New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	671622 =	47 (1.240)	5 (0.140)	5/256	4.4	9.8%	intergenic (+247/‑141)	argS/USA300HOU_0614	arginine‑‑tRNA ligase/deoxyribonuclease (pyrimidine dimer)
	?	CP000730	= 1072271	47 (1.300)					intergenic (‑743/+62)	iraE/folD	possible chitinase/bifunctional methylenetetrahydrofolate dehydrogenase (NADP(+))/methenyltetrahydrofolate cyclohydrolase
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

AAGAGGAACACAGTTGGATGCTCTGCACAACTGCATAAGAGAGCCTGAGACATAAATCAATGTTCTATGCTCTACAAAGTTATAATGGCAGTAGTTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAATGCAAGTTGGGGTGGGACGACGAAATAAATTTTACGATAATATCATTTCTGTCCCACTCCCTCTAAAATGGAGGGTGTAA  >  CP000730/671484‑671762                                                                                                                                           |                                                                                                                                             aaGAGGAACACAGTTGGATGCTCTGCACAACTGCATAAGAGAGCCTGAGACATAAATCAATGTTCTATGCTCTACAAAGTTATAATGGCAGTAGTTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGt                                                                                                                                            >  1:197325/1‑141 (MQ=255)       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                                                         <  1:86347/134‑1 (MQ=33)                                                                                           gtagtTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAATGCAAGTTGGGGTGGGACGACGaaa                                                         >  2:86347/1‑134 (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)                                                                                                                                           |                                                                                                                                             AAGAGGAACACAGTTGGATGCTCTGCACAACTGCATAAGAGAGCCTGAGACATAAATCAATGTTCTATGCTCTACAAAGTTATAATGGCAGTAGTTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGCGGGGCCCCAACAAAGAGAAATTGGATTCCCAATTTCTACAGACAATGCAAGTTGGGGTGGGACGACGAAATAAATTTTACGATAATATCATTTCTGTCCCACTCCCTCTAAAATGGAGGGTGTAA  >  CP000730/671484‑671762

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.