New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	= 5770663	36 (0.680)	4 (0.080)	4/238	NT	11.0%	coding (209/4716 nt)	PP_5060	hypothetical protein
	?	NC_002947	= 5770682	31 (0.630)					coding (190/4716 nt)	PP_5060	hypothetical protein

GCTCGACTCGATGGCGAAAAAGCGCCGGGGCGGGTTCAGGCTAAGGCGGTAGTCGCCCGCCGGGGCGAGGTCCAGTGGTTTAGCCGCAAGCAGGGCCTGCAGCACAACATCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAGGGACATCAGGTACAGCGGTGCAGCCGAGGTCATTTCAGGGCGATGCACGCCAACCAGAGGATAGTGCTCCAGGATCACCTTCATGACCTGTTCGCCTACGACCTGACGGAGCGTGGGACGGCTGGCGAACTGGGCGGCGACTGCGT  >  NC_002947/5770515‑5770810                                                                                                                                                     |                                                                                                                                                    gCTCGACTCGATGGCGAAAAAGCGCCGGGGCGGGTTCAGGCTAAGGCGGTAGTCGCCCGCCGGGGCGAGGTCCAGTGGTTTAGCCGCAAGCAGGGCCTGCAGCACAACATCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCA                                                                                                                                                     <  1:25066‑M1/149‑1 (MQ=255)   tcgactcgaTGGCGAAAAAGCGCCGGGGCGGGTTCAGGCTAAGGCGGTAGTCGCCCGCCGGGGCGAGGTCCAGTGGTTTAGCCGCAAGCAGGGCCTGCAGCACAACATCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAgg                                                                                                                                                   >  3:26320/1‑149 (MQ=255)          gaTGGCGAAAAAGCGCCGGGGCGGGTTCAGGCTAAGGCGGTAGTCGCCCGCCGGGGCGAGGTCCAGTGGTTTAGCCGCAAGCAGGGCCTGCAGCACAACATCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAGGGACATc                                                                                                                                             <  5:211628/148‑1 (MQ=255)            tGGCGAAAAAGCGCCGGGGCGGGTTCAGGCTAAGGCGGTAGTCGCCCGCCGGGGCGAGGTCCAGTGGTTTAGCCGCAAGCAGGGCCTGCAGCACAACATCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAg                                                                                                                                                    <  8:334787/139‑1 (MQ=255)            tGGCGAAAAAGCGCCGGGGCGGGTTCAGGCTAAGGCGGTAGTCGCCCGCCGGGGCGAGGTCCAGTGGTTTAGCCGCAAGCAGGGCCTGCAGCACAACATCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAg                                                                                                                                                    >  7:334787/1‑139 (MQ=255)             ggCGAAAAAGCGCCGGGGCGGGTTCAGGCTAAGGCGGTAGTCGCCCGCCGGGGCGAGGTCCAGTGGTTTAGCCGCAAGCAGGGCCTGCAGCACAACATCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAccgctgtacct                                                                                                                                          >  8:275311‑M1/1‑137 (MQ=255)                gAAAAAGCGCCGGGGCGGGTTCAGGCTAAGGCGGTAGTCGCCCGCCGGGGCGAGGTCCAGTGGTTTAGCCGCAAGCAGGGCCTGCAGCACAACATCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAGGGACATCAGGTa                                                                                                                                        >  6:211813/1‑147 (MQ=255)                gAAAAAGCGCCGGGGCGGGTTCAGGCTAAGGCGGTAGTCGCCCGCCGGGCCGAGGTCCAGTGGTTTAGCCGCAAGCAGGGCCTGCAGCACAACATCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAGGGACATCAGGTa                                                                                                                                        >  8:220602/1‑147 (MQ=255)                  aaaaGCGCCGGGGCGGGTTCAGGCTAAGGCGGTAGTCGCCCGCCGGGGCGAGGTCCAGTGGTTTAGCCGCAAGCAGGGCCTGCAGCACAACATCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCA                                                                                                                                                     >  3:101267‑M1/1‑132 (MQ=255)                  aaaaGCGCCGGGGCGGGTTCAGGCTAAGGCGGTAGTCGCCCGCCGGGGCGAGGTCCAGTGGTTTAGCCGCAAGCAGGGCCTGCAGCACAACATCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCA                                                                                                                                                     <  4:101267‑M1/132‑1 (MQ=255)                   aaaGCGCCGGGGCGGGTTCAGGCTAAGGCGGTAGTCGCCCGCCGGGGCGAGGTCCAGTGGTTTAGCCGCAAGCAGGGCCTGCAGCACAACATCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAGGGACATCAGGTACAGCg                                                                                                                                   <  4:26320/149‑1 (MQ=255)                           ggggCGGGTTCAGGCTAAGGCGGTAGTCGCCCGCCGGGGCGAGGTCCAGTGGTTTAGCCGCAAGCAGGGCCTGCAGCACAACATCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAGGGACATCAGGTACAGCGGtgcagcc                                                                                                                           <  4:147577‑M2/149‑8 (MQ=255)                             ggCGGGTTCAGGCTAAGGCGGTAGTCGCCCGCCGGGGCGAGGTCCAGTGGTTTAGCCGCAAGCAGGGCCTGCAGCACAACATCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAGGGACATCAGGTACAGCGGTGCAGCCGa                                                                                                                         <  1:125053/149‑1 (MQ=255)                             ggCGGGTTCAGGCTAAGGCGGTAGTCGCCCGCCGGGGCGAGGTCCAGTGGTTTAGCCGCAAGCAGGGCCTGCAGCACAACATCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAGGGACATCAGGTACAGCGGTGCAGCCGa                                                                                                                         <  2:337732/149‑1 (MQ=255)                              gCGGGTTCAGGCTAAGGCGGTAGTCGCCCGCCGGGGCGAGGTCCAGTGGTTTAGCCGCAAGCAGGGCCTGCAGCACAACATCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAGGGACATCAGGTACAGCGGTGCAGCCGAg                                                                                                                        >  4:336962/1‑149 (MQ=255)                               cGGGTTCAGGCTAAGGCGGTAGTCGCCCGCCGGGGCGAGGTCCAGTGGTTTAGCCGCAAGCAGGGCCTGCAGCACAACATCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAGGGACATCAGGTACAGCGGTGCAGCCGAgg                                                                                                                       <  5:211813/149‑1 (MQ=255)                                       ggCTAAGGCGGTAGTCGCCCGCCGGGGCGAGGTCCAGTGGTTTAGCCGCAAGCAGGGCCTGCAGCACAACATCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAccgctgtacctgatgtccctgcagccggatggtgtctg                                                                                                               <  7:275311‑M1/149‑39 (MQ=255)                                       ggCTAAGGCGGTAGTCGCCCGCCGGGGCGAGGTCCAGTGGTTTAGCCGCAAGCAGGGCCTGCAGCACAACATCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAGGGACATCAGGTACAGCGGTGCAGCCGAGGTCAttt                                                                                                                 >  7:147621/1‑147 (MQ=255)                                         cTAAGGCGGTAGTCGCCCGCCGGGGCGAGGTCCAGTGGTTTAGCCGCAAGCAGGGCCTGCAGCACAACATCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAGGGACATCAGGTACAGCGGTGCAGCCGAGGTCATTTCAgg                                                                                                             <  3:147577/149‑1 (MQ=255)                                          tAAGGCGGTAGTCGCCCGCCGGGGCGAGGTCCAGTGGTTTAGCCGCAAGCAGGGCCTGCAGCACAACATCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAGGGACATCAGGTACAGCGGTGCAGCCGAGGTCATTTCAggg                                                                                                            >  3:178981/1‑149 (MQ=255)                                                  tAGTCGCCCGCCGGGGCGAGGTCCAGTGGTTTAGCCGCAAGCAGGGCCTGCAGCACAACATCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAGGGACATCAGGTACAGCGGTGCAGCCGAGGTCATTTCAGGGCGATGCAc                                                                                                    <  3:299056/149‑1 (MQ=255)                                                    gTCGCCCGCCGGGGCGAGGTCCAGTGGTTTAGCCGCAAGCAGGGCCTGCAGCACAACATCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAGGGACATCAGGTACAGCGGTGCAGCCGAGGTCATTTCAGGGCGATGCACg                                                                                                   <  4:90277/148‑1 (MQ=255)                                                            ccgGGGCGAGGTCCAGTGGTTTAGCCGCAAGCAGGGCCTGCAGCACAACATCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAGGGACATCAGGTACAGCGGTGCAGCCGAGGTCATTTTAGGGCGATGCACGCCAACCaga                                                                                          <  7:220602/149‑1 (MQ=255)                                                                   gAGGTCCAGTGGTTTAGCCGCAAGCAGGGCCTGCAGCACAACATCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAGGGACATCAGGTACAGCGGTGCAGCCGAGGTCATTTCAGGGCGATGCACGCCAACCAGAGGATAGt                                                                                   >  2:345048/1‑149 (MQ=255)                                                                    aGGTCCAGTGGTTTAGCCGCAAGCAGGGCCTGCAGCACAACATCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAGGGACATCAGGTACAGCGGTGCAGCCGAGGTCATTTCAGGGCGATGCACGCCAACCAGAGGATAGTg                                                                                  <  8:147621/149‑1 (MQ=255)                                                                                    ccGCAAGCAGGGCCTGCAGCACAACATCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAGGGACATCAGGTACAGCGGTGCAGCCGAGGTCATTTCAGGGCGATGCACGCCAACCAGAGGATAGTGCTCCAGGATc                                                                        <  6:112768/143‑1 (MQ=255)                                                                                    ccGCAAGCAGGGCCTGCAGCACAACATCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAGGGACATCAGGTACAGCGGTGCAGCCGAGGTCATTTCAGGGCGATGCACGCCAACCAGAGGATAGTGCTCCAGGATc                                                                        >  5:112768/1‑143 (MQ=255)                                                                                       cAAGCAGGGCCTGCAGCACAACATCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAGGGACATCAGGTACAGCGGTGCAGCCGAGGTCATTTCAGGGCGATGCACGCCAACCAGAGGATAGTGCTCCAGGATCACCTTCAt                                                                >  6:127839/1‑148 (MQ=255)                                                                                         aGCAGGGCCTGCAGCACAACATCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAGGGACATCAGGTACAGCGGTGCAGCCGAGGTCATTTCAGGGCGATGCACGCCAACCAGAGGATAGTGCTCCAGGATCACCTTCATGAc                                                             <  5:127839/149‑1 (MQ=255)                                                                                                  tGCAGCACAACATCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAccgctgtacctgatgtccctgcagccggat                                                                                                                       >  3:121372‑M1/1‑52 (MQ=255)                                                                                                  tGCAGCACAACATCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAccgctgtacctgatgtccctgcagccggat                                                                                                                       <  4:121372‑M1/82‑31 (MQ=255)                                                                                                       cacaACATCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAGGGACATCAGGTACAGCGGTGCAGCCGAGGTCATTTCAGGGCGATGCACGCCAACCAGAGGATAGTGCTCCAGGATCACCTTCATGACCTGTTCGCCTACGa                                               >  4:126732/1‑149 (MQ=255)                                                                                                          aacaTCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAGGGACATCAGGTACAGCGGTGCAGCCGAGGTCATTTCAGGGCGATGCACGCCAACCAGAGGATAGTGCTCCAGGATCACCTTCATGACCTGTTCGCCTACGACCt                                            >  1:120490/1‑149 (MQ=255)                                                                                                          aacaTCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAGGGACATCAGGTACAGCGGTGCAGCCGAGGTCATTTCAGGGCGATGCACGCCAACCAGAGGATAGTGCTCCAGGATCACCTTCATGACCTGTTCGCCTACGACCt                                            >  2:210251/1‑149 (MQ=255)                                                                                                            caTCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAGGGACATCAGGTACAGCGGTGCAGCCGAGGTCATTTCAGGGCGATGCACGCCAACCAGAGGATAGTGCTCCAGGAt                                                                         >  8:270726/1‑118 (MQ=255)                                                                                                            caTCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAGGGACATCAGGTACAGCGGTGCAGCCGAGGTCATTTCAGGGCGATGCACGCCAACCAGAGGATAGTGCTCCAGGATCACCTTCAt                                                                <  4:221942/127‑1 (MQ=255)                                                                                                            caTCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAGGGACATCAGGTACAGCGGTGCAGCCGAGGTCATTTCAGGGCGATGCACGCCAACCAGAGGATAGTGCTCCAGGATCACCTTCAt                                                                >  3:221942/1‑127 (MQ=255)                                                                                                                caccaGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAGGGACATCAGGTACAGCGGTGCAGCCGAGGTCATTTCAGGGCGATGCACGCCAACCAGAGGATAGTGCTCCAGGATCACCTTCATGACCTGTTCGCCTACGACCTGACGGa                                      <  1:345048/149‑1 (MQ=255)                                                                                                                     gCGGCTGAGGGCGCCAGACACCATCCGGCTGCAGGGACATCAGGTACAGCGGTGCAGCCGAGGTCATTTCAGGGCGATGCACGCCAACCAGAGGATAGTGCTCCAGGATc                                                                        <  8:162321/110‑1 (MQ=255)                                                                                                                     gCGGCTGAGGGCGCCAGACACCATCCGGCTGCAGGGACATCAGGTACAGCGGTGCAGCCGAGGTCATTTCAGGGCGATGCACGCCAACCAGAGGATAGTGCTCCAGGATc                                                                        >  7:162321/1‑110 (MQ=255)                                                                                                                        gCTGAGGGCGCCAGACACCATCCGGCTGCAGGGACATCAGGTACAGCGGTGCAGCCGAGGTCATTTCAGGGCGATGCACGCCAACCAGAGGATAGTGCTCCAGGATCACCTTCATGACCTGTTCGCCTACGACCTGACGGAGCGTGGGa                              <  3:336962/149‑1 (MQ=255)                                                                                                                                   cAGACACCATCCGGCTGCAGGGACATCAGGTACAGCGGtgcagccggatggtgtctggcgccctcagccgctggtggatgttgtgctgcaggccctgcttgcggctaaaccactggacctcgccccggcgggcgactaccgccttagcc                   <  7:275311‑M2/149‑112 (MQ=255)                                                                                                                                      acacCATCCGGCTGCAGGGACATCAGGTACAGCGGTGCAGCCGAGGTCATTTCAGGGCGATGCACGCCAACCAGAGGATAGTGCTCCAGGATCACCTTCATGACCTGTTCGcc                                                    >  5:113166/1‑113 (MQ=255)                                                                                                                                      acacCATCCGGCTGCAGGGACATCAGGTACAGCGGTGCAGCCGAGGTCATTTCAGGGCGATGCACGCCAACCAGAGGATAGTGCTCCAGGATCACCTTCATGACCTGTTCGcc                                                    <  6:113166/113‑1 (MQ=255)                                                                                                                                       cacCATCCGGCTGCAGGGACATCAGGTACAGCGGTGCAGCCGAGGTCATTTCAGGGCGATGCACGCCAACCAGAGGATAGTGCTCCAGGATCACCTTCATGACCTGTTCGCCTACGACCTGACGGAGCGTGGGACGGCTGGCGAACTgg               <  1:210251/149‑1 (MQ=255)                                                                                                                                           aTCCGGCTGCAGGGACATCAGGTACAGCGGtgcagccggatggtgtctggcgccctcagccgctggtggatgttgtgctgca                                                                              <  4:121372‑M2/82‑53 (MQ=255)                                                                                                                                           aTCCGGCTGCAGGGACATCAGGTACAGCGGtgcagccggatggtgtctggcgccctcagccgctggtggatgttgtgctgca                                                                              >  3:121372‑M2/1‑30 (MQ=255)                                                                                                                                               ggCTGCAccgctgtacctgatgtccctgcagccggatggtgtctggcgccctcagccgctggtggatgttgtgctgcaggccctgcttgcggctaaaccactggacctcgccccggcgggcgactaccgccttagcctgaacccgcccc       <  4:147577‑M1/149‑143 (MQ=255)                                                                                                                                               ggCTGCAGGGACATCAGGTACAGCGGTGCAGCCGAGGTCATTTCAGGGCGATGCACGCCAACCAGAGGATAGTGCTCCAGGATCACCTTCATGACCTGTTCGCCTACGACCTGACGGAGCGTGGGACGGCTGGCGAACTg                <  6:180079/140‑1 (MQ=255)                                                                                                                                               ggCTGCAGGGACATCAGGTACAGCGGTGCAGCCGAGGTCATTTCAGGGCGATGCACGCCAACCAGAGGATAGTGCTCCAGGATCACCTTCATGACCTGTTCGCCTACGACCTGACGGAGCGTGGGACGGCTGGCGAACTg                >  5:180079/1‑140 (MQ=255)                                                                                                                                                gCTGCAGGGACATCAGGTACAGCGGTGCAGCCGAGGTCATTTCAGGGCGATGCACGCCAACCAGAGGATAGTGCTCCAGGATCACCTTCATGACCTGTTCGCCTACGACCTGACGGAGCGTGGGACGGCTGGCGAACTGGGCGGCGACt      <  1:8333/149‑1 (MQ=255)                                                                                                                                                    cAGGGACATCAGGTACAGCGGTGCAGCCGAGGTCATTTCAGGGCGATGCACGCCAACCAGAGGATAGTGCTCCAGGATCACCTTCATGACCTGTTCGCCTACGACCTGACGGTGCGTGGGACGGCTGGCGAACTGGGCGGCGACTGCGt  <  2:120490/149‑1 (MQ=255)                                                                                                                                                    cAGGGACATCAGGTACAGCGGTGCAGCCGAGGTCATTTCAGGGCGATGCACGCCAACCAGAGGATAGTGCTCCAGGATCACCTTCATGACCTGTTCGCCTACGACCTGACGGAGCGTGGGACGGCTGGCGAACTGGGCGGCGACTGc    <  3:126732/147‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                                    GCTCGACTCGATGGCGAAAAAGCGCCGGGGCGGGTTCAGGCTAAGGCGGTAGTCGCCCGCCGGGGCGAGGTCCAGTGGTTTAGCCGCAAGCAGGGCCTGCAGCACAACATCCACCAGCGGCTGAGGGCGCCAGACACCATCCGGCTGCAGGGACATCAGGTACAGCGGTGCAGCCGAGGTCATTTCAGGGCGATGCACGCCAACCAGAGGATAGTGCTCCAGGATCACCTTCATGACCTGTTCGCCTACGACCTGACGGAGCGTGGGACGGCTGGCGAACTGGGCGGCGACTGCGT  >  NC_002947/5770515‑5770810

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.