Motivation: Bacterial genomes are composed by a core and an accessory genome. The first composed of housekeeping and essential genes, while the second is composed, in its majority, of mobile genetic elements, including transposable elements (TEs). Insertion sequences (ISs), the smallest TEs, have an important role in genome evolution, and contribute to bacterial genome plasticity and adaptability. ISs can spread in a genome, presenting different locations in nearly related strains, and producing phenotypic variations. Few tools are available which can identify differentially located ISs (DLIS) on assembled genomes. Results: We developed ISCompare to profile IS mobilization events in related bacterial strains using complete or draft genome assemblies. ISCompare was validated using artificial genomes with simulated random IS insertions and real sequences, achieving the same or better results than other available tools, with the advantage that ISCompare can analyse multiple ISs at the same time and outputs a list of candidate DLIS. We think that ISCompare provides an easy and straightforward approach to look for differentially located ISs on bacterial genomes. Availability and implementation: ISCompare was implemented in python3 and its source code is freely available for download at https://github.com/maurijlozano/ISCompare. Supplementary information: Supplementary data are available at https://github.com/maurijlozano/ISCompare.

中文翻译：

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使用ISCompare可以轻松识别相关细菌菌株中的插入序列动员事件。

动机：细菌基因组由核心和辅助基因组组成。第一个由管家基因和必需基因组成，而第二个则由流动基因元件（包括转座元件（TEs））组成。插入序列（ISs）是最小的TE，在基因组进化中具有重要作用，并有助于细菌基因组的可塑性和适应性。IS可以在基因组中传播，在几乎相关的菌株中呈现不同的位置，并产生表型变异。很少有工具可以识别组装好的基因组上的不同位置的IS（DLIS）。结果：我们开发了ISCompare，以使用完整的或草图的基因组程序对相关细菌菌株中的IS动员事件进行分析。ISCompare已使用具有模拟随机IS插入和真实序列的人工基因组进行了验证，与其他可用工具相比，其结果相同或更好，其优点是ISCompare可以同时分析多个IS，并输出候选DLIS列表。我们认为ISCompare提供了一种简单直接的方法来寻找细菌基因组上不同位置的IS。可用性和实现：ISCompare在python3中实现，其源代码可从https://github.com/maurijlozano/ISCompare免费下载。补充信息：补充数据可从https://github.com/maurijlozano/ISCompare获得。ISCompare可以同时分析多个IS并输出候选DLIS列表的优点。我们认为ISCompare提供了一种简单直接的方法来寻找细菌基因组上不同位置的IS。可用性和实现：ISCompare在python3中实现，其源代码可从https://github.com/maurijlozano/ISCompare免费下载。补充信息：补充数据可从https://github.com/maurijlozano/ISCompare获得。ISCompare可以同时分析多个IS并输出候选DLIS列表的优点。我们认为ISCompare提供了一种简单直接的方法来寻找细菌基因组上不同位置的IS。可用性和实现：ISCompare在python3中实现，其源代码可从https://github.com/maurijlozano/ISCompare免费下载。补充信息：补充数据可从https://github.com/maurijlozano/ISCompare获得。