New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	4307226 =	25 (1.440)	6 (0.370)	6/286	NT	25.3%	coding (487/681 nt)	phnL	ribophosphonate triphosphate synthase subunit; putative ABC transporter ATP‑binding protein
	?	CP009273	4307618 =	12 (0.740)					coding (95/681 nt)	phnL	ribophosphonate triphosphate synthase subunit; putative ABC transporter ATP‑binding protein

GGCGCGGATTTCGCCGTTCTGCACCTCCAGCGAACCGCTTACCACCTCGTTTTCCAGCACCAGCTTAACGTTATTGATAATCATGAAGAGGCTCCCATTGGGTGCAGGCGGTCGGCGACGTCATTACGTACAGCTTCGTCATGGAAGATGCCTACGATGGCTGCGCCACGGGTTTTGGCTTCGCGAATCAGTTCCACCACCGCGGCGCTGTTTTTGGCGTCCAGCGAGGCGGTAGGTTCGTCAAGCAGCAGAATGGGGTAGTCGACGATAAAGCCGCGGGCGATGTTGACGCGCTGCTGTTCGCCACCGGAAAATGTCGATGGTGCCAGGTGCCACAGGCGTTCCGGCACGTTCAGGCGGGTGAGAAGACGCGCGGCTTTAGCGGCGCAGGCTTCACGCGGAACGCCGGTATCGAGCAGCGGCTGCATCACCACTTCCAGTGCTGAGATACGCGGGATGACGCGCAGAAACTGGCTCACCCAGCCGACGGTGGTTTTGCGGATTTCCACCACTTTGCGCGCTGGCGCGGTGACCAGGTCTACCCAC  >  CP009273/4306952‑4307497                                                                                                                                                                                                                                                                                   |                                                                                                                                                                                                                                                                                ggCGCGGATTTTGCCGTTCTGCACCTCCAGCGAACCGCTTACCACCTCGTTTTCCAGCACCAGCTTAACGTTATTGATAATCATGAAGAGGCTCCCATTGGGTGAAGGCGGTCGGCGACGTCATTACGTACAGCTTCGTCATGGAAGATGCCTACGATGGCTGCGCCACGGGTTTTGGCTTCGCGAATCAGTGCCACCACCGCGGCGCTGTTTTTGGCGTCCAGCGAGGCGGTAGGTTCGTCAAGCAGCAGAATGGGGTAGTCGACGATAAAGcc                                                                                                                                                                                                                                                                                 <  1:204611/275‑1 (MQ=255)                gTTCTGCACCTACAGCGAACCGCTTACCACCTCGTTTTCCAGCACCAGCTTAACGTTATTGATAATCATGAAGAGGCTCCCATTGGGTGCAGGCGGTCGGCGACGTCATTACGTACAGNTTCGTCATGGAAGATGCCTACGATGGCTGCGCCACGGGTTTTGGCTTCGCGAATCAGTTCCACCACCGCGGCGCTGTTTTTGGCGTCCAGCGAGGCGGTAGGTTCGTCAAGCAGCAGAATGGGGTAGTCGACGATAAAGCCGCGGGCGATGt                                                                                                                                                                                                                                                                      <  1:281511/271‑1 (MQ=255)                  tCTGCACCTCCAGCGCACCGCTTACCACCACGTTATCCAGCACCATCATAACGATATTGATCATCATAAGGAGGCTCCCATTGGGTGCAGGCGGTCGGCGACGTCATTACGTACAGCTTCGTCATGGAAGATGCCTACGATGGCTGCGCCACGGGTTTTGGCTTCCCGAATCAGTTCCACCACCGCGGCGCTGTTTTTGTCGTCCAGCGAGGCGGTAGTGTCATCAAGCAGCAGAAGGGGGTAGGCGAGGATAAAGCCGCGGGCGTTGtcgccg                                                                                                                                                                                                                                                                 >  2:94280/1‑269 (MQ=255)                                                      ccAGTACCAGCTTAAAGTTATTGATGATCATGAAGAGGCTCCCTTTGGGTGCAGGGGGTCGGCGACGTCATTACGTACAGATTCGTCATGGAAGATGCCTACGATGGCTGCGCCACGGGTTTTGGCTTCGCGAATCAGTTCCACCACCGCGGCGCTGTTTTTGGCGTCCAGCGAGGCGGTAGGTTCGTCAAGCAGCAGAATGGGGTAGTCGACGATAAAGCCGCGGGCGATGTTGACGCGCTGCTGTTCGCCACCGGAAAATGTCGATggtgcca                                                                                                                                                                                                                            <  1:94282/275‑1 (MQ=255)                                                               gCTTAACGTTATTGATAATCATGAAGAGGCTCCCATTGGGTGCAGGCGGTCGGCGACGTCATTACGTACAGCTTCGTCATGGAAGATGCCTACGATGGCTGCGCCACGGGTTTTGGCTTCGCGAATCAGTTCCACCACCGCGGCGCTGTTTTTGGCGTCCAGCGAGGCGGCAGGTTCGTCAAGCAGCAGAATGGGGTAGTCGACGATAAAGCCGCGGGCGATGTTGACGCgctgc                                                                                                                                                                                                                                                           >  1:210124/1‑235 (MQ=255)                                                                                    tGAAGAGGCTCCCATTGGGTGCAGGCGGTCGGCGACGTCATTACGTACAGCTTCGTCATGGAAGATGCCTACGATGGCTGCGCCACGGGTTTTGGCTTCGCGAATCAGTTCCACCACCGCGGCGCTGTTTTTGGCGTCCAGCGAGGCGGTAGGTTCGTCAAGCAGCAGCATGGGGTAGTCGACGCTAACGCCGCGGGCGATGTTGACGCGCTGCTGTTCGCCACCGGCAAATGTCGATGGTGCCAGGTGCCCCAGGCGTTCCGGCACGTTCAGGc                                                                                                                                                                                              >  1:119286/1‑275 (MQ=255)                                                                                     gAAGAGGCTCCCATTGGGTGCAGGCGGTCGGCGACGTCATTACGTACAGCTTCGTCATGGAAGATGCCTACGATGGCTGCGCCACGGGTTTTGGCTTCGCGAATCAGTTCCACCACCGCGGCGCTGTTTTTGGCGTCCAGCGAGGCGGTAGGTTCGTCAAGCAGCAGAATGGGGTAGTCGACGATAAAGCCGCGGGCGATGTTGAcgcg                                                                                                                                                                                                                                                               <  1:172346/209‑1 (MQ=255)                                                                                           gCTCCCATTGGGTGCAGGCGGTCGGCGACGTCATTACGTACAGCTTCGTCATGGAAGATGCCTACGATGGCTGCGCCACGGGTTTTGGCTTCGCGAATCAGTTCCACCACCGCGGCGCTGTTTTTTGCGTCCAGCGCGGCGGTAGGTTCGTCAAGCCGCAGAATGGGGTAGTCGACGATAAAGCCGCGGGCGATGTTGACGCGGTGCGGTTCGCCACCGGAAAATTTCGAAGGTTCCGGGTGCCAAAGCGGTTCGGGCACTTTCAGG‑GGGTgggg                                                                                                                                                                                      >  2:294021/1‑272 (MQ=255)                                                                                                     ggTGCAGGCGGTCGGCGACGTCATTACGTACAGCTTCGTCATGGAAGATGCCTACGATGGCTGCGCCAAGGGTTTTGGCTTCGCGAATCAGTTCCACCACCGCGGCGCTGTTTTTGGCGTCCAGCGAGGCGGTAGGTTCGTCAAGCAGCAGAATGGGGTAGTCGACGATAAAGCCGCGGGCGATGTTGACGCGATGCTGTTCGCCACCGGAAAATGTCGATGGTGAGAGGTGCCACAGGCGTTCCGGCACGTTCAGGCGGGGGAGAAGAcgacg                                                                                                                                                                              >  1:71540/1‑271 (MQ=255)                                                                                                         cAGGCGGTCGGCGACGTCATTACGTACATCTTCGTCATGGAAGATGCCTACGATGGCTGCGCCACGGGTTTTGGCTTCGCGAATCAGTTCCACCACCGCGGCGCTGTTTTTGGCGTCCAGCGCGGCGGTAGGTTCGTCAAGCAGCAGAATGGGGTAGTCGACGCTAAAGCCGCGGGCGATGTTNACGCGCTGCTGTTCGCCACCGGAAAATGTCGATGGTGCCAGGTGCCACAGGCGTTCCGGCACGTTCAGGCGGGGGAGAAGActggctctt                                                                                                                                                                          >  1:259456/1‑266 (MQ=255)                                                                                                                               cGTACAGCTTCGTCATGGAAGATGCCTACGATGGCTGCGCCACGGGTTTTGGCTTCGCGAATCAGTTCCACCACCGCGGCGCTGTTTTTGGCGTCCAGCGAGGCGGTAGGTTCGTCAAGCAGCAGAATAGGGTAGTCGACGATAAAGCCGCGGGCGATGTTGACGCGCTGCTGTTCGCCACCGGAAAATGTCGATGGTGCCAGGTGCCACAGGCGTTCCGGCACGTTCAGGCGGGTGAGAAGACGCGCGGCTTTAGCGGCGCAGGCTTCACGCgg                                                                                                                                                   <  1:294032/275‑1 (MQ=255)                                                                                                                                     gCTTCGTCATGGAAGATGCCTTCGGTGGCTGCGCCACGGGTTTTGGCTTCGCGAATCAGTTCCACCACCGCGGCGCTGTTTTTGGCGTCCAGCGAGGCGGTAGGTTCGTCAAGCAGCAGAATGGGGTAGTCGACGATAAAGCCGCGGGCGATGTTGACGCGCTGCTGTTCGCCACCGGAAAATGTCGATGGTGCCAGGTGCCACAGGCGTTCCGGCACGTTCAGGCGGGTGAGAAGACGCGCGGCTTTAGCGGCGCAGGCTTCACGCGGAACGc                                                                                                                                              <  1:9501/274‑1 (MQ=255)                                                                                                                                         cGTCATGGAAGATGCCTACGAAGGCTGCGCCACGGGTTTTGGCTTCGCGAATCAGTTCCACCACCGCGGCGCTGTTTTTGGCGTCCAGCGAGGCGGTAGGTTCGTCAAGCAGCAGAATGGGGTAGTCGACGATAAAGCCGCGGGCGATGTTGACGCGCTGCTGTTCGCCACCGGAAAATGTCGATGGTGCCAGGTGCCACAGGCGtt                                                                                                                                                                                                             >  1:128083/1‑207 (MQ=255)                                                                                                                                             aTGGAAGATGCCTACGAAGGCTGCGCCACGGGTTTTGGCTTCGCGAATCAGTTCCACCACCGCGGCGCTGTTTTTGGCGTCCAGCGAGGCGGTAGGTTCGTCAAGCAGCAGAATGGGGTAGTCGACGATAAAGCCGCGGGCGATGTTGACGCGCTGCTGTTCGCCACCGGAAAATGTCGATGGTGCCAGGTGCCACAGGCGTTCCgg                                                                                                                                                                                                         <  2:128081/207‑1 (MQ=255)                                                                                                                                                                 cTGCGCCACGGGTTTTGGCTTCGCGAATCAGTTCCACCACCGCGGCGCTGTTTTTGGCGTCCAGCGAGGCGGTAGGTTCGTCAAGCAGCAGAATGGGGTAGTCGACGATAAAGCCGCGGGCGATGTTGACGCGCTGCTGTTCGCCACCGGAAAATGTCGATGGTGCCAGGTGCCACAGGCGTTCCGGCACGTTCAGGCGGGTGAGAAGACGCGCGGCTTTAGCGGCGCAGGCTTCACGCGGAACGCCGGTATCGAGCAGCGGCTGCAGCACCACt                                                                                                                 >  1:135241/1‑275 (MQ=255)                                                                                                                                                                                   attCGCGAATCAGTTCCGCCACCGCGGCGTTGTTTTTGGCGTCCAGCGCGGCGGTAGGTTCGTCAAGGAGCAGAATGGGGTAGGCGACGATAAAGCCGCGGGCGATGTTGGCGCGNTGCTGTTCGCTTCCGGAAAATGTCGAGGGTGCCAGGTGCCACAGGCGTTCCGGCACGTTCAGGCGGGTGAGAAGACGCGCGGCTTTAGCGGCGCAGGCTTCACGCGGAACGCCGGTATCGAGCAGCGGCTGCATCACCACTTCCAGTGCTGAGATAcg                                                                                                <  1:301816/273‑1 (MQ=255)                                                                                                                                                                                      cgcgAATCAGTTCCACCACCGCGGCGCTGTTTTTGGCGTCCAGCGAGGCGGTAGGTTCGTCAAGCAGCAGAATGGGGTAGTCGACGATAAAGCCGCGGGCGATGTTGACGCGCTGCTGTTCGCCACCGGAAAATGTCGATggt                                                                                                                                                                                                                                >  1:148494/1‑143 (MQ=255)                                                                                                                                                                                          aaTCAGTTCCACCACCGCGGCGCTGTTTTTGGCGTCCAGCGAGGCGGTAGGTTCGTCAAGCAGCAGAATGGGGTAGTCGACGATAAAGCCGCGGGCGATGTTGACGCGCTGCTGTTCGCCACCGGAAAATGTCGATggtgcca                                                                                                                                                                                                                            <  2:148491/143‑1 (MQ=255)                                                                                                                                                                                                          gcggcgCTGTTTTTGGCGTCCAGCGAGGCGGTAGGTTCGTCAAGCAGCAGAATGGGGTAGTCGACGATAAAGCCGCGGGCGATGTTGACGCGCTGCTGTTCGCCACCGGAAAATGTCGATggtgccaggtgcc                                                                                                                                                                                                                      >  1:313135/1‑133 (MQ=255)                                                                                                                                                                                                              cgcTGTTTTTGGCGTCCAGCGAGGCGGTAGGTTCGTCAAGCAGCAGAATGGGGTAGTCGACGATAAAGCCGCGGGCGATGTTGACGCGCTGCTGTTCGCCACCGGAAAATGTCGATGGTGCCAGGTGCCACAg                                                                                                                                                                                                                  <  2:313124/133‑1 (MQ=255)                                                                                                                                                                                                               accttcatcctgcacccgcaaaacggcgggcgcctgcccgtccttaatcgcgcctcgctcaccgtcaaCGCGGGCGATGTTGACGCGCTGCTGTTCGCCACCGGAAAATGTCGATg                                                                                                                                                                                                                                  <  1:244223‑M1/48‑1 (MQ=255)                                                                                                                                                                                                                   tcatcctgcaccagcaaaacggcgtgcgcctgcccgtcctcaatcgcgcctcgctcaccgtcaaCGCGGGCGATGTTGACGCGCTGCTGTTCGCCACCGGAAAATGTCGATggtgc                                                                                                                                                                                                                              >  2:244215‑M1/65‑116 (MQ=255)                                                                                                                                                                                                                          gcaccagcaaaacggcgtgcgcctgcccgtcctcaatcgcgcctcgctcaccgtcaaCGCGGGCGATGTTGACGCGCTGCTGTTc                                                                                                                                                                                                                                                      <  2:53921‑M1/28‑1 (MQ=255)                                                                                                                                                                                                                          ccgacAGCGAGCCCGCAGGATAGCCCAGCAGCAACGTGGGGTAGTGGACGGTAACGCATCGGGCGATGTTGCCGCGCTCCTGGTCGCCACCGGAAAATGTCGATGGTGCCCGGTCCCACAGGCGTTCCGCCACGCTCAGGCGGGTGAGAAGACGCCAGGCTTTAGCGGCGCAGGCTTCACGCGGAACGCCGGTATCGACAAGAGGCTGCATTACCACTTCCCGTGCGGAGATACGAGGTGTGACGCGCGGAAACTGACTCACCCANCCGACgtcg                                                        >  2:125928/5‑272 (MQ=255)                                                                                                                                                                                                                           caccagcaaaacggcgtgcgcctgcccatcctcaatcgcgcctcgctcaccgtcaaCGCGGGCGATGTTGACGCGCTGCTGTTCGCCACCGGAAAATGTCGATggt                                                                                                                                                                                                                                <  1:302596‑M1/50‑1 (MQ=255)                                                                                                                                                                                                                              cagcaaaacggcgtgcgcctgcccgtcctcaatcgcgcctcgctcaccgtcaaCGCGGGCGATGTTGACGCGCTGCTGTTCGCCa                                                                                                                                                                                                                                                  >  1:53923‑M1/54‑85 (MQ=255)                                                                                                                                                                                                                               agcaaaacggcgtgcgcctgcccatcctcaatcgcgcctcgctcaccgtcaaCGCGGGCGATGTTGACGCGCTGCTGTTCGCCACCGGAAAATGTCGATggtgcca                                                                                                                                                                                                                            >  2:302585‑M1/53‑106 (MQ=255)                                                                                                                                                                                                                                 cGAGGCGGTAGGTTCGTCAAGCAGCAGAATGGGGTAGTCGACGATAAAGCCGCGGGCg                                                                                                                                                                                                                                                                          <  1:46360/58‑1 (MQ=255)                                                                                                                                                                                                                                                  cAAGCAGCAGAATGGGGTAGTCGACGATAAAGCCGCGGGCGATGTTGACGCGCTGCTGTTCGCCAcc                                                                                                                                                                                                                                                >  2:40352/1‑67 (MQ=255)                                                                                                                                                                                                                                                      cagcagAATGGGGTAGTCGACGATAAAGCCGCGGGCGATGTTGACGCGCTGCTGTTCGCCACCGGaa                                                                                                                                                                                                                                            <  1:40352/67‑1 (MQ=255)                                                                                                                                                                                                                                                       agcagAATGGGGTAGTCGACGATAAAGCCGCGGGCGATGTTGACGCGCTGCTGTTCGCCAcc                                                                                                                                                                                                                                                >  2:64827/1‑62 (MQ=255)                                                                                                                                                                                                                                                           gAATGGGGTAGTCGACGATAAAGCCGCGGGCGATGTTGACGCGCTGCTGTTCGCCACCGGaa                                                                                                                                                                                                                                            <  1:64829/62‑1 (MQ=255)                                                                                                                                                                                                                                                                                aGCCGCGGGCGATGTTGACGCGCTGCTGTTCGCCACCGGAAAATGTCGATGGTGCCAGGTGCCACAGGCGTTCCGGCACGTTCAGGCGGGTGAGAAGACGCGCGGCTTTAGCGGCGCAGGCTTCACGCGGAACGCCGGTATCGAGCAGCGGCTGCATCACCACGTCCAGTGCTGAGATACGCGNGATGACGCGCAGAAACTGGCTCACCCAGCCGACGGTGGTTTTGCGGATTTCCACCACTTTGCGCGCTGGCGCGGTGACCAGGTCTacacac  >  1:262017/1‑275 (MQ=255)                                                                                                                                                                                                                                                                                   |                                                                                                                                                                                                                                                                                GGCGCGGATTTCGCCGTTCTGCACCTCCAGCGAACCGCTTACCACCTCGTTTTCCAGCACCAGCTTAACGTTATTGATAATCATGAAGAGGCTCCCATTGGGTGCAGGCGGTCGGCGACGTCATTACGTACAGCTTCGTCATGGAAGATGCCTACGATGGCTGCGCCACGGGTTTTGGCTTCGCGAATCAGTTCCACCACCGCGGCGCTGTTTTTGGCGTCCAGCGAGGCGGTAGGTTCGTCAAGCAGCAGAATGGGGTAGTCGACGATAAAGCCGCGGGCGATGTTGACGCGCTGCTGTTCGCCACCGGAAAATGTCGATGGTGCCAGGTGCCACAGGCGTTCCGGCACGTTCAGGCGGGTGAGAAGACGCGCGGCTTTAGCGGCGCAGGCTTCACGCGGAACGCCGGTATCGAGCAGCGGCTGCATCACCACTTCCAGTGCTGAGATACGCGGGATGACGCGCAGAAACTGGCTCACCCAGCCGACGGTGGTTTTGCGGATTTCCACCACTTTGCGCGCTGGCGCGGTGACCAGGTCTACCCAC  >  CP009273/4306952‑4307497

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 9 ≤ ATCG/ATCG < 16 ≤ 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.