Locus 2957

Sequence ID	2R_DroMel_CAF1
Location	10,200,958 – 10,201,112
Length	154
Max. P	0.999510

overview

Window 5

Location	10,200,958 – 10,201,072
Length	114
Sequences	5
Columns	114
Reading direction	forward
Mean pairwise identity	95.43
Mean single sequence MFE	-34.09
Consensus MFE	-31.25
Energy contribution	-30.85
Covariance contribution	-0.40
Combinations/Pair	1.09
Mean z-score	-1.47
Structure conservation index	0.92
SVM decision value	1.26
SVM RNA-class probability	0.937809
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10200958 114 + 20766785
UGGAUUGGGGAAAAAUGUGGCCGAAAAUGGUGCGAGGGCGUCUGUUGGAGAAUUUCUGAAAAGUUUCUGGCCAUUUUAGCAGAUUUUCCAGCAUGGCGACGAGCGGAGAAAUCG
..((((.............(((......)))((..(..(((((((((((((((((((((((.((.....))..)))))).))))))))))))).)))).)..)).....)))). ( -32.40)
>DroSec_CAF1 29102 114 + 1
UGGAUUGGGGAAAAAUGUGGCCGAAAAUGGUGCGAGGGCGUCUGCUGGAGAAUUUCUGAAAAGUUUCUGGCCAUUUUAGCAGAUUUUCCAGCAUGGCGACGAACGGAGAAAUCG
..((((.........(((.((((.....(..((....))..)(((((((((((((((((((.((.....))..)))))).))))))))))))))))).)))........)))). ( -34.73)
>DroSim_CAF1 29365 114 + 1
UGGAUUGGGGAAAAAUGUGGCCGAAAAUGGUGCGAGGGCGUCUGCUGGAGAAUUUCUGAAAAGUUUCUGGCCAUUUUAGCAGAUUUUCCAGCAUGGCGACGAACGGAGAAAUCG
..((((.........(((.((((.....(..((....))..)(((((((((((((((((((.((.....))..)))))).))))))))))))))))).)))........)))). ( -34.73)
>DroEre_CAF1 33650 112 + 1
UGGAUUGGGGAAAAA-GUGGCC-AAAAUGGUGCGAGGGCGUCUGCAGGCGAAUUUCUGAAAAGUUUCUGGCCAUUUUAGCAGAUUUUCCUGCAUGGCGACGAGCGGAGAAAUCG
.........(..(((-((((((-(((((....((((..((((....))))...))).)....)))).))))))))))..).(((((..((((.((....)).))))..))))). ( -34.40)
>DroYak_CAF1 29904 112 + 1
UGGAUUGGGGAAAAA-GUGACCGAAAAUGGUGCGAGGGCGUCUGCAGGAGAGUUUCUGAAAAGU-UCUGGCCAUUUUAGCAGAUUUUCCUGCAUGGCGACGAGCUGAGAAAUCG
....((((.......-....)))).......((..(..(((((((((((((((((((((((.((-....))..)))))).))))))))))))).)))).)..)).((....)). ( -34.20)
>consensus
UGGAUUGGGGAAAAAUGUGGCCGAAAAUGGUGCGAGGGCGUCUGCUGGAGAAUUUCUGAAAAGUUUCUGGCCAUUUUAGCAGAUUUUCCAGCAUGGCGACGAGCGGAGAAAUCG
..((((..........((.(((......(..((....))..)(((((((((((((((((((.((.....))..)))))).))))))))))))).))).)).........)))). (-31.25 = -30.85 +  -0.40)

alignment

secondary structure

dotplot

Window 6

Location	10,200,996 – 10,201,112
Length	116
Sequences	5
Columns	116
Reading direction	forward
Mean pairwise identity	93.97
Mean single sequence MFE	-37.18
Consensus MFE	-32.40
Energy contribution	-32.28
Covariance contribution	-0.12
Combinations/Pair	1.11
Mean z-score	-2.74
Structure conservation index	0.87
SVM decision value	3.67
SVM RNA-class probability	0.999510
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10200996 116 + 20766785
CGUCUGUUGGAGAAUUUCUGAAAAGUUUCUGGCCAUUUUAGCAGAUUUUCCAGCAUGGCGACGAGCGGAGAAAUCGAGCUAAUAAAUUGACUCGGGGAAAUUGUGUCAAACAUGCC
(((((((((((((((((((((((.((.....))..)))))).))))))))))))).))))...(((.((....))..)))......(((((.(((.....))).)))))....... ( -34.90)
>DroSec_CAF1 29140 116 + 1
CGUCUGCUGGAGAAUUUCUGAAAAGUUUCUGGCCAUUUUAGCAGAUUUUCCAGCAUGGCGACGAACGGAGAAAUCGAGCUAAUAAAUUGACUCGGGAAAACUGUGUCAAAUAUGCC
(((((((((((((((((((((((.((.....))..)))))).))))))))))))).)))).......((....))...........(((((.(((.....))).)))))....... ( -36.80)
>DroSim_CAF1 29403 116 + 1
CGUCUGCUGGAGAAUUUCUGAAAAGUUUCUGGCCAUUUUAGCAGAUUUUCCAGCAUGGCGACGAACGGAGAAAUCGAGCUAAUAAAUUGACUCGGGAAAACUGUGUCAAAUAUGCC
(((((((((((((((((((((((.((.....))..)))))).))))))))))))).)))).......((....))...........(((((.(((.....))).)))))....... ( -36.80)
>DroEre_CAF1 33686 116 + 1
CGUCUGCAGGCGAAUUUCUGAAAAGUUUCUGGCCAUUUUAGCAGAUUUUCCUGCAUGGCGACGAGCGGAGAAAUCGAACUAAUAAAUUGACUCUGGGAAACUGUGUCAAAUACGCC
((((((((((.((((((((((((.((.....))..)))))).)))))).)))))).))))....(((((....))...........(((((.(.((....))).)))))...))). ( -35.90)
>DroYak_CAF1 29941 115 + 1
CGUCUGCAGGAGAGUUUCUGAAAAGU-UCUGGCCAUUUUAGCAGAUUUUCCUGCAUGGCGACGAGCUGAGAAAUCGAGCUAAUAAAUUGACUCUAGGAAACUGUGUCAAAUAUGCC
(((((((((((((((((((((((.((-....))..)))))).))))))))))))).))))...((((((....)).))))......(((((.(.((....))).)))))....... ( -41.50)
>consensus
CGUCUGCUGGAGAAUUUCUGAAAAGUUUCUGGCCAUUUUAGCAGAUUUUCCAGCAUGGCGACGAGCGGAGAAAUCGAGCUAAUAAAUUGACUCGGGGAAACUGUGUCAAAUAUGCC
(((((((((((((((((((((((.((.....))..)))))).))))))))))))).)))).(((.........)))..........(((((.(((.....))).)))))....... (-32.40 = -32.28 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:43:54 2006