New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	1473285 =	48 (1.300)	4 (0.110)	3/274	5.3	7.7%	pseudogene (2769/3497 nt)	ydbA	pseudogene, autotransporter homolog; interrupted by IS2 and IS30
	?	NC_000913	1473342 =	49 (1.380)					pseudogene (2826/3497 nt)	ydbA	pseudogene, autotransporter homolog; interrupted by IS2 and IS30
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

GCGTTCAACGTTGTCGCGAAAGGCGATCCGCGTGCCGAGTTAGGTAATAATACCGAATACGACATGCTGGCATTGCGTAAAACTATCGACCTGAGCGAAAGCCAGACGATGAGTCTGGAGTACGGTATCGCTCGTCTCGATGGTGATGGTGCGCAGAAAGCGGGTGATAATGGCGTTACAGGCGGTTATAGCCAGTTTTTTGGCCTGA‑AACATCAGATGTCGTTCGATAACGGCATGAACTGGAATAACGCCTTGCGTTACGACGTTCACAACCTTGACAGC  >  NC_000913/1473201‑1473482                                                                                                                                              |                                                                                                                                              gctttCAACGTTGTCGCGAAAGGCGATCCGCGTGCCGAGTTAGGTAATAATACCAAATACGACATGCTGGCATTGCGTAAAACTATCGACCTGAGCGAAAGCCAGACGATGAGTCTGGAGGACGGTGTCGCTCGTCTCgatgg                                                                                                                                              >  1:351198/4‑143 (MQ=255)   gTTCAACGTTGTCGCGAAAGGCGATCCGCGTGCCGAGTTAGGTAATAATACCGAATACGACATGCTGGCATTGCGTAAAACTACCGACCTGAGCGAAAGCCAGACGATGAGTCTGGAGTACGGTATCGCTCGTCGCgacgggg                                                                                                                                            >  2:331864/1‑141 (MQ=255)      cAACGTTGTCGCGAAAGGCGATCCGCGTGCCGAGTTAGGTAATTATTCCGAATACGACATGCTGGCATTGCGTAAAACTATCGACCTGAGCGAAAGCCAGACGATGAGTCTGGAGTACGGTATCGCTCGTCTCgatggtgatg                                                                                                                                         <  1:457333/143‑1 (MQ=255)               cgcgAAAGGCGATCCGCGTGCCGAGTTAGGTAATAATACCGAATACGACATGCTGGCATTGCGTAAAACTATCGACCTGAGCGAAAGCCAGACGATGAGTCTGGAGTACGGTATCGCTCGTCTCGATGGTGATGGTGCGCAGa                                                                                                                                >  2:371034/1‑143 (MQ=255)                     ggggtagccGCGTGCCGCGTTGGGTACGAATGCCGAAAACGCCATGCTGGCGTTGCGTAAGACGATCGACCTGAGCGAAAGCCAGACGATGGGTCTGGAGTACGGTATCGCTCGTCTCGATGGTGATGGTGCGCAGAAAGCgg                                                                                                                          <  2:651617/136‑1 (MQ=255)                     aggggggccGCGGGCCGAGTGAGGTAATAATACCGAATACGACATGCTGGCATTGCGTAAAACTATCGACCTGAGCGAAAGCCAGCCGATGAGTCTGGAGTACGGTATCGCTCGTCTCGATGGTGATGGTGCGCAGAAAGCgg                                                                                                                          <  2:160752/136‑1 (MQ=255)                     aGGCGATCCGCGGGCCGAGTTAGGTAATAATACCGAATACGACATGCTGGCATTGCGTAAAACTATCGACCTGAGCGAAAGCCAGACGATGAGTCTGGAGTACGGTATCGCTCGTCTCGATGGTGATGGTGCGCAGAAAGCgg                                                                                                                          <  1:625423/143‑1 (MQ=255)                       gCGATCCGCGTGCCGAGTTAGGTAATCATACCGAATACGACATGCTGGCTTTGCGTAGAACTATAGACCTGAGGGCAAGCCAGACGATGAGTCTGGAGTACGGTATCGCTCGTCTCGATGGTGGTGGTGCGCGGCACGCGGGt                                                                                                                        >  1:626088/1‑143 (MQ=255)                          aTCCGCGTGCCGAGTTAGGTAATAATACCGAATACGACATGCTGGCATTGCGTAAAACTATCGACCTGAGCGAAAGCCAGACGATGAGTCTGGAGTACGGTATCGCTCGTCTCGATGGTGATGGTGGGCGGAAAGCGGGTGAt                                                                                                                     >  2:34240/1‑143 (MQ=255)                          aTCCGCGTGCCGAGTTAGGTAATAATACCGAATACGACATGCTGGCATTGCGTAAAACTATCGACCTGAGCGAAAGCCAGACGATGAGTCTGGAGTACGGTATCGCCCGTCTCGAAGGTCACGGTGCGCAGAAAGCcggacat                                                                                                                     >  2:221987/1‑139 (MQ=255)                           tCCGCGTGCCGAGTTAGGTAATAATACCGAATACGACATGCTGGCATTGCGTAAAACTATCGACCAGAGCGAAAACCAGACGATGAGTATGGAGTCCGGTATGGCCCGTGTCGATGGTGATGGTGAGCAGAAAGCGGGGGATa                                                                                                                    >  2:390182/1‑143 (MQ=255)                           tCCGCGTGCCGAGTTAGGTAATAATAACGAATACGACATGCTGGCATTGCGTAAAACTAACGACCTGAGCGAAAGCCAGACGATGAGACTGGAGTACGGCATCGAACGTCGCGATGGTGACGGGGCGCAGAAAGAGGGTggga                                                                                                                    >  2:357363/1‑140 (MQ=255)                           tCCGCGTGCAGAGTTAGGTAATAATACCGAATACGACATGCTGGCATTGAGTAAAACTATGGACCTGAGGGAAAGCGAGACGATGAGTATGGAGTACGGTATGGCTGGTCTCGATGGGGATGGTGAGAAGACAGAGGGGGAtt                                                                                                                    >  1:378251/1‑142 (MQ=255)                            ccGCGTGCCGAGTTAGGTAATAATACCGAATACGACATGCTGGCATTGCGTAAAACTATCGACCTGAGCGAAAGCCAGACGATGAGAGTGGAGTACGGTATCGCGCGTCTCGATGGTGAGGGTGCGAAGAAAGCGGGTGAtga                                                                                                                   >  1:16066/1‑141 (MQ=255)                             cgcggtccGAGGTAGGTAATAATACCGAATACGACATGCTGGCATTGCGTAAAACTATCGACCTGAGCGAAAGCCAGACGATGAGTCTGGAGTACGGTATCGCTCGTCTCGATGGTGATGGTGCGCAGAAAGCGGGTGATAAt                                                                                                                  <  1:276066/137‑1 (MQ=255)                                 tGCCGAGTTAGGTAATAATACCGAATACGACATGCTGGCATTGCGTAAAACTATCGACCTGAGCGAAAGCCCGACGATGAGTCTGCAGTACGGTATCGCCCACCTCGATGGTGAGGGGGCGCAGACACCGCGGGATAATGGCg                                                                                                              >  2:64899/1‑143 (MQ=255)                                                taataCCGAATACGACATGCTGGCATTGCGTAAAACTATCGACCTGAGCGAAAGCCAGACGATGAGTCTGGAGTACGGTATCGCTGGTCTCGATGGTGGTGGTGCGCAGAAAGCGGGTGATCATCGCGTTACAGGCGGTtatg                                                                                               >  1:630232/1‑142 (MQ=255)                                                  ataCCGCATACGACAGGCTGGCACCGCGTAAGGCCATCGACCGTACCGAAAGCCAGGCGATGAGTCTGGAGCACGGTATCGCTCGTCTCGATGGTGATGGTGCGCAGAAAGCGGGTGATAATGGCGTTACAGGCGGTTATAGc                                                                                             <  2:279777/143‑1 (MQ=255)                                                   taCCGAATACGACATGCTGGCATTGCGTAAAACTATCGACCTGAGCGAAAGCCAGACGATGAGTCTGGAGTACGGTATCGCTCGTCTCGAAGGCAGCGGGCCGCAGAACGCGGGAGAGAATGGCGTTACAGGCGGtgcgagcc                                                                                            >  2:505876/1‑136 (MQ=255)                                                             gACATGCTGGCATTGCGTAAAACTATCGACCTGAGCGAAAGCCAGACGATGAGTCTGGAGTACGGTATCGCTCGTCTCGATGGTGATGGTGCGCAGAAAGCGGGTGATAATGGCGTTACCGGCGTTTCTAGCCAGTTTTTTgg                                                                                  >  1:334795/1‑143 (MQ=255)                                                               cATGCTGGCATTGCGTAAAACTTTCGACCTTAGCGAAAGCCAGACGATGAGTCTGGAGTACGGTATCGCTCGTCTCGATGGTGATGGTGCGCAGAAAGCGGGTGATAATGGCGTTACAGGCGGTTATAGCCAGTTTTTTGGcc                                                                                >  1:479526/1‑143 (MQ=255)                                                                    tGGCATTGCGTAAAACTATCGACCTGAGCGAAAGCCAGACGATGAGTCTGGAGTACGGTATCGCTCGTCTCGATGGTGATGGTGTGCAGAAAGCGGGTGATAATGGCGTTACAGGCGGTTATAGCCAGTTTTTTGGCCTGa‑aa                                                                          >  1:375926/1‑143 (MQ=255)                                                                    tGGCATTGCGTAAAACTATCGACCTGAGCGAAAGCCAGACGATGAGTCTGGAGTACGGTATCGCTCGTCTCGATGGTGATGGTGCGCAGAAAGCGGGTGATAATGGCGTTACAGGCGGGTATAGCCAGTGTTTTGGCCTGaca                                                                           >  1:29806/1‑141 (MQ=255)                                                                          tGCGTAAAACTATCGACCTGAGCGAAAGCCAGACGATGAGTCTGGAGTACGGTATCGCTCGTCTCGATGGTGATGGTGCGCAGAAAGCGGGTGATAATGGCGTTACAGGCGGTTATAGCCAGTTTTTTGGCCTGA‑AACATCAg                                                                    <  1:331864/143‑1 (MQ=255)                                                                             gTAAAACTATCGACCTGAGCGAAAGCCAGACGATGAGTCTGGAGTACGGTATCGCTCGTCTCGATGGTGATGGTGCGCAGAAAGCGGGTGATAATGGCGTTACAGGCGGTTTTAGCCGGTTTTTTGGCCTGA‑AACATCAGATg                                                                 >  1:170440/1‑143 (MQ=255)                                                                              tAAAACTATCGACCTGAGCGAAAGCCAGACGATGAGTCTGGAGTACGGTATCGCTCGTCTCGATGGTGATGGTGCGCAGAAAGCGGGTGATAATGGCGTTACAGGCGGTTATAGCCAGTTTTTTGGCCTGA‑AACATCAGATGt                                                                >  1:297067/1‑143 (MQ=255)                                                                              tAAAACTATCGACCTGAGCGAAAGCCAGACGATGAGTCTGGAGTACGGTATCGCTCGTCTCGATGGTGATGGTGCGCAGAAAGCGGGTGATAATAGCGTTACAGGCGGTTATAGCCAGTTTTTTGGCCTGA‑AACATCAGATGt                                                                >  1:297069/1‑143 (MQ=255)                                                                                      tCGACCTGAGCGAAAGCCAGACGATGAGTCTGGAGTACGGTATCGCTCGTCTCGATGGTGATGGTGCGCAGAAAGCGGGTGATAATGGCGTTACAGGCGGTTATAGCCAGTTTTTTGGCCTGA‑AACATCAGATGTCGTTCGAt                                                        >  1:645780/1‑143 (MQ=255)                                                                                                 gAAAGGCAGACGATGAGGCGGGAGTACGGTATCGCTCGTCTCGATGGTGATGGTGCGCAGAAAGCGGGTGATAATGGCGTTACAGGCGGTTATAGCCAGTTTTTTGGCCTGA‑AACATCAGATGTCGTTCGATAACGGCATGaa                                             <  1:61174/143‑1 (MQ=255)                                                                                                   aaGCCAGACGAGGGGCCGGGAGTACGGGATCGCTCGTCTCGCTGGTGATGGTGCGCAGAAAGCGGGTGATAATGGCGTTACAGGCGGTTATGGCCAGTTTTTTGGCCTGA‑CACATCAGATGTCGTTCGATAACGGCATGAACt                                           <  2:352871/143‑1 (MQ=255)                                                                                                     gCCAGACGATGAGTCTGGAGTACGGTATCGCTCGTCTCGACGGTGAGGGTGCGCAGAAAGCGGGTGATAACGGCGTGACAGGCGGATCTAGCCAGTGTTTTGGCCTGA‑AACATTACGTATTGTTCTATAACGTCACGAACggg                                         >  2:293905/1‑143 (MQ=255)                                                                                                      ccAGACGATGAGTCTGGAGTACGGTATCGCTCGTCTCGATGGTGATGGTGCGCAGAAAGCGGGTGATAATGGCGTTACAGGCGGTTATAGCCa                                                                                           <  1:500636/93‑1 (MQ=255)                                                                                                      ccAGACGATGAGTCTGGAGTACGGTATCGCTCGTCTCGATGGTGATGGTGCGCAGAAAGCGGGTGATAATGGCGTTACAGGCGGTTATAGCCa                                                                                           >  2:500636/1‑93 (MQ=255)                                                                                                          actcatcgTCTGGAGTACGGTATCGCTCGTCTCGATGGTGATGGTGCGCAGAAAGCGGGTGATAATGGCGTTACAGGCGGTTATAGCCAGGTGTTTGGCGTGA‑AACATGAGATGTCGTTGTATAACGGCCTGAACTGGAATaa                                    >  2:336164/8‑143 (MQ=255)                                                                                                                  tCTGGAGTACGGTATCGCTCGTCTCGATGGTGATGGTGCGCAGAAAGCGGGTGATAATGGCGTTACAGGCGGTTATAGCCAGTTTTTTGGCCTGA‑AACATCAGATGTCGTTCGATAACGGCATGAACTGAAATAACGACTTGc                            >  1:506282/1‑143 (MQ=255)                                                                                                                   cTGGAGTACGGTATCGCTCGTCTCGAGGGTGATGGTGCGCAGAAAGCGGGTGATAATGGCGTTACAGGCGGTTATAGCCAGTTTTTTGGCCTGA‑AACCTCAGATGCCCTGCGATAACGGCCTCATCTGGATTTACCCCttccc                           >  1:63922/1‑140 (MQ=255)                                                                                                                      gAGTACGGTATCGCTCGTCTCGATGGTGATGGTGCGCAGAAAGCGGGTGATAATGGCGTTACAGGCGGTTATAGCCAGTTTTTTGGCCTGA‑AACATCAGATGTCGTTCGATAACGGCATGAACTGGAATAACGCCTTGCGTTa                        <  1:507182/143‑1 (MQ=255)                                                                                                                         tACGGTATCGCTCGTCTCGATGGTGATGGTGCGCAGAAAGCGGGTGATAATGGCGTTACAGGCGGGTATAGCCAGTTTTTTGGCCTGA‑ACACTGTGTTGGTGGCCGCCAATGGCATGAATCGGAATAACGCCTTGCGTTaaga                     >  1:307395/1‑143 (MQ=255)                                                                                                                           cGGTCTCGCGCGTCTCGGTGGTGATGGTGCGCAGACAGGGGTTGATAATGGCGTTACAGGCGGTTATAACCAGTTTTTTGGCCTGA‑AACATCAGATGTCGTTCGATAACGGCATGAACTGGAATAACTCCTTGCGTTacgacg                   <  2:180101/143‑1 (MQ=255)                                                                                                                           cGGTATCGCTCGTCTCGATGGTGATGGTGCGCAGAAAGCGGGTGATAATGGCGTTACAGGCGGTTCTAGCCAGTTTTTT‑GCATAACGCCGGCATAAGTGGTTTGATAACGGCATGAACTGGAATAACGCCTTGCGTTacgacg                   >  1:491188/1‑143 (MQ=255)                                                                                                                           cGGTATCGCGCGGCTCGATGGGGATGGTGCGCAGAAAGCGGGTGATAATGGCGTTACAGGCGGTTATAGCCAGTTTTTTGGCCTGA‑AACATCAGATGTCGTTCGATAACGGCATGAACTGGAATAACGCCTTGCGTAacgacg                   <  1:146480/143‑1 (MQ=255)                                                                                                                             gTATCGCTCGTCTCGATGGTGATGGTGCGCAGAAAGCGGGTGATAATGGCGTTACAGGCGGTTATAGCCAGTTTTTTGGCCTGA‑AACATCAGATGTCGTTCGATAACGGCATGAACTGGAATAACGCCTTGCGTTACGACGtt                 <  1:546016/143‑1 (MQ=255)                                                                                                                             gTATCGCTCGTCTCGATGGTGATGGTGCGCAGAAAGCGGGTGATAATGGCGTTACAGGCGGTTATAGCCAGTTTTTTGGCCTGA‑AACATCAGATGTCGTTCGATAACGGCATGAACTGGAATAACGCCTTGCGTTACGACGtt                 <  1:370443/143‑1 (MQ=255)                                                                                                                             gTATCGCTCGTCTCGAGGGTGATGGTGCGCAGAAAGCGGGTGATAATGGCGTTACAGGCGGTTATAGCCAGTTTTTTGGCCTGA‑AACATCAGATGTCGTTCGATAACGGCATGAACTGGAATAACGCCTTGCGTTACGACGtt                 <  1:412144/143‑1 (MQ=255)                                                                                                                             gTAGCGCTTGTCTCGATGGCGCTGGTGCGCAGAAAGCGGGTGGTGGTGGAGAGTCATGCCGATCAACTGATGTTCCTTGCCTGA‑AACATCAGATGTCGTTCGATAACGGCATGAACTGGAATAACGCCTTGCGTTACGACGtt                 <  2:656491/143‑1 (MQ=255)                                                                                                                             gTAGCGCTCGTCGCGATGGTGATGGTGCGCAGAAAGCGGGTGATAATGGCGTTACAGGCGGTTATAGCCAGTTATTTGGCCTGA‑AACATCAGATGTCGTTCGATAACGGCATGAACTGGAATAACGCCTTGCGTTACGACGtt                 <  2:8653/143‑1 (MQ=255)                                                                                                                                tCGCGCGTCTCGATGGTGATGGTGCGCAGAAAGCGGGTGATCATGGCGTTACAGGCGGTTATAGCCAGTTTTTTGGCCTGA‑AACATCAGATGTCGTTCGATAACGGCATGAACTGGAATAACGCCTTGCGTTACGACGTTcac              <  1:403814/143‑1 (MQ=255)                                                                                                                                 cGCTCGTCTCGATGGTGATGGTGCGCAGAAAGCGGGTGATAATGGCGTTACAGGCGGTTATAGCCAGTTTTTTGGCCTGA‑AACATCAGATGTCGTTCGATAACGGCATGAACTGGAATAACGCCTTGCGTTAAGACGTTcaca             >  1:492989/1‑143 (MQ=255)                                                                                                                                  gCTCGGGTCGATGGTGAGGGTGCGCAGAAAGTGGGTGATGATGGCGTGACAGGCGGTTATAGCCAGTTTTTTGGCCTGA‑AACATCAGATGTCGTTCGATAACGGCATGAACTGGAATAACGCCTTGCGTTACGACGTTCACaa            <  2:346585/143‑1 (MQ=255)                                                                                                                                      gTCTCGATGGTGATGGTGCGCAGATCGTGGGTGATAAAACCGGTACAGGCGGTTATAGCCAGTTTTTTGGCCTGA‑AACATCAGATGTCGTTCGATAACGGCATGAACTGGAATAACGCCTTGCGTTACGACGTTCACAACCtt        <  1:522834/143‑1 (MQ=255)                                                                                                                                        cgtgagggtggtggtgCGGAGAAAGCGGGAGATAATGGCGGTACAGGCGGTTATAGCCAGTTTTTTGGCCTGA‑AACATCAGATGTCGTTCGATAACGGCATGAACTGGAACAACGCCTTGCGTTACGACGTTCACAACCTTGa      <  1:129504/137‑1 (MQ=255)                                                                                                                                           gatggtgatgggGCGCAGAAAGCGGGTGATAATGGCGTTACAGGCGGTTATAGCCAGTTTTTTGGCCTGA‑AACATCAGATGTCGTTCGATAACGGCATGAACTGGAATAACGCCTTGCGTTACGACGTTCACAACCTTGAcag   <  1:194168/143‑1 (MQ=255)                                                                                                                                            agggtggtggtgCGCGGTACGCGGGTGATAATGGCGTTACGGGCGGTTATAGCCAGTTTTTTGGCCTGA‑AACATCAGATGGCGTTCGATAACGGCATGAACTGGAATAACGCCTTGCGTTACGACGTTCACAACCTTGAcagc  <  2:551890/141‑1 (MQ=255)                                                                                                                                              |                                                                                                                                              GCGTTCAACGTTGTCGCGAAAGGCGATCCGCGTGCCGAGTTAGGTAATAATACCGAATACGACATGCTGGCATTGCGTAAAACTATCGACCTGAGCGAAAGCCAGACGATGAGTCTGGAGTACGGTATCGCTCGTCTCGATGGTGATGGTGCGCAGAAAGCGGGTGATAATGGCGTTACAGGCGGTTATAGCCAGTTTTTTGGCCTGA‑AACATCAGATGTCGTTCGATAACGGCATGAACTGGAATAACGCCTTGCGTTACGACGTTCACAACCTTGACAGC  >  NC_000913/1473201‑1473482

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.