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 F1 I0 R1 2892 75.3 5698161 66.1% 3766484 59.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 834,641 G→A 18.1% L1033L (CTG→CTA) ‡ narG → nitrate reductase 1, alpha subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE834,6410GA18.1% 277.6 / 47.6 127L1033L (CTG→CTA) ‡narGnitrate reductase 1, alpha subunit
Reads supporting (aligned to +/- strand):  ref base G (47/57);  new base A (14/9);  total (61/66)
Fisher's exact test for biased strand distribution p-value = 2.49e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.92e-01

Only 100 of 129 total aligned reads displayed.

ACCTGGTCTGGTCTGGAAGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGG  >  minE/834576‑834709
                                                                 |                                                                    
aCCTGGTCTGGTCTGGAAGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATcc                                                                  >  1:3053275/1‑70 (MQ=255)
 ccTGGTCTGGTCTGGAAGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCa                                                                <  1:2859978/71‑1 (MQ=255)
   tggtctggtcTGGAAGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATg                                                              >  1:4345503/1‑71 (MQ=255)
     gtctggtctgGAAGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTg                                                                      <  1:4221275/61‑1 (MQ=255)
     gtctggtctgGAAGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGc                                                            >  1:1666562/1‑71 (MQ=255)
     gtccggtctgGAAAGCGATCACGTCTCCTATAACGCGGGATACACCAACGTTCATGAGTTAATTCCGTgg                                                             <  1:4443603/70‑1 (MQ=255)
       ctggtctggAAGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCg                                                           >  1:1296049/1‑70 (MQ=255)
       ccggtctggAAAGAGATCACGTCTCCTATAACGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGc                                                            >  1:2991480/3‑69 (MQ=255)
        tggtctggAAGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCa                                                                <  1:1082990/64‑1 (MQ=255)
        tggtctggAAGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCa                                                                <  1:1249383/64‑1 (MQ=255)
        tggtctggAAGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCa                                                                <  1:1256267/64‑1 (MQ=255)
         ggtctggAAAGCGATCACGTCTCCTATAACGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCAc                                                        <  1:4005560/71‑1 (MQ=255)
          gtctggAAGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGt                                                          <  1:191628/68‑1 (MQ=255)
          gtctggAAGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTAc                                                        <  1:4367756/70‑1 (MQ=255)
           tctggATGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTg                                                                      <  1:3257601/55‑1 (MQ=255)
             tggAAGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGc                                                      <  1:4808438/69‑1 (MQ=255)
               gAAGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGctctc                                                  <  1:1157887/71‑1 (MQ=255)
                 aGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTg                                                <  1:1013436/71‑1 (MQ=255)
                  gATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATcc                                                                  <  1:5523829/52‑1 (MQ=255)
                     gAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATcc                                                                  <  1:4209999/49‑1 (MQ=255)
                     gAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGgtcg                                            >  1:1469327/1‑71 (MQ=255)
                      aaCACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGgtcgt                                           <  1:2843237/71‑1 (MQ=255)
                       acacGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCa                                                                <  1:2550197/49‑1 (MQ=255)
                       acacGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGgtcgt                                           >  1:4333227/1‑70 (MQ=255)
                         acGTCTCCTATAACGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAg                                        >  1:5009384/1‑71 (MQ=255)
                         acGTCTCCTATAACGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAg                                        <  1:266260/71‑1 (MQ=255)
                          cGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGc                                       <  1:2199704/71‑1 (MQ=255)
                            tttCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATgg                                                             <  1:3958168/47‑1 (MQ=255)
                            tttCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCaa                                     >  1:538620/1‑71 (MQ=255)
                             ttCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATc                                                                   >  1:1707135/1‑40 (MQ=255)
                             ttCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGc                                       >  1:814090/1‑68 (MQ=255)
                             ttCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGc                                       >  1:2614700/1‑68 (MQ=255)
                              tCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCa                                                                >  1:174100/1‑42 (MQ=255)
                              tCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGc                                                      >  1:5035308/1‑52 (MQ=255)
                              tCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACt                                   >  1:1481969/1‑71 (MQ=255)
                               cTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGgt                                              >  1:2537173/1‑59 (MQ=255)
                               cTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGgt                                              >  1:3420004/1‑59 (MQ=255)
                                ttACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTg                                                >  1:863518/1‑56 (MQ=255)
                                ttACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTg                                                >  1:2963754/1‑56 (MQ=255)
                                ttACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTg                                                >  1:1440838/1‑56 (MQ=255)
                                ttACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTg                                                >  1:1369880/1‑56 (MQ=255)
                                 tACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCa                                                                <  1:1398375/39‑1 (MQ=255)
                                  ataaCGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTAt                               >  1:924770/3‑71 (MQ=255)
                                   taaCGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTATc                              <  1:4506961/70‑1 (MQ=255)
                                   cAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGc                                                            >  1:1838750/1‑41 (MQ=255)
                                   cAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGc                                                            >  1:2665952/1‑41 (MQ=255)
                                   cAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATc                              <  1:3411846/71‑1 (MQ=255)
                                    aaCGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTAt                               >  1:3529316/1‑69 (MQ=255)
                                    aaCGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTAt                               >  1:2246712/1‑69 (MQ=255)
                                    aaCGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTAt                               >  1:3079501/1‑69 (MQ=255)
                                    aaCGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCa                             <  1:1352667/71‑1 (MQ=255)
                                    aaCGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCa                             <  1:3459054/71‑1 (MQ=255)
                                    aaCGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCa                             <  1:5049300/71‑1 (MQ=255)
                                     aCGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGctc                                                    <  1:5262474/47‑1 (MQ=255)
                                     aCGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCa                             <  1:5645872/70‑1 (MQ=255)
                                       gCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGa                          <  1:4554497/71‑1 (MQ=255)
                                         cGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATc                        <  1:1855271/71‑1 (MQ=255)
                                            atACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAGGATCatc                     >  1:3748264/2‑69 (MQ=255)
                                             tACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAGGa                          <  1:4099391/65‑1 (MQ=255)
                                             tACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAGGATCatcc                    >  1:1238355/1‑68 (MQ=255)
                                             tACACCAACGTTCACGAGCTGATCCCATGGCGTACGctc                                                    >  1:4909502/1‑39 (MQ=255)
                                             tACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCAc                      >  1:3263366/1‑69 (MQ=255)
                                             tACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCAc                      >  1:2056047/1‑69 (MQ=255)
                                             tACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCAc                      >  1:906431/1‑69 (MQ=255)
                                              acacCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAg                   >  1:1594438/1‑71 (MQ=255)
                                              acacAAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAg                   >  1:2207608/1‑71 (MQ=255)
                                               cacCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGgtcgt                                           <  1:3450753/46‑1 (MQ=255)
                                                acCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAg                            <  1:3148503/60‑1 (MQ=255)
                                                acCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAg                            <  1:5362383/60‑1 (MQ=255)
                                                acCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAGGATCATCCGTg                 >  1:5194684/1‑71 (MQ=255)
                                                acCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAGGATCATCCGTg                 <  1:1309397/71‑1 (MQ=255)
                                                acCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGgtcgt                                           <  1:2697382/45‑1 (MQ=255)
                                                 ccAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAGGATCATCCGTg                 <  1:3916310/70‑1 (MQ=255)
                                                  cAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTgg                >  1:4225396/1‑70 (MQ=255)
                                                  cAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTgg                >  1:1090091/1‑70 (MQ=255)
                                                  cAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGa               >  1:1345052/1‑71 (MQ=255)
                                                    aCGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAGGATCATCCGTg                 >  1:2991026/1‑67 (MQ=255)
                                                    aCGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAGGATCATCCGTg                 >  1:4478099/1‑67 (MQ=255)
                                                    aCGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGTAACTGTATCAGGATCACCAg                   <  1:325491/65‑1 (MQ=255)
                                                    aCGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGTAACTGTATCAGGATCACCAg                   <  1:872409/65‑1 (MQ=255)
                                                    aCGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGAt              >  1:3082494/1‑70 (MQ=255)
                                                    aCGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATg             >  1:2006238/1‑71 (MQ=255)
                                                     cGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGc            <  1:948531/71‑1 (MQ=255)
                                                     cGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGc            <  1:3842395/71‑1 (MQ=255)
                                                       ttCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCa                             <  1:4081904/52‑1 (MQ=255)
                                                       ttCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCa                             <  1:2628966/52‑1 (MQ=255)
                                                       ttCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGAt                         <  1:1430241/56‑1 (MQ=255)
                                                        tCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAGGATCATCCGTGGATGCGTg         >  1:3554688/1‑71 (MQ=255)
                                                         cACGAGCTGATCCCATGGCGTACGCTCTCTGgtcgt                                           <  1:2031250/36‑1 (MQ=255)
                                                         cACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCa                    >  1:4803355/1‑59 (MQ=255)
                                                            gAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGAttt     >  1:2426852/1‑71 (MQ=255)
                                                            gAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGAttt     <  1:4714232/71‑1 (MQ=255)
                                                              gCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCg   <  1:2854667/71‑1 (MQ=255)
                                                              gCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCg   >  1:3534533/1‑71 (MQ=255)
                                                               cTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGa                          <  1:2412288/47‑1 (MQ=255)
                                                               cTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGa                          <  1:1846671/47‑1 (MQ=255)
                                                               cTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGa                          <  1:4053997/47‑1 (MQ=255)
                                                               cTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGAATCAGGATCACCAGTGGATGCGTGATTTCgg  <  1:5682121/71‑1 (MQ=255)
                                                                tGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTg                                  <  1:2223350/38‑1 (MQ=255)
                                                                tGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTg                                  <  1:2084201/38‑1 (MQ=255)
                                                                 |                                                                    
ACCTGGTCTGGTCTGGAAGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCACCAGTGGATGCGTGATTTCGG  >  minE/834576‑834709

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