Locus 9351

Sequence ID	3R_DroMel_CAF1
Location	24,867,072 – 24,867,165
Length	93
Max. P	0.627967

overview

Window 3

Location	24,867,072 – 24,867,165
Length	93
Sequences	6
Columns	93
Reading direction	forward
Mean pairwise identity	79.42
Mean single sequence MFE	-24.31
Consensus MFE	-16.26
Energy contribution	-16.57
Covariance contribution	0.31
Combinations/Pair	1.33
Mean z-score	-1.25
Structure conservation index	0.67
SVM decision value	0.06
SVM RNA-class probability	0.562780
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24867072 93 + 27905053
UCACCUUCGGCAAACUGGCCGACGAGCAGCUCAUCGACCCCUAUGUCUCCAUAGAUGUCGACGAGAGUCACUUCGGUGAGUGUCCUCCCACUU
......(((((......))))).(((..((((((((((..(((((....)))))..)))(((....))).....)))))))...)))...... ( -33.50)
>DroVir_CAF1 970 92 + 1
UAACAUUUGGCAAAUUGGCCGAUGAGCAGCUGAUCGAUCCCUACGUGUCCAUAGAUGUCGACGAGAGUCAUUUUGGUGAGUUUUUUUUU-UUU
...((((.(((......)))))))...((((.((((((..(((........)))..)))(((....))).....))).)))).......-... ( -19.30)
>DroSim_CAF1 350 92 + 1
UCACCUUCGGCAAACUGGCCGACGAGCAGCUCAUCGAUCCCUAUGUCUCCAUAGAUGUCGACGAGAGUCACUUCGGUAAGUUACCUCCCACU-
........((..((((.(((((.(.(...(((.(((((..(((((....)))))..))))).)))...).).))))).)))).)).......- ( -26.10)
>DroWil_CAF1 98 92 + 1
UAACAUUUGGUAAAUUGGCCGAUGAGCAAUUGAUCGAUCCGUAUGUGUCCAUUGAUGUGGAUGAGAGUCAUUUUGGUAAGUUGUUU-ACGUUA
((((..(((((......)))))(((((((((.(((((........(((((((....))))))).........))))).))))))))-).)))) ( -22.23)
>DroMoj_CAF1 80 89 + 1
UAACGUUUGGCAAAUUGGCCGAUGAGCAGCUGAUCGAUCCCUACGUGUCCAUAGAUGUCGACGAGAGUCAUUUUGGUAAGCAAAUUAUC----
........(((......)))(((((...(((.((((((..(((........)))..)))(((....))).....))).)))...)))))---- ( -20.10)
>DroAna_CAF1 80 91 + 1
UUACCUUUGGCAAAUUAGCCGACGAGCAGCUCAUAGAUCCCUAUGUCACCAUAGACGUCGACGACAGUCAUUUCGGUGAGAGAGUU-CUAUU-
......(((((......))))).((((..(((((.(((..(((((....)))))..)))(((....)))......)))))...)))-)....- ( -24.60)
>consensus
UAACCUUUGGCAAAUUGGCCGACGAGCAGCUCAUCGAUCCCUAUGUCUCCAUAGAUGUCGACGAGAGUCAUUUCGGUAAGUUACUU_CCAUU_
......(((((......)))))......(((.(((((...(((((....))))).....(((....)))...))))).)))............ (-16.26 = -16.57 +   0.31)

alignment

secondary structure

dotplot

Window 4

Location	24,867,072 – 24,867,165
Length	93
Sequences	6
Columns	93
Reading direction	reverse
Mean pairwise identity	79.42
Mean single sequence MFE	-25.15
Consensus MFE	-14.40
Energy contribution	-14.40
Covariance contribution	0.00
Combinations/Pair	1.21
Mean z-score	-1.78
Structure conservation index	0.57
SVM decision value	0.19
SVM RNA-class probability	0.627967
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24867072 93 - 27905053
AAGUGGGAGGACACUCACCGAAGUGACUCUCGUCGACAUCUAUGGAGACAUAGGGGUCGAUGAGCUGCUCGUCGGCCAGUUUGCCGAAGGUGA
..(((......)))(((((((.(((...(((((((((..(((((....)))))..))))))))).))))).(((((......))))).))))) ( -42.20)
>DroVir_CAF1 970 92 - 1
AAA-AAAAAAAAACUCACCAAAAUGACUCUCGUCGACAUCUAUGGACACGUAGGGAUCGAUCAGCUGCUCAUCGGCCAAUUUGCCAAAUGUUA
...-.......(((........(((((.((.(((((..((((((....))))))..))))).))..).)))).(((......)))....))). ( -18.90)
>DroSim_CAF1 350 92 - 1
-AGUGGGAGGUAACUUACCGAAGUGACUCUCGUCGACAUCUAUGGAGACAUAGGGAUCGAUGAGCUGCUCGUCGGCCAGUUUGCCGAAGGUGA
-.......(((((((..((((.(.(...((((((((..((((((....))))))..))))))))...).).))))..)).)))))........ ( -35.70)
>DroWil_CAF1 98 92 - 1
UAACGU-AAACAACUUACCAAAAUGACUCUCAUCCACAUCAAUGGACACAUACGGAUCGAUCAAUUGCUCAUCGGCCAAUUUACCAAAUGUUA
((((((-.........................((((......)))).......((.(((((.........)))))))..........)))))) ( -10.50)
>DroMoj_CAF1 80 89 - 1
----GAUAAUUUGCUUACCAAAAUGACUCUCGUCGACAUCUAUGGACACGUAGGGAUCGAUCAGCUGCUCAUCGGCCAAUUUGCCAAACGUUA
----..................(((((.((.(((((..((((((....))))))..))))).))..).)))).(((......)))........ ( -18.70)
>DroAna_CAF1 80 91 - 1
-AAUAG-AACUCUCUCACCGAAAUGACUGUCGUCGACGUCUAUGGUGACAUAGGGAUCUAUGAGCUGCUCGUCGGCUAAUUUGCCAAAGGUAA
-.((((-(.((((.((((((....(((.(((...))))))..))))))...)))).)))))....((((..(.(((......))))..)))). ( -24.90)
>consensus
_AAUGG_AAAUAACUCACCAAAAUGACUCUCGUCGACAUCUAUGGACACAUAGGGAUCGAUCAGCUGCUCAUCGGCCAAUUUGCCAAAGGUUA
......................(((((....(((((..((((((....))))))..))))).....).)))).(((......)))........ (-14.40 = -14.40 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:32:25 2006