Read alignment evidence...
  seq id position change freq score reads annotation genes product
*REL6063,827,9281.→T 1.1% 1.7 0.0 ‑0.0183intergenic (‑145/‑161)ibpA/yidQheat shock chaperone/conserved outer membrane protein
Rejected: E-value exceeds prediction threshold.
Rejected: Polymorphism prediction not supported by minimum number of reads on both strands.
Rejected: Polymorphic indel expands or contracts a homopolymer stretch.
Reads supporting (aligned to +/- strand):  new base (1/1):  ref base (93/88):  total (94/89)
Fisher's exact test strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support polymorphism than reference p-value = 9.10e-01

Only 100 of 243 total aligned reads displayed.

TCTGGAAATGAACTTTTCAAGCCTTATCAGCGGACTTTTTTTTGCAGTTTATGGTCTATTGCATAGACT  >  REL606/3827894‑3827962
                                                                     
tCTGGAAATGAACTTTTCAAGCCTTATCAGGGGAc                                    <  1:9487563/35‑1 (MQ=255)
tCTGGAAATGAACTTTTCAAGCCTTATCAGCGGAc                                    >  1:15989645/1‑35 (MQ=255)
tCTGGAAATGAACTTTTCAAGCCTTATCAGCGGAc                                    >  1:715623/1‑35 (MQ=255)
tCTGGAAATGAACTTTTCAAGCCTTATCAGCGGAc                                    >  1:10635847/1‑35 (MQ=255)
tCTGGAAATGAACTTTTCAAGCCTTATCAGCGGAc                                    >  1:3464230/1‑35 (MQ=255)
tCTGGAAATGAACTTTTCAAGCCTTATAAGCGGAc                                    <  1:16426391/35‑1 (MQ=255)
 cTGGAAATGAACTTTTCAAGCCTTATCAGCGTACt                                   >  1:7374203/1‑35 (MQ=255)
 cTGGAAATGAACTTTTCAAGCCTTATCAGCGGACt                                   <  1:2609185/35‑1 (MQ=255)
  tGGAAATGAACTTTTCAAGCCTTATCAGCGGACtt                                  <  1:10796123/35‑1 (MQ=255)
    gAAATGAACTTTTCAAGCCTTATCAGCGGACtttt                                <  1:5985980/35‑1 (MQ=255)
     aaaTGAACTTTTCAAGCCTTATCATCGGACttttt                               >  1:4635017/1‑35 (MQ=255)
     aaaTGAACTTTTCAAGCCTTATCAGCGGACttttt                               >  1:16206083/1‑35 (MQ=255)
     aaaTGAACTTTTCAAGCCTTATCAGCGGACttttt                               >  1:13520222/1‑35 (MQ=255)
     aaaTGAACTTTTCAAGCCTTATCAGCGGACttttt                               >  1:16847115/1‑35 (MQ=255)
     aaaTGAACTTTTCAAGCCTTATCAGCGGACttttt                               >  1:7952271/1‑35 (MQ=255)
      aaTGAACTTTTCAAGCCTTATCAGCGGACtttttt                              >  1:13861605/1‑35 (MQ=255)
      aaTGAACTTTTCAAGCCTTATCAGCGGACtttttt                              <  1:761897/35‑1 (MQ=255)
      aaTGAACTTTTCAAGCCTTATCAGCGGACtttttt                              <  1:17220218/35‑1 (MQ=255)
      aaTGAACTTTTCAAGCCTTATCAGCGGACtttttt                              <  1:9863593/35‑1 (MQ=255)
       aTGAACTTTTCAAGCCTTATCAGCGGACttttttt                             <  1:11257092/35‑1 (MQ=255)
       aTGAACTTTTCAAGCCTTATCAGCGGACttttttt                             >  1:1946574/1‑35 (MQ=255)
       aTGAACTTTTCAAGCCTTATCAGCGGACttttttt                             >  1:15585840/1‑35 (MQ=255)
        tGAACTTTTCAAGCCTTATCAGCGGACtttttttt                            >  1:4001826/1‑35 (MQ=255)
        tGAACTTTTCAAGCCTTATCAGCGGACtttttttt                            >  1:14299520/1‑35 (MQ=255)
         gAACTTTTCAAGCCTTATCAGCGGACTTTTTTTTg                           >  1:17260716/1‑35 (MQ=255)
         gAACTTTTCAAGCCTTATCAGCGGACTTTTTTTTg                           >  1:10484957/1‑35 (MQ=255)
         gAACTTTTCAAGCCTTATCAGCGGACTTTTTTTTg                           <  1:1508776/35‑1 (MQ=255)
          aaCTTTTCAAGCCTTATCAGCGGACTTTTTTTTGc                          >  1:8056127/1‑35 (MQ=255)
          aaCTTTTCAAGCCTTATCAGCGGACTTTTTTTTGc                          <  1:11038775/35‑1 (MQ=255)
           aCTTTTCAAGCCTTATCAGCGGACTTTTTTTTGCa                         >  1:12256457/1‑35 (MQ=255)
           aCTTTTCAAGCCTTATCAGCGGACTTTTTTTTGCa                         >  1:1142595/1‑35 (MQ=255)
           aCTTTTCAAGCCTTATCAGCGGACTTTTTTTTGCa                         <  1:5102942/35‑1 (MQ=255)
            cTTTTCAAGCCTTATCAGCGGACTTTTTTTTGCAg                        <  1:17633844/35‑1 (MQ=255)
            cTTTTCAAGCCTTATCAGCGGACTTTTTTTTGCAg                        >  1:5344410/1‑35 (MQ=255)
             ttttCAAGCCTTATCAGCGGACTTTTTTTTGCAGt                       >  1:18470877/1‑35 (MQ=255)
             ttttCAAGCCTTATCAGCGGACTTTTTTTTGCAGt                       <  1:1173137/35‑1 (MQ=255)
             ttttCAAGCCTTATCAGCGGACTTTTTTTTGCAGt                       >  1:383348/1‑35 (MQ=255)
             tttgCAAGCATTATCAGCGGACTTTTGTTTGCAGt                       <  1:1072952/35‑1 (MQ=255)
              tttCAAGCCTTATCAGCGGACTTTTTTTTGCAGtt                      <  1:10216121/35‑1 (MQ=255)
              tttCAAGCCTTATCAGCGGACTTTTTTTTGCAGtt                      <  1:20195559/35‑1 (MQ=255)
              tttCAAGCCTTATCAGCGGACTTTTTTTTGCAGtt                      <  1:6838149/35‑1 (MQ=255)
              tttCAAGCATTATCAGCGGACTTTTTTTTGCAGtt                      <  1:14093425/35‑1 (MQ=255)
               ttCAAGCCTTATCAGCGGACTTTTTTTTGCAGttt                     <  1:274056/35‑1 (MQ=255)
               ttCAAGCCTTATCAGCGGACTTTTTTTTGCAGttt                     >  1:9191479/1‑35 (MQ=255)
                tCAAGCCTTATCAGCGGACTTTTTTTTGCAGTTTa                    >  1:12504712/1‑35 (MQ=255)
                tCAAGCCTTATCAGCGGACTTTTTTTTGCAGTTTa                    <  1:10357950/35‑1 (MQ=255)
                 cAAGCCTTATCAGCGGACTTTTTTTTGCAGTTTAt                   <  1:3321559/35‑1 (MQ=255)
                 cAAGCCTTATCAGCGGACTTTTTTTTGCAGTTTAt                   >  1:10334279/1‑35 (MQ=255)
                 cAAGCCTTATCAGCGGACTTTTTTTTGCAGTTTAt                   >  1:7397475/1‑35 (MQ=255)
                 aaaGCCTTATCAGCGGACTTTTTTTTGCAGTTTAt                   <  1:8841017/34‑1 (MQ=255)
                  aaGCCTTATCAGCGGGCTTTTTTTTGCAGTTTATg                  <  1:4013334/35‑1 (MQ=255)
                   aGCCTTATCAGCGGACTTTTTTTTGCAGTTTATgg                 >  1:3355247/1‑35 (MQ=255)
                   aGCCTTATCAGCGGACTTTTTTTTGCAGTTTATgg                 <  1:6511102/35‑1 (MQ=255)
                   aGCCTTATCAGCGGACTTTTTTTTGCAGTTTATgg                 >  1:12212786/1‑35 (MQ=255)
                   aGCCTTATCAGCGGACTTTTTTTTGCAGTTTATgg                 >  1:16359740/1‑35 (MQ=255)
                    gCCTTATCAGCGGACTTTTTTTTGCAGTTTATGGt                <  1:19879219/35‑1 (MQ=255)
                    gCCTTATCAGCGGACTTTTTTTTGCAGTTTATGGt                <  1:9381484/35‑1 (MQ=255)
                    gCCTTATCAGCGGACTTTTTTTTGCAGTTTATGGt                <  1:6342584/35‑1 (MQ=255)
                    gCCTTATCAGCGGACTTTTTTTTGCAGTTTATGGt                <  1:14754699/35‑1 (MQ=255)
                     ccTTATCAGCGGACTTTTTTTTGCAGTTTATGGTc               <  1:10567864/35‑1 (MQ=255)
                     ccTTATCAGCGGACTTTTTTTTGCAGTTTATGGTc               <  1:10875891/35‑1 (MQ=255)
                      cTTATCAGCGGACTTTTTTTTGCAGTTTATGGTCt              <  1:16917728/35‑1 (MQ=255)
                      cTTATCAGCGGACTTTTTTTTGCAGTTTATGGTCt              <  1:9269840/35‑1 (MQ=255)
                       ttATCAGCGGACTTTTTTTTGCAGTTTATGGTCTa             >  1:5549149/1‑35 (MQ=255)
                       ttATCAGCGGACTTTTTTTTGCAGTTTATGGTCTa             >  1:14466215/1‑35 (MQ=255)
                       ttATCAGCGGACTTTTTTTTGCAGTTTATGGTCTa             >  1:15287947/1‑35 (MQ=255)
                       ttATCAGCGGACTTTTTTTTGCAGTTTATGGTCTa             >  1:18104467/1‑35 (MQ=255)
                        tATCAGCGGACTTTTTTTTGCAGTTTATGGTCTAt            <  1:11109289/35‑1 (MQ=255)
                        tATCAGCGGACTTTTTTTTGCAGTTTATGGGCTAt            >  1:4926647/1‑35 (MQ=255)
                         aTCAGCGGACTTTTTTTTGCAGTTTATGGTCTAtt           >  1:1676765/1‑35 (MQ=255)
                          tCAGCGGACTTTTTTTTGCAGTTTATGGTCTATTg          <  1:9003243/35‑1 (MQ=255)
                          tCAGCGGACTTTTTTTTGCAGTTTATGGTCTATTg          >  1:8422597/1‑35 (MQ=255)
                          tCAGCGGACTTTTTTTTGCAGTTTATGGTCTATTg          <  1:17507642/35‑1 (MQ=255)
                          tCAGCGGACTTTTTTTTGCAGTTTATGGTCTATTg          >  1:7777116/1‑35 (MQ=255)
                          tCAGCGGACTTTTTTTTGCAGTTTATGGTCTATTg          <  1:10237870/35‑1 (MQ=255)
                          tCAGCGGACTTTTTTTTGCAGTTTATGGTCTATTg          <  1:9969859/35‑1 (MQ=255)
                           cAGCGGACTTTTTTTTGCAGTTTATGGTCTATTGc         >  1:5954812/1‑35 (MQ=255)
                           cAGCGGACTTTTTTTTGCAGTTTATGGTCTATTGc         >  1:17988611/1‑35 (MQ=255)
                            aGCGGACTTTTTTTTGCAGTTTATGGTCTATTGCa        <  1:20046003/35‑1 (MQ=255)
                            aGCGGACTTTTTTTTGCAGTTTATGGTCTATTGCa        >  1:13457023/1‑35 (MQ=255)
                            aGCGGACTTTTTTTTGCAGTTTATGGTCTATTGCa        >  1:18894597/1‑35 (MQ=255)
                             ncGGACTTTTTTTTGCAGTTTATGGTCTATTGCAt       >  1:4137231/2‑35 (MQ=255)
                             gCGGACTTTTTTTTGCAGTTTATGGTCTATTGCAt       >  1:101356/1‑35 (MQ=255)
                             gCGGACTTTTTTTTGCAGTTTATGGTCTATTGCAt       >  1:12594048/1‑35 (MQ=255)
                             gCGGACTTTTTTTTGCAGTTTATGGTCTATTGCAt       <  1:13143275/35‑1 (MQ=255)
                             gCGGACTTTTTTTTGCAGTTTATGGTCTATTGCAt       <  1:15384779/35‑1 (MQ=255)
                             gCGGACTTTTTTTTGCAGTTTATGGTCTATTGCAt       >  1:15635014/1‑35 (MQ=255)
                             gCGGACTTTTTTTTGCAGTTTATGGTCTATTGCAt       >  1:16660555/1‑35 (MQ=255)
                             gCGGACTTTTTTTTGCAGTTTATGGTCTATTGCAt       >  1:19299440/1‑35 (MQ=255)
                             gCGGACTTTTTTTTGCAGTTTATGGTCTATTGCAt       <  1:6709444/35‑1 (MQ=255)
                             gCGGACTTTTTTTTGCAGTTTATGGTCTATTGCAt       >  1:20429256/1‑35 (MQ=255)
                             gCGGACTTTTTTTTGCAGTTTATGGTCTATTGCAt       <  1:2243095/35‑1 (MQ=255)
                              cGGACTTTTTTTTGCAGTTTATGGTCTATTGCATa      >  1:18351704/1‑35 (MQ=255)
                              cGGACTTTTTTTTGCAGTTTATGGTCTATTGCATa      >  1:16257558/1‑35 (MQ=255)
                              cGGACTTTTTTTTGCAGTTTATGGTCTATTGCATa      <  1:11907866/35‑1 (MQ=255)
                               ggACTTTTTTTTGCAGTTTATGGTCTATTGCATAg     >  1:17816644/1‑35 (MQ=255)
                               ggACTTTTTTTTGCAGTTTATGGTCTATTGCATAg     >  1:15043394/1‑35 (MQ=255)
                                gACTTTTTTTTGCAGTTTATGGTCTATTGCATAGa    <  1:19655240/35‑1 (MQ=255)
                                 aCTTTTTTTTGCAGTTTATGGTCTATTGCATAGAc   <  1:17034628/35‑1 (MQ=255)
                                 aCTTTTTTTTGCAGTTTATGGTCTATTGCATAGAc   <  1:20258185/35‑1 (MQ=255)
                                                                     
TCTGGAAATGAACTTTTCAAGCCTTATCAGCGGACTTTTTTTTGCAGTTTATGGTCTATTGCATAGACT  >  REL606/3827894‑3827962

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ 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.