Why is pygrapviz(neato) overlapping my clusters? - dot

Question

I am trying to draw a graph from the following dot file. The neato algo is overlapping the nodes while the dot one puts the clusters side by side when I want them to be like in a top down order.
This was added here because StackOv says I did not add enough detais
graph {
graph [mindist=0.5,
overlap=False,
ranksep=1
];
node [fontsize=11];
edge [fontsize=9,
len=4
];
subgraph cluster_avvc {
graph [label=AVVC,
rank="same; 1"
];
avvcsw1 [data="<__main__.N9KSwitch object at 0x02E24490>"];
avvcsw2 [data="<__main__.N9KSwitch object at 0x02E248D0>"];
}
subgraph cluster_spines {
graph [label=Spines,
rank="same; 2"
];
sp1 [data="<__main__.N9KSwitch object at 0x02E15D50>"];
sp2 [data="<__main__.N9KSwitch object at 0x02E156B0>"];
}
subgraph cluster_bl {
graph [label="Border Leafs",
rank="same; 3"
];
bl1 [data="<__main__.N9KSwitch object at 0x02E15F10>"];
bl2 [data="<__main__.N9KSwitch object at 0x02E153B0>"];
}
avvcsw1 -- sp1 [key=0,
color=blue,
headlabel="Eth1/52",
interfaces="{'sp1': 'Eth1/52', 'avvcsw1': 'Eth2/1'}",
taillabel="Eth2/1"];
avvcsw1 -- extLB [key=0,
color=blue,
headlabel="E1/2",
interfaces="{'avvcsw1': 'Eth1/34', 'extLB': 'E1/2'}",
taillabel="Eth1/34"];
avvcsw1 -- extLB [key=1,
color=blue,
headlabel="E1/1",
interfaces="{'avvcsw1': 'Eth1/33', 'extLB': 'E1/1'}",
taillabel="Eth1/33"];
avvcsw2 -- sp2 [key=0,
color=blue,
headlabel="Eth1/36",
interfaces="{'sp2': 'Eth1/36', 'avvcsw2': 'Eth2/1'}",
taillabel="Eth2/1"];
avvcsw2 -- intFW [key=0,
color=blue,
headlabel="Gi0/0/1",
interfaces="{'avvcsw2': 'Eth1/33', 'intFW': 'Gi0/0/1'}",
taillabel="Eth1/33"];
avvcsw2 -- intFW [key=1,
color=blue,
headlabel="Gi0/0/0",
interfaces="{'avvcsw2': 'Eth1/34', 'intFW': 'Gi0/0/0'}",
taillabel="Eth1/34"];
avvcsw2 -- extFW [key=0,
color=blue,
headlabel="Gi0/0/0",
interfaces="{'avvcsw2': 'Eth1/36', 'extFW': 'Gi0/0/0'}",
taillabel="Eth1/36"];
avvcsw2 -- extFW [key=1,
color=blue,
headlabel="Gi0/0/1",
interfaces="{'avvcsw2': 'Eth1/35', 'extFW': 'Gi0/0/1'}",
taillabel="Eth1/35"];
avvcsw2 -- fgFW [key=0,
color=blue,
headlabel="??",
interfaces="{'avvcsw2': 'Eth1/32', 'fgFW': '??'}",
taillabel="Eth1/32"];
avvcsw2 -- esxSvr [key=0,
color=blue,
headlabel=vmnic5,
interfaces="{'avvcsw2': 'Eth1/31', 'esxSvr': 'vmnic5'}",
taillabel="Eth1/31"];
bl1 -- sp1 [key=0,
color=blue,
headlabel="Eth1/49",
interfaces="{'sp1': 'Eth1/49', 'bl1': 'Eth2/1'}",
taillabel="Eth2/1"];
bl1 -- sp2 [key=0,
color=blue,
headlabel="Eth1/1",
interfaces="{'sp2': 'Eth1/1', 'bl1': 'Eth2/2'}",
taillabel="Eth2/2"];
bl1 -- intLB [key=0,
color=blue,
headlabel=1.1,
interfaces="{'bl1': 'Eth1/32', 'intLB': '1.1'}",
taillabel="Eth1/32"];
bl2 -- sp1 [key=0,
color=blue,
headlabel="Eth1/50",
interfaces="{'sp1': 'Eth1/50', 'bl2': 'Eth2/1'}",
taillabel="Eth2/1"];
bl2 -- sp2 [key=0,
color=blue,
headlabel="Eth1/1",
interfaces="{'sp2': 'Eth1/1', 'bl2': 'Eth2/2'}",
taillabel="Eth2/2"];
bl2 -- esxSvr [key=0,
color=blue,
headlabel=vmnic2,
interfaces="{'bl2': 'Eth1/28', 'esxSvr': 'vmnic2'}",
taillabel="Eth1/28"];
bl2 -- intLB [key=0,
color=blue,
headlabel=1.2,
interfaces="{'bl2': 'Eth1/32', 'intLB': '1.2'}",
taillabel="Eth1/32"];
}
Edit: I updated the dot file with the complete config so you can try it yourself