Locus 5425

Sequence ID	3R_DroMel_CAF1
Location	14,313,801 – 14,313,891
Length	90
Max. P	0.716514

overview

Window 9

Location	14,313,801 – 14,313,891
Length	90
Sequences	6
Columns	95
Reading direction	forward
Mean pairwise identity	80.84
Mean single sequence MFE	-20.16
Consensus MFE	-15.24
Energy contribution	-15.60
Covariance contribution	0.36
Combinations/Pair	1.11
Mean z-score	-1.24
Structure conservation index	0.76
SVM decision value	0.13
SVM RNA-class probability	0.599594
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14313801 90 + 27905053
----UAUGCUGUU-CAUUAUUUUCAGUGCAGAUAGAUUCGCGGAUGCAUCCGCAAUCUGAAACGGCCAGCCGACGCUAAUCUUCAUCAUCCGCAU
----...((((..-.........))))((.((((((((.(((((....))))))))))....(((....)))...............))).)).. ( -21.60)
>DroSec_CAF1 92925 90 + 1
----UAUGCUAUU-CAUUAUUUUCAGUGCAGAUGGGUUCGCGGAUGCAUCCGCAAUCUGAAACGGCCAGCCGACGCUAAUCUUCAUCAUCCGCAU
----.((((....-......(((((((((.((((.(((....))).)))).)))..))))))(((....)))...................)))) ( -23.10)
>DroSim_CAF1 86718 90 + 1
----UAUGCUAUU-CAUUAUUUUCAGUGCAGAUAGGUUCGCGGAUGCAUCCGCAAUCUGAAACGGCCAGCCGACGCUAAUCUUCAUCAUCCGCAU
----.........-...........((((.((((((((.(((((....))))))))))....(((....)))...............))).)))) ( -20.60)
>DroEre_CAF1 95805 86 + 1
CAC--------CCAAAUUGCUUUCGGUGCAGAUAAGUUCGCGGAUGCAUCUGCAAUCUGAAACGGCCAGCCGACUCUAAUCUUCAUCAUCC-CAU
...--------.........(((((((((((((..(((....)))..)))))))..))))))(((....)))...................-... ( -18.90)
>DroYak_CAF1 93496 94 + 1
CACUUAUCCACUUAAAUUACUUUCUGUGCAGAUAAGUUCGCGGAUGCAUCCGCAAUCUGAAACGGCCAGCCGACGCUAAUCUUCAUCAUCC-CAU
.((((((((((..(((....)))..)))..)))))))..(((((....))))).........(((....)))...................-... ( -19.30)
>DroAna_CAF1 84795 68 + 1
---------------------------CCAGAUAAGUUCGCGGAUGCAUCUGCAAUCUGAAUCGGCCUGCCGACGCUAAUCUUCAUCAUCCGCAU
---------------------------............(((((((............(..((((....))))..)..........))))))).. ( -17.45)
>consensus
____UAUGCU_UU_CAUUAUUUUCAGUGCAGAUAAGUUCGCGGAUGCAUCCGCAAUCUGAAACGGCCAGCCGACGCUAAUCUUCAUCAUCCGCAU
.........................(((.((((.(((..(((((....))))).........(((....)))..))).)))).)))......... (-15.24 = -15.60 +   0.36)

alignment

secondary structure

dotplot

Window 0

Location	14,313,801 – 14,313,891
Length	90
Sequences	6
Columns	95
Reading direction	reverse
Mean pairwise identity	80.84
Mean single sequence MFE	-25.68
Consensus MFE	-18.52
Energy contribution	-19.88
Covariance contribution	1.36
Combinations/Pair	1.04
Mean z-score	-1.52
Structure conservation index	0.72
SVM decision value	0.39
SVM RNA-class probability	0.716514
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14313801 90 - 27905053
AUGCGGAUGAUGAAGAUUAGCGUCGGCUGGCCGUUUCAGAUUGCGGAUGCAUCCGCGAAUCUAUCUGCACUGAAAAUAAUG-AACAGCAUA----
.((((((((.(((((.(((((....)))))...)))))(((((((((....))))).))))))))))))............-.........---- ( -26.50)
>DroSec_CAF1 92925 90 - 1
AUGCGGAUGAUGAAGAUUAGCGUCGGCUGGCCGUUUCAGAUUGCGGAUGCAUCCGCGAACCCAUCUGCACUGAAAAUAAUG-AAUAGCAUA----
.((((((((.(((((.(((((....)))))...)))))..(((((((....)))))))...))))))))............-.........---- ( -27.80)
>DroSim_CAF1 86718 90 - 1
AUGCGGAUGAUGAAGAUUAGCGUCGGCUGGCCGUUUCAGAUUGCGGAUGCAUCCGCGAACCUAUCUGCACUGAAAAUAAUG-AAUAGCAUA----
.((((((((.(((((.(((((....)))))...)))))..(((((((....)))))))...))))))))............-.........---- ( -25.70)
>DroEre_CAF1 95805 86 - 1
AUG-GGAUGAUGAAGAUUAGAGUCGGCUGGCCGUUUCAGAUUGCAGAUGCAUCCGCGAACUUAUCUGCACCGAAAGCAAUUUGG--------GUG
...-(((((.((..((((.(((.(((....))).))).)))).))....))))).............((((.(((....))).)--------))) ( -23.00)
>DroYak_CAF1 93496 94 - 1
AUG-GGAUGAUGAAGAUUAGCGUCGGCUGGCCGUUUCAGAUUGCGGAUGCAUCCGCGAACUUAUCUGCACAGAAAGUAAUUUAAGUGGAUAAGUG
.((-..((((((........))))((....))))..))..(((((((....)))))))(((((((..(....(((....)))..)..))))))). ( -28.80)
>DroAna_CAF1 84795 68 - 1
AUGCGGAUGAUGAAGAUUAGCGUCGGCAGGCCGAUUCAGAUUGCAGAUGCAUCCGCGAACUUAUCUGG---------------------------
.((((((((.((..((((.(.(((((....))))).).)))).))....))))))))...........--------------------------- ( -22.30)
>consensus
AUGCGGAUGAUGAAGAUUAGCGUCGGCUGGCCGUUUCAGAUUGCGGAUGCAUCCGCGAACCUAUCUGCACUGAAAAUAAUG_AA_AGCAUA____
.((((((((.(((((.(((((....)))))...)))))..(((((((....)))))))...)))))))).......................... (-18.52 = -19.88 +   1.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:23 2006