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 F21 I0 R1 2169 63.0 3952800 76.2% 3012033 62.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 1,211,284 G→T 27.0% A23D (GCT→GAT) ‡ cspC ← stress protein, member of the CspA‑family

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,211,2840GT27.0% 216.8 / 55.7 100A23D (GCT→GAT) ‡cspCstress protein, member of the CspA‑family
Reads supporting (aligned to +/- strand):  ref base G (30/43);  new base T (17/10);  total (47/53)
Fisher's exact test for biased strand distribution p-value = 7.10e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.77e-01

Only 100 of 102 total aligned reads displayed.

AGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCTTTGCCATTTG  >  minE/1211217‑1211354
                                                                   |                                                                      
aGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCg                                                                     <  1:1982487/71‑1 (MQ=255)
aGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCg                                                                     >  1:2785260/1‑71 (MQ=255)
aGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCg                                                                     <  1:77269/71‑1 (MQ=255)
 gCCAGAGTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCgg                                                                    <  1:1518876/71‑1 (MQ=255)
  ccAGAGTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGa                                                                   <  1:559992/71‑1 (MQ=255)
    agagTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAg                                                                  >  1:1540361/1‑70 (MQ=255)
    agagTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGt                                                                 <  1:2122453/71‑1 (MQ=255)
      agTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTaa                                                               >  1:629527/1‑71 (MQ=255)
      agTTTTAAAACCATTAGTCTGGATTGCAGAGAAGTGTACGAACACGTCTTTGCTGCCGTCTTCCGGAGTaa                                                               >  1:2564493/1‑71 (MQ=255)
        ttttGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATg                                                             <  1:1300803/71‑1 (MQ=255)
          ttGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATg                                                             >  1:689997/1‑69 (MQ=255)
          ttGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATg                                                             >  1:3587239/1‑69 (MQ=255)
          ttGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGa                                                            <  1:3211159/70‑1 (MQ=255)
            gAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAg                                                          <  1:2114138/70‑1 (MQ=255)
             aaaccATTAGTCTGGATTGCAGAGAAGTGTACGAACACGTCTTTGCTGCCGTCTTCCGGAGTAATGAAAcc                                                        <  1:647470/68‑1 (MQ=12)
              aaccATTAGTCTGGATTGCAGAGAAGTGTACGAACACGTCTTTGCTGCCGTCTTCCGGAGTAATGAAAccg                                                       <  1:737923/69‑2 (MQ=255)
              aGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCGGCCGGAGTAATGAAGcc                                                        >  1:2443707/1‑70 (MQ=255)
              aGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGcc                                                        >  1:217784/1‑70 (MQ=255)
               gCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGt                                                                 <  1:3169696/60‑1 (MQ=255)
                ccATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCaaa                                                     <  1:2626606/71‑1 (MQ=255)
                 cATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCaaa                                                     <  1:247712/70‑1 (MQ=255)
                   ttACCCTGGATAGCGGAGAAGTGTACGATCACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCaa                                                      <  1:2296236/67‑1 (MQ=255)
                     aCCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCt                                                 <  1:3298623/70‑1 (MQ=255)
                      cccTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCtt                                                <  1:1499862/70‑1 (MQ=255)
                       ccTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTa                                              <  1:1762428/71‑1 (MQ=255)
                        cTGGATTGCAGAGAAGTGTACGAACACGTCTTTGCTGCCGTCTTCCGGAGTAATGAAACCGAATCCtttg                                              >  1:3132258/1‑69 (MQ=255)
                        cTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAg                                                                        <  1:3017016/44‑1 (MQ=255)
                         tGGATTGCAGAGAAGTGTACGAACACGTCTTTGCTGCCGTCTTCCGGAGTAATGAAACCGAATCCtt                                                <  1:1583846/67‑1 (MQ=255)
                         tGGATGGCGGTGAAATGGACGAAAACGTCTTTGCTGCCATCATCAGGAGTGATAAAGc                                                         >  1:525164/1‑58 (MQ=12)
                         tGGATGGCGGTGAAATGGACGAAAACGTCTTTGCTGCCATCATCAGGAGTGATAAAGCCAAAACCttt                                               <  1:3433160/68‑1 (MQ=12)
                         tGGATAGCGGAGAAGTGTACGAACACATCTTTTCTGCCATCAGCCGGAGTAATGAAGCCaaa                                                     <  1:70980/62‑1 (MQ=255)
                         tGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATg                                                             <  1:3924194/54‑1 (MQ=255)
                          ggATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCaaa                                                     <  1:3065592/61‑1 (MQ=255)
                           gATTGCAGAGAAGTGTACGAACACGTCTTTGCTGCCGTCTTCCGGAGTAATGAAACCGAATCCtttgg                                             <  1:3510652/68‑3 (MQ=255)
                           gATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGAc                                           <  1:2987128/70‑1 (MQ=255)
                           gATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGAc                                           <  1:831281/70‑1 (MQ=255)
                           gATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGACGGAGTAATGAAGCCAAAACCTTTAGAc                                           <  1:3585649/70‑1 (MQ=255)
                           gATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGACGGAGTAATGAAGCCAAAACCTTTAGAc                                           <  1:3581191/70‑1 (MQ=255)
                            aTAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTc                                         >  1:95075/1‑71 (MQ=255)
                            aTAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTc                                         >  1:855873/1‑71 (MQ=255)
                            aTAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTc                                         >  1:1876307/1‑71 (MQ=255)
                               gCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAAc                                                   >  1:3017519/1‑58 (MQ=255)
                               gCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGtt                                      >  1:74359/1‑71 (MQ=255)
                                cGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCttt                                               >  1:2541735/1‑61 (MQ=255)
                                cGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCttt                                               >  1:3227927/1‑61 (MQ=255)
                                cGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTg                                     <  1:2159560/71‑1 (MQ=255)
                                 ggAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCgg                                                                    <  1:309257/39‑1 (MQ=255)
                                 agagaAGTGTACGAACACGTCTTTGCTGCCGTCTTCCGGAGTAATg                                                             <  1:1597601/45‑1 (MQ=21)
                                  gagaAGTGTACGAACACGTCTTTGCTGCCGTCTTCCGGAGTAATGAAACCgaat                                                    >  1:3068446/1‑53 (MQ=18)
                                   agaAGTGTACGAACACGTCTTTGCTGCCGTCTTCCGGAGTAATGAAACCGAATCCTTTGGACTCATTAAAc                                  >  1:2135013/1‑71 (MQ=255)
                                   agaAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAAc                                  >  1:1887077/1‑71 (MQ=255)
                                   agaAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAAc                                  >  1:3304559/1‑71 (MQ=255)
                                   agaAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAAc                                  >  1:3516745/1‑71 (MQ=255)
                                    gaAGTGTACGAACACGTCTTTGCTGCCGTCTTCCGGAGTAATGAAACCGAATCCTTTGGACTCATTAAAcc                                 <  1:699068/71‑1 (MQ=255)
                                      aGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCAc                               <  1:1681386/71‑1 (MQ=255)
                                       gtgtACGAACACGTCTTTGCTGCCGTCTTCCGGAGTAATGAAAccga                                                      >  1:685861/1‑45 (MQ=255)
                                       gtgtAAGAACACATCTTTGCTGCCATCAGCCGGAGt                                                                 <  1:3463070/36‑1 (MQ=255)
                                        tgtACGAACACGTCTTTGCTGCCGTCTTCCGGAGTAATGAAACCGAATCCtt                                                <  1:1521991/52‑1 (MQ=255)
                                        tgtACGAACACGTCTTTGCTGCCGTCTTCCGGAGTAATGAAACCGAATCCTTTGGACTCATTAAACCACtt                             <  1:3909223/71‑1 (MQ=12)
                                         gtACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCTAAACCTTTAGACTCGTTGAACCACtt                             >  1:868425/1‑70 (MQ=255)
                                         gtACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACtt                             >  1:845793/1‑70 (MQ=255)
                                          tACGAACACGTCTTTGCTGCCGTCTTCCGGAGTAATGAAACCGAATCCTTTGGACTCATTaaa                                   >  1:578390/1‑63 (MQ=9)
                                          tACGAACACGTCTTTGCTGCCGTCTTCCGGAGTAATGAAACCGAATCCTTTGGACTCATTAAACCACTTa                            <  1:1194781/70‑1 (MQ=255)
                                          tACGAACACGTCTTTGCTGCCGTCTTCCGGAGTAATGAAACCGAATACtttg                                              >  1:883755/1‑51 (MQ=9)
                                          tACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCtt                                                <  1:953471/50‑1 (MQ=255)
                                           aCGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAAc                          >  1:530704/1‑71 (MQ=255)
                                            cGAACACGTCTTTGCTGCCGTCTTCCGGAGTAATGAAACCGAATCCTTTGGACTCATTAAACCACTTAAcg                         >  1:1793018/1‑70 (MQ=255)
                                            cGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCa                                                       >  1:676270/1‑41 (MQ=255)
                                            cGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAAc                                                   >  1:1429503/1‑45 (MQ=255)
                                              aaCACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGa                                            >  1:1510217/1‑50 (MQ=255)
                                               acacATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAAc                                                   >  1:306497/1‑42 (MQ=255)
                                               acacATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTc                                         <  1:272189/52‑1 (MQ=255)
                                                cacaTCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGAc                     >  1:3287333/1‑71 (MQ=255)
                                                cacaTCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGAc                     <  1:2904577/71‑1 (MQ=255)
                                                 acaTCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCt                        <  1:2200473/67‑1 (MQ=255)
                                                 aaaTCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGAc                     >  1:263882/3‑70 (MQ=255)
                                                  cgtCTTTGCTGCCATCATCAGGAGTGATAAAGCCAAAACCt                                                 >  1:1569698/3‑41 (MQ=12)
                                                   gtCTTTGCTGCCGTCTTCCGGAGTAATGAAACCGAATCCTTTGGACTCATTAAACCACTTAACGTTACCtt                  >  1:1462865/2‑71 (MQ=255)
                                                   aTCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCtt                  <  1:1820088/71‑1 (MQ=255)
                                                     cTTTGCTGCCGTCTTCCGGAGTAATGAAACCGAATCCTTTGGACTCATTAAACCACTTAACGTTACCtt                  >  1:2838813/1‑69 (MQ=255)
                                                     cTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGaa                                   >  1:1231530/1‑52 (MQ=255)
                                                     cTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCttt                 >  1:3855000/1‑70 (MQ=255)
                                                        tgctgcCGTCTTCCGGAGTAATGAAACCGAATCCTTTGGACTCATTAAACCACTTa                            >  1:111644/1‑56 (MQ=255)
                                                        tgctgcCGTCTTCCGGAGTAATGAAACCGAATCCTTTGGACTCATTAAACCACTTa                            >  1:3592555/1‑56 (MQ=255)
                                                        tgctgcCGTCTTCCGGAGTAATGAAACCGAATCCTTTGGACTCATTAAACCACTTAACGTTACCTTTAATc             >  1:2793454/1‑71 (MQ=255)
                                                        tgctgcCGTCTTCCGGAGTAATGAAACCGAATCCTTTGGACTCATTAAACCACTTAACGTTACCTTTAATc             >  1:1210538/1‑71 (MQ=255)
                                                        tgctgcCGTCTTCCGGAGTAATGAAACCGAATCCTTTGGACTCATTAAACCACTTAACGTTACCTTTAATc             >  1:2031568/1‑71 (MQ=255)
                                                          ctgcCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCtt           <  1:501487/71‑1 (MQ=255)
                                                          ctgcCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCtt           <  1:83884/71‑1 (MQ=255)
                                                          ctgcCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCtt           <  1:1277899/71‑1 (MQ=255)
                                                           tgcCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTg                                     <  1:1698098/44‑1 (MQ=255)
                                                              cATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCTTTGcc       <  1:3587172/71‑1 (MQ=255)
                                                               aTCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGa                      >  1:2382057/1‑55 (MQ=255)
                                                                tCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAAcc                                 <  1:690369/43‑1 (MQ=255)
                                                                tCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCTTTGCCAt     <  1:1016430/71‑1 (MQ=255)
                                                                tCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCTTTGCCAt     <  1:2182732/71‑1 (MQ=255)
                                                                  aGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCTTTGCCAttt   <  1:3669882/71‑1 (MQ=255)
                                                                  aGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCTTTGCCAttt   >  1:2278971/1‑71 (MQ=255)
                                                                  aGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCTTTGCCAtt    <  1:992184/70‑1 (MQ=255)
                                                                   gCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCTTTGCCATTTg  <  1:3357793/71‑1 (MQ=255)
                                                                   |                                                                      
AGCCAGAGTTTTGAAGCCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCTTTGCCATTTG  >  minE/1211217‑1211354

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A