New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	6000903 =	39 (0.650)	4 (0.090)	3/204	NT	14.0%	intergenic (+10/+99)	PP_5256/amaA	cyclic nucleotide‑binding protein/L‑pipecolate oxidase
	?	NC_002947	6000997 =	19 (0.410)					intergenic (+104/+5)	PP_5256/amaA	cyclic nucleotide‑binding protein/L‑pipecolate oxidase

TCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGC‑GAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGAAAACGGAATCGGCAGGCTGTCCGCCTCGCCCTTGAGCAGG  >  NC_002947/6000852‑6001143                                                                                                                                                   |                                                                                                                                                   tcaatcaaGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTTAAACCCCGACGACAACTATTTGACCGGCAGGGACGGGGGTGGTGTAACGGGAGGGGCGGGTTTTCCCCC‑GCAGAGGGCactg                                                                                                                                                 >  4:267740/1‑146 (MQ=255)                     ccTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGATGGGGCGGGTTTACCCGG‑GAAGGGGCCAGTACTTACAACAAAACCAGCAgg                                                                                                                             >  6:383509/1‑149 (MQ=37)                      cTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGCGGAAGAGGCCAGTACTTACAACACAACCCTCAgg                                                                                                                             <  1:45769/149‑1 (MQ=255)                           ttggttgCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGC‑GAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGc                                                                                                                       <  5:277864/149‑1 (MQ=255)                                         gAGCCGGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGGGCCCCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGC‑GAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAg                                                                                                         <  3:39364/149‑1 (MQ=255)                                          aGCCTGTGCCGGCCTCTTCGCGGGTAACCCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGC‑GAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGc                                                                                                        <  7:221317/149‑1 (MQ=255)                                                        gctgcgcgGGAAACCCCCCTCCTACACGTCGGGCACCGCCTCAGCGGGGGGGGGTCAACCTGTCGGAGCGGGTTTACCCGC‑GAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTc                                                                                          <  6:330141/145‑1 (MQ=255)                                                               GGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACTCGC‑GAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAAc                                                                                   <  2:54453‑M1/149‑1 (MQ=255)                                                                GGTAAACCCGCTCCTACACGTAGTGCACCGCCTGCGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGC‑GAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACg                                                                                  >  3:267740‑M1/1‑149 (MQ=255)                                                                 GTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGC‑GAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCAt                                                                                        <  8:13139‑M1/142‑1 (MQ=255)                                                                 GTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGC‑GAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCAt                                                                                        >  7:13139‑M1/1‑142 (MQ=255)                                                                      acccgctcctacaggttcaccacagccctctcaggcggtgcactacttgtaggagcgggtttacccgcgaagaggccAGTACTTACAACACAACCCTCCGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTc                                                                             >  8:325668‑M2/78‑149 (MQ=255)                                                                      acccgctcctacaggttcaccacagccctctcaggcggtgcactacttgtaggagcgggtttacccgcgaagaggccAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTc                                                                             >  4:107780‑M2/78‑149 (MQ=255)                                                                       cccgctcctacaggttcaccacagccctctcaggcggtgcactacttgtaggagcgggtttacccgcgaagaggccAGTACTTACAACACAACCCTCAGGCACTGc                                                                                                                       >  2:133168‑M2/77‑106 (MQ=255)                                                                       cccgctcctacaggttcaccacagccctctcaggcggtgcactacttgtaggagcgggtttacccgcgaagaggccAGTACTTACAACACAACCCTCAGGCACTGc                                                                                                                       <  1:133168‑M2/30‑1 (MQ=255)                                                                       CCGCTCCTACAAGTAGTGCACCGCCTGAGAGGCCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGC‑GAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCg                                                                           <  6:155992‑M1/149‑1 (MQ=255)                                                                               ACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGC‑GAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAg                                                                   <  8:181533‑M1/149‑1 (MQ=255)                                                                                CAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGC‑GAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGAGAAgg                                                                  <  1:133913‑M1/149‑1 (MQ=255)                                                                                CAAGTAGTGCACCGCATGAGAGGGCTGTGGTGAACCTGTAGGAGCCTGTTTACCCGC‑GAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCAATCCGCAACGAAgg                                                                  <  6:288571‑M1/149‑1 (MQ=255)                                                                                   gtagcGCCCCGCCTGCGAGGGCTGTGGTCACCCTGTAGGAGCGGTTTTACCCGC‑GAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGgcgc                                                               <  3:73631/149‑1 (MQ=255)                                                                                    tagtGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGC‑GAAGAGGCCAGTACTTACAGCACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGgcgcg                                                              >  5:255918/1‑149 (MQ=255)                                                                                    tagtGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGC‑GAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGgcgcg                                                              >  5:226597/1‑149 (MQ=255)                                                                                      gtGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACTCGC‑GAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCt                                                            <  1:54453/149‑1 (MQ=255)                                                                                          aCCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGC‑GAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTcaca                                                        <  1:1731/149‑1 (MQ=255)                                                                                           ccGCCTGAGAGGGCGGTGGGGAACCTGTAGGAGCGGGTTTACCCGC‑GAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCacac                                                       <  3:31715/149‑1 (MQ=255)                                                                                               cTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGC‑GAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCt                                                   >  4:8370/1‑149 (MQ=255)                                                                                                tGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGC‑GAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCt                                                   >  6:67987/1‑148 (MQ=255)                                                                                                  agagGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGC‑GAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCAt                                                >  1:9658/1‑149 (MQ=255)                                                                                                      ggCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGC‑GAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGc                                                    <  3:38564/141‑1 (MQ=255)                                                                                                      ggCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGC‑GAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGc                                                    >  4:38564/1‑141 (MQ=255)                                                                                                           tggtgAACCTGTAGGAGCGGGTTTACCCGC‑GAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGaaa                                        <  6:226597/148‑1 (MQ=255)                                                                                                           tggtgAACCTGTAGGAGCGGGTTTACCCGC‑GAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCAAAGAACCCTGTCCGCCGCGAAGCCGCGCTCACACCGCACTTCGGCGaaaa                                       >  3:288611/1‑149 (MQ=39)                                                                                                               gAACCTGTAGGAGCGGGTTTACCCGC‑GAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGAAAACgg                                    >  2:21929/1‑148 (MQ=255)                                                                                                                 tacttgtaggagcgggtttacccgcgaagaggccAGTACTTACAACACAACCCTCAGTCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGAAAACGGaa                                  <  7:325668‑M2/115‑1 (MQ=255)                                                                                                                  ccTGTAGGAGCGGGTTTACCCGC‑GAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGAAAACGGAATc                                >  6:305559/1‑149 (MQ=255)                                                                                                                   cTGTAGGAGCGGGTTTACCCGC‑GAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGAAAACGGAATCg                               >  6:293139/1‑149 (MQ=255)                                                                                                                      gtaggagcgggtttacccgcgaagaggccAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGCACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGAAAACGGAATc                                <  1:98575‑M2/117‑1 (MQ=255)                                                                                                                      gtaggagcgggtttacccgcgaagaggccAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGAAAACGGAATc                                >  2:98575‑M2/30‑146 (MQ=255)                                                                                                                      gtaggagcgggtttacccgcgaagaggccAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGAAAACGGAATCgg                              >  1:332126‑M2/30‑148 (MQ=255)                                                                                                                      gtaggagcgggtttacccgcgaagaggccAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGAAAACAGAATCgg                              >  8:300107‑M2/30‑148 (MQ=255)                                                                                                                      gtaggagcgggtttacccgcgaagaggccAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGAAAACAGAATCgg                              >  8:305425‑M2/30‑148 (MQ=255)                                                                                                                         ggagcgggtttacccgcgaagaggccAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCCGCGAAGGCGCGCTCCCACCGCTCCTCGGCGAAAACGGAATCGGCAgg                          >  8:155135‑M2/27‑149 (MQ=255)                                                                                                                         ggagcgggtttacccgcgaagaggccAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGAAAACAGAATCGGCAg                           <  7:300107‑M2/122‑1 (MQ=255)                                                                                                                         ggagcgggtttacccgcgaagaggccAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGAAAACAGAATCGGCAg                           <  7:305425‑M2/122‑1 (MQ=255)                                                                                                                                gtttacccgcgaagaggccAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGAAAACGGAATCGGCAGGCTGTCCg                   >  6:63745‑M2/20‑149 (MQ=255)                                                                                                                                      ccgcgaagaggccAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCG‑AAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGAAAACGGAATCGGCAGGCTGTCCGCCTCGcc            >  4:103485‑M2/14‑149 (MQ=255)                                                                                                                                       cgcgaagaggccAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGAAAACGGAATCGGCAGGCTGTCCGCCTCGcc            >  2:47597‑M2/13‑149 (MQ=255)                                                                                                                                             gaggccAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGAAAACGGAATCGGCAGGCTGTCCGCCTCGCCCTTGAg      <  5:67987‑M2/143‑1 (MQ=255)                                                                                                                                               ggccAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGAAAACGGAATCGGCAGGCTGTCCGCCTCGCCCTTGAGCa    <  7:181533‑M2/145‑1 (MQ=255)                                                                                                                                               ggccAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCG‑AAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGAAAACGGAATCGGCAGGCTGTCCGCCTCGCCCTTGAGCAg   <  3:103485‑M2/145‑1 (MQ=255)                                                                                                                                                gccAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGAAAACGGAATCGGCAGGCTGTCCGCCTCGCCCTTGAGCAg   <  5:383509‑M2/146‑1 (MQ=255)                                                                                                                                                gccAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGAAAACGGAATCGGCAGGCTGTCCGCCTCGCCCTTGAGCAg   <  3:8370‑M2/146‑1 (MQ=255)                                                                                                                                                 ccAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGAAAACGGAATCGGCAGGCTGTCCGCCTCGCCCTTGAGCAgg  <  3:107780‑M2/147‑1 (MQ=255)                                                                                                                                                  cAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGAAAACGGAATCGGCAGGCTGTCCGCCTCGCCCTTGAGCAgg  >  8:279061‑M2/2‑148 (MQ=255)                                                                                                                                                   aGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGAAAACGGAATCGGCAGGCTGTCCGCCTCTCCCTTGAGc     <  4:204797/144‑1 (MQ=255)                                                                                                                                                   aGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGAAAACGGAATCGGCAGGCTGTCCGCCTCGCCCTTGAGc     >  3:204797/1‑144 (MQ=255)                                                                                                                                                   |                                                                                                                                                   TCAATCAAGAAGGGTGGCTTCCTGAGTTGGTTGCACAAGTGAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAGTAGTGCACCGCCTGAGAGGGCTGTGGTGAACCTGTAGGAGCGGGTTTACCCGC‑GAAGAGGCCAGTACTTACAACACAACCCTCAGGCACTGCCCCGCGTGGTACAGCGAAAAACCGGACTCATAGAACGCTGTCCGCAGCGAAGGCGCGCTCACACCGCTCATCGGCGAAAACGGAATCGGCAGGCTGTCCGCCTCGCCCTTGAGCAGG  >  NC_002947/6000852‑6001143

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.