Locus 6319

Sequence ID 2L_DroMel_CAF1
Location 17,617,260 – 17,617,356
Length 96
Max. P 0.877803
window10101 window10102

overview

Window 1

Location 17,617,260 – 17,617,356
Length 96
Sequences 4
Columns 98
Reading direction forward
Mean pairwise identity 82.97
Mean single sequence MFE -20.66
Consensus MFE -12.64
Energy contribution -12.70
Covariance contribution 0.06
Combinations/Pair 1.06
Mean z-score -1.75
Structure conservation index 0.61
SVM decision value -0.05
SVM RNA-class probability 0.507746
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17617260 96 + 22407834
AGUGAAAGAGCUGGGAGAACUCUUAAAAUUACUAACAGCUAACUAACAGUUAAAAG--AAAGAGAAUCGUGGCUAACAGAGCAUGCUCUUUGGGAAUU
.((.....(((((..((..............))..))))).....)).........--((((((...((((.((.....))))))))))))....... ( -16.74)
>DroSim_CAF1 2837 88 + 1
AGUGAAAGAGCUGGGAGAGCUCUUAAAAUAGCUAACAGCU--------GUUAAAAG--AAAGAGAAUCGUGGCUAACAGAGCAUGCUCUUUGGGAAUU
..........((.(((((((((((..((((((.....)))--------)))..)))--)............(((.....)))..))))))).)).... ( -22.30)
>DroEre_CAF1 1089 90 + 1
AGUGAAAGAGCAGGAACAGCUCUUAAAACAGCUAACAGCG--------CUUAAGAGAGAGAGAGAAUCCUGGCCAACAGAGCAGGCUCUUUGGGAAAU
..........(((((....(((((......((.....)).--------(((....))).)))))..))))).((((.((((....))))))))..... ( -21.90)
>DroYak_CAF1 12599 88 + 1
AGUGAAAGAGCAGCAAACGCUCUUAAAAUAGCUAACAGCG--------CUAAAAAG--UAAGAGAAUCGUGGCUAACAGAGCAGGCUCUUUGGGAAAU
..(.(((((((..((....((((((...((((.......)--------))).....--)))))).....))(((.....)))..))))))).)..... ( -21.70)
>consensus
AGUGAAAGAGCAGGAAGAGCUCUUAAAAUAGCUAACAGCG________CUUAAAAG__AAAGAGAAUCGUGGCUAACAGAGCAGGCUCUUUGGGAAAU
..(.(((((((........(((((...................................))))).......(((.....)))..))))))).)..... (-12.64 = -12.70 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 17,617,260 – 17,617,356
Length 96
Sequences 4
Columns 98
Reading direction reverse
Mean pairwise identity 82.97
Mean single sequence MFE -18.59
Consensus MFE -14.02
Energy contribution -13.65
Covariance contribution -0.37
Combinations/Pair 1.12
Mean z-score -1.98
Structure conservation index 0.75
SVM decision value 0.90
SVM RNA-class probability 0.877803
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17617260 96 - 22407834
AAUUCCCAAAGAGCAUGCUCUGUUAGCCACGAUUCUCUUU--CUUUUAACUGUUAGUUAGCUGUUAGUAAUUUUAAGAGUUCUCCCAGCUCUUUCACU
.......(((((((..(((.....)))...((..(((((.--...(((.(((.(((....))).))))))....))))).)).....))))))).... ( -18.50)
>DroSim_CAF1 2837 88 - 1
AAUUCCCAAAGAGCAUGCUCUGUUAGCCACGAUUCUCUUU--CUUUUAAC--------AGCUGUUAGCUAUUUUAAGAGCUCUCCCAGCUCUUUCACU
.......(((((((..(((((..((((...((.......)--)...((((--------....)))))))).....))))).......))))))).... ( -17.60)
>DroEre_CAF1 1089 90 - 1
AUUUCCCAAAGAGCCUGCUCUGUUGGCCAGGAUUCUCUCUCUCUCUUAAG--------CGCUGUUAGCUGUUUUAAGAGCUGUUCCUGCUCUUUCACU
.....((((((((....)))).)))).(((((....((((........((--------(.......)))......))))....))))).......... ( -20.04)
>DroYak_CAF1 12599 88 - 1
AUUUCCCAAAGAGCCUGCUCUGUUAGCCACGAUUCUCUUA--CUUUUUAG--------CGCUGUUAGCUAUUUUAAGAGCGUUUGCUGCUCUUUCACU
.......(((((((..((...((.....))(((.((((((--.....(((--------(.......))))...)))))).))).)).))))))).... ( -18.20)
>consensus
AAUUCCCAAAGAGCAUGCUCUGUUAGCCACGAUUCUCUUU__CUUUUAAC________AGCUGUUAGCUAUUUUAAGAGCUCUCCCAGCUCUUUCACU
.......(((((((..(((.....)))................................(((.((((.....)))).))).......))))))).... (-14.02 = -13.65 +  -0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:08:13 2006