Predicted mutation
evidence seq id position mutation annotation gene description
MC JC NC_000913 3,559,357 Δ1,629 bp [rtcR][glpG] [rtcR], glpR, glpR, [glpG]

Missing coverage evidence...
   seq id start end size ←reads reads→ gene description
* * ÷ NC_000913 3559357 3560985 1629 48 [1] [0] 48 [rtcR]–[glpG] [rtcR],glpR,glpR,[glpG]

New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 = 35593561 (0.020)45 (1.100) 35/244 0.3 98.9% coding (1089/1599 nt) rtcR sigma 54‑dependent transcriptional regulator of rtcBA expression
?NC_000913 3560986 = 0 (0.000)coding (467/831 nt) glpG rhomboid intramembrane serine protease

GGCAGCGATCGCCAGGTGAGCAGTGATTTTCAGCTTATCGCCGGAACGGTGCGCGATTTGCGCCAGCTGGTTGCCGAAGGCAAATTTCGCGAAGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGCGCCAGGAAGATATTGAACCGAACCTGGATTATGAAGTGGAGCGCCACGCCTCACTCACTGGCGACAGCGTGCGTTTTAACACCGAAGCGCGGCGCGCCTGGTTGGCTTTTGCGACCTCTCCCCAGGCAACATGGCGCGGTAACTTT  >  NC_000913/3559210‑3559503
                                                                                                                                                  |                                                                                                                                                   
ggCAGCGATCGCCAGGTGAGCAGTGATTTTCAGCTTATCGCCGGAACGGTGCGCGATTTGCGCCAGCTGGTTGCCGAAGGCAAATTTCGCGAAGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGa                                                                                                                                                    <  2:77600‑M1/148‑2 (MQ=255)
 gCAGCGATCGCCAGGTGAGCAGTGATTTTCAGCTTATCGCCGGAACGGTGCGCGATTTGCGCCAGCTGGTTGCCGAAGGCAAATTTCGCGAAGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGag                                                                                                                                                   >  8:59251‑M1/1‑146 (MQ=255)
        tCGCCAGGTGAGCAGTGATTTTCAGCTTATCGCCGGAACGGTGCGCGATTTGCGCCAGCTGGTTGCCGAAGGCAAATTTCGCGAAGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGagcaggtta                                                                                                                                            >  5:15753‑M1/1‑139 (MQ=255)
                    cAGTGATTTTCAGCTTATCGCCGGAACGGTGCGCGATTTGCGCCAGCTGGTTGCCGAAGGCAAATTTCGCGAAGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGagcaggttaaagaggatatgca                                                                                                                               >  7:74860‑M1/1‑127 (MQ=255)
                           tttCAGCTTATCGCCGGAACGGTGCGCGATTTGCGCCAGCTGGTTGCCGAAGGCAAATTTCGCGAAGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGagcaggttaaagaggatatgcatcagc                                                                                                                          >  2:43301‑M1/1‑120 (MQ=255)
                               aGCTTATCGCCGGAACGGTGCGCGATTTGCGCCAGCTGGTTGCCGAAGGCAAATTTCGCGAAGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGagcaggttaaagaggatatgcatcagcgagaag                                                                                                                    >  3:151010‑M1/1‑116 (MQ=255)
                                gCTTATCGCCGGAACGGTGCGCGATTTGCGCCAGCTGGTTGCCGAAGGCAAATTTCGCGAAGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGagcaggttaaagaggatatgcatcagcgagaagt                                                                                                                   >  2:209920‑M1/1‑115 (MQ=255)
                                    aTCGCCGGAACGGTGCGCGATTTGCGCCAGCTGGTTGCCGAAGGCAAATTTCGCGAAGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGagcaggttaaagaggatatgcatcagcgagaagtgc                                                                                                                 <  1:43301‑M1/147‑37 (MQ=255)
                                    aTCGCCGGAACGGTGCGCGATTTGCGCCAGCTGGTTGCCGAAGGCAAATTTCGCGAAGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGagcaggttaaagaggatatgcatcagcgagaagtgc                                                                                                                 <  4:151010‑M1/147‑37 (MQ=255)
                                     tCGCCGGAACGGTGCGCGATTTGCGCCAGCTGGTTGCCGAAGGCAAATTTCGCGAAGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGCGCCAGGAAGATATTGAACCGAACCTGGATTATGAAGTg                                                                                                              <  6:67906/149‑1 (MQ=255)
                                        ccGGAACGGTGCGCGATTTGCGCCAGCTGGTTGCCGAAGGCAAATTTCGCGAAGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGagcaggttaaagaggatatgcatcagcgagaagtgcattaac                                                                                                           <  8:74860‑M1/149‑43 (MQ=255)
                                                gTGCGCGATTTGCGCCAGCTGGTTGCCGAAGGCAAATTTCGCGAAGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGagcaggttaaagaggatatgcatcagcgagaagtgcattaacgcgtgggt                                                                                                   <  3:4620‑M1/149‑51 (MQ=255)
                                                    gcgATTTGCGCCAGCTGGTTGCCGAAGGCAAATTTCGCGAAGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGagcaggttaaagaggatatgcatcagcgagaagtgcattaacgc                                                                                                         >  4:147761‑M1/1‑95 (MQ=255)
                                                    gcgATTTGCGCCAGCTGGTTGCCGAAGGCAAATTTCGCGAAGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGagcaggttaaagaggatatgcatcagcgagaagtgcattaacgc                                                                                                         <  3:147761‑M1/139‑45 (MQ=255)
                                                    gcgATTTGCGCCAGCTGGTTGCCGAAGGCAAATTTCGCGAAGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGa                                                                                                                                                    <  4:133455‑M1/96‑2 (MQ=255)
                                                    gcgATTTGCGCCAGCTGGTTGCCGAAGGCAAATTTCGCGAAGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGa                                                                                                                                                    >  3:133455‑M1/1‑95 (MQ=255)
                                                        tttGCGCCAGCTGGTTGCCGAAGGCAAATTTCGCGAAGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGagcaggttaaagaggatatgcatcagc                                                                                                                          <  1:50771‑M1/118‑28 (MQ=255)
                                                        tttGCGCCAGCTGGTTGCCGAAGGCAAATTTCGCGAAGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGagcaggttaaagaggatatgcatcagc                                                                                                                          >  2:50771‑M1/1‑91 (MQ=255)
                                                        tttGCGCCAGCTGGTTGCCGAAGGCAAATTTCGCGAAGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGagcaggttaaagaggatat                                                                                                                                  >  3:106496‑M1/1‑91 (MQ=255)
                                                        tttGCGCCAGCTGGTTGCCGAAGGCAAATTTCGCGAAGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGagcaggttaaagaggatat                                                                                                                                  <  4:106496‑M1/110‑20 (MQ=255)
                                                        tttGCGCCAGCTGGTTGCCGAAGGCAAATTTCGCGAAGATCTGTACGCGCGGATCAATCTCTGGACCTCACCCTGCCGGGTCTACGCCAGagcaggttaaagaggatatgcagcagcgagcagtgcattaacgcgtgggtgaagtaacg                                                                                          >  4:29746‑M1/1‑90 (MQ=255)
                                                               cAGCTGGTTGCCGAAGGCAAATTTCGCGAAGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGagcaggttaaagaggatatgcatcagcgagaagtgcattaacgcgtgggtgaagtaacgccagaa                                                                                    <  6:15753‑M1/149‑66 (MQ=255)
                                                                  cTGGTTGCCGAAGGCAAATTTCGCGAAGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGagcaggttaaagaggatatgcatcagcgagaagtgcattaacgcgtgggtgaagtaacgccagaactc                                                                                 <  1:209920‑M1/149‑69 (MQ=255)
                                                                      ttGCCGAAGGCAAATTTCGCGAAGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGagcaggttaaagaggatatgcatcagcgagaagtgcattaacgcgtgggtgaagtaacgccagaactcaaat                                                                             <  7:59251‑M1/149‑73 (MQ=255)
                                                                          cGAAGGCAAATTTCGCGAAGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGagcaggttaaagaggatatgcatcagcgagaagtgcattaacgcgtgggtgaagtaacgccagaactcaagttt                                                                           >  5:183771‑M1/1‑73 (MQ=255)
                                                                          cGAAGGCAAATTTCGCGAAGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGagcaggttaaagaggatatgcatcagcgagaagtgcattaacgcgtgggtgaagtaacgccagaactcaaattt                                                                           >  5:38549‑M1/1‑73 (MQ=255)
                                                                             aGGCAAATTTCGCGAAGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGagcaggttaaagaggatatgcatcagcgagaagtgcattaacgcgtgggtgaagtaacgccagaactcaaatttcagtg                                                                      >  4:38184‑M1/1‑70 (MQ=255)
                                                                               gCAAATTTCGCGAAGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGagcaggttaaagaggatatgcatcagcgagaagtgcattaacgcgtgggtgaagtaacgccagaactcaaatttcagtgtt                                                                    >  2:178442‑M1/1‑68 (MQ=255)
                                                                               gCAAATTTCGCGAAGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGagcaggttaaaga                                                                                                                                        <  3:124586‑M1/81‑14 (MQ=255)
                                                                               gCAAATTTCGCGAAGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGagcaggttaaaga                                                                                                                                        >  4:124586‑M1/1‑68 (MQ=255)
                                                                                 aaaTTTCGCGAAGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGagcaggttaaagaggatatgcatcagcgagaa                                                                                                                     >  6:1722‑M1/1‑66 (MQ=255)
                                                                                        gcgAAGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGagcaggttaaagaggatatgcatcagcgagaagtgcattaacgcgtgggtgaagtaacgccagaactcaaatttcagtgttggatcgaa                                                            <  1:178442‑M1/148‑90 (MQ=255)
                                                                                        gcgAAGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGagcaggttaaaga                                                                                                                                        >  4:55572‑M1/1‑59 (MQ=255)
                                                                                        gcgAAGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGagcaggttaaaga                                                                                                                                        <  3:55572‑M1/72‑14 (MQ=255)
                                                                                        gcgAAGATCTGTACGCGCGGATCAATCTCTGGACCTCACCCTGCCGGGTCTACGCCAGagcaggttaaagaggatatgcatcagagagaagtgcattaacgcgtgggtgaagtaacgccagaactcaaatttcagtgttggatcgaatg                                                          <  3:29746‑M1/149‑92 (MQ=255)
                                                                                           aaGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGagcaggttaaagaggatatgcatcagcgagaagtgcattaacgcgtgggtgaagtaacgccagaa                                                                                    <  5:6841‑M1/121‑66 (MQ=255)
                                                                                           aaGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGagcaggttaaagaggatatgcatcagcgagaagtgcattaacgcgtgggtgaagtaacgccagaa                                                                                    >  6:6841‑M1/1‑56 (MQ=255)
                                                                                                                aTCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGagcaggttaaagaggatatgcatcagcgagaagtgcattaacgcgtgggtgaagtaacgccagaactcaaatttcagtgttggatc                                                               >  4:105493‑M1/1‑35 (MQ=255)
                                                                                                                aTCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGagcaggttaaagaggatatgcatcagcgagaagtgcattaacgcgtgggtgaagtaacgccagaactcaaatttcagtgttggatc                                                               <  3:105493‑M1/121‑87 (MQ=255)
                                                                                                                       gACCTTCACCCTGCCGGGTCTACGCCAGagcaggttaaagaggatatgcatcagcgagaagtgcattaacgcgtgggtgaagtaacgccagaactcaaatttcagtgttggatcgaatggccaggccagccataacatcacttcct                               <  6:183771‑M1/146‑119 (MQ=255)
                                                                                                                          cTTCACCCTGCCGGGTCTACGCCAGagcaggttaaagaggatatgcatcagcgagaagtgcattaacgcgtgggtgaagtaacgccagaactcaaatttcagtgttggatcgaatggccaggccagccataacatcacttcctgatcgc                         >  1:217408‑M1/1‑25 (MQ=255)
                                                                                                                          cTTCACCCTGCCGGGTCTACGCCAGagcaggttaaagaggatatgcatcagcgagaagtgcattaacgcgtgggtgaagtaacgccagaactcaaatttcagtgttggatcgaatggccaggccagccataacatcacttcctgatcgc                         >  2:177338‑M1/1‑25 (MQ=255)
                                                                                                                                ccTGCCGGGTCTACGCCAGagcaggttaaagaggatatgcatcagcgagaagtgcattaacgcgtgggtgaagtaacgccagaactcaaatttcagtgttggatcgaatggccaggccagccataacatcatttcc                                <  5:86187‑M1/136‑118 (MQ=255)
                                                                                                                                ccTGCCGGGTCTACGCCAGagcaggttaaagaggatatgcatcagcgagaagtgcattaacgcgtgggtgaagtaacgccagaactcaaatttcagtgttggatcgaatggccaggccagccataacatcatttcc                                >  6:86187‑M1/1‑19 (MQ=255)
                                                                                                                                     cGGGTCTACGCCAGagcaggttaaagaggatatgcatcagcgagaagtgcattaacgcgtgggtgaagtaacgccagaactcaaatttcagtgttggatcgaatggccaggccagccataacatcacttcctgatcgccgagaatttgc              <  6:38549‑M1/149‑136 (MQ=255)
                                                                                                                                              gCCAGagcaggttaaagaggatatgcatcagcgagaagtgcattaacgcgtgggtgaagtaacgccagaactcaaatttcagtgttggatcgaatggccaggccagccataacatcacttcctgatcgccgagaatttgcatggcaat      >  5:50223‑M1/1‑5 (MQ=255)
                                                                                                                                               ccAGagcaggttaaagaggatatgcatcagcgagaagtgcattaacgcgtgggtgaagtaacgccagaactcaaatttcagtgttggatcgaatggccaggccagccataacatcacttcctgatcgccgagaatttgcatggcaata     >  5:55355‑M1/1‑4 (MQ=255)
                                                                                                                                                 agagcaggttaaagaggatatgcatcagcgagaagtgcattaacgcgtgggtgaagtaacgccagaactcaaatttcagtgttggatcgaatggccaggccagccataacatcacttcctgatcgccgagaatttgcatggcaataaac  <  2:217408‑M1/149‑148 (MQ=255)
                                                                                                                                                  |                                                                                                                                                   
GGCAGCGATCGCCAGGTGAGCAGTGATTTTCAGCTTATCGCCGGAACGGTGCGCGATTTGCGCCAGCTGGTTGCCGAAGGCAAATTTCGCGAAGATCTGTACGCGCGGATCAATCTCTGGACCTTCACCCTGCCGGGTCTACGCCAGCGCCAGGAAGATATTGAACCGAACCTGGATTATGAAGTGGAGCGCCACGCCTCACTCACTGGCGACAGCGTGCGTTTTAACACCGAAGCGCGGCGCGCCTGGTTGGCTTTTGCGACCTCTCCCCAGGCAACATGGCGCGGTAACTTT  >  NC_000913/3559210‑3559503

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ 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.