1. A method of recovering a nucleic acid sequence using a probe map, the method comprising: aligning a probe having a base sequence of a predetermined length onto a target sequence based on a result in which the probe is hybridized to the target sequence; determining a representative value representing each aligned position of the probe based on a statistical distribution of each aligned position of the probe; and recovering a base sequence of the target sequence by using a probe map to which the determined representative values and base sequence information of the probe are mapped, wherein the aligning and determining steps are repeated for other probes having base sequences different from the probe, and the probe map contains mapping information of all aligned probes, wherein the aligning, determining, and recovering steps are performed using one or more processors, and wherein the method further comprises generating the probe map containing the mapping information of the probe by aligning the probe from repeatedly detected hybridization results based on errors of positions in which the probe is hybridized; and refining the mapping information of the probe by using the mapping information of the other probes contained in the probe map.