New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_KO_pgi	501446 =	NA (NA)	4 (0.160) +GCAAAAAATAGCAATACCGTAATCAGGCATAATCTGCAGATAC	4/196	3.5	13.2%	noncoding (3/84 nt)	REP46 (repetitive extragenic palindromic) element; contains 2 REP sequences	REP46 (repetitive extragenic palindromic) element; contains 2 REP sequences
	?	NC_000913_3_KO_pgi	2282818 =	38 (1.040)					intergenic (+17/+122)	rplY/yejK	50S ribosomal subunit protein L25/spermidine nucleoid‑associated protein
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

GCAGGTGTGTAAATATGCTAACCGTGTGAGCTATCAGGTACTGAACCAGCATTCACCTCGTTTAACG‑CGCGGCTTGCCGGAGCGTGAAGACAGCCTGGAAGAGTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTGG‑CTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCTACATATTTTTCATATTTTACATCCGGCAACCACCGTTTACCCCGTCACCACCTCACCCGCCGGTGGC  >  NC_000913_3_KO_pgi/501309‑501592                                                                                                                                           |                                                                                                                                                    gcAGGGGGGGAAATATGCTAACCGGGTGGGGTATCAGGTACTGAACCAGCATTCACCTCGTTTAACG‑CGCGGCTTGCCGGGGCGTGAAGACAGCCGGGAAGAGTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAg                                                                                                                                          <  2:263627/149‑1 (MQ=255)     gtgtgtAAATATGCTAACCGTGTGAGCTATCAGGTACTGAACCAGCATTCACCTCGTTTAACG‑CGCGGCTTGCCGGAGCGTAAAGACAACCTGGAAAAAACTTACTGGGATCGTTAAGTTAACGACGGTTCGTAGGCCAGGTAAGGCGt                                                                                                                                      >  1:167950/1‑149 (MQ=255)          tAAATATGCTAACCGTGTGAGCTATCAGGTACTGAACCAGCATTCACCTCGTTTAACG‑CGCGGCTTGCCGGAGCGTGAAGACAGCCTGGAAGAGTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCAcg                                                                                                                                 >  1:618098/1‑149 (MQ=255)           aaaTATGCTAACCGTGTGAGCTATCAGGTACTGAACCAGAATTCACCTCGTTTAACG‑CGCGGCTTGCCGGAGCGTGAAGACAGCCTGGAAGAGTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCAcgc                                                                                                                                >  2:586917/1‑149 (MQ=255)            aaTATGCTAACCGTGTGAGCTATCAGGTACTGAACCAGCATTCACCTCGTTTAACG‑CGCGGCTTGCCGGAGCGTGAAGACAGCCTGGAAGAGTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCAcgcc                                                                                                                               >  1:140337/1‑149 (MQ=255)                   tAACCGTGTGGGCTATCACGTACTGAACCAGCATTCACCGCGTTTAACG‑CGCGGCTTGCCGGAGCGTGAAGACAGCCTGGAAGAGTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTg                                                                                                                        <  2:240501/149‑1 (MQ=255)                              gCTATCAGGTACTGAACCAGCATTCACCTCGTTTAACG‑CGCGGCTTGCCGGAGCGTGAAGACAGCCTGGAAGAGTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTGG‑ctc                                                                                                            >  1:12321/1‑149 (MQ=255)                              gCTATCAGGTACTGAACCAGCATTCACCTCGTTTAACG‑CGCGGCTTGCCGGAGCGTGAAGACAGCCTGGAAGAGTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTGG‑ctc                                                                                                            <  1:413241/149‑1 (MQ=255)                                 aTCAGGTACTGAACCAGCATTCACC‑CGGACGTCGTCGCGGCTTGCCGGAGCGTGAAGACAGCCTGGAAGAGTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGGTAAGGCGTTCACCCCGCATCTGGCCTTTGG‑CTCTCg                                                                                                         >  2:460989/1‑149 (MQ=255)                                  tCAGGTACTGAACCAGCATTCACCTCGTTTAACG‑CGCGGCTTGCCGGAGCGTGAAGACAGCCTGGAAGAGTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCACCTGGCATTTGG‑Ctctcaa                                                                                                        >  2:132513/1‑147 (MQ=255)                                    aGGTACTGAACCAGCATTCACCTCGTTTAACG‑CGCGGCTTGCCGGAGCGTGAAGACAGCCTGGAAGAGTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTg                                                                                                                 <  2:42041/139‑1 (MQ=255)                                    aGGTACTGAACCAGCATTCACCTCGTTTAACG‑CGCGGCTTGCCGGAGCGTGAAGACAGCCTGGAAGAGTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTg                                                                                                                 >  1:42041/1‑139 (MQ=255)                                     ggTACGGAACCAGCATTCACCTCGTTTAACG‑CGCGGCCTGCCGGAGCGTGAAGACAGCCTGGAAGAGTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTGG‑CTCTCGATGc                                                                                                     <  1:16384/149‑1 (MQ=255)                                          tGAACCAGCATTCACCTCGTTTAACG‑CGCGGCTTGCCGGAGCGTGAAGACAGCCTGGAAGAGTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTGG‑CTCTCGATGCCTGAt                                                                                                <  2:12321/149‑1 (MQ=255)                                               cAGCATTCACCTCGTTTAACG‑CGCGGCTTGCCGGAGCGTGAAGACAGCCTGGAAGAGTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTGG‑CTCTCGATGCCTGATGCGAc                                                                                           >  2:314220/1‑149 (MQ=255)                                               cAGCATTCACCTCGTTTAACG‑CGCGGCGTGCCGGAGCGTGAAGACAGCCTGGAAGAGTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGAGAAGACGTTCACGCCGCACCTGGCATTTGG‑CACTCCATGCCTGATGCGAc                                                                                           >  2:490015/1‑149 (MQ=255)                                                        ccTCGTTTAACG‑CGCGGCTTGCCGGAGCGTGAAGACAGCCTGGAAGAGTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTgg                                                                                                                <  2:86870/120‑1 (MQ=255)                                                        ccTCGTTTAACG‑CGCGGCTTGCCGGAGCGTGAAGACAGCCTGGAAGAGTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTgg                                                                                                                >  1:86870/1‑120 (MQ=255)                                                        ccTCGTTTAACG‑CGCGGCTTGCCGGAGCGTGAAGACAGCCTGGAAGAGTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTGG‑CTCTCGATGCCTGATGCGACGCTGGcgcg                                                                                  >  2:637550/1‑149 (MQ=255)                                                         cTCGTTTAACG‑CGCGGCTTGCCGGAGCGTGAAGACAGCCTGGAAGAGTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTGG‑CTCTCGATGCCTGATGCGACGCTGGCGCGt                                                                                 >  1:30768/1‑149 (MQ=255)                                                         cTCGTTTAACG‑CGCGGCTTGCCGGAGCGTGAAGACAGCCTGGAAGAGGCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCCTTTGG‑CTCCCGATGCCTGGTGCGACGCTGGCGCGt                                                                                 >  1:338000/1‑149 (MQ=255)                                                          tCGTTTAACG‑CGCGGCTTGCCGGAGCGTGAAGACAGCCTGGAAGAGTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTGG‑CTCTCGATGCCTGATGCGACGCTGGCGCGTc                                                                                <  1:637473/149‑1 (MQ=255)                                                            gTTTAACG‑CGCGGCTTGCCGGAGCGTGAAGACAGCCTGGAAGAGTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCAtt                                                                                                                   <  1:555850/113‑1 (MQ=255)                                                            gTTTAACG‑CGCGGCTTGCCGGAGCGTGAAGACAGCCTGGAAGAGTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCAtt                                                                                                                   >  2:555850/1‑113 (MQ=255)                                                                  tg‑cgcgGCTGGCCGGAGCGTTAAGACAGCCTGTCAGCGTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGTCCAGATAATGCGTTCACGCCGCATCGGGCATTTGG‑CTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATg                                                                        <  1:214027/148‑1 (MQ=37)                                                                   g‑cgcgGCTTGCCGGAGCGTGAAGACAGCCTGGAAGAGTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTGGATTCTCGA‑GTCTGATGCGACGCTGGCGCGTCTTATCATGc                                                                       <  2:140337/149‑1 (MQ=39)                                                                      gcgGCTTGCCGGAGCGTGAAGACAGCCTGGAAGAGTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTGG‑CTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCt                                                                     >  1:378445/1‑149 (MQ=255)                                                                         gCTTGCCGGAGCGTGAAGACAGCCTGGAAGAGTCTTACTGGGATCGTTAAGTTAGCGTCGGTTCGTAGGCCAGATAAGGGGTTCACGCCGCATCAGGCATTTGG‑CTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCTACa                                                                  >  2:485166/1‑149 (MQ=255)                                                                              ccGGAGCGTGAAGACAGCCTGGAAGAGTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATCTGG‑CTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCTACATAttt                                                             <  1:421506/149‑1 (MQ=255)                                                                                ggAGCGTGAAGACAGCCTGGAAGAGTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTGG‑CTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCTACATAttttt                                                           >  2:398722/1‑149 (MQ=255)                                                                                ggAGCGTGAAGACAGCCTGGAAGAGTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTGG‑CTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCTACATAttttt                                                           <  2:153071/149‑1 (MQ=255)                                                                                 aaccgagAAGACACCCCGAAAGAGTCTTACGGGGAGCGTCAAGCTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTGG‑CTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCTACATATTTTTc                                                          <  1:254/143‑1 (MQ=25)                                                                                           aCAGCCTGGAAGAGTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTGG‑CTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCTACATATTTTTCATATTTTACa                                                >  1:522338/1‑149 (MQ=255)                                                                                             aGCCTGGAAGAGTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTGG‑CTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCTACATATTTTTCATATTTTCCATc                                              >  2:2307/1‑149 (MQ=255)                                                                                             aGCCTGGAAGAGTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTGG‑CTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCTACATATTTTTCATATTTTACATc                                              >  1:450881/1‑149 (MQ=255)                                                                                                    aaGAGTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTGG‑CTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCTACATATTTTTCATATTTTACATc                                              >  1:595288/1‑142 (MQ=255)                                                                                                    aaGAGTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTGG‑CTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCTACATATTTTTCATATTTTACATc                                              <  2:595288/142‑1 (MQ=255)                                                                                                     agagTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTGG‑CTCTCGATGCCTGATGCGACGCTGGCGCGTCTTa                                                                             >  2:517150/1‑110 (MQ=255)                                                                                                     agagTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTGG‑CTCTCGATGCCTGATGCGACGCTGGCGCGTCTTa                                                                             <  1:517150/110‑1 (MQ=255)                                                                                                     agagGCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTGG‑CTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCTACATATTTTTCATATTTTACATCCGGCAacc                                      <  1:637550/149‑1 (MQ=255)                                                                                                                gggATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTGG‑CTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCTACATATTTTTCATATTTTACATCCGGCAACCACCGTTTAccc                           <  1:586917/149‑1 (MQ=255)                                                                                                                   aTCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTGG‑CTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCTACATATTTTTCATATTTTACATCCGGCAACCACCGTTTACCCCGt                        >  1:239941/1‑149 (MQ=255)                                                                                                                      gTTGAGTTATCGTCGGTTCGCACCCCAACTAATTCGTTCACGCTGCATCTGGCATTTGG‑CTCTCGATGCCTGATGCGACGCTTGCGCGGCTTATCCTGCCTCCCTATTTTTCATATTTTACATCCCGCAGTCCACATTCACCCCGTcac                     >  2:396336/1‑149 (MQ=19)                                                                                                                      gTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTGG‑CTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCTACATATTTTTCATATTTTACATCCGGCAACCACCGTTTACCCCGTcac                     <  2:522338/149‑1 (MQ=255)                                                                                                                           gTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTGG‑CTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCTACATATTTTTCATATTTTACATCCgg                                           >  1:500094/1‑122 (MQ=255)                                                                                                                           gTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTGG‑CTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCTACATATTTTTCATATTTTACATCCgg                                           <  2:500094/122‑1 (MQ=255)                                                                                                                           gTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTGG‑CTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCTACATATTTTTCATATTTTACATCCGGCAACCACCGTTTACCCCGTCACCACCt                <  2:30768/149‑1 (MQ=255)                                                                                                                            ttATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTGG‑CTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCTACATATTTTTCATATTTTACATCCGGCAACCACCGTTTACCCCGTCACCACCTc               >  2:419762/1‑149 (MQ=255)                                                                                                                                    ggTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTGG‑CTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCTACATATTTTTCATATTTTACATCCGGCAACCACCGTTTACCCCGTCACCACCTCACccgccg       <  1:160733/149‑1 (MQ=255)                                                                                                                                     gTTTGTAGGCCAGATAAGGCTTTCACGCCGCATCTGGCATTTGG‑CTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCTACATATTTTTCATATTTTACATCCGGCAACCACCGTTTACCCCGTCACCACCTCACCCGCCgg      <  2:246926/149‑1 (MQ=255)                                                                                                                                       tCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTGG‑CTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCTACATATTTTTCATATTTTACATCCGGCAACCACCGTTTACCCCGTCACCACCTCACCCGCCGGTg    <  1:351041/149‑1 (MQ=255)                                                                                                                                         gTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTGG‑CTCTCGAGGCCTGATGCGACGCTGGCGCGTCTTATCATGCCTACATATTTTTCATATTTTACATCCGGCAACCACCGTTTACCCCGTCACCACCTCACCCGCCGGTGGc  <  2:338000/149‑1 (MQ=255)                                                                                                                                           |                                                                                                                                                    GCAGGTGTGTAAATATGCTAACCGTGTGAGCTATCAGGTACTGAACCAGCATTCACCTCGTTTAACG‑CGCGGCTTGCCGGAGCGTGAAGACAGCCTGGAAGAGTCTTACTGGGATCGTTAAGTTATCGTCGGTTCGTAGGCCAGATAAGGCGTTCACGCCGCATCTGGCATTTGG‑CTCTCGATGCCTGATGCGACGCTGGCGCGTCTTATCATGCCTACATATTTTTCATATTTTACATCCGGCAACCACCGTTTACCCCGTCACCACCTCACCCGCCGGTGGC  >  NC_000913_3_KO_pgi/501309‑501592

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.