Locus 7742

Sequence ID	X_DroMel_CAF1
Location	19,252,939 – 19,253,072
Length	133
Max. P	0.863870

overview

Window 6

Location	19,252,939 – 19,253,032
Length	93
Sequences	5
Columns	111
Reading direction	forward
Mean pairwise identity	89.82
Mean single sequence MFE	-28.58
Consensus MFE	-27.10
Energy contribution	-26.70
Covariance contribution	-0.40
Combinations/Pair	1.10
Mean z-score	-1.38
Structure conservation index	0.95
SVM decision value	0.84
SVM RNA-class probability	0.863870
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19252939 93 + 22224390
ACCGGUGACAUCACCAUCCGCCAUCAGUUCGGCGAUGGCCAAAACAAAAAUA------------------AACGUCGGAGUCUGGCAAUCGAUGGGCGCGCUGAACCGACA
...((((....))))....((((((........)))))).............------------------...((((((((.((.(........).)).)))...))))). ( -26.20)
>DroSec_CAF1 39624 93 + 1
ACCGGUGACAUCACCAUCCGCCAUCAGUUCGGCGAUGGCCAAAACAAAAAUA------------------AACGCUGGAGUCUGGCAAUCGAUGGGCGCGCUGAACCGACA
...((((....))))........((.((((((((.((.(((....(....).------------------...((..(...)..))......))).)))))))))).)).. ( -25.90)
>DroSim_CAF1 41064 93 + 1
ACCGGUGACAUCACCAUCCGCCAUCAGUUCGGCGAUGGCCAAAACAAAAAUA------------------AACGCUGGAGUCUGGCAAUCGAUGGGCGCGCUGAACCGACA
...((((....))))........((.((((((((.((.(((....(....).------------------...((..(...)..))......))).)))))))))).)).. ( -25.90)
>DroEre_CAF1 36982 93 + 1
ACCGGUGACAUCACCAUCCGCCAUCAGUUCGGCGAUGGCCAAAACAAAAUUA------------------AACGCCGGAGUCUGGCAAUCGAUGGGCGCGCUGAACCAGCA
...((((....))))...(((((((.....(((....)))............------------------...(((((...)))))....))).)))).((((...)))). ( -30.20)
>DroYak_CAF1 39079 111 + 1
ACCGGUGACAUCACCAUCCGCCAUCGGUACGGCGAUGGCCAAAACAAAAAUAAACGAAUAAACGAAUAUAAACGCCGGAGUCUGGCAAUCGAUGGGCGCGCUGAACCGACA
...((((....))))........(((((.(((((.((.(((.............((......)).........(((((...)))))......))).))))))).))))).. ( -34.70)
>consensus
ACCGGUGACAUCACCAUCCGCCAUCAGUUCGGCGAUGGCCAAAACAAAAAUA__________________AACGCCGGAGUCUGGCAAUCGAUGGGCGCGCUGAACCGACA
..(((((......(((((.((((((........))))))..................................(((((...)))))....)))))...)))))........ (-27.10 = -26.70 +  -0.40)

alignment

secondary structure

dotplot

Window 7

Location	19,252,970 – 19,253,072
Length	102
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	90.61
Mean single sequence MFE	-29.68
Consensus MFE	-26.16
Energy contribution	-26.20
Covariance contribution	0.04
Combinations/Pair	1.03
Mean z-score	-1.37
Structure conservation index	0.88
SVM decision value	0.50
SVM RNA-class probability	0.759336
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19252970 102 - 22224390
GGUGCCGCCAGAUUCUGAUUUCGUUCGUCAUUUUGAACUUUGUCGGUUCAGCGCGCCCAUCGAUUGCCAGACUCCGACGUU------------------UAUUUUUGUUUUGGCCAUCGC
(((((.((..((..(((((...(((((......)))))...))))).)).)))))))...((((.((((((.....(((..------------------......))))))))).)))). ( -29.70)
>DroSec_CAF1 39655 101 - 1
GGUGCCGCCAGAUUCUGAUUUCGUUCGUCAUU-UGAACUUUGUCGGUUCAGCGCGCCCAUCGAUUGCCAGACUCCAGCGUU------------------UAUUUUUGUUUUGGCCAUCGC
(((((.((..((..(((((...(((((.....-)))))...))))).)).)))))))...((((.((((((.....(((..------------------......))))))))).)))). ( -29.80)
>DroSim_CAF1 41095 101 - 1
GGUGCCGCCAGAUUCUGAUUUCGUUCGUCAUU-UGAACUUUGUCGGUUCAGCGCGCCCAUCGAUUGCCAGACUCCAGCGUU------------------UAUUUUUGUUUUGGCCAUCGC
(((((.((..((..(((((...(((((.....-)))))...))))).)).)))))))...((((.((((((.....(((..------------------......))))))))).)))). ( -29.80)
>DroEre_CAF1 37013 101 - 1
GGUGUCGCCAGAUUCUGAUUUCGUUCGUCAUU-UGAACUUUGCUGGUUCAGCGCGCCCAUCGAUUGCCAGACUCCGGCGUU------------------UAAUUUUGUUUUGGCCAUCGC
((((.(((.......((((.......))))..-((((((.....)))))))))))))...((((.((((((.....(((..------------------......))))))))).)))). ( -25.90)
>DroYak_CAF1 39110 119 - 1
GGUGCCGCCAGAUUCUGAUUUCGUUCGUCAUU-UGAACUUUGUCGGUUCAGCGCGCCCAUCGAUUGCCAGACUCCGGCGUUUAUAUUCGUUUAUUCGUUUAUUUUUGUUUUGGCCAUCGC
(((((.((..((..(((((...(((((.....-)))))...))))).)).)))))))...((((.((((((.....(((...(((..((......))..)))...))))))))).)))). ( -33.20)
>consensus
GGUGCCGCCAGAUUCUGAUUUCGUUCGUCAUU_UGAACUUUGUCGGUUCAGCGCGCCCAUCGAUUGCCAGACUCCGGCGUU__________________UAUUUUUGUUUUGGCCAUCGC
((((.(((..((..(((((...(((((......)))))...))))).)).)))))))...((((.(((((((..................................).)))))).)))). (-26.16 = -26.20 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:46:30 2006