Locus 3403

Sequence ID	2R_DroMel_CAF1
Location	11,522,955 – 11,523,047
Length	92
Max. P	0.885065

overview

Window 7

Location	11,522,955 – 11,523,047
Length	92
Sequences	3
Columns	92
Reading direction	forward
Mean pairwise identity	92.75
Mean single sequence MFE	-21.84
Consensus MFE	-19.42
Energy contribution	-18.76
Covariance contribution	-0.66
Combinations/Pair	1.10
Mean z-score	-1.90
Structure conservation index	0.89
SVM decision value	0.30
SVM RNA-class probability	0.679358
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11522955 92 + 20766785
AAGCACUAUAUGGGCUUGUUCCGUAUUAUGAACAUGGGAACUUCCCAUAAAGUUUGUGUAACCAGAGCAAAAAAUAUUCCUCCAAUGCAAAC
..(((.(((((..((((((((........))))(((((.....))))).))))..)))))....(((.((......)).)))...))).... ( -21.00)
>DroSec_CAF1 6204 92 + 1
CAGCACUGUAUGGGCUCGUUCCACAUUAUGAACAUGGGAACUUCCCAUAAAGUUUGUGUAACUAGAGCCAAAAGUAUUCCUCCAAGGCAAAC
..((.((((((.((((((((.((((..((....(((((.....)))))...)).)))).)))..)))))....)))).......)))).... ( -22.41)
>DroSim_CAF1 3999 92 + 1
CAGCACUGUAUGGGCUCGUUCCACAUUAUGAACAUGGGAACUUCCCAUAAAGUUUGUUUAACUAGAGCCAAAAGUAUUCCUCCAAGGCAAAC
..((.((((((.(((((((((........))))(((((.....)))))..((((.....)))).)))))....)))).......)))).... ( -22.11)
>consensus
CAGCACUGUAUGGGCUCGUUCCACAUUAUGAACAUGGGAACUUCCCAUAAAGUUUGUGUAACUAGAGCCAAAAGUAUUCCUCCAAGGCAAAC
....(((.((((((...(((((.(((.......))))))))..)))))).))).............(((................))).... (-19.42 = -18.76 +  -0.66)

alignment

secondary structure

dotplot

Window 8

Location	11,522,955 – 11,523,047
Length	92
Sequences	3
Columns	92
Reading direction	reverse
Mean pairwise identity	92.75
Mean single sequence MFE	-26.70
Consensus MFE	-24.30
Energy contribution	-23.97
Covariance contribution	-0.33
Combinations/Pair	1.08
Mean z-score	-2.23
Structure conservation index	0.91
SVM decision value	0.93
SVM RNA-class probability	0.885065
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11522955 92 - 20766785
GUUUGCAUUGGAGGAAUAUUUUUUGCUCUGGUUACACAAACUUUAUGGGAAGUUCCCAUGUUCAUAAUACGGAACAAGCCCAUAUAGUGCUU
....((((..(((.((......)).)))..)).......(((.((((((..(((((..(((.....))).)))))...)))))).))))).. ( -24.70)
>DroSec_CAF1 6204 92 - 1
GUUUGCCUUGGAGGAAUACUUUUGGCUCUAGUUACACAAACUUUAUGGGAAGUUCCCAUGUUCAUAAUGUGGAACGAGCCCAUACAGUGCUG
....(((..((((.....)))).))).............(((.((((((..((((((((.......))).)))))...)))))).))).... ( -27.70)
>DroSim_CAF1 3999 92 - 1
GUUUGCCUUGGAGGAAUACUUUUGGCUCUAGUUAAACAAACUUUAUGGGAAGUUCCCAUGUUCAUAAUGUGGAACGAGCCCAUACAGUGCUG
....(((..((((.....)))).))).............(((.((((((..((((((((.......))).)))))...)))))).))).... ( -27.70)
>consensus
GUUUGCCUUGGAGGAAUACUUUUGGCUCUAGUUACACAAACUUUAUGGGAAGUUCCCAUGUUCAUAAUGUGGAACGAGCCCAUACAGUGCUG
....(((..((((.....)))).))).............(((.((((((..((((((((.......))).)))))...)))))).))).... (-24.30 = -23.97 +  -0.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:54:40 2006