New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	= 4153544	70 (2.490)	3 (0.130) +CTACAGTGACTCAAACGATGCCCAAC	3/234	3.4	5.0%	noncoding (282/346 nt)	REP309 (repetitive extragenic palindromic) element; contains 6 REP sequences	REP309 (repetitive extragenic palindromic) element; contains 6 REP sequences
	?	NC_000913_3_pae_tpiA	= 4153609	NA (NA)					intergenic (‑595/+3)	ppc/argE	phosphoenolpyruvate carboxylase/acetylornithine deacetylase
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

AGCGCCTTATCCGGCCTACGGTTGGGCATCGTTTGAGTCACTGTAGGTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTGGGCTTGATAAACCGTGTTTCCAGATATTCATCAGGTTGATGAGCCTGATTAATTGAGCCAGGCCCCAACACCAGCGTCGGGCATAACGTTTGAA  >  NC_000913_3_pae_tpiA/4153467‑4153754                                                                                                                                               |                                                                                                                                                  aGCGCCTTATCCGGCCTACGGTTGGGCATCGTTTGAGTCACTGTAGGTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTaa                                                                                                                                             <  1:323816/149‑1 (MQ=255)  gcgcCTTATCCGGCCTACGGTTGGGCATCGTTTGAGTCACTGTAGGTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAAt                                                                                                                                            <  2:186594/149‑1 (MQ=255)     ccTTATCCGGCCTACGGTTGGGCATCGTTTGAGTCACTGTAGGTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGcc                                                                                                                                         >  2:137262/1‑149 (MQ=255)      cTTATCCGGCCTACGGTTGGGCATCGTTTGAGTCACTGTAGGTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCa                                                                                                                                        >  1:171111/1‑149 (MQ=255)            cGGCCTACGGTTGGGCATCGTTTGAGTCACTGTAGGTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCaaaa                                                                                                                                  <  1:463272/149‑1 (MQ=255)              gCCTACGGTTGGGCATCGTTTGAGTCACTGTAGGTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGGGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAAt                                                                                                                                <  1:106437/149‑1 (MQ=255)                cTACGGTTTGGCATCGTTTGAGTCACTGTAGGTCGGATAAGATGCGCAAGTATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATgg                                                                                                                              <  2:280581/149‑1 (MQ=255)                cTACGGTTGGGCATCGTTTGAGTCACTGTAGGTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATg                                                                                                                               >  1:457119/1‑148 (MQ=255)                cTACGGTTGGGCATCGTTTGAGTCACTGTAGGTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATg                                                                                                                               <  2:457119/148‑1 (MQ=255)                 tgccgTTGGGCATCGTTTGAGTCACTGTAGGTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGt                                                                                                                             <  1:12740/145‑1 (MQ=255)                          gCATCGTTTGAGTCACTGTAGGTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGAAGCGCAAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCt                                                                                                                    >  1:486712/1‑149 (MQ=255)                            aTCGTTTCATTCACTGTAGGTCGGATAAGATGCGCAAGCATCGCATCCGACATTATCGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTgg                                                                                                                  <  1:83749/149‑1 (MQ=255)                                 ttGAGTCACGGGAGGTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTAt                                                                                                             <  1:242653/149‑1 (MQ=255)                                     gTCACTGTAGGTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTAATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTCCCTGGGTTATCAGt                                                                                                         >  2:376970/1‑149 (MQ=255)                                      tCACTGTAGGTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGtt                                                                                                        >  1:470416/1‑149 (MQ=255)                                        aCTGTAGGTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACGGGAGTTTGGCAACAACGCCGGATGCGGCGCGCGCGCCTTAGCGGGCCCACGTATTACTACCAACAAAAAAGTTGAAATACCTGAGTTATTAGGTcg                                                                                                      >  2:115602/1‑149 (MQ=17)                                          tGTAGGTCGGATAAGATGCGCAAGCATAGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGGCTACGTTTTAATGCCAGAAAAAATGGTGAATTACCTGGGTTATAAGTTcgcg                                                                                                    >  1:256768/1‑149 (MQ=255)                                           gTAGGTCGGATAAGCTGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCgg                                                                                                   <  1:119367/149‑1 (MQ=255)                                           gTAGGTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTCCCCCCCAATTCCAGCGAAAATGGTGAATTACCTGGGTTCTCAGTTCGCgg                                                                                                   >  1:164399/1‑149 (MQ=17)                                           gTAGGTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCgg                                                                                                   >  1:412650/1‑149 (MQ=255)                                            tAGGTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCggg                                                                                                  >  2:159917/1‑149 (MQ=255)                                               gTCGGATACGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTgg                                                                                               >  2:483767/1‑149 (MQ=255)                                               gTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGGCTGGGGTAGTGGTGAATTACCTGGGTTATCAGTTCGCGGGTgg                                                                                               >  1:342378/1‑149 (MQ=18)                                                tCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACAGGGGTTAGCAGTTCGCGgggggg                                                                                              >  1:130131/1‑149 (MQ=255)                                                  ggATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCggg                                                                                                  <  2:18744/143‑1 (MQ=255)                                                  ggATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCggg                                                                                                  >  1:18744/1‑143 (MQ=255)                                                  ggATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTGGGCt                                                                                            <  1:448676/149‑1 (MQ=255)                                                   gATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTGGGCtt                                                                                           >  1:355491/1‑149 (MQ=255)                                                   gATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGGTCGCGGGTGGGCtt                                                                                           >  1:210375/1‑149 (MQ=255)                                                    aTAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTGGGCTTg                                                                                          <  1:34597/149‑1 (MQ=255)                                                     tAAGATGCGAAAGAATCGCGTCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTGTCAGTTCGCTGGTTGGCTTGa                                                                                         <  2:60072/149‑1 (MQ=21)                                                       aGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTGTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTGGGGTTtata                                                                                       >  1:265420/1‑149 (MQ=255)                                                        gATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTATGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTGGGCTTGATaa                                                                                      >  2:441599/1‑149 (MQ=255)                                                          tGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTGGGCTTGATAAAc                                                                                    <  1:102103/149‑1 (MQ=255)                                                           gcgcAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTGGGCTTGATAAAcc                                                                                   <  2:171111/149‑1 (MQ=255)                                                             gcAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATgg                                                                                                                              >  2:415385/1‑104 (MQ=255)                                                             gcAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATgg                                                                                                                              <  1:415385/104‑1 (MQ=255)                                                             gcAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTGGGCTTGATAAACCgt                                                                                 <  1:195714/149‑1 (MQ=255)                                                               aaGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTGGGCTTGATAAACCgtgt                                                                               >  1:100451/1‑149 (MQ=255)                                                                    tcgcaccCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTGGGCTTGATAAACCGTGTTTCCa                                                                          <  1:101799/149‑1 (MQ=255)                                                                      gcatcCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTGGGCTTGATAAACCGTGTTTCCAGa                                                                        <  1:248374/149‑1 (MQ=255)                                                                             aCATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTGGGCTTGATAAACCGTGTTTCCAGATATtcat                                                                 >  1:30306/1‑149 (MQ=255)                                                                              cATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTCTCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTCCCTGGGTTATCAGTTCGCGGGTGGGCTTGATAAACCGTGTTTCCAGATATtcatc                                                                <  2:377162/149‑1 (MQ=255)                                                                               attattGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCCACGCTTTAATGCCAGCAAAACTGGTGCATTCCCTGGGCAACCAATCCGCGTTAGACCTTGATACACCGAGCTTCCAGACACtcacaa                                                               >  2:425356/1‑146 (MQ=12)                                                                                ttattGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTGGGCTTGATAAACCGTGTTTCCAGATATTCATCAg                                                              <  1:159917/149‑1 (MQ=255)                                                                                            tGGGGTTTGGCCACAGCGCCGGATGCGGCGCGAGCGCCTTACCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTGGGCTTGATAAACCGTGTTTCCAGATATTCATCAGGTTGATGAGCCt                                                  <  1:227111/149‑1 (MQ=255)                                                                                            tGGAGTTTGGCAACAGTGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTGGGCTTGATAAACCGTGTTTCCAGATATTCATCAGGTTGATGAGCCt                                                  >  2:256916/1‑149 (MQ=255)                                                                                                      gagcAGCGCCGGATGCGGGGCGAGCGCCTTATCCGGCCTACGTTTTAATGCTAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTGGGCTTGATAAACCGTGTTTCCAGATATTCATCAGGTTGATGAGCCTGATTAATTGa                                        <  2:9160/146‑1 (MQ=255)                                                                                                      cAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTGGGCTTGATAAACCGTGTTTCCAGATATTCATCAGGTTGATGAGCCTGATTAATTGa                                        <  2:304088/149‑1 (MQ=255)                                                                                                               cGGATGCGGGGCGAGCGCGTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTGGGCTTGATAAACCGTGTTTCCAGATATTCATCAGGTTGATGAGCCTGATTAATTGAGCCAGGccc                               <  2:152721/149‑1 (MQ=255)                                                                                                                       gcgcGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTGGGCTTGATAAACCGTGTTTCCAGATATTCATCAGGTTGATGAGCCTGATTAATTGAGCCAGGCCCCAACACCa                       <  1:334173/149‑1 (MQ=255)                                                                                                                                       cGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTGGGCTTGATAAACCGTGTTTCCAGATATTCATCAGGTTGATGAGCCTGATTAATTGAGCCAGGCCCCAACACCAGCGTCGGGCATAACGt       >  1:401832/1‑149 (MQ=255)                                                                                                                                           cTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTGGGCTTGATAAACCGTGTTTCCAGATATTCATCAGGTTGATGAGCCTGATTAATTGAGCCAGGCCCCAACACCAGCGTCGGGCATAACGTTTGa   <  2:288780/149‑1 (MQ=255)                                                                                                                                            tACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTGGGCTTGATAAACCGTGTTTCCAGATATTCATCAGGTTGATGAGCCTGATTAATTGAGCCAGGCCCCAACACCAGCGTCGGGCATAACGTTTGaa  <  1:71072/149‑1 (MQ=255)                                                                                                                                            tACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTGGGCTTGATAAACCGTGTTTCCAGATATTCATCAGGTTGATGAGCCTGATTAATTGAGCCAGGCCCCAACACCAGCGTCGGGCATAACGTTTGaa  <  1:361279/149‑1 (MQ=255)                                                                                                                                               |                                                                                                                                                  AGCGCCTTATCCGGCCTACGGTTGGGCATCGTTTGAGTCACTGTAGGTCGGATAAGATGCGCAAGCATCGCATCCGACATTATTGCGGCACTGGAGTTTGGCAACAGCGCCGGATGCGGCGCGAGCGCCTTATCCGGCCTACGTTTTAATGCCAGCAAAAATGGTGAATTACCTGGGTTATCAGTTCGCGGGTGGGCTTGATAAACCGTGTTTCCAGATATTCATCAGGTTGATGAGCCTGATTAATTGAGCCAGGCCCCAACACCAGCGTCGGGCATAACGTTTGAA  >  NC_000913_3_pae_tpiA/4153467‑4153754

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.