New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	3513089 =	44 (0.610)	3 (0.040)	3/254	NT	7.1%	coding (1757/4158 nt)	PP_3108	rhs family protein
	?	NC_002947	3513127 =	37 (0.550)					coding (1795/4158 nt)	PP_3108	rhs family protein

CGGACGGTAACCGCCTGCAATTCAAGTACGACGAATTCTCCCGCCTGCTCGAAGAGACCGACCCGCTGGGCCGCAAGACCCAGTACGAATATCACCACCTGACCACACTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTCGACGACAAGGGCAACCTGCTCGCCGAATTCGATGCCCTCGGCCAGATGACCGAGTACCTGAACAGCGATGACGG‑CCTGCCGCACACCATCATCGATGCGACCTACAAGTCCAAGTACCTGTGGTGGAACACCCTG  >  NC_002947/3512945‑3513237                                                                                                                                                 |                                                                                                                                                      gcccgagcagtcctggtagcgctcgacctgggccagggtgttccaccacaggtacttggacttgtaggtcgcatcgatgatggtgtgcggcaggccgtcatcgctgttcaggtactcggtcatctggccgagggcatcgaattcgg                                                                                                                                                      >  5:174359‑M1/145‑146 (MQ=255)   ccgagcagtcctggtagcgctcgacctgggccagggtgttccaccacaggtacttggacttgtaggtcgcatcgatgatggtgtgcggcaggccgtcatcgctgttcaggtactcggtcatctggccgagggcatcgaattcGGCGAg                                                                                                                                                  <  8:230572‑M1/6‑1 (MQ=255)    cgagcagtcctggtagcgctcgacctgggccagggtgttccaccacaggtacttggacttgtaggtcgcatcgatgatggtgtgcggcaggccgtcatcgctgttcaggtactcggtcatctggccgagggcatcgaattcGGCGAg                                                                                                                                                  <  7:37392‑M1/6‑1 (MQ=255)          aCCGCCTGCAATTCAAGTACGACGAATTCTCCCGCCTGCTCGAAGAGACCGACCCGCTGGGCCGCAAGACCCAGTACGAATATCACCACCTGACCACACTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGttt                                                                                                                                           <  5:441038/148‑1 (MQ=255)            cGCCTGCAATTCAAGTACGACGAATTCTCCCGCCTGCTTGAAGAGACCGACCCGCTGGGCCGCAAGACCCAGTACGAATATCACCACCTGACCACACTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTcga                                                                                                                                        >  2:111782/1‑149 (MQ=255)            cGCCTGCAATTCAAGTACGACGAATTCTCCCGCCTGCTCGAAGAGACCGACCCGCTGGGCCGCAAGACCCAGTACGAATATCACCACCTGACCACACTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTcga                                                                                                                                        <  8:21885/149‑1 (MQ=255)            cGCCTGCAATTCAAGTACGACGAATTCTCCCGCCTGCTCGAAGAGACCGACCCGCTGGGCCGCAAGACCCAGTACGAATATCACCACCTGACCACACTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTcga                                                                                                                                        >  2:117538/1‑149 (MQ=255)             gCCTGCAATTCCAGTACGACGAATTCTCCCGCCTGCGCGAAGAGACCGACCCGCTGGGCCGCAAGACCCAGTACGAATATCACCACCTGACCACACTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTcgac                                                                                                                                       <  6:135645/149‑1 (MQ=255)             gCCTGCAATTCAAGTACGACGAATTCTCCCGCCTGCTCGAAGAGACCGACCCGCTGGGCCGCAAGACCCAGTACGAATATCACCACCTGACCACACTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTcgac                                                                                                                                       <  1:117538/149‑1 (MQ=255)             gCCTGCAATTCAAGTACGACGAATTCTCCCGCCTGCTCGAAGAGACCGACCCGCTGGGCCGCAAGACCCAGTACGAATATCACCACCTGACCACACTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTcgac                                                                                                                                       <  6:310516/149‑1 (MQ=255)             gCCTGCAATTCAAGTACGACGAATTCTCCCGCCTGCTAGAAGAGACCGACCCGCTGGGCCGCAAGACCCAGTACGAATATCACCACCTGACCACACTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTcgac                                                                                                                                       <  1:111782/149‑1 (MQ=255)                   aaTTCAAGTACGACGAATTCTCCCGCCTGCTCGAAGAGACCGACCCGCTGGGCCGCAAGACCCAGTACGAATATCACCACCTGACCACACTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTCGACGACAAg                                                                                                                                 >  5:435855/1‑149 (MQ=255)                     ttCAAGTACGACGAATTCTCCCGCCTGCTCGAAGAGACCGACCCGCTGGGCCGCAAGACCCAGTACGAATATCACCACCTGACCACACTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTCGACGACAAggg                                                                                                                               >  7:59365/1‑149 (MQ=255)                       cAAGTACGACGAATTCTCCCGCCTGCTCGAAGAGACCGACCCGCTGGGCCGCAAGACCCAGTACGAATATCACCACCTGACCACACTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTCGACGACAAGGGc                                                                                                                              >  2:195640/1‑148 (MQ=255)                          gTACGACGAATTCTCCCGCCTGCTCGAAGAGACCGACCCGCTGGGCCGCAAGACCCAGTACGAATATCACCACCTGACCACACTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTCGACGACAAGGGCAAcc                                                                                                                          >  6:216163/1‑149 (MQ=255)                              gacgaATTCTCCCGCCTGCTCGAAGAGACCGACCCGCTGGGCCGCAAGACCCAGTACGAATATCACCACCTGACCACACTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTCGACGACAAGGGCAACCTGCt                                                                                                                      >  6:418221/1‑149 (MQ=255)                               acgaATTCTCCCGCCTGCTCGAAGAGACCGACCCGCTGGGCCGCAAGACCCAGTACGAATATCACCACCTGACCACACTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTCGACGACAAGGGCAACCTGCTc                                                                                                                     >  8:96731/1‑149 (MQ=255)                                     tctcCCGCCTGCTCGAAGAGACCGACCCGCTGGGCCGCAAGACCCAGTACGAATATCACCACCTGACCACACTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTCGACGACAAGGGCAACCTGCTCGCCGaa                                                                                                               >  8:399064/1‑149 (MQ=255)                                      gtgttccaccacaggtacttggacttgtaggtcgcatcgatgatggtgtgcggcaggccgtcatcgctgttcaggtactcggtcatctggccgagggcatcgaattcGGCGAGCGCGTTTCGACGACAAGGGCAACCTGCTCGCCGAAt                                                                                                              >  7:387293‑M1/108‑149 (MQ=255)                                      ctcCCGCCTGCTCGAAGAGACCGACCCGCTGGGCCGCAAGACCCAGTACGAATATCACCACCTGACCACACTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTCGACGACAAGGGCAACCTGCTCGCCGaa                                                                                                               <  7:342511/148‑1 (MQ=255)                                           ccaccacaggtacttggacttgtaggtcgcatcgatgatggtgtgcggcaggccgtcatcgctgttcaggtactcggtcatctggccgagggcatcgaattcGGCGAGCGCGTTTCGACGACAAGGGCAACCTGCTCGCCGAAtt                                                                                                             <  2:63036‑M1/43‑1 (MQ=255)                                           ccaccacaggtacttggacttgtaggtcgcatcgatgatggtgtgcggcaggccgtcatcgctgttcaggtactcggtcatctggccgagggcatcgaattcGGCGAGCGCGTTTCGACGACAAGGGCAACCTGCTCGCCGAAtt                                                                                                             >  1:63036‑M1/103‑145 (MQ=255)                                               gCTCGAAGAGACCGACCCGCTGGGCCGCAAGACCCAGTACGAATATCACCACCTGACCACACTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTCGACGACAAGGGCAACCTGCTCGCCGAATACGATGccc                                                                                                     >  2:235574/1‑149 (MQ=255)                                                   gAAGAGACCGACCCGCTGGGCCGCAAGACCCAGTACGAATATCACCACCTGACCACACTGGTGACCCAGGTGAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTCGACGACAAGGGCAACCTGCTCGCCGAATTCGATGCCCTc                                                                                                   <  8:126204/147‑1 (MQ=255)                                                        gaccgaccCGCTGGGCCGCAACACCCAGAAAGAATATCACCACCTTACCACACTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTCGACGACAAGGGCAACCTGCTCGCCTAATTCGATTCCCTCGGCCAGa                                                                                            <  4:287463/149‑1 (MQ=17)                                                             accCGCTGGGCCGCAAGACCCAGTACGAATATCACCACCTGACCACACTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTCGACGACAAGGGCAACCTGCTCGCCGAATTCGATGCCCTCGGCCAGATGAcc                                                                                       <  6:435855/149‑1 (MQ=255)                                                             accCGCTGGGCCGCAAGACCCAGTACGAATATCACCACCTGACCACACTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTCGACGACAAGGGCAACCTGCTCGCCGAATTCGATGCCCTCGGCCAGATGAcc                                                                                       <  5:418221/149‑1 (MQ=255)                                                              cccGCTGGGCCGCAAGACCCAGTACGAATATCACCACCTGACCACACTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTCGACGACAAGGGCAACCTGCTCGCCGAATACGATGCCCTCGGCCAGATGACCg                                                                                      <  1:235574/149‑1 (MQ=255)                                                                 gCTGGGCCGCAAGACCCAGTACGAATATCACCACCTGACCACACTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTCGACGACAAGGGCAACCTGCTCGCCGAATTCGATGCCCTCGGCCAGATGACCGAGt                                                                                   <  5:216163/149‑1 (MQ=255)                                                                 gCTGGGCCGCAAGACCCAGTACGAATATCACCACCTGACCACACTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTCGACGACAAGGGCAACCTGCTCGCCGAATTCGATGCCCTCGGCCAGATGACCGAGt                                                                                   <  8:59365/149‑1 (MQ=255)                                                                        cGCAAGACCCAGTACGAATATCACCACCTGACCACACTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTCGACGACAAGGGCAACCTGCTCGCCGAATTCGATGCCCTCGGCCAGATGACCGAGTACCTGaa                                                                            <  4:365622/149‑1 (MQ=255)                                                                               cccAGTACGAATATCACCACCTGACCACACTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTCGACGACAAGGGCAACCTGCTCGCCGAATTCGATGCCCTCGGCCAGATGACCGAGTACCTGAACAGCGAt                                                                     <  1:328065/149‑1 (MQ=255)                                                                                   gTACGAATATCACCACCTGACCACACTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTCGACGACAAGGGCAACCTGCTCGCCGAATTCGATGCCCTCGGCCAGATGACCGAGTACCTGAACAGCGATGACg                                                                 >  6:314283/1‑149 (MQ=255)                                                                                     aCGAATATCACCACCTGACCACACTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTCTACGACAAGGGCAACCTGCTCGCCGAATTCGATGCCCTCGGCCAGATGACCGAGTACCTGAACAGCGATGACGG‑c                                                              >  6:425872/1‑149 (MQ=255)                                                                                       gAATATCACCACCTGACCACACTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTCGACGACAAGGGCAACCTGCTCGCCGAATTCGATGCCCTCGGCCAGATGACCGAGTACCTGAACAGCGATGACGG‑CCt                                                            >  1:79822/1‑149 (MQ=255)                                                                                              accaccTGACCACACTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTCGACGACAAGGGCAACCTGCTCGCCGAATTCGATGCCCTCGGCCAGATGACCGAGTACCTGAACAGCGATGACGG‑c                                                              >  1:199308/1‑140 (MQ=255)                                                                                              accaccTGACCACACTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTCGACGACAAGGGCAACCTGCTCGCCGAATTCGATGCCCTCGGCCAGATGACCGAGTACCTGAACAGCGATGACGG‑c                                                              <  2:199308/140‑1 (MQ=255)                                                                                                  ccTGACCACACTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTCGACGACAAGGGCAACCTGCTCGCCGAATTCGATGCCCTCGGCCAGATGACCGAGTACCTGAACAGCGATGACGG‑CCTGCCGCACACca                                                 <  7:96731/149‑1 (MQ=255)                                                                                                   cTGACCACACTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTCGACGACAAGGGCAACCTGCTCGCCGAATTCGATGCCCTCGGCCAGATGACCGAGTACCTGAACAGCGATGACGG‑CCTGCCGCACACcat                                                <  6:72666/149‑1 (MQ=255)                                                                                                   cTGACCACACAGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTCGACGACAAGGGCAACCGGCGAGCCGAATTCGATGCCCACGGCCAGATGCCCGAGTACCAGAACAGCGATGACGG‑CCAGCCGCACCCca                                                 >  8:226494/1‑148 (MQ=14)                                                                                                        cacaCTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTATCGACGACAAGGGCAACCTGCTCGCCGAATTCGATGCCCTCGGCCAGATGACCGAGTACCTGAACAGCGATGACGG‑CCTGCCGCACACCatcatc                                            >  1:371697/1‑148 (MQ=255)                                                                                                          cacTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTCGACGACAAGGGCAACCTGCTCGCCGAATTCGATGCCCTCGGCCAGATGACCGAGTACCTGAACAGCGATGACGG‑CCTGCCGCACACCATCATCGa                                          >  8:193371/1‑148 (MQ=40)                                                                                                               gTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTCGACGACAAGGGCAACCTGCTCGCCGAATTCGATGCCCTCGGCCGGATGACCGAGTACCTGAACAGCGATGACGG‑CCTGCCGCACACCATCATCGATGCGa                                     <  5:203774/148‑1 (MQ=255)                                                                                                                    ccAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTCGACGACAAGGGCAACCTGCTCGCCGAATTCGATGCCCTCGGCCAGATGACCGAGTACCTGAACAGCGATGACGG‑CCTGCCGCACACCATCATCGATGCGACCTAc                                >  1:167717/1‑148 (MQ=37)                                                                                                                             cTACCCGGATGGCAGCACTTGGCGAGCGCGTTTCGACGACAAGGGCAACCTGCTCGCCGAATTCGATGCCCTCGGCCAGATGACCGAGTACCTGAACAGCGATGACGGCCCTGCCGCACACCATCATCGATGCGACCCACAAGt                            <  1:65749/144‑1 (MQ=255)                                                                                                                             cTACCCGGATGGCAGCACTTGGCGAGCGCGTTTCGACGACAAGGGCAACCTGCTCGCCGAATTCGATGCCCTCGGCCAGATGACCGAGTACCTGAACAGCGATGACGG‑CCTGCCGCACACCATCATCGATGCGACCTACAAGTCCAAg                       >  4:21667/1‑148 (MQ=37)                                                                                                                             cTACCCGGATGGCAGCACTTGGCGAGCGCGTTTCGACGACAAGGGCAACCTGCTCGCCGAATTCGATGCCCTCGGCCAGATGACCGAGTACCTGAACAGCGATGACGG‑CCTGCCGCACACCATCATCGATGCGACCCACAAGt                            >  2:65749/1‑143 (MQ=37)                                                                                                                                         cagcaCTTGGCGAGCGCGTTTCGACGACAAGGGCAACCTGCTCGCCGAATTCGATGCCCTCGGCCAGATGACCGAGTACCTGAACAGCGATGACGG‑CCTGCCGCACACCATCATCGATGCGACCTACAAGTCCAAGTACCTGtggtgg           >  2:143457/1‑148 (MQ=37)                                                                                                                                          agcaCTTGGCGAGCGCGTTTCGACGACAAGGGCAACCTGCTCGCCGAATTCGATGCCCTCGGCCAGATGACCGAGTACCTGAACAGCGATGACGG‑CCTGCCGCACACCATCATCGATGCGACCTACAAGTCCTAGTACCTGTGGTGGa          <  7:193371/148‑1 (MQ=37)                                                                                                                                          agcaCTTGGCGAGCGCGTTTCGACGACAAGGGCAACCTGCTCGCCGAATTCGATGCCCTCGGCCAGATGACCGAGTACCTGAACAGCGATGACGG‑CCTGCCGCACACCATCATCGATGCGACCTACAAGTCCAAGTACCTGTGGTGGa          >  7:230572/1‑148 (MQ=37)                                                                                                                                            caCTTGGCGAGCGCGTTTCGACGACAAGGGCAACCTGCTCGCCGAATTCGATGCCCTCGGCCAGATGACCGAGTACCTGAACAGCGATGACGG‑CCTGCCGCACACCATCATCGATGCGACCTACAAGTCCAAGTACCTGTGGTGGAaca       <  7:411369/149‑1 (MQ=37)                                                                                                                                                 GGCGAGCGCGTTTCGACGACAAGGGCAACCTGCTCGCCGAATTCGATGCCCTCGGCCAGATGACCGAGTACCTGAACAGCGATGACGG‑CCTGCCGCACACCATCATCGATGCGACCTACAAGTCCAAGTACCTGTGGTGGAACACCCTg  <  1:94149‑M1/149‑1 (MQ=255)                                                                                                                                                 |                                                                                                                                                      CGGACGGTAACCGCCTGCAATTCAAGTACGACGAATTCTCCCGCCTGCTCGAAGAGACCGACCCGCTGGGCCGCAAGACCCAGTACGAATATCACCACCTGACCACACTGGTGACCCAGGTCAGCTACCCGGATGGCAGCACTTGGCGAGCGCGTTTCGACGACAAGGGCAACCTGCTCGCCGAATTCGATGCCCTCGGCCAGATGACCGAGTACCTGAACAGCGATGACGG‑CCTGCCGCACACCATCATCGATGCGACCTACAAGTCCAAGTACCTGTGGTGGAACACCCTG  >  NC_002947/3512945‑3513237

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.