Locus 5031

Sequence ID	2R_DroMel_CAF1
Location	16,342,490 – 16,342,601
Length	111
Max. P	0.925741

overview

Window 6

Location	16,342,490 – 16,342,601
Length	111
Sequences	4
Columns	111
Reading direction	forward
Mean pairwise identity	83.93
Mean single sequence MFE	-24.08
Consensus MFE	-18.38
Energy contribution	-19.75
Covariance contribution	1.38
Combinations/Pair	1.05
Mean z-score	-2.15
Structure conservation index	0.76
SVM decision value	1.17
SVM RNA-class probability	0.925741
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16342490 111 + 20766785
GUAUUCGAGGUGGCGAAAGCCAACUUCUUCAAAUGCAUAAGCUGAUUAAAAUGUAAGAGACCAACCAAAACAUUCAAAGAAACUUAAAAAUCUUCUUUUAGAAAUGUUUUU
(((((.((((((((....))))....)))).)))))..............................(((((((((((((((...........))))))..).)))))))). ( -20.80)
>DroSec_CAF1 12448 106 + 1
GUAUUCGGGGUGGCGAAAGCCAACCUCUUCGAAUGCAUAA-----UUAACAUGUAUAUGACCAACAAAAACACUCAAAGAAACUUAAAUGUUUUCUUUUACAAAAGUAUUU
((((((((((((((....))).))))...)))))))....-----......((((..((.....)).........((((((((......).)))))))))))......... ( -23.60)
>DroSim_CAF1 13824 111 + 1
GUAGUCGGGGUGGCGAAAGCCAACCUCUUCGAAUGCAUAAUAUGAUUAACAUGUAUAUGACCAACAAAAACACUCAAAGAAACUUAAAUGUUUUCUUUUACAAAAGUAUUU
((((((((((((((....))).))))).....((((((..((....))..))))))..)))..............((((((((......).)))))))))).......... ( -24.30)
>DroYak_CAF1 16269 111 + 1
GUAUUCGGGGUGGCGAAAGCCAAUUUCUGCGAAUGCAUAAGCUGAUUAAAGGGUAUAUGACAUAGCAAAACAUUCACAGAAACUUAAAUGGUUUCUUCUACAGAAGUAUUC
(((((((.((((((....))))....)).)))))))(((..(((.......(.(((.....))).)...........(((((((.....)))))))....)))...))).. ( -27.60)
>consensus
GUAUUCGGGGUGGCGAAAGCCAACCUCUUCGAAUGCAUAAGCUGAUUAAAAUGUAUAUGACCAACAAAAACACUCAAAGAAACUUAAAUGUUUUCUUUUACAAAAGUAUUU
((((((((((((((....))))....)))))))))).......................................(((((((.........)))))))............. (-18.38 = -19.75 +   1.38)

alignment

secondary structure

dotplot

Window 7

Location	16,342,490 – 16,342,601
Length	111
Sequences	4
Columns	111
Reading direction	reverse
Mean pairwise identity	83.93
Mean single sequence MFE	-24.99
Consensus MFE	-18.03
Energy contribution	-16.66
Covariance contribution	-1.37
Combinations/Pair	1.29
Mean z-score	-1.97
Structure conservation index	0.72
SVM decision value	0.75
SVM RNA-class probability	0.841583
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16342490 111 - 20766785
AAAAACAUUUCUAAAAGAAGAUUUUUAAGUUUCUUUGAAUGUUUUGGUUGGUCUCUUACAUUUUAAUCAGCUUAUGCAUUUGAAGAAGUUGGCUUUCGCCACCUCGAAUAC
.......((((.....))))...((..((((((((..(((((...(((((((.............)))))))...)))))..)))))).((((....)))).))..))... ( -23.82)
>DroSec_CAF1 12448 106 - 1
AAAUACUUUUGUAAAAGAAAACAUUUAAGUUUCUUUGAGUGUUUUUGUUGGUCAUAUACAUGUUAA-----UUAUGCAUUCGAAGAGGUUGGCUUUCGCCACCCCGAAUAC
....((((.(((........)))...)))).(((((((((((....(((((.(((....)))))))-----)...)))))))))))((.((((....)))).))....... ( -24.60)
>DroSim_CAF1 13824 111 - 1
AAAUACUUUUGUAAAAGAAAACAUUUAAGUUUCUUUGAGUGUUUUUGUUGGUCAUAUACAUGUUAAUCAUAUUAUGCAUUCGAAGAGGUUGGCUUUCGCCACCCCGACUAC
...(((....)))...(((((((((((((....)))))))))))))(((((.((((...(((.....)))..))))..........(((.(((....)))))))))))... ( -23.90)
>DroYak_CAF1 16269 111 - 1
GAAUACUUCUGUAGAAGAAACCAUUUAAGUUUCUGUGAAUGUUUUGCUAUGUCAUAUACCCUUUAAUCAGCUUAUGCAUUCGCAGAAAUUGGCUUUCGCCACCCCGAAUAC
.....((((....))))..........(((((((((((((((...(((((...............)).)))....)))))))))))))))(((....)))........... ( -27.66)
>consensus
AAAUACUUUUGUAAAAGAAAACAUUUAAGUUUCUUUGAAUGUUUUGGUUGGUCAUAUACAUGUUAAUCAGCUUAUGCAUUCGAAGAAGUUGGCUUUCGCCACCCCGAAUAC
.....((((....))))............(((((((((((((.................................))))))))))))).((((....)))).......... (-18.03 = -16.66 +  -1.37)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:50 2006