New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	= 227052	55 (0.670)	12 (0.150)	10/272	5.1	18.6%	noncoding (1294/2904 nt)	rrlH	23S ribosomal RNA of rrnH operon
	?	NC_000913_3_pae_tpiA	2727910 =	NA (NA)					noncoding (1275/2904 nt)	rrlG	23S ribosomal RNA of rrnG operon
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

GCACCGAAGCTGCGGCAGCGACGCTTATGCGTTGTTGGGTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGTACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAGGGTGAGTCGACCCCTAAGGCGAGGCCGAAAGGCGTAGTCG  >  NC_000913_3_pae_tpiA/226907‑227135                                                                                                                                                  |                                                                                    gCACCGAAGCTGCGGCAGCCACGCTTATGCGTTGTTGGGTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGTACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGc                                                                                  <  2:1444214/149‑1 (MQ=38)   aCCGAAGCTGCGGCAGCGACGCTTATGCGTTGTTGGGTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGTACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCg                                                                                >  1:76743/1‑149 (MQ=38)      gAAGGTGCAGCAGCGACGCTTATGCGTTGTTGGGTAGGGGAGCGTTCTATAAGCCTGTGAAGGCGTCCTGTGAGGTATGCTGGAGGAATCAGAAGTGCGTATGCTGACATAAGTAACGAGAAAGCGGGTGAACACCCCGCTCGCCGGaa                                                                             <  2:1306009/149‑1 (MQ=11)             cGGCAGCGACGCTTATGCGTTGTTGGGTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGTACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAg                                                                      <  2:735788/149‑1 (MQ=38)                 aGCGACGCTTATGCGTTGTTGGGTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGTACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGtt                                                                  >  2:266676/1‑149 (MQ=38)                 aGCGACGCTTATGCGTTGTTGGGTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGTACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGtt                                                                  <  2:1195226/149‑1 (MQ=38)                  gCGACGCTTATGCGTTGTTGGGTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGTACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTc                                                                 <  2:810903/149‑1 (MQ=38)                    gACGCTTATGCGTTGTTGGGTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGTACTGTGAGGTATGCTGGCGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCt                                                               >  2:339405/1‑149 (MQ=38)                    gACGCTTATGCGTTGTTGGGTAGGGGAGCGTTCTGTAAGCCTGTCAAGGGGTACCGTGGGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACAGAAGTAACGATAAAGCGGGGGAAAAGCCCGCGCGCCGGAAGGCCAAGGGTTcat                                                               >  2:1326957/1‑147 (MQ=11)                     aCGCTTATGCGTTGTTGGGTAGGGGAGCGTTCTGTAAGCCGGTGAAGGTGTACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTg                                                              <  1:149235/149‑1 (MQ=38)                       gCTTATGCGTTGTTGGGTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGTACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAgg                                                                     <  2:518375/140‑1 (MQ=39)                       gCTTATGCGTTGTTGGGTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGTACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAgg                                                                     >  1:518375/1‑140 (MQ=39)                         ttATGCGTTGTTGGGTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGTACTGTGTGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCa                                                          >  1:944603/1‑149 (MQ=38)                         ttATGCGTTGTTGGGTAGGAGAGCGTTCTGTAAGCCTGTGAAGGTGTACTGGGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCa                                                          <  1:692994/149‑1 (MQ=255)                          caggCGTTGTTGGGTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGTACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCaa                                                         <  1:848593/146‑1 (MQ=25)                             gCGTTGTTGGGTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGTACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGt                                                      >  1:1005729/1‑149 (MQ=37)                             gCGTTGTTGGGTAGGGGAGCGTTCTGTAAGCCTGTGAAGGCGTACTGTGAGGTAAGCTGGAGGTATCAGCAGTGCGAATGCTGACATACATACCGATAAAGCGGGTGAACAGCGCACTCGCCGGAAGACAAAGGGTTCCTGTCCAACGt                                                      >  2:412067/1‑149 (MQ=11)                               gttgttGGGTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGTACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGAAAATGAATTATGAGAGCCCGCTAGCCGGAAGACCAAGGGTTCCTGTCCAACGTTa                                                    >  1:691720/1‑149 (MQ=11)                                   ttgGGTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGTACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCg                                                <  1:609226/149‑1 (MQ=34)                                    tgGGTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGTACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCgg                                               <  1:5163/149‑1 (MQ=34)                                    tgGGTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGTACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCgg                                               <  2:547245/149‑1 (MQ=35)                                     gggTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGTACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCggg                                              >  1:1233279/1‑149 (MQ=35)                                      ggTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGTACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCgggg                                             <  1:1050518/149‑1 (MQ=35)                                           gggAGCGTTCTGTAAGCCTGTGAAGGTGTACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATACGTAACGAGAAAGCGGGTGAAAAGCCCGCGCGCCGGAAGACACAGGGTTCATAGCCAAGGTTAATCGGGGCAggg                                        >  2:362015/1‑149 (MQ=11)                                           gggAGCGTTCTGTAAGCCTGTGAAGGTGTACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAggg                                        <  1:1360870/149‑1 (MQ=35)                                            ggAGCGTTCTGTAAGCCTGTGAAGGTGTACTATGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTcc                                                                >  2:678327/1‑124 (MQ=25)                                            ggAGCGTTCTGTAAGCCTGTGAAGGTGGACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTcc                                                                <  1:678327/124‑1 (MQ=25)                                            ggAGCCTCCTGTAAGCCTGTGGAGGTGGACTGTGAGGTATGCTGGAGCTATCAGAAGTGCGAATGCTGACATAAGTAACGATAACGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAGGGt                                       <  2:441817/149‑1 (MQ=11)                                             gAGTGTTGTGTAAGCGTGTGGAGGTGGAGTGGGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGATATACCGGTCTTGTCCAACGTTAATCGGGGCAGGGTg                                      <  2:675682/149‑1 (MQ=11)                                             gAGCGTTCTGTAAGCCTGTCAAGCTGTACTGTGAGGTATGCCGAAGGTAACAGACGTGAGAATGCTGACATAAGTAACGATAAAGCGGCTGAAAAGCCCGCTCGCCAGAAGACCAAGGGTTACCGCCCACCGTTAAGCGgcgccgcctc                                      >  2:180660/1‑143 (MQ=11)                                              aGCGTTCTGTAAGCCTGTGAAGGTGTACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAGGGTGa                                     <  2:520315/149‑1 (MQ=34)                                                cGTTCTGTAAGCCTGTGAAGGTGTACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAGGGTGAGt                                   >  1:1207239/1‑149 (MQ=35)                                                cGTTCTGTAAGCCTGTGAAGGTGCACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAGGGTGAGt                                   <  1:1195135/149‑1 (MQ=21)                                                  ttCTGTAAGCCTGTGAAGGTGTACTGTGAGGTATGCCGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCGCCTCGCCGGAAGACCAAGGGTTACTGTCCAACGTTCATCGGGGCAGGGTCAGTCg                                 >  2:202202/1‑149 (MQ=11)                                                    cTGTAAGCCTGTGAAGGTGTACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAGGGTGAGTCGAc                               <  1:1366261/149‑1 (MQ=35)                                                     tGTAAGCCTGTGAAGGTGTACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGAATGGTGACATAAGTAACGATAAAGCGGGTGAAAAGCCGGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTCATCGGGGCAGGGGGGGTCGAcc                              >  2:486809/1‑149 (MQ=11)                                                       tAAGCCTGTGAAGGTGTACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGACTGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCGAACGTTAATCGGGGCAGGGTGAGGCGAcccc                            >  2:983407/1‑149 (MQ=255)                                                       tAAGCCTGGGAAGGTGTACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAGGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAGTCGGGGCAAGGCGAGTCGCcccc                            >  2:844188/1‑149 (MQ=11)                                                         aGCCTGTGAAGGTGTACTGTGAGGTATGCTGGAGGTATCAGCAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGAGCAAGGGTTCCTGTCCAACGTTAATCGGGGCAGGGTGAGTCGACCCCTa                          >  2:1176934/1‑149 (MQ=25)                                                         aGCCTGTGAAGGTGTACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCTGGTGAAAAGCCCGCTCGCCGGAAGACCAAGCGTTCCTGTCCAACGTTACTCAGGGCAGCGTGAGTCGACCCCTa                          >  2:226360/1‑149 (MQ=11)                                                           ccTGTGAAGGTGTACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAGGGTGAGTCGACCCCTAAg                        <  1:803953/149‑1 (MQ=34)                                                            cTGTGAAGGTGTACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCGGGAGGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAGGGGGGGTCGCCCCCTAAgg                       >  2:378470/1‑149 (MQ=11)                                                             tgttAAGGTGTACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTTACATAAGTAACGATAAATCGTGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAGGGTGAGTCGACCCCTAAGGc                      <  1:1019768/149‑1 (MQ=255)                                                              gtgAAGGTGTACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTACAGCTAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAGGGTGAGTCGACCCCTAAGGCg                     >  1:1065191/1‑149 (MQ=255)                                                                   ggTGTACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAGGGGGAGTCGACCCCTAAGGCGAGGcc                >  1:841738/1‑149 (MQ=25)                                                                        aacgggAGGTATGCTGGAGGTATCAGAAGTGCGAGTGCTGACATAAGTAACGACAAAGCGGGTGAAAAGCCCCCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAGGGTGAGTCGACCCCTAAGGCGAGGCCGAAAg           <  2:387653/144‑1 (MQ=255)                                                                          tgtgAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGTGGCAGGGTGAGTCGAccc                             <  1:386415/129‑1 (MQ=17)                                                                          tgtgAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGTGGCAGGGTGAGTCGAccc                             >  2:386415/1‑129 (MQ=18)                                                                          tgtgAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAGGGTGAGTCGACCCCTAAGGCGAGGCCGAAAGGc         >  1:1434630/1‑149 (MQ=32)                                                                           gtgAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCCCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAGGGTGAGGCGACCCCTAAGGCGAGGCCGAAAGGCg        >  2:1316615/1‑149 (MQ=17)                                                                            tgAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAACGGTTCCTGTCCAACGTTAATCGGGGCAGAGTGAGTCGACCCCTAAGGCGAGGCCGAAAGGCGt       >  1:1282496/1‑149 (MQ=17)                                                                              aGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAGGGTGAGTc                                  <  2:445363/120‑1 (MQ=33)                                                                              aGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAGGGTGAGTc                                  >  1:445363/1‑120 (MQ=32)                                                                                gTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAGGGTGAGTCGACCCCTAAGGCGAGGCCGAAAGGCGTAGTc   >  1:960695/1‑149 (MQ=31)                                                                                 tATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGGTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAGGGTGAGTCGACCCCTAAGGCGAGGCCGAAAGGCGTAGTCg  >  2:64367/1‑149 (MQ=11)                                                                                                                                                  |                                                                                    GCACCGAAGCTGCGGCAGCGACGCTTATGCGTTGTTGGGTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGTACTGTGAGGTATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAGGGTGAGTCGACCCCTAAGGCGAGGCCGAAAGGCGTAGTCG  >  NC_000913_3_pae_tpiA/226907‑227135

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