Predicted mutation
evidence seq id position mutation annotation gene description
MC JC NC_000913 1,997,112 Δ26,567 bp [tcyN]–[fliR] 32 genes

Missing coverage evidence...
   seq id start end size ←reads reads→ gene description
* * ÷ NC_000913 1997112 2023678 26567 117 [5] [0] 112 [tcyN]–[fliR] [tcyN],tcyL,dcyD,tcyJ,fliZ,fliA,fliC,fliD,fliS,fliT,amyA,yedD,yedE,yedF,yedK,yedL,yedN,intG,fliE,fliF,fliG,fliH,fliI,fliJ,fliK,fliL,fliM,fliN,fliO,fliP,fliQ,[fliR]

New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 = 19971115 (0.050)107 (0.990) 59/98 0.0 97.7% coding (704/753 nt) tcyN cystine ABC transporter ATP binding subunit
?NC_000913 2023679 = 0 (0.000)intergenic (+1/‑289) fliR/rcsA flagellar biosynthesis protein FliR/DNA‑binding transcriptional activator RcsA

Only 100 of 117 total aligned reads displayed.

TTATTGCAGCAGAAACTTCTCGAGGAACTGGCGGGTGCGAGGCTGCTCGGGGTCGGCAAATAACGCTTTTGCGGCCCCCTGCTCGACTATCCGCCCCTG  >  NC_000913/1997062‑1997160
                                                 |                                                 
ttattGCAGCAGAAACTTCTCGAGGAACTGGCGGGTGGGAGGCTGCTCgg                                                   >  1:5874791/1‑50 (MQ=255)
ttattGCAGCAGAAACTTCTCGAGGAACTGGCGGGTGCGAGGCTGCTCgg                                                   <  1:6027881/50‑1 (MQ=255)
ttattGCAGCAGAAACTTCTCGAGGAACTGGCGGGTGCGAGGCTGCCCgg                                                   >  1:676643/1‑50 (MQ=255)
ttattGCAGCAGAAACTTCTCGAGGAACTGGCGGGGGCGGGGCTGCTCgg                                                   >  1:5837818/1‑50 (MQ=255)
ttattGCAGCAGAAACTTCTCGAGGAACTGGCGGCGCCGAGGTTGGTCgg                                                   >  1:55815/1‑50 (MQ=255)
 tattGCAGCAGAAACTTCTCGAGGAACTGGCGGGGGGGAGGGTGCTCggg                                                  >  1:5043601/1‑50 (MQ=38)
 tATTGCAGCAGAAACTTCTCGAGGAACTGGCGGGTGCGAGGCTGCTCGGt                                                  >  1:812833‑M1/1‑49 (MQ=255)
  attGCAGCAGAAACTTCTCGAGGAACTGGCGGGGGCGAGGCTGCTCgggt                                                 >  1:4294737/1‑49 (MQ=255)
  aTTGCAGCAGAAACTTCTCGAGGAACTGGCGGGGGCGAGGCTGCCCGGtt                                                 >  1:7991322‑M1/1‑48 (MQ=255)
   ttGCAGCAGAAACTTCTCGAGGAACTGGCGGGTGCGGGGCTGCTCgggtc                                                >  1:5150496/1‑48 (MQ=39)
   ttGCAGCAGAAACTTCTCGAGGAACTGGCGGGTGCGAGGCTGCTCGGtt                                                 <  1:962238‑M1/49‑3 (MQ=255)
   ttGCAGCAGAAACTTCTCGAGGAACTGGCGGGGGCGAGGCTGCTCgggtc                                                >  1:811862/1‑48 (MQ=255)
    tGCAGCAGAAACTTCTCGAGGAACTGGCGGGTGCGAGGCTGCTCGGttcc                                               >  1:7616914‑M1/1‑46 (MQ=255)
    tGCAGCAGAAACTTCTCGAGGAACTGGCGGGGGCGAGGGTGCTCGGttcc                                               >  1:2669161‑M1/1‑46 (MQ=255)
     gcagcaGAAACTTCTCGAGGAACTGGCGGGTGCGAGGCTGCTCGGttcc                                               <  1:4715829‑M1/49‑5 (MQ=255)
     gcagcaGAAACTTCTCGAGGAACTGGCGGGTGCGAGGCTGCTCGGttcc                                               <  1:6184478‑M1/49‑5 (MQ=255)
     gcagcaGAAACTTCTCGAGGAACTGGCGGGTGCGAGGCTGCTCGGttcc                                               <  1:3930851‑M1/49‑5 (MQ=255)
     gcagcaGAAACTTCTCGAGGAACTGGCGGGTGCGAGGCTGCTCGGttcc                                               <  1:7247377‑M1/49‑5 (MQ=255)
     gcagcaGAAACTTCTCGAGGAACTGGCGGGTGCGAGGCTGCTCGGgtccg                                              >  1:1198444‑M1/1‑45 (MQ=255)
      cagcagAAACTTCTCGAGGAACTGGCGGGTGCGAGGCTGCTCGGttccg                                              <  1:5835683‑M1/49‑6 (MQ=255)
      cagcagAAACTTCTCGAGGAACTGGCGGGTGCGAGGCTGCTCGGttccg                                              <  1:1055520‑M1/49‑6 (MQ=255)
       agcagAAACTTCTCGAGGAACTGGCGGGTGCGAGGCTGCTCGGttccgta                                            <  1:5009071‑M1/50‑8 (MQ=255)
        gcatAAACTTCTCGAGGAACTGGCGGGTGCGAGGCTGCTCGGttccgtaa                                           <  1:6537682‑M1/50‑9 (MQ=255)
        gcagAAACTTCTCGAGGAACTGGCGGGTGCGAGGCTGCTCGGttccgtaa                                           <  1:6227208‑M1/50‑9 (MQ=255)
         cagAAACTTCTCGAGGAACTGGCGGGTGCGAGGCTGGTCGGtttcggaac                                          >  1:1195350‑M1/1‑41 (MQ=255)
         cagAAACTTCTCGAGGAACTGGCGGGTGCGAGGCTGCTCGGttccgtaac                                          <  1:6938235‑M1/50‑10 (MQ=255)
         cagAAACTTCTCGAGGAACTGGCGGGTGCGAGGCTGCTCGGttccgtaac                                          <  1:294788‑M1/50‑10 (MQ=255)
          agAAACTTCTCGAGGAACTGGCGGGTGCGAGGCTGCTCGGttccgtaacg                                         <  1:3227789‑M1/50‑11 (MQ=255)
          agAAACTTCTCGAGGAACTGGCGGGTGCGAGGCTGCTCGGttccgtaacg                                         <  1:5486487‑M1/50‑11 (MQ=255)
          agAAACTTCTCGAGGAACTGGCGGGTGCGAGGCTGCTCGGttccgtaacg                                         <  1:1960906‑M1/50‑11 (MQ=255)
                 tctcGAGGAACTGGCGGGTGCGAGGCTGCTCGGtttcgtaacgtttatca                                  >  1:7235525‑M1/1‑33 (MQ=255)
                  ctcGAGGAACTGGCGGGTGCGAGGCTGCTCGGttccgtaacgtttatc                                   <  1:7821269‑M1/48‑17 (MQ=255)
                  ctcGAGGAACTGGCGGGTGCGAGGCTGCTCGGttccgtaacgtttatc                                   <  1:1242889‑M1/48‑17 (MQ=255)
                     gAGGAACTGGCGGGTGCGAGGCTGCTCGGttccgtaacgtttatcatgtt                              <  1:4612766‑M1/50‑22 (MQ=255)
                     gAGGAACTGGCGGGTGCGAGGCTGCTCGGttccgtaacgtttatcatgtt                              <  1:4875251‑M1/50‑22 (MQ=255)
                     gAGGAACTGGCGGGTGCGAGGCTGCTCGGttccgtaacgtttatcat                                 <  1:2898640‑M1/47‑19 (MQ=255)
                     gAGGAACTGGCGGGTGCGAGGCTGCTCGGttccgtaacgtttagcatgt                               <  1:4204292‑M1/49‑21 (MQ=255)
                      aGGAACTGGCGGGTGCGAGGCTGCTCGGttccgtaacgtttatcatgtta                             <  1:850783‑M1/50‑23 (MQ=255)
                       ggAACTGTCGGGTGCGAGGCTGCTCGGttccgtaacgtttatcatgttat                            >  1:7805183‑M1/1‑27 (MQ=255)
                       ggAACTGGCGGGTGCGAGGCTGCTCGGttccgtaacgtttatcatgttat                            <  1:3793574‑M1/50‑24 (MQ=255)
                       ggAACCGGCGGGTGCGAGGCTGCTCGGttccgtaacgtttatcatgttat                            <  1:403654‑M1/50‑24 (MQ=255)
                         aaCTGGCGGGTGCGAGGCTGCTCGGttccgtaacgtttatcatgttatcc                          >  1:7973318‑M1/1‑25 (MQ=255)
                         aaCTGGCGGGTGCGAGGCTGCTCGGttccgtaacgtttatcatgttatcc                          <  1:4609915‑M1/50‑26 (MQ=255)
                         aaCTGGCGGGTGCGAGGCTGCTCGGttccgtaacgtttatcatgttatcc                          <  1:2001091‑M1/50‑26 (MQ=255)
                         aaCTGGCGGGTGCGAGGCTGCTCGGttccgtaacgtttatcatgttatcc                          <  1:1604500‑M1/50‑26 (MQ=255)
                           cTGGCGGGTGCGAGGCTGCTCGGttccgtaacgtttatcatgttatccta                        <  1:1067381‑M1/50‑28 (MQ=255)
                           cTGGCGGGTGCGAGGCTGCTCGGttccgtaacgtttatcatgttatccta                        <  1:6965466‑M1/50‑28 (MQ=255)
                           cTGGCGGGTGCGAGGCTGCTCGGttccgtaacgtttatcatgttatcct                         >  1:1943621‑M1/1‑23 (MQ=255)
                             ggCGGGTGCGAGGCTGCTCGGttccgtaacgtttatcatgttatcctaag                      >  1:4747334‑M1/1‑21 (MQ=255)
                             ggCGGGTGCGAGGCTGCTCGGttccgtaacgtttatcatgttatcctaag                      >  1:2362104‑M1/1‑21 (MQ=255)
                             ggCGGGTGCGAGGCTGCTCGGttccgtaacgtttatcatgttatcctaag                      >  1:809180‑M1/1‑21 (MQ=255)
                              gCGGGTGCGAGGCTGCTCGGttccgtaacgtttatcatgttatcctaagg                     <  1:5429276‑M1/50‑31 (MQ=255)
                              gCGGGTGCGAGGCTGCTCGGttccgtaacgtttatcatgttatcctaag                      <  1:866765‑M1/49‑30 (MQ=255)
                              gCGGGTGCGAGGCTGCTCGGttccgtaacgtttatcatgttatcctaag                      <  1:1680762‑M1/49‑30 (MQ=255)
                              gCGGGTGCGAGGCTGCTCGGttccgtaacgtttatcatgttatcctaag                      <  1:7208421‑M1/49‑30 (MQ=255)
                              gCGGGTGCGAGGCTGCTCGGttccgtaacgtttatcatgttatcctaag                      <  1:3834540‑M1/49‑30 (MQ=255)
                              gCGGGTGCGAGGCTGCTCGGttccgtaacgtttatcatgttatcctaa                       <  1:8313872‑M1/48‑29 (MQ=255)
                               cGGGTGCGAGGCTGCTCGGttccgtaacgtttatcatgttatcctaagga                    >  1:4919129‑M1/1‑19 (MQ=255)
                               cGGGTGCGAGGCTGCTCGGttccgtaacgtttatcatgttatcctaagga                    <  1:3205472‑M1/50‑32 (MQ=255)
                                gggTGCGAGGCTGCTCGGttccgtaacgtttatcatgttatcctaaggat                   <  1:7654230‑M1/50‑33 (MQ=255)
                                 ggTGCGAGGCTGCTCGGttccgtaacgtttatcatgttatcctaaggatt                  <  1:4873329‑M1/50‑34 (MQ=255)
                                 ggTGCGAGGCTGCTCGGttccgtaacgtttatcatgttatcctaaggatt                  <  1:4555922‑M1/50‑34 (MQ=255)
                                 ggTGCGAGGCTGCTCGGttccgtaacgtttatcatgttatcctaaggatt                  <  1:2156590‑M1/50‑34 (MQ=255)
                                  gTGCGAGGCTGCTCGGttccgtaacgtttatcatgttatcctaaggatta                 >  1:4138480‑M1/1‑16 (MQ=255)
                                  gTGCGAGGCTGCTCGGttccgtaacgtttatcatgttatcctaaggatta                 >  1:4563662‑M1/1‑16 (MQ=255)
                                   tGCGAGGCTGCTCGGttccgtaacgtttatcatgttatcctaaggattat                <  1:541095‑M1/50‑36 (MQ=255)
                                   tGCGAGGCTGCTCGGttccgtaacgtttatcatgttatcctaaggattat                <  1:7503532‑M1/50‑36 (MQ=255)
                                    gCGAGGCTGCTCGGttccgtaacgtttatcatgttatcctaaggattatc               >  1:1017184‑M1/1‑14 (MQ=255)
                                    gCGAGGCTGCTCGGttccgtaacgtttatcatgttatcctaaggattatc               >  1:37863‑M1/1‑14 (MQ=255)
                                     cGAGGCTGCTCGGttccgtaacgtttatcatgttatcctaaggattatcc              >  1:1335‑M1/1‑13 (MQ=255)
                                     cGAGGCTGCTCGGttccgtaacgtttatcatgttatcctaaggattatc               <  1:6536558‑M1/49‑37 (MQ=255)
                                     cGAGGCTGCTCGGttccgtaacgtttatcatgttatcctaaggattatc               <  1:6547551‑M1/49‑37 (MQ=255)
                                      gAGGCTGCTCGGttccgtaacgtttatcatgttatcctaaggattatccg             <  1:3761424‑M1/50‑39 (MQ=255)
                                      gAGGCTGCTCGGttccgtaacgtttatcatgttatcctaaggattatcc              >  1:5803212‑M1/1‑12 (MQ=255)
                                       aGGCTGCTCGGttccgtaacgtttatcatgttatcctaaggattatccga            <  1:3158912‑M1/50‑40 (MQ=255)
                                         gctgctCGGttccgtaacgtttatcatgttatcctaaggattatccgaa           >  1:5349394‑M1/1‑9 (MQ=255)
                                          ctgctCGGttccgtaacgtttatcatgttatcctaaggattatccgaaaa         <  1:503116‑M1/50‑43 (MQ=255)
                                          ctgctCGGttccgtaacgtttatcatgttatcctaaggattatccgaaaa         <  1:4861827‑M1/50‑43 (MQ=255)
                                          ctgctCGGttccgtaacgtttatcatgttatcctaaggattatccgaaa          >  1:5962192‑M1/1‑8 (MQ=255)
                                           tgctCGGttccgtaacgtttatcatgttatcctaaggattatccgaaaaa        >  1:5149256‑M1/1‑7 (MQ=255)
                                            gctCGGttccgtaacgtttatcatgttatcctaaggattatccgaaaaa        >  1:860337‑M1/1‑6 (MQ=255)
                                             ctCGGttccgtaacgtttatcatgttatcctaaggattatccgaaaaata      <  1:4317018‑M1/50‑46 (MQ=255)
                                             ctCGGttccgtaacgtttatcatgttatcctaaggattatccgaaaaat       >  1:5445956‑M1/1‑5 (MQ=255)
                                             ctCGGttccgtaacgtttatcatgttatcctaaggattatccgaaaaat       <  1:475963‑M1/49‑45 (MQ=255)
                                             ctCGGttccgtaacgtttatcatgttatcctaaggattatccgaaaaa        <  1:3836966‑M1/48‑44 (MQ=255)
                                             ctCGGttccgtaacgtttatcatgttatcctaaggattatccgaaaaa        <  1:7639214‑M1/48‑44 (MQ=255)
                                             ctCGGttccgtaacgtttatcatgttatcctaaggattatccgaaaaa        <  1:100314‑M1/48‑44 (MQ=255)
                                               cGGttccgtaacgtttatcatgttatcctaaggattatccgaaaaataa     >  1:3400767‑M1/1‑3 (MQ=255)
                                               cGGttccgtaacgtttatcatgttatcctaaggattatccgaaaaataa     >  1:1248720‑M1/1‑3 (MQ=255)
                                               cGGttccgtaacgtttatcatgttatcctaaggattatccgaaaaataa     >  1:2555337‑M1/1‑3 (MQ=255)
                                               cGGttccgtaacgtttatcatgttatcctaaggattatccgaaaaataa     >  1:3095589‑M1/1‑3 (MQ=255)
                                                ggttccgtatcgtttatcatgttatcctaaggattatccgaaaaataa     <  1:6539273‑M1/48‑47 (MQ=255)
                                                ggttccgtaacgtttatcatgttatcctaaggattatccgaaaaataata   >  1:2707530‑M1/1‑2 (MQ=255)
                                                ggttccgtaacgtttatcatgttatcctaaggattatccgaaaaataata   <  1:486570‑M1/50‑49 (MQ=255)
                                                ggttccgtaacgtttatcatgttatcctaaggattatccgaaaaataat    <  1:1905207‑M1/49‑48 (MQ=255)
                                                 gttccgtaacgtttatcatgttatcctaaggattatccgaaaaataatac  <  1:7899800‑M1/50‑50 (MQ=255)
                                                 gttccgtaacgtttatcatgttatcctaaggattatccgaaaaataatac  <  1:2167172‑M1/50‑50 (MQ=255)
                                                 gttccgtaacgtttatcatgttatcctaaggattatccgaaaaataatac  >  1:1729676‑M1/1‑1 (MQ=255)
                                                 gttccgtaacgtttatcatgttatcctaaggattatccgaaaaataatac  >  1:32923‑M1/1‑1 (MQ=255)
                                                 gttccgtaacgtttatcatgttatcctaaggattatccgaaaaataatac  >  1:5093781‑M1/1‑1 (MQ=255)
                                                 |                                                 
TTATTGCAGCAGAAACTTCTCGAGGAACTGGCGGGTGCGAGGCTGCTCGGGGTCGGCAAATAACGCTTTTGCGGCCCCCTGCTCGACTATCCGCCCCTG  >  NC_000913/1997062‑1997160

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ 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.