Locus 3038

Sequence ID	2R_DroMel_CAF1
Location	10,481,335 – 10,481,483
Length	148
Max. P	0.859298

overview

Window 3

Location	10,481,335 – 10,481,452
Length	117
Sequences	5
Columns	118
Reading direction	forward
Mean pairwise identity	96.09
Mean single sequence MFE	-26.98
Consensus MFE	-24.28
Energy contribution	-24.88
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-1.21
Structure conservation index	0.90
SVM decision value	0.14
SVM RNA-class probability	0.603554
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10481335 117 + 20766785
UAAUCCU-UGCAGGUUCGCGUGAUUUUAUUGCAGACAAACUACUGCCAUGUGGGGUCAUGUCCUGUCAUCUCUGACAUUAUAAGUGUCUAAUCAAACUUGAAAAGUAUCCACAAUUUU
.......-.(((((...((((((((((((.((((........))))...))))))))))))))))).......(((((.....))))).............................. ( -25.90)
>DroSec_CAF1 84716 118 + 1
UGAUCCUUUGCAGGUUCGCGUGAUUUUAUUGCAGACAACGUACUGCCAUGUGGGGUCAUGUCCUGUCAUCUCUGACAUUAUAAGUGUCUAAUCAAACUUGAAAAGUAUCCACAAUUUU
.(((.((((.((((((.((((((((((((.((((........))))...))))))))))))............(((((.....)))))......)))))).)))).)))......... ( -28.90)
>DroSim_CAF1 85272 118 + 1
UGAUCCUUUGCAGGUUCGCGUGAUUUUAUUGCAGACAACCUACUGCCAUGUGGGGUCAUGUCCUGUCAUCUCUGACAUUAUAAGUGUCUAAUCAAACUAGAAAAGUAUCCACAAUUUU
.(((.(((((((((...((((((((((((.((((........))))...))))))))))))))))).......(((((.....))))).............)))).)))......... ( -28.90)
>DroEre_CAF1 82625 117 + 1
CGAUCCU-UCCAGGUUCGCGUGAUUUUAUUGCAGACAAACUACUGCCAUGUGGGGUCAUGUCUUGUCAUCUCUGACAUUAUAAGUGUCUAAUCAAACUUGAAAAGUAUCCACAAUUUU
.(((.((-(.((((((.((((((((((((.((((........))))...))))))))))))............(((((.....)))))......))))))..))).)))......... ( -26.30)
>DroYak_CAF1 86035 117 + 1
CGAUCGU-UCCAGGUUCGCGUGAUUUUAUUGCAGACAAACUACUGCCAUGUGGGGUCAUGUCUUGUCAUCUCUGACAUUAUAAGUGUCUAAUCAAACUUGAAAAGUAUCCACAAUUUU
.((((..-..((((((.((((((((((((.((((........))))...))))))))))))............(((((.....)))))......))))))....).)))......... ( -24.90)
>consensus
UGAUCCU_UGCAGGUUCGCGUGAUUUUAUUGCAGACAAACUACUGCCAUGUGGGGUCAUGUCCUGUCAUCUCUGACAUUAUAAGUGUCUAAUCAAACUUGAAAAGUAUCCACAAUUUU
.(((.((...((((((.((((((((((((.((((........))))...))))))))))))............(((((.....)))))......))))))...)).)))......... (-24.28 = -24.88 +   0.60)

alignment

secondary structure

dotplot

Window 4

Location	10,481,374 – 10,481,483
Length	109
Sequences	5
Columns	109
Reading direction	reverse
Mean pairwise identity	99.08
Mean single sequence MFE	-26.24
Consensus MFE	-26.00
Energy contribution	-26.00
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.41
Structure conservation index	0.99
SVM decision value	0.82
SVM RNA-class probability	0.859298
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10481374 109 - 20766785
AGGCAAGGGAGAUAAGUGGGAGGUACACAGGAAAAUUGUGGAUACUUUUCAAGUUUGAUUAGACACUUAUAAUGUCAGAGAUGACAGGACAUGACCCCACAUGGCAGUA
.(.((.(((..(((((((..((((((((((.....)))))..)))))..)..(((......)))))))))..(((((....))))).........)))...)).).... ( -26.10)
>DroSec_CAF1 84756 109 - 1
AGGCAAGGGAGAUAAGUGGGAGGUACACAGGAAAAUUGUGGAUACUUUUCAAGUUUGAUUAGACACUUAUAAUGUCAGAGAUGACAGGACAUGACCCCACAUGGCAGUA
.(.((.(((..(((((((..((((((((((.....)))))..)))))..)..(((......)))))))))..(((((....))))).........)))...)).).... ( -26.10)
>DroSim_CAF1 85312 109 - 1
AGGCAAGGGAGAUAAGUGGGAGGUACACAGGAAAAUUGUGGAUACUUUUCUAGUUUGAUUAGACACUUAUAAUGUCAGAGAUGACAGGACAUGACCCCACAUGGCAGUA
.(.((.(((..(((((((.(((((((((((.....)))))..))))))((((((...)))))))))))))..(((((....))))).........)))...)).).... ( -26.80)
>DroEre_CAF1 82664 109 - 1
AGGCAAGGGAGAUAAGUGGGAGGUACACAGGAAAAUUGUGGAUACUUUUCAAGUUUGAUUAGACACUUAUAAUGUCAGAGAUGACAAGACAUGACCCCACAUGGCAGUA
.(.((.(((..(((((((..((((((((((.....)))))..)))))..)..(((......)))))))))..(((((....))))).........)))...)).).... ( -26.10)
>DroYak_CAF1 86074 109 - 1
AGGCAAGGGAGAUAAGUGGGAGGUACACAGGAAAAUUGUGGAUACUUUUCAAGUUUGAUUAGACACUUAUAAUGUCAGAGAUGACAAGACAUGACCCCACAUGGCAGUA
.(.((.(((..(((((((..((((((((((.....)))))..)))))..)..(((......)))))))))..(((((....))))).........)))...)).).... ( -26.10)
>consensus
AGGCAAGGGAGAUAAGUGGGAGGUACACAGGAAAAUUGUGGAUACUUUUCAAGUUUGAUUAGACACUUAUAAUGUCAGAGAUGACAGGACAUGACCCCACAUGGCAGUA
.(.((.(((..(((((((..((((((((((.....)))))..)))))..)..(((......)))))))))..(((((....))))).........)))...)).).... (-26.00 = -26.00 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:45:45 2006