Locus 2391

Sequence ID	2R_DroMel_CAF1
Location	8,627,098 – 8,627,258
Length	160
Max. P	0.922354

overview

Window 5

Location	8,627,098 – 8,627,194
Length	96
Sequences	6
Columns	96
Reading direction	forward
Mean pairwise identity	78.83
Mean single sequence MFE	-26.37
Consensus MFE	-19.36
Energy contribution	-19.95
Covariance contribution	0.59
Combinations/Pair	1.09
Mean z-score	-1.85
Structure conservation index	0.73
SVM decision value	1.15
SVM RNA-class probability	0.922354
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8627098 96 + 20766785
CUGGAAUUUGAUUUUAACGCUUAUUCGAGAGCUUGGGAUCUGUUCUGGUUCUGAGUCUCUGUUUGUGGCACCAGCCACUGACAACCAUCACGAAGG
(..((((..((((((((.((((......)))))))))))).))))..)((((((.....((((.(((((....))))).))))....))).))).. ( -30.20)
>DroSec_CAF1 6712 96 + 1
CUGGAAUUUGAUUUUAACGCUUAUUCGAGAGCUUGGGAUCUGUUCUGGUUCUGAGUCUCUGUUUGUGGCACCAGCCACUGACAACCAUCACUGAGG
(..((((..((((((((.((((......)))))))))))).))))..)..((.(((...((((.(((((....))))).))))......))).)). ( -29.70)
>DroSim_CAF1 6684 96 + 1
CUGGAAUUUGAUUUUAACGCUUAUUCGAGAGCUUGGGAUCUGUUCUGGUCCUGAGUCUCUGUUUGUGGCACCAGCCACUGACAACCAUCACCGAGG
.(((......................((((.((..(((((......)))))..))))))((((.(((((....))))).)))).)))......... ( -32.00)
>DroEre_CAF1 7308 76 + 1
CUGGAAUUUGAUUUUAACGCUUAUUCGAGAGCUUGGGAUCU-------------------GUUUGUGGCACCAGCCACUGACAACCAUCACCA-GG
((((.....((((((((.((((......))))))))))))(-------------------(((.(((((....))))).)))).......)))-). ( -26.70)
>DroYak_CAF1 7259 77 + 1
CUGGAAUUUGAUUUUAACGCUUAUUCGAGAGCUUGGGAUCU-------------------GUUUGUGGCACCAGCCACUGACAACCAUCACCAAGG
.(((.....((((((((.((((......))))))))))))(-------------------(((.(((((....))))).)))).......)))... ( -23.70)
>DroAna_CAF1 7385 74 + 1
UCGGAAUUUGAUUUUAACGCUUCUCUGUGAGUUUGGGAUCUGU-----------GCCUCUGUUUGUGGCAGAA-------ACAACCGUCGCC----
.(((.....((((((((.((((......))))))))))))(.(-----------(((.(.....).)))).).-------....))).....---- ( -15.90)
>consensus
CUGGAAUUUGAUUUUAACGCUUAUUCGAGAGCUUGGGAUCUGU___________GUCUCUGUUUGUGGCACCAGCCACUGACAACCAUCACCAAGG
.(((.....((((((((.((((......))))))))))))....................(((.(((((....))))).)))..)))......... (-19.36 = -19.95 +   0.59)

alignment

secondary structure

dotplot

Window 6

Location	8,627,159 – 8,627,258
Length	99
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	86.96
Mean single sequence MFE	-37.62
Consensus MFE	-28.69
Energy contribution	-28.90
Covariance contribution	0.21
Combinations/Pair	1.13
Mean z-score	-1.77
Structure conservation index	0.76
SVM decision value	0.43
SVM RNA-class probability	0.735141
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8627159 99 - 20766785
GGUGCGGGCUUUCCGGGGUGAAGU-UUCCUGGUGCCGAGUUUAAUUCGCCUGCCAGUUGCUCCUGCCUUCGUGAUGGUUGUCAGUGGCUGGUGCCACAAA
(((((.(((...((((((......-.)))))).)))((((...))))))..((((((..((...(((........)))....))..)))))))))..... ( -36.70)
>DroSec_CAF1 6773 99 - 1
GGGGCUAUGCUUCCGGGGUGAAGU-UUCCUGGUGCUGAGUUUAAUUCGGCUGCCAGUUGCUCCUGCCUCAGUGAUGGUUGUCAGUGGCUGGUGCCACAAA
.(((((..((..((((((......-.)))))).))..))))).....(((.((((((..((...(((........)))....))..)))))))))..... ( -36.90)
>DroSim_CAF1 6745 99 - 1
GGGGCUGGGUUUCCGGGGUGAAGU-UUCCUGGUGCUGAGUUUAAUUCGGCUGCCAGUUGCUCCUGCCUCGGUGAUGGUUGUCAGUGGCUGGUGCCACAAA
..(((...(((.((((((((.(((-...((((((((((((...))))))).)))))..)))..)))))))).)))....))).(((((....)))))... ( -40.50)
>DroEre_CAF1 7350 85 - 1
GGG--------------GCGGAGUUCUCCUGGUGCUGGCUUUAAUUCGGCUGCCAGUUGCUCCUGCC-UGGUGAUGGUUGUCAGUGGCUGGUGCCACAAA
.((--------------(((((((....((((((((((.......))))).)))))..))))).)))-)..((((....))))(((((....)))))... ( -36.40)
>DroYak_CAF1 7301 100 - 1
GGGGUGGGGUUUCCGGGGUGAAGUUUUCCUGGUGCUGAGUUUAAUUCGGCUGCCAGUUGCUCCUGCCUUGGUGAUGGUUGUCAGUGGCUGGUGCCACAAA
...((((.....((((((........)))))).(((((((...))))))).((((((..((...(((........)))....))..)))))).))))... ( -37.60)
>consensus
GGGGCGGGGUUUCCGGGGUGAAGU_UUCCUGGUGCUGAGUUUAAUUCGGCUGCCAGUUGCUCCUGCCUUGGUGAUGGUUGUCAGUGGCUGGUGCCACAAA
..............((((((.(((....((((((((((((...))))))).)))))..))).).)))))..((((....))))(((((....)))))... (-28.69 = -28.90 +   0.21)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:54 2006