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

TCCTTGGTCACGCCGGCCACCAGCACAACCTTGCCCTCATGCTCGCTGCCCAGCAGGATCACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCTTGGCCTGCAGCTGTTCCAGCTGCTTCTCCAGCTGGCGGTTGCGCTCAAGCACAGCCGACAGCTTGTCGATCAGGTTGTCGCGG  >  NC_002947/5081807‑5082097                                                                                                                                                 |                                                                                                                                                   tCCTTGGTCACGCCGGCCACCAGCACAACCTTGCCCTCATGCTCGCTGCCCAGCAGGATCACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCtt                                                                                                                                                >  6:154790/1‑149 (MQ=255)    ttGGTCACGCCGGCCACCAGCACAACCTTGCCCTCATGCTCGCTGCCCAGCAGGATCACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGc                                                                                                                                             >  3:109461/1‑149 (MQ=255)          aCGCCGGCCACCAGCACAACCTTGCCCTCATGCTCGCTGCCCAGCAGGATCACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCtt                                                                                                                                       >  8:253635/1‑149 (MQ=255)               ggCCACCAGCACAACCTTGCCCTCATGCTCGCTGCCCAGCAGGATCACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCt                                                                                                                                  <  2:257547/149‑1 (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                                                  <  1:6542‑M2/138‑99 (MQ=255)                                                                                                          agGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGAcctgctggccctggtcgatcagctgaagaacaagctcggccacgcagtgatcctgctgggcagcgagcatgagggcaaggttgtgctggtggccggcg                                                  >  2:6542‑M2/1‑40 (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)                                                                                                             gCCTTGGCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCTTGGCCTGCAGCTGTTCCAGCTGCTTCTCCAGCTGGCGGTTGCGCTCaa                                     <  8:56915/148‑1 (MQ=255)                                                                                                              ccTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCTTGGCCTGCAGCTGTTCCAGCTGCTTCTCCAGCTGGCGGTTGCGCTCAAg                                    >  7:164575/1‑148 (MQ=255)                                                                                                                ttGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCTTGGCCTGCAGCTGTTCCAGCTGCTTCTCCAGCTGGCGGtt                                             <  4:257971/137‑1 (MQ=255)                                                                                                                ttGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCTTGGCCTGCAGCTGTTCCAGCTGCTTCTCCAGCTGGCGGtt                                             >  3:257971/1‑137 (MQ=255)                                                                                                                 tGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCTTGGCCTGCAGCTGTTCCAGCTGCTTCTCCAGCTGGCGGTTGCGCTCAAGca                                  >  1:232710/1‑147 (MQ=255)                                                                                                                  gCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCTTGGCCTGCAGCTGTTCCAGCTGCTTCTCCAGCTGGCGGTTGCGCTCAAGcaca                                <  3:69359/148‑1 (MQ=255)                                                                                                                  gCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCTTGGCCTGCAGCTGTTCCAGCTGCTTCTCCAGCTGGCGGTTGCGCTCAAGcac                                 <  4:262149/147‑1 (MQ=255)                                                                                                                    cATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCGTGGCCTGCAGCTGTTCCAGCTGCTTCTCCAGCTGGCTGTTGCGCTCAAGCACAGcc                             <  3:128737/149‑1 (MQ=255)                                                                                                                         tGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCTTGGCCTGCAGCTGTTCCAGCTGCTTCTCCAGCTGGCGGTTGCGCTCAAGCACAGCCGACAg                        >  8:66299/1‑149 (MQ=255)                                                                                                                           cgcATGCAGGCGGGCGGCGAGGACCTTGGCACCGTTGACCTCAACGGCCGCGGTGGAGAGATGGTCCCCGGCGGCGCTGGCGGCCTTGGCCTGCAGCTGTTCCAGCTGCTTCTCCAGCTGGCGGTTGCGCTCAAGCACAGCCGACa                         <  8:212319/144‑1 (MQ=255)                                                                                                                           cccATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCTTGGCTTGCAGCTGTTCCAGCTGCTTCTCCAGCTGTCGGCTGTGCTTGAGCGCAACCGCCAg                        <  1:208845/147‑1 (MQ=255)                                                                                                                              aTCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCTTGGCCTGCAGCTGTTCCAGCTGCTTCTCCAGCTGGCGGTTGCGCTCAAGCACAGCCGACAGCTTGt                   <  3:84213/149‑1 (MQ=255)                                                                                                                               tCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCTTGGCCTGCAGCTGTTCCAGCTGCTTCTCCAGCTGGCGGTTGCGCTCAAGCACAGCCGACAGCTTGTc                  <  8:164575/149‑1 (MQ=255)                                                                                                                                   ggcgggcgGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCTCTGGCGGCCTTGGCCTGCAGCTGTTCCAGCTGCTTCTCCAGCTGGCGGTTGCGCTCAAGCACAGCCGACAGCTTGTCGATc              <  5:154790/149‑1 (MQ=255)                                                                                                                                      gggcggCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCTTGGCCTGCAGCTGTTCCAGCTGCTTCTCCAGCTGGCGGTTGCGCTCAAGCACAGCCGACAGCTTGTCGATCAgg           <  2:232710/149‑1 (MQ=255)                                                                                                                                            cgAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCTTGGCCTGCAGCTGTTCCAGCTGCTTCTCCAGCTGGCGGATGCGCTCAAGCACAGCCGACAGCTTGTCGATCAGGTTGTcg     >  5:231143/1‑149 (MQ=255)                                                                                                                                               ggACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCTTGGCCTGCAGCTGTTCCAGCTGCTTCTCCAGCTGGCGGTTGCGCTCAAGCACAGCCGACAGCTTGTCGATCAGGTTGTCGCgg  <  8:115034/149‑1 (MQ=255)                                                                                                                                                 |                                                                                                                                                   TCCTTGGTCACGCCGGCCACCAGCACAACCTTGCCCTCATGCTCGCTGCCCAGCAGGATCACTGCGTGGCCGAGCTTGTTCTTCAGCTGATCGACCAGGGCCAGCAGGGCCTTGCCATCCTGCCCATCCAGGCGGGCGGCGAGGACCTTGGCACCCTTGACCTCAACGGCCGCGTTGGAGAGATCGTCCCCGGCGGCGCTGGCGGCCTTGGCCTGCAGCTGTTCCAGCTGCTTCTCCAGCTGGCGGTTGCGCTCAAGCACAGCCGACAGCTTGTCGATCAGGTTGTCGCGG  >  NC_002947/5081807‑5082097

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.