Locus 2370

Sequence ID 2L_DroMel_CAF1
Location 6,414,155 – 6,414,304
Length 149
Max. P 0.963576
window3819 window3820

overview

Window 9

Location 6,414,155 – 6,414,264
Length 109
Sequences 3
Columns 115
Reading direction reverse
Mean pairwise identity 69.01
Mean single sequence MFE -26.96
Consensus MFE -15.82
Energy contribution -16.27
Covariance contribution 0.45
Combinations/Pair 1.07
Mean z-score -1.43
Structure conservation index 0.59
SVM decision value 0.43
SVM RNA-class probability 0.732557
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6414155 109 - 22407834
AGGAAAACU------GGUCAGCCAAAAUUAAUAAGACUCAGAUGGCCAGUAUUCCUGGCCAAUUAAAACGGAAACGGAUUUCAAUGUGUCUUUCAAAGACGUGCUCUUUACAGGA
.......((------(...(((..........(((((.((..(((((((.....))))))).......((....))........)).)))))..........))).....))).. ( -27.65)
>DroEre_CAF1 1265 97 - 1
AGCGA-------AAAAGUCAGGCAGUAAAAA-----------UGGCCAGUGUUCCUGGCCAGUUAAAACGGAAACGGGUUUCAAUGUAUCUGGCAACGAACUGCUCUCUACAGGA
.....-------...((...((((((.....-----------(((((((.....)))))))(((....((((.(((........))).))))..)))..))))))..))...... ( -25.90)
>DroYak_CAF1 972 115 - 1
AGCGAAACUCGAAAAAGGCAGACAGUAAAAAUAUGAUUUAGAUGGCCCGUGUUGCUGGCCAUUUGAAACGGCAACGGAUUUUAAUAAAUUCCUCAACGACCUGCUCUUCACAGGA
........(((....(((.......(((((......(((((((((((.(.....).))))))))))).((....))..))))).......)))...)))((((.......)))). ( -27.34)
>consensus
AGCGAAACU___AAAAGUCAGACAGUAAAAAUA_GA_U_AGAUGGCCAGUGUUCCUGGCCAAUUAAAACGGAAACGGAUUUCAAUGUAUCUCUCAACGACCUGCUCUUUACAGGA
...............((.(((.....................(((((((.....))))))).......((....))........................))))).......... (-15.82 = -16.27 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 6,414,190 – 6,414,304
Length 114
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 73.95
Mean single sequence MFE -25.86
Consensus MFE -16.26
Energy contribution -17.48
Covariance contribution 1.23
Combinations/Pair 1.10
Mean z-score -1.88
Structure conservation index 0.63
SVM decision value 1.55
SVM RNA-class probability 0.963576
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6414190 114 - 22407834
AUAGACUGGAACAUUAGUUUACAGAUAAAGUCUUUAAGAUAGGAAAACU------GGUCAGCCAAAAUUAAUAAGACUCAGAUGGCCAGUAUUCCUGGCCAAUUAAAACGGAAACGGAUU
.....(((((((....)))).)))....(((((((((..((((((.(((------(((((......................)))))))).)))))).....))))).((....)))))) ( -27.65)
>DroEre_CAF1 1300 102 - 1
AUAGACUGGAACUUUGGUUUACAGAUAAAGACUUUAAGAUAGCGA-------AAAAGUCAGGCAGUAAAAA-----------UGGCCAGUGUUCCUGGCCAGUUAAAACGGAAACGGGUU
....((((((((....)))).........((((((..........-------.))))))...)))).....-----------(((((((.....))))))).......((....)).... ( -25.70)
>DroYak_CAF1 1007 119 - 1
AUAAAAUGGAACAUUGGU-UACAGAUAAAGUCUUGAAGAUAGCGAAACUCGAAAAAGGCAGACAGUAAAAAUAUGAUUUAGAUGGCCCGUGUUGCUGGCCAUUUGAAACGGCAACGGAUU
......((.(((....))-).))......((((.(.......((.....)).......))))).............(((((((((((.(.....).))))))))))).((....)).... ( -24.24)
>consensus
AUAGACUGGAACAUUGGUUUACAGAUAAAGUCUUUAAGAUAGCGAAACU___AAAAGUCAGACAGUAAAAAUA_GA_U_AGAUGGCCAGUGUUCCUGGCCAAUUAAAACGGAAACGGAUU
.....(((((((....)))).))).....(((((....................))))).......................(((((((.....))))))).......((....)).... (-16.26 = -17.48 +   1.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:26 2006