New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_tpiA	= 4291427	45 (1.280)	5 (0.150)	5/264	3.9	10.4%	intergenic (+79/‑1)	nrfD/nrfE	formate‑dependent nitrite reductase, membrane subunit/heme lyase (NrfEFG) for insertion of heme into c552, subunit NrfE
	?	NC_000913_3_pae_tpiA	= 4291429	44 (1.350)					coding (2/1659 nt)	nrfE	heme lyase (NrfEFG) for insertion of heme into c552, subunit NrfE
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

CTGGTCGGCGTGTTGATGCTGCGCTTTTTCATTCTCTACGCCGGACAGTTGACGGTGGCGTAAGCCAGAAAAGAGGTGGTTTCTGGACGTATTCCTTCCTGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTCGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGCATTCTGGCGCAGTTCGCGCTCCTGCTGCTCGCCTTTGGCGTACTGACGTATTGTTTTCTCATCAGCGATTTCT  >  NC_000913_3_pae_tpiA/4291286‑4291575                                                                                                                                              |                                                                                                                                                     cTGGTCGGCGTGTTGATGCTGCGCTTTTTCATTCTCTACGCCGGACAGTTGACGGTGGCGTAAGCCAGAAAAGAGGTGGTTTCTGGACGTATTCCTTCCTGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTCGGGGTCAACGTGTTGa                                                                                                                                               <  1:320994/149‑1 (MQ=255)         cGTGTGGATGCTGCGCTTTTTCATTCTCTACGCCGGACAGTTGACGGTGGCGTAAGCCAGAAAAGAGGTGGTTTCTGGACGTATTCCTTCCTGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTCGGGGTCAACACGTTGACCCCgaga                                                                                                                                       <  1:251219/149‑4 (MQ=255)            gtTGATGCTGCGCTTTTTCATTCTCTACGCCGGACAGTTGACGGTGGCGTAAGCCAGAAAAGAGGTGGGTTCTGGAAGTATCCCTTCCTTGAGTCGGTTTTCTGGCGTTGTTGTTACGTCTCGGGGTCAACGTGTTGACCCCGTTGACg                                                                                                                                    <  1:582263/149‑1 (MQ=255)              tGATGCTGCGCTTTTTCATTCTCTACGCCGGACAGTTGACGGTGGCGTAAGCCAGAAAAGAGGTGGTTTCTGGACGTATTCCTTCCTGACGTCGGTTTTCTGGTGTTGTTGTTAAGTCTCGGGGTCAACGTGTTGACCCCGTTGACGGc                                                                                                                                  <  1:21616/149‑1 (MQ=255)                     gcgcTTTTTCATTCTCTACGCCGGACAGTTGACGGTGGCGTAAGCCAGAAAAGAGGTGGTTTCTGGACGTATTCCTTCCTGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTCGGGGTCAACGTGTTGACCCCGTTGACGGCCTTcgcg                                                                                                                           >  1:289239/1‑149 (MQ=255)                               aTTCTCTACGCCGGACAGTTGACGGTGGCGTAAGCCAGAAAAGATGTGGTTTCTGGACGTATTCCTTCCTGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTCGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGt                                                                                                                 >  1:299090/1‑149 (MQ=255)                                ttCTCTACGCCGGACAGTTGACGGTGGCGTAAGCCAGAAAAGAGGTGGTTTCTGGACGTATTCCTTCCTGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTCGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGtt                                                                                                                >  1:147799/1‑149 (MQ=255)                                        tggggACAGTTGACGGGGGCGTAAGCCAGAGGAGGGGTGGTTTCTGGACGTATTCCTTCCTGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTCGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGGGTGCGGTTGCGCTGGc                                                                                                        <  2:593169/146‑1 (MQ=255)                                                 gtggcGGGGGCGTAAGCCAGGAAAGGGGTGGTTTCTGGACGTATTGCTTCCTGAAGTCGGTTTTCTGGCGTTGTTGGTAAGTCTCGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCatga                                                                                               <  2:109017/145‑1 (MQ=255)                                                 gtGACGGGGGGGTTAGCGAGAAGAGGGGGGGTTTCTGGACTTGTTCTTTCCGGAAGTCGTATTTCTGGCGGTGTTTTTATTGCTCGTGGGCGACGTGTTGAGTTCGTTGATGTCGTTCGCGGGAGTGCGGTTGCGCTGTCCTGCCatga                                                                                               <  2:433082/148‑1 (MQ=255)                                                  tGACGGTGGCGTAAGCCAGAAAAGAGGTGGTTTCTGGACGTATTCCTTCCTGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTCGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCatgat                                                                                              <  1:289429/149‑1 (MQ=255)                                                    aCGGTGGCGTAAGCCAGAAAGGAGGTGGTTACTGGACGTATTCCTTCCTGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTCGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGCTTGCTGTTGGCTGCCATGATGc                                                                                            <  2:230266/149‑1 (MQ=255)                                                            gTAAGCCAGAAAAGAGGTGGTTTCTGGACGTATTCCTTCCTGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTCGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACt                                                                                    >  1:221815/1‑149 (MQ=255)                                                             tAAGCCAGAAAAGAGGTGGTTTCTGGACGTATTCCTTCCTGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTCGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACtt                                                                                   <  2:147799/149‑1 (MQ=255)                                                                 ccAGAAAAGAGGTGGTTTCTGGACGTATTCCTTCCTGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTCGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCAt                                                                               <  1:480210/149‑1 (MQ=255)                                                                     aaaaGAGGTGGTTTCTGGACGTATTCCTTCCTGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTCGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGc                                                                           >  1:238421/1‑149 (MQ=255)                                                                              gggttCGGGACGGATTCCTTCCTGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTCGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGCATTCTGgcg                                                                  <  2:78767/146‑1 (MQ=255)                                                                               gtTTCTGGACGTATTCCTTCCTGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTCGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGCATTCTGgcgc                                                                 >  2:394633/1‑149 (MQ=255)                                                                               gtTTCTGGACGTATTCCTTCCTGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTCGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGCATTCTGgcgc                                                                 >  2:198587/1‑149 (MQ=255)                                                                                    tGGACGTATTCCTTCCTGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTCGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGCATTCTGGCGCAGTTc                                                            >  2:127352/1‑149 (MQ=255)                                                                                           aTTCCTTCCTGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTCGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGCATTCTGGCGCAGTTCGCGCTcc                                                     >  1:508043/1‑149 (MQ=255)                                                                                             tccttcctGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTCGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGCATTCTGGCGCAGTTCGCGCTCctg                                                   >  1:464020/1‑149 (MQ=255)                                                                                               cttcctGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTCGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGCATTCTGGCGCAGTTCGCGCTCctgct                                                 >  1:81456/1‑149 (MQ=255)                                                                                               cttcctGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTCGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGCATTCTGGCGCAGTTCGCGCTCctgct                                                 >  2:199431/1‑149 (MQ=255)                                                                                                  cctGAAGTCGGTTTTCTGGCGTTGGGGTTAAGTCTCGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGCATTCTGGCGCAGTTCGCGCTCCTgctgct                                              <  1:159973/149‑1 (MQ=255)                                                                                                  actGACGTCGGTTTTCTGGTGTTGTTGTTAAGTCTCGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGCATTCTGGCGCAGTTCGCGCTCCTgctgct                                              <  1:269655/148‑1 (MQ=255)                                                                                                      aaGTCGGTTTTCTGGCGTTGTTGTTAAGTCTCGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACtt                                                                                   <  1:548069/108‑1 (MQ=255)                                                                                                      aaGTCGGTTTTCTGGCGTTGTTGTTAAGTCTCGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACtt                                                                                   >  2:548069/1‑108 (MQ=255)                                                                                                            ggtgtCTGGCGGTGTTGTTAAGTCTCGGGGGCAACGTGTTTACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGCATTCTGGCGCAGTTCGCGCTCCTGCTGCTCGCCTTTGGc                                    <  2:518026/145‑1 (MQ=255)                                                                                                            gTTTTCTGGCGTTGTTGTTAAGGCGCGGGGTCAACGTGTGGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGCATTCTGGCGCAGTTCGCGCTCCTGCTGCTCGCCTTTGGc                                    <  2:583740/149‑1 (MQ=255)                                                                                                                  tGGCGTTGTTGTTAAGTCTCGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGCATTCTGgcg                                                                  >  1:252287/1‑113 (MQ=255)                                                                                                                  tGGCGTTGTTGTTAAGTCTCGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGCATTCTGgcg                                                                  <  2:252287/113‑1 (MQ=255)                                                                                                                    gCGTTGTTGTTAAGTCTCGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGCATTCTGGCGCAGTTCGCGCTCCTGCTGCTCGCCTTTGGCGTACTGAc                            <  1:199431/149‑1 (MQ=255)                                                                                                                        tgttgttAAGTCTCGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGCATTCTGGCGCAGTTCGCGCTCCTGCTGCTCGCCTTTGGCGTACTGACGTAt                        >  1:159260/1‑149 (MQ=255)                                                                                                                         tttgttAAGTCTCGGGGTCAACGGGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGCATTCTGGCGCAGTTCGCGCTCCTGCTGCTCGCCTTTGGCGTACTGACGTAtt                       <  2:516851/148‑1 (MQ=255)                                                                                                                         gttgttCAGTCTCGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGCATTCTGGCGCAGTTCGCGCTCCTGCTGCTCGCCTTTGGCGTACTGACGTAtt                       <  2:516845/149‑1 (MQ=255)                                                                                                                         gttgttAAGTCTCGGGGTCAACGTGTTGACCCCGGTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGCATTCTGGCGCAGTTCGCGCTCCTGCTGCTCGCCTTTGGCGTACTGACGTAtt                       <  2:238421/149‑1 (MQ=255)                                                                                                                            gttAAGTCTCGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGCATTCTGGCGCAGTTCGCGCTCCTGCTGCTCGCCTTTGGCGTACTGACGTATTGtt                    >  1:399043/1‑149 (MQ=255)                                                                                                                               aaGTCTCGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGCATTCTGGCGCAGTTCGCGCTCCTGCTGCTCGCCTTTGGCGTGCTGCCGTATTGTTTtc                 >  1:137858/1‑149 (MQ=255)                                                                                                                                   ctcGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGCATTCTGGCGCAGTTCGCGCTCCTGCTGCTCGCCTTTGGCGTACTGACGTATTGTTTTCtcat             <  2:464526/149‑1 (MQ=255)                                                                                                                                   ctcGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGCATTCTGGCGCAGTTCGCGCTCCTGCTGCTCGCCTTTGGCGTACTGACGTATTGTTTTCtcat             <  1:542994/149‑1 (MQ=255)                                                                                                                                       gggTCAGCGTGTTGATCCCGTTGACGGCCTTCGGGGGGGTGCGGGTGCGCTGGCCTGCCATGATGCGACTCTCTTGCATCGGTATTCTGGCGCAGTTCGCGCTCCTTCTGCTCGCCTTTGGCGTACTGACGTATTGTTTTCTCATCAGc         <  2:509996/149‑1 (MQ=255)                                                                                                                                         gTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGCATTCTGGCGCAGTTCGCGCTCCTGCTGCTCGCCTTTGGCGTACTGACGTATTGTTTTCTCATCAGCGa       <  1:432750/149‑1 (MQ=255)                                                                                                                                             aCGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGCATTCTGGCGCAGTTCGCGCTCCTGCTGCTCGCCTTTGGCGTACTGACGTATTGTTTTCTCATCAGCGATTtc   >  2:369619/1‑149 (MQ=255)                                                                                                                                             aCGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGCATTCTGGCGCAGTTCGCGCTCCTGCTGCTCGCCTTTGGCGTACTGACGTATTGTTTTCTCATCAGCGAATtc   >  1:555407/1‑149 (MQ=255)                                                                                                                                              cGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGCATTCTGGCGCAGTTCGCGCTCCTGCTGCTCGCCTTTGGCGTACTGACGTATTGCTTTCTCATCAGCGATTtct  >  2:364468/1‑149 (MQ=255)                                                                                                                                              |                                                                                                                                                     CTGGTCGGCGTGTTGATGCTGCGCTTTTTCATTCTCTACGCCGGACAGTTGACGGTGGCGTAAGCCAGAAAAGAGGTGGTTTCTGGACGTATTCCTTCCTGAAGTCGGTTTTCTGGCGTTGTTGTTAAGTCTCGGGGTCAACGTGTTGACCCCGTTGACGGCCTTCGCGGGAGTGCGGTTGCGCTGGCCTGCCATGATGCGACTCACTTGCATCGGCATTCTGGCGCAGTTCGCGCTCCTGCTGCTCGCCTTTGGCGTACTGACGTATTGTTTTCTCATCAGCGATTTCT  >  NC_000913_3_pae_tpiA/4291286‑4291575

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ 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.