Locus 5539

Sequence ID	3R_DroMel_CAF1
Location	14,626,728 – 14,626,823
Length	95
Max. P	0.795415

overview

Window 3

Location	14,626,728 – 14,626,823
Length	95
Sequences	5
Columns	97
Reading direction	forward
Mean pairwise identity	94.29
Mean single sequence MFE	-22.12
Consensus MFE	-17.96
Energy contribution	-17.80
Covariance contribution	-0.16
Combinations/Pair	1.11
Mean z-score	-1.67
Structure conservation index	0.81
SVM decision value	0.60
SVM RNA-class probability	0.795415
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14626728 95 + 27905053
ACAUUUGCAUACUCACAGAUUGUUGUACAAUGUGUUUUCGGUUCCGUGAAGUAUAGUUAUGGUUUUUGGUAUCGUAAUCUGGUGGUA--UUUUAUGU
((((....(((((..(((((((..((((..((......))...((((((.......))))))......))))..)))))))..))))--)...)))) ( -19.60)
>DroSec_CAF1 41856 97 + 1
ACAUUUGCAUACUCACAGAUUGUUGUACAAUGUGUUUUCGGUUCCGUGAAGUAUUGUUAUGGUUUGUGGUAUCGUAAUCUGGUGGUAUGUUUUAUGU
((((..(((((((..(((((((....((.....))...((((.(((..((.(((....))).))..))).)))))))))))..)))))))...)))) ( -27.30)
>DroSim_CAF1 49710 97 + 1
AUAUUUGCAUACUCACAGAUUGUUGUACAAUGUGUUUUCGGUUCCGUGAAGUAUCGUUAUGGUUUGUGGUAUCGUAAUCUGGUGGUAUGUUUUAUGU
((((..(((((((..(((((((....((.....))...((((.(((..((.(((....))).))..))).)))))))))))..)))))))...)))) ( -24.60)
>DroEre_CAF1 40590 94 + 1
ACAUUUGCAUACUCACAGAUUGUUGUACA-CGUGUUUUCGGUUCCGUGAAGUAUCGUUUUGGUUUGUUGUAUCGUAAUCUGGUGGUA--UUUUAUGU
((((....(((((..(((((((..(((((-((..((..((((.(......).))))....))..)).)))))..)))))))..))))--)...)))) ( -19.70)
>DroYak_CAF1 42421 94 + 1
ACAUUUGCAUACUCACAGAUUGUUAUACA-CGUGUUUUCGGUUCCGUGAAGUAUCGUUUUGGUUUGUUGUAUCGUAAUCUGGUGGUA--UUUUAUGU
((((....(((((..(((((((..(((((-((..((..((((.(......).))))....))..)).)))))..)))))))..))))--)...)))) ( -19.40)
>consensus
ACAUUUGCAUACUCACAGAUUGUUGUACAAUGUGUUUUCGGUUCCGUGAAGUAUCGUUAUGGUUUGUGGUAUCGUAAUCUGGUGGUA__UUUUAUGU
((((.....((((..(((((((..((((..((......))...((((((.......))))))......))))..)))))))..))))......)))) (-17.96 = -17.80 +  -0.16)

alignment

secondary structure

dotplot

Window 4

Location	14,626,728 – 14,626,823
Length	95
Sequences	5
Columns	97
Reading direction	reverse
Mean pairwise identity	94.29
Mean single sequence MFE	-14.09
Consensus MFE	-10.18
Energy contribution	-10.18
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-2.33
Structure conservation index	0.72
SVM decision value	-0.03
SVM RNA-class probability	0.515815
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14626728 95 - 27905053
ACAUAAAA--UACCACCAGAUUACGAUACCAAAAACCAUAACUAUACUUCACGGAACCGAAAACACAUUGUACAACAAUCUGUGAGUAUGCAAAUGU
........--..........................(((...((((((.((((((.......((.....)).......))))))))))))...))). ( -11.34)
>DroSec_CAF1 41856 97 - 1
ACAUAAAACAUACCACCAGAUUACGAUACCACAAACCAUAACAAUACUUCACGGAACCGAAAACACAUUGUACAACAAUCUGUGAGUAUGCAAAUGU
((((....((((((((.(((((..(....)..........(((((......((....)).......))))).....)))))))).)))))...)))) ( -13.12)
>DroSim_CAF1 49710 97 - 1
ACAUAAAACAUACCACCAGAUUACGAUACCACAAACCAUAACGAUACUUCACGGAACCGAAAACACAUUGUACAACAAUCUGUGAGUAUGCAAAUAU
........((((((((.((((((((((...............((....)).((....)).......)))))).....))))))).)))))....... ( -14.70)
>DroEre_CAF1 40590 94 - 1
ACAUAAAA--UACCACCAGAUUACGAUACAACAAACCAAAACGAUACUUCACGGAACCGAAAACACG-UGUACAACAAUCUGUGAGUAUGCAAAUGU
((((...(--((((((.(((((...((((.............((....)).((....)).......)-))).....)))))))).))))....)))) ( -14.70)
>DroYak_CAF1 42421 94 - 1
ACAUAAAA--UACCACCAGAUUACGAUACAACAAACCAAAACGAUACUUCACGGAACCGAAAACACG-UGUAUAACAAUCUGUGAGUAUGCAAAUGU
((((...(--((((((.(((((...(((((............((....)).((....))........-)))))...)))))))).))))....)))) ( -16.60)
>consensus
ACAUAAAA__UACCACCAGAUUACGAUACCACAAACCAUAACGAUACUUCACGGAACCGAAAACACAUUGUACAACAAUCUGUGAGUAUGCAAAUGU
...........................................(((((.((((((.......((.....)).......)))))))))))........ (-10.18 = -10.18 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:57:37 2006