New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	566777 =	NA (NA)	1534 (45.410)	248/262	NT	98.9%	noncoding (1/1258 nt)	IS3	repeat region
	?	NC_000913	= 572471	17 (0.500)					coding (6/456 nt)	ybcN	DLP12 prophage; DNA base‑flipping protein

AGATCGCAGAAATTAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGA‑CAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTGAAGCCC  >  NC_000913/566638‑566911                                                                                                                                            |                                                                                                                                        aGATCGCAGAAATTAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGAt                                                                                                                                      <  1:267781/143‑1 (MQ=255)     cGCAGAAATTAAAGCTAAGTTCGGACTGAAAGGAGCAGGTGTATGACGGACAAAGAGGCAATTATTCATTACCTGGGGGCGCATGAGAGCTTCTGTGCACAGAACGTTGCCGCGGGCACAGGCGCCACAGCAATCTGagcatc                                                                                                                                  >  2:331074/1‑138 (MQ=255)       cAGAAATTAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCCTTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACGGGCGCAACCGTAATCTGATCTTAcc                                                                                                                                >  1:674718/1‑143 (MQ=255)              tAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCATGGATGAACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAAt                                                                                                                         >  1:151789/1‑143 (MQ=255)                         tCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATGCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACAcgc                                                                                                              <  1:645819/143‑1 (MQ=255)                               tGAAAGGAGCAAGTGTATGACGGGCACAGAGGCAATTATTCCTGACCTGGGGCCGCATAAGCGCCTCTGTCCACCGCACGTTGCCGCGCTAACAGGCGCACCCGGCATCTCCTCTTCCCCCGCACCCGTCGACCCGCGGcaca                                                                                                        >  2:242750/1‑140 (MQ=255)                                gAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAg                                                                                                       >  1:508995/1‑143 (MQ=255)                                 agacgAGCAAGTGTATGACGGGCAAAGAAGCAATTATTCATCACCTGGGCACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTACTCGGATCTTACCCAGCAATAGTGGACACGCGGCTAAGt                                                                                                      <  1:210213/139‑1 (MQ=39)                                     gAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACGCGCGGCTgagtgagt                                                                                                  >  1:617805/1‑143 (MQ=255)                                                tggcGGGTAAAGAGGCAATGATTCGTTACCGCGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCACCCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCtcagt                                                                                       <  1:407788/140‑1 (MQ=25)                                                              gCACTTATTCATGGCCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTCACCTCTGACTGAGAGTTTACTcac                                                                         <  2:257194/143‑1 (MQ=25)                                                                aaTTATTTCTTACCTGGGGACGCATAAGAGCTTATGTGGACAGGATGTTGCCGCGGTAACAGGCACTGCAGTAGTCTGATATGCCACCTTAACATGGGACACGCGGCTAAGGGACTAAAGTCTCAGTCAGAGGTGACTCACAt                                                                       <  2:477535/143‑1 (MQ=16)                                                                aaTTATTCATTACGTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCGTACCCAGCCATCGTGGACAAGCGGCTAGGTGAGTAAAGTCTCAGTCAGAGGTGTCGCACAt                                                                       >  2:210388/1‑143 (MQ=255)                                                                           cgcTGGGGGCGCATCAGCGCTTCTGTGCACAGGACGTTGCCGCGGTAACGGGCGCAGCCTTAATCTGATCTTACCCGGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGGCAGAGGTGACTCACATGA‑CAAAAACAg                                                           <  2:621801/141‑1 (MQ=18)                                                                            ccTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGA‑CAAAAACAGt                                                          >  1:357995/1‑143 (MQ=255)                                                                                 ggACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGA‑CAAAAACAGTATCaa                                                     <  1:385851/143‑1 (MQ=255)                                                                                  gACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGTGCTACCGTAATCTGTTCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGA‑CAAAAACAGTATCAAc                                                    <  1:120745/143‑1 (MQ=255)                                                                                  gACGCAGAAGAGCTCCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGA‑CAAAAACAGTATCAAc                                                    <  1:31308/143‑1 (MQ=255)                                                                                        tAAGAGCTGCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGA‑CAAAAACAGTATCAACCAGTaa                                              <  2:151789/143‑1 (MQ=255)                                                                                          agagCTTCGGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGA‑CAAAAACAGTATCAACCAGTaaaa                                            <  1:35933/143‑1 (MQ=255)                                                                                               ttCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGA‑CAAAAACAGTATCAACCAGTAAAAAAccc                                       >  1:389469/1‑143 (MQ=255)                                                                                               ttCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACAAGCGGCTAGGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGA‑CCAAAACAGGATCAACCAGAAAAAAAccc                                       >  2:43845/1‑143 (MQ=18)                                                                                                    tgCACAGGTCGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGA‑CAAAAACAGTATCAACCAGTAAAAAACCCCGTaa                                  <  1:558576/143‑1 (MQ=255)                                                                                                      cacaGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAAACGTGGACACGCGGCAAAGTGAGTAAACTCGCAGTCCGGGGGGACTCACATGG‑CAAAAACAGGATCACCCAGGAAAAAACCCCGGaacc                                >  2:337081/1‑141 (MQ=17)                                                                                                       acaGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGA‑CAAAAACAGTATCAACCAGTAAACAACCCCGTAAACa                               >  2:598486/1‑143 (MQ=255)                                                                                                        cctgACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAAGAGTGGACACGCTGCTAAGTGAGTAAGTTCTCAGTCAGAGGCGACTCACACGACCAACAACAG‑CTCAACCAGCACAAATGCCCTTaacccg                              >  2:114055/4‑139 (MQ=12)                                                                                                            aCGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGA‑CAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCAtt                          >  1:141132/1‑143 (MQ=255)                                                                                                              gTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGA‑CAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCAtcag                        >  1:591738/1‑140 (MQ=255)                                                                                                               ttGCCGGCGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGA‑CAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGc                       <  2:512411/143‑1 (MQ=255)                                                                                                                   cgcgGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGA‑CAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGa                   >  1:386002/1‑143 (MQ=255)                                                                                                                         taCAGGCTCAACCGTAATCGGAACCAACCCAGCAATAGTGGACACGCGGCTAAGCGAGTAAACTCTCAGTCAGAGGTGACTCACATGA‑CAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCg             <  1:747/142‑1 (MQ=11)                                                                                                                                    ccGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGA‑CAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTGAAGccc  >  1:50829/1‑143 (MQ=31)                                                                                                                                            |                                                                                                                                        AGATCGCAGAAATTAAAGCTAAGTTCGGACTGAAAGGAGCAAGTGTATGACGGGCAAAGAGGCAATTATTCATTACCTGGGGACGCATAAGAGCTTCTGTGCACAGGACGTTGCCGCGGTAACAGGCGCAACCGTAATCTGATCTTACCCAGCAATAGTGGACACGCGGCTAAGTGAGTAAACTCTCAGTCAGAGGTGACTCACATGA‑CAAAAACAGTATCAACCAGTAAAAAACCCCGTAAACAGCATTCGCCTGAATTTCGCAGTGAAGCCC  >  NC_000913/566638‑566911

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ 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.