Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
JC	CP009273	3,528,829:1	(GTTTTCAGCCAG)1→2	89.7%	coding (399/1353 nt)	envZ ←	sensory histidine kinase in two‑component regulatory system with OmpR

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	3528811 =	3 (0.150)	21 (1.120)	19/256	NT	89.7%	coding (417/1353 nt)	envZ	sensory histidine kinase in two‑component regulatory system with OmpR
	?	CP009273	= 3528822	2 (0.110)					coding (406/1353 nt)	envZ	sensory histidine kinase in two‑component regulatory system with OmpR

CTGGATACGAATAAACAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAGTTGCTGCGCCATCTGATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTA  >  CP009273/3528682‑3528963                                                                                                                                             |                                                                                                                                              aacccgccacgccccgcctatcgccaatagcataatcgccagcgaattgccggccatctgagagaaatcgccctgatgaatttcggtcagcggcacgcgtacccagatattgggcgacagccaggttttCAGCCAGGTTTTCAGCCAga                                                                                                                                       >  1:286021‑M1/130‑149 (MQ=255) aaacagccacgccccgcctatcgccaatagcataatcgccagcgtatagcggaacagcggagagaaatcgccctgatgaatttcggtcagcggcacgcgtacccagatattgggcgacagccaggttttCAGCCAGGTTTTCAGCCAga                                                                                                                                       >  1:269483‑M1/130‑149 (MQ=255)       ccacgccccgcctatcgccaatagaataatcgccagcgtatagcggaacagcggagagaactgaccatgatgaaattaggtcagcggcacgcgtacccagatattgggcgacagccagggtttCAGCCAGGTTTTCAACCAga                                                                                                                                       <  2:85222‑M1/20‑1 (MQ=255)         gAATAAACAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTcagccaggtt                                                                                                                                     <  2:64332‑M2/143‑11 (MQ=255)             aacccgccacgCCCCGCCTATCGCCAATAGCATAATCGCCAGCGAATTGCCGGCCATCTGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTcagccaggttttcagccaga                                                                                                                           >  1:286021‑M2/6‑129 (MQ=255)             aaaCAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTcagccaggttttcagccaga                                                                                                                           >  1:269483‑M2/1‑129 (MQ=255)                   ccACGCCCCGCCTATCGCCAATAGAATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAACTGACCATGATGAAATTAGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGGTTTcagccaggttttcaaccaga                                                                                                                           <  2:85222‑M2/143‑21 (MQ=255)                       gccaatagcataatcgccagcgtatagcggaacagcggagagaaatcgccctgatgaatttcggtcagcggcacgcgtacccagatattgggcgacagccaggttttCAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGAc                                                                                                                 >  1:331322‑M1/108‑149 (MQ=255)                               cataatcgccagcgtatagcggaacagcggagagaaatcgccctgatgaatttcggtcagcggcacgcgtacccagatattgggcgacagccaggttttCAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCt                                                                                                               <  2:125318‑M1/44‑1 (MQ=255)                                ataatcgccagcgtatagcggaacagcggagagaaatcgccctgatgaatttcggtcagcggcacgcgtacccagatattgggcgacagccaggttttCAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAAcgcg                                                                                                        <  1:314310‑M1/51‑1 (MQ=255)                                   gCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTcagccaggttttcagccagacgacaggcgaacttttgttgac                                                                                                     >  1:331322‑M2/1‑107 (MQ=255)                                          gcgtatagcggaacagcggagagaaagcgccctgatgaatttcggtcagcggcacgcgtacccagatattgggcgacagccaggttttCAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTc                                                                                              >  1:109309‑M1/89‑149 (MQ=255)                                           cATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTcagccaggttttcagccagacgacaggcgaacttttgttgacct                                                                                                   <  2:125318‑M2/143‑45 (MQ=255)                                            aTAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTcagccaggttttcagccagacgacaggcgaacttttgttgacctcaacgcg                                                                                            <  1:314310‑M2/149‑52 (MQ=255)                                                agccgaacagcggagagaaatcgcccggatgaatttcggtcagcggcacgcgtacccagatattgggcgacagcccggttttTAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTc                                                                                              >  2:134702‑M1/83‑143 (MQ=255)                                                    gaacagcggagagaaatcgccctgatgaatttcggtcagcggcacgcgtacccagatattgggcgacagccaggttttCAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCa                                                                                    <  1:348973‑M1/71‑1 (MQ=255)                                                     aacagcggagagaaatcgccctgatgaatttcggtcagcggcacgcgtacccagatattgggcgacagccaggttttCAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAg                                                                                   >  1:262266‑M1/78‑149 (MQ=255)                                                      gCGTATAGCGGAACAGCGGAGAGAAAGCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTcagccaggttttcagccagacgacaggcgaacttttgttgacctcaacgcgcacttccgtc                                                                                  >  1:109309‑M2/1‑88 (MQ=255)                                                      ccagcggagagcgatcgccctgatgaatttcgggcagcggcacgcgtacccagatattgggcgacagccaggttttCAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAGt                                                                                  >  1:299667‑M1/77‑149 (MQ=255)                                                          cggagagaaatcgccctgatgaatttcggtcagcggcacgcgtacccagatattgggcgacagccaggttttCAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCa                                                                                    <  2:327871‑M1/71‑1 (MQ=255)                                                            aGCCGAACAGCGGAGAGAAATCGCCCGGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCCGGTTTTtagccaggttttcagccagacgacaggcgaacttttgttgacctcaacgcgcacttccgtc                                                                                  >  2:134702‑M2/1‑82 (MQ=255)                                                               agaaatcgccctgatgaatttcggtcagcggcacgcgtacccagatattgggcgacagccaggttttCAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGGCCTCCACGCGCACTTCCGTCGGGCCGCCCAGTTGCTGCGcc                                                                         <  1:219821‑M1/82‑1 (MQ=255)                                                                gaaatagccctgacgaattccggtcagcggcacgcgtacccagatatggggcgccagcccggttttCAGCCAGGTTTTCAGCCAGACGACAGGCGAACCTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAGTtgct                                                                              >  2:238283‑M1/67‑143 (MQ=255)                                                                gAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTcagccaggttttcagccagacgacaggcgaacttttgttgacctcaacgcgcacttccgtcgggccgccca                                                                        <  1:348973‑M2/149‑72 (MQ=255)                                                                 aaCAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTcagccaggttttcagccagacgacaggcgaacttttgttgacctcaacgcgcacttccgtcgggccgcccag                                                                       >  1:262266‑M2/1‑77 (MQ=255)                                                                  ccaGCGGAGAGCGATCGCCCTGATGAATTTCGGGCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTcagccaggttttcagccagacgacaggcgaacttttgttgacctcaacgcgcacttccgtcgggccgcccagt                                                                      >  1:299667‑M2/2‑76 (MQ=255)                                                                      cGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTcagccaggttttcagccagacgacaggcgaacttttgttgacctcaacgcgcacttccgtcgggccgccca                                                                        <  2:327871‑M2/143‑72 (MQ=255)                                                                           gatgaatttcggtcagcggcacgcgtacccagatattgggcgacagccaggttttCAGCCAGGGTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACCTCCGTCGGGCCGCCCAGTTGCTGCGCCATCTGa                                                                   <  2:163421‑M1/88‑1 (MQ=255)                                                                           agaAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTcagccaggttttcagccagacgacaggcgaacttttgttggcctccacgcgcacttccgtcgggccgcccagttgctgcgcc                                                             <  1:219821‑M2/149‑83 (MQ=255)                                                                            gaAATAGCCCTGACGAATTCCGGTCAGCGGCACGCGTACCCAGATATGGGGCGCCAGCCCGGTTTTcagccaggttttcagccagacgacaggcgaacctttgttgacctcaacgcgcacttccgtcgggccgcccagttgct                                                                  >  2:238283‑M2/1‑66 (MQ=255)                                                                               aatttcggtcagcggcacgcgtacccagatattgggcgacagccaggttttCAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAGTTGCTGCGCCATCTGATGGCTTAAGa                                                         >  1:335869‑M1/52‑149 (MQ=255)                                                                                  ttcggtcagcggcacgcgtacccagacattgggcgacagccaggttttCAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAGTTGCTGCGCCATCTGATGGCTTAAGAAtt                                                      >  1:137829‑M1/49‑149 (MQ=255)                                                                                       gatgaATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTcagccagggtttcagccagacgacaggcgaacttttgttgacctcaacgcgcacctccgtcgggccgcccagttgctgcgccatctga                                                       <  2:163421‑M2/143‑89 (MQ=255)                                                                                           aaTTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTcagccaggttttcagccagacgacaggcgaacttttgttgacctcaacgcgcacttccgtcgggccgcccagttgctgcgccatctgatggcttaaga                                             >  1:335869‑M2/1‑51 (MQ=255)                                                                                              ttCGGTCAGCGGCACGCGTACCCAGACATTGGGCGACAGCCAGGTTTTcagccaggttttcagccagacgacaggcgaacttttgttgacctcaacgcgcacttccgtcgggccgcccagttgctgcgccatctgatggcttaagaatt                                          >  1:137829‑M2/1‑48 (MQ=255)                                                                                               acgcgtacccagatattgggcgacagccaggttttCAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAGTTGCTGCGCCATCTGATGGCTTAAGAATTCATAGTGTTgcgc                                         >  1:362719‑M1/36‑149 (MQ=255)                                                                                                     acccagatattgggcgacagccaggttttCAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAGTTGCTGCGCCATCTGATGGCTTAAGAATTCATAGTGTTGCGCCCAACg                                   >  1:6272‑M1/30‑149 (MQ=255)                                                                                                        ggCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTAAACGCGCACTTCCGTCGGGCCGCCCAGTTGCTGCGCCATCTGATGGCTTAAGCATTCATAGTGTTGGCGCCAACGCAg                                >  1:58715/1‑149 (MQ=255)                                                                                                           aCGCGTACCCAGATATTGGGCGACAGCCAGGTTTTcagccaggttttcagccagacgacaggcgaacttttgttgacctcaacgcgcacttccgtcgggccgcccagttgctgcgccatctgatggcttaagaattcatagtgttgcgc                             >  1:362719‑M2/1‑35 (MQ=255)                                                                                                                 aCCCAGATATTGGGCGACAGCCAGGTTTTcagccaggttttcagccagacgacaggcgaacttttgttgacctcaacgcgcacttccgtcgggccgcccagttgctgcgccatctgatggcttaagaattcatagtgttgcgcccaacg                       >  1:6272‑M2/1‑29 (MQ=255)                                                                                                                  gcgacagccagggtttCAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAGTTGCTGCGCCATCTGATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCctct                      >  1:319628‑M1/17‑149 (MQ=255)                                                                                                                          caggttttCAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAGTTGCTGCGCCATCTGATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTcggcggc              <  1:117943‑M1/141‑4 (MQ=255)                                                                                                                              gCGACAGCCAGGGTTTcagccaggttttcagccagacgacaggcgaacttttgttgacctcaacgcgcacttccgtcgggccgcccagttgctgcgccatctgatggcttaagaattcatagtgttgcgcccaacgcagacctgcctct          >  1:319628‑M2/1‑16 (MQ=255)                                                                                                                               tttCGGCCATGGTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAGTTGCTGCGCCATCTGATGGCTTAAGAATTCATTACGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAg               >  2:150512‑M1/4‑143 (MQ=255)                                                                                                                                gACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAGTTGCTGCGCCATCTGATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGtt        >  1:302228/1‑149 (MQ=255)                                                                                                                                    GCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAGTTGCTGCGCCATCTGATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCCGCCGTGCCTCGTCGGcagccccg          <  2:316434‑M1/143‑4 (MQ=255)                                                                                                                                      caggttttcagccaggttttcagccagacgacaggcgaacttttgttgacctcaacgcgcacttccgtcgggccgcccagttgctgcgccatctgatggcttaagaattcatagtgttgcgcccaacgcagacctgcctcttcggcggc  <  1:117943‑M2/149‑142 (MQ=255)                                                                                                                                           tttcggccatggtttcagccagacgacaggcgaacttttgttgacctcaacgcgcacttccgtcgggccgcccagttgctgcgccatctgatggcttaagaattcattacgttgcgcccaacgcagacctgcctcttcggcag   >  2:150512‑M2/1‑3 (MQ=255)                                                                                                                                             |                                                                                                                                              CTGGATACGAATAAACAGCCACGCCCCGCCTATCGCCAATAGCATAATCGCCAGCGTATAGCGGAACAGCGGAGAGAAATCGCCCTGATGAATTTCGGTCAGCGGCACGCGTACCCAGATATTGGGCGACAGCCAGGTTTTCAGCCAGACGACAGGCGAACTTTTGTTGACCTCAACGCGCACTTCCGTCGGGCCGCCCAGTTGCTGCGCCATCTGATGGCTTAAGAATTCATAGTGTTGCGCCCAACGCAGACCTGCCTCTTCGGCAGCCTCGTTGGAGTA  >  CP009273/3528682‑3528963

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.