New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	= 1397237	NA (NA)	51 (0.930)	41/282	0.4	92.8%	intergenic (+145/‑128)	insH1/ynaJ	IS5 transposase and trans‑activator/DUF2534 family putative inner membrane protein
	?	NC_000913_3_pae_tpiA	= 1755691	4 (0.070)					intergenic (‑550/‑7)	ydhZ/pykF	uncharacterized protein/pyruvate kinase I

ATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGGCGAAACTGAAG  >  NC_000913_3_pae_tpiA/1397102‑1397385                                                                                                                                        |                                                                                                                                                     aTAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCaa                                                                                                                                         <  1:628999/149‑1 (MQ=35)      gCCTTAAATGGGGATGCAACGGTCTAAATAGGCTGATTCAAGGCAGTTACGGGAGAAAAAATCGGCCCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGCAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGctt                                                                                                                                    >  2:888976/1‑147 (MQ=11)                           gTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTATAAATCCAGCTAaga                                                                                                               >  2:467161/1‑149 (MQ=255)                                aaTAGGCTGATTCAAGGCATTTACGGGAGAAACAATCGGCGCAAACATTAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAgaggtga                                                                                                          >  2:583865/1‑149 (MQ=255)                                     gCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGttt                                                                                                     >  2:483127/1‑149 (MQ=255)                                       tGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGCAATGACTTAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGtttta                                                                                                   >  1:441000/1‑148 (MQ=255)                                         aTTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCag                                                                                                 <  1:523215/149‑1 (MQ=255)                                                           agaAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAAt                                                                               <  1:419904/149‑1 (MQ=255)                                                           agaAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTACTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAag                                                                                                                <  1:487485/116‑1 (MQ=255)                                                           agaAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTACTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAag                                                                                                                >  2:487485/1‑116 (MQ=255)                                                                     ggCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTAt                                                                     <  2:538745/149‑1 (MQ=255)                                                                       cTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGGAATGTCAAGGTATTg                                                                   >  1:455553/1‑149 (MQ=255)                                                                        taaaaCATGAAGCAAGGAAATGACTGAGGCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGt                                                                  <  2:441000/147‑1 (MQ=255)                                                                          aaaCATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGACGCTTACCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGATTTTCAGAACAGACACCGGTGAATAGTCATGGTATTGtga                                                                >  2:406082/1‑147 (MQ=25)                                                                          aaaCATAAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCAGGGTATTGTTa                                                                >  2:381895/1‑149 (MQ=255)                                                                             cATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAAGCTTTCTGGGGATAGAACGGTGAAATGTCATGGTATTGTTACGt                                                             >  1:272119/1‑149 (MQ=25)                                                                                gaagaaATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTa                                                          <  1:509257/149‑1 (MQ=255)                                                                                 aagaaATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAg                                                         <  1:409464/149‑1 (MQ=255)                                                                                  agaaATGAAATGACTGAGGCAGCCGAGAAGAATTTCCCCGCCAACTCGCACCTTCACCAACTATTTAATTCGATGATTTTAAATCCAGCTAAGAGGTGAGGTTCTCAGAGCAGAAAACGATGCAATGTCATGGCATTGTTACGTGTAgg                                                        >  2:56747/1‑149 (MQ=21)                                                                                     aatgaaatgaCTGATTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTaa                                                     <  2:245875/149‑1 (MQ=255)                                                                                     aatgaaatgaCTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGaaa                                                                                >  2:65675/1‑122 (MQ=255)                                                                                     aatgaaatgaCTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGaaa                                                                                <  1:65675/122‑1 (MQ=255)                                                                                        gaaatgaCTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACaa                                                  <  1:860571/149‑1 (MQ=255)                                                                                              aCTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAAtt                                            <  2:873770/149‑1 (MQ=255)                                                                                               cTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAAttt                                           <  1:583865/149‑1 (MQ=255)                                                                                                   gTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCt                                       <  1:798663/149‑1 (MQ=255)                                                                                                    gcAGCCGAGAAGAATTTCCCCGCTTATTCGCACGTTCCCTAACTAAACAATGCGTTGATTGTAAGTCCTGCTAAGAGGGGAGGTTTTCAGAGCAGGCAACGATGAAATGTCAGGGTATTGTAACGTGTCTGTAAGAAGAAAttgctcgg                                      >  2:319331/2‑143 (MQ=25)                                                                                                      aGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGGGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGca                                    >  2:251834/1‑149 (MQ=255)                                                                                                       gCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTACTCCAGGCAGGGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGcac                                   <  1:570826/149‑1 (MQ=38)                                                                                                         cGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACaa                                 <  2:437466/149‑1 (MQ=255)                                                                                                          gagaAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAg                                <  1:125744/149‑1 (MQ=255)                                                                                                               gaaTTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTa                           >  2:346839/1‑149 (MQ=255)                                                                                                                  tttCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTAcat                        >  1:934910/1‑149 (MQ=255)                                                                                                                      cccGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACCGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTATCTGCACAAGGATTACATCATg                    >  2:588425/1‑149 (MQ=255)                                                                                                                        tccTTATTCGAACCTTCGCTAACTAATTCATGCCTTGATTGTAAATCCCGCTAAGAGGTGAGGTTTTCAGAGCAGACATTGGTGAAATGTCATGGTATTGTTACTTTTAGGTAACAAGAAATTTGTCTGGACAAGGATTACATCATGAt                  <  2:241836/147‑1 (MQ=255)                                                                                                                           ttATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTAt               >  2:503744/1‑149 (MQ=255)                                                                                                                              ttCGCCGCTTCCCTAACGAAGCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGGc            <  2:241710/149‑1 (MQ=255)                                                                                                                                 gCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGGCGaa         >  2:372153/1‑149 (MQ=255)                                                                                                                                        cccTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGGCGAAACTGAAg  <  1:483127/149‑1 (MQ=255)                                                                                                                                        |                                                                                                                                                     ATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGGCGAAACTGAAG  >  NC_000913_3_pae_tpiA/1397102‑1397385

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ 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.