Locus 3440

Sequence ID	X_DroMel_CAF1
Location	9,213,052 – 9,213,212
Length	160
Max. P	0.715983

overview

Window 8

Location	9,213,052 – 9,213,172
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	80.11
Mean single sequence MFE	-36.70
Consensus MFE	-21.38
Energy contribution	-21.97
Covariance contribution	0.59
Combinations/Pair	1.30
Mean z-score	-1.65
Structure conservation index	0.58
SVM decision value	-0.04
SVM RNA-class probability	0.511072
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9213052 120 - 22224390
AUUCAGAAGAUUUCGUAUAAUGGCGCCAAUCGCAAGAUAAUCCGCAGAGAUCUGCCCAACCCCAUGGGCAUUGCUGUCUAUCUGAACGAUGUCUACUGGGUGGAUAGGAAUCUGAUGACC
..(((..(((((((..............(((....))).((((((((....))))...((((..(((((((((...((.....)).)))))))))..)))))))).)))))))..))).. ( -41.00)
>DroVir_CAF1 11144 120 - 1
AUACAGAAGAUCUCCUACAACGGCGCCAAUCGGAAAAUUAUUCGUCGCGACUUGCCCAAUCCCAUGGGCAUCGCCAUUUUCCUGAAUGAUGUUUACUGGGUAGAUCGCAAUCUUAUGACU
........(((((((((....((((.((.(((((((((........((((..((((((......)))))))))).))))))).)).)).))))...)))).))))).............. ( -32.40)
>DroGri_CAF1 12388 120 - 1
AUACAGAAGAUCUCGUAUAAUGGCGUCAAUCGCAAGGUGAUCCGACGUGAUCUGCCCAAUCCGAUGGGCAUUGCCAUUUUCCGCAACGAUGUCUACUGGGUGGAUCGCAAUCUGAUGACA
...((((.............(((.((((.((....)))))))))..((((((..((((....(.(((((((((.............))))))))))))))..))))))..))))...... ( -38.32)
>DroWil_CAF1 11888 120 - 1
AUACAAAAGAUAUCCUACAAUGGCGUCAAUCGCAAGGUCAUUCGUCGUGACUUACCCAAUCCCAUGGGCAUAGCAAUCUAUCUGAACGAUGUCUAUUGGGUCGAUAGGAAUUUGAUGACC
...((..((((.((((((.((((((...(((....)))....)))))).....(((((.....((((((((..((.......))....))))))))))))).).)))))))))..))... ( -28.80)
>DroMoj_CAF1 12299 120 - 1
AUUCAGAAGAUAUCGUACAAUGGCGUCAAUGCCAAGGUGAUACGCCGAGACCUACCCAAUCCGGUGGGCAUUGCCAUUUAUCUGAACGAUGUGUACUGGGUGGAUGGCAAUCUCAAUUCG
.....(((.....((((((.(((((....)))))...)).))))..((((((((((......))))))..((((((((((((((.((.....)).).)))))))))))))))))..))). ( -38.20)
>DroAna_CAF1 12694 120 - 1
AUCCAGAAGAUCUCGUACAACGGCGCCAACCGCAAGGUCAUCCGGAGGGACCUGCCCAAUCCCAUGGGCAUUGCCGUCUACCUGAACGACGUCUACUGGGUGGACCGCAACCUGAUGACC
((((((.((((.((((.((.(((.....(((....)))...)))((.((...((((((......))))))...)).))....)).)))).)))).))))))................... ( -41.50)
>consensus
AUACAGAAGAUCUCGUACAAUGGCGCCAAUCGCAAGGUCAUCCGCCGAGACCUGCCCAAUCCCAUGGGCAUUGCCAUCUACCUGAACGAUGUCUACUGGGUGGAUCGCAAUCUGAUGACC
...(((.((((.((((.(((((((....(((....)))..............((((((......))))))..))))).....)).)))).)))).)))...................... (-21.38 = -21.97 +   0.59)

alignment

secondary structure

dotplot

Window 9

Location	9,213,092 – 9,213,212
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	80.44
Mean single sequence MFE	-38.63
Consensus MFE	-23.17
Energy contribution	-23.57
Covariance contribution	0.39
Combinations/Pair	1.30
Mean z-score	-1.94
Structure conservation index	0.60
SVM decision value	0.39
SVM RNA-class probability	0.715983
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9213092 120 - 22224390
GACCCAUGACAUCUACUGGGUGGACUCGAAACUGGACACCAUUCAGAAGAUUUCGUAUAAUGGCGCCAAUCGCAAGAUAAUCCGCAGAGAUCUGCCCAACCCCAUGGGCAUUGCUGUCUA
(((..((((.((((.((((((((..((.......))..)))))))).)))).))))......(((...(((....)))....)))..((...((((((......))))))...))))).. ( -36.20)
>DroVir_CAF1 11184 120 - 1
GACGCAUGAUGUCUUUUGGGUGGACUCGAAACUGGAUACGAUACAGAAGAUCUCCUACAACGGCGCCAAUCGGAAAAUUAUUCGUCGCGACUUGCCCAAUCCCAUGGGCAUCGCCAUUUU
((((.(((((...(((((..(((..(((.....(((...(((.......)))))).....)))..)))..))))).))))).))))((((..((((((......))))))))))...... ( -34.20)
>DroGri_CAF1 12428 120 - 1
GACGCACGAUGUGUUUUGGGUUGACUCCAAGCUGGACACCAUACAGAAGAUCUCGUAUAAUGGCGUCAAUCGCAAGGUGAUCCGACGUGAUCUGCCCAAUCCGAUGGGCAUUGCCAUUUU
.....((((.((.(((((...((..(((.....)))...))..))))).)).))))..(((((((((.(((((...)))))..)))......((((((......))))))..)))))).. ( -35.10)
>DroWil_CAF1 11928 120 - 1
AACCCAUGAUGUCUAUUGGGUUGAUUCCAAAUUGGAUACGAUACAAAAGAUAUCCUACAAUGGCGUCAAUCGCAAGGUCAUUCGUCGUGACUUACCCAAUCCCAUGGGCAUAGCAAUCUA
..((((((......(((((((((((.(((....((((((.........).))))).....))).))))......(((((((.....))))))))))))))..))))))............ ( -31.80)
>DroMoj_CAF1 12339 120 - 1
AACGCACGAUGUCUACUGGGUGGACUCCAAGCUGGAUACGAUUCAGAAGAUAUCGUACAAUGGCGUCAAUGCCAAGGUGAUACGCCGAGACCUACCCAAUCCGGUGGGCAUUGCCAUUUA
...(.(((((((((.((((((.(..(((.....)))..).)))))).))))))))).)(((((((...(((((..((((...))))......((((......)))))))))))))))).. ( -43.60)
>DroAna_CAF1 12734 120 - 1
GACGCACGACAUCUUCUGGGUGGACUCCAAGCUGGACACGAUCCAGAAGAUCUCGUACAACGGCGCCAACCGCAAGGUCAUCCGGAGGGACCUGCCCAAUCCCAUGGGCAUUGCCGUCUA
((((.((((.(((((((((((.(..(((.....)))..).))))))))))).)))).)...(((....(((....)))..(((....)))..((((((......))))))..)))))).. ( -50.90)
>consensus
GACGCACGAUGUCUACUGGGUGGACUCCAAACUGGACACGAUACAGAAGAUCUCGUACAAUGGCGCCAAUCGCAAGGUCAUCCGCCGAGACCUGCCCAAUCCCAUGGGCAUUGCCAUCUA
.....((((.((((.(((..(.(..(((.....)))..).)..))).)))).))))...(((((....(((....)))..............((((((......))))))..)))))... (-23.17 = -23.57 +   0.39)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:35 2006