New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	= 558706	39 (1.040)	11 (0.320)	6/256	4.3	21.2%	intergenic (+95/‑5)	rrs2/USA300HOU_t0012	16S ribosomal RNA/tRNA‑Ile
	?	CP000730	2001806 =	46 (1.330)					intergenic (‑29/+68)	USA300HOU_t0052/rrs3	tRNA‑Ile/16S ribosomal RNA
Rejected: Coverage evenness skew score above cutoff.

AGCTGAGCTAAGCCCCCAAATAGGTATTAAATTAATGGTGGGCCTAAGTGGACTCGAACCACCGACCTCACGCTTATCAGGCGTGCGCTCTAACCAGCTGAGCTATAGGCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTGAAGAAGATGTTCCGAATATATCCTTAGAAAGGAGGTGATCCAGCCGCACCTTCCGATACGGCTACCTTGTTACGACTTCACCCCAATCATT  >  CP000730/2001666‑2001932                                                                                                                                             |                                                                                                                               aGCTGAGCTAAGCCCCCAAATAGGTATTAAATTAATGGTGGGCCTAAGTGGACTCGAACCACCGACCTCACGCTTATCAGGCGTGCGCTCTAACCAGCTGAGCTATAGGCCCATTAATTTGAATGAACAAACATTCAAAAc                                                                                                                                <  1:257154/141‑1 (MQ=255)  gCTGAGCTAAGCCCCCAAATAGGTATTAAATTAATGGTGGGCCTAAGTGGACTCGAACCACCGACCTCACGCTTATCAGGCGTGCGCTCTAACCAGCTGAGCTATAGGCCCATTAATTTGAATGAACAAACATTCAAAACt                                                                                                                               >  2:386552/1‑141 (MQ=255)              ccccAAATAGGTATTAAATTAATGGTGGGCCTAAGTGGACTCGAACCACCGACCTCACGCTTATCAGGCGTGCGCTCTAACCAGCTGAGCTATAGGCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATg                                                                                                                   >  2:160848/1‑141 (MQ=255)                        gTATTAAATTAATGGTGGGCCTAAGTGGACTCGAACCACCGACCTCACGCTTATCAGGCGTGCGCTCTAACCAGCTGAGCTATAGGCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTAtt                                                                                                         <  2:138636/141‑1 (MQ=255)                         tATTAAATTAATGGTGGGCCTAAGTGGACTCGAACCACCGACCTCACGCTTATCAGGCGTGCGCTCTAACCAGCTGAGCTATAGGCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTc                                                                                                        >  1:35380/1‑141 (MQ=255)                          attaaattaaTGGTGGGCCTAAGTGGCCTCGAACCACCGACCTCACGCTTATCAGGCGTGCGCTCTAACCAGCTGAGCTATAGGCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTcc                                                                                                       <  2:100930/141‑1 (MQ=255)                                  aaTGGTGGGCCTAAGTGGACTCGAACCACCGACCTCACGCTTATCAGGCGTGCGCTCTAACCAGCTGAGCTATAGGCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCAtcttc                                                                                               <  1:167765/141‑1 (MQ=255)                                     ggtggGCCTAAGTGGACTCGAACCACCGACCTCACGCTTATCAGGCGTGCGCTCTAACCAGCTGAGCTATAGGCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCAtcttcttc                                                                                            <  1:273102/141‑3 (MQ=255)                                        gggCCTAAGTGGACTCGAACCACCGACCTCACGCTTATCAGGCGTGCGCTCTAACCAGCTGAGCTATAGGCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTgaaga                                                                                         <  1:109027/141‑1 (MQ=255)                                        gggCCTAAGTGGACTCGAACCACCGACCTCACGCTTATCAGGCGTGCGCTCTAACCAGCTGAGCTATAGGCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTgaaga                                                                                         >  2:377511/1‑141 (MQ=255)                                        gggCCTAAGTGGACTCGAACCACCGACCTCACGCTTATCAGGCGTGCGCTCTAACCAGCTGAGCTATAGGCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTgaaga                                                                                         <  1:316132/141‑1 (MQ=255)                                             tAAGTGGACTCGAACCACCGACCTCACGCTTATCAGGCGTGCGCTCTAACCAGCTGAGCTATAGGCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTGAAGAAGATg                                                                                    >  2:58661/1‑141 (MQ=255)                                                     cTCGAACCACCGACCTCACGCTTATCAGGCGTGCGCTCTAACCAGCTGAGCTATAGGCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTGAAGAAGATGTTCCGAat                                                                            >  1:409169/1‑141 (MQ=255)                                                     cTCGAACCACCGACCTCACGCTTATCAGGCGTGCGCTCTAACCAGCTGAGCTATAGGCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTGAAGAAGATGTTCCGAat                                                                            >  1:409891/1‑141 (MQ=255)                                                            caccGACCTCACGCTTATCAGGCGTGCGCACTAACCAGCTGAGCTATAGGCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTGAAGAAGATGTTCCGAATATATCCt                                                                     <  1:88610/141‑1 (MQ=255)                                                             accGACCTCACGCTTATCAGGCGTGCGCTCTAACCAGCTGAGCTATAGGCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTGAAGAAGATGTTCCGAATATATCCtt                                                                    <  1:400737/141‑1 (MQ=255)                                                                 aCCTCACGCTTATCAGGCGTGCGCTCTAACCAGCTGAGCTATAGGCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTGAAGAAGATGTTCCGAATATATCCTTAGaa                                                                >  2:89054/1‑141 (MQ=255)                                                                 aCCTCACGCTTATCAGGCGTGCGCTCTAACCAGCTGAGCTATAGGCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTGAAGAAGATGTTCCGAATATATCCTTAGaa                                                                >  2:223070/1‑141 (MQ=255)                                                                 aCCTCACGCTTATCAGGCGTGCGCTCTAACCAGCTGAGCTATAGGCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTGAAGAAGATGTTCCGAATATATCCTTAGaa                                                                >  1:74170/1‑141 (MQ=255)                                                                     cACGCTTATCAGGCGTGCGCTCTAACCAGCTGAGCTATAGGCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTGAAGAAGATGTTCCGAATATATCCTTAGAAagga                                                            >  2:190332/1‑141 (MQ=255)                                                                      aCGCTTATCAGGCGTGCGCTCTAACCAGCTGAGCTATAGGCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTGAAGAAGATGTTCCGAATATATCCTTAGAAaggag                                                           >  2:295258/1‑141 (MQ=255)                                                                        gCTTATCAGGCGTGCGCTCTAACCAGCTGAGCTATAGGCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTGAAGAAGATGTTCCGAATATATCCTTAGAAAGGAGGt                                                         >  1:128546/1‑141 (MQ=255)                                                                         cctgataagCGTGCGCTCTAACCAGCTGAGCTATAGGCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTga                                                                                            <  1:1305/97‑1 (MQ=255)                                                                         cctgataagCGTGCGCTCTAACCAGCTGAGCTATAGGCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTga                                                                                            >  2:1305/9‑105 (MQ=255)                                                                            aTCATGCGTGCGCACGAACCAGCTCAGCTATAGGCGAATTAATTTGAATGAACAAACATTCAAAACGGAATACAATATGTCACGTTATTCCGCATCTTCTGAAGAAGATGTTCCGAATATATCCTTAGAAAGGAGGTGATc                                                     >  2:377383/1‑141 (MQ=14)                                                                             tCAGGCGTGCGCTCTAACCAGCTGAGCTATAGGCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTGAAGAAGATGTTCCGAATATATCCTTAGAAAGGAGGTGATcc                                                    >  1:412532/1‑141 (MQ=255)                                                                                 gCGTGCGCTCTAACCAGCTGAGCTATAGGCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTGAAGAAGATGTTCCGAATATATCCTTAGAAAGGAGGTGATCCAGcc                                                >  2:171504/1‑141 (MQ=255)                                                                                                aGCTGAGCTATAGGCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTGAAGAAGATGTTCCGAATATATCCTTAGAAAGGAGGTGATCCAGCCGCACCTTCCGATACg                                 >  2:111539/1‑141 (MQ=255)                                                                                                aGCTGAGCTATAGGCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTGAAGAAGATGTTCCGAATATATCCTTAGAAAGGAGGTGATCCAGCCGCACCTTCCGATACg                                 >  1:110468/1‑141 (MQ=255)                                                                                                   tGAGCTATAGGCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTGAAGAAGATGTTCCGAATATATCCTTAGAAAGGAGGTGATCCAGCCGCACCTTCCGATACGGCt                              <  2:128546/141‑1 (MQ=255)                                                                                                     aGCTATAGGCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTGAAGAAGATGTTCCGAATATATCCTTAGAAAGGAGGTGATCCAGCCGCACCTTCCGATACGGCTAc                            >  1:420812/1‑141 (MQ=255)                                                                                                        tataGGCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTGAAGAAGATGTTCCGAATATATCCTTAGAAAGGAGGTGATCCAGCCGCACCTTCCGATACGGCTACCtt                         >  1:275879/1‑141 (MQ=255)                                                                                                        tataGGCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTGAAGAAGATGTTCCGAATATATCCTTAGAAAGGAGGTGATCCAGCCGCACCTTCCGATACGGCTACCtt                         >  2:257730/1‑141 (MQ=255)                                                                                                        tataGGCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTGAAGAAGATGTTCCGAATATATCCTTAGAAAGGAGGTGATCCAGCCGCACCTTCCGATACGGCTACCtt                         >  2:367691/1‑141 (MQ=255)                                                                                                           aGGCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTGAAGAAGATGTTCCGAATATATCCTTAGAAAGGAGGTGATCCAGCCGCACCTTCCGATACGGCTACCTTGtt                      <  1:41815/141‑1 (MQ=255)                                                                                                            ggCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTGAAGGAGATGTTCCGAATATATCCTTAGAAAGGAGGTGATCCAGCCGCACCTTCCGATACGGCTACCTTGTTa                     <  1:3762/141‑1 (MQ=255)                                                                                                            ggCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTGAAGAAGATGTTCCGAATATATCCTTAGAAAGGAGGTGATCCAGCCGCACCTTCCGATACGGCTACCTTGTTa                     >  1:23725/1‑141 (MQ=255)                                                                                                              cccATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTGAAGAAGATGTTCCGAATATATCCTTAGAAAGGAGGTGATCCAGCCGCACCTTCCGATACGGCTACCTTGTTACg                   <  2:412532/141‑1 (MQ=255)                                                                                                                  ttAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTGAAGAAGATGTTCCGAATATATCCTTAGAAAGGAGGTGATCCAGCCGCACCTTCCGATACGGCTACCTTGTTACGACtt               <  2:75316/141‑1 (MQ=255)                                                                                                                  ttAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTGAAGAAGATGTTCCGAATATATCCTTAGAAAGGAGGTGATCCAGCCGCACCTTCCGATACGGCTACCTTGTTACGACtt               <  2:295147/141‑1 (MQ=255)                                                                                                                    aaTTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTGAAGAAGATGTTCCGAATATATCCTTAGAAAGGAGGTGATCCAGCCGCACCTTCCGATACGGCTACCTTGTTACGACTTCa             <  1:269143/141‑1 (MQ=40)                                                                                                                     aTTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTGAAGAAGATGTTCCGAATATATCCTTAGAAAGGAGGTGATCCAGCCGCACCTTCCGATACGGCTACCTTGTTACGACTTCAc            <  2:410383/141‑1 (MQ=39)                                                                                                                      tttGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTGAAGAAGATGTTCCGAATATATCCTTAGAAAGGAGGTGATCCAGCCGCACCTTCCGATACGGCTACCTTGTTACGACTTCAcc           >  1:351620/1‑141 (MQ=38)                                                                                                                      tttGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTGAAGAAGATGTTCCGAATATATCCTTAGAAAGGAGGTGATCCAGCCGCACCTTCCGATACGGCTACCTTGTTACGACTTCAcc           >  2:364605/1‑141 (MQ=38)                                                                                                                              aacaaacaTTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTGAAGAAGATGTTCCGAATATATCCTTAGAAAGGAGGTGATCCAGCCGCACCTTCCGATACGGCTACCTTGTTACGACTTCACCCCAATCAt   >  2:387506/1‑141 (MQ=32)                                                                                                                               acaaacaTTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTGAAGAAGATGTTCCGAATATATCCTTAGAAAGGAGGTGATCCAGCCGCACCTTCCGATACGGCTACCTTATTACGACTTCACCCCAATCAtt  >  1:349781/1‑141 (MQ=14)                                                                                                                                             |                                                                                                                               AGCTGAGCTAAGCCCCCAAATAGGTATTAAATTAATGGTGGGCCTAAGTGGACTCGAACCACCGACCTCACGCTTATCAGGCGTGCGCTCTAACCAGCTGAGCTATAGGCCCATTAATTTGAATGAACAAACATTCAAAACTGAATACAATATGTCACGTTATTCCGCATCTTCTGAAGAAGATGTTCCGAATATATCCTTAGAAAGGAGGTGATCCAGCCGCACCTTCCGATACGGCTACCTTGTTACGACTTCACCCCAATCATT  >  CP000730/2001666‑2001932

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.