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 1,974,440 T→C 44.3% I247I (ATT→ATC)  metK → methionine adenosyltransferase 1

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,974,4400TC44.3% 16.4 / 71.1 88I247I (ATT→ATC) metKmethionine adenosyltransferase 1
Reads supporting (aligned to +/- strand):  ref base T (8/41);  new base C (36/3);  total (44/44)
Fisher's exact test for biased strand distribution p-value = 3.19e-13
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.94e-01

CCCGACCGGTCGTTTCGTTATCGGTGGCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGATACCTACGGCGGCATGGCGCGTCACGGTGGCGGTGCATTCTCTGGTAAAGATCCATCAAA  >  minE/1974377‑1974508
                                                               |                                                                    
cccGACCGGTCGTTTCGTTATCGGTGGCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCg                                                                  <  1:2897439/68‑1 (MQ=255)
cccGACCGGTCGTTTCGTTATCGGTGGCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCg                                                                  <  1:1877269/68‑1 (MQ=255)
cccGACCGGTCGTTTCGTTATCGGTGGCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCg                                                                  <  1:1881276/68‑1 (MQ=255)
 ccGACCGGTCGTTTCGTTATCGGTGGCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCGtt                                                                <  1:2048017/69‑1 (MQ=255)
 ccGACCGGTCGTTTCGTTATCGGTGGCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCGtt                                                                <  1:2815075/69‑1 (MQ=255)
    aCCGGTCGTTTCGTTATCGGTGGCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGAt                                                             <  1:1579317/69‑1 (MQ=255)
    aCCGGTCGTTTCGTTATCGGTGGCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGAt                                                             <  1:2274883/69‑1 (MQ=255)
    aCCGGTCGTTTCGTTATCGGTGGCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGAt                                                             <  1:1709239/69‑1 (MQ=255)
    aCCGGTCGTTTCGTTATCGGTGGCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGAt                                                             <  1:387243/69‑1 (MQ=255)
    aCCGGTCGTTTCGTTATCGGTGGCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGAt                                                             <  1:195622/69‑1 (MQ=255)
    aCCGGTCGTTTCGTTATCGGTGGCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGAt                                                             <  1:2216969/69‑1 (MQ=255)
    aCCGGTCGTTTCGTTATCGGTGGCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGAt                                                             <  1:383062/69‑1 (MQ=255)
    aCCGGTCGTTTCGTTATCGGTGGCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGAt                                                             <  1:3032981/69‑1 (MQ=255)
    aCCGGTCGTTTCGTTATCGGTGGCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGAt                                                             <  1:827492/69‑1 (MQ=255)
    aCCGGTCGTTTCGTTATCGGTGGCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGAt                                                             <  1:3259015/69‑1 (MQ=255)
    aCCGGTCGTTTCGTTATCGGTGGCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGAt                                                             <  1:3283818/69‑1 (MQ=255)
    aCCGGTCGTTTCGTTATCGGTGGCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGAt                                                             <  1:344981/69‑1 (MQ=255)
    aCCGGTCGTTTCGTTATCGGTGGCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATAGTTGAt                                                             <  1:6069/69‑1 (MQ=255)
    aCCGGTCGTTTCGTTATCGGTGGCCCAATGGGGGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGAt                                                             <  1:2312759/69‑1 (MQ=255)
    aCCGGTCGTTTAGTTATCGGTGGCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGAt                                                             <  1:1017019/69‑1 (MQ=255)
           gtttcgttATCGGTGGCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCGtt                                                                <  1:2427956/59‑1 (MQ=255)
              tcgttATCGGTGGCCCAATGGGTGACTGCGGTCTGCCTGGTCGTAAAATTATCGTTGATACCTAcggc                                                    >  1:2827634/1‑68 (MQ=255)
              tcgttATCGGTGGCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGATACCTAcggc                                                    >  1:2435023/1‑68 (MQ=255)
                 ttATCGGTGGCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGATACCTACggcggc                                                 <  1:494736/68‑1 (MQ=255)
                 ttATCGGTGGCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGATACCTACggcggc                                                 <  1:1621292/68‑1 (MQ=255)
                 ttATCGGTGGCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGATACCTACggcggc                                                 <  1:767338/68‑1 (MQ=255)
                 ttATCGGTGGCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGATACCTACggcggc                                                 <  1:8034/68‑1 (MQ=255)
                 ttATCGGTGGCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGATACCTACggcggc                                                 <  1:1631190/68‑1 (MQ=255)
                  tATCGGTGGCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGATACCTACggcggc                                                 <  1:72666/67‑1 (MQ=255)
                  tATCGGTGGCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGATACCTACGGCGGCAt                                               >  1:2451249/1‑69 (MQ=255)
                  tATCGGTGGCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGATACCTACGGCGGCAt                                               >  1:656382/1‑69 (MQ=255)
                  tATCGGTGGCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGATACCTACGGCGGCAt                                               >  1:2615750/1‑69 (MQ=255)
                  tATCGGTGGCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGATACCTACGGCGGCAt                                               >  1:2611604/1‑69 (MQ=255)
                  tATCGGTGGCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGATACCTACGGCGGCAt                                               >  1:146628/1‑69 (MQ=255)
                   aTCGGTGGCCCGATGGGTGACTGCGGTCTGACTGGTCGTAAAATCATCGTTGATACCTACGGCGGCATg                                              >  1:3382756/1‑69 (MQ=255)
                   aTCGGTGGCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGATACCTACggcggc                                                 <  1:1066151/66‑1 (MQ=255)
                         ggCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGAt                                                             <  1:2648765/48‑1 (MQ=255)
                          gCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCGtt                                                                <  1:3136005/44‑1 (MQ=255)
                              aaTGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGATACCTACggcggc                                                 <  1:1405079/55‑1 (MQ=255)
                                  ggTGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGAt                                                             <  1:787357/39‑1 (MQ=255)
                                  ggTGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGAt                                                             <  1:1242108/39‑1 (MQ=255)
                                  ggTGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGAt                                                             <  1:701085/39‑1 (MQ=255)
                                  ggTAACTGCGGTCTGACTGGTCGTAAAATTATCGTTGAt                                                             <  1:315728/39‑1 (MQ=255)
                                    tGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGATACCTACGGCGGCATGGCGCGTCACGGTGGCgg                             <  1:1988634/69‑1 (MQ=255)
                                    tGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGATACCTACGGCGGCATGGCGCGTCACGGTGGCgg                             <  1:515046/69‑1 (MQ=255)
                                    tGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGATACCTACGGCGGCATGGCGCGTCACGGTGGCgg                             <  1:676020/69‑1 (MQ=255)
                                    tGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGATACCTACGGCGGCATGGCGCGTCACGGTGGCgg                             <  1:689477/69‑1 (MQ=255)
                                    tGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGATACCTACGGCGGCATGGCGCGTCACGGTGGCgg                             <  1:2286095/69‑1 (MQ=255)
                                      aCTGCGTTCTGACTGGTCGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTCATGGTGGCGGTg                           >  1:3084040/1‑69 (MQ=255)
                                      aCTGCGGTCTGACTGGTCGTAAAATCATCGTTGATACCTa                                                        >  1:2492874/1‑40 (MQ=255)
                                      aCTGCGGTCTGACTGGTCGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTCATGGTGGCGGt                            >  1:2602986/1‑68 (MQ=255)
                                      aCTGCGGTCTGACTGGTCGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTCATGGTGGCGGTg                           >  1:368462/1‑69 (MQ=255)
                                      aCTGCGGTCTGACTGGTCGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTCATGGTGGCGGTg                           >  1:1077384/1‑69 (MQ=255)
                                      aCTGCGGTCTGACTGGTCGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTCATGGTGGCGGTg                           >  1:3427384/1‑69 (MQ=255)
                                      aCTGCGGTCTGACTGGTCGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTCATGGTGGCGGTg                           >  1:506708/1‑69 (MQ=255)
                                      aCTGCGGTCTGACTGGTCGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTCATGGTGGCGGTg                           >  1:402622/1‑69 (MQ=255)
                                      aCTGCGGTCTGACTGGTCGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTCATGGTGGCGGTg                           >  1:723831/1‑69 (MQ=255)
                                      aCTGCGGTCTGACTGGTCGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTCATGGTGGCGGTg                           >  1:3354494/1‑69 (MQ=255)
                                      aCTGCGGTCTGACTGGTCGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTCATGGTGGCGGTg                           >  1:838176/1‑69 (MQ=255)
                                      aCTGCGGTCTGACTGGTCGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTCATGGTGGCGGTg                           >  1:54751/1‑69 (MQ=255)
                                      aCTGCGGTCTGACTGGTCGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTCATGGTGGCGGTg                           >  1:3157835/1‑69 (MQ=255)
                                      aCTGCGGTCTGACTGGTCGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTCATGGTGGCGGTg                           >  1:592234/1‑69 (MQ=255)
                                      aCTGCGGTCTGACTGGTCGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTCATGGTGGCGGTg                           >  1:1547078/1‑69 (MQ=255)
                                      aCTGCGGTCTGACTGGTCGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTCATGGTGGCGGTg                           >  1:1601107/1‑69 (MQ=255)
                                      aCTGCGGTCTGACTGGTCGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTCATGGTGGCGGTg                           >  1:2566857/1‑69 (MQ=255)
                                      aCTGCGGTCTGACTGGTCGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTCATGGTGGCGGTg                           >  1:2391299/1‑69 (MQ=255)
                                      aCTGCGGTCTGACTGGTCGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTCATGGTGGCGGTg                           >  1:172884/1‑69 (MQ=255)
                                      aCTGCGGTCTGACTGGTCGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTAATGGTGGCGGTg                           >  1:1061804/1‑69 (MQ=39)
                                        tGCGGTCTGACTGGTCGTAAAATTATCGTTGATACCTACGGCGGCATGGCGCGTCACGGTGGCGGTGCa                         <  1:935139/69‑1 (MQ=255)
                                                     gTCGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTc                                       >  1:2696157/1‑42 (MQ=255)
                                                     gTCGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTCATGGTGGCGGTGCGTtctccg                  >  1:2060898/1‑61 (MQ=255)
                                                     gTCGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTCATGGTGGCGGTGCGTTCTCCgg                 >  1:2960879/1‑64 (MQ=255)
                                                     gTCGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTCATGGTGGCGGTGCGTTCTCCgg                 >  1:3215994/1‑64 (MQ=255)
                                                     gTCGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTCATGGTGGCGGTGCGTTCTCCgg                 >  1:923293/1‑64 (MQ=255)
                                                     gTCGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTCATGGTGGCGGTGCGTTCTCCgg                 >  1:896607/1‑64 (MQ=255)
                                                     gTCGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTCATGGTGGCGGTGCGTTCTCCgg                 >  1:848540/1‑64 (MQ=255)
                                                     gTCGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTCATGGTGGCGGTGCGTTCTCCgg                 >  1:1354889/1‑64 (MQ=255)
                                                     gTCGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTCATGGTGGCGGTGCGTTCTCCgg                 >  1:1427821/1‑64 (MQ=255)
                                                     gTCGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTCATGGTGGCGGTGCGTTCTCCgg                 >  1:1804815/1‑64 (MQ=255)
                                                     gTCGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTCATGGTGGCGGTGCGTTCTCCgg                 >  1:3418355/1‑64 (MQ=255)
                                                     gTCGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTCATGGTGGCGGTGCGTTCTCCgg                 >  1:715876/1‑64 (MQ=255)
                                                     gTCGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTCATGGTGGCGGTGCGTTCTCCgg                 >  1:2060899/1‑64 (MQ=255)
                                                     gTCGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTCATGGTGGCGGTGCGTTCTCCgg                 >  1:2548129/1‑64 (MQ=255)
                                                     gTCGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTCATGGTGGCGGTGCGTTCTCCgg                 >  1:628568/1‑64 (MQ=255)
                                                       cGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTCATGGTGGCGGTGCGTTCTCCGGTAAAg            <  1:1653393/67‑1 (MQ=255)
                                                       cGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTCATGGTGGCGGTGCGTTCTCCGGTAAAg            <  1:2528568/67‑1 (MQ=255)
                                                       cGTAAAATCATCGTTGATACCTACGGCGGCATGGCGCGTCATGGTGGCGGTGCGTTCTCCGGTAAAg            <  1:320879/67‑1 (MQ=255)
                                                        gTAAAATTATCGTTGATACCTACGGCGGCATGGCGCGTCACGGTGGCGGTGCATTCTCTGGTAAAGATc         >  1:1986681/1‑69 (MQ=255)
                                                               tATCGTTGATACCTACGGCGGCATGGCGCGTCACGGTGGCGGTGCATTCTCTGGTAAAGATCCATCaaa  >  1:1428852/1‑69 (MQ=255)
                                                               tATCGTTGATACCTACGGCGGCATGGCGCGTCACGGTGGCGGTGCATTCTCTGGTAAAGATCCATCaaa  <  1:3083886/69‑1 (MQ=255)
                                                               |                                                                    
CCCGACCGGTCGTTTCGTTATCGGTGGCCCAATGGGTGACTGCGGTCTGACTGGTCGTAAAATTATCGTTGATACCTACGGCGGCATGGCGCGTCACGGTGGCGGTGCATTCTCTGGTAAAGATCCATCAAA  >  minE/1974377‑1974508

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