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
A2 F1 I0 R1 4577 57.4 3436498 77.7% 2670158 63.4

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA minE 535,699 C→T 57.8% V243V (GTG→GTA)  ybhG ← predicted membrane fusion protein (MFP) component of efflux pump, membrane anchor

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE535,6990CT57.8% 27.1 / 67.9 90V243V (GTG→GTA) ybhGpredicted membrane fusion protein (MFP) component of efflux pump, membrane anchor
Reads supporting (aligned to +/- strand):  ref base C (18/20);  new base T (33/19);  total (51/39)
Fisher's exact test for biased strand distribution p-value = 1.39e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01

AAGCAGCACTTTGCGCCCCGGCTGGGCCTGGTCAAGATTACGTTCATCAACATAAGCGCGCACCCACACCGGACGCGTTAGTGAAACGGTAAACACCGTGCCACCTTCATTGAGGACCGTGCC  >  minE/535639‑535761
                                                            |                                                              
aaGCAGCACTTTGCGCCCCGGCTGGGCCTGGTCAAGATTACGTTCATCAACATAAGCGCGCACCCacac                                                        >  1:830847/1‑69 (MQ=255)
aaGCAGCACTTTGCGCCCCGGCTGGGCCTGGTCAAGATTACGTTCATCAACATAAGCGCGCACCCacac                                                        >  1:3073197/1‑69 (MQ=255)
aaGCAGCACTTTGCGCCCCGGCTGGGCCTGGTCAAGATTACGTTCATCAACATAAGCGCGCACCCacac                                                        >  1:1979443/1‑69 (MQ=255)
aaGCAGCACTTTGCGCCCCGGCTGGGCCTGGTCAAGATTACGTTCATCAACATAAGCGCGCACCCacac                                                        >  1:1942170/1‑69 (MQ=255)
aaGCAGCACTTTGCGCCCCGGCTGGGCCTGGTCAAGATTACGTTCATCAACATAAGCGCGCACCCacac                                                        >  1:3265388/1‑69 (MQ=255)
aaGCAGCACTTTGCGCCCCGGCTGGGCCTGGTCAAGATTACGTTCATCAACATAAGCGCGCACCCacac                                                        >  1:1487135/1‑69 (MQ=255)
                      tGGGCCTGGTCAAGATTACGTTCATCAACATAAGCGCGCACCCACACCGGACGCGTTAGTGAAACGGTa                                  <  1:2463081/69‑1 (MQ=255)
                      tGGGCCTGGTCAAGATTACGTTCATCAACATAAGCGCGCACCCACACCGGACGCGTTAGTGAAACGGTa                                  <  1:843498/69‑1 (MQ=255)
                         gCCTGGTCAAGATTACGTTCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTaaat                               >  1:3136818/1‑68 (MQ=255)
                         gCCTGGTCAAGATTACGTTCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTaaat                               >  1:2474782/1‑68 (MQ=255)
                         gCCTGGTCAAGATTACGTTCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTaaat                               >  1:2239808/1‑68 (MQ=255)
                         gCCTGGTCAAGATTACGTTCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTaaat                               >  1:198382/1‑68 (MQ=255)
                         gCCTGGTCAAGATTACGTTCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTaaat                               >  1:1724251/1‑68 (MQ=255)
                         gCCTGGTCAAGATTACGTTCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTaaat                               >  1:513077/1‑68 (MQ=255)
                         gCCTGGTCAAGATTACGTTCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTaaat                               >  1:1267392/1‑68 (MQ=255)
                                cAAGATTACGTTCATCAACATAAGCGCGCACCCACACCGGACGCGTTAGTGAAACGGTAAACACCGt                          <  1:2956993/67‑1 (MQ=255)
                                cAAGATTACGTTCATCAACATAAGCGCGCACCCACACCGGACGCGTTAGTGAAACGGTAAACACCGt                          <  1:2300094/67‑1 (MQ=255)
                                cAAGATTACGTTCATCAACATAAGCGCGCACCCACACCGGACGCGTTAGTGAAACGGTAAACACCGt                          <  1:630874/67‑1 (MQ=255)
                                cAAGATTACGTTCATCAACATAAGCGCGCACCCACACCGGACGCGTTAGTGAAACGGTAAACACCGTGc                        >  1:1034519/1‑69 (MQ=255)
                                cAAGATTACGTTCATCAACATAAGCGCGCACCCACACCGGACGCGTTAGTGAAACGGTAAACACCGTGc                        >  1:2636352/1‑69 (MQ=255)
                                cAAGATTACGTTCATCAACATAAGCGCGCACCCACACCGGACGCGTTAGTGAAACGGTAAACACCGTGc                        >  1:2778584/1‑69 (MQ=255)
                                cAAGATTACGTTCATCAACATAAGCGCGCACCCACACCGGACGCGTTAGTGAAACGGTAAACACCGTGc                        >  1:2921476/1‑69 (MQ=255)
                                cAAGATTACGTTCATCAACATAAGCGCGCACCCACACCGGACGCGTTAGTGAAACGGTAAACACCGTGc                        >  1:723628/1‑69 (MQ=255)
                                cAAGATTACGTTCATCAACATAAGCGCGCACCCACACCGGACGCGTTAGTGAAACGGTAAACACCGTGc                        >  1:3221185/1‑69 (MQ=255)
                                cAAGATTACGTTCATCAACATAAGCGCGCACCCACACCGGACGCGTTAGTGAAACGGTAAACACCGTGc                        >  1:1071921/1‑69 (MQ=255)
                                cAAGATTACGTTCATCAACATAAGCGCGCACCCACACCGGACGCGTTAGTGAAACGGTAAACACCGTGc                        >  1:530653/1‑69 (MQ=255)
                                cAAGATTACGTTCATCAACATAAGCGCGCACCCACACCGGACGCGTTAGTGAAACGGTAAACACCGTGc                        >  1:2425329/1‑69 (MQ=255)
                                 aaGATTACGTTCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATAcc                            >  1:2533685/1‑64 (MQ=255)
                                 aaGATTACGTTCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATAcc                            >  1:252787/1‑64 (MQ=255)
                                 aaGATTACGTTCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATAcc                            >  1:253901/1‑64 (MQ=255)
                                 aaGATTACGTTCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATAcc                            >  1:2932359/1‑64 (MQ=255)
                                 aaGATTACGTTCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATAcc                            >  1:264134/1‑64 (MQ=255)
                                 aaGATTACGTTCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATAcc                            >  1:852619/1‑64 (MQ=255)
                                 aaGATTACGTTCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATAcc                            >  1:2716487/1‑64 (MQ=255)
                                 aaGATTACGTTCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATAcc                            >  1:2951092/1‑64 (MQ=255)
                                 aaGATTACGTTCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATAcc                            >  1:772142/1‑64 (MQ=255)
                                 aaGATTACGTTCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATAcc                            >  1:3100645/1‑64 (MQ=255)
                                 aaGATTACGTTCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATAcc                            >  1:961307/1‑64 (MQ=255)
                                 aaGATTACGTTCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATAcc                            >  1:566907/1‑64 (MQ=255)
                                 aaGATTACGTTCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATAcc                            >  1:396587/1‑64 (MQ=255)
                                 aaGATTACGTTCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATAcc                            >  1:408536/1‑64 (MQ=255)
                                 aaGATTACGTTCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATAcc                            >  1:2400584/1‑64 (MQ=255)
                                 aaGATTACGTTCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATAcc                            >  1:2034671/1‑64 (MQ=255)
                                 aaGATTACGTTCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATAcc                            >  1:1973743/1‑64 (MQ=255)
                                 aaGATTACGTTCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATAcc                            >  1:1681030/1‑64 (MQ=255)
                                 aaGATTACGTTCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATAcc                            >  1:2231231/1‑64 (MQ=255)
                                 aaGATTACGTTCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATAcc                            >  1:1532462/1‑64 (MQ=255)
                                 aaGATTACGTTCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATAcc                            >  1:1416148/1‑64 (MQ=255)
                                 aaGATTACGTTCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATAcc                            >  1:1269810/1‑64 (MQ=255)
                                 aaGATTACGTTCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATAcc                            >  1:1182726/1‑64 (MQ=255)
                                 aaGATTACGTTCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATAcc                            >  1:2297517/1‑64 (MQ=255)
                                 aaGATTACGTTCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATAcc                            >  1:1113860/1‑64 (MQ=255)
                                 aaGATTACGTTCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATAcc                            >  1:1094575/1‑64 (MQ=255)
                                 aaGATTACGTTCATCAACATAAGCGCGCACCCACACCGGACGCGTTAGTGAAACGGTAAACACCGt                          <  1:548247/66‑1 (MQ=255)
                                 aaGATTACGTTCATCAACATAAGCGCGCACCCACACCGGACGCGTTAGTGAAACGGTAAACACCGTGcc                       >  1:2843223/1‑69 (MQ=255)
                                 aaGATTACGTTCATCAACATAAGCGCGCACCCACACCGGACGCGTTAGTGAAACGGTAAACACCGTGcc                       >  1:2126175/1‑69 (MQ=255)
                                  aGATTACGTTCATCAACATAAGCGCGCACCCACACCGGACGCGTTAGTGAAACGGTAAACACCGTGcc                       <  1:2859484/68‑1 (MQ=255)
                                   gATTACGTTCATCAACATAAGCGCGCACCCACACCGGACGCGTTAGTGAAACGGTAAACACCGTGCCa                      <  1:634425/68‑1 (MQ=255)
                                   gATTACGTTCATCAACATAAGCGCGCACCCACACCGGACGCGTTAGTGAAACGGTAAACACCGTGCCa                      <  1:670654/68‑1 (MQ=255)
                                   gATTACGTTCATCAACATAAGCGCGCACCCACACCGGACGCGTTAGTGAAACGGTAAACACCGTGCCa                      <  1:563701/68‑1 (MQ=255)
                                   gATTACGTTCATCAACATAAGCGCGCACCCACACCGGACGCGTTAGTGAAACGGTAAACACCGTGCCa                      <  1:1216151/68‑1 (MQ=255)
                                   gATTACGTTCATCAACATAAGCGCGCACCCACACCGGACGCGTTAGTGAAACGGTAAACACCGTGCCa                      <  1:358855/68‑1 (MQ=255)
                                   gATTACGTTCATCAACATAAGCGCGCACCCACACCGGACGCGTTAGTGAAACGGTAAACACCGTGCCa                      <  1:1946655/68‑1 (MQ=255)
                                   gATTACGTTCATCAACATAAGCGCGCACCCACACCGGACGCGTTAGTGAAACGGTAAACACCGTGCCa                      <  1:2369706/68‑1 (MQ=255)
                                   gATTACGTTCATCAACATAAGCGCGCACCCACACCGGACGCGTTAGTGAAACGGTAAACACCGTGCCa                      <  1:2137450/68‑1 (MQ=255)
                                   gATTACGTTCATCAACATAAGCGCGCACCCACACCGGACGCGTTAGTGAAACGGTAAACACCGTGCCa                      <  1:2563064/68‑1 (MQ=255)
                                   gATTACGTTCATCAACATAAGCGCGCACCCACACCGGACGCGTTAGTGAAACGGTAAACACCGTGCCa                      <  1:2576091/68‑1 (MQ=255)
                                   gATTACGTTCATCAACATAAGCGCGCACCCACACCGGACGCGTTAGTGAAACGGTAAACACCGTGCCa                      <  1:2686523/68‑1 (MQ=255)
                                   gATTACGTTCATCAACATAAGCGCGCACCCACACCGGACGCGTTAGTGAAACGGTAAACACCGTGCCa                      <  1:2615391/68‑1 (MQ=255)
                                   gATTACGTTCATCAACATAAGCGCGCACCCACACCGGACGCGTTAGTGAAACGGTAAACACCGTGCCa                      <  1:2254030/68‑1 (MQ=255)
                                          ttCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATACCGTGCCACCTTCAtt              <  1:1984550/69‑1 (MQ=255)
                                          ttCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATACCGTGCCACCTTCAtt              <  1:1005699/69‑1 (MQ=255)
                                          ttCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATACCGTGCCACCTTCAtt              <  1:2349361/69‑1 (MQ=255)
                                          ttCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATACCGTGCCACCTTCAtt              <  1:2534238/69‑1 (MQ=255)
                                          ttCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATACCGTGCCACCTTCAtt              <  1:2546187/69‑1 (MQ=255)
                                          ttCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATACCGTGCCACCTTCAtt              <  1:1193866/69‑1 (MQ=255)
                                          ttCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATACCGTGCCACCTTCAtt              <  1:651253/69‑1 (MQ=255)
                                          ttCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATACCGTGCCACCTTCAtt              <  1:1218612/69‑1 (MQ=255)
                                          ttCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATACCGTGCCACCTTCAtt              <  1:2621610/69‑1 (MQ=255)
                                          ttCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATACCGTGCCACCTTCAtt              <  1:267141/69‑1 (MQ=255)
                                          ttCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATACCGTGCCACCTTCAtt              <  1:1483582/69‑1 (MQ=255)
                                          ttCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATACCGTGCCACCTTCAtt              <  1:2810266/69‑1 (MQ=255)
                                          ttCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATACCGTGCCACCTTCAtt              <  1:3427705/69‑1 (MQ=255)
                                          ttCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATACCGTGCCACCTTCAtt              <  1:3334651/69‑1 (MQ=255)
                                          ttCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATACCGTGCCACCTTCAtt              <  1:1714724/69‑1 (MQ=255)
                                          ttCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATACCGTGCCACCTTCAtt              <  1:1757921/69‑1 (MQ=255)
                                          ttCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATACCGTGCCACCTTCAtt              <  1:290946/69‑1 (MQ=255)
                                          ttCATCAACATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATACCGTGCCACCTTCAtt              <  1:2074868/69‑1 (MQ=255)
                                          ttCATCAAAATAGGCGCGTACCCACACCGGACGCGTCAGCGAGACGGTAAATACCGTGCCTCCTTCAtt              <  1:535001/69‑1 (MQ=255)
                                                      aGCGCGCACCCACACCGGACGCGTTAGTGAAACGGTAAACACCGTGCCACCTTCATTGAGGACCGTGcc  >  1:2151191/1‑69 (MQ=255)
                                                          cgcACCCACACCGGACGCGTTAGTGAAACGGTAAACACCGTGCCa                      <  1:2291881/45‑1 (MQ=255)
                                                            |                                                              
AAGCAGCACTTTGCGCCCCGGCTGGGCCTGGTCAAGATTACGTTCATCAACATAAGCGCGCACCCACACCGGACGCGTTAGTGAAACGGTAAACACCGTGCCACCTTCATTGAGGACCGTGCC  >  minE/535639‑535761

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