Locus 7799

Sequence ID	3R_DroMel_CAF1
Location	20,898,090 – 20,898,250
Length	160
Max. P	0.751166

overview

Window 8

Location	20,898,090 – 20,898,210
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	84.42
Mean single sequence MFE	-41.42
Consensus MFE	-26.76
Energy contribution	-26.60
Covariance contribution	-0.16
Combinations/Pair	1.24
Mean z-score	-1.82
Structure conservation index	0.65
SVM decision value	0.04
SVM RNA-class probability	0.555427
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20898090 120 + 27905053
CUCGAAUUACCUCAUCCAUGUUGUGUGCGGGUAGGCCUUCCAUGGACUCAUGCCAGGGCGACAGUGGAGGACCGCUGUUGCUAUCCAAUGGCGUUAAGUAUUUCAUCGUCGGCAUUGUGU
......((((((((..(.....)..)).))))))(((..(.(((((((.((((((.(((((((((((....)))))))))))......))))))..)))...)))).)..)))....... ( -39.30)
>DroGri_CAF1 12720 120 + 1
CACGAAUAACGCCAACUAUGUUGUGCGCGGGACGACCGCGUAUGGACUCCUGUCAAGGUGAUAGUGGUGGACCACUAUUAUUGUCGAAUGGAGUCAAAUAUUUUAUAGUAGGUGUAGUGU
(((.....(((((.((((((..((((((((.....)))))))).((((((..((..(((((((((((....)))))))))))...))..))))))........)))))).))))).))). ( -52.00)
>DroSec_CAF1 878 120 + 1
CUCGAAUUACCUCAUCCAUGUUGUGUGCGGGUAGGCCUUCCAUGGACUCAUGCCAGGGCGACAGUGGAGGACCGCUGUUGCUAUCCAAUGGCGUUAAGUAUUUCAUCGUUGGCAUUGUGU
......((((((((..(.....)..)).))))))(((..(.(((((((.((((((.(((((((((((....)))))))))))......))))))..)))...)))).)..)))....... ( -39.10)
>DroSim_CAF1 953 120 + 1
CUCGAAUUACCUCAUCCAUGUUGUGUGCGGGUAGGCCUUCCAUGGACUCAUGCCAGGGCGACAGUGGAGGACCGCUGUUGCUAUCCAAUGGCGUUAAGUAUUUCAUCGUCGGCAUUGUGU
......((((((((..(.....)..)).))))))(((..(.(((((((.((((((.(((((((((((....)))))))))))......))))))..)))...)))).)..)))....... ( -39.30)
>DroAna_CAF1 2597 120 + 1
CUCGAAUUACCUCAUCGAUGUUAUGCGCGGGAAGGCCAGCAAUGGACUCCUGCCAGGGCGAUAGUGGAGGACCGCUGUUGUUAUCUAAUGGAGUUAAGUAUUUUAUUGUUGGAAUUGUUU
....((((.((....(((((..((((((((((...(((....)))..))))))...(((((((((((....)))))))))))...............))))..)))))..)))))).... ( -37.40)
>consensus
CUCGAAUUACCUCAUCCAUGUUGUGUGCGGGUAGGCCUUCCAUGGACUCAUGCCAGGGCGACAGUGGAGGACCGCUGUUGCUAUCCAAUGGCGUUAAGUAUUUCAUCGUCGGCAUUGUGU
((((...(((..((....))..)))..))))...(((....(((((...((((((.(((((((((((....)))))))))))......)))))).......)))))....)))....... (-26.76 = -26.60 +  -0.16)

alignment

secondary structure

dotplot

Window 9

Location	20,898,130 – 20,898,250
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	87.67
Mean single sequence MFE	-44.77
Consensus MFE	-34.36
Energy contribution	-33.40
Covariance contribution	-0.96
Combinations/Pair	1.28
Mean z-score	-1.77
Structure conservation index	0.77
SVM decision value	0.48
SVM RNA-class probability	0.751166
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20898130 120 + 27905053
CAUGGACUCAUGCCAGGGCGACAGUGGAGGACCGCUGUUGCUAUCCAAUGGCGUUAAGUAUUUCAUCGUCGGCAUUGUGUCCUGGGGCGUUGGUUGCGGCCGCGAAGGAUAUCCGGGUGU
((.((((.((((((..(((((((((((....))))))))))).......((((.............)))))))).)).))))))((..(((..((((....))))..)))..))...... ( -46.12)
>DroGri_CAF1 12760 120 + 1
UAUGGACUCCUGUCAAGGUGAUAGUGGUGGACCACUAUUAUUGUCGAAUGGAGUCAAAUAUUUUAUAGUAGGUGUAGUGUCCUGGGGUGUUGGUUGCGGACGCGAAGGAUAUCCUGGGGU
....((((((..((..(((((((((((....)))))))))))...))..))))))..((((((......))))))....(((..(((((((..((((....))))..)))))))..))). ( -47.00)
>DroSec_CAF1 918 120 + 1
CAUGGACUCAUGCCAGGGCGACAGUGGAGGACCGCUGUUGCUAUCCAAUGGCGUUAAGUAUUUCAUCGUUGGCAUUGUGUCCUGGGGCGUCGGUUGCGGCCGCGAAGGAUAUCCGGGUGU
((.((((.(((((((((((((((((((....)))))))))))........((.....)).........)))))).)).))))))((..(((..((((....))))..)))..))...... ( -45.70)
>DroSim_CAF1 993 120 + 1
CAUGGACUCAUGCCAGGGCGACAGUGGAGGACCGCUGUUGCUAUCCAAUGGCGUUAAGUAUUUCAUCGUCGGCAUUGUGUCCUGGGGCGUCGGUUGCGGCCGCGAAGGAUAUCCGGGUGU
((.((((.((((((..(((((((((((....))))))))))).......((((.............)))))))).)).))))))((..(((..((((....))))..)))..))...... ( -47.62)
>DroAna_CAF1 2637 120 + 1
AAUGGACUCCUGCCAGGGCGAUAGUGGAGGACCGCUGUUGUUAUCUAAUGGAGUUAAGUAUUUUAUUGUUGGAAUUGUUUCCUGGGGAGUAGGUUGCGGCCGCGAAGGAUAUCCCGGUGU
(((..(((((..(((((((((((((((....))))))))))....(((((((((.....)))))))))............))))))))))..)))...((((.((......)).)))).. ( -37.40)
>consensus
CAUGGACUCAUGCCAGGGCGACAGUGGAGGACCGCUGUUGCUAUCCAAUGGCGUUAAGUAUUUCAUCGUCGGCAUUGUGUCCUGGGGCGUCGGUUGCGGCCGCGAAGGAUAUCCGGGUGU
...((((.((((((..(((((((((((....))))))))))).....((((.((.....)).))))....)))).)).))))..((..(((..((((....))))..)))..))...... (-34.36 = -33.40 +  -0.96)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:55:01 2006