New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_pgi	= 3167879	21 (1.210)	3 (0.190)	3/254	2.1	13.5%	coding (368/396 nt)	mqsA	antitoxin for MqsR toxin; transcriptional repressor
	?	NC_000913_3_pae_pgi	= 3167883	19 (1.170)					coding (364/396 nt)	mqsA	antitoxin for MqsR toxin; transcriptional repressor
Rejected: Frequency below/above cutoff threshold.

AATTATAAGCCCAACAACAATACGCCTGTGGCATTGTTCGCTCAAACTTATCGCGAGTGATTTGGCTCACACTCCGGTAAAGAAAAAAGCGAGTTGCCCCCGCTTTTCCATTAATTAACGGATTTCATTCAATAGTTCTGGATGCTTATCCAGAACACGTAAAAGTTTGATTGTGGAAGGATGAGGTTGGGCATTGCCTTTTTCGTAACGCGAAAACGCATTTACACCTCCCCCAAAAATTTCGCTTGCCTCTTTTTGGGTAAGAGAGAGCTTTTTTCGAACCTTCACTATAAATT  >  NC_000913_3_pae_pgi/3167737‑3168032                                                                                                                                                   |                                                                                                                                                      aaTTATAAGCCCAACAACAATACGCCTGTGTCATTGTTCGCTCAAACTTATCGCGAGTGATTTGGCTCACACTCCGGTAAAGAAAAAAGCGAGTTGCCCCCGCTTTTCCATTAATTAACGGATTTCATTCAATAGTTCTGGATGCTTatc                                                                                                                                                    >  2:35078‑M2/1‑147 (MQ=255)                aacaaTACGCCTGTGGCATTGTTCGCTCAAACTTATCGCGAGTGATTTGGCTCACACTCCGGTAAAGAAAAAAGCGAGTTGCCCCCGCTTTTCCATTAATTAACGGATTTCATTCAATAGTTCTGGATGCTTATACAGAACACGTAAAAg                                                                                                                                     >  2:78515/1‑150 (MQ=255)                          cTGTGGCATTGTTCGCTCAAACTTATCGCGAGTGATTTGGCTCACACTCCGGTAAAGAAAAAAGCGAGTTGCCCCCGCTTTTCCATTAATTAACGGATTTCATTCAATAGTTCTGGATGCTTATCCAGAACACGTAAAAGTTTGATtgtg                                                                                                                           <  2:167186/150‑1 (MQ=255)                                 aTTGTTCGCTCAAACTTATCGCGAGTGATTTGGCTCACACTCCGGTAAAGAAAAAAGCGAGTTGCCCCCGCTTTTCCATTAATTAACGGATTTCATTCAATAGTTCTGGATGCTTATCCAGAACACGTAAAAGTTTGATTGTGGAAGGAt                                                                                                                    >  3:119095/1‑150 (MQ=255)                                         cTCAAACTTATCGCGAGTGATTTGGCTCACACTCCGGTAAAGAAAAAAGCGAGTTGCCCCCGCTTTTCCATTAATTAACGGATTTCATTCAATAGTTCTGGATGCTTATCCAGAACACGTAAAAGTTTGATTGTGGAAGGATGAGGTTgg                                                                                                            <  4:119095/150‑1 (MQ=255)                                              aCTTATCGCGAGTGATTTGGCTCACACTCCGGTAAAGAAAAAAGCGAGTTGCCCCCGCTTTTCCATTAATTAACGGATTTCATTCAATAGTTCTGGATGCTTATCCAGAACACGTAAAAGTTTGATTGTGGAAGGATGAGGTTGGGCAtt                                                                                                       <  1:61984/150‑1 (MQ=255)                                                        aGTGATTTGGCTCACACTCCGGTAAAGAAAAAAGCGAGTTGCCCCCGCTTTTCCATTAATTAACGGATTTCATTCAATAGTTCTGGATGCTTATCCAGAACACGTAAAAGTTTGATTGTGGAAGGATGAGGTTGGGCATTGCCTTTTTCg                                                                                             >  1:196580/1‑150 (MQ=255)                                                                            ggTAAAGAAAAAAGCGAGTTGCCCCCGGTTTTCCATTAATTAACGGATTTCATTCAATAGTTCTGGATGCTTATCCAGAACACGTAAAAGTTTGATTGTGGAAGGATGAGGTTGGGCATTGCCTTTTTCGTAACGCGAAAACGCATTTac                                                                         >  1:142036/1‑150 (MQ=255)                                                                                            aGTTGCCCCCGCTTTTCCATTAATTAACGGATTTCATTCAATAGTTCTGGATGCTTATCCAGAACACGTAAAAGTTTGATTGTGGAAGGATGAGGTTGGGCATTGCCTTTTTCGTAACGCGAAAACGCATTTACACCTCCCCCAAAAAtt                                                         >  2:1818/1‑150 (MQ=255)                                                                                                 cccccGCTTTTCCATTAATTAACGGATTTCATTCAATAGTTCTGGATGCTTATCCAGAACACGTaaaa                                                                                                                                      >  1:156787/1‑68 (MQ=255)                                                                                                 cccccGCTTTTCCATTAATTAACGGATTTCATTCAATAGTTCTGGATGCTTATCCAGAACACGTaaaa                                                                                                                                      <  2:156787/68‑1 (MQ=255)                                                                                                             cATTAATTAACGGATTTCATTCAATAGTTCTGGATGCTTATCCAGAACACATAAAAGTTTGATTGTGGAAGGATGAGGTTGGGCATTGCCTTTTTCGTAACGCGAAAACGCATTTACACCTCCCCCAAAAATTTCGCTTGCCTCTTTTTg                                        <  1:3088/150‑1 (MQ=255)                                                                                                              attaattaACGGATTTCATTCAATAGTTCTGGATGCTTATCCAGAACACGTAAAAGTTTGATTGTGGAAGGCTGAGGTTGGGCATTGCCTTTTTCGTAACGCGAAAACGCATTTACACCTCCCCCAAAAATTTCGCTTGCCTCTTTTTgg                                       <  2:146742/150‑1 (MQ=255)                                                                                                                   ttaaCGGATTTCATTCAATAGTTCTGGATGCTTatccagaactattgaatgaaatccgttaattaatggaaaagcgggggcaact                                                                                                   >  3:58920‑M2/1‑33 (MQ=255)                                                                                                                   ttaaCGGATTTCATTCAATAGTTCTGGATGCTTatccagaactattgaatgaaatccgttaattaatggaaaagcgggggcaact                                                                                                   <  4:58920‑M2/85‑53 (MQ=255)                                                                                                                     aaCGGATTTCATTCAATAGTTCTGGATGCTTatccagaactattgaatgaaatccgttaattaatggaaaagcgggggcaactcgcttttttctttaccggagcgtgagccaaatcactcgcgataagtttgagcgaacaatgccacagg                                <  3:94315‑M2/150‑120 (MQ=255)                                                                                                                         gATTTCATTCAATAGTTCTGGATGCTTATCCAGAACACGTAAAAGTTTGATTGTGGAAGGATGAGGTTGGGCATTGCCTTTTTCGTAACGCGAAAACGCATTTACACCTCCCCCAAAAATTTCGCTTGCCTCTTTTTGGGTAagagagag                            <  1:78515/150‑1 (MQ=255)                                                                                                                               attcaATAGTTCTGGATGCTTATCCAGAACACGTAAAAGTTTGATTGTGGAAGGATGAGGTTggg                                                                                                           <  2:189546/65‑1 (MQ=255)                                                                                                                               attcaATAGTTCTGGATGCTTATCCAGAACACGTAAAAGTTTGATTGTGGAAGGATGAGGTTggg                                                                                                           >  1:189546/1‑65 (MQ=255)                                                                                                                                 tcaATAGTTCTGGATGCTTATCCAGAACACGTAAAAGTTTGATTGTGGAAGGATGAGGTTGGGCATTGCCTTTTTCGTAACGCGAAAACGCATTTACACCTCCCCCAAAAATTTCGCTTGCCTCTTTTTGGGTAAGAGAGAGCTTTTTTc                    <  3:5290/150‑1 (MQ=255)                                                                                                                                        ttCTGGATGCTTATCCAGAACACGTAAAAGTTTGATTGTGGAAGGATGAGGTTGGGCATTGCCTTTTTCGTAACGCGAAAACGCATTTACACCTCCCCCAAAAATTTCGCTTGCCTCTTTTTGGGTAAGAGAGAGCTTTTTTCGAACCtt             >  2:116691/1‑150 (MQ=255)                                                                                                                                            ggATGCTTATCCAGAACACGTAAAAGTTTGATTGTGGAAGGATGAGGTTGGGCATTGCCTTTTTCGTAACGCGAAAACGCATTTACACCTCCCCCAAAAATTTCGCTTGCCTCTTTTTGGGTAAGAGAGAGCTTTTTTCGAACCTTCACt         >  3:60133/1‑150 (MQ=255)                                                                                                                                                   tATTCAGAACACGATGAAGTTTGATTGTGGAAGAATTATATTGCGCATTGCCCTTTTTGTAACGCGAAAGCGCATTTAAACCTCCCAAAAAAATTTCGCTTGCCTCTTTTTGGGTAAGAGAGAGCTTTTTTCGAACCTTCACTATAAAtt  <  4:60133/150‑1 (MQ=255)                                                                                                                                                   |                                                                                                                                                      AATTATAAGCCCAACAACAATACGCCTGTGGCATTGTTCGCTCAAACTTATCGCGAGTGATTTGGCTCACACTCCGGTAAAGAAAAAAGCGAGTTGCCCCCGCTTTTCCATTAATTAACGGATTTCATTCAATAGTTCTGGATGCTTATCCAGAACACGTAAAAGTTTGATTGTGGAAGGATGAGGTTGGGCATTGCCTTTTTCGTAACGCGAAAACGCATTTACACCTCCCCCAAAAATTTCGCTTGCCTCTTTTTGGGTAAGAGAGAGCTTTTTTCGAACCTTCACTATAAATT  >  NC_000913_3_pae_pgi/3167737‑3168032

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ 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.