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 288,960 A→G 21.5% Y535C (TAC→TGC)  lon → DNA‑binding ATP‑dependent protease La

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE288,9600AG21.5% 124.3 / 31.7 65Y535C (TAC→TGC) lonDNA‑binding ATP‑dependent protease La
Reads supporting (aligned to +/- strand):  ref base A (26/25);  new base G (3/11);  total (29/36)
Fisher's exact test for biased strand distribution p-value = 6.95e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.67e-01

GTAATGCACTGAAAAAAGGTGAGCTGACCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTACACCCGTGAGGCGGGCGTGCGTGGTCTGGAGCGTGAAATCTCCAAACTGTGTCGCAAAGCGGTTAAG  >  minE/288894‑289027
                                                                  |                                                                   
gTAATGCACTGAAAAAAGGTGAGCTGACCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTACAcc                                                                 >  1:1056939/1‑71 (MQ=255)
  aaTGCACTGAAAAAAGGTGAGCTGACCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTACACCCg                                                               >  1:1504363/1‑71 (MQ=255)
   aTGCACTGAAAAAAGGTGAGCTGACCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTACACCCg                                                               <  1:2214744/70‑1 (MQ=255)
     gCACTGAAAAAAGGTGAGCTGACCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTACACCCGt                                                              >  1:421098/1‑69 (MQ=255)
      cACTGAAAAAAGGTGAGCTGACCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTACACCCGTGa                                                            <  1:3226288/70‑1 (MQ=255)
       aCTGAAAAAAGGTGAGCTGACCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTACACCCGTGAgg                                                          >  1:439268/1‑71 (MQ=255)
        cTGAAAAAAGGTGAGCTGACCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTGCACCCGTGAggc                                                         >  1:2062540/1‑71 (MQ=255)
        cTGAAAAAAGGTGAGCTGACCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTACACCCGTGAggc                                                         <  1:2043932/71‑1 (MQ=255)
        cTGAAAAAAGGTGAGCTGACCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTACACCCGTGAggc                                                         <  1:2534275/71‑1 (MQ=255)
         tGAAAAAAGGTGAGCTGACCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTACACCCGTGAggcg                                                        >  1:1457060/1‑71 (MQ=255)
          gAAAAAAGGTGAGCTGACCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTACACCCGTGAggcgg                                                       >  1:1045856/1‑71 (MQ=255)
           aaaaaaGGTGAGCTGACCGTCGACGATAGCGCCATTATCGGCATTATTCGTtacta                                                                     >  1:2230485/1‑56 (MQ=255)
           aaaaaaGGTGAGCTGACCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTGCACCCGTGAggcg                                                        <  1:84072/69‑1 (MQ=255)
            aaaaaGGTGAGCTGACCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTACACCCGTGAggcgg                                                       >  1:3839235/1‑69 (MQ=255)
             aaaaGGTGAGCTGCCCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTGCACCCGTGAggcgggcg                                                    >  1:3283947/1‑71 (MQ=255)
              aaaGGTGAGCTGACCGTCGACGATAGCGCCATTATCGGCATTATTCGTtacta                                                                     <  1:2144653/53‑1 (MQ=255)
              aaaGGTGAGCTGACCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTACACCCGTGAGGCGGgcgt                                                   <  1:3167469/71‑1 (MQ=255)
              aaaGGTGAGCTGACCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTACACCCGTGAGGCGGgcgt                                                   <  1:2150512/71‑1 (MQ=255)
               aaGGTGAGCTGACCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTACACCCGTGAggcgggc                                                     >  1:836153/1‑68 (MQ=255)
                aGGTGAGCTGACCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTACACCCGTGAGGCGGgcgtgc                                                 <  1:1274228/71‑1 (MQ=255)
                  gtgtGCTGACCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTACACTCGTGAGGCGGgcgtgc                                                 <  1:515890/69‑1 (MQ=255)
                  gTGAGCTGACCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTACACCCGt                                                              <  1:892723/56‑1 (MQ=255)
                  gTGAGCTGACCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTACACCCGTGAGGCGGgcgtgcgt                                               >  1:608255/1‑71 (MQ=255)
                     aGCTGACCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTGCACCCGTGAGGCGGgcgtg                                                  <  1:950303/65‑1 (MQ=255)
                     aGCTGACCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTGCACCCGTGAGGCGGgcgtg                                                  <  1:1715755/65‑1 (MQ=255)
                     aGCTGACCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTGCACCCGTGAGGCGGGCGTGCGTGGt                                            <  1:1809154/71‑1 (MQ=255)
                     aGCTGACCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTGCACCCGTGAGGCGGGCGTGCGTGGt                                            <  1:1856618/71‑1 (MQ=255)
                      gCTGACCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTACACCCGTGAGGCGGGCGTGCGTGGTc                                           >  1:2267372/1‑71 (MQ=255)
                       cTGACCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTACACCCGTGAGGCGGgcgtgcg                                                <  1:902450/65‑1 (MQ=255)
                        tGACCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTACACCCGTg                                                             <  1:3884383/51‑1 (MQ=255)
                         gACCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTACACCCGTGAGGCGGGCGTGCGTGGTCTg                                         >  1:1747180/1‑70 (MQ=255)
                         gACCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTACACCCGTGAGGCGGGCGTGCGTGGTCTg                                         >  1:2326493/1‑70 (MQ=255)
                         gACCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTACACCCGTGAGGCGGGCGTGCGTGGTCTg                                         >  1:2331018/1‑70 (MQ=255)
                          aCCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTGCACCCGTGAGGCGGGCGTGCGTGGTCTg                                         <  1:395820/69‑1 (MQ=255)
                          aCCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTACACCCGTGAGGCGGgcgtgcg                                                >  1:3573116/1‑62 (MQ=255)
                          aCCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTACACCCGTGAGGCGGGCGTGCGTGGTCTg                                         <  1:938040/69‑1 (MQ=255)
                            cGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTACACCCGTGAGGCGGGCGTGCGTGGTCTGGAGc                                     <  1:2030135/71‑1 (MQ=255)
                             gTCGACGATAGCGCCATTATCGGCATTATTCGTTACTACACCCGTGAGGCGGGCGTGCGTGGTCTGGAGCg                                    <  1:877053/71‑1 (MQ=255)
                              tCGACGATAGCGCCATTATCGGCATTATTCGTTACTGCACCCGTGAggc                                                         <  1:3021992/49‑1 (MQ=255)
                              tCGACGATAGCGCCATTATCGGCATTATTCGTTACTGCACCCGTGAggc                                                         <  1:3416585/49‑1 (MQ=255)
                              tCGACGATAGCGCCATTATCGGCATTATTCGTTACTGCACCCGTGAGGCGGGCGTGCGTGGTCTGGAGCGt                                   <  1:3017262/71‑1 (MQ=255)
                                gacgaTAGCGCCATTATCGGCATTATTCGTTACTACACCCGTGAGGCGGGCGTGCGTGGTc                                           <  1:1436210/61‑1 (MQ=255)
                                gacgaTAGCGCCATTATCGGCATTATTCGTTACTACACCCGTGAGGCGGGCGTGCGTGGTCTGGAGCGTGa                                 <  1:1149357/71‑1 (MQ=255)
                                gacgaTAGCGCCATTATCGGCATTATTCGTTACTACACCCGTGAGGCGGGCGTGCGTGGTCTGGAGCGTGa                                 <  1:2260581/71‑1 (MQ=255)
                                 acgaTAGCGCGATTATCGGCATTATTCGTTACTACACCCGTGAGGCGGgcgt                                                   <  1:2012550/52‑1 (MQ=255)
                                 acgaTAGCGCCATTATCGGCATTATTCGTTACTACACCCGTGAGGCGGGCGTGCGTGGTCTGGAGCGTGaa                                <  1:1455138/71‑1 (MQ=255)
                                 acgaTAGCGCCATTATCGGCATTATTCGTTACTACACCCGTGAGGCGGGCGTGCGTGGTCTGGAGCGTGaa                                <  1:540020/71‑1 (MQ=255)
                                   gaTAGCGCCATTATCGGCATTATTCGTTACTGCACCCGTGAGGCGGgcgtgcg                                                <  1:3757290/53‑1 (MQ=255)
                                      aGCGCCATTATCGGCATTATTCGTTACTACACCCGTGAGGCGGGCGTGCGTGGTCTGGAGCGTGAAAtctc                           >  1:2428497/1‑71 (MQ=255)
                                       gcgcCATTATCGGCATTATTCGTTACTACACCCGTGAGGCGGGCGTGCGTGGTCTGGAGCGTGAAAtctc                           >  1:2448481/1‑70 (MQ=255)
                                           cATTATCGGCATTATTCGTTACTACACCCGTGAGGCGGGCGTGCGTGGTCTGGAGCGTGAAATCTCCAAAc                      >  1:3686690/1‑71 (MQ=255)
                                             ttATCGGCATTATTCGTTACTACACCCGTGAGGCGGGCGTGCGTGGTCTGGAGCGTGAAATCTCCAAACtg                    >  1:318233/1‑71 (MQ=255)
                                               aTCGGCATTATTCGTTACTGCACCCGTGAGGCGGGCGTGCGTGGTCTGGAGCGTGAAATCTCCAAACtgt                   <  1:1737810/70‑1 (MQ=255)
                                               aTCGGCATTATTCGTTACTACACCCGTGAGGCGGgcgtgcg                                                >  1:1857980/1‑41 (MQ=255)
                                               aTCGGCATTATTCGTTACTACACCCGTGAGGCGGGCGTGCGTGGTCTGGAGCGTGAAATCTCCAAACtgt                   <  1:1079914/70‑1 (MQ=255)
                                                tCGGCATTATTCGTTACTACACCCGTGAGGCGGGCGTGCGTGGTCTg                                         <  1:2034205/47‑1 (MQ=255)
                                                    cATTATTCGTTACTACACCCGTGAGGCGGGCGTGCGTGGTCTGGAGCGTGAAATCTCCAAACTGTGTCGCa             <  1:478037/71‑1 (MQ=255)
                                                     attattCGTTACTACACCCGTGAGGCGGGCGTGCGTGGTCTGGAGCGTGAAATCTCCAAACTGTGTCGCaa            <  1:2347503/71‑1 (MQ=255)
                                                      ttattCGTTACTACACCCGTGAGGCGGGCGTGCGTGGTCTGGAGCGTGAAATCTCCAAACTGTGTCGCa             >  1:3875991/1‑69 (MQ=255)
                                                      ttattCGTTACTACACCCGTGAGGCGGGCGTGCGTGGTCTGGAGCGTGAAATCTCCAAACTGTGTCGCa             >  1:1910484/1‑69 (MQ=255)
                                                       tattCGTTACTGCACGCGTGAGGCGGGCGTGCGTGGTCTGGAGCGTGAAATCTCCAAACTGTGTCGCAAAg          >  1:1922078/1‑71 (MQ=255)
                                                       tattCGTTACTACCCCCGTGAGGCGGGCGTGCGTGGTCTGGAGCGTGAAATCTCCAAACTGTGTCGCAAAg          >  1:3892596/1‑71 (MQ=255)
                                                        attCGTTACTACACCCGTGAGGCGGGCGTGCGTGGTCTGGAGCGTGAAATCTCCAAACTGTGTCGCAAAg          <  1:3870779/70‑1 (MQ=255)
                                                         ttCGTTACTACACCCGTGAGGCGGGCGTGCGTGGTCTGGAGCGTGaaa                               >  1:3000416/1‑48 (MQ=255)
                                                         ttCGTTACTACACCCGTGAGGCGGGCGTGCGTGGTCTGGAGCGTGAAATCTCCAAACTGTGTCGCAAAGCg        >  1:3111095/1‑71 (MQ=255)
                                                          tCGTTACTACACCCGTGAGGCGGGCGTGCGTGGTCTGGAGCGTGAAATCTCCAAACTGTGTCGCAAAGCgg       >  1:2080492/1‑71 (MQ=255)
                                                           cGTTACTACACCCGTGAGGCGGGCGTGCGTGGTCTGGAGCGTGAAATCTCCAAACTGTGTCGCAAAGCGGt      >  1:2453933/1‑71 (MQ=255)
                                                              tactgcACCCGTGAGGCGGGCGCGCGTGGTCTGGAGCGTGAAATCTCCAAACTGTGTCGCAAAGCGGtt     >  1:1225976/1‑69 (MQ=255)
                                                               actgcACCCGTGAGGCGGGCGTGCGTGGTCTGGAGCGTGAAATCTCCAAACTGTGTCGc              >  1:2900854/1‑59 (MQ=255)
                                                               actacACCCGTGAGGCGGGCGTGCGTGGTCTGGAGCGTGAAATCTCCAAACTGTGTCg               >  1:328137/1‑58 (MQ=255)
                                                               actacACCCGTGAGGCGGGCGTGCGTGGTCTGGAGCGTGAAATCTCCAAACTGTGTCGCAAAGCGGTTAAg  >  1:1622076/1‑71 (MQ=255)
                                                                ctacACCCGTGAGGCGGGCGTGCGTGGTCTGGAGCGTGAAATCTCCAAACTTTGTCGCAAAGCGGTTAAg  <  1:2541941/70‑1 (MQ=255)
                                                                  |                                                                   
GTAATGCACTGAAAAAAGGTGAGCTGACCGTCGACGATAGCGCCATTATCGGCATTATTCGTTACTACACCCGTGAGGCGGGCGTGCGTGGTCTGGAGCGTGAAATCTCCAAACTGTGTCGCAAAGCGGTTAAG  >  minE/288894‑289027

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