Locus 5774

Sequence ID	3L_DroMel_CAF1
Location	15,654,963 – 15,655,094
Length	131
Max. P	0.744118

overview

Window 2

Location	15,654,963 – 15,655,068
Length	105
Sequences	6
Columns	105
Reading direction	reverse
Mean pairwise identity	96.00
Mean single sequence MFE	-28.15
Consensus MFE	-26.47
Energy contribution	-26.08
Covariance contribution	-0.39
Combinations/Pair	1.18
Mean z-score	-0.99
Structure conservation index	0.94
SVM decision value	0.46
SVM RNA-class probability	0.744118
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15654963 105 - 23771897
UAGCCAUCGUUGUUUGCGCCGCACAUUUGCGGCUUGAACUUGGACUUUGUUUGCUUUGCGUGUCCGCGAUUCAUUCAAAAACGGAUCUUGCCAUGUUGUUGACAC
.(((((.....(((((.((((((....)))))).))))).))).)).((((.((...(((((..((.(((((..........))))).)).))))).)).)))). ( -27.50)
>DroSec_CAF1 14749 105 - 1
UAGCCAUCGUUGUUUGCGCCGCACAUUUGCGGCUUGAACUUGGACUUUGUUUGCUUUGCGUGUCCACGAUUCAUUCAAAAACGGAUCUUGCCAUGUUGUUGACAC
.(((((.....(((((.((((((....)))))).))))).))).)).((((.((...(((((..((.(((((..........))))).)).))))).)).)))). ( -28.20)
>DroSim_CAF1 14688 105 - 1
UAGCCAUCGUUGUUUGCGCCGCACAUUUGCGGCUUGAACUUGGACUUUGUUUGCUUUGCGUGUCCACGAUUCAUUCAAAAACGGAUCUUGCCAUGUUGUUGACAC
.(((((.....(((((.((((((....)))))).))))).))).)).((((.((...(((((..((.(((((..........))))).)).))))).)).)))). ( -28.20)
>DroEre_CAF1 14919 105 - 1
UAGCCAUCGUUGUUUGCCUCGCACAUUUGCGGCUUGAACUUGGACUUUGUUUGCUUUGCGUGUCCACGAUUCAUUCAAAAACGGAUCUGGCCAUGUUGUUGACAC
.(((((.....(((((..(((((....)))))..))))).))).)).((((.((...(((((.(((.(((((..........)))))))).))))).)).)))). ( -26.10)
>DroYak_CAF1 14719 105 - 1
UAGCCAUCGUUGUUUGCGUCGCACAUUUGCGGCUUGAACUUGGACUUUGUUUGCUUUGCGUGUCCACGAUCCAUUCAAAAACGGAUCUUGCCAUGUUGUUGACAC
.(((((.....(((((.((((((....)))))).))))).))).)).((((.((...(((((..((.(((((..........))))).)).))))).)).)))). ( -28.40)
>DroAna_CAF1 74250 105 - 1
UGGCCAGAGAUGUUUACGCCGCACAUUUGCGGCUUGAACUUGGACUUUGUUUGCUUUGCGUGUCUACAAUUCAUUCAAAAACGGAUCUUGCCAUGUUGUUGACAC
((((.(((..(((((..((((((....)))))).((((..(((((..(((.......))).)))))...)))).....)))))..))).))))............ ( -30.50)
>consensus
UAGCCAUCGUUGUUUGCGCCGCACAUUUGCGGCUUGAACUUGGACUUUGUUUGCUUUGCGUGUCCACGAUUCAUUCAAAAACGGAUCUUGCCAUGUUGUUGACAC
.(((((.....(((((.((((((....)))))).))))).))).)).((((.((...(((((..((.(((((..........))))).)).))))).)).)))). (-26.47 = -26.08 +  -0.39)

alignment

secondary structure

dotplot

Window 3

Location	15,654,988 – 15,655,094
Length	106
Sequences	6
Columns	111
Reading direction	reverse
Mean pairwise identity	87.02
Mean single sequence MFE	-22.32
Consensus MFE	-20.19
Energy contribution	-20.05
Covariance contribution	-0.14
Combinations/Pair	1.17
Mean z-score	-1.31
Structure conservation index	0.90
SVM decision value	0.07
SVM RNA-class probability	0.571039
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15654988 106 - 23771897
UUGUUAUUCUUUA-----UUUUUGUAGAUUUUAGCCAUCGUUGUUUGCGCCGCACAUUUGCGGCUUGAACUUGGACUUUGUUUGCUUUGCGUGUCCGCGAUUCAUUCAAAA
.............-----.....((((((...(((((.....(((((.((((((....)))))).))))).))).))..)))))).(((((....)))))........... ( -25.90)
>DroSec_CAF1 14774 106 - 1
UCAUUAUUCUUUA-----UUUUUUUAGAUUUUAGCCAUCGUUGUUUGCGCCGCACAUUUGCGGCUUGAACUUGGACUUUGUUUGCUUUGCGUGUCCACGAUUCAUUCAAAA
.............-----..................(((((.(((((.((((((....)))))).)))))..((((..(((.......))).))))))))).......... ( -23.10)
>DroSim_CAF1 14713 106 - 1
UCAUUAUUCUUUA-----UUUUUGUAGAUUUUAGCCAUCGUUGUUUGCGCCGCACAUUUGCGGCUUGAACUUGGACUUUGUUUGCUUUGCGUGUCCACGAUUCAUUCAAAA
.............-----.....((((((...(((((.....(((((.((((((....)))))).))))).))).))..))))))((((.(((.........))).)))). ( -23.50)
>DroEre_CAF1 14944 102 - 1
UCGUUA---------UUUUUUUUGUAGAUUUUAGCCAUCGUUGUUUGCCUCGCACAUUUGCGGCUUGAACUUGGACUUUGUUUGCUUUGCGUGUCCACGAUUCAUUCAAAA
((((..---------........((((((...(((((.....(((((..(((((....)))))..))))).))).))..))))))...........))))........... ( -17.50)
>DroYak_CAF1 14744 111 - 1
UCGUUACUUUUUGUAUUUUUUGUGUAGAUUUUAGCCAUCGUUGUUUGCGUCGCACAUUUGCGGCUUGAACUUGGACUUUGUUUGCUUUGCGUGUCCACGAUCCAUUCAAAA
..((((...(((((((.....)))))))...)))).(((((.(((((.((((((....)))))).)))))..((((..(((.......))).))))))))).......... ( -22.40)
>DroAna_CAF1 74275 98 - 1
UUGU---UUUCGA-----UUUU-----AUUUUGGCCAGAGAUGUUUACGCCGCACAUUUGCGGCUUGAACUUGGACUUUGUUUGCUUUGCGUGUCUACAAUUCAUUCAAAA
....---......-----....-----.((((((...(((..(((((.((((((....)))))).))))).(((((..(((.......))).)))))...)))..)))))) ( -21.50)
>consensus
UCGUUAUUCUUUA_____UUUUUGUAGAUUUUAGCCAUCGUUGUUUGCGCCGCACAUUUGCGGCUUGAACUUGGACUUUGUUUGCUUUGCGUGUCCACGAUUCAUUCAAAA
....................................((((..(((((.((((((....)))))).))))).(((((..(((.......))).))))))))).......... (-20.19 = -20.05 +  -0.14)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:59:35 2006