New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	4312475 =	49 (0.910)	3 (0.060)	3/252	NT	6.0%	coding (517/891 nt)	alsR	d‑allose‑inducible als operon transcriptional repressor; autorepressor; repressor of rpiR
	?	NC_000913	4312574 =	47 (0.900)					coding (418/891 nt)	alsR	d‑allose‑inducible als operon transcriptional repressor; autorepressor; repressor of rpiR

TCCTGTAACAACGAAGCGGACATCATCATGATGTGAGCATCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCTTATTCACCACATCCTGCGGCGCTTCATCAAAAGCCAACTCGGAAGGCAATACCTG  >  NC_000913/4312429‑4312718                                                                                                                                                  |                                                                                                                                                 atcgtcaacgttgatgagatccaccgtgccgcccgctttttctatcAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATa                                                                                                                                               >  6:10140‑M1/47‑149 (MQ=255)      tAACAACGAAGCGGACATCATCATGATGTGAGCATCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGaaa                                                                                                                                           >  2:6939/1‑148 (MQ=255)             gAAGCGGACATCATCATGATGTGAGCATCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAgcgggc                                                                                                                                   <  8:157683/149‑1 (MQ=255)                 cGGACATCATCATGATGTGAGCATCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGAGGCa                                                                                                                               >  6:53912/1‑149 (MQ=255)                       tcatcatGATGTGAGCATCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTgg                                                                                                                         <  5:114536/149‑1 (MQ=255)                         atcatGATGTGAGCATCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGAt                                                                                                                       <  8:43339/149‑1 (MQ=255)                          tcatGATGTGAGCATCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGAtc                                                                                                                      <  1:7763/149‑1 (MQ=255)                           catGATGTGAGCATCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGAtct                                                                                                                     >  4:172327/1‑149 (MQ=255)                            atgatgTGAGCATCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGAtctc                                                                                                                    <  1:95546/149‑1 (MQ=255)                                  tgAGCATCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCTGGCGGCACGGTGGATCTCATCaa                                                                                                               <  4:187591/148‑1 (MQ=255)                                       aTCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGa                                                                                                         <  7:144186/149‑1 (MQ=255)                                        tCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTgcc                                                                                                        >  4:153627/1‑147 (MQ=255)                                           tatcaggccagacagcgggatttgtacggtgccggaggatcaaatgctatctgtgctgatgtacagcacaagttcttgcgcattggcgtacgctgtcaggcctGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGAt                                                                                                     >  6:10140‑M2/104‑149 (MQ=255)                                            gATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATc                                                                                                    <  2:211067/149‑1 (MQ=255)                                                 GCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACt                                                                                                <  2:245178‑M1/148‑1 (MQ=255)                                                 GCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACt                                                                                                <  4:24122‑M1/148‑1 (MQ=255)                                                 GCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCGCATCAACGTTGACGATCGACTg                                                                                               <  5:241655‑M1/149‑1 (MQ=255)                                                    agacagcgggatttgtacggtgccggaggatcaaatgctatctgtgctgatgtacagcacaagttcttgcgcattggcgtacgctgtcaggcctGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGAcc                                                                                            >  6:22110‑M2/95‑149 (MQ=255)                                                     gACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCt                                                                                           >  8:4433/1‑149 (MQ=255)                                                          cGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCa                                                                                       >  1:216626/1‑148 (MQ=255)                                                               gCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATgg                                                                                 >  3:188790/1‑149 (MQ=255)                                                                    tGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCtca                                                                                                                   <  6:103807/110‑1 (MQ=255)                                                                    tGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGt                                                                            >  1:125421/1‑149 (MQ=255)                                                                    tGCGCAAGAACTTGTGATGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCtca                                                                                                                   >  5:103807/1‑110 (MQ=255)                                                                        cAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAg                                                                        >  7:48571/1‑149 (MQ=255)                                                                        cAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGACCGGTGGATCTCATCAACGTTGACGCTCGACTGACCTTCCATAATGGTGCGTAAAg                                                                        >  2:50425/1‑149 (MQ=255)                                                                         aaGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGa                                                                                                  >  4:100129/1‑122 (MQ=255)                                                                         aaGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGa                                                                                                  <  3:100129/122‑1 (MQ=255)                                                                         aaGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGt                                                                       >  4:207876/1‑149 (MQ=255)                                                                            aaCTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGAt                                                                    <  1:245178/149‑1 (MQ=255)                                                                                   gCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGACTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCAATAATGGTGCGTAAAGTGATGTTaaa                                                              >  4:208394/1‑148 (MQ=255)                                                                                    cTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAAt                                                             <  2:216626/148‑1 (MQ=255)                                                                                       tACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATAcc                                                          <  8:48571/148‑1 (MQ=255)                                                                                       tACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCt                                                         <  3:24122/149‑1 (MQ=255)                                                                                       tACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCt                                                         >  7:222350/1‑149 (MQ=255)                                                                                          aTCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTATAGTGATGTTAAATACCTTAt                                                      >  5:74738/1‑149 (MQ=255)                                                                                          aTCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCTTAt                                                      >  2:193828/1‑149 (MQ=255)                                                                                               cacaGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCTTATTcac                                                  >  5:1728/1‑148 (MQ=255)                                                                                                    aTAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGt                                                                                <  3:137718/113‑1 (MQ=255)                                                                                                    aTAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGt                                                                                >  4:137718/1‑113 (MQ=255)                                                                                                          tttGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCTTATTCACCACATCCTgcgg                                      >  8:205226/1‑149 (MQ=255)                                                                                                          tttGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCTTATTCACCACATCCTgcgg                                      >  3:7639/1‑149 (MQ=255)                                                                                                            tGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCTTATTCACCACATCCTgcggc                                     <  4:188790/148‑1 (MQ=255)                                                                                                              aTCCTCCGGCACCATACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCTTATTCACCACATCCTGCGGCGCt                                  >  2:169203/1‑149 (MQ=255)                                                                                                                 ctccGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCTTATTCACCACATCCTGCGGCGCTtc                                <  3:207876/148‑1 (MQ=255)                                                                                                                 ctccGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCTTATTCACCACATCCTGCGGCGCTtc                                <  4:7639/148‑1 (MQ=255)                                                                                                                    tcttgcgcattggcgtacgctgtcaggcctGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCTTATTCACCACATCCTGCGGCGCTtcatc                             <  5:22110‑M2/118‑1 (MQ=255)                                                                                                                    cGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCTTATTCACCACATCCTGCGGCGCTtcatc                             >  7:221007/1‑148 (MQ=255)                                                                                                                       cACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCTTATTCACCACATCCTGCGGCGCTTCATCaaaa                         <  1:193828/149‑1 (MQ=255)                                                                                                                       cACCGTACAAATCCCGCCGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGAGCGCCTCAACGTTGACGATCGACTGACCTACCATAATGGTGCGTAAAGTGATGTTAAATACCTTATTCACCACATCCTGCGGCGCGTCATCaaaa                         <  2:58251/149‑1 (MQ=255)                                                                                                                         ccGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCTTATTCACCACATCCTGCGGCGCTTCATCAAAAGc                       <  4:94833/149‑1 (MQ=255)                                                                                                                            tACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCTTATTCACCACATc                                            >  7:150998/1‑125 (MQ=255)                                                                                                                            tACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCTTATTCACCACATc                                            <  8:150998/125‑1 (MQ=255)                                                                                                                              cAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCTTATTCACCACATCCTGCGGCGCTTCATCAAAAGCCAACt                  >  7:13112/1‑149 (MQ=255)                                                                                                                                        tGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCTTATTCACCACATCCTGCGGCGCTTCATCaaaa                         >  7:171052/1‑132 (MQ=255)                                                                                                                                        tGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCTTATTCACCACATCCTGCGGCGCTTCATCaaaa                         <  8:171052/132‑1 (MQ=255)                                                                                                                                              gcctGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCTTATTCACCACATCCTGCGGCGCTTCATCAAAAGCCAACTCGGAAGGCAATACCTg  <  3:110020‑M2/145‑1 (MQ=255)                                                                                                                                                 tGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTaaa                                                              >  6:35403‑M2/2‑86 (MQ=255)                                                                                                                                                 tGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTaaa                                                              <  6:146773‑M2/85‑1 (MQ=255)                                                                                                                                                 tGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTaaa                                                              <  5:35403‑M2/85‑1 (MQ=255)                                                                                                                                                  gATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGtt                                                                                                           <  7:152268/40‑1 (MQ=255)                                                                                                                                                  gATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGtt                                                                                                           >  8:152268/1‑40 (MQ=255)                                                                                                                                                  |                                                                                                                                                 TCCTGTAACAACGAAGCGGACATCATCATGATGTGAGCATCAGGATAGGCCTGACAGCGTACGCCAATGCGCAAGAACTTGTGCTGTACATCAGCACAGATAGCATTTGATCCTCCGGCACCGTACAAATCCCGCTGTCTGGCCTGATAGAAAAAGCGGGCGGCACGGTGGATCTCATCAACGTTGACGATCGACTGACCTTCCATAATGGTGCGTAAAGTGATGTTAAATACCTTATTCACCACATCCTGCGGCGCTTCATCAAAAGCCAACTCGGAAGGCAATACCTG  >  NC_000913/4312429‑4312718

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ 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.