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 F17 I0 R2 159 90.8 4763082 92.7% 4415377 60.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 1,744,552 G→A 9.6% V483I (GTC→ATC)  nadB → quinolinate synthase, L‑aspartate oxidase (B protein) subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,744,5520GA 9.6% 252.4 / 14.3 83V483I (GTC→ATC) nadBquinolinate synthase, L‑aspartate oxidase (B protein) subunit
Reads supporting (aligned to +/- strand):  ref base G (37/38);  new base A (3/5);  total (40/43)
Fisher's exact test for biased strand distribution p-value = 7.14e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.60e-01

CTGGAACGCGCCCTGCGGCGGATAACCATGCTCCAACAAGAAATAGACGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTACAGGTTGCCGAGTTGATTGTTCGCTGTGCAATGAT  >  minE/1744483‑1744622
                                                                     |                                                                      
cTGGAACGCGCCCTGCGGCGGATAACCATGCTCCAACAAGAAATAGACGAATATTACGCCCATTTCcgcg                                                                        <  1:3545288/70‑1 (MQ=255)
   gAACGCGCCCTGCGGCGGATAACCATGCTCCAACAAGAAATAGACGAATATTACGCCCATTTCCGCGtctc                                                                    <  1:2667595/71‑1 (MQ=255)
        cgcCCTGCGGCGGATAACCATGCTCCAACAAGAAATAGACGAATATTACGCCCATTTCCGCGTCTCAaata                                                               <  1:4365326/71‑1 (MQ=255)
        cgcCCTGCGGCGGATAACCATGCTCCAACAAGAAATAGACGAATATTACGCCCATTTCCGCGTCTCAaata                                                               <  1:4338517/71‑1 (MQ=255)
        cgcCCTGCGGCGGATAACCATGCTCCAACAAGAAATAGACGAATATTACGCCCATTTCCGCGTCTCAaat                                                                >  1:3927519/1‑70 (MQ=255)
               cggcggATAACCATGCTCCAACAAGAAATAGACGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGc                                                         <  1:1862292/70‑1 (MQ=255)
                 gcggATAACCATGCTCCAACAAGAAATAGACGAATATTACGCCCATTTCCGCATCTCAAATAATTTGCTgg                                                      <  1:3686659/71‑1 (MQ=255)
                   ggATAACCATGCTCCAACAAGAAATAGACGAATATTACGCCCATTTCCGCATCTCAAATAATTTGCTGGAg                                                    <  1:2432712/71‑1 (MQ=255)
                   ggATAACCATGCTCCAACAAGAAATAGACGAATATTACGCCCATTTCCGCATCTCAAATAATTTGCTGGAg                                                    >  1:2201812/1‑71 (MQ=255)
                     aTAACCATGCTCCAACAAGAAATAGACGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGAGCt                                                  >  1:2743172/1‑71 (MQ=255)
                        aCCATGCTCCAACAAGAAATAGACGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGAGCTGCg                                               >  1:135996/1‑71 (MQ=255)
                          cATGCTCCAACATGAAATAGACGAATATTACGCCCATTTCCGCGTCTCAaata                                                               <  1:1667534/53‑1 (MQ=255)
                          cATGCTCCAACAAGAAATAGACGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGAGCTGCGTa                                             <  1:4629649/71‑1 (MQ=255)
                          cATGCTCCAACAAGAAATAGACGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGAGCTGCGTa                                             <  1:2343477/71‑1 (MQ=255)
                            tGCTCCAACAAGAAATAGACGAATATTACGCCCATTTCCGCGTCTCAaataa                                                              <  1:2747344/52‑1 (MQ=255)
                            tGCTCCAACAAGAAATAGACGAATATTACGCCCATTTCCGCGTCTCAaataa                                                              <  1:1336414/52‑1 (MQ=255)
                            tGCTCCAACAAGAAATAGACGAATATTACGCCCATTTCCGCATCTCAAATAATTTGCTGGAGCTGCGTaa                                            >  1:2879366/1‑70 (MQ=255)
                              cTCCAACAAGAAATAGACGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGAGCTGCGTAATCt                                         <  1:1679397/71‑1 (MQ=255)
                              cTCCAACAAGAAATAGACGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGAGCTGCGTAATCt                                         <  1:3585149/71‑1 (MQ=255)
                                ccAACAAGAAATAGACGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTgg                                                      <  1:461718/56‑1 (MQ=255)
                                ccAACAAGAAATAGACGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTgg                                                      <  1:4314479/56‑1 (MQ=255)
                                ccAACAAGAAATAGACGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTgg                                                      <  1:2756937/56‑1 (MQ=255)
                                 caacaaGAAATAGACGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGa                                                     <  1:4135672/56‑1 (MQ=255)
                                  aacaaGAAATAGACGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTa                                     >  1:3001145/1‑71 (MQ=255)
                                   acaaGAAATAGACGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGAGCTg                                                 >  1:1702257/1‑58 (MQ=255)
                                   acaaGAAATAGACGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGAGCTGc                                                <  1:3146866/59‑1 (MQ=255)
                                   acaaGAAATAGACGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGAGCTGc                                                <  1:2680003/59‑1 (MQ=255)
                                   acaaGAAATAGACGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGAGCTGCGTa                                             <  1:1016094/62‑1 (MQ=255)
                                   acaaGAAATAGACGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTa                                     >  1:4345743/1‑70 (MQ=255)
                                    caaGAAATAGACGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGAGCTGc                                                >  1:75432/1‑58 (MQ=255)
                                    caaGAAATAGACGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGAGCTGc                                                >  1:3494108/1‑58 (MQ=255)
                                     aaGAAATAGACGAATATTACGCCCATTTCCGGGTCTCAAATAATTTGCTgg                                                      <  1:170610/51‑1 (MQ=255)
                                     aaGAAATAGACGAATATTACGCCCATTTCCGCGTCTCAaataat                                                             >  1:3054307/1‑44 (MQ=255)
                                     aaGAAATAGACGAATATTACGCCCATTTCCGCGTCTCAaataat                                                             >  1:4081394/1‑44 (MQ=255)
                                     aaGAAATAGACGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGAGCTGCGTAAt                                           >  1:2656959/1‑62 (MQ=255)
                                     aaGAAATAGACGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGAGCTGCGTAAt                                           >  1:1887500/1‑62 (MQ=255)
                                        aaaTAGACGAATATTACGCCCATTTCCGCGTCTCAaataa                                                              <  1:2009218/40‑1 (MQ=255)
                                         aaTAGACGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTACAGGTTg                              <  1:3982576/71‑1 (MQ=255)
                                           tAGACGAATATTACGCCCATTTCCGCGTCTCAaataa                                                              <  1:3563472/37‑1 (MQ=255)
                                           tAGACGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTACAGGTTGcc                            <  1:4456600/71‑1 (MQ=255)
                                            aGACGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGAGCTGCGTaa                                            <  1:1181879/54‑1 (MQ=255)
                                            aGACGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGAGCTGCGTaa                                            <  1:1358811/54‑1 (MQ=255)
                                             gACGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGa                                                     >  1:2914751/1‑44 (MQ=255)
                                             gACGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGa                                                     >  1:2858395/1‑44 (MQ=255)
                                             gACGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGa                                                     >  1:4714672/1‑44 (MQ=255)
                                             gACGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGa                                                     >  1:4720018/1‑44 (MQ=255)
                                             gACGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGa                                                     >  1:4758084/1‑44 (MQ=255)
                                             gACGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGa                                                     >  1:3987544/1‑44 (MQ=255)
                                             gACGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGa                                                     >  1:4613896/1‑44 (MQ=255)
                                              aCGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTgg                                                      <  1:1313126/42‑1 (MQ=255)
                                              aCGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTgg                                                      <  1:4563857/42‑1 (MQ=255)
                                              aCGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTgg                                                      <  1:43352/42‑1 (MQ=255)
                                              aCGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTgg                                                      <  1:3668239/42‑1 (MQ=255)
                                              aCGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTACAGGTTGCCGa                          <  1:4744362/70‑1 (MQ=255)
                                              aCGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTACAGGTTGCCGAg                         <  1:1383472/71‑1 (MQ=255)
                                              aCGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTACAGGTTGCCGAg                         <  1:2585839/71‑1 (MQ=255)
                                              aCGAATATTACGCCCATTTCCGCATCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTACAGGTTGCCGAg                         <  1:4474749/71‑1 (MQ=255)
                                                 aaTATTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGAGCTGCGTAATCt                                         <  1:67231/52‑1 (MQ=255)
                                                  atatTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGAGCTGc                                                >  1:2859840/1‑44 (MQ=255)
                                                  atatTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTACAGGTTGCCGAGTTGa                     >  1:364342/1‑71 (MQ=255)
                                                   tatTACGCCCATTTCCGCATCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTACAGGTTGCCGAGTTGAt                    <  1:4322706/71‑1 (MQ=255)
                                                   tatTACGCCCATTTCCGCATCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTACAGGTTGCCGAGTTGAt                    <  1:2674126/71‑1 (MQ=255)
                                                     ttACGCCCATTTCCGCGTCTGAAATAATTTGCTGGAGCTGCGTAATCTGGTACAGGTTGCCGAGTTGAtt                   <  1:1492451/70‑1 (MQ=255)
                                                     ttACGCCCATTTCCGCGTCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTACAGGTTGCCGAGTTGAtt                   <  1:772204/70‑1 (MQ=255)
                                                     ttACGCCCATTTCCGCGTCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTACAGGTTGCCGAGTTGATTg                  >  1:4410387/1‑71 (MQ=255)
                                                       aCGCCCATTTCCGCGTCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTACAGGTTGCCGAGTTGATTGt                 >  1:1124596/1‑70 (MQ=255)
                                                          cccATTTCCGCGTCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTACAGGTTGCCGAGTTGATTGTTCGc             <  1:1447536/71‑1 (MQ=255)
                                                             aTTTCCGCGTCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTACAGGTTGCCGAGTTGATTGTTCGCtgt          >  1:4010825/1‑71 (MQ=255)
                                                              tttCCGCGTCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTACAGGTTGCCGAGTTGATTg                  >  1:1221519/1‑62 (MQ=255)
                                                              tttCCGCGTCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTACAGGTTGCCGAGTTGATTg                  >  1:3462205/1‑62 (MQ=255)
                                                              tttCCGCGTCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTACAGGTTGCCGAGTTGATTGTTCGCtgtg         >  1:1695472/1‑71 (MQ=255)
                                                              tttCCGCGTCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTACAGGTTGACGAGTTGATTg                  >  1:277216/1‑62 (MQ=255)
                                                              tttCCGCATCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTACAGGTTGCCGAGTTGATTGtt                >  1:3722831/1‑64 (MQ=255)
                                                                tCCGCGTCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTAGAGGTTGCCGAGTTGATTGTTCGCtg           >  1:771931/1‑67 (MQ=255)
                                                                tCCGCGTCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTACAGGTTGcc                            >  1:512319/1‑50 (MQ=255)
                                                                tCCGCGTCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTACAGGTTGCCGAGTTGATTGTTCGCtgt          >  1:4256417/1‑68 (MQ=255)
                                                                tCCGCGTCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTACAGGTTGCCGAGTTGATTGTTCGCtgt          >  1:4023000/1‑68 (MQ=255)
                                                                tCCGCGTCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTACAGGTTGCCGAGTTGATTGTTCGCtgt          >  1:4516961/1‑68 (MQ=255)
                                                                tCCGCGTCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTACAGGTTGCCGAGTTGATTGTTCGCtgt          >  1:1360636/1‑68 (MQ=255)
                                                                tCCGCGTCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTACAGGTTGCCGAGTTGATTGTTCGCTGTGc        >  1:83305/1‑70 (MQ=255)
                                                                tCCGCGTCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTACAGGTTGCCGAGTTGATTGTTCGCTGTGc        >  1:418593/1‑70 (MQ=255)
                                                                tCCGCGTCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTACAGGTTGCCGAGTTGATTGTTCGCTGTGc        >  1:4411267/1‑70 (MQ=255)
                                                                 ccGCGTCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTACAGGTTGCCGAGTTGATTGTTCGCTTTGCa       <  1:4682668/70‑1 (MQ=255)
                                                                 ccGCGTCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTACAGGTTGCCGAGTTGATTGTTCGCTGTGCa       <  1:2454468/70‑1 (MQ=255)
                                                                  cgcgTCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTACAGGTTGCCGAGTTGATTGTTCGCTGTGc        <  1:1377786/68‑1 (MQ=255)
                                                                     gTCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTACAGGTTGCCGAGTTGATTGTTCGCTGTGCAatgat  >  1:2975342/1‑71 (MQ=255)
                                                                     |                                                                      
CTGGAACGCGCCCTGCGGCGGATAACCATGCTCCAACAAGAAATAGACGAATATTACGCCCATTTCCGCGTCTCAAATAATTTGCTGGAGCTGCGTAATCTGGTACAGGTTGCCGAGTTGATTGTTCGCTGTGCAATGAT  >  minE/1744483‑1744622

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