New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	= 1914769	35 (1.200)	4 (0.150)	4/262	3.5	11.0%	coding (48/2049 nt)	prc	carboxy‑terminal protease for penicillin‑binding protein 3
	?	NC_000913_3_pae_tpiA	= 1914775	32 (1.180)					coding (42/2049 nt)	prc	carboxy‑terminal protease for penicillin‑binding protein 3
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

ATCGAGGTCGAACTGGCGATAATGAGAACGGGTGAAGCGCGACGTTACGCGCTCACTTACCGTCGCATGCTGCGTCTCTTCCTTTAATACCGGAATTTGATCAGCACGCGTGATATCTTCTACAGCGAAGGTCTGGCCTGCTATTGCAAGCAGGCCAGCTAACGCGGTAAGCCTAAAAAACATGTTCATGCCTGGCCCGGCCTCCGTTTCAGAACACCAGGTGTTCTGCGCGCACAATCAAAGACATACCCGAATTCAGCTGGACGCGGACGCCGTCTTTGGTGATTTCTAATA  >  NC_000913_3_pae_tpiA/1914628‑1914921                                                                                                                                                    |                                                                                                                                                   aTCGAGGTCCAAGGGGCGATAATGAGAACGGGGGAAGCGCGACGTTACGCGCTCACTTACCGTCGCATGCTGCGTCTCTTCCTTTAATACCGGAATTTGATCAGCACGCGTGATATCTTCTACAGCGAAGGTCTGGCCTGCTATTGCaa                                                                                                                                                   <  2:144559/149‑1 (MQ=255)     aGGTCGAACTGGCGATAATGAGAACGGGTGAAGCGCGACGTTACGCGCTCACTTACCGTCGCATGCTGCGTCTCTTCCTTTACTACCGGAATTTGATCAGCACGCGTGATATCTTCTACAGCGAAGGTCTGGCCTGCTATTGCAAGCAg                                                                                                                                               <  1:110348/149‑1 (MQ=255)           aaCTGGCGATAATGAGAACGGGTGAAGCGCGACGTTACGCGCTCACTTACCGTCGCATGCTGCGTATCTTCCTTTACTACCGGAATTTCATCAGCACGCGTGATATCTTCTACAGCGAAGGTCTGGCCTGCTATTGCAAGCAGGCCAGc                                                                                                                                         >  1:380761/1‑149 (MQ=255)              tGGCGATAATGAGAACGGGTGAAGCGCGACGTTACGCGCTCACTTACCGTCGCATGCTGCGTCTCTTCCTTTAATACCGGAATTTGATCAGCACGCGTGATATCTTCTACAGCGAAGGTCTGGCCTGCTATTGCAAGCAGGCCAGCTaa                                                                                                                                      <  2:1005/149‑1 (MQ=255)                     aaTGAGAACGGGTGAAGCGCGACGTTACGCGCTCACTTACCGTCGCATGCTGCGTCTCTTCCTTTAATACCGGAATTTGATCAGCACGCGTGATATCTTCTACAGCGAAGGTCTGGCCTGCTATTGCAAGCAGGCCAGCTAACGCGGTa                                                                                                                               >  2:476961/1‑149 (MQ=255)                      aTGAGAACGGGTGAAGCGCGACGTTACGCGGAAAAACCGCGTCTGATGCTGCGTCTCTTCCTTTAATACCGGAATTTGATCAGCACGCGTGATATCTTCTACAGCGAAGGTCTGGCCTGCTATTGCAAGCAGGCCAGCTAACGCGGTaa                                                                                                                              >  1:124756/1‑149 (MQ=255)                        gagaACGGGGGAAGCGCGACGTTACGCGCTCACATACCATGGCATTCTTCGTTGCTTCCTTTAATACCGGAATTTGATCAGCACGCGTGATATCTTCTACAGCGAAGGTCTGGCCTGCTATTGCAAGCAGGCCAGCTAACGCGGTAAGc                                                                                                                            <  2:54546/149‑1 (MQ=255)                              gggTGAAGCGCGACGTTACGCGCTCACTTACCGTCGCATGCTGCGTCTCTTCCTTTAATACCGGAATTTGATCAGCACGCGTGATATCTTCTACAGCGAAGGTCTGGCCTGCTATTGCAAGTAGGCCGGCTAACGCGGTAAGTCTataa                                                                                                                      >  1:343172/1‑149 (MQ=255)                                 tGAAGCGCGACGGTACGCGCTCACTTACCGTCGGATGCTGCGTCTCTTCCTTTAATACCGGAATTTGATCAGCACGCGTGATATCTTCTACAGCGAAGGTCTGGCCTGCTATTGCAAGCAGGCCAGCTAACGCGGTAAGCCTAAAAAAc                                                                                                                   <  2:392857/149‑1 (MQ=255)                                                   gcTCACTTACCGTCGCATGCTGCGTCTCTTCCTTTAATACCGGAATTTGATCAGCACGCGTGATATCTTCTACAGCGAAGGTCTGGCCTGCTATTGCAAGc                                                                                                                                                 <  1:88873/101‑1 (MQ=255)                                                   gcTAACTTACCGTCGCATGCTGCGTCTCTTCCTTTAATACCGGAATTTGATCAGCACGCGTGATATCTTCTACAGCGAAGGTCTGGCCTGCTATTGCAAGc                                                                                                                                                 >  2:88873/1‑101 (MQ=255)                                                    cTCACTTACCGTCGCATGCTGCGTCTCTTCCTTTAATACCGGAATTTGATCAGCACGCGTGATATCTTCTACAGCGAAGGTCTGGCCTGCTATTGCAAGCAGGCCAGCTAACGCGGTAAGCCTAACAAACATGTTCATGCCTGGCCCgg                                                                                                >  2:439612/1‑149 (MQ=255)                                                                  cATGCGGCGTCTCGCCCTTTAATACCGGAATTTGATGAGCACGCGTGATATCTTCTACAGCGAAGGTCTGGCCTGCTATTGCAAGCAGGCCAGCTAACGCGGTAAGCCTAAAAAACATGTTCATGCCTGGCCCGGCCTCCGTCTCAGaa                                                                                  <  2:364004/149‑1 (MQ=255)                                                                        gcGTCTCTTCCTTTAATACCGGAATTTGATCAGCACGCGTGATATCTTCTACAGCGAAGGTCTGGCCTGCTATTGCAAGCAGGCCAGCTAACGCGGTAAGCCTAAAAAACATGTTCATGCCTGGCCCGGCCTCCGTTTCAGAACACCAg                                                                            <  1:476961/149‑1 (MQ=255)                                                                           tctcTTCCTTTAATACCGGAATTTGATCAGCACGCGTGATATCTTCTACAGCGAAGGTCTGGCCTGCTATTGCAAGCAGGCCAGCTaa                                                                                                                                      >  1:323407/1‑88 (MQ=255)                                                                           tctcTTCCTTTAATACCGGAATTTGATCAGCACGCGTGATATCTTCTACAGCGAAGGTCTGGCCTGCTATTGCAAGCAGGCCAGCTaa                                                                                                                                      <  2:323407/88‑1 (MQ=255)                                                                             ttttCCTTTAAGACCGGAATTTGATCTGCACGCGTGATATCTTCTACAGCGAATGTCTGGCCTGCTATTGCCAGCAGGCCAGCTAACGCGGTAAGCCTAAATAACATGTTCATGCCTGGCCCGGCCTCCGTTTCAGAACACCAGGTGtt                                                                       <  2:123829/147‑1 (MQ=255)                                                                                          ccGGAATTTGATCAGCACGCGTGATATCTTCTACAGCGAAGGTCTGGCCTGCTATTGCAAGCAGGCCAGCTAACGCGGTAAGCCTAAAAAACATGTTCATGCCTGGCCCGGCGTCCGTTTCAGAACACCAGGCGGTCTTCGCGCACAAt                                                          >  1:296325/1‑149 (MQ=255)                                                                                          ccGGAATTTGATCAGCACGCGTGATATCTTCTACAGCGAAGGTCTGGCCTGCTATTGCAAGCAGGCCAGCTAACGCGGTAAGCCTAAAAAACATGTTCATGCCTGGCCCGGCCTCCGTTTCAGAACACCAGGTGTTCTGCGCGCACAAt                                                          >  2:45076/1‑149 (MQ=255)                                                                                           cGGAATTTGATCAGCACGCGTGATATCTTCTACAGCGAAGGTCTGGCCTGCTATTGCAAGCAGGCCAGCTAACGCGGTAAGCCTAAAAAACATGTTCATGCCTGGCCCGGCCTCCGTTTCAGAACACCAGGTGTTCTGCGCGCACAATc                                                         >  1:85977/1‑149 (MQ=255)                                                                                                    aTCAGCACGCGTGATATCTTCTACAGCGAAGGTCTGGCCTGCTATTGCAAGCAGGCCAGCTAACGCGGTAAGCCTAAAAAACATGTTCATGCCTGGCCCGGCCTCCGTTTCAGAACACCAGGTGTTCTGCGCGCACAATCAAAGACATa                                                >  2:39947/1‑149 (MQ=255)                                                                                                    aTCAGCACGCGTGATATCTTCTACAGCGAAGGTCTGGCCTGCTATTGCAAGCAGGCCAGCTAACGCGGGAAGCCTAAAAAACATGTTCATGCCTGTCTCGGCCTCCGATTCAGTAGACCAGGTGTTCTGAGAGCACACTCAAGGACATa                                                >  1:354856/1‑149 (MQ=255)                                                                                                     tCAGGACGCGTGATATCTTCTACAGCGAAGGTCTGGCCTGCTATTGCAAGCAGGCCAGCTAACGCGGTAAGCCTAAAAAACATGTTCATGCCTGGCCCGGCCTCCGTTTCAGAACACCAGGTGTTCTGCGCGCACAATCAAAGACATAc                                               <  1:259046/149‑1 (MQ=255)                                                                                                     tCAGCACGCGTGATATCTTCTACAGCGAAGGTCTGGCCTGCTATTGCAAGCAGGCCAGCTAACGCGGTAAGCCTAAAAAACATGTTCATGCCTGGCCCGGCCTCCGTTTCAGAACACCAGGTGTTCTGCGCGCACAATCAAAGACATAc                                               >  1:306915/1‑149 (MQ=255)                                                                                                        gCACGCGTGATATCTTCTACAGCGAAGGTCTGGCCTGCTATTGCAAGCAGGCCAGCTAACGCGGTAAGCCTAAAAAACATGTTCATGCCTGGCCCGGCCTCCGTTTCAg                                                                                    <  2:11278/109‑1 (MQ=255)                                                                                                        gCACGCGTGATATCTTCTACAGCGAAGGTCTGGCCTGCTATTGCAAGCAGGCCAGCTAACGCGGTAAGCCTAAAAAACATGTTCATGCCTGGCCCGGCCTCCGTTTCAg                                                                                    >  1:11278/1‑109 (MQ=255)                                                                                                                               gAAGGTCTGGCCTGCTATTGCAAGCAGGCCAGCTAACGCGGTAAGCCTAAAAAACATGTTCATGCCTGGCCCGGCCTCCGTTTCAGAACACCAGGTGTTCTGCGCGCACAATCAAAGACATACCCGAATTCAGCTGGACGCGGACGCCg                     >  1:385892/1‑149 (MQ=255)                                                                                                                                aaGGTCTGGCCTGCTATTGCAAGCAGGCCAGCTAACGCGGTAAGCCTAAAAAACATGTTCATGCCTGGCCCGGCCTCCGTTTCAGAACACCAGGTGTTCTGCGCGCACAATCAAAGACATACCCGAATTCAGCTGGACGCGGACGCCGt                    <  2:482255/149‑1 (MQ=255)                                                                                                                                   gTCTGGCCTGCTATTGCAAGCAGGCCAGCTAACGCGGTAAGCCTAAAAAACATGTTCATGCCTGGCCCGGCCTCCGTTTCAGAACACCAGGTGTTCTGCGCGCACAATCAAAGACATACCCGAATTCAGCTGGACGCGGACGCCGTCtt                 >  1:245580/1‑149 (MQ=255)                                                                                                                                        gCCTGCTATTGCAAGCAGGCCAGCTAACGCGGTAAGCCTAAAAAACATGTTCATGCCTGGCCCGGCCTCCGTTTCAGAACACCAGGTGTTCTGCGCGCACAATCACAGACATACCCGGAGTCAGCTGGACGCGGACGCCGTCTTTGGTg            >  1:222119/1‑149 (MQ=255)                                                                                                                                          cTGCTATTGCAAGCAGGCCAGCTAACGCGGTAAGCCTAAAAAACATGTTCATGCCTGGCCCGGCCTCCACTTCAGAACACCAGGTGTTCTGCGCGCACAATCAAAGACATACCCGAATTCACCTGGACGCGGACGCCGTCTTTGGTgct          >  2:189596/1‑147 (MQ=255)                                                                                                                                           tGCTATTGCAAGCAGGCCAGCTAACGCGGTAAGCCTAAAAAACATGTTCATGCCTGGCCCGGCCTCCGTTTCAGAACACCAGGTGTTCTGCGCGCACAATCaa                                                       <  2:179746/103‑1 (MQ=255)                                                                                                                                           tGCTATTGCAAGCAGGCCAGCTAACGCGGTAAGCCTAAAAAACATGTTCATGCCTGGCCCGGCCTCCGTTTCAGAACACCAGGTGTTCTGCGCGCACAATCaa                                                       >  1:179746/1‑103 (MQ=255)                                                                                                                                           tGCTATTGCAAGCAGGCCAGCTAACGCGGTAAGCCTAAAAAACATGTTCATGCCTGGCCCGGCCTCCGTTTCAGAACACCAGGTGTTCTGCGCGCACAATCAAAGACATACCCGAATTCAGCTGGACGCGGACGCCGTCTTTGGTGAtt         >  1:154957/1‑149 (MQ=255)                                                                                                                                                ttGCAAGCAGGCCAGCTAACGCGGTAAGCCTAAAAAACATGTTCATGCCTGGCCCGGCCTCCGTTTCAGAACACCAGGTGTTCTGCGCGCACAATCAAAGACATACCCGAATTCAGCTGGACGCGGACGCCGTCTTTGGTGATTTCTaa    <  1:39947/149‑1 (MQ=255)                                                                                                                                                  gCAAGCAGGCCAGCTAACGCGGTAAGCCTAAAAAACATGTTCATGCCTGGCCCGGCCTCCGTTTCAGAACACCAGGTGTTCTGCGCGCACAATCAAAGACATACCCGAATTCAGCTGGACGCGGACGCCGTCTTTGGTGATTTCTAATa  <  1:117186/149‑1 (MQ=255)                                                                                                                                                    |                                                                                                                                                   ATCGAGGTCGAACTGGCGATAATGAGAACGGGTGAAGCGCGACGTTACGCGCTCACTTACCGTCGCATGCTGCGTCTCTTCCTTTAATACCGGAATTTGATCAGCACGCGTGATATCTTCTACAGCGAAGGTCTGGCCTGCTATTGCAAGCAGGCCAGCTAACGCGGTAAGCCTAAAAAACATGTTCATGCCTGGCCCGGCCTCCGTTTCAGAACACCAGGTGTTCTGCGCGCACAATCAAAGACATACCCGAATTCAGCTGGACGCGGACGCCGTCTTTGGTGATTTCTAATA  >  NC_000913_3_pae_tpiA/1914628‑1914921

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.