Locus 6092

Sequence ID	3L_DroMel_CAF1
Location	16,175,970 – 16,176,090
Length	120
Max. P	0.835266

overview

Window 8

Location	16,175,970 – 16,176,090
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	97.92
Mean single sequence MFE	-36.95
Consensus MFE	-35.47
Energy contribution	-35.35
Covariance contribution	-0.12
Combinations/Pair	1.06
Mean z-score	-1.99
Structure conservation index	0.96
SVM decision value	0.73
SVM RNA-class probability	0.835266
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16175970 120 + 23771897
UAGUCGAGGACAUUGCAUUCCUGUCUGUCUGGAGGCUUUCCCCCUUCGUCUGGUUUUCGGACUGGCAGCCAUUUAGUCCGACUUGAUGUCGAUGUCGUCGUUGUGUUUAAUUAUUCAAAA
....(((.(((((((((((...(((.(.(((((((((.....((...(((((.....))))).)).)))).))))).).)))..)))).))))))).))).................... ( -36.00)
>DroSec_CAF1 33670 120 + 1
UAGUCGAGGACAUUGCAUUCCUGUCUGUCUGGGGGCUUUCCCCCUUCAUCUGGUUUUCGGACUGGCAGCCAUUUAGUCCGACUUGAUGUCGAUGUCGUCGUUGUGUUUAAUUAUUCAAAA
....(((.(((((((((((((....((...(((((....)))))..))...))...(((((((((.......)))))))))...)))).))))))).))).................... ( -37.70)
>DroSim_CAF1 36288 120 + 1
UAGUCGAGGACAUUGCAUUCCUGUCUGUCUGGGGGCUUUCCCCCUUCAUCUGGUUUUCGGACUGGCAGCCAUUUAGUCCGACUUGAUGUCGAUGUCGUCGUUGUGUUUAAUUAUUCAAAA
....(((.(((((((((((((....((...(((((....)))))..))...))...(((((((((.......)))))))))...)))).))))))).))).................... ( -37.70)
>DroEre_CAF1 33986 120 + 1
UAGUCGAGGACAUUGCAUUCCUGCCUGUCUGGGGGCUUUCCCCCUUCAUCUGGUUUUUGGACUGGCAGCCAUUUAGUCCGACUUGAUGUCGAUGUCGUCGUAGUGUUUAAUUAUUCAAAA
....(((.(((((((((((...(((.(...(((((....))))).....).)))..(((((((((.......)))))))))...)))).))))))).))).................... ( -36.40)
>consensus
UAGUCGAGGACAUUGCAUUCCUGUCUGUCUGGGGGCUUUCCCCCUUCAUCUGGUUUUCGGACUGGCAGCCAUUUAGUCCGACUUGAUGUCGAUGUCGUCGUUGUGUUUAAUUAUUCAAAA
....(((.(((((((((((((....((...(((((....)))))..))...))...(((((((((.......)))))))))...)))).))))))).))).................... (-35.47 = -35.35 +  -0.12)

alignment

secondary structure

dotplot

Window 9

Location	16,175,970 – 16,176,090
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	97.92
Mean single sequence MFE	-31.35
Consensus MFE	-30.98
Energy contribution	-30.60
Covariance contribution	-0.38
Combinations/Pair	1.08
Mean z-score	-1.88
Structure conservation index	0.99
SVM decision value	0.67
SVM RNA-class probability	0.817178
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16175970 120 - 23771897
UUUUGAAUAAUUAAACACAACGACGACAUCGACAUCAAGUCGGACUAAAUGGCUGCCAGUCCGAAAACCAGACGAAGGGGGAAAGCCUCCAGACAGACAGGAAUGCAAUGUCCUCGACUA
....................(((.(((((.(.((((..((((((((...........)))))..............(((((....))))).....)))..).)))).))))).))).... ( -28.50)
>DroSec_CAF1 33670 120 - 1
UUUUGAAUAAUUAAACACAACGACGACAUCGACAUCAAGUCGGACUAAAUGGCUGCCAGUCCGAAAACCAGAUGAAGGGGGAAAGCCCCCAGACAGACAGGAAUGCAAUGUCCUCGACUA
....................(((.(((((.(.((((...(((((((...........)))))))......))))..(((((....)))))...............).))))).))).... ( -31.70)
>DroSim_CAF1 36288 120 - 1
UUUUGAAUAAUUAAACACAACGACGACAUCGACAUCAAGUCGGACUAAAUGGCUGCCAGUCCGAAAACCAGAUGAAGGGGGAAAGCCCCCAGACAGACAGGAAUGCAAUGUCCUCGACUA
....................(((.(((((.(.((((...(((((((...........)))))))......))))..(((((....)))))...............).))))).))).... ( -31.70)
>DroEre_CAF1 33986 120 - 1
UUUUGAAUAAUUAAACACUACGACGACAUCGACAUCAAGUCGGACUAAAUGGCUGCCAGUCCAAAAACCAGAUGAAGGGGGAAAGCCCCCAGACAGGCAGGAAUGCAAUGUCCUCGACUA
....................(((.(((((((((.....))))).........(((((.(((.......(....)..(((((....))))).))).)))))........)))).))).... ( -33.50)
>consensus
UUUUGAAUAAUUAAACACAACGACGACAUCGACAUCAAGUCGGACUAAAUGGCUGCCAGUCCGAAAACCAGAUGAAGGGGGAAAGCCCCCAGACAGACAGGAAUGCAAUGUCCUCGACUA
....................(((.(((((.(.((((..((((((((...........)))))..............(((((....))))).....)))..).)))).))))).))).... (-30.98 = -30.60 +  -0.38)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:09:51 2006