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 2,919,429 C→T 20.3% S89S (TCG→TCA)  argI ← ornithine carbamoyltransferase 1

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,919,4290CT20.3% 264.4 / 56.3 128S89S (TCG→TCA) argIornithine carbamoyltransferase 1
Reads supporting (aligned to +/- strand):  ref base C (60/42);  new base T (17/9);  total (77/51)
Fisher's exact test for biased strand distribution p-value = 6.55e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.08e-01

Only 100 of 137 total aligned reads displayed.

CTGACCATAGCCGCGATACTGAATACCGTCATACATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATAT  >  minE/2919363‑2919495
                                                                  |                                                                  
cTGACCATAGCCGCGATACTGAATACCGTCATACATGCGACCAAGCACGCGGGCAGTGTCTTTAATc                                                                    <  1:1424075/67‑1 (MQ=255)
cTGACCATAGCCGCGATACTGAATACCGTCATACATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGa                                                                  >  1:5649331/1‑69 (MQ=255)
cTGACCATAGCCGCGATACTGAATACCGTCATACATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGAct                                                                >  1:2343272/1‑71 (MQ=255)
 tGACCATAGCCGCGATACTGAATACCGTCATACATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGa                                                                  <  1:629304/68‑1 (MQ=255)
 tGACCATAGCCGCGATACTGAATACCGTCATACATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGActc                                                               >  1:5559379/1‑71 (MQ=255)
  gACCATAGCCGCGATACTGAATACCGTCATACATGCGACCAAGCACGCGGGCAGTGTCTTAAATCGActct                                                              >  1:2658552/1‑71 (MQ=255)
       tAGCGGCGATACTGAATACCGTCATACATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGACTCTTTAt                                                          <  1:1430247/70‑1 (MQ=255)
         gCCGCGATACTGAATACCGTCATACATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGa                                                                  >  1:2471840/1‑60 (MQ=255)
         accGCGATACTGAATGCCGTCATACATCCGCCCGAGAACCCGCGCGGTGTCCTTAATTGACTCTTTATgcc                                                       >  1:114803/2‑69 (MQ=255)
         accGCGATACTGAATGCCGTCATACATCCGCCCGAGAACCCGCGCGGTGTCCTTAATTGACTCTTTATgcc                                                       >  1:3168685/2‑69 (MQ=255)
          ccGCGATACTGAATGCCGTCATACATCCGCCCGAGAACCCGCGCGGTGTCCTTAATTGACTCTTTATgcc                                                       >  1:3837458/1‑68 (MQ=255)
            gcgATACTGAATGCCGTCATACATCCGCCCGAGAACCCGCGCGGTGTCCTTAATTGACTCTTTATGCCCaa                                                    <  1:1430620/71‑1 (MQ=255)
             cgATACTGAATGCCGTCATACATCCGCCCGAGAACCCGCGCGGTGTCCTTAATTGAct                                                                >  1:2446098/1‑58 (MQ=255)
             cgATACTGAATACCGTCATACATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGACTCtt                                                             <  1:1306294/61‑1 (MQ=255)
             cgATACTGAATACCGTCATACATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGACTCtt                                                             <  1:3285013/61‑1 (MQ=255)
             cgATACTGAATACCGTCATACATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAAt                                                   <  1:705228/71‑1 (MQ=255)
                tACTGAATACCGTCATACATGCGACCAAGCACGCGGGCAGTGTCTTTAATc                                                                    <  1:4917832/51‑1 (MQ=255)
                tACTGAATACCGTCATACATGCGACCAAGCACGCGGGCAGTGTCTTTAATc                                                                    <  1:75454/51‑1 (MQ=255)
                tACTGAATACCGTCATACATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCt                                                 <  1:548513/70‑1 (MQ=255)
                  cTGAATACCGTCATACATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGa                                                                  >  1:2172264/1‑51 (MQ=255)
                  cTGAATACCGTCATACATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGa                                                                  >  1:2246479/1‑51 (MQ=255)
                  cTGAATACCGTCATACATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTgg                                               <  1:3782015/70‑1 (MQ=255)
                  cTGAATACCGTCATACATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTGGc                                              >  1:5097980/1‑71 (MQ=255)
                    gAATACCGTCATACATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTGGCTg                                            >  1:761281/1‑71 (MQ=255)
                      aTACCGTCATACATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGACTCTTTATGa                                                        <  1:4920252/57‑1 (MQ=255)
                       tACCGTCATACATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCt                                                 >  1:3357756/1‑63 (MQ=255)
                       tACCGTCATACATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCt                                                 >  1:1709686/1‑63 (MQ=255)
                        aCCGTCATACATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGACTCtt                                                             <  1:52630/50‑1 (MQ=255)
                          cGTCATACATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTGGCTGCCGCtt                                      <  1:2251261/71‑1 (MQ=255)
                          cGTCATACATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTGGCTGCCGCtt                                      <  1:1396736/71‑1 (MQ=255)
                          cGTCATACATCCGCCCGAGAACCCGCGCGGTGTCCTTAATTGACTCTTTATGCCCAATCTGGCTGCCGCtc                                      >  1:5537000/1‑70 (MQ=255)
                          cGTCATACATCCGCCCGAGAACCCGCGCGGTGTCCTTAATTGACTCTTTATGCCCAATCTGGCTGCCGCtc                                      <  1:3275831/71‑2 (MQ=255)
                          cGTCATACATCCGCCCGAGAACCCGCGCGGTGTCCTTAATTGACTCTTTATGCCCAATCTGGCTGCCGCtc                                      <  1:1665900/71‑2 (MQ=255)
                           gTCATACATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTGGCTGCCGCTTg                                     >  1:1869083/1‑71 (MQ=255)
                           gTCATACATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTGGCTGCCGCTTg                                     >  1:4752809/1‑71 (MQ=255)
                           gTCATACATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTGGCTGCCGCTTg                                     <  1:94395/71‑1 (MQ=255)
                            tCATACATTCGACCAAGCACGCGGGCAGTGTCTTTAATCGACTCtt                                                             <  1:1357500/46‑1 (MQ=255)
                            tCATACATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTg                                                <  1:632779/59‑1 (MQ=255)
                            tCATACATCCGCCCGAGAACCCGCGCGGTGTCCTTAATTGACTCTTTATGCCCAATCTGGCTGCCGCTCgg                                    >  1:840455/1‑71 (MQ=255)
                              aTACATGCGACCAAGCACGCGGGCAGTGTCTTTAATc                                                                    >  1:4025508/1‑37 (MQ=255)
                              aTACATGCGACCAAGCACGCGGGCAGTGTCTTTAATc                                                                    >  1:5520744/1‑37 (MQ=255)
                              aTACATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGACTCTTTa                                                           >  1:3644727/1‑46 (MQ=255)
                              aTACATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGc                                  >  1:923912/1‑71 (MQ=255)
                              aTACATGCGACCAAGCACGCGAGCAGTGTCTTTAATCGACTCTTTa                                                           >  1:2356375/1‑46 (MQ=255)
                              aTACATCCGCCCGAGAACCCGCGCGGTGTCCTTAATTGACTCTTTATGCCCAATCTGGCTGCCGCTCggcc                                  >  1:3962020/1‑69 (MQ=255)
                               tACATGCGACCAAGCACGCGGGCAGTGTCTTTAATc                                                                    <  1:1540406/36‑1 (MQ=255)
                               tACATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGa                                                                  <  1:952870/38‑1 (MQ=255)
                               tACATCCGCCCGAGAACCCGCGCGGTGTCCTTAATTGACTCTTTATGCCCAATCTGGCTGCCGCTCGGccc                                 >  1:3542633/1‑71 (MQ=255)
                                aCATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGcc                                 >  1:4259163/1‑70 (MQ=255)
                                aCATCCGCCCGAGAACCCGCGCGGTGTCCTTAATTGACTCTTTATGCCCAATCTGGCTGCCGCTCGGccc                                 >  1:4988122/1‑70 (MQ=255)
                                aCATCCGCCCGAGAACCCGCGCGGTGTCCTTAATTGACTCTTTATGCCCAATCTGGCTGCCGCTCGGccc                                 >  1:5546291/1‑70 (MQ=255)
                                 cATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGAct                                                                >  1:5113304/1‑38 (MQ=255)
                                 cATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGAct                                                                >  1:5116345/1‑38 (MQ=255)
                                 cATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGAct                                                                >  1:2368551/1‑38 (MQ=255)
                                 cATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGcc                                 >  1:5194333/1‑69 (MQ=255)
                                 cATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGcc                                 >  1:4151673/1‑69 (MQ=255)
                                 cATGCGACCAACCACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGCCga                               <  1:2594551/71‑1 (MQ=255)
                                  aTGCGACCAAGCACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGcc                                 >  1:4380865/1‑68 (MQ=255)
                                   tGCGACCAAGCACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGcc                                 >  1:3635020/1‑67 (MQ=255)
                                   tGCGACCAAGCACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGcc                                 >  1:3080077/1‑67 (MQ=255)
                                    gCGACCAAGCACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTgg                                               >  1:1002154/1‑52 (MQ=255)
                                    gCGACCAAGCACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTGGCTGCCGCt                                       >  1:2186677/1‑60 (MQ=255)
                                    gCGACCAAGCACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGCCgaga                             >  1:4028116/1‑70 (MQ=255)
                                        ccAAGCACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGt                        <  1:22761/71‑1 (MQ=255)
                                         cAAGCACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGt                        <  1:867675/70‑1 (MQ=255)
                                         cAAGCACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTa                       <  1:4491596/71‑1 (MQ=255)
                                         cAAGCACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTa                       <  1:3437969/71‑1 (MQ=255)
                                          aaGCACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTaa                      >  1:3226887/1‑71 (MQ=255)
                                           aGCACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTaa                      <  1:4695923/70‑1 (MQ=255)
                                            gCACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGCCGAGATaa                          >  1:5623959/1‑65 (MQ=255)
                                             cACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTgg                                               >  1:1145620/1‑43 (MQ=255)
                                             cACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTgg                                               >  1:4564316/1‑43 (MQ=255)
                                             cACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTgg                                               >  1:2877340/1‑43 (MQ=255)
                                             cACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTgg                                               >  1:4376206/1‑43 (MQ=255)
                                             cACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGcc                                 <  1:4417167/57‑1 (MQ=255)
                                             cACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGt                        >  1:2871870/1‑66 (MQ=255)
                                             cACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAAcgc                   <  1:4518990/71‑1 (MQ=255)
                                             cACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAAcgc                   <  1:1254243/71‑1 (MQ=255)
                                             cACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAAcgc                   >  1:3650320/1‑71 (MQ=255)
                                              aCGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAAcgc                   <  1:5614383/70‑1 (MQ=255)
                                                      aGTGTCTTTAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCt          <  1:4949510/71‑1 (MQ=255)
                                                       gtgtCTTTAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTg         >  1:3233839/1‑71 (MQ=255)
                                                       gtgtCCTTAATTGACTCTTTATGCCCAATCTGGCTGCCGCTCGGCCCTAAATAGGTAACGCGCGCGCCCTg         >  1:2540900/1‑71 (MQ=255)
                                                         gtCTTTAATCGACTCTTTATGACCAATCTGGCTGCCGc                                        <  1:3099466/38‑1 (MQ=255)
                                                            tttAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTatc                     >  1:4138938/1‑52 (MQ=255)
                                                            tttAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAAcgcg                  <  1:1259835/57‑1 (MQ=255)
                                                            tttAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGa                 >  1:523689/1‑58 (MQ=255)
                                                            tttAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCa     >  1:5383000/1‑70 (MQ=255)
                                                            cttAATTGACTCTTTATGCCCAATCTGGCTGCCGc                                        <  1:5382499/34‑1 (MQ=25)
                                                            cttAATTGACTCTTTATGCCCAATCTGGCTGCCGc                                        <  1:1397946/34‑1 (MQ=25)
                                                             ttAATTGACTCTTTATGCCCAATCTGGCTGCCGCt                                       <  1:1857424/35‑1 (MQ=37)
                                                              tAATTGACTCTTTATGCCCAATCTGGCTGCCGCTCGGcccta                               <  1:3834253/42‑3 (MQ=21)
                                                              tAATTGACTCTTTATGCCCAATCTGGCTGCCGCTCGGCCCTAAATAGGTAACGCGCGCGCCCTGGTCaaat  >  1:5364924/1‑71 (MQ=255)
                                                              tAATTGACTCTTTATGCCCAATCTGGCTGCCGCTCGGCCCTAAATAGGTAACGCGCGCGCCCTGGTCaaat  >  1:1306106/1‑71 (MQ=255)
                                                              tAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAAcgc                   <  1:2132330/54‑1 (MQ=255)
                                                              tAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCatat  >  1:4699447/1‑71 (MQ=255)
                                                              tAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCa     <  1:4431115/68‑1 (MQ=255)
                                                               aaTCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGa                 >  1:1250657/1‑55 (MQ=255)
                                                                aTCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGt       >  1:5045680/1‑64 (MQ=255)
                                                                 tCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCa     <  1:2831777/65‑1 (MQ=255)
                                                                  |                                                                  
CTGACCATAGCCGCGATACTGAATACCGTCATACATGCGACCAAGCACGCGGGCAGTGTCTTTAATCGACTCTTTATGACCAATCTGGCTGCCGCTTGGGCCGAGATAAGTAACGCGAGCACCCTGGTCATAT  >  minE/2919363‑2919495

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