New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	= 370478	67 (1.960)	4 (0.130)	4/252	4.7	6.9%	intergenic (+26/+101)	nanE/USA300HOU_0339	N‑acylglucosamine‑6‑phosphate 2‑epimerase/hypothetical membrane protein
	?	CP000730	= 370534	47 (1.500)					intergenic (+82/+45)	nanE/USA300HOU_0339	N‑acylglucosamine‑6‑phosphate 2‑epimerase/hypothetical membrane protein
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

GCGATAACACGACCAAAAGAAATTACGAAACGTTTTGTTCAAATTATGGAAGATTAAATGATAACGATAAAAAAACGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGATAGTGATTTTATTTTCAACTTTATCCAAAAATAAGTAAAGCGACGGGGATGGTGATTAATAGCGACAACGCCACGCGTAAAAACCAAATGATGATGAGTTTCCAGACAGGTA  >  CP000730/370396‑370670                                                                                                                                           |                                                                                                                                         gCGATAACACGACCAAAAGAAATTACGAAACGGTTTGTTCAAATTATGGAAGATTAAATGATAAAGATAAAAAAACGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTc                                                                                                                                        <  2:246470/141‑1 (MQ=255)     tAACACGACCAAAAGAAATTACGAAACGTTTTGTTCAAATTATGGAAGATTAAATGATAACGATAAAAAAACGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCAtct                                                                                                                                    >  1:65864/1‑141 (MQ=255)     tAACACGACCAAAAGAAATTACGAAACGTTTTGTTCAAATTATGGAAGATTAAATGATAACGATAAAAAAACGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCAtct                                                                                                                                    <  1:316310/141‑1 (MQ=255)      aaCACGACCAAAAGAAATTACGAAACGTTTTGTTCAAATTATGGAAGATTAAATGATAACGATAAAAAAACGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCAtctc                                                                                                                                   >  2:294077/1‑141 (MQ=255)          cGACCAAAAGAAATTACGAAACGTTTTGTTCAAATTATGGAAGATTAAATGATAACGATAAAAAAACGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGttt                                                                                                                               <  2:241231/141‑1 (MQ=255)          cGACCAAAAGAAATTACGAAACGTTTTGTTCAAATTATGGAAGATTAAATGATAACGATAAAAAAACGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGttt                                                                                                                               <  1:332480/141‑1 (MQ=255)          agACCAAAAGAAATTACGAAACGTTTTGTTCAAATTATGGAAGATTAAATGATAACGATAAAAAAACGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGttt                                                                                                                               <  2:206885/140‑1 (MQ=255)           gACCAAAAGAAATTACGAAACGTTTTGTTCAAATTATGGAAGATTAAATGATAACGATAAAAAAACGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGtttt                                                                                                                              >  1:271397/1‑141 (MQ=255)            aCCAAAAGAAATTACGAAACGTTTTGTTCAAATTATGGAAGATTAAATGATAACGATAAAAAAACGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTtttg                                                                                                                             >  1:6531/1‑141 (MQ=255)                    aaaTTACGAAACGTTTTGTTCAAATTATGGAAGATTAAATGATAACGATAAAAAAACGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTa                                                                                                                     >  1:24576/1‑141 (MQ=255)                     aaTTACGAAACGTTTTGTTCAAATTATGGAAGATTAAATGATAACGATAAAAAAACGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTAt                                                                                                                    >  1:59628/1‑141 (MQ=255)                       ttgcGAAACGTTTTGTTCAAATTATGGAAGATTAAATGATAACGATAAAAAAACGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGa                                                                                                                  >  2:3801/4‑141 (MQ=255)                       ttAAGAAACGTTTTGTTCAAATTATGGAAGATTAAAAGATAACGATAAAAAAACGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAAGGGGTTGATCACGTTTTGTTTGCTTATGa                                                                                                                  >  2:57610/1‑141 (MQ=255)                         gcGAAACGTTTTGTTCAAATTATGGAAGATTAAATGATAACGATAAAAAAACGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGATa                                                                                                                <  1:3801/140‑1 (MQ=255)                         aCGAAACGTTTTGTTCAAATTATGGAAGATTAAATGATAACGATAAAAAAACGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGtttttttatcgttatcat                                                                                                                <  2:132504/141‑15 (MQ=255)                           gAAACGTTTTGTTCAAATTATGGAAGATTAAATGATAACGATAAAAAAACGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGATAGt                                                                                                              <  1:28148/141‑1 (MQ=255)                             aaCATTTTGTTCAAATTATGGAAGATTAAATGATAACGATAAAAAAACGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTGATGGGTTCATCTCGTTTTGTTTGTTTATGATAGTgt                                                                                                            <  2:126067/141‑2 (MQ=255)                                gTTTTGTTCAAATTATGGAAGATTAAATGATAACGATAAAAAAACGAGATGACCATCATTAATTAAAGTCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGATAGTGattt                                                                                                         >  2:84922/1‑141 (MQ=255)                                    tGTTCAAATTATGGAAGATTAAATGATAACGATAAAAAAACGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGATAGTGattttatt                                                                                                     >  1:151178/1‑141 (MQ=255)                                      ttCAAATTATGGAAGATTAAATGATAACGATAAAAAAACGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGTATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATTATAGTGattttatttt                                                                                                   >  2:274055/1‑141 (MQ=255)                                       tCAAATTATGGAAGATTAAATGATAACGATAAAAAAACGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGATAGTGATTTTATTTTc                                                                                                  >  2:5890/1‑141 (MQ=255)                                       tCAAATTATGGAAGATTAAATGATAACGATAAAAAAACGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGATAGTGATTTTATTTTc                                                                                                  <  1:5542/141‑1 (MQ=255)                                          aaTTATGGAAGGTTAAATGATAACGATAAAAAAACGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGATATTGATTTTATTTTCAAc                                                                                               <  2:123292/141‑1 (MQ=255)                                          aaTTATGGAAGATTAAATGATAACGATAAAAAAACGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGATAGTGATTTTATTTTCAAc                                                                                               >  1:30065/1‑141 (MQ=255)                                           aTTATGGAAGATTAAATGATAACGATAAAAAAACGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGATAGTGATTTTATTTTCAACt                                                                                              >  1:56142/1‑141 (MQ=255)                                                ggAAGATTAAATGATAACGATAAAAAAACGAGATGACCATCATTAATTAAAGGCACATAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGATAGTGATTTTATTTTaaaaaaaaac                                                                                         <  2:6531/141‑8 (MQ=255)                                                 gAAGATTAAATGATAACGATAAAAAAACGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGATAGTGATTTTATTTTCAACTTTATcc                                                                                        <  2:369715/141‑1 (MQ=255)                                                    gATTAAATGATAACGATAAAAAAACGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGATAGTGATTTTATTTTCAACTTTATCCaaa                                                                                     >  2:291106/1‑141 (MQ=255)                                                        aaaTGATAACGATAAAAAAACGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGATAGTGATTTTATTTTCAACTTTATCCAAAAATa                                                                                 <  2:256339/141‑1 (MQ=255)                                                                 agaaaaaaaaaCGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGATAGTGATTTTATTTTCAACTTTATCCAAAAATAAGTAAAGCg                                                                        <  2:228808/137‑1 (MQ=255)                                                                  gATAAAAAAACGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGATAGTGATTTTATTTTCAACTTTATCCAAAAATAAGTAAAGCGa                                                                       <  1:43929/141‑1 (MQ=255)                                                                     aaaaaaaCGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGATAGTGATTTTATTTTCAACTTTATCCAAAAATAAGTAAAGCGACgg                                                                    >  1:42474/1‑141 (MQ=255)                                                                     aaaaaaaCGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGATAGTGATTTTATTTTCAACTTTATCCAAAAATAAGTAAAGCGACgg                                                                    <  2:341927/141‑1 (MQ=255)                                                                      aaaaaaCGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGATAGTGATTTTATTTTCAACTTTATCCAAAAATAAGTAAAGCGACggg                                                                   <  1:124320/141‑1 (MQ=255)                                                                      aaaaaaCGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGATAGTGATTTTATTTTCAACTTTATCCAAAAATAAGTAAAGCGACggg                                                                   <  1:332150/141‑1 (MQ=255)                                                                      aaaaaaCGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGATAGTGATTTTATTTTCAACTTTATCCAAAAATAAGTAAAGCGACggg                                                                   <  2:320932/141‑1 (MQ=255)                                                                           aCGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGATAGTGATTTTATTTTCAACTTTATCCAAAAATAAGTAAAGCGACGGGGATgg                                                              <  2:238802/141‑1 (MQ=255)                                                                            cGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGATAGTGATTTTATTTTCAACTTTATCCAAAAATAAGTAAAGCGACGGGGATGGt                                                             <  1:148001/141‑1 (MQ=255)                                                                             gagaTGACGATCAGTAATTGAAGGCGTCGAATGAGCTGAGGTGGGTGAATGAAGGTAATGGGTTCATCGCGTTTTGTTTGGTTGTGGTAGTGATTTTATTTTCAACTTTATCCGAAATTAAGTATGGCGACGGGGgtggtg                                                            <  2:189995/141‑1 (MQ=255)                                                                             gagaTGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGATAGTGATTTTATTTTCAACTTTATCCAAAAATAAGTAAAGCGACGGGGATGGTg                                                            <  1:182306/141‑1 (MQ=255)                                                                               gaTGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTGTGATAGTGATTTTATTTTCAACTTTATCCAAAAATAAGTAAAGCGACGGGGATGGTGAt                                                          >  1:149260/1‑141 (MQ=255)                                                                                   aCCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGATAGTGATTTTATTTTCAACTTTATCCAAAAATAAGTAAAGCGACGGGGATGGTGATTAAt                                                      >  1:350337/1‑141 (MQ=255)                                                                                        catTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGATAGTGATTTTATTTTCAACTTTATCCAAAAATAAGTAAAGCGACGGGGATGGTGATTAATAGCGa                                                 <  1:73768/141‑1 (MQ=255)                                                                                           taattaaAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGATAGTGATTTTATTTTCAACTTTATCCAAAAATAAGTAAAGCGACGGGGATGGTGATTAATAGCGACaa                                              >  2:360714/1‑141 (MQ=255)                                                                                             attaaAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGATAGTGATTTTATTTTCAACTTTATCCAAAAATAAGTAAAGCGACGGGGATGGTGATTAATAGCGACAACg                                            >  1:350414/1‑141 (MQ=255)                                                                                                  aGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTtttgtttg                                                                                                                         <  2:197047/59‑1 (MQ=255)                                                                                                  aGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTtttgtttg                                                                                                                         >  1:197047/1‑59 (MQ=255)                                                                                                       ccTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGATAGTGATTTTATTTTCAACTTTATCCAAAAATAAGTAAAGCGACGGGGATGGTGATTAATAGCGACaaaaaaaaaaaaaa                                  <  2:30065/141‑13 (MQ=255)                                                                                                          aaTTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGATAGTGATTTTATTTTCAACTTTATCCAAAAATAAGTAAAGCGACGGGGATGGTGATTAATAGCGACAACGCCACGCGTaaaaa                               <  2:199765/141‑1 (MQ=255)                                                                                                                cTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGATAGTGATTTTATTTTCAACTTTATCCAAAAATAAGTAAAGCGACGGGGATGGTGATTAATAGCGACAACGCCACACGTAAAAACCAAat                         >  1:187620/1‑141 (MQ=255)                                                                                                                     gTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGATAGTGATTTTATTTTCAACTTTATCCAAAAATAAGTAAAGCGACGGGGATGGTGATTAATAGCGACAACGCCACGCGTAAAAACCAAatgatga                    >  2:192288/1‑141 (MQ=255)                                                                                                                         cTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGATAGTGATTTTATTTTCAACTTTATCCAAAAATAAGTAAAGCGACGGGGATGGTGATTAATAGCGACAACGCCACGCGTAAAAACCAAATGATGATGAg                <  1:294077/141‑1 (MQ=255)                                                                                                                         cTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGATAGTGATTTTATTTTCAACTTTATCCAAAAATAAGTAAAGCGACGGGGATGGTGATTAATAGCGACAACGCCACGCGTAAAAACCAAATGATGATGAg                <  1:12594/141‑1 (MQ=255)                                                                                                                                 atgTAATGGGTTCAACTCGTTTTGTTTGTTTATGATAGTGATTTTATTTTCAGCTTTATCTAAAAATAAGTAAAGCGACGGGGATGGTGATTAATAGCGACAAAGCCACGCGTAAAAACCAAATGATGATAAtttttaaga        >  2:107516/1‑136 (MQ=255)                                                                                                                                    tAATGGGTTCATCTCGTTTTGTTTGTTTATGATAGTGATTTTATTTTCAACTTTATCCAAAAATAAGTAAAGCGACGGGGATGGTGATTAATAGCGACAACGCCACGCGTAAAAACCAAATGATGATGAGTTTCCAGACAg     <  2:291784/141‑1 (MQ=255)                                                                                                                                       tGGGTTCATCTCGTTTTGTTTGTTTATGATAGTGATTTTATTTTCAACTTTATCCAAAAATAAGTAAAGCGACGGGGATGGTGATTAATAGCGACAACGCCACGCGTAAAAACCAAATGATGATGAGTTTCCAGACAGGTa  <  2:59628/141‑1 (MQ=255)                                                                                                                                           |                                                                                                                                         GCGATAACACGACCAAAAGAAATTACGAAACGTTTTGTTCAAATTATGGAAGATTAAATGATAACGATAAAAAAACGAGATGACCATCATTAATTAAAGGCACCTAATTATCTTAGGTGGCTGAATGAATGTAATGGGTTCATCTCGTTTTGTTTGTTTATGATAGTGATTTTATTTTCAACTTTATCCAAAAATAAGTAAAGCGACGGGGATGGTGATTAATAGCGACAACGCCACGCGTAAAAACCAAATGATGATGAGTTTCCAGACAGGTA  >  CP000730/370396‑370670

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