Locus 10192

Sequence ID	3R_DroMel_CAF1
Location	27,352,936 – 27,353,097
Length	161
Max. P	0.906145

overview

Window 8

Location	27,352,936 – 27,353,036
Length	100
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	85.03
Mean single sequence MFE	-30.21
Consensus MFE	-21.52
Energy contribution	-21.72
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-2.33
Structure conservation index	0.71
SVM decision value	1.05
SVM RNA-class probability	0.906145
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27352936 100 - 27905053
CAUUGGGUUAAGUGCCACUUAAGUGCGCACAAUGAAUGGAAAUUCAAUUAACUCGGGGCCAUUGAUAAGGCUAAGUCGGUUAAGUCGGUUGAGCCGGUUC
...(((((((((((((((....))).))))..(((((....))))).))))))))(((((..(....)((((.(..(((.....)))..).))))))))) ( -32.00)
>DroSec_CAF1 98483 100 - 1
CAUUGGGUUAAGUGCCACUUAAGUGCGCACAAUGAAUGGAAAUUCAAUUAACUCGGGGCCAUUGAUAAGGCUAAGUCGGGUGAGUCGGUUGAGCCGGUUC
..((((((((((((((((....))).))))..(((((....))))).)))))))))((((........)))).........((..(((.....)))..)) ( -33.40)
>DroSim_CAF1 62645 100 - 1
CAUUGGGUUAAGUGCCACUUAAGUGCGCACAAUGAAUGGAAAUUCAAUUAACUCGGGGCCAUUGAUAAGGCUAAGUCGGGUGAGUCGGUUGAGCCGGUUC
..((((((((((((((((....))).))))..(((((....))))).)))))))))((((........)))).........((..(((.....)))..)) ( -33.40)
>DroEre_CAF1 63188 82 - 1
CAGUGGGUUAAGUGCCACUUAAGUGCGCACAAUGAAUUGAAAUUCAAUUAACUCCG-GCCAUUGAUAAGGCUGAG-----------------GUCGGUUC
....((((((((((((((....))).))))..(((((....))))).)))))))((-(((........)))))..-----------------........ ( -24.50)
>DroYak_CAF1 55951 82 - 1
CAGUGGGUUAAGUGCCACUUAAGUGCGCACAAUGAAUCGAAAUUCAAUUAACUCGG-GCCAUUGAUAAGACUGAG-----------------GCCCGUUC
....((((((((((((((....))).))))..(((((....))))).)))))))((-(((..............)-----------------)))).... ( -27.74)
>consensus
CAUUGGGUUAAGUGCCACUUAAGUGCGCACAAUGAAUGGAAAUUCAAUUAACUCGGGGCCAUUGAUAAGGCUAAGUCGG_U_AGUCGGUUGAGCCGGUUC
....((((((((((((((....))).))))..(((((....))))).)))))))...(((........)))............................. (-21.52 = -21.72 +   0.20)

alignment

secondary structure

dotplot

Window 9

Location	27,352,999 – 27,353,097
Length	98
Sequences	6
Columns	98
Reading direction	reverse
Mean pairwise identity	85.42
Mean single sequence MFE	-33.43
Consensus MFE	-23.93
Energy contribution	-25.43
Covariance contribution	1.51
Combinations/Pair	1.33
Mean z-score	-2.72
Structure conservation index	0.72
SVM decision value	0.17
SVM RNA-class probability	0.616249
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27352999 98 - 27905053
CGAAUUCCGACGAAAUGCAGUUGCAAAUGCAGAUGCAGCUGCAUCAUAUCUGGACCCGCGGCAUUGGGUUAAGUGCCACUUAAGUGCGCACAAUGAAU
...............((((((((((........))))))))))((((.....((((((......))))))..(((((((....))).)))).)))).. ( -34.00)
>DroSec_CAF1 98546 98 - 1
GGAAUUCCGACGAAAUGCAGUUGCAGACGCAGAUGCAGCUGCAUCAUAUCUGGACCCGCGGCAUUGGGUUAAGUGCCACUUAAGUGCGCACAAUGAAU
((....)).......((((((((((........))))))))))((((.....((((((......))))))..(((((((....))).)))).)))).. ( -36.30)
>DroSim_CAF1 62708 98 - 1
CGAAUUCCGACGAAAUGCAGUUGCAGAUGCAGAUGCAGCUGCAUCAUAUCUGGACCCGCGGCAUUGGGUUAAGUGCCACUUAAGUGCGCACAAUGAAU
...............((((((((((........))))))))))((((.....((((((......))))))..(((((((....))).)))).)))).. ( -34.80)
>DroEre_CAF1 63233 92 - 1
CCAAUUCCGACGAAAUGCAGCUGAAGAUGCAGCUG------CAUCAUAUCUGGACCUGCGGCAGUGGGUUAAGUGCCACUUAAGUGCGCACAAUGAAU
...............((((((((......))))))------))((((.....((((..(....)..))))..(((((((....))).)))).)))).. ( -33.60)
>DroYak_CAF1 55996 98 - 1
CAAAUUCCGACGAAAUGCAGUUGCAGAUGCAGCUGCAUCUGCAUCAUAUCUAAACCUGCGGCAGUGGGUUAAGUGCCACUUAAGUGCGCACAAUGAAU
...........(..((((((((((....))))))))))...).((((.....((((..(....)..))))..(((((((....))).)))).)))).. ( -35.20)
>DroAna_CAF1 65993 94 - 1
UGAAUUCCACCGAAGUGCAUCUUUAACUGCAAUUGCGGC----UCGUAUCUCGGCUUGUGGCAUUUGGUUAAGUGCCACUUAAGUGCGCCCAAUGGAU
.....(((.......((((........))))((((.(((----.((.....))(((((((((((((....)))))))))..))))..)))))))))). ( -26.70)
>consensus
CGAAUUCCGACGAAAUGCAGUUGCAGAUGCAGAUGCAGCUGCAUCAUAUCUGGACCCGCGGCAUUGGGUUAAGUGCCACUUAAGUGCGCACAAUGAAU
...............((((((((((........))))))))))((((.....((((((......))))))..(((((((....))).)))).)))).. (-23.93 = -25.43 +   1.51)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:51:03 2006