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 355,403 A→G 44.1% F76L (TTT→CTT) ‡ ybcI ← conserved inner membrane protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE355,4030AG44.1% 18.3 / 75.0 93F76L (TTT→CTT) ‡ybcIconserved inner membrane protein
Reads supporting (aligned to +/- strand):  ref base A (17/35);  new base G (10/31);  total (27/66)
Fisher's exact test for biased strand distribution p-value = 4.91e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 121 total aligned reads displayed.

GAGACGGTTAAAAACAGCCAGCAGCGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCAAAAACA  >  minE/355342‑355470
                                                             |                                                                   
gagaCGGTTAAAAACAGCCAGCAGCGAATCAGCCCAGCCCTGAAGCATCGGCGTCCAATAAACACACAt                                                              <  1:207352/69‑1 (MQ=255)
      gTTAAAAACAGCCAGCAGCGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATAAACACACATAACAGc                                                        <  1:2684555/69‑1 (MQ=255)
      gTTAAAAACAGCCAGCAGCGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATAAACACACATAACAGc                                                        <  1:2219617/69‑1 (MQ=255)
      gTTAAAAACAGCCAGCAGCGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATAAACACACATAACAGc                                                        <  1:365872/69‑1 (MQ=255)
              cagccagcAGCGAATCAGCCCAGCCCTGAACCATCTGCGTCCAATAAACACACATAACAGCGGGacaa                                                 >  1:945255/1‑68 (MQ=255)
              cagccagcAGCGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGacaa                                                 >  1:700607/1‑68 (MQ=255)
              cagccagcAGCGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGacaa                                                 >  1:295481/1‑68 (MQ=255)
              cagccagcAGCGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGacaa                                                 >  1:22232/1‑68 (MQ=255)
              cagccagcAGCGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGacaa                                                 >  1:2281081/1‑68 (MQ=255)
              cagccagcAGCGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGacaa                                                 >  1:1823988/1‑68 (MQ=255)
              cagccagcAGCGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGacaa                                                 >  1:821537/1‑68 (MQ=255)
              cagccagcAGCGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGacaa                                                 >  1:2751018/1‑68 (MQ=255)
              cagccagcAGCGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATAAACACACATAACAGAGGGacaa                                                 >  1:2717976/1‑68 (MQ=255)
                     cagcGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCa                                         <  1:1581880/69‑1 (MQ=255)
                     cagcGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCa                                         <  1:2793965/69‑1 (MQ=255)
                      agcGAATCAGCCCAGCCCTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCaa                                        <  1:2913458/69‑1 (MQ=255)
                      agcGAATCAGCCCAGCCCTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCaa                                        <  1:1356096/69‑1 (MQ=255)
                      agcGAATCAGCCCAGCCCTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCaa                                        <  1:1507517/69‑1 (MQ=255)
                      agcGAATCAGCCCAGCCCTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCaa                                        <  1:2759016/69‑1 (MQ=255)
                      agcGAATCAGCCCAGCCCTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCaa                                        <  1:1551874/69‑1 (MQ=255)
                      agcGAATCAGCCCAGCCCTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCaa                                        <  1:241006/69‑1 (MQ=255)
                      agcGAATCAGCCCAGCCCTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCaa                                        <  1:3011248/69‑1 (MQ=255)
                      agcGAATCAGCCCAGCCCTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCaa                                        <  1:3410138/69‑1 (MQ=255)
                      agcGAATCAGCCCAGCCCTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCaa                                        <  1:640676/69‑1 (MQ=255)
                      agcGAATCAGCCCAGCCCTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCaa                                        <  1:2271315/69‑1 (MQ=255)
                      agcGAATCAGCCCAGCCCTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCaa                                        <  1:253660/69‑1 (MQ=255)
                       gcGAATCAGCCCAGCCCTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCaa                                        <  1:400782/68‑1 (MQ=255)
                        cGAATCAGCCCAGCCCCGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCaaa                                       <  1:1151339/68‑1 (MQ=255)
                                cccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACATCAAACGCAAACACCAGCg                               <  1:1743274/68‑1 (MQ=255)
                                cccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCg                               <  1:3305325/68‑1 (MQ=255)
                                cccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCg                               <  1:3187108/68‑1 (MQ=255)
                                cccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCg                               <  1:3348888/68‑1 (MQ=255)
                                cccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCg                               <  1:1322520/68‑1 (MQ=255)
                                cccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCg                               <  1:1500659/68‑1 (MQ=255)
                                 ccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCg                               <  1:545085/67‑1 (MQ=255)
                                 ccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGaa                             <  1:2578229/69‑1 (MQ=255)
                                 ccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGaa                             >  1:2335183/1‑69 (MQ=255)
                                 ccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGaa                             >  1:9342/1‑69 (MQ=255)
                                 ccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGaa                             >  1:660295/1‑69 (MQ=255)
                                 ccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGaa                             <  1:1944302/69‑1 (MQ=255)
                                 ccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGaa                             <  1:3274121/69‑1 (MQ=255)
                                 ccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGaa                             <  1:17616/69‑1 (MQ=255)
                                 ccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGaa                             <  1:1634465/69‑1 (MQ=255)
                                 ccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGaa                             <  1:1609668/69‑1 (MQ=255)
                                 ccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGaa                             <  1:1550844/69‑1 (MQ=255)
                                 ccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGaa                             >  1:448348/1‑69 (MQ=255)
                                 ccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGaa                             >  1:638704/1‑69 (MQ=255)
                                 ccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGaa                             <  1:1236808/69‑1 (MQ=255)
                                   agcgcTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACATACGCAAACACCAGCGAATg                           <  1:381270/69‑1 (MQ=255)
                                   agcccTGAACCATCGACGTCCAATCAGGACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATg                           <  1:300607/69‑1 (MQ=255)
                                   agcccTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATg                           <  1:3050557/69‑1 (MQ=255)
                                   agcccTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATg                           <  1:2898222/69‑1 (MQ=255)
                                   agcccTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATg                           <  1:3052067/69‑1 (MQ=255)
                                   agcccTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATg                           <  1:1057201/69‑1 (MQ=255)
                                   agcccTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATg                           <  1:1008453/69‑1 (MQ=255)
                                   agcccTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATg                           <  1:2488968/69‑1 (MQ=255)
                                   agcccTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATg                           <  1:1704614/69‑1 (MQ=255)
                                   agcccTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATg                           <  1:1663231/69‑1 (MQ=255)
                                   agcccTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATg                           <  1:1386381/69‑1 (MQ=255)
                                   agcccTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATg                           <  1:2117549/69‑1 (MQ=255)
                                   agcccTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATg                           <  1:2176844/69‑1 (MQ=255)
                                      ccTGAACCATCGGCGTCCAATAAACACACATAACTGc                                                        <  1:388916/37‑1 (MQ=255)
                                       cTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCg                               <  1:2259550/61‑1 (MQ=255)
                                       cTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAATCGCAAACACCAGCGAATGGGTa                       >  1:3286567/1‑69 (MQ=255)
                                       cTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTa                       >  1:2986999/1‑69 (MQ=255)
                                       cTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTa                       >  1:2153381/1‑69 (MQ=255)
                                       cTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTa                       >  1:635614/1‑69 (MQ=255)
                                       cTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTa                       >  1:1209681/1‑69 (MQ=255)
                                       cTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTa                       >  1:1409956/1‑69 (MQ=255)
                                       cTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTa                       >  1:2782062/1‑69 (MQ=255)
                                       cTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTa                       >  1:2764792/1‑69 (MQ=255)
                                       cTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTa                       >  1:1143590/1‑69 (MQ=255)
                                         gAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTaaa                     <  1:1502922/69‑1 (MQ=255)
                                                 ggCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGAt             <  1:2210913/69‑1 (MQ=255)
                                                 ggCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGAt             <  1:1892025/69‑1 (MQ=255)
                                                       cAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCa        >  1:1264413/1‑68 (MQ=255)
                                                           aaaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGa           <  1:121379/61‑1 (MQ=255)
                                                           aaaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGa           <  1:185176/61‑1 (MQ=255)
                                                           aaaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGa           <  1:3245958/61‑1 (MQ=255)
                                                           aaaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGa           <  1:245691/61‑1 (MQ=255)
                                                           aaaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGa           <  1:1866039/61‑1 (MQ=255)
                                                           aaaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCAAAAAc   <  1:2817212/69‑1 (MQ=255)
                                                           aaaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCAAAAAc   <  1:1235494/69‑1 (MQ=255)
                                                           aaaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCAAAAAc   <  1:1356354/69‑1 (MQ=255)
                                                           aaaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCAAAAAc   <  1:90868/69‑1 (MQ=255)
                                                           aaaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCAAAAAc   <  1:487824/69‑1 (MQ=255)
                                                           aaaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCAAAAAc   <  1:3092043/69‑1 (MQ=255)
                                                           aaaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCAAAAAc   <  1:2665004/69‑1 (MQ=255)
                                                           aaaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCAAAAAc   <  1:3221712/69‑1 (MQ=255)
                                                           aaaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCAAAAAc   <  1:3379812/69‑1 (MQ=255)
                                                           aaaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCAAAAAc   <  1:1754175/69‑1 (MQ=255)
                                                           aaaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCAAAAAc   <  1:1784441/69‑1 (MQ=255)
                                                            aaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCaaaaa    >  1:2338455/1‑67 (MQ=255)
                                                            aaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCAAAAACa  >  1:1158090/1‑69 (MQ=255)
                                                            aaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCAAAAACa  >  1:2528634/1‑69 (MQ=255)
                                                            aaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCAAAAACa  >  1:2901486/1‑69 (MQ=255)
                                                            aaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCAAAAACa  >  1:2074633/1‑69 (MQ=255)
                                                            aaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCAAAAACa  >  1:516766/1‑69 (MQ=255)
                                                            aaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCAAAAACa  >  1:3216421/1‑69 (MQ=255)
                                                            aaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCAAAAACa  >  1:3217027/1‑69 (MQ=255)
                                                             |                                                                   
GAGACGGTTAAAAACAGCCAGCAGCGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCAAAAACA  >  minE/355342‑355470

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