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 608,790 A→C 23.7% A488A (GCT→GCG)  pflB ← pyruvate formate lyase I

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE608,7900AC23.7% 199.7 / 90.8 135A488A (GCT→GCG) pflBpyruvate formate lyase I
Reads supporting (aligned to +/- strand):  ref base A (57/46);  new base C (13/19);  total (70/65)
Fisher's exact test for biased strand distribution p-value = 1.61e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.59e-01

Only 100 of 163 total aligned reads displayed.

CAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATCCATGCGCTCCATCACTTCATCATAGTTCAGGACATCGCCTTTGATC  >  minE/608721‑608859
                                                                     |                                                                     
cAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTag                                                                      >  1:1534630/1‑71 (MQ=255)
 agagagGCTTCGTAGCTGTACTTGTCGAGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTagc                                                                     >  1:3157256/1‑71 (MQ=255)
          tCGTAGCTGTACTTGTCGTGCATGTAGTGAATGATATTCAGCGCGCTGATGTACTGCACCGCCAGCCAGTc                                                            >  1:4167962/1‑71 (MQ=255)
           cGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTc                                                            <  1:2279433/70‑1 (MQ=255)
              agatGTACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGGCAGCCAGTCCAt                                                         >  1:2373097/4‑70 (MQ=255)
               gCTGTACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTagccagc                                                                 <  1:824590/61‑1 (MQ=255)
               gCTGTACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTagccagc                                                                 <  1:5332163/61‑1 (MQ=255)
               gCTGTACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATg                                                        >  1:4530813/1‑70 (MQ=255)
               gCTGTACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATg                                                        >  1:4338760/1‑70 (MQ=255)
               gCTGTACTTGTCGTGCATGTAGTGAATGATATTCAGCGCGCTGATGTACTGCACCGCCAGCCAGTCCATg                                                        <  1:1020106/70‑1 (MQ=255)
                cTGTACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATg                                                        >  1:3284711/1‑69 (MQ=255)
                  gTACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGt                                                    >  1:4273800/1‑71 (MQ=255)
                  gTACTTGTCGTGCATGTAGTGAATGATATTCAGCGCGCTGATGTACTGCACCGCCAGCCAGTCCATGAAGt                                                    >  1:1201001/1‑71 (MQ=255)
                   tACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTagc                                                                     <  1:2415906/53‑1 (MQ=255)
                   tACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTagc                                                                     <  1:565187/53‑1 (MQ=255)
                   tACTTGTCGTGCATGTAGTGAATGATATTCAGCGCGCTGATGTACTGCACCGCCAGCCAGTCCATGAAGTg                                                   <  1:4662897/71‑1 (MQ=255)
                   tACTTGTCGTGCATGTAGTGAATGATATTCAGCGCGCTGATGTACTGCACCGCCAGCCAGTCCATGAAGTg                                                   <  1:5146292/71‑1 (MQ=255)
                    aCTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGa                                                  >  1:538167/1‑71 (MQ=255)
                    aCTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGa                                                  >  1:5543885/1‑71 (MQ=255)
                    aCTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGa                                                  >  1:4961221/1‑71 (MQ=255)
                     cTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTagc                                                                     <  1:2815589/51‑1 (MQ=255)
                     cTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTagc                                                                     <  1:4455116/51‑1 (MQ=255)
                     cTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGAt                                                 <  1:80889/71‑1 (MQ=255)
                     cTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGAt                                                 <  1:628207/71‑1 (MQ=255)
                      ttGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTagcca                                                                   <  1:3823966/52‑1 (MQ=255)
                      ttGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATc                                                >  1:5420974/1‑71 (MQ=255)
                       tGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTTATGTACTGTTTagcca                                                                   >  1:4660148/1‑51 (MQ=255)
                       tGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTagcca                                                                   >  1:4194749/1‑51 (MQ=255)
                       tGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGAt                                                 >  1:3390186/1‑69 (MQ=255)
                       tGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGAt                                                 >  1:3428816/1‑69 (MQ=255)
                       tGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGAt                                                 >  1:2211188/1‑69 (MQ=255)
                       tGTCGTGCATGTAGTGGATGATGTTCACTGCAGTGATGTACTGTTTagcca                                                                   >  1:395611/1‑51 (MQ=255)
                        gTCTTGCATGTAGTGAATGATATTCAGCGCGCTGATGTACTGCACCGCCAGCCAGTCCATGAAGTGATc                                                <  1:1123840/69‑1 (MQ=255)
                        gTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATc                                                <  1:2985682/69‑1 (MQ=255)
                        gTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATc                                                <  1:5453829/69‑1 (MQ=255)
                        gTCGTGCATGTAGTGAATGATATTCAGCGCGCTGATGTACTGCACCGCCAGCCAGTCCATGAAGTGATc                                                <  1:2454362/69‑1 (MQ=255)
                         tCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATc                                                <  1:3352880/68‑1 (MQ=255)
                         tCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATCCAt                                             >  1:4930906/1‑71 (MQ=255)
                         tCGTGCATGTAGTGAATGATATTCAGCGCGCTGATGTACTGCACCGCCAGCCAGTCCATGAAGTGATcga                                              <  1:2636195/70‑3 (MQ=255)
                          cGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATCCATg                                            >  1:5019723/1‑71 (MQ=255)
                             gCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTagccagcc                                                                <  1:1966901/48‑1 (MQ=255)
                              cATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATCCATgcgc                                         <  1:35490/70‑1 (MQ=255)
                              cATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATCCATGCGCt                                        >  1:5178894/1‑71 (MQ=255)
                                tGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTagccagc                                                                 <  1:919093/44‑1 (MQ=255)
                                tGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTagcaagc                                                                 <  1:558436/44‑1 (MQ=255)
                                tGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATg                                                        <  1:3589835/53‑1 (MQ=255)
                                tGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATCCATGCGCTc                                       >  1:4003165/1‑70 (MQ=255)
                                tGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATCCATGCGCTc                                       >  1:3015956/1‑70 (MQ=255)
                                  tAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATCCATGCGCTCCAt                                    <  1:4527083/71‑1 (MQ=255)
                                  tAGTGAATGATATTCAGCGCGCTGATGTACTGCACCGCCAGCCAGTCCATGaa                                                      >  1:770928/1‑53 (MQ=12)
                                  tAGTGAATGATATTCAGCGCGCTGATGTACTGCACCGCCAGCCAGTCCATGaa                                                      >  1:5577554/1‑53 (MQ=12)
                                  tAGTGAATGATATTCAGCGCGCTGATGTACTGCACCGCCAGCCAGTCCATGaa                                                      >  1:1852218/1‑53 (MQ=12)
                                  tAGTGAATGATATTCAGCGCGCTGATGTACTGCACCGCCAGCCAGTCCATGAAGTGATc                                                <  1:1008395/59‑1 (MQ=255)
                                  tAGTGAATGATATTCAGCGCGCTGATGTACTGCACCGCCAGCCAGTCCATGAAGTGATc                                                <  1:1843464/59‑1 (MQ=255)
                                    gTGAATGATATTCAGCGCGCTGATGTACTGCACCGCCAGCCAGTCCATGAAg                                                     <  1:195627/52‑1 (MQ=12)
                                     tGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGa                                                       <  1:879306/49‑1 (MQ=255)
                                     tGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGa                                                       <  1:5271029/49‑1 (MQ=255)
                                     tGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATCCATGCGCTCCATCAc                                 <  1:954640/71‑1 (MQ=255)
                                     tGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATCCATGCGCTCCATCAc                                 <  1:2240940/71‑1 (MQ=255)
                                       gatgatGTTCAGTGCAGTGATGTACTGTTTagccag                                                                  <  1:3014893/36‑1 (MQ=255)
                                       gatgatGTTCAGTGCAGTGATGTACTGTTTagccag                                                                  <  1:921637/36‑1 (MQ=255)
                                       gatgatGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAg                                                     >  1:3481864/1‑49 (MQ=255)
                                       gatgatGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGAt                                                 >  1:4689700/1‑53 (MQ=255)
                                       gatgatGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATCCATGCGCTCCATCACt                                <  1:2768294/70‑1 (MQ=255)
                                       aatgataTTCAGCGCGCTGATGTACTGCACCGCCAGCCAGTCCATGAAGTGATCGAGGCTGTCCATCACtt                               >  1:1423752/2‑71 (MQ=255)
                                        atgataTTCAGCGCGCTGATGTACTGCACCGCCAGCCAGTCCATGAAGTGATCGAGGCTGTCCATCACttt                              >  1:4764583/1‑70 (MQ=255)
                                         tgataTTCAGCGCGCTGATGTACTGCACCGCCAGCCAGTCCATGAAGTGATCGAGGCTGTCCATCACtttg                             <  1:2684964/71‑3 (MQ=255)
                                         tgataTTCAGCGCGCTGATGTACTGCACCGCCAGCCAGTCCATGAAGTGATCGAGGCTGTCCATCACtttg                             <  1:1182116/71‑3 (MQ=255)
                                           atgTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATcc                                               >  1:4782532/1‑51 (MQ=255)
                                            tgTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATg                                                        <  1:5018171/41‑1 (MQ=255)
                                              ttCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATCCATGCGCTCCATCACTtcatca                          >  1:5059907/1‑69 (MQ=255)
                                              ttCAGCGCGCTGATGTACTGCACCGCCAGCCAGTCCATGAAGTGATCGAGGCTGTCCATCa                                  <  1:5063728/61‑1 (MQ=255)
                                               tCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATCCATGCGCTCCATCACTtcat                            >  1:1206162/1‑66 (MQ=255)
                                               tCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATCCATGCGCTCCATCACTTCATCATAg                       >  1:1383646/1‑71 (MQ=255)
                                               tCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATCCATGCGCTCCATCACTTCATCATAg                       >  1:4597266/1‑71 (MQ=255)
                                                cagtgcagtgATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATCCATGCGCTCCATCACTTCATCATAg                       >  1:528916/1‑70 (MQ=255)
                                                  gtgcagtgATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATCCATGCGCTCCATCACTTCATCATAGTTc                    <  1:1142408/71‑1 (MQ=255)
                                                  gtgcagtgATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATCCATGCGCTCCATCACTTCATCATAGTTc                    <  1:3086584/71‑1 (MQ=255)
                                                  gtgcagtgATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATCCATGCGCTCCATCACTTCATCATAGTTc                    <  1:5513822/71‑1 (MQ=255)
                                                   tgcagtgATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATcc                                               <  1:660559/43‑1 (MQ=255)
                                                      agtgATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATCCATGCGCTCCATCACTTCATCATAGTTCAgg                 <  1:3987384/70‑1 (MQ=255)
                                                       gtgATGTACTGTTTAGCCAGCCAGTCCATGAAGTGa                                                  >  1:1914363/1‑36 (MQ=255)
                                                       gtgATGTACTGTTTAGCCAGCCAGTCCATGAAGTGAt                                                 >  1:1336284/1‑37 (MQ=255)
                                                       gtgATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATcc                                               <  1:2905721/39‑1 (MQ=255)
                                                       gtgATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATCCATGCGCTCCATCACtt                               <  1:4432361/55‑1 (MQ=255)
                                                       gtgATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATCCATGCGCTCCATCACTTCATCATAGTTCAGGAc               <  1:2126794/71‑1 (MQ=255)
                                                        tgATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATCCATGCGCTCCATCACTTCATCATAGTTCa                   <  1:2086920/66‑1 (MQ=255)
                                                        tgATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATCCATGCGCTCCATCACTTCATCATAGTTCAGGAc               <  1:1278528/70‑1 (MQ=255)
                                                        tgATGTACTGCACCGCCAGCCAGTCCATGAAGTGATc                                                <  1:4753590/37‑1 (MQ=21)
                                                        tgATGTACTGCACCGCCAGCCAGTCCATGAAGTGATCGAGGCTGTCCATCa                                  <  1:5043685/51‑1 (MQ=255)
                                                             tACTGTTTAGCCAGCCAGTCCATGAAGTGATCCATGCGCTCCa                                     <  1:4835358/43‑1 (MQ=255)
                                                                tGTTTAGCCAGCCAGTCCATGAAGTGATCCATGCGCTCCATCACTTCATCATAGTTCAGGACATCGCCttt      >  1:687099/1‑71 (MQ=255)
                                                                 gTTTAGCCAGCCAGTCCATGAAGTGATCCATGCGCTCCa                                     >  1:524488/1‑39 (MQ=255)
                                                                 gTTTAGCCAGCCAGTCCATGAAGTGATCCATGCGCTCCa                                     >  1:4808103/1‑39 (MQ=255)
                                                                 gTTTAGCCAGCCAGTCCATGAAGTGATCCATGCGCTCCa                                     >  1:1775835/1‑39 (MQ=255)
                                                                 gTTTAGCCAGCCAGTCCATGAAGTGATCCATGCGCTCCATCACTTCATCATAGTTCAGGACATCGCCttt      >  1:610017/1‑70 (MQ=255)
                                                                    tAGCCAGCCAGTCCATGAAGTGATCCATGCGCTCCATCa                                  >  1:2599519/1‑39 (MQ=255)
                                                                    tAGCCAGCCAGTCCATGAAGTGATCCATGCGCTCCATCACTTCATCATAGTTCAGGACATCGCCTTTGATc  >  1:2921449/1‑71 (MQ=255)
                                                                    tAGCCAGCCAGTCCATGAAGTGATCCATGCGCTCCATCACTTCATCATAGTTCAGGACATCGCCTTTGATc  >  1:5209155/1‑71 (MQ=255)
                                                                    tAGCCAGCCAGTCCATGAAGTGATCCATGCGCTCCATCACTTCATCATAGTTCAGGACATCGCCTTTGATc  >  1:2914802/1‑71 (MQ=255)
                                                                     |                                                                     
CAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATCCATGCGCTCCATCACTTCATCATAGTTCAGGACATCGCCTTTGATC  >  minE/608721‑608859

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A