Locus 5206

Sequence ID	X_DroMel_CAF1
Location	13,616,345 – 13,616,481
Length	136
Max. P	0.983285

overview

Window 8

Location	13,616,345 – 13,616,441
Length	96
Sequences	5
Columns	96
Reading direction	forward
Mean pairwise identity	92.81
Mean single sequence MFE	-28.97
Consensus MFE	-24.04
Energy contribution	-24.20
Covariance contribution	0.16
Combinations/Pair	1.04
Mean z-score	-1.33
Structure conservation index	0.83
SVM decision value	0.10
SVM RNA-class probability	0.582704
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13616345 96 + 22224390
CGGUAGGCCAUCGCAGAUAACAGAGCUCUGUUAGCUGUGCUAAGGUGUGGCCACACUGGCUAGCUAUAUUUUGAUAAGGAGCUCGCAAAGAUGCGG
.((....))..((((.......(((((((..((((((.(((..(((((....))))))))))))))...........))))))).......)))). ( -33.06)
>DroSec_CAF1 2217 96 + 1
CGGUAGGCCAUCGCAGAUAACAGAGCUCUGUUAACAGACCUAAGGUGUGGCCACACUGGCUAGCUAUAUUUUGAUAAGGAGCUCGCAAAGAUGCGG
.((....))..((((.......(((((((.(((.((((..((.(((.(((((.....)))))))).)).)))).)))))))))).......)))). ( -29.54)
>DroSim_CAF1 2205 96 + 1
CGGCAGGCCAUCGCAGAUAACAGAGCUCUGUUAACAGACCUAAGGUGUGGCCACACUGGCUAGCUAUAUUUUGAUAAGGAACUCGCAAAGAUGCGG
.(((.(((((..((...((((((....)))))).((.(((...))).)))).....))))).)))..................((((....)))). ( -25.70)
>DroEre_CAF1 2175 95 + 1
CGAUAGGCCA-CGCAGAUAACAGAGCUCUGUUAACAGAGCCAAGGUGUGGCUACACUGGCAAGCUAUAUUUUGAUAAGGAGCUCGCAAAGAUGCGG
..........-((((.......((((((((((.....)))((((((((((((.........))))))))))))....))))))).......)))). ( -29.64)
>DroYak_CAF1 2119 95 + 1
CGAUAAGCCAUCGCAG-UAACAGAGCUCUGUUAACAAAGCCAUGGUGUGGCGACACUGGCUAGCUAUAUUUUGAUAAGGAGCUCGCAAAGAUGCGG
...........((((.-.....(((((((.(((.(((((..(((((.((((.......))))))))).))))).)))))))))).......)))). ( -26.92)
>consensus
CGGUAGGCCAUCGCAGAUAACAGAGCUCUGUUAACAGAGCUAAGGUGUGGCCACACUGGCUAGCUAUAUUUUGAUAAGGAGCUCGCAAAGAUGCGG
...........((((.......((((((((....).....(((((((((((...........)))))))))))....))))))).......)))). (-24.04 = -24.20 +   0.16)

alignment

secondary structure

dotplot

Window 9

Location	13,616,345 – 13,616,441
Length	96
Sequences	5
Columns	96
Reading direction	reverse
Mean pairwise identity	92.81
Mean single sequence MFE	-26.28
Consensus MFE	-21.90
Energy contribution	-22.22
Covariance contribution	0.32
Combinations/Pair	1.13
Mean z-score	-1.42
Structure conservation index	0.83
SVM decision value	0.37
SVM RNA-class probability	0.707956
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13616345 96 - 22224390
CCGCAUCUUUGCGAGCUCCUUAUCAAAAUAUAGCUAGCCAGUGUGGCCACACCUUAGCACAGCUAACAGAGCUCUGUUAUCUGCGAUGGCCUACCG
.((((....))))((((...(((....))).)))).((((((((....)))).....(.(((.((((((....)))))).))).).))))...... ( -25.40)
>DroSec_CAF1 2217 96 - 1
CCGCAUCUUUGCGAGCUCCUUAUCAAAAUAUAGCUAGCCAGUGUGGCCACACCUUAGGUCUGUUAACAGAGCUCUGUUAUCUGCGAUGGCCUACCG
.((((....))))((((...(((....))).)))).((((.(((((((........))))...((((((....))))))...))).))))...... ( -24.20)
>DroSim_CAF1 2205 96 - 1
CCGCAUCUUUGCGAGUUCCUUAUCAAAAUAUAGCUAGCCAGUGUGGCCACACCUUAGGUCUGUUAACAGAGCUCUGUUAUCUGCGAUGGCCUGCCG
.((((....))))...................((..((((.(((((((........))))...((((((....))))))...))).))))..)).. ( -25.50)
>DroEre_CAF1 2175 95 - 1
CCGCAUCUUUGCGAGCUCCUUAUCAAAAUAUAGCUUGCCAGUGUAGCCACACCUUGGCUCUGUUAACAGAGCUCUGUUAUCUGCG-UGGCCUAUCG
..((((....(((((((...(((....))).)))))))..)))).(((((.....(((((((....)))))))..((.....)))-))))...... ( -29.20)
>DroYak_CAF1 2119 95 - 1
CCGCAUCUUUGCGAGCUCCUUAUCAAAAUAUAGCUAGCCAGUGUCGCCACACCAUGGCUUUGUUAACAGAGCUCUGUUA-CUGCGAUGGCUUAUCG
.((((....))))((((...(((....))).))))(((((...((((.....((.(((((((....))))))).))...-..)))))))))..... ( -27.10)
>consensus
CCGCAUCUUUGCGAGCUCCUUAUCAAAAUAUAGCUAGCCAGUGUGGCCACACCUUAGCUCUGUUAACAGAGCUCUGUUAUCUGCGAUGGCCUACCG
.((((....))))((((...(((....))).)))).((((.(((((..(((....(((((((....))))))).)))...))))).))))...... (-21.90 = -22.22 +   0.32)

alignment

secondary structure

dotplot

Window 0

Location	13,616,361 – 13,616,481
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	92.83
Mean single sequence MFE	-39.98
Consensus MFE	-35.00
Energy contribution	-35.52
Covariance contribution	0.52
Combinations/Pair	1.06
Mean z-score	-1.83
Structure conservation index	0.88
SVM decision value	1.94
SVM RNA-class probability	0.983285
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13616361 120 + 22224390
AUAACAGAGCUCUGUUAGCUGUGCUAAGGUGUGGCCACACUGGCUAGCUAUAUUUUGAUAAGGAGCUCGCAAAGAUGCGGAUUUUCUACGGACUACUGGCGUUCCUGGUGGCCAGACAAC
.((((((....))))))...........((.(((((((...((...((((((.((((.((..(((..((((....))))..)))..)))))).)).))))...))..))))))).))... ( -40.20)
>DroSec_CAF1 2233 120 + 1
AUAACAGAGCUCUGUUAACAGACCUAAGGUGUGGCCACACUGGCUAGCUAUAUUUUGAUAAGGAGCUCGCAAAGAUGCGGAUUUUCUACGGAUUGCUGGCGUUCCUGGUGGCCAGACAGC
.((((((....))))))...........((.(((((((....((((((.....((((.((..(((..((((....))))..)))..))))))..)))))).......))))))).))... ( -40.90)
>DroSim_CAF1 2221 120 + 1
AUAACAGAGCUCUGUUAACAGACCUAAGGUGUGGCCACACUGGCUAGCUAUAUUUUGAUAAGGAACUCGCAAAGAUGCGGAUUUUCUACGGAUUGCUGGCGUUCCUGGUGGCCAGACAGC
.((((((....))))))...........((.(((((((....((((((.....((((.((..(((..((((....))))..)))..))))))..)))))).......))))))).))... ( -41.20)
>DroEre_CAF1 2190 120 + 1
AUAACAGAGCUCUGUUAACAGAGCCAAGGUGUGGCUACACUGGCAAGCUAUAUUUUGAUAAGGAGCUCGCAAAGAUGCGGAUUUUCUACGGAUUUCUGGCGUUCCUGAUGGCCAGCCAAC
........((((((....))))))((((((((((((.........))))))))))))...((((((.((((....))))((...((....))..))....))))))..(((....))).. ( -38.90)
>DroYak_CAF1 2135 119 + 1
-UAACAGAGCUCUGUUAACAAAGCCAUGGUGUGGCGACACUGGCUAGCUAUAUUUUGAUAAGGAGCUCGCAAAGAUGCGGAUUUUCUACGGAAUUCUGGCGUUCCUGGUGGCCAGCCGAC
-((((((....)))))).....(((((...))))).....(((((.(((((.........((((((.((((....))))((..(((....))).))....)))))).))))).))))).. ( -38.70)
>consensus
AUAACAGAGCUCUGUUAACAGAGCUAAGGUGUGGCCACACUGGCUAGCUAUAUUUUGAUAAGGAGCUCGCAAAGAUGCGGAUUUUCUACGGAUUGCUGGCGUUCCUGGUGGCCAGACAAC
.((((((....))))))...........((.(((((((...((...((((...((((.((..(((..((((....))))..)))..))))))....))))...))..))))))).))... (-35.00 = -35.52 +   0.52)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:16 2006