New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 3110452	43 (0.950)	4 (0.090)	3/260	NT	8.8%	intergenic (+11/+138)	pheV/yghD	tRNA‑Phe/putative type II secretion system M‑type protein
	?	NC_000913	= 3110475	41 (0.920)					intergenic (+34/+115)	pheV/yghD	tRNA‑Phe/putative type II secretion system M‑type protein

GAGGCGAATCAGGTTTAATGCGCCCCGTTGCCCGGATAGCTCAGTCGGTAGAGCAGGGGATTGAAAATCCCCGTGTCCTTGGTTCGATTCCGAGTCCGGGCACCACTAATTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACGAAAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACGAGAGTAATTTTATTGATATTAATCTCCTGATACTTTACCCCCGTCCAAACTCCAGCCGCTG  >  NC_000913/3110337‑3110616                                                                                                                                           |                                                                                                                                              gagGCTAAGCAGGTTTAATGCGCCCCGTTGCCCGGATAGCTCAGTCGGTAGAGCAGGGGATTGAAAATCCCCGTGTCCTTGGTTCGATTCCGAGTCCGGGCACCACTAATTCTTAAGATCCCGCCCACAAGGCGGGTTTTTGc                                                                                                                                           <  1:852472/143‑1 (MQ=255)         tCAGGTTTAATGCGCCCCGTTGCCCGGATAGCTCAGTCGGTAGAGCAGGGGATTGAAAATCCCCGTGTCCTTGGTTCGATTCCGAGTCCGGGCACCACTAATTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCttt                                                                                                                                        >  2:663671/1‑138 (MQ=255)         tCAGGTTTAATGCGCCCCGTTGCCCGGATAGCTCAGTCGGTAGAGCAGGGGATTGAAAATCCCCGTGTCCTTGGTTCGATTCCGAGTCCGGGCACCACTAATTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCttt                                                                                                                                        <  1:663671/138‑1 (MQ=255)           aGGTTTAATGCGCCCCGTTGCCCGGATAGCTCAGTCGGTAGAGCAGGGGATTGAAAATCCCCGTGTCCTTGGTTCGATTCCGAGTCCGGGCACCACTAATTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTCGATCt                                                                                                                                 >  2:65455/1‑143 (MQ=255)             ggttAATGCGGCCCGTTGCCCGGATAGCTCAGTCGGTAGAGCAGGGGATTGAAAATCCCCGTGTCCTTGGTTCGATTCCGAGTCCGGGCACCACTAATTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGa                                                                                                                               <  2:265991/141‑1 (MQ=255)             gTTTAATGCGCTCCGTTGCCCGGATAGCTCAGTCGGTAGAGCAGGGGATTGAAAATCCCCGTGTCCTTGGTTCGATTCCGAGTCCGGGCACCACTAATTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGa                                                                                                                               <  1:864386/143‑1 (MQ=255)             gTTTAATGCGCCCCGTTGCCCGGATAGCTCAGTCGGTAGAGCAGGGGATTGAAGATCCCCGTGTCCTTGGTTCGATTCCGAGTCCGGGCACCACTAATTCTTAAGAACCCGCCCACAAGGCGGGCTCCTGCGTTTGGATCTGa                                                                                                                               >  2:580943/1‑143 (MQ=18)             gTTTAATGCGCCCCGTTGCCCGGATAGCTCAGTCGGTAGAGCAGGGGATTGAAAATCCCCGTGTCCTTGGTTCGATTCCGAGTCCGGGCACCACTAATTCTTCAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGa                                                                                                                               >  1:604756/1‑143 (MQ=255)              tttAATGCGCCCCGTTGCGCGGATAGCGCAGTCGGTAGAGCAGGGGGTTGAAAATCGCCGTGTCCTTGGTTCGATTCCGAGTCGGGGCACCACTAATTCTTAAGACCCCGCCCACACGGCGGGTTTTTGCTTTTGGATCTGAc                                                                                                                              >  2:520256/1‑143 (MQ=21)                 aaTGCGCCCCGTTGCCCGGATAGCTCAGTCGGTAGAGCAGGGGATTGAAAATCCCCGTGTCCTTGGTTCGATTCCGAGTCCGGGCACCACTAATTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACact                                                                                                                           >  1:800366/1‑141 (MQ=255)                   gtccgcccGTCGCCCTCATAGCTCAGTCGGTAGAGCAGGGGATTGAAAACCCCCGTGTCCGTGGTTCGACGCCGAGTCCGGGCACCACTAATTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATaa                                                                                                                         <  2:26944/138‑1 (MQ=25)                       ccccGTTGCCCGGATAGCTCAGTCGGTAGAGCAGGGGATTGAAAATCCCCGTGTCCTTGGTTCGATTCCGAGTCCGGGCACCACTAATTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGCTCTGACAATAACCtt                                                                                                                     >  1:314707/1‑143 (MQ=255)                         ccGTTGCCCGGATAGCTCAGTCGGTAGAGCAGGGGATTGAAAATCCCCGTGTCCTTGGTTCGATTCCGAGTCCGGGCACCACTAATTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGCCAATCACCTTCa                                                                                                                   >  1:703064/1‑143 (MQ=255)                          cGTTGCCCGGATAGCTCAGTCGGTAGAGCAGGGGATTGAAAATCCCCGTGTCCTTGGTTCGATTCCGAGTCCGGGCACCACTAATTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCAc                                                                                                                  <  2:783571/143‑1 (MQ=255)                                      aGCTCAGTCGGTAGAGCAGGGGATTGAAAATCCCCGTGTCCTTGGTTCGATTCCGAGTCCGGGCACCACTAATTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACGAAAAAAATTAg                                                                                                      <  1:394568/143‑1 (MQ=255)                                      aGCTCAGTCGGTAGAGCAGGGGATTGAAAATCCCCGTGTCCTTGGTTCGATTCCGAGTCCGGGCACCACTAATTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACGAAAAAAATTAg                                                                                                      <  1:123136/143‑1 (MQ=255)                                       gcgcAGTCGGTAGAGCAGGGGATTGAAAATCCCCGTGTCCTTGGTTCGATTCCGAGTCCGGGCACCACTAATTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACGAAAAAAATTAGc                                                                                                     <  1:787581/140‑1 (MQ=255)                                        cTCAGTCGGTAGAGCAGGGGATTGAAAATCCCCGTGTCCTTGGTTCGATTCCGAGTCCGGGCCCCACTAAGTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATCACCTTAACGAAAACAATTAGCt                                                                                                    >  1:141169/1‑143 (MQ=25)                                                gTAGAGCAGGGGATTGAAAATCCCCGTGTCCTTGGTTCGATTCCGAGTCCGGGCACCACTAATTCTTAAGAGCCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACGAAAAAAATTAGCTTATAAAGt                                                                                            <  2:576577/143‑1 (MQ=255)                                                     gCAGGGGATTGAAAATCCCCGTGTCCTTGGTTCGATTCCGAGTCCGGGCACCACTAATTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCCCGAAAAAAATTAGCTTATAAAGTCTggg                                                                                       >  2:851151/1‑143 (MQ=255)                                                      cAGGGGATTGAAAATCCCCGTGTCCTTGGTTCGATTCCGAGTCCGGGCACCACTAATTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACGAAAAAAATTAGCTTATAAAGTCTgggg                                                                                      >  1:490179/1‑143 (MQ=255)                                                        ggggATTGAAAATCCCCGTGTCCTTGGTTCGATTCCGAGTCCGGGCACCACTAATTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACGAAAAAAATTAGCTTATAAAGTCTGGGGGa                                                                                    <  1:819735/143‑1 (MQ=255)                                                                   aTCCCCGTGTCCTTGGTTCGATTCCGAGTCCGGGCACCACTAATTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACGAAAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGc                                                                         <  1:571858/143‑1 (MQ=255)                                                                           gtCCTTGGTTCGATTCCGAGTCCGGGCACCACTAATTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACGAAAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACTTTac                                                                 >  1:381566/1‑142 (MQ=255)                                                                            tCCTGGGTTCGATTCCGAGCCCGGGCACCACTAATTCTTAAGACCCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACGAAAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAAc                                                                <  1:671297/143‑1 (MQ=255)                                                                               ttGGTTCGATTCCGAGTCCGGGCACCCCTAATTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGAAACTGCTGGGCGCGAGTGAAATTAGCTTATCAAGTCTGGGGGAATTACTCTCGCCACGTTAACgag                                                             >  1:888389/1‑143 (MQ=255)                                                                               ttGGTTCGATTCCGAGTCCGGGCACCACTAATTCTTAAGAACCCGCCCACAAGGCGGTGTTGTGCTTTTGGATCTGACAATAACCTTCACGAAAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTGGCCACGTTAACgag                                                             >  1:82358/1‑143 (MQ=255)                                                                               ttGGTTCGATTCCGAGGCAGGGCACCACTAATTCTTAAGAACCCGCCCACAAGGCGGGTTGTTGCTTTTGGATCTGACAATAACCTTCACGAAAAAAATAAGCTTATAAAGACTGGGGGAATTCCCCTCGGCACGTTACCgag                                                             >  2:503123/1‑143 (MQ=255)                                                                                tGGTGCGACCCCTAGCCCGGGCACGACTAATGCGTAAGAACCCCCCCACAAGGCGGGTTGTTGCTGTTGGATCTGACAATAACCTTCACGAAAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACgaga                                                            <  1:365857/143‑1 (MQ=255)                                                                                tGGATCGATCCCGAGTCCGGGCACCACTAATTCTGAAGAACCCGCCCAGAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACGAAAAAAACTAGCCTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACgaga                                                            <  2:895894/143‑1 (MQ=255)                                                                                   ttCGATTCCGAGTCCGGGCACCACTAATTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACGAAAACAATTAGCTTATACAGTCTGGGGGAATTACTCTCGCCACGTTAACgacggga                                                         >  1:71850/1‑138 (MQ=255)                                                                                                  gggCACCACTAATTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACGAAAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACGAGAGTAATTTTATTGATATTa                                          >  1:858336/1‑143 (MQ=255)                                                                                                  gggCACCACTAATTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTACACGAACAAAATTAGCTTATAAAGTCTGGGGGAATTACACACGCCACGTTAACGAGAGTAATTTTATTGatctca                                          >  2:197531/1‑139 (MQ=255)                                                                                                      accacTAATTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACGAAAAAAATTAGCTTATGAGGTCTGGGGGAATTACTCGCGCCACGTTAACGAGAGTAATTTTATTGATACTAAtct                                      >  2:127111/1‑143 (MQ=255)                                                                                                        cacTAATTCTTAAGACCCCCCCGACTTGGTGTTTTGCAGCTAGTGTATCTGACAATAACCTTCACAAAACAAATTAGCTTATAAAGTCTGGGGGTGTTTCTCTCGCCACGCTAACGAGCGAAATTTTATTGAGATTAATCTcc                                    >  2:401633/1‑143 (MQ=255)                                                                                                          cTAATTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACGAAAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACGAGAGTAATTTTATTGATATTAATCTCCTg                                  >  1:823970/1‑143 (MQ=255)                                                                                                           tAATTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACGAAAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACGAGAGTAATTGTATTAAGATTAATCTCCGGa                                 >  2:713641/1‑143 (MQ=255)                                                                                                              ttCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACGAAAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACGAGAGTAATATTATTGATATTAATCTCCTGATAc                              >  1:805978/1‑143 (MQ=255)                                                                                                               tCTTAAGAACCCGCCCACAAGGCGGGTTTttaagaattagtggtgcccggcctcttaatcgaaccaatgacccggggaatctcaataccctactctaccgactgaactatccgggcaacggcgcgcactaaacatgattcgcc                             <  1:624169‑M2/143‑115 (MQ=255)                                                                                                               tCTTAAGAACCCGCCCACAAGGCGGGTTTttaagaattagtggtgcccggactcggaatcgaaccaaggacacggggattttcaatcccctg                                                                                >  1:272076‑M2/1‑29 (MQ=255)                                                                                                               tCTTAAGAACCCGCCCACAAGGCGGGTTTttaagaattagtggtgcccggactcggaatcgaaccaaggacacggggattttcaatcccctg                                                                                <  2:272076‑M2/92‑64 (MQ=255)                                                                                                               tCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACGACAAAAATTAGCTTATAAAGTCTGGGGGCATTACTCTCGCCACGTTAACGAGAGTACTTTTATGAATATTAATCCCCTgttcct                             >  2:721864/1‑138 (MQ=255)                                                                                                                 ttAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACGAAAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACGAGAGTAATTTTATTGATATTAATCTCCTGATACttt                           >  1:87992/1‑143 (MQ=255)                                                                                                                                gggggcggGTTTttaagcagtaggggtgcccggactcggaatcgaaccaaggacacggggattttcaatcccctgctctaccgactgagctatccgggcaacggggcgcattaaacctgattcgcctcgtctcgtcaatcaaa            >  1:394531‑M2/4‑12 (MQ=255)                                                                                                                                   ggCGGGTTTTTGCTTGTGGATCTGTCAATAACCTTCACGAAAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACGAGAGTAATTTTATTGATATTAATCTCCTGATACTTTA‑CCCCGTCCAAACTCCAg        <  2:6549/143‑1 (MQ=255)                                                                                                                                    gCGGGTTTTTGCTTTTTGAGCTGACAATGACCTTCACGCAAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACGAGAGTAATTTTATTGATATTAATCTCCTGATACTTTACCCCCGTCCAAACTCCAg        <  2:394531/143‑1 (MQ=255)                                                                                                                                     cGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACGAAAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACGAGAGTAATTTTATTGATATTAATCTCCTGATACTTTACCCCCGTCCAAACTCCAGc       <  1:476281/143‑1 (MQ=255)                                                                                                                                     cGGGTTTTTGCCTTTGGATCGGACAATAACCTTCACGAAAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACGAGAGTAATTTTATTGATATTAATCTCCTGATACTTTACCCCCGTCCAAACTCCAGc       <  1:182516/143‑1 (MQ=255)                                                                                                                                          ttttGTTTCTTGCTCTGTCAATAACTTTCACTGAAACAATCAGCTTATAACGTCTGGGTGCACTACCTTCCCCACGTTAGCGAGAGTAATTTTATTGATATTCATCTCCTGATACTTTACCCCCGTCCAAACTCCAGCCGCTg  <  2:485370/143‑1 (MQ=255)                                                                                                                                          ttttGCTTTTGGATCTGACAATAACCTTCACGAAAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACGAGAGTAATTTTATTGATATTAATCTCCTGATACTTTACCCCCGTCCAAACTCCAGCCGCTg  <  1:21177/143‑1 (MQ=255)                                                                                                                                          ttttGCTTTTGGATCTGACAATAACCTTCACGAAAAAAATGAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACGAGAGTAATTTTATTGATATTAATCTCCTGATACTTTACCCCCGTCCAAACTCCAGCCGCTg  <  2:687614/143‑1 (MQ=255)                                                                                                                                           |                                                                                                                                              GAGGCGAATCAGGTTTAATGCGCCCCGTTGCCCGGATAGCTCAGTCGGTAGAGCAGGGGATTGAAAATCCCCGTGTCCTTGGTTCGATTCCGAGTCCGGGCACCACTAATTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACGAAAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACGAGAGTAATTTTATTGATATTAATCTCCTGATACTTTACCCCCGTCCAAACTCCAGCCGCTG  >  NC_000913/3110337‑3110616

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ 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.