New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 4886209	46 (0.520)	13 (0.190)	10/188	NT	24.1%	intergenic (+43/+80)	PP_4295/PP_4296	TetR family transcriptional regulator/hypothetical protein
	?	NC_002947	= 4886238	47 (0.700)					intergenic (+72/+51)	PP_4295/PP_4296	TetR family transcriptional regulator/hypothetical protein

GCCGACTTCGACTGGCAGATTTCTGCGGTGACCGGTAAGGCCAAGCTGGCCGACAGTGATTATGACGCGGCGGCCGAGACCATCATTCGTATGGTCTTGAAAGGTTGTGAGCCTGAGGCAGCCTGAACCATCTCGAAGGGCCATTCGCGGGCAAGCCCGCTCCCACAGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/4886041‑4886209 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ccattcgcgggcaagcccgctcccacaggGACTCCACAACCTTCAGGCATGTGGTGATCCTGTGGGAGCGGGCTTGCCCGCGAATGGCCCTTCGAGATGGTTCAGGCTGCCTCAGGCTCACAACCTTTCAAGACCATACGAATGATGGTCTCGGCCGCCGCGTCATAATCACTGTCGG  <  NC_002947/4886238‑4886090                                                                                                                                                                                                                                                                                                                                GCCGACTTCGACTGGCAGATTTCTGCGGTGACCGGTAAGGCCAAGCTGGCCGACAGTGATTATGACGCGGCGGCCGAGACCATCATTCGTATGGTCTTGAAAGGTTGTGAGCCTGAGGCAGCCTGAACCATCTCGAAGGGCCATTCGCGG                                                                                                                                                                          <  2:1710514/150‑1  CCGACTTCGACTGGCAGATTTCTGCGGTGACCGGTAAGGCCAAGCTGGCCGACAGTGATTATGACGCGGCGGCCGAGACCATCATTCGTATGGTCTTGAAAGGTTGTGAGCCTGAGGCAGCCTGAACCATCTCGAAGGGCCATTCGCGGG                                                                                                                                                                         <  2:537713/150‑1      CTTCGACTGGCAGATTTCTGCGGTGACCGGTAAGGCCAAGCTGGCCGACAGTGATTATGACGCGGCGGCCGAGACCATCATTCGTATGGTCTTGAAAGGTTGTGAGCCTGAGGCAGCCTGAACCATCTCGAAGGGCCATTCGCGGGCAAG                                                                                                                                                                     >  1:493089/1‑150             TGGCAGATTTCTGCGGTGATCGGTAAGGCCAAGCTGGCCGACAGTGATTATGACGCGGCGGCCGAGACCATCATTCGTATGGTCTTGAAAGGTTGTGAGCCTGAGGCAGCCTGAACCATCTCGAAGGGCCATTCGCGGGCAAGCCCGCTC                                                                                                                                                              <  1:733637/150‑1               GCAGATTTCTGCGGTGACCGGTAAGGCCAAGCTGGCCGACAGTGATTATGACGCGGCGGCCGAGACCATCATTCGTATGGTCTTGAAAGGTTGTGAGCCTGAGGCAGCCTGAACCATCTCGAAGGGCCATTCGCGGGCAAGCCCGCTCCC                                                                                                                                                            <  2:2101175/150‑1               GCAGATTTCTGCGGTGACCGGTAAGGCCAAGCTGGCCGACAGTGATTATGACGCGGCGGCCGAGACCATCATTCGTATGGTCTTGAAAGGTTGTGAGCCTGAGGCAGCCTGAACCATCTCGAAGGGCCATTCGCGGGCAAGCCCGCTCCC                                                                                                                                                            >  1:1511310/1‑150                    TTTCTGCGGTGACCGGTAAGGCCAAGCTGGCCGACAGTGATTATGACGCGGCGGCCGAGACCATCATTCGTATGGTCTTGAAAGGTTGTGAGCCTGAGGCAGCCTGAACCATCTCGAAGGGCCATTCGCGGGCAAGCCCGCTCCCACAGG                                                                                                                                                       >  2:1147082/1‑150                                 CGGTAAGGCCAAGCTGGCCGACAGTGATTATGACGCGGCGGCCGAGACCATCATTCGTATGGTCTTGAAAGGTTGTGAGCCTGAGGCAGCCTGAACCATCTCGAAGGGCCATTCGCGGGCAAGCCCGCTCCCACAGGGACTCCACAACCT                                                                                                                                          >  1:2161747/1‑150                                   GTAAGGCCAAGCTGGCCGACAGTGATTATGACGCGGCGGCCGAGACCATCATTCGTATGGTCTTGAAAGGTTGTGAGCCTGAGGCAGCCTGAACCATCTCGAAGGGCCATTCGCGGGCAAGCCCGCTCCCA                                                                                                                                                           >  2:2323944/1‑131                                   GTAAGGCCAAGCTGGCCGACAGTGATTATGACGCGGCGGCCGAGACCATCATTCGTATGGTCTTGAAAGGTTGTGAGCCTGAGGCAGCCTGAACCATCTCGAAGGGCCATTCGCGGGCAAGCCCGCTCCCA                                                                                                                                                           <  1:2323944/131‑1                                        GCCAAGCTGGCCGACAGTGATTATGACGCGGCGGCCGAGACCATCATTCGTATGGTCTTGAAAGGTTGTGAGCCTGAGGCAGCCTGAACCATCTCGAAGGGCCATTCGCGGGCAAGCCCGCTCCCACAG                                                                                                                                                        <  1:434840/129‑1                                        GCCAAGCTGGCCGACAGTGATTATGACGCGGCGGCCGAGACCATCATTCGTATGGTCTTGAAAGGTTGTGAGCCTGAGGCAGCCTGAACCATCTCGAAGGGCCATTCGCGGGCAAGCCCGCTCCCACAG                                                                                                                                                        >  2:434840/1‑129                                          CAAGCTGGCCGACAGTGATTATGACGCGGCGGCCGAGACCATCATTCGTATGGTCTTGAAAGGTTGTGAGCCTGAGGCAGCCTGAACCATCTCGAAGGGCCATTCGCGG                                                                                                                                                                          <  1:1994286/109‑1                                          CAAGCTGGCCGACAGTGATTATGACGCGGCGGCCGAGACCATCATTCGTATGGTCTTGAAAGGTTGTGAGCCTGAGGCAGCCTGAACCATCTCGAAGGGCCATTCGCGG                                                                                                                                                                          >  2:1994286/1‑109                                                    GACAGTGATTATGACGCGGCGGCCGAGACCATCATTCGTATGGTCTTGAAAGGTTGTGAGCCTGAGGCAGCCTGAACCATCTCGAAGGGCCATTCGCGGGCAAGCCCGCTCCCACAGGGACTCCACAACCTTCAGGCATGTGGTGATCCT                                                                                                                       <  1:632056/150‑1                                                      CAGTGATTATGACGCGGCGGCCGAGACCATCATTCGTATGGTCTTGAAAGGTTGTGAGCCTGAGGCAGCCTGAACCATCTCGAAGGGCCATTCGCGGGCAAGCCCGCTCCCACAGGGACTCCACAACCTTCAGGCATGTGGTGATCCTGT                                                                                                                     <  2:2161747/150‑1                                                         TGATTATGACGCGGCGGCCGAGACCATCATTCGTATGGTCTTGAAAGGTTGTGAGCCTGAGGCAGCCTGAACCATCTCGAAGGCCCATTCGCGGGCAAGCCCGCTCCCACAGGGCCTCCACAACCTTCAGGCATGTGGTGATCCTGTGG                                                                                                                   >  2:1952634/1‑149                                                         TGATTATGACGCGGCGGCCGAGACCATCATTCGTATGGTCTTGAAAGGTTGTGAGCCTGAGGCAGCCTGAACCATCTCGAAGGCCCATTCGCGGGCAAGCCCGCTCCCACAGGGACTCCACAACCTTCAGGCATGTGGTGATCCTGTGG                                                                                                                   <  1:1952634/149‑1                                                                 ACGCGGCGGCCGAGACCATCATTCGTATGGTCTTGAAAGGTTGTGAGCCTGAGGCAGCCTGAACCATCTCGAAGGGCCATTCGCGG                                                                                                                                                                          >  1:263158/1‑86                                                                 ACGCGGCGGCCGAGACCATCATTCGTATGGTCTTGAAAGGTTGTGAGCCTGAGGCAGCCTGAACCATCTCGAAGGGCCATTCGCGG                                                                                                                                                                          <  2:263158/86‑1                                                                               ACCATCATTCGTATGGTCTTGAAAGGTTGTGATCCTGAGGCAGCCTGAACCATCTCGAAGGGCCATTCGCGGGCAAGCCCGCTCCCACAGGGACTCCACAACCTTCAGGCATGTGGTGATCCTG                                                                                                                      <  2:2131756/124‑1                                                                               ACCATCATTCGTATGGTCTTGAAAGGTTGTGAGCCTGAGGCAGCCTGAACCATCTCGAAGGGCCATTCGCGGGCAAGCCCGCTCCCACAGGGACTCCACAACCTTCAGGCATGTGGTGATCCTG                                                                                                                      >  1:2131756/1‑124                                                                               ACCATCATTCGTATGGTCTTGAAAGGTTGTGAGCCTGAGGCAGCCTGAACCATCTCGAAGGGCCATTCGCGGGCAAGCCCGCTCCCACAGGGACTCCACAACCTTCAGGCATGTGGTGATCCTG                                                                                                                      <  2:2131925/124‑1                                                                               ACCATCATTCGTATGGTCTTGAAAGGGTGTGAGCCTGAGGCAGCCTGAACCATCTCGAAGGGCCATTCGCGGGCAAGCCCGCTCCCACAGGGACTCCACAACCTTCAGGCATGTGGTGATCCTG                                                                                                                      >  1:2131925/1‑124                                                                                  ATCATTCGTATGGTCTTGAAAGGTTGTGAGCCTGAGGCAGCCTGAACCATCTCGAAGGGCCATTCGCGGGCAAGCCCGCTCCCACAGGGACTCCACAACCTTCAGGCATGTGGTGATCCTGTGG                                                                                                                   >  2:699381/1‑124                                                                                  ATCATTCGTATGGTCTTGAAAGGTTGTGAGCCTGAGGCAGCCTGAACCATCTCGAAGGGCCATTCGCGGGCAAGCCCGCTCCCACAGGGACTCCACAACCTTCAGGCATGTGGTGATCCTGTGG                                                                                                                   <  1:699381/124‑1                                                                                     ATTCGTATGGTCTTGAAAGGTTGTGAGCCTGAGGCAGCCTGAACCATCTCGAAGGGCCATTCGCGGGCAAGCCCGCTCCCACA                                                                                                                                                         >  2:792303/1‑83                                                                                     ATTCGTATGGTCTTGAAAGGTTGTGAGCCTGAGGCAGCCTGAACCATCTCGAAGGGCCATTCGCGGGCAAGCCCGCTCCCACA                                                                                                                                                         <  1:792303/83‑1                                                                                                     AAGGTTGTGAGCCTGAGGCAGCCTGAACCATCTCGAAGGCCCATTCGCGGGCAAGCCCGCTCCCACAGGGACTCCACAACCTTCAGGCATGTGGTGATCCTGTGGGAGCGGGCTTGCCCGCGAATGGCCC                                                                                          <  2:33010/130‑1                                                                                                     AAGGTTGTGAGCCTGAGGCAGCCTGAACCATCTCGAAGGCCCATTCGCGGGCAAGCCCGCTCCCACAGGGACTCCACAACCTTCAGGCATGTGGTGATCCTGTGGGAGCGGGCTTGCCCGCGAATGGCCC                                                                                          >  1:33010/1‑130                                                                                                                                               ATTCGCGGGCAAGCCCGCTCCCACAGGGACTCCACAACCTTCAGGCATGTGGTGATCCTGTGGGAGCGGGCTTGCCCGCGAATGGCCCTTCGAGATGGTTCAGGCTGCCTCAGGCTCACAACCTTTCAAGACCATACGAATGATGGTCTC                            <  2:2188693/150‑1                                                                                                                                                TTCGCGGGCAAGCCCGCTCCCACAGGGACTCCACAACCTTCAGGCATGTGGTGATCCTGTGGGAGCGGGCTTGCCCGCGAATGGCCCTTCGAGATGGTTCAGGCTGCCTCAGGCTCACAACCTTTCAAGACCATACGAATGATGGTCTCG                           <  2:560962/150‑1                                                                                                                                                   GCGGGCAAGCCCGCTCCCACAGGGACTCCACAACCTTCAGGCATGTGGTGATCCTGTGGGAGCGGGCTTGCCCGCGAATGGCCCTTCGAGATGG                                                                                >  2:1038259/1‑94                                                                                                                                                   GCGGGCAAGCCCGCTCCCACAGGGACTCCACAACCTTCAGGCATGTGGTGATCCTGTGGGAGCGGGCTTGCCCGCGAATGGCCCTTCGAGATGG                                                                                <  1:1038259/94‑1                                                                                                                                                             CCGCTCCCACAGGGACTCCACAACCTTCAGGCATGTGGTGATCCTGTGGGAGCGGGCTTGCCCGCGAATGGCCCTTCGAGATGGTTCAGGCTGCCTCAGGCTCACAACCTTTCAAGACCATACGAATGATGGTCTCGGCCGCCGCGTCct              >  1:1913186/1‑148                                                                                                                                                             CCGCTCCCACAGGGACTCCACAACCTTCAGGCATGTGGTGATCCTGTGGGAGCGGGCTTGCCCGCGAATGGCCCTTCGAGATGGTTCAGGCTGCCTCAGGCTCAC                                                           >  2:882280/1‑105                                                                                                                                                             CCGCTCCCACAGGGACTCCACAACCTTCAGGCATGTGGTGATCCTGTGGGAGCGGGCTTGCCCGCGAATGGCCCTTCGAGATGGTTCAGGCTGCCTCAGGCTCAC                                                           <  1:882280/105‑1                                                                                                                                                                 TCCCACAGGGACTCCACAACCTTCAGGCATGTGGTGATCCTGTGGGAGCGGGCTTGCCCGCGAATGGCCCTTCGAGATGGTTCAGGCTGCCTCAGGCTCACAACCTTTCAAGACCATACGAATGATGGTCTCGGCCGCCGCGTCATAATC          >  2:1724467/1‑150                                                                                                                                                                   CCACAGGGACTCCACAACCTTCAGGCATGTGGTGATCCTGTGGGAGCGGGCTTGCCCGCGAATGGCCCTTCGAGATGGTTCAGGCTGCCTCAGGCTCACAACCTTTCAAGACCATACGAATGATGGTCTCGGCCGCCGCGTCATAATCAC        >  2:1436998/1‑150                                                                                                                                                                    CACAGGGACTCCACAACCTTCAGGCATGTGGTGATCCTGTGGGCGCGGGCGTGCCCGCGAATGGCCCTTCGAGATGGTTCAGGCTGCCTCAGGCTCCACTGCTTTCAAGACCATACGAATGATGGTCTCGGCCGCCGCGTCATAATCACT       <  1:1267746/150‑1                                                                                                                                                                    CACAGGGACTCCACAACCTTCAGGCATGTGGTGATCCTGTGGGAGCGGGCTTGCCCGCGAATGGCCCTTCGAGATGGTTCAGGCTGCCTCAGGCTCACAACCTTTCAAGACCATACGAATGATGGTCTCGGCCGCCGCGTCATAATCACT       <  2:159105/150‑1                                                                                                                                                                     ACAGGGACTCCACAACCTTCAGGCATGTGGTGATCCTGTGGGAGCGGGCTTGCCCGCGAATGGCCCTTCGAGATGGTTCAGGCTGCCTCAGGCTCACAACCTTTCAAGACCATACGAATGATGGTCTCGGCCGCCGCGTCATAATCACTG      >  1:1549146/1‑150                                                                                                                                                                     ACAGGGACTCCACAACCTTCAGGCATGTGGTGATCCTGTGGGAGCGGGCTTGCCCGCGAATGGCCCTTCGAGATGGTTCAGGCTGCCTCAGGCTCACAACCTTTCAAGACCATACGAATGATGGTCTCGGCCGCCGCGT                 <  2:1446582/139‑1                                                                                                                                                                     ACAGGGACTCCACAACCTTCAGGCATGTGGTGATCCTGTGGGAGCGGGCTTGCCCGCGAATGGCCCTTCGAGATGGTTCAGGCTGCCTCAGGCTCACAACCTTTCAAGACCATACGAATGATGGTCTCGGCCGCCGCGT                 >  1:1446582/1‑139                                                                                                                                                                         GGACTCCACAACCTTCAGGCATGTGGTGATCCTGTGGGAGCGGGCTTGCCCGCGAATGGCCCTTCGAGATGGTTCAGGCTGCCTCAGGCTCACAACCTTTCAAGACCATACGAATGATGGTCTCGGCCGCCGCGTCATAATCACTGTCGG  >  2:544555/1‑150                                                                                                                                                                                                                                                                                                                                GCCGACTTCGACTGGCAGATTTCTGCGGTGACCGGTAAGGCCAAGCTGGCCGACAGTGATTATGACGCGGCGGCCGAGACCATCATTCGTATGGTCTTGAAAGGTTGTGAGCCTGAGGCAGCCTGAACCATCTCGAAGGGCCATTCGCGGGCAAGCCCGCTCCCACAGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_002947/4886041‑4886209 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ccattcgcgggcaagcccgctcccacaggGACTCCACAACCTTCAGGCATGTGGTGATCCTGTGGGAGCGGGCTTGCCCGCGAATGGCCCTTCGAGATGGTTCAGGCTGCCTCAGGCTCACAACCTTTCAAGACCATACGAATGATGGTCTCGGCCGCCGCGTCATAATCACTGTCGG  <  NC_002947/4886238‑4886090

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.