Locus 6795

Sequence ID	X_DroMel_CAF1
Location	16,915,579 – 16,915,683
Length	104
Max. P	0.987955

overview

Window 8

Location	16,915,579 – 16,915,683
Length	104
Sequences	4
Columns	107
Reading direction	forward
Mean pairwise identity	86.38
Mean single sequence MFE	-39.52
Consensus MFE	-32.97
Energy contribution	-35.35
Covariance contribution	2.38
Combinations/Pair	1.12
Mean z-score	-2.70
Structure conservation index	0.83
SVM decision value	2.10
SVM RNA-class probability	0.987955
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16915579 104 + 22224390
UUCAGUUGGAGGAGGAGUAGAGGAAGACAGUGGCUCAUCAUUGCCUGCCACCGCCAAAGCGUUACUCCUCCAGCCGGACGGUAAUAAAGCACCAACCAU---GACAU
.((((((((.((((((((((.((.((.((((((....)))))).)).))..(((....))))))))))))).(((....))).........)))))..)---))... ( -37.20)
>DroSec_CAF1 2592 107 + 1
AUCAGUUGGAGGAGGAGUAGCGGAAGGCAGUCCUUCAGCAUUGCCUGCCACCGCCAAAGCGGUACUCCUCCAGCCGGACGGUAAUAAAGCACCCACCAUGAUGACAU
((((((((((((((.......((.(((((((.(....).))))))).))(((((....))))).)))))))))).((..(((........)))..)).))))..... ( -43.40)
>DroSim_CAF1 2540 107 + 1
AUCAGUUGGAGGAGGAGUAGCGGAAGGCAGUCCUUCAGCAUUGCCUGCCACCGCCAAAGCGAUACUCCUCCAGCCGGACGGUAAUCAAGCACCCACCAUGAUGACAU
((((..(((.(((((((((..((.(((((((.(....).))))))).))..(((....))).))))))))).(((....)))..........)))...))))..... ( -39.80)
>DroEre_CAF1 2607 104 + 1
CUCUGUGGGAGGAGGAGCAGCAGAGGGCAGUGGCUCAUCAUCGCCAGCCACCGCCAAAGCGCUUCCCCUUCAGCCAGACGGUAAUAAAGCACCCACCAU---CACAU
....((((((((.(((((.((....(((.((((((..........)))))).)))...))))))).)))...(((....))).........)))))...---..... ( -37.70)
>consensus
AUCAGUUGGAGGAGGAGUAGCGGAAGGCAGUCCCUCAGCAUUGCCUGCCACCGCCAAAGCGAUACUCCUCCAGCCGGACGGUAAUAAAGCACCCACCAU___GACAU
....(((((.(((((((((((((.(((((((((....))))))))).))...((....))))))))))))).(((....))).........)))))........... (-32.97 = -35.35 +   2.38)

alignment

secondary structure

dotplot

Window 9

Location	16,915,579 – 16,915,683
Length	104
Sequences	4
Columns	107
Reading direction	reverse
Mean pairwise identity	86.38
Mean single sequence MFE	-41.88
Consensus MFE	-33.29
Energy contribution	-33.85
Covariance contribution	0.56
Combinations/Pair	1.16
Mean z-score	-2.06
Structure conservation index	0.79
SVM decision value	1.01
SVM RNA-class probability	0.900053
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16915579 104 - 22224390
AUGUC---AUGGUUGGUGCUUUAUUACCGUCCGGCUGGAGGAGUAACGCUUUGGCGGUGGCAGGCAAUGAUGAGCCACUGUCUUCCUCUACUCCUCCUCCAACUGAA
...((---(.((.(((((......))))).))((..(((((((((.......(((((((((...((....)).)))))))))......))))))))).))...))). ( -40.52)
>DroSec_CAF1 2592 107 - 1
AUGUCAUCAUGGUGGGUGCUUUAUUACCGUCCGGCUGGAGGAGUACCGCUUUGGCGGUGGCAGGCAAUGCUGAAGGACUGCCUUCCGCUACUCCUCCUCCAACUGAU
..((((....((..((((......))))..))((..(((((((((.(((....)))((((.(((((.(.(....).).))))).))))))))))))).))...)))) ( -42.00)
>DroSim_CAF1 2540 107 - 1
AUGUCAUCAUGGUGGGUGCUUGAUUACCGUCCGGCUGGAGGAGUAUCGCUUUGGCGGUGGCAGGCAAUGCUGAAGGACUGCCUUCCGCUACUCCUCCUCCAACUGAU
.....((((...((((.(((.(((....))).))).(((((((((.(((....)))((((.(((((.(.(....).).))))).)))))))))))))))))..)))) ( -42.10)
>DroEre_CAF1 2607 104 - 1
AUGUG---AUGGUGGGUGCUUUAUUACCGUCUGGCUGAAGGGGAAGCGCUUUGGCGGUGGCUGGCGAUGAUGAGCCACUGCCCUCUGCUGCUCCUCCUCCCACAGAG
.((((---(((((((........)))))))).((..(.(((((.((((....((((((((((.(......).))))))))))...)))).))))).)..)))))... ( -42.90)
>consensus
AUGUC___AUGGUGGGUGCUUUAUUACCGUCCGGCUGGAGGAGUAACGCUUUGGCGGUGGCAGGCAAUGAUGAACCACUGCCUUCCGCUACUCCUCCUCCAACUGAU
..........((..((((......))))..))((..(((((((((.(((....)))((((.(((((.((......)).))))).))))))))))))).))....... (-33.29 = -33.85 +   0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:23:08 2006