Locus 624

Sequence ID	X_DroMel_CAF1
Location	1,730,366 – 1,730,485
Length	119
Max. P	0.915988

overview

Window 8

Location	1,730,366 – 1,730,485
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	97.32
Mean single sequence MFE	-44.92
Consensus MFE	-35.96
Energy contribution	-36.76
Covariance contribution	0.80
Combinations/Pair	1.00
Mean z-score	-2.19
Structure conservation index	0.80
SVM decision value	0.70
SVM RNA-class probability	0.827220
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1730366 119 + 22224390
AGGUUAAAGGGGAGGACGGCAAAGUGGAGAAGAUGCUGCUAUUCUACGACGGGGAGACGGUAUCCGGCAAGGUGCGUCGUGGUCAGCAUCGGGGGGAGUUCC-CCCAAGCAUAACCAGAG
.(((((...(......).((...........(((((((.....(((((((..(....).(((((......)))))))))))).))))))).(((((....))-)))..)).))))).... ( -44.80)
>DroSec_CAF1 1619 119 + 1
AGGUUAAAGGGGAGGACGGCAAAGUGGAGAAGAUGCUGCUAUUCUACGACGGGGAGACGGUAUCCGGCAAGGUGCGUCGUGGUCAGCAUCGGGGGGAGUUCC-CCCAAGCAUAACCAGAG
.(((((...(......).((...........(((((((.....(((((((..(....).(((((......)))))))))))).))))))).(((((....))-)))..)).))))).... ( -44.80)
>DroSim_CAF1 1818 119 + 1
AGGUUAAAGGGGAGGACGGCAAAGUGGAGAAGAUGCUGCUAUUCUACGACGGGGAGACGGUAUCCGGCAAGGUGCGUCGUGGUCAGCAUCGGGGGGAGUUCC-CCCAAGCAUAACCAGAG
.(((((...(......).((...........(((((((.....(((((((..(....).(((((......)))))))))))).))))))).(((((....))-)))..)).))))).... ( -44.80)
>DroEre_CAF1 1737 120 + 1
AGGUUAAAGGGGAGGACGGCAAAGUGGAGAAGAUGCUGCUCUUCUACGACGGAGAGACGGUAUCCGGCAAGGUGCGUCGUUGUCAGCAUCGGGGGGAGUUCCCCCCAAGAAUUACCAGAG
.(((....(..((.((((((...........(((((((((((((......)))))).)))))))..((.....)))))))).))..)...((((((....)))))).......))).... ( -47.40)
>DroYak_CAF1 1823 119 + 1
AGGUUAAAGGGGAGGACGGCAAAGUGGAGAAGAUGCUGCUCUUCUACGACGGGGAGACGGUAUCCGGCAAGGUGCGUCGUGGUCAGCAUCCGGGGGAGUUCC-CCCAAGCAUUACCAGAG
.(((....((((..(((.((...........(((((((((((((......)))))).))))))).(((.......))))).)))..).)))(((((....))-))).......))).... ( -42.80)
>consensus
AGGUUAAAGGGGAGGACGGCAAAGUGGAGAAGAUGCUGCUAUUCUACGACGGGGAGACGGUAUCCGGCAAGGUGCGUCGUGGUCAGCAUCGGGGGGAGUUCC_CCCAAGCAUAACCAGAG
.(((((.........................(((((((.....(((((((..(....).(((((......)))))))))))).))))))).(((((....)).))).....))))).... (-35.96 = -36.76 +   0.80)

alignment

secondary structure

dotplot

Window 9

Location	1,730,366 – 1,730,485
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	97.32
Mean single sequence MFE	-35.90
Consensus MFE	-29.24
Energy contribution	-29.64
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-2.26
Structure conservation index	0.81
SVM decision value	1.11
SVM RNA-class probability	0.915988
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1730366 119 - 22224390
CUCUGGUUAUGCUUGGG-GGAACUCCCCCCGAUGCUGACCACGACGCACCUUGCCGGAUACCGUCUCCCCGUCGUAGAAUAGCAGCAUCUUCUCCACUUUGCCGUCCUCCCCUUUAACCU
....(((((.....(((-((.....)))))(((((((.(.(((((((.....)).(((.......)))..))))).).....))))))).........................))))). ( -34.60)
>DroSec_CAF1 1619 119 - 1
CUCUGGUUAUGCUUGGG-GGAACUCCCCCCGAUGCUGACCACGACGCACCUUGCCGGAUACCGUCUCCCCGUCGUAGAAUAGCAGCAUCUUCUCCACUUUGCCGUCCUCCCCUUUAACCU
....(((((.....(((-((.....)))))(((((((.(.(((((((.....)).(((.......)))..))))).).....))))))).........................))))). ( -34.60)
>DroSim_CAF1 1818 119 - 1
CUCUGGUUAUGCUUGGG-GGAACUCCCCCCGAUGCUGACCACGACGCACCUUGCCGGAUACCGUCUCCCCGUCGUAGAAUAGCAGCAUCUUCUCCACUUUGCCGUCCUCCCCUUUAACCU
....(((((.....(((-((.....)))))(((((((.(.(((((((.....)).(((.......)))..))))).).....))))))).........................))))). ( -34.60)
>DroEre_CAF1 1737 120 - 1
CUCUGGUAAUUCUUGGGGGGAACUCCCCCCGAUGCUGACAACGACGCACCUUGCCGGAUACCGUCUCUCCGUCGUAGAAGAGCAGCAUCUUCUCCACUUUGCCGUCCUCCCCUUUAACCU
....(((((.....((((((....))))))(((((((.(.(((((((.....)).(((.........)))))))).).....))))))).........)))))................. ( -39.40)
>DroYak_CAF1 1823 119 - 1
CUCUGGUAAUGCUUGGG-GGAACUCCCCCGGAUGCUGACCACGACGCACCUUGCCGGAUACCGUCUCCCCGUCGUAGAAGAGCAGCAUCUUCUCCACUUUGCCGUCCUCCCCUUUAACCU
....(((((.....(((-((....)))))((((((((..((((((((.....)).(((.......)))..)))))....)..))))))))........)))))................. ( -36.30)
>consensus
CUCUGGUUAUGCUUGGG_GGAACUCCCCCCGAUGCUGACCACGACGCACCUUGCCGGAUACCGUCUCCCCGUCGUAGAAUAGCAGCAUCUUCUCCACUUUGCCGUCCUCCCCUUUAACCU
....(((((.....(((.((....))))).(((((((.(.((((((......(.(((...))).)....)))))).).....))))))).........................))))). (-29.24 = -29.64 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:49:41 2006