Locus 2992

Sequence ID	3L_DroMel_CAF1
Location	8,602,717 – 8,602,814
Length	97
Max. P	0.667511

overview

Window 4

Location	8,602,717 – 8,602,814
Length	97
Sequences	5
Columns	104
Reading direction	forward
Mean pairwise identity	88.02
Mean single sequence MFE	-30.08
Consensus MFE	-24.44
Energy contribution	-25.32
Covariance contribution	0.88
Combinations/Pair	1.13
Mean z-score	-1.54
Structure conservation index	0.81
SVM decision value	0.28
SVM RNA-class probability	0.667511
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8602717 97 + 23771897
UUUGACGAUUUGUCAUACGAAGGUGUCA---GAAAAUUGUCU----CGGGGAAAAGUUCCAGAACAGGUGACCUCCCCACGAUGAUGGGAGUUGGUCUAUUCUC
...((((((((...((((....))))..---..)))))))).----..(((((.((..((((....(....)(((((.........))))))))).)).))))) ( -26.70)
>DroSec_CAF1 2358 97 + 1
UUUGACGAUUUGUCAUACGAAGGUGUGA---GAAAAUUGUCU----CGGGGAAAAGUUCCAGAACAGGUGACCUCCCCACGAUGAUGAGAGUUGGUCUAUUCUC
...((((((((.((((((....))))))---..)))))))).----.(((((...(((((......)).))).)))))........((((((......)))))) ( -32.50)
>DroSim_CAF1 2403 97 + 1
UUUGACGAUUUGUCAUACGAAGGUGUGA---GAAAAUUGUCU----CGGGGAAAAGUUCCAGAACAGGUGACCUCCCCACGAUGAUGAGAGUUGGUCUAUUCUC
...((((((((.((((((....))))))---..)))))))).----.(((((...(((((......)).))).)))))........((((((......)))))) ( -32.50)
>DroEre_CAF1 2327 97 + 1
UUUGACGAUUUGUCAUACGAAAGUGUGG-GAGGAAGGUGCCU----CGGGAAAAAGUUCCAGAACAGGUGACCUCCCCGUG--GAUGAGAGUUGGUCUAUUCUG
.((.((.......(((((....)))))(-(.(((.(((((((----..((((....)))).....)))).)))))))))).--))..(((((......))))). ( -28.90)
>DroYak_CAF1 2401 102 + 1
UUUGACCAUUUGUCAUGCGAAGGUGUGAUGAGAUAGGUGUCUUUUUGGGGGAAAAGUUCCAGAACAGGUGACCUCCCCGUG--GCUGAGAGUUGGUCUAUUCUC
...(((((((..((((((....))))))..))......(((....((((((....(((....))).(....).)))))).)--)).......)))))....... ( -29.80)
>consensus
UUUGACGAUUUGUCAUACGAAGGUGUGA___GAAAAUUGUCU____CGGGGAAAAGUUCCAGAACAGGUGACCUCCCCACGAUGAUGAGAGUUGGUCUAUUCUC
...((((((((.((((((....)))))).....))))))))......(((((...(((((......)).))).)))))........((((((......)))))) (-24.44 = -25.32 +   0.88)

alignment

secondary structure

dotplot

Window 5

Location	8,602,717 – 8,602,814
Length	97
Sequences	5
Columns	104
Reading direction	reverse
Mean pairwise identity	88.02
Mean single sequence MFE	-22.92
Consensus MFE	-16.90
Energy contribution	-16.58
Covariance contribution	-0.32
Combinations/Pair	1.11
Mean z-score	-1.54
Structure conservation index	0.74
SVM decision value	-0.05
SVM RNA-class probability	0.507108
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8602717 97 - 23771897
GAGAAUAGACCAACUCCCAUCAUCGUGGGGAGGUCACCUGUUCUGGAACUUUUCCCCG----AGACAAUUUUC---UGACACCUUCGUAUGACAAAUCGUCAAA
((((((.((((...((((((....)))))).))))...(((..(((.........)))----..)))))))))---.............((((.....)))).. ( -23.80)
>DroSec_CAF1 2358 97 - 1
GAGAAUAGACCAACUCUCAUCAUCGUGGGGAGGUCACCUGUUCUGGAACUUUUCCCCG----AGACAAUUUUC---UCACACCUUCGUAUGACAAAUCGUCAAA
(((((..((((..(((.(......).)))..))))...(((..(((.........)))----..)))...)))---))...........((((.....)))).. ( -23.20)
>DroSim_CAF1 2403 97 - 1
GAGAAUAGACCAACUCUCAUCAUCGUGGGGAGGUCACCUGUUCUGGAACUUUUCCCCG----AGACAAUUUUC---UCACACCUUCGUAUGACAAAUCGUCAAA
(((((..((((..(((.(......).)))..))))...(((..(((.........)))----..)))...)))---))...........((((.....)))).. ( -23.20)
>DroEre_CAF1 2327 97 - 1
CAGAAUAGACCAACUCUCAUC--CACGGGGAGGUCACCUGUUCUGGAACUUUUUCCCG----AGGCACCUUCCUC-CCACACUUUCGUAUGACAAAUCGUCAAA
((((((((.....(((((...--....))))).....))))))))............(----(((......))))-.............((((.....)))).. ( -22.70)
>DroYak_CAF1 2401 102 - 1
GAGAAUAGACCAACUCUCAGC--CACGGGGAGGUCACCUGUUCUGGAACUUUUCCCCCAAAAAGACACCUAUCUCAUCACACCUUCGCAUGACAAAUGGUCAAA
.......(((((....(((((--...(((((((...((......))....))))))).....(((......)))............)).)))....)))))... ( -21.70)
>consensus
GAGAAUAGACCAACUCUCAUCAUCGUGGGGAGGUCACCUGUUCUGGAACUUUUCCCCG____AGACAAUUUUC___UCACACCUUCGUAUGACAAAUCGUCAAA
.(((((((.....(((((.........))))).....)))))))(((.....)))..................................((((.....)))).. (-16.90 = -16.58 +  -0.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:46:57 2006