Locus 1333

Sequence ID	X_DroMel_CAF1
Location	3,990,179 – 3,990,291
Length	112
Max. P	0.939207

overview

Window 6

Location	3,990,179 – 3,990,291
Length	112
Sequences	6
Columns	112
Reading direction	forward
Mean pairwise identity	67.50
Mean single sequence MFE	-31.02
Consensus MFE	-15.26
Energy contribution	-16.35
Covariance contribution	1.09
Combinations/Pair	1.45
Mean z-score	-1.89
Structure conservation index	0.49
SVM decision value	1.30
SVM RNA-class probability	0.939207
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3990179 112 + 22224390
CUCGAAAUCUGGCUUAGGUUUUGCUUCUAUUCUUCGGGCGAGAAGAACCCGUUUGUCAACGGCAUUCAGGUGGAUGUGGAUUCCACAGCCCACUUAAAUAUGCCAUCAUAUU
...((....((((...((.....(((((..((....))..)))))...))....))))..(((((..((((((.(((((...)))))..))))))....))))).))..... ( -34.00)
>DroSec_CAF1 12312 112 + 1
CUCGAAAUCUGGCUUAGGUUUUGCUUCUUUUCUUCGGGCAAGAAAAACCCGUUUGUCAACGGCAUUCAGGUGGAUGUGGAUUCCACAGCCCACUUAAAUAUGCCAUCAUAUU
...((....((((...((((((...((((.((....)).)))))))))).....))))..(((((..((((((.(((((...)))))..))))))....))))).))..... ( -33.80)
>DroSim_CAF1 10148 112 + 1
CUCGAAAUCUGGCUUAGGUUUUGCUUCUUUUCUUCGGGCGAGAAGAACCCGUUUGUCAACGGCAUUCAGGUGGAUGUGGAUUCCACAGCCCACUUAAAUAUGCCAUCAUAUU
...((....((((...((.....((((((.((....)).))))))...))....))))..(((((..((((((.(((((...)))))..))))))....))))).))..... ( -36.00)
>DroEre_CAF1 10098 109 + 1
UCCCAAAUCUGGCUUCGGUUUUGCUUCUUU---UCAGGAAAGAAGAACCCGUUUGUCAACGGCUUUCAGGUGGAAGUGGAUCCCACAGCCCACUUCAAUAUGCCAUCAUAUU
.........((((..(((.....(((((((---(...))))))))...)))...))))..(((.((.((((((..((((...))))...)))))).))...)))........ ( -29.30)
>DroYak_CAF1 10120 109 + 1
CUCCAAAUCUUGACUAAGUUUUGCUUCUUU---UCGGGCUAGAAAAACCCGUUUGUCAACGGCUUUCAGGUGGAAGUGGAUUCCACAGCCCACUUAAAUAUGCCAUCAUAUU
...((((.(((....))).)))).......---..(((((.((((...(((((....))))).))))..((((((.....))))))))))).....((((((....)))))) ( -26.50)
>DroPer_CAF1 17936 112 + 1
AGCUUCACAGGUACAGUUGUUUUCAAAGGCUGAGACAGAUGAGAGUGAGUCCAGGGCCAAAAAUGGGUCGCUGUUGCAUUGGAAUAUAAUUUUGCAUUCAAAGCGGAAAUUG
.((((.....(((.((((((((((((...(((.(((..((....))..))))))((((.......))))((....)).)))))).)))))).))).....))))........ ( -26.50)
>consensus
CUCGAAAUCUGGCUUAGGUUUUGCUUCUUUUCUUCGGGCAAGAAGAACCCGUUUGUCAACGGCAUUCAGGUGGAUGUGGAUUCCACAGCCCACUUAAAUAUGCCAUCAUAUU
.........((((...((((((.((((((......))).))).)))))).....))))..(((((..((((((..((((...))))...))))))....)))))........ (-15.26 = -16.35 +   1.09)

alignment

secondary structure

dotplot

Window 7

Location	3,990,179 – 3,990,291
Length	112
Sequences	6
Columns	112
Reading direction	reverse
Mean pairwise identity	67.50
Mean single sequence MFE	-29.17
Consensus MFE	-14.18
Energy contribution	-16.77
Covariance contribution	2.59
Combinations/Pair	1.25
Mean z-score	-1.49
Structure conservation index	0.49
SVM decision value	0.21
SVM RNA-class probability	0.634274
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3990179 112 - 22224390
AAUAUGAUGGCAUAUUUAAGUGGGCUGUGGAAUCCACAUCCACCUGAAUGCCGUUGACAAACGGGUUCUUCUCGCCCGAAGAAUAGAAGCAAAACCUAAGCCAGAUUUCGAG
.......((((.((((((.(((((.(((((...)))))))))).))))))(((((....)))))(((((((......)))))))...............))))......... ( -34.30)
>DroSec_CAF1 12312 112 - 1
AAUAUGAUGGCAUAUUUAAGUGGGCUGUGGAAUCCACAUCCACCUGAAUGCCGUUGACAAACGGGUUUUUCUUGCCCGAAGAAAAGAAGCAAAACCUAAGCCAGAUUUCGAG
.....((((((((..(((.(((((.(((((...)))))))))).)))))))))))......(((((.......)))))..((((....((.........))....))))... ( -32.10)
>DroSim_CAF1 10148 112 - 1
AAUAUGAUGGCAUAUUUAAGUGGGCUGUGGAAUCCACAUCCACCUGAAUGCCGUUGACAAACGGGUUCUUCUCGCCCGAAGAAAAGAAGCAAAACCUAAGCCAGAUUUCGAG
.......((((.((((((.(((((.(((((...)))))))))).))))))(((((....))))).((((((......))))))................))))......... ( -32.80)
>DroEre_CAF1 10098 109 - 1
AAUAUGAUGGCAUAUUGAAGUGGGCUGUGGGAUCCACUUCCACCUGAAAGCCGUUGACAAACGGGUUCUUCUUUCCUGA---AAAGAAGCAAAACCGAAGCCAGAUUUGGGA
((((((....))))))(((((((((.....).))))))))..((..((...((((....))))(((((((((((.....---)))))))...)))).........))..)). ( -29.10)
>DroYak_CAF1 10120 109 - 1
AAUAUGAUGGCAUAUUUAAGUGGGCUGUGGAAUCCACUUCCACCUGAAAGCCGUUGACAAACGGGUUUUUCUAGCCCGA---AAAGAAGCAAAACUUAGUCAAGAUUUGGAG
.....((((((...((((.(((((..((((...)))).))))).)))).))))))(((...((((((.....)))))).---....(((.....))).)))........... ( -30.40)
>DroPer_CAF1 17936 112 - 1
CAAUUUCCGCUUUGAAUGCAAAAUUAUAUUCCAAUGCAACAGCGACCCAUUUUUGGCCCUGGACUCACUCUCAUCUGUCUCAGCCUUUGAAAACAACUGUACCUGUGAAGCU
........(((((...((((..............))))((((.(.....((((.(((...((((............))))..)))...))))((....)).)))))))))). ( -16.34)
>consensus
AAUAUGAUGGCAUAUUUAAGUGGGCUGUGGAAUCCACAUCCACCUGAAAGCCGUUGACAAACGGGUUCUUCUAGCCCGAAGAAAAGAAGCAAAACCUAAGCCAGAUUUCGAG
.....(((((((..((((.((((...((((...))))..)))).)))))))))))......(((((.......))))).................................. (-14.18 = -16.77 +   2.59)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:06:46 2006