New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	512620 =	26 (0.890)	24 (1.130) +TTATCTTGTCCATTTTATTTTTTAACCAAAATTTGATTAA	20/216	0.1	55.9%	intergenic (+688/‑173)	recR/rrs1	recombination protein RecR/16S ribosomal RNA
	?	CP000730	1998278 =	NA (NA)					intergenic (‑6/+5)	USA300HOU_t0050/rrf4	tRNA‑Val/5S ribosomal RNA

CCCAACCTACTGATTACAAGTCAGTTGCTCTACCAATTGAGCTAGGCCGGCAATATGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCTATAGTCACCAGACATATGAATGTAATTTATACATTCAAAA  >  CP000730/1998130‑1998426                                                                                                                                                     |                                                                                                                                                     cccAACCTACTGATTACAAGTCAGTTGCTCTACCAATTGAGCTAGGCCGGCAATATGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCCAATTCCCAGATTTa                                                                                                                                                      >  1:352373/1‑149 (MQ=255) cccAACCTACTGATTACAAGTCAGTTGCTCTACCAATTGAGCTAGGCCGGCAATATGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCCCTCCCAGCTGAGCTAATTCTCCGATTTa                                                                                                                                                      >  1:295112/1‑149 (MQ=25)                  aaGTCAGTTGCTCTACCAATTGAGCTAGGCCGGCAATATGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGt                                                                                                                                     >  1:467591/1‑149 (MQ=255)                     ccAGTTGCTCTACCAATTGAGCTAGGCCGGCAATATGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCt                                                                                                                                  <  1:481989/148‑1 (MQ=255)                            ctctACCAATTGAGCTAGGCCGGCAATATGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAg                                                                                                                           >  1:50888/1‑149 (MQ=255)                                    aTTGAGCTAGGCCGGCAATATGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCCCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACCCTAGCGGACCGt                                                                                                                   >  1:246382/1‑149 (MQ=255)                                      tGAGCTAGGCCGGCAATATGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTaa                                                                                                                 <  1:352646/149‑1 (MQ=255)                                        aGCTAGGCCGGCAATATGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTCCTCTAGCGGAACGTAAGt                                                                                                               >  1:261490/1‑149 (MQ=255)                                                cGGCAATATGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTaa                                                                                                       >  1:25459/1‑148 (MQ=255)                                                  gCAATATGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCa                                                                                                     <  1:412370/149‑1 (MQ=255)                                                       atGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGAc                                                                                                >  1:578816/1‑149 (MQ=255)                                                        tGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGTCCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAACACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACg                                                                                               <  1:412615/149‑1 (MQ=255)                                                            aGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTaa                                                                                           >  1:570646/1‑149 (MQ=255)                                                            aGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGAGGCTGGCACAGCTGAGCTAATTCTCCGATTTAAAACTGCCGGACAACGTACTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCaaa                                                                                           >  1:499262/1‑149 (MQ=14)                                                                 aaaTGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGGGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGc                                                                                      >  1:324624/1‑149 (MQ=255)                                                                      gtggAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTACGGCAAATGCTCTCCCAGCTGGGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTGGCGGAACGTAAGGTCGACTACCATCGACGCTCAGGGGCGTAAc                                                                                 >  1:125368/1‑149 (MQ=14)                                                                        ggAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGGTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACtt                                                                               >  1:427302/1‑149 (MQ=255)                                                                         gagaATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTc                                                                              <  1:234307/149‑1 (MQ=255)                                                                                     ttCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGGGCTAATTCTCCGATTTAAACCTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTGGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCAt                                                                  <  1:236640/149‑1 (MQ=255)                                                                                      tccaaCCGCCGGCCCTCCGCTTGTAAGGCAGCTGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCTACGTGCTACTCCAGCGGAACGTAAGTGCGACTACCAGCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATg                                                                 <  1:139864/146‑1 (MQ=14)                                                                                                     tctGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGAcc                                                  <  1:484840/149‑1 (MQ=255)                                                                                                          ttGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCtt                                             >  1:322222/1‑149 (MQ=255)                                                                                                            ggaaGGCAGATGCTCTCCCAGCTGAGCTAATTTCCCGATTTAAAACGGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGc                                           <  1:293312/147‑1 (MQ=255)                                                                                                            gTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGc                                           <  1:505889/149‑1 (MQ=255)                                                                                                                  cAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCTATAGt                                     >  1:25275/1‑149 (MQ=255)                                                                                                                     aTGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCTATAGTCAc                                  >  1:252074/1‑149 (MQ=255)                                                                                                                         tctcCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCGATAGTCACCAGa                              <  1:407881/149‑1 (MQ=255)                                                                                                                          ctcCCAGCTGAGCTACTTCTCCGATTTAAAACTGCCGGGCAACGTTCTACCCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGCTGTGACCTCCTTACTATAGTCACCAGAc                             <  1:374637/149‑1 (MQ=14)                                                                                                                                   gAGCTACTTCCCCGACTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCTATAGTCACCAGACATATGAATg                    <  1:224096/149‑1 (MQ=255)                                                                                                                                    ggCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCTATAGTCACCAGACATATGAATGt                   <  1:38203/148‑1 (MQ=255)                                                                                                                                    aGCTAATTCTCCTATTTAAAACTGCCTGGCAACGTTCGACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCTATAGTCACCAGACATATGAATGt                   <  1:418774/149‑1 (MQ=255)                                                                                                                                       tAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTGGCTATAGTCACCAGACATATGAATGTAAt                >  1:114247/1‑149 (MQ=255)                                                                                                                                                  tttAAACCCGCCTGGCAACGTTCTACTCTAGCGGAACGTAATTTCGACTACCATCGACGCTAAGGAGCTCAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCTATAGTCACCAGACATATGAATGTAATTTATACATTCa     <  1:33645/149‑1 (MQ=255)                                                                                                                                                     aaaaCTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCTATAGTCACCAGACATATGAATGTAATTTATACATTCaaaa  >  1:558850/1‑149 (MQ=33)                                                                                                                                                     |                                                                                                                                                     CCCAACCTACTGATTACAAGTCAGTTGCTCTACCAATTGAGCTAGGCCGGCAATATGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCTATAGTCACCAGACATATGAATGTAATTTATACATTCAAAA  >  CP000730/1998130‑1998426

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ 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.