New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 5081914	38 (0.900)	4 (0.100)	4/252	NT	8.8%	coding (2352/2625 nt)	alaS	alanine‑‑tRNA ligase
	?	NC_002947	= 5081951	46 (1.120)					coding (2315/2625 nt)	alaS	alanine‑‑tRNA ligase

TTCATCAGATCGCCAGCCTTGAGTTGGCTGGAGAGGTCCTTGGTCACGCCGGCCACCAGCACAACCTTGCCCTCATGCTCGCTGCCCAGCAGGATCACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCTTGGCCTGCAGCTGTTCCAGCTGCTTCTCCAGCTGGCGGTTGCGCTCAA  >  NC_002947/5081771‑5082062                                                                                                                                                |                                                                                                                                                     ttCATCAGATCGCCAGCCTTGAGTTGGCTGGAGAGGTCCTTGGTCACGCCGGCCACCAGCACAACCTTGCCCTCATGCTCGCTGCCCAGCAGGATCACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCtt                                                                                                                                                 >  6:126678/1‑149 (MQ=255)    atcaGATCGCCAGCCTTGAGTTGGCTGGTGAGGTCCTTGGTCACGCCGGCCACCAGCACAACCTTGCCCTCATGCTCGCTGCCCAGCAGGATCACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTGc                                                                                                                                               >  1:257547/1‑148 (MQ=255)         aTCGCCAGCCTTGAGTTGGCTGGAGAGGTCCTTGGTCACGCCGGCCACCAGCACAACCTTGCCCTCATGCTCGCTGCCCAGCAGGATCACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCt                                                                                                                                         >  6:29926/1‑149 (MQ=255)          tCGCCAGCCTTGAGTTGGCTGGAGAGGTCCTTGGTCACGCCGGCCACCAGCACAACCTTGCCCTCATGCTCGCTGCCCAGCAGGATCACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTg                                                                                                                                        <  1:42845/149‑1 (MQ=255)              cAGCCTTGAGTTGGCTGGAGAGGTCCTTGGTCACGCCGGCCACCAGCACAACCTTGCCCTCATGCTCGCTGCCCAGCAGGATCACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGccc                                                                                                                                     >  8:191532/1‑148 (MQ=255)                 ccTTGAGTTGGCTGGAGAGGTCCTTGGTCACGCCGGCCACCAGCACAACCTTGCCCTCATGCTCGCTGCCCAGCAGGATCACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGCCCATc                                                                                                                                  >  1:61593/1‑148 (MQ=255)                  cTTGAGTTGGCTGGAGAGGTCCTTGGTCACGCCGGCCACCAGGACAACCTTGCCCTCATGCTCGCTGACAAGCAGGATCACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGCCCATc                                                                                                                                  >  1:216345/1‑147 (MQ=255)                              ggAGAGGTCCTTGGTCACGCCGGCCACCAGCACAACCTTGCCCTCATGCTCGCTGCCCAGCAGGATCACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTg                                                                                                                                                >  7:154519/1‑121 (MQ=255)                              ggAGAGGTCCTTGGTCACGCCGGCCACCAGCACAACCTTGCCCTCATGCTCGCTGCCCAGCAGGATCACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTg                                                                                                                                                <  8:154519/121‑1 (MQ=255)                                     tCCTTGGTCACGCCGGCCACCAGCACAACCTTGCCCTCATGCTCGCTGCCCAGCAGGATCACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGccc                                                                                                                                     <  6:73902/125‑1 (MQ=255)                                     tCCTTGGTCACGCCGGCCACCAGCACAACCTTGCCCTCATGCTCGCTGCCCAGCAGGATCACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGccc                                                                                                                                     >  5:73902/1‑125 (MQ=255)                                     tCCTTGGTCACGCCGGCCACCAGCACAACCTTGCCCTCATGCTCGCTGCCCAGCAGGATCACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCtt                                                                                                             >  6:154790/1‑149 (MQ=255)                                        ttGGTCACGCCGGCCACCAGCACAACCTTGCCCTCATGCTCGCTGCCCAGCAGGATCACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGc                                                                                                          >  3:109461/1‑149 (MQ=255)                                              aCGCCGGCCACCAGCACAACCTTGCCCTCATGCTCGCTGCCCAGCAGGATCACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCtt                                                                                                    >  8:253635/1‑149 (MQ=255)                                               cGCCGGCCACCAGCACAACCTTGCCCTCATGCTCGCTGCCCAGCAGGATCACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGtcctcgccgcccgcctggatgggcaggatggcaaggccct                                                                                                              <  1:6542‑M1/138‑41 (MQ=255)                                               cGCCGGCCACCAGCACAACCTTGCCCTCATGCTCGCTGCCCAGCAGGATCACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGtcctcgccgcccgcctggatgggcaggatggcaaggccct                                                                                                              >  2:6542‑M1/1‑98 (MQ=255)                                                   ggCCACCAGCACAACCTTGCCCTCATGCTCGCTGCCCAGCAGGATCACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCt                                                                                               <  2:257547/149‑1 (MQ=255)                                                          aGCACAACCTTGCCCTCATGCTCGCTGCCCAGCAGGATCACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGtcctcgccgcccgcctggatgggcaggatggcaaggcc                                                                                                                <  2:200633‑M1/125‑39 (MQ=255)                                                          aGCACAACCTTGCCCTCATGCTCGCTGCCCAGCAGGATCACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGtcctcgccgcccgcctggatgggcaggatggcaaggcc                                                                                                                >  1:200633‑M1/1‑87 (MQ=255)                                                                 ccTTGCCCTCATGCTCGCTGCCCAGCAGGATCACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTg                                                                                 <  1:261314/149‑1 (MQ=255)                                                                    tGCCCTCATGCTCGCTGCCCAGCAGGATCACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGgag                                                                              >  4:220290/1‑149 (MQ=255)                                                                      cccTCATGCTCGCTGCCCAGCAGGATCACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGgaga                                                                             <  5:126678/148‑1 (MQ=255)                                                                         tCATGCTCGCTGCCCAGCAGGATCACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGga                                                                               >  4:69359/1‑143 (MQ=255)                                                                           aTGCTCGCTGCCCAGCAGGATCACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGt                                                                       <  5:14255/149‑1 (MQ=255)                                                                                          cagGATCACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTgg                                                        >  4:50552/1‑149 (MQ=255)                                                                                           agGATCACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTggc                                                       <  7:253635/149‑1 (MQ=255)                                                                                               tCACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGcc                                                   >  7:171593/1‑149 (MQ=255)                                                                                                cACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCt                                                  >  4:84213/1‑149 (MQ=255)                                                                                                     cGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCTTgg                                               <  7:191532/147‑1 (MQ=255)                                                                                                     cGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCTTGGc                                              <  4:109461/148‑1 (MQ=255)                                                                                                          ccGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCTTGGCCTGCAg                                        >  1:230307/1‑149 (MQ=255)                                                                                                                ttGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCTTGGCCTGCAGCTGTTc                                  >  3:262149/1‑149 (MQ=255)                                                                                                                  gTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCTTGGCCTGCAGCTGTTc                                  >  2:268386/1‑147 (MQ=255)                                                                                                                     cttcAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCTTGGCCTGCAGCTGTTCCAgc                              <  3:69229/148‑1 (MQ=255)                                                                                                                        cAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCTTGGCCTGCAGCTGTTCCAgctgc                           <  3:220290/148‑1 (MQ=255)                                                                                                                        cAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCTTGGCCTGCAGCTGTTCCAgctg                            <  2:230307/147‑1 (MQ=255)                                                                                                                         aGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCTTGGCCTGCAGCTGTTCCAGCTGCtt                         <  2:61593/149‑1 (MQ=255)                                                                                                                          gCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCTTGGCCTGCAGCTGTTCCAGCTGCTtc                        <  5:29926/149‑1 (MQ=255)                                                                                                                              aTCGACCAGGGCCAGCAGGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCTTGGCCTGCAGCTGTTCCAGCTGCTTCTCCa                    >  2:184853/1‑149 (MQ=255)                                                                                                                                   ccAGGGCCAGCAGGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCTTGGCCTGCAGCTGTTCCAGCTGCTTCTCCAGCTgg               <  8:171593/149‑1 (MQ=255)                                                                                                                                    cAGGGCCAGCAGGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCTCCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCTTGGCCTGCAGCTGTTCCAGCTGCTTCTCCAGCTGGc              >  8:111572/1‑149 (MQ=255)                                                                                                                                     aGGGCCAGCAGGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCTTGGCCTGCAGCTGTTCCAGCTGCTTCTCCAGCTGGCg             >  2:162984/1‑149 (MQ=255)                                                                                                                                           agcagGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCTTGGCCTGCAGCTGTTCCAGCTGCTTCTCCAGCTGGCGGTTgcg       >  7:115034/1‑149 (MQ=255)                                                                                                                                             cagGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCTTGGCCTGCAGCTGTTCCAGCTGCTTCTCCAGCTGTCGGCTGTGCt     >  2:208845/1‑149 (MQ=255)                                                                                                                                              agGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGAcctgctggccctggtcgatcagctgaagaacaagctcggccacgcagtgatcctgctgggcagcgagcatgagggcaaggttgtgctggtggccggcg               >  2:6542‑M2/1‑40 (MQ=255)                                                                                                                                              agGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGAcctgctggccctggtcgatcagctgaagaacaagctcggccacgcagtgatcctgctgggcagcgagcatgagggcaaggttgtgctggtggccggcg               <  1:6542‑M2/138‑99 (MQ=255)                                                                                                                                                ggCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGAcctgctggccctggtcgatcagctgaagaacaagctcggccacgcagtgatcctgctgggcagcgagcatgagggcaaggttgtgct                          <  2:200633‑M2/125‑88 (MQ=255)                                                                                                                                                ggCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGAcctgctggccctggtcgatcagctgaagaacaagctcggccacgcagtgatcctgctgggcagcgagcatgagggcaaggttgtgct                          >  1:200633‑M2/1‑38 (MQ=255)                                                                                                                                                ggCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCTTGGCCTGCAGCTGTTCCAGCTGCTTCTCCAGCTGGCGGTTGCGCTCaa  <  1:268386/149‑1 (MQ=255)                                                                                                                                                ggCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTAGGAGTGATCGTCACCGGCGGCGCTGGCGGCCTTGGCCTGCAGCTGTTCCAGCTGCTTCTCCACCTGGCGGTTGCGCTc    >  7:212319/1‑147 (MQ=255)                                                                                                                                                ggCCTGGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCACCGGCCGCGTTGGAGAGAGCGGCCCCGGCGGCGCTGGCGGCCGTGGCCTGCAGCTGTTCCAGCTGCTTCTCCAGCTGGCGGTTGCGCTCaa  <  4:138397/149‑1 (MQ=255)                                                                                                                                                |                                                                                                                                                     TTCATCAGATCGCCAGCCTTGAGTTGGCTGGAGAGGTCCTTGGTCACGCCGGCCACCAGCACAACCTTGCCCTCATGCTCGCTGCCCAGCAGGATCACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCTTGGCCTGCAGCTGTTCCAGCTGCTTCTCCAGCTGGCGGTTGCGCTCAA  >  NC_002947/5081771‑5082062

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ 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.