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 1,472,815 C→G 24.6% T133T (ACC→ACG)  nrdA → ribonucleoside diphosphate reductase 1, alpha subunit

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,472,8150CG24.6% 160.5 / 48.3 101T133T (ACC→ACG) nrdAribonucleoside diphosphate reductase 1, alpha subunit
Reads supporting (aligned to +/- strand):  ref base C (24/52);  new base G (6/19);  total (30/71)
Fisher's exact test for biased strand distribution p-value = 6.16e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 101 total aligned reads displayed.

TACGATAATCATCTGCTGGAAGACTACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAAGCAGCTGGAAGGCAAATA  >  minE/1472759‑1472880
                                                        |                                                                 
tACGATAATCATCTGCTGGAAGACTACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCAc                                                       >  1:2570055/1‑69 (MQ=255)
tACGATAATCATCTGCTGGAAGACTACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCAc                                                       >  1:107659/1‑69 (MQ=255)
       atcatcTGCTGGAAGACTACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTg                                                <  1:1853616/69‑1 (MQ=255)
       atcatcTGCTGGAAGACTACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTg                                                <  1:3273624/69‑1 (MQ=255)
         catcTGCTGGAAGACTACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGa                                               <  1:1537703/68‑1 (MQ=255)
          atcTGCTGGAAGACTACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACg                                                      >  1:2805346/1‑60 (MQ=255)
          atcTGCTGGAAGACTACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGat                                              >  1:1016462/1‑68 (MQ=255)
          atcTGCTGGAAGACTACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGat                                              >  1:2129097/1‑68 (MQ=255)
          atcTGCTGGAAGACTACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGat                                              >  1:2058816/1‑68 (MQ=255)
          atcTGCTGGAAGACTACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGat                                              >  1:2820015/1‑68 (MQ=255)
          atcTGCTGGAAGACTACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGat                                              >  1:2842300/1‑68 (MQ=255)
          atcTGCTGGAAGACTACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGat                                              >  1:2917597/1‑68 (MQ=255)
          atcTGCTGGAAGACTACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGat                                              >  1:3105639/1‑68 (MQ=255)
          atcTGCTGGAAGACTACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGat                                              >  1:348339/1‑68 (MQ=255)
          atcTGCTGGAAGACTACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGat                                              >  1:853779/1‑68 (MQ=255)
          atcTGCTGGAAGACTACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCCATCACGACCGTGat                                              >  1:1999722/1‑68 (MQ=255)
                 ggAAGACTACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGa                                               <  1:906596/60‑1 (MQ=255)
                 ggAAGACTACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGa                                               <  1:1066799/60‑1 (MQ=255)
                 ggAAGACTACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGATATGACCt                                       <  1:2254720/68‑1 (MQ=255)
                 ggAAGACTACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACGACAGTGa                                               <  1:3367672/60‑1 (MQ=255)
                  gAAGACTACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGa                                               <  1:346478/59‑1 (MQ=255)
                     gACTACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGATATGACCTTctct                                  <  1:1970152/69‑1 (MQ=255)
                     gACTACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGATATGACCTTctct                                  <  1:3216341/69‑1 (MQ=255)
                     gACTACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGATATGACCTTctct                                  <  1:2836205/69‑1 (MQ=255)
                      aCTACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGa                                               <  1:2178525/55‑1 (MQ=255)
                      aCTACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGATATGACCt                                       <  1:2915776/63‑1 (MQ=255)
                      aCTACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGATATGACCTTctct                                  <  1:2403132/68‑1 (MQ=255)
                      aCTACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGATATGACCTTctct                                  <  1:293091/68‑1 (MQ=255)
                      aCTACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGATATGACCTTctct                                  <  1:64164/68‑1 (MQ=255)
                      aCTACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGATATGACCTTctct                                  <  1:3332969/68‑1 (MQ=255)
                      aCTACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGATATGACCTTctct                                  <  1:131312/68‑1 (MQ=255)
                      aCTACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGATATGACCTTctct                                  <  1:2112962/68‑1 (MQ=255)
                      aCTACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGATATGACCTTctct                                  <  1:2484345/68‑1 (MQ=255)
                        tACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGATATGACCTTCTCTTAt                               >  1:756975/1‑69 (MQ=255)
                          cacGGAAGAAGAGTTCAAGCAGATGGACACGTTTATCGATCACGACCGTGATATGa                                          >  1:2235005/1‑56 (MQ=255)
                          cacGGAAGAAGAGTTCAAGCAGATGGACACGTTTATCGATCACGACCGTGATATGa                                          >  1:1034554/1‑56 (MQ=255)
                          cacGGAAGAAGAGTTCAAGCAGATGGACACGTTTATCGATCACGACCGTGATATGa                                          >  1:708696/1‑56 (MQ=255)
                          cacGGAAGAAGAGTTCAAGCAGATGGACACGTTTATCGATCACGACCGTGATATGa                                          >  1:68099/1‑56 (MQ=255)
                          cacGGAAGAAGAGTTCAAGCAGATGGACACGTTTATCGATCACGACCGTGATATGa                                          >  1:3004160/1‑56 (MQ=255)
                          cacGGAAGAAGAGTTCAAGCAGATGGACACGTTTATCGATCACGACCGTGATATGa                                          >  1:3355320/1‑56 (MQ=255)
                          cacGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGATATGACCt                                       <  1:9071/59‑1 (MQ=255)
                          cacGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGATATGACCTTctct                                  <  1:1253030/64‑1 (MQ=255)
                             ggAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGATATGACCTTctct                                  <  1:1014991/61‑1 (MQ=255)
                                agaagaTTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGa                                               <  1:76807/45‑1 (MQ=255)
                                  aagaGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGa                                               <  1:1088127/43‑1 (MQ=255)
                                  aagaGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGATATGACCTTctct                                  <  1:3296179/56‑1 (MQ=255)
                                  aagaGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTa                     <  1:841297/69‑1 (MQ=255)
                                  aagaGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTa                     <  1:1664603/69‑1 (MQ=255)
                                  aagaGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTa                     <  1:3132890/69‑1 (MQ=255)
                                  aagaGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTa                     <  1:3318221/69‑1 (MQ=255)
                                  aagaGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTa                     <  1:1330253/69‑1 (MQ=255)
                                  aagaGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTa                     <  1:1207037/69‑1 (MQ=255)
                                  aagaGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTa                     <  1:845272/69‑1 (MQ=255)
                                    gagTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTa                     >  1:652723/1‑67 (MQ=255)
                                     agTTCAAGCAGATGGACACCTTTATCGATCACGAc                                                    <  1:121575/35‑1 (MQ=255)
                                        tCAAGCAGATGGACACGTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAagcagc               <  1:2287295/69‑1 (MQ=255)
                                        tCAAGCAGATGGACACGTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAagcagc               <  1:694155/69‑1 (MQ=255)
                                        tCAAGCAGATGGACACGTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAagcagc               <  1:1593566/69‑1 (MQ=255)
                                        tCAAGCAGATGGACACGTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAagcagc               <  1:2980955/69‑1 (MQ=255)
                                        tCAAGCAGATGGACACGTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAagcagc               <  1:2918968/69‑1 (MQ=255)
                                        tCAAGCAGATGGACACGTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAagcagc               <  1:1700221/69‑1 (MQ=255)
                                        tCAAGCAGATGGACACGTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAagcagc               <  1:1833490/69‑1 (MQ=255)
                                        tCAAGCAGATGGACACGTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAagcagc               <  1:2796912/69‑1 (MQ=255)
                                        tCAAGCAGATGGACACCTTTATCGATCACGACCGTGATATGACCTTctct                                  <  1:2426942/50‑1 (MQ=255)
                                         cAAGCAGATGGACACGTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAagcagc               <  1:3313698/68‑1 (MQ=255)
                                         cAAGCAGATGGACACGTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAagcagc               <  1:645294/68‑1 (MQ=255)
                                         cAAGCAGATGGACACGTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAagcagc               <  1:358766/68‑1 (MQ=255)
                                         cAAGCAGATGGACACGTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAagcagc               <  1:1542081/68‑1 (MQ=255)
                                         cAAGCAGATGGACACCTTTATCGATCACGACCGTGATATGAcc                                        >  1:2122652/1‑43 (MQ=255)
                                         cAAGCAGATGGACACCTTTATCGATCACGACCGTGATATGAcc                                        >  1:123294/1‑43 (MQ=255)
                                         cAAGCAGATGGACACCTTTATCGATCACGACCGTGATATGAcc                                        >  1:1958336/1‑43 (MQ=255)
                                         cAAGCAGATGGACACCTTTATCGATCACGACCGTGATATGAcc                                        >  1:2421377/1‑43 (MQ=255)
                                         cAAGCAGATAGACACCTTTATCGATCACGACCGTGATATGAcc                                        >  1:258241/1‑43 (MQ=255)
                                            gCAGATGTACACGTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAagcagc               <  1:3148682/65‑1 (MQ=255)
                                            gCAGATGGACACCTTTATCGATCACGACCGTGATATGACCt                                       <  1:2641856/41‑1 (MQ=255)
                                             cAGATGGACACGTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAagcagc               <  1:3033654/64‑1 (MQ=255)
                                             cAGATGGACACCTTTATCGATCACGACCGTGATATGACCt                                       <  1:598515/40‑1 (MQ=255)
                                                aTGGACACGTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAagcagc               <  1:2198052/61‑1 (MQ=255)
                                                     cacGTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAagcagc               <  1:2789909/56‑1 (MQ=255)
                                                     cacGTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAagcagc               <  1:2087513/56‑1 (MQ=255)
                                                     cacGTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAagcagc               <  1:2483768/56‑1 (MQ=255)
                                                     cacCTTTATCGATCACGACCGTGATATGACCTTctct                                  <  1:1491427/37‑1 (MQ=255)
                                                     cacCTTTATCGATCACGACCGTGATATGACCTTctct                                  <  1:1811150/37‑1 (MQ=255)
                                                     cacCTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAAGCAGCTGGAAGGCAAata  >  1:1068041/1‑69 (MQ=255)
                                                     cacCTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAAGCAGCTGGAAGGCAAata  >  1:509853/1‑69 (MQ=255)
                                                     cacCTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAAGCAGCTGGAAGGCAAata  >  1:2832476/1‑69 (MQ=255)
                                                     cacCTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAAGCAGCTGGAAGGCAAata  >  1:1898215/1‑69 (MQ=255)
                                                     cacCTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAAGCAGCTGGAAGGCAAat   <  1:665327/68‑1 (MQ=255)
                                                     cacCTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAAGCAGCTGGAAGGCAAat   <  1:1709115/68‑1 (MQ=255)
                                                     cacCTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAAGCAGCTGGAAGGCAAat   <  1:1046291/68‑1 (MQ=255)
                                                     cacCTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAAGCAGCTGGAAGGCAAat   <  1:1107962/68‑1 (MQ=255)
                                                     cacCTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAAGCAGCTGGAAGGCAAat   <  1:118885/68‑1 (MQ=255)
                                                     cacCTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAAGCAGCTGGAAGGCAAat   <  1:2715778/68‑1 (MQ=255)
                                                     cacCTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAAGCAGCTGGAAGGCAAat   <  1:195515/68‑1 (MQ=255)
                                                     cacCTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAAGCAGCTGGAAGGCAAat   <  1:1577159/68‑1 (MQ=255)
                                                     cacCTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAAGCAGCTGGAAGGCAAat   <  1:3230097/68‑1 (MQ=255)
                                                     cacCTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAAGCAGCTGGAAGGCAAat   <  1:325912/68‑1 (MQ=255)
                                                     cacCTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAAGCAGCTGGAAGGCAAat   <  1:1209771/68‑1 (MQ=255)
                                                     cacCTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAAGCAGCTGGAAGGCAAat   <  1:2773751/68‑1 (MQ=255)
                                                     cacCTTTATCGAGCACGACCGTGATATGACCTTctct                                  <  1:2398895/37‑1 (MQ=255)
                                                        |                                                                 
TACGATAATCATCTGCTGGAAGACTACACGGAAGAAGAGTTCAAGCAGATGGACACCTTTATCGATCACGACCGTGATATGACCTTCTCTTATGCTGCCGTTAAGCAGCTGGAAGGCAAATA  >  minE/1472759‑1472880

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