Locus 8

Sequence ID 2R_DroMel_CAF1
Location 858,621 – 858,735
Length 114
Max. P 0.640161
window17 window18

overview

Window 7

Location 858,621 – 858,735
Length 114
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.24
Mean single sequence MFE -29.52
Consensus MFE -15.36
Energy contribution -17.12
Covariance contribution 1.75
Combinations/Pair 1.27
Mean z-score -2.40
Structure conservation index 0.52
SVM decision value 0.22
SVM RNA-class probability 0.640161
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 858621 114 + 20766785
CCGAA------AUAAAUGGAUUUAUAGAAGAGCUAAUUGCUCUUCCAAGUGGUUAUAAAGAAAAGGAAAAGCCGCAGACUGCGGAGGAAAUUCAUAAAGCUCUUCUGAAAUCUCAAAAAC
.....------.....(((((((.((((((((((...((.((((((..((((((...............)))))).(....)))))))....))...))))))))))))))).))..... ( -30.46)
>DroVir_CAF1 1270 120 + 1
CCGAGCCUGCAUUGGCGGGAUUUGUGGAAGAGCUUAUCGCACUUCCAAGUGGGUAUAGGGAGAAGGAAAAACCUCAGACGGCCGAGGAGAUUCAAAAGGCUGCGCUAAAGUCGCAAAAGC
.(((((((((....))))).))))((((((.((.....)).)))))).((((.(.(((.(.((.((.....))))...(((((...(.....)....)))))).))).).))))...... ( -35.30)
>DroSim_CAF1 8846 114 + 1
CUGAG------AUAAAUGGAUUUAUAGAAGAGCUAAUUGCUCUUCCAAGUGGUUAUAAAGAAAAGGAAAAGCCGCAGACUGCGGAGGAAAUUCAUAAAGCUCUGCUGAAAUCUCAAAAAC
.((((------((.............(((((((.....)))))))...((((((...............)))))).....((((((.............))))))....))))))..... ( -29.68)
>DroEre_CAF1 353 114 + 1
CGGAG------AUAAAUGGCUUUUUAGAAGAGCUAAUUGCUCUUCCAAGUGGUUAUAAAGAAAAGGAAAAGCCGCAGACUGCAGAGGAAAUUCAUAAGGCUCUUCUAAAAUCUCAAAAAC
..(((------((..((((((.(((.(((((((.....))))))).))).))))))........((((.((((((.....)).(((....)))....)))).))))...)))))...... ( -33.80)
>DroYak_CAF1 40404 114 + 1
CGGAG------AUAAAUGGCUUUUUAGAAGAGCUAAUUGCUCUUCCAAGUGGUUAUAAAGAAAAGGAAAAGCCGCAGACUGCGGAGGAAAUUCAUAAAGCUCUUUUGAAAUCUCAAAAAC
..(((------((..((((((.(((.(((((((.....))))))).))).)))))).....((((((....((((.....))))..(.....).......))))))...)))))...... ( -29.70)
>DroPer_CAF1 373 120 + 1
CUGAUACUAAUAUGAUUGGAUUUGUUGAAGAACUGAUUGCACUACCCAGUGGAUAUAAGGAAAAGGAAAAACCUCAAACUGCGGAAGAAAUCCAAAAAGCAGCUUUAAAGUCGCAAAAAC
...............((((((((.((((....((...(.((((....)))).)....)).....((.....))))))....(....)))))))))...((.(((....))).))...... ( -18.20)
>consensus
CCGAG______AUAAAUGGAUUUAUAGAAGAGCUAAUUGCUCUUCCAAGUGGUUAUAAAGAAAAGGAAAAGCCGCAGACUGCGGAGGAAAUUCAUAAAGCUCUUCUAAAAUCUCAAAAAC
................(((((((.((((((((((((((((........))))))..........(((....((((.....))))......)))....))))))))))))))).))..... (-15.36 = -17.12 +   1.75)

alignment

Postscript

secondary structure

Postscript

dotplot

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Window 8

Location 858,621 – 858,735
Length 114
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.24
Mean single sequence MFE -27.48
Consensus MFE -14.74
Energy contribution -16.55
Covariance contribution 1.81
Combinations/Pair 1.21
Mean z-score -2.26
Structure conservation index 0.54
SVM decision value 0.16
SVM RNA-class probability 0.613110
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 858621 114 - 20766785
GUUUUUGAGAUUUCAGAAGAGCUUUAUGAAUUUCCUCCGCAGUCUGCGGCUUUUCCUUUUCUUUAUAACCACUUGGAAGAGCAAUUAGCUCUUCUAUAAAUCCAUUUAU------UUCGG
.....((.(((((.(((((((((..............(((.....)))((((((((..................))))))))....)))))))))..))))))).....------..... ( -30.37)
>DroVir_CAF1 1270 120 - 1
GCUUUUGCGACUUUAGCGCAGCCUUUUGAAUCUCCUCGGCCGUCUGAGGUUUUUCCUUCUCCCUAUACCCACUUGGAAGUGCGAUAAGCUCUUCCACAAAUCCCGCCAAUGCAGGCUCGG
((....))........((.(((((...(((...((((((....))))))...)))..................((((((.((.....)).))))))........((....))))))))). ( -30.70)
>DroSim_CAF1 8846 114 - 1
GUUUUUGAGAUUUCAGCAGAGCUUUAUGAAUUUCCUCCGCAGUCUGCGGCUUUUCCUUUUCUUUAUAACCACUUGGAAGAGCAAUUAGCUCUUCUAUAAAUCCAUUUAU------CUCAG
.....(((((....((.((((((..............(((.....)))((((((((..................))))))))....)))))).)).((((....)))))------)))). ( -26.47)
>DroEre_CAF1 353 114 - 1
GUUUUUGAGAUUUUAGAAGAGCCUUAUGAAUUUCCUCUGCAGUCUGCGGCUUUUCCUUUUCUUUAUAACCACUUGGAAGAGCAAUUAGCUCUUCUAAAAAGCCAUUUAU------CUCCG
......((((((((((((((((...............(((.....)))((((((((..................)))))))).....))))))))))).........))------))).. ( -29.87)
>DroYak_CAF1 40404 114 - 1
GUUUUUGAGAUUUCAAAAGAGCUUUAUGAAUUUCCUCCGCAGUCUGCGGCUUUUCCUUUUCUUUAUAACCACUUGGAAGAGCAAUUAGCUCUUCUAAAAAGCCAUUUAU------CUCCG
......(((((....(((..(((((...........((((.....)))).......................((((((((((.....)))))))))))))))..)))))------))).. ( -27.90)
>DroPer_CAF1 373 120 - 1
GUUUUUGCGACUUUAAAGCUGCUUUUUGGAUUUCUUCCGCAGUUUGAGGUUUUUCCUUUUCCUUAUAUCCACUGGGUAGUGCAAUCAGUUCUUCAACAAAUCCAAUCAUAUUAGUAUCAG
....(((((((((((((.((((.....(((.....))))))))))))))))..............(((((...)))))..)))).................................... ( -19.60)
>consensus
GUUUUUGAGAUUUCAGAAGAGCUUUAUGAAUUUCCUCCGCAGUCUGCGGCUUUUCCUUUUCUUUAUAACCACUUGGAAGAGCAAUUAGCUCUUCUAAAAAUCCAUUUAU______CUCAG
..............((((((((...............(((.....)))((((((((..................)))))))).....))))))))......................... (-14.74 = -16.55 +   1.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:23:16 2006