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 1,987,087 C→T 39.0% Q212Q (CAG→CAA)  ansB ← periplasmic L‑asparaginase II

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,987,0870CT39.0% 35.4 / 43.5 69Q212Q (CAG→CAA) ansBperiplasmic L‑asparaginase II
Reads supporting (aligned to +/- strand):  ref base C (28/14);  new base T (11/16);  total (39/30)
Fisher's exact test for biased strand distribution p-value = 4.72e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

AGTTCATTCAGCTTAGAGACATCGAATGGCGTGTCGCTGGTATGCTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGAATGTAACCCAGAGGACCGTAGTTAACAGACTTGAAGGTCGC  >  minE/1987025‑1987152
                                                              |                                                                 
aGTTCATTCAGCTTAGAGACATCGAACGGCGTGTCGCTGGTGTGCTTACGTGCCGGGGTACGTTGGTa                                                              >  1:2692422/1‑68 (MQ=255)
aGTTCATTCAGCTTAGAGACATCGAACGGCGTGTCGCTGGTGTGCTTACGTGCCGGGGTACGTTGGTa                                                              >  1:1769901/1‑68 (MQ=255)
aGTTCATTCAGCTTAGAGACATCGAACGGCGTGTCGCTGGTGTGCTTACGTGCCGGGGTACGTTGGTa                                                              >  1:2030374/1‑68 (MQ=255)
aGTTCATTCAGCTTAGAGACATCGAACGGCGTGTCGCTGGTGTGCTTACGTGCCGGGGTACGTTGGTa                                                              >  1:1567993/1‑68 (MQ=255)
aGTTCATTCAGCTTAGAGACATCGAACGGCGTGTCGCTGGTGTGCTTACGTGCCGGGGTACGTTGGTa                                                              >  1:2585911/1‑68 (MQ=255)
aGTTCATTCAGCTTAGAGACATCGAACGGCGTGTCGCTGGTGTGCTTACGTGCCGGGGTACGTTGGTa                                                              >  1:3186810/1‑68 (MQ=255)
aGTTCATTCAGCTTAGAGACATCGAACGGCGTGTCGCTGGTGTGCTTACGTGCCGGGGTACGTTGGTa                                                              >  1:1255278/1‑68 (MQ=255)
aGTTCATTCAGCTTAGAGACATCGAACGGCGTGTCGCTGGTGTGCTTACGTGCCGGGGTACGTTGGTa                                                              >  1:3321722/1‑68 (MQ=255)
aGTTCATTCAGCTTAGAGACATCGAACGGCGTGTCGCTGGTGTGCTTACGTGCCGGGGTACGTTGGTa                                                              >  1:387053/1‑68 (MQ=255)
aGTTCATTCAGCTTAGAGACATCGAACGGCGTGTCGCTGGTGTGCTTACGTGCCGGGGTACGTTGGTa                                                              >  1:105158/1‑68 (MQ=255)
aGTTCATTCAGCTTAGAGACATCGAACGGCGTGTCGCTGGTGTGCTTACGTGCC‑GGGTACGTTGGTAg                                                             >  1:2073426/1‑68 (MQ=255)
        caGCTTAGAGACATCGAATGGCGTGTCGCTGGTATGCTTACGTGCCGGGGTACGCTGGTAGTCAATCtt                                                     >  1:2894493/1‑69 (MQ=255)
        caGCTTAGAGACATCGAATGGCGTGTCGCTGGTATGCTTACGTGCCGGGGTACGCTGGTAGTCAATCtt                                                     >  1:2301292/1‑69 (MQ=255)
        caGCTTAGAGACATCGAATGGCGTGTCGCTGGTATGCTTACGTGCCGGGGTACGCTGGTAGTCAATCtt                                                     >  1:509154/1‑69 (MQ=255)
                   cATCGAATGGCGTGTCGCTGGTATGCTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGaa                                          >  1:999020/1‑69 (MQ=255)
                   cATCGAATGGCGTGTCGCTGGTATGCTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGaa                                          >  1:2675514/1‑69 (MQ=255)
                   cATCGAATGGCGTGTCGCTGGTATGCTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGaa                                          >  1:2570172/1‑69 (MQ=255)
                   cATCGAATGGCGTGTCGCTGGTATGCTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGaa                                          >  1:2172885/1‑69 (MQ=255)
                   cATCGAATGGCGTGTCGCTGGTATGCTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGaa                                          >  1:926271/1‑69 (MQ=255)
                      cGAATGGCGTGTCGCTGGTATGCTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGAATGt                                       >  1:640065/1‑69 (MQ=255)
                      cGAATGGCGTGTCGCTGGTATGCTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGAATGt                                       >  1:2615751/1‑69 (MQ=255)
                      cGAATGGCGTGTCGCTGGTATGCTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGAATGt                                       >  1:1313076/1‑69 (MQ=255)
                      cGAATGGCGTGTCGCTGGTATGCTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGAATGt                                       >  1:257021/1‑69 (MQ=255)
                      cGAATGGCGTGTCGCTGGTATGCTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGAATGt                                       >  1:2329585/1‑69 (MQ=255)
                      cGAACGGCGTGTCGCTGGTGTGCTTACGTGCCGGGGTACGTTGGTAGTCAATCTTACCGTTGTGAATGt                                       <  1:1425128/69‑1 (MQ=255)
                      cGAACGGCGTGTCGCTGGTGTGCTTACGTGCCGGGGTACGTTGGTAGTCAATCTTACCGTTGTGAATGt                                       <  1:1446185/69‑1 (MQ=255)
                      cGAACGGCGTGTCGCTGGTGTGCTTACGTGCCGGGGTACGTTGGTAGTCAATCTTACCGTTGTGAATGt                                       <  1:2652967/69‑1 (MQ=255)
                      cGAACGGCGTGTCGCTGGTGTGCTTACGTGCCGGGGTACGTTGGTAGTCAATCTTACCGTTGTGAATGt                                       <  1:2595921/69‑1 (MQ=255)
                      cGAACGGCGTGTCGCTGGTGTGCTTACGTGCCGGGGTACGTTGGTAGTCAATCTTACCGTTGTGAATGt                                       <  1:114768/69‑1 (MQ=255)
                      cGAACGGCGTGTCGCTGGTGTGCTTACGTGCCGGGGTACGTTGGTAGTCAATCTTACCGTTGTGAATGt                                       <  1:150972/69‑1 (MQ=255)
                      cGAACGGCGTGTCGCTGGTGTGCTTACGTGCCGGGGTACGTTGGTAGTCAATCTTACCGTTGTGAATGt                                       <  1:868286/69‑1 (MQ=255)
                      cGAACGGCGTGTCGCTGGTGTGCTTACGTGCCGGGGTACGTTGGTAGTCAATCTTACCGTTGTGAATGt                                       <  1:2235658/69‑1 (MQ=255)
                      cGAACGGCGTGTCGCTGGTGTGCTTACGTGCCGGGGTACGTTGGTAGTCAATCTTACCGTTGTGAATGt                                       <  1:1043050/69‑1 (MQ=255)
                      cGAACGGCGTGTCGCTGGTGTGCTTACGTGCCGGGGTACGTTGGTAGTCAATCTTACCGTTGTGAATGt                                       <  1:2171164/69‑1 (MQ=255)
                      cGAACGGCGTGTCGCTGGTGTGCTTACGTGCCGGGGTACGTTGGTAGTCAATCTTACCGTTGTGAATGt                                       <  1:208358/69‑1 (MQ=255)
                      cGAACGGCGTGTCGCTGGTGTGCTTACGTGCCGGGGTACGTTGGTAGTCAATCTTACCGTTGTGAATGt                                       <  1:1685137/69‑1 (MQ=255)
                      cGAACGGCGTGTCGCTGGTGTGCTTACGTGCCGGGGTACGTTGGTAGTCAATCTTACCGTTGTGAATGt                                       <  1:1191071/69‑1 (MQ=255)
                      cGAACGGCGTGTCGCTGGTGTGCTTACGTGCCGGGGTACCTTGGTAGTCAATCTTACCGTTGTGAATGt                                       <  1:1043819/69‑1 (MQ=255)
                       gAATGGCGTGTCGCTGGTATGCTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGAATGTa                                      <  1:2927329/69‑1 (MQ=255)
                       gAATGGCGTGTCGCTGGTATGCTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGAATGTa                                      <  1:3101124/69‑1 (MQ=255)
                       gAATGGCGTGTCGCTGGTATGCTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGAATGTa                                      <  1:1296992/69‑1 (MQ=255)
                       gAATGGCGTGTCGCTGGTATGCTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGAATGTa                                      <  1:3292428/69‑1 (MQ=255)
                       gAATGGCGTGTCGCTGGTATGCTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGAATGTa                                      <  1:1780537/69‑1 (MQ=255)
                       gAATGGCGTGTCGCTGGTATGCTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGAATGTa                                      <  1:2637750/69‑1 (MQ=255)
                       gAATGGCGTGTCGCTGGTATGCTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGAATGTa                                      <  1:1455442/69‑1 (MQ=255)
                       gAATGGCGTGTCGCTGGTATGCTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGAATGTa                                      <  1:724096/69‑1 (MQ=255)
                       gAATGGCGTGTCGCTGGTATGCTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGAATGTa                                      <  1:809599/69‑1 (MQ=255)
                       gAACGGCGTGTCGCTGGTGTGCTTACGTGCCGGGGTACGTTGGTAGTCAATCTTACCGTTGTGAATGt                                       <  1:317566/68‑1 (MQ=255)
                        aacggCGTGTCGCTGGTGTGCTTACGTGCCGGGGTACGTTGGTAGTCAATCTTACCGTTGTGAATGt                                       <  1:1611093/64‑1 (MQ=255)
                          tGGCGTGTCGCTGGTATGCTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGAATGTAAcc                                   <  1:1877028/69‑1 (MQ=255)
                            gCGTGTCGCTGGTATGCTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGAATGTAAcc                                   >  1:292804/1‑67 (MQ=255)
                            gCGTGTCGCTGGTATGCTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGAATGTAAcc                                   >  1:3406160/1‑67 (MQ=255)
                            gCGTGTCGCTGGTATGCTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGAATGTAAcc                                   >  1:3210630/1‑67 (MQ=255)
                                gtCGCTGGTATGCTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGAATGTAACCCAGAgg                             >  1:2614844/1‑69 (MQ=255)
                                        tATGCTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGAATGTa                                      <  1:2601029/52‑1 (MQ=255)
                                         aTGCTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGAATGTAACCCAGAGGACCGTAGtt                    >  1:1849926/1‑69 (MQ=255)
                                         aTGCTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGAATGTAACCCAGAGGACCGTAGtt                    <  1:2770857/69‑1 (MQ=255)
                                         aTGCTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGAATGTAACCCAGAGGACCGTAGtt                    >  1:2747982/1‑69 (MQ=255)
                                         aTGCTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGAATGTAACCCAGAGGACCGTAGtt                    >  1:1578399/1‑69 (MQ=255)
                                         aTGCTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGAATGTAACCCAGAGGACCGTAGtt                    >  1:2266090/1‑69 (MQ=255)
                                         aTGCTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGAATGTAACCCAGAGGACCGTAGtt                    >  1:1590864/1‑69 (MQ=255)
                                          tGCTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGAATGTAACCCAGAGGACCGTAGtt                    <  1:2898609/68‑1 (MQ=255)
                                            cTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGAATGTAACCCAGAGGACCGTAGtt                    >  1:3265295/1‑66 (MQ=255)
                                            cTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGAATGTAACCCAGAGGACCGTAGtt                    >  1:3245215/1‑66 (MQ=255)
                                            cTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGAATGTAACCCAGAGGACCGTAGtt                    >  1:3208689/1‑66 (MQ=255)
                                            cTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGAATGTAACCCAGAGGACCGTAGtt                    >  1:2932869/1‑66 (MQ=255)
                                            cTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGAATGTAACCCAGAGGACCGTAGtt                    >  1:2262415/1‑66 (MQ=255)
                                            cTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGAATGTAACCCAGAGGACCGTAGtt                    >  1:1029679/1‑66 (MQ=255)
                                                           aCGCTGGTAGTCAATCTTACCGTTGTGAATGTAACCCAGAGGACCGTAGTTAACAGACTTGAAGGTCGc  <  1:856790/69‑1 (MQ=255)
                                                              |                                                                 
AGTTCATTCAGCTTAGAGACATCGAATGGCGTGTCGCTGGTATGCTTACGTGCCGGGGTACGCTGGTAGTCAATCTTACCGTTGTGAATGTAACCCAGAGGACCGTAGTTAACAGACTTGAAGGTCGC  >  minE/1987025‑1987152

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A