New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	2677543 =	33 (0.860)	4 (0.110)	4/308	NT	14.7%	noncoding (68/98 nt)	RIP186 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site	RIP186 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site
	?	CP009273	2677718 =	14 (0.370)					coding (1149/1254 nt)	glyA	serine hydroxymethyltransferase

GTTCGACCGCGACGAAGGACCGAGCGTGAAAGCGACGCAAATTGGCTTTGGGCAATTAAGCCGCGCACAACAGGTGCTGGGAATTGGCTATTTGTATGTTGAGGCGCAGTTACGACAGATTTGATGGCGCGATAACGTAGAAAGGCTTCCCGAAGGAAGCCTTGATGATCATAAACGAAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACACGGAGATTGCAATATATTGAATTTGCAAAGTTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGAGCACATTGACAGCAAATCACCGTTTCGCTTATGCGTAAACCGGGTAACGTGCGCAGATGTCGAGAACTTTACCTTTGATGCGCTCGATAACGGCTTCATCATTGATGCTGTCCAGCACGTCACACATCCAGCCAGCCAGTTCTTTCGCTTCGGCTTCTTTAAAGCCGCGACGGGTAATCGCCGGAGTACCTACACGAATACCGGAGGTCACAAACGGGCT  >  CP009273/2677292‑2677804                                                                                                                                                                                                                                                            |                                                                                                                                                                                                                                                                      gTTCGACCGCGACGAAGGACCGAGCGTGAAAGCGACGCAAATTGGCTTTGGGCAATTAAGCCGCGCACAACAGGTGCTGGGAATTGGCTATTTGTATGTTGAGGCGCAGTTACGACAGATTTGATGGCGCGATAACGTAGAAAGGCTTCCCGAAGGAAGCCTTGATGATCATAAACGAAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACACGGAGATTGCAATATATTGAATTTGCAAAGATTTGTAGGCCGGATAAGGCGTACAcgccgc                                                                                                                                                                                                                                                >  1:88817/1‑275 (MQ=255)                                                         tAAGCCGCGCACAACAGGTGCTGGGAATTGGCTATTTGTATGTTGAGGCGCAGTTACGACAGATTTGATGGCGCGATAACGTAGAAAGGCTNCCCGAAGGAAGCCTTGATGATCATAAACGAAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACACGGAGATTGCAATATATTGAATTTGCAAAGTTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGAGCACATTGATAGCCCATCACCGATTCGCTTATGCGTaa                                                                                                                                                                                        <  1:495401/275‑1 (MQ=255)                                                                cgcACAACAGGTGCTGGGAATTGGCTATTTGTATGTTGAGGCGCAGTTACGACAGATTTGATGGCGCGATAACGTAGAAAGGCTTCCCGAAGGAAGCCTTGATGATCATAAACGAAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACACGGAGATTGCAATATATTGAATTTGCAAAGTTTTGTAGGCCGGATAAGGCGTTCACGCCGAATACGGCATGAACAACGAGAACATTGACAGCAAATCACCGTTTCGCTTATGCGNAAACCGCGt                                                                                                                                                                                 >  2:264728/1‑275 (MQ=255)                                                                 gcACAACAGGTGGTGGGAATTGGCTATTTGTATGTTGAGGCGCAGTTACGACAGATTTGATGGCGCGATAACGTAGAAAGGCTTCCCGAAGGAAGCCTTGATGATCATAAACGAAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACACGGAGATTGCAATATATTGAATTTGCAAAGTTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGAGCACATTGACAGCAAATCACCGTTTCGCTTATGCGTAAACCGGGt                                                                                                                                                                                 <  1:110085/274‑1 (MQ=255)                                                                                 gAATTGGTGATTTCTATGTGAGGGCGCAGTTACGGCTGGTTTGATGGCGCGATAAAGTAGAAAGGCTTCCCGAAGGAAGCCTTGATGATCATAAACGAAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACACGGAGATTGCAATATATTGAATTTGCAAAGTTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGAGCACATTGACAGCAAATCACCGTTTCGCTTATGCGTAAACCGGGTAACGTGCGCAGATGTCg                                                                                                                                                                <  2:143522/275‑1 (MQ=38)                                                                                   aTTGGCTCTTTGCTCGTTGAGGCGNGGTTACGACAGGTTTGATTGCAACATAACGTAGAAAGGCTTCCCGAAGGAAGCCTTGATGATCATAAACGAAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACACGGAGATTGCAATATATTGAATTTGCAAAGTTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGAGCACATTGACAGCAAATCACCGTTTCGCTTATGCGTAAACCGGGTAACGTGCGCAGATGTCgag                                                                                                                                                              <  2:421080/275‑1 (MQ=38)                                                                                                 tGTTGAGGCGCAGTTACGACAGATTTGATGGCGCGATAACGTAGAAAGGCTTCCCGAAGGAAGCCTTGATGATCATAAACGAAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACACGGAGATTGCAATATATTAAATTTGCAAAGTTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACAAGCACATTGACAGCAAATCACCGTTTCGCTTATGCGTAAACCGGGTAACGTGCGAAGATGTAGAGAACTTTACCTTAGa                                                                                                                                                >  1:698038/1‑275 (MQ=255)                                                                                                     gAGGCGCAGTTACGACAGATTTGATGGCGCGATAACGTAGAAAGGCTTCCCGAAGGAAGCCTTGATGATCATAAACGAAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACACGGAGATTGCAATATATTGAATTTGCAAAGTTTTGTAGGCCGGATAAGGCGTTCAcgcc                                                                                                                                                                                                                                                  >  2:401628/1‑173 (MQ=255)                                                                                                      aGGCGCAGTTACGACAGATTTGATGGCGCGATAGCGTAGAAAGGCTTCCCGAAGGAAGCCTTGATGATCATAAACGAAAAAGTGCCTGATGCGCTACGCTTATCAGGCCTACACGGAGATTGCAATATATTGAATTTGCAAAGTTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGAGCACATTGACAGCAAATCACCGTTTCGCTTATGCGTAAACCGGGTAACGTGCGCAGATGTCGAGAACTTTACCTTTGATgcg                                                                                                                                            <  1:335027/274‑1 (MQ=255)                                                                                                         cgcAGTTACGACAGATTTGATGGCGCGATAACGTAGAAAGGCTTCCCGAAGGAAGCCTTGATGATCATAAACGAAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACACGGAGATTGCAATATATTGAATTTGCAAAGTTTTGTAGGCCGGATAAGGCGTTCACGCCGCAt                                                                                                                                                                                                                                              <  1:401635/173‑1 (MQ=255)                                                                                                              ttACGACAGATTTGATTGCTCGATAACGTTGAAAGGCTTTCCGAAGGATGCCTTGATGATCATAAACGAAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACACGGAGATTGCAATATATTGAATTTGCAAAGTTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGAGCACATTGACAGCAAATCACCGTTTCGCTTATGCGTAAACCGGGTAACGTGCGCAGATGTCGAGAACTTTACCTTTGATGCGCTCGATaa                                                                                                                                    <  1:99172/274‑1 (MQ=255)                                                                                                                      gATTTGATGGCGCGATAACGTAGAAAGGCTTCCCGAAGGAAGCCTTGATGATCATAAACGAAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACACGGAGATTGCAATATATTGAATTTGCAAAGTTTTGTAGGCCGGATAAGGCGTTCACGCCGCATc                                                                                                                                                                                                                                             >  1:236153/1‑161 (MQ=255)                                                                                                                       tgctaacatcaccgtcaacaaaaacagcgtaccgaacgatccgaagagcccgtttgtgacctccggtattcgtgtaggtactccggcgattacccgtcgcggctttaaagaagccgaagcgaaagaactggctGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGAGCACAt                                                                                                                                                                                                                        <  2:155253‑M1/48‑1 (MQ=255)                                                                                                                          tGATGGCGCGATAACGTAGAAAGGCTTCCCGAAGGAAGCCTTGATGATCATAAACGAAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACACGGAGATTGCAATATATTGAATTTGCAAAGTTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGc                                                                                                                                                                                                                                         <  2:236148/161‑1 (MQ=255)                                                                                                                           aacatcaccgtcaacaaaaacagcgtaccgaacgatccgaagagcccgtttgtgacctccggtattcgtgtaggtactccggcgattacccgtcgcggctttaaagaagccgaagcgaaagaactggctGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGAGCACATTGAc                                                                                                                                                                                                                    >  1:155256‑M1/130‑181 (MQ=255)                                                                                                                                     tcaacaaaaacagcgtaccgaacgatccgaagagcccgtttgtgacctccggtattcgtgtaggtactccggcgattacccgtcgcggctttaaagaagccgatgcgaaagaactggctgg                                                                                                                                                                                                                                                                      >  1:155786‑M1/120‑121 (MQ=255)                                                                                                                                                    tCCCGAAGGAAGCCTTGATGATCATAAACGAAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACACGGAGATTGCAATATATTGAATTTGCAAAGTTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAt                                                                                                                                                                                                                                       >  1:245802/1‑137 (MQ=255)                                                                                                                                                     cccGAAGGAAGCCTTGATGATCATAAACGAAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACACGGAGATTGCAATATATTGAATTTGCAAAGTTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGAGCACATTGACAGCAAATCACCGttt                                                                                                                                                                                                     >  2:84502/1‑170 (MQ=255)                                                                                                                                                        gaaggaagCCTTGATGATCATAAACGAAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACACGGAGATTGCAATATATTGAATTTGCAAAGTTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGacc                                                                                                                                                                                                                                   <  2:245797/137‑3 (MQ=255)                                                                                                                                                         aaggaagCCTTGATGATCATAAACGAAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACACGGAGATTGCAATATATTGAATTTGCAAAGTTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGAGCACATTGACAGCAAATCACCGTTTCGCt                                                                                                                                                                                                 <  1:84503/170‑1 (MQ=255)                                                                                                                                                               gCCTTGATGATCATAAACGAAAAATTGCCTTATGCGCTACGCTTATCAGGCCGACACGGAGATGGCAATATATTGAAGTTGCAAAGTTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGAGCAAATTGACATCAAATCACCGTTTCGCTTATGCGTAAACCGGGTAACGTGCGCAGATGTCGAGAACTTTACCTTTGATGCGCTCGATAACGGCTTCATCATTGATg                                                                                                                   <  1:27796/242‑1 (MQ=255)                                                                                                                                                                          cATAAACGAAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACACGGAGATTGCAATATATTGAATTTGCAAAGTTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGa                                                                                                                                                                                                                                     >  1:433531/1‑117 (MQ=255)                                                                                                                                                                             aaaCGAAAAATTACCTGAGACTCCACGCTTATCATGACTACACGGGGTTTGTAATATATTGAATTTGCAAAGTTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGAGCACATTGACAGCAAATCACCCTTTCGCTTATGCGTAAACCGGGTAACGTGCGCAGATGTCGAGAACTTTACCTTTTATGCGCTCGATAACGGCTTCATCATTGATGCTGTCCAGCACGTCACACATCCAGCCAGCCAGTTCTTTCGCTTCGGc                                                                    <  2:698029/275‑1 (MQ=39)                                                                                                                                                                              aaCGAAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACACGGAGATTGCAATATATTGAATTTGCAAAGTTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGaacaa                                                                                                                                                                                                                                 <  2:433524/117‑1 (MQ=255)                                                                                                                                                                               aCGAAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACACGGAGATTGCAATATATTGAATTTGCAAAGTTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGAGCACATTGACAGCAAATCACCGTTTCGCTTATGCGTAAACCGGGTAACGTGCGCAGATGTCGAGAACTTTACCTTTGATGCGCTCGATAACGGCTTCATCATTGATGCTGTCCAGCACGTCACACATCCAGCCAGCCAGTTCTTTCGCTTCGGct                                                                   <  1:264733/274‑1 (MQ=255)                                                                                                                                                                                    aaaTTGCCTGATGCGCTACGCTTATCAGGCCTACACGGAGATTGCAATATATTGAATTTGCAAAGTTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGAGCACATTGACAGCAAATCACCGTTTCGCTTATGCGTAAACCGGGTAACGTGCGCAGATGTCGAGAACTTNACCTTTGATGCGCTCGATAACGGCTTCATCATTGATGCTGTCCAGCACGTCACACATCCAGCCAGCCAGTTCTTTCGCTTCGGCTTCTTTa                                                             >  1:536081/1‑275 (MQ=255)                                                                                                                                                                                                          tATCAGGCCTACACGGAGATTGCAATATATTGAATTTGCAAAGTTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGAGCACATTGACAGCAAATCACCGTTTCGCTTATGCGTAAACCGGGTAACGTGCGCAGAt                                                                                                                                                                    >  2:298525/1‑150 (MQ=255)                                                                                                                                                                                                              aGGCCTACACGGAGATTGCAATATATTGAATTTGCAAAGTTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGAGCACATTGACAGCAAATCACCGTTTCGCTTATGCGTAAACCGGGTAACGTGCGCAGATGTCg                                                                                                                                                                <  1:298531/150‑1 (MQ=255)                                                                                                                                                                                                                          agaTTGCAATATATTGAATTTGCAAAGTTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGAGCACATTGACAGCAAATCACCGTTTCGCTTATGc                                                                                                                                                                                            >  2:668078/1‑110 (MQ=255)                                                                                                                                                                                                                          agaTTGCAATATATTGAATTTGCAAAGTTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGAGCACATTGACAGCAAATCACCGTTTCGCTTATGCGTAAACCGGGTAACg                                                                                                                                                                             >  1:480622/1‑125 (MQ=255)                                                                                                                                                                                                                              tttaaagaagccgaagcgaaagaactggctGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGAGCACATTGACAGCAAATCACCGTTTCGCTTATGc                                                                                                                                                                                            <  2:722690‑M1/76‑1 (MQ=255)                                                                                                                                                                                                                              tGCAATATATTGAATTTGCAAAGTTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGAGCACATTGACAGCAAATCACCGTTTCGCTTATGCGTAAACCGGGTAACGTgcg                                                                                                                                                                         <  2:480615/125‑1 (MQ=255)                                                                                                                                                                                                                              tGCAAGATATTGAATTTGCAAAGTTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGAGCACATTGACAGCAAATCACCGTTTCGCTTATGCGTaa                                                                                                                                                                                        <  1:668087/110‑1 (MQ=255)                                                                                                                                                                                                                               gCAATATATTGAATTTGCAAAGTTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGAGCACATTGACAGCAAATCACCGttt                                                                                                                                                                                                     >  1:151388/1‑96 (MQ=255)                                                                                                                                                                                                                                  aagaagccgaagcgaaagaactggctGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGAGCACATTGACAGCAAATCACCGTTTCGCTTATGCGTaa                                                                                                                                                                                        >  1:722700‑M1/27‑106 (MQ=255)                                                                                                                                                                                                                                   tatatTGAATTTGCAAAGTTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGAGCACATTGACAGCAAATCACCGTTTCGCt                                                                                                                                                                                                 <  2:151385/96‑1 (MQ=255)                                                                                                                                                                                                                                               gccaaGTTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGAGCACATTGACAGCAAATCACCGTTTCGCTTATGCGTAAACCGGGTAAAGTGCGCAGATGTCGAGAACTTTACCTTTGATGCGCTCGATAACGGCTTCATCATTGATTCTGTCAAGCACTTCACACATCCAGCCAGCACGTTCTTTCCCTTCGACTTCTTTAAAGCAGCGACGGGCAATCGCCGGAGTACCCACACGAATACCGGCGCTGCCAAACGGGcc  >  2:617317/4‑274 (MQ=255)                                                                                                                                                                                                                                               gCAAAGTTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGAGCACATTGACAGCAAATCACCGTTTCGCTTATGCGTAAACCGGGTAACGTGCGCAGATGTCGAGCACTTTACCTTTGATGCGCTCGATAACGGCTTCATCATTGATGCTGTCCAGCACGTCACACATCCAGCCCGCCAGTTCTTTCCCTTCGGCTTCTTTCAAGCCCCGACGGGAAATCGCCCGAGTACCTACAAGAACACCGGAGTTCACaaagcgggt  >  2:122108/1‑269 (MQ=255)                                                                                                                                                                                                                                                            |                                                                                                                                                                                                                                                                      GTTCGACCGCGACGAAGGACCGAGCGTGAAAGCGACGCAAATTGGCTTTGGGCAATTAAGCCGCGCACAACAGGTGCTGGGAATTGGCTATTTGTATGTTGAGGCGCAGTTACGACAGATTTGATGGCGCGATAACGTAGAAAGGCTTCCCGAAGGAAGCCTTGATGATCATAAACGAAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACACGGAGATTGCAATATATTGAATTTGCAAAGTTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAACGAGCACATTGACAGCAAATCACCGTTTCGCTTATGCGTAAACCGGGTAACGTGCGCAGATGTCGAGAACTTTACCTTTGATGCGCTCGATAACGGCTTCATCATTGATGCTGTCCAGCACGTCACACATCCAGCCAGCCAGTTCTTTCGCTTCGGCTTCTTTAAAGCCGCGACGGGTAATCGCCGGAGTACCTACACGAATACCGGAGGTCACAAACGGGCT  >  CP009273/2677292‑2677804

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ 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.