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 2,708,913 G→A 49.4% E54E (GAG→GAA)  yhfZ → conserved hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE2,708,9130GA49.4% 1.0 / 110.2 79E54E (GAG→GAA) yhfZconserved hypothetical protein
Reads supporting (aligned to +/- strand):  ref base G (18/22);  new base A (19/20);  total (37/42)
Fisher's exact test for biased strand distribution p-value = 8.23e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.07e-01

CATAGATGAGCTGGCAAATGAATGCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCTGGTCGAGGAATATACGAAGA  >  minE/2708844‑2708983
                                                                     |                                                                      
cATAGATGAGCTGGCAAATGAATGCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAGt                                                                       <  1:3616313/71‑1 (MQ=255)
   aGATGAGCTGGCAAATGAATGCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAATc                                                                      >  1:2049760/1‑69 (MQ=255)
     aTGAGCTGGCAAATGAATGCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAGTCAAGc                                                                  <  1:3951921/71‑1 (MQ=255)
      tGAGCTGGCAAATGAATGCCGTTCATCCGTTGGCCTGACTCAGGCCGCGTTGAAAACGCTGGAATCAAGCg                                                                 <  1:2017810/71‑1 (MQ=255)
      tGAGCTGGCAAATGAATGCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAGTCAAGCg                                                                 >  1:2101386/1‑71 (MQ=255)
        aGCTGGCAAATGAATGCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAATCAAGCgg                                                                <  1:2854730/70‑1 (MQ=255)
         gCTGGCAAATGAATGCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAg                                                              >  1:977235/1‑71 (MQ=255)
           tGGCAAATGAATGCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGc                                                             >  1:2000076/1‑70 (MQ=255)
           tGGCAAATGAATGCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGc                                                             >  1:3625986/1‑70 (MQ=255)
           tGGCAAATGAATGCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGc                                                             >  1:3211219/1‑70 (MQ=255)
             gCAAATGAATGCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGAt                                                          <  1:102260/71‑1 (MQ=255)
              cAAATGAATGCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATa                                                         >  1:2309048/1‑71 (MQ=255)
               aaaTGAATGCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAGTCAAGCGGa                                                               >  1:604660/1‑64 (MQ=255)
               aaaTGAATGCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGATAc                                                        >  1:1829160/1‑71 (MQ=255)
               aaaTGAATGCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGa                                                               <  1:1124701/64‑1 (MQ=255)
                  tgaatgCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGa                                                     >  1:1259597/1‑71 (MQ=255)
                   gaatgCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGc                                                             <  1:1312312/62‑1 (MQ=255)
                   gaatgCCGTTCATCCGTTGGCCTGACCCAGGCCGCGTTGAAAACGCTGGAATCAAGCg                                                                 >  1:95530/1‑58 (MQ=255)
                    aatgCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAATCAAGCg                                                                 <  1:1784948/57‑1 (MQ=255)
                     atgCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTg                                                  <  1:398286/71‑1 (MQ=255)
                     atgCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTg                                                  <  1:3847989/71‑1 (MQ=255)
                     atgCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTg                                                  <  1:1582384/71‑1 (MQ=255)
                      tgCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTg                                                  >  1:2526555/1‑70 (MQ=255)
                        ccGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTGaa                                                <  1:2199002/70‑1 (MQ=255)
                          gctCATCTGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGAtt                                                   <  1:2033570/63‑1 (MQ=255)
                          gTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAATc                                                                      >  1:2366586/1‑46 (MQ=255)
                           ttCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTGAACGcc                                            <  1:292496/71‑1 (MQ=255)
                           ttCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATa                                                         <  1:648139/58‑1 (MQ=255)
                            tCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGATACgg                                                      <  1:3686968/60‑1 (MQ=255)
                             cATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGt                                          >  1:165308/1‑71 (MQ=255)
                              aTCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTGAACGCCGTg                                         <  1:1098904/71‑1 (MQ=255)
                              aTCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGt                                          <  1:2135641/70‑1 (MQ=255)
                              aTCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGt                                          <  1:2617878/70‑1 (MQ=255)
                                ccGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTGAACGCCGTggg                                       >  1:772264/1‑71 (MQ=255)
                                ccGTTGGCCTGACGCAGGCCGAGTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTGAACGCCGTggg                                       >  1:3771743/1‑71 (MQ=255)
                                 cGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTggg                                       <  1:3143876/70‑1 (MQ=255)
                                   ttGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTGaa                                                >  1:1756631/1‑59 (MQ=255)
                                   ttGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTGAACGCCGTGGgcgc                                    <  1:3705707/71‑1 (MQ=255)
                                     ggCCTGACGCAGGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCaa                                  >  1:2745416/1‑71 (MQ=255)
                                     ggCCTGACGCAGGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCaa                                  >  1:1914000/1‑71 (MQ=255)
                                         tGACGCAGGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATgg                               >  1:3718821/1‑70 (MQ=255)
                                          gACGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATgg                               >  1:1474434/1‑69 (MQ=255)
                                          gACGCAAGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATgg                               >  1:512586/1‑69 (MQ=255)
                                           aCGCAGGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGc                              <  1:2554354/69‑1 (MQ=255)
                                           aCGCAGGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGc                              <  1:2312550/69‑1 (MQ=255)
                                           aCGCAGGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAg                            >  1:3191257/1‑71 (MQ=255)
                                           aCGCAGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCg                                           >  1:3916229/1‑56 (MQ=255)
                                             gCAGGCCGCGTCGAAAACGCTGAAGTCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGt                           <  1:1024277/70‑1 (MQ=255)
                                              cAGGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGt                           <  1:1017076/69‑1 (MQ=255)
                                               aGGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTGAACGCCg                                           <  1:2847687/52‑1 (MQ=255)
                                               aGGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTAt                        <  1:2863638/71‑1 (MQ=255)
                                               aGGCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTa                         >  1:1067459/1‑70 (MQ=255)
                                                ggCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATc                       <  1:3046734/71‑1 (MQ=255)
                                                 gCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCt                      >  1:2076846/1‑71 (MQ=255)
                                                 gCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCt                      >  1:732660/1‑71 (MQ=255)
                                                 gCCGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCt                      <  1:2079903/71‑1 (MQ=255)
                                                  ccGCGTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAg                            <  1:3006510/64‑1 (MQ=255)
                                                   cgcgTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCTgg                    <  1:1557632/71‑1 (MQ=255)
                                                   cgcgTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCTgg                    <  1:1461942/71‑1 (MQ=255)
                                                    gcgTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTGAACGCCGTggg                                       <  1:1377665/51‑1 (MQ=255)
                                                     cgTTGAAAACGCTGGAATCAAGCGGAGCGATACGGATTg                                                  <  1:2122340/39‑1 (MQ=255)
                                                       ttGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCa                             <  1:955089/58‑1 (MQ=255)
                                                       ttGAAAACGCTGGAATCAAGCGGAGCGATACGGAtt                                                   <  1:3466584/36‑1 (MQ=255)
                                                       ttGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGc                              <  1:740281/57‑1 (MQ=255)
                                                       ttGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCTGGTc                  >  1:1934384/1‑69 (MQ=255)
                                                        tGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCTGGTCGAg               >  1:571965/1‑71 (MQ=255)
                                                        tGAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCTg                     >  1:3545336/1‑65 (MQ=255)
                                                         gAAAACGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCTGGTCGAg               <  1:165783/70‑1 (MQ=255)
                                                          aaaaCGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCTGGTCGAgat             <  1:1295086/71‑3 (MQ=255)
                                                          aaaaCGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCTGGTCGAgat             <  1:1944368/71‑3 (MQ=255)
                                                            aaCGCTGGAGTCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCTGGTCGAGGaa            >  1:3938680/1‑70 (MQ=255)
                                                            aaCGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTgg                                        >  1:867698/1‑42 (MQ=255)
                                                            aaCGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATg                                >  1:570401/1‑50 (MQ=255)
                                                            aaCGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATg                                >  1:2912391/1‑50 (MQ=255)
                                                            aaCGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCTGGTCGAgatg            >  1:314199/1‑67 (MQ=255)
                                                            aaCGCTGGAATCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCTGGTCGAgatg            >  1:3496791/1‑67 (MQ=255)
                                                             aCGCTGGAGTCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCTGGTCGAGGAat           >  1:897188/1‑70 (MQ=255)
                                                               gCTGGAGTCAAGCGGAGCGTTACGGTTTGAACGCCg                                           <  1:987234/36‑1 (MQ=38)
                                                                   gAGTCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCTGGTCGAGGAATATACGaa    <  1:571382/71‑1 (MQ=255)
                                                                     gTCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCTGGTCGAGGAATATACGAAGa  <  1:3654814/71‑1 (MQ=255)
                                                                     |                                                                      
CATAGATGAGCTGGCAAATGAATGCCGTTCATCCGTTGGCCTGACGCAGGCCGCGTTGAAAACGCTGGAGTCAAGCGGAGCGATACGGATTGAACGCCGTGGGCGCAATGGCAGTTATCTGGTCGAGGAATATACGAAGA  >  minE/2708844‑2708983

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