New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	= 2133431	NA (NA)	7 (0.180)	5/264	4.8	NA	intergenic (‑34/+59)	wcaA/wzc	putative glycosyl transferase/colanic acid production tyrosine‑protein kinase; autokinase; Ugd phosphorylase
	?	NC_000913_3_pae_tpiA	= 2133461	NA (NA)					noncoding (30/34 nt)	REP145 (repetitive extragenic palindromic) element; contains 1 REP sequences	REP145 (repetitive extragenic palindromic) element; contains 1 REP sequences
Rejected: Coverage evenness skew score above cutoff.

CCAGTTGCTGTAGTCCTGGCGCAAAACCGATTTTATTGCCCGAATCGCCAGTTGTTGGCGGTTCCAGGTCGGCATATAGATTGAGATCAGCGGATTGTTTTTCATAGGTTGTTCTCCCGGCTTATGAGCTGGTTTGCTTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGGGCGGTGCGAATGCAGGCGTCGTTATTTCGCATCCGACTTATATTCGTATTCGTAATAGCCATAATCCTGATACGCGCTGGCGCGGCGGAAGATGGAGTTCAGAATCA  >  NC_000913_3_pae_tpiA/2133293‑2133575                                                                                                                                           |                                                                                                                                                 ccAGTTGCTGTAGTCCTGGCGCAAAACCGATTTTATTGCCCGAATCGCCAGTTGTTGGCGGTTCCAGGTCGGCATATAGATTGAGATCAGCGGATTGTTTTTCATAGGTTGTTCTCCCGGCTTATGAGCTGGTTTGCTTGCCGGAtaag                                                                                                                                        >  1:81601/1‑146 (MQ=255)  cAGTTGCTGTAGTCCTGGCGCAAAACCGATTTTATTGCCCGAATCGCCAGTTGTTGGCGGTTCCAGGTCGGCCTATAGATTGAGATCAGCGGATTGTTTTTCATAGGTTGTTCTCCCGGCTTATGAGCTGGTTTGCTTGCCGGATgcgg                                                                                                                                       >  1:144903/1‑149 (MQ=255)     ttGCTGTAGTCCTGGCGCAAAACCGATTTTATTGCCCGAATCGCAAGTTGTTGGCGGTTCCCGGTCGGCATATAGATTGAGATCAGCGGATTGTTTTTCATAGATTGTTCTCCCGGCTGCTGATCTGGTTTGCTTGCCAGATGCGGCGt                                                                                                                                    >  1:155825/1‑149 (MQ=255)         tGTAGTCCTGGCGCAAAACCGATTTTATTGCCCGAATCGCCAGTTGTTGGCGGTTCCAGGTCGGCATATAGATTGAGATCAGCGGATTGTTTTTCATAGGTTGTTCTCCCGGCTTATGAGCTGGTTTGCTTGCCGGATGCGGCGTGAAc                                                                                                                                <  1:500314/149‑1 (MQ=255)          gTAGTCCTGGCGCAAAACCGATTTTATTGCCCGAATCGCCAGTTGTTGGCGGTTCCAGGTCGGCATATAGATTGAGATCAGCGGATTGTTTTTCATAGGTTGTTCTCCCGGCTTATGAGCTGGTTTGCTTGCCGGATGCGGCGTGAACg                                                                                                                               >  1:255223/1‑149 (MQ=255)                   gcgcAAAACCGATTTTATTGCCCGAATCGCCAGTTGTTGGCGGTTCCAGGTCGGCATATAGATTGAGATCAGCGGATTGTTTTTCATAGGTTGTTCTCCCGGCTTATGAGCTGGTTTGCTTGCCGGATGCGGCGTGAACGCCTTATCCg                                                                                                                      >  2:23297/1‑149 (MQ=255)                     gcAAAACCGATTTTATTGCCCGAATCGCCAGTTGTTGGCGGTTCCAGGTCGGCATATAGATTGAGATCAGCGGATTGTTTTTCATAGGTTGTTCTCCCGGCTTATGAGCTGGTTTGCTTGCCGGATGCGGCGTGAACGCCTTATCCGGc                                                                                                                    <  1:613212/149‑1 (MQ=255)                        aaaCCGATTTTATTGCCCGAATCGCCAGTTGTTGGCGGTTCCAGGTCGGCATATAGATGGAGATCAGCGGATTGTTTTTCATAGGTTGTTCTCCCCGCTTATGAGCTGGTTCGCTTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTa                                                                                                                 <  2:237668/149‑1 (MQ=255)                          aCCGATTTTATTGCCCGAATCGCCAGTTGTTGGCGGTTCCAGGTCGGCATATAGATTGAGATCAGCGGATTGTTTTTCATAGGTTGTTCTCCCGGCTTATGAGCTGGTTTGCTTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACg                                                                                                               <  1:636954/149‑1 (MQ=255)                                       cccGAATCGCCAGTTGTTGGCGGTTCCAGGTCGGCATATAGATTGAGATCAGCGGATTGTTTTTCATAGGTTGTTCTCCCGGCTTATGAGCTGGTTTGCTTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGGGCGGTGCGAAt                                                                                                  >  2:90191/1‑149 (MQ=255)                                                ccAGTTGTTGGCGGTTCCAGGTCGTCATATAGATTGAGATCAGCGGATTGTTTTTCATAGGTTGTTCTCCCGGCTTATGAGCTGGTTTGCTTGCCGGATGCGGCGTGAACGCCTTAGCCGGCCTACGTGGCGGTGCGAATGCAGGcgtc                                                                                         <  2:582480/149‑1 (MQ=255)                                                ccAGTTGTTGGCGGTTCCAGGTCGGCATATAGATTGAGATCAGCGGATTGTTTTTCATAGGTTGTTCTCCCGGCTTATGAGCTGGTTTGCTTGCCGGATAAGGCGTTCACGCCGCATCCGGcaa                                                                                                                  >  2:567854/1‑122 (MQ=38)                                                          gCGGTTCCAGGTCGGCATATAGATTGAGATCAGCGGATTGTTTTTCATAGGTTGTTCTCCCGGCTTATGAGCTGGTTTGCTTGCCGGATGCGGCGTGAACGCCTTATCCTGCCTACGGGGCGGTGCGAATGCAGGCGTCGTTATTTCGc                                                                               >  2:448003/1‑149 (MQ=255)                                                            ggTTCCAGGTCGGCATATAGATTGAGATCAGCGGATTGTTTTTCATAGGTTGTTCTCTCGTCTTATGAGCTGGTTTGCTTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGGGCGGTGCGAATGCAGGCGTCGTTATTTCGCAt                                                                             >  1:669836/1‑149 (MQ=255)                                                                  aGGTCGGCATATAGATTGAGATCAGCGGATTGTTTTTCATAGGTTGTTCTCCCGGCTTATGAGCTGGTTTGCTTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGGGCGGTGCGAATGCAGGCGTCGTTATTTCGCATCCGACt                                                                       >  1:580506/1‑149 (MQ=255)                                                                         cATATAGATTGAGATCAGCGGATTGTTTTTCATAGGTTGTTCTCCCGGCTTATGAGCTGGTTTGCTTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGGGCGGTGCGAATGCAGGCGTCGTTATTTCGCATCCGACTTAtattc                                                                <  1:24176/149‑1 (MQ=255)                                                                           tataGATTGAGATCAGCGGATTGTTTTTCATAGGTTGTTCTCCCGGCTTATGAGCTGGTTTGCTTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGGGCGGTGCGAATGCAGGCGTCGTTAtt                                                                                   <  1:191945/128‑1 (MQ=255)                                                                           tataGATTGAGATCAGCGGATTGTTTTTCATAGGTTGTTCTCCCGGCTTATGAGCTGGTTTGCTTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGGGCGGTGCGAATGCAGGCGTCGTTAtt                                                                                   >  2:191945/1‑128 (MQ=255)                                                                               gATTGAGATCAGCGGATTGTTTTTCATAGGTTGTTCTCCCGGCTTATGAGCTGGTTTGCTTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGGGCGGTGCGAATGCAGGCGTCGTTATTTCGCATCCGACTTAtattcgtattc                                                          >  1:303591/1‑149 (MQ=255)                                                                                   gagaTCTGTGGAGTGTTTTTCATAGGTTGTTCTCCTGGCTTAGGAGCTGGTTTGCTTGCCGGATGCGGCGTGAACGCCTTATCCGTCCTACGGGTCGGTGCGAATGCAGGCGTCGTTATTGCGCATCCGACTTATATTCGTATTCGTaa                                                      <  2:79701/149‑1 (MQ=38)                                                                                     gaTCAGCGGATTGTTTTTCATAGGTTGTTCTCCCGGCTTATGAGCTGGTTTGCTTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGGGCGGTGCGAATGCAGGCGTCGTTATTTCGCATCCGAATTATATTCGTATTCGTAATa                                                    >  2:33842/1‑149 (MQ=255)                                                                                      aTCAGCGGATTGTTTTTCATAGGTTGTTCTCCCGGCTTATGAGCTGGTTTGCTTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGGGCGGTGCGAATGCAGGCGTCGTTCTTTCGCATCCGCCTTATCTTCGTATTCGTAATAg                                                   >  2:347297/1‑149 (MQ=255)                                                                                      aTCAGCGGATTGTTTTTCATAGGGTGTTCTCCCGGCTTATGAGCTGGTTTGCTTGCCGGGTGCGGCGTGAACTCCTTATCCGGCCTACGGGGCGGTGCGCATGCAAGCGTCGTTATTTCACATCCGACTTATAATCGGATTCGTAAtgg                                                   >  2:402452/1‑147 (MQ=255)                                                                                             gATTGTTTTTCATAGGTTGTTCTCCCGGCTTATGAGCTGGTTTGCTTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGGGCGGTGCGAATGCAGGCGTCGTTATTTCGCATCCGACTTATATTCGTATTCGTAATAGCCATAAt                                            >  1:539577/1‑149 (MQ=255)                                                                                             gATTGTTTTTCATAGGTTGTTCTCCCGGCTTATGAGCTGGTTTGCTTGCCGGATGCGGCGTCAACGCCTTATCCGGCCTACGGGGCGGTGCGAATGCAGGCGTCGTTATTTCGCATCCGACTTATATTCGTATTCGTAATAGCCATAAt                                            >  1:599999/1‑149 (MQ=255)                                                                                               ttGTTTTTCATAGGTTGTTCTCCCGGTTTATGAGCTGGTTTGCTTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGGGCGGTGCGAATGCAGGCGTCGTTATTTCGCATCCGACTTATATTCGTATTCGTAATAGCCATAATcc                                          <  1:164809/149‑1 (MQ=255)                                                                                               ttGGTTTTCATAGGTTGTTCTCCCGGCTTATGAGCTGGTTTGCTTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGGGCGGTGCGAATGCAGGCGTCGTTATTTCGCATCCGACTTATATTCGTATTCGTAATAGCCATAATcc                                          <  1:11401/149‑1 (MQ=255)                                                                                                  tttttCATAGGTTGTTCTCCCGGCTTATGAGCTGGTTTGCTTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGGGCGTTGCGAATGCAGGCGTCGTTATTTCGCATCCGACTTATATTCGTATTCGTAATAGCCATAATCCTGa                                       <  1:478969/149‑1 (MQ=255)                                                                                                     ttaaTAGGTTGTCCCCCCGTCTTATGGGCTGGTTTGCTTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGGGCGGTGCGAATGCAGGCGTCGTTATTTCGCATCCGACTTATATTCGTATTCGTAATAGCCATAATCCTGATAc                                    <  1:179089/146‑1 (MQ=39)                                                                                                        aTAGGTTGTTCTCCCGGCTTATGAGCTGGTTTGCTTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGGGCGGTGCGAATGCAGGCGTCGTTATTTCGCATCCGACTTATATTCGTATTCGTAATAGCCATAATCCTGATAcgcg                                 >  1:170701/1‑149 (MQ=255)                                                                                                        aTAGGTTGTTCTCCCGGCTTATGAGCTGGTTTGCTTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGGGCGGTGCGAATGCAGGCGTCGTTATTTCGCATCCGACTTATATTCGTATTCGTAATAGCCATAATCCTGATAcgcc                                 >  2:683613/1‑148 (MQ=255)                                                                                                         tAGGTTGTTCTCCCGGCTTATGAGCTGGTTTGCTTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGGGCGGTGCGAATGCAGGCGTCGTTATTTCGCATCCGACTTATATTCGTATTCGTAATAGCCATAATCCTGATACgcgc                                >  2:552986/1‑149 (MQ=255)                                                                                                         tAGGTTGTTCTCCCGGCTTATGAGCTGGTTTGCTTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGGGCGGTGCGAATGCAGGCGTCGTTATTTCGCATCCGACTTATATTCGTATTAGTAATAGACATAATACTGATAcgcga                                >  1:102169/1‑148 (MQ=255)                                                                                                           ggTTGTTCTCCCGGATTATGAGCTGGGTTGCTTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGGGCGGTGCGAATGCAGGCGTCGTTATTTCGCATCCGACTTATATTCGTATTCGTAATAGCCATAATCCTGATACGCGCTg                              <  1:582245/149‑1 (MQ=255)                                                                                                               tttCTCTCGGGTTAGTAGGTGGGTTGCTTGCCGGATGCGGCGTGAACGCCTTACCCGGCCTACGGGGCGGTGCGAATGCAGGCGTCGTTATTTCGCATCCGACTTATATTCGTATTCGTAATAGCCATAATCCTGATACGCGCTGgcgc                          <  2:291538/148‑1 (MQ=39)                                                                                                                   tcCCGGCTTATGAGCTGGTTTGCTTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGGGCGGTGCGAATGCAGGCGTCGTTATTTCGCATCCGACTTATATTCGTATTCGTAATAGCCATAATCCTGATACGCGCTGGCgcggcg                      >  2:356777/1‑149 (MQ=255)                                                                                                                     ccGGCTTATGAGCTGGTTTGCTTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGGGCGGTGCGAATGCAGGCGTCGTTATTTCGCATCCGACTTATATTCGTATTCGTAATAGCCCTAATCCTGTTACGCGCTGGCGGGGCGGa                    >  1:487840/1‑149 (MQ=255)                                                                                                                     ccGGCTTATGAGCTGGTTTGCTTGCCGGAAGCGGCGTGAACGGCTTATCCGGCCTACGGGGCGGTTCGAATTCAGGCGTCGTTATTTCGCATCCGACTTATATTCGTATTCGTAATAGCCATAATCCTGATACGCGCTGGCGCGGCGGa                    >  1:103729/1‑149 (MQ=255)                                                                                                                      cGGCTTATGAGCTGGTTTGCTTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGGGCGGTGCGAATGCAGGCGTCGTTATTTCGCATCCGACTTATATTCGTATTCGTAATAGCCATAATCCTGATACCCGCTGGCGCGGCGGaa                   >  2:537892/1‑149 (MQ=255)                                                                                                                          ttATGAGCTGGTTTGCTTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGGGCGGTGCGAATGCAGGCGTCGTTATTTCGCATCCGCCTTATATTCGTATTCGTAATAGCCATAATCCTGATACGCGCTGGCGCGGCGGAAGATg               >  2:32748/1‑149 (MQ=255)                                                                                                                                 cTGGTTTGCTTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGGGCGGTGCGAATGCAGGCGTCGTTATTTCGCATCCGACTTATATTCGTATTCGTAATAGCCATAATCCTGATACGCGCTGGCGCGGCGGAAGATGGAGTTCa        <  1:459066/149‑1 (MQ=255)                                                                                                                                 cTGGTTTGCTTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGGGCGGTGCGAATGCAGGCGTCGTTATTTCGCATCCGACTTATATTCGTATTCGTAATAGCCATAATCCTGATACGCGCTGGCGCGGCGGAAGATGGAGTTCa        <  1:552986/149‑1 (MQ=255)                                                                                                                                    gTTTGCTTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGGGCGGTGCGAATGCAGGCGTCGTTATTTCGCATCCGACTTATATTCGTATTCGTAATAGCCATAATCCTGATACGCGCTGGCGCGGCGGAAGATGGAGTTCAGaa     <  1:23297/149‑1 (MQ=255)                                                                                                                                     tttGCGTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGGGCGGTGCGAATGCAGGCGTCGTTATTTCGCATCCGACTTATATTCGTATTCGTAATAGCCATAATCCTGATACGCGCTGGCGCGGCGGAAGATGGAGTTCAGAAt    <  1:347297/149‑1 (MQ=255)                                                                                                                                       tgcttgcCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGGGCGGTGCGAATGCAGGCGTCGTTATTTCGCATCCGACTTATATTCGTATTCGTAATAGCCATAATCCTGATACGCGCTGGCGCGGCGGAAGATGGAGTTCAGAATCa  <  2:303591/149‑1 (MQ=255)                                                                                                                                           |                                                                                                                                                 CCAGTTGCTGTAGTCCTGGCGCAAAACCGATTTTATTGCCCGAATCGCCAGTTGTTGGCGGTTCCAGGTCGGCATATAGATTGAGATCAGCGGATTGTTTTTCATAGGTTGTTCTCCCGGCTTATGAGCTGGTTTGCTTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGGGGCGGTGCGAATGCAGGCGTCGTTATTTCGCATCCGACTTATATTCGTATTCGTAATAGCCATAATCCTGATACGCGCTGGCGCGGCGGAAGATGGAGTTCAGAATCA  >  NC_000913_3_pae_tpiA/2133293‑2133575

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.