fixed bug when rearranged sequence was not trimmed

non-regression-tests/check_HK97_n8_class.py

non-regression-tests/check_n8_res.py

non-regression-tests/common.py

non-regression-tests/data/n8.fasta

non-regression-tests/data/n8_1.fq.gz

non-regression-tests/data/n8_2.fq.gz

non-regression-tests/n8_cohesive-sequence.fasta

...tests/reference_results/res_n8/n8_cohesive-sequence.fasta

...gression-tests/reference_results/res_n8/n8_sequence.fasta

non-regression-tests/run_HK97.sh

non-regression-tests/run_HK97_long.sh

non-regression-tests/run_HK97_long_multiproc.sh

non-regression-tests/run_n8.sh

phagetermvirome/PhageTerm.py

phagetermvirome/functions_PhageTerm.py

phagetermvirome/generate_report.py

phagetermvirome/main_utils.py