New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	3423665 =	NA (NA)	5 (0.090)	5/286	8.1	5.6%	intergenic (‑10/+3)	thrV/rrfD	tRNA‑Thr/5S ribosomal RNA of rrnD operon
	?	NC_000913_3_pae_tpiA	= 4040683	86 (1.440)					intergenic (+47/+223)	rrfA/mobB	5S ribosomal RNA of rrnA operon/molybdopterin‑guanine dinucleotide biosynthesis protein B
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

ACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAACTTTAACCTAAAAAGTGGTGCTGATACCCAGAGTCGAACTGGGGACCTCACCCTTACCAAGGGTGCGCTCTACCAACTGAGCCATATCAG‑CACGCTAAATTTGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACGGCCGCCAGGCAAATTCTGTTTTATCAGACCGCT  >  NC_000913_3_pae_tpiA/3423521‑3423809                                                                                                                                                  |                                                                                                                                                 tccgttcTACTTCCGCCAGACATATTCTTTTCTAATCTGCCGAACTTTAACCGAAAAAGTGGGGCTGATACCCAGAGTCGAACTGGGGACCTCACCCTTACCAAGGGTGCGCTCTACCAACTGAGCCATATCAG‑CACGCTAAATTTGAt                                                                                                                                              <  1:176832/143‑1 (MQ=37)     cgcTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAACTTTAACCTAAAAAGTGGTGCTGATACCCAGAGTCGAACTGGGGACCTCACCCTTACCAAGGGTGCGCTCTACCAAATGAGCCATATCAG‑GACGGTAAATTTGATGCCt                                                                                                                                          >  1:494242/1‑149 (MQ=255)      gcTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAACTTTAACCTAAAAAGTGGTGCTGATACCCAAAGTCGAACTGGGGGCCTCACCCTTACCAAGAGTGCGCTCTACCAACTGAGCCATATCAG‑CACGTAAAGTTTGATGCCta                                                                                                                                         >  1:1001144/1‑148 (MQ=255)        tACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAACTTTAACCTAAAAAGTGGTGCTGATACCCAGAGTCGAACTGGGGACCTCACCCTTACCAAGGGTGCGCTCTACCAACTGAGCCATATCAG‑CACGCTAAATTTGATGCCTGGc                                                                                                                                       >  1:90479/1‑149 (MQ=255)        tACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAACTTTAACCTAAAAAGTGGTGCTGATACCCAGAGTCGAACTGGGGACCTCACCCTTACCAAGGGTGCGCTCTACCAACTGAGCCATATCAA‑CACGCTAAATTTGATGCCTGGc                                                                                                                                       >  1:95339/1‑149 (MQ=255)            gccgccAGACAAATTCTTTTCTAATCTGCCGAACTTTAACCTAAAAAGTGGTGCTGATACCCAGAGTCGAACTGGGGACCTCACCCTTACCAAGGGTGCGCTCTACCAACTGAGCCATATCAG‑CACGCTAAATTTGATGCCTGGCAGtt                                                                                                                                   <  1:158036/149‑1 (MQ=255)             ccgccAGACAAATTCTTTTCTAATCTGCCGAACTTTAACCTAAAAAGTGGTGCTGATACCCAGAGTCGAACTGGGGACCTCACCCTTACCAAGGGTGCGCTCTACCAACTGAGCCATATCAG‑CACGCTAAATTTGATGCCTGGCAGTTc                                                                                                                                  >  1:24768/1‑149 (MQ=255)              cgccAGACAAATTCTTTTCTAATCTGCCGAACTTTAACCTAAAAAGTGGTGCTGATACCCAGAGTCGAACTGGGGACCTCACCCTTACCAAGGGTGCGCTCTACCAACTGAGCCATATCAG‑CACGCTAAATTTGATGCCTGGCAGTTcc                                                                                                                                 <  1:667601/149‑1 (MQ=255)                ccAGACAAATTCTTTTCTAATCTGCCGAACTTTAACCTAAAAAGTGGTGCTGATACCCAGAGTCGAACTGGGGACCTCACCCTTACCAAGGGTGCGCTCTACCAACTGAGCCATATCAG‑CACGCTAAATTTGATGCCTGGCAGTTCCCt                                                                                                                               >  1:834649/1‑149 (MQ=255)                  aGACAAATTCTTTTCTAATCTGCCGAACTTTAACCTAAAAAGTGGTGCTGATACCCAGAGTCGAACTGGGGACCTCACCCTTACCAAGGGTGCGCTCTACCAACTGAGCCATATCAG‑CACGCTAAACTTGATGCCTGGCAGTTccccaa                                                                                                                             >  2:625188/1‑146 (MQ=255)                            ttttCTAATCTGCCGAACTTTAACCTAAAAAGTGGTGCTGATACCCAGAGTCGAACTGGGGACCTCACCCTTACCAAGGGTGCGCTCTACCAACTGAGCCATATCAG‑CACGCTAAATTTGATGCCTGGCAGTTCCCTACTCTCGCATgg                                                                                                                   <  1:1022311/149‑1 (MQ=255)                               tttAATCTGCCGAATTTTAACCTATAAAGTGGTGCTTATACCCAGAGTCTTATTGGGGACCTCACCCTTACCAAGGGTGCGCTCGGGCAACTGAGCCATATCAG‑ACCGCCAAATTTGATGCCTGGCAGTTCCCTACTCTCGCATGGGga                                                                                                                <  1:551894/147‑1 (MQ=37)                                 tAAGCTGCCGAACTTTAATCTTAGAAGTGTTGCTGATACCCAGAGTCGAACTGGGGACCTCACCCTTACCAAGGGTGCGCTCGACCAACTGAGCCATATCAG‑CACGCTAAATTTGATGCCTGGCAGTTCCCTACTCTCGCATGGGgaga                                                                                                              <  2:260069/149‑1 (MQ=37)                                   aTCTGCCGAACTTTAACCTAAAAAGTGGTGCTGATACCCAGAGTCGAACTGGGGACCTCACCCTTACCAAGGGTGCGCTCTACCAACTGAGCCATATCAG‑CACGCTAAATTTGATGCCTGGCAGTTCCCCACTCTCCCATGGGTCGAcc                                                                                                            >  1:142239/1‑149 (MQ=255)                                            aCTTTAACCTAAAAAGTGGTGCTGATACCCAGAGTCGAACTGGGGACCTCACCCTTACCAAGGGTGCGCTCTACCAACTGAGCCATATCAG‑CACGCTAAATTTGATGCCTGTCAGTTCCCTACTCTCGCATGCGGAGACTCCACACTAc                                                                                                   >  1:682794/1‑149 (MQ=255)                                                  aCCTAAAAAGTGGTGCTGATACCCAGAGTCGAACTGGGGACCTCACCCTTACCAAGGGTGCGCTCTACCAACTGAGCCATATCAG‑CACGCTAAATTTGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCgg                                                                                             <  2:834649/149‑1 (MQ=255)                                                   ccTAAAAAGTGGTGCTGATACCCAGAGTCGAACTGGGGACCTCACCCTTACCAAGGGTGCGCTCTACCAACTGAGCCATAGCAG‑CACGCTAAATTTGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGgc                                                                                            <  1:556/149‑1 (MQ=255)                                                     tAAAAAGTGGTGCTGATACCCAGAGTCGAACTGGGGACCTCACCCTTACCAAGGGGGCGCTCTACCATCTGCGCCATATCAG‑CACGCTAAATTTGATGCCTGGCAGTTCCCTACTCTCGCATGGGGACACCCCACACTACCATCGgcgc                                                                                          >  2:729640/1‑149 (MQ=255)                                                     tAAAAAGTGGTGCTGATACCCAGAGTCGAACTGGGGACCTCACCCTTACCAAGGGGGCGCTCTACCAACTGAGCCATATCAG‑CACGCTAAATTTGATGCCTGGCAGTTATCTACTCTCGCATGGGGAGACCCCACCATACCATCGgcgg                                                                                          >  1:73264/1‑148 (MQ=37)                                                        aaaGTGGTGCTGATACTCAGAGTCGAACTGGGGACCTCACCCTTACCAAGGGTGCGCTCTACCAACTGAGCCATATCAG‑CACGCTAAATTTGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTAc                                                                                       <  1:931930/149‑1 (MQ=255)                                                           gggttgCTGATACCCAGAGTCGAGCTGGGCACGTCACATTTAACAAGGATGCGCTCTAAGAACTGCGCCAAAGCCGCCTTGCT‑GATTTGTGGCCTGGCAGTGCCCTACTCTCGCATGGGGAGCCCCCACACTACCATCGGCGCTACGGc                                                                                    <  2:899050/145‑1 (MQ=9)                                                               ttcggctACCCGGAGTCGCACTGGGCGCCTCACCTTGTATAAGTGTGCAGTCTACCAACTCAGCCTTATCAG‑CACGCTAAATTTGATGCCTGGCAGTTACCTACTCTCGCATGTGGAGCCCCCACACTACCATCGGCGCTACGGCGttt                                                                                <  2:65548/143‑1 (MQ=17)                                                                    aTACCCAGATTCGAACTCGGCACCTCACCCTTACTAAGGGTGCGCTCTACCACTTCAGCCATATCAG‑CACGCTAAATTTGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACtt                                                                           <  1:465555/149‑1 (MQ=21)                                                                      aCCCAGAGTCGAACTGGGGACCTCACCCTTACCAAGGGTGCGCTCTACCAACTGAGCCATATCAG‑CACGCTAAATTTGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACACCACACTACCATCGGCGCTACAGCGTTTAACTTCt                                                                         >  1:402235/1‑149 (MQ=255)                                                                        ccAGAGTCGACCTGGGGACCTCACCCTTACCAAGGGTGCGCTCTACCAACTGAGCCATATCAG‑CACGCTAAATTTGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGa                                                                       >  2:907854/1‑149 (MQ=255)                                                                        ccAGAGTCGAACTGGGGACCTCACCCTTACCAAGGGTGCGCTCTACCAACTGAGCCATATCAG‑CACGCTAAATTTGATGCCTGGCCGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGa                                                                       <  1:596836/149‑1 (MQ=255)                                                                           gagTCGAACTGGGGACCTCACCCTTACCAAGGGTGCGCTCTACCAACTGAGCCATATCAG‑CACGCTAAATTTGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCCACGGCGCTACGGCGTTTCACTTCTGAGtt                                                                    <  1:729640/149‑1 (MQ=255)                                                                                              aCCCTTACCAAGGGTGCGCTCTACCAACTGAGCCATATCAG‑CACGCTAAATTTGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTggg                                                 >  1:1040212/1‑149 (MQ=255)                                                                                                    aCCAAGGGTGCGCTCTACCAACTGAGCCATATCAG‑CACGCTAAATTTGa                                                                                                                                               <  2:852457/49‑1 (MQ=255)                                                                                                    aCCAAGGGTGCGCTCTACCAACTGAGCCATATCAG‑CACGCTAAATTTGa                                                                                                                                               >  1:852457/1‑49 (MQ=255)                                                                                                      cAAGGGTGCGCTCTACCAACTGAGCCATATCAG‑CACGCTAAATTTGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACcgc                                         >  1:791327/1‑149 (MQ=255)                                                                                                      cAAGGGTGCGCTCTACCAACTGAGCCATATCAG‑CACGCTAAATTTGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACcgc                                         >  1:706117/1‑149 (MQ=255)                                                                                                                    aCCAACTCAGCCATATCAG‑CACGCTAAATTTGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGGGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACGGCCGCCAg                           <  1:443203/149‑1 (MQ=255)                                                                                                                     ccAACTGAGCCATATCAG‑CACGCTAAATTTGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACGGCCGCCAgg                          >  1:741095/1‑149 (MQ=255)                                                                                                                      cAACTGAGCCATATCAG‑CACGCTAAATTTGGTGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATCGGGTCAGGTGGGACCACCGCGCTACGGCCGCCAGGc                         >  1:316160/1‑149 (MQ=255)                                                                                                                       aaCTGAGCCATATCAG‑CACGCTAAATTTGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTTCAATCGGCATCGGGTCAGGTAGGACCACCGCGCTACGGCCGCCAGGCa                        >  1:660747/1‑149 (MQ=14)                                                                                                                               cATATCAG‑CACGCTAAATTTGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACGGCCGCCAGGCAAATTCTGt                <  1:907854/149‑1 (MQ=40)                                                                                                                                atatCAG‑CACGCTAAATTTGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACGGCCGCCAGGCAAATTCTGtt               >  1:554102/1‑149 (MQ=40)                                                                                                                                atatCAG‑CACGCTAAATTTGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGCCGATACGGCGTTTTCCTTCTGAGTTCGGCCTGGGGTCAGGTGTTTCCACCGCACTACGGCCGCCAGGCAAATTCTGtt               <  2:95339/149‑1 (MQ=14)                                                                                                                                atacacg‑CACGCTAAATTTGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACGGCCGCCAGGCAAATTCTGtt               <  2:90479/143‑1 (MQ=25)                                                                                                                                     aG‑CACGCTAAATTTGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACAGCCGCCAGGCAAATTCTGTTTTAta          >  1:23200/1‑148 (MQ=37)                                                                                                                                     aG‑CACGCTAAATTTGATGCCTGGCAGTTCCCCACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACGGCCGCCAGGCAAATTCTGTTTTATc          <  2:142239/149‑1 (MQ=25)                                                                                                                                       gtaCGCTATATTTGATGTCTGGCAGTTCCCTACTCTTGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACGGCCGCCAGGCAAATTCTGTTTTATCa         <  1:853609/147‑1 (MQ=255)                                                                                                                                        cACGCTAAATTTGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACGGCCGCCAGGCAAATTCTGTTTTATCAg        >  2:620852/1‑149 (MQ=35)                                                                                                                                             tAAATTTGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAg                                                                      <  1:933681/82‑1 (MQ=32)                                                                                                                                             tAAATTTGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAg                                                                      >  2:933681/1‑82 (MQ=32)                                                                                                                                             tAAATTTGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACCGCCCCCAGGCAACTTCTGTTTTGTCAGACCGc   >  2:122165/1‑149 (MQ=9)                                                                                                                                              aaaTTTGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACCGCCGCCAGGCAAATTCTGTTTTATCCGACCGCt  >  2:135840/1‑149 (MQ=11)                                                                                                                                                  |                                                                                                                                                 ACCGCGCTACTGCCGCCAGACAAATTCTTTTCTAATCTGCCGAACTTTAACCTAAAAAGTGGTGCTGATACCCAGAGTCGAACTGGGGACCTCACCCTTACCAAGGGTGCGCTCTACCAACTGAGCCATATCAG‑CACGCTAAATTTGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACGGCCGCCAGGCAAATTCTGTTTTATCAGACCGCT  >  NC_000913_3_pae_tpiA/3423521‑3423809

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.