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 1,211,301 A→G 26.3% F17F (TTT→TTC)  cspC ← stress protein, member of the CspA‑family

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,211,3010AG26.3% 140.8 / 54.6 86F17F (TTT→TTC) cspCstress protein, member of the CspA‑family
Reads supporting (aligned to +/- strand):  ref base A (27/36);  new base G (13/9);  total (41/45)
Fisher's exact test for biased strand distribution p-value = 2.21e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.68e-01

CCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCTTTGCCATTTGAAAAATTCCTTAGATTG  >  minE/1211233‑1211371
                                                                    |                                                                      
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)
         tGGATTGCAGAGAAGTGTACGAACACGTCTTTGCTGCCGTCTTCCGGAGTAATGAAACCGAATCCtt                                                                 <  1:1583846/67‑1 (MQ=255)
         tGGATGGCGGTGAAATGGACGAAAACGTCTTTGCTGCCATCATCAGGAGTGATAAAGCCAAAACCttt                                                                <  1:3433160/68‑1 (MQ=12)
         tGGATAGCGGAGAAGTGTACGAACACATCTTTTCTGCCATCAGCCGGAGTAATGAAGCCaaa                                                                      <  1:70980/62‑1 (MQ=255)
          ggATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCaaa                                                                      <  1:3065592/61‑1 (MQ=255)
           gATTGCAGAGAAGTGTACGAACACGTCTTTGCTGCCGTCTTCCGGAGTAATGAAACCGAATCCtttgg                                                              <  1:3510652/68‑3 (MQ=255)
           gATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGAc                                                            <  1:831281/70‑1 (MQ=255)
           gATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGAc                                                            <  1:2987128/70‑1 (MQ=255)
           gATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGACGGAGTAATGAAGCCAAAACCTTTAGAc                                                            <  1:3585649/70‑1 (MQ=255)
           gATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGACGGAGTAATGAAGCCAAAACCTTTAGAc                                                            <  1:3581191/70‑1 (MQ=255)
            aTAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTc                                                          >  1:95075/1‑71 (MQ=255)
            aTAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTc                                                          >  1:1876307/1‑71 (MQ=255)
            aTAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTc                                                          >  1:855873/1‑71 (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)
                  gagaAGTGTACGAACACGTCTTTGCTGCCGTCTTCCGGAGTAATGAAACCgaat                                                                     >  1:3068446/1‑53 (MQ=18)
                   agaAGTGTACGAACACGTCTTTGCTGCCGTCTTCCGGAGTAATGAAACCGAATCCTTTGGACTCATTAAAc                                                   >  1:2135013/1‑71 (MQ=255)
                   agaAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAAc                                                   >  1:3304559/1‑71 (MQ=255)
                   agaAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAAc                                                   >  1:3516745/1‑71 (MQ=255)
                   agaAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAAc                                                   >  1:1887077/1‑71 (MQ=255)
                    gaAGTGTACGAACACGTCTTTGCTGCCGTCTTCCGGAGTAATGAAACCGAATCCTTTGGACTCATTAAAcc                                                  <  1:699068/71‑1 (MQ=255)
                      aGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCAc                                                <  1:1681386/71‑1 (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                                             >  1:3592555/1‑56 (MQ=255)
                                        tgctgcCGTCTTCCGGAGTAATGAAACCGAATCCTTTGGACTCATTAAACCACTTa                                             >  1:111644/1‑56 (MQ=255)
                                        tgctgcCGTCTTCCGGAGTAATGAAACCGAATCCTTTGGACTCATTAAACCACTTAACGTTACCTTTAATc                              >  1:2793454/1‑71 (MQ=255)
                                        tgctgcCGTCTTCCGGAGTAATGAAACCGAATCCTTTGGACTCATTAAACCACTTAACGTTACCTTTAATc                              >  1:1210538/1‑71 (MQ=255)
                                        tgctgcCGTCTTCCGGAGTAATGAAACCGAATCCTTTGGACTCATTAAACCACTTAACGTTACCTTTAATc                              >  1:2031568/1‑71 (MQ=255)
                                          ctgcCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCtt                            <  1:1277899/71‑1 (MQ=255)
                                          ctgcCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCtt                            <  1:501487/71‑1 (MQ=255)
                                          ctgcCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCtt                            <  1:83884/71‑1 (MQ=255)
                                           tgcCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTg                                                      <  1:1698098/44‑1 (MQ=255)
                                              cATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCTTTGcc                        <  1:3587172/71‑1 (MQ=255)
                                               aTCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGa                                       >  1:2382057/1‑55 (MQ=255)
                                               aTCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCTTTGCCa                       <  1:3058124/71‑1 (MQ=255)
                                                tCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAAcc                                                  <  1:690369/43‑1 (MQ=255)
                                                tCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAAcc                                                  <  1:998981/43‑1 (MQ=255)
                                                tCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCTTTGCCAt                      <  1:1016430/71‑1 (MQ=255)
                                                tCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCTTTGCCAt                      <  1:2182732/71‑1 (MQ=255)
                                                  ttccGGAGTAATGAAACCGAATCCTTTGGACTCATTAAACCACTTAACGTTACCTTTAATCTTAGACAtc                     >  1:2289156/3‑69 (MQ=255)
                                                  aGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCTTTGCCAttt                    <  1:3669882/71‑1 (MQ=255)
                                                  aGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCTTTGCCAttt                    >  1:2278971/1‑71 (MQ=255)
                                                  aGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCTTTGCCAtt                     <  1:992184/70‑1 (MQ=255)
                                                   tccGGAGTAATGAAACCGAATCCTTTGGACTCATTAAACCACTTAACGTTACCtt                                   <  1:2279505/54‑1 (MQ=16)
                                                   gCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCTTTGCCATTTg                   <  1:3357793/71‑1 (MQ=255)
                                                    ccGGAGTAATGAAACCGAATCCTTTGGACTCATTAAACCACTTAACGTTACCTTTaa                                <  1:1532320/57‑1 (MQ=255)
                                                    ccGGAGTAATGAAACCGAATCCTTTGGACTCATTAAACCACTTAACGTTACCTTTaa                                <  1:131685/57‑1 (MQ=255)
                                                       gAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCTTTGCCAt                      <  1:1934341/64‑1 (MQ=255)
                                                        aGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGAc                                      <  1:2600584/47‑1 (MQ=255)
                                                        aGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCTTTGCCATTTGaaaaa              <  1:1373721/71‑1 (MQ=255)
                                                         gTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCTTTGCCATTTGATAAAt             >  1:2332611/1‑71 (MQ=255)
                                                          tAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTg                                        <  1:174917/43‑1 (MQ=255)
                                                          tAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCTTTGCCATTTGAAAAAtt            <  1:354049/71‑1 (MQ=255)
                                                          tAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCTTTGCCATTTGAAAAAt             <  1:1242601/70‑1 (MQ=255)
                                                            aTGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCTTTGCCAttt                    >  1:3767160/1‑61 (MQ=255)
                                                            aTGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCTTTGCCATTTGAAAAATTcc          >  1:901757/1‑71 (MQ=255)
                                                                aGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCTTTGCCATTTGAAAAATTCCTTAg      <  1:1061082/71‑1 (MQ=255)
                                                                 gCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCTTTGCCATTTGAAAAATTCCTTAGa     <  1:1836371/71‑1 (MQ=255)
                                                                   cAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCTTTGCCATTTGAAAAATTCCTTAGact   >  1:1847833/1‑69 (MQ=255)
                                                                   cAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCTTTGCCATTTGAAAAATTCCTTAGAt    >  1:446508/1‑70 (MQ=255)
                                                                    aaaaCCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCTTTGCCAttt                    >  1:3183931/1‑53 (MQ=255)
                                                                    aaaaCCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCTTTGCCATTTGAAAAATTCCTTAGATTg  <  1:1081798/71‑1 (MQ=255)
                                                                    aaaaCCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCTTTGCCATTTGAAAAATTCCTTAGATTg  >  1:3707406/1‑71 (MQ=255)
                                                                    |                                                                      
CCATTACCCTGGATAGCGGAGAAGTGTACGAACACATCTTTGCTGCCATCAGCCGGAGTAATGAAGCCAAAACCTTTAGACTCGTTGAACCACTTAACCTGACCTTTAATCTTTGCCATTTGAAAAATTCCTTAGATTG  >  minE/1211233‑1211371

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