Locus 7745

Sequence ID	X_DroMel_CAF1
Location	19,264,796 – 19,265,000
Length	204
Max. P	0.951104

overview

Window 1

Location	19,264,796 – 19,264,887
Length	91
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	75.17
Mean single sequence MFE	-21.97
Consensus MFE	-8.54
Energy contribution	-9.30
Covariance contribution	0.76
Combinations/Pair	1.15
Mean z-score	-1.77
Structure conservation index	0.39
SVM decision value	0.03
SVM RNA-class probability	0.549958
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19264796 91 + 22224390
CCCUAUUAGAGGAUACUUGGCAACACUCAUUCCGUUUCCAC----------CU-------------------GCCCCUUUCCCCUUUGGCACACCUUUCGCUUAAGUGCAAUGUUGCAUU
.(((.....))).......((((((................----------.(-------------------(((............))))........((......))..))))))... ( -14.90)
>DroSec_CAF1 51882 91 + 1
CCCCAUUAGAGGGCACUUGGAAUCACUCAUUCCGUUUCCAC----------CU-------------------GCCCCUUGCCCCUUUGGCACAACUUCCGCUUAAGUGCAAUGUUGCAUU
.......((.(((((..(((((.............))))).----------.)-------------------))))))((((.....))))((((((.(((....))).)).)))).... ( -22.72)
>DroSim_CAF1 56147 91 + 1
CCCCAUUGGAGGGCACUUGGAAUCACUCAUUCCGUUUCCAC----------CU-------------------GCCCCUUGCCCCUUUGGCACAACUUCCGCUUAAGUGCAAUGUUGCAUU
.......((((((((..(((((.............))))).----------.)-------------------))))..((((.....)))).....))).....((((((....)))))) ( -25.52)
>DroEre_CAF1 48589 115 + 1
CCCUAUUAGAGGGUCCUUCGAAUCACUCAUUCCGUUUGCGCCCC-----ACCUUCUCGUCCUCGUUCCUCUCGCCCUCUUCCCUUUUGGCACAACUUGCACUUGAGUGCAAUGUUGCAUU
.......(((((((.....((((.....))))((...(((....-----.......)))...))........)))))))..((....))..((((((((((....)))))).)))).... ( -22.50)
>DroYak_CAF1 52382 100 + 1
CCCUAUUAGAGGGUCCUUGGAAUCACUCAUUCUGUUUGCGCUACGUAAAACCUC---A-----------------GCUUUCCCCCGUGGCACACCUUGCGCCUAAGUGCAGUGUUGCAUU
........((((......(((((.....))))).((((((...)))))).))))---.-----------------..........(..((((....(((((....)))))))))..)... ( -24.20)
>consensus
CCCUAUUAGAGGGUACUUGGAAUCACUCAUUCCGUUUCCAC__________CU___________________GCCCCUUUCCCCUUUGGCACAACUUCCGCUUAAGUGCAAUGUUGCAUU
.....((((((((.....(((((.....)))))(....)..........................................))))))))...............((((((....)))))) ( -8.54 =  -9.30 +   0.76)

alignment

secondary structure

dotplot

Window 2

Location	19,264,847 – 19,264,965
Length	118
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	90.25
Mean single sequence MFE	-29.74
Consensus MFE	-24.32
Energy contribution	-24.44
Covariance contribution	0.12
Combinations/Pair	1.10
Mean z-score	-1.97
Structure conservation index	0.82
SVM decision value	1.41
SVM RNA-class probability	0.951104
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19264847 118 + 22224390
CCCCUUUGGCACACCUUUCGCUUAAGUGCAAUGUUGCAUUUUUUUUUUGUUUUUGCCAACACCUGUUAUUUUUGUUUUGAUGCAUUACAAAUUUCGUGGCAGGCACUUGGCGACGACU--
...(((.(((.........))).)))((((....))))..........(((.(((((((..((((((((.(((((..((...))..)))))....))))))))...))))))).))).-- ( -28.40)
>DroSec_CAF1 51933 108 + 1
CCCCUUUGGCACAACUUCCGCUUAAGUGCAAUGUUGCAUUU----------UUUGCCAACACCUGUUAUUUUUGUUUUGAUGCAUUACAAAUUUCGUGGCAGGCACUUGGCGACGAGU--
.............((((.((((.((((((..(((((((...----------..)).))))).(((((((.(((((..((...))..)))))....)))))))))))))))))..))))-- ( -29.00)
>DroSim_CAF1 56198 108 + 1
CCCCUUUGGCACAACUUCCGCUUAAGUGCAAUGUUGCAUUU----------UUUGCCAACACCUGUUAUUUUUGUUUUGAUGCAUUACAAAUUUCGUGGCAGGCACUUGGCGACGACU--
..................((((.((((((..(((((((...----------..)).))))).(((((((.(((((..((...))..)))))....)))))))))))))))))......-- ( -28.00)
>DroEre_CAF1 48664 108 + 1
CCCUUUUGGCACAACUUGCACUUGAGUGCAAUGUUGCAUUU----------UUGGCCAACACCUCUCAUUUUUGUUGUGAUGCAUUACAAAUUUCGUGGCAGGCACUUGGCGACGACU--
.((....))..((((((((((....)))))).)))).....----------...(((((..(((.((((.....((((((....)))))).....)))).)))...))))).......-- ( -28.10)
>DroYak_CAF1 52442 110 + 1
CCCCCGUGGCACACCUUGCGCCUAAGUGCAGUGUUGCAUUU----------UUUGCCAACACCUGUUAUUUUUGUUUUGAUGCAUUACAAAUUUCGUGGCAGGCACUUGGCGACGACUCG
....(((.(((.....)))(((.((((((.((((((((...----------..)).))))))(((((((.(((((..((...))..)))))....)))))))))))))))).)))..... ( -35.20)
>consensus
CCCCUUUGGCACAACUUCCGCUUAAGUGCAAUGUUGCAUUU__________UUUGCCAACACCUGUUAUUUUUGUUUUGAUGCAUUACAAAUUUCGUGGCAGGCACUUGGCGACGACU__
..................((((.((((((..(((((((...............)).))))).(((((((.(((((..((...))..)))))....)))))))))))))))))........ (-24.32 = -24.44 +   0.12)

alignment

secondary structure

dotplot

Window 3

Location	19,264,887 – 19,265,000
Length	113
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	88.84
Mean single sequence MFE	-33.14
Consensus MFE	-24.44
Energy contribution	-26.28
Covariance contribution	1.84
Combinations/Pair	1.03
Mean z-score	-2.12
Structure conservation index	0.74
SVM decision value	0.72
SVM RNA-class probability	0.831046
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19264887 113 + 22224390
UUUUUUUUGUUUUUGCCAACACCUGUUAUUUUUGUUUUGAUGCAUUACAAAUUUCGUGGCAGGCACUUGGCGACGACU-------CGCGACGAUGAUGUCGUUUCGUUGCUUCGAUGGCG
..............((((...((((((((.(((((..((...))..)))))....))))))))..(..((((((((..-------.(((((......))))).))))))))..).)))). ( -34.70)
>DroSec_CAF1 51973 103 + 1
U----------UUUGCCAACACCUGUUAUUUUUGUUUUGAUGCAUUACAAAUUUCGUGGCAGGCACUUGGCGACGAGU-------CGCGACGAUGAUGUCGUUUCGUUGCUUCGAUGGCG
.----------...((((...((((((((.(((((..((...))..)))))....))))))))..(..(((((((((.-------.(((((......))))))))))))))..).)))). ( -35.60)
>DroSim_CAF1 56238 103 + 1
U----------UUUGCCAACACCUGUUAUUUUUGUUUUGAUGCAUUACAAAUUUCGUGGCAGGCACUUGGCGACGACU-------CGCGACGAUGAUGUCGUUUCGUUGCUUCGAUGGCG
.----------...((((...((((((((.(((((..((...))..)))))....))))))))..(..((((((((..-------.(((((......))))).))))))))..).)))). ( -34.70)
>DroEre_CAF1 48704 98 + 1
U----------UUGGCCAACACCUCUCAUUUUUGUUGUGAUGCAUUACAAAUUUCGUGGCAGGCACUUGGCGACGACU-------CGCGACGAUGAUGUCG-----UUGCUUCGAUGGCG
.----------...((((...(((.((((.....((((((....)))))).....)))).)))..(..((((((((((-------((......))).))))-----)))))..).)))). ( -30.10)
>DroYak_CAF1 52482 105 + 1
U----------UUUGCCAACACCUGUUAUUUUUGUUUUGAUGCAUUACAAAUUUCGUGGCAGGCACUUGGCGACGACUCGCGACUCGCGACGAUGAUGUCG-----UUACUUCGAUGGCG
.----------...((((.(.((((((((.(((((..((...))..)))))....))))))))....((((((((.((((((.....)).))).).)))))-----)))....).)))). ( -30.60)
>consensus
U__________UUUGCCAACACCUGUUAUUUUUGUUUUGAUGCAUUACAAAUUUCGUGGCAGGCACUUGGCGACGACU_______CGCGACGAUGAUGUCGUUUCGUUGCUUCGAUGGCG
..............((((...((((((((.(((((..((...))..)))))....))))))))..(..((((((((..........(((((......))))).))))))))..).)))). (-24.44 = -26.28 +   1.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:46:35 2006