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 608,766 G→A 31.4% N496N (AAC→AAT)  pflB ← pyruvate formate lyase I

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE608,7660GA31.4% 300.7 / 175.4 223N496N (AAC→AAT) pflBpyruvate formate lyase I
Reads supporting (aligned to +/- strand):  ref base G (77/76);  new base A (28/42);  total (105/118)
Fisher's exact test for biased strand distribution p-value = 1.93e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.64e-01

Only 100 of 236 total aligned reads displayed.

TAACGTCACGGTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATCCATGCGCTCCATCACTTCATCA  >  minE/608696‑608835
                                                                      |                                                                     
  acatCACGATCGTGCAGCGCCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGAATGATAtt                                                                     <  1:4782496/68‑1 (MQ=255)
  aCGTCACGGTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGtt                                                                     <  1:392572/71‑1 (MQ=255)
   catCACGATCGTGCAGCGCCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGAATGATAtt                                                                     >  1:3770710/3‑70 (MQ=255)
    atCACGATCGTGCAGCGCCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGAATGATATTca                                                                   <  1:2054779/70‑1 (MQ=255)
    atCACGATCGTGCAGCGCCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGAATGATATTca                                                                   <  1:5568922/70‑1 (MQ=255)
       aCGGTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGTTcagtg                                                                <  1:2905936/71‑1 (MQ=255)
       aCGATCGTGCAGCGCCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGAATGATATTcagcg                                                                >  1:323897/1‑69 (MQ=255)
       aCGATCGTGCAGCGCCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGAATGATATTcagcg                                                                >  1:2214593/1‑69 (MQ=255)
        cgatCGTGCAGCGCCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGAATGATATTcag                                                                  >  1:1028952/4‑68 (MQ=255)
        cgatCGTGCAGCGCCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGAATGATATTcag                                                                  >  1:3621482/4‑68 (MQ=255)
          gTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGTTcagtgcag                                                             >  1:3504231/1‑71 (MQ=255)
          gTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGTTcagtgcag                                                             >  1:3317045/1‑71 (MQ=255)
               gCAGCGCCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGAATGATATTCAGCGCGCTGATg                                                        >  1:172179/1‑71 (MQ=255)
               gCAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGTTca                                                                   <  1:4621510/60‑1 (MQ=255)
               gCAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATg                                                        >  1:5244114/1‑71 (MQ=255)
               gCAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATg                                                        >  1:2277605/1‑71 (MQ=255)
                cAGCGCCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGAATGATATTCAGCGCGCTGATg                                                        <  1:1965890/70‑1 (MQ=255)
                cAGCGCCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGAATGATATTCAGCGCGCTGATGt                                                       <  1:4858122/71‑1 (MQ=255)
                cAGCGCCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGAATGATATTCAGCGCGCTGATGt                                                       <  1:470009/71‑1 (MQ=255)
                cAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATg                                                        >  1:1228218/1‑70 (MQ=255)
                cAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATg                                                        <  1:2351756/70‑1 (MQ=255)
                  gcgcCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGAATGATAtt                                                                     <  1:1676327/55‑1 (MQ=255)
                   cgcCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGAATGATATTCAGCGCGCTGATGTACt                                                    <  1:1537417/71‑1 (MQ=255)
                   cgcCATCAGCGAAGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGAATGATATTCAGCGCGCTGATGTACt                                                    <  1:2579433/71‑1 (MQ=255)
                    gcCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTg                                                   <  1:3739247/71‑1 (MQ=255)
                      cATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTg                                                   >  1:1419436/1‑69 (MQ=255)
                      cATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTg                                                   >  1:2101143/1‑69 (MQ=255)
                      cATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGtt                                                 <  1:609636/71‑1 (MQ=255)
                        tCAGCGAAGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGAATGATATTcag                                                                  >  1:3070682/1‑52 (MQ=255)
                        tCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGTTcagtgca                                                              <  1:1877917/56‑1 (MQ=255)
                        tCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGTTcagtgca                                                              <  1:217065/56‑1 (MQ=255)
                          agagagGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGttt                                                >  1:2964557/1‑68 (MQ=255)
                          agagagGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTagc                                             >  1:4505278/1‑71 (MQ=255)
                          agagagGCTTCGTAGCTGTACTTGTCGAGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTagc                                             >  1:3157256/1‑71 (MQ=255)
                             gagGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTagccag                                          >  1:974728/1‑71 (MQ=255)
                              agGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGTTcagtg                                                                <  1:2750183/48‑1 (MQ=255)
                              agGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGTTcagtg                                                                <  1:928533/48‑1 (MQ=255)
                                   tCGTAGCTGTACTTGTCGTGCATGTAGTGAATGATATTc                                                                    >  1:5482621/1‑39 (MQ=38)
                                   tCGTAGCTGTACTTGTCGTGCATGTAGTGAATGATATTc                                                                    >  1:536302/1‑39 (MQ=38)
                                   tCGTAGCTGTACTTGTCGTGCATGTAGTGAATGATATTCAGCGCGCTGATGTACTGCACCGCCAGCCAGTc                                    >  1:4167962/1‑71 (MQ=255)
                                    cGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGTTcag                                                                  >  1:2385686/1‑40 (MQ=255)
                                       aGCTGTACTTGTCGTGCATGTAGTGGATGATGTTcagtgctgt                                                            <  1:4910145/43‑1 (MQ=255)
                                       aGCTGTACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCAt                                 >  1:2913572/1‑70 (MQ=255)
                                        gCTGTACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGa                                                          >  1:3949930/1‑44 (MQ=255)
                                        gCTGTACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGa                                                          >  1:1453534/1‑44 (MQ=255)
                                        gCTGTACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTagccagc                                         <  1:824590/61‑1 (MQ=255)
                                        gCTGTACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATg                                >  1:4338760/1‑70 (MQ=255)
                                         cTGTACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATg                                >  1:3284711/1‑69 (MQ=255)
                                          tGTACTTGTCGTGCATGTAGTGAATGATATTcagcgc                                                               >  1:4978199/1‑37 (MQ=25)
                                           gTACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGt                                                  <  1:988713/49‑1 (MQ=255)
                                           gTACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGt                            >  1:4273800/1‑71 (MQ=255)
                                           gTACTTGTCGTGCATGTAGTGAATGATATTCAGCGCGCTGATGTACTGCACCGCCAGCCAGTCCATGAAGt                            >  1:1201001/1‑71 (MQ=255)
                                            tACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTagc                                             <  1:565187/53‑1 (MQ=255)
                                            tACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTagc                                             <  1:2415906/53‑1 (MQ=255)
                                            tACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTagc                                             <  1:1791742/53‑1 (MQ=255)
                                            tACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAg                             <  1:648144/69‑1 (MQ=255)
                                            tACTTGTCGTGCATGTAGTGAATGATATTCAGCGCGCTGATGTACTGCACCGCCAGCCAGTCCATGAAGTg                           <  1:808091/71‑1 (MQ=255)
                                            tACTTGTCGTGCATGTAGTGAATGATATTCAGCGCGCTGATGTACTGCACCGCCAGCCAGTCCATGAAGTg                           <  1:5146292/71‑1 (MQ=255)
                                            tACTTGTCGTGCATGTAGTGAATGATATTCAGCGCGCTGATGTACTGCACCGCCAGCCAGTCCATGAAGTg                           <  1:4662897/71‑1 (MQ=255)
                                             aCTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGa                          >  1:538167/1‑71 (MQ=255)
                                             aCTTGTCGTGCATGTAGTGAATGATATTCAGCGCGCTGATGTACTgca                                                 <  1:912092/48‑3 (MQ=255)
                                              cTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTagc                                             <  1:4455116/51‑1 (MQ=255)
                                               ttGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTagcca                                           <  1:284552/52‑1 (MQ=255)
                                               ttGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTagcca                                           <  1:531762/52‑1 (MQ=255)
                                                tGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTagcca                                           >  1:317845/1‑51 (MQ=255)
                                                tGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTagcca                                           >  1:4194749/1‑51 (MQ=255)
                                                tGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGAt                         >  1:3390186/1‑69 (MQ=255)
                                                tGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGAt                         >  1:3428816/1‑69 (MQ=255)
                                                tGTCGTGCATGTAGTGGATGATGTTCACTGCAGTGATGTACTGTTTagcca                                           >  1:395611/1‑51 (MQ=255)
                                                tGTCGTGCATGTAGTGAATGATATTCAGCGCGCTGATGTACTGCACAGCCAGCCAGTCCATGAAGTGAt                         >  1:1192260/1‑69 (MQ=255)
                                                 gTCTTGCATGTAGTGAATGATATTCAGCGCGCTGATGTACTGCACCGCCAGCCAGTCCATGAAGTGATc                        <  1:1123840/69‑1 (MQ=255)
                                                 gTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTc                                    >  1:5177967/1‑57 (MQ=255)
                                                 gTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATc                        <  1:5453829/69‑1 (MQ=255)
                                                 gTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATc                        <  1:2985682/69‑1 (MQ=255)
                                                 gTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATc                        <  1:4102748/69‑1 (MQ=255)
                                                 gTCGTGCATGTAGTGAATGATATTCAGCGCGCTGATGTACTGCACCGCCAGCCAGTCCATGAAGTGATc                        <  1:2454362/69‑1 (MQ=255)
                                                  tCGTGCATGTAGTGAATGATATTCAGCGCGCTGATGTACTGCACCGCCAGCCAGTCCATGAAGTGATcga                      <  1:2636195/70‑3 (MQ=255)
                                                   cGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATCCATg                    >  1:5019723/1‑71 (MQ=255)
                                                    gTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGtt                                                 >  1:3791247/1‑41 (MQ=255)
                                                    gTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGt                                                  >  1:2618236/1‑40 (MQ=255)
                                                       cATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATCCATgcgc                 <  1:35490/70‑1 (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)
                                                           tAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCa                                  <  1:1974467/49‑1 (MQ=255)
                                                           tAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATCCATGCGCTCCa             <  1:4580983/70‑1 (MQ=255)
                                                           tAGTGAATGATATTCAGCGCGCTGATGTACTGCACCGCCAGCCAGTCCATGaa                              >  1:770928/1‑53 (MQ=12)
                                                           tAGTGAATGATATTCAGCGCGCTGATGTACTGCACCGCCAGCCAGTCCATGaa                              >  1:1852218/1‑53 (MQ=12)
                                                           tAGTGAATGATATTCAGCGCGCTGATGTACTGCACCGCCAGCCAGTCCATGAAGTGATc                        <  1:1008395/59‑1 (MQ=255)
                                                             gTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATCCATGCGCTCCATCa          <  1:2696829/71‑1 (MQ=255)
                                                             gTGAATGATATTCAGCGCGCTGATGTACTGCACCGCCAGCCAGTCCATGAAGTGATCGAGGCTGTCCATCa          >  1:2323210/1‑71 (MQ=255)
                                                              tGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATCCATGCGCTCCATCAc         <  1:2240940/71‑1 (MQ=255)
                                                                gatgatGTTCAGTGCAGTGATGTACTGTTTagccag                                          <  1:921637/36‑1 (MQ=255)
                                                                gatgatGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGa                               >  1:5534629/1‑47 (MQ=255)
                                                                gatgatGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAg                             >  1:3481864/1‑49 (MQ=255)
                                                                gatgatGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGAt                         >  1:1952591/1‑53 (MQ=255)
                                                                gatgatGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATCCATGCGCTCCATCACt        <  1:2768294/70‑1 (MQ=255)
                                                                 atgataTTCAGCGCGCTGATGTACTGCACCGCCAGCCAGTCCATGAAGTGATCGAGGCTGTCCATCACttt      >  1:4764583/1‑70 (MQ=255)
                                                                     tgTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATg                                <  1:5018171/41‑1 (MQ=255)
                                                                      |                                                                     
TAACGTCACGGTCGTGCAGCGCCATCAGAGAGGCTTCGTAGCTGTACTTGTCGTGCATGTAGTGGATGATGTTCAGTGCAGTGATGTACTGTTTAGCCAGCCAGTCCATGAAGTGATCCATGCGCTCCATCACTTCATCA  >  minE/608696‑608835

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