Locus 2283

Sequence ID	2R_DroMel_CAF1
Location	8,408,015 – 8,408,190
Length	175
Max. P	0.974917

overview

Window 0

Location	8,408,015 – 8,408,120
Length	105
Sequences	5
Columns	118
Reading direction	reverse
Mean pairwise identity	74.50
Mean single sequence MFE	-23.96
Consensus MFE	-8.40
Energy contribution	-7.88
Covariance contribution	-0.52
Combinations/Pair	1.37
Mean z-score	-2.25
Structure conservation index	0.35
SVM decision value	1.74
SVM RNA-class probability	0.974917
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8408015 105 - 20766785
UACUAAUUGAGACACUAAUGUAUUAAUUAGUGGAAGGGCUA--AAUGGAAACGAUCUCUAAAGUUAAACAAAUCAUCAUAUCUAUUUUAAAAUGAUUGUUCUC-----------UUUA
........(((((((((((......))))))).........--..((....)).))))(((((...(((((.((((..((.......))..)))))))))..)-----------)))) ( -18.80)
>DroSec_CAF1 19510 104 - 1
UCCUAAUUGAGACACUAAUGUAUUAAUUAGUGGAAGGGCUA--AAUGGGUCCGAUCUCUAAAGUUAAAUAAAUCAACACAUCGAUUUUUAAAAGAUUAUUCU------------UCUC
........(((((((((((......)))))))((((((((.--....)))))(((((......(((((..((((........))))))))).))))).))).------------)))) ( -19.70)
>DroSim_CAF1 19130 116 - 1
UACUAAUUGAGACACUAAUGUAUUAAUUAGUGGAAGGGCUA--AAUGGGAUCGAUCUCUAAAGUUAAAUAAAUCAACACAUCGAUUUUUAAAAGAUUAUUCUCAUUAUAAGCUCUUUC
.(((((((((.(((....))).)))))))))(((((((((.--(((((((..(((((......(((((..((((........))))))))).)))))..)))))))...))))))))) ( -29.90)
>DroEre_CAF1 21434 115 - 1
-ACUAAUUAAGACCCUAAUGUAUUAAUUAGGAGAACGGCUA--AAUGGAAGCGACCUCUAAAGUUCAAGUAAUCAUCACAUUAAUUUAAUGAUUACUAUUUUGCUUAGCCAUUUCUUA
-.((((((((.((......)).))))))))(((((.(((((--(..((((..((.((....)).)).(((((((((............))))))))).))))..))))))..))))). ( -26.30)
>DroYak_CAF1 19360 118 - 1
UACUAAUUGAAACACUAAUGUUUUAAUUAGGGGAACGGCGGAGAACGGGAUCGAUUUAUAAAGCCAAACGAAUCAUCACAUCGAUUUAAUAAUUAUUUUUUUCCCUAGAAGCCUUUUA
..((((((((((((....))))))))))))(((((.(((..(((.((....)).))).....)))....(((((........))))).............)))))............. ( -25.10)
>consensus
UACUAAUUGAGACACUAAUGUAUUAAUUAGUGGAAGGGCUA__AAUGGGAUCGAUCUCUAAAGUUAAACAAAUCAUCACAUCGAUUUUAAAAUGAUUAUUCUC__UA_______UUUA
....((((((..(((((((......)))))))....((((......((......)).....))))...............))))))................................ ( -8.40 =  -7.88 +  -0.52)

alignment

secondary structure

dotplot

Window 1

Location	8,408,080 – 8,408,190
Length	110
Sequences	5
Columns	114
Reading direction	reverse
Mean pairwise identity	79.64
Mean single sequence MFE	-25.97
Consensus MFE	-9.84
Energy contribution	-9.24
Covariance contribution	-0.60
Combinations/Pair	1.19
Mean z-score	-2.24
Structure conservation index	0.38
SVM decision value	0.50
SVM RNA-class probability	0.761476
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8408080 110 - 20766785
CGACUAUACUUUAAUUUUGGUAGCAAUACUUUUGCUACUAUGUUCACCUUU--GGAGCUGA--ACUUUAUAAUGUACUAAUUGAGACACUAAUGUAUUAAUUAGUGGAAGGGCU
........((((.....(((((((((.....))))))))).(((((.((..--..)).)))--)).........((((((((((.(((....))).)))))))))))))).... ( -26.70)
>DroSec_CAF1 19574 110 - 1
CGACUUUACUUUCAUUUUGGUAUUAAUACUUUUGCGAUUAGUUUCACCUUU--GGAGCUGA--ACUUUAUAAUGUCCUAAUUGAGACACUAAUGUAUUAAUUAGUGGAAGGGCU
........((((((((.....((((((((........(((((((((....)--))))))))--.........(((((.....).)))).....)))))))).)))))))).... ( -23.60)
>DroSim_CAF1 19206 110 - 1
CGACUUUACUUUCAUUUUGGUAGUAAUACUUUUCAGAUUAGUUUCACCUUU--GGAGCUGA--ACUUUAUAAUGUACUAAUUGAGACACUAAUGUAUUAAUUAGUGGAAGGGCU
........(((((.(((..((((((.........((.(((((((((....)--))))))))--.))........)))).))..)))(((((((......))))))))))))... ( -26.13)
>DroEre_CAF1 21510 107 - 1
AGCCUACACUUUCAUUUUGGUAGU-AUACUUUAGCUAUUAGGUUCAGCUCUAAGCUGA-----AGUGUAUAAUG-ACUAAUUAAGACCCUAAUGUAUUAAUUAGGAGAACGGCU
((((....(((.....(((((.((-(((((((((((..((((......))))))))))-----)))))))....-)))))..)))..((((((......)))))).....)))) ( -31.00)
>DroYak_CAF1 19438 101 - 1
AGUCUAUACUUUCA-----------AUACUUUAGCUUUUAAGUUCACCUUU--GGUGACGAAUACUUUAUAAUGUACUAAUUGAAACACUAAUGUUUUAAUUAGGGGAACGGCG
..............-----------........(((.....((((.(((((--(....))))..............((((((((((((....))))))))))))))))))))). ( -22.40)
>consensus
CGACUAUACUUUCAUUUUGGUAGUAAUACUUUUGCUAUUAGGUUCACCUUU__GGAGCUGA__ACUUUAUAAUGUACUAAUUGAGACACUAAUGUAUUAAUUAGUGGAAGGGCU
.........................................((((.((.....)).....................((((((((.((......)).))))))))..)))).... ( -9.84 =  -9.24 +  -0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:39 2006