New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? REL606 1427340 =46 (0.890)6 (0.120) 4/66 5.7 13.2% intergenic (‑115/+26) ynaF/ompN stress‑induced protein, ATP‑binding protein/outer membrane pore protein N, non‑specific
?REL606 4022380 = 33 (0.600)intergenic (+39/‑116) dsbA/yihF periplasmic protein disulfide isomerase I/hypothetical protein
Rejected: Position hash score below cutoff.

AATGTAAATTACATAAGGCCCGTGAATATTCACGGGTTTTTTTTATTATTTAATAAATATAAATACATT  >  REL606/4022345‑4022413
                                   |                                 
aaTGTAAATTACATAAGGCCCGTGAATATTCACggg                                   <  1:1579574/36‑1 (MQ=255)
aaTGTAAATTACATAAGGCCCGTGAATATTCACggg                                   <  1:2802172/36‑1 (MQ=255)
   gTAAATTACATAAGGCCCGTGAATATTCACGGGttt                                <  1:2034036/36‑1 (MQ=255)
    tAAATTACATAAGGCCCGTGAATATTCACGGGtttt                               >  1:1794244/1‑36 (MQ=255)
    tAAATTACATAAGGCCCGTGAATATTCACGGGtttt                               <  2:1247456/36‑1 (MQ=255)
     aaaTTACATAAGGCCCGTGCCTATTCTCGGGtcttt                              >  2:2481164/1‑36 (MQ=255)
      aaTTACATAAGGCCCGTGAATATTCACGGGtttttt                             <  2:1136555/36‑1 (MQ=255)
      aaTTACATAAGGCCCGTGAATATTCACGGGtttttt                             >  2:1959754/1‑36 (MQ=255)
       aTTACATAAGGCCCGTGAATATTCACGGGttttttt                            <  2:2367097/36‑1 (MQ=255)
       aTTAAATAAGGCCCGTGAAGATTCACGGGttttttt                            >  1:2214302/1‑36 (MQ=37)
        ttACATAAGGCCCGTGAATATTCACGGGtttttttt                           >  1:1328625/1‑36 (MQ=255)
        ttACATAAGGCCCGTGAATATTCACGGGtttttttt                           <  2:1209943/36‑1 (MQ=255)
        ttACATAAGGCCCGTGAATATTCACGGGtttttttt                           <  2:1383693/36‑1 (MQ=255)
          aCATAAGGCCCGTGAATATTCACGGGTTTTTTttat                         >  1:3374878/1‑36 (MQ=255)
           cATAAGGCCCGTGAATATTCACGGGTTTTTTttatt                        <  1:69523/36‑1 (MQ=255)
             tAAGGCCCGTGAATATTCACGGGTTTTTTTtattat                      <  1:84433/36‑1 (MQ=255)
             tAAGGACCGTGAATATTCACGGGTTTTTTTtattat                      <  1:1084028/36‑1 (MQ=255)
                ggCCCGTGAATATTCACGGGTTTTTTTTATTATTta                   <  2:2848022/36‑1 (MQ=255)
                ggCCCGTGAATATTCACGGGTTTTTTTTATTATTta                   <  2:781652/36‑1 (MQ=255)
                ggCCCGTGAATATTCACGGGTTTTTTTTATTATTta                   <  1:3720698/36‑1 (MQ=255)
                 gCCCGTGAATATTCACGGGTTTTTTTTATTATTtaa                  >  1:3122756/1‑36 (MQ=255)
                 gCCCGTGAATATTCACGGGTTTTTTTTATTATTtaa                  <  1:2723882/36‑1 (MQ=255)
                 gCCCGTGAATATTCACGGGTTTTTTTTATTATTtaa                  >  2:2358420/1‑36 (MQ=255)
                 gCCCATGAATATTCACGGGTTTTTTTTATTATTtaa                  <  1:2091805/36‑1 (MQ=255)
                  cccGTGAATATTCACGGGTTTTTTTTATTTTTaaat                 >  1:2976432/1‑36 (MQ=25)
                  cccATGAATATTCACGGGTTTTTTTTATTATTtaat                 <  2:1549766/36‑1 (MQ=255)
                   ccGTGAATATTCACGGGTTTTTTTTATTATTtaata                <  2:3122897/36‑1 (MQ=255)
                      tGAATATTCACGGGTTTTTTTTATTATTTaataaat             <  1:2677586/36‑1 (MQ=255)
                        aaTATTCACGGGTTTTTTTTATTATTTAataaatat           <  1:2078804/36‑1 (MQ=255)
                        aaTATTCACGGGTTTTTTTTATTATTTAataaatat           <  2:2853197/36‑1 (MQ=255)
                          tatTCACGGGTTTTTTTTATTATTTAataaatataa         <  1:46801/36‑1 (MQ=255)
                            ttCACGGGTTTTTTTTATTATTTAataaatataaat       <  1:1429178/36‑1 (MQ=255)
                              cACGGGTTTTTTTTATTATTTAATAAATATAAATAc     >  2:3428144/1‑36 (MQ=255)
                                cGGGTTTTTTTTATTATTTAATAAATATAAATACAt   <  1:369392/36‑1 (MQ=255)
                                 gggTTTTTTTTATTATTTAATAAATATAAATACAtt  <  1:440921/36‑1 (MQ=255)
                                   |                                 
AATGTAAATTACATAAGGCCCGTGAATATTCACGGGTTTTTTTTATTATTTAATAAATATAAATACATT  >  REL606/4022345‑4022413

Base quality scores:  ATCG  < 3 ≤  ATCG  < 11 ≤  ATCG  < 21 ≤  ATCG  < 30 ≤  ATCG  < 32 ≤  ATCG