Locus 5456

Sequence ID	X_DroMel_CAF1
Location	14,194,033 – 14,194,180
Length	147
Max. P	0.996887

overview

Window 5

Location	14,194,033 – 14,194,144
Length	111
Sequences	5
Columns	113
Reading direction	reverse
Mean pairwise identity	86.06
Mean single sequence MFE	-28.14
Consensus MFE	-23.32
Energy contribution	-22.52
Covariance contribution	-0.80
Combinations/Pair	1.30
Mean z-score	-1.76
Structure conservation index	0.83
SVM decision value	0.69
SVM RNA-class probability	0.824242
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14194033 111 - 22224390
AUCUGGGCUUUCACAAUAGAUGCAAUCCACAUGAUCGCUGCUUACAUUUUGAGCAGCAAAAUCAUGACUUAAUAAUGCCAUUUUCU-CCAUGUACUCGUGGA-UCCAUGGUAG
...(((((..((......)).))...)))((((((.((((((((.....))))))))...)))))).........((((((....(-(((((....))))))-...)))))). ( -32.20)
>DroSec_CAF1 104290 113 - 1
AUCUGGGCUUUCAGAAGAGAUGCAAUCCAUAUGAUCGCUGCUUACAUCUUGAGCAGCAAAAUCAUGACGUAAUAAUGCCAUUUUCUCCCAUGUACUCGUGGACUCCAUGGAAG
.......((((((((..(((((.......((((((.((((((((.....))))))))...))))))..(((....))))))))..))(((((....)))))......)))))) ( -28.60)
>DroSim_CAF1 81865 113 - 1
AUCUGGGCUUUCAGUAGAGAUGCAAUCCACAUGAUCGCUGCUUACAUCUUGAGCAGCAAAAUCAUGACUUAAUAAUGCCAUUUUCUUCCAUGUACUGGUGGACUCCAUGGAAG
...(((((((((....)))).))......((((((.((((((((.....))))))))...))))))...........)))....((((((((....(.....)..)))))))) ( -31.70)
>DroEre_CAF1 93432 103 - 1
-------UCUUUGAAGUAGAUGCCAUCCACAUGAUCGCUGCUCGCAUCUUGAGUGGCAAAAUCAUGACCUAAUAAUGCCUUUUUCU-CCAUGUACUUGUGGAC--CAUGGAAG
-------..................((((((((((.((..((((.....))))..))...))))))...................(-((((......))))).--..)))).. ( -24.00)
>DroYak_CAF1 95242 111 - 1
AUCUGGCUUUUUAAAAUAGAUGCAAUUCACAUGAUCGCUGCUUACAUCUUGAGUAGCAAAAUCAUGACUUAAUAAUGCCUUUUUCG-CCAUGUACUUGUGGAC-CCAUGGAAG
....(((...((((....((......)).((((((.((((((((.....))))))))...))))))..))))....))).......-(((((..(....)...-.)))))... ( -24.20)
>consensus
AUCUGGGCUUUCAAAAUAGAUGCAAUCCACAUGAUCGCUGCUUACAUCUUGAGCAGCAAAAUCAUGACUUAAUAAUGCCAUUUUCU_CCAUGUACUCGUGGACUCCAUGGAAG
.........................((((((((((.((((((((.....))))))))...)))))).....................(((((....)))))......)))).. (-23.32 = -22.52 +  -0.80)

alignment

secondary structure

dotplot

Window 6

Location	14,194,064 – 14,194,180
Length	116
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	78.98
Mean single sequence MFE	-31.12
Consensus MFE	-21.26
Energy contribution	-21.74
Covariance contribution	0.48
Combinations/Pair	1.27
Mean z-score	-2.86
Structure conservation index	0.68
SVM decision value	2.76
SVM RNA-class probability	0.996887
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14194064 116 - 22224390
UC--AUA--AGUAGCUCAGAGAGAUAGAGAGUCCAGACUCAUCUGGGCUUUCACAAUAGAUGCAAUCCACAUGAUCGCUGCUUACAUUUUGAGCAGCAAAAUCAUGACUUAAUAAUGCCA
..--.((--(((.((((.....))..(((((((((((....))))))))))).........))......((((((.((((((((.....))))))))...)))))))))))......... ( -37.20)
>DroSec_CAF1 104323 112 - 1
UC--AUA--AGCAGCUCAGUGA----GAGAGUACAGACUCAUCUGGGCUUUCAGAAGAGAUGCAAUCCAUAUGAUCGCUGCUUACAUCUUGAGCAGCAAAAUCAUGACGUAAUAAUGCCA
..--...--.(((.(((..(..----(((((..((((....))))..))))).)..))).)))......((((((.((((((((.....))))))))...)))))).............. ( -32.50)
>DroSim_CAF1 81898 112 - 1
UC--AUA--AGUAACUCAGUGA----GAGAGUACAGACUCAUCUGGGCUUUCAGUAGAGAUGCAAUCCACAUGAUCGCUGCUUACAUCUUGAGCAGCAAAAUCAUGACUUAAUAAUGCCA
..--.((--(((..((((.(((----(((....((((....))))..)))))).).)))..........((((((.((((((((.....))))))))...)))))))))))......... ( -33.70)
>DroEre_CAF1 93462 105 - 1
UUAAGUACGAGUAUCUCAGCGG------GCAUACGCUA---------UCUUUGAAGUAGAUGCCAUCCACAUGAUCGCUGCUCGCAUCUUGAGUGGCAAAAUCAUGACCUAAUAAUGCCU
........(((...))).((((------((((..(((.---------.......)))..))))).....((((((.((..((((.....))))..))...)))))).........))).. ( -27.30)
>DroYak_CAF1 95273 112 - 1
UUUAAUA--AGUAGCUCAGCGA------GAAUACAGAUUCAUCUGGCUUUUUAAAAUAGAUGCAAUUCACAUGAUCGCUGCUUACAUCUUGAGUAGCAAAAUCAUGACUUAAUAAUGCCU
.(((.((--(((..........------((((.((((....))))((.(((......))).)).)))).((((((.((((((((.....))))))))...))))))))))).)))..... ( -24.90)
>consensus
UC__AUA__AGUAGCUCAGCGA____GAGAGUACAGACUCAUCUGGGCUUUCAAAAUAGAUGCAAUCCACAUGAUCGCUGCUUACAUCUUGAGCAGCAAAAUCAUGACUUAAUAAUGCCA
..........(((.............((((((.(((......))).)))))).................((((((.((((((((.....))))))))...)))))).........))).. (-21.26 = -21.74 +   0.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:18 2006