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 2,570,782 C→T 20.8% Y229Y (TAC→TAT)  yibH → hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,570,7820CT20.8% 202.9 / 44.3 101Y229Y (TAC→TAT) yibHhypothetical protein
Reads supporting (aligned to +/- strand):  ref base C (43/37);  new base T (17/4);  total (60/41)
Fisher's exact test for biased strand distribution p-value = 2.65e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 105 total aligned reads displayed.

TAAGAGCGCAACTTACTGAAGCAAAATATAACCTTGAGCAGACTGTCATTCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTGCCTTGCCGCTGCGTCCGGTGATGGTCTTCA  >  minE/2570712‑2570852
                                                                      |                                                                      
tAAGAGCGCAACTTACTGAAGCAAAATATAACCTTGAGCAGACTGTCATTCGCGCGCCGAGCAATGGCTAc                                                                        >  1:2671339/1‑71 (MQ=255)
 aaGAGCGCAACTTACTGAAGCAAAATATAACCTTGAGCAGACTGTCATTCGCGCGCCGAGCAATGGCTACg                                                                       >  1:5260611/1‑71 (MQ=255)
 aaGAGCGCAACTTACTGAAGCAAAATATAACCTTGAGCAGACTGTCATTCGCGCGCCGAGCAATGGCTACg                                                                       >  1:3452316/1‑71 (MQ=255)
 aaGAGCGCAACTTACTGAAGCAAAATATAACCTTGAGCAGACTGTCATTCGCGCGCCGAGCAATGGCTACg                                                                       >  1:2652771/1‑71 (MQ=255)
 aaGAGCGCAACTTACTGAAGCAAAATAAAACCTTGAGCAGACTGTCATTCGCGCGCCGAGCAATGGCTACg                                                                       >  1:4828358/1‑71 (MQ=255)
  agagCGCAACTTACTGAAGCAAAATATAACCTTGAGCAGACTGTCATTCGCGCGCCGAGCAATGGCTACGt                                                                      <  1:5429040/71‑1 (MQ=255)
    agCGCAACTTACTGAAGCAAAATATAACCTTGAGCAGACTGTCATTCGCGCGCCGAGCAATGGCTACGTTa                                                                    >  1:4617417/1‑71 (MQ=255)
     gcgcAACTTACTGAAGCAAAATATAACCTTGAGCAGACTGTCATTCGCGCGCCGAGCAATGGCTACGTTAc                                                                   >  1:217300/1‑71 (MQ=255)
        cAACTTACTGAAGCAAAATATAACCTTGAGCAGACTGTCATTCGCGCGCCGAGCAATGGCTACGTTACt                                                                  >  1:2620716/1‑69 (MQ=255)
          aCTTACTGAAGCAAAATATAACCTTGAGCAGACTGTCATTCGCGCGCCGAGCAATGGCTACGTTACTCAgt                                                              <  1:1579372/71‑2 (MQ=255)
          aCTTACTGAAGCAAAATATAACCTTGAGCAGACTGTCATTCGCGCGCCGAGCAATGGCTACGTTACTCAgg                                                              >  1:766332/1‑71 (MQ=255)
          aCTTACTGAAGCAAAATATAACCTTGAGCAGACTGTCATTCGCGCGCCGAGCAATGGCTACGTTACTCAgg                                                              >  1:5504789/1‑71 (MQ=255)
              aCTGAAGCAAAATATAACCTTGAGCAGACTGTCATTCGCGCGCCGAGCAATGGCTACGTTACTCATGTa                                                            <  1:3341062/69‑1 (MQ=255)
              aCTGAAGCAAAATATAACCTTGAGCAGACTGTCATTCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACt                                                          >  1:129133/1‑71 (MQ=255)
               cTGAAGCAAAATATAACCTTGAGCAGACTGTCATTCGCGCGCCGAGCAATGGCTACGTTACTCAGGTa                                                            <  1:1242373/68‑1 (MQ=255)
                  aaGCAAAATATAACCTTGAGCAGACTGTCATTCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACTGATc                                                      >  1:5325897/1‑71 (MQ=255)
                  aaGCAAAATATAACCTTGAGCAGACGATAGTGCGTGCGCCGAGCGATGGTTATGTGACCCAGGTACTGAtt                                                      >  1:2660324/1‑70 (MQ=255)
                  aaGCAAAATATAACCTTGAGCAGACGATAGTGCGTGCGCCGAGCGATGGTTATGTGACCCAGGTACTGAtt                                                      >  1:5628654/1‑70 (MQ=255)
                     cAAAATATAACCTTGAGCAGACGATAGTGCGTGCGCCGAGCGATGGTTATGTGACCCAGGTACTGATTCg                                                    <  1:930966/70‑1 (MQ=255)
                      aaaaTATAACCTTGAGCAGACGATAGTGCGTGCGCCGAGCGATGGTTATGTGAc                                                                   >  1:4144447/1‑54 (MQ=255)
                       aaaTATAACCTTGAGCAGACTGTCATTCGCGCGCCGAGCAATGGCTACGtt                                                                     <  1:3532462/51‑1 (MQ=255)
                       aaaTATAACCTTGAGCAGACGATAGTGCGTGCGCCGAGCGATGGTTATGTGACCCAGGTACTGATTCGtcc                                                 <  1:3208415/71‑1 (MQ=255)
                       aaaTATAACCTTGAGCAGACGATAGTGCGTGCGCCGAGCGATGGTTATGTGACCCAGGTACTGATTCGtcc                                                 >  1:1253642/1‑71 (MQ=255)
                        aaTATAACCTTGAGCAGACTGTCATTCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCa                                                <  1:1698509/71‑1 (MQ=255)
                        aaTATAACCTTGAGCAGACGATAGTGCGTGCGCCGAGCGATGGTTATGTGACCCAGGTa                                                            >  1:3456040/1‑59 (MQ=255)
                        aaTATAACCTTGAGCAGACGATAGTGCGTGCGCCGAGCGATGGTTATGTGACCCAGGTACTGATTCGtccg                                                >  1:2880584/1‑70 (MQ=255)
                        aaTATAACCTTGAGCAGACGATAGTGCGTGCGCCGAGCGATGGTTATGTGACCCAGGTACTGATTCGtccg                                                >  1:2610651/1‑70 (MQ=255)
                         atatAACCTTGAGCAGACTGTCATTCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAg                                               >  1:1906756/1‑71 (MQ=255)
                          tataACCTTGAGCAGACTGTCATTCGCGCGCCGAGCAATGGCTACGt                                                                      <  1:2890290/47‑1 (MQ=255)
                          tataACCTTGAGCAGACTGTCATTCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAgg                                              >  1:3649775/1‑71 (MQ=255)
                            taACCTTGAGCAGACTGTCATTCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTa                                            <  1:3749721/71‑1 (MQ=255)
                            taACCTTGAGCAGACTGTCATTCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTa                                            >  1:4119278/1‑71 (MQ=255)
                            taACCTTGAGCAGACTGTCATTCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTa                                            >  1:1397815/1‑71 (MQ=255)
                            taACCTTGAGCAGACGATAGTGCGTGCGCCGAGCGATGGTTATGTGACCCAGGTACTGATTCGTCCGGGTa                                            >  1:5628176/1‑71 (MQ=255)
                              aCCTTGAGCAGACTGTCATTCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACa                                          <  1:2085988/71‑1 (MQ=255)
                               ccTTGAGCAGACGATAGTGCGTGCGCCGAGCGATGGTTATGTGACCCAGGTACTGATTCgtc                                                  >  1:3467639/1‑60 (MQ=255)
                                cTTGAGCAGACTGTCATTCGCGCGCCGAGCAATGGCTACGTTACTCAgg                                                              <  1:449845/49‑1 (MQ=255)
                                cTTGAGCAGACTGTCATTCGCGCGCCGAGCAATGGCTACGTTACTCAgg                                                              <  1:2274309/49‑1 (MQ=255)
                                cTTGAGCAGACTGTCATTCGCGCGCCGAGCAATGGCTACGTTACTCAgg                                                              <  1:2222215/49‑1 (MQ=255)
                                cTTGAGCAGACGATAGTGCGTGCGCCGAGCGATGGTTATGTGACCCAGGTACTGATTCGTCCGGGTACCTa                                        >  1:1271195/1‑71 (MQ=255)
                                 ttGAGCAGACGATAGTGCGTGCGCCGAGCGATGGTTATGTGACCCAGGTACTGa                                                        >  1:562770/1‑54 (MQ=255)
                                  tGAGCAGACTGTCATTCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACg                                      >  1:2174325/1‑71 (MQ=255)
                                   gAGCAGACTGTCATTCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACTGa                                                        >  1:2387129/1‑52 (MQ=255)
                                    aGCAGACTGTCATTCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGc                                     <  1:2295133/70‑1 (MQ=255)
                                    aGCAGACTGTCATTCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGc                                     <  1:1028155/70‑1 (MQ=255)
                                       aGACTGTCATTCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCt                                 <  1:3218372/71‑1 (MQ=255)
                                       aGACTGTCATTCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCt                                 <  1:3225794/71‑1 (MQ=255)
                                       aGACTGTCATTCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCt                                 <  1:428766/71‑1 (MQ=255)
                                        gACTGTCATTCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACTGATCCGc                                                   >  1:359309/1‑52 (MQ=255)
                                        gACTGTCATTCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACa                                          <  1:1560887/61‑1 (MQ=255)
                                        gACTGTCATTCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTg                                >  1:3098634/1‑71 (MQ=255)
                                        gACTGTCATTCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTg                                <  1:2670348/71‑1 (MQ=255)
                                          cTGTCATTCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGc                                  >  1:917187/1‑67 (MQ=255)
                                          cTGTCATTCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGc                                  >  1:5506930/1‑67 (MQ=255)
                                          cTGTCATTCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGc                                  >  1:3899776/1‑67 (MQ=255)
                                             tCATTCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTGCCtt                            <  1:124460/70‑1 (MQ=255)
                                               aTTCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTGCCTTGcc                         >  1:2726988/1‑71 (MQ=255)
                                                ttCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTGCCTTGCCg                        <  1:4652072/71‑1 (MQ=255)
                                                ttCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTGCCTTGCCg                        <  1:2016074/71‑1 (MQ=255)
                                                ttCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTGCCTTGCCg                        <  1:3303062/71‑1 (MQ=255)
                                                ttCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTGCCTTGCCg                        <  1:1277911/71‑1 (MQ=255)
                                                ttCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTGCCTTGCCg                        <  1:3667828/71‑1 (MQ=255)
                                                ttCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTGCCTTGCCg                        <  1:96965/71‑1 (MQ=255)
                                                ttCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTGCCTTGCCg                        <  1:5155473/71‑1 (MQ=255)
                                                ttCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTGCCTTGCCg                        <  1:3065483/71‑1 (MQ=255)
                                                ttCGCGCGCCGAGCAAAGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTGCCTTGCCg                        <  1:1593534/71‑1 (MQ=255)
                                                 tCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTGCCTTGCCGc                       >  1:4405786/1‑71 (MQ=255)
                                                  cgcgcgCCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTGCCTTGCCg                        >  1:4819656/1‑69 (MQ=255)
                                                     gcgcCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTAc                                           >  1:974992/1‑47 (MQ=255)
                                                     gcgcCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTAc                                           >  1:2029958/1‑47 (MQ=255)
                                                     gcgcCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTAc                                           >  1:2616414/1‑47 (MQ=255)
                                                     gcgcCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTAc                                           >  1:3157193/1‑47 (MQ=255)
                                                     gcgcCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTAc                                           >  1:3886713/1‑47 (MQ=255)
                                                      cgcCGAGCGATGGTTATGTGACCCAGGTACTGATTCGTCCGGGTACCTATGCCGCGTCGCTGCCGCTACGt                  >  1:2187208/1‑71 (MQ=255)
                                                      cgcCGAGCGATGGTTATGTGACCCAGGTACTGATTCGTCCGGGTACCTATGCCGCGTCGCTGCCGCTACGt                  >  1:4854762/1‑71 (MQ=255)
                                                      cgcCGAGCCATGGTTATGTGACCCAGGTACTGATTCGTCCGGGTACCTatg                                      >  1:5221741/1‑49 (MQ=255)
                                                       gcCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTGCCTTGCCGCTGCGTc                 >  1:5027913/1‑71 (MQ=255)
                                                          gAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTGCCTTGCCGCTGCGTCCgg              <  1:4523482/71‑1 (MQ=255)
                                                          gAGCAATGGCTACGTTACTCAGGTACTGAACCGCCCAGGTACATACGCAGCTGCCTTGCCGCTGCGTcc                >  1:2462052/1‑69 (MQ=255)
                                                           aGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTg                                >  1:3905850/1‑52 (MQ=255)
                                                           aGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTg                                >  1:13360/1‑52 (MQ=255)
                                                           aGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTg                                >  1:1658442/1‑52 (MQ=255)
                                                            gCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTGCCTTGCCGCTGCGTCCgg              <  1:2791965/69‑1 (MQ=255)
                                                               aTGGTTATGTGACCCAGGTACTGATTCGTCCGGGTACCTATGCCGCGTCGCTGCCGCTACGTCCGGTGATg         <  1:4950043/71‑1 (MQ=255)
                                                               aTGGTTATGTGACCCAGGTACTGATTCGTCCGGGTACCTATGCCGCGTCGCTGCCGCTACGTCCGGTGATg         >  1:544441/1‑71 (MQ=255)
                                                               aTGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTGCCTTGCCGCTGCGTc                 <  1:2249279/63‑1 (MQ=255)
                                                               aTGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTGCCTTGCCGCTGCGTc                 <  1:5461260/63‑1 (MQ=255)
                                                                tGGTTATGTGACCCAGGTACTGATTCGTCCGGGTACCTATGCCGCGTCGCTGCCGCTACGTCCGGTGATgg        >  1:622311/1‑71 (MQ=255)
                                                                tGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTGCCTTGCCGCTGCGTCCGGTGa           <  1:198856/68‑1 (MQ=255)
                                                                 ggCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTGCCTTGCCGCTGCGTCCg               >  1:4733665/1‑63 (MQ=255)
                                                                 ggCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTGCCTTGCCGCTGCGTCCg               >  1:951436/1‑63 (MQ=255)
                                                                 ggCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTGCCTTGCCGCTGCGTCCGGTGATgg        >  1:2486290/1‑70 (MQ=255)
                                                                 ggCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTGCCTTGCCGCTGCGTCCGGTGATGGt       >  1:4296935/1‑71 (MQ=255)
                                                                 ggCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTGCCTTGCCGCTGCGTCCGGTGATGGt       >  1:5129572/1‑71 (MQ=255)
                                                                  gCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTGCCTTGCCGCTGCGTCCGGTGATGGTc      <  1:2328269/71‑1 (MQ=255)
                                                                  gCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTGCCTTGCCGCTGCGTCCGGTGATGGTc      >  1:3392954/1‑71 (MQ=255)
                                                                   cTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTGCCTTGCCGCTGCGTCCGGTGATGGTCt     <  1:4172809/71‑1 (MQ=255)
                                                                      cGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTGCCTTGCCGCTGCGTCCGGTGATGGTCtt    <  1:1319461/69‑1 (MQ=255)
                                                                      cGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTGCCTTGCCGCTGCGTCCGGTGATGGTCTTc   <  1:4657486/70‑1 (MQ=255)
                                                                      cGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTGCCTTGCCGCTGCGTCCGGTGATGGTCTTCa  >  1:2203160/1‑71 (MQ=255)
                                                                      |                                                                      
TAAGAGCGCAACTTACTGAAGCAAAATATAACCTTGAGCAGACTGTCATTCGCGCGCCGAGCAATGGCTACGTTACTCAGGTACTGATCCGCCCAGGTACATACGCAGCTGCCTTGCCGCTGCGTCCGGTGATGGTCTTCA  >  minE/2570712‑2570852

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