Locus 9211

Sequence ID	3R_DroMel_CAF1
Location	24,550,560 – 24,550,657
Length	97
Max. P	0.976590

overview

Window 5

Location	24,550,560 – 24,550,657
Length	97
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	81.70
Mean single sequence MFE	-24.70
Consensus MFE	-16.06
Energy contribution	-16.74
Covariance contribution	0.68
Combinations/Pair	1.12
Mean z-score	-1.68
Structure conservation index	0.65
SVM decision value	0.05
SVM RNA-class probability	0.558668
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24550560 97 + 27905053
CCAUUCCGUCUGCUCUGUCAACAGGGCGUAUGCGCCAUUUAGUUGAUAGCAGUUGGCAGCAAUAAACGUA----CAUACACAUACGCACCUUAUCGCCACC
.......(((.(((((((((((..((((....)))).....)))))))).))).))).((.((((.((((----........))))....)))).)).... ( -26.30)
>DroSec_CAF1 48774 97 + 1
CCAUUUCGUCUGCUCUGUCAACAGGGCGUAUGCGCCAUUUAGUUGAUAGCAUUUGGCAGAAAUAAACGUA----CAUUCACAUACGCACCUUAUCGCCACC
........((((((((((((((..((((....)))).....)))))))).....))))))......((((----........))))............... ( -24.60)
>DroSim_CAF1 50609 97 + 1
CCAUUUCGUCUGCUCUGUCAACAGGGCGUAUGCGCCAUUUAGUUGAUAGCAGUUGGCAGCAAUAAACGUA----UAUACACAUACGCACCUUAUCGCCACC
.......(((.(((((((((((..((((....)))).....)))))))).))).))).((.((((.((((----(......)))))....)))).)).... ( -27.80)
>DroEre_CAF1 53183 101 + 1
CCAUUCCAUCUGCUCUGUCAACAGGGCGUAUGCGUCAUUUAGUUGAUAGCAGUUUGCAGCAAUAGACGUAUGUACAUGCACAUACGCUCUUUAUCGCCACC
......((.(((((..((((((..((((....)))).....)))))))))))..))..((...((((((((((......))))))).))).....)).... ( -26.30)
>DroAna_CAF1 49030 85 + 1
CAACUCUCGUUGCUCUGUCAACAGGGCGAAUGCGCAAUUUAAUCGAUACGAGUUGGCAGCAAUUAU-----G-----------ACACGCAUUAUCGCCACC
(((((((((..((((((....))))))((((.....))))...)))...))))))...((.((.((-----(-----------.....))).)).)).... ( -18.50)
>consensus
CCAUUCCGUCUGCUCUGUCAACAGGGCGUAUGCGCCAUUUAGUUGAUAGCAGUUGGCAGCAAUAAACGUA____CAUACACAUACGCACCUUAUCGCCACC
.........(((((((((((((..((((....)))).....)))))))).....))))).......................................... (-16.06 = -16.74 +   0.68)

alignment

secondary structure

dotplot

Window 6

Location	24,550,560 – 24,550,657
Length	97
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	81.70
Mean single sequence MFE	-33.06
Consensus MFE	-21.11
Energy contribution	-23.64
Covariance contribution	2.53
Combinations/Pair	1.07
Mean z-score	-2.71
Structure conservation index	0.64
SVM decision value	1.77
SVM RNA-class probability	0.976590
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24550560 97 - 27905053
GGUGGCGAUAAGGUGCGUAUGUGUAUG----UACGUUUAUUGCUGCCAACUGCUAUCAACUAAAUGGCGCAUACGCCCUGUUGACAGAGCAGACGGAAUGG
((..(((((((((((((((....))))----))).))))))))..))..(((((.(((((.....((((....))))..)))))...)))))......... ( -40.00)
>DroSec_CAF1 48774 97 - 1
GGUGGCGAUAAGGUGCGUAUGUGAAUG----UACGUUUAUUUCUGCCAAAUGCUAUCAACUAAAUGGCGCAUACGCCCUGUUGACAGAGCAGACGAAAUGG
((..(.((((((((((((......)))----))).)))))).)..))...((((.(((((.....((((....))))..)))))...)))).......... ( -29.80)
>DroSim_CAF1 50609 97 - 1
GGUGGCGAUAAGGUGCGUAUGUGUAUA----UACGUUUAUUGCUGCCAACUGCUAUCAACUAAAUGGCGCAUACGCCCUGUUGACAGAGCAGACGAAAUGG
((..(((((((...(((((((....))----))))))))))))..))..(((((.(((((.....((((....))))..)))))...)))))......... ( -37.30)
>DroEre_CAF1 53183 101 - 1
GGUGGCGAUAAAGAGCGUAUGUGCAUGUACAUACGUCUAUUGCUGCAAACUGCUAUCAACUAAAUGACGCAUACGCCCUGUUGACAGAGCAGAUGGAAUGG
.(..((((((....(((((((((....))))))))).))))))..)...(((((.(((((.....(.((....)))...)))))...)))))......... ( -31.40)
>DroAna_CAF1 49030 85 - 1
GGUGGCGAUAAUGCGUGU-----------C-----AUAAUUGCUGCCAACUCGUAUCGAUUAAAUUGCGCAUUCGCCCUGUUGACAGAGCAACGAGAGUUG
...(((((..(((((((.-----------.-----.((((((.(((......))).))))))...))))))))))))(((....)))..((((....)))) ( -26.80)
>consensus
GGUGGCGAUAAGGUGCGUAUGUGUAUG____UACGUUUAUUGCUGCCAACUGCUAUCAACUAAAUGGCGCAUACGCCCUGUUGACAGAGCAGACGGAAUGG
((..(((((((...(((((............))))))))))))..))..(((((.(((((.....((((....))))..)))))...)))))......... (-21.11 = -23.64 +   2.53)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:29:05 2006