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 F17 I0 R1 67 74.8 3863507 93.7% 3620106 61.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 1,804,090 G→A 55.7% G52G (GGG→GGA)  mprA → DNA‑binding transcriptional regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,804,0900GA55.7% 62.4 / 247.6 176G52G (GGG→GGA) mprADNA‑binding transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base G (44/34);  new base A (53/45);  total (97/79)
Fisher's exact test for biased strand distribution p-value = 7.63e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.11e-01

Only 100 of 181 total aligned reads displayed.

GACTCGTCTTTGCATGCACATGCAAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGTCTCAGGAAAACCACAGTATTCAGCCTTCT  >  minE/1804021‑1804159
                                                                     |                                                                     
gACTCGTCTTTGCATGCACATGCAAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGa                                                                      >  1:3537996/1‑71 (MQ=255)
gACTCGTCTTTGCATGCACATGCAAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGa                                                                      >  1:2347894/1‑71 (MQ=255)
  cTCGTCTTTGCATGCACATGCAAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGAAtt                                                                    <  1:174948/71‑1 (MQ=255)
     gTCTTTGCATGCACATGCAAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAAc                                                                 <  1:2173725/71‑1 (MQ=255)
      gcTTTGCATGTGCATGCAAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAAc                                                                 >  1:3737741/2‑70 (MQ=39)
       cTTTGCATGCACATGCAAAGCAAGCTGCTGGAGAACAGCAATAAAATGCTGAAGGCTCAGGGAATTAAc                                                                 >  1:2750600/1‑69 (MQ=255)
        tttGCATGCACATGCAAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGAATTAAc                                                                 >  1:247660/1‑68 (MQ=255)
        tttGCATGCACATGCAAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGAATTAAc                                                                 >  1:1615932/1‑68 (MQ=255)
        tttGCATGCACATGCAAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGAATTAAc                                                                 >  1:1565102/1‑68 (MQ=255)
         ttGCATGCACATGCAAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGAATTAACgaga                                                             >  1:1015247/1‑71 (MQ=255)
         ttGCATGCACATGCAAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGAATTAACgaga                                                             >  1:2501357/1‑71 (MQ=255)
         ttGCATGCACATGCAAAGCAAGCGGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGAATTAACgaga                                                             >  1:1734110/1‑71 (MQ=255)
          tgcatgcaCATGCAAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGATGGCTCAGGGGATTAACGAGAc                                                            >  1:257438/1‑71 (MQ=255)
          tgcatgcaCATGCAAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGAc                                                            >  1:3258725/1‑71 (MQ=255)
          tgcatgcaCATGCAAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGAc                                                            >  1:3295936/1‑71 (MQ=255)
          tgcatgcaCATGCAAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGAc                                                            >  1:2241128/1‑71 (MQ=255)
          tgcatgcaCATGCAAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGAATTAACga                                                               <  1:2842663/68‑1 (MQ=255)
          tgcatgaaCATGCAAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGAATTAACGAGAc                                                            >  1:3098186/1‑71 (MQ=255)
            catgcacatgcaAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGAATTaa                                                                  <  1:229991/63‑1 (MQ=255)
             atgcacatgcaAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGAtt                                                                    <  1:3643054/60‑1 (MQ=255)
             atgcacatgcaAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGAtt                                                                    <  1:1761690/60‑1 (MQ=255)
               gcacatgcaAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACgttgt                                                       >  1:3017838/1‑71 (MQ=255)
                cacatgcaAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGAATTAACGAGACgttgtt                                                      >  1:2967421/1‑71 (MQ=255)
                cacatgcaAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGAATTAACGAGACgttgtt                                                      >  1:2126278/1‑71 (MQ=255)
                   atgcaAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGAATTAACGAGACGTTGTTTAt                                                   >  1:1321290/1‑71 (MQ=255)
                    tgcaAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGAATTAACGAGACGTTGTTTAt                                                   <  1:3035052/70‑1 (MQ=255)
                      caAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACgaga                                                             >  1:598684/1‑58 (MQ=255)
                       aaaGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGAATTAACGAGACGTTGTTTAt                                                   >  1:3248936/1‑67 (MQ=255)
                       aaaGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGAATTAACGAGACGTTGTTTAt                                                   >  1:111869/1‑67 (MQ=255)
                       aaaGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGAATTAACGAGACGTTGTTTATGGCg                                               >  1:1258258/1‑71 (MQ=255)
                       aaaGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGAATTAACGAGACGTTGTTTATGGCg                                               >  1:488346/1‑71 (MQ=255)
                          gcaagcTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACga                                                               >  1:3682657/1‑52 (MQ=255)
                          gcaagcTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACgt                                                          >  1:399625/1‑57 (MQ=255)
                          gcaagcTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGAATTAACGAGACGTTGTTTATGGCGtt                                             >  1:1473186/1‑70 (MQ=255)
                          gcaagcTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGAATTAACGAGACGTTGTTTATGGCGTTg                                            <  1:3659813/71‑1 (MQ=255)
                           caagcTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTaa                                                                  >  1:1327145/1‑48 (MQ=255)
                           caagcTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGa                                           >  1:1064889/1‑71 (MQ=255)
                           caagcTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGa                                           >  1:462046/1‑71 (MQ=255)
                           aaagcTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGa                                           >  1:55397/2‑71 (MQ=255)
                            aagcTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACgaga                                                             <  1:1131506/52‑1 (MQ=255)
                            aagcTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGAt                                          <  1:1428777/71‑1 (MQ=255)
                            aagcTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGAt                                          <  1:1030135/71‑1 (MQ=255)
                            aagcTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGAt                                          <  1:2425181/71‑1 (MQ=255)
                              gctgctGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGAATTAACGAGACGTTGTTTATGGCGtt                                             <  1:2140900/66‑1 (MQ=255)
                                  ctgGAGAACCGCAATAAAATGCTGAAGGCTCAGGGAATTAACGAGACGTTGTTTATGGCGTTGATTACGc                                     <  1:2401820/70‑1 (MQ=255)
                                  ctgGAGAACCGCAATAAAATGCTGAAGGCTCAGGGAATTAACCAGACGTTGTTTATGGCGTTGATTACGc                                     <  1:968917/70‑1 (MQ=255)
                                   tgGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTg                                            <  1:901298/62‑1 (MQ=255)
                                    ggAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGATTACGCTg                                   >  1:276486/1‑70 (MQ=255)
                                     gagaACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTT‑ATTACGCTGGAg                                >  1:2796404/1‑71 (MQ=255)
                                     gagaACCGCAATAAAATGCTGAAGGCTCAGGGAAtt                                                                    >  1:2931651/1‑36 (MQ=255)
                                     gagaACCGCAATAAAATGCTGAAGGCTCAGGGAAtt                                                                    >  1:794986/1‑36 (MQ=255)
                                     gagaACCGCAATAAAATGCTGAAGGCTCAGGGAATTAACGAGACGTTGTTTATGGCGTTGATTACGCTg                                   <  1:2560931/69‑1 (MQ=255)
                                     gagaACCGCAATAAAATGCTGAAGGCTCAGGGAATTAACGAGACGTTGTTTATGGCGTTGATTACGCTg                                   >  1:3611382/1‑69 (MQ=255)
                                     gagaACCGCAATAAAATGCTGAAGGCTCAGGGAATTAACGAGACGTTGTTTATGGCGTTGATTACGCTg                                   <  1:2002767/69‑1 (MQ=255)
                                     gagaACCGCAATAAAATGCTGAAGGCTCAGGGAATTAACGAGACGTTGTTTATGCCGTTGATTACGCTg                                   <  1:3594020/69‑1 (MQ=255)
                                       gaACCGCAATAAAATGCTGAAGGCTCAGGGAATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAg                                >  1:3199251/1‑70 (MQ=255)
                                        aaCCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGa                                           <  1:3489201/58‑1 (MQ=255)
                                        aaCCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGa                                           <  1:3626344/58‑1 (MQ=255)
                                        aaCCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGa                                           <  1:3582580/58‑1 (MQ=255)
                                        aaCCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGa                                           <  1:2610509/58‑1 (MQ=255)
                                        aaCCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGa                                           <  1:1200491/58‑1 (MQ=255)
                                        aaCCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGa                                           <  1:1865891/58‑1 (MQ=255)
                                          ccGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGtctc                            <  1:334685/71‑1 (MQ=255)
                                          ccGCAATAAAATGCTGAAGGCTCAGGGAATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGtctc                            <  1:2529122/71‑1 (MQ=255)
                                            gCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGATTACg                                      <  1:3809516/59‑1 (MQ=255)
                                             cAATAAAATGCTGAAGGCTCAGGGAATTAACGAGACGTTGTTTATGGCGTTGAtt                                         >  1:549883/1‑55 (MQ=255)
                                             cAATAAAATGCTGAAGGCTCAGGGAATTAACGAGACGTTGTTTATGGCGTTGAtt                                         >  1:1961063/1‑55 (MQ=255)
                                              aaTAAAATGCTGAAGGCTCAGGGAATTAACGAGACGTTGTTTATGGCGTTGATTACGCT‑GAGTCTCAGGaa                       <  1:1770212/71‑1 (MQ=255)
                                               aTAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGTCTCAGGaa                       <  1:1806278/71‑1 (MQ=255)
                                               aTAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGTCTCAGGa                        >  1:2651997/1‑70 (MQ=255)
                                               aTAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGTCTCAGGa                        >  1:2051749/1‑70 (MQ=255)
                                               aTAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGTCTCAGGa                        >  1:2725679/1‑70 (MQ=255)
                                               aTAAAATGCTGAAGGCTCAGGGAATTAACGAGACGTTGTTTATGGCGt                                              <  1:832235/48‑1 (MQ=255)
                                               aTAAAATGCTGAAGGCTCAGGGAATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGTCTCAGGa                        >  1:3015894/1‑70 (MQ=255)
                                                tAAAATGCTGAAGGCTCAGGGGATTAACGAGACGGTGTTTATGGCGTTGATTACGCTGGAGTCTCAGGa                        >  1:653142/1‑69 (MQ=255)
                                                tAAAATGCTGAAGGCTCAGGGAATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGtct                             <  1:817426/64‑1 (MQ=255)
                                                 aaaaTGCTGATGGCTCAGGGAATTAACGAGACGTTGTTTa                                                    >  1:1018622/1‑40 (MQ=255)
                                                 aaaaTGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGTCTCAGGaaaa                     >  1:274089/1‑71 (MQ=255)
                                                 aaaaTGCTGAAGGCTCAGGGAATTAACGAGACGTTGTTTa                                                    >  1:3703652/1‑40 (MQ=255)
                                                 aaaaTGCTGAAGGCTCAGGGAATTAACGAGACGTTGTTTa                                                    >  1:2994880/1‑40 (MQ=255)
                                                  aaaTGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGTCTCAGGAAAAc                    <  1:2244473/71‑1 (MQ=255)
                                                  aaaTGCTGAAGGCTCAGGGAATTAACGAGACGTTGTTTATGGCGt                                              >  1:3808527/1‑45 (MQ=255)
                                                  aaaTGCTGAAGGCTCAGGGAATTAACGAGACGTTGTTTATGGCGt                                              >  1:1868075/1‑45 (MQ=255)
                                                  aaaTGCTGAAGGCTCAGGGAATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGTCTCa                           >  1:21049/1‑64 (MQ=255)
                                                  aaaTGCTGAAGGCTCAGGGAATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGTCTCAGGAAAAc                    >  1:2887788/1‑71 (MQ=255)
                                                    aTGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGTCTCAGGAAAACca                  >  1:123863/1‑71 (MQ=255)
                                                    aTGCTGAAGGCTCAGGGAATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGTCTCAGGAAAACca                  <  1:1829056/71‑1 (MQ=255)
                                                    aTGCTGAAGGCTCAGGGAATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGTCTCAGGAAAACca                  <  1:1677970/71‑1 (MQ=255)
                                                     tGCTGAAGGCTCAGGGAATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGTCTCAGGAAAACcac                 <  1:3546437/71‑1 (MQ=255)
                                                          aaGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGAt                                          <  1:1311423/41‑1 (MQ=255)
                                                          aaGGCTCAGGGAATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGTCTCAGGAAAACCACAGTa             <  1:2152020/70‑1 (MQ=255)
                                                          aaGGCTCAGGGAATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGTCTCAGGAAAACCACAGTAt            <  1:2467043/71‑1 (MQ=255)
                                                          aaGGCTCAGGGAATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGTCTCAGGAAAACCACAGTAt            <  1:1389545/71‑1 (MQ=255)
                                                          aaGGCTCAGGGAATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGTCTCAGGAAAACCACAGTAt            <  1:2467850/71‑1 (MQ=255)
                                                          aaGGCTCAGGGAATAAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGTCTCAGGAAAACCACAGTAt            <  1:857370/71‑1 (MQ=255)
                                                           aGGCTCAGGGAATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGTCTCAGGAAAACCACAGTAt            >  1:3135113/1‑70 (MQ=255)
                                                             gCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGTCTCAGGAAAACCACAGTATTCa         <  1:1482231/71‑1 (MQ=255)
                                                                 aGGGGATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGTCTCAGGAAAACCACAGTATTCAGCCt     >  1:1452284/1‑71 (MQ=255)
                                                                 aGGGAATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGTCTCAGGAAAACCACAGTATTCAGCCt     <  1:2698689/71‑1 (MQ=255)
                                                                    ggATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGTCTCAGGAAAACCACAGTATTCAGCCTTCt  <  1:737306/71‑1 (MQ=255)
                                                                     |                                                                     
GACTCGTCTTTGCATGCACATGCAAAGCAAGCTGCTGGAGAACCGCAATAAAATGCTGAAGGCTCAGGGGATTAACGAGACGTTGTTTATGGCGTTGATTACGCTGGAGTCTCAGGAAAACCACAGTATTCAGCCTTCT  >  minE/1804021‑1804159

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