Locus 7866

Sequence ID	3R_DroMel_CAF1
Location	21,049,561 – 21,049,660
Length	99
Max. P	0.858247

overview

Window 1

Location	21,049,561 – 21,049,660
Length	99
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	89.20
Mean single sequence MFE	-18.18
Consensus MFE	-13.12
Energy contribution	-13.84
Covariance contribution	0.72
Combinations/Pair	1.09
Mean z-score	-2.39
Structure conservation index	0.72
SVM decision value	0.82
SVM RNA-class probability	0.858247
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21049561 99 + 27905053
UCUUAAAGUAAUGCCAAGCAAAUAUGCUUAAGAAACUAUAGCUUCAAUUCAUAUUGAAUUUAUAGUGAUUUCCAAGUAUCU-UACACCCCUGAGAGCCUC
((((((.(((.(((...)))....))))))))).(((((((.((((((....)))))).)))))))........((..(((-((......)))))..)). ( -17.70)
>DroSec_CAF1 2944 100 + 1
UCUUAAAAUAAUUCCAAGCAAAUAUGCAUAAGAAACUAUAGCUUCAAUUCAUAUUGAAUUUAUAGUGAUUUCUAAGUAUCUUUACACCCCUGAGAGCCUC
(((((............(((....)))...(((((((((((.((((((....)))))).)))))))...))))..(((....))).....)))))..... ( -16.70)
>DroSim_CAF1 2149 100 + 1
UCUUAAAAUAAUUCCAAGCAAAUAUGCUUAAGAAACUAUAGCUUCAAUUCAUAUUGAAUUUAUAGUGAUUUCCAAGUAUCUUUACACCCCUGAGAGCCUC
(((((......(((.(((((....)))))..)))(((((((.((((((....)))))).))))))).........(((....))).....)))))..... ( -17.40)
>DroEre_CAF1 2165 100 + 1
UCUUAAAAUAAUUCCAGGAAAUUAUGAUUAAGAAACUAUAGCUUCAAUUCAUAUUGAAUUUAUAGUGAUUUAAAGAUACUUUUCCACCCCUGAGAGCUCU
................(((((.(((..(((((..(((((((.((((((....)))))).)))))))..)))))..)))..)))))............... ( -18.40)
>DroYak_CAF1 2155 100 + 1
UCCUAAAAUAUUUCCAGGCAAAUAUGCCUAAGAAACUAUAGCUUCAAUUCAUAUUGAAUUUAUAGUGAUUUUAAAGUAACUUUCCACCCCAGAGAGCUAU
...((((((..(((.(((((....)))))..)))(((((((.((((((....)))))).))))))).))))))..(((.(((((.......))))).))) ( -20.70)
>consensus
UCUUAAAAUAAUUCCAAGCAAAUAUGCUUAAGAAACUAUAGCUUCAAUUCAUAUUGAAUUUAUAGUGAUUUCAAAGUAUCUUUACACCCCUGAGAGCCUC
(((((..........(((((....))))).....(((((((.((((((....)))))).)))))))........................)))))..... (-13.12 = -13.84 +   0.72)

alignment

secondary structure

dotplot

Window 2

Location	21,049,561 – 21,049,660
Length	99
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	89.20
Mean single sequence MFE	-21.86
Consensus MFE	-16.94
Energy contribution	-18.30
Covariance contribution	1.36
Combinations/Pair	1.16
Mean z-score	-1.72
Structure conservation index	0.77
SVM decision value	0.46
SVM RNA-class probability	0.746129
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21049561 99 - 27905053
GAGGCUCUCAGGGGUGUA-AGAUACUUGGAAAUCACUAUAAAUUCAAUAUGAAUUGAAGCUAUAGUUUCUUAAGCAUAUUUGCUUGGCAUUACUUUAAGA
.(.((((....)))).).-.....((((((....((((((..((((((....))))))..))))))...(((((((....)))))))......)))))). ( -20.90)
>DroSec_CAF1 2944 100 - 1
GAGGCUCUCAGGGGUGUAAAGAUACUUAGAAAUCACUAUAAAUUCAAUAUGAAUUGAAGCUAUAGUUUCUUAUGCAUAUUUGCUUGGAAUUAUUUUAAGA
.(.((((....)))).).......(((((((...((((((..((((((....))))))..))))))((((...(((....)))..))))...))))))). ( -21.90)
>DroSim_CAF1 2149 100 - 1
GAGGCUCUCAGGGGUGUAAAGAUACUUGGAAAUCACUAUAAAUUCAAUAUGAAUUGAAGCUAUAGUUUCUUAAGCAUAUUUGCUUGGAAUUAUUUUAAGA
.(.((((....)))).).......(((((((...((((((..((((((....))))))..))))))((((.(((((....)))))))))...))))))). ( -23.30)
>DroEre_CAF1 2165 100 - 1
AGAGCUCUCAGGGGUGGAAAAGUAUCUUUAAAUCACUAUAAAUUCAAUAUGAAUUGAAGCUAUAGUUUCUUAAUCAUAAUUUCCUGGAAUUAUUUUAAGA
...((((....))))...................((((((..((((((....))))))..)))))).((((((..(((((((....))))))).)))))) ( -18.40)
>DroYak_CAF1 2155 100 - 1
AUAGCUCUCUGGGGUGGAAAGUUACUUUAAAAUCACUAUAAAUUCAAUAUGAAUUGAAGCUAUAGUUUCUUAGGCAUAUUUGCCUGGAAAUAUUUUAGGA
.(((((.(((.....))).))))).((((((((.((((((..((((((....))))))..))))))((((.(((((....)))))))))..)))))))). ( -24.80)
>consensus
GAGGCUCUCAGGGGUGUAAAGAUACUUGGAAAUCACUAUAAAUUCAAUAUGAAUUGAAGCUAUAGUUUCUUAAGCAUAUUUGCUUGGAAUUAUUUUAAGA
...((((....)))).........(((((((...((((((..((((((....))))))..))))))((((.(((((....)))))))))...))))))). (-16.94 = -18.30 +   1.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:56:41 2006