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 R2 370 72.1 3738297 91.5% 3420541 62.3

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 349,124 C→T 5.1% A474A (GCC→GCT)  gcl → glyoxylate carboligase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE349,1240CT 5.1% 390.7 / 7.0 117A474A (GCC→GCT) gclglyoxylate carboligase
Reads supporting (aligned to +/- strand):  ref base C (49/62);  new base T (3/3);  total (52/65)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.55e-01

Only 100 of 121 total aligned reads displayed.

ATTGAAGAGTTAGCTGTTGGCGCGCAGTTCAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCTTTTGACATGGACTACTGCGTGCAACTCGCTTTC  >  minE/349059‑349190
                                                                 |                                                                  
aTTGAAGAGTTAGCTGTTGGCGCGCAGTTCAACATTCCGTACATCCATGTGCTGGTCAACAACGCTTATCt                                                               >  1:1216804/1‑71 (MQ=255)
aTTGAAGAGTTAGCTGTTGGCGCGCAGTTCAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTAt                                                                 <  1:2292140/69‑1 (MQ=255)
 ttGAAGAGTTAGCTGTTGGCGCGCAGTTCAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTg                                                              <  1:2883384/71‑1 (MQ=255)
    aaGAGTTAGCTGTTGGCGCGCAGTTCAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTgggg                                                           <  1:487293/71‑1 (MQ=255)
    aaGAGTTAGCTGTTGGCGCGCAGTTCAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTgggg                                                           >  1:2343611/1‑71 (MQ=255)
    aaGAGTTAGCTGTTGGCGCGCAGTTCAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTgggg                                                           <  1:2577540/71‑1 (MQ=255)
        gTTAGCTGTTGGCGCGCAGTTCAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGa                                                       <  1:3325253/71‑1 (MQ=255)
           aGCTGTTGGCGCGCAGTTCAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTc                                                    >  1:3123394/1‑71 (MQ=255)
           aGCTGTTGGCGCGCAGTTCAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTc                                                    >  1:2934754/1‑71 (MQ=255)
             cTGTTGGCGCGCAGTTCAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCgt                                                  <  1:3300368/71‑1 (MQ=255)
             cTGTTGGCGCGCAGTTCAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCgt                                                  <  1:292656/71‑1 (MQ=255)
              tGTTGGCGCGCAGTTCAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCgt                                                  >  1:788308/1‑70 (MQ=255)
              tGTTGGCGCGCAGTTCAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCgt                                                  >  1:495132/1‑70 (MQ=255)
                ttGGCGCGCAGTTCAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGAtt                                                     <  1:3595062/65‑1 (MQ=255)
                ttGGCGCGCAGTTCAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGAtt                                                     <  1:1264412/65‑1 (MQ=255)
                ttGGCGCGCAGTTCAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCgtc                                                 <  1:3593930/69‑1 (MQ=255)
                 tGGCGCGCAGTTCAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCgtcagt                                              >  1:1246378/1‑71 (MQ=255)
                  ggCGCGCAGTTCAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCgtcagt                                              >  1:2023922/1‑70 (MQ=255)
                  ggCGCGCAGTTCAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCgtcagt                                              >  1:1820414/1‑70 (MQ=255)
                     gcgcAGTTCAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCGTCAGTcaca                                          <  1:39056/71‑1 (MQ=255)
                      cgcAGTTCAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTATc                                                                <  1:2023267/48‑1 (MQ=255)
                      cgcAGTTCAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTATc                                                                <  1:1141448/48‑1 (MQ=255)
                        cAGTTCAACATTCCGTACATCCATGTGCTGGTCAACAACGCTTATCTGGGGCTGATTCGTCAGTcac                                           <  1:3168079/67‑1 (MQ=255)
                             cAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTAt                                                                 <  1:2344037/40‑1 (MQ=255)
                             cAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTAt                                                                 <  1:1330872/40‑1 (MQ=255)
                             cAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTAt                                                                 <  1:1743809/40‑1 (MQ=255)
                             cAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTAt                                                                 <  1:617419/40‑1 (MQ=255)
                             cAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTAt                                                                 <  1:2684042/40‑1 (MQ=255)
                             cAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTc                                                    >  1:1208568/1‑53 (MQ=255)
                             cAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTc                                                    >  1:2594496/1‑53 (MQ=255)
                             cAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCGTCAGTcac                                           >  1:1892411/1‑62 (MQ=255)
                             cAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCGTCAGTcac                                           >  1:2316623/1‑62 (MQ=255)
                             cAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCGTCAGTcac                                           >  1:2773942/1‑62 (MQ=255)
                             cAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCtt                                  >  1:2622274/1‑71 (MQ=255)
                             cAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCtt                                  >  1:3192549/1‑71 (MQ=255)
                             cAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCtt                                  >  1:2197328/1‑71 (MQ=255)
                             cAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCt                                   <  1:2994481/70‑1 (MQ=255)
                             cAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCt                                   <  1:373637/70‑1 (MQ=255)
                             cAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCt                                   <  1:1235245/70‑1 (MQ=255)
                              aaCATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCGTCAGTcac                                           <  1:2315419/61‑1 (MQ=255)
                              aaCATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCGTCAGTcac                                           <  1:1398560/61‑1 (MQ=255)
                              aaCATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCGTCAGTCACaa                                         >  1:1868874/1‑63 (MQ=255)
                              aaCATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCGTCAGTCACaa                                         >  1:2997327/1‑63 (MQ=255)
                              aaCATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCGTCAGTCACaa                                         >  1:497376/1‑63 (MQ=255)
                              aaCATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCGTCAGTCACaa                                         >  1:1658774/1‑63 (MQ=255)
                              aaCATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCGTCAGTCACaa                                         >  1:1477707/1‑63 (MQ=255)
                               aCATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCtttt                                >  1:3712882/1‑71 (MQ=255)
                               aCATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCtttt                                >  1:1730434/1‑71 (MQ=255)
                                cATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCGTCAGTCACaa                                         >  1:1873980/1‑61 (MQ=255)
                                  ttCCGTACATCCATGTGCTGGTCAACAACGCCTATCt                                                               <  1:837320/37‑1 (MQ=255)
                                  ttCCGTACATCCATGTGCTGGTCAACAACGCCTATCt                                                               <  1:807001/37‑1 (MQ=255)
                                  ttCCGTACATCCATGTGCTGGTCAACAACGCCTATCt                                                               <  1:3224788/37‑1 (MQ=255)
                                  ttCCGTACATCCATGTGCTGGTCAACAACGCCTATCt                                                               <  1:1283472/37‑1 (MQ=255)
                                  ttCCGTACATCCATGTGCTGGTCAACAACGCCTATCt                                                               <  1:717360/37‑1 (MQ=255)
                                  ttCCGTACATCCATGTGCTGGTCAACAACGCCTATCt                                                               <  1:2808678/37‑1 (MQ=255)
                                  ttCCGTACATCCATGTGCTGGTCAACAACGCCTATCt                                                               <  1:3361109/37‑1 (MQ=255)
                                  ttCCGTACATCCATGTGCTGGTCAACAACGCCTATCt                                                               <  1:3435746/37‑1 (MQ=255)
                                  ttCCGTACATCCATGTGCTGGTCAACAACGCCTATCt                                                               <  1:3473435/37‑1 (MQ=255)
                                  ttCCGTACATCCATGTGCTGGTCAACAACGCCTATCTgg                                                             <  1:674308/39‑1 (MQ=255)
                                  ttCCGTACATCCATGTGCTGGTCAACAACGCCTATCTgg                                                             <  1:751076/39‑1 (MQ=255)
                                  ttCCGTACATCCATGTGCTGGTCAACAACGCCTATCTgg                                                             <  1:2116168/39‑1 (MQ=255)
                                     cGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCGTCTGTCACAACGCGCTTTTGACATg                          >  1:3093785/1‑71 (MQ=255)
                                     cGTACATCCATGTGCTAGTCAACAACGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCTTTTGACATg                          >  1:651650/1‑71 (MQ=255)
                                      gTACATCCATGTGCTGGTCAACAACGCTTATCTGGGGCTGATTCGTCAGTCACAACGCGCTTTTGACATg                          >  1:521453/1‑70 (MQ=255)
                                      gTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCTTTTGACATg                          <  1:263765/70‑1 (MQ=255)
                                        aCATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCTTTTGACATGGa                        >  1:1702134/1‑70 (MQ=255)
                                          aTCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCTTTTGACATGGacta                     <  1:2415238/71‑1 (MQ=255)
                                            ccATGTGCTGGTCAACAACGCTTATCTGGGGCTGATTCGTCAGTCACAACGCGCTTTTGACATGGactact                   >  1:1813482/1‑71 (MQ=255)
                                             cATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCTTTTGACATGGactact                   <  1:500330/70‑1 (MQ=255)
                                             cATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCTTTTGACATGGac                       <  1:3099916/66‑1 (MQ=255)
                                               tgtgCTGGTCAACAACGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCTTTTGACATGGacta                     >  1:1319127/1‑66 (MQ=255)
                                               tgtgCTGGTCAACAACGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCTTTTGACATGGacta                     >  1:323698/1‑66 (MQ=255)
                                                gtgCTGGTCAACAACGCCTATCTGGGGCTGATTCgt                                                  <  1:454661/36‑1 (MQ=255)
                                                gtgCTGGTCAACAACGCCTATCTGGGGCTGATTCgt                                                  <  1:2287274/36‑1 (MQ=255)
                                                gtgCTGGTCAACAACGCCTATCTGGGGCTGATTCgt                                                  <  1:1343639/36‑1 (MQ=255)
                                                 tgCTGGTCAACAACGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCTTTTGACATGGACTACTGCGTg              <  1:1121328/71‑1 (MQ=255)
                                                 tgCTGGTCAACAACGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCTTTTGACATGGACTACTGCGTg              >  1:2023717/1‑71 (MQ=255)
                                                 tgCTGGTCAACAACGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCTTTTGACATGGACTACTGCGTg              <  1:712777/71‑1 (MQ=255)
                                                 tgCTGGTCAACAACGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCTTTTGACATGGACTACTGAGTg              >  1:2437941/1‑71 (MQ=255)
                                                     ggTCAACAACGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCTTTTGACATGGACTACTGCGTGCAAc          >  1:1447463/1‑71 (MQ=255)
                                                         aacaacGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCTTTTGACATGGACTACTGCGTGCAACTCGc      <  1:2005067/71‑1 (MQ=255)
                                                          acaacGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCTTTTGAc                             <  1:1219442/47‑1 (MQ=255)
                                                          acaacGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCTTTTGAc                             <  1:2215302/47‑1 (MQ=255)
                                                          acaacGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCTTTTGACATGGACTACTGCGTGCAACTCGCt     <  1:3593421/71‑1 (MQ=255)
                                                          acaacGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCTTTTGACATGGACTACTGCGTGCAACTCGCt     <  1:712310/71‑1 (MQ=255)
                                                           caacGCCTATCTGGGGCTGATTCGTCAGTCACAAcgc                                      >  1:3176108/1‑37 (MQ=255)
                                                           caacGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCTTTTGACATGGACTACTGCGTGCAACTCGCtt    >  1:1936892/1‑71 (MQ=255)
                                                           caacGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCTTTTGACATGGACTACTGCGTGCAACTCGCtt    >  1:298810/1‑71 (MQ=255)
                                                           caacGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCTTTTGACATGGACTACTGCGTGCAACTCGCt     >  1:1073492/1‑70 (MQ=255)
                                                           caacGCCTATCTGGGGATGATTCGTCAGTCACAACGCGCTTTTGACATGGACTACTGCGTGCAACTCGc      >  1:722267/1‑69 (MQ=255)
                                                            aacGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCTTTTGACATGGACTACTGCGTGCAACTCGCttt   >  1:632716/1‑71 (MQ=255)
                                                            aacGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCTTTTGACATGGACTACTGCGTGCAACTCGCttt   <  1:1014673/71‑1 (MQ=255)
                                                             acGCTTATCTGGGGCTGATTCGTCAGTCACAACGCGCTTTTGACATGGACTACTGCGTCCa            <  1:1593792/61‑1 (MQ=255)
                                                             acGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCTTTTGACATGGACTACTGCGTGCAACTCGCTTTc  <  1:320064/71‑1 (MQ=255)
                                                             acGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCTTTTGACATGGACTACTGCGTGCAACTCGCTTTc  <  1:2177271/71‑1 (MQ=255)
                                                              cGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCTTTTGACATGGACTACTGCGTGCAACTCGCTTTc  >  1:102948/1‑70 (MQ=255)
                                                               gCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCTTTTGACATGGACTACTGCGTGCAACTCGCTTTc  >  1:380784/1‑69 (MQ=255)
                                                               gCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCTTTTGACATGGACTACTGCGTGCAACTCGCTTTc  >  1:2248144/1‑69 (MQ=255)
                                                                 cTATCTGGGGCTGATTCGTCAGTCACAACGCGCTTTTGACATGGac                       <  1:1508139/46‑1 (MQ=255)
                                                                 cTATCTGGGGCTGATTCGTCAGTCACAACGCGCTTTTGACATGGACTACTGCGTGCAACTCGCTTTc  <  1:735445/67‑1 (MQ=255)
                                                                 |                                                                  
ATTGAAGAGTTAGCTGTTGGCGCGCAGTTCAACATTCCGTACATCCATGTGCTGGTCAACAACGCCTATCTGGGGCTGATTCGTCAGTCACAACGCGCTTTTGACATGGACTACTGCGTGCAACTCGCTTTC  >  minE/349059‑349190

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