Locus 8465

Sequence ID	3L_DroMel_CAF1
Location	22,270,969 – 22,271,089
Length	120
Max. P	0.896784

overview

Window 6

Location	22,270,969 – 22,271,089
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	95.41
Mean single sequence MFE	-32.75
Consensus MFE	-27.23
Energy contribution	-27.10
Covariance contribution	-0.13
Combinations/Pair	1.06
Mean z-score	-2.40
Structure conservation index	0.83
SVM decision value	0.73
SVM RNA-class probability	0.834210
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22270969 120 + 23771897
AAACGUUAAAUGUAUAUACACUAUACGGGACGAGGGGGCCACUGCCGCACUGAAACGGGCCAAAAACCCAUUAUGAAUGAAUUUAGUAGCAGCAGCAGCAGUAGCGGCAAAAACCAAAAC
...((((...((((((.....)))))).)))).((..(((.((((.((((((((..(((.......))).(((....))).)))))).)).))))..((....))))).....))..... ( -31.30)
>DroSec_CAF1 29385 119 + 1
AAACGUUAAAUGUAUAUACACUAUACGGGACGAGGGGGCCACUGCCGCACUGAAAGGGGCCAAAAACCCAUUAUGAAUGAAUUUAGUAGCAGCAGC-GCCAUAGCGGCAAAAACCAAAAC
...((((...((((((.....)))))).)))).((..(((.((((.((((((((.(((........))).(((....))).)))))).)).)))).-((....))))).....))..... ( -32.40)
>DroSim_CAF1 20974 119 + 1
AAACGUUGAAUGUAUAUACACUAUACGGGACGAGGGGGCCACUGCCGCACUGAAAGGGGCCAAAAACCCAUUAUGAAUGAAUUUAGUAGCAGCAGC-GCCGUAGCGGCAAAAACCAAAAC
...((((...((((((.....)))))).)))).((..(((.((((.((((((((.(((........))).(((....))).)))))).((....))-)).)))).))).....))..... ( -31.40)
>DroEre_CAF1 28249 120 + 1
AAACGUUAAAUGUAUAUACACUAUACGGGACGAGUGGGCUGCUGCCGCACUGAAACGGUCCAAAAACCCAUUAUGAAUGAAUUUAGUAGCAGCAGCAGCAGUAGUGGCAAAAACCAAAAC
...((((...((((((.....)))))).))))..(((((((((((.((((((((..(((......)))(((.....)))..)))))).)).)))))))).((....)).....))).... ( -35.90)
>consensus
AAACGUUAAAUGUAUAUACACUAUACGGGACGAGGGGGCCACUGCCGCACUGAAACGGGCCAAAAACCCAUUAUGAAUGAAUUUAGUAGCAGCAGC_GCAGUAGCGGCAAAAACCAAAAC
...((((...((((((.....)))))).)))).((..(((.((((.((((((((..((........))(((.....)))..)))))).)).))))..((....))))).....))..... (-27.23 = -27.10 +  -0.13)

alignment

secondary structure

dotplot

Window 7

Location	22,270,969 – 22,271,089
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	95.41
Mean single sequence MFE	-33.84
Consensus MFE	-31.67
Energy contribution	-32.79
Covariance contribution	1.12
Combinations/Pair	1.11
Mean z-score	-1.90
Structure conservation index	0.94
SVM decision value	0.99
SVM RNA-class probability	0.896784
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22270969 120 - 23771897
GUUUUGGUUUUUGCCGCUACUGCUGCUGCUGCUACUAAAUUCAUUCAUAAUGGGUUUUUGGCCCGUUUCAGUGCGGCAGUGGCCCCCUCGUCCCGUAUAGUGUAUAUACAUUUAACGUUU
.....(((....)))(((((((((((.((((.................(((((((.....))))))).)))))))))))))))..........(((..(((((....)))))..)))... ( -36.77)
>DroSec_CAF1 29385 119 - 1
GUUUUGGUUUUUGCCGCUAUGGC-GCUGCUGCUACUAAAUUCAUUCAUAAUGGGUUUUUGGCCCCUUUCAGUGCGGCAGUGGCCCCCUCGUCCCGUAUAGUGUAUAUACAUUUAACGUUU
............((((((.(.((-((((..((((..((((((((.....)))))))).))))......)))))).).))))))..........(((..(((((....)))))..)))... ( -30.60)
>DroSim_CAF1 20974 119 - 1
GUUUUGGUUUUUGCCGCUACGGC-GCUGCUGCUACUAAAUUCAUUCAUAAUGGGUUUUUGGCCCCUUUCAGUGCGGCAGUGGCCCCCUCGUCCCGUAUAGUGUAUAUACAUUCAACGUUU
...((((.....((((((.(.((-((((..((((..((((((((.....)))))))).))))......)))))).).))))))...........(((((.....)))))..))))..... ( -31.60)
>DroEre_CAF1 28249 120 - 1
GUUUUGGUUUUUGCCACUACUGCUGCUGCUGCUACUAAAUUCAUUCAUAAUGGGUUUUUGGACCGUUUCAGUGCGGCAGCAGCCCACUCGUCCCGUAUAGUGUAUAUACAUUUAACGUUU
((..((((....))))..)).(((((((((((.(((((((.(((.....)))((((....)))))))).))))))))))))))..........(((..(((((....)))))..)))... ( -36.40)
>consensus
GUUUUGGUUUUUGCCGCUACGGC_GCUGCUGCUACUAAAUUCAUUCAUAAUGGGUUUUUGGCCCCUUUCAGUGCGGCAGUGGCCCCCUCGUCCCGUAUAGUGUAUAUACAUUUAACGUUU
((..((((....))))..))((((((((((((.(((............(((((((.....)))))))..))))))))))))))).........(((..(((((....)))))..)))... (-31.67 = -32.79 +   1.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:16:09 2006