Locus 2165

Sequence ID	3R_DroMel_CAF1
Location	6,215,605 – 6,215,700
Length	95
Max. P	0.954560

overview

Window 4

Location	6,215,605 – 6,215,700
Length	95
Sequences	6
Columns	98
Reading direction	forward
Mean pairwise identity	93.54
Mean single sequence MFE	-30.55
Consensus MFE	-26.89
Energy contribution	-27.12
Covariance contribution	0.22
Combinations/Pair	1.03
Mean z-score	-1.96
Structure conservation index	0.88
SVM decision value	1.44
SVM RNA-class probability	0.954560
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6215605 95 + 27905053
UGGGA--UGUGUGGGCCGCGUAUUUUUAGCCGUCGAGCUAGAAAGC-GUUUUGCAUUUGCAAAACAAACGCGAAAAUCGGGCGAAGAAAACGUGGGCA
.....--......(.((((((.(((((.(((..((((((....)))-(((((((....)))))))...........)))))).))))).)))))).). ( -32.10)
>DroSec_CAF1 32802 95 + 1
UGGGU--UGUGUGGGCCGCGUAUUUUUAGCCGUCGAGCUAGAAAGC-GUUUUGCAUUUGCAAAACAAACGCGAAAAUCGGGCGAAGAAAACGUGGGCA
.....--......(.((((((.(((((.(((..((((((....)))-(((((((....)))))))...........)))))).))))).)))))).). ( -32.10)
>DroSim_CAF1 32762 95 + 1
UGGGU--UGUGUGGGCCGCGUAUUUUUAGCCGUCGAGCUAGAAAGC-GUUUUGCAUUUGCAAAACAAACGCGAAAAUCGGGCGAAGAAAACGUGGGCA
.....--......(.((((((.(((((.(((..((((((....)))-(((((((....)))))))...........)))))).))))).)))))).). ( -32.10)
>DroEre_CAF1 33026 95 + 1
UAAGU--UGUGUGGGCCGCGUAUUUUUAGCCGUCGAGCUAGAAAGC-GUUUUGCAUUUGCAAAACAAACGCGAAAAUCGGGCAAAGAAAACGUGGGCA
.....--......(.((((((.(((((.(((..((((((....)))-(((((((....)))))))...........)))))).))))).)))))).). ( -32.10)
>DroYak_CAF1 30044 95 + 1
UGGGU--UGUGUGGGCCGCGUAUUUUUAGACGUCGAGCUAGAAAGC-AUUUUGCAUUUGCAAAACAAACGCGAAAAUCGGGCAAAGAAAACGUGGGCA
.....--......(.((((((.(((((.(.(.(((((((....)))-.((((((.((((.....)))).)))))).)))))).))))).)))))).). ( -25.80)
>DroAna_CAF1 38777 98 + 1
UGGAUCAUGUGUGGGCCGCGUAUUUUUAGCCGCCGAGCUAGAUAGCCGUCCUGCAUUUGCCAAACAAACGCGAGAAUCGGGCGCAGAAAACGUGGGCC
............((.((((((.(((((.(((.(((((((....)))..((.(((.((((.....)))).))).)).))))).))))))))))))).)) ( -29.10)
>consensus
UGGGU__UGUGUGGGCCGCGUAUUUUUAGCCGUCGAGCUAGAAAGC_GUUUUGCAUUUGCAAAACAAACGCGAAAAUCGGGCGAAGAAAACGUGGGCA
.............(.((((((.(((((.(((..((((((....)))..((((((.((((.....)))).)))))).)))))).))))).)))))).). (-26.89 = -27.12 +   0.22)

alignment

secondary structure

dotplot

Window 5

Location	6,215,605 – 6,215,700
Length	95
Sequences	6
Columns	98
Reading direction	reverse
Mean pairwise identity	93.54
Mean single sequence MFE	-23.44
Consensus MFE	-20.94
Energy contribution	-20.69
Covariance contribution	-0.25
Combinations/Pair	1.08
Mean z-score	-1.55
Structure conservation index	0.89
SVM decision value	0.91
SVM RNA-class probability	0.879865
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6215605 95 - 27905053
UGCCCACGUUUUCUUCGCCCGAUUUUCGCGUUUGUUUUGCAAAUGCAAAAC-GCUUUCUAGCUCGACGGCUAAAAAUACGCGGCCCACACA--UCCCA
.(((..(((.((.((.((((((.....(((((((.....))))))).....-(((....))))))..))).)).)).))).))).......--..... ( -22.60)
>DroSec_CAF1 32802 95 - 1
UGCCCACGUUUUCUUCGCCCGAUUUUCGCGUUUGUUUUGCAAAUGCAAAAC-GCUUUCUAGCUCGACGGCUAAAAAUACGCGGCCCACACA--ACCCA
.(((..(((.((.((.((((((.....(((((((.....))))))).....-(((....))))))..))).)).)).))).))).......--..... ( -22.60)
>DroSim_CAF1 32762 95 - 1
UGCCCACGUUUUCUUCGCCCGAUUUUCGCGUUUGUUUUGCAAAUGCAAAAC-GCUUUCUAGCUCGACGGCUAAAAAUACGCGGCCCACACA--ACCCA
.(((..(((.((.((.((((((.....(((((((.....))))))).....-(((....))))))..))).)).)).))).))).......--..... ( -22.60)
>DroEre_CAF1 33026 95 - 1
UGCCCACGUUUUCUUUGCCCGAUUUUCGCGUUUGUUUUGCAAAUGCAAAAC-GCUUUCUAGCUCGACGGCUAAAAAUACGCGGCCCACACA--ACUUA
.(((..(((.......((((((.....(((((((.....))))))).....-(((....))))))..))).......))).))).......--..... ( -22.94)
>DroYak_CAF1 30044 95 - 1
UGCCCACGUUUUCUUUGCCCGAUUUUCGCGUUUGUUUUGCAAAUGCAAAAU-GCUUUCUAGCUCGACGUCUAAAAAUACGCGGCCCACACA--ACCCA
................((((((((((.(((((.(((((((....)))))))-(((....)))..)))))...))))).)).))).......--..... ( -19.50)
>DroAna_CAF1 38777 98 - 1
GGCCCACGUUUUCUGCGCCCGAUUCUCGCGUUUGUUUGGCAAAUGCAGGACGGCUAUCUAGCUCGGCGGCUAAAAAUACGCGGCCCACACAUGAUCCA
(((((..(((((..(((((((.((((.(((((((.....)))))))))))))(((....)))..))).))..)))))..).))))............. ( -30.40)
>consensus
UGCCCACGUUUUCUUCGCCCGAUUUUCGCGUUUGUUUUGCAAAUGCAAAAC_GCUUUCUAGCUCGACGGCUAAAAAUACGCGGCCCACACA__ACCCA
.(((..(((.......((((((((((.(((((((.....)))))))))))..(((....))))))..))).......))).))).............. (-20.94 = -20.69 +  -0.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:54 2006