New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	671577 =	40 (1.050)	5 (0.140)	5/256	4.4	10.7%	intergenic (+202/‑186)	argS/USA300HOU_0614	arginine‑‑tRNA ligase/deoxyribonuclease (pyrimidine dimer)
	?	CP000730	671629 =	46 (1.280)					intergenic (+254/‑134)	argS/USA300HOU_0614	arginine‑‑tRNA ligase/deoxyribonuclease (pyrimidine dimer)
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

AACACAGTTGGATGCTCTGCACAACTGCATAAGAGAGCCTGAGACATAAATCAATGTTCTATGCTCTACAAAGTTATAATGGCAGTAGTTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAATGCAAGTTGGGGTGGGACGACGAAATAAATTTTACGATAATATCATTTCTGTCCCACTCCCTCTAAAATGGAGGGTGTAAATGTTAG  >  CP000730/671490‑671769                                                                                                                                            |                                                                                                                                             aaCACAGTTGGATGCTCTGCACAACTGCATAAGAGAGCCTGAGACATAAATCAATGTTCTATGCTCTACAAAGTTATAATGGCAGTAGTTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCt                                                                                                                                             >  1:369849/1‑141 (MQ=255)    acaGTTGGATGCTCTGCACAACTGCATAAGAGAGCCTGAGACATAAATCAATGTTCTATGCTCTACAAAGTTATAATGGCAGTAGTTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGc                                                                                                                                          >  2:70353/1‑141 (MQ=255)        ttGGATGCTCTGCACAACTGCATAAGAGAGCCTGAGACATAAATCAATGTTCTATGCTCTACAAAGTTATAATGGCAGTAGTTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCcggc                                                                                                                                      >  1:16515/1‑141 (MQ=255)          ggATGCTCTGCACAACTGCATAAGAGAGCCTGAGACATAAATCAATGTTCTATGCTCTACAAAGTTATAATGGCAGTAGTTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCcggcgg                                                                                                                                    <  1:130245/141‑1 (MQ=255)                tctGCACAACTGCATAAGAGAGCCTGAGACATAAATCAATGTTCTATGCTCTACAAAGTTATAATGGCAGTAGTTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGcccc                                                                                                                              <  1:70353/141‑1 (MQ=255)                    cacaACTGCATAAGAGAGCCTGAGACATAAATCAATGTTCTATGCTCTACAAAGTTATAATGGCAGTAGTTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCcaaca                                                                                                                          >  2:151561/1‑141 (MQ=255)                    cacaACTGCATAAGAGAGCCTGAGACATAAATCAATGTTCTATGCTCTACAAAGTTATAATGGCAGTAGTTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCcaaca                                                                                                                          <  1:153502/141‑1 (MQ=255)                    cacaACTGCATAAGAGAGCCTGAGACATAAATCAATGTTCTATGCTCTACAAAGTTATAATGGCAGTAGTTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGACGGCGGGGCCCcaaca                                                                                                                          >  2:151507/1‑141 (MQ=255)                       aaCTGCATAAGAGAGCCTGAGACATAAATCAATGTTCTATGCTCTACAAAGTTATAATGGCAGTAGTTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAag                                                                                                                       >  1:104576/1‑141 (MQ=255)                            cATAAGAGAGCCTGAGACATAAATCAATGTTCTATGCTCTACAAAGTTATAATGGCAGTAGTTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGaaa                                                                                                                  >  2:124249/1‑141 (MQ=255)                                agagagCCTGAGACATAAATCAATGTTCTATGCTCTACAAAGTTATAATGGCAGTAGTTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTgg                                                                                                              >  1:385574/1‑141 (MQ=255)                                   gagCCTGAGACATAAATCAATGTTCTATGCTCTACAAAGTTATAATGGCAGTAGTTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGAtt                                                                                                           <  1:80601/141‑1 (MQ=255)                                          agaCATAAATCAATGTTCTATGCTCTACAAAGTTATAATGGCAGTAGTTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAAtt                                                                                                    >  2:232708/1‑141 (MQ=39)                                           gaCATAAATCAATGTTCTATGCTCTACAAAGTTATAATGGCAGTAGTTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAAttt                                                                                                   >  2:195687/1‑141 (MQ=39)                                            aCATAAATCAATGTTCTATGCTCTACAAAGTTATAATGGCAGTAGTTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTc                                                                                                  <  2:420831/141‑1 (MQ=38)                                                 aaTCAATGTTCTATGCTCTACAAAGTTATAATGGCAGTAGTTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAg                                                                                             >  1:299527/1‑141 (MQ=39)                                                      aTGTTCTATGCTCTACAAAGTTATAATGGCAGTAGTTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAAt                                                                                        >  1:412779/1‑141 (MQ=39)                                                       tGTTCTATGCTCTACAAAGTTATAATGGCAGTAGTTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAATg                                                                                       <  2:27701/141‑1 (MQ=37)                                                          tCTATGCTCTACAAAGTTATAATGGCAGTAGTTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGGAATTGGATTCCCAATTTCTACAGACAATGCaa                                                                                    <  2:103963/141‑1 (MQ=38)                                                           cTATGCTCTACAAAGTTATAATGGCAGTAGTTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAATGCAAg                                                                                   <  1:277998/141‑1 (MQ=38)                                                                  ctACAAAGTTATAATGGCAGTAGTTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAATGCAAGTTGGGGt                                                                            >  1:34308/1‑141 (MQ=35)                                                                          ttATAATGGCAGTAGTTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTTTTTTTTTTTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCAACAGACAATGCAAGTTGGGGTGGgacgac                                                                    >  2:412472/1‑141 (MQ=11)                                                                            ataATGGCAGTAGTTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTTTTTTTTTTTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAATCCAAGTTGGGGTGGGAcgacga                                                                  >  2:212816/1‑141 (MQ=11)                                                                            ataATGGCAGTAGTTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAATGCAAGTTGGGGTGGGAcgacga                                                                  >  1:281918/1‑141 (MQ=35)                                                                               aTGGCAGTAGTTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAATGCAAGTTGGGGTGGGACGACGaaat                                                               >  1:49890/1‑141 (MQ=33)                                                                               aTGGCAGTAGTTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAATGCAAGTTGGGGTGGGACGACGaaat                                                               >  1:110222/1‑141 (MQ=33)                                                                                tGGCAGTAGTTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAATGCAAGTTGGGGTGGGACGACGaaata                                                              <  1:379545/141‑1 (MQ=32)                                                                                     gtagtTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAATGCAAGTTGGGGTGGGACGACGaaa                                                                >  2:86347/1‑134 (MQ=33)                                                                                     gtagtTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAATGCAAGTTGGGGTGGGACGACGaaa                                                                <  1:86347/134‑1 (MQ=33)                                                                                     gtagtTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCCAAAAACGCCAAATTCAAAAAACACTTTATACAGCCACTGAAAGTTGGGGTGGGACGACGAAATAAAttt                                                         >  1:263858/1‑141 (MQ=11)                                                                                         ttGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAATGCAAGTTGGGGTGGGACGACGAAATAAATTTTACg                                                     >  2:135330/1‑141 (MQ=34)                                                                                           gACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAATGCAAGTTGGGGTGGGACGACGAAATAAATTTTACGat                                                   >  2:155461/1‑141 (MQ=35)                                                                                                aaCGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAATGCAAGTTGGGGTGGGACGACGAAATAAATTTTACGATAatat                                              <  1:135182/141‑1 (MQ=39)                                                                                                          cGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAATGTAAGTTGGGGTGGGACGACGAAATAAATTTTACGATAATATCATTTCTGTc                                    <  2:369849/141‑1 (MQ=255)                                                                                                            cTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAATGCAAGTTGGGGTGGGACGACGAAATAAATTTTACGATAATATCATTTCTGTccc                                  >  1:5024/1‑141 (MQ=39)                                                                                                                    aaGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAATGCAAGTTGGGGTGGGACGACGAAATAAATTTTACGATAATATCATTTCTGTCCCACTCCctc                          <  1:206110/141‑1 (MQ=40)                                                                                                                     aGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACGATGCAAGTTGGGGTGGGACGACGAAATAAATTTTACGATAATATCATTTCTGTCCCACTCCctct                         <  1:124249/141‑1 (MQ=255)                                                                                                                     aGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAATGCAAGTTGGGGTGGGACGACGAAATAAATTTTACGATAATATCATTTCTGTCCCACTCCctct                         <  1:262997/141‑1 (MQ=255)                                                                                                                      gCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAATGCAAGTTGGGGTGGGACGACGAAATAAATTTTACGATAATATCATTTCTGTCCCACTCCCTCTa                        <  2:49890/141‑1 (MQ=255)                                                                                                                              cAATTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAATGCAAGTTGGGGTGGGACGACGAAATAAATTTTACGATAATATCATTTCTGTCCCACTCCCTCTAAAATGGAg                >  1:11441/1‑141 (MQ=255)                                                                                                                                aTTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAATGCAAGTTGGGGTGGGACGACGAAATAAATTTTACGATAATATCATTTCTGTCCCACTCCCTCTAAAATGGAggg              >  1:77285/1‑141 (MQ=255)                                                                                                                                aTTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAATGCAAGTTGGGGTGGGACGACGAAATAAATTTTACGATAATATCATTTCTGTCCCACTCCCTCTAAAATGGAggg              <  1:167986/141‑1 (MQ=255)                                                                                                                                 ttCTAGTCAACCTTGCCGTCGGGGCCCTAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAAAGCAAGTTGGGGTGGGACGACGAAATAAATTTTACGATAATATCATTTCTGTCCCACTCCCTCTAAAATGGAGGgt             <  2:29500/141‑1 (MQ=255)                                                                                                                                  tCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAATGCAAGTTGGGGTGGGACGACGAAATAAATTTTACGATAATATCATTTCTGTCCCACTCCCTCTAAAATGGAGGgtg            <  2:281918/141‑1 (MQ=255)                                                                                                                                  tCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAATGCAAGTTGGGGTGGGACGACGAAATAAATTTTACGATAATATCATTTCTGTCCCACTCCCTCTAAAATGGAGGgtg            <  1:232708/141‑1 (MQ=255)                                                                                                                                   cTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAATGCAAGTTGGGGTGGGACGACGAAATAAATTTTACGATAATATCATTTCTGTCCCACTCCCTCTAAAATGGAGGgtgt           <  1:427018/141‑1 (MQ=255)                                                                                                                                     aGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAATGCAAGTTGGGGTGGGACGACGAAATAAATTTTACGATAATATCATTTCTGTCCCACTCCCTCTAAAATGGAGGGTGTaa         >  2:83829/1‑141 (MQ=255)                                                                                                                                      ctCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAATGCAAGTTGGGGTGGGACGACGAAATAAATTTTACGATAATATCATTTCTGTCCCACTCCCTCTAAAATGGAGGGTGTaaa        >  1:341113/2‑141 (MQ=255)                                                                                                                                        cAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAATGCAAGTTGGGGTGGGACGACGAAATAAATTTTACGATAATATCATTTCTGTCCCACTCCCTCTAAAATGGAGGGTGTAAATg      <  2:346098/141‑1 (MQ=255)                                                                                                                                          aCCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAATGCAAGTTGGGGTGGGACGACGAAATAAATTTTACGATAATATCATTTCTGTCCCACTCCCTCTAAAATGGAGGGTGTAAATGtt    <  2:58455/141‑1 (MQ=255)                                                                                                                                            cTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAATGCAAGTTGGGGTGGGACGACGAAATAAATTTTACGATAATATCATTTCTGTCCCACTCCCTCTAAAATGGAGGGTGTAAATGTTAg  <  1:103328/141‑1 (MQ=255)                                                                                                                                            |                                                                                                                                             AACACAGTTGGATGCTCTGCACAACTGCATAAGAGAGCCTGAGACATAAATCAATGTTCTATGCTCTACAAAGTTATAATGGCAGTAGTTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAATGCAAGTTGGGGTGGGACGACGAAATAAATTTTACGATAATATCATTTCTGTCCCACTCCCTCTAAAATGGAGGGTGTAAATGTTAG  >  CP000730/671490‑671769

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ 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.