awk '
        BEGIN {
                print "Algorithm\tPrediction\tLower ragne"
        }
        function checkIDX(a)
        {
                n = split ( I[a], T, "," )
                for ( i = 1; i <= n; i++ )
                {
                        if ( T[i] == $1 )
                                F = 1
                }
                return F
        }
        NR > 1 {
                F = 0
                if ( $2 in A )
                {
                        split ( A[$2], R )
                        if ( $3 >= R[2] && $4 <= R[3] )
                        {
                                L[$2]++
                                if ( checkIDX($2) != 1 )
                                        I[$2] = I[$2] OFS $1
                        }
                        if ( $3 <= R[2] && $4 >= R[3] )
                        {
                                L[$2]++
                                if ( checkIDX($2) != 1 )
                                        I[$2] = I[$2] OFS $1
                                A[$2] = $2 "\t" $3 "\t" $4
                        }
                        if ( ( $3 > R[3] ) || ( $4 < R[2] ) )
                        {
                                print I[$2] "\t" A[$2] "\t" L[$2]
                                A[$2] = $2 "\t" $3 "\t" $4
                                L[$2] = 1
                                I[$2] = $1
                        }
                }
                if ( ! ( $2 in A ) )
                {
                        A[$2] = $2 "\t" $3 "\t" $4
                        L[$2]++
                        I[$2] = $1
                }
        }
        END {
                for ( k in I )
                {
                        print I[k] "\t" A[k] "\t" L[k]
                }
        }
' OFS=, file

Algorithm       prediction
A       x       65      85
B       x       70      80
C       x       75      85
D       x       10      20
B       y       125     130
C       y       120     140
D       y       200     210

Algorithm       Prediction      Lower ragne
A,B,C   x       65      85      3
B,C     y       120     140     2
D       x       10      20      1
D       y       200     210     1