Locus 9733

Sequence ID	3R_DroMel_CAF1
Location	25,750,198 – 25,750,329
Length	131
Max. P	0.585522

overview

Window 9

Location	25,750,198 – 25,750,316
Length	118
Sequences	4
Columns	118
Reading direction	forward
Mean pairwise identity	86.72
Mean single sequence MFE	-48.75
Consensus MFE	-36.19
Energy contribution	-36.25
Covariance contribution	0.06
Combinations/Pair	1.15
Mean z-score	-1.50
Structure conservation index	0.74
SVM decision value	0.10
SVM RNA-class probability	0.585522
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25750198 118 + 27905053
GGUGAUGCGACCCUGAAUGUCCUUGAUGGGCGUCGGGGUCAGCUUCUGGGCGGGAGCGGGCACAGCAGUAGCUGCGGCCACGGCCAAGGCCAGGAAUACGAACAGUUUCAUCUUGGUC
(((.....((((((((.(((((.....))))))))))))).((((((....))))))((.(.((((....)))).).))...)))..((((((((..((.....))....)))))))) ( -53.90)
>DroPse_CAF1 16494 118 + 1
GGUGAUUCUACCCUGAAUGUCCUUUACAGGUGUAGGGGUCUGCUUCUGCAGGGGAGUGGGGACAGCGCUAGCUGCGGCCACAGCCAAUGCCAGGAAUACGAACAGUUUCAUCUUGAGC
(((.......(((.......(((((((....))))))).((((....))))))).((((...((((....))))...)))).)))...(((((((..((.....))....))))).)) ( -37.40)
>DroEre_CAF1 15349 118 + 1
GGUGAUGCGACCCUGGAUGUCCUUGAUGGGCGUCGGGGUCAGCUUCUGGGCGGGAGCGGGCACAGCGGUGGCUGCGGCCACGGCCAAGGCCAGGAAUACGAACAGUUUCAUCUUGGUC
..((.((((((((((.((((((.....))))))))))))).((((((....))))))..)))))((.(((((....))))).))...((((((((..((.....))....)))))))) ( -56.10)
>DroPer_CAF1 19976 118 + 1
GGUGAUUCUACCCUGAAUGUCCUUGACAGGGACAGGGGUCUGCUUCUGCAGGGGAGUGGUAGCAGCGCUAGCUGCGGCCACAGCCAAUGCCAGGAAUACGAACAGUUUCAUCUUGAGC
(((..(((((((((...((((((.....)))))))))))((((....))))))))(((((.(((((....))))).))))).)))...(((((((..((.....))....))))).)) ( -47.60)
>consensus
GGUGAUGCGACCCUGAAUGUCCUUGACAGGCGUAGGGGUCAGCUUCUGCACGGGAGCGGGCACAGCGCUAGCUGCGGCCACAGCCAAGGCCAGGAAUACGAACAGUUUCAUCUUGAGC
(((((..(((((((((....(((....)))..)))))))).((((((....))))))((.(.((((....)))).(((....)))..).)).............)..)))))...... (-36.19 = -36.25 +   0.06)

alignment

secondary structure

dotplot

Window 0

Location	25,750,236 – 25,750,329
Length	93
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	75.42
Mean single sequence MFE	-36.45
Consensus MFE	-24.91
Energy contribution	-24.35
Covariance contribution	-0.56
Combinations/Pair	1.12
Mean z-score	-1.44
Structure conservation index	0.68
SVM decision value	-0.05
SVM RNA-class probability	0.509872
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25750236 93 + 27905053
UCAGCUUCUGGGCGGGAGCGGGCACAGCAGUAGCUGCGGCCACGGCCAAGGCCAGGAAUACGAACAGUUUCAUCUUGGUCAAGUCUUGCAACU---------------------------
...((((((....))))))((((.((((....)))).(((....)))..((((((((..((.....))....))))))))..)))).......--------------------------- ( -32.70)
>DroPse_CAF1 16532 120 + 1
UCUGCUUCUGCAGGGGAGUGGGGACAGCGCUAGCUGCGGCCACAGCCAAUGCCAGGAAUACGAACAGUUUCAUCUUGAGCAAGCUGUGAAACUCAUGCCUUUCCUUAAACUUUGCUACGU
.........((((((...((((((((((....)))).(((((((((...((((((((..((.....))....))))).))).))))))........)))..))))))..))))))..... ( -38.40)
>DroEre_CAF1 15387 93 + 1
UCAGCUUCUGGGCGGGAGCGGGCACAGCGGUGGCUGCGGCCACGGCCAAGGCCAGGAAUACGAACAGUUUCAUCUUGGUCAAGUCUUGAAACU---------------------------
(((((((((....))))))((((...((.(((((....))))).))...((((((((..((.....))....))))))))..)))))))....--------------------------- ( -36.40)
>DroPer_CAF1 20014 101 + 1
UCUGCUUCUGCAGGGGAGUGGUAGCAGCGCUAGCUGCGGCCACAGCCAAUGCCAGGAAUACGAACAGUUUCAUCUUGAGCAAGCUGUGAAACUCAUGCCUU-------------------
(((((....))))).(((((((.(((((....))))).)))(((((...((((((((..((.....))....))))).))).)))))...)))).......------------------- ( -38.30)
>consensus
UCAGCUUCUGCACGGGAGCGGGCACAGCGCUAGCUGCGGCCACAGCCAAGGCCAGGAAUACGAACAGUUUCAUCUUGAGCAAGCCGUGAAACU___________________________
...((((((....))))))((.(.((((....)))).(((....)))..).))............(((((((.(((....)))...)))))))........................... (-24.91 = -24.35 +  -0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:40:58 2006