New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	= 694910	48 (1.070)	5 (0.120)	5/282	5.6	9.5%	noncoding (30/98 nt)	RIP61 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site	RIP61 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site
	?	CP009273	2939352 =	50 (1.170)					intergenic (‑151/+88)	tcdA/mltA	tRNA threonylcarbamoyladenosine dehydratase; sulfur acceptor for CsdA/membrane‑bound lytic murein transglycosylase A
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

GGTGAAAAAAGGTCTGGTGTGAGGATATATTTATTGATGAATCGATAATTTTTAGCGGGTTTTATTGAATGTTTATATTTTACGGGGGCCAAATTGCTGACAAAGTGCGATTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGA  >  CP009273/694762‑695052                                                                                                                                                     |                                                                                                                                               ggTGAAAAAAGGTCTGGTGTGAGGATATATTTATTGATGAATCGATAATTTTTAGCGGGTTTTATTGAATGTTTATATTTTACGGGGGCCAAATTGCTGACAAAGTGCGATTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGc                                                                                                                                                <  2:425537/149‑1 (MQ=255)   tGAAAAAAGGTCTGGTGTGAGGATATATTTATTGATGAATCGATAATTTTTAGCGGGTTTTATTGAATGTTTATATTTTACGGGGGCCAAATTGCTGACAAAGTGCGATTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCt                                                                                                                                              >  1:87301/1‑149 (MQ=255)   tGAAAAAAGGTCTGGTGTGAGGATATATTTATTGATGAATCGATAATTTTTAGCGGGTTTTATTGAATGTTTATATTTTACGGGGGCCAAATTGCTGACAAAGTGCGATTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCt                                                                                                                                              >  1:713025/1‑149 (MQ=255)           ggTCTGGTGTGAGGATATATTTATTGATGAATCGATAATTTTTAGCGGGTTTTATTGAATGTTTATATTTTACGGGGGCCAAATTGCTGACAAAGTGCGATTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGc                                                                                                                                      <  1:699687/149‑1 (MQ=255)                ggTGTGAGGATATATTTATTGATGAATCGATAATTTTTAGCGGGTTTTATTGAATGTTTATATTTTACGGGGGCCAAATTGCTGACGAAGTGCGATTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGaa                                                                                                                                 >  1:497845/1‑149 (MQ=255)                  tgtgAGGTTCTATTTATTGATGAATCGATAATTTTTAGCGGGTTTTATTGAATGTTTATATTTTACGGGGGCCAAATTGCTGACAAAGTGCGATTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGaaaa                                                                                                                               <  2:465382/149‑1 (MQ=255)                      aGGATATATTTATTGATGAATCGATAATTTTTAGCGGGTTTTATTGAATGTTTATATTTTACGGGGGCCAAATTGCTGACAAAGTGCGATTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCa                                                                                                                           <  2:600571/149‑1 (MQ=255)                              tttattGATGAATCGATAATTTTTAGCGGGTTTTATTGCATGTTTATATTTTACGGGGGCCAGATTGCTGACAACGTGCGCTTTGTTCATGCCGGATGCGCCGTGAACGCCTTCTCCGGCCTACAAAAGCCTGAAAGTTCAATATGTTg                                                                                                                   >  2:451880/1‑149 (MQ=25)                              tttattGATGAATCGATAATTTTTAGCGGGTTTTATTGAATGTTTATATTTTACGGGGGCCAAATTGCTGACAAAGTGCGATTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTg                                                                                                                   <  2:651977/149‑1 (MQ=255)                                   tgatgaATCGATAATTTTTAGCGGGTTTTATTGAATGTTTATATTTTACGGGGGCCACATTGCTGACAAAGTGCGATTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGa                                                                                                              <  2:684270/149‑1 (MQ=255)                                   tgatgaATCGATAATTTTTAGCGGGTTTTATTGAATGTTTATATTTTACGGGGGCCAAATTGCTGACAAAGTGCGATTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGa                                                                                                              <  1:30969/149‑1 (MQ=255)                                   tgatgaATCGATAATTTTTAGCGGGTTTTATTGAATGTTTATATTTTACGGGGGCCAAATTGCTGACAAAGTGCGATTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGa                                                                                                              >  1:418108/1‑149 (MQ=255)                                    catgaATCGATAATTTTTGGTGCGTGTCAATCAATGTTTTTATTTTACGGTGGCCAAATTGCTGACAAAGAGCGATTTGTTCATGCCGGATGTGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAg                                                                                                             <  2:481817/148‑1 (MQ=21)                                           cGATAATTTTTAGCGGGTTTTATTGAATGTTTATATTTTACGGGGGCCAAATTGCTGACAAAGTGCGATTTGTTCATGCCGGATGCGGCGTGAACGACTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTa                                                                                                      <  2:671642/149‑1 (MQ=255)                                           cGATAATGTTTAGCGGGTTTTATTGAATGTTTATATTTTACGGGGGCCAAATTGCTGACAAAGTGCGACTTGTTAATGCCGGATGCGGCGTGAACGCCTCCTAAGGCATAAACCAAACTCAAAATCCAATATTTTGCAGGAGTTGCGTa                                                                                                      <  2:176689/149‑1 (MQ=25)                                              tAATTTTTAGCGGGTTTTATTGAATGTTTATATTTTACGGGGGCCAAATTGCTGACAAAGTGCGATTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGc                                                                                                   <  1:584279/149‑1 (MQ=255)                                              tAATTTTTAGCGGGTTTTATTGAATGTTTATATTTTACGGGGGCCAAATTGCTGACAAAGTGCGATTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGc                                                                                                   <  1:289204/149‑1 (MQ=255)                                              tAATTTTTAGCGGGTTTTATTGAATGTTTATATTTTACGGGGGCCAAATTGCTGACAAAGTGCGATTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGACTAAAAACGCATGAAAATCCAATATAATGCAGAAGCTGCGTATGc                                                                                                   <  2:68040/149‑1 (MQ=37)                                                        cGGGTTTTATTGAATGTTTATATTTTACGGGGGCCAAATTGCTGACAAAGTGCGATTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCg                                                                                         >  2:499837/1‑149 (MQ=255)                                                          ggTTTTACCGCATGTTTAGATTTTACGGGGGCCAAATTGCTGACAAAGTGCGATTTGTTCATGCCGGATGCGGCGTGAACGCGTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTa                                                                                       <  1:277961/149‑1 (MQ=25)                                                                 ttGAATGTTTATATTTTACGGGGGCCAAATTGCTGACAAAGTGCGATTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATc                                                                                >  1:196475/1‑149 (MQ=255)                                                                    aaTGTTTATATTTTACGGGGGCCAAATTGCTGACAAAGTGCGATTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAgg                                                                             <  1:475544/149‑1 (MQ=255)                                                                    aaTGTTTATATTTTACGGGGGCCAAATTGCTGACAAAGTGCGATTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAgg                                                                             >  2:655678/1‑149 (MQ=255)                                                                    aaTGTTTATATTTTACGGGGGCCAAATTGCTGACAAAGTGCGATTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGATGCGTAGGCCTGCTAAGCGTCGCGCATCAgg                                                                             >  2:646605/1‑149 (MQ=255)                                                                          tataTTTTACGGGGGCCAAATTGCTGACAAAGTGCGATTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGttt                                                                       <  1:263343/149‑1 (MQ=255)                                                                             atTTTACGGGGGCCAAATTGCTGACAAAGTGCGATTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGc                                                                    <  2:145307/149‑1 (MQ=255)                                                                             atTTTACGGGGGCCAAATTGCTGACAAAGTGCGATTTGTTCATGCCGGATGCGGCGAGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGGGCAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGc                                                                    >  1:704424/1‑149 (MQ=255)                                                                              ttttACGGGGGCCAAATTGCTGACACAGTGCGATTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCg                                                                   >  1:440470/1‑149 (MQ=255)                                                                               tttACGGGGGCCAAATTGCTGACAAAGTGCGATTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCCGCGTAGGCCTGACAAGCGTAGCGCATCAGGcgcacgggcgt                                                                  >  2:506798/1‑139 (MQ=18)                                                                                ttccGGGGGCCAAATTGCTGACAAAGTGCGATTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCATGCAGTTTGGCGtt                                                                 <  2:448075/146‑1 (MQ=255)                                                                                   cGGGGGCCAAATTGCTGACAAAGTGCGATTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGt                                                              <  1:128506/149‑1 (MQ=255)                                                                                      gggCTATATCGCTGACGTAGTGCGATTTGTTCATGGCGGATGCGGCGTGAACGCCTTATTCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGtcat                                                           <  2:231110/149‑1 (MQ=18)                                                                                      gggCCAAATTGCTGACAAAGTGCGATTTATTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGgcat                                                           >  1:543518/1‑149 (MQ=255)                                                                                        gCCAAATTGCTGACAAAGTGCGATTTGTTCATGCCGGATGCGGCGTGAACGTCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGtcatca                                                         <  1:535009/149‑1 (MQ=255)                                                                                             aTTGCTGACAAAGTGCGATTTGATCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAAGATATTGCAGGAGGTGCGTAGACCTGTAAGGAGTAGCGCAGCGGACAGTTTGGCGTTGGTCAGCAGGGcg                                                    >  2:278760/1‑148 (MQ=18)                                                                                                             gATTTGTTCATGCGGGATGCGCTGGGCGCGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGAc                                    <  2:550673/149‑1 (MQ=25)                                                                                                               tttGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGAAGt                                  >  2:496136/1‑149 (MQ=255)                                                                                                                  gttgacgCCGGATGGGGCGGGAACGACTTATCCGGCCTACAAATGCATGACGATTCAATATATTGCTGGAGCAGCGTAGGCCTGATAAGCGTAGCGGATCAGGCAGTTTGGGGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGt                               <  2:352534/143‑1 (MQ=21)                                                                                                                     cATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCTGCGGACGTGGTTgg                            <  1:77874/149‑2 (MQ=255)                                                                                                                     cATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCTGCGGACGTGGTTgg                            <  1:720105/149‑2 (MQ=255)                                                                                                                       tGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTa                          >  2:17670/1‑149 (MQ=255)                                                                                                                       tGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTa                          <  2:196475/149‑1 (MQ=255)                                                                                                                       tGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTa                          <  1:698559/149‑1 (MQ=255)                                                                                                                          cGGATGCGGCGTGAACGCCTTATCCGGCCTACACAAGCATGAAAATTCAATATATTGCAGGAGCCGCCTAGGCCTGATAAGCGTAGAGCAACAGGCAGTTTGGCGTTTGTCACCAGAGCCAACAACGTCAGCAGACGAGGTTGATATTc                       >  1:515126/1‑149 (MQ=18)                                                                                                                           ggATGCTGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATAGTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCa                      <  2:654090/149‑1 (MQ=255)                                                                                                                                    gTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTc             <  2:704424/149‑1 (MQ=255)                                                                                                                                         cGCCTTATCCGGCTTACAAAAGCATGAAAAGTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTCGTCCCCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGAttt        <  2:370305/149‑1 (MQ=37)                                                                                                                                           ccTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCa      >  1:666706/1‑149 (MQ=255)                                                                                                                                               aTCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGa  <  2:90995/149‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                               GGTGAAAAAAGGTCTGGTGTGAGGATATATTTATTGATGAATCGATAATTTTTAGCGGGTTTTATTGAATGTTTATATTTTACGGGGGCCAAATTGCTGACAAAGTGCGATTTGTTCATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAGCATGAAAATTCAATATATTGCAGGAGCTGCGTAGGCCTGATAAGCGTAGCGCATCAGGCAGTTTGGCGTTTGTCATCAGAGCCAACCACGTCCGCAGACGTGGTTGCTATTCAGATAACGTCGATTTCAGCGA  >  CP009273/694762‑695052

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.