Locus 7598

Sequence ID	2L_DroMel_CAF1
Location	21,016,554 – 21,016,769
Length	215
Max. P	0.781926

overview

Window 3

Location	21,016,554 – 21,016,669
Length	115
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	91.74
Mean single sequence MFE	-31.22
Consensus MFE	-26.93
Energy contribution	-26.93
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.72
Structure conservation index	0.86
SVM decision value	0.56
SVM RNA-class probability	0.781926
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21016554 115 - 22407834
AUUGUAGGUAGCAAGCAUGUAUCUUAAUGAAGGCAAUUUGCUUGUCGAGUUUAGGCAAGUUAGUUUACCGAAAAUUGGCAUAUGGCCAGUAGCAACAA-----AAGCCCCGUACAGGGAA
.((((.((((((...(((........)))...))((((.(((((((.......))))))).))))))))....((((((.....)))))).))))...-----....(((.....))).. ( -31.50)
>DroPse_CAF1 142848 117 - 1
AUUGUAGGUAGCAAGCAUGUAUCUUAAUGAAGGCAAUUUGCUUGUCGAGUUUAGGCAAGUUAGUUUACCGAAAAUUGGCAUAUGGCCAGUGGCAACAACACAAAAGCAGC-UAC--GCUA
.((((.((((((...(((........)))...))((((.(((((((.......))))))).))))))))(...((((((.....))))))..)......)))).(((...-...--))). ( -29.70)
>DroEre_CAF1 67668 115 - 1
AUUGUAGGUAGCAAGCAUGUAUCUUAAUGAAGGCAAUUUGCUUGUCGAGUUUAGGCAAGUUAGUUUACCGAAAAUUGGCAUAUGGCCAGUAGCAACAA-----AAGCCCCGUACAGGGCA
.((((.((((((...(((........)))...))((((.(((((((.......))))))).))))))))....((((((.....)))))).))))...-----..((((......)))). ( -34.40)
>DroYak_CAF1 72688 115 - 1
AUUGUAGGUAGCAAGCAUGUAUCUUAAUGAAGGCAAUUUGCUUGUCGAGUUUAGGCAAGUUAGUUUACCGAAAAUUGGCAUAUGGCCAGUAGCAACAA-----AAGCCCCGUACAGGGCA
.((((.((((((...(((........)))...))((((.(((((((.......))))))).))))))))....((((((.....)))))).))))...-----..((((......)))). ( -34.40)
>DroAna_CAF1 92505 108 - 1
AUUGUAGGUAGCAAGCAUGUAUCUUAAUGAAGGCAAUUUGCUUGUCGAGUUUAGGCAAGUUAGUUUACCGAAAAUUGGCAUAUGGCCAGUAGCAACAA-----A------GCACAGGAC-
.((((.((((((...(((........)))...))((((.(((((((.......))))))).))))))))....((((((.....)))))).((.....-----.------))))))...- ( -27.60)
>DroPer_CAF1 135127 117 - 1
AUUGUAGGUAGCAAGCAUGUAUCUUAAUGAAGGCAAUUUGCUUGUCGAGUUUAGGCAAGUUAGUUUACCGAAAAUUGGCAUAUGGCCAGUGGCAACAACACAAAAGCAGC-UAC--GCUA
.((((.((((((...(((........)))...))((((.(((((((.......))))))).))))))))(...((((((.....))))))..)......)))).(((...-...--))). ( -29.70)
>consensus
AUUGUAGGUAGCAAGCAUGUAUCUUAAUGAAGGCAAUUUGCUUGUCGAGUUUAGGCAAGUUAGUUUACCGAAAAUUGGCAUAUGGCCAGUAGCAACAA_____AAGCCCCGUACAGGGCA
.((((.((((((...(((........)))...))((((.(((((((.......))))))).))))))))....((((((.....)))))).))))......................... (-26.93 = -26.93 +   0.00)

alignment

secondary structure

dotplot

Window 4

Location	21,016,669 – 21,016,769
Length	100
Sequences	5
Columns	104
Reading direction	forward
Mean pairwise identity	92.37
Mean single sequence MFE	-28.00
Consensus MFE	-20.66
Energy contribution	-20.34
Covariance contribution	-0.32
Combinations/Pair	1.14
Mean z-score	-1.95
Structure conservation index	0.74
SVM decision value	0.19
SVM RNA-class probability	0.624407
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21016669 100 + 22407834
UUAGGCACACAUACGUGCAU--AUAUACAUUGCUAGG--CGUGUGUGUACCUCCGUGGACAUGUAGUGGAACCUACCAUCUUCAUUCAAUGUGCAUUUUACUAG
..(((.(((((((((((((.--........)))...)--))))))))).)))..(((.((((..((((((..........))))))..)))).)))........ ( -27.00)
>DroSec_CAF1 61988 102 + 1
UUAGGCACACAUACGUGUAGCCAUAUACAUGGCUAGG--CGUGUGUGUACCUCCGUGGACAUGUAGUGGAACCUACCAUCUUCAUUCAAUGUGCAUUUUACUAG
..(((.((((((((((.(((((((....))))))).)--))))))))).)))..(((.((((..((((((..........))))))..)))).)))........ ( -38.90)
>DroSim_CAF1 63815 100 + 1
UUAGGCACACAUACGUGCAU--ACAUACAUGGCUAGG--CGUGUGUGUACCUCCGUGGACAUGUAGUGGAACCUACCAUCUUCAUUCAAUGUGCAUUUUACUAG
....(((((..((((((..(--(((((((((......--))))))))))((.....)).))))))((((......))))..........))))).......... ( -27.60)
>DroEre_CAF1 67783 102 + 1
UUAGGCACACAUACGUGCAU--AUAUACAUGGCUAAGGAUGUGUGUGUAUUUCCAUGGACAUGCAGUGGAACCUACCAUCUUCAUUCAAUGUGCAUUUUACUAG
....(((((....((((.((--((((((((..(....)..))))))))))...))))((.(((.(((((......))).)).)))))..))))).......... ( -23.50)
>DroYak_CAF1 72803 102 + 1
UUAGGCACACAUACAUGCAU--AUAUACAAGGCUAAGGAUGUGUGUGUAUUUCCAUGGACAUGUAGUGGAACCUACCAUCUUCAUUCAAUGUGCAUUUUACUAG
....(((((....((((.((--(((((((...(....)...)))))))))...))))((.(((.(((((......))).)).)))))..))))).......... ( -23.00)
>consensus
UUAGGCACACAUACGUGCAU__AUAUACAUGGCUAGG__CGUGUGUGUACCUCCGUGGACAUGUAGUGGAACCUACCAUCUUCAUUCAAUGUGCAUUUUACUAG
....(((((....((((.....(((((((((........))))))))).....))))((.(((.(((((......))).)).)))))..))))).......... (-20.66 = -20.34 +  -0.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:40:45 2006