A scanning imaging system, comprising: a transportation apparatus configured to transport an inspected object in a transportation direction; a first imaging system comprising a first ray generator and first detectors; and a second imaging system arranged on the downstream of the first imaging system in the transportation direction, the second imaging system comprising a second ray generator and second detectors, wherein a distance between a ray beam from the first ray generator of the first imaging system and a ray beam from the second ray generator of the second imaging system in the transportation direction is roughly L; wherein the scanning imaging system is characterised in that it further comprises: an encoder configured to output a signal whenever the transportation apparatus travels a predetermined distance D; an encoding counter module configured to count the output signal of the encoder; and a controller configured to acquire, based on a count value of the encoding counter module, a correspondence relationship between data in a position of the inspected object in the transportation direction which is collected by the first imaging system and data in the position of the inspected object in the transportation direction which is collected by the second imaging system, wherein a difference between a count value of the encoder corresponding to the data in the position which is collected by the first imaging system and a count value of the encoder corresponding to the data in the position which is collected by the second imaging system is roughly L/D. a transportation apparatus configured to transport an inspected object in a transportation direction; a first imaging system comprising a first ray generator and first detectors; and a second imaging system arranged on the downstream of the first imaging system in the transportation direction, the second imaging system comprising a second ray generator and second detectors, wherein a distance between a ray beam from the first ray generator of the first imaging system and a ray beam from the second ray generator of the second imaging system in the transportation direction is roughly L; wherein the scanning imaging system is characterised in that it further comprises: an encoder configured to output a signal whenever the transportation apparatus travels a predetermined distance D; an encoding counter module configured to count the output signal of the encoder; and a controller configured to acquire, based on a count value of the encoding counter module, a correspondence relationship between data in a position of the inspected object in the transportation direction which is collected by the first imaging system and data in the position of the inspected object in the transportation direction which is collected by the second imaging system, wherein a difference between a count value of the encoder corresponding to the data in the position which is collected by the first imaging system and a count value of the encoder corresponding to the data in the position which is collected by the second imaging system is roughly L/D. an encoder configured to output a signal whenever the transportation apparatus travels a predetermined distance D; an encoding counter module configured to count the output signal of the encoder; and a controller configured to acquire, based on a count value of the encoding counter module, a correspondence relationship between data in a position of the inspected object in the transportation direction which is collected by the first imaging system and data in the position of the inspected object in the transportation direction which is collected by the second imaging system, wherein a difference between a count value of the encoder corresponding to the data in the position which is collected by the first imaging system and a count value of the encoder corresponding to the data in the position which is collected by the second imaging system is roughly L/D.