New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 769351	39 (0.760)	3 (0.060)	3/244	NT	8.6%	coding (1429/1440 nt)	mmuP	S‑methyl‑L‑methionine transporter
	?	NC_002947	= 769381	27 (0.560)					intergenic (+19/‑27)	mmuP/PP_0661	S‑methyl‑L‑methionine transporter/transcriptional regulator AmpR

GCCTTCGACCCAGCTCAGCGGGTTGCCCTGTACTTCGGCTTGCCCTTCATTGCCTGGTGCTACCTGGCCTATTGGCTGACGTGCAAGTACCGCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGGCCGCCTGAGCAGGTGATACTAGGCCACCGGAACCTAGCCACGAGAAGCCGCCGATGACCCAGAAAACCTTGCCCCCCCTGAACTGGCTGAGAGCCTTCGAAGTGTCGGCGCGTTACTTGAACTTCACCCATGCGGCAGAAGA  >  NC_002947/769216‑769496                                                                                                                                         |                                                                                                                                                  gCCTTCGACCCAGCTCAGCGGGTTGCCCTGTACTTCGGCTTGCCCTTCATTGCCTGGTGCTACCTGGCCTATTGGCTGACGTGCAAGTACCGCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGGCCGCCTGAg                                                                                                                                       <  5:318529/148‑1 (MQ=255)  ccTTCGACCCAGCTCAGCGGGTTGCCCTGTACTTCGGCTTGCCCTTCATTGCCTGGTGCTACCTGGCCTATTGGCTGACGTGCAAGTACCGCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGGCCGCCTGAg                                                                                                                                       >  6:275349/1‑147 (MQ=255)  ccTTCGACCCAGCTCAGCGGGTTGCCCTGTACTTCGGCTTGCCCTTCATTGCCTGGTGCTACCTGGCCTATTGGCTGACGTGCAAGTACCGCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGGCCGCCTGAg                                                                                                                                       >  3:185410/1‑147 (MQ=255)    ttCGACCCAGCTCAGCGGGTTGCCCTGTACTTCGGCTTGCCCTTCATTGCCTGGTGCTACCTGGCCTATTGGCTGACGTGCAAGTACCGCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGGCCGCCTGAGCAgg                                                                                                                                   >  8:88808/1‑149 (MQ=255)      cGACCCAGCTCAGCGGGTTGCCCTGTACTTCGGCTTGCCCTTCATTGCCTGGTGCTACCTGGCCTATTGGCTGACGTGCAAGTACCGCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGGCCGCCTGAGCAGGt                                                                                                                                  <  8:174766/148‑1 (MQ=255)             gCTCAGCGGGTTGCCCTGTACTTCGGCTTGCCCTTCATTGCCTGGTGCTACCTGGCCTATTGGCTGACGTGCAAGTACCGCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGGCCGCCTGAGCAGGTGATACTAg                                                                                                                          <  2:35638/149‑1 (MQ=255)               tCAGCGGGTTGCCCTGTACTTCGGCTTGCCCTTCATTGCCTGGTGCTACCTGGCCTATTGGCTGACGTGCAAGTACCGCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGGCCGCCTGAGCAGGTGATACTAGGc                                                                                                                        >  2:9597/1‑149 (MQ=255)                      gTTGCCCTGTACTTCGGCTTGCCCTTCATTGCCTGGTGCTACCTGGCCTATTGGCTGACGTGCAAGTACCGCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGGCCGCCTGAGCAGGTGATACTAGGCCACcgg                                                                                                                  <  2:199605‑M2/148‑4 (MQ=255)                       ttGCCCTGTACTTCGGCTTGCCCTTCATTGCCTGGTGCTACCTGGCCTATTGGCTGACGTGCAAGTACCGCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGgtggcctagtatcacctgctcaggcggcctgggaa                                                                                                                <  4:122473‑M1/149‑36 (MQ=255)                            cTGTACTTCGGCTTGCCCTTCATTGCCTGGTGCTACCTGGCCTATTGGCTGACGTGCAAGTACCGCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGGCCGCCTGAGCAg                                                                                                                                    >  8:54649/1‑124 (MQ=255)                            cTGTACTTCGGCTTGCCCTTCATTGCCTGGTGCTACCTGGCCTATTGGCTGACGTGCAAGTACCGCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGGCCGCCTGAGCAg                                                                                                                                    <  7:54649/124‑1 (MQ=255)                                 cTTCGGCTTGCCCTTCATTGCCTGGTGCTACCTGGCCTATTGGCTGACGTGCAAGTACCGCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGGCCGCCTGAGCAGGTGATACTAGGCCACCGGAACCTAGCCACg                                                                                                      <  1:199605/149‑1 (MQ=255)                                  ttCGGCTTGCCCTTCATTGCCTGGTGCTACCTGGCCTATTGGCTGACGTGCAAGTACCGCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGgcc                                                                                                                                              >  4:260107/1‑108 (MQ=255)                                  ttCGGCTTGCCCTTCATTGCCTGGTGCTACCTGGCCTATTGGCTGACGTGCAAGTACCGCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGgcc                                                                                                                                              <  3:260107/108‑1 (MQ=255)                                           cccTTCATTGCCTGGTGCTACCTGGCCTATTGGCTGACGTGCAAGTACCGCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGGCCGCCTGAGCAGGTGATACTAGGCCACCGGAACCTAGCCACGAGAAgccgcc                                                                                            >  7:246448/1‑149 (MQ=255)                                             cTTCATTGCCTGGTGCTACCTGGCCTATTGGCTGACGTGCAAGTACCGCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGGCCGCCTGAGCAGGTGATACTAGGCCACCGGAACCTAGCCACGAGAAGCCGCCGa                                                                                          <  2:300244/149‑1 (MQ=255)                                                  ttGCCTGGTGCTACCTGGCCTATTGGCTGACGTGCAAGTACCGCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGGCCGCCTGAGCAGGTGATACTAGGCCACCGGAACCTAGCCACGAGAAGCCGCCGATGAcc                                                                                     >  5:101106/1‑149 (MQ=255)                                                    gCCTGGTGCTACCTGGCCTATTGGCTGACGTGCAAGTACCGCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGGCCGCCTGAGCAGGTGATACTAGGCCACCGGAACCTAGCCACGAGAAGCCGCCGATGAccc                                                                                    <  4:185410/148‑1 (MQ=255)                                                         gTGCTACCTGGCCTATTGGCTGACGTGCAAGTACCGCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGGCCGCCTGAGCAGGTGATACTAGGCCACCGGAACCTAGCCACGAGAAGCCGCCGATGACCCAGaaa                                                                               <  7:88808/148‑1 (MQ=255)                                                          tGCTACCTGGCCTATTGGCTGACGTGCAAGTACCGCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGGCCGCCTGAGCAGGTGATACTAGGCCACCGGAACCTAGCCACGAGAAGCCGCCGATGACCCAGAAAAc                                                                             >  3:311718/1‑149 (MQ=255)                                                           gCTACCTGGCCTATTGGCTGACGTGCAAGTACCGCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGGCCGCCTGAGCAgg                                                                                                                                   >  7:55617/1‑94 (MQ=255)                                                           gCTACCTGGCCTATTGGCTGACGTGCAAGTACCGCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGGCCGCCTGAGCAgg                                                                                                                                   <  8:55617/94‑1 (MQ=255)                                                             tACCTGGCCTATTGGCTGACGTGCAAGTACCGCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGGCCGCCTGAGCAGGTGATACTAGGCCACCGGAACCTAGCCACGAGAAGCCGCCGATGACCCAGAAAACCtt                                                                          >  7:1245/1‑149 (MQ=255)                                                              aCCTGGCCTATTGGCTGACGTGCAAGTACCGCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGGCCGCCTGAGCAGGTGATACTAGGCCACCGGAACCTAGCCACGAGAAGCCGCCGATGACCCAGAAAACCTTg                                                                         >  3:117666/1‑149 (MQ=255)                                                              aCCTGGCCTATTGGCTGACGTGCAAGTACCGCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGGCCGCCTGAGCAGGTGATACTAGGCCACCGGAACCTAGCCACGAGAAGCCGCCGATGACCCAGAAAACCTTg                                                                         >  2:290576/1‑149 (MQ=255)                                                               ccTGGGCTATTGGCTGACGTGCAAGTACCGCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGGCCGCCTGAGCAGGTGATACTAGGCCACCGGAACCTAGCCACGAGAAGCCGCCGATGACCCAGAAAACCt                                                                           <  3:46446/146‑1 (MQ=255)                                                               ccTGGCCTATTGGCTGACGTGCAAGTACCGCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGGCCGCCTGAGCAGGTGATACTAGGCCACCGGAACCTAGCCACGAGAAGCCGCCGATGACCCAGAAAACCtt                                                                          <  5:275349/147‑1 (MQ=255)                                                                cTGGCCTATTGGCTGACGTGCAAGTACCGCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGGCCGCCTGAGCAGGTGATACTAGGCCACCGGAACCTAGCCa                                                                                                        >  1:192268/1‑116 (MQ=255)                                                                cTGGCCTATTGGCTGACGTGCAAGTACCGCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGGCCGCCTGAGCAGGTGATACTAGGCCACCGGAACCTAGCCa                                                                                                        <  2:192268/116‑1 (MQ=255)                                                                           gCTGACGTGCAAGTACCGCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGGCCGCCTGAGCAGGTGATACTAGGCCACCGGAACCTAGCCACGAGAAGCCGCCGATGACCCAGAAAACCTTGCCCCCCCTGAAc                                                             <  1:9597/148‑1 (MQ=255)                                                                             tGACGTGCAAGTACCGCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGGCCGCCTGAGCAGGTGATACTAGGCCACCGGAACCTAGCCACGAGAAGCCGCCGATGACCCAGAAAACCTTGCCCCCCCTGAACTgg                                                          >  2:163079/1‑149 (MQ=255)                                                                                      aGTACCGCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGgtggcctagtatcacctgctcaggcggcctcggaacc                                                                                                              <  1:86111‑M1/88‑38 (MQ=255)                                                                                      aGTACCGCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGgtggcctagtatcacctgctcaggcggcctcggaacc                                                                                                              >  2:86111‑M1/1‑51 (MQ=255)                                                                                         aCCGCAGCCGCCGTACGGCCCCGCTGGAAAGTCGTCGCCCCAGGTTCCGAGGCCGCCTGAGCAGGTGATACTAGGCCACCGGAACCTAGCCACGAGAAGCCGCCGATGACCCAGAAAACCTTGCCCCCCCTGAACTGGCTGAGAGCCtt                                               >  1:197818/1‑149 (MQ=255)                                                                                            gCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGGCCGCCTGAGCAGGTGATACTAGGCCACCGGAACCTAGCCACGAGAAGCCGCCGATGACCCAGAAAACCTTGCCCCCCCTGAACTGGCTGAGAGCCTTCGaa                                           <  4:311718/149‑1 (MQ=255)                                                                                            gCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGGTCCGAGGCCGCCTGAGCAGGTGATACTAGGCCACCGGAACCTAGCCACGAGAAGCCGCCGATGACCCAGAAAACCTTGCCCCCCCTGAACTGGCTGAGAGCCTTCGaa                                           <  8:246448/149‑1 (MQ=255)                                                                                                 cgccgTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGGCCGCCTGAGCAGGTGATACTAGGCCACCGGAACCTAGCCACGAGAAGCCGCCGATGACCCAGAAAACCTTGCCCCCCCTGAACTGGCTGAGAGCCTTCGa                                            <  3:121159/143‑1 (MQ=255)                                                                                                           ccccGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGGCCGCCTGAGCAGGTGATACTAGGCCACCGGAACCTAGCCACGAGAAGCCGCCGATGACCCAGAAAACCTTGCCCCCCCTGAACTGGCTGAGAGCCTTCGAAGTGTCGGCGCGt                               <  7:150575/146‑1 (MQ=255)                                                                                                           ccccGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGGCCGCCTGAGCAGGTGATACTAGGCCACCGGAACCTAGCCACGAGAAGCCGCCGATGACCCAGAAAACCTTGCCCCCCCTGAACTGGCTGAGAGCCTTCGAAGTGTCGGCGCGt                               >  8:150575/1‑146 (MQ=255)                                                                                                                      a‑TCGTCGCCCCAGGTTCCGAGGCCGCCTGAGCAGGTGATACTAGGCCACCGGAACCTAGCCACGAGAAGCCGCCGATGACCCAGAAAACCTTGCCCCCCCTGAACTGGCTGAGAGCCTTCGAAGTGTCGGCGCGTTACTTGAACTTCAc                 <  6:101106/149‑1 (MQ=255)                                                                                                                          gtcgCCCCAGGTTCCGAGGCCGCCTGAGCAGGTGATACTAGGCCACCGGAACCTAGCCACGAGAAGCCGCCGATGACCCAGAAAACCTTGCCCCCCCTGAACTGGCTGAGAGCCTTCGAAGTGTCGGCGCGTTACTTGAACTTCACCCa              >  5:303098/1‑149 (MQ=255)                                                                                                                          gtcgCCCCAGGTTCCGAGGCCGCCTGAGCAGGTGATACTAGGCCACCGGAACCTAGCCACGAGAAGCCGCCGATGACCCAGAAAACCTTGCCCCCCCTGAACTGGCTGAGAGCCTTCGAAGTGTCACCGCGTTAGTTGAACTTccacaa              >  8:225910/1‑144 (MQ=255)                                                                                                                             gCCCCAGGTTCCGAGGCCGCCTGAGCAGGTGATACTAGGCCACCGGAACCTAGCCACGAGAAGCCGCCGATGACCCAGAAAACCTTGCCCCCCCTGAACTGGCTGAGAGCCTTCGAAGTGTCGGCGCGTTACTTGAACTTCACCCATGc           <  4:117666/149‑1 (MQ=255)                                                                                                                             gCCCCAGGTTCCGAGGCCGCCTGAGCAGGTGATACTAGGCCACCGGAACCTAGCCACGAGAAGCCGCCGATGACCCAGAAAACCTTGCCCCCCCTGAACTGGCTGAGAGCCTTCGAAGTGTCGGCGCGTTACTTGAACTTCACCCATGc           >  1:123123/1‑149 (MQ=255)                                                                                                                              ccccAGGTTCCGAGGCCGCCTGAGCAGGTGATACTAGGCCACCGGAACCTAGCCACGAGAAGCCGCCGATGACCCAGAAAACCTTGCCCCCCCTGAACTGGCTGAGAGCCTTCGAAGTGTCg                                     >  6:315621/1‑122 (MQ=255)                                                                                                                                   ggTTCCGAGGCCGCCTGAGCAGGTGATACTAGGCCACcggaacctggggcgacgatttccagcggggccgtacggcggctgcggtact                                                                  <  1:86111‑M2/88‑52 (MQ=255)                                                                                                                                   ggTTCCGAGGCCGCCTGAGCAGGTGATACTAGGCCACcggaacctggggcgacgatttccagcggggccgtacggcggctgcggtact                                                                  >  2:86111‑M2/1‑37 (MQ=255)                                                                                                                                     ttCCCAGGCCGCCTGAGCAGGTGATACTAGGCCACcggaacctggggcgacgatttccagcggggccgtacggcggctgcggtacttgcacgtcagccaataggccaggtagcaccaggcaatgaagggcaagccgaagtacagggcaa   <  4:122473‑M2/149‑115 (MQ=255)                                                                                                                                       ccGgtggcctagtatcacctgctcaggcggcctcggaacctggggcgacgatttccagcggggccgtacggcggctgcggtacttgcacgtcagccaataggccaggtagcaccaggcaatgaagggcaagccgaagtacagggcaac  <  2:199605‑M1/148‑146 (MQ=255)                                                                                                                                         |                                                                                                                                                  GCCTTCGACCCAGCTCAGCGGGTTGCCCTGTACTTCGGCTTGCCCTTCATTGCCTGGTGCTACCTGGCCTATTGGCTGACGTGCAAGTACCGCAGCCGCCGTACGGCCCCGCTGGAAA‑TCGTCGCCCCAGGTTCCGAGGCCGCCTGAGCAGGTGATACTAGGCCACCGGAACCTAGCCACGAGAAGCCGCCGATGACCCAGAAAACCTTGCCCCCCCTGAACTGGCTGAGAGCCTTCGAAGTGTCGGCGCGTTACTTGAACTTCACCCATGCGGCAGAAGA  >  NC_002947/769216‑769496

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.