Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.
ALE, Flask, Isolate Predicted Mutations Mean Coverage Total Reads Percent Mapped Mapped Reads Average Read Length
A6 F1 I0 R1 2892 75.3 5698161 66.1% 3766484 59.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 835,993 G→A 32.7% K237K (AAG→AAA)  narH → nitrate reductase 1, beta (Fe‑S) subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE835,9930GA32.7% 119.0 / 81.6 101K237K (AAG→AAA) narHnitrate reductase 1, beta (Fe‑S) subunit
Reads supporting (aligned to +/- strand):  ref base G (34/34);  new base A (21/12);  total (55/46)
Fisher's exact test for biased strand distribution p-value = 2.10e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.96e-01

Only 100 of 105 total aligned reads displayed.

GGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGC  >  minE/835924‑836059
                                                                     |                                                                  
ggATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAaga                                                                   <  1:1550963/71‑1 (MQ=255)
   tAAATGCCGTGGCTGGCGTTTGTGCATAAGCGGTTGTCCGTACAAAAAAATCTACTTCAACTGGAAAAGc                                                                 <  1:4141719/70‑1 (MQ=255)
   tAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCg                                                                <  1:5317603/71‑1 (MQ=255)
     aaTGCCGTGGCTGGCGTTTGTGCATAAGCGGTTGTCCGTACAAAAAAATCTACTTCAACTGGAAAAGCggc                                                              <  1:768488/71‑2 (MQ=255)
     aaTGCCGTGGCTGGCGTTTGTGCATAAGCGGTTGTCCGTACAAAAAAATCTACTTCAACTGGAAAAGCggc                                                              <  1:4746770/71‑2 (MQ=255)
         ccGTGGCTGGCGTATGTGCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGt                                                          >  1:1074032/1‑71 (MQ=255)
           gTGGCTGGCGTATGTGCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCt                                                        <  1:1570587/71‑1 (MQ=255)
             ggctggcGTATGTGCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAaga                                                                   <  1:854765/58‑1 (MQ=255)
               ctggcGTTTGTGCATAAGCGGTTGTCCGTACAAAAAAATCTACTTCAACTGGAAAAGCGGCAAGTCAgaaa                                                    <  1:1918336/71‑3 (MQ=255)
               ctggcGTTTGTGCATAAGCGGTTGTCCGTACAAAAAAATCTACTTCAACTGGAAAAGCGGCAAGTCAgaaa                                                    <  1:3476060/71‑3 (MQ=255)
                  gcGTATGTGCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTa                                                             <  1:5520125/59‑1 (MQ=255)
                  gcGTATGTGCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTa                                                             <  1:2745322/59‑1 (MQ=255)
                   cGTATGTGCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTg                                                >  1:5184138/1‑71 (MQ=255)
                     tATGTGCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGc                                               <  1:1566502/70‑1 (MQ=255)
                      ttgtgCATAAGCGGTTGTCCGTACAAAAAAATCTACTTCAACTGGAAAAGCGGCAAGTCAGAAAAATGCAt                                             >  1:2078164/2‑71 (MQ=255)
                       tgtgCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAg                                                  >  1:1521174/1‑65 (MQ=255)
                       tgtgCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAg                                                  >  1:1602462/1‑65 (MQ=255)
                       tgtgCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAg                                                  >  1:4618052/1‑65 (MQ=255)
                       tgtgCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAg                                                  <  1:1032385/65‑1 (MQ=255)
                       tgtgCATAAGCGGTTGTCCGTACAAAAAAATCTACTTCAACTGGAAAAGCGGCAAGTCAGAAAAATGCAtc                                            >  1:2845228/1‑71 (MQ=255)
                       tgtgCATAAGCGGTTGTCCGTACAAAAAAATCTACTTCAACTGGAAAAGCGGCAAGTCAGAAAAATGCAt                                             <  1:1071002/70‑1 (MQ=255)
                         tgCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGTTAAGTCTGAGAAGTGCAtct                                           <  1:573285/70‑1 (MQ=255)
                         tgCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCAtct                                           >  1:1468494/1‑70 (MQ=255)
                          gCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAag                                                                    >  1:4104112/1‑44 (MQ=255)
                          gCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAag                                                                    >  1:1217391/1‑44 (MQ=255)
                           cATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCAtcttct                                        <  1:1729687/71‑1 (MQ=255)
                             tCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTg                                       <  1:4083360/70‑1 (MQ=255)
                             tCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGc                                      <  1:4894376/71‑1 (MQ=255)
                              cACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGc                                      >  1:4567232/1‑70 (MQ=255)
                               aCTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCgg                                                               >  1:2012483/1‑44 (MQ=255)
                               aCTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTa                                    >  1:4679511/1‑71 (MQ=255)
                               aCTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTa                                    >  1:1327085/1‑71 (MQ=255)
                                 tGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCt                                     <  1:1762226/68‑1 (MQ=255)
                                  ggATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTAt                                   >  1:1794705/1‑69 (MQ=255)
                                  ggATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATcc                                 >  1:563713/1‑71 (MQ=255)
                                      gtccGTACAAAAAAATCTACTTCAACTGGAAAAGCGGCAAGTCAGAAAAATGCATCTTCTGTTACCcacg                              >  1:1433109/3‑70 (MQ=255)
                                      gtccGTACAAAAAAATCTACTTCAACTGGAAAAGCGGCAAGTCAGAAAAATGCATCTTCTGTTACCcacg                              >  1:3361669/3‑70 (MQ=255)
                                      gtccGTACAAAAAAATCTACTTCAACTGGAAAAGCGGCAAGTCAGAAAAATGCATCTTCTGTTACCcacg                              >  1:5212552/3‑70 (MQ=255)
                                      gtccGTACAAAAAAATCTACTTCAACTGGAAAAGCGGCAAGTCAGAAAAATGCATCTTCTGTTACCcacg                              >  1:4130164/3‑70 (MQ=255)
                                      gtccGTACAAAAAAATCTACTTCAACTGGAAAAGCGGCAAGTCAGAAAAATGCATCTTCTGTTACCcacg                              >  1:1200793/3‑70 (MQ=255)
                                      gCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTa                                                             <  1:3626307/39‑1 (MQ=255)
                                       tccGTACAAAAAAATCTACTTCAACTGGAAAAGCGGCAAGTCAGAAAAATGc                                               >  1:439229/2‑52 (MQ=255)
                                       tccGTACAAAAAAATCTACTTCAACTGGAAAAGCGGCAAGTCAGAAAAATGc                                               >  1:146300/2‑52 (MQ=255)
                                       tccGTACAAAAAAATCTACTTCAACTGGAAAAGCGGCAAGTCAGAAAAATGCATCTTCTGTTACCcacga                             <  1:4161664/69‑2 (MQ=255)
                                       tccGTACAAAAAAATCTACTTCAACTGGAAAAGCGGCAAGTCAGAAAAATGCATCTTCTGTTACCcacga                             <  1:5500711/69‑2 (MQ=255)
                                       cccGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGt                                                          >  1:1583063/1‑41 (MQ=255)
                                       cccGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCt                                                        <  1:1899798/43‑1 (MQ=255)
                                         cGTACAAAAAAATCTACTTCAACTGGAAAAGCGGCAAGTCAGAAAAATGCATCTTCTGTTACCCACGAAtt                          <  1:2113350/71‑1 (MQ=255)
                                          gTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTgaga                                                    <  1:420468/44‑1 (MQ=255)
                                           tACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCt                                                        <  1:129742/39‑1 (MQ=255)
                                           tACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAtgtg                                                >  1:2158642/1‑47 (MQ=255)
                                           tACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTg                                                >  1:3215381/1‑47 (MQ=255)
                                           tACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTg                                                >  1:573306/1‑47 (MQ=255)
                                           tACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCcgcg                              <  1:3612143/65‑1 (MQ=255)
                                           tACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCCGCGTAt                           >  1:1815495/1‑68 (MQ=255)
                                            aCAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCcgcg                              <  1:3179711/64‑1 (MQ=255)
                                             cAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTga                                                      >  1:4694385/1‑39 (MQ=255)
                                             cAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTga                                                      >  1:668120/1‑39 (MQ=255)
                                             cAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCAt                                             >  1:3184983/1‑48 (MQ=255)
                                             cAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCAt                                             >  1:5326631/1‑48 (MQ=255)
                                             cAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGaa                       <  1:2470981/70‑1 (MQ=255)
                                             cAAAAAAATCTACTTCAACTGGAAAAGCGGCAAGTCAGAAAAATGc                                               >  1:5032092/1‑46 (MQ=255)
                                             cAAAAAAATCTACTTCAACTGGAAAAGCGGCAAGTCAGAAAAATGc                                               >  1:2516933/1‑46 (MQ=255)
                                             cAAAAAAATCTACTTCAACTGGAAAAGCGGCAAGTCAGAAAAATGc                                               >  1:2391424/1‑46 (MQ=255)
                                             cAAAAAAATCTACTTCAACTGGAAAAGCGGCAAGTCAGAAAAATGCATCTTCTGTTa                                    >  1:3127156/1‑57 (MQ=255)
                                              aaaaaaaTCTACTTCAACTGGAAGAGCGGTAAGTCt                                                        <  1:4561636/36‑1 (MQ=255)
                                               aaaaaaTCTACTTCAACTGGAAAAGCGGCAAGTCAGAAAAATGCATCTTCTGTTACCcacg                              <  1:5193543/61‑1 (MQ=255)
                                                aaaaaTCTACTTCAACTGGAAAAGCGGCAAGTCAGAAAAATGCATCTTCTgt                                      >  1:5508231/1‑51 (MQ=255)
                                                 aaaaTCTACTTCAACTGGAAGAGCGGTAAGTCTGAGaa                                                   >  1:2843613/1‑38 (MQ=255)
                                                 aaaaTCTACTTCAACTGGAAGAGCGGTAAGTCTGAGaa                                                   >  1:4816670/1‑38 (MQ=255)
                                                 aaaaTCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGAAGCggg                  >  1:4372422/1‑71 (MQ=255)
                                                  aaaTCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGAAGCGGGt                 <  1:1879659/71‑1 (MQ=255)
                                                  aaaTCTACTTCAACTGGAAAAGCGGCAAGTCAGAAAAATGCa                                              >  1:3619306/1‑42 (MQ=19)
                                                       tACTTCAACTGGAAAAGCGGCAAGTCAGAAAAATGCATCTTCTGTTACCCACGAAt                           >  1:892203/1‑56 (MQ=255)
                                                        aCTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGc                                               >  1:168946/1‑35 (MQ=255)
                                                         cTTCAACTGGAAAAGCGGCAAGTCAGAAAAATGCATCTTCTGTTac                                   >  1:2908237/1‑45 (MQ=255)
                                                         cTTCAACTGGAAAAGCGGCAAGTCAGAAAAATGCATCTTCTGTTACCCACGAATTGagtc                     >  1:640696/1‑57 (MQ=255)
                                                         cTTCAACTGGAAAAGCGGCAAGTCAGAAAAATGCATCTTCTGTTACCCACGAATTGAGTCCGGTCAAcc            <  1:3325358/69‑1 (MQ=255)
                                                          ttCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTa                                    <  1:4537458/44‑1 (MQ=255)
                                                          ttCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTa                                    <  1:2808234/44‑1 (MQ=255)
                                                          ttCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTa                                    <  1:2488452/44‑1 (MQ=255)
                                                          ttCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCCGCGTAtt                          <  1:4046841/54‑1 (MQ=255)
                                                            cAACTGGAAGAGCGGTAAGTCTGAGAAGTGCAtctt                                          >  1:2473592/1‑36 (MQ=255)
                                                            cAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAg              >  1:1748580/1‑64 (MQ=255)
                                                            cAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAg              >  1:688396/1‑64 (MQ=255)
                                                            cAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGAAGAGGGTCAg              >  1:5459720/1‑64 (MQ=255)
                                                            cAACTGGAAAAGCGGCAAGTCAGAAAAATGCATCTTCTGTTacc                                  >  1:218124/1‑42 (MQ=16)
                                                             aaCTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCg       <  1:1274678/70‑1 (MQ=255)
                                                              aCTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCcg                                <  1:5354137/44‑1 (MQ=255)
                                                                tGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCTGCGTATTGa                        <  1:4650891/50‑1 (MQ=255)
                                                                tGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGa                        <  1:1284842/50‑1 (MQ=255)
                                                                tGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGa                        <  1:566801/50‑1 (MQ=255)
                                                                tGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGa                        <  1:3360763/50‑1 (MQ=255)
                                                                tGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGa                        <  1:42145/50‑1 (MQ=255)
                                                                tGGAAAAGCGGCAAGTCAGAAAAATGCATCTTCTGTTACCCACGAAtt                          <  1:4161880/48‑1 (MQ=255)
                                                                 ggAAAAGCGGCAAGTCAGAAAAATGCATCTTCTGTTACCCACGAATTGAGTCCGGTCAACCGACCGTGTGc  >  1:1181434/1‑71 (MQ=255)
                                                                  gAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGAAg                      >  1:1831097/1‑50 (MQ=255)
                                                                  gAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGAAg                      >  1:3881858/1‑50 (MQ=255)
                                                                  gAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGAAg                      >  1:4733433/1‑50 (MQ=255)
                                                                  gAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGc  <  1:2373275/70‑1 (MQ=255)
                                                                     |                                                                  
GGATAAATGCCGTGGCTGGCGTATGTGCATCACTGGATGCCCGTACAAAAAAATCTACTTCAACTGGAAGAGCGGTAAGTCTGAGAAGTGCATCTTCTGCTATCCGCGTATTGAAGCGGGTCAGCCGACCGTGTGC  >  minE/835924‑836059

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A