Locus 7814

Sequence ID	3L_DroMel_CAF1
Location	20,898,578 – 20,898,680
Length	102
Max. P	0.787139

overview

Window 5

Location	20,898,578 – 20,898,680
Length	102
Sequences	6
Columns	102
Reading direction	forward
Mean pairwise identity	71.29
Mean single sequence MFE	-24.00
Consensus MFE	-7.61
Energy contribution	-11.00
Covariance contribution	3.39
Combinations/Pair	1.11
Mean z-score	-2.15
Structure conservation index	0.32
SVM decision value	0.58
SVM RNA-class probability	0.787139
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20898578 102 + 23771897
UGUCUAGCUUUUUAUCCAAUUCUUCUGCUUUCGCUUUCGACGGCGUUUCUUCGAUUUCGCUCUCGAAGAAUUGGCAAACAAUGGGUUCUCCCCACAAGCACA
......((((.....((((((((((.((....))....((.((((..((...))...)))).)))))))))))).......((((.....)))).))))... ( -27.60)
>DroSec_CAF1 155063 96 + 1
UGUCUAGCUUUUUAGCCAAUUCUUCGGCU------UUCGAAGGCGGUUCUUCGAUUUCGCUCUCGAAGAAUUGGCAAACCACAGGCUCUCCCCACAAGCACA
......((((....((((((((((((((.------.(((((((....)))))))....))...))))))))))))........((......))..))))... ( -31.40)
>DroSim_CAF1 151535 96 + 1
UGUCUAGCUUUUUAACCAAUUCUUCUGCU------UUCGAAGGCGGUUCUUCGAUUUCGCUCUCGAAGAAUUGGCAAACCACGGGCUCUCCCCACAAGCACA
......((((.....((((((((((.((.------.(((((((....)))))))....))....))))))))))........(((.....)))..))))... ( -28.40)
>DroEre_CAF1 154865 99 + 1
UAUCUAGCUUUUUCACAAAUUCUUCUGCCUUAACUUCC---GGCGGUCGUUCCAUUUGGCCCUCAACAAAUUGGCAAACAAUGGGUUCUCCCCAUAGGCACA
......((((...............((((.........---((.(((((.......))))))).........))))....(((((.....)))))))))... ( -20.47)
>DroYak_CAF1 156000 99 + 1
UUUCUACCUUUUUUACCAAUUCGUCUGCUUUGACUUCC---UGCGGUCGUUCUAUUUCACUCUCAAAAAAUUGGCAAACCAUGGGUUCUCCCCAUAUACACA
...............((((((((.((((..........---.)))).))...................))))))......(((((.....)))))....... ( -14.20)
>DroPer_CAF1 164484 93 + 1
UCUCCGGC------UCCGACUCGACUACUUCCUCGUCU---UCGGGUUCCGCGAUUUCCUCUUCGAUGAAAAGGCAAACUGUGGGAUUUCCCCAGCGACAGA
......((------(((((..(((........)))...---))))((((((((.((((((.(((...))).))).))).))))))))......)))...... ( -21.90)
>consensus
UGUCUAGCUUUUUAACCAAUUCUUCUGCUUU__CUUCC___GGCGGUUCUUCGAUUUCGCUCUCGAAGAAUUGGCAAACCAUGGGUUCUCCCCACAAGCACA
..........................(((............(.(((((((((((........))))))))))).).......(((.....)))...)))... ( -7.61 = -11.00 +   3.39)

alignment

secondary structure

dotplot

Window 6

Location	20,898,578 – 20,898,680
Length	102
Sequences	6
Columns	102
Reading direction	reverse
Mean pairwise identity	71.29
Mean single sequence MFE	-28.43
Consensus MFE	-10.70
Energy contribution	-11.23
Covariance contribution	0.53
Combinations/Pair	1.48
Mean z-score	-1.95
Structure conservation index	0.38
SVM decision value	0.41
SVM RNA-class probability	0.723957
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20898578 102 - 23771897
UGUGCUUGUGGGGAGAACCCAUUGUUUGCCAAUUCUUCGAGAGCGAAAUCGAAGAAACGCCGUCGAAAGCGAAAGCAGAAGAAUUGGAUAAAAAGCUAGACA
...(((((((((.....)))))..((((((((((((((((..(((............)))..))....((....)).)))))))))).))))))))...... ( -33.90)
>DroSec_CAF1 155063 96 - 1
UGUGCUUGUGGGGAGAGCCUGUGGUUUGCCAAUUCUUCGAGAGCGAAAUCGAAGAACCGCCUUCGAA------AGCCGAAGAAUUGGCUAAAAAGCUAGACA
...(((((..((.....))..).....((((((((((((...((....((((((......)))))).------.))))))))))))))....))))...... ( -33.10)
>DroSim_CAF1 151535 96 - 1
UGUGCUUGUGGGGAGAGCCCGUGGUUUGCCAAUUCUUCGAGAGCGAAAUCGAAGAACCGCCUUCGAA------AGCAGAAGAAUUGGUUAAAAAGCUAGACA
...(((..((((.....))))..)...(((((((((((....((....((((((......)))))).------.)).)))))))))))......))...... ( -31.20)
>DroEre_CAF1 154865 99 - 1
UGUGCCUAUGGGGAGAACCCAUUGUUUGCCAAUUUGUUGAGGGCCAAAUGGAACGACCGCC---GGAAGUUAAGGCAGAAGAAUUUGUGAAAAAGCUAGAUA
...((..(((((.....)))))..((((((..........(..((....))..)......(---....)....))))))...............))...... ( -19.70)
>DroYak_CAF1 156000 99 - 1
UGUGUAUAUGGGGAGAACCCAUGGUUUGCCAAUUUUUUGAGAGUGAAAUAGAACGACCGCA---GGAAGUCAAAGCAGACGAAUUGGUAAAAAAGGUAGAAA
......((((((.....)))))).(((((((((((((((...((........))(((....---....)))....)))).)))))))))))........... ( -23.00)
>DroPer_CAF1 164484 93 - 1
UCUGUCGCUGGGGAAAUCCCACAGUUUGCCUUUUCAUCGAAGAGGAAAUCGCGGAACCCGA---AGACGAGGAAGUAGUCGAGUCGGA------GCCGGAGA
......(((((((....))).))))...(((((((...)))))))...((.(((...((((---.(((.........)))...)))).------.))))).. ( -29.70)
>consensus
UGUGCUUGUGGGGAGAACCCAUGGUUUGCCAAUUCUUCGAGAGCGAAAUCGAAGAACCGCC___GAAAG__AAAGCAGAAGAAUUGGUUAAAAAGCUAGACA
..((((..((((.....))))...........((((((((........)))))))).................))))......(((((......)))))... (-10.70 = -11.23 +   0.53)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:57:37 2006