New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	1735255 =	43 (1.190)	6 (0.180)	5/260	4.1	13.1%	intergenic (+5/‑123)	mepH/sodB	murein DD‑endopeptidase, space‑maker hydrolase/superoxide dismutase, Fe
	?	NC_000913_3_pae_tpiA	1735283 =	40 (1.200)					intergenic (+33/‑95)	mepH/sodB	murein DD‑endopeptidase, space‑maker hydrolase/superoxide dismutase, Fe
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

TTATTCAGTCACCGCGCACAGGTCAGGAAATTCAAATCACTTCTCTCAGTGAAGACTACTGGCAGCGCCACTATGTTGGCGCTCGTCGGGTAATGACCCCAAAAACACTTCGCTAAAACTTTACCCTGTTGTTACGGCAACAGGGTAAGTTCATCTTTTGTCTCACCTTTTAATTTGCTACCCTATCCATACGCACAATAAGGCTATTGTACGTATGCAAATTAATAATAAAGGAGAGTAGCAATGTCATTCGAATTACCTGCACTACCATATGCTAAAGATGCTCTGGCACCGCA  >  NC_000913_3_pae_tpiA/1735135‑1735430                                                                                                                                                     |                                                                                                                                                    ttATTCAGTCACCGCGCACAGGTCAGGAAATTCAAATCACTTCTCTCAGTGAAGACTACTGGCAGCGCCACTATGTTGGCGCTCGTCGGGTAATGACCCCAAAAACACTTCGCTAAAACTTTACCCTGTTGTTACGGCAACAGGGTAAg                                                                                                                                                     >  1:356755/1‑149 (MQ=255)      cAGTCACCGCGCACAGGTCAGGAAATTCAAATCACTTCTCTCAGTGAAGACTACTGGCAGCGCCACTATGTTGGCGCTCGTCGGGTAATGACCCCAAAAACACTTCGCTAAAACTTTACCCTGTTGTTACGGCAACAGGGTAAGTTCAt                                                                                                                                                <  2:447404/149‑1 (MQ=255)           cccGCGCACAGGTCAGGAAATTCAAATCACTTCTCTCAGTGAAGGCTACTGGCAGCGCCACTAGGTTGGCGCTCGTCGGGTCGTGACGCCAGAAACAGTTCGCTAAGACTTTACCCTGTTGTTACGGCAACAGGGTAAGTTCATCtttt                                                                                                                                           <  1:91452/148‑1 (MQ=255)           aCCGCGCACAGGTCAGGAAATTCAAATCACTTCTCTCAGTGAAGACTACTGGCAGCGCCACTATGTTGGCGCTCGTCGGGTAATGACCCCAAAAACACTTCGCTAAACCTTTACCCTGTTGTTACGGCACCAGGGTAATTTCATCtttt                                                                                                                                           >  2:574064/1‑149 (MQ=255)                  acaGGTCAGGAAATTCAAATCACTTCTCTCAGTGAAGACTACTGGCAGCGCCACTATGTTGGCGCTCGTCGGGTAATGACCCCAAAAACACTTCGCTAAAACTTTACCCTGTTGTTACGGCAACAGGGTAAGTTCATCTTTTGTCTCAc                                                                                                                                    >  1:470648/1‑149 (MQ=255)                      gTCAGGAAATTCAAATCACTTCTCTCAGTGAAGACTACTGGCAGCGCCACTATGTTGGCGCTCGTCGGGTAATGACCCCAAAAACACTTCGCTAAAACTTTACCCAGTTGTTACGGCAACAGGGTAAGTTCATCTTTTGTCTCACCttt                                                                                                                                >  2:561666/1‑149 (MQ=255)                       tCAGGAAATTCAAATCACTTCTCTCAGTGAAGACTACTGGCAGCGCCACTATGTTGGCGCTCGTCGGGTAATGACCCCAAAAACACTTCGCTAAAACTTTACCCTGTTGTTACGGCAACAGGGTAAGTTCATCTTTTGTCTCACCtttt                                                                                                                               <  2:144021/149‑1 (MQ=255)                           gAAATTCAAATCACTTCTCTCAGTGAAGACTACTGGCAGCGCCACTATGTTGGCGCTCGTCGGGTAATGACCCCAAAAACACTTCGCTAAAACTTTACCCTGTTGTTACGGCAACAGGGTAAGTTCATCTTTTGTCTCCCCTTTTAAtt                                                                                                                           >  1:73585/1‑149 (MQ=255)                           gAAATTCAAATCACTTCTCTCAGTGAAGACTACTGGCAGCGCCACTATGTTGGCGCTCGTCGGGTAATGACCCCAAAAACACTTCGCTAAAACTTTACCCTGTTGTTACGGCAACAGGGTAAGTTCATCTTTTGTCTCACGTTTTAAtt                                                                                                                           >  1:179842/1‑149 (MQ=255)                            aaaTTCAAATCACTTCTCTCAGTGAAGACTACTGGCAGCGCCACTATGTTGGCGCTCGTCGGGTAATGACCCCAAAAACACTTCGCTAAAACTTTACCCTGTTGTTACGGCAACAGGGTAAGTTCATCTTTTGTCTCAcc                                                                                                                                   <  1:285508/140‑1 (MQ=255)                            aaaTTCAAATCACTTCTCTCAGTGAAGACTACTGGCAGCGCCACTATGTTGGCGCTCGTCGGGTAATGACCCCAAAAACACTTCGCTAAAACTTTACCCTGTTGTTACGGCAACAGGGTAAGTTCATCTTTTGTCTCAcc                                                                                                                                   >  2:285508/1‑140 (MQ=255)                               ttCAAATCACTTCTCTCAGTGAAGACTACTGGCAGCGCCACTATGTTGGCGCTCGTCGGGTAATGACCCCAAAAACACTTCGCTAAAACTTTACCCTGTTGTTACGGCTACTTGGTAGGTTCATCTTTTGTCTCACCTTTTAATTTGCt                                                                                                                       >  1:335972/1‑149 (MQ=255)                                tCAAATCACTTCTCTCAGGGAAGACTACTGGCAGCGCCACTATGTTGGCGCTCGTCGGGTAATGACCCCAAAAACCCTTCGCTAAAACTTTACCCTCTTGTTACGGCAACAGGGTAAGTTCATCTTTTGTCTCACCTTTTAATTTGCTa                                                                                                                      <  2:424126/149‑1 (MQ=255)                                   aaTCACTTCTCTCAGTGAAGACTACTGGCAGCGCCACTATGTTGGCGCTCGTCGGGTAATGACCCCAAAAACACTTCGCTAAAACTTTACCCTGTTGTTACGGCAACAGGGTAAGTTCATCTTTTGTCTTACTTTTTAATTTGCTTccc                                                                                                                   >  2:418733/1‑149 (MQ=255)                                    attccTTCTCTCAGTGAAGGCTACTGGCAGCGCCACTATGTTGGCGCTCGTCGGGTAATGACCCCAAAAACACTTCGCTAAAACTTTACCCTGTTGTTACGGCAACAGGGTAAGTTCATCTTTTGTCTCACCTTTTAATTTGCTACCCt                                                                                                                  <  2:164183/145‑1 (MQ=255)                                    aTCACTTCTCTCAGTGAAGACTACTGGCAGCGCCACTATGTTGGCGCTCGTCGGGTAATGACCCCAAAAACACTTCGCTAAAACTTTACCCTGTTGTTACGGCAACAGGGTAAGTTCATCTTTTGTCTCACCTTTTAATTTGCTACCCt                                                                                                                  <  1:362432/149‑1 (MQ=255)                                       aCTTCTCTCAGTGAAGACTACTGGCAGCGCCACTATGTTGGCGCTCGTCGGGTAATGACCCCAAAAACACTTCGCTAAAACTTTACCCTGTTGTTACGGCAACAGGGTAAGTTCATCTTTTGTCTCACCTTTTAATTTGCTACCCTATc                                                                                                               >  2:63336/1‑149 (MQ=255)                                         ttCTCTCAGTGAAGACTACTGGCAGCGCCACTATGTTGGCGCTCGTCGGGTAATGACCCCAAAAACACTTCGCTAAAACTTTACCCGGTTGTTACGGCAACAGGGTAAGTTCATCTTTTGTCTCACCTTTTAATTTGCTACCCTATcct                                                                                                             >  2:81702/1‑148 (MQ=255)                                             ctcAGTGAAGACTACTGGCAGCGCCACTATGTTGGCGCTCGTCGGGTAATGACCCCAAAAACACTTCGCTAAAACTTTACCCTGTTGTTACGGCAACAGGGTAAGTTCATCTTTTGTCTCACCTTTTAATTTGCTACCCTATCCATACg                                                                                                         >  2:151322/1‑149 (MQ=255)                                                     aGACTACTGGCAGCGCCACTATGTTCGCGCTCGTCGGGTAATGACCCCAAAAACACTTCGCTAAAACTTTACCCTGTTGTTACGGCAACAGGGTAAGTTCATCTTTTGTCTCACCTTTTAATTTGCTACCCTATCCATACGCACAATaa                                                                                                 <  2:495292/149‑1 (MQ=255)                                                         tactTGCAGCGCCACTATGTTGGCGCTCGTCGGGTAATGACCCCAAAAACACTTCGCTAAAACTTTACCCTGTTGTTACGGCAACAGGGTAAGTTCATCTTTTGTCTCACCTTTTAATTTGCTACCCTATCCATACGCACAATAAGGCt                                                                                             <  1:320859/149‑1 (MQ=255)                                                            tGGCAGCGCCACTATGTTGGCGCTCGTCGGGTAATGACCCCAAAAACACTTCGCTAAAACTTTACCCTGTTGTTACGGCAACAGGGTAAGTTCATCTTTTGTCTCACCTTTTAATTTGCTACCCTATCCATACGCACAATAAGGCTAtt                                                                                          <  2:470648/149‑1 (MQ=255)                                                            tGGCAGCGCCACTATGTTGGCGCTCGTCGGGTAATGACCCCAAAAACACTTCGCTAAAACTTTACCCTGTTGTTACGGCAACAGGGTAAGTTCATCTTTTGTCTCACCTTTTAATTTGCTACCCTATCCATACGCACAATAAGGCTAtt                                                                                          >  1:579683/1‑149 (MQ=255)                                                               cAGCGCCACTATGTTGGCGCTCGTCGGGTAATGACCCCAAAAACACTTCGCTAAAACTTTACCCTGTTGTTACGGCAACAGGGTAAGTTCATCTTTTGTCTCACCTTTTAATTTGCTACCCTATCCATACGCACAATAAGGCTATTGTa                                                                                       <  1:561666/149‑1 (MQ=255)                                                                aGCGCCACTATGTTGGCGCTCGTCGGGTAATGACCCCACAGACACTTCGCTAAAACTTTACCCTGTTGTTACGGCAACAGGGTAAGTTCATCTTTTGTCTCACCTTTTAATTTGCTACCCTATCCATACGCACAATAAGGCTATTGTAc                                                                                      >  1:24836/1‑149 (MQ=255)                                                                        catagtGGCGCTCGTCGGGTAATGACCCCAAAAACACTTCGCTAAAACTTTACCCTGTTGTTACGGCAACAGGGTAAGTTCATCTTTTGTCTCACCTTTTAATTTGCTACCCTATCCATACGCACAATAAGGCTATTGTACGTATGCaa                                                                              >  2:88590/6‑149 (MQ=255)                                                                         aTGTTGGCGCTCGTCGGGTAATGACCCCAAAAACACTTCGCTAAAACTTTACCCTGTTGTTACGGCAACAGGGTAAGTTCATCTTTTGTCTCACCTTTTAATTTGCTACCCTATCCATACGCACAATAAGGCTATTGTACGTATGCaaa                                                                             <  2:171482/149‑1 (MQ=255)                                                                          tGTTGGCGCTCGTCGGGTAATGACCCCAAAAACACTTCGCTAAAACTTTACCCTGTTGTTACGGCAACAGGGTAAGTTCATCTTTTGTCTCACCTTTTAATTTGCTACCCTATCCATACGCCCAATAAGGCTATTGTACGTAGGCaact                                                                            >  1:156657/1‑147 (MQ=255)                                                                            gtGGCGCTCGTCGGGTAATGACCCCAAAAACACTTCGCTAAAACTTTACCCTGTTGTTACGGCAACAGGGTAAGTTCATCTTTTGTCTCACCTTTTAATTTGCTACCCTATCCATACGCACAATAAGGCTATTGTACGTATGCAAATta                                                                          <  1:88590/148‑1 (MQ=255)                                                                               gcacTCGGCGGGTAATGACCCCAAAAACACTTCGCTAAAACTTCACCCTGTTGTTACGGCAACAGGGTAAGTTCATCTTTTGTCTCACCTTTTAACTTGCTACCCTATCCATACGCACAATAAGGCTATTGTACGTATGCAAATtaata                                                                       <  1:418733/146‑1 (MQ=255)                                                                                    cgtcgGGTAATGACCCCAAAAACACTTCGCTAAAACTTTACCCTGTTGTTACGGCAACAGGGTAAGTTCATCTTTTGTCTCACCTTTTAATTTGCTACCCTATCCATACGCACAATAAGGCTATTGTACGTATGCAAATTAATAATaaa                                                                  <  1:265751/149‑1 (MQ=255)                                                                                       cgGGTAATGACCCCAAAAACACTTCGCTAAAACTTTACCCTGTTGTTACGGCAACAGGGTAAGTTCATCTTTTGTCTCACCTTTTAATTTGCTACCCTATCCATACGCACAATAAGGCTATTGTACGTATGCAAATTAATAATAAAGga                                                               <  1:520346/149‑1 (MQ=255)                                                                                                       acacacTTCGCTAAAACTTTCCCCTGTTGTTACGGCAACAGGGTAAGTTCATCTTTTGTCTCACCTTTTAATTTGCTACCCTATCCCTACGCACAATAAGGCTATTGTACGTATGCAAATTAATAATAAAGGAGAGTCGCAATGTCAtt                                               <  1:391811/147‑1 (MQ=255)                                                                                                        aaCACTTCTCTAAAACTTTACCCTGTTGTTACGGCAACAGGGTAAGTTCATCTTTTGTCTCACCTTTTAATTTGCTACCCTATCCATACGCACAATAAGGCTATTGTACGTATGCAAATTAATAATAAAGGAGAGTAGCAATGTCATTc                                              <  1:81702/149‑1 (MQ=255)                                                                                                             ttCGCTAAAACTTTACCCTGTTGTTACGGCAACAGGGTAAGTTCATCTTTTGTCTCACCTTTTAATTTGCTACCCTATCCATACGCACAATAAGGCTATTGTACGTATGCAAATTAATAATAAAGGAGAGTAGCAATGTCATTCGAAtt                                         >  1:614098/1‑149 (MQ=255)                                                                                                             ttCGCTAAAACTTTACCCTGTTGTTACGGCAACAGGGTAAGTTCATCTTTTATCTCACCTTTTAATTTGCTACCCTATCCATACGCACAATAAGGCTATTGTACGTATGCAAATTAATAATACAGGAGGGTCGCAATGTCATTCAAAtt                                         >  2:618517/1‑149 (MQ=255)                                                                                                                        tttACCCTGTTGTTACGGCAACAGGGTAAGTTCATCTTTTGTCTCACCTTTTAATTTGCTACCCTATCCATACGCACAATAAGGCTATTGTACGTATGCAAATTAATAATAAAGGAGAGTAGCAATGTCATTCGAATTACCTGCACTAc                              <  1:63336/149‑1 (MQ=255)                                                                                                                            cccTGTTGTTACGGCAACAGGGTAAGTTCATCTTTTGTCTCACCTTTTAATTTGCTACCCTATCCATACGCACAATAAGGCTATTGTACGTATGCAAATTAATAATAAAGCAGAGTAGCAATGTCATTCGAATTACCTGCACTACCata                          <  2:44268/149‑1 (MQ=255)                                                                                                                               tgttgtTACGGCAACAGGGTAAGTTCATCTTTTGTCTCACCTTTTAATTTGCTACCCTATCCATACGCACAATAAGGCTATTGTACGTATGCAAATTAATAATAAAGGAGAGTGGCAATGt                                                   <  2:173170/121‑1 (MQ=255)                                                                                                                               tgttgtTACGGCAACAGGGTAAGTTCATCTTTTGTCTCACCTTTTAATTTGCTACCCTATCCATACGCACAATAAGGCTATTGTACGTATGCAAATTAATAATAAAGGAGAGTGGCAATGt                                                   >  1:173170/1‑121 (MQ=255)                                                                                                                                   gccgtaacAACAGGGTAAGTTCATCTTTTGTCTCACCTTTTAATTTGCTACCCTATCCATACGCACAATAAGGCTATTGTACGTATGCAAATTAATAATAAAGGAGAGTAGCAATGTCATTCGAATTACCTGCACTACCATATGCTaaa                   <  1:264616/142‑1 (MQ=255)                                                                                                                                                ggTAAGTTCATCTTTTGTCTCACCTTTTAATTTGCTACCCTATCCATACGCACAATAAGGCTATTGTACGTATGCAAATTAATAATAAAGGAGAGTAGCAATGTCATTCGAATTACCTGCACTACCATATGCTAAAGATGCTCTGGCAc      <  2:24836/149‑1 (MQ=255)                                                                                                                                                    aGTTCATCTTTTGTCTCACCTTTTAATTTGCTACCCTATCCATACGCACAATAAGGCTATTGTACGTATGCAAATTAATAATAAAGGAGAGTAGCAATGTCATTCGAATTACCTGCACTACCATATGCTAAAGATGCTCTGGCACCGca  >  1:498700/1‑149 (MQ=255)                                                                                                                                                     |                                                                                                                                                    TTATTCAGTCACCGCGCACAGGTCAGGAAATTCAAATCACTTCTCTCAGTGAAGACTACTGGCAGCGCCACTATGTTGGCGCTCGTCGGGTAATGACCCCAAAAACACTTCGCTAAAACTTTACCCTGTTGTTACGGCAACAGGGTAAGTTCATCTTTTGTCTCACCTTTTAATTTGCTACCCTATCCATACGCACAATAAGGCTATTGTACGTATGCAAATTAATAATAAAGGAGAGTAGCAATGTCATTCGAATTACCTGCACTACCATATGCTAAAGATGCTCTGGCACCGCA  >  NC_000913_3_pae_tpiA/1735135‑1735430

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