New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	4266523 =	43 (1.020)	4 (0.100)	4/244	NT	9.1%	intergenic (‑65/+81)	PP_3738/galP‑IV	transcriptional regulator VanR/porin‑like protein
	?	NC_002947	4266610 =	39 (0.980)					coding (1248/1254 nt)	galP‑IV	porin‑like protein

ATCAAGCGCTCGCCGGCCGCCAACTCGCCTGAAGCGATCATCTTGCGCAACGCAACCAGCACCATCTGACCGGGTTTGCTCATCCAGGCGACTTCCAAAGACATGAGCGGGCATCTTAGCGCAAGCCGAGGGGTTGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTCGCGGGTGAACCCGCCCCTACAAGGTCAGCGGATAGCTGACGATCAGGCGCGTCTGGTCGAGATCACTGTTGAAGCTGCG  >  NC_002947/4266376‑4266666                                                                                                                                                    |                                                                                                                                                aTCAAGCGCTCGCCGGCCGCCAACTCGCCTGAAGCTATCATCTTGCGCAACGCAACCAGCACCATCTGTCCGGGTTTGATCATCCAGTCGACTTCCAAAGACATGAGCGGGCATCTTAGCGCAAGCCGAGGGGTTGCTGCAGGCCtgtt                                                                                                                                                <  6:81403/149‑1 (MQ=255)    tgggagcgcgatgccgaggtgaactacaccttccagagcggggctttgaagaacctcaacatccggctgaacaacgcgaccaaccggcgcagcttcaacagtgatctcgaccagacgcgcctgatcgtcagctatccgctgaccTTg                                                                                                                                               <  7:83433‑M1/3‑1 (MQ=255)      ggagcgcgatgccgaggtgaactacaccttccagagcggggctttgaagaacctcaacatccggctgaacaacgcgaccaaccggcgcagcttcaacagtgatctcgaccagacgcgcctgatcgtcagctatccgctgaccTTGTAg                                                                                                                                            >  5:83549‑M1/143‑148 (MQ=255)        gcTCGCCGGCCGCCAACTCGCCTGAAGCGATCATCTTGCGCAACGCAACCAGCACCATCTGACCGGGTTTGCTCATCCAGGCGAGTTCCAACGACATGAGCGGGCATCTTAGCGCAAGCGGAGGGGTTGCTGCAGGCCTGTTGTAGGAg                                                                                                                                         >  7:52460/1‑149 (MQ=255)            gccggccgCCAACTCGCCTGAAGCGATCATCTTGCGCAACGCAACCAGCACCATCTGACCGGGTTTGCTCATCCAGGCGACTTCCACAGACATGAGCCGGCATCTTAGCGCAAGCCGAGGGGTTGCTGCAGGCCTGTTGTAGGAGCggg                                                                                                                                     >  6:264432/1‑149 (MQ=255)            gccggccgCCAACTCGCCTGAAGCGATCATCTTGCGCAACGCAACCAGCACCATCTGACCGGGTTTGCTCATCCAGGCGACTTCCAAAGACATGAGCGGGCATCTTAGCGCAAGCCGAGGGGTTGCTGCAGGCCTGTTGTAGGAGCggg                                                                                                                                     >  1:184625/1‑149 (MQ=255)                         tCGCCTGAAGCGATCATCTTGCGCAACGCAACCAGCACCATCTGACCGGGTTTGCTCATCCAGGCGACTTCCAAAGACATGAGCGGGCATCTTAGCGCAAGCCGAGGGGTTGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAg                                                                                                                        >  4:13688/1‑149 (MQ=255)                         tCGCCTGAAGCGATCATCTTGCGCAACGCAACCAGCACCATCTGACCGGGTTTGCTCATCCAGGCGACTTCCAAAGACATGAGCGGGCATCTTAGCGCAAGCCGAGGGGTTGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAg                                                                                                                        >  5:95197/1‑149 (MQ=255)                         tCGCCTGAAGCGATCATCTTGCGCAACGCAACCAGCACCATCTGACCGGGTTTGCTCATCCAGGCGACTTCCAAAGACATGAGCGGGCATCTTAGCGCAAGCCGAGGGGTTGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAg                                                                                                                        >  3:215388/1‑149 (MQ=255)                              tGAAGCGATCATCTTGCGCAACGCAACCAGCACCATCTGACCGGGTTTGCTCATCCAGGCGACTTCCAAAGACATGAGCGGGCATCTTAGCGCAAGCCGAGGGGTTGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAGCAgg                                                                                                                    >  8:139442/1‑148 (MQ=255)                                   cGATGATCTTGCGCAACGCAACCAGCACCATCTGACCGGGTTTGCTGATCCAGGCGACTTCCAAAGACATGCGCGGGCATCTTAGCGCAAGCCGAGGGGTTGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAAcgc                                                                                                              <  8:79367/149‑1 (MQ=255)                                           ttGCGCAACGCAACCAGCACCATCTGACCGGGTTTGCTCATCCAGGCGACTTCCAAAGACATGAGCGGGCATCTTAGCGCAAGCCGAGGGGTTGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATg                                                                                                      >  3:89015/1‑149 (MQ=255)                                             gcgcAACGCAACCAGCACCATCTGACCGGGTTTGCTCATCCAGGCGACTTCCAAAGACATGAGCGGGCATCTTAGCGCAAGCCGAGGGGTTGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACAt                                                                                                       <  6:95197/146‑1 (MQ=255)                                             gcgcAACGCAACCAGCACCATCTGACCGGGTTTGCTCATCCAGGCGACTTCCAAAGACATGAGCGGGCATCTTAGCGCAAGCCGAGGGGTTGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACAt                                                                                                       <  4:215388/146‑1 (MQ=255)                                                  acgcaacCAGCACCATCTGACCGGGTTTGCTCATCCAGGCGACTTCCAAAGACATGAGCGGGCATCTTAGCGCAAGCCGAGGGGTTGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCgg                                                                                               >  2:52539/1‑149 (MQ=255)                                                            cACCATCTGACCGGGTTTGCTCATCCAGGCGACTTCCAAAGACATGAGCGGGCATCTTAGCGCAAGCCGAGGGGTTGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGgt                                                                                     <  2:184625/149‑1 (MQ=255)                                                                  ccggctgaacaacgcgaccaaccggcgcagcttcaacagtgatctcgaccagacgcgcctgatcatcagctatccgctgaccTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTcgc                                                                               <  6:242457‑M1/67‑1 (MQ=255)                                                                    ggctgaacaacgcgaccaaccggcgcagcttcaacagtgatctcgaccagacgcgcctgatcgtcagctatccgctgaccTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTCGCgg                                                                             >  2:202635‑M1/81‑149 (MQ=255)                                                                     gctgaacaacgcgaccaaccggcgcagcttcaacagtgatctcgaccagacgcgcctgatcgtcagctatccgctgaccTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTCGCggg                                                                            >  1:216983‑M1/80‑149 (MQ=255)                                                                          gTTTGCTCATCCAGGCGACTTCCAAAGACATGAGCGGGCATCTTAGCGCAAGCCGAGGGGTTGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTCGCGGGTGAAc                                                                       >  3:199310/1‑149 (MQ=255)                                                                          acaacgcgaccaaccggcgcagcttcaacagtgatctcgaccagacgcgcctgatcatcagctatccgctgaccTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTCGCGGGTGAAc                                                                       >  5:242457‑M1/75‑149 (MQ=255)                                                                               cTCATCCAGGCGACTTCCAAAGACATGAGCGGGCATCTTAGCGCAAGCCGAGGGGTTGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTCGCGGGTGAACCCGc                                                                   <  2:29147/148‑1 (MQ=255)                                                                                tCATCCAGGCGACTTCCAAAGACATGAGCGGGCATCTTAGCGCAAGCCGAGGGGTTGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTcgcg                                                                              <  4:238655/136‑1 (MQ=255)                                                                                tCATCCAGGCGACTTCCAAAGACATGAGCGGGCATCTTAGCGCAAGCCGAGGGGTTGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTcgcg                                                                              >  3:238655/1‑136 (MQ=255)                                                                                  aTCCAGGCGACTTCCAAAGACATGAGCGGGCATCTTAGCGCAAGCCGAGGGGTTGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTCGCGGGTGAACCCGccc                                                                 <  4:199310/147‑1 (MQ=255)                                                                                   tCCAGGCGACTTCCAAAGACATGAGCGGGCATCTTAGCGCAAGCCGAGGGGTTGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTCGCGGGTGAACCCGCCCCTa                                                              >  2:140650/1‑149 (MQ=255)                                                                                       ggCTACTTACAAAGACATGAGCGGCCATCTAAGCTCAAGCCGAGGGGTTGCTGCAGGCCTGTTGTAGGACCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTCGCGGGTGAACCCGCCCCTACAAg                                                          <  8:52460/149‑1 (MQ=37)                                                                                             ttCCTATGACATGTGCGGGCATCTTAGCGCAAGCCGAGGGGTTGCTGCTGGCATTTTGTAGGAGCGGGTTCACCCGCGAAGCATGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTCGCGGGTGAAGCCGCCCCTACaa                                                           <  6:206629/142‑1 (MQ=37)                                                                                             ttCCAAAGACATGAGCGGGCATCTTAGCGCAAGCCGAGGGGTTGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTCGCGGGTGAACCCGCCCCTACAAGGTCAGc                                                    >  8:72772/1‑149 (MQ=255)                                                                                             ttCCAAAGACATGAGCGGGCATCTTAGCGCAAGCCGAGGGGTTGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTCGCGGGTGAACCCGCCCCTACAAGGTCAGc                                                    >  1:203571/1‑149 (MQ=255)                                                                                             ttCCAAAGACATGAGCGGGCAACATAGCGCAAGCCGAGGGGTTGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTCGCGGCTGAACCCGCCCCTACAAgagatcg                                                    >  5:206629/1‑143 (MQ=37)                                                                                                 aaaGACATGAGCGGGCATCTTAGCGCAAGCCGAGGGGTTGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTCGCGGGTGAACCCGCCCCTACAAGGTCAGCGGa                                                 >  5:129094/1‑148 (MQ=255)                                                                                                   aGACATGAGCGGGCATCTTAGCGCAAGCCGAGGGGTTGCTGCAGGACTGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTCGCGGGTGAACCCGCCCCTACAAGGTCAGCGGATAg                                              >  8:225380/1‑149 (MQ=255)                                                                                                       aTGAGCGGGCATCTTAGCGCAAGCCGAGGGGTTGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTCGCGGGTGAACCCGCCCCTACAAGGTCAGCGGATAGCTGa                                          <  2:203571/149‑1 (MQ=255)                                                                                                       aTGAGCGGGCATCTTAGCGCAAGCCGAGGGGTTGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTCGCGGGTGAACCCGCCCCTACAAGGTCAGCGGATAGCTGa                                          <  3:13688/149‑1 (MQ=255)                                                                                                         gAGCGGGCATCTTAGCGCAAGCCGAGGGGTTGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTCGCGGGTGAACCCGCCCCTACAAGGTCAGCGGATAGCTGAc                                         >  1:132912/1‑148 (MQ=255)                                                                                                             gggCATCTTAGCGAAAGCCGAGGGGTTGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTCGCGGGTGAACCCGCCCCTACAAGGTCAGCGGATAGCTGACGATCa                                    <  1:140650/149‑1 (MQ=255)                                                                                                              ggCATCTTAGCGCAAGCCGAGGGGTTGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTCGCGGGTGAACCCGCCCCTACAAGGTCAGCGGATAGCTGACGATCAg                                   >  6:27249/1‑149 (MQ=255)                                                                                                              ggCATCTTAGCGCAAGCCGAGGGGTTGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTCGCGGGTGAACCCGCCCCTACAAGGTCAGCGGATAGCTGACGATCAg                                   <  4:89015/149‑1 (MQ=255)                                                                                                              gccATCTTAGCGCAAGCCGAGGGGTTGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTCGCGGGTGAACCCGCCCCTACAAGGTCAGCGGATAGCTGACGATCAg                                   <  5:103670/147‑1 (MQ=255)                                                                                                                     tAGCGCAAGCCGAGGGGTTGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTCGCGGGTGAACCCGCCCCTACAAGGTCAGCGGATAGCTGACGATCAGGCGCGTc                            >  5:241820/1‑149 (MQ=255)                                                                                                                          cAAGCGGAGGGGTTGCTGCAGGCGTGTTGTAGGTGCGGGTTCACCCGCTAAGCAGGCAACGCGTAACTTGGCACGGGCGGCGCGGGTGTTGGCGGGTTAACCCGCCCCTACAAGGTCAGCGGATAGCTGACGATCAGGCGCGTCTGGTc                       <  2:132912/149‑1 (MQ=255)                                                                                                                           aaGCCGAGGGGTTGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTCGCGGGTGAACCCGCCCCTACAAGGTCAGCGGATAGCTGACGATCAGGCGCGTCTGGTCg                      <  5:27249/149‑1 (MQ=255)                                                                                                                                 aGGGGTTGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTCGCGGGTGAACCCGCCCCTACAAGGTCAGCGGATAGCTGACGATCAGGCGCGTCTGGTCGAGATCa                <  7:139442/149‑1 (MQ=255)                                                                                                                                 aGGGGTTGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTCGCGGGTGAACCCGCCCCTACAAGGTCAGCGGATAGCTGACGATCAGGCGCGTCTGGTCGAGATCa                >  4:240388/1‑149 (MQ=255)                                                                                                                                 aGGGGGTGCTGCAGGCCTGGAGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTCGCGGGTGAACCCGCCCCTACAAGGTCAGCGGATAGCTGACGATCAGGCGCGTCTGGTCGAGATCa                <  5:264432/149‑1 (MQ=255)                                                                                                                                     gTTGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTCGCGGGTGAACCCGCCCCTACAAGGTCAGCGGATAGCTGAc                                         >  7:134802/1‑120 (MQ=255)                                                                                                                                     gTTGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTCGCGGGTGAACCCGCCCCTACAAGGTCAGCGGATAGCTGAc                                         <  8:134802/120‑1 (MQ=255)                                                                                                                                      ttGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTCGCGGGTGAACCCGCCCCTACAAGGTCAGCGGATAGCTGACGATCAGGCGCGTCTGGTCGAGATCACTGtt           <  3:240388/149‑1 (MQ=255)                                                                                                                                         ctgcAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTCGCGGGTGAACCCGCCCCTACAAGGTCAGCGGATAGCTGACGATCAGGCGCGTCTGGTCGAGATCACTGTTGa         <  7:37768/148‑1 (MQ=255)                                                                                                                                               gCCTGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTCGCGGGTGAACCCGCCCCTACAAGGTCAGCGGATAGCTGACGATCAGGCGCGTCTGGTCGAGATCACTGTTGAAGCTgcg  >  8:83433/1‑149 (MQ=255)                                                                                                                                                    |                                                                                                                                                ATCAAGCGCTCGCCGGCCGCCAACTCGCCTGAAGCGATCATCTTGCGCAACGCAACCAGCACCATCTGACCGGGTTTGCTCATCCAGGCGACTTCCAAAGACATGAGCGGGCATCTTAGCGCAAGCCGAGGGGTTGCTGCAGGCCTGTTGTAGGAGCGGGTTCACCCGCGAAGCAGGCAACGCGGAACATGGCACCGGCTGCGCCGGTGTTCGCGGGTGAACCCGCCCCTACAAGGTCAGCGGATAGCTGACGATCAGGCGCGTCTGGTCGAGATCACTGTTGAAGCTGCG  >  NC_002947/4266376‑4266666

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.