Locus 7656

Sequence ID	3L_DroMel_CAF1
Location	20,568,943 – 20,569,062
Length	119
Max. P	0.929106

overview

Window 3

Location	20,568,943 – 20,569,062
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	90.70
Mean single sequence MFE	-40.32
Consensus MFE	-31.82
Energy contribution	-32.82
Covariance contribution	1.00
Combinations/Pair	1.09
Mean z-score	-2.05
Structure conservation index	0.79
SVM decision value	1.20
SVM RNA-class probability	0.929106
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20568943 119 + 23771897
AUCCAAUCCGCUGGCCAGCGGACAAGUGAAAAUCUCUGGACCGACUGGAAGAUGAAUGGAAAUUGCUGCCUAAAUGGCAGCGGACAUGAUCG-AGCCGAUCAUCACUCCACCUCCUGGCA
.((((.((..((..(((((((...((.(.....).))...))).)))).))..)).))))....((((((.....))))))(((.(((((((-...)))))))...))).((....)).. ( -41.50)
>DroSec_CAF1 13718 119 + 1
AUCCAAUCCGCUGGCCAGCGGACAAGUGAAAAUCUGUGGACCGACUGGAAGAUGAAUGAAAAUUGCUGCCUAAAUGGCAGCGGACAUGAUCG-AGCCGAUCAUCACUCCACCUCCUGGCA
.((((.((((((....))))))((..(....)..))))))(((...((................((((((.....))))))(((.(((((((-...)))))))...))).))...))).. ( -39.50)
>DroAna_CAF1 34747 116 + 1
-UUCAUUCGAUCGGCCAGCGGACAAGUGAAAAUCUUCGGGUUGCCUCGAUGAUGAAUGAAAAUUGCUGCUUAAAUGGCAUCGGACAUGAUCGUAGCCGAUCAUCAGUC---CUCCUGGCA
-............(((((.((((..((((.((((....))))((..((((.(((..(((....((((........)))))))..))).))))..))...))))..)))---)..))))). ( -37.30)
>DroSim_CAF1 7380 119 + 1
AUCCAAUCCGCUGGCCAGCGGACAAGUGAAAAUCUGUGGACCGACUGGAAGAUGAAUGGAAAUUGCUGCCUAAAUGGCAGCGGACAUGAUCG-AGCCGAUCAUCACUCCACCUCCUGGCA
.((((.((..((..((((((((((..(....)..)))...))).)))).))..)).))))....((((((.....))))))(((.(((((((-...)))))))...))).((....)).. ( -41.90)
>DroEre_CAF1 7243 119 + 1
AUGCAAUCCGCUGGCCAGCGGACAAGUGAAAAUCUCUGGGCCGACUGGAAGAUGAAUGGAAAUGGCUGCCUAAAUGGCAGCGGACAUGAUCG-AGCCGAUCGUCACUCCACCUCCUGGCA
.(((..((((((....))))))((.......(((((..(.....)..).))))....(((....((((((.....))))))(((.(((((((-...)))))))...)))...)))))))) ( -41.40)
>consensus
AUCCAAUCCGCUGGCCAGCGGACAAGUGAAAAUCUCUGGACCGACUGGAAGAUGAAUGGAAAUUGCUGCCUAAAUGGCAGCGGACAUGAUCG_AGCCGAUCAUCACUCCACCUCCUGGCA
.............(((((.((...(((((..((((((((.....))))).))).........((((((((.....))))))))...((((((....)))))))))))...))..))))). (-31.82 = -32.82 +   1.00)

alignment

secondary structure

dotplot

Window 4

Location	20,568,943 – 20,569,062
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	90.70
Mean single sequence MFE	-41.80
Consensus MFE	-33.64
Energy contribution	-35.40
Covariance contribution	1.76
Combinations/Pair	1.09
Mean z-score	-1.83
Structure conservation index	0.80
SVM decision value	0.98
SVM RNA-class probability	0.895050
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20568943 119 - 23771897
UGCCAGGAGGUGGAGUGAUGAUCGGCU-CGAUCAUGUCCGCUGCCAUUUAGGCAGCAAUUUCCAUUCAUCUUCCAGUCGGUCCAGAGAUUUUCACUUGUCCGCUGGCCAGCGGAUUGGAU
.....(((((..((((((((((((...-)))))))....((((((.....))))))......)))))..))))).....((((((((.......)))(((((((....)))))))))))) ( -45.80)
>DroSec_CAF1 13718 119 - 1
UGCCAGGAGGUGGAGUGAUGAUCGGCU-CGAUCAUGUCCGCUGCCAUUUAGGCAGCAAUUUUCAUUCAUCUUCCAGUCGGUCCACAGAUUUUCACUUGUCCGCUGGCCAGCGGAUUGGAU
.....(((((..((((((((((((...-)))))).....((((((.....)))))).....))))))..))))).....(((((.............(((((((....)))))))))))) ( -44.81)
>DroAna_CAF1 34747 116 - 1
UGCCAGGAG---GACUGAUGAUCGGCUACGAUCAUGUCCGAUGCCAUUUAAGCAGCAAUUUUCAUUCAUCAUCGAGGCAACCCGAAGAUUUUCACUUGUCCGCUGGCCGAUCGAAUGAA-
.(((((..(---(((..(((((((....)))))))....(((((.......))).............(((.(((.(....).))).)))..))....)))).)))))............- ( -31.70)
>DroSim_CAF1 7380 119 - 1
UGCCAGGAGGUGGAGUGAUGAUCGGCU-CGAUCAUGUCCGCUGCCAUUUAGGCAGCAAUUUCCAUUCAUCUUCCAGUCGGUCCACAGAUUUUCACUUGUCCGCUGGCCAGCGGAUUGGAU
.....(((((..((((((((((((...-)))))))....((((((.....))))))......)))))..))))).....(((((.............(((((((....)))))))))))) ( -44.81)
>DroEre_CAF1 7243 119 - 1
UGCCAGGAGGUGGAGUGACGAUCGGCU-CGAUCAUGUCCGCUGCCAUUUAGGCAGCCAUUUCCAUUCAUCUUCCAGUCGGCCCAGAGAUUUUCACUUGUCCGCUGGCCAGCGGAUUGCAU
(((..(((((((..(.((((((((...-)))))..))))((((((.....)))))))))))))........(((.((.((((.((.(((........)))..)))))).)))))..))). ( -41.90)
>consensus
UGCCAGGAGGUGGAGUGAUGAUCGGCU_CGAUCAUGUCCGCUGCCAUUUAGGCAGCAAUUUCCAUUCAUCUUCCAGUCGGUCCACAGAUUUUCACUUGUCCGCUGGCCAGCGGAUUGGAU
.....(((((..((((((((((((....)))))))....((((((.....))))))......)))))..)))))................((((...(((((((....))))))))))). (-33.64 = -35.40 +   1.76)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:52:56 2006