Locus 6207

Sequence ID 2L_DroMel_CAF1
Location 17,295,750 – 17,295,925
Length 175
Max. P 0.610704
window9918 window9919

overview

Window 8

Location 17,295,750 – 17,295,861
Length 111
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 92.92
Mean single sequence MFE -29.08
Consensus MFE -24.26
Energy contribution -24.90
Covariance contribution 0.64
Combinations/Pair 1.04
Mean z-score -1.34
Structure conservation index 0.83
SVM decision value 0.16
SVM RNA-class probability 0.610704
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17295750 111 + 22407834
UUUUGCGGCUAAAUACGGUUAUGGCUUAUGGGAUAUGGUCCACCCCAAAUAAUAACAAAUAUGGGGAUUUUACAACACCAACCCCGA-------UCCCCGCCGACGAGUCGUUUUUAA
.((((((((........(((((......((((...........))))....)))))......(((((((................))-------))))))))).)))).......... ( -25.69)
>DroSec_CAF1 146384 111 + 1
UUUUGCGGCUAAAUACGGUUAUGGCUUAUGGGCUAUGGUCCACCCCAAAUAAUAACAAAUAUGGGGAUUUUACAACACCAUCCCCGA-------UCCCCGCCGACGCGUCGUUUUUAA
....(((((......(((..((((....(((((....)))))(((((.((........)).)))))...........))))..))).-------.....((....)))))))...... ( -29.60)
>DroSim_CAF1 139823 111 + 1
UUUUGCGGCUAAAUACGGUUAUGGCUUAUGGGCUAUGGUCCACCCCAAAUAAUAACAAAUAUGGGGAUUUUACAACACCAUCCCCGA-------UCCCCGCCGACGCGUCGUUUUUAA
....(((((......(((..((((....(((((....)))))(((((.((........)).)))))...........))))..))).-------.....((....)))))))...... ( -29.60)
>DroEre_CAF1 133889 118 + 1
UUUUGCGGCUAAGUACGGUUAUGGCUUAUGGGCUAUGGUCCACCCCAAAUAAUAACAAAUAUGGGGAUUUUACAACACCAUCCCCGAUCCCCAAUCCCCACCAACGCGCCGGUUUUAA
.....((((...((..((((((((((....)))))))).))....................((((((((................))))))))..........))..))))....... ( -28.19)
>DroYak_CAF1 137027 118 + 1
UUUUGCGGCUAAAUACGGUUAUGGCUUAUGGGCUAUGGUCCACCCCAAAUAAUAACAAAUAUGGGGAUUUUACAGCACCAUCCCCGAUUCCCGAUCCCCGCCGACGCGUCGGUUUUAA
.....(((...(((.(((..((((....(((((....)))))(((((.((........)).)))))...........))))..)))))).)))......(((((....)))))..... ( -32.30)
>consensus
UUUUGCGGCUAAAUACGGUUAUGGCUUAUGGGCUAUGGUCCACCCCAAAUAAUAACAAAUAUGGGGAUUUUACAACACCAUCCCCGA_______UCCCCGCCGACGCGUCGUUUUUAA
.....((((......(((..((((....(((((....)))))(((((.((........)).)))))...........))))..))).............((....))))))....... (-24.26 = -24.90 +   0.64)

alignment

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secondary structure

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dotplot

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Window 9

Location 17,295,828 – 17,295,925
Length 97
Sequences 5
Columns 104
Reading direction reverse
Mean pairwise identity 92.15
Mean single sequence MFE -29.20
Consensus MFE -23.66
Energy contribution -23.38
Covariance contribution -0.28
Combinations/Pair 1.12
Mean z-score -1.35
Structure conservation index 0.81
SVM decision value 0.02
SVM RNA-class probability 0.542171
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17295828 97 - 22407834
AUAAUCCCCAGACGAAGUUUAAUCCCGAUUCACACACAAUGACAACGCACACUUGUCAGAAGCAUUAAAAACGACUCGUCGGCGGGGA-------UCGGGGUUG
...................((((((((((((.(.(....((((((.......)))))).............(((....)))).).)))-------))))))))) ( -24.00)
>DroSec_CAF1 146462 97 - 1
AUAAUCCCCAGACGAAGUUUAAUCCCGAUUCACACACAAUGACAACGCACACUUGUCAGGAGCAUUAAAAACGACGCGUCGGCGGGGA-------UCGGGGAUG
...((((((((((...)))).(((((.............((((((.......))))))................(((....)))))))-------).)))))). ( -25.50)
>DroSim_CAF1 139901 97 - 1
AUAAUCCCCAGACGAAGUUUAAUCCCGAUUCACACACAAUGACAACGCACACUUGUCAGGAGCAUUAAAAACGACGCGUCGGCGGGGA-------UCGGGGAUG
...((((((((((...)))).(((((.............((((((.......))))))................(((....)))))))-------).)))))). ( -25.50)
>DroEre_CAF1 133967 104 - 1
AUAAUCCCCAGACGAAGUUUAAUCCCGAUUCACACACAAUGACAACGCACACUUGUCAGGGGCAUUAAAACCGGCGCGUUGGUGGGGAUUGGGGAUCGGGGAUG
...((((((((((...))))..(((((((((.(((.(((((((((.......)))))..(.((..........)).)))))))).)))))))))...)))))). ( -34.50)
>DroYak_CAF1 137105 104 - 1
AUAAUCCCCAGACGAAGUUUAAUCCCGAUUCACACACAAUGACAACGCACACUUGUCAGGGGCAUUAAAACCGACGCGUCGGCGGGGAUCGGGAAUCGGGGAUG
...((((((((((...))))..(((((((((.....(..((((((.......))))))..).........((((....))))...)))))))))...)))))). ( -36.50)
>consensus
AUAAUCCCCAGACGAAGUUUAAUCCCGAUUCACACACAAUGACAACGCACACUUGUCAGGAGCAUUAAAAACGACGCGUCGGCGGGGA_______UCGGGGAUG
...((((((((((...))))..(((((............((((((.......)))))).............(((....))).)))))..........)))))). (-23.66 = -23.38 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:05:14 2006