Locus 3211

Sequence ID 3L_DroMel_CAF1
Location 9,366,339 – 9,366,436
Length 97
Max. P 0.641738
window5000 window5001

overview

Window 0

Location 9,366,339 – 9,366,436
Length 97
Sequences 3
Columns 97
Reading direction forward
Mean pairwise identity 79.93
Mean single sequence MFE -13.98
Consensus MFE -10.61
Energy contribution -10.39
Covariance contribution -0.22
Combinations/Pair 1.11
Mean z-score -1.45
Structure conservation index 0.76
SVM decision value 0.17
SVM RNA-class probability 0.615528
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9366339 97 + 23771897
AUUUCGCCACAGUGUGGGAUGGCUUCCCAUCAUCAAAACACCCUUCGCCGCUGCCCCCUGCCAAUCUGCACUAUCCCAAGUACUUUUCUUCCCUGUU
..........((((..((((((....)))))..................((........))....)..))))......................... ( -14.70)
>DroSec_CAF1 15998 85 + 1
AUUUCGCCUCAGUGUGGGAUGGCUCUUC----CCAAAACCCCCUUU--------UCCCAACCAAUCUGCACUAUUCCAAGUACCUUUGUACUCUGUU
..........((((..((.(((......----..............--------......))).))..))))....(((((((....))))).)).. ( -13.17)
>DroSim_CAF1 4441 85 + 1
AUUUCGCCUCAGUGUGGAAUGGCUCUUC----CCAAAACCCCCUUU--------UCCCAACCAAUCUGCACUAUUCCAAGUACCUUUGUACUCUGUU
..........((((..((.(((......----..............--------......))).))..))))....(((((((....))))).)).. ( -14.07)
>consensus
AUUUCGCCUCAGUGUGGGAUGGCUCUUC____CCAAAACCCCCUUU________UCCCAACCAAUCUGCACUAUUCCAAGUACCUUUGUACUCUGUU
..........((((..((.(((......................................))).))..))))......................... (-10.61 = -10.39 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 9,366,339 – 9,366,436
Length 97
Sequences 3
Columns 97
Reading direction reverse
Mean pairwise identity 79.93
Mean single sequence MFE -22.23
Consensus MFE -15.49
Energy contribution -15.17
Covariance contribution -0.33
Combinations/Pair 1.18
Mean z-score -1.61
Structure conservation index 0.70
SVM decision value 0.22
SVM RNA-class probability 0.641738
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9366339 97 - 23771897
AACAGGGAAGAAAAGUACUUGGGAUAGUGCAGAUUGGCAGGGGGCAGCGGCGAAGGGUGUUUUGAUGAUGGGAAGCCAUCCCACACUGUGGCGAAAU
..............(((((......)))))...(((.((.((...((((.(....).)))).....(((((....))))).....)).)).)))... ( -23.20)
>DroSec_CAF1 15998 85 - 1
AACAGAGUACAAAGGUACUUGGAAUAGUGCAGAUUGGUUGGGA--------AAAGGGGGUUUUGG----GAAGAGCCAUCCCACACUGAGGCGAAAU
....((((((....)))))).......(((...(..(((((((--------......((((((..----..)))))).))))).))..).))).... ( -23.20)
>DroSim_CAF1 4441 85 - 1
AACAGAGUACAAAGGUACUUGGAAUAGUGCAGAUUGGUUGGGA--------AAAGGGGGUUUUGG----GAAGAGCCAUUCCACACUGAGGCGAAAU
....((((((....)))))).......(((...(..(((((((--------......((((((..----..)))))).))))).))..).))).... ( -20.30)
>consensus
AACAGAGUACAAAGGUACUUGGAAUAGUGCAGAUUGGUUGGGA________AAAGGGGGUUUUGG____GAAGAGCCAUCCCACACUGAGGCGAAAU
..(((.........(((((......)))))........................(((((((((........))))))..)))...)))......... (-15.49 = -15.17 +  -0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:52:10 2006