Locus 6461

Sequence ID	2L_DroMel_CAF1
Location	18,151,047 – 18,151,207
Length	160
Max. P	0.888355

overview

Window 7

Location	18,151,047 – 18,151,167
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	81.33
Mean single sequence MFE	-33.90
Consensus MFE	-22.60
Energy contribution	-21.47
Covariance contribution	-1.13
Combinations/Pair	1.38
Mean z-score	-1.37
Structure conservation index	0.67
SVM decision value	-0.03
SVM RNA-class probability	0.520329
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18151047 120 + 22407834
GGAUCACUAUCAGAUAUUUGUGGGCUUCCUGGAAGCUGAACAAUCAGAAAGCCUUUUCAAGGAGUCCUUACUCAAGUUUAAGCUCUAUGGAGGCGAACAGUUCGCCUCAAUGCCAAAAAG
((.............(((((.(((((((.((((((((((....))))......)))))).))))))).....)))))............(((((((.....)))))))....))...... ( -30.20)
>DroSec_CAF1 1438 120 + 1
GGAUCACUAUCAGAUAUUUGUUGGCUACCUGGAGGCUGAACAAUCAGAAAGCCUUCUCAAGGAGUCCUUACUCAAGUUUAAGCUCUAUGGAGGCGAACAGUUCGCCUCAAUGCCCAAAAG
................((((..(((.....(((((((............))))))).((.(((((....((....))....))))).))(((((((.....)))))))...))))))).. ( -32.80)
>DroSim_CAF1 1987 120 + 1
GGAUCACUAUCAGAUAUUUGUUGGCUACCUGGAGGCUGAACAAUCAGAAAGCCUUCUCAAGGAGUCCUUACUCAAGUUUAAGCUCUAUGGAGGCGAACAGUUCGCCUCAAUGCCCAAAAG
................((((..(((.....(((((((............))))))).((.(((((....((....))....))))).))(((((((.....)))))))...))))))).. ( -32.80)
>DroEre_CAF1 2573 120 + 1
GGAUCAUUAUCAGAUAUUUCUUGGCGUCCUGGAGGCUGAAAAAUCAGAACGCCUUCUCAAGGAGUCCUUACUGAAACUUAACCUCUGUGGAGGCGAACAAUUCGCUUCAAUGCCAAAAAG
....................(((((((...(((((.(((....((((((.(.((((....)))).).)).))))...))).)))))...(((((((.....))))))).))))))).... ( -30.90)
>DroYak_CAF1 1791 120 + 1
GGAUCACUAUCAGAUAUUUCUUGGCUUCCUGGAGGCUGAAGAGUCGGAACGCCUUCUCAAGGAGUCCUUACUGAAAUUUAGCCUCUAUGGAGGCGAACAAUUCGCCUCAAUGCCAAAAAG
....................(((((..(.(((((((((((...((((((.(.((((....)))).).)).))))..))))))))))).)(((((((.....)))))))...))))).... ( -42.40)
>DroAna_CAF1 22373 120 + 1
GGAUCGGUAUCAAAUAUUCCUUGGUUGCAAGGAAAGUGACAAGUCGGAGACUCUUCUCUGUGAAUCUCUGAAUCAGUUGAAAUUGUUUGGGGGUCAGCAGCUUGCAUCCAUGCCACAGCG
.....(((((......(((((((....))))))).(((.(((((.(((((....)))))((..(((((..((.((((....))))))..)))))..)).))))))))..)))))...... ( -34.30)
>consensus
GGAUCACUAUCAGAUAUUUCUUGGCUUCCUGGAGGCUGAACAAUCAGAAAGCCUUCUCAAGGAGUCCUUACUCAAGUUUAAGCUCUAUGGAGGCGAACAGUUCGCCUCAAUGCCAAAAAG
((....................((((.((((((((((((....)))....))))))...))))))).......................((((((((...))))))))....))...... (-22.60 = -21.47 +  -1.13)

alignment

secondary structure

dotplot

Window 8

Location	18,151,087 – 18,151,207
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	80.44
Mean single sequence MFE	-32.93
Consensus MFE	-20.71
Energy contribution	-21.19
Covariance contribution	0.48
Combinations/Pair	1.25
Mean z-score	-2.35
Structure conservation index	0.63
SVM decision value	0.95
SVM RNA-class probability	0.888355
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18151087 120 + 22407834
CAAUCAGAAAGCCUUUUCAAGGAGUCCUUACUCAAGUUUAAGCUCUAUGGAGGCGAACAGUUCGCCUCAAUGCCAAAAAGGUAUUUCAAUGUUGCCAACGACAUUAUUCAAGCGAAGAAU
...((.(((((((((((((.(((((....((....))....))))).))(((((((.....))))))).......))))))).))))(((((((....)))))))........))..... ( -32.80)
>DroSec_CAF1 1478 120 + 1
CAAUCAGAAAGCCUUCUCAAGGAGUCCUUACUCAAGUUUAAGCUCUAUGGAGGCGAACAGUUCGCCUCAAUGCCCAAAAGGUAUUUCAAUGUUGCCAACGACAUUAUUCAAGCGAAGAAU
...((.(((((((((..((.(((((....((....))....))))).))(((((((.....))))))).........))))).))))(((((((....)))))))........))..... ( -31.00)
>DroSim_CAF1 2027 120 + 1
CAAUCAGAAAGCCUUCUCAAGGAGUCCUUACUCAAGUUUAAGCUCUAUGGAGGCGAACAGUUCGCCUCAAUGCCCAAAAGGUAUUUCAAUGUUGCCAACGACAUUAUUCAAGCGAAGAAU
...((.(((((((((..((.(((((....((....))....))))).))(((((((.....))))))).........))))).))))(((((((....)))))))........))..... ( -31.00)
>DroEre_CAF1 2613 120 + 1
AAAUCAGAACGCCUUCUCAAGGAGUCCUUACUGAAACUUAACCUCUGUGGAGGCGAACAAUUCGCUUCAAUGCCAAAAAGGUAUUUCAAUGUUGCCAACGACAUUAUUCAAGCGAAGAAC
...((....(((((((.((((((((..........)))...))).)).))))))).....(((((((.((((((.....))))))..(((((((....)))))))....))))))))).. ( -32.70)
>DroYak_CAF1 1831 120 + 1
GAGUCGGAACGCCUUCUCAAGGAGUCCUUACUGAAAUUUAGCCUCUAUGGAGGCGAACAAUUCGCCUCAAUGCCAAAAAGGUAUUUCAAUGUGGCCAACGACAUUAUUCAAGCGAACAAU
..((((((...(((.....)))..))).............(((.(..(((((((((.....)))))))((((((.....)))))).))..).)))....))).................. ( -32.10)
>DroAna_CAF1 22413 120 + 1
AAGUCGGAGACUCUUCUCUGUGAAUCUCUGAAUCAGUUGAAAUUGUUUGGGGGUCAGCAGCUUGCAUCCAUGCCACAGCGAUACGUUCAAGCUGCGACCAAAGUGAUCGAAGCCAAACAA
...(((((((.((........)).)))))))...........((((((((.((((.((((((((.((...(((....)))....)).))))))))))))...(....)....)))))))) ( -38.00)
>consensus
CAAUCAGAAAGCCUUCUCAAGGAGUCCUUACUCAAGUUUAAGCUCUAUGGAGGCGAACAGUUCGCCUCAAUGCCAAAAAGGUAUUUCAAUGUUGCCAACGACAUUAUUCAAGCGAAGAAU
..........((((((....((((..................))))..))))))......(((((...((((((.....))))))..(((((((....)))))))......))))).... (-20.71 = -21.19 +   0.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:11:47 2006