Locus 4557

Sequence ID 2R_DroMel_CAF1
Location 14,901,451 – 14,901,607
Length 156
Max. P 0.930287
window7302 window7303

overview

Window 2

Location 14,901,451 – 14,901,567
Length 116
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 80.40
Mean single sequence MFE -38.03
Consensus MFE -26.42
Energy contribution -25.98
Covariance contribution -0.44
Combinations/Pair 1.26
Mean z-score -2.45
Structure conservation index 0.69
SVM decision value 1.20
SVM RNA-class probability 0.930287
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14901451 116 + 20766785
ACUCUCAGCCAACUAGUCCCUCCACCGGGGACGAUGGUCACAUGGUGGUCUCCAUAUUGGAGGUGCUUCGAGUGAUUUCAUCGAGGAGAAAAUCAUUCGAGCAUCCCAUUAUCUUU
.......((((....((((((.....))))))..))))...(((((((.((((.....))))(((((.((((((((((..((...))..))))))))))))))).))))))).... ( -41.40)
>DroPse_CAF1 83966 116 + 1
AUUCACAGCCGACAAGUCCCUCUGCUGGCGACGCAGGCCACAUGGUUGUCACGAUCCUUGAGGUCCUUCGAGUGAUCGCCACCACGAAGCAAACGUUCGAGCAUCCAAUCAUUUUU
.......(((((...((.(.((((.((((((((...(((....)))))))..((((((((((....)))))).)))))))).)).)).)...))..))).)).............. ( -29.80)
>DroSec_CAF1 73502 116 + 1
ACUCCCAGCCCACUAGUCCCUCCACCGGAGACGAUGGUCACAUGGUGGUCUCCAUAUUGGAGGUGCUCCGAGUGAUUUCAUCAACGAGAAAAUCAUUCGAGCACCCCAUUGUUUUC
......((.((((((......(((.((....)).))).....)))))).))..(((.(((.(((((((.(((((((((..((...))..))))))))))))))))))).))).... ( -44.30)
>DroSim_CAF1 75634 116 + 1
ACUCCCAGCCCACUAGUCCCUCCACCGGAGACGAUGGUCACAUGGUGGUCUCCAUAUUGGAGGUGCUCCGAGUGAUUUCAUCAUCGAGAAAAUCAUUCGAGCACCCCAUUGUUUUC
......((.((((((......(((.((....)).))).....)))))).))..(((.(((.(((((((.(((((((((..((...))..))))))))))))))))))).))).... ( -44.30)
>DroYak_CAF1 75415 116 + 1
ACUCCCAGCCCACCAGUCCCUCCACCGGCGACGAUGGUCAUAUGGUGGUCUCCAUUUUGGAGGUGCUGCGCGUGAUUUCAUCAUCGCGAGUACCAUUCGAGCACCCCAUUAUCUUU
.......((((((((......(((.((....)).))).....))))))........(((((((((((.((((((((...)))).)))))))))).))))))).............. ( -38.60)
>DroPer_CAF1 80964 116 + 1
AUUCACAGCCGACAAGUCCCUCUGCUGGCGACGCAGGCCACAUGGUUGUCACGAUCCUUGAGGUCCUUCGAGUGAUCGCCACCACGAAGCAAACGUUCGAGCAUCCAAUCAUUUUU
.......(((((...((.(.((((.((((((((...(((....)))))))..((((((((((....)))))).)))))))).)).)).)...))..))).)).............. ( -29.80)
>consensus
ACUCCCAGCCCACUAGUCCCUCCACCGGCGACGAUGGUCACAUGGUGGUCUCCAUAUUGGAGGUGCUUCGAGUGAUUUCAUCAACGAGAAAAUCAUUCGAGCACCCCAUUAUUUUU
.......(.((((((......(((.((....)).))).....)))))).).......(((.((((((.((((((...................)))))))))))))))........ (-26.42 = -25.98 +  -0.44)

alignment

Postscript

secondary structure

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dotplot

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Window 3

Location 14,901,491 – 14,901,607
Length 116
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 82.99
Mean single sequence MFE -36.03
Consensus MFE -22.99
Energy contribution -23.35
Covariance contribution 0.36
Combinations/Pair 1.17
Mean z-score -1.87
Structure conservation index 0.64
SVM decision value -0.05
SVM RNA-class probability 0.509152
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14901491 116 + 20766785
CAUGGUGGUCUCCAUAUUGGAGGUGCUUCGAGUGAUUUCAUCGAGGAGAAAAUCAUUCGAGCAUCCCAUUAUCUUUUUGAUCAACGGAUCCGAGGAAAAUUCGCUGCAGGCAUCUC
.((((......))))....(((((((((((((((((((..((...))..)))))))))))(((.(..(((.(((((..((((....)))).))))).)))..).))).)))))))) ( -35.60)
>DroSec_CAF1 73542 115 + 1
CAUGGUGGUCUCCAUAUUGGAGGUGCUCCGAGUGAUUUCAUCAACGAGAAAAUCAUUCGAGCACCCCAUUGUUUUCUUAAUCAAUGGAUCCGAG-AAAAUUCGCUGCAGGCAUCUC
.((((......)))).((((((((((((.(((((((((..((...))..))))))))))))))))((((((.((....)).)))))).))))).-.......((.....))..... ( -38.20)
>DroSim_CAF1 75674 116 + 1
CAUGGUGGUCUCCAUAUUGGAGGUGCUCCGAGUGAUUUCAUCAUCGAGAAAAUCAUUCGAGCACCCCAUUGUUUUCUUAAUCAAUGGAUCCGAGGAAAAUUCGCUGCAGGCAUCUC
...(((((..(((...((((((((((((.(((((((((..((...))..))))))))))))))))((((((.((....)).)))))).))))))))....)))))........... ( -39.10)
>DroEre_CAF1 74298 116 + 1
UAUGGUGGUCUCCAUAUUGGAGGUGCUGCGAGUGAUUUCGUCGUCGAGAAUUCCAUUCGAGCACCCCAUUAUCUUUCUGAUCAACGGAUCCGAGGAAAAUUCACUGCAGGCAUCGC
...(((((..((((((.(((.((((((.((((((.(((((....)))))....))))))))))))))).)))...((.((((....)))).)))))....)))))........... ( -37.00)
>DroYak_CAF1 75455 116 + 1
UAUGGUGGUCUCCAUUUUGGAGGUGCUGCGCGUGAUUUCAUCAUCGCGAGUACCAUUCGAGCACCCCAUUAUCUUUUUGAUCAACGGAUCCGAGGAGAACUCACUGCAGGCAUCUC
...((((.(((((.....)))((((((.((((((((...)))).))))))))))....)).))))......(((((((((((....))).)))))))).................. ( -36.70)
>DroPer_CAF1 81004 116 + 1
CAUGGUUGUCACGAUCCUUGAGGUCCUUCGAGUGAUCGCCACCACGAAGCAAACGUUCGAGCAUCCAAUCAUUUUUCUUAUUAACGGCUCCGAGGAGAACUCUUUGCAGGCCUCGC
.(((((((...(((((((((((....)))))).)))))......((((.......))))......))))))).............((((.((((((....))))))..)))).... ( -29.60)
>consensus
CAUGGUGGUCUCCAUAUUGGAGGUGCUCCGAGUGAUUUCAUCAACGAGAAAAUCAUUCGAGCACCCCAUUAUCUUUUUGAUCAACGGAUCCGAGGAAAAUUCGCUGCAGGCAUCUC
...(((.((((.((...(((.((((((.((((((..(((........)))...))))))))))))))).......................(((.....)))..)).))))))).. (-22.99 = -23.35 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:23:00 2006