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 1,669,173 T→C 33.7% L290L (TTA→TTG)  der ← predicted GTP‑binding protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,669,1730TC33.7% 60.7 / 47.8 86L290L (TTA→TTG) derpredicted GTP‑binding protein
Reads supporting (aligned to +/- strand):  ref base T (33/24);  new base C (23/6);  total (56/30)
Fisher's exact test for biased strand distribution p-value = 5.83e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.52e-01

ACTATTGAGAATAAAGCCCAGCAGCGAGAGATCCTGATCGGAAATACCTTCGCGCGCATCAATCACTAACATCACCACGTTGGCGTCTTCAATGGCCTGCAACGTTTTGATTACGGAGAATTTCTCTACAGCA  >  minE/1669107‑1669239
                                                                  |                                                                  
aCTATTGAGAATAAAGCCCAGCAGCGAGAGATCCTGATCGGAAATACCTTCGCGCGCATCAATCACTaa                                                                  <  1:3418850/69‑1 (MQ=255)
 cTATTGAGAATAAAGCCCAGCAGCGAGAGATCCTGATCGGAAATACCTTCGCGCGCATCAATCACTAAc                                                                 <  1:3241760/69‑1 (MQ=255)
 cTATTGAGAATAAAGCCCAGCAGCGAGAGATCCTGATCGGAAATACCTTCGCGCGCATCAATCACTAAc                                                                 <  1:2668050/69‑1 (MQ=255)
 cTATTGAGAATAAAGCCCAGCAGCGAGAGATCCTGATCGGAAATACCTTCGCGCGCATCAATCACTAAc                                                                 <  1:3157284/69‑1 (MQ=255)
 cTATTGAGAATAAAGCCCAGCAGCGAGAGATCCTGATCGGAAATACCTTCGCGCGCATCAATCACTAAc                                                                 <  1:1226286/69‑1 (MQ=255)
           tAAAGCCCAGCAGCGAGAGATCCTGATCGGAAATACCTTCGCGCGCATCAATCACTAACATCACCACGt                                                       >  1:3024284/1‑69 (MQ=255)
           tAAAGCCCAGCAGCGAGAGATCCTGATCGGAAATACCTTCGCGCGCATCAATCACTAACATCACCACGt                                                       >  1:1532761/1‑69 (MQ=255)
             aaGCCCAGCAGCGAGAGATCCTGATCGGAAATACCTTCGCGCGCATCAATCACTAACATCACCACGtt                                                      >  1:2164864/1‑68 (MQ=255)
             aaGCCCAGCAGCGAGAGATCCTGATCGGAAATACCTTCGCGCGCATCAATCACTAACATCACCACGtt                                                      >  1:2583937/1‑68 (MQ=255)
             aaGCCCAGCAGCGAGAGATCCTGATCGGAAATACCTTCGCGCGCATCAATCACTAACATCACCACGTTg                                                     >  1:1387407/1‑69 (MQ=255)
             aaGCCCAGCAGCGAGAGATCCTGATCGGAAATACCTTCGCGCGCATCAATCACTAACATCACCACGTTg                                                     >  1:3323656/1‑69 (MQ=255)
             aaGCCCAGCAGCGAGAGATCCTGATCGGAAATACCTTCGCGCGCATCAATCACTAACATCACCACGTTg                                                     >  1:2266694/1‑69 (MQ=255)
             aaGCCCAGCAGCGAGAGATCCTGATCGGAAATACCTTCGCGCGCATCAATCACTAACATCACCACGTTg                                                     >  1:2379740/1‑69 (MQ=255)
             aaGCCCAGCAGCGAGAGATCCTGATCGGAAATACCTTCGCGCGCATCAATCACTAACATCACCACGTTg                                                     >  1:1521067/1‑69 (MQ=255)
             aaGCCCAGCAAGGAGAGATCCTGCTCGGAAATACCTTCACGCGCATCAATCACCAACATCACCACGTTg                                                     <  1:1156741/69‑1 (MQ=255)
             aaGCCCAGCAAGGAGAGATCCTGATCGGAAATACCTTCACGCGCATCAATCACCAACATCACCACGTTg                                                     <  1:3146449/69‑1 (MQ=255)
             aaGCCCAGCAAGGAGAGATCCTGATCGGAAATACCTTCACGCGCATCAATCACCAACATCACCACGTTg                                                     <  1:1401349/69‑1 (MQ=255)
             aaGCCCAGCAAGGAGAGATCCTGATCGGAAATACCTTCACGCGCATCAATCACCAACATCACCACGTTg                                                     <  1:731886/69‑1 (MQ=255)
             aaGCCCAGCAAGGAGAGATCCTGATCGGAAATACCTTCACGCGCATCAATCACCAACATCACCACGTTg                                                     <  1:644259/69‑1 (MQ=255)
             aaGCCCAGCAAGGAGAGATCCTGATCGGAAATACCTTCACGCGCATCAATCACCAACATCACCACGTTg                                                     <  1:1777925/69‑1 (MQ=255)
                     cggcGAGAGATCCTGATCGGAAATACCTTCGCGCGCATCAATCACTAACATCACCACGTTGGCGTCTTc                                             <  1:520518/67‑1 (MQ=255)
                     cagcGAGAGATCCTGATCGGAAATACCTTCGCGCGCATCAATCACTAACATCACCACGTTGGCGTCTTc                                             <  1:605537/69‑1 (MQ=255)
                     cagcGAGAGATCCTGATCGGAAATACCTTCGCGCGCATCAATCACTAACATCACCACGTTGGCGTCTTc                                             <  1:2918929/69‑1 (MQ=255)
                     cagcGAGAGATCCTGATCGGAAATACCTTCGCGCGCATCAATCACTAACATCACCACGTTGGCGTCTTc                                             <  1:3227659/69‑1 (MQ=255)
                      agcGAGAGATCCTGATCGGAAATACCTTCGCGCGCATCAATCACTAACATCACCACGTTGGCGTCTTCa                                            >  1:1494619/1‑69 (MQ=255)
                      agcGAGAGATCCTGATCGGAAATACCTTCGCGCGCATCAATCACTAACATCACCACGTTGGCGTCTTCa                                            <  1:927891/69‑1 (MQ=255)
                      agcGAGAGATCCTGATCGGAAATACCTTCGCGCGCATCAATCACTAACATCACCACGTTGGCGTCTTCa                                            >  1:979538/1‑69 (MQ=255)
                      agcGAGAGATCCTGATCGGAAATACCTTCGCGCGCATCAATCACTAACATCACCACGTTGGCGTCTTCa                                            <  1:2628248/69‑1 (MQ=255)
                      agcGAGAGATCCTGATCGGAAATACCTTCGCGCGCATCAATCACTAACATCACCACGTTGGCGGCTTCa                                            >  1:35104/1‑69 (MQ=255)
                      agcGAGAGATCCTGATCGGAAATACCTT‑G‑GCGCATCAATCACTAACATCACCACGTTGGCGTCTTCAAt                                          >  1:3058535/1‑69 (MQ=255)
                               tCCTGATCGGAAATACCTTCGCGCGCATCAATCACTAACATCACCACGTTGGCGTCTTCAATGGCCTGc                                   <  1:2373563/69‑1 (MQ=255)
                                ccTGATCGGTAATACCTTCGCGCGCATCAATCACTAACATCACCACGTTGGCGTCTTCAATGGCCTGCa                                  >  1:1751492/1‑69 (MQ=255)
                                ccTGATCGGAAATACCTTCGCGCGCATCAATCACTAACATCACCACGTTGGCGTCTTCAATGGCCTGCa                                  >  1:1099076/1‑69 (MQ=255)
                                ccTGATCGGAAATACCTTCGCGCGCATCAATCACTAACATCACCACGTTGGCGTCTTCAATGGCCTGCa                                  >  1:2097334/1‑69 (MQ=255)
                                ccTGATCGGAAATACCTTCGCGCGCATCAATCACTAACATCACCACGTTGGCGTCTTCAATGGCCTGCa                                  >  1:1172896/1‑69 (MQ=255)
                                ccTGATCGGAAATACCTTCGCGCGCATCAATCACTAACATCACCACGTTGGCGTCTTCAATGGCCTGCa                                  >  1:1372577/1‑69 (MQ=255)
                                ccTGATCGGAAATACCTTCGCGCGCATCAATCACTAACATCACCACGTTGGCGTCTTCAATGGCCTGCa                                  >  1:1390880/1‑69 (MQ=255)
                                ccTGATCGGAAATACCTTCGCGCGCATCAATCACTAACATCACCACGTTGGCGTCTTCAATGGCCTGCa                                  >  1:896587/1‑69 (MQ=255)
                                ccTGATCGGAAATACCTTCGCGCGCATCAATCACTAACATCACCACGTTGGCGTCTTCAATGGCCTGCa                                  >  1:1479493/1‑69 (MQ=255)
                                ccTGATCGGAAATACCTTCGCGCGCATCAATCACTAACATCACCACGTTGGCGTCTTCAATGGCCTGCa                                  >  1:1604916/1‑69 (MQ=255)
                                ccTGATCGGAAATACCTTCGCGCGCATCAATCACTAACATCACCACGTTGGCGTCTTCAATGGCCTGCa                                  >  1:202901/1‑69 (MQ=255)
                                ccTGATCGGAAATACCTTCGCGCGCATCAATCACTAACATCACCACGTTGGCGTCTTCAATGGCCTGCa                                  >  1:2076694/1‑69 (MQ=255)
                                ccTGATCGGAAATACCTTCGCGCGCATCAATCACTAACATCACCACGTTGGCGTCTTCAATGGCCTGCa                                  >  1:3429840/1‑69 (MQ=255)
                                          aaTACCTTCGCGCGCATCAATCACTAACATCACCACGTTGGCGTCTTCAATGGCCTGCAACGTTTTGAt                        <  1:3127768/69‑1 (MQ=255)
                                                 tCGCGCGCATCAATCACTAACATCACCACGTTGGCGTCTTCAATGGCCTGCAACGTTTTGATTACGgag                 <  1:3184760/69‑1 (MQ=255)
                                                 tCGCGCGCATCAATCACTAACATCACCACGTTGGCGTCTTCAATGGCCTGCAACGTTTTGATTACGgag                 <  1:2911198/69‑1 (MQ=255)
                                                     gcgcATCAATCACTAACATCACCACGTTGGCGTCTTCAATGGCCTGCAACGTTTTGATTACGGAGAAt              <  1:73683/68‑1 (MQ=255)
                                                     gcgcATCAATCACTAACATCACCACGTTGGCGTCTTCAATGGCCTGCAACGTTTTGATTACGGAGAAt              <  1:845824/68‑1 (MQ=255)
                                                     gcgcATCAATCACTAACATCACCACGTTGGCGTCTTCAATGGCCTGCAACGTTTTGATTACGGAGAAt              <  1:586205/68‑1 (MQ=255)
                                                     gcgcATCAATCACTAACATCACCACGTTGGCGTCTTCAATGGCCTGCAACGTTTTGATTACGGAGAAt              <  1:327261/68‑1 (MQ=255)
                                                     gcgcATCAATCACTAACATCACCACGTTGGCGTCTTCAATGGCCTGCAACGTTTTGATTACGGAGAAt              <  1:99398/68‑1 (MQ=255)
                                                     gcgcATCAATCACTAACATCACCACGTTGGCGTCTTCAATGGCCTGCAACGTTTTGATTACGGAGAAt              <  1:2570218/68‑1 (MQ=255)
                                                     gcgcATCAATCACTAACATCACCACGTTGGCGTCTTCAATGGCCTGCAACGTTTTGATTACGGAGAAt              <  1:1437928/68‑1 (MQ=255)
                                                     gcgcATCAATCACTAACATCACCACGTTGGCGTCTTCAATGGCCTGCAACGTTTTGATTACGGAGAAt              <  1:2335284/68‑1 (MQ=255)
                                                      cgcATCAATCACTAACATCACCACGTTGGCGTCTTCAATGGCCTGCAACGTTTTGATTACGGAGAAt              <  1:60853/67‑1 (MQ=255)
                                                               cacaAACATCACCACGTTGGCATCTTCAATGGCCTGCAACGTTTTGATTACCGAGAAt              >  1:854865/1‑58 (MQ=255)
                                                               caCTAACATCACCACGTTGGCGTCTTCAATGGCCTGCAACGTTTTGATTACGGAGAATTTCTCTACAGc   >  1:3297014/1‑69 (MQ=255)
                                                               caCCAACATCACCACGTTGGCATCTTCAATGGCCTGCTACGTTTTGATTACCGAGAAt              >  1:2246838/1‑58 (MQ=255)
                                                               caCCAACATCACCACGTTGGCATCTTCAATGGCCTGCAACGTTTTGATTACCGAGAAt              >  1:2097651/1‑58 (MQ=255)
                                                               caCCAACATCACCACGTTGGCATCTTCAATGGCCTGCAACGTTTTGATTACCGAGAAt              >  1:2101558/1‑58 (MQ=255)
                                                               caCCAACATCACCACGTTGGCATCTTCAATGGCCTGCAACGTTTTGATTACCGAGAAt              >  1:1917780/1‑58 (MQ=255)
                                                               caCCAACATCACCACGTTGGCATCTTCAATGGCCTGCAACGTTTTGATTACCGAGAAt              >  1:174224/1‑58 (MQ=255)
                                                               caCCAACATCACCACGTTGGCATCTTCAATGGCCTGCAACGTTTTGATTACCGAGAAt              >  1:1717520/1‑58 (MQ=255)
                                                               caCCAACATCACCACGTTGGCATCTTCAATGGCCTGCAACGTTTTGATTACCGAGAAt              >  1:1653593/1‑58 (MQ=255)
                                                               caCCAACATCACCACGTTGGCATCTTCAATGGCCTGCAACGTTTTGATTACCGAGAAt              >  1:1405942/1‑58 (MQ=255)
                                                               caCCAACATCACCACGTTGGCATCTTCAATGGCCTGCAACGTTTTGATTACCGAGAAt              >  1:89812/1‑58 (MQ=255)
                                                               caCCAACATCACCACGTTGGCATCTTCAATGGCCTGCAACGTTTTGATTACCGAGAAt              >  1:1182688/1‑58 (MQ=255)
                                                               caCCAACATCACCACGTTGGCATCTTCAATGGCCTGCAACGTTTTGATTACCGAGAAt              >  1:946447/1‑58 (MQ=255)
                                                               caCCAACATCACCACGTTGGCATCTTCAATGGCCTGCAACGTTTTGATTACCGAGAAt              >  1:1179245/1‑58 (MQ=255)
                                                               caCCAACATCACCACGTTGGCATCTTCAATGGCCTGCAACGTTTTGATTACCGAGAAt              >  1:1109930/1‑58 (MQ=255)
                                                               caCCAACATCACCACGTTGGCATCTTCAATGGCCTGCAACGTTTTGATTACCGAGAAt              >  1:2550128/1‑58 (MQ=255)
                                                               caCCAACATCACCACGTTGGCATCTTCAATGGCCTGCAACGTTTTGATTACCGAGAAt              >  1:3088995/1‑58 (MQ=255)
                                                               caCCAACATCACCACGTTGGCATCTTCAATGGCCTGCAACGTTTTGATTACCGAGAAt              >  1:2992961/1‑58 (MQ=255)
                                                               caCCAACATCACCACGTTGGCATCTTCAATGGCCTGCAACGTTTTGATTACCGAGAAt              >  1:2946436/1‑58 (MQ=255)
                                                               caCCAACATCACCACGTTGGCATCTTCAATGGCCTGCAACGTTTTGATTACCGAGAAt              >  1:3183086/1‑58 (MQ=255)
                                                               caCCAACATCACCACGTTGGCATCTTCAATGGCCTGCAACGTTTTGATTACCGAGAAt              >  1:3322966/1‑58 (MQ=255)
                                                               caCCAACATCACCACGTTGGCATCTTCAATGGCCTGCAACGTTTTGATTACCGAGAAt              >  1:3373974/1‑58 (MQ=255)
                                                               caCCAACATCACCACGTTGGCATCTTCAATGGCCTGCAACGTTTTGATTACCGAGAAt              >  1:2147475/1‑58 (MQ=255)
                                                               caCCAACATCACCACGTTGGCATCTTCAATGGCCTGCAACGTTTTGATTACCGAGAAt              >  1:2143884/1‑58 (MQ=255)
                                                               caCCAACATCACCACGTTGGCATCTTCAATGGCCTGCAACGTTTTGATTACCGAGAAt              >  1:2994412/1‑58 (MQ=255)
                                                                aCTAACATCACCACGTTGGCGTCTTCAATGGCCTGCAACGTTTTGATTAGGGAGAATTTCTCTACAGCa  >  1:917924/1‑69 (MQ=255)
                                                                aCTAACATCACCACGTTGGCGTCTTCAATGGCCTGCAACGTTTTGATTACGGAGAATTTCTCTACAGCa  >  1:2340466/1‑69 (MQ=255)
                                                                aCTAACATCACCACGTTGGCGTCTTCAATGGCCTGCAACGTTTTGATTACGGAGAATTTCTCTACAGCa  >  1:451722/1‑69 (MQ=255)
                                                                aCTAACATCACCACGTTGGCGTCTTCAATGGCCTGCAACGTTTTGATTACGGAGAATTTCTCTACAGCa  >  1:3203595/1‑69 (MQ=255)
                                                                aCTAACATCACCACGTTGGCGTCTTCAATGGCCTGCAACGTTTTGATTACGGAGAATTTCTCTACAGCa  >  1:3160876/1‑69 (MQ=255)
                                                                aCTAACATCACCACGTTGGCGTCTTCAATGGCCTGCAACGTTTTGATTACGGAGAATTTCTCTACAGCa  >  1:2679746/1‑69 (MQ=255)
                                                                aCTAACATCACCACGTTGGCGTCTTCAATGGCCTGCAACGTTTTGATTACGGAGAATTTCTCTACAGCa  >  1:2042130/1‑69 (MQ=255)
                                                                  |                                                                  
ACTATTGAGAATAAAGCCCAGCAGCGAGAGATCCTGATCGGAAATACCTTCGCGCGCATCAATCACTAACATCACCACGTTGGCGTCTTCAATGGCCTGCAACGTTTTGATTACGGAGAATTTCTCTACAGCA  >  minE/1669107‑1669239

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