Locus 6846

Sequence ID 2L_DroMel_CAF1
Location 19,151,801 – 19,152,036
Length 235
Max. P 0.969442
window10913 window10914

overview

Window 3

Location 19,151,801 – 19,151,921
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 80.47
Mean single sequence MFE -21.93
Consensus MFE -15.50
Energy contribution -16.17
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -1.61
Structure conservation index 0.71
SVM decision value 0.20
SVM RNA-class probability 0.629274
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19151801 120 - 22407834
AUAGAAUUGUACUAGCAGCAAAGAGCCAUUUUAAAGAGUUUUGUUUAACAAACAAUCAUGUGUGCGCACAUGUAAGUCAUAAAAACGUUGGACUUGCAGUAAAAUUUAUGCGCAAACUAU
...((.((((......(((((((..(.........)..)))))))......))))))..((.((((((..((((((((.(((.....)))))))))))..........)))))).))... ( -22.60)
>DroEre_CAF1 31100 98 - 1
--------------GCAGCAAAGAGCCAUUUUA--GAUUUUUGUUA----AACAAUCAU--AUGCGCACAUGUAAGUCAUUAAAACGGUGGACUUGCAGUAAAAUUUAUGCGCAAACUAA
--------------..((((((((..(......--).)))))))).----.........--.((((((..(((((((((((.....))).))))))))..........))))))...... ( -20.20)
>DroYak_CAF1 31250 98 - 1
--------------AGCGCAAAGAGCCAUUUUA--GAGUUUUGUUU----AACAAUAAU--AUGCGCACAUGUAAGUCAUUAAAACGUUGAACUUGCAGUAAAAUUUAUGCGCAAACUAA
--------------.(((((.((((((((.(((--..(((......----)))..))).--))).))((.(((((((((.........)).)))))))))....))).)))))....... ( -23.00)
>consensus
______________GCAGCAAAGAGCCAUUUUA__GAGUUUUGUUU____AACAAUCAU__AUGCGCACAUGUAAGUCAUUAAAACGUUGGACUUGCAGUAAAAUUUAUGCGCAAACUAA
................(((((((..(.........)..))))))).................((((((..((((((((............))))))))..........))))))...... (-15.50 = -16.17 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 19,151,921 – 19,152,036
Length 115
Sequences 3
Columns 115
Reading direction reverse
Mean pairwise identity 78.64
Mean single sequence MFE -21.33
Consensus MFE -14.99
Energy contribution -15.43
Covariance contribution 0.45
Combinations/Pair 1.06
Mean z-score -2.16
Structure conservation index 0.70
SVM decision value 1.64
SVM RNA-class probability 0.969442
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19151921 115 - 22407834
AAGCGUUGAAAUACAUAUAUUUUUGCUACGACCAGAAAUACAGUCAAGCCUCGCAAAAAAUGCUAUUCAUCUGCCACAAGGCGCAUUUGACAACGAACCACGGAACCAUUCAAAC
.....(((((.......((((((((.......))))))))..(((((((...(((.....))).........(((....)))))..))))).................))))).. ( -18.20)
>DroEre_CAF1 31198 93 - 1
AAGCGUUGAAAU----GUAUUUUUGCUACGACCUGAAAUACAGUCAAACCUCGCAA--AAUCGUAUUCAUCUGCCACAAGGCACAUUUGCCAACGAAAU----------------
..(((((((..(----(((((((...........)))))))).))))....)))..--..((((...((..((((....))))....))...))))...---------------- ( -17.80)
>DroYak_CAF1 31348 92 - 1
AAGCGUUGAAAU----GUAUUUUUGCUACGAGCAGAAAUACAGUCAAACCUCGCAA---AUGGUAUUCAUCUGCCACAAGGCACAUUUACCAACGAACA----------------
..(((((((..(----((((((((((.....))))))))))).))))....)))..---.(((((...((.((((....)))).)).))))).......---------------- ( -28.00)
>consensus
AAGCGUUGAAAU____GUAUUUUUGCUACGACCAGAAAUACAGUCAAACCUCGCAA__AAUGGUAUUCAUCUGCCACAAGGCACAUUUGCCAACGAACA________________
...(((((........(((((((((.......)))))))))..............................((((....)))).......))))).................... (-14.99 = -15.43 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:21:09 2006