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
A2 F1 I0 R1 4577 57.4 3436498 77.7% 2670158 63.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 1,869,696 G→T 33.8% T20T (ACC→ACA)  ygcW ← predicted deoxygluconate dehydrogenase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,869,6960GT33.8% 159.4 / 99.6 142T20T (ACC→ACA) ygcWpredicted deoxygluconate dehydrogenase
Reads supporting (aligned to +/- strand):  ref base G (29/65);  new base T (26/22);  total (55/87)
Fisher's exact test for biased strand distribution p-value = 1.04e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.28e-01

Only 100 of 142 total aligned reads displayed.

AGCTTTGGCCAACGCCATGGCAAATGCCTGGCCTAAACCGCTATTCCCACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCATTGAGAGATTCGATTGACATAGTT  >  minE/1869633‑1869759
                                                               |                                                               
aGCTTTGGCCAACGCCATGGCAAATGCCTGGCCTAAACCGCTATTCCCACCGGTAACAATTGCGGttt                                                             <  1:276526/68‑1 (MQ=255)
  cTTTGGCCAACGCCATGGCAAATGCCTGGCCTAAACCGCTATTCCCACCGGTAACAATTGCGGTTTTAc                                                          <  1:8236/69‑1 (MQ=255)
  cTTTGGCCAACGCCATGGCAAATGCCTGGCCTAAACCGCTATTCCCACCGGTAACAATTGCGGTTTTAc                                                          <  1:174440/69‑1 (MQ=255)
  cTTTGGCCAACGCCATGGCAAATGCCTGGCCTAAACCGCTATTCCCACCGGTAACAATTGCGGTTTTAc                                                          <  1:2258661/69‑1 (MQ=255)
  cTTTGGCCAACGCCATGGCAAATGCCTGGCCTAAACCGCTATTCCCACCGGTAACAATTGCGGTTTTAc                                                          <  1:2410810/69‑1 (MQ=255)
  cTTTGGCCAACGCCATGGCAAATGCCTGGCCTAAACCGCTATTCCCACCGGTAACAATTGCGGTTTTAc                                                          <  1:2517570/69‑1 (MQ=255)
  cTTTGGCCAACGCCATGGCAAATGCCTGGCCTAAACCGCTATTCCCACCGGTAACAATTGCGGTTTTAc                                                          <  1:2729739/69‑1 (MQ=255)
  cTTTGGCCAACGCCATGGCAAATGCCTGGCCTAAACCGCTATTCCCACCGGTAACAATTGCGGTTTTAc                                                          <  1:2881763/69‑1 (MQ=255)
  cTTTGGCCAACGCCATGGCAAATGCCTGGCCTAAACCGCTATTCCCACCGGTAACAATTGCGGTTTTAc                                                          <  1:3108313/69‑1 (MQ=255)
  cTTTGGCCAACGCCATGGCAAATGCCTGGCCTAAACCGCTATTCCCACCGGTAACAATTGCGGTTTTAc                                                          <  1:3178940/69‑1 (MQ=255)
  cTTTGGCCAACGCCATGGCAAATGCCTGGCCTAAACCGCTATTCCCACCGGTAACAATTGCGGTTTTAc                                                          <  1:1195339/69‑1 (MQ=255)
  cTTTGGCCAACGCCATGGCAAATGCCTGGCCTAAACCGCTATTCCCACCGGTAACAATTGCGGTTTTAc                                                          <  1:3414354/69‑1 (MQ=255)
  cTTTGGCCAACGCCATGGCAAATGCCTGGCCTAAACCGCTATTCCCACCGGTAACAATTGCGGTTTTAc                                                          <  1:354276/69‑1 (MQ=255)
   tttGGCCAACGCATTGGCAAATGCCTGGCGTAAACCGATATTCCCACCGGTAAGAATTGCGGTTTTag                                                          <  1:2512514/68‑2 (MQ=255)
         cAACGCCATGGCAAATGCCTGGCCTAAACCGCTATTCCCGCCGGTAACAATTGCTGTTTTACCTTTCa                                                    >  1:3172870/1‑68 (MQ=255)
         cAACGCCATGGCAAATGCCTGGCCTAAACCGCTATTCCCGCCGGTAACAATTGCTGTTTTACCTTTCa                                                    >  1:3251363/1‑68 (MQ=255)
         cAACGCCATGGCAAATGCCTGGCCTAAACCGCTATTCCCGCCGGTAACAATTGCTGTTTTACCTTTCa                                                    >  1:774826/1‑68 (MQ=255)
         cAACGCCATGGCAAATGCCTGGCCTAAACCGCTATTCCCGCCGGTAACAATTGCTGTTTTACCTTTCa                                                    >  1:968747/1‑68 (MQ=255)
         cAACGCCATGGCAAATGCCTGGCCTAAACCGCTATTCCCGCCGGTAACAATTGCTGTTTTACCTTTCa                                                    >  1:1718508/1‑68 (MQ=255)
         cAACGCCATGGCAAATGCCTGGCCTAAACCGCTATTCCCGCCGGTAACAATTGCTGTTTTACCTTTCa                                                    >  1:1013997/1‑68 (MQ=255)
         cAACGCCATGGCAAATGCCTGGCCTAAACCGCTATTCCCGCCGGTAACAATTGCTGTTTTACCTTTCa                                                    >  1:1285854/1‑68 (MQ=255)
                   gCAAATGCCTGGCCTAAACCGCTATTCCCACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGaaaaaa                                         <  1:2546252/69‑1 (MQ=255)
                     aaaTGCCTGGCCTAAACCGCTATTCCCACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATc                                       <  1:2681938/69‑1 (MQ=255)
                     aaaTGCCTGGCCTAAACCGCTATTCCCACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATc                                       <  1:1095533/69‑1 (MQ=255)
                        tGCCTGGCCTAAACCGCTATTCCCACCGGTAACAATTGCGGttt                                                             <  1:3062160/44‑1 (MQ=255)
                        tGCCTGGCCTAAACCGCTATTCCCACCGGTAACAATTGCGGttt                                                             <  1:3280522/44‑1 (MQ=255)
                        tGCCTGGCCTAAACCGCTATTCCCACCGGTAACAATTGCGGttt                                                             <  1:3380067/44‑1 (MQ=255)
                        tGCCTGGCCTAAACCGCTATTCCCACCGGTAACAATTGCGGttt                                                             <  1:1153671/44‑1 (MQ=255)
                        tGCCTGGCCTAAACCGCTATTCCCACCGGTAACAATTGCGGttt                                                             <  1:1716114/44‑1 (MQ=255)
                        tGCCTGGCCTAAACCGCTATTCCCACCGGTAACAATTGCGGttt                                                             <  1:636841/44‑1 (MQ=255)
                        tGCCTGGCCTAAACCGCTATTCCCACCGGTAACAATTGCGGttt                                                             <  1:811719/44‑1 (MQ=255)
                        tGCCTGGCCTAAACCGCTATTCCCACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCa                                     >  1:2525530/1‑68 (MQ=255)
                        tGCCTGGCCTAAACCGCTATTCCCACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCa                                     >  1:281005/1‑68 (MQ=255)
                        tGCCTGGCCTAAACCGCTATTCCCACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCa                                     >  1:2198818/1‑68 (MQ=255)
                            tGGCCTAAACCGCTATTCCCACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTgag                                <  1:595607/69‑1 (MQ=255)
                              gCCTAAACCGCTATTCCCGCCGGTAACAATTGCTGttt                                                             <  1:2955121/38‑1 (MQ=38)
                              gCCTAAACCGCTATTCCCGCCGGTAACAATTGCTGttt                                                             <  1:141027/38‑1 (MQ=38)
                              gCCTAAACCGCTATTCCCGCCGGTAACAATTGCTGttt                                                             <  1:269612/38‑1 (MQ=38)
                              gCCTAAACCGCTATTCCCGCCGGTAACAATTGCTGttt                                                             <  1:2474533/38‑1 (MQ=38)
                              gCCTAAACCGCTATTCCCGCCGGTAACAATTGCTGttt                                                             <  1:2439262/38‑1 (MQ=38)
                              gCCTAAACCGCTATTCCCGCCGGTAACAATTGCTGttt                                                             <  1:1465006/38‑1 (MQ=38)
                              gCCTAAACCGCTATTCCCGCCGGTAACAATTGCTGttt                                                             <  1:2785283/38‑1 (MQ=38)
                              gCCTAAACCGCTATTCCCGCCGGTAACAATTGCTGttt                                                             <  1:2191763/38‑1 (MQ=38)
                              gCCTAAACCGCTATTCCCGCCGGTAACAATTGCTGttt                                                             <  1:2957521/38‑1 (MQ=38)
                              gCCTAAACCGCTATTCCCGCCGGTAACAATTGCTGttt                                                             <  1:300934/38‑1 (MQ=38)
                              gCCTAAACCGCTATTCCCGCCGGTAACAATTGCTGttt                                                             <  1:770039/38‑1 (MQ=38)
                              gCCTAAACCGCTATTCCCGCCGGTAACAATTGCTGttt                                                             <  1:2024994/38‑1 (MQ=38)
                              gCCTAAACCGCTATTCCCGCCGGTAACAATTGCTGttt                                                             <  1:1952804/38‑1 (MQ=38)
                              gCCTAAACCGCTATTCCCGCCGGTAACAATTGCTGttt                                                             <  1:696060/38‑1 (MQ=38)
                                cTAAACCGCTATTCCCACCTGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACg                            <  1:180449/69‑1 (MQ=255)
                                cTAAACCGCTATTCCCACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACg                            <  1:2809803/69‑1 (MQ=255)
                                cTAAACCGCTATTCCCACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACg                            <  1:1348384/69‑1 (MQ=255)
                                cTAAACCGCTATTCCCACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACg                            <  1:847274/69‑1 (MQ=255)
                                cTAAACCGCTATTCCCACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACg                            <  1:545412/69‑1 (MQ=255)
                                cTAAACCGCTATTCCCACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACg                            <  1:198034/69‑1 (MQ=255)
                                 tAAACCGCTATTCCCACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACg                            <  1:1796456/68‑1 (MQ=255)
                                     ccGCTATTCCCACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCAtt                        <  1:1593560/68‑1 (MQ=255)
                                     ccGCTATTCCCACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCAtt                        <  1:159672/68‑1 (MQ=255)
                                     ccGCTATTCCCACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCAtt                        <  1:2428406/68‑1 (MQ=255)
                                     ccGCTATTCCCACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCAtt                        <  1:2402209/68‑1 (MQ=255)
                                     ccGCTATTCCCACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCAtt                        <  1:1951722/68‑1 (MQ=255)
                                     ccGCTATTCCCACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCAtt                        <  1:1862522/68‑1 (MQ=255)
                                     ccGCTATTCCCACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCAtt                        <  1:604266/68‑1 (MQ=255)
                                        cTATTCCCACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCATTgaga                    <  1:2592337/69‑1 (MQ=255)
                                        cTATTCCCACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCATTgaga                    <  1:1251514/69‑1 (MQ=255)
                                        cTATTCCCACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCATTgaga                    <  1:2547645/69‑1 (MQ=255)
                                        cTATTCCCACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCATTgaga                    <  1:2326139/69‑1 (MQ=255)
                                        cTATTCCCACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCATTgaga                    <  1:172693/69‑1 (MQ=255)
                                          aTTCCCACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCATTgagag                   >  1:3103579/1‑68 (MQ=255)
                                             cccACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCATTgaga                    >  1:1563391/1‑64 (MQ=255)
                                             cccACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCATTGAGAGAt                 <  1:1834008/67‑1 (MQ=255)
                                             cccACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCATTGAGAGAt                 <  1:471880/67‑1 (MQ=255)
                                             cccACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCATTGAGAGATTc               >  1:579275/1‑69 (MQ=255)
                                             cccACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCATTGAGAGATTc               >  1:1918813/1‑69 (MQ=255)
                                             cccACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCATTGAGAGATTc               >  1:1208187/1‑69 (MQ=255)
                                             cccACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCATTGAGAGATTc               >  1:127321/1‑69 (MQ=255)
                                             cccACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCATTGAGAGATTc               >  1:2604058/1‑69 (MQ=255)
                                             cccACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCATTGAGAGATTc               >  1:1507272/1‑69 (MQ=255)
                                             cccACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCATTGAGAGATTc               >  1:3149574/1‑69 (MQ=255)
                                              ccACCGGTAACAATTGCGGTTTTACCTTTCAGTGAGAAAAAATCCATTGAGAACGCATTGAGAGAt                 <  1:2041014/66‑1 (MQ=255)
                                               cgccGGTAACAATTGCTGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGc                           >  1:3076169/3‑55 (MQ=255)
                                               cgccGGTAACAATTGCTGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCa                          >  1:2933150/3‑56 (MQ=255)
                                               cgccGGTAACAATTGCTGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCa                          >  1:1002073/3‑56 (MQ=255)
                                               cgccGGTAACAATTGCTGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCa                          >  1:2500512/3‑56 (MQ=255)
                                               cgccGGTAACAATTGCTGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCa                          >  1:1024519/3‑56 (MQ=255)
                                               cgccGGTAACAATTGCTGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCa                          >  1:2773127/3‑56 (MQ=255)
                                               cgccGGTAACAATTGCTGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCa                          >  1:717133/3‑56 (MQ=255)
                                               cgccGGTAACAATTGCTGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCa                          >  1:1822279/3‑56 (MQ=255)
                                               cgccGGTAACAATTGCTGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCa                          >  1:1278477/3‑56 (MQ=255)
                                               cgccGGTAACAATTGCTGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCa                          >  1:214435/3‑56 (MQ=255)
                                               cgccGGTAACAATTGCTGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCa                          >  1:406339/3‑56 (MQ=255)
                                               cgccGGTAACAATTGCTGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCa                          >  1:1934757/3‑56 (MQ=255)
                                               cgccGGTAACAATTGCTGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCa                          >  1:2070992/3‑56 (MQ=255)
                                                          aTTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCATTGAGAGATTCGATTGACATAg    >  1:209514/1‑67 (MQ=255)
                                                          aTTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCATTGAGAGATTCGATTGACATAGtt  >  1:622606/1‑69 (MQ=255)
                                                          aTTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCATTGAGAGATTCGATTGACATAGtt  >  1:227696/1‑69 (MQ=255)
                                                          aTTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCATTGAGAGATTCGATTGACATAGtt  >  1:1431723/1‑69 (MQ=255)
                                                          aTTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCATTGAGAGATTCGATTGACATAGtt  >  1:3263821/1‑69 (MQ=255)
                                                          aTTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCATTGAGAGATTCGATTGACATAGtt  >  1:956367/1‑69 (MQ=255)
                                                          aTTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCATTGAGAGATTCGATTGACATAGt   >  1:1218968/1‑68 (MQ=255)
                                                               |                                                               
AGCTTTGGCCAACGCCATGGCAAATGCCTGGCCTAAACCGCTATTCCCACCGGTAACAATTGCGGTTTTACCTTTCAGGGAGAAAAAATCCATTGAGAACGCATTGAGAGATTCGATTGACATAGTT  >  minE/1869633‑1869759

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