Locus 5763

Sequence ID	3R_DroMel_CAF1
Location	14,993,110 – 14,993,268
Length	158
Max. P	0.990093

overview

Window 5

Location	14,993,110 – 14,993,228
Length	118
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	93.30
Mean single sequence MFE	-35.03
Consensus MFE	-31.97
Energy contribution	-32.30
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-2.31
Structure conservation index	0.91
SVM decision value	1.04
SVM RNA-class probability	0.905251
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14993110 118 - 27905053
CCAGAAAUUGUUGGUGACAACCACCAGAUGGAAAGCGAAAUGGAAUCGCAUUCUGGCCCGAAGAACCAAAAUCGCGAUUACUCUGUGGCCAGGUGACGAUGGGCAGGCAAAAAAAA--AA
.(((((....((((((.....)))))).......((((.......)))).)))))(((((..(.(((....(((((.......)))))...)))..)..)))))............--.. ( -30.10)
>DroSim_CAF1 12176 120 - 1
CCAGAAAUUGUUGGUGACAACCACCAGAUGGAAAGCGAAAUGGAAUCGCAUUCUGGCCCGAAGAACCAAAAUCGCGGUUACUCUGUGGGCAGGUGACGAUGGGCUGGCAAAAAAAAAAAA
((((..(((((((....))))((((....((((.((((.......)))).)))).(((((.((((((........)))...))).))))).))))..)))...))))............. ( -37.90)
>DroYak_CAF1 12644 113 - 1
CCAGAAAUUGUUGGUGACAACCACCAGAUGGAAAGCGAAAUGGAAUCGCAUUCUGGCCCGAAGAACCAAAAUCGCGGUUACUCUGUGGGCAGGUG---AUGGGCUGGCAAAAAAGU----
((((.....((((....))))((((....((((.((((.......)))).)))).(((((.((((((........)))...))).))))).))))---.....)))).........---- ( -37.10)
>consensus
CCAGAAAUUGUUGGUGACAACCACCAGAUGGAAAGCGAAAUGGAAUCGCAUUCUGGCCCGAAGAACCAAAAUCGCGGUUACUCUGUGGGCAGGUGACGAUGGGCUGGCAAAAAAAA__AA
.(((((....((((((.....)))))).......((((.......)))).)))))(((((....(((....((((((.....))))))...))).....)))))................ (-31.97 = -32.30 +   0.33)

alignment

secondary structure

dotplot

Window 6

Location	14,993,148 – 14,993,268
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	98.89
Mean single sequence MFE	-34.90
Consensus MFE	-33.91
Energy contribution	-33.47
Covariance contribution	-0.44
Combinations/Pair	1.06
Mean z-score	-3.03
Structure conservation index	0.97
SVM decision value	1.94
SVM RNA-class probability	0.983477
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14993148 120 + 27905053
UAAUCGCGAUUUUGGUUCUUCGGGCCAGAAUGCGAUUCCAUUUCGCUUUCCAUCUGGUGGUUGUCACCAACAAUUUCUGGCCGCAAGCGCCUUUUUUGUUUAUCUUGUGAUUUUUUCCGU
.((((((.((((((((.(....))))))))))))))).....((((.........((((.....))))(((((.....((((....).)))....)))))......)))).......... ( -34.70)
>DroSim_CAF1 12216 120 + 1
UAACCGCGAUUUUGGUUCUUCGGGCCAGAAUGCGAUUCCAUUUCGCUUUCCAUCUGGUGGUUGUCACCAACAAUUUCUGGCCGCAAGCGCCUUUUUUGUUUAUCUUGUGACUUUUUCCGU
.((((((.((((((((.(....)))))))))((((.......))))..........))))))(((((.(((((.....((((....).)))....)))))......)))))......... ( -36.10)
>DroYak_CAF1 12677 120 + 1
UAACCGCGAUUUUGGUUCUUCGGGCCAGAAUGCGAUUCCAUUUCGCUUUCCAUCUGGUGGUUGUCACCAACAAUUUCUGGCCGCAAGCGCCUUUUUUGUUUAUCUUGUGAUUUUUUCCGU
.((((((.((((((((.(....)))))))))((((.......))))..........))))))(((((.(((((.....((((....).)))....)))))......)))))......... ( -33.90)
>consensus
UAACCGCGAUUUUGGUUCUUCGGGCCAGAAUGCGAUUCCAUUUCGCUUUCCAUCUGGUGGUUGUCACCAACAAUUUCUGGCCGCAAGCGCCUUUUUUGUUUAUCUUGUGAUUUUUUCCGU
.((((((.(((((((((.....)))))))))((((.......))))..........))))))(((((.(((((.....((((....).)))....)))))......)))))......... (-33.91 = -33.47 +  -0.44)

alignment

secondary structure

dotplot

Window 7

Location	14,993,148 – 14,993,268
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	98.89
Mean single sequence MFE	-32.83
Consensus MFE	-33.05
Energy contribution	-32.83
Covariance contribution	-0.22
Combinations/Pair	1.03
Mean z-score	-2.93
Structure conservation index	1.01
SVM decision value	2.20
SVM RNA-class probability	0.990093
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14993148 120 - 27905053
ACGGAAAAAAUCACAAGAUAAACAAAAAAGGCGCUUGCGGCCAGAAAUUGUUGGUGACAACCACCAGAUGGAAAGCGAAAUGGAAUCGCAUUCUGGCCCGAAGAACCAAAAUCGCGAUUA
.((((....(((....)))..........((..((((.((((((((....((((((.....)))))).......((((.......)))).))))))))).)))..))....)).)).... ( -32.60)
>DroSim_CAF1 12216 120 - 1
ACGGAAAAAGUCACAAGAUAAACAAAAAAGGCGCUUGCGGCCAGAAAUUGUUGGUGACAACCACCAGAUGGAAAGCGAAAUGGAAUCGCAUUCUGGCCCGAAGAACCAAAAUCGCGGUUA
.((((....(((....)))..........((..((((.((((((((....((((((.....)))))).......((((.......)))).))))))))).)))..))....)).)).... ( -33.10)
>DroYak_CAF1 12677 120 - 1
ACGGAAAAAAUCACAAGAUAAACAAAAAAGGCGCUUGCGGCCAGAAAUUGUUGGUGACAACCACCAGAUGGAAAGCGAAAUGGAAUCGCAUUCUGGCCCGAAGAACCAAAAUCGCGGUUA
.((((....(((....)))..........((..((((.((((((((....((((((.....)))))).......((((.......)))).))))))))).)))..))....)).)).... ( -32.80)
>consensus
ACGGAAAAAAUCACAAGAUAAACAAAAAAGGCGCUUGCGGCCAGAAAUUGUUGGUGACAACCACCAGAUGGAAAGCGAAAUGGAAUCGCAUUCUGGCCCGAAGAACCAAAAUCGCGGUUA
.((((....(((....)))..........((..((((.((((((((....((((((.....)))))).......((((.......)))).))))))))).)))..))....)).)).... (-33.05 = -32.83 +  -0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:12 2006