -22.32 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:12:52 2006