New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 3118551	41 (0.970)	4 (0.100)	4/250	NT	8.8%	coding (31/1188 nt)	cfa	cyclopropane‑fatty‑acyl‑phospholipid synthase
	?	NC_002947	= 3118616	43 (1.050)					intergenic (‑35/+15)	cfa/PP_2735	cyclopropane‑fatty‑acyl‑phospholipid synthase/hypothetical protein

TAGGCTTCGCCAGCTCCGATCGAGCCATTGCCGGCGA‑TCAGGCTCCAGGTGGCGTCATCGAGGATCTCCACCTCGGCCTGCAACGGGCTGTCGGCATCACCGAAACTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCCCGCCGAGCAGGGGCGCAAGGCCTGCGAACTTGCTAACGCTCAGGGTGGGATTTGACATCATCAAGGTCCTCGCAAGGTTGGCCGAGTGCCAGGTCACCC  >  NC_002947/3118409‑3118697                                                                                                                                                |                                                                                                                                                   tAGGCTTCGCCAGCTCCGATCGAGCCATTGCCGGCGA‑TCAGGCTCCAGGTGGCGTCATCGAGGATCTCCACCTCGGCCTGCAACGGGCTGTCGGCATCACCGAAACTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCGTGACg                                                                                                                                              >  6:235564/1‑149 (MQ=255)  aGGCTTCGCCAGCTCCGATCGAGCCATTGCCGGCGATTCAGGCTCCAGGTGGCGTCATCGAGGATCTCCACCTCGGCCTGCAACGGGCTGTCGGCATCACCGAAACTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCttgcgc                                                                                                                                              >  1:48329‑M1/1‑143 (MQ=255)   ggCTTCGCCAGCTCCGATCGAGCCATTGCCGGCGA‑TCAGGCTCCAGGTGGCGTCATCGAGGATCTCCACCTCGGCCTGCAACGGGCTGTCGGCATCACCGAAACTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCGTGACGCa                                                                                                                                            <  2:224784/149‑1 (MQ=255)      ttCGCCAGCTCCGATCGAGCCATTGCCGGCGA‑TCAGGCTCCAGGTGGCGTCATCGAGGATCTCCACCTCGGCCTGCAACGGGCTGTCGGCATCACCGAAACTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCGTGACGCAGCt                                                                                                                                         >  3:138077/1‑149 (MQ=255)               tCCGATCGAGCCATTGCCGGCGA‑TCAGGCTCCAGGTGGCGTCATCGAGGATCTCCACCTCGGCCTGCAACGGGCTGTCGGCATCACCGAAACTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACt                                                                                                                                >  2:181111/1‑149 (MQ=255)                  gATCGAGCCATTGCCGGCGA‑TCAGGCTCCAGGTGGCGTCATCGAGGATCTCCACCTCGGCCTGCAACGGGCTGTCGGCATCACCGAAACTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCC                                                                                                                                                    <  1:255278‑M1/126‑1 (MQ=255)                  gATCGAGCCATTGCCGGCGA‑TCAGGCTCCAGGTGGCGTCATCGAGGATCTCCACCTCGGCCTGCAACGGGCTGTCGGCATCACCGAAACTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCC                                                                                                                                                    >  2:255278‑M1/1‑126 (MQ=255)                                     a‑TCAGGCTCCAGGTGGCGTCATCGAGGATCTCCACCTCGGCCTGCAACGGGCTGTCGGCATCACCGAAACTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGc                                                                                                          <  4:138077/149‑1 (MQ=255)                                          ggCTCCAGGTGGCGTCATCGAGGATCTCCACCTCGGCCTGCAACGGGCTGTCGGCATCACCGAAACTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGc                                                                                                      >  1:81352/1‑149 (MQ=255)                                           gCTCCAGGTGGCGTCATCGAGGATCTCCACCTCGGCCTGCAACGGGCTGTCGGCATCACCGAAACTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGcc                                                                                                     >  7:2049/1‑149 (MQ=255)                                           gCTCCAGGTGGCGTCATCGAGGATCTCCACCTCGGCCTGCAACGGGCTGTCGGCATCACCGAAACTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGcc                                                                                                     >  5:55819/1‑149 (MQ=255)                                           gCTCCAGGTGGCGTCATCGAGGATCTCCACCTCGGCCTGCAACGGGCTGTCGGCATCACCGAAACTCCACTGCTGCCCGTGGATGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGcc                                                                                                     >  5:12953/1‑149 (MQ=255)                                             tCCAGGTGGCGTCATCGAGGATCTCCACCTCGGCCTGCAACGGGCTGTCGGCATCACCGAAACTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCccg                                                                                                   >  4:95604/1‑149 (MQ=255)                                                  gTGGCGTCATCGAGGATCTCCACCTCGGCCTGCAACGGGCTGTCGGCATCACCGAAACTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCCCGCCGAg                                                                                              >  7:54947/1‑149 (MQ=255)                                                                gATCTCCACCTCGGCCTGCAACGGGCTGTCGGCATCACCGAAACTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCttgcgcccctgctcggcgggctggcacgaagcgccgtgctcgcccagttgagcaagctgcgtcacggc                                                                                <  2:48329‑M1/149‑69 (MQ=255)                                                                gATCTCCACCTCGGCCTGCAACGGGCTGTCGGCATCACCGAAACTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCCCGCCGAGCAGGGGCGCAAggc                                                                                >  8:54947‑M2/1‑146 (MQ=255)                                                                    tcCACCTCGGCCTGCAACGGGCTGTCGGCATCACCGAAACTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCCCGCCGAGCAg                                                                                           >  5:161995/1‑134 (MQ=255)                                                                    tcCACCTCGGCCTGCAACGGGCTGTCGGCATCACCGAAACTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCCCGCCGAGCAg                                                                                           <  6:161995/134‑1 (MQ=255)                                                                     ccACCTCGGCCTGCAACGGGCTGTCGGCATCACCGAAACTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCCCGCCGAGCAGGGGCGCAAGGCCTGc                                                                            >  7:196575/1‑148 (MQ=255)                                                                      cACCTCGGCCTGCAACGGGCTGTCGGCATCACCGAACCTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCCCGCCGAGCAGGGGCGCAAGGCCTGc                                                                            <  2:142204/147‑1 (MQ=255)                                                                      cACCTCGGCCTGCAACGGGCTGTCGGCATCACCGAAACTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCttgcgcccctgctcggcgggctggcacgaagcgccgtgctcgcccagttgagcaagctgcgtcacggcc                                                                               <  8:214466‑M1/144‑70 (MQ=255)                                                                      cACCTCGGCCTGCAACGGGCTGTCGGCATCACCGAAACTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCttgcgcccctgctcggcgggctggcacgaagcgccgtgctcgcccagttgagcaagctgcgtcacggcc                                                                               >  7:214466‑M1/1‑75 (MQ=255)                                                                      cACCTCGGCCTGCAACGGGCTGTCGGCATCACCGAAACTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCCCGCCGAGCAGGGGCGCAAGGCCt                                                                              <  6:179597/145‑1 (MQ=255)                                                                      cACCTCGGCCTGCAACGGGCTGTCGGCATCACCGAAACTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCCCGCCGAGCAGGGGCGCAAGGCCt                                                                              <  5:235564/145‑1 (MQ=255)                                                                      cACCTCGGCCTGCAACGGGCTGTCGGCATCACCGAAACTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCCCGCCGAGCAGGGGCGCAAGGCCTGCg                                                                           >  3:192055/1‑148 (MQ=255)                                                                            ggCCTGCAACGGGCTGTCGGCATCACCGAAACTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCCCGCCGAGCAGGGGCGCAAGGCCTGCGAACtt                                                                      <  5:42224/147‑1 (MQ=255)                                                                            ggCCTGCAACGGGCTGTCGGCATCACCGAAACTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCCCGCCGAGCAGGGGCGCAAGGCCTGCGAACTTGc                                                                    <  4:192055/149‑1 (MQ=255)                                                                              ccTGCAACGGGCTGTCGGCATCACCGAAACTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCCCGCCGAGCAGGGGCGCAAGGCCTGCGAACTTGCt                                                                   >  6:37048/1‑148 (MQ=255)                                                                                      gggCTGTCGGCATCACCGAAACTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCCCGCCGAGCAGGGGCGCAAGGCCTGCGAACTTGCTAACGCTCAg                                                          <  5:37048/149‑1 (MQ=255)                                                                                       ggCTGTCGGCATCACCGAAACTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCCCGCCGAGCAGGGGCGCAAGGCCTGCGAACTTGCTAACGCTCAgg                                                         >  3:32230/1‑149 (MQ=255)                                                                                            tCGGCATCACCGAAACTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCCCGCCGAGCAGGGGCGCAAGGCCTGCGAACTTGCTAACGCTCAGGGTg                                                      <  8:2049/147‑1 (MQ=255)                                                                                               gCATCACCGAAACTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCCCGCCGAGCAGGGGCGCAAGGCCTGCGAACTTGCTAACGCTCAGGGTGGGAtt                                                 >  8:150902/1‑149 (MQ=255)                                                                                                    aCCGAAACTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCCCGCCGAGCAGGGGCGCAAGGCCTGCGAACTTGc                                                                    >  5:193288/1‑125 (MQ=255)                                                                                                    aCCGAAACTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCCCGCCGAGCAGGGGCGCAAGGCCTGCGAACTTGc                                                                    <  6:193288/125‑1 (MQ=255)                                                                                                      cGAAACTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCCCGCCGAGCAGGGGCGCAAGGCCTGCGAACTTGCTAACGCTCAGGGTGGGATTTGAcatc                                          <  7:150902/149‑1 (MQ=255)                                                                                                            tCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCGTGACGCAGCtt                                                                                                                                        >  3:194315/1‑49 (MQ=255)                                                                                                            tCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCGTGACGCAGCtt                                                                                                                                        <  4:194315/49‑1 (MQ=255)                                                                                                            tCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCCCGCCGAGCAGGGGCGCAAGGCCTGCGAACTTGCTAACGCTCAGGGTGGGATTTGACATCATCAAg                                    >  2:29576/1‑149 (MQ=255)                                                                                                                   ctgcCCGTGGCTGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCCCGCCGAGCAGGGGCGCAAGGCCTGCGAACTTGCTAACGCTCAGGGTGGGATTTGACATCATCAAGGTCCTc                              <  8:196575/148‑1 (MQ=255)                                                                                                                   ctgcCCGTGGCTGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCCCGCCGAGCAGGGGCGCAAGGCCTGCGAACTTGCTAACGCTCAGGGTGGGATTTGACATCATCAAGGTCCTCg                             >  2:101219/1‑149 (MQ=255)                                                                                                                      cccGTGGCTGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCCCGCCGAGCAGGGGCGCAAGGCCTGCGAACTTGCTAACGCTCAGGGTGGGATTTGACATCATCAAGGTCCTCGCaa                          <  5:2071/149‑1 (MQ=255)                                                                                                                          tGGCTGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCCCGCCGAGCAGGGGCGCAAGGCCTGCGAACTTGCTAACGCTCAGGGTGGGATTTGACATCATCAAGGTCCTCGCAAGGtt                      >  5:100054/1‑149 (MQ=255)                                                                                                                            gCTGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCCCGCCGAGCAGGGGCGCAAGGCCTGCGAACTTGCTAACGCTCAGGGTGGGATTTGACATCATCAAGGTCCTCGCAAGGTTg                     <  4:32230/148‑1 (MQ=255)                                                                                                                              tGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCCCGCCGAGCAGGGGCGCAAGGCCTGCGAACTTGCTAACGCTCAGGGTGGGa                                                   <  6:25095/116‑1 (MQ=255)                                                                                                                              tGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCCCGCCGAGCAGGGGCGCAAGGCCTGCGAACTTGCTAACGCTCAGGGTGGGa                                                   >  5:25095/1‑116 (MQ=255)                                                                                                                              tGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCCCGCCGAGCAGGGGCGCAAGGCCTGCGAACTTGCTAACGCTCAGGGTGGGATTTGACATCATCAAGGTCCTCGCAAGGTTGGcc                  >  3:8445/1‑149 (MQ=255)                                                                                                                                aGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCCCGCCGAGCAGGGGCGCAAGGCCTGCGAACTTGCTAACGCTCAGGGTGGGATTTGACATCATCAAGGTCCTCGCAAGGTTGGcc                  <  6:55819/147‑1 (MQ=255)                                                                                                                                         aGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCCCGCCGAGCAGGGGCGCAAGGCCTGCGAACTTGCTAACGCTCAGGGTGGGATTTGACATCATCAAGGTCCTCGCAAGGTTGGCCGAGTGCCAGGt       >  7:101318/1‑149 (MQ=255)                                                                                                                                             ggCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCCCGCCGAGCAGGGGCGCAAggccacctgcgcctgctcagccacgggcagcagtggagtttcggtgatgccgacagcccgttgcaggccgaggtg        >  7:214466‑M2/1‑69 (MQ=255)                                                                                                                                             ggCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCCCGCCGAGCAGGGGCGCAAggccacctgcgcctgctcagccacgggcagcagtggagtttcggtgatgccgacagcccgttgcaggccgaggtg        <  8:214466‑M2/144‑76 (MQ=255)                                                                                                                                              gCCttgcgcccctgctcggcgggctggcacgaagcgccgtgctcgcccagttgagcaagctgcgtcacggccacctgcgcctgctcagccacgggcagcagtggagtttcggtgatgccgacagcccgttgcaggccgaggtggagatc  >  8:54947‑M1/1‑3 (MQ=255)                                                                                                                                              gCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCCCGCCGAGCAGGGGCGCAAggccacctgcgcctgctcagccacgggcagcagtggagtttcggtgatgccgacagcccgttgcaggccgaggtggagatc  <  2:48329‑M2/149‑82 (MQ=255)                                                                                                                                                |                                                                                                                                                   TAGGCTTCGCCAGCTCCGATCGAGCCATTGCCGGCGA‑TCAGGCTCCAGGTGGCGTCATCGAGGATCTCCACCTCGGCCTGCAACGGGCTGTCGGCATCACCGAAACTCCACTGCTGCCCGTGGCTGAGCAGGCGCAGGTGGCCGTGACGCAGCTTGCTCAACTGGGCGAGCACGGCGCTTCGTGCCAGCCCGCCGAGCAGGGGCGCAAGGCCTGCGAACTTGCTAACGCTCAGGGTGGGATTTGACATCATCAAGGTCCTCGCAAGGTTGGCCGAGTGCCAGGTCACCC  >  NC_002947/3118409‑3118697

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.