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 F21 I0 R1 2169 63.0 3952800 76.2% 3012033 62.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 1,826,285 A→G 17.0% I13I (ATT→ATC)  hydN ← formate dehydrogenase‑H, [4Fe‑4S] ferredoxin subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,826,2850AG17.0% 228.3 / 37.6 100I13I (ATT→ATC) hydNformate dehydrogenase‑H, [4Fe‑4S] ferredoxin subunit
Reads supporting (aligned to +/- strand):  ref base A (45/38);  new base G (11/6);  total (56/44)
Fisher's exact test for biased strand distribution p-value = 5.93e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 101 total aligned reads displayed.

GGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGTTAATGCGCC  >  minE/1826215‑1826354
                                                                      |                                                                     
gggTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCa                                                                       <  1:3188542/71‑1 (MQ=255)
   tCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATa                                                                    <  1:1551969/71‑1 (MQ=255)
   tCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATa                                                                    <  1:1548548/71‑1 (MQ=255)
     aGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACa                                                                  <  1:3711314/71‑1 (MQ=255)
     aGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGTCAACCAATAc                                                                   <  1:257914/70‑1 (MQ=255)
     aGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACa                                                                  >  1:456722/1‑71 (MQ=255)
     aGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACa                                                                  <  1:2733904/71‑1 (MQ=255)
     aGCGATGCAAAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACa                                                                  >  1:3773237/1‑71 (MQ=255)
       cGATGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACAtt                                                                >  1:1524184/1‑71 (MQ=255)
         aTGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGTAACCAATACATTTa                                                              >  1:1004968/1‑71 (MQ=255)
          tGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTAc                                                             >  1:3501009/1‑71 (MQ=255)
          tGCACAGTCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTAc                                                             <  1:2996749/71‑1 (MQ=255)
              cattCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTc                                                           <  1:3592228/66‑1 (MQ=255)
               aatCCTGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTcgca                                                        <  1:3886121/69‑2 (MQ=255)
                 tCCTGATTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTc                                                      <  1:2760197/71‑1 (MQ=255)
                    tGATTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATccg                                                    >  1:3303453/1‑68 (MQ=255)
                      aTTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTcgc                                                         >  1:3706805/1‑63 (MQ=255)
                      aTTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCaa                                                 >  1:2801771/1‑71 (MQ=255)
                      aTTTTCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCaa                                                 >  1:1252820/1‑71 (MQ=255)
                      aTTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATccg                                                    >  1:2860902/1‑66 (MQ=255)
                      aTTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGc                                                   <  1:1301137/69‑1 (MQ=255)
                      aTTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCaa                                                 >  1:2018472/1‑71 (MQ=255)
                      aTTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCaa                                                 >  1:2167744/1‑71 (MQ=255)
                      aTTCTCATGATGCGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCaa                                                 >  1:2380664/1‑71 (MQ=255)
                       ttttCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAat                                                <  1:1880420/71‑1 (MQ=255)
                        tttCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTcg                                                          >  1:1066757/1‑60 (MQ=255)
                        tttCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTcg                                                          >  1:783581/1‑60 (MQ=255)
                        tttCCTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTc                                                      <  1:1525199/64‑1 (MQ=255)
                            cTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGc                                                   <  1:184737/63‑1 (MQ=255)
                            cTGATGAGAAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAAtgatga                                           <  1:585801/71‑1 (MQ=255)
                             tgatgcGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCAATAATaaa                                          >  1:3912037/1‑71 (MQ=255)
                              gatgcGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCAATAATaaac                                         >  1:829433/1‑70 (MQ=255)
                               atgcGACACTGCGCAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCAATAATaaac                                         <  1:3390769/70‑2 (MQ=255)
                                tgaGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACAttt                                                               <  1:3449270/47‑1 (MQ=255)
                                tgaGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACg                                       >  1:3370607/1‑71 (MQ=255)
                                 gagaAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCaa                                                 >  1:1160774/1‑60 (MQ=255)
                                  agaAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGt                                     >  1:1502972/1‑71 (MQ=255)
                                  agaAACCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGt                                     <  1:3194102/71‑1 (MQ=255)
                                   gaAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAatgat                                             >  1:3120871/1‑62 (MQ=255)
                                   gaAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAatgat                                             >  1:529211/1‑62 (MQ=255)
                                   gaAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAatgat                                             >  1:2146661/1‑62 (MQ=255)
                                   gaAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGt                                     >  1:2359820/1‑70 (MQ=255)
                                    aaaCCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGtt                                    >  1:2441630/1‑70 (MQ=255)
                                    aaaCCACGCACGCTACTTCACAGGTACGGCAACCAATACa                                                                  <  1:3453150/40‑1 (MQ=255)
                                    aaaCCACGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTc                                                           <  1:2575076/47‑1 (MQ=255)
                                     aaCCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAAtgatga                                           <  1:3015079/62‑1 (MQ=255)
                                      actgcgcAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCAATAATAAACCGGTtcat                                 <  1:1392119/68‑1 (MQ=255)
                                      aCCACGCACGCTACTTCACAGGTACGGCAACCAATACAtt                                                                >  1:777117/1‑40 (MQ=255)
                                       ccGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTtcat                                 >  1:221195/1‑70 (MQ=255)
                                        tgcgcAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCa                                                  >  1:3328465/2‑52 (MQ=255)
                                        tgcgcAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCa                                                  >  1:729198/2‑52 (MQ=255)
                                        tgcgcAAGCCACTTCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCAATAATAAACCGGTtcatga                               >  1:3730334/2‑69 (MQ=255)
                                         gcgcAAGCCACTTCACAGGTACGGCAACCGATACa                                                                  >  1:571261/1‑35 (MQ=25)
                                          cgcACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTtcat                                 >  1:135977/1‑67 (MQ=255)
                                          cgcACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCaaa                             <  1:201223/71‑1 (MQ=255)
                                           gcACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAAt                            <  1:384788/71‑1 (MQ=255)
                                           gcACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAAt                            >  1:2888500/1‑71 (MQ=255)
                                            cACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAAtt                           <  1:2533518/71‑1 (MQ=255)
                                             aCGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATtc                          >  1:3439196/1‑71 (MQ=255)
                                             aCGCTACTTCACAAGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATtc                          <  1:768890/71‑1 (MQ=255)
                                                cTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGaaa                                         >  1:509398/1‑53 (MQ=255)
                                                 tACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACgg                                      <  1:731494/55‑1 (MQ=255)
                                                   cTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATtctc                        >  1:623207/1‑67 (MQ=255)
                                                   cTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAg                     >  1:1524017/1‑70 (MQ=255)
                                                    ttCACAGGTACGGCAACCGATACATTTCGTCGCATCCGCAATAATAAACCGGTtcatg                                <  1:3913877/58‑2 (MQ=255)
                                                    ttCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCaa                              <  1:520772/60‑1 (MQ=255)
                                                    ttCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAAt                            <  1:1090971/62‑1 (MQ=255)
                                                     tCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATtc                          >  1:3817360/1‑63 (MQ=255)
                                                      cacaGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAAt                 >  1:846647/1‑71 (MQ=255)
                                                       acaGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAACCGTTtcatca                               <  1:2554902/56‑1 (MQ=39)
                                                       acaGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAAt                 <  1:150715/70‑1 (MQ=255)
                                                        caGGTACGGCAACCGATACATTTCGTCGCATCCGCAATAATAAACCgg                                      <  1:303072/48‑1 (MQ=255)
                                                        caGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCTAATTCTCCAGCAAt                 <  1:1971432/69‑1 (MQ=255)
                                                        caGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGa               <  1:1440278/71‑1 (MQ=255)
                                                          ggTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAg                     <  1:502951/63‑1 (MQ=255)
                                                          ggTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGa               >  1:3907000/1‑69 (MQ=255)
                                                          gctACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACa             <  1:1055475/69‑1 (MQ=255)
                                                           gTACGGCAACCAATACATTTACTCGCGTCAGCAatg                                               <  1:2897238/36‑1 (MQ=255)
                                                           gTACGGCAACCAATACATTTACTCGCGTCAGCAatg                                               <  1:2496556/36‑1 (MQ=255)
                                                           gTACGGCAACCAATACATTTACTCGCGTCAGCAatg                                               <  1:1999394/36‑1 (MQ=255)
                                                           gTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACa             >  1:648548/1‑70 (MQ=255)
                                                             aCGGCAGCCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACa             >  1:1444928/1‑68 (MQ=255)
                                                             aCGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGt           >  1:3359709/1‑70 (MQ=255)
                                                             aCGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGt           >  1:3329676/1‑70 (MQ=255)
                                                             aCGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGt           >  1:711479/1‑70 (MQ=255)
                                                              cGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGtt          >  1:3017681/1‑70 (MQ=255)
                                                              cGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGt           <  1:2447215/69‑1 (MQ=255)
                                                              cGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGTTa         <  1:2747809/71‑1 (MQ=255)
                                                              cGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGTTa         <  1:1711542/71‑1 (MQ=255)
                                                               ggCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATtctc                        >  1:2940169/1‑55 (MQ=255)
                                                               ggCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAg                     >  1:3127079/1‑58 (MQ=255)
                                                               ggCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGtt          <  1:3891812/69‑1 (MQ=255)
                                                               ggCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGTTaa        >  1:3091133/1‑71 (MQ=255)
                                                               ggCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGTTaa        >  1:1368568/1‑71 (MQ=255)
                                                                 cAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGTTAATg      >  1:2650426/1‑71 (MQ=255)
                                                                  aaCCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGtt          <  1:3336418/66‑1 (MQ=255)
                                                                   aCCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGTTAATgcg    >  1:2225650/1‑71 (MQ=255)
                                                                     cAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGTTAATgcgc   >  1:1958373/1‑70 (MQ=255)
                                                                     cAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGTTAATGCGcc  >  1:3370349/1‑71 (MQ=255)
                                                                     cAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTAAAGCAATGACAGTTAATgcgc   >  1:749488/1‑70 (MQ=255)
                                                                      |                                                                     
GGGTCAGCGATGCACAGTCCTGATTTTCCTGATGAGAAACCGCGCACGCTACTTCACAGGTACGGCAACCAATACATTTACTCGCGTCAGCAATGATGAAACGGTTCATCAAATTCTCCAGCAATGACAGTTAATGCGCC  >  minE/1826215‑1826354

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