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 1,570,332 C→T 50.5% I224I (ATC→ATT)  nupC → nucleoside (except guanosine) transporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*minE1,570,3320CT50.5% ‑6.0 / 175.0 182I224I (ATC→ATT) nupCnucleoside (except guanosine) transporter
Reads supporting (aligned to +/- strand):  ref base C (39/51);  new base T (40/52);  total (79/103)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 182 total aligned reads displayed.

GTTCAGCACCTTTATCGTGCTGTCGCTGATCAATCCTTACCGTGTTGATGCCAGTGAAGAAAACATCCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTGGGTGAATAC  >  minE/1570266‑1570386
                                                                  |                                                      
gTTCAGCACCTTTATCGTGCTGTCGCTGATCAATCCTTACCGTGTTGATGCCAGTGAAGAAAACATCCa                                                      <  1:2822788/69‑1 (MQ=255)
gTTCAGCACCTTTATCGTGCTGTCGCTGATCAATCCTTACCGTGTTGATGCCAGTGAAGAAAACATCCa                                                      <  1:1556971/69‑1 (MQ=255)
gTTCAGCACCTTTATCGTGCTGTCGCTGATCAATCCTTACCGTGTTGATGCCAGTGAAGAAAACATCCa                                                      <  1:1361569/69‑1 (MQ=255)
gTTCAGCACCTTTATCGTGCTGTCGCTGATCAATCCTTACCGTGTTGATGCCAGTGAAGAAAACATCCa                                                      <  1:1678301/69‑1 (MQ=255)
gTTCAGCACCTTTATCGTGCTGTCGCTGATCAATCCTTACCGTGTTGATGCCAGTGAAGAAAACATCCa                                                      <  1:1118727/69‑1 (MQ=255)
 ttCAGCACCTTTATCGTGCTGTCGCTGATCAATCCTTACCGTGTTGATGCCAGTGAAGAAAACATCCAg                                                     >  1:3364413/1‑69 (MQ=255)
 ttCAGCACCTTTATCGTGCTGTCGCTGATCAATCCTTACCGTGTTGATGCCAGTGAAGAAAACATCCAg                                                     >  1:1297819/1‑69 (MQ=255)
 ttCAGCACCTTTATCGTGCTGTCGCTGATCAATCCTTACCGTGTTGATGCCAGTGAAGAAAACATCCAg                                                     >  1:428632/1‑69 (MQ=255)
 ttCAGCACCTTTATCGTGCTGTCGCTGATCAATCCTTACCGTGTTGATGCCAGTGAAGAAAACATCCAg                                                     >  1:1410435/1‑69 (MQ=255)
 ttCAGCACCTTTATCGTGCTGTCGCTGATCAATCCTTACCGTGTTGATGCCAGTGAAGAAAACATCCAg                                                     >  1:1018179/1‑69 (MQ=255)
 ttCAGCACCTTTATCGTGCTGTCGCTGATCAATCCTTACCGTGTTGATGACAGTGAAGAAAACATCCAg                                                     >  1:3097989/1‑69 (MQ=255)
    aGCACCTTTATCGTGCTGTCGCTGATCAACCCTTACCGTGTTGATGCCAGTGAAGAAAACATTCAGATg                                                  >  1:33838/1‑69 (MQ=255)
    aGCACCTTTATCGTGCTGTCGCTGATCAACCCTTACCGTGTTGATGCCAGTGAAGAAAACATTCAGATg                                                  >  1:2956118/1‑69 (MQ=255)
    aGCACCTTTATCGTGCTGTCGCTGATCAACCCTTACCGTGTTGATGCCAGTGAAGAAAACATTCAGATg                                                  >  1:1023400/1‑69 (MQ=255)
    aGCACCTTTATCGTGCTGTCGCTGATCAACCCTTACCGTGTTGATGCCAGTGAAGAAAACATTCAGATg                                                  >  1:2663359/1‑69 (MQ=255)
    aGCACCTTTATCGTGCTGTCGCTGATCAACCCTTACCGTGTTGATGCCAGTGAAGAAAACATTCAGATg                                                  >  1:2496985/1‑69 (MQ=255)
    aGCACCTTTATCGTGCTGTCGCTGATCAACCCTTACCGTGTTGATGCCAGTGAAGAAAACATTCAGATg                                                  >  1:1989462/1‑69 (MQ=255)
    aGCACCTTTATCGTGCTGTCGCTGATCAACCCTTACCGTGTTGATGCCAGTGAAGAAAACATTCAGATg                                                  >  1:759378/1‑69 (MQ=255)
        ccTTTATCGTGCTGTCGCTGATCAACCCTTACCGTGTTGATGCCAGTGAAGAAAACATTCAGATGTcc                                               >  1:166976/1‑68 (MQ=255)
        ccTTTATCGTGCTGTCGCTGATCAACCCTTACCGTGTTGATGCCAGTGAAGAAAACATTCAGATGTCCa                                              >  1:1179178/1‑69 (MQ=255)
        ccTTTATCGTGCTGTCGCTGATCAACCCTTACCGTGTTGATGCCAGTGAAGAAAACATTCAGATGTCCa                                              >  1:2599765/1‑69 (MQ=255)
        ccTTTATCGTGCTGTCGCTGATCAACCCTTACCGTGTTGATGCCAGTGAAGAAAACATTCAGATGTCCa                                              >  1:2696631/1‑69 (MQ=255)
        ccTTTATCGTGCTGTCGCTGATCAACCCTTACCGTGTTGATGCCAGTGAAGAAAACATTCAGATGTCCa                                              >  1:2763594/1‑69 (MQ=255)
        ccTTTATCGTGCTGTCGCTGATCAACCCTTACCGTGTTGATGCCAGTGAAGAAAACATTCAGATGTCCa                                              >  1:2880711/1‑69 (MQ=255)
        ccTTTATCGTGCTGTCGCTGATCAACCCTTACCGTGTTGATGCCAGTGAAGAAAACATTCAGATGTCCa                                              >  1:2285696/1‑69 (MQ=255)
        ccTTTATCGTGCTGTCGCTGATCAACCCTTACCGTGTTGATGCCAGTGAAGAAAACATTCAGATGTCCa                                              >  1:1887057/1‑69 (MQ=255)
        ccTTTATCGTGCTGTCGCTGATCAACCCTTACCGTGTTGATGCCAGTGAAGAAAACATTCAGATGTCCa                                              >  1:201027/1‑69 (MQ=255)
        ccTTTATCGTGCTGTCGCTGATCAACCCTTACCGTGTTGATGCCAGTGAAGAAAACATTCAGATGTCCa                                              >  1:3055359/1‑69 (MQ=255)
        ccTTTATCGTGCTGTCGCTGATCAACCCTTACCGTGTTGATGCCAGTGAAGAAAACATTCAGATGTCCa                                              >  1:3430138/1‑69 (MQ=255)
        ccTTTATCGTGCTGTCGCTGATCAACCCTTACCGTGTTGATGCCAGTGAAGAAAACATTCAGATGTCCa                                              >  1:1291088/1‑69 (MQ=255)
        ccTTTATCGTGCTGTCGCTGATCAACCCTTACCGTGTTGATGCCAGTGAAGAAAACATTCAGATGTCCa                                              >  1:1091126/1‑69 (MQ=255)
        ccTTTATCGTGCTGTCGCTGATCAACCCTTACCGTGTTGATGCCAGTGAAGAAAACATTCAGATGTCCa                                              >  1:600484/1‑69 (MQ=255)
        ccTTTATCGTGCTGTCGCTGATCAACCCTTACCGTGTTGATGCCAGTGAAGAAAACATTCAGATGTCCa                                              >  1:1081479/1‑69 (MQ=255)
        ccTTTATCGTGCTGTCGCTGATCAACCCTTACCGTGTTGATGCCAGTGAAGAAAACATTCAGATGTCCa                                              >  1:2428437/1‑69 (MQ=255)
                          tGATCAATCCTTACCGTGTTGATGCCAGTGAAGAAAACATCCAGATGTCCAACCTGCACGAAGGTCag                             <  1:772826/68‑1 (MQ=255)
                          tGATCAATCCTTACCGTGTTGATGCCAGTGAAGAAAACATCCAGATGTCCAACCTGCACGAAGGTCag                             <  1:3039824/68‑1 (MQ=255)
                              cAATCCTTACCGTGTTGATGCCAGTGAAGAAAACATCCAGATGTCCAACCTGCACGAAGGTCAGAGctt                        >  1:1506686/1‑69 (MQ=255)
                              cAATCCTTACCGTGTTGATGCCAGTGAAGAAAACATCCAGATGTCCAACCTGCACGAAGGTCAGAGctt                        >  1:219987/1‑69 (MQ=255)
                              cAATCCTTACCGTGTTGATGCCAGTGAAGAAAACATCCAGATGTCCAACCTGCACGAAGGTCAGAGctt                        >  1:234030/1‑69 (MQ=255)
                              cAATCCTTACCGTGTTGATGCCAGTGAAGAAAACATCCAGATGTCCAACCTGCACGAAGGTCAGAGctt                        >  1:2364234/1‑69 (MQ=255)
                              cAATCCTTACCGTGTTGATGCCAGTGAAGAAAACATCCAGATGTCCAACCTGCACGAAGGTCAGAGctt                        >  1:2905855/1‑69 (MQ=255)
                              cAATCCTTACCGTGTTGATGCCAGTGAAGAAAACATCCAGATGTCCAACCTGCACGAAGGTCAGAGctt                        >  1:382815/1‑69 (MQ=255)
                              cAATCCTTACCGTGTTGATGCCAGTGAAGAAAACATCCAGATGTCCAACCTGCACGAAGGTCAGAGct                         <  1:1427041/68‑1 (MQ=255)
                              cAATCCTTACCGTGTTGATGCCAGTGAAGAAAACATCCAGATGTCCAACCTGCACGAAGGTCAGAGct                         <  1:655277/68‑1 (MQ=255)
                              cAATCCTTACCGTGTTGATGCCAGTGAAGAAAACATCCAGATGTCCAACCTGCACGAAGGTCAGAGct                         <  1:2113273/68‑1 (MQ=255)
                              cAATCCTTACCGTGTTGATGCCAGTGAAGAAAACATCCAGATGTCCAACCTGCACGAAGGTCAGAGct                         <  1:3085585/68‑1 (MQ=255)
                              cAATCCTTACCGTGTTGATGCCAGTGAAGAAAACATCCAGATGTCCAACCTGCACGAAGGTCAGAGct                         <  1:1319421/68‑1 (MQ=255)
                                     tACCGTGTTGATGCCAGTGAAGAAAACATCCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGa                  <  1:985784/68‑1 (MQ=255)
                                     tACCGTGTTGATGCCAGTGAAGAAAACATCCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGa                  <  1:2013600/68‑1 (MQ=255)
                                     tACCGTGTTGATGCCAGTGAAGAAAACATCCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGa                  <  1:2869619/68‑1 (MQ=255)
                                     tACCGTGTTGATGCCAGTGAAGAAAACATCCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGa                  <  1:2776596/68‑1 (MQ=255)
                                         gtgtTGATGCCAGTGAAGAAAACATCCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATg              <  1:174332/68‑1 (MQ=255)
                                            ttGATGCCAGTGAAGAAAACATCCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTgg          >  1:368963/1‑69 (MQ=255)
                                            ttGATGCCAGTGAAGAAAACATCCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTgg          >  1:3398433/1‑69 (MQ=255)
                                            ttGATGCCAGTGAAGAAAACATCCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTgg          >  1:252129/1‑69 (MQ=255)
                                                tGCCAGTGAAGAAAACATTCAGATGTCCAACGTGCACGAAGGTCAGAGCTTCTTCGAAATGCTGGGTg       <  1:1766720/68‑1 (MQ=255)
                                                tGCCAGTGAAGAAAACATTCAGATGTCCAACCTTCACGAAGGTCAGAGCTTCTTCGAAATGCTGGGTg       <  1:2580641/68‑1 (MQ=255)
                                                tGCCAGTGAAGAAAACATTCAGATGTCCAACCTGCACGAAGGTCAGAGcttc                       <  1:2120700/52‑1 (MQ=255)
                                                tGCCAGTGAAGAAAACATTCAGATGTCCAACCTGCACGAAGGTCAGAGcttc                       <  1:2727508/52‑1 (MQ=255)
                                                tGCCAGTGAAGAAAACATTCAGATGTCCAACCTGCACGAAGGTCAGAGcttc                       <  1:3335009/52‑1 (MQ=255)
                                                tGCCAGTGAAGAAAACATTCAGATGTCCAACCTGCACGAAGGTCAGAGcttc                       <  1:280326/52‑1 (MQ=255)
                                                tGCCAGTGAAGAAAACATTCAGATGTCCAACCTGCACGAAGGTCAGAGcttc                       <  1:569519/52‑1 (MQ=255)
                                                tGCCAGTGAAGAAAACATTCAGATGTCCAACCTGCACGAAGGTCAGAGcttc                       <  1:1850787/52‑1 (MQ=255)
                                                tGCCAGTGAAGAAAACATTCAGATGTCCAACCTGCACGAAGGTCAGAGcttc                       <  1:183336/52‑1 (MQ=255)
                                                tGCCAGTGAAGAAAACATTCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTGGGTg       <  1:2072613/68‑1 (MQ=255)
                                                tGCCAGTGAAGAAAACATTCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTGGGTg       <  1:1726594/68‑1 (MQ=255)
                                                tGCCAGTGAAGAAAACATTCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTGGGTg       <  1:1351023/68‑1 (MQ=255)
                                                tGCCAGTGAAGAAAACATTCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTGGGTg       <  1:3183766/68‑1 (MQ=255)
                                                tGCCAGTGAAGAAAACATTCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTGGGTg       <  1:31322/68‑1 (MQ=255)
                                                tGCCAGTGAAGAAAACATTCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTGGGTg       <  1:2173658/68‑1 (MQ=255)
                                                tGCCAGTGAAGAAAACATTCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTGGGTg       <  1:809932/68‑1 (MQ=255)
                                                tGCCAGTGAAGAAAACATTCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTGGGTg       <  1:1204470/68‑1 (MQ=255)
                                                tGCCAGTGAAGAAAACATTCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTGGGTg       <  1:811901/68‑1 (MQ=255)
                                                tGCCAGTGAAGAAAACATTCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTGGGTg       <  1:1957396/68‑1 (MQ=255)
                                                tGCCAGTGAAGAAAACATTCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTGGGTg       <  1:1966066/68‑1 (MQ=255)
                                                tGCCAGTGAAGAAAACATTCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTGGGTg       <  1:2657733/68‑1 (MQ=255)
                                                    aGTGAAGAAAGCATTCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTGGGTGAATAc  <  1:1234786/69‑1 (MQ=255)
                                                    aGTGAAGAAAACATTCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTGGGTGAATAc  <  1:146728/69‑1 (MQ=255)
                                                    aGTGAAGAAAACATTCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTGGGTGAATAc  <  1:2165161/69‑1 (MQ=255)
                                                    aGTGAAGAAAACATTCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTGGGTGAATAc  <  1:902967/69‑1 (MQ=255)
                                                    aGTGAAGAAAACATTCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTGGGTGAATAc  <  1:1160920/69‑1 (MQ=255)
                                                    aGTGAAGAAAACATTCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTGGGTGAATAc  <  1:2487263/69‑1 (MQ=255)
                                                    aGTGAAGAAAACATTCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTGGGTGAATAc  <  1:1996317/69‑1 (MQ=255)
                                                    aGTGAAGAAAACATTCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTGGGTGAATAc  <  1:193206/69‑1 (MQ=255)
                                                    aGTGAAGAAAACATTCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTGGGTGAATAc  <  1:2530104/69‑1 (MQ=255)
                                                    aGTCAAGAAAACATTCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTGGGTGAATAc  <  1:3074196/69‑1 (MQ=255)
                                                     gTGAAGAAAACATTCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTGGGTGAATAc  <  1:224318/68‑1 (MQ=255)
                                                       gaagaaAACATCCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTg           >  1:3154774/1‑57 (MQ=255)
                                                       gaagaaAACATCCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTg           >  1:3229701/1‑57 (MQ=255)
                                                       gaagaaAACATCCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTg           >  1:853287/1‑57 (MQ=255)
                                                       gaagaaAACATCCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTg           >  1:969251/1‑57 (MQ=255)
                                                       gaagaaAACATCCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTGGGTg       >  1:1605607/1‑61 (MQ=255)
                                                       gaagaaAACATCCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTGGGTg       >  1:700446/1‑61 (MQ=255)
                                                       gaagaaAACATCCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTGGGTg       <  1:2284275/61‑1 (MQ=255)
                                                       gaagaaAACATCCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTGGGTg       >  1:3320701/1‑61 (MQ=255)
                                                       gaagaaAACATCCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTGGGTg       >  1:1273407/1‑61 (MQ=255)
                                                       gaagaaAACATCCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTGGGTg       <  1:3417726/61‑1 (MQ=255)
                                                              aCATCCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGa                  <  1:661561/43‑1 (MQ=255)
                                                              aCATCCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGa                  <  1:718781/43‑1 (MQ=255)
                                                              aCATCCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGa                  <  1:1142784/43‑1 (MQ=255)
                                                                  |                                                      
GTTCAGCACCTTTATCGTGCTGTCGCTGATCAATCCTTACCGTGTTGATGCCAGTGAAGAAAACATCCAGATGTCCAACCTGCACGAAGGTCAGAGCTTCTTCGAAATGCTGGGTGAATAC  >  minE/1570266‑1570386

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A