New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	566777 =	NA (NA)	3587 (73.530)	276/278	0.0	98.1%	noncoding (1/1258 nt)	IS3	repeat region
	?	NC_000913	= 572471	71 (1.450)					coding (6/456 nt)	ybcN	DLP12 prophage; DNA base‑flipping protein

AGATCGCAGAAATTAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTGAAGCCCTG  >  NC_000913/566638‑566913                                                                                                                                            |                                                                                                                                         aGATCGCAGAAATTAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGAt                                                                                                                                       <  1:488380/143‑1 (MQ=255) aGATCGCAGAAATTAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGAt                                                                                                                                       <  1:488088/143‑1 (MQ=255)      gCAGAAATTAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGAAAAGAGGAAAATATTCATTACCGGGGGAAGCATAAGAGCTTCTGTGCACAGCACGTTGCGGCGGCAACAGGCGCAACCGAAATCAGATCTTAc                                                                                                                                  >  2:523158/1‑143 (MQ=255)             ttAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCGGATCGTACCCAGCaa                                                                                                                           >  2:349191/1‑143 (MQ=255)                    tAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGa                                                                                                                    <  1:477535/143‑1 (MQ=255)                            gtcgtgaaGGAGGAAGTGGACGACGGGCAACGGGGCAATTATTCATCCCCTGGGGACGCATCAGAGCTTATGTGCACAGGGTGTTGCCTCTGCAACAGGCGCAACCGGAAGCTGATCTTACCCAGCAATAGTGGACACGCGGc                                                                                                            <  2:649512/137‑1 (MQ=255)                            gACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGc                                                                                                            >  2:678112/1‑143 (MQ=255)                            gACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGc                                                                                                            >  2:602363/1‑143 (MQ=255)                             aCTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCGACCGTAATCTGATCGTACCCAGCAATAGTGGACACGCGGCt                                                                                                           >  1:595306/1‑143 (MQ=255)                               tGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCAGGGGTAGGAGGCGCAGCCGTACTCTGATCTTACCCAGCAATAGTGGACACGCGGCTaa                                                                                                         >  1:907840/1‑143 (MQ=39)                                 aaaGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGt                                                                                                       >  1:62862/1‑143 (MQ=255)                                   aGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGa                                                                                                     <  1:602363/143‑1 (MQ=255)                                     gAGCAAGGGTATGACGGGCAAAGAGGCAATCATTCATTACCCGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGt                                                                                                   <  1:827561/143‑1 (MQ=255)                                          aGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTACGTGAGTAAAct                                                                                              >  1:546659/1‑143 (MQ=255)                                          aGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAAct                                                                                              <  1:899604/143‑1 (MQ=255)                                           gtgtATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAActc                                                                                             >  1:515275/1‑143 (MQ=255)                                            tgtgtgAGGGGCAAAGAGGCGATTATTCATGACGTGGGGACGCATAAGAGCCTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAActct                                                                                            <  2:303549/143‑1 (MQ=37)                                                 ggcGGGCAAAGAGGCAATTATGCATTAGCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTATTCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCtcagtc                                                                                       <  1:671639/141‑1 (MQ=255)                                                       cAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTACACTCGCCGTCAGAGGt                                                                                 >  1:179240/1‑143 (MQ=255)                                                        acagagGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGCGGACACGCGGCTACGTGAGGAACCTCTCAGCAAGAGGTg                                                                                >  1:245684/3‑143 (MQ=37)                                                        aaaGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTGAACTCTCAGTCAGAGGTg                                                                                >  1:748305/1‑143 (MQ=255)                                                        aaaGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTg                                                                                >  1:780161/1‑143 (MQ=255)                                                            agGCAATTATTCATTACCTGGGGACGCATAAGAGCGTCTGTGCACAGTACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTAGCCAGCAATAGTGGACACGCGCCTAAGTAAAGAAAATCTCACTCAGAAGTgccac                                                                            >  2:755685/1‑139 (MQ=37)                                                              gcgattattCATTCCCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTcac                                                                          <  2:417442/140‑1 (MQ=255)                                                                aaTTATTCATTACGTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGAGACGCGGCTAAGTCAGTAAACTCTCCGACCGAGCTGACTcacct                                                                        >  2:823801/1‑141 (MQ=37)                                                                aaTTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACAGTGATCTGATCTTGCCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAGCTCTCAGTCAGAGGTGACTcacct                                                                        >  1:101581/1‑141 (MQ=255)                                                                aaTTATGCATTACCTGGGGACTCATAAGTTCTTCTGTGTACTTGACTTTTCCGCGGTAACAGGCGCAAACGTAATCTGATCTGACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACAt                                                                        <  1:289257/143‑1 (MQ=18)                                                                aaTCATTCATTGCCGGGGGATGCATAAGGGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACAt                                                                        <  2:412281/143‑1 (MQ=25)                                                                  ttattCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACAGTAATGTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGGCAGAGGTGACTCACGTgc                                                                      >  2:364662/1‑142 (MQ=255)                                                                  gtcttCATTACCTTGGGACGCATAAGCCCTTCTGTGCACACGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCATCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGa                                                                      <  2:567032/140‑1 (MQ=21)                                                                   tattCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGAc                                                                     >  1:24137/1‑143 (MQ=255)                                                                     ttCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACaa                                                                   <  1:678112/143‑1 (MQ=255)                                                                        atgaCCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACaaaaa                                                                <  1:493105/140‑1 (MQ=255)                                                                             cTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTa                                                           >  1:453508/1‑143 (MQ=255)                                                                              tGGGGACGCATAAGAGCTTCTGTGAACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACGCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTAt                                                          <  1:770582/143‑1 (MQ=255)                                                                               ggggACGGATAAGAGCGTCGGTCCACGGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATCGGGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATc                                                         <  2:240518/143‑1 (MQ=18)                                                                                  gACGCATAAGAGCTTCTGTGCACAGGACGATGCCGCGGTAACAGGCGCACCCGTAAGCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTCAACTATCAGTCAGAAGAGACCCACCTGAAAAACACAATATCAAc                                                      >  2:514364/1‑143 (MQ=21)                                                                                   ccGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAAcc                                                     <  2:20779/142‑1 (MQ=255)                                                                                         aaGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTaaa                                               >  1:830856/1‑143 (MQ=255)                                                                                               ttCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAAccc                                         >  1:736474/1‑143 (MQ=255)                                                                                               ttCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAAccc                                         >  2:717469/1‑143 (MQ=255)                                                                                                           gACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCACCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCAt                             >  1:93096/1‑143 (MQ=255)                                                                                                               ttGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGc                         <  1:539007/143‑1 (MQ=255)                                                                                                                   cgcgGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGa                     >  1:728893/1‑143 (MQ=255)                                                                                                                    gcgGTAACAGGCGCAACCGTAATCTGGCCCAACTGATGAAAAGCGGACACGCGGCTAAGTGAGTCACCTCTCCGGCGGAGGTAACTCACACGACAAAAACAGAACGAAACACGACAAAACCCAGGACACAGCATACGCCTgga                    >  2:504042/1‑141 (MQ=9)                                                                                                                       gTAACAGGCGCAACCGTAATCTGATCTTACCGAGCAATAGTGGACAAGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGAATAACATGACAACAACGGAATAGAATGGGCAAAAACCCAGAAAACAGCATTAGCCTGAAttt                 >  2:887487/1‑143 (MQ=14)                                                                                                                          caaGGCGCAACCGTACTCTGATGTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACGCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGc              <  2:331781/141‑1 (MQ=255)                                                                                                                           cAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACGCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCa             <  1:364662/143‑1 (MQ=38)                                                                                                                            aGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCaga                                                                                    <  2:374548/71‑1 (MQ=255)                                                                                                                            aGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCaga                                                                                    >  1:374548/1‑71 (MQ=255)                                                                                                                               cgcAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTGa         >  1:518274/1‑143 (MQ=35)                                                                                                                                gcAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCAGTCGCCTGAATTTCGCAGTGaa        >  2:578257/1‑143 (MQ=21)                                                                                                                                 cAACCGTAATCTGATCTTACCCAGCAATAGTGGCCACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAACCCCCGTAAACAGCATTCGCCTGAATGTCGCAGTGAAg       >  1:82475/1‑143 (MQ=16)                                                                                                                                     cGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTGAAGCCCt   >  1:168181/1‑143 (MQ=11)                                                                                                                                      gtgaTCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTGAAGCCCTg  >  1:177049/4‑143 (MQ=1)                                                                                                                                            |                                                                                                                                         AGATCGCAGAAATTAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGACAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTGAAGCCCTG  >  NC_000913/566638‑566913

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ 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.