New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 3941521	30 (0.190)	19 (0.130)	7/168	NT	40.2%	intergenic (‑194/‑287)	yieP/rrsC	putative transcriptional regulator/16S ribosomal RNA of rrnC operon
	?	NC_000913	= 3941548	NA (NA)					intergenic (‑221/‑260)	yieP/rrsC	putative transcriptional regulator/16S ribosomal RNA of rrnC operon

TGACACGGAACAACGGCAAACACGCCGCCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGCACACCCCGCGCCGCTGAGA  >  NC_000913/3941518‑3941647                               |                                                                                                    tGACACGGAACATCGGCAAACAGGCCGGCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGaaa                                <  1:992310/100‑1 (MQ=2)  gACACGGAACAACGGCAAACACGCCGCCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAg                               <  1:2033881/100‑1 (MQ=31)    ttccgatctacGGCAAACACGCCGCCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCg                             <  2:2741852/91‑1 (MQ=255)    cacGGAACAACGGCAAACACGCCGCCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCg                             <  2:708059/100‑1 (MQ=32)     cgatctcaacGGCAAACACGCCGCCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGt                            <  2:1527778/94‑1 (MQ=12)      cGGAACAACGGCAAACACGCCGCCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGta                           >  1:1111191/1‑100 (MQ=33)       ggAACAACGGCAAACACGCCGCCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGtat                          <  2:809236/100‑1 (MQ=33)       ggAACAACGGCAAACACGCCGCCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGtat                          <  2:844538/100‑1 (MQ=33)        gAACAACGGCAAACACGCCGCCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGtatt                         >  2:872090/1‑100 (MQ=32)        gAACAACGGCAAACACGCCGCCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGtatt                         >  2:1542394/1‑100 (MQ=33)        gAACAACGGCAAACACGCCGCCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGtatt                         >  1:3454245/1‑100 (MQ=33)        gAAAAACGGCAAACACGCCGCCGGTTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATACATGCTTGACTCTGTAGCGGGAAAGCGtatt                         <  2:2606603/100‑1 (MQ=255)          acaacGGCAAACACGCCGCCGGGTCAGAGGGGTTCTCCTTAGAACTCCGAAAAAAAAAAAAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGtattat                       <  1:2365504/100‑1 (MQ=11)           caacGGCAAACACGCCGCCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGtagatcg                      >  1:1527773/1‑95 (MQ=18)           caacGGCAAACACGCCGCCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATg                      >  1:742215/1‑100 (MQ=33)            aacGGCAAAGACGCCGCCGGGTCAGCGGGGTTCTCCTGAGAGCTCCGGCAGAGAGAGCAAAAATGAATGCTTGACTCTGTAGCGGGAAAGCGTATTATga                     <  1:4355331/100‑2 (MQ=11)            aacGGCAAACACGCCGCCGGGTCAGCGTGGTTCTCCTGAGAACTCCGGAAGAGAAAAAAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGc                     <  1:1656597/100‑1 (MQ=11)            aacGGCAAACACGCCGCCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGc                     <  1:1727017/100‑1 (MQ=33)            aacGGCAAACACGCCGCCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGc                     >  2:2108639/1‑100 (MQ=33)            aacGGCAAACACGCCGCCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGc                     <  1:3131678/100‑1 (MQ=33)            aacGGCAAACACGCCGCCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGc                     <  2:3886328/100‑1 (MQ=33)            aacGGCAAACACGCCGCCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGc                     >  1:1734943/1‑100 (MQ=33)             acGGCAAACACGCCGCCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCgagatcggaa                    >  1:2741837/1‑91 (MQ=255)             acGGCAAACACGCCGCCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGca                    >  2:2802071/1‑100 (MQ=33)             acGGCAAACACGCCGCCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGca                    >  1:4086482/1‑100 (MQ=32)             acGGCAAACACGCCGCCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGca                    <  2:2431025/100‑1 (MQ=33)             acGGCAAACACGCCGCCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGca                    <  2:2081173/100‑1 (MQ=33)              cGGCAAACACGCCGCCGGGTCAGCGGGGTTCTCCTTAGAGCTCCGGAAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGcac                   <  1:715893/100‑1 (MQ=255)              cGGCAAACACGCCGCCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGcac                   >  2:3842584/1‑100 (MQ=33)              cGGCAAACACGCCGCCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGcac                   >  1:2252373/1‑100 (MQ=33)               ggCAAACACGCCGCCGGGTCAGCGGGGTTCTCCTGAGCACTCCCCCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGCATTATGcaca                  >  1:1282805/1‑100 (MQ=11)               ggCAAACACGCCGCCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGcaca                  >  2:2497823/1‑100 (MQ=33)               ggCAAACACGCCGCCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGcaca                  <  2:2542734/100‑1 (MQ=32)               ggCAAACACGCCGCCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGcaca                  >  1:1177534/1‑100 (MQ=33)                gCAAACACGCCGCCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGCacac                 >  2:1732903/1‑100 (MQ=33)                gCAAACACGCCGCCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGCacac                 <  1:472883/100‑1 (MQ=33)                 cAAACACGCCGCCGCGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAACATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGCACAcc                >  1:1253750/1‑100 (MQ=12)                  aaaCACGCCGCCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGCACAccc               >  2:3058215/1‑100 (MQ=33)                  aaaCACGCCGCCGGGTCAGCGGGGTTCTCCTGAGAACTCCGCCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGCACAccc               <  2:3981100/100‑1 (MQ=17)                   aaCACGCCGCCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGCACAcccc              >  2:66293/1‑100 (MQ=32)                       cgccgcCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGCACACCCCgcgc          >  1:1336479/1‑100 (MQ=33)                       cgccgcCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGCACACCCCgcgc          >  1:686945/1‑100 (MQ=33)                        gccgccTGGTCAGTGGGGTTCTCCTGAAAACTCCGGCAGAGAAAGAAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGCACATCCCGcgcc         <  1:4387548/100‑1 (MQ=11)                        gccgccGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGCAAGCGTATTATGAACACCCCGcgcc         >  1:2026869/1‑100 (MQ=12)                         ccgccgGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGCACACCCCGcgccg        >  2:3828847/1‑100 (MQ=33)                          cgccgGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGCACACCCCGcgccgc       >  1:497132/1‑100 (MQ=33)                          cgccgGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCAGTAGCGGGAAAGCGTATTATGCACACCCCGcgcc         >  2:2370963/1‑98 (MQ=17)                           gccgGGTCAGCGGGGTTCTGCTGAGAACTCTGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGCACACCCCTcgccgc       <  1:3056193/99‑1 (MQ=255)                            ccgGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGCACACCCCGCGCCGCTg     <  2:987425/100‑1 (MQ=33)                            ccgGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGCACACCCCGCGCCGCTg     <  1:3474035/100‑1 (MQ=33)                            ccgGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGCACACCCCGCGCCGCTg     <  1:70502/100‑1 (MQ=33)                             cgGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGCACACCCCGCGCCGCTga    >  2:1686514/1‑100 (MQ=33)                              gggTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGCCTCTGTAGCGGGAAAGCGTATTATGCACACCCCGCGCCGCTgag   <  1:2448486/100‑1 (MQ=17)                              gggTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGCACACCCCGCGCCGCTgag   >  2:3488900/1‑100 (MQ=33)                              gggTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGCACACCCCGCGCCGCTgag   >  1:3235461/1‑100 (MQ=33)                               ggTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGCACACCCCGCGCCGCTgaga  >  1:2114251/1‑100 (MQ=33)                               ggTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGCACACCCCGCGCCGCTgaga  >  1:422931/1‑100 (MQ=33)                               ggTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGCACACCCCGCGCCGCTgaga  <  2:1342010/100‑1 (MQ=33)                               |                                                                                                    TGACACGGAACAACGGCAAACACGCCGCCGGGTCAGCGGGGTTCTCCTGAGAACTCCGGCAGAGAAAGCAAAAATAAATGCTTGACTCTGTAGCGGGAAAGCGTATTATGCACACCCCGCGCCGCTGAGA  >  NC_000913/3941518‑3941647

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ 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.