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 959,697 A→G 35.9% T203T (ACT→ACC)  pqqL ← predicted peptidase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE959,6970AG35.9% 45.0 / 44.5 75T203T (ACT→ACC) pqqLpredicted peptidase
Reads supporting (aligned to +/- strand):  ref base A (29/19);  new base G (6/21);  total (35/40)
Fisher's exact test for biased strand distribution p-value = 1.77e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

ATTATTTGGTTGATACCAGCGTTGATAAAATTGGCGCAATTGTGCCGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTATTTGCCAGCAGGAAAGGGCGGCGC  >  minE/959634‑959763
                                                               |                                                                  
attattTGGTTGATACCAGCGTTGATAAAATTGGCGCAATTGTGCCGGTGTGACCGTGGCGACAGTATc                                                               <  1:414269/69‑1 (MQ=255)
attattTGGTTGATACCAGCGTTGATAAAATTGGCGCAATTGTGCCGGTGTGACCGTGGCGACAGTATc                                                               <  1:351485/69‑1 (MQ=255)
attattTGGTTGATACCAGCGTTGATAAAATTGGCGCAATTGTGCCGGTGTGACCGTGGCGACAGTATc                                                               <  1:2028042/69‑1 (MQ=255)
     ttGGTTGATACCAGCGTTGATAAAATTGGCGCAATTGTGCCGGTGTGACCGTGGCGACGGTATCCATc                                                           >  1:183218/1‑68 (MQ=255)
     ttGGTTGATACCAGCGTTGATAAAATTGGCGCAATTGTGCCGGTGTGACCGTGGCGACGGTATCCATc                                                           >  1:2096591/1‑68 (MQ=255)
     ttGGTTGATACCAGCGTTGATAAAATTGGCGCAATTGTGCCGGTGTGACCGTGGCGACGGTATCCATCa                                                          >  1:985800/1‑69 (MQ=255)
     ttGGTTGATACCAGCGTTGATAAAATTGGCGCAATTGTGCCGGTGTGACCGTGGCGACGGTATCCATCa                                                          >  1:290570/1‑69 (MQ=255)
     ttGGTTGATACCAGCGTTGATAAAATTGGCGCAATTGTGCCGGTGTGACCGTGGCGACGGTATCCATCa                                                          >  1:2787294/1‑69 (MQ=255)
     ttGGTTGATACCAGCGTTGATAAAATTGGCGCAATTGTGCCGGTGTGACCGTGGCGACGGTATCCATCa                                                          >  1:2156837/1‑69 (MQ=255)
              aCCAGCGTTGATAAAATTGGCGCAATTGTGCCGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATa                                                  <  1:1820620/68‑1 (MQ=255)
              aCCAGCGTTGATAAAATTGGCGCAATTGTGCCGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATa                                                  <  1:1107297/68‑1 (MQ=255)
              aCCAGCGTTGATAAAATTGGCGCAATTGTGCCGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATa                                                  <  1:2155415/68‑1 (MQ=255)
              aCCAGCGTTGATAAAATTGGCGCAATTGTGCCGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATa                                                  <  1:2268424/68‑1 (MQ=255)
              aCCAGCGTTGATAAAATTGGCGCAATTGTGCCGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATa                                                  <  1:2436898/68‑1 (MQ=255)
              aCCAGCGTTGATAAAATTGGCGCAATTGTGCCGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATa                                                  <  1:2511421/68‑1 (MQ=255)
              aCCAGCGTTGATAAAATTGGCGCAATTGTGCCGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATa                                                  <  1:3054549/68‑1 (MQ=255)
              aCCAGCGTTGATAAAATTGGCGCAATTGTGCCGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATa                                                  <  1:3302661/68‑1 (MQ=255)
              aCCAGCGTTGATAAAATTGGCGCAATTGTGCCGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATa                                                  <  1:737585/68‑1 (MQ=255)
              aCCAGCGTTGATAAAATTGGCGCAATTGTGCCGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATa                                                  <  1:1150560/68‑1 (MQ=255)
              aCCAGCGTTGATAAAATTGGCGCAATTGTGCCGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATa                                                  <  1:1238191/68‑1 (MQ=255)
               ccAGCGTTGATAAAATTGGCGCAATTGTGCCGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATa                                                  >  1:1519198/1‑67 (MQ=255)
               ccAGCGTTGATAAAATTGGCGCAATTGTGCCGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATAgg                                                >  1:1138373/1‑69 (MQ=255)
               ccAGCGTTGATAAAATTGGCGCAATTGTGCCGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATAgg                                                >  1:2821939/1‑69 (MQ=255)
               ccAGCGTTGATAAAATTGGCGCAATTGTGCCGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATAgg                                                >  1:2582310/1‑69 (MQ=255)
               ccAGCGTTGATAAAATTGGCGCAATTGTGCCGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATAgg                                                >  1:2387391/1‑69 (MQ=255)
               ccAGCGTTGATAAAATTGGCGCAATTGTGCCGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATAgg                                                >  1:332390/1‑69 (MQ=255)
               ccAGCGTTGATAAAATTGGCGCAATTGTGCCGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATAgg                                                >  1:2008759/1‑69 (MQ=255)
               ccAGCGTTGATAAAATTGGCGCAATTGTGCCGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATAg                                                 >  1:841332/1‑68 (MQ=255)
               ccAGCGTTGATAAAATTGGCGCAATTGTGCCGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATAg                                                 >  1:140984/1‑68 (MQ=255)
                                     aaTTGTGCCGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTa                          <  1:1115877/69‑1 (MQ=255)
                                         gtgCCGGTGTGACCGTGGCGACAGTATCCATCAGGCCg                                                     >  1:1456876/1‑38 (MQ=255)
                                         gtgCCGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTAttt                       >  1:1737353/1‑68 (MQ=255)
                                         gtgCCGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTAttt                       >  1:2678795/1‑68 (MQ=255)
                                         gtgCCGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTAttt                       >  1:1006352/1‑68 (MQ=255)
                                         gtgCCGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTAttt                       >  1:2847216/1‑68 (MQ=255)
                                         gtgCCGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTAttt                       >  1:88685/1‑68 (MQ=255)
                                         gtgCCGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTAttt                       >  1:2479221/1‑68 (MQ=255)
                                         gtgCCGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTAttt                       >  1:664941/1‑68 (MQ=255)
                                         gtgCCGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTAttt                       >  1:2922680/1‑68 (MQ=255)
                                         gtgCCGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTAttt                       >  1:1705808/1‑68 (MQ=255)
                                         gtgCCGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTAttt                       >  1:760003/1‑68 (MQ=255)
                                         gtgCCGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTAttt                       >  1:779484/1‑68 (MQ=255)
                                            ccGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTATTTGcc                    >  1:3228667/1‑68 (MQ=255)
                                            ccGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATAGGTTCACGGTCTAAAATAAGGGTATTTGcc                    >  1:201127/1‑68 (MQ=255)
                                             cGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTATTTGcc                    <  1:1871011/67‑1 (MQ=255)
                                                  tgACCGTGGCGACGGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTATTTGCCTGCAGGa             <  1:442429/69‑1 (MQ=255)
                                                  tgACCGTGGCGACGGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTATTTGCCAGCAGGa             <  1:434002/69‑1 (MQ=255)
                                                  tgACCGTGGCGACGGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTATTTGCCAGCAGGa             <  1:480424/69‑1 (MQ=255)
                                                  tgACCGTGGCGACGGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTATTTGCCAGCAGGa             <  1:56727/69‑1 (MQ=255)
                                                  tgACCGTGGCGACGGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTATTTGCCAGCAGGa             <  1:59212/69‑1 (MQ=255)
                                                  tgACCGTGGCGACGGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTATTTGCCAGCAGGa             <  1:3430431/69‑1 (MQ=255)
                                                  tgACCGTGGCGACGGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTATTTGCCAGCAGGa             <  1:1158408/69‑1 (MQ=255)
                                                  tgACCGTGGCGACGGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTATTTGCCAGCAGGa             <  1:3294555/69‑1 (MQ=255)
                                                  tgACCGTGGCGACGGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTATTTGCCAGCAGGa             <  1:2897560/69‑1 (MQ=255)
                                                  tgACCGTGGCGACGGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTATTTGCCAGCAGGa             <  1:3194389/69‑1 (MQ=255)
                                                  tgACCGTGGCGACGGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTATTTGCCAGCAGGa             <  1:1897750/69‑1 (MQ=255)
                                                  tgACCGTGGCGACGGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTATTTGCCAGCAGGa             <  1:2467191/69‑1 (MQ=255)
                                                  tgACCGTGGCGACGGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTATTTGCCAGCAGGa             <  1:2530408/69‑1 (MQ=255)
                                                  tgACCGTGGCGACGGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTATTTGCCAGCAGGa             <  1:2643668/69‑1 (MQ=255)
                                                  tgACCGTGGCGACGGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTATTTGCCAGCAGGa             <  1:2662161/69‑1 (MQ=255)
                                                  tgACCGTGGCGACGGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTATTTGCCAGCAGGa             <  1:127280/69‑1 (MQ=255)
                                                  tgACCGTGGCGACGGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTATTTGCCAGCAGGa             <  1:2809769/69‑1 (MQ=255)
                                                  tgACCGTGGCGACGGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTATTTGCCAGCAGGa             <  1:1779448/69‑1 (MQ=255)
                                                  tgACCGTGGCGACGGTATCCATCAGGCCGACAGGTTCACGGTCTAAATTACGGGTATTTGCCAGCAGGa             <  1:2182531/69‑1 (MQ=255)
                                                  tgACCGTGGCGACAGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTATTTGCcagcag               >  1:1748228/1‑67 (MQ=255)
                                                  tgACCGTGGCGACAGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTATTTGCcagcag               >  1:837641/1‑67 (MQ=255)
                                                  tgACCGTGGCGACAGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTATTTGCcagcag               >  1:2027080/1‑67 (MQ=255)
                                                  tgACCGTGGCGACAGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTATTTGCcagcag               >  1:3203646/1‑67 (MQ=255)
                                                  tgACCGTGGCGACAGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTATTTGCcagca                >  1:3144222/1‑66 (MQ=255)
                                                   gACCGTGGCGACGGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTATTTGCCAGCAGGa             <  1:1212041/68‑1 (MQ=255)
                                                    aCCGTGGCGACGGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTATTTGCCAGCAGGa             <  1:1724773/67‑1 (MQ=255)
                                                          gCGACAGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTATTTGCCAGCAGGAAAGggcgg     >  1:575189/1‑69 (MQ=255)
                                                             aCATTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTATTTGCCAGCAGGAAAGGGCGgcgc  <  1:409926/69‑1 (MQ=255)
                                                             aCAGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTATTTGCCAGCAGGAAAGGGCGgcgc  <  1:265266/69‑1 (MQ=255)
                                                             aCAGTATCCATCAGGCCGATAGCTTCACGGTCTAAATTACGGGTATTCGCCAGCAGGAAAGGGCGgcgc  <  1:1777199/69‑1 (MQ=255)
                                                               |                                                                  
ATTATTTGGTTGATACCAGCGTTGATAAAATTGGCGCAATTGTGCCGGTGTGACCGTGGCGACAGTATCCATCAGGCCGATAGGTTCACGGTCTAAATTACGGGTATTTGCCAGCAGGAAAGGGCGGCGC  >  minE/959634‑959763

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