Locus 8459

Sequence ID	X_DroMel_CAF1
Location	21,021,432 – 21,021,605
Length	173
Max. P	0.978727

overview

Window 5

Location	21,021,432 – 21,021,545
Length	113
Sequences	3
Columns	114
Reading direction	forward
Mean pairwise identity	76.42
Mean single sequence MFE	-20.47
Consensus MFE	-13.15
Energy contribution	-13.27
Covariance contribution	0.11
Combinations/Pair	1.05
Mean z-score	-1.58
Structure conservation index	0.64
SVM decision value	0.34
SVM RNA-class probability	0.694130
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21021432 113 + 22224390
ACAAUAGGUCAGUCAAUAGCGUUAUAUUAUU-UGUAUAUUUCAGAAAAUUAUUAUUUCUUGAAUUGUAUUCAAUGCAACGUGUUAUUUCUCGUCUCUGAGAGGCUAUUGUUAUC
(((((((...........(((((.((((...-.(((((.((((..((((....))))..)))).)))))..)))).)))))....(((((((....)))))))))))))).... ( -23.20)
>DroSec_CAF1 8182 91 + 1
GCAAUAGGCCAGU----AACGACAUAUAGUUUUUUAUAUUUCAGAAAA-UAUUAUUUCUUGAAUUGCU------------------UUCUCGUCUCUGCGAGGCUAUUGUAAUC
(((((((.((.((----(..(((((((((....))))))((((((((.-.....)))).)))).....------------------.....)))..)))..))))))))).... ( -19.60)
>DroSim_CAF1 8143 90 + 1
GCAAUAGGCCAGU----AACGCCACAUUAUU-UGUAUAUUUCAGAAAA-UAUUAUUUCUUGAAUUGCA------------------UUCUCGUCUCUGCGAGGCUAUUGUAAUC
(((((((......----..............-((((...((((((((.-.....)))).)))).))))------------------.((((((....))))))))))))).... ( -18.60)
>consensus
GCAAUAGGCCAGU____AACGACAUAUUAUU_UGUAUAUUUCAGAAAA_UAUUAUUUCUUGAAUUGCA__________________UUCUCGUCUCUGCGAGGCUAUUGUAAUC
(((((((................................((((((((.......)))).))))........................(((((......)))))))))))).... (-13.15 = -13.27 +   0.11)

alignment

secondary structure

dotplot

Window 6

Location	21,021,467 – 21,021,582
Length	115
Sequences	3
Columns	115
Reading direction	reverse
Mean pairwise identity	84.05
Mean single sequence MFE	-26.20
Consensus MFE	-24.55
Energy contribution	-24.33
Covariance contribution	-0.22
Combinations/Pair	1.04
Mean z-score	-2.02
Structure conservation index	0.94
SVM decision value	1.82
SVM RNA-class probability	0.978727
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21021467 115 - 22224390
AUUUCUGGGGGCGCAAAAGCUGACUUCGGGCGCCGAAGAUAACAAUAGCCUCUCAGAGACGAGAAAUAACACGUUGCAUUGAAUACAAUUCAAGAAAUAAUAAUUUUCUGAAAUA
.(((((((((((((....))...((((((...)))))).........))).))))))))..(((((......(((...((((((...))))))..)))......)))))...... ( -29.20)
>DroSec_CAF1 8214 96 - 1
AUUUCUGGGGGCACAAGAGCUGACUUCGGGCGCCGAAGAUUACAAUAGCCUCGCAGAGACGAGAA------------------AGCAAUUCAAGAAAUAAUA-UUUUCUGAAAUA
.(((((((((((.((.....)).((((((...)))))).........))))).))))))......------------------.....((((.((((.....-.))))))))... ( -25.70)
>DroSim_CAF1 8174 96 - 1
AUUUCUGGGGGCACAAGAGCUGACUUCGGGCGUCGAAGAUUACAAUAGCCUCGCAGAGACGAGAA------------------UGCAAUUCAAGAAAUAAUA-UUUUCUGAAAUA
.(((((((((((.((.....)).(((((.....))))).........))))).))))))......------------------.....((((.((((.....-.))))))))... ( -23.70)
>consensus
AUUUCUGGGGGCACAAGAGCUGACUUCGGGCGCCGAAGAUUACAAUAGCCUCGCAGAGACGAGAA__________________UGCAAUUCAAGAAAUAAUA_UUUUCUGAAAUA
.(((((((((((.((.....)).((((((...)))))).........))))).)))))).............................((((.((((.......))))))))... (-24.55 = -24.33 +  -0.22)

alignment

secondary structure

dotplot

Window 7

Location	21,021,505 – 21,021,605
Length	100
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	74.07
Mean single sequence MFE	-30.00
Consensus MFE	-21.02
Energy contribution	-21.34
Covariance contribution	0.32
Combinations/Pair	1.12
Mean z-score	-1.12
Structure conservation index	0.70
SVM decision value	-0.01
SVM RNA-class probability	0.528680
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21021505 100 - 22224390
UUAUUUCGGGUUAAAUCCAACGA--------------------AUUUCUGGGGGCGCAAAAGCUGACUUCGGGCGCCGAAGAUAACAAUAGCCUCUCAGAGACGAGAAAUAACACGUUGC
(((((((((((...))))..((.--------------------.(((((((((((((....))...((((((...)))))).........))).)))))))))).)))))))........ ( -30.90)
>DroSec_CAF1 8245 88 - 1
UUAUUUCGGGUUGAUUCCAACAA--------------------AUUUCUGGGGGCACAAGAGCUGACUUCGGGCGCCGAAGAUUACAAUAGCCUCGCAGAGACGAGAA------------
...(((((.((((....))))..--------------------.(((((((((((.((.....)).((((((...)))))).........))))).))))))))))).------------ ( -28.80)
>DroSim_CAF1 8205 88 - 1
UUAUUUCGGGUUGAUUCCAACAA--------------------AUUUCUGGGGGCACAAGAGCUGACUUCGGGCGUCGAAGAUUACAAUAGCCUCGCAGAGACGAGAA------------
...(((((.((((....))))..--------------------.(((((((((((.((.....)).(((((.....))))).........))))).))))))))))).------------ ( -26.80)
>DroEre_CAF1 5041 110 - 1
UUUUUGCGGGUUAAUUGCAACGAUUUGUGGCCAGAAGACGGGCUUUUCUGG-GGCACAAGAACUGGCUUCGGGCGCCGAAGAUUACAAUAGCCUCGCGGAGUCGGGAAGGA---------
.((((((((((((.(((......((((((.((((((((.....)))))).)-).))))))......((((((...))))))....)))))))).)))))))..........--------- ( -34.50)
>DroYak_CAF1 6274 110 - 1
UUAUUGCGGGCUAAUUCCAACGAUUUGUGACCA-AAGACGGGCAUUUCUGGGGGCACACGACCUGGCUUCGGACGCCGAAGAUUACAAUAGCCUUGCAGAGUCGAGAAAGG---------
...((((((((((...(((......((((.((.-.(((........)))..)).)))).....)))((((((...)))))).......))))).)))))............--------- ( -29.00)
>consensus
UUAUUUCGGGUUAAUUCCAACGA____________________AUUUCUGGGGGCACAAGAGCUGACUUCGGGCGCCGAAGAUUACAAUAGCCUCGCAGAGACGAGAA____________
...(((((((......))...........................((((((((((.((.....)).((((((...)))))).........))))).))))).)))))............. (-21.02 = -21.34 +   0.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:04:32 2006