New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	2525159 =	61 (0.940)	3 (0.050)	3/246	NT	5.3%	coding (270/732 nt)	nirR	transcriptional regulator NirR
	?	CP000730	2525195 =	49 (0.790)					coding (234/732 nt)	nirR	transcriptional regulator NirR

GTTGTTCGTCACCTGCTAATGCGTCACAAATACGTTGTTCAATTAATCGTCTCATTAAAGGATGTGTGCCAAGTGGCTCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAACCCCACTTTGAATCAACGTCGTCATTACCGTCTCTAAATCCTGATGCTCACTTTCTAAAAACGCAATATCATAGTGATGTAT  >  CP000730/2525056‑2525335                                                                                                                                            |                                                                                                                                             gttgttCGTCACCTGCTAATGCGTCACAAATACGTTGTTCAATTAATCGTCTCATTAAAGGATGTGTGCCAAGTGGCTCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTatat                                                                                                                                             <  1:731371/141‑1 (MQ=255)  ttgttCGTCACCTGCTAATGCGTCACAAATACGTTGTTCAATTAATCGTCTCATTAAAGGATGTGTGCCAAGTGGCTCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATc                                                                                                                                            >  2:319407/1‑141 (MQ=255)    gttCGTCACCTGCTAATGCGTCACAAATACGTTGTTCAATTAATCGTCTCATTAAAGGATGTGTGCCAAGTGGCTCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCt                                                                                                                                          >  1:231758/1‑141 (MQ=255)     ttCGTCACCTGCTAATGCGTCACAAATACGTTGTTCAATTAATCGTCTCATTAAAGGATGTGTGCCAAGTGGCTCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCtt                                                                                                                                         >  1:280262/1‑141 (MQ=255)         tCACCTGCTAATGCGTCACAAATACGTTGTTCAATTAATCGTCTCATTAAAGGATGTGTGCCAAGTGGCTCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTgaga                                                                                                                                     <  1:418242/141‑1 (MQ=255)          agagacggtaatgacgacgttgattcaaagtggggttgactgttttaatattgtaccattgatattctttagtgcaatgcattatcgcaaggatATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGAt                                                                                                                                    >  2:286344‑M1/95‑141 (MQ=255)              tGCTAATGCGTCACAAATACGTTGTTCAATTAATCGTCTCATTAAAGGATGTGTGCCAAGTGGCTCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATg                                                                                                                                >  1:107319/1‑141 (MQ=255)                 tAATGCGTCACAAATACGTTGTTCAATTAATCGTCTCATTAAAGGATGTGTGCCAAGTGGCTCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCAt                                                                                                                             <  1:401796/141‑1 (MQ=255)                  aaTGCGTCACAAATACGTTGTTCAATTAATCGTCTCATTAAAGGATGTGTGCCAAGTGGCTCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCAtt                                                                                                                            >  1:266217/1‑141 (MQ=255)                  aaTGCGTCACAAATACGTTGTTCAATTAATCGTCTCATTAAAGGATGTGTGCCAAGTGGCTCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCAtt                                                                                                                            >  2:680787/1‑141 (MQ=255)                      cGTCACAAATACGTTGTTCAATTAATCGTCTCATTAAAGGATGTGTGCCAAGTGGCTCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCAc                                                                                                                        >  1:192515/1‑141 (MQ=255)                           caAATACGTTGTTCAATTAATCGTCTCATTAAAGGATGTGTGCCAAGTGGCTCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAg                                                                                                                   >  2:169502/1‑141 (MQ=255)                            aaaTACGTTGTTCAATTAATCGTCTCATTAAAGGATGTGTGCCAAGTGGCTCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTGCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGa                                                                                                                  <  2:707167/141‑1 (MQ=255)                              aTACGTTGTTCAATTAATCGTCTCATTAAAGGATGTGTGCCAAGTGGCTCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGAtt                                                                                                                <  2:173133/141‑1 (MQ=255)                              aTACGTTGTTCAATTAATCGTCTCATTAAAGGATGTGTGCCAAGTGGCTCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGAtt                                                                                                                <  2:472336/141‑1 (MQ=255)                                         aaTTAATCGTCTCATTAAAGGATGTGTGCCAAGTGGCTCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTAc                                                                                                     <  1:283575/141‑1 (MQ=255)                                            tAATCGTCTCATTAAAGGATGTGTGCCAAGTGGCTCGCTTACTTCTACCTTTGTGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATTCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAAt                                                                                                  <  2:560490/141‑1 (MQ=255)                                              aTCGTCTCATTAAAGGATGTGTGCCAAGTGGCTCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAAttt                                                                                                <  1:731199/141‑1 (MQ=255)                                              aTCGTCTCATTAAAGGATGTGTGCCAAGTGGCTCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAAttt                                                                                                <  2:633729/141‑1 (MQ=255)                                              aTCGTCTCATTAAAGGATGTGTGCCAAGTGGCTCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAAttt                                                                                                <  2:186473/141‑1 (MQ=255)                                               tCGTCTCATTAAAGGATGTGTGCCAAGTGGCTCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGATTACCAATGGTACAAtttt                                                                                               >  2:701587/1‑141 (MQ=255)                                                    tcATTAAAGGATGTGTGCCAAGTGGCTCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAAt                                                                                          >  2:530236/1‑141 (MQ=255)                                                           aGGATGTGTGCCAAGTGGCTCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATg                                                                                         >  1:746552/1‑135 (MQ=255)                                                           aGGATGTGTGCCAAGTGGCTCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATg                                                                                         <  2:746552/135‑1 (MQ=255)                                                           aGGATGTGTGCCAAGTGGCTCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAAc                                                                                   >  1:286043/1‑141 (MQ=255)                                                            ggATGTGTGCCAAGTGGCTCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAAcc                                                                                  <  1:291489/141‑1 (MQ=255)                                                              aTGTGTGCCAAGTGGCTCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAAcccc                                                                                <  1:774219/141‑1 (MQ=255)                                                              aTGTGTGCCAAGTGGCTCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAAcccc                                                                                <  1:553730/141‑1 (MQ=255)                                                               tgtgtgCCAAGTGGCTCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAACCCCa                                                                               >  1:107648/1‑141 (MQ=255)                                                                gtgtgCCAAGTGGCTCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCCCTGAAGGTTAGCCATAGTCCTATTTTAAAATGGTCAACCCCAc                                                                              >  1:350282/1‑141 (MQ=255)                                                                gtgtgCCAAGTGGCTCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATACTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAACCCAAc                                                                              >  1:560810/1‑141 (MQ=255)                                                                gtgtgCCAAGTGGCTCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTGTCATTTCATGAACGATATTCGGTATATCCTTGCGATAATCCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAACCCCAc                                                                              >  2:194562/1‑141 (MQ=255)                                                                 tgtgCCAAGTGGCTCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAACCCCACt                                                                             >  1:637755/1‑141 (MQ=255)                                                                  gtgCCAAGTGGCTCACTTTCTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAACCCCACtt                                                                            <  1:392731/141‑1 (MQ=255)                                                                    gCCAAGTGGCTCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAACCCCACTTTg                                                                          >  2:681088/1‑141 (MQ=255)                                                                            gCTCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAACCCCACTTTGAATCAAcg                                                                  <  1:715872/141‑1 (MQ=255)                                                                              tCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTCTATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGCCAACCCCCCTTTGAATCAAcgtc                                                                >  1:492521/1‑141 (MQ=255)                                                                              tCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAACCCCACTTTGAATCAAcgtc                                                                >  1:527789/1‑141 (MQ=255)                                                                                   tACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAACCCCACTTTGAATCAACGTCGTCAt                                                           >  1:594393/1‑141 (MQ=255)                                                                                   tACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAACCCCACTTTGAATCAACGTCGTCAt                                                           >  1:641635/1‑141 (MQ=255)                                                                                   tACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAACCCCACTTTGAATCAACGTCGTCAt                                                           >  1:274430/1‑141 (MQ=255)                                                                                     cTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAACCCCACTTTGAATCAACGTCGTCATTa                                                         >  2:694573/1‑141 (MQ=255)                                                                                      ttCTACCTTTATGTCTGGATACCGTCGGTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAACCCCACTTTGAATCAACGTCGTCATTAc                                                        >  2:74249/1‑141 (MQ=255)                                                                                       tCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAACCCCACTTTGAATCAACGTCGTCATTAcc                                                       >  1:69303/1‑141 (MQ=255)                                                                                          aCCTTTATGTCTGGACACCGTCGTTTCATTTCATGAACGATAGTCGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAAGTTTAAAATGGTCAACCCCACTTTGAATCAACGTCGTCATTACCGtc                                                    <  1:290718/141‑1 (MQ=255)                                                                                             tttATGTCTTGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAATATGGTCAACCCCACTTTGAATCAACGTCGTCATTACCGTctct                                                 <  2:752066/141‑1 (MQ=255)                                                                                             atctcaaggatataccgaatatcgttcatgaaatgaaacgacggtatATCCTTGCGATAATGCATTGCACTAAAGAATATCAATGGTACAATATTAAAACAGTCAACCCCACTTTGAATCAACGTCGTCATTACCGTctct                                                 >  2:286344‑M2/48‑141 (MQ=255)                                                                                                 tGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAACCCCACTTTGAATCAACGTCGTCATTACCGTCTCTAAAt                                             <  2:797/141‑1 (MQ=255)                                                                                                      ggATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAACCCCACTTTGAATCAACGTCGTCATTACCGTCTCTAAATCCTGa                                        >  1:404993/1‑141 (MQ=255)                                                                                                             gaatatcgttcatgaaatgaaacgacggtatATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTaaa                                                                                            >  2:159193‑M2/32‑82 (MQ=255)                                                                                                             gaatatcgttcatgaaatgaaacgacggtatATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTaaa                                                                                            <  1:159193‑M2/51‑1 (MQ=255)                                                                                                              tcgtTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAACCCCACTTTGAATCAACGTCGTCATTACCGTCTCTAAATCCTGATGCTCACt                                <  2:754177/141‑1 (MQ=255)                                                                                                                     atttcatGAACGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAACCCCACTTTGAATCAACGTCGTCATTACCGTCTCTCAATCATGATGCTCACTTTCTaaa                         >  1:598502/1‑141 (MQ=255)                                                                                                                          atGAACGATATTCAGTATATCCGTGAGATAATGCATTGCACTAATGATGAGCAATGGTACAATTTGAACATGGTCACCCGCACTTTGAATCAACGTCGGCGTTGCCGTCTCTAAATGCTGATGCTCACTTTCAAAAAACGc                    <  2:62068/141‑1 (MQ=255)                                                                                                                              actatatTCGGTATATCCTTTATATAATTCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAACCCCACTTTGAATCAACGTCGTCATTACCGTCTCTAAATCCTGATGCTCACTTTCTAAAAACGCAata                <  2:708602/138‑1 (MQ=255)                                                                                                                              aCGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAACCCCACTTTGAATCAACGTCGTCATTACCGTCTCTAAATCCTGATGCTCACTTTCTAAAAACGCAata                <  2:490788/141‑1 (MQ=255)                                                                                                                               cGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAACCCCACTTTGAATCAACGTCGTCATTCCCGTCTCTAAATCCTGATGCTCACTTTCTAAAAACTCAatat               >  2:749340/1‑141 (MQ=255)                                                                                                                                      cggtatATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAACCCCACTTTGAATCAACGTCGTCATTACCGTCTCTAAATCCTGATGCTCACTTTCTAAAAACGCAATATCATAGTg        >  1:370086‑M2/7‑141 (MQ=255)                                                                                                                                        gtatATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAACCCCACTTTGAATCAACGTCGTCATTACCGTCTCTAAATCCTGATGCTCACTTTCTAAAAACGCAATATCATAGTGAt      >  2:155134‑M2/5‑141 (MQ=255)                                                                                                                                        gtatATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAACCCCACTTTGAATCAACGTCGTCATTACCGTCTCTAAATCCTGATCCTCACTTTCTAACAACGCAATATCATAGTGAt      >  2:744497‑M2/5‑141 (MQ=255)                                                                                                                                          atATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAACCCCACTTTGAATCAACGTCGTCATTACCGTCTCTAAATCCTGATGCTCACTTTCTAAAAACGCAATATCATAGTGATGt    <  2:503852‑M2/139‑1 (MQ=255)                                                                                                                                            atCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAACCCCACTTTGAATCAACGTCGTCATTACCGTCTCTAAATCCTGATGCTCACTTTCTAAAAACGCAATATCATAGTGATGtat  <  2:137495/141‑1 (MQ=255)                                                                                                                                            |                                                                                                                                             GTTGTTCGTCACCTGCTAATGCGTCACAAATACGTTGTTCAATTAATCGTCTCATTAAAGGATGTGTGCCAAGTGGCTCGCTTACTTCTACCTTTATGTCTGGATACCGTCGTTTCATTTCATGAACGATATTCGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAACCCCACTTTGAATCAACGTCGTCATTACCGTCTCTAAATCCTGATGCTCACTTTCTAAAAACGCAATATCATAGTGATGTAT  >  CP000730/2525056‑2525335

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ 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.