Locus 8576

Sequence ID	3L_DroMel_CAF1
Location	22,359,486 – 22,359,590
Length	104
Max. P	0.847387

overview

Window 3

Location	22,359,486 – 22,359,590
Length	104
Sequences	5
Columns	104
Reading direction	forward
Mean pairwise identity	96.61
Mean single sequence MFE	-20.92
Consensus MFE	-20.88
Energy contribution	-20.72
Covariance contribution	-0.16
Combinations/Pair	1.06
Mean z-score	-1.03
Structure conservation index	1.00
SVM decision value	0.02
SVM RNA-class probability	0.546128
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22359486 104 + 23771897
GGUGAGAGCCGGGGAGGCAAUUCAGCACGAGAGAGACAAGAGAUGGAUAGUCCAAAUAGAUAAACGGCCAAGUCGAACAAAAAAUGGCCAAGAAAAUUGUGUGU
..((((.(((.....)))..))))((((((.............(((.....)))...........(((((..............))))).......)))))).. ( -21.74)
>DroSec_CAF1 10552 103 + 1
GGUG-GAGCUGGGGAGGCAAUUCAGCACGAGAGAGACAAGAGAUGGAUAGUCCAAAUAGAUAAACGGCCAAGACGAACAAAAAAUGGCCAAGAAAAUUGUGUGU
....-..((((((.......)))))).(....)(.((((....(((.....)))...........(((((..............))))).......)))).).. ( -18.94)
>DroSim_CAF1 23968 103 + 1
GGUG-GAGCCGGGGAGGCAAUUCAGCACGAGAGAGACAAGAGAUGGAUAGUCCAAAUAGAUAAACGGCCAAGUCGAACAAAAAAUGGCCAAGAAAAUUGUGUGU
..((-(((((.....)))..))))((((((.............(((.....)))...........(((((..............))))).......)))))).. ( -21.44)
>DroEre_CAF1 27019 102 + 1
GGUG--AGCCGGGCAGGCAAUUCAGCACGAGAGAGACGAGAGAUGGAUAGUCCAAAUAGAUAAACGGCCAAGUCGAACAAAAAAUGGCCAAGAAAAUUGUGUGU
....--.(((.....)))......((((((.............(((.....)))...........(((((..............))))).......)))))).. ( -21.24)
>DroYak_CAF1 8537 102 + 1
GGUG--AGCCGGGAAGGCAAUUGAGCACGAGAGAGACGAGAGAUGGAUAGUCCAAAUAGAUAAACGGCCAAGUCGAACAAAAAAUGGCCAAGAAAAUUGUGUGU
....--.(((.....)))......((((((.............(((.....)))...........(((((..............))))).......)))))).. ( -21.24)
>consensus
GGUG_GAGCCGGGGAGGCAAUUCAGCACGAGAGAGACAAGAGAUGGAUAGUCCAAAUAGAUAAACGGCCAAGUCGAACAAAAAAUGGCCAAGAAAAUUGUGUGU
.......(((.....)))......((((((.............(((.....)))...........(((((..............))))).......)))))).. (-20.88 = -20.72 +  -0.16)

alignment

secondary structure

dotplot

Window 4

Location	22,359,486 – 22,359,590
Length	104
Sequences	5
Columns	104
Reading direction	reverse
Mean pairwise identity	96.61
Mean single sequence MFE	-17.21
Consensus MFE	-15.56
Energy contribution	-15.96
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-1.41
Structure conservation index	0.90
SVM decision value	0.77
SVM RNA-class probability	0.847387
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22359486 104 - 23771897
ACACACAAUUUUCUUGGCCAUUUUUUGUUCGACUUGGCCGUUUAUCUAUUUGGACUAUCCAUCUCUUGUCUCUCUCGUGCUGAAUUGCCUCCCCGGCUCUCACC
.(((((.........(((((..((......))..)))))(((((......))))).....................))).))....(((.....)))....... ( -18.10)
>DroSec_CAF1 10552 103 - 1
ACACACAAUUUUCUUGGCCAUUUUUUGUUCGUCUUGGCCGUUUAUCUAUUUGGACUAUCCAUCUCUUGUCUCUCUCGUGCUGAAUUGCCUCCCCAGCUC-CACC
....((((.......(((((..............)))))(((((......)))))..........)))).......(.((((...........)))).)-.... ( -14.84)
>DroSim_CAF1 23968 103 - 1
ACACACAAUUUUCUUGGCCAUUUUUUGUUCGACUUGGCCGUUUAUCUAUUUGGACUAUCCAUCUCUUGUCUCUCUCGUGCUGAAUUGCCUCCCCGGCUC-CACC
.(((((.........(((((..((......))..)))))(((((......))))).....................))).))....(((.....)))..-.... ( -18.10)
>DroEre_CAF1 27019 102 - 1
ACACACAAUUUUCUUGGCCAUUUUUUGUUCGACUUGGCCGUUUAUCUAUUUGGACUAUCCAUCUCUCGUCUCUCUCGUGCUGAAUUGCCUGCCCGGCU--CACC
.(((((.........(((((..((......))..)))))(((((......))))).....................))).))....(((.....))).--.... ( -18.10)
>DroYak_CAF1 8537 102 - 1
ACACACAAUUUUCUUGGCCAUUUUUUGUUCGACUUGGCCGUUUAUCUAUUUGGACUAUCCAUCUCUCGUCUCUCUCGUGCUCAAUUGCCUUCCCGGCU--CACC
...(((.........(((((..((......))..)))))(((((......))))).....................))).......(((.....))).--.... ( -16.90)
>consensus
ACACACAAUUUUCUUGGCCAUUUUUUGUUCGACUUGGCCGUUUAUCUAUUUGGACUAUCCAUCUCUUGUCUCUCUCGUGCUGAAUUGCCUCCCCGGCUC_CACC
.(((((.........(((((..............)))))(((((......))))).....................))).))....(((.....)))....... (-15.56 = -15.96 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:19:26 2006