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* The processed contigs named '''temp.fa''' is placed in each folder of round. |
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* The processed contigs named '''temp.fa''' is placed in each folder of round. |
| - |
* The size of repetitive regions is estimated and recorded in the file of '''info1''' placed outside the CISA3 folder.
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* The size of repetitive regions is estimated and recorded in the file of '''info1''' which is placed outside the CISA3 folder.
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= In the phase 4(CISA4): =
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* Similar to CISA3, several rounds of blastn are performed in order to merge contigs with overlap larger than the maximum size of the repetitive regions.
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* The finally processed contigs named CISA_result.fa (
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