Locus 1900

Sequence ID 2L_DroMel_CAF1
Location 5,205,950 – 5,206,051
Length 101
Max. P 0.949020
window3047 window3048

overview

Window 7

Location 5,205,950 – 5,206,051
Length 101
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 83.49
Mean single sequence MFE -38.57
Consensus MFE -29.38
Energy contribution -29.81
Covariance contribution 0.43
Combinations/Pair 1.35
Mean z-score -3.17
Structure conservation index 0.76
SVM decision value 1.09
SVM RNA-class probability 0.913063
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5205950 101 + 22407834
AGAGAGAUCCUGGGCAGCAGAAA-AUUGCGAUUAGCAUCCUGCCAAUUUCGUGGAACAUUUUCGCAGGAUAUGAUCUCAAGUUCCUGCUGCCAGCGAUGGGC
......(((((((.((((((.((-.(((.(((((..(((((((((......))(((....)))))))))).))))).))).)).)))))))))).))).... ( -36.40)
>DroSec_CAF1 83007 101 + 1
AGAGAGAUCCUGGGCAUCGGGAA-AUUGCGAUCAGCAUCCUGCCAAUUUCGUGGAACAUUUUCGCAGGAUAUGAUCUCAAGUUCCUGCUGCCAGCGAUGGGC
......(((((((.((.((((((-.(((.(((((..(((((((((......))(((....)))))))))).))))).))).)))))).)))))).))).... ( -38.10)
>DroSim_CAF1 56006 101 + 1
AGAGAGAUCCUGGGCAUCGGGAA-AUUGCGAUCAGCAUCCUGCCAAUUUCGUGGAACAUUUUCGCAGGAAAUGAUCUCAAGUUCCUGCUGCCAGCGAUGGGC
......(((((((.((.((((((-.(((.(((((...((((((((......))(((....)))))))))..))))).))).)))))).)))))).))).... ( -36.50)
>DroEre_CAF1 85186 102 + 1
AGAGAGCUCCUGGGCAGCACGAAAAUUGCGAUCAGUAUCCUGUGAAUUUCGUGGAACAUUUUUGCAGGAUAUGAUCUCAAGUUUCCGCUGCCUGCGAUGGCC
.....((((.((((((((..((((.(((.(((((.(((((((..((..............))..)))))))))))).))).)))).)))))))).))..)). ( -38.44)
>DroYak_CAF1 85053 101 + 1
AGAGAGAUCCUGGGCAGCACGAA-AUUGCGAUCAGUAUCCUGCGAAUUUCGUGGAACAUUUUUGCAGGACACAAUCUCAAGUUCCCGCUGCUGGCGAUGGUC
......(((.(.((((((..(((-.(((.(((..((.(((((((((..............))))))))).)).))).))).)))..)))))).).))).... ( -31.54)
>DroAna_CAF1 86149 99 + 1
AAAGAGAACUU--GCAGCAGGGG-AGUGUGUUCGGGGUCCUGCAAAUUUCGUGGAACAUUUUUGCAGGGCCAGAACACAAAUCCCUGCUGCCAUCAAAUGGC
...........--((((((((((-..(((((((..(((((((((((..............))))))))))).)))))))..))))))))))........... ( -50.44)
>consensus
AGAGAGAUCCUGGGCAGCAGGAA_AUUGCGAUCAGCAUCCUGCCAAUUUCGUGGAACAUUUUCGCAGGAUAUGAUCUCAAGUUCCUGCUGCCAGCGAUGGGC
............(((((((((((...((.(((((...((((((.((..............)).))))))..))))).))..))))))))))).......... (-29.38 = -29.81 +   0.43)

alignment

Postscript

secondary structure

Postscript

dotplot

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Window 8

Location 5,205,950 – 5,206,051
Length 101
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 83.49
Mean single sequence MFE -36.08
Consensus MFE -29.17
Energy contribution -29.68
Covariance contribution 0.51
Combinations/Pair 1.34
Mean z-score -3.24
Structure conservation index 0.81
SVM decision value 1.39
SVM RNA-class probability 0.949020
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5205950 101 - 22407834
GCCCAUCGCUGGCAGCAGGAACUUGAGAUCAUAUCCUGCGAAAAUGUUCCACGAAAUUGGCAGGAUGCUAAUCGCAAU-UUUCUGCUGCCCAGGAUCUCUCU
....(((.(((((((((((((.(((.(((..((((((((.((..((.....))...)).))))))))...))).))).-))))))))).)))))))...... ( -38.00)
>DroSec_CAF1 83007 101 - 1
GCCCAUCGCUGGCAGCAGGAACUUGAGAUCAUAUCCUGCGAAAAUGUUCCACGAAAUUGGCAGGAUGCUGAUCGCAAU-UUCCCGAUGCCCAGGAUCUCUCU
....(((.((((((.(.((((.(((.(((((((((((((.((..((.....))...)).)))))))).))))).))).-)))).).)).)))))))...... ( -35.50)
>DroSim_CAF1 56006 101 - 1
GCCCAUCGCUGGCAGCAGGAACUUGAGAUCAUUUCCUGCGAAAAUGUUCCACGAAAUUGGCAGGAUGCUGAUCGCAAU-UUCCCGAUGCCCAGGAUCUCUCU
....(((.((((((.(.((((.(((.(((((..((((((.((..((.....))...)).))))))...))))).))).-)))).).)).)))))))...... ( -32.80)
>DroEre_CAF1 85186 102 - 1
GGCCAUCGCAGGCAGCGGAAACUUGAGAUCAUAUCCUGCAAAAAUGUUCCACGAAAUUCACAGGAUACUGAUCGCAAUUUUCGUGCUGCCCAGGAGCUCUCU
(((..((...(((((((((((.(((.((((((((((((......................))))))).))))).))).)))).)))))))..)).))).... ( -33.45)
>DroYak_CAF1 85053 101 - 1
GACCAUCGCCAGCAGCGGGAACUUGAGAUUGUGUCCUGCAAAAAUGUUCCACGAAAUUCGCAGGAUACUGAUCGCAAU-UUCGUGCUGCCCAGGAUCUCUCU
........((.((((((.(((.(((.(((((((((((((....................))))))))).)))).))).-))).))))))...))........ ( -34.55)
>DroAna_CAF1 86149 99 - 1
GCCAUUUGAUGGCAGCAGGGAUUUGUGUUCUGGCCCUGCAAAAAUGUUCCACGAAAUUUGCAGGACCCCGAACACACU-CCCCUGCUGC--AAGUUCUCUUU
...........(((((((((...(((((((.((.((((((((..((.....))...))))))))..)).)))))))..-.)))))))))--........... ( -42.20)
>consensus
GCCCAUCGCUGGCAGCAGGAACUUGAGAUCAUAUCCUGCAAAAAUGUUCCACGAAAUUGGCAGGAUGCUGAUCGCAAU_UUCCUGCUGCCCAGGAUCUCUCU
.....((...(((((((((((..((.(((((((((((((.((..((.....))...)).)))))))).))))).))...)))))))))))..))........ (-29.17 = -29.68 +   0.51)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:14:03 2006