Locus 6380

Sequence ID	2L_DroMel_CAF1
Location	17,881,136 – 17,881,226
Length	90
Max. P	0.999991

overview

Window 7

Location	17,881,136 – 17,881,226
Length	90
Sequences	5
Columns	98
Reading direction	forward
Mean pairwise identity	92.28
Mean single sequence MFE	-28.70
Consensus MFE	-25.81
Energy contribution	-26.13
Covariance contribution	0.32
Combinations/Pair	1.08
Mean z-score	-2.06
Structure conservation index	0.90
SVM decision value	2.85
SVM RNA-class probability	0.997414
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17881136 90 + 22407834
GUGCCAGCAUGGCGUAUACUUGAUGCUCCUUUCCGUGCACC---GUAUGCU-----CGCAUACAUGAAGUAUACGCCCCGAAUGUUGACGUGUUAUUA
....(((((((((((((((((.((((.(......).))...---(((((..-----..))))))).)))))))))))....))))))........... ( -29.70)
>DroSec_CAF1 100876 98 + 1
GUGCCAGCAUGGCGUAUACUUGAUGCUCCUUUCCGUGCACCCCUGCACACUCGCAUCGCAUACAUGAAGUAUACGCCCCGAAUGUUGACGUGUUAUUA
....(((((((((((((((((.(((.........(((((....)))))....((...))...))).)))))))))))....))))))........... ( -31.90)
>DroSim_CAF1 83575 98 + 1
GUGCCAGCAUGGCGUACACUUGAUGCUCCUUUCCGUGCACCCCUGCACACUCGCAUCGCAUACAUGAAGUAUACGCCCCGAAUGUUGACGUGUUAUUA
....((((((((((((.((((.(((.........(((((....)))))....((...))...))).)))).))))))....))))))........... ( -27.80)
>DroEre_CAF1 90740 95 + 1
GUGCCAGCAUGGCGUAUACUUGAUGCUCCUUUCCGUGCAUCCCUGCACACGCG---CGCAUACAUGAAGUAUACGCCCCGAAUGUUGACGUGUUAUUA
....(((((((((((((((((.(((.........(((((....)))))..(..---..)...))).)))))))))))....))))))........... ( -31.10)
>DroYak_CAF1 95291 95 + 1
GUGCCAUCAUGGCGUAUACUUGAUGCUCCUUUCCAUGCACCCCUGCACACGCU---CGCAUACAUGAAGUAUACGCCCCGAAUGUUGACGUGUUAUUA
....((.((((((((((((((.(((..........((((....))))...(..---..)...))).)))))))))))....))).))........... ( -23.00)
>consensus
GUGCCAGCAUGGCGUAUACUUGAUGCUCCUUUCCGUGCACCCCUGCACACUCG___CGCAUACAUGAAGUAUACGCCCCGAAUGUUGACGUGUUAUUA
....(((((((((((((((((.((((........((((......)))).........)))).....)))))))))))....))))))........... (-25.81 = -26.13 +   0.32)

alignment

secondary structure

dotplot

Window 8

Location	17,881,136 – 17,881,226
Length	90
Sequences	5
Columns	98
Reading direction	reverse
Mean pairwise identity	92.28
Mean single sequence MFE	-34.68
Consensus MFE	-33.96
Energy contribution	-33.20
Covariance contribution	-0.76
Combinations/Pair	1.19
Mean z-score	-2.90
Structure conservation index	0.98
SVM decision value	5.61
SVM RNA-class probability	0.999991
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17881136 90 - 22407834
UAAUAACACGUCAACAUUCGGGGCGUAUACUUCAUGUAUGCG-----AGCAUAC---GGUGCACGGAAAGGAGCAUCAAGUAUACGCCAUGCUGGCAC
.........((((.(((....(((((((((((...(((((..-----..)))))---(((((.(......).))))))))))))))))))).)))).. ( -33.00)
>DroSec_CAF1 100876 98 - 1
UAAUAACACGUCAACAUUCGGGGCGUAUACUUCAUGUAUGCGAUGCGAGUGUGCAGGGGUGCACGGAAAGGAGCAUCAAGUAUACGCCAUGCUGGCAC
.........((((.(((....(((((((((((..(((((((.......)))))))..(((((.(......).))))))))))))))))))).)))).. ( -33.60)
>DroSim_CAF1 83575 98 - 1
UAAUAACACGUCAACAUUCGGGGCGUAUACUUCAUGUAUGCGAUGCGAGUGUGCAGGGGUGCACGGAAAGGAGCAUCAAGUGUACGCCAUGCUGGCAC
.........(((((((((((.(.(((((((.....))))))).).)))))))(((((.((((((.((........))..)))))).)).))))))).. ( -37.70)
>DroEre_CAF1 90740 95 - 1
UAAUAACACGUCAACAUUCGGGGCGUAUACUUCAUGUAUGCG---CGCGUGUGCAGGGAUGCACGGAAAGGAGCAUCAAGUAUACGCCAUGCUGGCAC
.........((((.(((.....((((((((.....)))))))---)((((((((...(((((.(......).)))))..)))))))).))).)))).. ( -36.10)
>DroYak_CAF1 95291 95 - 1
UAAUAACACGUCAACAUUCGGGGCGUAUACUUCAUGUAUGCG---AGCGUGUGCAGGGGUGCAUGGAAAGGAGCAUCAAGUAUACGCCAUGAUGGCAC
.........((((....(((.(((((((((((..(((((((.---...)))))))..(((((..........)))))))))))))))).))))))).. ( -33.00)
>consensus
UAAUAACACGUCAACAUUCGGGGCGUAUACUUCAUGUAUGCG___CGAGUGUGCAGGGGUGCACGGAAAGGAGCAUCAAGUAUACGCCAUGCUGGCAC
.........((((.(((....(((((((((((..(((((((.......)))))))..(((((.(......).))))))))))))))))))).)))).. (-33.96 = -33.20 +  -0.76)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:09:37 2006