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 835,148 T→C 22.6% Y1202Y (TAT→TAC)  narG → nitrate reductase 1, alpha subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE835,1480TC22.6% 207.4 / 60.6 115Y1202Y (TAT→TAC) narGnitrate reductase 1, alpha subunit
Reads supporting (aligned to +/- strand):  ref base T (38/51);  new base C (16/10);  total (54/61)
Fisher's exact test for biased strand distribution p-value = 1.18e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.55e-01

Only 100 of 116 total aligned reads displayed.

CAGCGTGGTGGTATCCATAACTCGGTCACCCGTATCACGCCGAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGCATACGGCTTTAACTACTATGGCACCGTAGGTTCTAACCGCGATGAGTTTGTTGTAGT  >  minE/835080‑835216
                                                                    |                                                                    
cAGCGTGGTGGTATCCATAACTCGGTCACCCGTATCACGCCGAAACCGACGCATATGATCGGCGGCTATGc                                                                    >  1:1272962/1‑71 (MQ=255)
    gtggtgGTATCCATAACTCGGTCACCCGTATCACGCCGAAACCGACGCATATGATCGGCGGCTATGCCCAt                                                                <  1:3182946/71‑1 (MQ=255)
    gtggtgGTATCCATAACTCGGTCACCCGTATCACGCCGAAACCGACGCATATGATCGGCGGCTATGCCCAt                                                                <  1:3274302/71‑1 (MQ=255)
    gtggtgGTATCCATAACTCGGTCACCCGTATCACGCCGAAACCGACGCATATGATCGGCGGCTATGCCCAt                                                                <  1:3347137/71‑1 (MQ=255)
      ggtggtATCCATAACTCGGTCACCCGTATCACGCCGAAACCGACGCATATGATCGGCGGCTATGCCCATCt                                                              >  1:1600360/1‑71 (MQ=255)
          gtATCCATAACTCGGTCACCCGTATCACGCCGAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGc                                                           >  1:5168995/1‑70 (MQ=255)
          gtATCCATAACTCGGTCACCCGTATCACGCCGAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGCa                                                          >  1:325779/1‑71 (MQ=255)
          gtATCCATAACTCGGTCACCCGTATCACGCCGAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGCa                                                          <  1:3411705/71‑1 (MQ=255)
          gtATCCATAACTCGGTCACCCGTATCACGCCGAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGCa                                                          >  1:2730619/1‑71 (MQ=255)
               cATAACTCGGTCACCCGTATCACGCCGAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGCATACg                                                      <  1:33495/70‑1 (MQ=255)
                aTAACTCGGTCACCCGTATCACGCCGAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGCATACGGc                                                    >  1:1804288/1‑71 (MQ=255)
                   aCTCGGTCACCCGTATCACGCCGAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGCa                                                          <  1:2132096/62‑1 (MQ=255)
                   aCTCGGTCACCCGTATCACGCCGAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGCATACGGCttt                                                 <  1:5049240/71‑1 (MQ=255)
                   aCTCGGTCACCCGTATCACGCCGAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGCATACGGCtt                                                  <  1:4279327/70‑1 (MQ=255)
                   aCTCGGTCACCCGTATCACGCCGAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGCATACGGCt                                                   >  1:1977432/1‑69 (MQ=255)
                   aCTCGGTCACCCGTATCACGCAGAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGCATACGGCttt                                                 <  1:1174669/71‑1 (MQ=255)
                     tCGGTCACCCGTATCACGCCGAAACCGACGCATATGATCGGCGCCTATGCCCATCTGGCATACGGCttt                                                 <  1:1404137/69‑1 (MQ=255)
                      cGGTCACCCGTATCACGCCGAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGCATACGGCTTTAac                                              >  1:5690437/1‑71 (MQ=255)
                        gTCACCCGTATCACGCCGAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGCa                                                          <  1:3962265/57‑1 (MQ=255)
                           aCCCGTATCACGCCGAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGCATACGGCTTTAActacta                                         >  1:4035309/1‑71 (MQ=255)
                             ccGTATCACGCCGAAACCGACGCATATGATCGGCGGCTATGccc                                                                  <  1:3886358/44‑1 (MQ=255)
                             ccGTATCACGCCGAAACCGACGCATATGATCGGCGGCTATGccc                                                                  <  1:3776229/44‑1 (MQ=255)
                             ccGTATCACGCCGAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGCATACGGCTTTAACTACTATg                                       >  1:636062/1‑71 (MQ=255)
                             ccGTATCACGCCGAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGCATACGGCTTTAACTACTATg                                       >  1:2121472/1‑71 (MQ=255)
                             cagTATCACGCCGAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGCATACGGCTTTAActacta                                         >  1:629274/3‑69 (MQ=255)
                               gTATCACGCCGAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGCATACGGCTTTAACTACTATGGc                                     <  1:3519468/71‑1 (MQ=255)
                               gTATCACGCCGAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGCATACGGCTTTAACTACTATGGc                                     <  1:4671923/71‑1 (MQ=255)
                                 aTCACGCCGAAACCGACGCATATGATCGGCGGCTATGCCCAt                                                                >  1:2578909/1‑42 (MQ=255)
                                  tCACGCCGAAACCGACGCATATGATCGGCGGCTATGCCGATCTGGCATACGGCTTTAACTACTATGGCAcc                                  >  1:2397428/1‑71 (MQ=255)
                                  tCACGCCGAAACCGACGCATATGATCGGCGGCTATGCCCATCTgg                                                            <  1:4887088/45‑1 (MQ=255)
                                  tCACGCCGAAACCGACGCATATGATCGGCGGCTATGCCCATCTgg                                                            <  1:874635/45‑1 (MQ=255)
                                  tCACGCCGAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGCATACGGCTTTAACTACTATGGCAcc                                  >  1:5184292/1‑71 (MQ=255)
                                  tCACGCCGAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGCATACGGCTTTAACTACTATGGCAcc                                  >  1:916686/1‑71 (MQ=255)
                                    tgcccGAAACCAACGCATATGATTGGCGGTTACGCGCAGCTGGCCTGGGGCTTTAACTACTACGGCACCGt                                >  1:1140659/4‑71 (MQ=255)
                                    tgcccGAAACCAACGCATATGATTGGCGGTTACGCGCAGCTGGCCTGGGGCTTTAACTACTACGGCACCGt                                >  1:1028244/4‑71 (MQ=255)
                                    aCGCCGAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGCATACGGCTTTAACTACTATGGCACCg                                 <  1:4760013/70‑1 (MQ=255)
                                    aCGCCGAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGCATACGGCTTTAACTACTATGGCACCg                                 <  1:3495520/70‑1 (MQ=255)
                                    aCGCCGAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGCATACGGCTTTAACTACTATGGCACCg                                 >  1:5120562/1‑70 (MQ=255)
                                    aCGCCGAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGCATACGGCTTTAACTACTATGGCACCg                                 <  1:659377/70‑1 (MQ=255)
                                    aCGCCGAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGCATACGGCTTTAACTACTATGGCACCGt                                <  1:263755/71‑1 (MQ=255)
                                     gcccGAAACCAACGCATATGATTGGCGGTTACGCGCAGCTGGCCTGGGGCTTTAACTACTACGGCACCGtc                               >  1:1715357/3‑70 (MQ=255)
                                      gCCGAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGCATACGGCttt                                                 <  1:2557802/52‑1 (MQ=255)
                                      gCCGAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGCATACGGCTTTAACTACTATGGCACCGTAg                              <  1:829241/71‑1 (MQ=255)
                                       ccGAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGCATACGGCTTTAACTACTATGGCACCGt                                <  1:2645374/68‑1 (MQ=255)
                                        cGAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGCATACGGCTTTAACTACTATGGCACCGTAGGt                            >  1:188003/1‑71 (MQ=255)
                                         gAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGCATACGGCttt                                                 <  1:4849503/49‑1 (MQ=255)
                                         gAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGCATACGGCTTTAACTACTATGGCACCGTAg                              >  1:1201454/1‑68 (MQ=255)
                                         gAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGCATACGGCTTTAACTACTATGGCACCGTAGGtt                           >  1:936588/1‑71 (MQ=255)
                                         gAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGCATACGGCTTTAACTACTATGGCACCGTAGGtt                           <  1:2364718/71‑1 (MQ=255)
                                         gAAACCAACGCATATGATTGGCGGTTACGCGCAGCTGGCCTGGGGCTTTAACTACTACGGCACCGTCggat                           >  1:1957960/1‑69 (MQ=255)
                                         gAAACCAACGCATATGATTGGCGGTTACGCGCAGCTGGCCTGGGGCTTTAACTACTACGGCACCGTCggat                           >  1:1801658/1‑69 (MQ=255)
                                          aaaCCGACGCATATGATCGGCGGCTATGCCCATCTGGCATACGGCTTTAACTACTATGGCACCGTAGGTTc                          >  1:1058404/1‑71 (MQ=255)
                                           aaCCGACGCATATGATCGGCGGCTATGCCCATCTGGCATACGGCTTTaa                                               >  1:462480/1‑49 (MQ=255)
                                           aaCCGACGCATATGATCGGCGGCTATGCCCATCTGGCATACGGCTTTAACTACTATGGCACCGTAGGTTCt                         <  1:5628827/71‑1 (MQ=255)
                                           aaCCAACGCATATGATTGGCGGTTACGCGCAGCTGGCCTGGGGCTTTAACTACTACGGCACCGTCGGATcg                         <  1:2752210/71‑2 (MQ=255)
                                           aaCCAACGCATATGATTGGCGGTTACGCGCAGCTGGCCTGGGGCTTTAACTACTACGGCACCGTCGGATc                          >  1:2485470/1‑70 (MQ=255)
                                            aCCGACGCATATGATCGGCGGCTATGCCCATCTGGCATACGGCttt                                                 <  1:4869451/46‑1 (MQ=255)
                                            aCCAACGCATATGATTGGCGGTTACGCGCAGCTGGCCTGGGGCTTTAACTACTACGGCACCGTCGGATcga                        <  1:1155060/71‑3 (MQ=255)
                                             ccaaCGCATATGATTGGCGGTTACGCGCAGCTGGCCTGGGGCTTTAACTACTACGGCACCGTCGGATCGaa                       <  1:2363058/68‑1 (MQ=255)
                                             ccGACGCATATGATCGGCGGCTATGCCCATCTGGCATACGGCTTTAACTACTATGGCACCGTAGGTTCTaa                       <  1:3133452/71‑1 (MQ=255)
                                               gACGCATATGATCGGCGGCTATGCCCATCTGGCATACGGCttt                                                 <  1:3878354/43‑1 (MQ=255)
                                                aCGCATATGATTGGCGGTTACGCGCAGCTGGCCTGGGGCTTTAACTACTACGGCACCGTCGGATCGAACcg                    >  1:194914/1‑71 (MQ=255)
                                                  gCATATGATCGGCGGCTATGCCCATCTGGCATACGGCTTTAACTACTATGGCACCGTAGGTTCTAACcgc                   >  1:1627846/1‑70 (MQ=255)
                                                    atatGATTGGCGGTTACGCGCAGCTGGCCTGGGGCTTTAACTACTACGGCACCGTCGGATCGAACCGCGAt                <  1:2074863/71‑1 (MQ=255)
                                                    atatGATCGGCGGCTATGCCCATCTGGCATACGGCTTTAACTACTATGGCACCGTAGGTTCTAACCGCGAt                <  1:1623867/71‑1 (MQ=255)
                                                     tatGATTGGCGGTTACGCGCAGCTGGCCTGGGGCTTTAACTACTACGGCGCCGtcg                              <  1:1800593/56‑3 (MQ=255)
                                                     tatGATTGGCGGTTACGCGCAGCTGGCCTGGGGCTTTAACTACTACGGCACCGtcg                              >  1:4731269/1‑54 (MQ=255)
                                                     tatGATCGGCGGCTATGCCCATCTGGCATACGGCttt                                                 <  1:4150475/37‑1 (MQ=255)
                                                     tatGATCGGCGGCTATGCCCATCTGGCATACGGCttt                                                 <  1:3473633/37‑1 (MQ=255)
                                                     tatGATCGGCGGCTATGCCCATCTGGCATACGGCttt                                                 <  1:737849/37‑1 (MQ=255)
                                                     tatGATCGGCGGCTATGCCCATCTGGCATACGGCTTTAACTACTATGGCACCGTAGGTTCt                         <  1:2636473/61‑1 (MQ=255)
                                                     tatGATCGGCGGCTATGCCCATCTGGCATACGGCTTTAACTACTATGGCACCGTAGGTTCTAACCGCGATg               <  1:387810/71‑1 (MQ=255)
                                                     tatGATCGGCGGCTATGCCCATCTGGCATACGGCTTTAACTACTATGGCACCGTAGGTTCTAACCGCGATg               <  1:5284471/71‑1 (MQ=255)
                                                      atGATCGGCGGCTATGCCCATCTGGCATACGGCTTTAACTACTATGGCACCGTAGGTTCt                         <  1:3015777/60‑1 (MQ=255)
                                                       tGATTGGCGGTTACGCGCAGCTGGCCTGGGGCTTTAACTACTACGGCACCGTCGGATCGAACCGCGAt                >  1:480016/1‑68 (MQ=255)
                                                       tGATTGGCGGTTACGCGCAGCTGGCCTGGGGCTTTAACTACTACGGCACCGTCGGATCGAACCGCGATg               <  1:1835323/69‑1 (MQ=255)
                                                       tGATTGGCGGTTACGCGCAGCTGGCCTGGGGCTTTAACTACTACGGCACCGTCGGATCGAACCGCGATg               <  1:1093244/69‑1 (MQ=255)
                                                       tGATTGGCGGTTACGCGCAGCTGGCCTGGGGCTTTAACTACTACGGCACCGTCGGATCGAACCGCGATGa              >  1:3248356/1‑70 (MQ=255)
                                                       tGATTGGCGGTTACGCGCAGCTGGCCTGGGGCTTTAACTACTACGGCACCGTCGGATCGAACCGCGATGa              <  1:3098752/70‑1 (MQ=255)
                                                       tGATTGGCGGTTACGCGCAGCTGGCCTGGGGCTTTAACTACTACGGCACCGTCGGATCGAACCGCGATGAg             >  1:4471661/1‑71 (MQ=255)
                                                       tGATCGGCGGCTATGCCCATCTGGCATACGGCTTTaa                                               >  1:5210063/1‑37 (MQ=255)
                                                       tGATCGGCGGCTATGCCCATCTGGCATACGGCTTTaa                                               >  1:4231638/1‑37 (MQ=255)
                                                       tGATCGGCGGCTATGCCCATCTGGCATACGGCTTTAACTACTATGGCACCGTAGGTTCTAACCGCGATGAg             <  1:5188796/71‑1 (MQ=255)
                                                        gATTGGCGGTTACGCGCAGCTGGCCTGGGGCTTTAACTACTACGGCACCGTCGGATCGAACCGCGATGAGt            >  1:805842/1‑71 (MQ=255)
                                                        gATCGGCGGCTATGCCCATCTGGCATACGGCTTTAACTACTATGGCACCg                                 >  1:2545977/1‑50 (MQ=255)
                                                        gATCGGCGGCTATGCCCATCTGGCATACGGCTTTAACTACTATGGCACCg                                 >  1:2255828/1‑50 (MQ=255)
                                                        gATCGGCGGCTATGCCCATCTGGCATACGGCTTTAACTACTATGGCACCg                                 >  1:3029433/1‑50 (MQ=255)
                                                        gATCGGCGGCTATGCCCATCTGGCATACGGCTTTAACTACTATGGCACCg                                 >  1:3139929/1‑50 (MQ=255)
                                                        gATCGGCGGCTATGCCCATCTGGCATACGGCTTTAACTACTATGGCACCGTAGGTTCTAACCGCGATGAGt            >  1:2967366/1‑71 (MQ=255)
                                                          ttggcggtTACGCGCAGCTGGCCTGGGGCTTTAACTACTACGGCACCGTCGGATCGAACCGCGATGAGttc          <  1:4466787/69‑2 (MQ=255)
                                                          ttggcggtTACGCGCAGCTGGCCTGGGGCTTTAACTACTACGGCACCGTCGGATCGAACCGCGATGAGttc          <  1:3090538/69‑2 (MQ=255)
                                                           tggcggtTACGCGCAGCTGGCCTGGGGCTTTAACTACTACGGCACCGTCGGATCGAACCGCGATGAGttca         >  1:4320174/2‑69 (MQ=255)
                                                             gcggcTATGCCCATCTGGCATACGGCTTTAACTACTATGGCACCGt                                <  1:2652078/46‑1 (MQ=255)
                                                              cggcTATGCCCATCTGGCATACGGCTTTAACTACTATGGCACCGTAGGTTCTAACCGCGATGAGTttgttg      <  1:3619986/71‑1 (MQ=255)
                                                              cggcTATGCCCATCTGGCATACGGCTTTAACTACTATGGCACCGTAGGTTCTAACCGCGATGAGTttgttg      <  1:809850/71‑1 (MQ=255)
                                                                 cTATGCCCATCTGGCATACGGCTTTAACTACTATGGCACCGTAGGTTCTAACCGCGATGAGTTTGTTGTa    >  1:3173179/1‑70 (MQ=255)
                                                                 cTATGCCCATCTGGCATACGGCTTTAACTACTATGGCACCGTAGGTTCTAACAGCGATGAGttt          >  1:4370012/1‑64 (MQ=255)
                                                                   aTGCCCATCTGGCATACGGCTTTAACTACTATGGCACCGTATGTTCTAACcgcg                  <  1:3713206/54‑1 (MQ=255)
                                                                   aTGCCCATCTGGCATACGGCTTTAACTACTATGGCACCGTAGGTTCTAACcgcg                  <  1:324015/54‑1 (MQ=255)
                                                                    tGCCCATCTGGCATACGGCTTTAACTACTATGGCACCGTAGGTTCTAACCGCGATGAGTttg         <  1:4504329/62‑1 (MQ=255)
                                                                    |                                                                    
CAGCGTGGTGGTATCCATAACTCGGTCACCCGTATCACGCCGAAACCGACGCATATGATCGGCGGCTATGCCCATCTGGCATACGGCTTTAACTACTATGGCACCGTAGGTTCTAACCGCGATGAGTTTGTTGTAGT  >  minE/835080‑835216

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A