New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	= 3335199	56 (0.940)	5 (0.090)	5/286	8.1	8.8%	intergenic (+12/+36)	sfsB/murA	malPQ operon transcriptional activator/UDP‑N‑acetylglucosamine 1‑carboxyvinyltransferase
	?	NC_000913_3_pae_tpiA	= 3335219	49 (0.830)					intergenic (+32/+16)	sfsB/murA	malPQ operon transcriptional activator/UDP‑N‑acetylglucosamine 1‑carboxyvinyltransferase
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

GCCCTGGGAACTGACCCCTGGGTTATCTGGCCATCACGCTACCATGATCCGCAGACCCATGAGTTTATCGACAGAACGCAGTTGATGCGTAGCTACACTAAACCGAAAAAATGAGTGGTCTGGCGGTAGCCC‑CGCGAACGGGGCTGCCAGCTCTCAGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGTTCGTAGCCACGATCGATGTGATAAATACGATCAACCACCGTCGTCCCTTCCGCAATACAGCCAGCCAGC  >  NC_000913_3_pae_tpiA/3335074‑3335364                                                                                                                                                   |                                                                                                                                                  gCCCTGGGAACTGACCCCTGGGTTATTTGGCTATCACGCTACCTTGATCCGCTGACTCATGAGTTTATCGACAGATCGCAGTTGATGCGTAGCTACACTAAACCGAAAAAATGAGTGGTCTGGCGGTAGCCC‑CGCGAACGGGGCTGCCa                                                                                                                                                <  1:57902/149‑1 (MQ=255)    cTGGGAACTGACCCCTGGGTTATCTGGCCATCACGCTACCATGATCCGCAGACCCATGAGTTTATCGACAGAACGCAGTTGATGCGTAGCTACACTAAACCGAAAAAATGAGTGGTCTGGCGGTAGCCC‑CGCGCACGGGGCTGCCAGct                                                                                                                                             >  2:798625/1‑149 (MQ=255)     tGGGAACTGACCCCTGGGTTATCTGGCCATCACGCTACCATGATCCGCAGACCCATGAGTTTATCGACAGAACGCAGTTGATGCGTAGCTACACTAAACCGAAAAAATGAGTGGTCTGGCGGTAGCCC‑CGCGAACGGGGCTGCCAGctc                                                                                                                                            >  1:857469/1‑149 (MQ=255)       ggAACTGACCCCTGGGTTATCTGGCCATCACGCTACCATGATCCGCAGACCCATGAGTTTATCGACAGAACGCAGTTGATGCGTAGCTACACTAAACCGAAAAAATGAGGGGTCTGGCGGTAGACC‑CGCGAAAGGGGCTGGCAGccgtc                                                                                                                                          >  2:1039797/1‑145 (MQ=255)            tGACCCCTGGGTTATCTGGCCATCACGCTACCAGGATCCGCAGACCCATGAGTTTATCGACAGAACGCAGTTGATGCGTAGCTACACTAAACCGAAAAAGTGAGTGGTCTGGCGGTAGGCG‑CGCGAACGGGGCGACGAGCACTCCGACg                                                                                                                                     >  1:841136/1‑149 (MQ=255)            tGACCCCTGAGTTATCTGGCCATCACGCTACCATGATCCGCAGAACCATGAGTTTATCGACAGAACGCAGTTCATGCGTAGCTACACTAAACCGAAAAAATGAGTGGTCTGGCGGTAGCCC‑CGCGAACGCGGCTGCCAGCTCTCAGAct                                                                                                                                     >  2:474897/1‑148 (MQ=255)                cccTGCGTTATCTGGCCATCACGCCACCATGATCCGCAGACCCATGAGTTTATCGACAGAACGCAGATGATGAGTAGCTACACTAAACCGAAAAAATGAGTGGTCTCGCGGTCGCCC‑CGCGGACGGGGCAGACAGCTCTCAGACGatta                                                                                                                                 >  2:567014/1‑149 (MQ=255)                 ccTGGGTTATCTGGCCATCACGCTACCATGATCCGCAGACCCATGAGTTTATCGACAGAACGCAGTTGATGCGTAGCTACACTAAACCGAAAAAATGAGTGGTCTGGCGGTAGCCC‑CGCGAACGGGGCTGCCAGCCCTCAGACGagtat                                                                                                                                >  2:703525/1‑149 (MQ=255)                   tGGGTTATCTGGCCATCACTCTACCATGATCCGCAGACCCATGAGTTTATCGACAGAACTCAGTTGATGCGTAGCTACACTAAACCGAAAAAATGAGTGGTCTGGCGGTAGCCC‑CGCGAACGGGGCTGCCAGCTCTCAGACGATTATTc                                                                                                                              <  1:268953/149‑1 (MQ=255)                              gCCATCACGCTACCATGATCCGCAACCCCATGGGATTATCGACAGAACGCAGTTGATGCGTAGCTACACTAAACCGAAAAAATGAGTGGTCTGGCGGTAGCCC‑CGCGACCGGGGCTGCCAGCTCTCAGACGATTATTCGCCTTTCacac                                                                                                                   >  1:250520/1‑149 (MQ=255)                                 aTCACGCTACCATGATCCGCAGACCCATGAGTTTATCGACAGAACGCAGTTGATGCGTAGCTACACTAAACCGAAAAAATGAGTGGTCTGGCGGTAGCCC‑CGCGAACGGGGCTGCCAACTATCAGACGATTATTCGCCTTTCACACGCt                                                                                                                >  1:936667/1‑149 (MQ=255)                                      gCTACCATGATCCGCAGACCCATGAGTTTATCGACAGAACGCAGTTGATGCGTAGCTACACTAAACCGAAAAAATGAGTGGTCTGGCGGTAGCCC‑CGCGAACGGGGCTGCCAGCTCTCAGACGATTATTCGCCTTTCACACGCTCActa                                                                                                           >  1:779792/1‑149 (MQ=255)                                        tACCATGATCCGCAGACCCATGAGTTTATCGACAGAACGCAGTTGATGCGTAGCTACACTAAACCGAAAAAATGAGTGGTCTGGCGGTAGCCC‑CGCGAACGGGGCTGCCATCTCTCAGACGATTATTCGCCTTTCACACGCTCAATAtt                                                                                                         >  1:716037/1‑149 (MQ=255)                                           cATGATCCGCAGACCCATGAGTTTATCGACAGAACGCAGTTGATGCGTAGCTACACTAAACCGAAAAAATGAGTGGTCTGGCGGTAGCCC‑CGCGACCGGGGCTGCCAGCTCTCAGACGATTATTCGCCTTTCACACGCTCCATATTTGc                                                                                                      >  2:328671/1‑149 (MQ=255)                                             tGATCCGCAGACCCATGAGTTTATCGGCAGAACGCAGTTGCTGCGTAGCTGGACTAAACCGAACTACTGAATGGTCTGGCGG‑AGCCCGCACGAACGGAGCGGCCAACTCTATGACGATTATTCGACTTTCAGATGGTCAGTAtttcggc                                                                                                    >  2:523057/1‑145 (MQ=255)                                             tGATCCGCAGACCCATGAGTTTATCGACAGAACGCAGTTGATGCGTAGCTACACTAAACCGAAAAAATGAGTGGTCTGGCGGTAGCCC‑CGCGAACGGGGCTGCCAGCTCTCAGACGATTATTCGCCTTTCACACGCTCAATATTTGCAc                                                                                                    <  1:543749/149‑1 (MQ=255)                                             tGATCCGCAGACCCATGAGTTTATCGACAGAACGCAGTTGATGCGTAGCTACACTAAACCGAAAAAATGAGTGGTCTGGCGGTAGCCC‑CGCGAACGGGGCTGCCAGCTCTCAGACGAATATTCGCCTTTCACACGCTAAATATTTGCAc                                                                                                    >  1:16838/1‑149 (MQ=255)                                             tGATCCGCAAACCCATGAGTTTATCGACAAAACGCAGTTGATGCGTAGCTACACTAAACCGAAAAAATGAGAGGTCTGGCGGTAGCCC‑CGCGAACGGGGCTGCCAGCTCTCAGACGATTATTCGCCTTTCACACGCTCAATATTTGCAc                                                                                                    <  1:343194/149‑1 (MQ=255)                                             tGATCACCAGACCAATGAGTTTATCGACAGAACGCAGTTGATGCGTAGCTACACTAAACCGAAAAAATGAGTGGGCTGGCGGTAGCCC‑CGCGAACGGGGCTGCCAGCTCTCAGACGATTATTCGCCTTTCACACGCTCAATATTTGCAc                                                                                                    <  1:343415/149‑1 (MQ=255)                                                ccggaaGACCCAGGAGTTTATCAACAGAACGCAGTGAAGGCGTAGCCACACTAAACCGAAAAAATGAGTGGTCTGGCGGAGGCCC‑CGCGAACGGGGCGGCCAGCTCTCAGACGATTATCCCCCTTTCACACGCTCCATATTTGCACCTa                                                                                                 <  2:250520/144‑1 (MQ=255)                                                   gCAGACCCATTAGTTTATCGACAGAACGCAGTTGATGCGTAGCTACACTAAACCGAAAAAATGAGTGGTCTGGCGGTAGCCC‑CGCGAACGGGGCTGCCAGCTCTCAGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAg                                                                                              <  1:1039797/149‑1 (MQ=255)                                                           aTGAGTTTATCGACAGAACGCAGTTGATGCGTAGCTACACTAAACCGAAAAAATGAGTGGTCTGGCGGTAGCCC‑CGCGAACGGGGCTGCCAGCTCTCAGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGt                                                                                      <  1:242867/149‑1 (MQ=255)                                                             gAGTTTATCGACAGAACGCAGTTGATGCGTAGCTACACTAAACCGAAAAAATGAGTGGTCTGGCGGTAGCCC‑CGCGAACGGGGCTGCCAGATCTCAGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCGGttt                                                                                    >  2:1019609/1‑149 (MQ=255)                                                              aGTTTACCGACAGAACGCAGTTGATGCGTAGCTACACTAAACCGAAAAAATGAGTGGTCTGGCGGTAGCCC‑CGCGAACGGGGCTGCCAGCTCTCAGACGATTATTCGCCTTTCAACCTGGCAATATTTGCACCTAAAGCGCGCAGTTTg                                                                                   <  2:485841/149‑1 (MQ=255)                                                                    tCGACAGAACGCAGTTGATGCGTAGCTACACTAAACCGAAAAAATGAGTGGTCTGGCGGTAGCCC‑CGCGAACGGGGCTGCCAGCTCTCAGACGATTAGTCGCCTTTCTCACGCTCAATATTTGCACCTAAAGCGAGCAGTTAGTAttaa                                                                             >  2:570510/1‑147 (MQ=255)                                                                      gACAGAACGCAGTTGATGCGTAGCTACACTAAACCGAAAAAATGAGTGGTCTGGCGGTAGCCC‑CGCGAACGGGGCTGCCAGCTCTCAGACGATTATTCGCCTTTCACACGATCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAAt                                                                           >  1:618183/1‑149 (MQ=255)                                                                      gACAGAACGATGTTGATGCGTAGCTTCACTAAACCGAAAAAATGAGTGGTCTGGCGGTAGCCC‑CGCGAACGGGGCTGCCAGCTCTCAGACGATTATTCGCCCTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAAt                                                                           <  1:595646/149‑1 (MQ=255)                                                                       aCAGAACGCAGTTGATGCGTAGCTACACTAAACCGAAAAAATGAGTGGTCTGGCGGTAGCCC‑CGCGAACGGGGCTGCCAGCTCTCAGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATg                                                                          >  1:129434/1‑149 (MQ=255)                                                                        ctaaaCGCAGTTGATGCGTAGCTACAGTAAACCGAAAAAATGAGTTGTCTGGCCGTAGACC‑CGCGAACGGGGCTGCCCGCTCTCAGACGATTATTCGCCTTTCACACGCGCAATATTTGCACCTCAAGCGCGCAGTTTGTCTTCAATGc                                                                         <  1:60567/146‑1 (MQ=255)                                                                         aGAACGCAGTTGATGCGTAGCTACACTAAACCGAAAAAATGAGTGGTCTGGCGCTAGCCC‑CGCGAACGGGGCTGCCAGCTCTCAGAAGATTATTCGCCTTTCACACGCTCACTATTTGCACCGACAGCGCGCCGCTCGTCTTCCATGCg                                                                        >  2:263523/1‑149 (MQ=255)                                                                          gAACGCAGTTGATGCGTAGCTACTCTGAACCGAAAAAATGAGTGGTCTGGCGGTAGCCC‑CGCGAACGGGGCTGCCAGCTCTCAGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGt                                                                       <  1:758510/149‑1 (MQ=255)                                                                            aCGCAGTTGATGCTTAGCTACACTAAACCTAAAAAATGAGTTGTCTGACGGTACCCC‑CGCGAACGGGGCTGCCAGCTCTCAGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGTTc                                                                     <  1:923114/149‑1 (MQ=255)                                                                             cGCAGTTGATGCGTAGCTACACTAAACCGAAAAAATGAGTGGTCTGGCGGTAGCCC‑CGCGAACGGGGCTAACAGCTCTCAGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGTTCg                                                                    >  1:66147/1‑149 (MQ=255)                                                                               cAGTTGATGCGTAGCGACACAAAAACGAAAAAATGAGTGGTCTGGCGGTAGCCC‑CGCGAACGGGGCTGCCAGCTCTCAGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGTTCGTa                                                                  <  2:978260/149‑1 (MQ=255)                                                                                     aTGCGTAGCTACACTAAACCGAAAAAATGAGTGGTCTGGCGGTAGCCC‑CGCGAACGGGGCTGCCAGCTCTCAGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGTTCGTAGCCAcg                                                            >  1:685701/1‑149 (MQ=255)                                                                                       gCGTAGCTACACTAAATCAAAAAAATGATTGGTCTGGCGGTAGCCC‑CGCGAACGGGGCTGCCAGCTCTCAGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGTTCGTAGCCAcgat                                                          <  1:135966/149‑1 (MQ=255)                                                                                              tACACTAAACCGAAAAAATGAGTGGTCTGGCGGTAGCCC‑CGCGAACGGGGCTGCCAGCTCTCAGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGTTCGTAGCCACGATCGAtgtg                                                   >  1:786070/1‑149 (MQ=255)                                                                                              tACACTAAACCGAAAAAATGAGTGGTCTGGCGGTAGCCC‑CGCGAACGGGGCTGCCAGCTCTCAGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGCTCGTAGCCACGATCGAtgtg                                                   >  1:597595/1‑149 (MQ=255)                                                                                                cacTAAACCGAAAAAATGAGTGGTCTGGCGGTACACC‑AGGGAATGGGGCTGCCAGCTCTCAGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCACAGTTTGTCTTCAATGCGTTCTTAGCCACGATCGATGTGAt                                                 >  1:248619/1‑149 (MQ=255)                                                                                                   tAAACCGAAAAAATGAGTGGTCTGGCGGTAGCCC‑CGCGAACGGGGCTGCCAGCTCTCAGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGTTCGTAGCCACGATCGATTTGAaaaa                                              >  2:567327/1‑149 (MQ=255)                                                                                                      aCCGAAAAAATGAGTGGTCTGGCGGTAGCCC‑CGCGAACGGGGCTGCCAGCTCTCAGACGATAATTCGCCTTTCACACGCTCAATATTTGCCCCTAAAGCGCGCAGTTTGTCTTCAATGCGTTAGTAGCCACGATCGATGTGATAAATAc                                           >  1:608900/1‑149 (MQ=255)                                                                                                        cGAAAAAATGAGTGGTCTGGCGGTAGCCC‑CGCGAACGGGGCTGCCAGCTCTCAGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGTTCGTAGCCACGATCGATGTGATAAATACGa                                         >  2:750475/1‑149 (MQ=255)                                                                                                        cGAAAAAATGAGTGGTCTGGCGGTAGCCC‑CGCGAACGGGGCTGCCAGCTCTCAGACGATTACTGTTCTGGCACACGCCGCAGGTGTGCACCTAAAGCGCGCAGTGTGTCTTCAATGGGTTCGTAGCCACGATCGATGTGATAAATACGa                                         >  1:1029213/1‑149 (MQ=255)                                                                                                          aaaaaaTGAGTGGTCTGGCGGTAGCCC‑CGCGAACGGGGCTGCCAGCTCTCAGACGATTATTCCCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGTTCGTAGCCACGATCGATGTGATAAATACGATc                                       <  2:896492/149‑1 (MQ=255)                                                                                                                        cTGGCGGTAGCCC‑CGCGAACGGGGCTGCCAGCTCTCAGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGTTCGTAGCCACGATCGATGTGATaaa                                              <  2:375983/128‑1 (MQ=255)                                                                                                                        cTGGCGGTAGCCC‑CGCGAACGGGGCTGCCAGCTCTCAGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGTTCGTAGCCACGATCGATGTGATaaa                                              >  1:375983/1‑128 (MQ=255)                                                                                                                            cGGTAGCCC‑CGCGAACGGGGCTGCCAGCTCTCAGACGATTATTCTCCTTTCACACGTTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGTTCGTAGCCACGATCGATGTGATAAATACGATCAACCACCGTCGTCCCTTc                     <  1:512462/149‑1 (MQ=255)                                                                                                                                      cgcgAACGGGGCTGCCAGCTCTCAGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGTTCGGAGCCACGATCGATGTGATAAATACGATCAACCACCGTCGTCCCTTCCGCAATAca            >  1:767041/1‑149 (MQ=255)                                                                                                                                                gCTGCCAGCTCTCAGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGTTCGTATCCACGATCGATGTGATAAATACGATCAACCACCGTCGTCCCTTCCGCAATAcagccagccagc  >  1:938734/1‑149 (MQ=255)                                                                                                                                                   |                                                                                                                                                  GCCCTGGGAACTGACCCCTGGGTTATCTGGCCATCACGCTACCATGATCCGCAGACCCATGAGTTTATCGACAGAACGCAGTTGATGCGTAGCTACACTAAACCGAAAAAATGAGTGGTCTGGCGGTAGCCC‑CGCGAACGGGGCTGCCAGCTCTCAGACGATTATTCGCCTTTCACACGCTCAATATTTGCACCTAAAGCGCGCAGTTTGTCTTCAATGCGTTCGTAGCCACGATCGATGTGATAAATACGATCAACCACCGTCGTCCCTTCCGCAATACAGCCAGCCAGC  >  NC_000913_3_pae_tpiA/3335074‑3335364

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.