Predicted mutation
evidence seq id position mutation annotation gene description
MC JC NC_000913 1,962,566 Δ16,764 bp flhE–insA‑5 17 genes

Missing coverage evidence...
   seq id start end size ←reads reads→ gene description
* * ÷ NC_000913 1962566 1979329 16764 216 [0] [0] 212 flhE–insA‑5 flhE,flhA,flhB,cheZ,cheY,cheB,cheR,tap,tar,cheW,cheA,motB,motA,flhC,flhD,insB‑5,insA‑5

New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 = 19625650 (0.000)207 (1.810) 85/96 0.0 100% intergenic (+105/+15) yecT/flhE protein YecT/flagellar protein
?NC_000913 1979330 = 0 (0.000)intergenic (‑115/‑423) insA‑5/uspC IS1 protein InsA/universal stress protein C

Only 100 of 216 total aligned reads displayed.

AAGACATCGAGCCTTTTTCACTGAGTTATTAAACATACTCGCGAGCGCGT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/1962516‑1962565
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGT  >  NC_000913/1979330‑1979378
                                                                                                   
AAGACATCGAGCCTTTTTCACTGAGTTATTAAACATACTCGCGAGCGCGT                                                   <  2:3544623/50‑1
AAGACATCGAGCCTTTTTCACTGAGTTATTAAACATACTCGCGAGCGCGT                                                   <  1:2163955/50‑1
 AGACATCGAGCCTTTTTCACTGAGTTATTAAACATACTCGCGAGCGCGTC                                                  >  2:2841296/1‑50
  GACATCGAGCCTTTTTCACTGAGTTATTAAACATACTCGCGAGCGCGTCG                                                 >  1:3651886/1‑50
   ACATCGAGCCTTTTTCACTGAGTTATTAAACATACTCGCGAGCGCGTCGC                                                >  2:3555901/1‑50
    CATCGAGCCTTTTTCACTGAGTTATTAAACATACTCGCGAGCGCGTCGCT                                               <  2:878415/50‑1
    CATCGAGCCTTTTTCACTGAGTTATTAAACATACTCGCGAGCGCGTCGC                                                >  1:1328010/1‑49
     ATCGAGCCTTTTTCACTGAGTTATTAAACATACTCGCGAGCGCGTCGCTA                                              <  1:1059951/50‑1
      TCGAGCCTTTTTCACTGAGTTATTAAACATACTCGCGAGCGCGTCGCTAC                                             >  2:1693021/1‑50
      TCGAGCCTTTTTCACTGAGTTATTAAACATACTCGCGAGCGCGTCGCTAC                                             <  2:2141677/50‑1
      TCGAGCCTTTTTCACTGAGTTATTAAACATACTCGCGAGCGCGTCGCTAC                                             <  2:2876680/50‑1
        GAGCCTTTTTCACTGAGTTATTAAACATACTCGCGAGCGCGTCGCTACGC                                           >  2:371560/1‑50
        GAGCCTTTTTCACTGAGTTATTAAACATACTCGCGAGCGCGTCGCTACGC                                           >  2:1904645/1‑50
        GAGCCTTTTTCACTGAGTTATTAAACATACTCGCGAGCGCGTCGCTACGC                                           >  2:613764/1‑50
        GAGCCTTTTTCACTGAGTTATTAAACATACTCGCGAGCGCGTCGCTACGC                                           >  2:2675515/1‑50
        GAGCCTTTTTCACTGAGTTATTAAACATACTCGCGAGCGCGTCGCTACGC                                           >  2:984932/1‑50
        GAGCCTTTTTCACTGAGTTATTAAACATACTCGCGAGCGCGTCGCTACG                                            <  1:4351238/49‑1
         AGCCTTTTTCACTGAGTTATTAAACATACTCGCGAGCGCGTCGCTACGCT                                          <  1:1633705/50‑1
         AGCCTTTTTCACTGAGTTATTAAACATACTCGCGAGCGCGTCGCTACGC                                           >  1:3333922/1‑49
         AGCCTTTTTCACTGAGTTATTAAACATACTCGCGAGCGCGTCGCTACGC                                           >  2:4546785/1‑49
          GCCTTTTTCACTGAGTTATTAAACATACTCGCGAGCGCGTCGCTACGCTA                                         <  1:3944083/50‑1
          GCCTTTTTCACTGAGTTATTAAACATACTCGCGAGCGCGTCGCTACGCTA                                         <  1:1294989/50‑1
          GCCTTTTTCACTGAGTTATTAAACATACTCGCGAGCGCGTCGCTACGCTA                                         <  1:1120119/50‑1
          GCCTTTTTCACTGAGTTATTAAACATACTCGCGAGCGCGTCGCTACGC                                           >  1:641656/1‑48
           CCTTTTTCACTGAGTTATTAAACATACTCGCGAGCGCGTCGCTACGCTAG                                        <  1:2957398/50‑1
           CCTTTTTCACTGAGTTATTAAACATACTCGCGAGCGCGTCGCTACGCTAG                                        >  2:3888705/1‑50
            CTTTTTCACTGAGTTATTAAACATTCTCGCGAGCGCGTCGCTACGCTAGC                                       <  1:2549580/50‑1
            CTTTTTCACTGAGTTATTAAACATACTCGCGAGCGCGTCGCTACGCTAGC                                       <  1:2103440/50‑1
            CTTTTTCACTGAGTTATTAAACATACTCGCGAGCGCGTCGCTACGCTAGC                                       <  1:4158427/50‑1
            CTTTTTCACTGAGTTATTAAACATACTCGCGAGCGCGTCGCTACGCTAG                                        >  1:470934/1‑49
            CTTTTTCACTGAGTTATTAAACATACTCGCGAGCGCGTCGCTACGCTAG                                        >  2:4475090/1‑49
            CTTTTTCACTGAGTTATTAAACATACTCGCGAGCGCGTCGCTACGCTAG                                        >  1:1924743/1‑49
             TTTTTCACTGAGTTATTAAACATACTCGCGAGCGCGTCGCTACGCTAGC                                       >  2:3333776/1‑49
             TTTTTCACTGAGTTATTAAACATACTCGCGAGCGCGTCGCTACGCTAGC                                       >  2:2595157/1‑49
              TTTTCACTGAGTTATTAAACATACTCGCGAGCGCGTCGCTACGCTAGC                                       >  1:556343/1‑48
               TTTCACTGAGTTATTAAACATGCTCGCGAGCGCGTCGCTACGCTAGCA                                      <  2:4239352/48‑1
               TTTCACTGAGTTATTAAACATACTCGCGAGCGCGTCGCTACGCTAGCAAG                                    >  2:3341351/1‑50
               TTTCACTGAGTTATTAAACATACTCGCGAGCGCGTCGCTACGCTAGCAAG                                    >  1:419518/1‑50
               TTTCACTGAGTTATTAAACATACTCGCGAGCGCGTCGCTACGCTAGCAAG                                    >  2:3787338/1‑50
               TTTCACTGAGTTATTAAACATACTCGCGAGCGCGTCGCTACGCTAGCAA                                     <  1:2745843/49‑1
                TTCACTGAGTTATTAAACATTCTCGCGAGCGCGTCGCTACGCTAGCAAG                                    <  1:2875907/49‑1
                  CACTGAGTTATTAAACATACTCGCGAGCGCGTCGCTACGCTAGCAAGCA                                  <  1:2671163/49‑1
                  CACTGAGTTATTAAACATACTCGCGAGCGCGTCGCTACGCTAGCAAGCA                                  >  2:363673/1‑49
                   ACTGAGTTATTAAACATACTCGCGAGCGCGTCGCTACGCTAGCAAGCAA                                 <  2:1156321/49‑1
                   ACTGAGTTATTAAACATACTCGCGAGCGCGTCGCTACGCTAGCAAGCAA                                 >  2:1040976/1‑49
                    CTGAGTTATTAAACATACTCGCGAGCGCGTCGCTACGCTAGCAAGCAAA                                >  1:3809542/1‑49
                     TGAGTTATTAAACATACTCGCGAGCGCGTCGCTACGCTAGCAAGCAAAAA                              >  2:3943439/1‑50
                     TGAGTTATTAAACATACTCGCGAGCGCGTCGCTACGCTAGCAAGCAAAAA                              >  2:3029206/1‑50
                       AGTTATTAAACATACTCGCGAGCGCGTCGCTACGCTAGCAAGCAAAAATG                            <  1:2469568/50‑1
                       AGTTATTAAACATACTCGCGAGCGCGTCGCTACGCTAGCAAGCAAAAATG                            <  2:178466/50‑1
                       AGTTATTAAACATACTCGCGAGCGCGTCGCTACGCTAGCAAGCAAAAAT                             >  2:2482933/1‑49
                       AGTTATTAAACATACTCGCGAGCGCGTCGCTACGCTAGCAAGCAAAAAT                             <  2:587732/49‑1
                        GTTATTAAACATACTCGCGAGCGCGTCGCTACGCTAGCAAGCAAAAATGA                           <  2:472805/50‑1
                        GTTATTAAACATACTCGCGAGCGCGTCGCTACGCTAGCAAGCAAAAATG                            >  2:1091148/1‑49
                         TTATTAAACATACTCGCGAGCGCGTCGCTACGCTAGCAAGCAAAAATGAA                          <  1:3718046/50‑1
                          TATTAAACATACTCGCGAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAA                         >  2:786933/1‑50
                          TATTAAACATACTCGCGAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAA                         >  2:3483994/1‑50
                           ATTAAACATACTCGCGAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAA                         <  2:333753/49‑1
                            TTAAACATACTCGCGAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACA                       <  1:2202738/50‑1
                              AAACATACTCGCGAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAG                      >  2:664149/1‑49
                               AACATACTCGCGAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGG                     <  1:3063825/49‑1
                               AACATACTCGCGAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGG                     <  1:3674126/49‑1
                               AACATACTCGCGAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGG                     >  1:2948114/1‑49
                                ACATACTCGCGAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGGAA                   <  2:987821/50‑1
                                ACATACTCGCGAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGGAA                   <  1:2443378/50‑1
                                ACATACTCGCGAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGGAA                   >  1:2044982/1‑50
                                ACATACTCGCGAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGGAA                   <  1:701684/50‑1
                                  ATACTCGCGAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATA                 <  1:3155258/50‑1
                                  ATACTCGCGAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATA                 <  2:2209136/50‑1
                                  ATACTCGCGAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATA                 <  2:1674539/50‑1
                                   TACTCGCGAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAA                >  2:295443/1‑50
                                    ACTCGCGAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAAT               >  2:4029403/1‑50
                                    ACTCGCGAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAAT               >  2:3149595/1‑50
                                     CTCGCGAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATC              <  2:328288/50‑1
                                      TCGCGAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATC              >  2:1374842/1‑49
                                        GCGAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAA           <  2:1248928/50‑1
                                        GCGAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAA           <  2:682951/50‑1
                                        GCGAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGA            >  2:1415167/1‑49
                                        GCGAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGA            <  1:181878/49‑1
                                        GCGAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGA            >  1:2336484/1‑49
                                        GCGAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGA            >  2:2924366/1‑49
                                        GCGAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGA            >  1:1398247/1‑49
                                        GCGAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGA            >  2:4403394/1‑49
                                        GCGAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGA            <  1:1163998/49‑1
                                        GCGAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCG             <  1:3461392/48‑1
                                         CGAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAA          <  1:498126/50‑1
                                         CGAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAA          <  1:4405796/50‑1
                                         CGAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAA          >  1:1698540/1‑50
                                          GAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAAT         >  1:4135898/1‑50
                                          GAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAAT         >  2:418745/1‑50
                                          GAGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAAT         >  2:2711229/1‑50
                                           AGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATG        >  2:2460395/1‑50
                                           AGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATG        <  1:1451897/50‑1
                                           AGCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATG        <  2:2390100/50‑1
                                            GCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGG       >  1:4491845/1‑50
                                            GCGCGTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGG       >  1:842634/1‑50
                                              GCGTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGA     >  1:3394925/1‑50
                                               CGTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGAT    <  1:399221/50‑1
                                                GTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATG   <  2:515837/50‑1
                                                GTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATG   <  2:2105660/50‑1
                                                                                                   
AAGACATCGAGCCTTTTTCACTGAGTTATTAAACATACTCGCGAGCGCGT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/1962516‑1962565
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGT  >  NC_000913/1979330‑1979378

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ 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.