[pool-1-thread-1] ERROR net.maizegenetics.dna.map.PositionListBuilder - validateOrdering: Position      Chr:1B  Pos:711831      Name:S1B_711831 Variants:C/T    MAF:NaN Ref:C and Position      Chr:7A  Pos:736691630   Name:S7A_736691630  Variants:T/C     MAF:NaN Ref:T out of order.