New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	4049740 =	62 (2.200)	4 (0.150)	4/272	3.4	6.9%	coding (2775/2787 nt)	polA	5' to 3' DNA polymerase and 3' to 5'/5' to 3' exonuclease
	?	NC_000913_3_pae_tpiA	4049764 =	49 (1.830)					intergenic (+12/‑135)	polA/spf	5' to 3' DNA polymerase and 3' to 5'/5' to 3' exonuclease/Spot 42 sRNA antisense regulator of galK translation, Hfq‑dependent
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

TGGTATTTGAAGTTCATAAAGATGATGTTGATGCCGTCGCGAAGCAGATTCATCAACTGATGGAAAACTGTACCCGTCTGGATGTGCCGTTGCTGGTGGAAGTGGGGAGTGGCGAAAACTGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCTTTTTTCGTAAGTAAGCAACATAAGCTGTCACGTTTTGTGATGGCTATTAGAAATTCCTATGCAACAACTGAAAAAAAATTACAAAAAGTGCTTTCTGAACTGAACAAAAAAGAGTAAAGTTAGTCGCGTAGGGTACA  >  NC_000913_3_pae_tpiA/4049616‑4049908                                                                                                                                                     |                                                                                                                                                 tGGTATTTGAAGTTCATAAAAATGATGTTGATGCCGTCGAGAAGCAGATTCATCAACTGATGGAAAACTGTACCCGTCTGGATGTGCCGTTGCTGGTGAAAGTGGGAAGAGGCGAAACCTAGGATCAGGCGCACTAAGATTCGCCTGaa                                                                                                                                                  >  2:183759/1‑149 (MQ=255)   gTATTTGAAGTTCATAAAGATGATGTTGATGCCGTCGCGAAGCAGATTCATCAACTGATGGAAAACTGTACCCGTCTGGATGTGCCGTTGCTGGTGGAAGTGGGGAGTGGCGAAAACTGGGATCAGGCGCACTAAGATTCGCATGAACa                                                                                                                                                >  1:212428/1‑149 (MQ=255)           aGTTCATAAAGATGATTTTGATGCCGTCGCGAAGCAGATTCATTAACTGATGGAAAACTGTACCCGTCTGGATGTGCCGTTGCTGGTGGAAGTGGGGAGTGGCGAAAACTGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCtttt                                                                                                                                        <  1:44937/149‑1 (MQ=255)           aGTTCATAAAGATGATGTTGATGCCGTCGCGAAGCAGATTCATCAACTGATGGAAAACTGTACCCGTCTGGATGTGCCGTTGCTGGTGGAAGTGGGGAGTGGCGAAAACTGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCtttt                                                                                                                                        <  2:406945/149‑1 (MQ=255)            gTTCATAAAGATGATGTTGATGCCGTCGCGAAGCAGATTCATCAACTGATGGAAAACTGTCCCCGTCTGTATGTGCCGTTGCTGGTGGAGGTGGGGAGTGCCGAAAACTGGGATAAGTCGCACTCAGCTTCGCCTGAACATGGCttttt                                                                                                                                       >  2:340138/1‑149 (MQ=255)            gTTCATAAAGATGATGTTGATGCCGTCGCGAAGCAGATTCATCAACTGATGGAAAACTGTACCCGTCTGGATGTGCCGTTGCTGGTGGAAGTGGGGAGTGGCGAAAACTGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCttttt                                                                                                                                       <  1:62287/149‑1 (MQ=255)             ttCATAAAGATGATGTTGATGCCGTCGCGAAGCAGATTCATCAACTGATGGAAAACTGTACCCGTCTGGATGTGCCGTTGCTGGTGGAAGTGGGGAGTGGCGAAAAATGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCtttttt                                                                                                                                      >  2:137767/1‑149 (MQ=255)              tCATAAAGATGATGTTGATGCCGTCGCGAAGCAGATTCATCAACTGATGGAAAACTGTACCCGTCTGGATGTGCCGTTGCTGGTGGAAGTGGGGAGTGGCGATATCTGGGGTCTGGGGCACTAAGATTCGCCTGAACATGCCTTTTTTc                                                                                                                                     <  1:75754/149‑1 (MQ=255)                aTAAAGATGATGTTGATGCCGTCGCGAAGCAGATTCATCAACTGATGGAAAACTGTACCCGACTGGATGAGCCGATGCTGGAGGAAGTGGGGACTGGCGAAAACTGGAATACCGCGCCCTAAAATTCGCCTTACCATACCGTGTTTctt                                                                                                                                   >  2:346827/1‑147 (MQ=255)                 tAAAGATGATGTTGATGCCGTCGCGAAGCAGATTCATCAACTGATGGAAAACTATACCCGTCTGGATGTGCCGTTGCTGGTGGAAGTGGGGAGTGGCGAAAACTGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCTTTTTTCgta                                                                                                                                  >  1:329839/1‑149 (MQ=255)                    aGATGATGTTGATGCCGTCGCGAAGCAGATTCATCAACTGATGGAAAACTGTACCCGTCTGGATGTGCCGTTGCTGGTGGAAGTGGGGAGTGGCGAAAACTGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCTTTTTTCgtaagt                                                                                                                               >  1:356887/1‑149 (MQ=255)                       tgatgTTGATGCCGTCGCGAAGCAGATTCATCAACTGATGGAAAACTGTACCCGTCTGGATGTGCCGTTGCTGGTGGAAGTGGGGAGTGGCGAAAACTGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCTTTTTTCGtaagtaag                                                                                                                            >  2:283698/1‑149 (MQ=255)                        gatgTTGATGCCGTCGCGAAGCAGATTCATCAACTGATGGAAAACTGTACCCGTCTGGATGTGCCGTTGCTGGTGGAAGTGGGGAGTGGCGAAAACTGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCTTTTTTc                                                                                                                                     >  1:40430/1‑139 (MQ=255)                        gatgTTGATGCCGTCGCGAAGCAGATTCATCAACTGATGGAAAACTGTACCCGTCTGGATGTGCCGTTGCTGGTGGAAGTGGGGAGTGGCGAAAACTGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCTTTTTTc                                                                                                                                     <  2:40430/139‑1 (MQ=255)                                    gTCGCGAAGCAGATTCATCAACTGATGGAAAACTGTACCCGTCTGGATGTGCCGTTGCTGGTGGAAGTGGGGAGTGGCGAAAACTGGGATCAGGCGCACTAAGATTCGCGTGAACATGCCTTTTTTCGTAAGTAAGCAACATAAGCTGt                                                                                                               >  2:406748/1‑149 (MQ=255)                                     tCGCGAAGCAGATTCATCAACTGATGGAAAACTGTACCCGTCTGGATGTGCCGTTGCTGGTGGAAGTGGGGAGTGGCGAAAACTGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCTTTTTTCGTAAGTAAGCAACATACGCTGTc                                                                                                              >  1:53243/1‑149 (MQ=255)                                     tCGCGAAGCAGATTCATCAACTGATGGAAAACTGTACCCGTCGGCATGGGCCGATGCTGGTGAGTTTTGGGAGTGGCGAAAACTGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCTTTTTTCGTAAGTAAGCAACATAAGCTGTc                                                                                                              >  2:477832/1‑149 (MQ=255)                                       gcgAAGCAGATTCATCAACTGATGGAAAACTGTACCCGTCTGGATGTGCCGTTGCTGGTGGAAGTGGGGAGTGGCGAAAACTGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCTTTTTTCGTAAGTAAGCAACATAAGCTGTGAc                                                                                                            >  1:19542/1‑149 (MQ=255)                                         gAAGCAGATTCATCAACTGATGGAAAACTGTACCCGTCTGGATGTGCCGTTGCTGGTGGAAGTGGGGAGTGGCGAAAACTGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCTTTTTTCGTAAGTGAGCAACATAAGCTGTCACGt                                                                                                          >  1:186046/1‑149 (MQ=255)                                         gAAGCAGATTCATCAACTGATGGAAAACTGTACCCGTCTGGATGTGCCGTTGCTGGTGGAAGTGGGGAGTGGCGAAAACTGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCTTTTTTCGTAAGTAAGCAACATAAGCTGTCACGt                                                                                                          >  1:75163/1‑149 (MQ=255)                                           aGCAGATTCATCAACTGATGGAAAACTGTACCCGTCTGGATGTGCCGTTGCTGGTGGAAGTGGGGAGTGGCGAAAACTGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCTTTTTTCGTAAGTAAGCAACATAAGCTGTTACGttt                                                                                                        >  1:403148/1‑149 (MQ=255)                                           aGCAGATTCATCAACTGATGGAAAACTGTACCCGTCTGGATGTGCCGTTGCTGGTGGAAGTGGGGAGTGGCGAAAACTGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCTTTTTTCGTAAGTAAGCAACATAAGCTGTCACGttt                                                                                                        <  1:76302/149‑1 (MQ=255)                                            gCAGATTCATCAACTGATGGAAAACTGTACCCGTCTGGATGTGCCGTTGCTGGTGGAAGTGGGGAGTGGCGAAAACTGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCTTTTTTCGTAAGTAAGCAACATAAGCTGTCACGtttt                                                                                                       <  1:42636/149‑1 (MQ=255)                                             cAGATTCATCAACTGATGGAAAACTGTACCCGTCTGGATGTGCGGTTGCTGGTGGAAGTGGGGAGTGGCGAAAACTGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCTTTTTTCGTAAGTAAGCAACATAAGCTGTCACGTTTtg                                                                                                      >  2:57876/1‑149 (MQ=255)                                                aTTCATCAACTGATGGAAAACTGTACCCGTCTGGATGTGCCGTTGCTGGTGGAAGTGGGGAGTGGCGAAAACTGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCTTTTTTCGTAAGTAAGCAACATAAGCTGTCACGTTTTGTGa                                                                                                   >  2:37422/1‑149 (MQ=255)                                                  tcatcaACTGATGGAAAACTGTACCCGTCTGGATGTGCCGTTGCTGGTGGAAGTGGGGAGTGGCGAAAACTGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCTTTTTTCGTAAGTAAGCAACATAAGCTGTCACGTTTTGTGATg                                                                                                 <  2:152905/149‑1 (MQ=255)                                                         cTGATGGAAAACTGTACCCGTCTGGATGTGCCGTTGCTGGTGGAAGTGGGGAGTGGCGAAAACTGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCTTTTTTCGTAAGTAAGCAACATAAGCTGTCACGTTTTGGGATAGCTATTa                                                                                          >  1:428853/1‑149 (MQ=255)                                                          tGATGGAAAACTGTACCCGTCTGGATGTGCCGTTGCTGGTGGAAGTGGGGAGTGGCGAAAACTGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCTTTTTTCGTAAGTAAGCAACATAAGCTGTCACGTTTTGTGATGGCTATTAg                                                                                         >  2:37979/1‑149 (MQ=255)                                                            aTGGAAAACTGTACCCGTCTGGATGTGCCGTTGCTGGTGGAAGTGGGGAGTGGCGAAAACTGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCTTTTTTCGTAAGTAAGCAACATAAGCTGTCACGTTTTGTGATGGCTATTAGaa                                                                                       >  2:208140/1‑149 (MQ=255)                                                             tGGAAAACTGTACCCGTCTGGATGTGCCGTTGCTGGTGGAAGTGGGGAGTGGCGAAAACTGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCTTTTTTCGTAAGTAAGCAACATAAGCTGTCACGTTTTGTGATGGCGATTCGaga                                                                                      >  2:67812/1‑147 (MQ=255)                                                                   aCTGTACCCGTCTGGATTTGCCGTTGCTGGTGGAAGTGGGGAGTGGCGAAAACTGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCTTTTTTCGTAAGTAAGCAACATAAGCTGTCACGTTTTGTGATGGCTATTAGAAATTCCTa                                                                                <  2:10542/149‑1 (MQ=255)                                                                     tGTACCCGTCTGGATGTGCCGTTGCTGGTGGAAGTGGGGAGTGGCGAAAACTGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCTTTTTTCGTAAGTAAGCAACATAAGCTGTCACGTTTTGTGATGGCTATTAGAAATTCCTATg                                                                              >  1:15991/1‑149 (MQ=255)                                                                           cGTCTGGATGTGCCGTTGCTGGTGGAAGTGGGGAGTGGCGAAAACTGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCTTTTTTCGTAAGTAAGCAACATAAGCTGTCACGTTTTGTGATGGCTATTAGAAATTCCTATGcaacaa                                                                        <  2:403148/149‑1 (MQ=255)                                                                               tGGATGTGCCGTTGCTGGTGGAAGTGGGGAGTGGCGAAAACTGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCTTTTTTCGTAAGTAAGCAACATAAACTGTCACGTTTTGTGATGGCTATTAGAAATTCCTATGCCACAACTGa                                                                    >  2:158339/1‑149 (MQ=255)                                                                                  aTGTGCCGTTGCTGGTGGAAGTGGGGAGTGGCGAAAACTGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCTTTTTTCGTAAGTAAGCAACATAAGCTGTCACGTTTTGTGATGGCTATTAGAAATTCCTATGCAACAACTGaaaa                                                                 <  1:37422/149‑1 (MQ=255)                                                                                       ccGTTGCTGGGGGAAGTGGGCAGTGGCGAAAACTGGGAACAAAACAACTAAGATTCGCCTGAACATGCCTTTTTTCGTAAGTAAGCAACATAAGCTGTCACGTTTTGTGATGGCTATTAGAAATTCCTATGCAACAACTGAAAAAAAAt                                                            <  1:363686/149‑1 (MQ=255)                                                                                             cTGGTGGAAGGGGAGAGTGGCAAAAACTGGGATCAGGCGCACAAAGATACGCCTGAACATGCCTTTTTTCGTAAGTAAGCAACATAAGCTGTCACGTTTTGTGATGGCTATTAGAAATTCCTATGCAACAACTGAAAAAAAATTACaaa                                                      <  2:19542/149‑1 (MQ=255)                                                                                               ggtggAAGTGGGGAGTGGCGAAAACTGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCTTTTTTCGTAAGTAAGCAACATAAGCTGTCACGTTTTGTGATGGCTATTAGAAATTCCTATGCAACAACTGAAAAAAAATTACaaaaa                                                    <  1:400633/149‑1 (MQ=255)                                                                                                gtggAAGTGGGGAGTGGCGAAAACTGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCTTTTTTCGTAGTTAAGCAACATAAGCGGTCAGGTTTTGTGATGGCTTTTAGAAATTCCTATGCAAAAACTAAGAAAAAGTTACAAAAAg                                                   >  1:105000/1‑149 (MQ=255)                                                                                                                   aaaaCTGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCTTTTTTCGTAAGTAAGCAACATAAGCTGTCACGTTTTGTGATGGCTAtt                                                                                           <  1:274410/90‑1 (MQ=255)                                                                                                                   aaaaCTGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCTTTTTTCGTAAGTAAGCAACATAAGCTGTCACGTTTTGTGATGGCTAtt                                                                                           >  2:274410/1‑90 (MQ=255)                                                                                                                     aaCTGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCTTTTTTCGTAAGTAAGCAACATAAGCTGTCACGTTTTGTGATGGCTATTAGAAATTCCTATGCAACAACTGAAAAAAAATTACAAAAAGTGCTTTCTGAACTGAACaaaa                              <  2:356887/149‑1 (MQ=255)                                                                                                                       cgaggACCAGACTCAATAAGATTCGCCTCAACAAACTTTAAATAATAAATTAGCAACATAAGTTGTCACGTTTTGCGATCGCTATTAGAAATTCCTATGCAACAACTGAAAAAAAATTACAAAAAGTGCTTTCTGAACTGAACaaaaaa                            <  2:476892/146‑1 (MQ=255)                                                                                                                       cTGGTAGCAGGCGAACTACGGTTCGGCTGAATATGCATTTTTTCGTAAGTAAGCAACATAAGCTGTCTCGTTTTGTGATGGCGATTACAAATTCCTACGCAACAACTGAAAAAAAATTACAAAAAGTGCTTTCTGAACTGAACaaaaaa                            <  2:40932/149‑1 (MQ=255)                                                                                                                        tGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCTTTTTTCGTAAGTAAGCAACATAAGCTGTCACGTTTTGTGATGGCTATTAGAAATTCCTATGCAACAACTGAAAACAAATTAAAAAAAGTGCTTTCTGAACTGGACACAAAag                           >  2:32922/1‑149 (MQ=255)                                                                                                                        tGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCTTTTTTCGTAAGTAAGCAACATAAGCTGTCACGTTTTGTGATGGCTATTAGAAATTCCTATGCAACAACTGAAAAAAAATTACAAAAAGTGCTTTCTGAACTGAACAAAAAag                           >  1:34244/1‑149 (MQ=255)                                                                                                                        tGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCTTTTTTCGTAAGTAAGCAACATAAGCTGTCACGTTTTGTGATGGCTATTAGAAATTCCTATGCAACAACTGAAAAAAAATTACAAAAAGTGCTTTCTGAACTGAACAAAAAag                           <  1:283698/149‑1 (MQ=255)                                                                                                                              cAGGCGCACTAAGAGTCGCCTGAACATGCCTTTTTTCGTAAGTAAGCAACATAAGCTGTCACGTTTTGTGATGGCTATTAGAAATTCCTATGCAACAACTGAAAAAAAATTACAAAAAGTGCTTTCTGAACTGAACAAAAAAGAGTaaa                     <  1:186174/149‑1 (MQ=255)                                                                                                                                ggCGCACTAAGATTCGCCTGAACATGCCTTTTTTCGTAAGTAAGCAACATAAGCTGTCACGTTTTGTGATGGCTATTAGAAATTCCTATGCAACAACTGAAAAAAAATTACAAAAAGTGCTTTCTGAACTGAACAAAAAAGAGAAAAGt                   >  1:449907/1‑149 (MQ=255)                                                                                                                                                 cTGAACATGCCTTTTTTCGTAAGTAAGCAACATAAGCTGTCACGTTTTGTGATGGCTATTAGAAATTCCTATGCAACAACTGAAAAAAAATTACAAAAAGTGCTTTCTGAACTGAACAAAAAAGAGTAAAGTTAGTCGCGTAGGGTACa  >  1:410812/1‑149 (MQ=255)                                                                                                                                                     |                                                                                                                                                 TGGTATTTGAAGTTCATAAAGATGATGTTGATGCCGTCGCGAAGCAGATTCATCAACTGATGGAAAACTGTACCCGTCTGGATGTGCCGTTGCTGGTGGAAGTGGGGAGTGGCGAAAACTGGGATCAGGCGCACTAAGATTCGCCTGAACATGCCTTTTTTCGTAAGTAAGCAACATAAGCTGTCACGTTTTGTGATGGCTATTAGAAATTCCTATGCAACAACTGAAAAAAAATTACAAAAAGTGCTTTCTGAACTGAACAAAAAAGAGTAAAGTTAGTCGCGTAGGGTACA  >  NC_000913_3_pae_tpiA/4049616‑4049908

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.