New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 4679619	39 (0.650)	4 (0.070)	4/248	NT	9.3%	coding (338/447 nt)	rnhA	ribonuclease H
	?	NC_002947	= 4679643	41 (0.720)					coding (314/447 nt)	rnhA	ribonuclease H

ATTGTACCCCAGCTCAACGCTGGGCGCGCACCTCATCGACCCCACGGTTGGCCAGCTGGTCGGCGCGTTCGTTGCCGGGGTGGCCAATATGGCCGCGCACCCACTTCCAGGTTACCTTGTGGCGGTTGACCTGCT‑CATCGAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTGGCGGCGGTCTTCCAGCCACGCTTCTTCCAGTTGACCATCCATTCGTTGATGCCCTTCATCACGTAC‑TGCGAGTCGGTGGTCAGCACCACCTCGCATTCACGCTTGAGC  >  NC_002947/4679497‑4679783                                                                                                                                                    |                                                                                                                                              aTTGTACCCCAGCTCAACGCTGGGCGCGCACCTCATCGACCCCACGGTTGGCCAGCTGGTCGGCGCGTTCGTTGCCGGGGTGGCCAATATGGCCGCGCACCCACTTCCAGGTTACCTTGTGGCGGTTGACCTGCT‑CATCGAGCTGCTgc                                                                                                                                             >  1:130185‑M2/1‑147 (MQ=255)      gcgccagcTCAACGCTGGGCGCGCACCTCATCGACCCCACGGTTGGCCAGCTGGTCGGCGCGTTCGTTGCCGGGGTGGCCAATATGGCCGCGCACCCACTTCCAGGTTACCTTGTGGCGGTTGTCCTGCT‑CATCGAGCTGCTgccac                                                                                                                                          <  6:117854‑M2/144‑6 (MQ=255)       ccccAGCTCAACGCTGGGCGCGCACCTCATCGACCCCACGGTTGGCCAGCTGGTCGGCGCGTTCGTTGCCGGGGTGGCCAATATGGCCGCGCACCCACTTCCAGGTTACCTTGTGGCGGTTGACCTGCT‑CATCGAGCTGCTgccacaag                                                                                                                                       <  5:267584‑M2/149‑9 (MQ=255)        cccAGCTCAACGCTGGGCGCGCACCTCATCGACCCCACGGTTGGCCAGCTGGTCGGCGCGTTCGTTGCCGGGGTGGCCAATATGGCCGCGCACCCACTTCCAGGTTACCTTGTGGCGGTTGACCTGCT‑CATCGAGCTGCTGCCACAAGt                                                                                                                                      >  3:315104/1‑149 (MQ=255)        cccAGCTCAACGCTGGGCGCGCACCTCATCGACCCCACGGTTGGCCAGCTGGTCGGCGCGTTCGTTGCCGGGGTGGCCAATATGGCCGCGCACCCACTTCCAGGTTACCTTGTGGCGGTTGACCTGCT‑CATCGAGCTGCTGCCACAAGt                                                                                                                                      >  2:207084/1‑149 (MQ=255)                aaCGCTGGGCGCGCACCTCATCGACCCCACGGTTGGCCAGCTGGTCGGCGCGTTCGTTGCCGGGGTGGCCAATATGGCCGCGCACCCACTTCCAGGTTACCTTGTGGCGGTTGACCTGCT‑CATCGAGCTGCTGCCACAAGTCAGCGttc                                                                                                                              <  1:207084/149‑1 (MQ=255)                  cGCTGGGCGCGCACCTCATCGACCCCACGGTTGGCCAGCTGGTCGGCGCGTTCGTTGCCGGGGTGGCCAATATGGCCGCGCACCCACTTCCAGGTTACCTTGTGGCGGTTGACCTGCT‑CATCGAGCTGCTGCCACAAGTCAGCGttctt                                                                                                                            >  8:115911/1‑149 (MQ=255)                      gggCGCGCACCTCATCGACCCCACGGTTGGCCAGCTGGTCGGCGCGTTCGTTGCCGGGGTGGCCAATATGGCCGCGCACCCACTTCCAGGTTACCTTGTGGCGGTTGACCTGCT‑CATCGAGCTGCTGCCACAAGTCAGCGTTCTTCAcc                                                                                                                        >  1:196530/1‑149 (MQ=255)                              aCCTCATCGACCCCACGGTTGGCCAGCTGGTCGGCGCGTTCGTTGCCGGGGTGGCCAATATGGCCGCGCACCCACTTCCAGGTTACCTTGTGGCGGTTGACCTGCT‑CATCGAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCtt                                                                                                                >  6:123326/1‑149 (MQ=255)                                 tCATCGACCCCACGGTTGGCCAGCTGGTCGGCGCGTTCGTTGCCGGGGTGGCCAATATCGCCGCGCACCCACTTCCAGGTTACCTTGTGGCGGTTGACCTGCT‑CATCGAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTggc                                                                                                             >  7:28497/1‑149 (MQ=255)                                  cATCGACCCCACGGTTGGCCAGCTGGTCGGCGCGTTCGTTGCCGGGGTGGCCAATATGGCCGCGCACCCACTTCCAGGTTACCTTGTGGCGGTTGACCTGCT‑CATCGATCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTggcg                                                                                                            >  8:266162/1‑149 (MQ=255)                                    tCGACCCCACGGTTGGCCAGCTGGTCGGCGCGTTCGTTGCCGGGGTGGCCAATATGGCCGCGCACCCACTTCCAGGTTACCTTGTGGCGGTTGACCTGCT‑CATCGAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTggcggc                                                                                                          >  4:234975/1‑149 (MQ=255)                                    tCGACCCCACGGTTGGCCAGCTGGTCGGCGCGTTCGTTGCCGGGGTGGCCAATATGGCCGCGCACCCACTTCCAGGTTACCTTGTGGCGGTTGACCTGCT‑CATCGAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTggaca                                                                                                           >  6:374148/1‑145 (MQ=255)                                         cccACGGTTGGCCAGCTGGTCGGTGCGTTCGTTGCCGGGGTGGCCAATATGGCCGCGCACCCACTTCCAGGTTACCTTGTGGCGGTTGACCTGCT‑CATCGAgctgct                                                                                                                                               <  4:68473/107‑1 (MQ=255)                                         cccACGGTTGGCCAGCTGGTCGGTGCGTTCGTTGCCGGGGTGGCCAATATGGCCGCGCACCCACTTCCAGGTTACCTTGTGGCGGTTGACCTGCT‑CATCGAgctgct                                                                                                                                               >  3:68473/1‑107 (MQ=255)                                           cACGGTTGGCCAGCTGGTCGGCGCGTTCGTTGCCGGGGTGGCCAATATGGCCGCGCACCCACTTCCAGGTTACCTTGTGGCGGTTGACCTGCT‑CATCGAGCTGCTGCCACAAGTCAGCGTTTTTCACCGGCTCCTTGGCGGCGGTCTTc                                                                                                   >  4:267900/1‑149 (MQ=255)                                            aCGGTTGGCCAGCTGGTCGGCGCGTTCGTTGCCGGGGTGGCCAATATGGCCGCGCACCCACTTCCAGGTTACCTTGTGGCGGTTGACCTGCT‑CATCGAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTGGCGGCGGTCTTc                                                                                                   >  1:78525/1‑148 (MQ=255)                                                    ccAGCTGGTCGGCGCGTTCGTTGCCGGGGTGGCCAATATGGCCGCGCACCCACTTCCAGGTTACCTTGTGGCGGTTGACCTGCT‑CATCGAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTGGCGGCGGTCTTCCAGCCACGc                                                                                          >  7:169947/1‑149 (MQ=255)                                                           gTCGGCGCGTTCGTTGCCGGGGTGGCCAATATGGCCGCGCACCCACTTCCAGGTTACCTTGTGGCGGTTGACCTGCT‑CATCGAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTGGCGGCGGTCTTCCAGCCACGCttcttc                                                                                    >  6:220704/1‑148 (MQ=255)                                                                 gcgTTCGTTGCCGGGGTGGCCAATATGGCCGCGCACCCACTTCCAGGTTACCTTGTGGCGGTTGACCTGCT‑CATCGAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTGGCGGCGGTCTTCCAGCCACGCTTCTTCCAGTTGa                                                                             <  5:123326/149‑1 (MQ=255)                                                                       gttGCCGGGGTGGCCAATATGGCCGCGCACCCACTTCCAGGTTACCTTGTGGCGGTTGACCTGCT‑CATCGAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTGGCGGCGGTCTTCCAGCCACGCTTCTTCCAGTTGAccatc                                                                        <  2:196530/148‑1 (MQ=255)                                                                        ttGCCGGGGTGGCCAATATGGCCGCGCACCCACTTCCAGGTTACCTTGTGGCGGTTGACCTGCT‑CATCGAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTGGCGGCGGTCTTCCAGCCACGCTTCTTCCAGTTGAccatcca                                                                      >  2:178599/1‑149 (MQ=255)                                                                            cGGGGTGGCCAATATGGCCGCGCACCCACTTCCAGGTTACCTTGTGGCGGTTGACCTGCT‑CATCGAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTGGCGGCGGTCTTCCAGCCACGCTTCTTCCAGTTGACCATCCATTCg                                                                  >  8:850/1‑149 (MQ=255)                                                                             ggggTGGCCAATATGGCCGCGCACCCACTTCCAGGTTACCTTGTGGCGGTTGACCTGCT‑CATCGAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTGGCGGCGGTCTTCCAGCCACGCTTCTTCCAGTTGACCATCCATTCGt                                                                 <  7:115911/149‑1 (MQ=255)                                                                              gggTGGCCAATATGGCCGCGCACCCACTTCCAGGTTACCTTGTGGCGGTTGTCCTGCT‑CATCGAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTGGCGGCGGTCTTCCAGCCACGCTTCTTCCAGTTGACCATCCATTCGtt                                                                <  5:117854/149‑1 (MQ=255)                                                                                    ccAATATGGCCGCGCACCCACTTCCAGGTTACCTTGTGGCGGTTGACCTGCT‑CATCGAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTGGCGGCGGTCTTCCAGCCACGCTTCTTCCAGTTGACCATCCATTCGTTGATGcc                                                          <  2:78525/149‑1 (MQ=255)                                                                                      aaTATGGCCGCGCACCCACTTCCAGGTTACCTTGTGGCGGTTGACCTGCT‑CATCGAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTGGCGGCGGTCTTCCAGCCACGCTTCTTCCAGTTGACCATCCATTCGTTGATGCCCt                                                        <  7:266162/149‑1 (MQ=255)                                                                                        tatGGCCGCGCACCCACTTCCAGGTTACCTTGTGGCGGTTGACCTGCTGAATCGACCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTGGCGGCGGTCTTCCAGCCACGCTTCTTCCAGTTGACCATCCATTCGTTGATGCCCt                                                        >  1:88487/1‑148 (MQ=255)                                                                                                    cccACTTCCAGGTTACCTTGTGGCGGTTGACCTGCT‑CATCGAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTGGCGGCGGTCTTCCAGCCACGCTTCTTCCAGTTGACCATCCATTCGTTGATGCCCTTCATCACGTAC‑TGc                                         <  6:267584/149‑1 (MQ=255)                                                                                                     ccACTTCCAGGTTACCTTGTGGCGGTTGACCTGCT‑CATCGAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTGGCGGCGGTCTTCCAGCCACGCTTCTTCCAGTTGACCATCCATTCGTTGATGCCCTTCATCACGTAC‑TGc                                         >  6:45391/1‑148 (MQ=255)                                                                                                           ccAGGTTACCTTGTGGCGGTTGACCTGCT‑CATCGAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTGGCGGCGGTCTTCCAGCCACGCTTCTTCCAGTTGACCATCCCTTCGTTGATCCCCTTCATCACGTAC‑TGCGAGTCgg                                  >  2:242587/1‑149 (MQ=255)                                                                                                           ccAGGTTACCTTGTGGCGGTTGACCTGCT‑CATCGAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTGGCGGCGGTCTTCCAGCCACGCTTCTTCCAGTTGACCATCCATTCGTTGATGCCCTTCATCACGTAC‑TGCGAGTCgg                                  >  6:298188/1‑149 (MQ=255)                                                                                                             aGGTTACCTTGTGGCGGTTGACCTGCT‑CATCGAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTGGCGGCGGTCTTCCAGCCACGCTTCTTCCAGTTGACCATCCATTCGTTGATGCCCTTCATCACGTAC‑TGCGAGTCggtg                                <  8:28497/149‑1 (MQ=255)                                                                                                              ggTTACCTTGTGGCGGTTGACCTGCT‑CATCGAGCTGCTgccacaaggtaacctggaagtgggtgcgcggccatattggccaccccggcaacgaacgcgccgaccagctggccaaccgtggggtcgatgaggtgcgcgcccagcgttgag                                <  4:231469‑M2/149‑112 (MQ=255)                                                                                                               gTTACCTTGTGGCGGTTGACCTGCT‑CATCGAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTGGCGGCGGTCTTCCAGCCACGCTTCTTCCAGTTGACCATCCATTCGTTGATGCCCTTCATCACGTAC‑TGCGAGTCggtggt                              >  8:40050/1‑149 (MQ=255)                                                                                                               gTTACCTTGTGGCGGTTGACCTGCT‑CATCGAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTGGCGGCGGTCTTCCAGCCACGCTTCTTCCAGTTGACCATCCATTCGTTGATGCCCTTCATCACGTAC‑TGCGAGTCggtggt                              <  1:178599/149‑1 (MQ=255)                                                                                                                    cTTGTGGCGGTTGACCTGCT‑CATCGAGCTGCTgccacaaggtaacctggaagtgggtgcgcggccatattggccaccccggcaacgaacgcgccgaccagctggccaaccgtggggtcgatgaggtgcgcgcccagcgttgagctgggg                          <  8:332434‑M2/149‑118 (MQ=255)                                                                                                                     ttGTGGCGGTTGACCTGCT‑CATCGAGCTGCTgccacaaggtaacctggaagtgggtgcgcggccatattggccaccccggcaacgaacgcgccgaccagctggccaaccgtggggtcgatgaggtgcgcgcccagcgttgagctgggg                          <  8:8545‑M2/148‑118 (MQ=255)                                                                                                                        tgGCGGTTGACCTGCT‑CATCGAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTGGCGGCGGTCTTCCAGCCACGCTTCTTCCAGTTGACCATCCATTCGTTGATGCCCTTCATCACGTAC‑TGCGAGTCGGTGGTCAGcacca                      <  2:203516/148‑1 (MQ=255)                                                                                                                            ggTTGACCTGCT‑CATCGAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTGGCGGCGGTCTTCCAGCCACGCTTCTTCCAGTTGACCATCCATTCGTTGCTGCCCTTCATCACGTAC‑TGCGAGTCGGTGGTCAGCACCACCTCg                 >  6:80585/1‑149 (MQ=255)                                                                                                                            ggTTGACCTGCT‑CATCGAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTGGCGGCGGTCTTCCAGCCACGCTTCTTCCAGTTGACCATCCATTCGTTGATGCCCTTCATCACGTAC‑TGCGAGTCGGTGGTCAGCACCACCTCg                 >  3:324303/1‑149 (MQ=255)                                                                                                                                  ccTGCT‑CATCGAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTGGCGGCGGTCTTCCAGCCACGCTTCTTCCAGTTGACCATCCATTCGTTGATGCCCTTCATCACGTAC‑TGCGAGTCGGTGGTCAGCACCACCTCGCATTCa           >  8:143441/1‑149 (MQ=255)                                                                                                                                   cTGCT‑CATCGAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTGGCGGCGGTCTTCCAGCCACGCTTCTTCCAGTTGACCATCCATTCGTTGATGCCCTTCATCACGTAC‑TGCGAGTCGGTGGTCAGCACCACCTCGCATTCAc          >  6:144421/1‑149 (MQ=255)                                                                                                                                    tGCT‑CATCGAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTGGCGGCGGTCTTCCAGCCACGCTTCTTCCAGTTGACCATCCATTCGTTGATGCCCTTCATCAc                                                 >  7:153193/1‑110 (MQ=255)                                                                                                                                    tGCT‑CATCGAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTGGCGGCGGTCTTCCAGCCACGCTTCTTCCAGTTGACCATCCATTCGTTGATGCCCTTCATCAc                                                 <  8:153193/110‑1 (MQ=255)                                                                                                                                      cT‑CATCGAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTGGCGGCGGTCTTCCAGCCACGCTTCTTCCAGTTGACCATCCTTTGGTTGATGCCCTTCATCACGTACTTGCGAGTCGGTGGTCAGCACCACCTCGCATTCAc          <  1:242587/147‑1 (MQ=255)                                                                                                                                          aTCGAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTGGCGGCGGTCTTCCAGCCACGCTTCTTCCAGTTGACCATCCATTCGTTGATGCCCTTCATCACGTAC‑t                                           >  2:333669/1‑110 (MQ=255)                                                                                                                                          aTCGAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTGGCGGCGGTCTTCCAGCCACGCTTCTTCCAGTTGACCATCCATTCGTTGATGCCCTTCATCACGTAC‑t                                           <  1:333669/110‑1 (MQ=255)                                                                                                                                          aTCGAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTGGCGGCGGTCTTCCAGCCACGCTTCTTCCAGTTGACCATCCATTCGTTGATGCCCTTCATCACGTAC‑TGCGAGTCGGTGGTCAGCACCACCTCGCATTCACGCTTGa    <  5:220704/149‑1 (MQ=255)                                                                                                                                           tCGAGCTGCTgccacaaggtaacctggaagtgggtgcgcggccatattggccaccccggcaacgaacgcgccgaccagctggccaaccgtggggtcgatgaggtgcgcgcccagcgttgagctggggtacaatcgcggcctttgtaacg    >  7:8545‑M2/1‑10 (MQ=255)                                                                                                                                           tCGAGCTGCTGCCACAAGTCAGCGATCTTCACCGGCTCCTTCGCGGCGGTCTTCCAGCAACTCATCTTACAGTTGACCATCCATTCGTTGATGCCCTTCATCACGTAC‑TGCCAGTCCGTGGTCATCAACACCTCGCAATCACGCATGAg   >  3:21200/1‑149 (MQ=255)                                                                                                                                             gAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTGGCGGCGGTCTTCCAGCCACGCTTCTTCCAGTTGACCATCCATTCGTTGATGCCCTTCATCACGTAC‑TGCGAGTCGGTGGTCAGCACCACCTCGCATTCACGCTTGAGc  >  1:368060/1‑148 (MQ=255)                                                                                                                                                    |                                                                                                                                              ATTGTACCCCAGCTCAACGCTGGGCGCGCACCTCATCGACCCCACGGTTGGCCAGCTGGTCGGCGCGTTCGTTGCCGGGGTGGCCAATATGGCCGCGCACCCACTTCCAGGTTACCTTGTGGCGGTTGACCTGCT‑CATCGAGCTGCTGCCACAAGTCAGCGTTCTTCACCGGCTCCTTGGCGGCGGTCTTCCAGCCACGCTTCTTCCAGTTGACCATCCATTCGTTGATGCCCTTCATCACGTAC‑TGCGAGTCGGTGGTCAGCACCACCTCGCATTCACGCTTGAGC  >  NC_002947/4679497‑4679783

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ 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.