Locus 2399

Sequence ID	X_DroMel_CAF1
Location	6,427,256 – 6,427,383
Length	127
Max. P	0.963174

overview

Window 4

Location	6,427,256 – 6,427,354
Length	98
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	64.61
Mean single sequence MFE	-36.78
Consensus MFE	-14.32
Energy contribution	-17.00
Covariance contribution	2.68
Combinations/Pair	1.48
Mean z-score	-2.35
Structure conservation index	0.39
SVM decision value	1.55
SVM RNA-class probability	0.963174
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6427256 98 - 22224390
GAUCUGUUGAGGU--------------AAUUGCUUG-GGCAAUUGUGGAGGGAUCUGCUGAGGCAACUGCUUUGGCAACUGUUGCGGCAAUUGUUGAGGUAACUGUUGUGGGA-------
..((..(...(((--------------...(((((.-(((((((((.(..(.(..(((..((((....))))..)))..).)..).))))))))).))))))))...)..)).------- ( -33.60)
>DroGri_CAF1 51859 110 - 1
UAUCAGCUGCGGCUUGUUACUGCGAUCAACCGGUGGCGGCAACUGUGACAUUAACUGUGGCGCCAGCUGUGGCGCCAGCUGUGGCGUCAGCUGUGGCGCCAGCU---GUGGCG-------
.....((..((((.((((((.((.(((....))).))(....).)))))).......((((((((((((..((((((....))))))))))..)))))))))))---)..)).------- ( -54.60)
>DroEre_CAF1 44320 98 - 1
GAUCUGUUGAGGU--------------AAUUGCUUG-GGCAACUGUUGUGGGAUCUGCUGAGGAAACUGCUUUGGUAACUGUUGCGGCAAUUGUUGAGGUAACUGUUGUGGGA-------
..((..(...(((--------------...(((((.-(((((.(((((..(.(..(((..(((......)))..)))..).)..))))).))))).))))))))...)..)).------- ( -28.70)
>DroYak_CAF1 47010 105 - 1
GAUCUGUUGGGGU--------------AAUUGCUUG-CGCAAUUGUUGUGGGAUCUGCUGAGGCAGCUGCUUUGGUAACUGUUGCGGCAAUUGUUGAGGUAACUGUUGUGGGAUCUGUUG
(((((...(.(((--------------...(((((.-.((((((((((..(.(..(((..((((....))))..)))..).)..))))))))))..)))))))).)....)))))..... ( -35.10)
>DroAna_CAF1 56015 98 - 1
UAUUUGCUGAGGC--------------AGUUGUUGG-GGCAGUUUCUGGGGCAAGGGUUGAGGCUUCUGUUGUGGCAACUGUGGGGGUACUUUAUGGGGCACCUGCUGAGGCA-------
....((((..(((--------------((.((((..-.((((((.(((.((((..(((....)))..)))).))).))))))(((....))).....)))).)))))..))))------- ( -31.90)
>consensus
GAUCUGUUGAGGU______________AAUUGCUUG_GGCAAUUGUUGUGGGAUCUGCUGAGGCAACUGCUUUGGCAACUGUUGCGGCAAUUGUUGAGGUAACUGUUGUGGGA_______
.............................((((((...(((((((((((((.(..(((((((((....)))))))))..).)))))))))))))..)))))).................. (-14.32 = -17.00 +   2.68)

alignment

secondary structure

dotplot

Window 5

Location	6,427,289 – 6,427,383
Length	94
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	74.09
Mean single sequence MFE	-33.43
Consensus MFE	-13.55
Energy contribution	-12.83
Covariance contribution	-0.71
Combinations/Pair	1.48
Mean z-score	-1.94
Structure conservation index	0.41
SVM decision value	0.11
SVM RNA-class probability	0.588362
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6427289 94 - 22224390
G-----------GCAGUUGUUGAGGUAACUCUGGCUGCGGGAUCUGUUGAGGU--------------AAUUGCUUG-GGCAAUUGUGGAGGGAUCUGCUGAGGCAACUGCUUUGGCAACU
.-----------((((((...(((....))).)))))).((((((.((.(..(--------------((((((...-.)))))))).)).))))))((..((((....))))..)).... ( -36.40)
>DroGri_CAF1 51889 120 - 1
GUUGCUGUACUGACGGUGGUUGCGGUUGUUGUGGUUUUGGUAUCAGCUGCGGCUUGUUACUGCGAUCAACCGGUGGCGGCAACUGUGACAUUAACUGUGGCGCCAGCUGUGGCGCCAGCU
((((((((.....(((((((((((((.((((..(((........)))..)))).....))))))))).))))...))))))))..............((((((((....))))))))... ( -53.10)
>DroSec_CAF1 44277 94 - 1
G-----------UCAGUUGUUGAGGUAACUGUGGCUGCGGGAUCUGUUGCGGU--------------AAUUGGUUG-GGCAAUUGUGGAGGGAUCUGCUGAGGCAACUGUUUUGGUAGCU
.-----------.((((((......)))))).((((((.(((...(((((...--------------(((((....-..)))))(..((....))..)....)))))...))).)))))) ( -26.90)
>DroSim_CAF1 43016 94 - 1
G-----------UCAGUUGUUGAGGUAACUGUGGCUGCGGGAUCUGCUGUGGU--------------AAUUGGUUG-GGCAAUUGUGGAGGGAUCUGCUGAGGCAACUGUUUUGGUAGCU
.-----------.((((((((....((((((..((..(((......)))..))--------------...))))))-)))))))).........((((..((((....))))..)))).. ( -26.00)
>DroEre_CAF1 44353 94 - 1
G-----------UCAGUUGUUGGGGUAACUGUUGCUGCGGGAUCUGUUGAGGU--------------AAUUGCUUG-GGCAACUGUUGUGGGAUCUGCUGAGGAAACUGCUUUGGUAACU
.-----------.((((((((.((((((((((....)))).((((....))))--------------..)))))).-))))))))..........(((..(((......)))..)))... ( -25.90)
>DroYak_CAF1 47050 94 - 1
G-----------GCAGUUGUUGAGGUAACUGUUGCUGCGGGAUCUGUUGGGGU--------------AAUUGCUUG-CGCAAUUGUUGUGGGAUCUGCUGAGGCAGCUGCUUUGGUAACU
.-----------..(((((..((((((.((((..(.(((((.((..(.....(--------------((((((...-.)))))))..)..)).))))).)..)))).))))))..))))) ( -32.30)
>consensus
G___________UCAGUUGUUGAGGUAACUGUGGCUGCGGGAUCUGUUGAGGU______________AAUUGCUUG_GGCAAUUGUGGAGGGAUCUGCUGAGGCAACUGCUUUGGUAACU
.............((((((((.((....))...(((.(((......))).)))........................))))))))..........(((((((((....)))))))))... (-13.55 = -12.83 +  -0.71)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:33:36 2006