Locus 7834

Sequence ID	3R_DroMel_CAF1
Location	20,985,136 – 20,985,333
Length	197
Max. P	0.998867

overview

Window 7

Location	20,985,136 – 20,985,234
Length	98
Sequences	3
Columns	106
Reading direction	reverse
Mean pairwise identity	84.08
Mean single sequence MFE	-40.33
Consensus MFE	-26.63
Energy contribution	-26.53
Covariance contribution	-0.10
Combinations/Pair	1.16
Mean z-score	-1.88
Structure conservation index	0.66
SVM decision value	-0.05
SVM RNA-class probability	0.508425
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20985136 98 - 27905053
CU--UCUGUUCCGUUCUGCCGGGGAAUCCCCAUCGCUGC---UGCUCCUGGUUGCGGGGGGG-GAGUG--UAAGCGGAAAAGGGAUGGCUAGAUAGAGGGAAGGAC
((--(((((((((((((.((((((...))))..((((.(---(.((((((....)))))).)-)))))--.....))....)))))))...))))))))....... ( -39.20)
>DroSec_CAF1 25707 100 - 1
CU--UCUGUUCCGUUCUGCCGGGGAAUCCCCAUCGCUGCUGCUGCUCCUGGUUGCGGGGG---GAGUG-GAAAGCGGAAAAGGGAUGGCUAGAUAGAGGGAAGGAC
((--(((((((((((((.((((((...))))...(((.(..((.((((((....))))))---.))..-)..)))))....)))))))...))))))))....... ( -43.30)
>DroYak_CAF1 26874 106 - 1
CUUUUCUGUUCCCUUCUGUCGGGGAAUCCCCAUCGCUGCUCCUGUUCCUGGUUGUGGAGGAGAAAGUGGGACUGUGGGAAUAGGAUGGCUAGAUAGAGGAAAGGAC
....(((.((((..((((((((((...))))...((((.((((((((((((((.(............).))))..))))))))))))))..)))))))))).))). ( -38.50)
>consensus
CU__UCUGUUCCGUUCUGCCGGGGAAUCCCCAUCGCUGCU_CUGCUCCUGGUUGCGGGGG_G_GAGUG_GAAAGCGGAAAAGGGAUGGCUAGAUAGAGGGAAGGAC
....(((.((((..((((((((((...)))).((((((((....((((((....))))))....))).....))))).........))).)))....)))).))). (-26.63 = -26.53 +  -0.10)

alignment

secondary structure

dotplot

Window 8

Location	20,985,234 – 20,985,333
Length	99
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	94.27
Mean single sequence MFE	-21.07
Consensus MFE	-19.48
Energy contribution	-19.32
Covariance contribution	-0.16
Combinations/Pair	1.12
Mean z-score	-2.07
Structure conservation index	0.92
SVM decision value	3.26
SVM RNA-class probability	0.998867
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20985234 99 + 27905053
UAAGCUCAUGAGCGAGCAGAAAUAAUAAAAGUUCAUGAAUAAAAAUCUGAAUGGGUGAAUACAAACAGAUAUCUGUUGCUUUUGGCUUUAAAAACCAGG-
.((((.((.((((.((((((..........(((....)))....(((((..((........))..))))).)))))))))).))))))...........- ( -20.30)
>DroSec_CAF1 25807 99 + 1
UAAGCUCAUGAGCGAGCAGAAAUAAUAAAAGUUCAUGAAUAAAAAUCUGAAUGGGUGAAUACAAACAGAUAUCUGUUGCUUUUGGCUUUAAAAAGCAGG-
.....((((((((.................))))))))......(((((..((........))..))))).....((((((((.......)))))))).- ( -20.63)
>DroEre_CAF1 27704 99 + 1
UAAGCUCAUGAGCGAGCAGAAAUAAUAAAAGUUCAUGAAUAAAAAUCUGAAUGGGUGAAUACAAACAGAUAUCUGUUGCUCUUGGCUUUAAAAACCAGG-
.((((.((.((((.((((((..........(((....)))....(((((..((........))..))))).)))))))))).))))))...........- ( -22.00)
>DroYak_CAF1 26980 100 + 1
UAAGCUCAUGAGCGAGCAGAAAUAAUAAAAGUUCAUGAAUAAAAAUCUGAAUGGGUGAAUACAAACAGAUAUCUGUUGCUUUUGGCUUUAAAAACCUGGC
.((((.((.((((.((((((..........(((....)))....(((((..((........))..))))).)))))))))).))))))............ ( -20.30)
>DroAna_CAF1 25647 96 + 1
UCAGCUCAUGAGCGAACACAAAUAAUAAAAGUUCAUGAAUAAAAAUUUGAAUGGGUGACUACAAACAGAUAUCUGUUGCUCUUGGCUUUAAAGCCC----
..(((((((((((.................)))))))).............(((....)))..(((((....))))))))...((((....)))).---- ( -22.13)
>consensus
UAAGCUCAUGAGCGAGCAGAAAUAAUAAAAGUUCAUGAAUAAAAAUCUGAAUGGGUGAAUACAAACAGAUAUCUGUUGCUUUUGGCUUUAAAAACCAGG_
.((((.((.((((.((((((..........(((....)))....(((((..((........))..))))).)))))))))).))))))............ (-19.48 = -19.32 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:55:55 2006